Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 57 of 117
Found at i:10635433 original size:5 final size:5
Alignment explanation
Indices: 10635423--10635587 Score: 122
Period size: 5 Copynumber: 32.2 Consensus size: 5
10635413 TGTATCATAT
* * *
10635423 TATTA TATTA TATTA TTATTA CTATTG TA-TA -ATTA TATTA TAATA CATTA
1 TATTA TATTA TATTA -TATTA -TATTA TATTA TATTA TATTA TATTA TATTA
* * * * *
10635473 TATTA TTACTA TAGTA TATTA CATTA CTA--C TATTA TTATTA TATCA
1 TATTA -TATTA TATTA TATTA TATTA -TATTA TATTA -TATTA TATTA
* * * *
10635519 TATCA TATTA TATTA TATTA TACTA TACTA TATTA TACTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
10635569 TTATTA TTATTA TTATTA T
1 -TATTA -TATTA -TATTA T
10635588 CATTTATTTT
Statistics
Matches: 131, Mismatches: 20, Indels: 18
0.78 0.12 0.11
Matches are distributed among these distances:
3 3 0.02
4 3 0.02
5 89 0.68
6 36 0.27
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (5 bp):
TATTA
Found at i:10638489 original size:20 final size:20
Alignment explanation
Indices: 10638466--10638517 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
10638456 TTTCAATGGC
10638466 TTTAGACTTTTCTCAGTGAT
1 TTTAGACTTTTCTCAGTGAT
*
10638486 TTTAGACTTTTCTCAGTGGT
1 TTTAGACTTTTCTCAGTGAT
10638506 TTTAGACTTTTC
1 TTTAGACTTTTC
10638518 ATGGATGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.52
Consensus pattern (20 bp):
TTTAGACTTTTCTCAGTGAT
Found at i:10640346 original size:17 final size:17
Alignment explanation
Indices: 10640324--10640365 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
10640314 TATCCTCTTA
10640324 GGATTTCTTGATAATAG
1 GGATTTCTTGATAATAG
10640341 GGATTTC-TGATAATAG
1 GGATTTCTTGATAATAG
*
10640357 GAATTTCTT
1 GGATTTCTT
10640366 TTATGCACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (17 bp):
GGATTTCTTGATAATAG
Found at i:10642114 original size:65 final size:66
Alignment explanation
Indices: 10642045--10642199 Score: 204
Period size: 66 Copynumber: 2.4 Consensus size: 66
10642035 AATTCATTCC
* * ** * *
10642045 GGTCATTCATCTTCGACCTCAACTTGGTCTTGGTCATTTTAT-TTTTAGACTTGTGATTTCGTCT
1 GGTCATTCATCTTTGACCTCAACTTGGTCTTGATCATTTTATCTTTTAGACTCATGATTTCATCA
10642109 T
66 T
* * * * *
10642110 GGTCATTCATTTTTTACCTCGACTTGGTCTTGATCGTTTTATCTTTTAGACTCATGGTTTCATCA
1 GGTCATTCATCTTTGACCTCAACTTGGTCTTGATCATTTTATCTTTTAGACTCATGATTTCATCA
10642175 T
66 T
10642176 GGTCATTCATCTTTGACCTCAACT
1 GGTCATTCATCTTTGACCTCAACT
10642200 CGGCCCTAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
65 36 0.48
66 39 0.52
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.46
Consensus pattern (66 bp):
GGTCATTCATCTTTGACCTCAACTTGGTCTTGATCATTTTATCTTTTAGACTCATGATTTCATCA
T
Found at i:10642195 original size:66 final size:65
Alignment explanation
Indices: 10642045--10642296 Score: 202
Period size: 66 Copynumber: 3.8 Consensus size: 65
10642035 AATTCATTCC
* * * ** ** * *
10642045 GGTCATTCATCTTCGACCTCAACTTGGTCTTGGTCATTTTAT-TTTTAGACTTGTGATTTCGTCT
1 GGTCATTCATCTTCGACCTCAACTCGGTCCTGATCGCTTTATCTTTTAGACTCATGGTTTCATC-
10642109 T
65 T
* ** * * * *
10642110 GGTCATTCATTTTTTACCTCGACTTGGTCTTGATCGTTTTATCTTTTAGACTCATGGTTTCATCA
1 GGTCATTCATCTTCGACCTCAACTCGGTCCTGATCGCTTTATCTTTTAGACTCATGGTTTCATC-
10642175 T
65 T
* * * * *
10642176 GGTCATTCATCTTTGACCTCAACTCGGCCCT-AGTCGCTTTATCTTTTAGATTCGTGGTTTTATC
1 GGTCATTCATCTTCGACCTCAACTCGGTCCTGA-TCGCTTTATCTTTTAGACTCATGGTTTCATC
10642240 T
65 T
* * ** * * *
10642241 CAGTCATTCATCTTCGATCTTGACTCGATCCTGGTCGCTTTATCTTTTAGATTCAT
1 -GGTCATTCATCTTCGACCTCAACTCGGTCCTGATCGCTTTATCTTTTAGACTCAT
10642297 AATTTTTTCT
Statistics
Matches: 153, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
65 38 0.25
66 115 0.75
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (65 bp):
GGTCATTCATCTTCGACCTCAACTCGGTCCTGATCGCTTTATCTTTTAGACTCATGGTTTCATCT
Found at i:10642313 original size:66 final size:66
Alignment explanation
Indices: 10642147--10642314 Score: 176
Period size: 66 Copynumber: 2.5 Consensus size: 66
10642137 TCTTGATCGT
* ** * * *
10642147 TTTATCTTTTAGACTCATGGTTTCATCAT-GGTCATTCATCTTTGACCTCAACTCGGCCCTAGTC
1 TTTATCTTTTAGATTCATAATTTTATC-TCGGTCATTCATCTTCGACCTCAACTCGACCCTAGTC
10642211 GC
65 GC
* ** * * ** * *
10642213 TTTATCTTTTAGATTCGTGGTTTTATCTCAGTCATTCATCTTCGATCTTGACTCGATCCTGGTCG
1 TTTATCTTTTAGATTCATAATTTTATCTCGGTCATTCATCTTCGACCTCAACTCGACCCTAGTCG
10642278 C
66 C
*
10642279 TTTATCTTTTAGATTCATAATTTTTTCTCGGTCATT
1 TTTATCTTTTAGATTCATAATTTTATCTCGGTCATT
10642315 TGATCTCGCC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
65 1 0.01
66 84 0.99
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.46
Consensus pattern (66 bp):
TTTATCTTTTAGATTCATAATTTTATCTCGGTCATTCATCTTCGACCTCAACTCGACCCTAGTCG
C
Found at i:10642810 original size:3 final size:3
Alignment explanation
Indices: 10642802--10643032 Score: 80
Period size: 3 Copynumber: 85.0 Consensus size: 3
10642792 TCTGTTTTAC
* * * *
10642802 TAT TAT TAT T-T TGT TAT TAT CA- TAT TAT TA- TAT TAT CA- TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
10642846 TAT CA- TAC TAT TCT ATAT TA- TAT T-G TAT CA- TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
10642887 T-G TAT TAT TAT TAA TAT T-G TAT TAT TA- TAT TA- TAG TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
10642930 TAC TA- TAG TA- TAT TA- CAT TAC TAC TAT TAT TAT TAT TA- TAT CA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
10642973 TAT TA- TAT TA- TAT TA- TAC TA- TAC TA- TAT TA- TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10643015 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
10643033 ATTTATTTTT
Statistics
Matches: 171, Mismatches: 31, Indels: 52
0.67 0.12 0.20
Matches are distributed among these distances:
2 41 0.24
3 128 0.75
4 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:10642867 original size:5 final size:5
Alignment explanation
Indices: 10642859--10643039 Score: 120
Period size: 5 Copynumber: 35.2 Consensus size: 5
10642849 CATACTATTC
* * * *
10642859 TATAT TATAT TGTAT CATA- T-TAT TATAT TGTAT TATTAT TAATAT TGTA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT T-ATAT TATAT
* * * * *
10642908 T-TAT TATAT TATAG TATAT TATTAC TATAG TATAT TACAT TACTAC TATTAT
1 TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TA-TAT TA-TAT
* * *
10642960 TATTAT TATAT CATAT TATAT TATAT TATAC TATAC TATAT TATAT TATTAT
1 TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT
*
10643012 TGTTAT TATTAT TATTAT TATAT T-TAT T
1 T-ATAT TA-TAT TA-TAT TATAT TATAT T
10643040 TTTGTTTTTA
Statistics
Matches: 142, Mismatches: 23, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
3 4 0.03
4 7 0.05
5 86 0.61
6 44 0.31
7 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:10642929 original size:18 final size:17
Alignment explanation
Indices: 10642823--10643035 Score: 105
Period size: 18 Copynumber: 12.8 Consensus size: 17
10642813 TGTTATTATC
10642823 ATATTATTATATTATCAT
1 ATATTATTATATTAT-AT
* * *
10642841 ATTGTTATCATACTAT-T
1 A-TATTATTATATTATAT
* *
10642858 CTA-TATTATATTGTAT
1 ATATTATTATATTATAT
*
10642874 CATATTATTATATTGTAT
1 -ATATTATTATATTATAT
10642892 -TATTATTA-A-TAT-T
1 ATATTATTATATTATAT
*
10642905 GTATTATTATATTATAGT
1 ATATTATTATATTATA-T
10642923 ATATTATTACTA-TAGTAT
1 ATATTATTA-TATTA-TAT
* *
10642941 AT-TACATTACTACTAT-T
1 ATAT-TATTA-TATTATAT
*
10642958 ATTATTATTATATCATAT
1 A-TATTATTATATTATAT
10642976 -TA-TATTATATTATA-
1 ATATTATTATATTATAT
* *
10642990 CTA-TACTATATTATAT
1 ATATTATTATATTATAT
*
10643006 -TATTATTGTTATTAT-T
1 ATATTATT-ATATTATAT
10643022 ATTATTATTATATT
1 A-TATTATTATATT
10643036 TATTTTTGTT
Statistics
Matches: 153, Mismatches: 20, Indels: 45
0.70 0.09 0.21
Matches are distributed among these distances:
13 1 0.01
14 10 0.07
15 36 0.24
16 19 0.12
17 20 0.13
18 49 0.32
19 18 0.12
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (17 bp):
ATATTATTATATTATAT
Found at i:10642977 original size:64 final size:62
Alignment explanation
Indices: 10642892--10643035 Score: 173
Period size: 64 Copynumber: 2.3 Consensus size: 62
10642882 TATATTGTAT
* * *
10642892 TATTATTAATATTGTATTATTATATTATAGTATATTATTACTATAGTATATTA-CATTACTAC
1 TATTATTATTATTATATTATTATATTATAGTATACTA-TACTATAGTATATTATCATTACTAC
* * * ** *
10642954 TATTATTATTATTATATCATATTATATTATATTATACTATACTATATTATATTATTATTGTTAT
1 TATTATTATTATTATAT--TATTATATTATAGTATACTATACTATAGTATATTATCATTACTAC
10643018 TATTATTATTATTATATT
1 TATTATTATTATTATATT
10643036 TATTTTTGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
62 16 0.23
63 14 0.20
64 40 0.57
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (62 bp):
TATTATTATTATTATATTATTATATTATAGTATACTATACTATAGTATATTATCATTACTAC
Found at i:10643896 original size:18 final size:19
Alignment explanation
Indices: 10643875--10643930 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
10643865 TTTTTGATTT
10643875 TATTTTGTATTT-ATTTTA
1 TATTTTGTATTTCATTTTA
*
10643893 TATTTTG-ATTTTGATTTT-
1 TATTTTGTA-TTTCATTTTA
*
10643911 TAGTTTTTTATTTCATTTTA
1 TA-TTTTGTATTTCATTTTA
10643931 CTAATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 1 0.03
18 12 0.39
19 17 0.55
20 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (19 bp):
TATTTTGTATTTCATTTTA
Found at i:10644063 original size:24 final size:27
Alignment explanation
Indices: 10644012--10644075 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 27
10644002 ATTTTTTTGG
10644012 AAAACAAAAGAGACAATAATAATAATAAT
1 AAAACAAAA-A-ACAATAATAATAATAAT
10644041 AAAACAAAAAACAA-AA-AAT-ATAAT
1 AAAACAAAAAACAATAATAATAATAAT
*
10644065 AAAATAAAAAA
1 AAAACAAAAAA
10644076 AATTCGAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 15 0.44
25 3 0.09
26 2 0.06
27 4 0.12
28 1 0.03
29 9 0.26
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (27 bp):
AAAACAAAAAACAATAATAATAATAAT
Found at i:10649228 original size:21 final size:19
Alignment explanation
Indices: 10649182--10649230 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
10649172 TTCATAAATT
* *
10649182 ATTTATATATATATTTTTA
1 ATTTATTTATATATTTTAA
10649201 ATATTATTTATGATATTTATAA
1 AT-TTATTTAT-ATATTT-TAA
10649223 ATTTATTT
1 ATTTATTT
10649231 TTATTATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 7 0.28
21 12 0.48
22 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTATTTATATATTTTAA
Found at i:10649674 original size:6 final size:6
Alignment explanation
Indices: 10649657--10649689 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10649647 ATTTTGGATT
*
10649657 TTTATA -TTATA TTTATA TTTGTA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA
10649690 ATGAGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:10652538 original size:18 final size:20
Alignment explanation
Indices: 10652515--10652555 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
10652505 AATTAATATG
*
10652515 TAACAAATTTGAA-AATA-A
1 TAACAAATATGAATAATAGA
10652533 TAACAAATATGAATAATAGA
1 TAACAAATATGAATAATAGA
10652553 TAA
1 TAA
10652556 TAACAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (20 bp):
TAACAAATATGAATAATAGA
Found at i:10653036 original size:21 final size:21
Alignment explanation
Indices: 10653007--10653048 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10652997 GATATGTTAT
10653007 TAATATATATATT-TTATATAA
1 TAATATATATATTATTA-ATAA
*
10653028 TAATTTATATATTATTAATAA
1 TAATATATATATTATTAATAA
10653049 ATCGGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATATATATATTATTAATAA
Found at i:10653567 original size:11 final size:10
Alignment explanation
Indices: 10653556--10653827 Score: 61
Period size: 10 Copynumber: 27.9 Consensus size: 10
10653546 TTTTTTTAAT
10653556 TTTTTAAAAA
1 TTTTTAAAAA
*
10653566 -TTCTAAAAA
1 TTTTTAAAAA
10653575 -TTTTAAAAA
1 TTTTTAAAAA
**
10653584 TTTCAAAACAA
1 TTTTTAAA-AA
*
10653595 TTTTAAAAAA
1 TTTTTAAAAA
10653605 TTTTTAAAAAA
1 TTTTT-AAAAA
**
10653616 TTCTCAAAAAA
1 TT-TTTAAAAA
* *
10653627 TTCTCAAAAA
1 TTTTTAAAAA
* *
10653637 CATTCT-AAAA
1 -TTTTTAAAAA
*
10653647 TATTTAAAAA
1 TTTTTAAAAA
*
10653657 ATTTT--AAA
1 TTTTTAAAAA
10653665 TTTTATAAAAAA
1 TTTT-T-AAAAA
*
10653677 ATTTT---AA
1 TTTTTAAAAA
*
10653684 -TTTCAAAAA
1 TTTTTAAAAA
* *
10653693 ATTAT-AAAA
1 TTTTTAAAAA
10653702 TTTTTAAAAA
1 TTTTTAAAAA
* *
10653712 -ATTCAAACAA
1 TTTTTAAA-AA
* *
10653722 ATTTAAAAAA
1 TTTTTAAAAA
* * *
10653732 CTATTAAAAT
1 TTTTTAAAAA
*
10653742 TTTTTTAAAA
1 TTTTTAAAAA
*
10653752 -TTCT-AAAA
1 TTTTTAAAAA
**
10653760 TTTTTTTAAA
1 TTTTTAAAAA
* *
10653770 GTTCTAAAAA
1 TTTTTAAAAA
* **
10653780 TTTTTTGAACT
1 -TTTTTAAAAA
*
10653791 TTTTTTAAAA
1 TTTTTAAAAA
*
10653801 -TTCTAAAAA
1 TTTTTAAAAA
10653810 TTTTT-AAAA
1 TTTTTAAAAA
10653819 TTTTTAAAA
1 TTTTTAAAA
10653828 CTTCAAAAAA
Statistics
Matches: 183, Mismatches: 57, Indels: 44
0.64 0.20 0.15
Matches are distributed among these distances:
6 3 0.02
7 2 0.01
8 10 0.05
9 55 0.30
10 71 0.39
11 35 0.19
12 7 0.04
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (10 bp):
TTTTTAAAAA
Found at i:10653574 original size:10 final size:10
Alignment explanation
Indices: 10653561--10653664 Score: 88
Period size: 11 Copynumber: 10.2 Consensus size: 10
10653551 TTAATTTTTT
10653561 AAAAATTCT-
1 AAAAATTCTA
*
10653570 AAAAATTTTA
1 AAAAATTCTA
*
10653580 AAAATTTC-A
1 AAAAATTCTA
*
10653589 AAACAATTTTA
1 AAA-AATTCTA
*
10653600 AAAAATTTTTA
1 AAAAA-TTCTA
10653611 AAAAATTCTCA
1 AAAAATTCT-A
10653622 AAAAATTCTCA
1 AAAAATTCT-A
10653633 AAAACATTCTA
1 AAAA-ATTCTA
*
10653644 AAATATT-TA
1 AAAAATTCTA
*
10653653 AAAAATTTTA
1 AAAAATTCTA
10653663 AA
1 AA
10653665 TTTTATAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
9 20 0.25
10 21 0.26
11 34 0.43
12 5 0.06
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:10653578 original size:19 final size:19
Alignment explanation
Indices: 10653556--10653784 Score: 72
Period size: 19 Copynumber: 11.3 Consensus size: 19
10653546 TTTTTTTAAT
10653556 TTTTTAAAAATTCTAAAAA
1 TTTTTAAAAATTCTAAAAA
*
10653575 -TTTTAAAAATTTCAAAACAA
1 TTTTTAAAAA-TTCTAAA-AA
* *
10653595 TTTTAAAAAATTTTTAAAAAA
1 TTTTTAAAAA-TTCT-AAAAA
**
10653616 TTCTCAAAAAATTCTCAAAAA
1 TT-TTTAAAAATTCT-AAAAA
* *
10653637 CATTCTAAAATATT-TAAAAA
1 -TTTTTAAAA-ATTCTAAAAA
* ** *
10653657 ATTTTAAATTTTATAAAAAAA
1 TTTTTAAAAATTCT--AAAAA
*
10653678 TTTTAATTTCAAAAAAT-TATAAAA
1 --TT--TTT-AAAAATTCTA-AAAA
10653702 TTTTTAAAAAATTC-AAACAA
1 TTTTT-AAAAATTCTAAA-AA
* * *
10653722 ATTTAAAAAACTAT-TAAAAT
1 TTTTTAAAAA-T-TCTAAAAA
* *
10653742 TTTTTTAAAATTCTAAAAT
1 TTTTTAAAAATTCTAAAAA
* *
10653761 TTTTTTAAAGTTCTAAAAA
1 TTTTTAAAAATTCTAAAAA
10653780 TTTTT
1 TTTTT
10653785 TGAACTTTTT
Statistics
Matches: 162, Mismatches: 26, Indels: 44
0.70 0.11 0.19
Matches are distributed among these distances:
18 12 0.07
19 50 0.31
20 31 0.19
21 39 0.24
22 16 0.10
23 2 0.01
24 4 0.02
25 4 0.02
26 4 0.02
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTTTAAAAATTCTAAAAA
Found at i:10653729 original size:55 final size:57
Alignment explanation
Indices: 10653625--10653731 Score: 130
Period size: 55 Copynumber: 1.9 Consensus size: 57
10653615 ATTCTCAAAA
* ** **
10653625 AATTCTCAAAAACATTCTAAAATATTTAAAAAATTTTAAATTTTATAAAAAAATTTT
1 AATTCTCAAAAACATTATAAAATATTTAAAAAATTCAAAAAATTATAAAAAAATTTT
*
10653682 AATT-TCAAAAA-ATTATAAAATTTTTAAAAAATTCAAACAAATT-TAAAAAA
1 AATTCTCAAAAACATTATAAAATATTTAAAAAATTCAAA-AAATTATAAAAAA
10653732 CTATTAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
55 29 0.67
56 10 0.23
57 4 0.09
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (57 bp):
AATTCTCAAAAACATTATAAAATATTTAAAAAATTCAAAAAATTATAAAAAAATTTT
Found at i:10653785 original size:19 final size:19
Alignment explanation
Indices: 10653736--10653785 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
10653726 AAAAAACTAT
10653736 TAAAATTTTTTTAAAATTC
1 TAAAATTTTTTTAAAATTC
*
10653755 TAAAATTTTTTTAAAGTTC
1 TAAAATTTTTTTAAAATTC
10653774 TAAAAATTTTTT
1 T-AAAATTTTTT
10653786 GAACTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
TAAAATTTTTTTAAAATTC
Found at i:10653818 original size:9 final size:9
Alignment explanation
Indices: 10653792--10653827 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
10653782 TTTTGAACTT
10653792 TTTTTAAAA
1 TTTTTAAAA
* *
10653801 TTCTAAAAA
1 TTTTTAAAA
10653810 TTTTTAAAA
1 TTTTTAAAA
10653819 TTTTTAAAA
1 TTTTTAAAA
10653828 CTTCAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:10653826 original size:19 final size:19
Alignment explanation
Indices: 10653556--10653827 Score: 70
Period size: 19 Copynumber: 13.9 Consensus size: 19
10653546 TTTTTTTAAT
* *
10653556 TTTTTAAAAATTCTAAAAA
1 TTTTTAAAATTTTTAAAAA
* **
10653575 TTTTAAAAATTTCAAAACAA
1 TTTTTAAAATTTTTAAA-AA
*
10653595 TTTTAAAAAATTTTTAAAAAA
1 TTTT-TAAAATTTTT-AAAAA
** * *
10653616 TTCTCAAAAAATTCTCAAAAA
1 TT-T-TTAAAATTTTTAAAAA
* * *
10653637 CATTCTAAAATATTTAAAAA
1 -TTTTTAAAATTTTTAAAAA
*
10653657 ATTTT-AAATTTTATAAAAAA
1 TTTTTAAAATTTT-T-AAAAA
* *
10653677 ATTTT--AA-TTTCAAAAA
1 TTTTTAAAATTTTTAAAAA
* *
10653693 ATTATAAAATTTTTAAAAA
1 TTTTTAAAATTTTTAAAAA
* ** * *
10653712 ATTCAAACAAATTTAAAAAA
1 TTTTTAA-AATTTTTAAAAA
* * *
10653732 CTATTAAAATTTTTTTAAAA
1 TTTTTAAAA-TTTTTAAAAA
* * *
10653752 -TTCTAAAATTTTTTTAAAG
1 TTTTTAAAA-TTTTTAAAAA
* * ***
10653771 TTCTAAAAATTTTTTGAACTT
1 TTTTTAAAA-TTTTT-AAAAA
*
10653792 TTTTTAAAA-TTCTAAAAA
1 TTTTTAAAATTTTTAAAAA
10653810 TTTTTAAAATTTTTAAAA
1 TTTTTAAAATTTTTAAAA
10653828 CTTCAAAAAA
Statistics
Matches: 190, Mismatches: 47, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
16 9 0.05
18 22 0.12
19 62 0.33
20 58 0.31
21 26 0.14
22 13 0.07
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (19 bp):
TTTTTAAAATTTTTAAAAA
Found at i:10653827 original size:18 final size:18
Alignment explanation
Indices: 10653743--10653820 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
10653733 TATTAAAATT
*
10653743 TTTTTAAAATTCTAAAATT
1 TTTTTAAAATTCTAAAA-A
*
10653762 TTTTTAAAGTTCTAAAAA
1 TTTTTAAAATTCTAAAAA
** *
10653780 TTTTTTGAA--CT----T
1 TTTTTAAAATTCTAAAAA
10653792 TTTTTAAAATTCTAAAAA
1 TTTTTAAAATTCTAAAAA
10653810 TTTTTAAAATT
1 TTTTTAAAATT
10653821 TTTAAAACTT
Statistics
Matches: 44, Mismatches: 9, Indels: 13
0.67 0.14 0.20
Matches are distributed among these distances:
12 7 0.16
14 2 0.05
16 2 0.05
18 17 0.39
19 16 0.36
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTTAAAATTCTAAAAA
Found at i:10653999 original size:20 final size:19
Alignment explanation
Indices: 10653976--10654107 Score: 72
Period size: 20 Copynumber: 6.7 Consensus size: 19
10653966 GAATTTTCTA
10653976 AAAATTTTTGAAATTATTTT
1 AAAATTTTT-AAATTATTTT
*
10653996 AAAATTTTGAAAATTA-TTT
1 AAAATTTT-TAAATTATTTT
* **
10654015 AGAATTCTTTAAAAAATTTT
1 AAAATT-TTTAAATTATTTT
*
10654035 AGAATTTCTTAAACTT-TTTT
1 AAAATTT-TTAAA-TTATTTT
** * *
10654055 TGAATTTTTGAATTTTTTTT
1 AAAATTTTT-AAATTATTTT
* *
10654075 AACA-TTTTAAATTTTTTT
1 AAAATTTTTAAATTATTTT
*
10654093 GAAATTTTTATAATT
1 AAAATTTTTA-AATT
10654108 TTAAAAAAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
18 11 0.12
19 26 0.30
20 51 0.58
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
AAAATTTTTAAATTATTTT
Found at i:10654003 original size:19 final size:19
Alignment explanation
Indices: 10653976--10654100 Score: 65
Period size: 19 Copynumber: 6.4 Consensus size: 19
10653966 GAATTTTCTA
10653976 AAAATTTTTGAAATTATTTT
1 AAAA-TTTTGAAATTATTTT
10653996 AAAATTTTGAAAATTA-TTT
1 AAAATTTTG-AAATTATTTT
* * **
10654015 AGAATTCTTTAAAAAATTTT
1 AAAATT-TTGAAATTATTTT
* * *
10654035 AGAATTTCTTAAACTTTTTTT
1 AAAATTT-TGAAA-TTATTTT
* * * *
10654056 GAATTTTTGAATTTTTTTT
1 AAAATTTTGAAATTATTTT
* *
10654075 AACATTTT-AAATTTTTTT
1 AAAATTTTGAAATTATTTT
*
10654093 GAAATTTT
1 AAAATTTT
10654101 TATAATTTTA
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
18 15 0.18
19 30 0.37
20 29 0.35
21 8 0.10
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (19 bp):
AAAATTTTGAAATTATTTT
Found at i:10654101 original size:19 final size:19
Alignment explanation
Indices: 10654037--10654109 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
10654027 AAAATTTTAG
10654037 AATTTCTTAAACTTTTTTTG-
1 AATTT-TTAAA-TTTTTTTGA
* *
10654057 AATTTTTGAATTTTTTTTA
1 AATTTTTAAATTTTTTTGA
10654076 ACA-TTTTAAATTTTTTTGA
1 A-ATTTTTAAATTTTTTTGA
10654095 AATTTTTATAATTTT
1 AATTTTTA-AATTTT
10654110 AAAAAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.18
19 25 0.56
20 12 0.27
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (19 bp):
AATTTTTAAATTTTTTTGA
Found at i:10654420 original size:3 final size:3
Alignment explanation
Indices: 10654412--10654437 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10654402 CTAAAGGCTC
10654412 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
10654438 TAAAATCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:10655034 original size:23 final size:25
Alignment explanation
Indices: 10654979--10655050 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 25
10654969 ATCTAAATTT
10654979 ATTTAAATATATTAAAAATTATATAAA
1 ATTT-AATATA-TAAAAATTATATAAA
*
10655006 A-ATAATATATAAAAATTA-A-AAA
1 ATTTAATATATAAAAATTATATAAA
* *
10655028 ATTTAATTTA-AAAAACTA-ATAAA
1 ATTTAATATATAAAAATTATATAAA
10655051 CTGAATCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 12 0.31
23 10 0.26
24 9 0.23
25 6 0.15
26 1 0.03
27 1 0.03
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTTAATATATAAAAATTATATAAA
Found at i:10655083 original size:11 final size:11
Alignment explanation
Indices: 10655067--10655093 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10655057 CAAACTAATA
10655067 AAATTCAATTC
1 AAATTCAATTC
10655078 AAATTCAATTC
1 AAATTCAATTC
10655089 AAATT
1 AAATT
10655094 GGATGTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTCAATTC
Found at i:10682038 original size:13 final size:13
Alignment explanation
Indices: 10682020--10682054 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
10682010 CTTGATGTCC
10682020 CTTCAAGTTTGCA
1 CTTCAAGTTTGCA
10682033 CTTCAAGTTTGCA
1 CTTCAAGTTTGCA
10682046 CTTCAAGTT
1 CTTCAAGTT
10682055 GATTGCATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (13 bp):
CTTCAAGTTTGCA
Found at i:10686138 original size:18 final size:18
Alignment explanation
Indices: 10686115--10686155 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
10686105 TGTTGCAACA
10686115 TTGCCATCATTTGAACTT
1 TTGCCATCATTTGAACTT
10686133 TTGCCATCATTTGAACTT
1 TTGCCATCATTTGAACTT
10686151 TTGCC
1 TTGCC
10686156 CTTCTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (18 bp):
TTGCCATCATTTGAACTT
Found at i:10690428 original size:20 final size:20
Alignment explanation
Indices: 10690403--10690443 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
10690393 ACATGTTATC
*
10690403 TTCAACCTCAGCATAACGTG
1 TTCAACCTCAGAATAACGTG
*
10690423 TTCAACCTTAGAATAACGTG
1 TTCAACCTCAGAATAACGTG
10690443 T
1 T
10690444 AAGGATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (20 bp):
TTCAACCTCAGAATAACGTG
Found at i:10692380 original size:16 final size:16
Alignment explanation
Indices: 10692359--10692390 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10692349 TTTTGATGCT
*
10692359 CTTAATTAGAATATAA
1 CTTAATTAAAATATAA
10692375 CTTAATTAAAATATAA
1 CTTAATTAAAATATAA
10692391 GTTGATAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
CTTAATTAAAATATAA
Found at i:10694700 original size:7 final size:7
Alignment explanation
Indices: 10694684--10694810 Score: 58
Period size: 7 Copynumber: 19.4 Consensus size: 7
10694674 TAGTTTTGAA
*
10694684 TTTAGAG
1 TTTAGGG
10694691 TTTAGGG
1 TTTAGGG
*
10694698 TTT-TGG
1 TTTAGGG
*
10694704 CTTAGGG
1 TTTAGGG
10694711 TTTAGGG
1 TTTAGGG
10694718 TTT--GG
1 TTTAGGG
* *
10694723 TATATGG
1 TTTAGGG
*
10694730 TTAAGGG
1 TTTAGGG
10694737 TTT--GG
1 TTTAGGG
*
10694742 TTTAAGG
1 TTTAGGG
**
10694749 TTTAAAG
1 TTTAGGG
10694756 TTT--GG
1 TTTAGGG
10694761 TTTAGGG
1 TTTAGGG
*
10694768 TTT-GTAG
1 TTTAG-GG
10694775 TTTAGGG
1 TTTAGGG
*
10694782 TTTAGTG
1 TTTAGGG
*
10694789 -TTA-AG
1 TTTAGGG
*
10694794 TTTAGGA
1 TTTAGGG
10694801 TTTAGGG
1 TTTAGGG
10694808 TTT
1 TTT
10694811 TCTTTGGGGT
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
5 14 0.16
6 11 0.12
7 64 0.71
8 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:10694731 original size:19 final size:18
Alignment explanation
Indices: 10694690--10694762 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
10694680 TGAATTTAGA
*
10694690 GTTTAGGGTTTTGGCTTAGG
1 GTTTAGGG-TTTGG-TTAAG
*
10694710 GTTTAGGGTTTGGTATATG
1 GTTTAGGGTTTGGT-TAAG
*
10694729 GTTAAGGGTTTGGTTTAAG
1 GTTTAGGGTTTGG-TTAAG
**
10694748 GTTTAAAGTTTGGTT
1 GTTTAGGGTTTGGTT
10694763 TAGGGTTTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 3 0.07
19 33 0.73
20 9 0.20
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.47
Consensus pattern (18 bp):
GTTTAGGGTTTGGTTAAG
Found at i:10696227 original size:20 final size:20
Alignment explanation
Indices: 10696193--10696252 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
10696183 ATGAAACCTT
10696193 AACCCT-AACCCTAAATCAA
1 AACCCTAAACCCTAAATCAA
* *
10696212 AACCCTAAACCTTAAATTAA
1 AACCCTAAACCCTAAATCAA
* * *
10696232 AATCCTAAATCCTAAACCAA
1 AACCCTAAACCCTAAATCAA
10696252 A
1 A
10696253 CTCTAACCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
19 6 0.18
20 27 0.82
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCTAAACCCTAAATCAA
Found at i:10699278 original size:13 final size:13
Alignment explanation
Indices: 10699260--10699284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10699250 ACAATCAAAC
10699260 AAATAAAATAAAT
1 AAATAAAATAAAT
10699273 AAATAAAATAAA
1 AAATAAAATAAA
10699285 ATAATTTCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:10700464 original size:18 final size:18
Alignment explanation
Indices: 10700436--10700482 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
10700426 TATTTATCCT
10700436 TTATATGATATAAATTAAA
1 TTATAT-ATATAAATTAAA
* *
10700455 TTATATATATAATTTATA
1 TTATATATATAAATTAAA
10700473 TTATAT-TATA
1 TTATATATATA
10700483 TTATTAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 16 0.62
19 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATATATATAAATTAAA
Found at i:10700464 original size:23 final size:23
Alignment explanation
Indices: 10700437--10700483 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10700427 ATTTATCCTT
*
10700437 TATATGATATAAATTAAATTATA
1 TATATAATATAAATTAAATTATA
* * *
10700460 TATATAATTTATATTATATTATA
1 TATATAATATAAATTAAATTATA
10700483 T
1 T
10700484 TATTAAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATATAATATAAATTAAATTATA
Found at i:10700650 original size:20 final size:20
Alignment explanation
Indices: 10700625--10700663 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10700615 TTATTACCAC
10700625 AAATTTGTTT-ATTACTAATG
1 AAATTT-TTTCATTACTAATG
*
10700645 AAATTTTTTCATTGCTAAT
1 AAATTTTTTCATTACTAAT
10700664 TATCGACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (20 bp):
AAATTTTTTCATTACTAATG
Found at i:10701355 original size:27 final size:25
Alignment explanation
Indices: 10701283--10701355 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
10701273 GTTACCAATA
*
10701283 TGTTGAGTTTTTGTTGGTTTTATATT
1 TGTTGA-TTTTTGTTGGTTATATATT
**
10701309 TGTTGAAATTTGTTGGTTATATATTT
1 TGTTGATTTTTGTTGGTTATATA-TT
*
10701335 TGTTGGATTTTTGTTGATTAT
1 TGTT-GATTTTTGTTGGTTAT
10701356 TAATTTTAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
25 14 0.36
26 12 0.31
27 13 0.33
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (25 bp):
TGTTGATTTTTGTTGGTTATATATT
Found at i:10701680 original size:37 final size:37
Alignment explanation
Indices: 10701638--10701750 Score: 140
Period size: 37 Copynumber: 3.4 Consensus size: 37
10701628 TTTGAGGTTA
10701638 TAATTTATATATTACTAATAGCTATCTCATTTTGAAG
1 TAATTTATATATTACTAATAGCTATCTCATTTTGAAG
*
10701675 TAATTTATATATT--TAATAG-T-T-T-A--GTG-A-
1 TAATTTATATATTACTAATAGCTATCTCATTTTGAAG
10701702 -AATTTATATATTACTAATAGCTATCTCATTTTGAAG
1 TAATTTATATATTACTAATAGCTATCTCATTTTGAAG
10701738 TAATTTATATATT
1 TAATTTATATATT
10701751 TAATAGTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 22
0.72 0.02 0.25
Matches are distributed among these distances:
26 12 0.19
28 7 0.11
29 3 0.05
30 1 0.02
31 2 0.03
32 2 0.03
33 1 0.02
34 3 0.05
35 7 0.11
37 25 0.40
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (37 bp):
TAATTTATATATTACTAATAGCTATCTCATTTTGAAG
Found at i:10701707 original size:63 final size:63
Alignment explanation
Indices: 10701639--10701782 Score: 288
Period size: 63 Copynumber: 2.3 Consensus size: 63
10701629 TTGAGGTTAT
10701639 AATTTATATATTACTAATAGCTATCTCATTTTGAAGTAATTTATATATTTAATAGTTTAGTGA
1 AATTTATATATTACTAATAGCTATCTCATTTTGAAGTAATTTATATATTTAATAGTTTAGTGA
10701702 AATTTATATATTACTAATAGCTATCTCATTTTGAAGTAATTTATATATTTAATAGTTTAGTGA
1 AATTTATATATTACTAATAGCTATCTCATTTTGAAGTAATTTATATATTTAATAGTTTAGTGA
10701765 AATTTATATATTACTAAT
1 AATTTATATATTACTAAT
10701783 TATTTAATTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 81 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (63 bp):
AATTTATATATTACTAATAGCTATCTCATTTTGAAGTAATTTATATATTTAATAGTTTAGTGA
Found at i:10703600 original size:8 final size:8
Alignment explanation
Indices: 10703573--10703611 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
10703563 TACTTTAAAA
*
10703573 ATAAATTT
1 ATAAAATT
* *
10703581 AAAAAATA
1 ATAAAATT
10703589 ATAAAATT
1 ATAAAATT
10703597 ATAAAATT
1 ATAAAATT
10703605 ATAAAAT
1 ATAAAAT
10703612 AATAGTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAAAATT
Found at i:10703691 original size:26 final size:26
Alignment explanation
Indices: 10703639--10703691 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10703629 GAAACATAAT
* **
10703639 ATTACCGATGGAAAATTCCGTTGGTA
1 ATTACCGATGAAAAATTCCGTAAGTA
*
10703665 ATTACCGATGAAAAATTTCGTAAGTA
1 ATTACCGATGAAAAATTCCGTAAGTA
10703691 A
1 A
10703692 ATCCGTTGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (26 bp):
ATTACCGATGAAAAATTCCGTAAGTA
Found at i:10708434 original size:22 final size:22
Alignment explanation
Indices: 10708408--10708458 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
10708398 ATTCTATTAA
10708408 AATAAATTAATTATCATTATTT
1 AATAAATTAATTATCATTATTT
*
10708430 AATAAATTAATTGTCATTATTT
1 AATAAATTAATTATCATTATTT
*
10708452 AAGAAAT
1 AATAAAT
10708459 GGAAATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (22 bp):
AATAAATTAATTATCATTATTT
Found at i:10710094 original size:38 final size:39
Alignment explanation
Indices: 10710042--10710116 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
10710032 TAAGGGTTCT
* * *
10710042 TAAATATTATATCATACCATGCAA-AAATTTTCATGCCA
1 TAAATATAAAATCATACCATGCAATAAATTATCATGCCA
*
10710080 TAAATATAAAATCATATCATGCAATAAATTATCATGC
1 TAAATATAAAATCATACCATGCAATAAATTATCATGC
10710117 AAATATATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 21 0.66
39 11 0.34
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (39 bp):
TAAATATAAAATCATACCATGCAATAAATTATCATGCCA
Found at i:10710345 original size:35 final size:32
Alignment explanation
Indices: 10710306--10710425 Score: 103
Period size: 32 Copynumber: 3.9 Consensus size: 32
10710296 AATAACCATT
*
10710306 CATGCAAATAATAATATATAAATTATGCAAATTAA
1 CATGC-AATAA-AATATAT-AATCATGCAAATTAA
*
10710341 CATGCAATTAAATATATAATCATGCAAA-T-A
1 CATGCAATAAAATATATAATCATGCAAATTAA
* * *
10710371 -AT--AAT---ATATAAAATTATGCAAATAAA
1 CATGCAATAAAATATATAATCATGCAAATTAA
*
10710397 CATGCAATTAAATATATAATCATGCAAAT
1 CATGCAATAAAATATATAATCATGCAAAT
10710426 AATAATACAT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
24 15 0.21
26 1 0.01
27 5 0.07
29 5 0.07
30 1 0.01
31 1 0.01
32 26 0.37
33 7 0.10
34 4 0.06
35 5 0.07
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (32 bp):
CATGCAATAAAATATATAATCATGCAAATTAA
Found at i:10710364 original size:20 final size:20
Alignment explanation
Indices: 10710341--10710447 Score: 69
Period size: 20 Copynumber: 5.4 Consensus size: 20
10710331 TGCAAATTAA
10710341 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
*
10710361 CATGCAAAT-AATA-AT-AT
1 CATGCAATTAAATATATAAT
** *** * *
10710378 -ATAAAATTATGCAAATAAA
1 CATGCAATTAAATATATAAT
10710397 CATGCAATTAAATATATAAT
1 CATGCAATTAAATATATAAT
* *
10710417 CATGCAAATAATAATACATAAAT
1 CATGC-AATTA-AATATAT-AAT
10710440 CATGCAAT
1 CATGCAAT
10710448 CATGTAAATA
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
16 5 0.08
17 3 0.05
18 4 0.06
19 5 0.08
20 25 0.40
21 4 0.06
22 9 0.14
23 8 0.13
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (20 bp):
CATGCAATTAAATATATAAT
Found at i:10710379 original size:22 final size:23
Alignment explanation
Indices: 10710351--10710446 Score: 68
Period size: 24 Copynumber: 3.8 Consensus size: 23
10710341 CATGCAATTA
10710351 AATATAT-AATCATGCAAATAAT
1 AATATATAAATCATGCAAATAAT
*
10710373 AATATATAAAATTATGCAAATAAACAT
1 AATATAT-AAATCATGCAAAT--A-AT
*
10710400 GCAATTAAATATATAATCATGCAAATAAT
1 --AA-T-AT-ATA-AATCATGCAAATAAT
*
10710429 AATACATAAATCATGCAA
1 AATATATAAATCATGCAA
10710447 TCATGTAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
22 7 0.12
23 10 0.17
24 14 0.24
25 1 0.02
26 2 0.03
27 4 0.07
29 4 0.07
30 2 0.03
31 2 0.03
32 13 0.22
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.29
Consensus pattern (23 bp):
AATATATAAATCATGCAAATAAT
Found at i:10710404 original size:56 final size:55
Alignment explanation
Indices: 10710305--10710446 Score: 248
Period size: 56 Copynumber: 2.6 Consensus size: 55
10710295 TAATAACCAT
*
10710305 TCATGCAAATAATAATATATAAATTATGCAAATTAACATGCAATTAAATATATAA
1 TCATGCAAATAATAATATATAAATTATGCAAATAAACATGCAATTAAATATATAA
10710360 TCATGCAAATAATAATATATAAAATTATGCAAATAAACATGCAATTAAATATATAA
1 TCATGCAAATAATAATATAT-AAATTATGCAAATAAACATGCAATTAAATATATAA
* *
10710416 TCATGCAAATAATAATACATAAATCATGCAA
1 TCATGCAAATAATAATATATAAATTATGCAA
10710447 TCATGTAAAT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
55 30 0.36
56 53 0.64
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.30
Consensus pattern (55 bp):
TCATGCAAATAATAATATATAAATTATGCAAATAAACATGCAATTAAATATATAA
Found at i:10710457 original size:31 final size:31
Alignment explanation
Indices: 10710414--10710477 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
10710404 TTAAATATAT
*
10710414 AATCATGCAAATAATAATACATAAATCATGC
1 AATCATGCAAATAATAATACATAAACCATGC
* *
10710445 AATCATGTAAATAATAATATATAAACCATGC
1 AATCATGCAAATAATAATACATAAACCATGC
10710476 AA
1 AA
10710478 AATATGCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (31 bp):
AATCATGCAAATAATAATACATAAACCATGC
Found at i:10710507 original size:22 final size:21
Alignment explanation
Indices: 10710482--10710522 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
10710472 ATGCAAAATA
*
10710482 TGCAATTAAATATATATAATTG
1 TGCAAATAAATATAT-TAATTG
10710504 TGCAAATAAATATATTAAT
1 TGCAAATAAATATATTAAT
10710523 AATCAAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (21 bp):
TGCAAATAAATATATTAATTG
Found at i:10710562 original size:24 final size:24
Alignment explanation
Indices: 10710481--10710657 Score: 71
Period size: 24 Copynumber: 7.8 Consensus size: 24
10710471 CATGCAAAAT
* *
10710481 ATGCAATTAAATATA-T-ATAATT
1 ATGCAATCAAATATATTAATAATA
*
10710503 GTGCAAAT-AAATATATTAATAATCA
1 ATGC-AATCAAATATATTAATAAT-A
** *
10710528 A-GCTTTTAAATATATTAATAATA
1 ATGCAATCAAATATATTAATAATA
10710551 ATGCAATCAAAT-TA--AAT-ATA
1 ATGCAATCAAATATATTAATAATA
* *
10710571 AT-C-ATACAAATAAATATATTAATA
1 ATGCAAT-CAAATATAT-TAATAATA
10710595 AT-C-ATACAAATATATTAAT-A-A
1 ATGCAAT-CAAATATATTAATAATA
* * *
10710616 AT-CACAT-AAATAAATATATTAATC
1 ATGCA-ATCAAATATAT-TAATAATA
*
10710640 ATGCAAACAAATATATTA
1 ATGCAATCAAATATATTA
10710658 GGCAAATAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
18 2 0.02
19 6 0.05
20 6 0.05
21 14 0.12
22 14 0.12
23 17 0.14
24 51 0.43
25 9 0.08
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (24 bp):
ATGCAATCAAATATATTAATAATA
Found at i:10710585 original size:47 final size:45
Alignment explanation
Indices: 10710534--10710638 Score: 131
Period size: 47 Copynumber: 2.3 Consensus size: 45
10710524 ATCAAGCTTT
* *
10710534 TAAATATATTAATAATAATGC-AATCAAATTAAATATAATCATACAAA
1 TAAATATATTAATAATAATACAAAT-AAATT-AATA-AATCACACAAA
* * *
10710581 TAAATATATTAATAATCATACAAATATATTAATAAATCACATAAA
1 TAAATATATTAATAATAATACAAATAAATTAATAAATCACACAAA
10710626 TAAATATATTAAT
1 TAAATATATTAAT
10710639 CATGCAAACA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 22 0.42
46 4 0.08
47 23 0.44
48 3 0.06
ACGTcount: A:0.57, C:0.08, G:0.01, T:0.34
Consensus pattern (45 bp):
TAAATATATTAATAATAATACAAATAAATTAATAAATCACACAAA
Found at i:10710651 original size:21 final size:21
Alignment explanation
Indices: 10710535--10710657 Score: 86
Period size: 21 Copynumber: 5.5 Consensus size: 21
10710525 TCAAGCTTTT
*
10710535 AAATATATTAATAATAATGCAATC
1 AAATATATTAATAAT-A--CAAAC
* * *
10710559 AAATTAAATATAATCATACAAAT
1 AAA-TATAT-TAATAATACAAAC
*
10710582 AAATATATTAATAAT-CATAC
1 AAATATATTAATAATACAAAC
*
10710602 AAATATATTAATAAATCACATAAAT
1 AAATATATTAAT-AAT-AC--AAAC
* *
10710627 AAATATATTAATCATGCAAAC
1 AAATATATTAATAATACAAAC
10710648 AAATATATTA
1 AAATATATTA
10710658 GGCAAATAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
20 15 0.19
21 22 0.28
22 4 0.05
23 8 0.10
24 5 0.06
25 19 0.24
26 6 0.08
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATATATTAATAATACAAAC
Found at i:10711345 original size:13 final size:12
Alignment explanation
Indices: 10711313--10711347 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10711303 TTTAACTAAA
10711313 AAAAATTAAACC
1 AAAAATTAAACC
*
10711325 AAAAATTAAACT
1 AAAAATTAAACC
10711337 AAAATATTAAA
1 AAAA-ATTAAA
10711348 ATATGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAATTAAACC
Found at i:10711728 original size:42 final size:43
Alignment explanation
Indices: 10711627--10711831 Score: 238
Period size: 42 Copynumber: 4.8 Consensus size: 43
10711617 TTTTTTTTGA
** * * *
10711627 AAAATGCTCTTCCACAATTAAGGCTTTGAAAATTTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* *
10711670 AAAATGCTCCCCCACAACTAAAGCTTTGAAACTTTTG-AAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
**
10711712 AAAATGCTCCATCACAACTGAGGCTTTGAAAC-TTTGAAAAAT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* *
10711754 AAAATG-TACCCCCACAATTGAGGCTTTGAAACTTTAG-AAAAT
1 AAAATGCT-CCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * *
10711796 AAAATACTCTCCTACAACTGAGGCTTTGGAACTTTT
1 AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTT
10711832 AGCCATGATT
Statistics
Matches: 139, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
41 5 0.04
42 98 0.71
43 36 0.26
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (43 bp):
AAAATGCTCCCCCACAACTGAGGCTTTGAAACTTTTGAAAAAT
Found at i:10711911 original size:42 final size:43
Alignment explanation
Indices: 10711847--10711955 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
10711837 TGATTGACAC
* * *
10711847 TTTGAAACTTTTG-AAAATAAAATGCT-TCCTCACAACTGA-AT
1 TTTGGAACTTTTGAAAAATAAAATACTCTCC-CACAACTCAGAT
* *
10711888 ATTTGGAAC-TTTGAAAAATAAAATACTCTCCCACAATTCAGGT
1 -TTTGGAACTTTTGAAAAATAAAATACTCTCCCACAACTCAGAT
*
10711931 TTTGGAACTTTTAAAAAATAAAATA
1 TTTGGAACTTTTGAAAAATAAAATA
10711956 AGATAATTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
41 4 0.07
42 34 0.60
43 19 0.33
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (43 bp):
TTTGGAACTTTTGAAAAATAAAATACTCTCCCACAACTCAGAT
Found at i:10711935 original size:111 final size:111
Alignment explanation
Indices: 10711735--10711943 Score: 271
Period size: 111 Copynumber: 1.9 Consensus size: 111
10711725 ACAACTGAGG
* * *
10711735 CTTTGAAACTTTGAAAAATAAAATGTACCCCCACAATTGAGGCTTTGAAACTTTAGAAAATAAAA
1 CTTTGAAACTTTGAAAAATAAAATGTACCCCCACAACTGAAGATTTGAAACTTTAGAAAATAAAA
* *
10711800 TACTCTCCTACAACTGAGGCTTTGGAACTTTTAGCCATGATTGACA
66 TACTCTCCCACAACTCAGGCTTTGGAACTTTTAGCCATGATTGACA
* * * *
10711846 CTTTGAAACTTTTG-AAAATAAAATGCT-TCCTCACAACTGAATATTTGGAACTTT-GAAAAATA
1 CTTTGAAAC-TTTGAAAAATAAAATG-TACCCCCACAACTGAAGATTTGAAACTTTAG-AAAATA
* *
10711908 AAATACTCTCCCACAATTCAGGTTTTGGAACTTTTA
63 AAATACTCTCCCACAACTCAGGCTTTGGAACTTTTA
10711944 AAAAATAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
110 1 0.01
111 78 0.93
112 5 0.06
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (111 bp):
CTTTGAAACTTTGAAAAATAAAATGTACCCCCACAACTGAAGATTTGAAACTTTAGAAAATAAAA
TACTCTCCCACAACTCAGGCTTTGGAACTTTTAGCCATGATTGACA
Found at i:10713384 original size:20 final size:20
Alignment explanation
Indices: 10713361--10713405 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
10713351 GGGTATTTAG
**
10713361 TTTTAGTTTTTTTTTTTTTT
1 TTTTAGTTTTTTGCTTTTTT
10713381 TTTTAGTTTTTTGCTTTTTT
1 TTTTAGTTTTTTGCTTTTTT
10713401 TTTTA
1 TTTTA
10713406 CACATATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.07, C:0.02, G:0.07, T:0.84
Consensus pattern (20 bp):
TTTTAGTTTTTTGCTTTTTT
Found at i:10719241 original size:38 final size:39
Alignment explanation
Indices: 10719198--10719281 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 39
10719188 ATATCAAGCA
*
10719198 ATCATGCAATAAATATTAAATCATATCATGCAA-AAATT
1 ATCATGCAATAAATATAAAATCATATCATGCAATAAATT
* *
10719236 TTCATGCTATAAATATAAAATCATATCATGCAATAAATT
1 ATCATGCAATAAATATAAAATCATATCATGCAATAAATT
10719275 ATCATGC
1 ATCATGC
10719282 CTAGATATGC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 30 0.73
39 11 0.27
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (39 bp):
ATCATGCAATAAATATAAAATCATATCATGCAATAAATT
Found at i:10719340 original size:20 final size:18
Alignment explanation
Indices: 10719315--10719425 Score: 59
Period size: 18 Copynumber: 5.9 Consensus size: 18
10719305 CAAGAATGTC
*
10719315 ATGCAAATATATTAATTATT
1 ATGCAAATATA-TAA-TATA
*
10719335 ATGC-AATA-ATAACAATA
1 ATGCAAATATATAA-TATA
* *
10719352 ATGTAAATATATAATATC
1 ATGCAAATATATAATATA
*
10719370 ATGCAAATATAT--TATC
1 ATGCAAATATATAATATA
*
10719386 ATGCAATAGTAATATAAAATA
1 ATGCAA-A-T-ATATAATATA
10719407 CCATGCAAATATACTAATA
1 --ATGCAAATATA-TAATA
10719426 ACCATTCATG
Statistics
Matches: 71, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
16 10 0.14
17 9 0.13
18 19 0.27
19 12 0.17
20 7 0.10
21 7 0.10
22 1 0.01
23 6 0.08
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (18 bp):
ATGCAAATATATAATATA
Found at i:10719379 original size:16 final size:15
Alignment explanation
Indices: 10719360--10719400 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
10719350 TAATGTAAAT
10719360 ATATAATATCATGCAA
1 ATATAATATCATGC-A
*
10719376 ATATATTATCATGCA
1 ATATAATATCATGCA
10719391 ATAGTAATAT
1 ATA-TAATAT
10719401 AAAATACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (15 bp):
ATATAATATCATGCA
Found at i:10719461 original size:23 final size:23
Alignment explanation
Indices: 10719375--10719465 Score: 75
Period size: 23 Copynumber: 4.0 Consensus size: 23
10719365 ATATCATGCA
* *
10719375 AATATAT-TATCATGC-AATAGT
1 AATATATAAATCATGCAAATAAT
10719396 AATATA-AAATACCATGCAAAT-AT
1 AATATATAAAT--CATGCAAATAAT
*
10719419 ACTA-ATAACCATTCATGCAAATAAT
1 AATATATAA--A-TCATGCAAATAAT
10719444 AATATATAAATCATGCAAATAA
1 AATATATAAATCATGCAAATAA
10719466 ACATACAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
21 8 0.14
22 1 0.02
23 23 0.41
24 13 0.23
25 6 0.11
26 5 0.09
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (23 bp):
AATATATAAATCATGCAAATAAT
Found at i:10719500 original size:35 final size:33
Alignment explanation
Indices: 10719444--10719530 Score: 94
Period size: 32 Copynumber: 2.7 Consensus size: 33
10719434 TGCAAATAAT
10719444 AATATATAAATCATGCAAATAA-ACATACAATTA
1 AATATATAAATCATGCAAATAATACATA-AATTA
*
10719477 AATATAT-AATCATGCAAATAATA-ATACA-TA
1 AATATATAAATCATGCAAATAATACATAAATTA
* *
10719507 AAT-TATGCAATCATGTAAATAATA
1 AATATAT-AAATCATGCAAATAATA
10719531 ATATATATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.06
30 5 0.10
31 16 0.33
32 17 0.35
33 8 0.16
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (33 bp):
AATATATAAATCATGCAAATAATACATAAATTA
Found at i:10719548 original size:33 final size:31
Alignment explanation
Indices: 10719484--10719549 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
10719474 TTAAATATAT
**
10719484 AATCATGCAAATAATAATACATAAATTATGC
1 AATCATGCAAATAATAATACATAAACCATGC
* *
10719515 AATCATGTAAATAATAATATATATAAACCATGC
1 AATCATGCAAATAAT-A-ATACATAAACCATGC
10719548 AA
1 AA
10719550 AATATGCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 14 0.48
32 1 0.03
33 14 0.48
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (31 bp):
AATCATGCAAATAATAATACATAAACCATGC
Found at i:10719604 original size:85 final size:87
Alignment explanation
Indices: 10719438--10719605 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 87
10719428 CATTCATGCA
* *
10719438 AATAATAATATATAAATCATGCAAATAAACATACAATTAAATATATAATCATGCAAATAATAATA
1 AATAATAATATATAAACCATGC-AATAAACATACAATTAAATATATAATCATGAAAATAATAATA
10719503 CATAAATTATGCAATCATGTAAAT
65 CATAAATTAT-CAATCATGTAAAT
* *
10719527 AATAAT-ATATATAAACCATGC-A-AAATATGCAATTAAATATATAATCATGAAAATAAATAAGT
1 AATAATAATATATAAACCATGCAATAAACATACAATTAAATATATAATCATGAAAAT-AATAA-T
10719589 A-ATTAAATTAT-AATCAT
64 ACA-TAAATTATCAATCAT
10719606 ACAGATAAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
85 35 0.49
86 7 0.10
87 10 0.14
88 14 0.19
89 6 0.08
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (87 bp):
AATAATAATATATAAACCATGCAATAAACATACAATTAAATATATAATCATGAAAATAATAATAC
ATAAATTATCAATCATGTAAAT
Found at i:10719625 original size:24 final size:24
Alignment explanation
Indices: 10719598--10719714 Score: 104
Period size: 24 Copynumber: 5.0 Consensus size: 24
10719588 TAATTAAATT
*
10719598 ATAATCATACAGATAAATATATTA
1 ATAATCATACAAATAAATATATTA
* *
10719622 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATACAAAT-AAATATATTA
10719644 TATAATCATACAAATAAATATATTA
1 -ATAATCATACAAATAAATATATTA
*
10719669 ATAATCATGC----AAATATATTA
1 ATAATCATACAAATAAATATATTA
* *
10719689 ATAAATCACAGAAATAAATATATTA
1 AT-AATCATACAAATAAATATATTA
10719714 A
1 A
10719715 CCATGCAAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 19
0.73 0.09 0.19
Matches are distributed among these distances:
20 12 0.16
21 5 0.07
22 1 0.01
23 17 0.23
24 27 0.36
25 12 0.16
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (24 bp):
ATAATCATACAAATAAATATATTA
Found at i:10719654 original size:47 final size:47
Alignment explanation
Indices: 10719589--10719714 Score: 177
Period size: 47 Copynumber: 2.7 Consensus size: 47
10719579 ATAAATAAGT
*
10719589 AATTAAATTATAATCATACAGATAAATATATTAATAATCATGC-AATCA
1 AATTAAA-TATAATCATACAAATAAATATATTAATAATCATGCAAAT-A
10719637 AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
1 AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
* * *
10719684 TATT-AATA-AATCACAGAAATAAATATATTAA
1 AATTAAATATAATCATACAAATAAATATATTAA
10719715 CCATGCAAAC
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
45 21 0.29
46 4 0.05
47 38 0.52
48 10 0.14
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.33
Consensus pattern (47 bp):
AATTAAATATAATCATACAAATAAATATATTAATAATCATGCAAATA
Found at i:10719771 original size:17 final size:19
Alignment explanation
Indices: 10719738--10719778 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
10719728 TATATTAGGC
*
10719738 AAATAAATTATCATGCAA-
1 AAATAAATTACCATGCAAT
10719756 AAATAAA-TACCATGCAAT
1 AAATAAATTACCATGCAAT
10719774 AAATA
1 AAATA
10719779 TAAAAATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.24
Consensus pattern (19 bp):
AAATAAATTACCATGCAAT
Found at i:10720368 original size:12 final size:12
Alignment explanation
Indices: 10720351--10720386 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
10720341 ACTAAAAAAA
10720351 CAAAAATTAAAC
1 CAAAAATTAAAC
10720363 CAAAAATTAAAC
1 CAAAAATTAAAC
*
10720375 TAAAATATTAAA
1 CAAAA-ATTAAA
10720387 ATACAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (12 bp):
CAAAAATTAAAC
Found at i:10722056 original size:15 final size:15
Alignment explanation
Indices: 10722032--10722065 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
10722022 TTGTTTCTGC
*
10722032 ATTTTTCTTTACTGT
1 ATTTTCCTTTACTGT
10722047 ATTTTCCTTTACTGT
1 ATTTTCCTTTACTGT
10722062 ATTT
1 ATTT
10722066 ATGTTTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.65
Consensus pattern (15 bp):
ATTTTCCTTTACTGT
Found at i:10731713 original size:22 final size:22
Alignment explanation
Indices: 10731684--10731728 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
10731674 GTGAATCATT
* *
10731684 ACACCAAAATCAT-CAAAATAA
1 ACACCAAAAGCATAAAAAATAA
10731705 ACACTCAAAAGCATAAAAAATAA
1 ACAC-CAAAAGCATAAAAAATAA
10731728 A
1 A
10731729 AATAAAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 8 0.40
23 8 0.40
ACGTcount: A:0.64, C:0.20, G:0.02, T:0.13
Consensus pattern (22 bp):
ACACCAAAAGCATAAAAAATAA
Found at i:10736379 original size:10 final size:10
Alignment explanation
Indices: 10736364--10736395 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
10736354 ATATCCCTTT
10736364 CACCTTTGGA
1 CACCTTTGGA
10736374 CACCTTTGGA
1 CACCTTTGGA
10736384 CACCTTTGGA
1 CACCTTTGGA
10736394 CA
1 CA
10736396 ATCATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (10 bp):
CACCTTTGGA
Found at i:10738244 original size:143 final size:139
Alignment explanation
Indices: 10737757--10738264 Score: 345
Period size: 144 Copynumber: 3.5 Consensus size: 139
10737747 CTTAGAAGCA
* * *
10737757 TAAAATTACCAAAATACCCCTTTTATGGGTATTTTCATAATTTAAT-CTTTTC-GAGTCCCAAAT
1 TAAAATTACCAAAATACCCC-TATAAGGGTATTTTC-TAATTT--TGCTTTTCTGAG-CCTAAAT
* * * * * * * *
10737820 TTTGTGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGGGCATTTAAATCATAG
61 TTTATGAAACTTTTTAAATTTTAATTTTATAATATTTCATAATTTTTAGTGCA-TTAAA--ATAA
* *
10737885 CA-ATAACCTAAAATGTG
123 CAGAT-ACCCAGAATGTG
* * * * * * *
10737902 TGAAATTATCGAAATACCCTTCTAAGGGTATTTTCTGAATTTGGCTTTT-TCGAGCCTGAATTTT
1 TAAAATTACCAAAATACCCCTATAAGGGTATTTTCT-AATTTTGCTTTTCT-GAGCCTAAATTTT
* ** * * * **
10737966 -TGTAAAAATTTTTTTATTTTAATTTTATAATATTTCAAAATTTTTTA-TAAG-GTTGAAACCAC
64 ATG--AAACTTTTTAAATTTTAATTTTATAATATTTCATAA-TTTTTAGT--GCATTAAAATAAC
10738028 AGCAATACCCTACG-ATGT-
124 AG--ATACCC-A-GAATGTG
* * * * ** * *
10738046 AAGAAATTACCAAAATACTCTTATAAGGGTTTTTTCTAA-TTTGACCCTTCCGAGCTTAAATTTT
1 TA-AAATTACCAAAATACCCCTATAAGGGTATTTTCTAATTTTG-CTTTTCTGAGCCTAAATTTT
10738110 ATGAAACTTTTTAAATTTTAATTTTATAATATTTCATAATTTTTAGTGCATCTAAAATAACAGAG
64 ATGAAACTTTTTAAATTTTAATTTTATAATATTTCATAATTTTTAGTGCAT-TAAAATAACAGA-
10738175 TACCCAGGAATGTG
127 TACCCA-GAATGTG
*
10738189 TAAAATTACCAAAATACCCCTATATA-GGTATTTTCGTAATTTTGCTTTTCTGAGCTCGAAATTT
1 TAAAATTACCAAAATACCCCTATA-AGGGTATTTTC-TAATTTTGCTTTTCTGAGC-CTAAATTT
*
10738253 CATGAAACTTTT
63 TATGAAACTTTT
10738265 CAGATCTCAA
Statistics
Matches: 278, Mismatches: 57, Indels: 57
0.71 0.15 0.15
Matches are distributed among these distances:
141 4 0.01
142 49 0.18
143 71 0.26
144 94 0.34
145 59 0.21
146 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (139 bp):
TAAAATTACCAAAATACCCCTATAAGGGTATTTTCTAATTTTGCTTTTCTGAGCCTAAATTTTAT
GAAACTTTTTAAATTTTAATTTTATAATATTTCATAATTTTTAGTGCATTAAAATAACAGATACC
CAGAATGTG
Found at i:10739574 original size:151 final size:151
Alignment explanation
Indices: 10739358--10739641 Score: 460
Period size: 151 Copynumber: 1.9 Consensus size: 151
10739348 GTTGTTCTCT
* * * * * *
10739358 TTATTTTTGTTTTGCTTGGCTTTCTTTGTATCACTTTGCTTGCTTAAGCAGTGTATGAACAATAA
1 TTATTTTTGTTTGGCTTGACTTTCTTTGTATCACTTTGCTTACTTAACCAATGCATGAACAATAA
* *
10739423 ATTCTGGTTGTAGGAAAACATAAAGAATGAAAGCTGAAAATAGGCCATAGGTAATGCATGCCTCA
66 ATTCTGGATGTAGGAAAACACAAAGAATGAAAGCTGAAAATAGGCCATAGGTAATGCATGCCTCA
10739488 CGTAAACTAGTTATCCCCTCC
131 CGTAAACTAGTTATCCCCTCC
*
10739509 TTATTTTTGTTTGGCTTGACTTTCTTTGTATGACTTTGCTTACTTAACCAATGCATGAACAATAA
1 TTATTTTTGTTTGGCTTGACTTTCTTTGTATCACTTTGCTTACTTAACCAATGCATGAACAATAA
* * *
10739574 ATTCTGGATGTAGGAAAACACAAGGAATGAAAGCTGAAAATAGGCCATAGGTAGTGCATGCTTCA
66 ATTCTGGATGTAGGAAAACACAAAGAATGAAAGCTGAAAATAGGCCATAGGTAATGCATGCCTCA
10739639 CGT
131 CGT
10739642 GAGCTATGCT
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 121 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (151 bp):
TTATTTTTGTTTGGCTTGACTTTCTTTGTATCACTTTGCTTACTTAACCAATGCATGAACAATAA
ATTCTGGATGTAGGAAAACACAAAGAATGAAAGCTGAAAATAGGCCATAGGTAATGCATGCCTCA
CGTAAACTAGTTATCCCCTCC
Found at i:10741293 original size:27 final size:27
Alignment explanation
Indices: 10741257--10741308 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
10741247 ACCATAAAAG
*
10741257 AGAAGCTTGCATTTGCATTATGACATC
1 AGAAGCTTGCATTTGCATCATGACATC
*
10741284 AGAAGTTTGCATTTGCATCATGACA
1 AGAAGCTTGCATTTGCATCATGACA
10741309 CCTGCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (27 bp):
AGAAGCTTGCATTTGCATCATGACATC
Found at i:10741428 original size:18 final size:18
Alignment explanation
Indices: 10741402--10741440 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10741392 TTACATTAAG
10741402 CATTCACATTGGGATTCA
1 CATTCACATTGGGATTCA
* * *
10741420 CATTGACATTTGTATTCA
1 CATTCACATTGGGATTCA
10741438 CAT
1 CAT
10741441 CATTTGATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (18 bp):
CATTCACATTGGGATTCA
Found at i:10741799 original size:22 final size:22
Alignment explanation
Indices: 10741768--10741819 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
10741758 TTGAGATTTG
10741768 TAAGACCTCCTAG-CATAATCTT
1 TAAGACCTCC-AGACATAATCTT
* *
10741790 TAAGATCTCCAGACATAATTTT
1 TAAGACCTCCAGACATAATCTT
10741812 TAAGACCT
1 TAAGACCT
10741820 TCGTGCAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (22 bp):
TAAGACCTCCAGACATAATCTT
Found at i:10741840 original size:126 final size:126
Alignment explanation
Indices: 10741678--10742428 Score: 854
Period size: 126 Copynumber: 6.0 Consensus size: 126
10741668 TAGCATCCAA
* * * *
10741678 ATAATTTTTAAGACCTTCGAGCAAAACATTTTAAATTTTTAAAGTTTCATGGCCTCTGATTGGAT
1 ATAATTTTTAAGACCTCCGGGCAAAACATTTTAAATTTTTAAAGTTTCATGGCCTCTGATTAGAG
* * * * *
10741743 GAGTATTCAAAGATTTTGAGATTTGTAAGACCTCCTAGCATAATCTTTAAGATCTCCAGAC
66 GAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCTAGCATAATCTCTAAGACCTCCTGGC
* * * *
10741804 ATAATTTTTAAGACCTTCGTGC-AAACAATTTTAAATTTTTAAAGTTTCATGGCCTCTAATTAAA
1 ATAATTTTTAAGACCTCCGGGCAAAAC-ATTTTAAATTTTTAAAGTTTCATGGCCTCTGATTAGA
* * ** * * *
10741868 GGAACATTCAAAGATTTTGAGATTTATAAGACCTCCGGGCATAATATCTAAGATCTTC-GAGC
65 GGAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCTAGCATAATCTCTAAGACCTCCTG-GC
* **
10741930 ATAATTTTCAAGACCTCCAAGCAAAACATTTTAAA-TTTTAAAGTTTCATGGCCTCTGATTAGAG
1 ATAATTTTTAAGACCTCCGGGCAAAACATTTTAAATTTTTAAAGTTTCATGGCCTCTGATTAGAG
* * ** * *
10741994 GAGTATTCAAAGATTTTGAGATTTATAAGA-CTTTTAAGTATAATCTCTAAGACCTCTTGGC
66 GAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCT-AGCATAATCTCTAAGACCTCCTGGC
* * * * *
10742055 ATAATTTTTAAAACCTCTGGGCAAAACATTTT-AATTTTTAAAGTTTTATGGCTTTCTGATTGGA
1 ATAATTTTTAAGACCTCCGGGCAAAACATTTTAAATTTTTAAAGTTTCATGGC-CTCTGATTAGA
* ** * **
10742119 GGAGCATTCAAAGATTTTGAGATTTGTAAGACCTCTTAGTGTAATCTTTAAGA-CTTTTGGGC
65 GGAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCTAGCATAATCTCTAAGACCTCCT-GGC
* * * * * *
10742181 ACAATTTTTAAAATCTCCGGGTAAAACATTTTAAATTTTTAAAGTTTCATGGCCTCTAATTTGAG
1 ATAATTTTTAAGACCTCCGGGCAAAACATTTTAAATTTTTAAAGTTTCATGGCCTCTGATTAGAG
* * *
10742246 GAGCATTCAACGATTTTGAGATTTGTAAGACCT-CTAGGCGTAATCTCTAAGACCTCTTGGC
66 GAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCTA-GCATAATCTCTAAGACCTCCTGGC
* *
10742307 ATAATTTTTAAGACCTCCGGGCAAGACA-TTTAAATTTTTTAAAGTTTCATGGCCTTTGATTAGA
1 ATAATTTTTAAGACCTCCGGGCAAAACATTTTAAA-TTTTTAAAGTTTCATGGCCTCTGATTAGA
* * * * * *
10742371 TGAGCATTCAAAGATGTTGAAATCTCTAAGACCTCC-AGGCATAATCTGTAAGACCTCC
65 GGAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCTA-GCATAATCTCTAAGACCTCC
10742429 GAGTGTAATC
Statistics
Matches: 536, Mismatches: 75, Indels: 28
0.84 0.12 0.04
Matches are distributed among these distances:
124 4 0.01
125 132 0.25
126 368 0.69
127 32 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (126 bp):
ATAATTTTTAAGACCTCCGGGCAAAACATTTTAAATTTTTAAAGTTTCATGGCCTCTGATTAGAG
GAGCATTCAAAGATTTTGAGATTTGTAAGACCTCCTAGCATAATCTCTAAGACCTCCTGGC
Found at i:10742058 original size:22 final size:22
Alignment explanation
Indices: 10742033--10742077 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10742023 ACTTTTAAGT
* *
10742033 ATAATCTCTAAGACCTCTTGGC
1 ATAATCTCTAAAACCTCTGGGC
* *
10742055 ATAATTTTTAAAACCTCTGGGC
1 ATAATCTCTAAAACCTCTGGGC
10742077 A
1 A
10742078 AAACATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (22 bp):
ATAATCTCTAAAACCTCTGGGC
Found at i:10742329 original size:22 final size:22
Alignment explanation
Indices: 10742266--10742323 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
10742256 CGATTTTGAG
* *
10742266 ATTTGTAAGACCTCTAGGCGTA
1 ATTTCTAAGACCTCTAGGCATA
* *
10742288 ATCTCTAAGACCTCTTGGCATA
1 ATTTCTAAGACCTCTAGGCATA
*
10742310 ATTTTTAAGACCTC
1 ATTTCTAAGACCTC
10742324 CGGGCAAGAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (22 bp):
ATTTCTAAGACCTCTAGGCATA
Found at i:10742422 original size:22 final size:22
Alignment explanation
Indices: 10742391--10742459 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
10742381 AAGATGTTGA
10742391 AATCTCTAAGACCTCCAGGCAT
1 AATCTCTAAGACCTCCAGGCAT
*
10742413 AATCTGTAAGACCTCCGAGTG--T
1 AATCTCTAAGACCTCC-AG-GCAT
* **
10742435 AATCTTTAAGACCTTTAGGCAT
1 AATCTCTAAGACCTCCAGGCAT
10742457 AAT
1 AAT
10742460 TTTCTAGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.03
21 2 0.05
22 33 0.85
23 2 0.05
24 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (22 bp):
AATCTCTAAGACCTCCAGGCAT
Found at i:10743376 original size:144 final size:142
Alignment explanation
Indices: 10742871--10743423 Score: 503
Period size: 145 Copynumber: 3.9 Consensus size: 142
10742861 GTTCGAAAGC
* * *
10742871 ATGAAATTACCAAAATACCCTTATAGGGGTATTTTCGTAATTTGATCTTTTCGAGCCTTG-AATT
1 ATGAAATTACCAAAATACCCTTATAAGGGTATTTTCGTAATTTGAGCTTTTCGAG-CTCGAAATT
* * * * *
10742935 TCATAAAACTTTTCATATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTTAAAATCATAA
65 TCA-CAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTTGGTGCA-TTGAAATCATAG
10743000 CAATACCCTAAAAAAT
128 CAATACCCT-AAAAAT
* * * * * * *
10743016 GTGAAATTATCAAAATACCCTTTATAAGGGTATTGTCATAATTT-AGCTTTTTCGAGCCCGGATT
1 ATGAAATTACCAAAATACCC-TTATAAGGGTATTTTCGTAATTTGAGC-TTTTCGAGCTCGAAAT
*** * * * * * ** ** *
10743080 TTGTGAAAATTCTTAAATTTTAATTTTATAATATTTCACAATTTTTTATG-AGGTTGAAACCATA
64 TTCACAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTTGGTGCA--TTGAAATCATA
* *
10743144 GCAATACTCTAGAAAGT
127 GCAATACCCTA-AAAAT
* ** * * * * *
10743161 ATAAAATTACCAAAATATTCTTAT-AGGGT-TTTTTGTAATTTGACCCTTCCAAGCTC-AGAATT
1 ATGAAATTACCAAAATACCCTTATAAGGGTATTTTCGTAATTTGAGCTTTTCGAGCTCGA-AATT
* *
10743223 TTACAAAACTTTTTCAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATCTGAAATCATA
65 TCAC-AAACTTTTT-AGATCTCAATTTTATAATATTTCATGATTTTTGGTGCAT-TGAAATCATA
10743288 GCAATACCCTAAAAAT
127 GCAATACCCTAAAAAT
*
10743304 ATGAAATTACCAAAATACCCTAATAAGGGTATTTTCGTAATTT-AGCTTTTCAGAGCTCGAAATT
1 ATGAAATTACCAAAATACCCTTATAAGGGTATTTTCGTAATTTGAGCTTTTC-GAGCTCGAAATT
* * * *
10743368 TCACAAACTTTTTAGATCTCAACTTCATAATAATTT-ATTATTTTTTGTGC-TTGAAA
65 TCACAAACTTTTTAGATCTCAATTTTATAAT-ATTTCATGATTTTTGGTGCATTGAAA
10743424 ATCCGAAAAA
Statistics
Matches: 320, Mismatches: 72, Indels: 36
0.75 0.17 0.08
Matches are distributed among these distances:
141 5 0.02
142 21 0.07
143 66 0.21
144 78 0.24
145 117 0.37
146 33 0.10
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (142 bp):
ATGAAATTACCAAAATACCCTTATAAGGGTATTTTCGTAATTTGAGCTTTTCGAGCTCGAAATTT
CACAAACTTTTTAGATCTCAATTTTATAATATTTCATGATTTTTGGTGCATTGAAATCATAGCAA
TACCCTAAAAAT
Found at i:10744774 original size:149 final size:151
Alignment explanation
Indices: 10744542--10744876 Score: 462
Period size: 149 Copynumber: 2.2 Consensus size: 151
10744532 CAAGTTTCAT
* * * *
10744542 GTGAACTAGTTGTTCCCTCTTTATTTTTGTTTTGCTTGGCTTTCTTTGTATCACTTTGCTTCCTC
1 GTGAACTAGTTGTCCCCTCTTTATTTTTGTTTTGCTTGACTCTCTTTGTATCACTTTGCTTACTC
* ** *
10744607 AACCAGTGTATGAACAATAAATT-TGGTTGTAGGAAAACATAAG-AATGAAAGCTGAAAATAGGC
66 AACCAATACATGAACAATAAATTCTGGATGTAGGAAAACATAAGAAATGAAAGCTGAAAATAGGC
10744670 CATAGGTAATGCATGCCTCAC
131 CATAGGTAATGCATGCCTCAC
*
10744691 GTGAACTAGTTGTCCCCTCTTTATTTTTG-TTTGACTTGACTCTCTTTGTATGACTTTGCTTACT
1 GTGAACTAGTTGTCCCCTCTTTATTTTTGTTTTG-CTTGACTCTCTTTGTATCACTTTGCTTACT
* *
10744755 TAACCAATACATGAACAATAAATTCTGGATGTAGGAAAACATAAGAAATGAAAGCTGCAAATAGG
65 CAACCAATACATGAACAATAAATTCTGGATGTAGGAAAACATAAGAAATGAAAGCTGAAAATAGG
* * *
10744820 TCATAGGTAGTGCATGCTTCAC
130 CCATAGGTAATGCATGCCTCAC
* * *
10744842 GTGAACTATGTTATTCCAC-CTTTATGTTTGTTTTG
1 GTGAACTA-GTT-GTCCCCTCTTTATTTTTGTTTTG
10744877 TTTGGCCATT
Statistics
Matches: 163, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
148 4 0.02
149 74 0.45
150 19 0.12
151 45 0.28
152 13 0.08
153 8 0.05
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (151 bp):
GTGAACTAGTTGTCCCCTCTTTATTTTTGTTTTGCTTGACTCTCTTTGTATCACTTTGCTTACTC
AACCAATACATGAACAATAAATTCTGGATGTAGGAAAACATAAGAAATGAAAGCTGAAAATAGGC
CATAGGTAATGCATGCCTCAC
Found at i:10751111 original size:1 final size:1
Alignment explanation
Indices: 10751107--10751131 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
10751097 CAAGGGATCC
10751107 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
10751132 AAACTTAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10751363 original size:18 final size:17
Alignment explanation
Indices: 10751319--10751369 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
10751309 GATGAAATAA
10751319 AAAATATTAATATTATG
1 AAAATATTAATATTATG
10751336 AATAATTATTAA-ATTATAG
1 AA-AA-TATTAATATTAT-G
10751355 TAAAATATTTAATAT
1 -AAAATA-TTAATAT
10751370 AATATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.07
18 9 0.32
19 13 0.46
20 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
AAAATATTAATATTATG
Found at i:10751372 original size:31 final size:30
Alignment explanation
Indices: 10751337--10751415 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 30
10751327 AATATTATGA
*
10751337 ATAATTA-TTAAATTATAGTAAAATATTTAAT
1 ATAATTATTTAAATTATA--AAAATATTAAAT
*
10751368 ATAA-TATTTAAATTTTAAAAATATTAAAT
1 ATAATTATTTAAATTATAAAAATATTAAAT
* *
10751397 ATAA-TATTTGAATTTTAAA
1 ATAATTATTTAAATTATAAA
10751416 TTTATTAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 29 0.66
30 2 0.05
31 13 0.30
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.46
Consensus pattern (30 bp):
ATAATTATTTAAATTATAAAAATATTAAAT
Found at i:10751389 original size:29 final size:29
Alignment explanation
Indices: 10751356--10751415 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
10751346 AAATTATAGT
*
10751356 AAAATATTTAATATAATATTTAAATTTTA
1 AAAATATTAAATATAATATTTAAATTTTA
*
10751385 AAAATATTAAATATAATATTTGAATTTTA
1 AAAATATTAAATATAATATTTAAATTTTA
10751414 AA
1 AA
10751416 TTTATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
AAAATATTAAATATAATATTTAAATTTTA
Found at i:10751421 original size:29 final size:28
Alignment explanation
Indices: 10751356--10751430 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 28
10751346 AAATTATAGT
10751356 AAAATATTTAATATAATATTTAAATTTTA
1 AAAATA-TTAATATAATATTTAAATTTTA
*
10751385 AAAATATTAAATATAATATTTGAATTTTA
1 AAAATATT-AATATAATATTTAAATTTTA
**
10751414 AATTTATTAAT-TAATAT
1 AAAATATTAATATAATAT
10751431 AAAATTTACT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 6 0.14
28 5 0.12
29 31 0.74
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (28 bp):
AAAATATTAATATAATATTTAAATTTTA
Found at i:10751555 original size:29 final size:30
Alignment explanation
Indices: 10751513--10751572 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
10751503 AATTAATGAA
*
10751513 TTTATAATTCAAATAATACATTAAA-ATTT
1 TTTAAAATTCAAATAATACATTAAATATTT
* * *
10751542 TTTAAAATTTAAATATTATATTAAATATTT
1 TTTAAAATTCAAATAATACATTAAATATTT
10751572 T
1 T
10751573 ATATTAATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTAAAATTCAAATAATACATTAAATATTT
Found at i:10760254 original size:2 final size:2
Alignment explanation
Indices: 10760247--10760277 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10760237 GTTCTTCTTT
10760247 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10760278 TAATTTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10761885 original size:22 final size:22
Alignment explanation
Indices: 10761860--10761904 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
10761850 TCTATTTATT
10761860 ACATCATTAAAACCAAAGGCGA
1 ACATCATTAAAACCAAAGGCGA
*
10761882 ACATCATTAAAACCAGAGGCGA
1 ACATCATTAAAACCAAAGGCGA
10761904 A
1 A
10761905 TCCAGGGGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (22 bp):
ACATCATTAAAACCAAAGGCGA
Found at i:10764487 original size:13 final size:14
Alignment explanation
Indices: 10764459--10764486 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10764449 ATTTGGTTTA
10764459 TAATTTTTTTATTT
1 TAATTTTTTTATTT
10764473 TAATTTTTTTATTT
1 TAATTTTTTTATTT
10764487 ATTTTTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TAATTTTTTTATTT
Found at i:10765220 original size:4 final size:4
Alignment explanation
Indices: 10765211--10765262 Score: 86
Period size: 4 Copynumber: 13.0 Consensus size: 4
10765201 AATAAGAATG
* *
10765211 CATA CATA CATA CATA CATA CATA CATA CATA TATA CATA TATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
10765259 CATA
1 CATA
10765263 TAAACACACT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (4 bp):
CATA
Found at i:10773160 original size:17 final size:17
Alignment explanation
Indices: 10773140--10773181 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
10773130 TTTTTTTTGC
10773140 TATTATTTTCTTTTTAT
1 TATTATTTTCTTTTTAT
* *
10773157 TATT-TTCATCTTTTTCT
1 TATTATT-TTCTTTTTAT
10773174 TATTATTT
1 TATTATTT
10773182 AAATAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 4
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.10
17 16 0.80
18 2 0.10
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTATTTTCTTTTTAT
Found at i:10773315 original size:129 final size:129
Alignment explanation
Indices: 10773173--10773438 Score: 337
Period size: 129 Copynumber: 2.1 Consensus size: 129
10773163 CATCTTTTTC
* **
10773173 TTATTATTTAAATAAATATTTATTTAGT-AAATATAATTTCTTTTTATTATCCC-AACT-TTTCG
1 TTATTATTTAAATAAATATTTATTTAGTGAAA-ATAACTT-TTTGGATTA-CCCTAACTCTTT-G
* * *
10773235 GTAAAATCTAAAAATATATTTTTGGTAATAATTAAGA-ATTCATTTAAAGAAATA-TTTTTATTT
62 GTAAAATCCAAAAATAT-TTTTTGGTAATAATTAAGAGATTCATTTAAACAAACACTTTTTATTT
10773298 ATTA-
126 -TTAT
* *
10773302 TTATTATTTAAATAAATATTTATTTAGTGAAAATAACTTTTTGGATTACCCTATCTCTTTGGTGA
1 TTATTATTTAAATAAATATTTATTTAGTGAAAATAACTTTTTGGATTACCCTAACTCTTTGGTAA
* * *
10773367 AATCCATAAATATTTTTTTGTAATAATTAAGAGATTTATTTAAACAAACACTTTTTATTTTTAT
66 AATCCAAAAATATTTTTTGGTAATAATTAAGAGATTCATTTAAACAAACACTTTTTATTTTTAT
10773431 TTATTATT
1 TTATTATT
10773439 CATTGTTTTT
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
127 21 0.17
128 42 0.35
129 54 0.45
130 3 0.03
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.49
Consensus pattern (129 bp):
TTATTATTTAAATAAATATTTATTTAGTGAAAATAACTTTTTGGATTACCCTAACTCTTTGGTAA
AATCCAAAAATATTTTTTGGTAATAATTAAGAGATTCATTTAAACAAACACTTTTTATTTTTAT
Found at i:10773893 original size:6 final size:6
Alignment explanation
Indices: 10773882--10773928 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
10773872 AAAAAATAAC
*
10773882 AAAAAT AAAAAT AAAACCA- AAAAAT AAAAAT AAAAA- AAAAAG AAAAA
1 AAAAAT AAAAAT AAAA--AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
10773929 CTTACAAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 6 0.16
6 26 0.70
7 4 0.11
8 1 0.03
ACGTcount: A:0.85, C:0.04, G:0.02, T:0.09
Consensus pattern (6 bp):
AAAAAT
Found at i:10773906 original size:19 final size:17
Alignment explanation
Indices: 10773882--10773928 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
10773872 AAAAAATAAC
10773882 AAAAATAAAAATAAAACCA
1 AAAAATAAAAATAAAA--A
10773901 AAAAATAAAAATAAAAA
1 AAAAATAAAAATAAAAA
*
10773918 AAAAAGAAAAA
1 AAAAATAAAAA
10773929 CTTACAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 11 0.41
19 16 0.59
ACGTcount: A:0.85, C:0.04, G:0.02, T:0.09
Consensus pattern (17 bp):
AAAAATAAAAATAAAAA
Found at i:10773928 original size:25 final size:26
Alignment explanation
Indices: 10773873--10773928 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
10773863 AAATCTAACA
*
10773873 AAAAATAACAAAAATAAAAATAAAAC
1 AAAAATAACAAAAATAAAAAAAAAAC
* * *
10773899 CAAAA-AATAAAAATAAAAAAAAAAG
1 AAAAATAACAAAAATAAAAAAAAAAC
10773924 AAAAA
1 AAAAA
10773929 CTTACAAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.09
Consensus pattern (26 bp):
AAAAATAACAAAAATAAAAAAAAAAC
Found at i:10775460 original size:16 final size:16
Alignment explanation
Indices: 10775439--10775483 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
10775429 ATATTTTGTC
10775439 AATATTTTATCAATAA
1 AATATTTTATCAATAA
* *
10775455 AATATTTCATCGAT-A
1 AATATTTTATCAATAA
10775470 AA-ATTTTATCAATA
1 AATATTTTATCAATA
10775484 GTAATTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 9 0.38
15 3 0.12
16 12 0.50
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (16 bp):
AATATTTTATCAATAA
Found at i:10776595 original size:72 final size:72
Alignment explanation
Indices: 10776458--10776598 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 72
10776448 AATCTTTTAC
* * * * **
10776458 AAAAAATTGAATGGGATTATTTAAGGTGTTTTCTGACAAAAAAAGCCTTAAATAATCCCCTAAAA
1 AAAAAATTGAATGAGATTATTGAAAGAGTTTTCTGACAAAAAAAGCCTTAAATAATCCCAAAAAA
10776523 AAATTGA
66 AAATTGA
* * * * *
10776530 AAAAAATTGAATGAGATTATTGAAAGAGTTTTCTGGCCAAAAACA-TCTTAAATAATTCTAAAAA
1 AAAAAATTGAATGAGATTATTGAAAGAGTTTTCT-GACAAAAAAAGCCTTAAATAATCCCAAAAA
10776594 AAAAT
65 AAAAT
10776599 CTTATAAGTA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 49 0.86
73 8 0.14
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (72 bp):
AAAAAATTGAATGAGATTATTGAAAGAGTTTTCTGACAAAAAAAGCCTTAAATAATCCCAAAAAA
AAATTGA
Found at i:10780613 original size:16 final size:16
Alignment explanation
Indices: 10780592--10780630 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10780582 GTTATTTTTT
*
10780592 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
10780608 AAATATAATTATATAA
1 AAATATAAATATATAA
*
10780624 ATATATA
1 AAATATA
10780631 TAATTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:10782193 original size:11 final size:10
Alignment explanation
Indices: 10782165--10782201 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
10782155 AATGTATTTG
10782165 ATAAT-ATTA
1 ATAATAATTA
10782174 ATAATAATTA
1 ATAATAATTA
10782184 ATATATAATT-
1 ATA-ATAATTA
10782194 ATAATAAT
1 ATAATAAT
10782202 ATAGTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 10 0.38
11 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAATAATTA
Found at i:10782609 original size:12 final size:12
Alignment explanation
Indices: 10782592--10782616 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10782582 TAATAATATA
10782592 ATTAAAAATTAT
1 ATTAAAAATTAT
10782604 ATTAAAAATTAT
1 ATTAAAAATTAT
10782616 A
1 A
10782617 AAAATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAAAAATTAT
Found at i:10796065 original size:30 final size:30
Alignment explanation
Indices: 10796029--10796087 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
10796019 CAAACAATAC
10796029 ATAATTTTATTATGA-TTTCATTTATTGAAG
1 ATAATTTTATTATGACTTT-ATTTATTGAAG
*
10796059 ATAATTTTGTTATGACTTTATTTATTGAA
1 ATAATTTTATTATGACTTTATTTATTGAA
10796088 ATGCTCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.54
Consensus pattern (30 bp):
ATAATTTTATTATGACTTTATTTATTGAAG
Found at i:10803486 original size:15 final size:16
Alignment explanation
Indices: 10803459--10803488 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10803449 AGCTCAAGTG
10803459 CAAATTAAAACTCACT
1 CAAATTAAAACTCACT
10803475 CAAATT-AAACTCAC
1 CAAATTAAAACTCAC
10803489 AAAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (16 bp):
CAAATTAAAACTCACT
Found at i:10804875 original size:56 final size:57
Alignment explanation
Indices: 10804795--10804904 Score: 177
Period size: 56 Copynumber: 1.9 Consensus size: 57
10804785 AATATTTTCT
*
10804795 TTTTTTTTAATTTCTAAATTTTTCACCATTTGAGCCTATCTAGAAATTCTTTTTATG
1 TTTTTTTTAATCTCTAAATTTTTCACCATTTGAGCCTATCTAGAAATTCTTTTTATG
* * *
10804852 TTTTTTTT-ATCTCTAAATTTTTCACTATTTGGGCCTATTTAGAAATTCTTTTT
1 TTTTTTTTAATCTCTAAATTTTTCACCATTTGAGCCTATCTAGAAATTCTTTTT
10804905 TTTTTTGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
56 41 0.84
57 8 0.16
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (57 bp):
TTTTTTTTAATCTCTAAATTTTTCACCATTTGAGCCTATCTAGAAATTCTTTTTATG
Found at i:10805091 original size:111 final size:111
Alignment explanation
Indices: 10804965--10805190 Score: 400
Period size: 111 Copynumber: 2.0 Consensus size: 111
10804955 TTATTCTACC
*
10804965 ATTTGGGACAAATTTAAAGAAATTTTCTCACTTAGAGATTTCTTAGAAATTTACCATTTGAAAAT
1 ATTTGGGACAAATTTAAAGAAATTTTCTCACCTAGAGATTTCTTAGAAATTTACCATTTG-AAAT
10805030 TT-TAAGAATATCATCCTTGGATAATTACCAAATATTTTCAACCCAA
65 TTCTAAGAATATCATCCTTGGATAATTACCAAATATTTTCAACCCAA
10805076 ATTTGGGACAAATTTAAAGAAATTTTCTCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATT
1 ATTTGGGACAAATTTAAAGAAATTTTCTCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATT
* * *
10805141 TCTAAGAATCTCATCCTTGGATAATTATCAAATATTTTCAACCTAA
66 TCTAAGAATATCATCCTTGGATAATTACCAAATATTTTCAACCCAA
10805187 ATTT
1 ATTT
10805191 TATTTTTTTA
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
110 6 0.05
111 104 0.95
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (111 bp):
ATTTGGGACAAATTTAAAGAAATTTTCTCACCTAGAGATTTCTTAGAAATTTACCATTTGAAATT
TCTAAGAATATCATCCTTGGATAATTACCAAATATTTTCAACCCAA
Found at i:10805460 original size:12 final size:12
Alignment explanation
Indices: 10805426--10805474 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
10805416 ACACTCCTAA
*
10805426 AAATAAATAAAC
1 AAATAAAAAAAC
*
10805438 ACATAATAAAAAC
1 AAATAA-AAAAAC
10805451 AAATAAAAAATA-
1 AAATAAAAAA-AC
10805463 AAATAAAAAAAC
1 AAATAAAAAAAC
10805475 CAAAAAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 1 0.03
12 19 0.61
13 11 0.35
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (12 bp):
AAATAAAAAAAC
Found at i:10806373 original size:16 final size:15
Alignment explanation
Indices: 10806352--10806407 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
10806342 ATAATCAGCC
10806352 TAATAAAACCAAAAAA
1 TAATAAAA-CAAAAAA
10806368 TAATAAAAC---AAA
1 TAATAAAACAAAAAA
*
10806380 T-A-AAACCAAAAAA
1 TAATAAAACAAAAAA
10806393 TAATAAAACAAAAAA
1 TAATAAAACAAAAAA
10806408 AAAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
10 4 0.12
11 1 0.03
12 4 0.12
13 4 0.12
14 1 0.03
15 11 0.33
16 8 0.24
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.12
Consensus pattern (15 bp):
TAATAAAACAAAAAA
Found at i:10806381 original size:25 final size:25
Alignment explanation
Indices: 10806353--10806409 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
10806343 TAATCAGCCT
10806353 AATAAAACCAAAAAATAATAAAACA
1 AATAAAACCAAAAAATAATAAAACA
10806378 AATAAAACCAAAAAATAATAAAACA
1 AATAAAACCAAAAAATAATAAAACA
*
10806403 AAAAAAA
1 AATAAAA
10806410 AAAATAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (25 bp):
AATAAAACCAAAAAATAATAAAACA
Found at i:10806389 original size:10 final size:9
Alignment explanation
Indices: 10806369--10806418 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
10806359 ACCAAAAAAT
10806369 AATAAAACA
1 AATAAAACA
*
10806378 AATAAAACC
1 AATAAAACA
*
10806387 AA-AAAA-T
1 AATAAAACA
10806394 AATAAAACA
1 AATAAAACA
* *
10806403 AAAAAAAAA
1 AATAAAACA
10806412 AATAAAA
1 AATAAAA
10806419 GAATGGCTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 2 0.06
8 8 0.24
9 23 0.70
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (9 bp):
AATAAAACA
Found at i:10806408 original size:16 final size:16
Alignment explanation
Indices: 10806378--10806408 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10806368 TAATAAAACA
*
10806378 AATAAAACCAAAAAAT
1 AATAAAACAAAAAAAT
10806394 AATAAAACAAAAAAA
1 AATAAAACAAAAAAA
10806409 AAAAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (16 bp):
AATAAAACAAAAAAAT
Found at i:10806694 original size:41 final size:41
Alignment explanation
Indices: 10806630--10806858 Score: 174
Period size: 41 Copynumber: 5.2 Consensus size: 41
10806620 ATGACTTTCA
* *
10806630 GAAAAATAAA-TGTTCCTCTAAACAGAGACACCACATCTTT
1 GAAAAATAAATTGCTCCTCTAAACAGAGACACCACAACTTT
*
10806670 GAAAAATAAATTGCTCCTCTAAACAAAGGCACCTTTAGAGGCACCATAACTTT
1 GAAAAATAAATTGCTCCTCTAAAC--A-G-------AGA--CACCACAACTTT
* * *
10806723 GAAAAATAAATGGCTCCTTTAAACAGAGGCACCACAACTTTT
1 GAAAAATAAATTGCTCCTCTAAACAGAGACACCACAAC-TTT
* * * **
10806765 GAAAAATAAATTACTCCTTTAAATAGAGGTACCACAACTTT
1 GAAAAATAAATTGCTCCTCTAAACAGAGACACCACAACTTT
* * *
10806806 GAAAAATAAATTACATCC-CTAAATAGAGATACCACAACTTTT
1 GAAAAATAAATTGC-TCCTCTAAACAGAGACACCACAAC-TTT
10806848 GAAAAAATAAA
1 G-AAAAATAAA
10806859 AGGCTTCTCA
Statistics
Matches: 159, Mismatches: 13, Indels: 31
0.78 0.06 0.15
Matches are distributed among these distances:
40 10 0.06
41 55 0.35
42 44 0.28
43 12 0.08
44 1 0.01
50 1 0.01
51 4 0.03
53 32 0.20
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.25
Consensus pattern (41 bp):
GAAAAATAAATTGCTCCTCTAAACAGAGACACCACAACTTT
Found at i:10806782 original size:42 final size:41
Alignment explanation
Indices: 10806705--10806858 Score: 193
Period size: 41 Copynumber: 3.7 Consensus size: 41
10806695 AAGGCACCTT
* **
10806705 TAGAGGCACCATAACTTTGAAAAATAAATGGCTCCTTTAAA
1 TAGAGGCACCACAACTTTGAAAAATAAATTACTCCTTTAAA
*
10806746 CAGAGGCACCACAACTTTTGAAAAATAAATTACTCCTTTAAA
1 TAGAGGCACCACAAC-TTTGAAAAATAAATTACTCCTTTAAA
* *
10806788 TAGAGGTACCACAACTTTGAAAAATAAATTACATCC-CTAAA
1 TAGAGGCACCACAACTTTGAAAAATAAATTAC-TCCTTTAAA
**
10806829 TAGAGATACCACAACTTTTGAAAAAATAAA
1 TAGAGGCACCACAAC-TTTG-AAAAATAAA
10806859 AGGCTTCTCA
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
41 48 0.48
42 44 0.44
43 9 0.09
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (41 bp):
TAGAGGCACCACAACTTTGAAAAATAAATTACTCCTTTAAA
Found at i:10806844 original size:83 final size:84
Alignment explanation
Indices: 10806705--10806858 Score: 213
Period size: 83 Copynumber: 1.8 Consensus size: 84
10806695 AAGGCACCTT
* * * *
10806705 TAGAGGCACCATAACTTTGAAAAATAAATGGCTCCTTTAAACAGAGGCACCACAACTTTTG-AAA
1 TAGAGGCACCACAACTTTGAAAAATAAATGACTCCTCTAAACAGAGACACCACAACTTTTGAAAA
10806769 AATAAATTACTCCTTTAAA
66 AATAAATTACTCCTTTAAA
* * * *
10806788 TAGAGGTACCACAACTTTGAAAAATAAATTACATCC-CTAAATAGAGATACCACAACTTTTGAAA
1 TAGAGGCACCACAACTTTGAAAAATAAATGAC-TCCTCTAAACAGAGACACCACAACTTTTGAAA
10806852 AAATAAA
65 AAATAAA
10806859 AGGCTTCTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 49 0.80
84 12 0.20
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (84 bp):
TAGAGGCACCACAACTTTGAAAAATAAATGACTCCTCTAAACAGAGACACCACAACTTTTGAAAA
AATAAATTACTCCTTTAAA
Found at i:10807241 original size:19 final size:20
Alignment explanation
Indices: 10807197--10807245 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
10807187 GTTTCACACC
10807197 TCAAAGATTCTCATTTAAAAT
1 TCAAA-ATTCTCATTTAAAAT
* *
10807218 TCAAAATTCTCATTT-GAGT
1 TCAAAATTCTCATTTAAAAT
10807237 TCAAAATTC
1 TCAAAATTC
10807246 ACAATCAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 11 0.42
20 10 0.38
21 5 0.19
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (20 bp):
TCAAAATTCTCATTTAAAAT
Done.