Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold496
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: 765014
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 7 of 7
Found at i:654095 original size:37 final size:36
Alignment explanation
Indices: 653935--654094 Score: 123
Period size: 37 Copynumber: 4.4 Consensus size: 36
653925 AAATAAAATG
* * *
653935 ATTAAAATTTTAAAAATAATTAGACGATTACAAGATAA
1 ATTAAAA-TTTAAATATAATTAGACGATTACAA-CTTA
* * *
653973 ATTATAATTTTAATATAATTAGACAATTACAACTT-
1 ATTAAAATTTAAATATAATTAGACGATTACAACTTA
* *
654008 A--AAATTTTAAA-ATAATTATG-TGATTACAATCCTTA
1 ATTAAAATTTAAATATAATTA-GACGATTACAA--CTTA
* * *
654043 ATTTAAATTTAAAATTTAATTAGATGATTACAACTTAA
1 ATTAAAATTT-AAATATAATTAGACGATTACAACTT-A
654081 ATTAAAATTTAAAT
1 ATTAAAATTTAAAT
654095 TAAACATATC
Statistics
Matches: 97, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
32 14 0.14
33 8 0.08
34 3 0.03
35 2 0.02
36 1 0.01
37 34 0.35
38 20 0.21
39 15 0.15
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.39
Consensus pattern (36 bp):
ATTAAAATTTAAATATAATTAGACGATTACAACTTA
Found at i:654185 original size:26 final size:29
Alignment explanation
Indices: 654133--654185 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
654123 GATTATAATC
*
654133 TAAATGAATAAATTTATTGTTATTAATTG
1 TAAATGAATAAATTTATTGTTAATAATTG
*
654162 TAAATGAA-ATATTT-TT-TTAATAAT
1 TAAATGAATAAATTTATTGTTAATAAT
654186 AAAACTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 2 0.09
28 5 0.23
29 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (29 bp):
TAAATGAATAAATTTATTGTTAATAATTG
Found at i:654226 original size:19 final size:19
Alignment explanation
Indices: 654198--654243 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
654188 AACTATTATA
*
654198 TTTA-TAATAATATTACCT
1 TTTATTAATAATATAACCT
*
654216 TTTATTAATAATATAATCT
1 TTTATTAATAATATAACCT
654235 TTTATTAAT
1 TTTATTAAT
654244 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATTAATAATATAACCT
Found at i:654674 original size:32 final size:32
Alignment explanation
Indices: 654608--654675 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
654598 ATTTTACGTG
*
654608 AGATTCATTAAAGCATTTAGCAATTTCATGTA
1 AGATTCATTAAAGCATTTAGCAATTTCATATA
* *
654640 AGATTTATTAAAGCATTTAGCGA-TTCTATATA
1 AGATTCATTAAAGCATTTAGCAATTTC-ATATA
654672 AGAT
1 AGAT
654676 CTCTTAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 3 0.09
32 29 0.91
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (32 bp):
AGATTCATTAAAGCATTTAGCAATTTCATATA
Found at i:662956 original size:2 final size:2
Alignment explanation
Indices: 662951--662992 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
662941 TTTGAAAGCA
*
662951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
662993 GGTGCTTGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:665516 original size:27 final size:28
Alignment explanation
Indices: 665458--665532 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 28
665448 ATTAAAATTT
*
665458 ATATAAAT-AT-AAATATCTTAAATATA
1 ATATAAATAATAAAATATCATAAATATA
*
665484 ATTATAAATAATAAAATAT-ATAAATATG
1 A-TATAAATAATAAAATATCATAAATATA
*
665512 ATATAAATACATAAATTATCA
1 ATATAAATA-ATAAAATATCA
665533 ATTTTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 1 0.02
27 15 0.37
28 18 0.44
29 7 0.17
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (28 bp):
ATATAAATAATAAAATATCATAAATATA
Found at i:667332 original size:29 final size:28
Alignment explanation
Indices: 667288--667342 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
667278 GTTCTTGATT
*
667288 TTTGAATAAATTATTAAAATAATATTAA
1 TTTGAATAAATAATTAAAATAATATTAA
*
667316 TTTGAAATAAATAATTAAAATATTATT
1 TTTG-AATAAATAATTAAAATAATATT
667343 GTTTTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
TTTGAATAAATAATTAAAATAATATTAA
Found at i:667744 original size:24 final size:25
Alignment explanation
Indices: 667685--667753 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
667675 TTATTTATTT
* *
667685 AGATTATAATCGTCTAATTATTTTA
1 AGATTATAATCATCTAATTATTTAA
*
667710 ATATTTATAATCATCTAATTA-TTAA
1 AGA-TTATAATCATCTAATTATTTAA
*
667735 AGATTGTAATCATCTAATT
1 AGATTATAATCATCTAATT
667754 TTTTTAACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
24 15 0.39
25 7 0.18
26 16 0.42
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (25 bp):
AGATTATAATCATCTAATTATTTAA
Found at i:667960 original size:23 final size:23
Alignment explanation
Indices: 667913--667956 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
667903 TTAGAATTTA
667913 AAAATAATTAAAAATTTTAAAAT
1 AAAATAATTAAAAATTTTAAAAT
*
667936 AAAATGATT-AAAATTTTAAAA
1 AAAATAATTAAAAATTTTAAAA
667957 ATAATTAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AAAATAATTAAAAATTTTAAAAT
Found at i:668041 original size:32 final size:33
Alignment explanation
Indices: 667995--668088 Score: 84
Period size: 39 Copynumber: 2.7 Consensus size: 33
667985 AATTTTAATA
** *
667995 TAATTAGACAATTACAACTTAAAATTTTAAAA-
1 TAATTAGATGATTACAACTTAAAAATTTAAAAT
668027 TAATTATG-TGATTACAATCCTTAATTTAAATTTAAAATT
1 TAATTA-GATGATTACAA--CTTAA---AAATTTAAAA-T
668066 TAATTAGATGATTACAACTTAAA
1 TAATTAGATGATTACAACTTAAA
668089 TTAAAATTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 16
0.72 0.04 0.23
Matches are distributed among these distances:
32 13 0.26
33 1 0.02
34 6 0.12
37 14 0.28
38 1 0.02
39 15 0.30
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (33 bp):
TAATTAGATGATTACAACTTAAAAATTTAAAAT
Found at i:668102 original size:37 final size:36
Alignment explanation
Indices: 667942--668101 Score: 123
Period size: 37 Copynumber: 4.4 Consensus size: 36
667932 AAATAAAATG
* * *
667942 ATTAAAATTTTAAAAATAATTAGACGATTACAAGATAA
1 ATTAAAA-TTTAAATATAATTAGACGATTACAA-CTTA
* * *
667980 ATTATAATTTTAATATAATTAGACAATTACAACTT-
1 ATTAAAATTTAAATATAATTAGACGATTACAACTTA
* *
668015 A--AAATTTTAAA-ATAATTATG-TGATTACAATCCTTA
1 ATTAAAATTTAAATATAATTA-GACGATTACAA--CTTA
* * *
668050 ATTTAAATTTAAAATTTAATTAGATGATTACAACTTAA
1 ATTAAAATTT-AAATATAATTAGACGATTACAACTT-A
668088 ATTAAAATTTAAAT
1 ATTAAAATTTAAAT
668102 TAAACATATC
Statistics
Matches: 97, Mismatches: 15, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
32 14 0.14
33 8 0.08
34 3 0.03
35 2 0.02
36 1 0.01
37 34 0.35
38 20 0.21
39 15 0.15
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.39
Consensus pattern (36 bp):
ATTAAAATTTAAATATAATTAGACGATTACAACTTA
Found at i:668192 original size:26 final size:29
Alignment explanation
Indices: 668140--668192 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
668130 GATTATAATC
*
668140 TAAATGAATAAATTTATTGTTATTAATTG
1 TAAATGAATAAATTTATTGTTAATAATTG
*
668169 TAAATGAA-ATATTT-TT-TTAATAAT
1 TAAATGAATAAATTTATTGTTAATAAT
668193 AAAACTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 2 0.09
28 5 0.23
29 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (29 bp):
TAAATGAATAAATTTATTGTTAATAATTG
Found at i:668233 original size:19 final size:19
Alignment explanation
Indices: 668205--668250 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
668195 AACTATTATA
*
668205 TTTA-TAATAATATTACCT
1 TTTATTAATAATATAACCT
*
668223 TTTATTAATAATATAATCT
1 TTTATTAATAATATAACCT
668242 TTTATTAAT
1 TTTATTAAT
668251 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATTAATAATATAACCT
Found at i:668681 original size:32 final size:32
Alignment explanation
Indices: 668615--668682 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
668605 ATTTTACGTG
*
668615 AGATTCATTAAAGCATTTAGCAATTTCATGTA
1 AGATTCATTAAAGCATTTAGCAATTTCATATA
* *
668647 AGATTTATTAAAGCATTTAGCGA-TTCTATATA
1 AGATTCATTAAAGCATTTAGCAATTTC-ATATA
668679 AGAT
1 AGAT
668683 CTCTTAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 3 0.09
32 29 0.91
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (32 bp):
AGATTCATTAAAGCATTTAGCAATTTCATATA
Found at i:669479 original size:62 final size:61
Alignment explanation
Indices: 669382--669505 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 61
669372 TTTATATCAC
* **
669382 TGTATCAATATTATGTTGTGCCAATATTACATATTTACGTCCAGTGCTTCTTAGATGCATTA
1 TGTATCAATATTATATTGTGCCAATATTACATATTTACGT-CAGTGCTTCCCAGATGCATTA
* * *
669444 TGTATCAATATTATATTGTGCTAATATTACGTATTTACGTCTGTGCTTCCCAGATGCATTA
1 TGTATCAATATTATATTGTGCCAATATTACATATTTACGTCAGTGCTTCCCAGATGCATTA
669505 T
1 T
669506 TGCTCATTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
61 19 0.34
62 37 0.66
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.43
Consensus pattern (61 bp):
TGTATCAATATTATATTGTGCCAATATTACATATTTACGTCAGTGCTTCCCAGATGCATTA
Found at i:670937 original size:13 final size:12
Alignment explanation
Indices: 670912--670950 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
670902 TGTCGTCATC
670912 AAAATAAAATAT
1 AAAATAAAATAT
670924 AAAATAATAATAT
1 AAAATAA-AATAT
670937 AAATATATAAATAT
1 AAA-ATA-AAATAT
670951 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 8 0.33
15 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATAAAATAT
Found at i:670969 original size:11 final size:11
Alignment explanation
Indices: 670953--671024 Score: 51
Period size: 11 Copynumber: 6.4 Consensus size: 11
670943 ATAAATATTT
670953 TAAAATTTATA
1 TAAAATTTATA
**
670964 TAAAATAAAT-
1 TAAAATTTATA
*
670974 TATTAATTTAT-
1 TA-AAATTTATA
670985 TAAAATTTATA
1 TAAAATTTATA
670996 TAAAATTATGATA
1 TAAAATT-T-ATA
671009 TGATAAA-TTATA
1 T-A-AAATTTATA
671021 TAAA
1 TAAA
671025 TATAATATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
10 11 0.22
11 23 0.47
12 5 0.10
13 5 0.10
14 2 0.04
15 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
TAAAATTTATA
Found at i:670992 original size:32 final size:33
Alignment explanation
Indices: 670930--671001 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
670920 ATATAAAATA
*
670930 ATAATATAAATATATAAATATTTTAAAATTTAT
1 ATAAAATAAATATATAAATATTTTAAAATTTAT
*
670963 ATAAAATAAAT-TATTAAT-TTATTAAAATTTAT
1 ATAAAATAAATATATAAATATT-TTAAAATTTAT
670995 ATAAAAT
1 ATAAAAT
671002 TATGATATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 2 0.06
32 24 0.67
33 10 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
ATAAAATAAATATATAAATATTTTAAAATTTAT
Found at i:671036 original size:20 final size:20
Alignment explanation
Indices: 670915--671037 Score: 61
Period size: 20 Copynumber: 6.3 Consensus size: 20
670905 CGTCATCAAA
*
670915 ATAAAATATA-AAATAATAAT
1 ATAAATTATATAAAT-ATAAT
**
670935 ATAAA-TATATAAATATTTT
1 ATAAATTATATAAATATAAT
670954 A-AAATT-TAT--ATA-AA-
1 ATAAATTATATAAATATAAT
* *
670968 ATAAATTAT-T-AATTTATT
1 ATAAATTATATAAATATAAT
670986 A-AAATTTATATAAAATTATGATAT
1 ATAAA-TTATAT-AAA-TAT-A-AT
671010 GATAAATTATATAAATATAAT
1 -ATAAATTATATAAATATAAT
671031 ATAAATT
1 ATAAATT
671038 GAATTACGTC
Statistics
Matches: 79, Mismatches: 8, Indels: 32
0.66 0.07 0.27
Matches are distributed among these distances:
14 1 0.01
15 6 0.08
16 6 0.08
17 4 0.05
18 11 0.14
19 10 0.13
20 16 0.20
21 4 0.05
22 3 0.04
23 4 0.05
24 4 0.05
25 7 0.09
26 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAAATTATATAAATATAAT
Found at i:671700 original size:15 final size:15
Alignment explanation
Indices: 671627--671701 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 15
671617 AGTTTCGTTA
671627 ATAATTTATATATT-T
1 ATAATTTATAT-TTAT
671642 AT-A-TTATATTTAT
1 ATAATTTATATTTAT
671655 AT-ATTT-TA-TTAT
1 ATAATTTATATTTAT
* * *
671667 ATTA-TTAT-TTAAA
1 ATAATTTATATTTAT
671680 ATAATTTATATTTAT
1 ATAATTTATATTTAT
671695 ATAATTT
1 ATAATTT
671702 TTAATAAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
12 10 0.21
13 19 0.40
14 7 0.15
15 12 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATAATTTATATTTAT
Found at i:671767 original size:3 final size:3
Alignment explanation
Indices: 671754--671803 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
671744 ATTTATATCA
671754 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
671801 TAT
1 TAT
671804 ATTTAAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:674888 original size:19 final size:19
Alignment explanation
Indices: 674866--674964 Score: 64
Period size: 19 Copynumber: 5.2 Consensus size: 19
674856 TCCTTTTAGA
674866 AAAAATAATAATTTTTATT
1 AAAAATAATAATTTTTATT
674885 -AAAA-AATAATTCATTTATT
1 AAAAATAATAATT--TTTATT
* * *
674904 AAAAAAAGATAATTCTATCTT
1 AAAAATA-ATAATT-TTTATT
* *
674925 AAAAAT-ATCATTTTTCTTT
1 AAAAATAATAATTTTT-ATT
674944 AAAAAT-ATCAATTTTT-TT
1 AAAAATAAT-AATTTTTATT
674962 AAA
1 AAA
674965 TATTAATATT
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
17 7 0.11
18 11 0.17
19 21 0.32
20 10 0.15
21 10 0.15
22 6 0.09
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (19 bp):
AAAAATAATAATTTTTATT
Found at i:674942 original size:18 final size:19
Alignment explanation
Indices: 674921--674964 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
674911 GATAATTCTA
674921 TCTTAAAAATATC-ATTTT
1 TCTTAAAAATATCAATTTT
674939 TCTTTAAAAATATCAATTTT
1 TC-TTAAAAATATCAATTTT
674959 T-TTAAA
1 TCTTAAA
674965 TATTAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (19 bp):
TCTTAAAAATATCAATTTT
Found at i:677649 original size:25 final size:25
Alignment explanation
Indices: 677615--677673 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
677605 TTATTTATAA
677615 TAATATTAATATATTA-ATATATTTT
1 TAATATTAATAT-TTATATATATTTT
*
677640 TAATTTTAATATTTATATATA-TTT
1 TAATATTAATATTTATATATATTTT
*
677664 TATTATTAAT
1 TAATATTAAT
677674 TAATTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.47
25 16 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TAATATTAATATTTATATATATTTT
Found at i:677651 original size:23 final size:24
Alignment explanation
Indices: 677625--677673 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
677615 TAATATTAAT
677625 ATATTAATATAT-TTTTAATT-TTA
1 ATATTAATATATATTTT-ATTATTA
*
677648 ATATTTATATATATTTTATTATTA
1 ATATTAATATATATTTTATTATTA
677672 AT
1 AT
677674 TAATTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATATTAATATATATTTTATTATTA
Found at i:678298 original size:15 final size:15
Alignment explanation
Indices: 678268--678301 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
678258 AATTGATATA
**
678268 ATATTTTATACTGTT
1 ATATTTTATAAAGTT
678283 ATATTTTATAAAGTT
1 ATATTTTATAAAGTT
678298 ATAT
1 ATAT
678302 CATTATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (15 bp):
ATATTTTATAAAGTT
Found at i:680181 original size:67 final size:67
Alignment explanation
Indices: 680053--680186 Score: 198
Period size: 67 Copynumber: 2.0 Consensus size: 67
680043 AGATCTTCTA
* * * *
680053 ATTACGTGAAATTTTTTTTTAAAAAATTAAATATATCTATGTTGGATATATACTCACATCCGACA
1 ATTACGTGAAATTTTTTTTAAAAAAATTAAACATATCAATGTTGGACATATACTCACATCCGACA
680118 CT
66 CT
* *
680120 ATTACGTGAAATTTTTTTTAAAAAAATTAAACATATCAATGTTGGACATGTA-TCCATATCCGAC
1 ATTACGTGAAATTTTTTTTAAAAAAATTAAACATATCAATGTTGGACATATACT-CACATCCGAC
680184 ACT
65 ACT
680187 TATATCTGAG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 1 0.02
67 59 0.98
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (67 bp):
ATTACGTGAAATTTTTTTTAAAAAAATTAAACATATCAATGTTGGACATATACTCACATCCGACA
CT
Found at i:682261 original size:34 final size:34
Alignment explanation
Indices: 682223--682375 Score: 204
Period size: 34 Copynumber: 4.9 Consensus size: 34
682213 ATATACATGT
*
682223 TAACACACCTAACATTCTCACCAAATATATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
682257 TAACACACCTAACATTCTCACC-AA-ACA-CACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
682288 T---A-A-C--A--TTCTCACCAAACACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
682313 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
682347 TAACACACCTAACATTCTCACCAAATACA
1 TAACACACCTAACATTCTCACCAAATACA
682376 CTTAACAAAG
Statistics
Matches: 105, Mismatches: 2, Indels: 24
0.80 0.02 0.18
Matches are distributed among these distances:
22 8 0.08
23 2 0.02
24 4 0.04
25 5 0.05
26 1 0.01
27 1 0.01
28 2 0.02
29 1 0.01
30 1 0.01
31 5 0.05
32 3 0.03
33 2 0.02
34 70 0.67
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:682283 original size:22 final size:22
Alignment explanation
Indices: 682252--682307 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
682242 ACCAAATATA
*
682252 TCACCTAACACACCTAACATTC
1 TCACCAAACACACCTAACATTC
682274 TCACCAAACACACCTAACATTC
1 TCACCAAACACACCTAACATTC
682296 TCACCAAACACA
1 TCACCAAACACA
682308 TCACCTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (22 bp):
TCACCAAACACACCTAACATTC
Found at i:682311 original size:56 final size:57
Alignment explanation
Indices: 682224--682351 Score: 213
Period size: 56 Copynumber: 2.2 Consensus size: 57
682214 TATACATGTT
* *
682224 AACACACCTAACATTCTCACCAAATATATCACCTAACACACCTAACATTCTCACC-A
1 AACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAA
682280 AACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAA
1 AACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAA
682337 ATACATCACCTAACA
1 A-ACA-CACCTAACA
682352 CACCTAACAT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
56 53 0.79
57 2 0.03
58 3 0.04
59 9 0.13
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (57 bp):
AACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAA
Found at i:687095 original size:9 final size:10
Alignment explanation
Indices: 687079--687166 Score: 56
Period size: 9 Copynumber: 8.2 Consensus size: 10
687069 CACCAAATAT
687079 ATCACCTAAC
1 ATCACCTAAC
687089 A-CACCTAAC
1 ATCACCTAAC
*
687098 ATTCTCACCAAAC
1 A---TCACCTAAC
687111 AATCACCTAAC
1 -ATCACCTAAC
687122 A-CACCTAAC
1 ATCACCTAAC
*
687131 ATTCTCACCAAATAC
1 A---TCACC-TA-AC
687146 ATCACCTAAC
1 ATCACCTAAC
687156 A-CACCTAAC
1 ATCACCTAAC
687165 AT
1 AT
687167 TCTCACCAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
9 27 0.44
10 5 0.08
11 9 0.15
12 5 0.08
13 11 0.18
14 2 0.03
15 3 0.05
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (10 bp):
ATCACCTAAC
Found at i:687136 original size:67 final size:67
Alignment explanation
Indices: 687051--687176 Score: 243
Period size: 67 Copynumber: 1.9 Consensus size: 67
687041 ATATACATGT
*
687051 TAACACACCTAACATTCTCACCAAATATATCACCTAACACACCTAACATTCTCACCAAACAATCA
1 TAACACACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAACAATCA
687116 CC
66 CC
687118 TAACACACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAA
1 TAACACACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAA
687177 TACACTTAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (67 bp):
TAACACACCTAACATTCTCACCAAATACATCACCTAACACACCTAACATTCTCACCAAACAATCA
CC
Found at i:687179 original size:34 final size:34
Alignment explanation
Indices: 687051--687180 Score: 235
Period size: 34 Copynumber: 3.9 Consensus size: 34
687041 ATATACATGT
*
687051 TAACACACCTAACATTCTCACCAAATATATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
687085 TAACACACCTAACATTCTCACCAAACA-ATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
687118 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
687152 TAACACACCTAACATTCTCACCAAATACA
1 TAACACACCTAACATTCTCACCAAATACA
687181 CTTAACAAAG
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
33 32 0.34
34 61 0.66
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:688097 original size:30 final size:30
Alignment explanation
Indices: 688058--688147 Score: 117
Period size: 30 Copynumber: 3.0 Consensus size: 30
688048 ATTTAAATCC
688058 CTTAAATTAAGGACTAGTGCACCACTATCT
1 CTTAAATTAAGGACTAGTGCACCACTATCT
* * * *
688088 CTTAGATTAAGGACTAGTGCATCACAATCC
1 CTTAAATTAAGGACTAGTGCACCACTATCT
** *
688118 CTTAAATTAAAAACTAATGCACCACTATCT
1 CTTAAATTAAGGACTAGTGCACCACTATCT
688148 AATTTAAATC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (30 bp):
CTTAAATTAAGGACTAGTGCACCACTATCT
Found at i:692105 original size:62 final size:62
Alignment explanation
Indices: 692003--692122 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
691993 AACTATCAAT
*
692003 CAAAATCAATCAGCAATGAAAGCTAACTAAATGAATTAAATCAACGATAAAAGCTGATCTAA
1 CAAAATCAATCAGCAATGAAAGCTAACTAAATGAAATAAATCAACGATAAAAGCTGATCTAA
** * * *
692065 CAAAATCAATCAGCGCTGAAGGCTGACTGAATGAAATAAATCAACGATAAAAGCTGAT
1 CAAAATCAATCAGCAATGAAAGCTAACTAAATGAAATAAATCAACGATAAAAGCTGAT
692123 TTAGAGAGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (62 bp):
CAAAATCAATCAGCAATGAAAGCTAACTAAATGAAATAAATCAACGATAAAAGCTGATCTAA
Found at i:692121 original size:31 final size:30
Alignment explanation
Indices: 692021--692121 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 30
692011 ATCAGCAATG
* *
692021 AAAGCTAACTAAATGAATTAAATCAACGATA
1 AAAGCTGACT-AATGAAATAAATCAACGATA
** * * * *
692052 AAAGCTGATCTAACAAAATCAATCAGCGCTG
1 AAAGCTGA-CTAATGAAATAAATCAACGATA
*
692083 AAGGCTGACTGAATGAAATAAATCAACGATA
1 AAAGCTGACT-AATGAAATAAATCAACGATA
692114 AAAGCTGA
1 AAAGCTGA
692122 TTTAGAGAGA
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
30 2 0.04
31 48 0.92
32 2 0.04
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (30 bp):
AAAGCTGACTAATGAAATAAATCAACGATA
Found at i:692188 original size:28 final size:26
Alignment explanation
Indices: 692132--692195 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
692122 TTTAGAGAGA
* **
692132 AAAAGAATCCCAGAATTTTTTTTCCC
1 AAAAGAATTCCAGAATTTTTTTTAAC
*
692158 AAAAGAATTCTAGAATTTTTTTTAGAAC
1 AAAAGAATTCCAGAATTTTTTTT--AAC
*
692186 AAAACAATTC
1 AAAAGAATTC
692196 AAACCTATGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 21 0.68
28 10 0.32
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (26 bp):
AAAAGAATTCCAGAATTTTTTTTAAC
Found at i:692371 original size:31 final size:30
Alignment explanation
Indices: 692314--692374 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
692304 GAATAAAAAC
*
692314 CAGCAATTAAGGCTGTTAAAAAAAAAAATT
1 CAGCAATTAAGGCTGTAAAAAAAAAAAATT
692344 CAGCAATTAAGGCTG-AACAGAAAAAAAAATT
1 CAGCAATTAAGGCTGTAA-A-AAAAAAAAATT
692375 TAGGTTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.04
30 16 0.57
31 11 0.39
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (30 bp):
CAGCAATTAAGGCTGTAAAAAAAAAAAATT
Found at i:692629 original size:30 final size:30
Alignment explanation
Indices: 692557--692648 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
692547 AATAATTTAA
* *
692557 ATCCATTAAATTAAGGACTAATACACTACT
1 ATCCCTTAAATTAAGGATTAATACACTACT
* * *
692587 AT-CCTTAGATTAAGGATTAGTATA-TCACT
1 ATCCCTTAAATTAAGGATTAATACACT-ACT
*
692616 ATCCCTTAAATTAAGGATTAATGCACTACT
1 ATCCCTTAAATTAAGGATTAATACACTACT
692646 ATC
1 ATC
692649 TAATTTAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
28 1 0.02
29 22 0.44
30 26 0.52
31 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (30 bp):
ATCCCTTAAATTAAGGATTAATACACTACT
Found at i:694642 original size:21 final size:21
Alignment explanation
Indices: 694604--694643 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
694594 ATTAAATATG
*
694604 ATTTTTATATTAATATTTATT
1 ATTTTAATATTAATATTTATT
694625 ATTTTAATAATTAA-ATTTA
1 ATTTTAAT-ATTAATATTTA
694644 AATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTAATATTAATATTTATT
Found at i:694654 original size:35 final size:35
Alignment explanation
Indices: 694615--694681 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
694605 TTTTTATATT
694615 AATATTTATTATT-TTAATAAT-TAAATTTAAATAAA
1 AATATTT-TTATTATTAA-AATATAAATTTAAATAAA
*
694650 AATATTTTTATTATTAAAATATTAATTTAAAT
1 AATATTTTTATTATTAAAATATAAATTTAAAT
694682 TAAGATGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 8 0.28
35 21 0.72
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
AATATTTTTATTATTAAAATATAAATTTAAATAAA
Found at i:694848 original size:25 final size:23
Alignment explanation
Indices: 694796--694848 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 23
694786 GATTGAAATA
694796 TATATTTTTATTTTGAAAATTTT
1 TATATTTTTATTTTGAAAATTTT
* **
694819 GATATTTTTATTGTTTGAATGTTTT
1 TATATTTTTA-T-TTTGAAAATTTT
694844 TATAT
1 TATAT
694849 AAAATATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 9 0.38
24 1 0.04
25 14 0.58
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.64
Consensus pattern (23 bp):
TATATTTTTATTTTGAAAATTTT
Found at i:700188 original size:30 final size:30
Alignment explanation
Indices: 700152--700262 Score: 161
Period size: 30 Copynumber: 3.7 Consensus size: 30
700142 TAGATAATGA
* *
700152 TGCACTAGTTCTCAATCTAAGGGATAGTGG
1 TGCACTAGTCCTTAATCTAAGGGATAGTGG
* *
700182 TGCACTAGTCCTTAAAT-TAAGGGATAATAG
1 TGCACTAGTCCTT-AATCTAAGGGATAGTGG
*
700212 TGCACTAGTCCTTAATTTAAGGGATAGTGG
1 TGCACTAGTCCTTAATCTAAGGGATAGTGG
700242 TGCACTAGTCCTTAATCTAAG
1 TGCACTAGTCCTTAATCTAAG
700263 AGATTTAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
29 3 0.04
30 66 0.92
31 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (30 bp):
TGCACTAGTCCTTAATCTAAGGGATAGTGG
Found at i:700233 original size:60 final size:60
Alignment explanation
Indices: 700144--700256 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
700134 ATTTAAATTA
*
700144 GATAATGATGCACTAGTTCTCAATCTAAGGGATAGTGGTGCACTAGTCCTTAAATTAAGG
1 GATAATGATGCACTAGTCCTCAATCTAAGGGATAGTGGTGCACTAGTCCTTAAATTAAGG
* *
700204 GATAAT-AGTGCACTAGTCCTTAATTTAAGGGATAGTGGTGCACTAGTCCTTAA
1 GATAATGA-TGCACTAGTCCTCAATCTAAGGGATAGTGGTGCACTAGTCCTTAA
700257 TCTAAGAGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
59 1 0.02
60 48 0.98
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (60 bp):
GATAATGATGCACTAGTCCTCAATCTAAGGGATAGTGGTGCACTAGTCCTTAAATTAAGG
Found at i:701431 original size:14 final size:14
Alignment explanation
Indices: 701412--701461 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
701402 TTATAATTAA
701412 AAAATATAAATATT
1 AAAATATAAATATT
701426 AAAATATTAAAT-TT
1 AAAATA-TAAATATT
* *
701440 AATGATATAAAAATT
1 AA-AATATAAATATT
701455 AAAATAT
1 AAAATAT
701462 TTTTTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
AAAATATAAATATT
Found at i:702504 original size:3 final size:3
Alignment explanation
Indices: 702483--702525 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
702473 CTTTTCACTA
* * *
702483 TAT TAT GAT TAT TAC TAT TAT TAT TAT CAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
702526 TAGTTTCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:702827 original size:8 final size:9
Alignment explanation
Indices: 702810--702846 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
702800 AATAAAATAA
702810 TTTTATTAT
1 TTTTATTAT
702819 TTTTA-TAT
1 TTTTATTAT
*
702827 TTTTA-AAT
1 TTTTATTAT
702835 TTTTATTAT
1 TTTTATTAT
702844 TTT
1 TTT
702847 AAACATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 15 0.60
9 10 0.40
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATTAT
Found at i:706135 original size:15 final size:17
Alignment explanation
Indices: 706111--706151 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
706101 TAAATTTAAA
706111 TTTAATTATAAAAT-A-T
1 TTTAA-TATAAAATAATT
706127 TTTAATATAAAATAATT
1 TTTAATATAAAATAATT
706144 TTTAATAT
1 TTTAATAT
706152 TTTAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.35
16 6 0.26
17 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAATATAAAATAATT
Found at i:706365 original size:17 final size:17
Alignment explanation
Indices: 706345--706385 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
706335 ATAAAATTAC
*
706345 TTTAAAATTTGAATTTA
1 TTTAAAATTTGAATTGA
**
706362 TTTATCATTTGAATTGA
1 TTTAAAATTTGAATTGA
706379 TTTAAAA
1 TTTAAAA
706386 ATTACTATTT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (17 bp):
TTTAAAATTTGAATTGA
Found at i:711871 original size:42 final size:42
Alignment explanation
Indices: 711769--711937 Score: 189
Period size: 42 Copynumber: 4.0 Consensus size: 42
711759 ACAAGTAGTT
* *
711769 TTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGA-
1 TTTAGATGAGGCAATCTCCAAGGTCAAAGCCGACAGGCAGAC
* * ** *
711810 TTGA-AAGAAGAAAAATCTCCAAGGTCAAAGCCGACAAGCAGAC
1 TTTAGATG-AG-GCAATCTCCAAGGTCAAAGCCGACAGGCAGAC
* * * **
711853 TTTAGATGAGGCAGTCTCCATGGTGAAAATCGACAGGCAGAC
1 TTTAGATGAGGCAATCTCCAAGGTCAAAGCCGACAGGCAGAC
*
711895 TTTAGATGAGGCAATCTCCAGGGTCAAAGCCGACAGGCAGAC
1 TTTAGATGAGGCAATCTCCAAGGTCAAAGCCGACAGGCAGAC
711937 T
1 T
711938 GAAGGATAGG
Statistics
Matches: 103, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
40 2 0.02
41 5 0.05
42 89 0.86
43 5 0.05
44 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.18
Consensus pattern (42 bp):
TTTAGATGAGGCAATCTCCAAGGTCAAAGCCGACAGGCAGAC
Found at i:713677 original size:21 final size:21
Alignment explanation
Indices: 713653--713692 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
713643 AATTTATCCA
713653 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
713674 AATGTATCGATACATTTGT
1 AATGTATCGATACATTTGT
713693 GTCCCAACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:713765 original size:13 final size:13
Alignment explanation
Indices: 713747--713771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
713737 ACATAAGTTT
713747 TGTATCGATACAA
1 TGTATCGATACAA
713760 TGTATCGATACA
1 TGTATCGATACA
713772 TAATTAGCTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:715947 original size:31 final size:28
Alignment explanation
Indices: 715865--715936 Score: 96
Period size: 26 Copynumber: 2.6 Consensus size: 28
715855 CTTCACAATC
*
715865 GGGGATACTCCAACCCCGTTA-AT-C-A
1 GGGGATACTCCAACCCCGTTATTTCCGA
*
715890 TCGGGATACTCCAACCCCGTTATTTCCGA
1 -GGGGATACTCCAACCCCGTTATTTCCGA
715919 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
715937 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 20 0.50
27 1 0.03
28 18 0.45
29 1 0.03
ACGTcount: A:0.24, C:0.35, G:0.21, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:716090 original size:52 final size:51
Alignment explanation
Indices: 715756--716143 Score: 261
Period size: 55 Copynumber: 7.4 Consensus size: 51
715746 AATTCTCCAC
* * * *
715756 AATCGGGGATATTCCAACTCTGA-TTTATTTTCAAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-AT
* * * *
715806 AATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC---AAAACACTAATTT-TTCAT
* * ** * * * *
715861 AATCGGGGATACTCCAACCCCG--TTAATCATCGGGATACTCCAACCCCGTTATTTC-C
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTC-CAAAACACTAA-----TT-TTTCAT
* * * * *
715917 GA--GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCAT
* * * *
715966 AATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAA----TTTTTCAT
* * * *
716021 AATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-AT
*
716073 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAA-ACATCAATTTTTCAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC-T-AATTTTTCAT
*
716125 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
716144 TCGTTATTTC
Statistics
Matches: 262, Mismatches: 50, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
50 20 0.08
51 47 0.18
52 60 0.23
53 11 0.04
54 32 0.12
55 70 0.27
56 9 0.03
57 5 0.02
58 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCAT
Found at i:716162 original size:28 final size:30
Alignment explanation
Indices: 716126--716202 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 30
716116 ATTTTTCATA
716126 ATCGAGGATACTCCAACCTCGTTA-TTTC-
1 ATCGAGGATACTCCAACCTCGTTACTTTCG
*
716154 ATCGAGGATACTCCAACCCCGTTACTTTCG
1 ATCGAGGATACTCCAACCTCGTTACTTTCG
*
716184 A--GGGGATACTCCAACCTCG
1 ATCGAGGATACTCCAACCTCG
716203 GCTTTATTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 39 0.89
29 4 0.09
30 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (30 bp):
ATCGAGGATACTCCAACCTCGTTACTTTCG
Found at i:716253 original size:266 final size:264
Alignment explanation
Indices: 715753--716253 Score: 776
Period size: 266 Copynumber: 1.9 Consensus size: 264
715743 CTCAATTCTC
* * * *
715753 CACAATCGGGGATATTCCAACTCTGATTTATTTTCAAAACACTAATTTTCTATAATCAGGGATAC
1 CACAATCGAGGATACTCCAACCCCGATTTATTTTCAAAACACTAATTTTCTATAATCAGGGATAC
*
715818 TCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCG
66 TCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCG
715883 TTAATCATCGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCC
130 TTAATCATCGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCC
*
715948 AAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
195 AAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
716013 TTTTT
260 TTTTT
* *
716018 CACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCCTTTAATCGGGGAT
1 CACAATCGAGGATACTCCAACCCCGA-TTTATTTTCAAAACACTAATTTT-CTATAATCAGGGAT
* * *
716083 ACTCCAACTCCGATTTTATTTCC-AAAAACATCAATTT-TTCATAATCGAGGATACTCCAACCTC
64 ACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCC
* * *
716146 GTTATTTCATCGAGGATACTCCAACCCCGTTACTTT-CGAGGGGATACTCCAACCTCGGCTTTA-
129 GTTA-ATCATCG-GGATACTCCAACCCCGTTA-TTTCCGAGGGGATACTCCAACCCCGACTTTAT
*
716209 TTCTCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
191 TTC-CAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
716254 TTATTTTCGA
Statistics
Matches: 215, Mismatches: 15, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
264 27 0.13
265 44 0.20
266 106 0.49
267 38 0.18
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (264 bp):
CACAATCGAGGATACTCCAACCCCGATTTATTTTCAAAACACTAATTTTCTATAATCAGGGATAC
TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGT
TAATCATCGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCA
AAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
TTTT
Found at i:716339 original size:78 final size:77
Alignment explanation
Indices: 716159--716357 Score: 229
Period size: 78 Copynumber: 2.5 Consensus size: 77
716149 ATTTCATCGA
* * *
716159 GGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCTCGGCTTTATTCTCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-C-GATTTATTCTCAAAATATCGA
* **
716224 TTTCTCATAATTGG
64 TTTCTCACAACCGG
* * *
716238 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCATCGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGATTTATTCTCAAAAT-ATCGA
716302 TTTCTCACAACCGG
64 TTTCTCACAACCGG
* * * * *
716316 GGATACTCCAGCCCCGTTTTTTTCAAGGGAACACTCCAACCC
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
716358 CGTTATTATC
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
77 6 0.06
78 57 0.55
79 39 0.38
80 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (77 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGATTTATTCTCAAAATATCGATT
TCTCACAACCGG
Found at i:725851 original size:25 final size:26
Alignment explanation
Indices: 725819--725882 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
725809 AAAATATAAA
725819 TATATATATAATTAA-TAAAATTTAT
1 TATATATATAATTAATTAAAATTTAT
* **
725844 TGAT-TATATTA-TAATTAATTTTTAT
1 T-ATATATATAATTAATTAAAATTTAT
725869 TATATATATAATTA
1 TATATATATAATTA
725883 TATATTCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
24 5 0.16
25 22 0.71
26 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TATATATATAATTAATTAAAATTTAT
Found at i:727092 original size:4 final size:4
Alignment explanation
Indices: 727085--727115 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
727075 AATTAAAACC
727085 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
727116 ATGTGACATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:727485 original size:16 final size:18
Alignment explanation
Indices: 727464--727504 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
727454 CGATATTATA
727464 TATATTAATA-TA-TTTT
1 TATATTAATATTATTTTT
*
727480 TATATTTATATTATTTTT
1 TATATTAATATTATTTTT
727498 TATATTA
1 TATATTA
727505 CGTTGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 9 0.43
17 2 0.10
18 10 0.48
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATTAATATTATTTTT
Found at i:728086 original size:17 final size:17
Alignment explanation
Indices: 728046--728091 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
728036 AATTTGATTA
*
728046 ATTAATA-TTTATAAAT
1 ATTAATATTTTTTAAAT
*
728062 ATTAAATATTTTTTAATT
1 ATT-AATATTTTTTAAAT
728080 ATTAATATTTTT
1 ATTAATATTTTT
728092 ATTTAATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 3 0.12
17 13 0.50
18 10 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTAATATTTTTTAAAT
Found at i:728459 original size:25 final size:25
Alignment explanation
Indices: 728396--728461 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
728386 TAATATATTT
728396 ATAAAAA-TATTAA-AATTTATATA
1 ATAAAAATTATTAATAATTTATATA
*
728419 ATATAAATTATTAATAATTT-TATA
1 ATAAAAATTATTAATAATTTATATA
728443 A-AAAAATTTATATAATAAT
1 ATAAAAA-TTAT-TAATAAT
728462 GTAATTTGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
23 10 0.27
24 15 0.41
25 12 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAAAAATTATTAATAATTTATATA
Found at i:728497 original size:12 final size:12
Alignment explanation
Indices: 728480--728509 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
728470 TATTACATGT
728480 AATAATTAATAA
1 AATAATTAATAA
*
728492 AATAATTAATAT
1 AATAATTAATAA
728504 AATAAT
1 AATAAT
728510 CTTAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATAATTAATAA
Found at i:729647 original size:3 final size:3
Alignment explanation
Indices: 729639--729677 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
729629 AATTTTCTCC
729639 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
729678 ATTATTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:729716 original size:3 final size:3
Alignment explanation
Indices: 729708--729735 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
729698 ATTTTCTCCC
729708 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
729736 CAAATGCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:729916 original size:17 final size:17
Alignment explanation
Indices: 729894--729942 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
729884 TTTGAACCGG
729894 TAAATATAATATAAAAA
1 TAAATATAATATAAAAA
*
729911 TAAATATAATAT-AAAT
1 TAAATATAATATAAAAA
729927 TAAATAT-AT-TAAAAA
1 TAAATATAATATAAAAA
729942 T
1 T
729943 TAGTGTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 10 0.34
17 12 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATATAATATAAAAA
Found at i:729932 original size:16 final size:16
Alignment explanation
Indices: 729894--729944 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
729884 TTTGAACCGG
*
729894 TAAATATAATATAAAAA
1 TAAATATAATAT-AAAT
729911 TAAATATAATATAAAT
1 TAAATATAATATAAAT
* *
729927 TAAATATATTAAAAAT
1 TAAATATAATATAAAT
729943 TA
1 TA
729945 GTGTAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
16 19 0.61
17 12 0.39
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAATATAATATAAAT
Found at i:730744 original size:23 final size:27
Alignment explanation
Indices: 730697--730745 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 27
730687 CTAATTTTTA
730697 AAATATTATTTAAATTTAAATCAAATC
1 AAATATTATTTAAATTTAAATCAAATC
730724 AAAT-TTA-TTAAA-TT-AATCAAAT
1 AAATATTATTTAAATTTAAATCAAAT
730746 AATCTTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.36
24 2 0.09
25 5 0.23
26 3 0.14
27 4 0.18
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (27 bp):
AAATATTATTTAAATTTAAATCAAATC
Found at i:731188 original size:2 final size:2
Alignment explanation
Indices: 731181--731219 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
731171 AGCAATAGTT
731181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
731220 GAATTTCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:731832 original size:15 final size:16
Alignment explanation
Indices: 731792--731843 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
731782 TTAATATATA
*
731792 AATATATTAAAATTTAT
1 AATATA-TAAAATGTAT
*
731809 AAAATATAAAATGT-T
1 AATATATAAAATGTAT
*
731824 AATATAT-AAATATAT
1 AATATATAAAATGTAT
731839 AATAT
1 AATAT
731844 TTATATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.17
15 13 0.43
16 7 0.23
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AATATATAAAATGTAT
Found at i:731851 original size:15 final size:15
Alignment explanation
Indices: 731823--731876 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
731813 TATAAAATGT
*
731823 TAATATATAAATATA
1 TAATATATATATATA
*
731838 TAATATTTATATATAA
1 TAATATATATATAT-A
* *
731854 TTAATATATATAAAAA
1 -TAATATATATATATA
731870 TAATATA
1 TAATATA
731877 AATACGAGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 19 0.59
16 2 0.06
17 11 0.34
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATATATATATATA
Found at i:731873 original size:32 final size:32
Alignment explanation
Indices: 731756--731875 Score: 90
Period size: 32 Copynumber: 3.8 Consensus size: 32
731746 ATATAAAATT
731756 TAATTAAATATGATATAAAAATAAT-TTTA-ATA
1 TAATT-AATAT-ATATAAAAATAATATTTATATA
* * * **
731788 T-ATAAATATAT-TAAAATTTATA-AAATATA
1 TAATTAATATATATAAAAATAATATTTATATA
* *
731817 AAATGTTAATATATA-AATATATAATATTTATATA
1 TAA--TTAATATATATAA-AAATAATATTTATATA
731851 TAATTAATATATATAAAAATAATAT
1 TAATTAATATATATAAAAATAATAT
731876 AAATACGAGT
Statistics
Matches: 65, Mismatches: 14, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
28 9 0.14
29 5 0.08
30 6 0.09
31 2 0.03
32 29 0.45
33 7 0.11
34 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (32 bp):
TAATTAATATATATAAAAATAATATTTATATA
Found at i:732485 original size:10 final size:10
Alignment explanation
Indices: 732472--732502 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
732462 TTTAATTTTA
732472 TTTAAATATT
1 TTTAAATATT
*
732482 TTTAAATAAT
1 TTTAAATATT
732492 TTTAAATATT
1 TTTAAATATT
732502 T
1 T
732503 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAAATATT
Found at i:732508 original size:20 final size:20
Alignment explanation
Indices: 732472--732510 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
732462 TTTAATTTTA
**
732472 TTTAAATATTTTTAAATAAT
1 TTTAAATATTTAAAAATAAT
732492 TTTAAATATTTAAAAATAA
1 TTTAAATATTTAAAAATAA
732511 AAATTCAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTAAATATTTAAAAATAAT
Found at i:732626 original size:16 final size:16
Alignment explanation
Indices: 732605--732636 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
732595 CATATTATAC
*
732605 ATTTATATTTGAATAT
1 ATTTATATTCGAATAT
732621 ATTTATATTCGAATAT
1 ATTTATATTCGAATAT
732637 GTATAAATTC
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:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
ATTTATATTCGAATAT
Found at i:733849 original size:3 final size:3
Alignment explanation
Indices: 733841--733870 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
733831 GAACCAGTGT
*
733841 GAA GAA GAA GGA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
733871 AGTGCGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:734556 original size:23 final size:21
Alignment explanation
Indices: 734520--734601 Score: 62
Period size: 23 Copynumber: 3.8 Consensus size: 21
734510 TTAAATTTAA
*
734520 TTTTAATTA-AATTATATTAT
1 TTTTAATAATAATTATATTAT
*
734540 TATTTAAGTAATAATTAAATTTAT
1 T-TTTAA-TAATAATTATA-TTAT
734564 TTTTAATTTAATATATT-TATTAT
1 TTTTAA--TAATA-ATTATATTAT
*
734587 GTTTAATAA-AATTAT
1 TTTTAATAATAATTAT
734602 TTAAAAAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
19 3 0.06
20 3 0.06
21 8 0.16
22 2 0.04
23 20 0.40
24 11 0.22
25 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTAATAATAATTATATTAT
Found at i:735153 original size:25 final size:24
Alignment explanation
Indices: 735102--735153 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
735092 CATTAAAACT
* * **
735102 TTTTAAATAATAGTAATTAATTTA
1 TTTTAAATAAAAATAATTAATAAA
735126 TTTTAAATAAAAATAATTTAATAAA
1 TTTTAAATAAAAATAA-TTAATAAA
735151 TTT
1 TTT
735154 ATCTCAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTTTAAATAAAAATAATTAATAAA
Found at i:735162 original size:29 final size:30
Alignment explanation
Indices: 735106--735162 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
735096 AAAACTTTTT
* * *
735106 AAATAATAGTAATTAATTTATTTTAAATAA
1 AAATAATAGTAATAAATTTATCTCAAATAA
*
735136 AAATAAT-TTAATAAATTTATCTCAAAT
1 AAATAATAGTAATAAATTTATCTCAAAT
735163 TTAATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (30 bp):
AAATAATAGTAATAAATTTATCTCAAATAA
Found at i:736962 original size:11 final size:10
Alignment explanation
Indices: 736921--736954 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
736911 TTTTTGTATA
*
736921 AAAAATGAAT
1 AAAAATAAAT
736931 -AAAATAAAT
1 AAAAATAAAT
736940 AAAAATAAAT
1 AAAAATAAAT
736950 AAAAA
1 AAAAA
736955 CTACATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:737732 original size:16 final size:15
Alignment explanation
Indices: 737710--737750 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
737700 GTATATTCAT
737710 ATTATTTTTATTTATA
1 ATTATTTTTATTT-TA
*
737726 CTTATTTTATATTTTA
1 ATTATTTT-TATTTTA
737742 ATTATTTTT
1 ATTATTTTT
737751 TATGTCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTATTTTTATTTTA
Found at i:739113 original size:9 final size:9
Alignment explanation
Indices: 739094--739139 Score: 67
Period size: 9 Copynumber: 5.0 Consensus size: 9
739084 ATTTGTTAAA
739094 AAATAAAAAT
1 AAAT-AAAAT
739104 AAATAAAAT
1 AAATAAAAT
739113 -AATAAAAT
1 AAATAAAAT
739121 AAATAAAAT
1 AAATAAAAT
739130 AAATATAAAT
1 AAATA-AAAT
739140 CGAATATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.24
9 18 0.53
10 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAAAT
Found at i:739119 original size:17 final size:18
Alignment explanation
Indices: 739090--739131 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
739080 TTGAATTTGT
739090 TAAAA-AATAAAAATAAA
1 TAAAATAATAAAAATAAA
739107 TAAAATAAT-AAAATAAA
1 TAAAATAATAAAAATAAA
739124 TAAAATAA
1 TAAAATAA
739132 ATATAAATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAATAATAAAAATAAA
Found at i:739229 original size:23 final size:22
Alignment explanation
Indices: 739171--739243 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 22
739161 TCAAATTTAA
*
739171 ATTTAAAATTTAATTAAAA-A-
1 ATTTAAAATTTAAATAAAATAT
* *
739191 AATTAAAATAATAAATAAAATAT
1 ATTTAAAAT-TTAAATAAAATAT
739214 ATTTAAAATTTCAAATAAAATCTAT
1 ATTTAAAATTT-AAATAAAA--TAT
739239 ATTTA
1 ATTTA
739244 CCAAATATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
20 8 0.19
21 8 0.19
22 2 0.05
23 16 0.38
25 8 0.19
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTTAAAATTTAAATAAAATAT
Found at i:739283 original size:25 final size:25
Alignment explanation
Indices: 739246--739303 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
739236 TATATTTACC
*
739246 AAATATAATTTTT-TAAAAAATTATATT
1 AAATA-AATTTTTATAAAGAA-T-TATT
739273 AAATAAATTTTTATAAAGAATTATT
1 AAATAAATTTTTATAAAGAATTATT
739298 AAATAA
1 AAATAA
739304 GTACTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 10 0.34
26 8 0.28
27 11 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AAATAAATTTTTATAAAGAATTATT
Found at i:739617 original size:24 final size:25
Alignment explanation
Indices: 739584--739633 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
739574 GTTAATTGAG
739584 TTAATATAATAAATT-AATTATTTA
1 TTAATATAATAAATTAAATTATTTA
* *
739608 TTAATTTAATTAATTAAATTATTTA
1 TTAATATAATAAATTAAATTATTTA
739633 T
1 T
739634 AAGTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTAATATAATAAATTAAATTATTTA
Found at i:739646 original size:24 final size:23
Alignment explanation
Indices: 739594--739652 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
739584 TTAATATAAT
739594 AAATT-AATTATTTATTAATTTA
1 AAATTAAATTATTTATTAATTTA
739616 ATTAATTAAATTATTTA-TAAGTTTTA
1 A--AATTAAATTATTTATTAA--TTTA
*
739642 AAATTATATTA
1 AAATTAAATTA
739653 ATAATATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
22 1 0.03
24 16 0.52
25 9 0.29
26 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AAATTAAATTATTTATTAATTTA
Found at i:748366 original size:36 final size:36
Alignment explanation
Indices: 748297--748368 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
748287 TATAAATTTT
* *
748297 TTAATATTCTAATTATGATTACAAGATCATAATCTC
1 TTAATATTCTAATTATAATTACAAAATCATAATCTC
**
748333 TTAATATTCTAATTATAATTACAAAATTGTAATCTC
1 TTAATATTCTAATTATAATTACAAAATCATAATCTC
748369 AAACTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.43
Consensus pattern (36 bp):
TTAATATTCTAATTATAATTACAAAATCATAATCTC
Found at i:749728 original size:8 final size:8
Alignment explanation
Indices: 749704--749733 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
749694 AGAGAAAAAG
749704 AAAAAGAA
1 AAAAAGAA
749712 AAGAAAGAA
1 AA-AAAGAA
749721 AAAAAGAA
1 AAAAAGAA
749729 AAAAA
1 AAAAA
749734 ATTATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:749749 original size:6 final size:6
Alignment explanation
Indices: 749740--749780 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
749730 AAAAATTATG
749740 TATTTA TATTTA TATTT- T-TTTA TATTTA TAATATTA TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTTA T-AT-TTA TATTT
749781 TTGTATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 3 0.10
5 2 0.06
6 18 0.58
7 4 0.13
8 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:749765 original size:22 final size:24
Alignment explanation
Indices: 749740--749787 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
749730 AAAAATTATG
*
749740 TATTTAT-AT-TTATATTTTTTTA
1 TATTTATAATATTATATTTTTGTA
749762 TATTTATAATATTATATTTTTGTA
1 TATTTATAATATTATATTTTTGTA
749786 TA
1 TA
749788 AATTTTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 2 0.09
24 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTTATAATATTATATTTTTGTA
Found at i:749808 original size:37 final size:39
Alignment explanation
Indices: 749753--749827 Score: 93
Period size: 37 Copynumber: 2.0 Consensus size: 39
749743 TTATATTTAT
* *
749753 ATTTTTTTATATTTATAA-T-ATTATATTTT-TGTATAA
1 ATTTTTTCATATTAATAATTAATTATATTTTATGTATAA
*
749789 ATTTTTTACATATTAATAATTAATTTTATTTTATGTATA
1 ATTTTTT-CATATTAATAATTAATTATATTTTATGTATA
749828 TTTTTATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 7 0.22
37 9 0.28
38 1 0.03
39 9 0.28
40 6 0.19
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (39 bp):
ATTTTTTCATATTAATAATTAATTATATTTTATGTATAA
Found at i:750663 original size:18 final size:19
Alignment explanation
Indices: 750640--750677 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
750630 TATATTTATA
750640 TCGTGTT-TATATTATTTT
1 TCGTGTTGTATATTATTTT
*
750658 TCGTGTTGTATTTTATTTT
1 TCGTGTTGTATATTATTTT
750677 T
1 T
750678 TATATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.13, C:0.05, G:0.13, T:0.68
Consensus pattern (19 bp):
TCGTGTTGTATATTATTTT
Found at i:751378 original size:16 final size:16
Alignment explanation
Indices: 751357--751406 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
751347 ATGTTTATGT
751357 TCATATTATTTTTGTG
1 TCATATTATTTTTGTG
*
751373 TCATATTA-TATT-T-
1 TCATATTATTTTTGTG
751386 T-A-ATTATTTTTGTG
1 TCATATTATTTTTGTG
751400 TCATATT
1 TCATATT
751407 GTATTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 10
0.69 0.05 0.26
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 2 0.07
14 2 0.07
15 4 0.15
16 11 0.41
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.62
Consensus pattern (16 bp):
TCATATTATTTTTGTG
Found at i:751391 original size:27 final size:27
Alignment explanation
Indices: 751361--751420 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
751351 TTATGTTCAT
751361 ATTATTTTTGTGTCATATTATATTTTA
1 ATTATTTTTGTGTCATATTATATTTTA
*
751388 ATTATTTTTGTGTCATATTGTATTTTA
1 ATTATTTTTGTGTCATATTATATTTTA
751415 ATTATT
1 ATTATT
751421 ATTATCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.03, G:0.08, T:0.63
Consensus pattern (27 bp):
ATTATTTTTGTGTCATATTATATTTTA
Found at i:751494 original size:13 final size:14
Alignment explanation
Indices: 751464--751538 Score: 66
Period size: 13 Copynumber: 5.4 Consensus size: 14
751454 TTTTTATATA
*
751464 ATTAAATTTTAATT
1 ATTAAATTTTATTT
751478 -TTAAA-TTTATTT
1 ATTAAATTTTATTT
* *
751490 ATTAAATATT-TTA
1 ATTAAATTTTATTT
* *
751503 AATAAATTTTATTA
1 ATTAAATTTTATTT
751517 ATTATAATTTTATTT
1 ATTA-AATTTTATTT
751532 AATTAAA
1 -ATTAAA
751539 AATTTTATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
12 6 0.12
13 20 0.41
14 8 0.16
15 11 0.22
16 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTAAATTTTATTT
Found at i:751508 original size:26 final size:26
Alignment explanation
Indices: 751455--751528 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
751445 TATATAATTT
*
751455 TTTTATATAATT-AAATTTTAATTTTAAA
1 TTTTAT-TAATTAAAATTTTAA--ATAAA
*
751483 -TTTATTTATTAAATATTTTAAATAAA
1 TTTTATTAATTAAA-ATTTTAAATAAA
*
751509 TTTTATTAATTATAATTTTA
1 TTTTATTAATTAAAATTTTA
751529 TTTAATTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
26 14 0.36
27 18 0.46
28 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTATTAATTAAAATTTTAAATAAA
Found at i:752007 original size:36 final size:36
Alignment explanation
Indices: 751949--752018 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
751939 TTTATAATTT
*
751949 TTTTAATTATATTTTTTTATAAAAATAAAATTTTGA
1 TTTTAATTATATTTTTTGATAAAAATAAAATTTTGA
* *
751985 TTTT-ATTTTATTTATTTGATAAAAATAATATTTT
1 TTTTAATTATATTT-TTTGATAAAAATAAAATTTT
752019 TTTTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (36 bp):
TTTTAATTATATTTTTTGATAAAAATAAAATTTTGA
Found at i:752109 original size:30 final size:30
Alignment explanation
Indices: 752073--752145 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
752063 TTACTACATC
**
752073 TAAATAAATTTTTAATTTTTAAATTATTAT
1 TAAATAAATTTTTAATTTTTAAATTACAAT
**
752103 TAAATAAACATTTAATTTTTAAATTACAAT
1 TAAATAAATTTTTAATTTTTAAATTACAAT
*
752133 TAAATAATTTTTT
1 TAAATAAATTTTT
752146 TAAAATTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (30 bp):
TAAATAAATTTTTAATTTTTAAATTACAAT
Found at i:752248 original size:16 final size:16
Alignment explanation
Indices: 752215--752257 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
752205 AAATCAATCT
752215 TTTATTAAA-AATAAA
1 TTTATTAAATAATAAA
752230 TTTATTCAAATAA-AAA
1 TTTATT-AAATAATAAA
752246 TTTATTTAAATA
1 TTTA-TTAAATA
752258 TAATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTATTAAATAATAAA
Found at i:753003 original size:16 final size:17
Alignment explanation
Indices: 752966--753021 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
752956 TGGATATAAT
* *
752966 ATAATTACATATTATAA
1 ATAATTACATATAAAAA
752983 A-AATTACATA-AAAAA
1 ATAATTACATATAAAAA
*
752998 ATAATTAAAATATAAAAAA
1 ATAATT-ACATAT-AAAAA
753017 ATAAT
1 ATAAT
753022 AAAAAATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 4 0.12
16 13 0.41
17 5 0.16
19 10 0.31
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAATTACATATAAAAA
Found at i:753007 original size:11 final size:11
Alignment explanation
Indices: 752993--753042 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 11
752983 AAATTACATA
752993 AAAAAATAATT
1 AAAAAATAATT
*
753004 --AAAAT-ATA
1 AAAAAATAATT
753012 AAAAAATAA-T
1 AAAAAATAATT
753022 AAAAAATAATAT
1 AAAAAATAAT-T
753034 AAAAAATAA
1 AAAAAATAA
753043 ATTCGTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
8 2 0.06
9 5 0.16
10 14 0.44
11 1 0.03
12 10 0.31
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAATAATT
Found at i:753007 original size:22 final size:20
Alignment explanation
Indices: 752979--753042 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 20
752969 ATTACATATT
752979 ATAAAAATTACATAAAAAAATA
1 ATAAAAA-TA-ATAAAAAAATA
*
753001 ATTAAAAT-ATAAAAAAATA
1 ATAAAAATAATAAAAAAATA
753020 ATAAAAAATAATATAAAAAATA
1 AT-AAAAATAATA-AAAAAATA
753042 A
1 A
753043 ATTCGTACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
19 13 0.35
20 5 0.14
21 4 0.11
22 15 0.41
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
ATAAAAATAATAAAAAAATA
Found at i:753012 original size:19 final size:21
Alignment explanation
Indices: 752979--753042 Score: 78
Period size: 19 Copynumber: 3.0 Consensus size: 21
752969 ATTACATATT
*
752979 ATAAAAATTACATAAAAAAATA
1 ATAAAAAATA-ATAAAAAAATA
*
753001 AT-TAAAAT-ATAAAAAAATA
1 ATAAAAAATAATAAAAAAATA
753020 ATAAAAAATAATATAAAAAATA
1 ATAAAAAATAATA-AAAAAATA
753042 A
1 A
753043 ATTCGTACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 13 0.36
20 5 0.14
21 7 0.19
22 11 0.31
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAAAAATAATAAAAAAATA
Found at i:753014 original size:30 final size:29
Alignment explanation
Indices: 752978--753043 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
752968 AATTACATAT
*
752978 TATAAAAATTACATAAAAAAATAAT-TAAAA
1 TATAAAAAATA-AT-AAAAAATAATATAAAA
753008 TATAAAAAAATAATAAAAAATAATATAAAA
1 TAT-AAAAAATAATAAAAAATAATATAAAA
*
753038 AATAAA
1 TATAAA
753044 TTCGTACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 13 0.41
30 12 0.38
31 7 0.22
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (29 bp):
TATAAAAAATAATAAAAAATAATATAAAA
Done.