Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 79 of 117
Found at i:15990002 original size:54 final size:53
Alignment explanation
Indices: 15989905--15990020 Score: 153
Period size: 53 Copynumber: 2.2 Consensus size: 53
15989895 TTTAAGAGGG
* * *
15989905 GATCGATCCTTTTTCTGGGTTTTCGAACTGAGGAACATTCTGTCTGAGCAATC
1 GATCGATCCTTTTTCTGGGTTTTCAAACTGAGGAACATTCTGTCTAAGCAACC
* *
15989958 GATCGATCTTTTTTTTGGGTTTTCAAACTTG-GGAAACATTCTGTCTAAGCAACC
1 GATCGATCCTTTTTCTGGGTTTTCAAAC-TGAGG-AACATTCTGTCTAAGCAACC
*
15990012 GATAGATCC
1 GATCGATCC
15990021 CTTTAAGAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 27 0.50
54 27 0.50
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (53 bp):
GATCGATCCTTTTTCTGGGTTTTCAAACTGAGGAACATTCTGTCTAAGCAACC
Found at i:15990566 original size:22 final size:23
Alignment explanation
Indices: 15990532--15990636 Score: 81
Period size: 22 Copynumber: 4.3 Consensus size: 23
15990522 ATTATAGTAT
15990532 AATAATATCTAAT-TTATTAGTTAA
1 AATAATAT-TAATATTATTA-TTAA
*
15990556 ATTAAT-TTAATATT-TTATTAA
1 AATAATATTAATATTATTATTAA
*
15990577 AATATTATTAATATTATTATTAA
1 AATAATATTAATATTATTATTAA
*
15990600 TATGAATAATTATATATTCATATTATTACA
1 AAT-AAT-ATTA-ATA-T--TATTATTA-A
15990630 AATAATA
1 AATAATA
15990637 GAATTAATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
21 8 0.12
22 15 0.23
23 12 0.18
24 7 0.11
25 4 0.06
26 3 0.05
27 1 0.02
28 1 0.02
29 11 0.17
30 3 0.05
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.49
Consensus pattern (23 bp):
AATAATATTAATATTATTATTAA
Found at i:15990596 original size:12 final size:12
Alignment explanation
Indices: 15990541--15990602 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
15990531 TAATAATATC
15990541 TAAT-TTATTAGT
1 TAATATTATTA-T
*
15990553 TAA-ATTAAT-T
1 TAATATTATTAT
15990563 TAATATT-TTAT
1 TAATATTATTAT
*
15990574 TAA-AATATTAT
1 TAATATTATTAT
15990585 TAATATTATTAT
1 TAATATTATTAT
15990597 TAATAT
1 TAATAT
15990603 GAATAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 7 0.17
11 14 0.34
12 20 0.49
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TAATATTATTAT
Found at i:15990773 original size:10 final size:11
Alignment explanation
Indices: 15990758--15990789 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
15990748 CTAATATATC
15990758 ATAATTTAATT
1 ATAATTTAATT
15990769 A-AATTT-ATT
1 ATAATTTAATT
15990778 ATAATTTAATT
1 ATAATTTAATT
15990789 A
1 A
15990790 CTTATACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.21
10 10 0.53
11 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATAATTTAATT
Found at i:15990935 original size:19 final size:20
Alignment explanation
Indices: 15990913--15990957 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
15990903 ATCTAATAGC
15990913 TTAATTAT-ATTATAA-ATAA
1 TTAATTATAATTA-AATATAA
15990932 TTAATTATAATTAAATATAA
1 TTAATTATAATTAAATATAA
15990952 -TAATTA
1 TTAATTA
15990958 ATAAATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAATTATAATTAAATATAA
Found at i:15991317 original size:22 final size:21
Alignment explanation
Indices: 15991276--15991356 Score: 62
Period size: 22 Copynumber: 4.0 Consensus size: 21
15991266 AATAAATTAG
*
15991276 TATT-ATTAATTAATTATAATA
1 TATTAATTAATTTA-TATAATA
*
15991297 TATTAATTAATTTATACTAATT
1 TATTAATTAATTTATA-TAATA
* *
15991319 TAATAACT-A-TTATATAATA
1 TATTAATTAATTTATATAATA
* *
15991338 TA-TAATTAAATTATTTAAT
1 TATTAATTAATTTATATAAT
15991357 TAATTTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.08
19 7 0.14
20 13 0.27
21 7 0.14
22 18 0.37
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTAATTAATTTATATAATA
Found at i:15991393 original size:53 final size:54
Alignment explanation
Indices: 15991320--15991423 Score: 135
Period size: 53 Copynumber: 1.9 Consensus size: 54
15991310 ATACTAATTT
15991320 AATAACTATTATATAATATATAATTA-AATTATTTA-ATTAATTTAAATAATTATTAA
1 AATAACTATTATAT-ATATATAA-TAGAA-TATTTATATTAA-TTAAATAATTATTAA
15991376 AATAACTATTA-AT-TATATAATAGTAATATTTATATTAATTAAATAATT
1 AATAACTATTATATATATATAATAG-AATATTTATATTAATTAAATAATT
15991424 TAATAGTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
52 2 0.04
53 23 0.51
54 7 0.16
55 2 0.04
56 11 0.24
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (54 bp):
AATAACTATTATATATATATAATAGAATATTTATATTAATTAAATAATTATTAA
Found at i:15991603 original size:27 final size:25
Alignment explanation
Indices: 15991530--15991603 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 25
15991520 ATTATCAATT
* *
15991530 TAATATAAAATTATATTAATTAATT
1 TAATATCAAATTATATTAATTAATC
* *
15991555 TAATATCAAGTTATTTAATAATTAATAC
1 TAATATCAAATTA--TATTAATTAAT-C
*
15991583 TAATACTTAAATTATATTAAT
1 TAATA-TCAAATTATATTAAT
15991604 ATTAATATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
25 11 0.29
27 16 0.42
28 5 0.13
29 6 0.16
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (25 bp):
TAATATCAAATTATATTAATTAATC
Found at i:15991605 original size:6 final size:6
Alignment explanation
Indices: 15991569--15991641 Score: 50
Period size: 6 Copynumber: 12.5 Consensus size: 6
15991559 ATCAAGTTAT
* *
15991569 TTAATAA TTAATA CTAATA CTTAA-A TT-ATA TTAATA TTAATA -TAATT
1 TTAAT-A TTAATA TTAATA -TTAATA TTAATA TTAATA TTAATA TTAATA
15991616 TTAATAA TT--TA -TAACTA TTAATA TTA
1 TTAAT-A TTAATA TTAA-TA TTAATA TTA
15991642 TAATTATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 19
0.70 0.05 0.25
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 10 0.19
6 27 0.51
7 13 0.25
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (6 bp):
TTAATA
Found at i:15991642 original size:45 final size:50
Alignment explanation
Indices: 15991542--15991652 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 50
15991532 ATATAAAATT
15991542 ATATTA-ATTAAT-TTAATATCAAGTTATTTAATAATTAATACTAATACTTA
1 ATATTATATTAATATTAATATCAAG-TATTTAATAATT-ATACTAATACTTA
15991592 A-ATTATATTAATATTAATAT-AA-T-TTTAATAATT-TA-TAACTA-TTA
1 ATATTATATTAATATTAATATCAAGTATTTAATAATTATACTAA-TACTTA
15991636 ATATTATAATTATATAT
1 ATATTAT-ATTA-ATAT
15991653 ATACATATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
44 7 0.13
45 9 0.16
46 4 0.07
47 14 0.25
48 1 0.02
49 4 0.07
50 9 0.16
51 7 0.13
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.49
Consensus pattern (50 bp):
ATATTATATTAATATTAATATCAAGTATTTAATAATTATACTAATACTTA
Found at i:15991778 original size:36 final size:35
Alignment explanation
Indices: 15991738--15991845 Score: 100
Period size: 33 Copynumber: 3.2 Consensus size: 35
15991728 TTTACTTATA
15991738 AATTTATAATTATAATATTAATAATTTGTTAATAAT
1 AATTTAT-ATTATAATATTAATAATTTGTTAATAAT
* * *
15991774 AATTTATA--ATACTATTAATAATATGTT-ATAAA
1 AATTTATATTATAATATTAATAATTTGTTAATAAT
*** *
15991806 AAAGAATATTATAATA-TAATAATTATATTAA-AAT
1 AATTTATATTATAATATTAATAATT-TGTTAATAAT
15991840 AATTTA
1 AATTTA
15991846 AAACTTATAA
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
32 9 0.16
33 24 0.44
34 13 0.24
35 2 0.04
36 7 0.13
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (35 bp):
AATTTATATTATAATATTAATAATTTGTTAATAAT
Found at i:15991979 original size:17 final size:17
Alignment explanation
Indices: 15991919--15991979 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
15991909 ATAGTATTAA
*
15991919 ATTACATTATAATTTATTT
1 ATTACATTATAA-ATA-TT
*
15991938 ATT-CAATATAAATATT
1 ATTACATTATAAATATT
* *
15991954 AATATATTATAAATATT
1 ATTACATTATAAATATT
15991971 ATTACATTA
1 ATTACATTA
15991980 AATAAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 4 0.12
17 20 0.59
18 7 0.21
19 3 0.09
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTACATTATAAATATT
Found at i:15992670 original size:16 final size:16
Alignment explanation
Indices: 15992618--15992682 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 16
15992608 ATTTATTATT
15992618 ATTATTATATAATATTA
1 ATTATTATATAA-ATTA
15992635 A-TA--AT-TAAA-TA
1 ATTATTATATAAATTA
* *
15992646 ATAATTATATAAATTG
1 ATTATTATATAAATTA
15992662 ATTATTATATAAATTA
1 ATTATTATATAAATTA
15992678 ATTAT
1 ATTAT
15992683 ATTATTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
11 3 0.08
12 2 0.05
13 3 0.08
14 4 0.10
15 4 0.10
16 22 0.56
17 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATTATTATATAAATTA
Found at i:15993446 original size:19 final size:19
Alignment explanation
Indices: 15993422--15993486 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
15993412 TTGATATATA
15993422 ATACTTTATTATAATTAAT
1 ATACTTTATTATAATTAAT
15993441 ATACTTTATTAAAATAATTAAT
1 ATACTTTATT---ATAATTAAT
* *
15993463 ATTAATTGTATTATAATTATT
1 A-TACTT-TATTATAATTAAT
15993484 ATA
1 ATA
15993487 TAATTAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 10 0.26
20 2 0.05
21 9 0.23
22 10 0.26
23 4 0.10
24 4 0.10
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.51
Consensus pattern (19 bp):
ATACTTTATTATAATTAAT
Found at i:15993488 original size:11 final size:10
Alignment explanation
Indices: 15993454--15993503 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 10
15993444 CTTTATTAAA
15993454 ATAATTA-AT
1 ATAATTATAT
*
15993463 ATTAATTGTATT
1 A-TAATTATA-T
15993475 ATAATTATTAT
1 ATAATTA-TAT
15993486 ATAATTA-AT
1 ATAATTATAT
15993495 ATAATTATA
1 ATAATTATA
15993504 ATAGTATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
9 10 0.29
10 6 0.18
11 14 0.41
12 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (10 bp):
ATAATTATAT
Found at i:15993499 original size:20 final size:22
Alignment explanation
Indices: 15993474--15993527 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 22
15993464 TTAATTGTAT
*
15993474 TATAATTATTATA-TA-ATTAA
1 TATAATTATTATAGTATAGTAA
*
15993494 TATAATTATAATAGTATAGTAA
1 TATAATTATTATAGTATAGTAA
15993516 TA-AATTATTATA
1 TATAATTATTATA
15993528 CTATTATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.41
21 11 0.38
22 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TATAATTATTATAGTATAGTAA
Found at i:15993503 original size:15 final size:15
Alignment explanation
Indices: 15993429--15993505 Score: 53
Period size: 15 Copynumber: 5.5 Consensus size: 15
15993419 ATAATACTTT
15993429 ATTATAATTAATATA
1 ATTATAATTAATATA
* *
15993444 CTT-T-ATTAAAATA
1 ATTATAATTAATATA
*
15993457 ATTA-ATATTAAT-TGT
1 ATTATA-ATTAATAT-A
15993472 ATTATAATT-AT-T-
1 ATTATAATTAATATA
15993484 A-TATAATTAATATA
1 ATTATAATTAATATA
15993498 ATTATAAT
1 ATTATAAT
15993506 AGTATAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
11 7 0.15
12 3 0.06
13 11 0.23
14 6 0.12
15 20 0.42
16 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (15 bp):
ATTATAATTAATATA
Found at i:15993981 original size:181 final size:181
Alignment explanation
Indices: 15993673--15994399 Score: 539
Period size: 180 Copynumber: 4.0 Consensus size: 181
15993663 GTAAACAGAT
* * * *
15993673 AATCTCCTACTTATTAATTTTTGAAATATTAATAAACTATTATTATTTTATTCT-AATTAGGCTT
1 AATCTCCTACTTATTAATTTTTGAAATATTAATAAAATAATATTATTTTATTTTGAA-TAAGCTT
* * *
15993737 GTATG--ATGAAAAACAATTGTTTTATGACAAAACAAAA-GTT-CAAAATGATTCGAAATAGATA
65 GTATGAAATG--AAACAATTGTTTTATGATAAAACAAAAGGTTATAAAAT-ATTCAAAATAGATA
* * *
15993798 ATTGTTCAAATGGCCATAACTATTTGAAC-TGATTCGATAAA-ATTATTTATGTTTTA
127 ATTGTTCAAATAGCCATAACTATTTAAACTTG-TTCGATAAATA-GATTTAT-TTTTA
* * * * * *
15993854 AATCTCCAACTTCTTAATTTTTGAAATATTAATAAAGTAAAATTATTTTATTTTGGATAAGCTTT
1 AATCTCCTACTTATTAATTTTTGAAATATTAATAAAATAATATTATTTTATTTTGAATAAGCTTG
*
15993919 TATGAAATGAAACAATTGTTTTATGATAAAACAAAAGGTTATAACAAT-TTTAAAAT-GATAATT
66 TATGAAATGAAACAATTGTTTTATGATAAAACAAAAGGTTATAA-AATATTCAAAATAGATAATT
* * * * *
15993982 GTTTAAATAGTCATAACTATTTAAACTTGTTTGGTAAATAGATTTATTTTTT
130 GTTCAAATAGCCATAACTATTTAAACTTGTTCGATAAATAGATTTATTTTTA
* * *
15994034 AAT-TCCTTGCTTATTAATTTTTTG-AATGTTAATAAAATAATATTATTTTATTTTGAATAAGCA
1 AATCTCC-TACTTATTAA-TTTTTGAAATATTAATAAAATAATATTATTTTATTTTGAATAAGCT
* * * * **
15994097 TGTATGAACT-AATCAATTATTTTATGACT-AAACAAAAGGTCAT--AATGATTTGAAATAGATA
64 TGTATGAAATGAAACAATTGTTTTATGA-TAAAACAAAAGGTTATAAAAT-ATTCAAAATAGATA
* * * * * * *
15994158 ATTATT-ATAATAGTCTTAACTATTTCAA-TTGGTTCAACAAATACATTTATTTTTTA
127 ATTGTTCA-AATAGCCATAACTATTTAAACTT-GTTCGATAAATAGATTTA-TTTTTA
* * * *** ** * * ** *
15994214 AATCTCTTACTTACTAATTTTT-AGAATATTATTAGTTTAGCAATATTTTACTCCGAATAAGTTT
1 AATCTCCTACTTATTAATTTTTGA-AATATTAATAAAATAATATTATTTTATTTTGAATAAGCTT
* * * * *
15994278 GTATGGACA-GAAACAATTGTTTTATGACAAAAC-AAA-G--ATAATATCGATTTAAGATAGATA
65 GTAT-GAAATGAAACAATTGTTTTATGATAAAACAAAAGGTTATAAAAT--ATTCAAAATAGATA
* ** * * *
15994338 ATTTTTCAAATATTCATAACTATTTGAA-TTGGTCCGATAAATAGATATAGTTTTTA
127 ATTGTTCAAATAGCCATAACTATTTAAACTT-GTTCGATAAATAGATTTA-TTTTTA
15994394 AATCTC
1 AATCTC
15994400 TTATTAATTT
Statistics
Matches: 441, Mismatches: 78, Indels: 55
0.77 0.14 0.10
Matches are distributed among these distances:
176 3 0.01
177 2 0.00
178 10 0.02
179 79 0.18
180 170 0.39
181 156 0.35
182 13 0.03
183 5 0.01
184 3 0.01
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (181 bp):
AATCTCCTACTTATTAATTTTTGAAATATTAATAAAATAATATTATTTTATTTTGAATAAGCTTG
TATGAAATGAAACAATTGTTTTATGATAAAACAAAAGGTTATAAAATATTCAAAATAGATAATTG
TTCAAATAGCCATAACTATTTAAACTTGTTCGATAAATAGATTTATTTTTA
Found at i:15994263 original size:360 final size:359
Alignment explanation
Indices: 15993682--15994362 Score: 767
Period size: 360 Copynumber: 1.9 Consensus size: 359
15993672 TAATCTCCTA
* * * *
15993682 CTTATTAATTTTTGAAATATTAATAAACTATTATTATTTTATTCTAATTAGGCTTGTATGATGAA
1 CTTATTAATTTTTGAAATATTAATAAAATAATATTATTTTATTCTAATTAAGCATGTATGA-GAA
* * * *
15993747 AAACAATTGTTTTATGACAAAACAAAAGTTCAAAATGATTCGAAATAGATAATTGTTCAAATGGC
65 AAACAATTATTTTATGACAAAACAAAAGGTCAAAATGATTCGAAATAGATAATTATTCAAATAGC
* *
15993812 CATAACTATTTGAACTGATTCGATAAAATTATTTATGTTTTAAATCTCCAACTTCTTAATTTTTG
130 CATAACTATTTCAACTGATTCGATAAAATCATTTATGTTTTAAATCTCCAACTTCTTAATTTTTG
* ** *
15993877 AAATATTAATAAAGTAAAATTATTTTATTTTGGATAAGCTTT-TAT-GAAATGAAACAATTGTTT
195 AAATATTAATAAAGTAAAATTATTTTACTCCGAATAAG-TTTGTATGGAAA-GAAACAATTGTTT
* * *
15993940 TATGATAAAACAAAAGGTTATAACAATTTTAAAAT-GATAATTGTTT-AAATAGTCATAACTATT
258 TATGACAAAAC-AAAGATAATAACAA-TTTAAAATAGATAATT-TTTCAAATAGTCATAACTATT
15994003 TAAACTTGTTTGGTAAATAGATTTATTTTTTAATTCCTTG
320 TAAACTTGTTTGGTAAATAGATTTATTTTTTAATTCCTTG
* *
15994043 CTTATTAATTTTTTG-AATGTTAATAAAATAATATTATTTTATTTTGAA-TAAGCATGTATGA-A
1 CTTATTAA-TTTTTGAAATATTAATAAAATAATATTATTTTATTCT-AATTAAGCATGTATGAGA
* * * * *
15994105 CTAATCAATTATTTTATGACTAAACAAAAGGTCATAATGATTTGAAATAGATAATTATT-ATAAT
64 -AAAACAATTATTTTATGACAAAACAAAAGGTCAAAATGATTCGAAATAGATAATTATTCA-AAT
* * * * * **
15994169 AGTCTTAACTATTTCAATTGGTTC-A-ACAAATACATTTATTTTTTAAATCTCTTACTTAC-TAA
127 AGCCATAACTATTTCAACTGATTCGATA-AAAT-CATTTATGTTTTAAATCTCCAACTT-CTTAA
* *** * *
15994231 TTTTT-AGAATATTATTAGTTTAGCAA-TATTTTACTCCGAATAAGTTTGTATGGACAGAAACAA
189 TTTTTGA-AATATTAATAAAGTA-AAATTATTTTACTCCGAATAAGTTTGTATGGAAAGAAACAA
* * * *
15994294 TTGTTTTATGACAAAACAAAGATAATATCGATTTAAGATAGATAATTTTTCAAATATTCATAACT
252 TTGTTTTATGACAAAACAAAGATAATAACAATTTAAAATAGATAATTTTTCAAATAGTCATAACT
15994359 ATTT
317 ATTT
15994363 GAATTGGTCC
Statistics
Matches: 266, Mismatches: 41, Indels: 28
0.79 0.12 0.08
Matches are distributed among these distances:
358 11 0.04
359 45 0.17
360 151 0.57
361 51 0.19
362 8 0.03
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (359 bp):
CTTATTAATTTTTGAAATATTAATAAAATAATATTATTTTATTCTAATTAAGCATGTATGAGAAA
AACAATTATTTTATGACAAAACAAAAGGTCAAAATGATTCGAAATAGATAATTATTCAAATAGCC
ATAACTATTTCAACTGATTCGATAAAATCATTTATGTTTTAAATCTCCAACTTCTTAATTTTTGA
AATATTAATAAAGTAAAATTATTTTACTCCGAATAAGTTTGTATGGAAAGAAACAATTGTTTTAT
GACAAAACAAAGATAATAACAATTTAAAATAGATAATTTTTCAAATAGTCATAACTATTTAAACT
TGTTTGGTAAATAGATTTATTTTTTAATTCCTTG
Found at i:15994848 original size:16 final size:15
Alignment explanation
Indices: 15994812--15994876 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 15
15994802 AAAATTATTT
15994812 TAATATTTAA-AATA
1 TAATATTTAATAATA
*
15994826 TTAAATATGTTATTAATA
1 -T-AATAT-TTAATAATA
15994844 TAATATTTAATAATA
1 TAATATTTAATAATA
*
15994859 CAAATATTTAATAATA
1 -TAATATTTAATAATA
15994875 TA
1 TA
15994877 TTAAATTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 10 0.24
16 24 0.57
17 4 0.10
18 4 0.10
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (15 bp):
TAATATTTAATAATA
Found at i:15994850 original size:32 final size:31
Alignment explanation
Indices: 15994812--15994876 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
15994802 AAAATTATTT
* *
15994812 TAATATTTAA-AATATTAAATATGTTATTAATA
1 TAATATTTAATAATA-CAAATAT-TTAATAATA
15994844 TAATATTTAATAATACAAATATTTAATAATA
1 TAATATTTAATAATACAAATATTTAATAATA
15994875 TA
1 TA
15994877 TTAAATTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 10 0.33
32 16 0.53
33 4 0.13
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
TAATATTTAATAATACAAATATTTAATAATA
Found at i:15996452 original size:23 final size:21
Alignment explanation
Indices: 15996416--15996467 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
15996406 AATTATATCA
*
15996416 ATAATTAATATTATT-TAATACT
1 ATAA-TAATATGATTATAATA-T
15996438 ATAA-AATATGATTATAATAT
1 ATAATAATATGATTATAATAT
15996458 ATAATAATAT
1 ATAATAATAT
15996468 AACATTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 13 0.48
21 10 0.37
22 4 0.15
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAATAATATGATTATAATAT
Found at i:15996565 original size:14 final size:15
Alignment explanation
Indices: 15996542--15996586 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
15996532 ATTAATTTAC
15996542 AATT-ATAATATTAT
1 AATTCATAATATTAT
15996556 AA-TCATAATATTAAT
1 AATTCATAATATT-AT
*
15996571 AATTCA-AATATAAT
1 AATTCATAATATTAT
15996585 AA
1 AA
15996587 AATGAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 1 0.04
14 14 0.52
15 9 0.33
16 3 0.11
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTCATAATATTAT
Found at i:15996732 original size:11 final size:11
Alignment explanation
Indices: 15996716--15996759 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
15996706 AAACAAAAAG
15996716 TATAATTAATA
1 TATAATTAATA
15996727 TATAA-TATATA
1 TATAATTA-ATA
*
15996738 TATAAATTATTA
1 TAT-AATTAATA
15996750 TATAATTAAT
1 TATAATTAAT
15996760 TAACTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 2 0.07
11 17 0.61
12 7 0.25
13 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATAATTAATA
Found at i:15996769 original size:20 final size:20
Alignment explanation
Indices: 15996725--15996806 Score: 57
Period size: 20 Copynumber: 4.2 Consensus size: 20
15996715 GTATAATTAA
*
15996725 TATATAATATATATATAAATTAT
1 TATATAAT-TATAT-T-ACTTAT
15996748 TATATAATTA-ATTAACTTAT
1 TATATAATTATATT-ACTTAT
* *
15996768 TAAAT-ATTATATTTC-TAT
1 TATATAATTATATTACTTAT
*
15996786 T-TATAATTA-AATACTTAT
1 TATATAATTATATTACTTAT
15996804 TAT
1 TAT
15996807 TATGTACTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
17 5 0.10
18 12 0.24
19 6 0.12
20 14 0.29
21 2 0.04
22 2 0.04
23 8 0.16
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATAATTATATTACTTAT
Found at i:15997142 original size:11 final size:11
Alignment explanation
Indices: 15997128--15997193 Score: 57
Period size: 11 Copynumber: 5.8 Consensus size: 11
15997118 AGGTAATTAA
15997128 TATTATAATAT
1 TATTATAATAT
15997139 TATTAATAACTA-
1 TATT-ATAA-TAT
15997151 TATTAT-ATAT
1 TATTATAATAT
*
15997161 AATTATATATAAT
1 TATTATA-AT-AT
15997174 TATTAT-ATAAT
1 TATTATAAT-AT
15997185 TATTATAAT
1 TATTATAAT
15997194 TGTTAATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
9 2 0.04
10 6 0.13
11 17 0.37
12 12 0.26
13 9 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTATAATAT
Found at i:15997159 original size:25 final size:24
Alignment explanation
Indices: 15997121--15997190 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 24
15997111 TTAGAATAGG
*
15997121 TAATTAATATTATAATATTATTA-A
1 TAATTATTA-TATAATATTATTATA
15997145 TAACTATATTATAT-ATAATTA-TATA
1 TAA-T-TATTATATAAT-ATTATTATA
15997170 TAATTATTATATAATTATTAT
1 TAATTATTATATAA-TATTAT
15997191 AATTGTTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
23 8 0.21
24 13 0.34
25 13 0.34
26 4 0.11
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATTATTATATAATATTATTATA
Found at i:15997167 original size:10 final size:10
Alignment explanation
Indices: 15997152--15997194 Score: 70
Period size: 10 Copynumber: 4.3 Consensus size: 10
15997142 TAATAACTAT
15997152 ATTATATATA
1 ATTATATATA
15997162 ATTATATATA
1 ATTATATATA
15997172 ATTATTATATA
1 ATTA-TATATA
15997183 ATTAT-TATA
1 ATTATATATA
15997192 ATT
1 ATT
15997195 GTTAATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 7 0.22
10 15 0.47
11 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTATATATA
Found at i:15997415 original size:11 final size:11
Alignment explanation
Indices: 15997401--15997451 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
15997391 ATCAATTTTG
15997401 AATTATATTTA
1 AATTATATTTA
*
15997412 AATTATAATTA
1 AATTATATTTA
*
15997423 ATTTATATTTA
1 AATTATATTTA
*
15997434 TATTTATATTTA
1 -AATTATATTTA
15997446 AATTAT
1 AATTAT
15997452 TAATAGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 24 0.69
12 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTATATTTA
Found at i:15997432 original size:6 final size:6
Alignment explanation
Indices: 15997403--15997445 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
15997393 CAATTTTGAA
* *
15997403 TTATAT TTA-AA TTATAA TTA-AT TTATAT TTATAT TTATAT TTA
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTA
15997446 AATTATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 8 0.24
6 25 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
TTATAT
Found at i:15997724 original size:9 final size:9
Alignment explanation
Indices: 15997710--15997805 Score: 56
Period size: 9 Copynumber: 10.3 Consensus size: 9
15997700 TTATTAAACC
15997710 ATTATAATT
1 ATTATAATT
15997719 ATTATACTATAT
1 ATTATA--AT-T
*
15997731 ATTATATTT
1 ATTATAATT
*
15997740 ATTATAAAT
1 ATTATAATT
15997749 -TTAT-ATAT
1 ATTATAAT-T
*
15997757 ATTATATTT
1 ATTATAATT
15997766 ATTATAATTT
1 ATTATAA-TT
**
15997776 AATTATAAAA
1 -ATTATAATT
15997786 ATTAT-ATT
1 ATTATAATT
15997794 -TTATAATCT
1 ATTATAAT-T
15997803 ATT
1 ATT
15997806 TTTGGATAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
7 5 0.08
8 8 0.12
9 31 0.47
10 6 0.09
11 9 0.14
12 7 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTATAATT
Found at i:15997743 original size:24 final size:24
Alignment explanation
Indices: 15997716--15997771 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
15997706 AACCATTATA
15997716 ATTAT-TATACTATATATTATATTT
1 ATTATATATA-TATATATTATATTT
*
15997740 ATTATAAATTTATATATATTATATTT
1 ATTAT--ATATATATATATTATATTT
15997766 ATTATA
1 ATTATA
15997772 ATTTAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 6 0.21
26 19 0.68
27 3 0.11
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTATATATATATATATTATATTT
Found at i:15997762 original size:26 final size:25
Alignment explanation
Indices: 15997726--15997776 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 25
15997716 ATTATTATAC
15997726 TATATATTATATTTATTATAAATTTA
1 TATATATTATATTTATTAT-AATTTA
15997752 TATATATTATATTTATTATAATTTA
1 TATATATTATATTTATTATAATTTA
15997777 ATTATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TATATATTATATTTATTATAATTTA
Found at i:15997789 original size:29 final size:26
Alignment explanation
Indices: 15997726--15997794 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 26
15997716 ATTATTATAC
*
15997726 TATATATTATATTTATTATAAATTTA
1 TATAAATTATATTTATTATAAATTTA
*
15997752 TATATATTATATTTATTAT-AATTTAA
1 TATAAATTATATTTATTATAAATTT-A
15997778 TTATAAAAATTATATTT
1 -TAT--AAATTATATTT
15997795 TATAATCTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
25 5 0.13
26 20 0.53
27 3 0.08
29 10 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATAAATTATATTTATTATAAATTTA
Found at i:15997936 original size:24 final size:22
Alignment explanation
Indices: 15997899--15997950 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 22
15997889 TAGATACATT
*
15997899 TATTAATAATTTATAATTATTAAA
1 TATTAATAAATTATAATTA-T-AA
*
15997923 TATTATTAAATTATAATTATAA
1 TATTAATAAATTATAATTATAA
15997945 TATTAA
1 TATTAA
15997951 ATTGATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.28
23 1 0.04
24 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTAATAAATTATAATTATAA
Found at i:15997950 original size:19 final size:21
Alignment explanation
Indices: 15997926--15997965 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
15997916 TATTAAATAT
15997926 TATTAAATT-AT-AATTATAA
1 TATTAAATTGATAAATTATAA
15997945 TATTAAATTGATAAATTATAA
1 TATTAAATTGATAAATTATAA
15997966 AAATATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TATTAAATTGATAAATTATAA
Found at i:15997975 original size:27 final size:29
Alignment explanation
Indices: 15997914--15997975 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
15997904 ATAATTTATA
* **
15997914 ATTATTAAATATTATTAAATTATAATTAT
1 ATTATTAAATATGATTAAATTATAAAAAT
*
15997943 AATATTAAAT-TGA-TAAATTATAAAAAT
1 ATTATTAAATATGATTAAATTATAAAAAT
15997970 ATTATT
1 ATTATT
15997976 TCTCTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 17 0.61
28 2 0.07
29 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
ATTATTAAATATGATTAAATTATAAAAAT
Found at i:15998016 original size:11 final size:10
Alignment explanation
Indices: 15997999--15998129 Score: 53
Period size: 8 Copynumber: 13.2 Consensus size: 10
15997989 AATAACCTCT
*
15997999 TAAATTATAA
1 TAAATTATTA
* *
15998009 TATTATTAATA
1 TA-AATTATTA
15998020 TAAATTATT-
1 TAAATTATTA
15998029 T-AATTATTA
1 TAAATTATTA
*
15998038 TAACTATATTAA
1 TAAAT-TATT-A
*
15998050 TAAATTATTT
1 TAAATTATTA
**
15998060 TAGTTTATGTA
1 TAAATTAT-TA
15998071 TTTAAATTATTA
1 --TAAATTATTA
*
15998083 T-AATT-TAA
1 TAAATTATTA
*
15998091 TAATTTATTA
1 TAAATTATTA
15998101 TTAAATTA-TA
1 -TAAATTATTA
15998111 -AAATTA-TA
1 TAAATTATTA
*
15998119 -AAATTAGTA
1 TAAATTATTA
15998128 TA
1 TA
15998130 TTAATTGATT
Statistics
Matches: 91, Mismatches: 17, Indels: 26
0.68 0.13 0.19
Matches are distributed among these distances:
8 24 0.26
9 11 0.12
10 21 0.23
11 22 0.24
12 7 0.08
13 6 0.07
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (10 bp):
TAAATTATTA
Found at i:15998089 original size:23 final size:22
Alignment explanation
Indices: 15998023--15998089 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
15998013 ATTAATATAA
*
15998023 ATTATTT-AATTATTATAACTAT
1 ATTATTTAAATTATTATAA-TTT
* * *
15998045 ATTA-ATAAATTATTTTAGTTT
1 ATTATTTAAATTATTATAATTT
15998066 ATGTATTTAAATTATTATAATTT
1 AT-TATTTAAATTATTATAATTT
15998089 A
1 A
15998090 ATAATTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
21 5 0.14
22 15 0.43
23 15 0.43
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (22 bp):
ATTATTTAAATTATTATAATTT
Found at i:16004993 original size:16 final size:16
Alignment explanation
Indices: 16004974--16005005 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16004964 ATTATAATTA
*
16004974 TAATAGTTAATTATTT
1 TAATAATTAATTATTT
16004990 TAATAATTAATTATTT
1 TAATAATTAATTATTT
16005006 ATAAACAATA
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:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TAATAATTAATTATTT
Found at i:16005417 original size:16 final size:16
Alignment explanation
Indices: 16005379--16005419 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
16005369 TTTATAATAA
16005379 AATAATTA-AAAATTT
1 AATAATTATAAAATTT
*
16005394 AATAAATTATATAATTT
1 AAT-AATTATAAAATTT
16005411 AATAATTAT
1 AATAATTAT
16005420 TACTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 11 0.48
17 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATTATAAAATTT
Found at i:16005473 original size:20 final size:20
Alignment explanation
Indices: 16005450--16005491 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16005440 AGTTTATTTT
*
16005450 AATTATCAAT-ATATTATATA
1 AATTATAAATAATATTA-ATA
16005470 AATTATAAATAATATTAATA
1 AATTATAAATAATATTAATA
16005490 AA
1 AA
16005492 CTAGCATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AATTATAAATAATATTAATA
Found at i:16005765 original size:16 final size:17
Alignment explanation
Indices: 16005744--16005776 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16005734 TAACGATTTG
16005744 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
16005760 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
16005777 TGAAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:16005784 original size:19 final size:17
Alignment explanation
Indices: 16005739--16005784 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
16005729 GATAATAACG
16005739 ATTTGAAATAGATAATT
1 ATTTGAAATAGATAATT
*
16005756 A-TTCAAATAGCCATAATT
1 ATTTGAAATAG--ATAATT
16005774 ATTTGAAATAG
1 ATTTGAAATAG
16005785 TTTAGCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 8 0.33
17 1 0.04
18 7 0.29
19 8 0.33
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (17 bp):
ATTTGAAATAGATAATT
Found at i:16006242 original size:18 final size:16
Alignment explanation
Indices: 16006201--16006246 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 16
16006191 TATATTAAAA
*
16006201 ATTATATATATAGTTTT
1 ATTATAT-TATAGTTTG
16006218 ATTATATTATAGTTTG
1 ATTATATTATAGTTTG
16006234 ATTTAATATTATA
1 A-TT-ATATTATA
16006247 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 9 0.35
17 9 0.35
18 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (16 bp):
ATTATATTATAGTTTG
Found at i:16006341 original size:14 final size:13
Alignment explanation
Indices: 16006260--16006344 Score: 50
Period size: 13 Copynumber: 6.2 Consensus size: 13
16006250 TTTTTTTTAT
*
16006260 TTAATTATTACTAA
1 TTAATTA-TAATAA
*
16006274 TT-ATTATTGATAA
1 TTAATTA-TAATAA
16006287 -TAATTTATAATATA
1 TTAA-TTATAATA-A
*
16006301 TTAA-TACTACCTAA
1 TTAATTA-TA-ATAA
16006315 TTAATTATAATAA
1 TTAATTATAATAA
*
16006328 TTAGTTACTAATAA
1 TTAATTA-TAATAA
16006342 TTA
1 TTA
16006345 TTAAATTATT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
12 1 0.02
13 25 0.44
14 24 0.42
15 7 0.12
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (13 bp):
TTAATTATAATAA
Found at i:16006608 original size:13 final size:13
Alignment explanation
Indices: 16006590--16006624 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
16006580 TAATAAGTTA
*
16006590 ATAATTTATATAT
1 ATAATTAATATAT
16006603 ATAATTAATATAT
1 ATAATTAATATAT
16006616 ATGAATTAA
1 AT-AATTAA
16006625 AACAATTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
ATAATTAATATAT
Found at i:16006610 original size:20 final size:18
Alignment explanation
Indices: 16006573--16006612 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
16006563 TAAATAATCT
*
16006573 TAATTTATAATAAGTTAA
1 TAATTTATAATAAATTAA
16006591 TAATTTATATATATAATTAA
1 TAATTTATA-ATA-AATTAA
16006611 TA
1 TA
16006613 TATATGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATTTATAATAAATTAA
Found at i:16006766 original size:25 final size:24
Alignment explanation
Indices: 16006716--16006802 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 24
16006706 CTTATTTACT
* * *
16006716 ATAA-TATATATTATCT-ATATAT
1 ATAATTATATATTATATCAAATAA
16006738 ATAATTATATATTATATACAAATAA
1 ATAATTATATATTATAT-CAAATAA
*
16006763 ATAATTATTATATT-TATTAAATAA
1 ATAATTA-TATATTATATCAAATAA
*
16006787 TTATATTATAATATTA
1 ATA-ATTAT-ATATTA
16006803 ATTATAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
22 4 0.08
23 11 0.21
24 9 0.17
25 23 0.43
26 6 0.11
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
ATAATTATATATTATATCAAATAA
Found at i:16006831 original size:27 final size:29
Alignment explanation
Indices: 16006771--16006831 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
16006761 AAATAATTAT
* *
16006771 TATATTTATTAAATAATTATATTATAATA
1 TATAATTATTAAATAATTATATTATAAAA
*
16006800 T-TAATTA-TAAATAATT-TTTTATAAAA
1 TATAATTATTAAATAATTATATTATAAAA
16006826 TATAAT
1 TATAAT
16006832 GTTCATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.32
27 13 0.46
28 5 0.18
29 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TATAATTATTAAATAATTATATTATAAAA
Found at i:16007028 original size:29 final size:30
Alignment explanation
Indices: 16006996--16007061 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
16006986 AATTTGTAAC
16006996 ATATATTATAAATTATT-A-AATATAATATA
1 ATATATTATAAATTATTAATAATATAAT-TA
* *
16007025 ATATATTATGATTTATTAATAATATAATTA
1 ATATATTATAAATTATTAATAATATAATTA
*
16007055 AAATATT
1 ATATATT
16007062 TAATTAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 15 0.47
30 9 0.28
31 8 0.25
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
ATATATTATAAATTATTAATAATATAATTA
Found at i:16007089 original size:16 final size:17
Alignment explanation
Indices: 16007047--16007093 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
16007037 TTATTAATAA
16007047 TATAATTAA-AA-TA-T
1 TATAATTAATAATTAGT
16007061 T-TAATTAATAATTAGT
1 TATAATTAATAATTAGT
16007077 TATAATT-ATAATTAGT
1 TATAATTAATAATTAGT
16007093 T
1 T
16007094 TTATGAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 3 0.10
15 2 0.07
16 12 0.41
17 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATAATTAATAATTAGT
Found at i:16007195 original size:17 final size:17
Alignment explanation
Indices: 16007175--16007218 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
16007165 ATATAATTTA
16007175 ATTAATATTAATAACA-T
1 ATTAATATTAATAA-ATT
*
16007192 ATTAATATAAATAAATT
1 ATTAATATTAATAAATT
*
16007209 ATTACTATTA
1 ATTAATATTA
16007219 TGTTTAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 1 0.04
17 22 0.96
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAATATTAATAAATT
Found at i:16007300 original size:16 final size:18
Alignment explanation
Indices: 16007279--16007316 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
16007269 ATTTTAAATG
16007279 ATTATTTAA-GTTA-TAT
1 ATTATTTAATGTTATTAT
16007295 ATTATTTAATGTTATTAT
1 ATTATTTAATGTTATTAT
16007313 ATTA
1 ATTA
16007317 ACTAATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 9 0.45
17 4 0.20
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
ATTATTTAATGTTATTAT
Found at i:16007344 original size:18 final size:18
Alignment explanation
Indices: 16007321--16007450 Score: 54
Period size: 18 Copynumber: 6.8 Consensus size: 18
16007311 ATATTAACTA
16007321 ATTATTAATATAATTAAT
1 ATTATTAATATAATTAAT
* *
16007339 ATTATTAGAAACAATTGTAAAT
1 ATTATTA-ATATAA-T-T-AAT
**
16007361 ATT-TTAAT-T-ATTGTT
1 ATTATTAATATAATTAAT
*
16007376 ATTAATTAATATTAGTTAAT
1 ATT-ATTAATA-TAATTAAT
16007396 -TTATTAATTAGTAAATTAAT
1 ATTATTAA-TA-T-AATTAAT
*
16007416 AATATATAAT-TAATTAAT
1 ATTAT-TAATATAATTAAT
16007434 ATTTAATTTAATATAAT
1 A-TT-A-TTAATATAAT
16007451 AATTTTAATT
Statistics
Matches: 82, Mismatches: 13, Indels: 31
0.65 0.10 0.25
Matches are distributed among these distances:
15 4 0.05
16 1 0.01
17 6 0.07
18 21 0.26
19 12 0.15
20 16 0.20
21 13 0.16
22 9 0.11
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (18 bp):
ATTATTAATATAATTAAT
Found at i:16007433 original size:15 final size:16
Alignment explanation
Indices: 16007376--16007435 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
16007366 AATTATTGTT
16007376 ATTAATTAATATTAGTTA
1 ATTAATTAATA-TAG-TA
*
16007394 ATTTATTAAT-TAGTAA
1 ATTAATTAATATAGT-A
16007410 ATTAA-TAATATA-TA
1 ATTAATTAATATAGTA
16007424 ATTAATTAATAT
1 ATTAATTAATAT
16007436 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 6 0.16
15 12 0.32
16 10 0.27
18 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
ATTAATTAATATAGTA
Found at i:16007440 original size:15 final size:15
Alignment explanation
Indices: 16007377--16007462 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 15
16007367 ATTATTGTTA
* *
16007377 TTAATTAA-TATTAG
1 TTAATTAATTAATAT
* *
16007391 TTAATTTATTAATTAG
1 TTAATTAATTAA-TAT
*
16007407 TAAATTAA-TAATAT
1 TTAATTAATTAATAT
*
16007421 ATAATTAATTAATAT
1 TTAATTAATTAATAT
16007436 TTAATTTAATATAATAATT
1 TTAA-TTAAT-TAAT-A-T
16007455 TTAATTAA
1 TTAATTAA
16007463 ACAAAATAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
14 15 0.26
15 14 0.25
16 14 0.25
17 4 0.07
18 5 0.09
19 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTAATTAATTAATAT
Found at i:16007462 original size:18 final size:17
Alignment explanation
Indices: 16007409--16007462 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
16007399 TTAATTAGTA
*
16007409 AATTAATAATATATAATT
1 AATTAATAAT-TTTAATT
16007427 AATTAAT-A-TTTAATTT
1 AATTAATAATTTTAA-TT
16007443 AATATAATAATTTTAATT
1 AAT-TAATAATTTTAATT
16007461 AA
1 AA
16007463 ACAAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 4 0.13
16 5 0.16
17 5 0.16
18 12 0.39
19 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTAATAATTTTAATT
Found at i:16007475 original size:18 final size:18
Alignment explanation
Indices: 16007434--16007477 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
16007424 ATTAATTAAT
* * *
16007434 ATTTAATTTAATATAATA
1 ATTTAATTAAACAAAATA
16007452 ATTTTAATTAAACAAAATA
1 A-TTTAATTAAACAAAATA
16007471 ATTTAAT
1 ATTTAAT
16007478 AAATTAGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTAATTAAACAAAATA
Found at i:16007819 original size:27 final size:26
Alignment explanation
Indices: 16007769--16007831 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
16007759 ATTGTATATT
* * *
16007769 TTAATAAATTTATTATAATTAAATTAG
1 TTAATAATTTTATAATAATCAAA-TAG
*
16007796 TTAATAATTTTATAATAGTCAAATAG
1 TTAATAATTTTATAATAATCAAATAG
16007822 TATAATAATT
1 T-TAATAATT
16007832 ACATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (26 bp):
TTAATAATTTTATAATAATCAAATAG
Found at i:16007996 original size:13 final size:14
Alignment explanation
Indices: 16007972--16008015 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
16007962 AATAATAAAA
16007972 TTAAATATTTTAAT
1 TTAAATATTTTAAT
*
16007986 TTAAATATTTAAAAT
1 TTAAATATTT-TAAT
16008001 TTAAA-ATTTTTAAT
1 TTAAATA-TTTTAAT
16008015 T
1 T
16008016 ATTAACATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAATATTTTAAT
Found at i:16008014 original size:29 final size:27
Alignment explanation
Indices: 16007959--16008015 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 27
16007949 ATATCGATAA
16007959 TTAAATAATAAAATTAAATATTTTAAT
1 TTAAATAATAAAATTAAATATTTTAAT
*
16007986 TTAAATATTTAAAATTTAAA-ATTTTTAAT
1 TTAAATA-ATAAAA-TTAAATA-TTTTAAT
16008015 T
1 T
16008016 ATTAACATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 7 0.27
28 6 0.23
29 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTAAATAATAAAATTAAATATTTTAAT
Found at i:16008020 original size:23 final size:24
Alignment explanation
Indices: 16007985--16008029 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
16007975 AATATTTTAA
*
16007985 TTTAAATATTTAAAATTTAAAATT
1 TTTAAATATTTAAAATTCAAAATT
* *
16008009 TTTAATTA-TTAACATTCAAAA
1 TTTAAATATTTAAAATTCAAAA
16008030 AATTAATAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTAAATATTTAAAATTCAAAATT
Found at i:16008235 original size:90 final size:91
Alignment explanation
Indices: 16008131--16008297 Score: 237
Period size: 91 Copynumber: 1.8 Consensus size: 91
16008121 CTTGTTTGGT
* *
16008131 AAATAGATTTATTTTTTAAATATCTAACTT-TTAATTTTTAGAATGTTAATAAATTAATATAATT
1 AAATAGATTTATTTTTTAAATATCTAACTTATTAATTTTTAGAATGTTAACAAACTAATATAATT
*
16008195 TTGTTTAGAATAAACTTGTGTGAATA
66 TTATTTAGAATAAACTTGTGTGAATA
* * * * * *
16008221 AAATAGATTTATTTTTTAAATCTTTTACTTATTAATTTTTAGAATTTTAACAAACTAGTATTATT
1 AAATAGATTTATTTTTTAAATATCTAACTTATTAATTTTTAGAATGTTAACAAACTAATATAATT
*
16008286 TTATTTGGAATA
66 TTATTTAGAATA
16008298 TGCTTTTATG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
90 27 0.41
91 39 0.59
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (91 bp):
AAATAGATTTATTTTTTAAATATCTAACTTATTAATTTTTAGAATGTTAACAAACTAATATAATT
TTATTTAGAATAAACTTGTGTGAATA
Found at i:16008511 original size:24 final size:23
Alignment explanation
Indices: 16008448--16008511 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 23
16008438 TTTGGAATAT
* *
16008448 TAATAAATATAT-TAATT-TAAA
1 TAATAAATATTTATAATTACAAA
* *
16008469 TAATAATTATTTATTATTACAAA
1 TAATAAATATTTATAATTACAAA
*
16008492 TAATCAAATATTTGTAATTA
1 TAAT-AAATATTTATAATTA
16008512 AATATTAGTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 10 0.30
22 4 0.12
23 7 0.21
24 12 0.36
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (23 bp):
TAATAAATATTTATAATTACAAA
Found at i:16008882 original size:14 final size:14
Alignment explanation
Indices: 16008863--16008889 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16008853 ATAAACTTAT
16008863 TGATCAAATTATTG
1 TGATCAAATTATTG
16008877 TGATCAAATTATT
1 TGATCAAATTATT
16008890 ACTAAATACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (14 bp):
TGATCAAATTATTG
Found at i:16009020 original size:7 final size:7
Alignment explanation
Indices: 16009008--16009070 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
16008998 TAATTAGTTA
16009008 ATATTAT
1 ATATTAT
16009015 ATATTAT
1 ATATTAT
16009022 ATATTAT
1 ATATTAT
*
16009029 ATA-AAT
1 ATATTAT
16009035 -TAATTAT
1 AT-ATTAT
*
16009042 AT-TTAA
1 ATATTAT
*
16009048 ATATTAA
1 ATATTAT
16009055 ACTATTAAT
1 A-TATT-AT
16009064 ATATTAT
1 ATATTAT
16009071 TTAAATTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
5 1 0.02
6 8 0.17
7 26 0.57
8 9 0.20
9 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (7 bp):
ATATTAT
Found at i:16009031 original size:16 final size:16
Alignment explanation
Indices: 16009012--16009070 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
16009002 TAGTTAATAT
16009012 TATATATTATATATTA
1 TATATATTATATATTA
*
16009028 TATAAATTAATTATATT-
1 TATATATT-A-TATATTA
* *
16009045 TAAATATTAAACTATTA
1 TATATATTATA-TATTA
16009062 -ATATATTAT
1 TATATATTAT
16009071 TTAAATTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 1 0.03
16 19 0.58
17 7 0.21
18 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATTATATATTA
Found at i:16009185 original size:13 final size:13
Alignment explanation
Indices: 16009169--16009195 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16009159 ATTATATAAT
16009169 TTAACAATTAGAA
1 TTAACAATTAGAA
16009182 TTAACAATTAGAA
1 TTAACAATTAGAA
16009195 T
1 T
16009196 AAGTTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (13 bp):
TTAACAATTAGAA
Found at i:16009471 original size:17 final size:17
Alignment explanation
Indices: 16009444--16009477 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16009434 ATTTTATGCT
16009444 ATAATTTATATATTATTA
1 ATAATTTATATA-TATTA
16009462 ATAA-TTATATATATTA
1 ATAATTTATATATATTA
16009478 TTAGTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATTTATATATATTA
Found at i:16009472 original size:19 final size:18
Alignment explanation
Indices: 16009444--16009480 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
16009434 ATTTTATGCT
16009444 ATAATTTATATATTATTA
1 ATAATTTATATATTATTA
16009462 ATAATTATATATATTATTA
1 ATAATT-TATATATTATTA
16009481 GTATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAATTTATATATTATTA
Found at i:16010005 original size:10 final size:10
Alignment explanation
Indices: 16009990--16010031 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
16009980 ATATTATATA
16009990 ATTAATAATT
1 ATTAATAATT
16010000 ATTAATAATT
1 ATTAATAATT
*
16010010 ATT-ATAATA
1 ATTAATAATT
16010019 ATT-AT-ATT
1 ATTAATAATT
16010027 ATTAA
1 ATTAA
16010032 ATTGAGATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 5 0.17
9 11 0.38
10 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTAATAATT
Found at i:16010027 original size:17 final size:17
Alignment explanation
Indices: 16009982--16010030 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
16009972 TTAAATTTAT
* *
16009982 ATTATATAATTAATAATT
1 ATTATATTATT-ATAATA
16010000 ATTAATAATTATTATAATA
1 ATT-AT-ATTATTATAATA
16010019 ATTATATTATTA
1 ATTATATTATTA
16010031 AATTGAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 5 0.19
19 10 0.37
20 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTATATTATTATAATA
Found at i:16010227 original size:21 final size:24
Alignment explanation
Indices: 16010188--16010272 Score: 72
Period size: 23 Copynumber: 3.6 Consensus size: 24
16010178 TTAAATAAGC
*
16010188 TAATATATTATATATTTAAT-ATT
1 TAATATATTATATAATTAATAATT
16010211 TAATATATTA-A-AATTAATAATT
1 TAATATATTATATAATTAATAATT
*
16010233 T-ATATAATT-TTTAATTATATAAATT
1 TAATAT-ATTATATAATTA-AT-AATT
*
16010258 TATTATATCTATATA
1 TAATATAT-TATATA
16010273 GTTTACAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
21 10 0.20
22 8 0.16
23 15 0.31
24 2 0.04
25 7 0.14
26 4 0.08
27 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATATATTATATAATTAATAATT
Found at i:16010447 original size:31 final size:35
Alignment explanation
Indices: 16010412--16010497 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 35
16010402 TAATTTTTTA
*
16010412 ATTATTAA-TAAAATTATA-A-TACTATAATTA-T
1 ATTATTAAGTAAAATTATATATTAATATAATTAGT
* *
16010443 ATTA-TAAGTAAACTTATATATTAATATTATTAGT
1 ATTATTAAGTAAAATTATATATTAATATAATTAGT
* *
16010477 ATTATTATAATAAATTTATAT
1 ATTATTA-AGTAAAATTATAT
16010498 TTATTTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 3 0.07
31 13 0.30
32 1 0.02
33 9 0.20
34 5 0.11
35 2 0.05
36 11 0.25
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (35 bp):
ATTATTAAGTAAAATTATATATTAATATAATTAGT
Found at i:16010468 original size:36 final size:36
Alignment explanation
Indices: 16010428--16010497 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
16010418 AATAAAATTA
*
16010428 TAATACTATAATTA-TATTATAAGTAAACTTATATAT
1 TAATACTATAAGTATTATTATAA-TAAACTTATATAT
* * *
16010464 TAATATTATTAGTATTATTATAATAAATTTATAT
1 TAATACTATAAGTATTATTATAATAAACTTATAT
16010498 TTATTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 21 0.72
37 8 0.28
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (36 bp):
TAATACTATAAGTATTATTATAATAAACTTATATAT
Found at i:16010535 original size:21 final size:22
Alignment explanation
Indices: 16010456--16010535 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 22
16010446 ATAAGTAAAC
16010456 TTATATAT-TAATATTATTAGTATTA
1 TTATATATATAAT-TTA-TA-T-TTA
16010481 TTATA-ATA-AATTTATATTTA
1 TTATATATATAATTTATATTTA
16010501 TT-TATA-ATTGAATTT-TATTTA
1 TTATATATA-T-AATTTATATTTA
16010522 TTATATATATAATT
1 TTATATATATAATT
16010536 AAATATAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
19 3 0.06
20 6 0.12
21 13 0.27
22 12 0.25
23 4 0.08
24 5 0.10
25 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
TTATATATATAATTTATATTTA
Found at i:16010603 original size:26 final size:27
Alignment explanation
Indices: 16010569--16010628 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
16010559 ATTTATTAAC
16010569 ATTATATTTTATAA-AAAATTATTTATA
1 ATTATA-TTTATAATAAAATTATTTATA
*
16010596 ATTA-ATTTATAATATAATTATTTAATA
1 ATTATATTTATAATAAAATTATTT-ATA
*
16010623 AATATA
1 ATTATA
16010629 ATAATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 7 0.25
26 10 0.36
27 10 0.36
28 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTATATTTATAATAAAATTATTTATA
Found at i:16011437 original size:17 final size:16
Alignment explanation
Indices: 16011393--16011438 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
16011383 TCTAGATATA
*
16011393 ATATATTATAATTCAT
1 ATATATTATAATTAAT
*
16011409 -TATATCATAATTAAT
1 ATATATTATAATTAAT
16011424 ATATATTAATAATTA
1 ATATATT-ATAATTA
16011439 TTGAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 13 0.52
16 5 0.20
17 7 0.28
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATATTATAATTAAT
Found at i:16011521 original size:29 final size:29
Alignment explanation
Indices: 16011488--16011565 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
16011478 ATATATTTGA
16011488 TTATAATAGTT-TAATTTAAGAACAATTAG
1 TTATAAT-GTTATAATTTAAGAACAATTAG
*
16011517 TTATAATGTTATAATTTAATAACAATTAG
1 TTATAATGTTATAATTTAAGAACAATTAG
* * *
16011546 TTTATTATATAATAATTTAA
1 -TTATAATGTTATAATTTAA
16011566 TTTATAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 24 0.56
30 16 0.37
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (29 bp):
TTATAATGTTATAATTTAAGAACAATTAG
Found at i:16012102 original size:26 final size:26
Alignment explanation
Indices: 16012073--16012124 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
16012063 AATTATTCAA
**
16012073 ATAACTATTGTTATT-TAATTATTATT
1 ATAACTATAATTATTATAA-TATTATT
*
16012099 ATAATTATAATTATTATAATATTATT
1 ATAACTATAATTATTATAATATTATT
16012125 TGAATATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
ATAACTATAATTATTATAATATTATT
Found at i:16012150 original size:57 final size:55
Alignment explanation
Indices: 16012087--16012251 Score: 132
Period size: 57 Copynumber: 3.0 Consensus size: 55
16012077 CTATTGTTAT
16012087 TTAATTATTATTATAATTATAAT-TATTATAATATTATTTGAATATTATATT-AATTTTA
1 TTAATTA-TATTATAATTA-AATATATTATAATATTATTT-AATA-TA-ATTCAATTTTA
* *
16012145 -TAATTA-A--A-AATTAGAAATATATAATAATATTATCTAATATAATTCAATTTTA
1 TTAATTATATTATAATT--AAATATATTATAATATTATTTAATATAATTCAATTTTA
* * * *
16012197 TTAATTATATTATACTTAAATTGTATTAATAATATTA-TTATTTTAATT-AATTTTA
1 TTAATTATATTATAATTAAA-TATATT-ATAATATTATTTAATATAATTCAATTTTA
16012252 AATAAAGATT
Statistics
Matches: 88, Mismatches: 8, Indels: 25
0.73 0.07 0.21
Matches are distributed among these distances:
51 3 0.03
52 13 0.15
53 14 0.16
54 16 0.18
55 11 0.12
56 13 0.15
57 18 0.20
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (55 bp):
TTAATTATATTATAATTAAATATATTATAATATTATTTAATATAATTCAATTTTA
Found at i:16012484 original size:31 final size:29
Alignment explanation
Indices: 16012436--16012493 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 29
16012426 AGTATAATTT
16012436 ATAAAATAATTAATATTAATTATAATATTAA
1 ATAAAATAATTAATATT-A-TATAATATTAA
*
16012467 ATAAAAT-ATATATTATTATATAATATT
1 ATAAAATAAT-TAATATTATATAATATT
16012494 TTTAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 9 0.36
30 3 0.12
31 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
ATAAAATAATTAATATTATATAATATTAA
Found at i:16012930 original size:13 final size:14
Alignment explanation
Indices: 16012884--16012932 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
16012874 ATAAATTCTT
16012884 ATTAATT-AT-TTA
1 ATTAATTAATATTA
*
16012896 ATATAATAGAATATTA
1 AT-TAAT-TAATATTA
16012912 ATTAATTAATATT-
1 ATTAATTAATATTA
16012925 ATTAATTA
1 ATTAATTA
16012933 TCTAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 12 0.39
14 6 0.19
15 6 0.19
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTAATTAATATTA
Found at i:16013005 original size:13 final size:13
Alignment explanation
Indices: 16012989--16013091 Score: 62
Period size: 13 Copynumber: 8.3 Consensus size: 13
16012979 TTAATAAAAT
16012989 TAATATTATTATA
1 TAATATTATTATA
*
16013002 TAAT-TAAATTA-A
1 TAATAT-TATTATA
*
16013014 TAATATAATTATA
1 TAATATTATTATA
16013027 TAATA-T-TTAT-
1 TAATATTATTATA
*
16013037 T-ATATTATAATA
1 TAATATTATTATA
16013049 -AATATTTAATT-TA
1 TAATA-TT-ATTATA
*
16013062 -AATATTTAATATA
1 TAATA-TTATTATA
*
16013075 TAATAATATTATA
1 TAATATTATTATA
16013088 TAAT
1 TAAT
16013092 TAAATAAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 7 0.10
12 16 0.22
13 38 0.53
14 6 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:16013005 original size:22 final size:25
Alignment explanation
Indices: 16012980--16013031 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 25
16012970 TTCAATTTTT
16012980 TAATAAAATTAAT-AT-T-ATTATA
1 TAATAAAATTAATAATATAATTATA
*
16013002 TAATTAAATTAATAATATAATTATA
1 TAATAAAATTAATAATATAATTATA
16013027 TAATA
1 TAATA
16013032 TTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 2 0.08
24 1 0.04
25 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TAATAAAATTAATAATATAATTATA
Found at i:16013007 original size:8 final size:8
Alignment explanation
Indices: 16012986--16013098 Score: 51
Period size: 8 Copynumber: 14.2 Consensus size: 8
16012976 TTTTTAATAA
16012986 AATTAATAT
1 AATT-ATAT
*
16012995 TATTATAT
1 AATTATAT
*
16013003 AATTAAATT
1 AATTATA-T
*
16013012 AATAATAT
1 AATTATAT
16013020 AATTATAT
1 AATTATAT
*
16013028 AATATTTATT
1 AAT-TATA-T
16013038 ATATTATAAT
1 A-ATTAT-AT
* *
16013048 AAATATTT
1 AATTATAT
16013056 AATT-TA-
1 AATTATAT
*
16013062 AA-TATTT
1 AATTATAT
16013069 AA-TATAT
1 AATTATAT
16013076 AA-TA-AT
1 AATTATAT
16013082 -ATTATAT
1 AATTATAT
*
16013089 AATTAAAT
1 AATTATAT
16013097 AA
1 AA
16013099 ATTAAATATA
Statistics
Matches: 79, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
5 2 0.03
6 7 0.09
7 13 0.16
8 32 0.41
9 16 0.20
10 6 0.08
11 3 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTATAT
Found at i:16013008 original size:17 final size:17
Alignment explanation
Indices: 16012980--16013024 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
16012970 TTCAATTTTT
*
16012980 TAATAAAATTAATATT-A
1 TAATATAATTAA-ATTAA
*
16012997 TTATATAATTAAATTAA
1 TAATATAATTAAATTAA
16013014 TAATATAATTA
1 TAATATAATTA
16013025 TATAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATAATTAAATTAA
Found at i:16013053 original size:34 final size:34
Alignment explanation
Indices: 16013011--16013115 Score: 101
Period size: 34 Copynumber: 3.1 Consensus size: 34
16013001 ATAATTAAAT
*
16013011 TAAT-AATATAATTATATAATATTTATTATATTA
1 TAATAAATATAATTATATAATATTTAATATATTA
*
16013044 TAATAAATATTTAATT-TA-AATATTTAATATATAA
1 TAATAAATA--TAATTATATAATATTTAATATATTA
* * * *
16013078 TAATATTATATAATTAAATAA-ATTAAATATATTT
1 TAATA-AATATAATTATATAATATTTAATATATTA
16013112 TAAT
1 TAAT
16013116 GATAAACATT
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
33 9 0.15
34 38 0.64
35 7 0.12
36 5 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
TAATAAATATAATTATATAATATTTAATATATTA
Found at i:16013102 original size:17 final size:17
Alignment explanation
Indices: 16012996--16013102 Score: 64
Period size: 17 Copynumber: 6.2 Consensus size: 17
16012986 AATTAATATT
*
16012996 ATTATATAATTAAATTA
1 ATTATATAATTAAATAA
* *
16013013 ATAATATAATTATATAA
1 ATTATATAATTAAATAA
16013030 TATT-TATTATATTATAATAA
1 -ATTATA-TA-ATTA-AATAA
*
16013050 A-TATTTAATT---TAA
1 ATTATATAATTAAATAA
*
16013063 A-TATTTAATATATAATAA
1 ATTATATAAT-TA-AATAA
16013081 TATTATATAATTAAATAA
1 -ATTATATAATTAAATAA
16013099 ATTA
1 ATTA
16013103 AATATATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 24
0.70 0.07 0.24
Matches are distributed among these distances:
13 12 0.17
14 1 0.01
17 23 0.32
18 15 0.21
19 9 0.13
20 11 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTATATAATTAAATAA
Found at i:16013182 original size:18 final size:19
Alignment explanation
Indices: 16013123--16013183 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 19
16013113 AATGATAAAC
16013123 ATTT-ACTTATTAATTATTATA
1 ATTTAACTTATT-A-TATT-TA
16013144 ATTTAACTTATTATA--TA
1 ATTTAACTTATTATATTTA
16013161 ATTTAAC-TATTATATTTA
1 ATTTAACTTATTATATTTA
16013179 ATTTA
1 ATTTA
16013184 TTAACTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 7 0.19
20 2 0.05
21 5 0.14
22 7 0.19
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTAACTTATTATATTTA
Found at i:16013692 original size:181 final size:181
Alignment explanation
Indices: 16013367--16013692 Score: 496
Period size: 180 Copynumber: 1.8 Consensus size: 181
16013357 TAAGTAGGAG
* * *
16013367 ATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAATAATTGTTTTTG
1 ATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAACAATTGTTTCTA
* * *
16013432 TTCATACAAGCTTATTTCAAATAAAATAATATAAATTTACTAATATTCCAAAGATTAATAAGTAA
66 TTCATAAAAGCTTATTTCAAATAAAATAATATAAATTTACTAAAATTCCAAAAATTAATAAGTAA
*
16013497 AAATATATAAAATAAATTTATTTTTTGAACACGTTCAAAATAATTATGACC
131 AAATATAAAAAATAAATTTATTTTTTGAACACGTTCAAAATAATTATGACC
* *
16013548 ATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTT-TCATAAACCAATTGTTTCTA
1 ATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAACAATTGTTTCTA
* *
16013612 TTCATAAAAGCTTA-TTCGAAATAAAATAATACT-AATTTATTAAAATTTCAAAAATTAATAAGT
66 TTCATAAAAGCTTATTTC-AAATAAAATAATA-TAAATTTACTAAAATTCCAAAAATTAATAAGT
*
16013675 AAAATATTTAAAAAATAA
129 AAAA-ATATAAAAAATAA
16013693 TTTTGTTTAC
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
179 3 0.02
180 71 0.55
181 56 0.43
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (181 bp):
ATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGCCATAAAACAATTGTTTCTA
TTCATAAAAGCTTATTTCAAATAAAATAATATAAATTTACTAAAATTCCAAAAATTAATAAGTAA
AAATATAAAAAATAAATTTATTTTTTGAACACGTTCAAAATAATTATGACC
Found at i:16014404 original size:40 final size:41
Alignment explanation
Indices: 16014325--16014404 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
16014315 ATCCAAAAAT
** *
16014325 AAAATAATATTAATTTATTAATATTTCAAATTTTTAAATTA
1 AAAATAATATTAATTTATTAATATTTCAAAAATTAAAATTA
*
16014366 AAAATAATATTACTTTATT-ATATTTCAAAAATTAAAATT
1 AAAATAATATTAATTTATTAATATTTCAAAAATTAAAATT
16014405 TGGATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 17 0.49
41 18 0.51
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (41 bp):
AAAATAATATTAATTTATTAATATTTCAAAAATTAAAATTA
Found at i:16014732 original size:18 final size:18
Alignment explanation
Indices: 16014709--16014761 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
16014699 CTTTAAATTG
16014709 TATTATTAATTATAATAA
1 TATTATTAATTATAATAA
16014727 TATTATTATATTATAA-AA
1 TATTATTA-ATTATAATAA
*
16014745 TATATAATAATTA-AATA
1 TAT-TATTAATTATAATA
16014762 TAATTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 2 0.06
18 18 0.58
19 11 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTATTAATTATAATAA
Found at i:16015304 original size:22 final size:21
Alignment explanation
Indices: 16015286--16015328 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
16015276 ACTAATATAA
16015286 AAATATAATATTAAAAATAAATT
1 AAAT-TAATATTAAAAATAAA-T
*
16015309 AAATTAATATTAAAATTAAA
1 AAATTAATATTAAAAATAAA
16015329 ATTCCTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTAATATTAAAAATAAAT
Found at i:16015442 original size:19 final size:19
Alignment explanation
Indices: 16015407--16015448 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16015397 TATTTAAACT
* *
16015407 TATATTAACACTAAATTTA
1 TATATTAACAATAAATTAA
16015426 TATATATAACAAT-AATTAA
1 TATAT-TAACAATAAATTAA
16015445 TATA
1 TATA
16015449 GATTGTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
TATATTAACAATAAATTAA
Found at i:16015903 original size:18 final size:19
Alignment explanation
Indices: 16015880--16015916 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16015870 TAATACTAAT
16015880 TTAAT-AGT-ATTTCAAAAA
1 TTAATAAGTGATTT-AAAAA
16015898 TTAATAAGTGATTTAAAAA
1 TTAATAAGTGATTTAAAAA
16015917 GTAAAATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (19 bp):
TTAATAAGTGATTTAAAAA
Found at i:16015983 original size:19 final size:18
Alignment explanation
Indices: 16015959--16016011 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
16015949 TTAAGACTAT
*
16015959 TATAATAATTATATATTTC
1 TATAATAATTACA-ATTTC
* *
16015978 TATAATTATTACAATTTG
1 TATAATAATTACAATTTC
16015996 TAATAATAATTA-AATT
1 T-ATAATAATTACAATT
16016012 ATTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAATAATTACAATTTC
Found at i:16016134 original size:32 final size:34
Alignment explanation
Indices: 16016097--16016169 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 34
16016087 AATTTAAAAT
16016097 TATAAATAAATAATTAT-A-ATATAT-TATTATAA
1 TATAAATAAAT-ATTATAAGATATATATATTATAA
*
16016129 TATAAAT--CTATTATAAGATATATATATTATAA
1 TATAAATAAATATTATAAGATATATATATTATAA
*
16016161 TATTAATAA
1 TATAAATAA
16016170 TTTATTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
29 5 0.15
30 2 0.06
31 6 0.18
32 21 0.62
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (34 bp):
TATAAATAAATATTATAAGATATATATATTATAA
Found at i:16016142 original size:16 final size:15
Alignment explanation
Indices: 16016095--16016163 Score: 72
Period size: 16 Copynumber: 4.7 Consensus size: 15
16016085 TTAATTTAAA
*
16016095 ATTATAA-ATAAATA
1 ATTATAATATAAATT
16016109 ATTATAATAT--ATT
1 ATTATAATATAAATT
16016122 ATTATAATATAAATCT
1 ATTATAATATAAAT-T
* *
16016138 ATTATAAGATATATAT
1 ATTATAATATAAAT-T
16016154 ATTATAATAT
1 ATTATAATAT
16016164 TAATAATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
13 12 0.26
14 7 0.15
15 4 0.09
16 23 0.50
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
ATTATAATATAAATT
Found at i:16016534 original size:10 final size:9
Alignment explanation
Indices: 16016505--16016553 Score: 52
Period size: 8 Copynumber: 5.8 Consensus size: 9
16016495 AATTTAATAC
16016505 TTATAATTA
1 TTATAATTA
*
16016514 ATATTAATTA
1 TTA-TAATTA
16016524 TTATAA--A
1 TTATAATTA
16016531 TTATAA-TA
1 TTATAATTA
16016539 TTAT-ATTA
1 TTATAATTA
16016547 TTATAAT
1 TTATAAT
16016554 GTTAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
7 8 0.24
8 11 0.32
9 7 0.21
10 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTATAATTA
Found at i:16016690 original size:15 final size:15
Alignment explanation
Indices: 16016670--16016703 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16016660 ATATATTTTT
16016670 ATTATTATATTAT-AA
1 ATTATT-TATTATCAA
16016685 ATTATTTATTATCAA
1 ATTATTTATTATCAA
16016700 ATTA
1 ATTA
16016704 AACAAGGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATTTATTATCAA
Found at i:16016703 original size:22 final size:21
Alignment explanation
Indices: 16016658--16016703 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
16016648 ATATTAATAG
* * *
16016658 TTATATATTTTTATTATTATA
1 TTATAAATTTTTATTATCAAA
16016679 TTATAAATTATTTATTATCAAA
1 TTATAAATT-TTTATTATCAAA
16016701 TTA
1 TTA
16016704 AACAAGGTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATAAATTTTTATTATCAAA
Found at i:16016744 original size:26 final size:26
Alignment explanation
Indices: 16016724--16016793 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
16016714 TTAATTTTAA
16016724 TTATTAATACTAATTAATAATATAAAC
1 TTATTAATA-TAATTAATAATATAAAC
* * *
16016751 TTATTTATATAATTAATTATA-ATAAT
1 TTATTAATATAATTAATAATATA-AAC
*
16016777 TTAATAAATATAATTAA
1 TT-ATTAATATAATTAA
16016794 ATTAAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.03
26 15 0.42
27 20 0.56
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTAATATAATTAATAATATAAAC
Found at i:16016780 original size:14 final size:12
Alignment explanation
Indices: 16016713--16016793 Score: 51
Period size: 13 Copynumber: 6.4 Consensus size: 12
16016703 AAACAAGGTG
16016713 ATTAATT-T-TA
1 ATTAATTATATA
16016723 ATT-ATTAATACTA
1 ATTAATT-ATA-TA
*
16016736 ATTAATAATATAA
1 ATTAATTATAT-A
*
16016749 ACTTATTTATATA
1 A-TTAATTATATA
16016762 ATTAATTATAATA
1 ATTAATTAT-ATA
*
16016775 ATTTAATAAATATA
1 A-TTAAT-TATATA
16016789 ATTAA
1 ATTAA
16016794 ATTAAATTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
9 3 0.05
10 3 0.05
11 1 0.02
12 8 0.14
13 20 0.36
14 19 0.34
15 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTAATTATATA
Found at i:16017021 original size:8 final size:8
Alignment explanation
Indices: 16016974--16017030 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
16016964 TTATATTCAT
16016974 TAATTATA
1 TAATTATA
16016982 TATATTA-A
1 TA-ATTATA
16016990 TAATTAT-
1 TAATTATA
*
16016997 TAA-GATTA
1 TAATTA-TA
16017005 TAA-TATA
1 TAATTATA
16017012 TAATTATA
1 TAATTATA
*
16017020 TAATAATA
1 TAATTATA
16017028 TAA
1 TAA
16017031 GATTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
6 1 0.02
7 13 0.32
8 23 0.56
9 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (8 bp):
TAATTATA
Found at i:16017025 original size:18 final size:16
Alignment explanation
Indices: 16016984--16017051 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
16016974 TAATTATATA
16016984 TATTAATAATTATTAAGAT
1 TATTAATAA-TA-TAA-AT
16017003 TA-TAAT-ATAT-AAT
1 TATTAATAATATAAAT
16017016 TATATAATAATATAAGAT
1 TAT-TAATAATATAA-AT
16017034 TATTAA-AATATAAAT
1 TATTAATAATATAAAT
16017049 TAT
1 TAT
16017052 GATTATTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
13 4 0.09
14 1 0.02
15 10 0.23
16 13 0.30
17 5 0.11
18 9 0.20
19 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TATTAATAATATAAAT
Found at i:16017043 original size:16 final size:15
Alignment explanation
Indices: 16017001--16017051 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 15
16016991 AATTATTAAG
*
16017001 ATTATAATATATAATT
1 ATTAAAATATA-AATT
16017017 ATATAATAATATAAGATT
1 AT-TAA-AATATAA-ATT
16017035 ATTAAAATATAAATT
1 ATTAAAATATAAATT
16017050 AT
1 AT
16017052 GATTATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 5 0.16
16 9 0.29
17 6 0.19
18 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTAAAATATAAATT
Found at i:16017464 original size:13 final size:13
Alignment explanation
Indices: 16017431--16017486 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
16017421 ATCAACCAAA
16017431 TTATATTAATATAT
1 TTATATTAATA-AT
*
16017445 TTAATATTTATAAT
1 TT-ATATTAATAAT
*
16017459 TTATATTAATAAA
1 TTATATTAATAAT
*
16017472 TTATA-AAATAAT
1 TTATATTAATAAT
16017484 TTA
1 TTA
16017487 ACAATTGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 8 0.22
13 14 0.39
14 6 0.17
15 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATATTAATAAT
Found at i:16017610 original size:22 final size:22
Alignment explanation
Indices: 16017585--16017635 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
16017575 TAATTATTTA
16017585 ATTTTAAATAATTAG-TATAATT
1 ATTTTAAATAATTAGAT-TAATT
*
16017607 A-TTTATACTAATTAGATTAATT
1 ATTTTA-AATAATTAGATTAATT
*
16017629 ATATTAA
1 ATTTTAA
16017636 GTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 4 0.17
22 16 0.67
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTTAAATAATTAGATTAATT
Found at i:16017630 original size:18 final size:18
Alignment explanation
Indices: 16017602--16017652 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
16017592 ATAATTAGTA
*
16017602 TAATTATTTATACTAA-T
1 TAATTAATTATACTAAGT
*
16017619 TAGATTAATTATATTAAGT
1 TA-ATTAATTATACTAAGT
16017638 TAATT-ATTCATACTA
1 TAATTAATT-ATACTA
16017653 CAATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 5 0.18
18 20 0.71
19 3 0.11
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (18 bp):
TAATTAATTATACTAAGT
Found at i:16018568 original size:17 final size:16
Alignment explanation
Indices: 16018519--16018570 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
16018509 ATGAACAATC
*
16018519 TATATTAATTATAAATA
1 TATATTAA-TATAAATT
16018536 TATA-TATATATAAATT
1 TATATTA-ATATAAATT
16018552 TAGTATTAATATAAATT
1 TA-TATTAATATAAATT
16018569 TA
1 TA
16018571 AATACTTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 11 0.35
17 18 0.58
18 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TATATTAATATAAATT
Found at i:16018660 original size:12 final size:12
Alignment explanation
Indices: 16018643--16018702 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
16018633 TATAAGGATT
16018643 TTAATTTAATTA
1 TTAATTTAATTA
16018655 TTAATTTAATTA
1 TTAATTTAATTA
16018667 TTAATTT-ATTA
1 TTAATTTAATTA
* *
16018678 TTAA-ATAATAAA
1 TTAATTTAAT-TA
16018690 TTAATTT-ATTA
1 TTAATTTAATTA
16018701 TT
1 TT
16018703 TTAATATGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 1 0.02
11 13 0.32
12 26 0.63
13 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAATTTAATTA
Found at i:16018677 original size:23 final size:23
Alignment explanation
Indices: 16018643--16018702 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
16018633 TATAAGGATT
* *
16018643 TTAATTTAATTATTAATTTAAT-TA
1 TTAATTT-ATTATTAA-ATAATAAA
16018667 TTAATTTATTATTAAATAATAAA
1 TTAATTTATTATTAAATAATAAA
16018690 TTAATTTATTATT
1 TTAATTTATTATT
16018703 TTAATATGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 4 0.12
23 22 0.67
24 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTAATTTATTATTAAATAATAAA
Found at i:16019724 original size:7 final size:7
Alignment explanation
Indices: 16019705--16019769 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 7
16019695 AATAAATTAG
16019705 AATTATT
1 AATTATT
16019712 -ATTATT
1 AATTATT
16019718 AATTATT
1 AATTATT
16019725 AATTA--
1 AATTATT
16019730 AATT-TT
1 AATTATT
*
16019736 AAATATT
1 AATTATT
16019743 AATT-TT
1 AATTATT
*
16019749 AATTATC
1 AATTATT
16019756 AATTTATTT
1 AA-TTA-TT
16019765 AATTA
1 AATTA
16019770 AATAGAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
5 4 0.09
6 15 0.32
7 19 0.40
8 6 0.13
9 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (7 bp):
AATTATT
Found at i:16020411 original size:24 final size:24
Alignment explanation
Indices: 16020384--16020435 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
16020374 ATTTTAACTG
*
16020384 TATAGATCATAATTGAATAATATT-
1 TATAGATAATAATTGAATAA-ATTC
* *
16020408 TATAGTTAATAATTTAATAAATTC
1 TATAGATAATAATTGAATAAATTC
16020432 TATA
1 TATA
16020436 ATTTAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (24 bp):
TATAGATAATAATTGAATAAATTC
Found at i:16021370 original size:17 final size:17
Alignment explanation
Indices: 16021333--16021370 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
16021323 AATAACTAAT
*
16021333 TATTAAAAAATTGTATT
1 TATTAAAAAATTGTATA
16021350 TATTAAAATAATT-TATA
1 TATTAAAA-AATTGTATA
16021367 TATT
1 TATT
16021371 TATTTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TATTAAAAAATTGTATA
Found at i:16021449 original size:18 final size:17
Alignment explanation
Indices: 16021415--16021471 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
16021405 ATGATAATTA
*
16021415 TAATTTGAT-TATAAAT
1 TAATTTGATATATTAAT
16021431 TAATATTGATATATTAATT
1 TAAT-TTGATATATTAA-T
16021450 TAATTAT-ATATATTTAAT
1 TAATT-TGATATA-TTAAT
16021468 TAAT
1 TAAT
16021472 AATATATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 16 0.46
19 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (17 bp):
TAATTTGATATATTAAT
Found at i:16021476 original size:18 final size:17
Alignment explanation
Indices: 16021428--16021478 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
16021418 TTTGATTATA
*
16021428 AATTAATATTGATATATT
1 AATTAATAAT-ATATATT
*
16021446 AATTTAATTATATATATTT
1 AA-TTAATAATATATA-TT
16021465 AATTAATAATATAT
1 AATTAATAATATAT
16021479 TATAATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTAATAATATATATT
Found at i:16021487 original size:16 final size:16
Alignment explanation
Indices: 16021447--16021484 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 16
16021437 TGATATATTA
16021447 ATTTAATT-AT-ATAT
1 ATTTAATTAATAATAT
16021461 ATTTAATTAATAATAT
1 ATTTAATTAATAATAT
16021477 ATTATAAT
1 ATT-TAAT
16021485 AATTATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 2 0.10
16 7 0.33
17 4 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTAATTAATAATAT
Done.