Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3030620
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:627708 original size:68 final size:68
Alignment explanation
Indices: 627618--627940 Score: 520
Period size: 68 Copynumber: 4.8 Consensus size: 68
627608 ACTTAACCGC
* *
627618 TCATCTAACTGGCATAATTGACACCTTTCTATCAAATACACAGTTAGGCCTCAAAGGCACTTAGC
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
627683 CTT
66 CTT
627686 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
627751 CTT
66 CTT
* *
627754 TCATCTAACTGGCATAATTGGCACCTTTCTGTCAAATGAACAGTTAGGCCTCAAAGGCACTTAGC
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
627819 CTT
66 CTT
** * * * * *
627822 TCATCTAACTGATATAGTTAACACCTTTCTGTCAAATGTACAGTTAGTCCTCAAAGGTACTTAGC
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
627887 CTT
66 CTT
** *
627890 TCATCTAACTAACATAATTGACACCTTTATGTCAAATGCACAGTTAGGCCT
1 TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCT
627941 TTAATCTTTT
Statistics
Matches: 236, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 236 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (68 bp):
TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAGC
CTT
Found at i:628362 original size:59 final size:59
Alignment explanation
Indices: 628294--628557 Score: 413
Period size: 59 Copynumber: 4.5 Consensus size: 59
628284 TCCCATACGA
* * * * * * *
628294 AAATTCATACACTTAGGATGAATTTCTTATTATTTTAGCACAC-AAGGTGCCCTATCTAG
1 AAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAA-GTGCCCTATATGG
* *
628353 AAATTCATACACTTAGTATGAATTCCTTCCCATGTTAGCACATGAAGTGCCCTATATGG
1 AAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGG
*
628412 AAATTCATACAGTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGG
1 AAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGG
628471 AAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGG
1 AAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGG
*
628530 AAATTCATACACTTAATATGAATTCCTT
1 AAATTCATACACTTAGTATGAATTCCTT
628558 AACATTTTGC
Statistics
Matches: 190, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
59 188 0.99
60 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCTATATGG
Found at i:629061 original size:94 final size:95
Alignment explanation
Indices: 628899--629122 Score: 292
Period size: 94 Copynumber: 2.3 Consensus size: 95
628889 TCTAGCTCCA
* * * * ***
628899 TAGTATCGATA-CTACTACCCTGGTA-CTGATACTTCTATGCTATGGTACCGATACCCCCTTTTG
1 TAGTATCGATACCT--TACCATGGTATC-GATACTACCATCCTATGGTACCGATACCCCCTTCCA
* * *
628962 GTATCGATACCAA-TTTTAGGTTCGATGTTTTC
63 GTATCGATACCAATTTTTAGATTCGATGATTCC
628994 TAGTATCGATACCTTACCATGGTATCGATACTACCATCCTATGGTACCGATACCCCCTTCCAGTA
1 TAGTATCGATACCTTACCATGGTATCGATACTACCATCCTATGGTACCGATACCCCCTTCCAGTA
629059 TCGATACCAATTTTTAGATTCGATGATTCC
66 TCGATACCAATTTTTAGATTCGATGATTCC
*
629089 TGGTATCGATACTCTTACCATGGTATCGATACTA
1 TAGTATCGATAC-CTTACCATGGTATCGATACTA
629123 TCTCTTCGGT
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
94 52 0.46
95 39 0.34
96 23 0.20
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (95 bp):
TAGTATCGATACCTTACCATGGTATCGATACTACCATCCTATGGTACCGATACCCCCTTCCAGTA
TCGATACCAATTTTTAGATTCGATGATTCC
Found at i:629721 original size:43 final size:43
Alignment explanation
Indices: 629660--629745 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
629650 AAAAATTTAC
*
629660 CTTTGGAACTATGGAGGAGAGCAACCCAC-GTGAGAGAAGAATA
1 CTTTGGAACTATGGAGGAGAGCAAACCACAG-GAGAGAAGAATA
* *
629703 CTTTGGAACTATGGAGGAGTGCAAATCACAGGAGAGAAGAATA
1 CTTTGGAACTATGGAGGAGAGCAAACCACAGGAGAGAAGAATA
629746 AGAGGAAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.97
44 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.30, T:0.17
Consensus pattern (43 bp):
CTTTGGAACTATGGAGGAGAGCAAACCACAGGAGAGAAGAATA
Found at i:632165 original size:19 final size:20
Alignment explanation
Indices: 632137--632174 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
632127 TCTTTATTTC
632137 ATTTCATTTCATT-CTTATT
1 ATTTCATTTCATTACTTATT
*
632156 ATTTCTTTTCATTACTTAT
1 ATTTCATTTCATTACTTAT
632175 ATTATTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTCATTTCATTACTTATT
Found at i:632467 original size:25 final size:25
Alignment explanation
Indices: 632439--632486 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
632429 GCAAAAAGAA
632439 AGAAAAGACA-AAAAGAAAAAAAATC
1 AGAAAAGA-AGAAAAGAAAAAAAATC
*
632464 AGAATAGAAGAAAAGAAAAAAAA
1 AGAAAAGAAGAAAAGAAAAAAAA
632487 AGAATTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.77, C:0.04, G:0.15, T:0.04
Consensus pattern (25 bp):
AGAAAAGAAGAAAAGAAAAAAAATC
Found at i:634977 original size:30 final size:31
Alignment explanation
Indices: 634925--634984 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
634915 CTTAGCTTTA
**
634925 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
634955 TATTATGTTTGCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
634985 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:636933 original size:25 final size:25
Alignment explanation
Indices: 636905--636952 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
636895 GCAAAAAGAA
636905 AGAAAAGACA-AAAAGAAAAAAAATT
1 AGAAAAGA-AGAAAAGAAAAAAAATT
*
636930 AGAATAGAAGAAAAGAAAAAAAA
1 AGAAAAGAAGAAAAGAAAAAAAA
636953 AAGAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (25 bp):
AGAAAAGAAGAAAAGAAAAAAAATT
Found at i:639439 original size:30 final size:31
Alignment explanation
Indices: 639387--639446 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
639377 CTTAGCTTTA
**
639387 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
639417 TATTATGTTTTCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
639447 GGCATCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:641103 original size:19 final size:20
Alignment explanation
Indices: 641075--641112 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
641065 ATTTCATTTC
641075 ATTTCATTTCATT-CTTATT
1 ATTTCATTTCATTACTTATT
*
641094 ATTTCTTTTCATTACTTAT
1 ATTTCATTTCATTACTTAT
641113 ATTATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTCATTTCATTACTTATT
Found at i:641430 original size:24 final size:24
Alignment explanation
Indices: 641371--641431 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
641361 ATTGGAGTGC
* *
641371 AAAAAGAAAGAAAAGATAAAAAGA
1 AAAAAAAAAGAATAGATAAAAAGA
**
641395 AAAAAATCAGAATAGA-AGAAAAGA
1 AAAAAAAAAGAATAGATA-AAAAGA
641419 AAAAAAAAAGAAT
1 AAAAAAAAAGAAT
641432 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.07
Consensus pattern (24 bp):
AAAAAAAAAGAATAGATAAAAAGA
Found at i:644090 original size:13 final size:13
Alignment explanation
Indices: 644072--644101 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
644062 CTTAGTTGCG
644072 AAAATTAAAATTT
1 AAAATTAAAATTT
*
644085 AAAATTGAAATTT
1 AAAATTAAAATTT
644098 AAAA
1 AAAA
644102 ATTCAGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:644381 original size:20 final size:20
Alignment explanation
Indices: 644356--644413 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
644346 ATATGAGGTA
644356 AAAAAATAC-TAATAATAATT
1 AAAAAATACATAATAATAA-T
*
644376 AAAAAA-ACATGATAATAAT
1 AAAAAATACATAATAATAAT
*
644395 AAATAAATAAATAA-AATAA
1 AAA-AAATACATAATAATAA
644414 GAATTTAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 6 0.19
20 22 0.69
21 4 0.12
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATACATAATAATAAT
Found at i:644381 original size:23 final size:23
Alignment explanation
Indices: 644355--644401 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
644345 CATATGAGGT
*
644355 AAAAAAAT-ACTAATAATAATTAA
1 AAAAAAATGA-TAATAATAAATAA
*
644378 AAAAACATGATAATAATAAATAA
1 AAAAAAATGATAATAATAAATAA
644401 A
1 A
644402 TAAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAAAATGATAATAATAAATAA
Found at i:645459 original size:6 final size:6
Alignment explanation
Indices: 645448--645474 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
645438 ACCCTGCAAC
645448 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
645475 TAAGTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:645468 original size:11 final size:11
Alignment explanation
Indices: 645448--645538 Score: 55
Period size: 12 Copynumber: 7.9 Consensus size: 11
645438 ACCCTGCAAC
645448 AAAATAAAAAT
1 AAAATAAAAAT
645459 AAAAATAAAAAT
1 -AAAATAAAAAT
*
645471 AAAAT--AAGT
1 AAAATAAAAAT
645480 AAAATAAATAAT
1 AAAATAAA-AAT
*
645492 -AAATAAATAAC
1 AAAATAAA-AAT
645503 AAAAGGTAAATAA-
1 AAAA--TAAA-AAT
645516 ATAAATAAAAAAT
1 A-AAAT-AAAAAT
*
645529 AAACTAAAAA
1 AAAATAAAAA
645539 AAACATTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
9 8 0.12
11 21 0.32
12 22 0.33
13 5 0.08
14 10 0.15
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:645490 original size:4 final size:4
Alignment explanation
Indices: 645467--645536 Score: 56
Period size: 4 Copynumber: 16.8 Consensus size: 4
645457 ATAAAAATAA
*
645467 AAAT AAAAT AAGT AAAAT AAAT -AAT AAAT AAAT AACA- AAAGGT AAAT
1 AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AA-AT AAA--T AAAT
645514 AAAT AAAT AAA- AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAA-T AAA
645537 AAAAACATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
3 7 0.13
4 33 0.60
5 12 0.22
6 3 0.05
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:645536 original size:12 final size:11
Alignment explanation
Indices: 645449--645539 Score: 69
Period size: 11 Copynumber: 7.9 Consensus size: 11
645439 CCCTGCAACA
645449 AAAT-AAAAAT
1 AAATAAAAAAT
*
645459 AAAAATAAAAAT
1 AAATA-AAAAAT
645471 AAAATAAGTAAAAT
1 -AAATAA--AAAAT
*
645485 AAATAATAAAT
1 AAATAAAAAAT
*
645496 AAATAACAAA-
1 AAATAAAAAAT
**
645506 AGGTAAATAAAT
1 AAATAAA-AAAT
645518 AAATAAAAAAT
1 AAATAAAAAAT
645529 AAACTAAAAAA
1 AAA-TAAAAAA
645540 AACATTTTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
10 7 0.11
11 23 0.36
12 19 0.30
13 10 0.16
14 5 0.08
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:645541 original size:15 final size:15
Alignment explanation
Indices: 645449--645539 Score: 69
Period size: 16 Copynumber: 5.7 Consensus size: 15
645439 CCCTGCAACA
*
645449 AAATAAAAATAAAAAT
1 AAATAAAAA-ATAAAT
*
645465 AAA-AATAAAATAAGT
1 AAATAA-AAAATAAAT
*
645480 AAAATAAATAATAAAT
1 -AAATAAAAAATAAAT
645496 AAATAACAAAAGGTAAAT
1 AAATAA-AAAA--TAAAT
645514 AAATAAATAAA-AAAT
1 AAATAAA-AAATAAAT
645529 AAACTAAAAAA
1 AAA-TAAAAAA
645540 AACATTTTCC
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
15 22 0.35
16 23 0.37
17 3 0.05
18 14 0.23
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (15 bp):
AAATAAAAAATAAAT
Found at i:645604 original size:36 final size:36
Alignment explanation
Indices: 645551--646072 Score: 269
Period size: 36 Copynumber: 14.5 Consensus size: 36
645541 ACATTTTCCA
*
645551 AAAATCTATATAATATATATTTTTTTAAAAATATTTT
1 AAAA-CTATATATTATATATTTTTTTAAAAATATTTT
* * *
645588 AAAATTATATATTATATGTTTTTTT-AAAACATTTT
1 AAAACTATATATTATATATTTTTTTAAAAATATTTT
* * *
645623 ----C-A-AAATTATATA-GTTTTTAAAAATGTTTTTT
1 AAAACTATATATTATATATTTTTTTAAAAA--TATTTT
* * * *
645654 AAAATTATATATTATA-A-GTTTTT-GAAATGATTTA
1 AAAACTATATATTATATATTTTTTTAAAAAT-ATTTT
* * *
645688 AAAACTATATAATATATATATGTTCTTCAAAATATTTT
1 AAAACTATAT-AT-TATATATTTTTTTAAAAATATTTT
** * * * * *
645726 TTAA--A-A-ACTATATATATTTTCAAAAATGTTTA
1 AAAACTATATATTATATATTTTTTTAAAAATATTTT
* * *
645758 AAAACTATATAATATATA-TTTTTAAAAAATGTTTT
1 AAAACTATATATTATATATTTTTTTAAAAATATTTT
* *
645793 AAAAAT-TATA-TAGTATATTTGTTTTCAAAAATACTTTA
1 AAAACTATATATTA-TATATTT-TTTT-AAAAATA-TTTT
* * * * * *
645831 AAAACTATATAATACATATATTTTCAAAAATATGTA
1 AAAACTATATATTATATATTTTTTTAAAAATATTTT
* * *
645867 AAAACTATATATTATAT-TTATTTTCAAAATACTTTA
1 AAAACTATATATTATATATTTTTTTAAAAATA-TTTT
* * *
645903 AAAACTATATAATATATA-TTTTTAAAAAATGTTTT
1 AAAACTATATATTATATATTTTTTTAAAAATATTTT
* *
645938 AAATA-TATACATATTATAT-TTATTTTCAAAATATTTT
1 AAA-ACTAT--ATATTATATATTTTTTTAAAAATATTTT
* * * * * *
645975 AAAAACTATACAATATATAAATATTTTCAAACATGTTTT
1 -AAAACTATA-TAT-TATATATTTTTTTAAAAATATTTT
**
646014 CAAAACTATATATTATATATAGGTTTTAAAAATATTTT
1 -AAAACTATATATTATATAT-TTTTTTAAAAATATTTT
646052 AAAACTATAATATATATATAT
1 AAAACTAT-ATAT-TATATAT
646073 ATCTATATAT
Statistics
Matches: 368, Mismatches: 77, Indels: 78
0.70 0.15 0.15
Matches are distributed among these distances:
28 5 0.01
29 12 0.03
30 1 0.00
31 4 0.01
32 20 0.05
33 4 0.01
34 21 0.06
35 56 0.15
36 89 0.24
37 63 0.17
38 50 0.14
39 41 0.11
40 2 0.01
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (36 bp):
AAAACTATATATTATATATTTTTTTAAAAATATTTT
Found at i:645628 original size:73 final size:71
Alignment explanation
Indices: 645550--646072 Score: 380
Period size: 73 Copynumber: 7.3 Consensus size: 71
645540 AACATTTTCC
*
645550 AAAAATCTATATAATATATATTTTTTTAAAAATATTTTAAAATTATATATTATATGTT-TTTTTA
1 AAAAA-CTATATAATATATATTTTTTTAAAAATATTTTAAAATTATATATTATAT-TTATTTTCA
645614 AAACATTTT
64 AAA-ATTTT
* * * ** *
645623 --CAA--A-AT--TATATA-GTTTTTAAAAATGTTTTTTAAAATTATATATTATAAGT-TTTTGA
1 AAAAACTATATAATATATATTTTTTTAAAAA--TATTTTAAAATTATATATTATATTTATTTTCA
*
645679 AATGA-TTT
64 AA-AATTTT
* * * * * *
645687 AAAAACTATATAATATATATATGTTCTTCAAAATATTTT----TTAAAAACTATATATATTTTCA
1 AAAAACTATATAATATATAT-T-TTTTTAAAAATATTTTAAAATTATATATTATATTTATTTTCA
645748 AAAATGTTT
64 AAAAT-TTT
* * * *
645757 AAAAACTATATAATATATA-TTTTTAAAAAATGTTTTAAAAATTATATAGTATATTTGTTTTCAA
1 AAAAACTATATAATATATATTTTTTTAAAAATATTTT-AAAATTATATATTATATTTATTTTCAA
645821 AAATACTTT
65 AAAT--TTT
* * * * * *
645830 AAAAACTATATAATACATATATTTTCAAAAATATGTAAAAACTATATATTATATTTATTTTCAAA
1 AAAAACTATATAATATATATTTTTTTAAAAATATTTTAAAATTATATATTATATTTATTTTCAAA
*
645895 ATACTTT
66 A-ATTTT
* * *
645902 AAAAACTATATAATATATA-TTTTTAAAAAATGTTTTAAATATATACATATTATATTTATTTTCA
1 AAAAACTATATAATATATATTTTTTTAAAAATATTTTAAA-AT-TATATATTATATTTATTTTCA
645966 AAATATTTT
64 AAA-ATTTT
* * * * * * *
645975 AAAAACTATACAATATATAAATATTTTCAAACATGTTTTCAAAACTATATATTATATATAGGTTT
1 AAAAACTATATAATATAT--ATTTTTTTAAAAATATTTT-AAAATTATATATTATATTTA--TTT
646040 T-AAAAATATTT
61 TCAAAAAT-TTT
*
646051 TAAAACTATAATATATATATAT
1 AAAAACTAT-ATA-ATATATAT
646073 ATCTATATAT
Statistics
Matches: 358, Mismatches: 57, Indels: 67
0.74 0.12 0.14
Matches are distributed among these distances:
64 13 0.04
65 15 0.04
66 23 0.06
67 14 0.04
68 14 0.04
69 9 0.03
70 22 0.06
71 23 0.06
72 49 0.14
73 92 0.26
74 21 0.06
75 16 0.04
76 32 0.09
77 9 0.03
78 6 0.02
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (71 bp):
AAAAACTATATAATATATATTTTTTTAAAAATATTTTAAAATTATATATTATATTTATTTTCAAA
AATTTT
Found at i:645697 original size:64 final size:64
Alignment explanation
Indices: 645572--645698 Score: 159
Period size: 64 Copynumber: 2.0 Consensus size: 64
645562 AATATATATT
* * * *
645572 TTTTTAAAAATATTTTAAAATTATATATTATATGTTTTTTTAAAACATTTTCAAAATTATATAG
1 TTTTTAAAAATATTTTAAAATTATATATTATAAGTTTTTTGAAAACATTTTAAAAACTATATAG
* **
645636 TTTTTAAAAATGTTTTTTAAAATTATATATTATAAG-TTTTTGAAATGA-TTTAAAAACTATATA
1 TTTTTAAAAA--TATTTTAAAATTATATATTATAAGTTTTTTGAAAACATTTTAAAAACTATATA
645699 ATATATATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 23 0.43
65 9 0.17
66 22 0.41
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (64 bp):
TTTTTAAAAATATTTTAAAATTATATATTATAAGTTTTTTGAAAACATTTTAAAAACTATATAG
Found at i:645765 original size:29 final size:32
Alignment explanation
Indices: 645702--645768 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 32
645692 CTATATAATA
* *
645702 TATATATGTTCTTCAAAATATTTTTTAAAAAC
1 TATATATATTCTTCAAAATATTGTTTAAAAAC
645734 TATATATATT-TTCAAAA-A-TGTTTAAAAAC
1 TATATATATTCTTCAAAATATTGTTTAAAAAC
645763 TATATA
1 TATATA
645769 ATATATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 16 0.48
30 1 0.03
31 7 0.21
32 9 0.27
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (32 bp):
TATATATATTCTTCAAAATATTGTTTAAAAAC
Found at i:645903 original size:145 final size:146
Alignment explanation
Indices: 645734--646072 Score: 450
Period size: 145 Copynumber: 2.3 Consensus size: 146
645724 TTTTAAAAAC
*
645734 TATATATATTTTCAAAAATGTTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAAAAT
1 TATATATATTTTC-AAAATATTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAAAAT
* * *
645799 -TATATAGTATATTTGTTTTCAAAAATACTTTAAAAACTATATAATACAT-ATATTTTCAAAAAT
65 ATACATAGTATATTTATTTTC-AAAATACTTTAAAAACTATACAATACATAATATTTTCAAAAAT
645862 -ATGTAAAAACTATATAT
129 GATGTAAAAACTATATAT
* *
645879 TATATTTATTTTCAAAATACTTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAATAT
1 TATATATATTTTCAAAATA-TTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAAAAT
* * * *
645944 ATACATATTATATTTATTTTCAAAATATTTTAAAAACTATACAATATATAAATATTTTCAAACAT
65 ATACATAGTATATTTATTTTCAAAATACTTTAAAAACTATACAATACAT-AATATTTTCAAAAAT
* * *
646009 GTTTTCAAAACTATATAT
129 GATGTAAAAACTATATAT
* *
646027 TATATATAGGTTTTAAAAATATTTTAAAACTATAATATATATATAT
1 TATATATA--TTTTCAAAATATTTAAAAACTAT-ATA-ATATATAT
646073 ATCTATATAT
Statistics
Matches: 169, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
144 5 0.03
145 81 0.48
146 17 0.10
147 13 0.08
148 21 0.12
149 11 0.07
150 13 0.08
151 8 0.05
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (146 bp):
TATATATATTTTCAAAATATTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAAAATA
TACATAGTATATTTATTTTCAAAATACTTTAAAAACTATACAATACATAATATTTTCAAAAATGA
TGTAAAAACTATATAT
Found at i:647148 original size:249 final size:249
Alignment explanation
Indices: 646704--647491 Score: 950
Period size: 249 Copynumber: 3.2 Consensus size: 249
646694 GGGTCTTTGG
* * * * * * * * *
646704 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGAT-G-AGCTGAGCGTAGTCG
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC-CTCGAAGCTGAGTGAAATCG
*** * * * * *
646767 AACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC
65 AACTCGGGGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* * * * *** * * * ** * *
646832 CTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--TT--TCGCAGATAGCCCTTCTCGATTTAAGC
126 GTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGT
646893 TATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTGTTTTGGTCA
190 TATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTGTTTTGGTCA
646953 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGAAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGAAATCGA
* *
647018 ACTTGGGGGTCTTTGGTAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
66 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
*
647083 GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTTTAGCCTTGAGTTATGCT
131 GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCT
* *
647148 GCAAATGATGTACCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTGGTCA
196 GCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTGTTTTGGTCA
*
647202 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGAAATCGA
* *
647267 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGTCGTTGA
66 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
* *
647332 GCTGAGCGTTGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGGGTTATGCT
131 GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCT
* * * * * * *
647397 GCAAATGATGTGCCCTCGAAGCTGAGTGTAATTGAACTC--GGGGGTCTTTGG---
196 GCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGAACTCAAAGGTGT-TTTGGTCA
* * * * *
647448 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC
647492 GTTGAGCTGA
Statistics
Matches: 473, Mismatches: 58, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
245 22 0.05
246 79 0.17
247 2 0.00
248 4 0.01
249 329 0.70
250 37 0.08
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (249 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGAAATCGA
ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCT
GCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTGTTTTGGTCA
Found at i:647248 original size:414 final size:414
Alignment explanation
Indices: 646728--647572 Score: 1555
Period size: 414 Copynumber: 2.0 Consensus size: 414
646718 CGACTTAAGC
* *
646728 TATGCTGCAAATGATGTGCCGATGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGAT
1 TATGCTGCAAATGATGTACCGATGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTGGTCACAGAT
646793 AACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
66 AACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
*
646858 GGGGTCTTTCGCAGATAGCCCTTCTCGATTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
131 GGGGTCTTTCGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
*
646923 GCGTAGTCGAACTCAAAGGTGTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
196 GCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
* *
646988 TGATGTGCCCTCGAAGCTGAGTGAAATCGAACTTGGGGGTCTTTGGTAGATAGCCCTTCTCGACT
261 TGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACT
647053 TAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
326 TAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
*
647118 CAGATAACCCTTTTAGCCTTGAGT
391 CAGATAACCCTTATAGCCTTGAGT
*
647142 TATGCTGCAAATGATGTACCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTGGTCACAGAT
1 TATGCTGCAAATGATGTACCGATGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTGGTCACAGAT
647207 AACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
66 AACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
* * *
647272 GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGTCGTTGAGCTGA
131 GGGGTCTTTCGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
* *
647337 GCGTTGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGGGTTATGCTGCAAA
196 GCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
* *
647402 TGATGTGCCCTCGAAGCTGAGTGTAATTGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACT
261 TGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACT
647467 TAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
326 TAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
647532 CAGATAACCCTTATAGCCTTGAGT
391 CAGATAACCCTTATAGCCTTGAGT
647556 TATGCTGCAAATGATGT
1 TATGCTGCAAATGATGT
647573 GCCCTCAAAG
Statistics
Matches: 416, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
414 416 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (414 bp):
TATGCTGCAAATGATGTACCGATGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTGGTCACAGAT
AACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCG
GGGGTCTTTCGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA
GCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
TGATGTGCCCTCGAAGCTGAGTGAAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACT
TAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
CAGATAACCCTTATAGCCTTGAGT
Found at i:647576 original size:165 final size:165
Alignment explanation
Indices: 646704--647649 Score: 955
Period size: 165 Copynumber: 5.7 Consensus size: 165
646694 GGGTCTTTGG
* * * * * * * *
646704 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGAT-G-AGCTGAGCGTAGTCG
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC-CTCGAAGCTGAGTGTAATCG
*** * * * * *
646767 AACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC
65 AACTCGGGGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* * * * *** *
646832 CTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--TT--TCG
126 GTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
* * ** * * * * * *
646869 CAGATAGCCCTTCTCGATTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* * * * * * *
646933 ACTCAAAGGTGT-TTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC
66 ACTC--GGGGGTCTTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
* * * * * ****
646997 CTCGAAGCTGAGTGAAATCGAACTTGGGGGTC-TTTGGT--
126 GTTG-AGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
* * * * * * * * *
647035 -AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTG-AGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
*** * * * * * * *
647098 ACTCAAAGGTCTTTTGGTCACAGATAACCCTTTTAGCCTTGAGTTATGCTGCAAATGATGTACCG
66 ACTCGGGGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCG
*
647163 TTGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTGGTCA
127 TTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
647202 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* *
647267 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGTCGTTGA
66 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
*
647332 GCTGAGCGTTGTCGAACTCAAAGGTCTTTTGGTCA
131 GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
* *
647367 CAGATAACCCTTCTAGCCTTGGGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATTGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
647432 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
66 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
647497 GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
131 GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
* * *
647532 CAGATAACCCTTATAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGTTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
647597 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
66 ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG
647650 GTTTGTTAAA
Statistics
Matches: 712, Mismatches: 56, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
163 3 0.00
164 20 0.03
165 616 0.87
166 2 0.00
167 3 0.00
168 46 0.06
169 22 0.03
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (165 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
ACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGA
GCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
Found at i:651087 original size:18 final size:19
Alignment explanation
Indices: 651046--651090 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
651036 AGTTAATGTG
651046 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
651065 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
651083 AATGCAAA
1 AATGCAAA
651091 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:651741 original size:17 final size:17
Alignment explanation
Indices: 651715--651747 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
651705 TGCAAACGAT
*
651715 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
651732 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
651748 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:652714 original size:13 final size:13
Alignment explanation
Indices: 652696--652725 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
652686 CTTAGTTGCG
652696 AAAATTAAAATTT
1 AAAATTAAAATTT
*
652709 AAAATTGAAATTT
1 AAAATTAAAATTT
652722 AAAA
1 AAAA
652726 ATTCGGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:653006 original size:23 final size:23
Alignment explanation
Indices: 652980--653032 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
652970 CATATGAGGT
*
652980 AAAAAAAAT-ACTAATAATAATTA
1 AAAAAAAATGA-TAATAATAAATA
*
653003 AAAAAACATGATAATAATAAATA
1 AAAAAAAATGATAATAATAAATA
*
653026 AATAAAA
1 AAAAAAA
653033 TAAAATAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAAAAAATGATAATAATAAATA
Found at i:653007 original size:20 final size:20
Alignment explanation
Indices: 652982--653040 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
652972 TATGAGGTAA
652982 AAAAAATAC-TAATAATAATT
1 AAAAAATACATAATAATAA-T
*
653002 AAAAAA-ACATGATAATAAT
1 AAAAAATACATAATAATAAT
653021 AAATAAATA-A-AATAA-AAT
1 AAA-AAATACATAATAATAAT
653039 AA
1 AA
653041 GAATTTAGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 5 0.15
19 10 0.29
20 18 0.53
21 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATACATAATAATAAT
Found at i:654086 original size:6 final size:6
Alignment explanation
Indices: 654075--654101 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
654065 ACCCTGCAAC
654075 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
654102 TAAGTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:654095 original size:11 final size:11
Alignment explanation
Indices: 654075--654165 Score: 55
Period size: 12 Copynumber: 7.9 Consensus size: 11
654065 ACCCTGCAAC
654075 AAAATAAAAAT
1 AAAATAAAAAT
654086 AAAAATAAAAAT
1 -AAAATAAAAAT
*
654098 AAAAT--AAGT
1 AAAATAAAAAT
654107 AAAATAAATAAT
1 AAAATAAA-AAT
*
654119 -AAATAAATAAC
1 AAAATAAA-AAT
654130 AAAAGGTAAATAA-
1 AAAA--TAAA-AAT
654143 ATAAATAAAAAAT
1 A-AAAT-AAAAAT
*
654156 AAACTAAAAA
1 AAAATAAAAA
654166 AAACATTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
9 8 0.12
11 21 0.32
12 22 0.33
13 5 0.08
14 10 0.15
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:654117 original size:4 final size:4
Alignment explanation
Indices: 654094--654163 Score: 56
Period size: 4 Copynumber: 16.8 Consensus size: 4
654084 ATAAAAATAA
*
654094 AAAT AAAAT AAGT AAAAT AAAT -AAT AAAT AAAT AACA- AAAGGT AAAT
1 AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AA-AT AAA--T AAAT
654141 AAAT AAAT AAA- AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAA-T AAA
654164 AAAAACATTT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
3 7 0.13
4 33 0.60
5 12 0.22
6 3 0.05
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:654163 original size:12 final size:11
Alignment explanation
Indices: 654076--654166 Score: 69
Period size: 11 Copynumber: 7.9 Consensus size: 11
654066 CCCTGCAACA
654076 AAAT-AAAAAT
1 AAATAAAAAAT
*
654086 AAAAATAAAAAT
1 AAATA-AAAAAT
654098 AAAATAAGTAAAAT
1 -AAATAA--AAAAT
*
654112 AAATAATAAAT
1 AAATAAAAAAT
*
654123 AAATAACAAA-
1 AAATAAAAAAT
**
654133 AGGTAAATAAAT
1 AAATAAA-AAAT
654145 AAATAAAAAAT
1 AAATAAAAAAT
654156 AAACTAAAAAA
1 AAA-TAAAAAA
654167 AACATTTTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
10 7 0.11
11 23 0.36
12 19 0.30
13 10 0.16
14 5 0.08
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:654168 original size:15 final size:15
Alignment explanation
Indices: 654076--654166 Score: 69
Period size: 16 Copynumber: 5.7 Consensus size: 15
654066 CCCTGCAACA
*
654076 AAATAAAAATAAAAAT
1 AAATAAAAA-ATAAAT
*
654092 AAA-AATAAAATAAGT
1 AAATAA-AAAATAAAT
*
654107 AAAATAAATAATAAAT
1 -AAATAAAAAATAAAT
654123 AAATAACAAAAGGTAAAT
1 AAATAA-AAAA--TAAAT
654141 AAATAAATAAA-AAAT
1 AAATAAA-AAATAAAT
654156 AAACTAAAAAA
1 AAA-TAAAAAA
654167 AACATTTTCC
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
15 22 0.35
16 23 0.37
17 3 0.05
18 14 0.23
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (15 bp):
AAATAAAAAATAAAT
Found at i:654291 original size:36 final size:35
Alignment explanation
Indices: 654243--654671 Score: 178
Period size: 36 Copynumber: 11.8 Consensus size: 35
654233 ACATTTTCAA
*
654243 ATTATATAGTTTTTAAAAATGTTTTTTAAAATTATAT
1 ATTATA-AGTTTTTAAAAATG-TTTTAAAAATTATAT
* *
654280 ATTATAAGTTTTT-GAAATGATTTAAAAACTATATAAT
1 ATTATAAGTTTTTAAAAATGTTTTAAAAA-T-TAT-AT
* * * *
654317 ATATATATGTTCTTCAAAATATTTTTTAAAAA--CTAT
1 AT-TATAAGTT-TTTAAAA-ATGTTTTAAAAATTATAT
* *
654353 A-TAT-A-TTTTCAAAAATG-TTTAAAAACTATAT
1 ATTATAAGTTTTTAAAAATGTTTTAAAAATTATAT
*
654384 AATATATA-TTTTTAAAAAATGTTTTAAAAATTATAT
1 ATTATA-AGTTTTT-AAAAATGTTTTAAAAATTATAT
** * ** *
654420 AGTATATTTGTTTTCAAAAATACTTTAAAAACTATAT
1 A-T-TATAAGTTTTTAAAAATGTTTTAAAAATTATAT
* * * * *
654457 AATACATATA-TTTTCAAAAAT-ATGTAAAAACTATAT
1 -AT-TATA-AGTTTTTAAAAATGTTTTAAAAATTATAT
** * ** *
654493 ATTATATTTATTTTCAAAATACTTTAAAAACTATAT
1 ATTATAAGT-TTTTAAAAATGTTTTAAAAATTATAT
* *
654529 AATATATA-TTTTTAAAATATGTTTTAAATATATATAT
1 ATTATA-AGTTTTTAAAA-ATGTTTTAAAAAT-TATAT
** * * *
654566 ATTATATTTATTTTCAAAATATTTTAAAAACTATAT
1 ATTATAAGT-TTTTAAAAATGTTTTAAAAATTATAT
* * * *
654602 AATATATAAATATTTTCAAACATGTTTTCAAAACTATAT
1 -AT-TATAAGT-TTTT-AAAAATGTTTTAAAAATTATAT
* *
654641 ATTATATATAGGTTTTAAAAATATTTTAAAA
1 A-T-TATA-AGTTTTTAAAAATGTTTTAAAA
654672 CTATAATATA
Statistics
Matches: 304, Mismatches: 56, Indels: 63
0.72 0.13 0.15
Matches are distributed among these distances:
29 8 0.03
30 2 0.01
31 11 0.04
32 5 0.02
34 19 0.06
35 30 0.10
36 73 0.24
37 68 0.22
38 45 0.15
39 30 0.10
40 3 0.01
41 10 0.03
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (35 bp):
ATTATAAGTTTTTAAAAATGTTTTAAAAATTATAT
Found at i:654381 original size:29 final size:32
Alignment explanation
Indices: 654318--654384 Score: 95
Period size: 29 Copynumber: 2.2 Consensus size: 32
654308 CTATATAATA
* *
654318 TATATATGTTCTTCAAAATATTTTTTAAAAAC
1 TATATATATTCTTCAAAATATTGTTTAAAAAC
654350 TATATATATT-TTCAAAA-A-TGTTTAAAAAC
1 TATATATATTCTTCAAAATATTGTTTAAAAAC
654379 TATATA
1 TATATA
654385 ATATATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 16 0.48
30 1 0.03
31 7 0.21
32 9 0.27
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (32 bp):
TATATATATTCTTCAAAATATTGTTTAAAAAC
Found at i:654485 original size:73 final size:72
Alignment explanation
Indices: 654350--654690 Score: 343
Period size: 73 Copynumber: 4.6 Consensus size: 72
654340 TTTTAAAAAC
* * * * *
654350 TATATATATTTTCAAAA-ATGTTTAAAAACTATATAATATATAT-TTTTAAAAAATGTTTTAAAA
1 TATATTTATTTTCAAAATA-CTTTAAAAACTATATAATATATATATTTTCAAAAAT-ATGTAAAA
*
654413 ATTATATAG
64 ATTATATAT
* *
654422 TATATTTGTTTTCAAAAATACTTTAAAAACTATATAATACATATATTTTCAAAAATATGTAAAAA
1 TATATTTATTTTC-AAAATACTTTAAAAACTATATAATATATATATTTTCAAAAATATGTAAAAA
*
654487 CTATATAT
65 TTATATAT
654495 TATATTTATTTTCAAAATACTTTAAAAACTATATAATATATAT-TTTT--AAAATATGTTTTAAA
1 TATATTTATTTTCAAAATACTTTAAAAACTATATAATATATATATTTTCAAAAATATG---TAAA
*
654557 TATATATATAT
63 AAT-TATATAT
* * * * *
654568 TATATTTATTTTCAAAATATTTTAAAAACTATATAATATATAAATATTTTCAAACATGTTTTCAA
1 TATATTTATTTTCAAAATACTTTAAAAACTATATAATATAT--ATATTTTCAAAAAT-ATGTAAA
*
654633 AACTATATAT
63 AATTATATAT
* * *
654643 TATATATAGGTTTTAAAAATA-TTTTAAAACTATAATATATATATATAT
1 TATATTTA--TTTTCAAAATACTTTAAAAACTAT-ATA-ATATATATAT
654691 CTATATATAT
Statistics
Matches: 229, Mismatches: 23, Indels: 30
0.81 0.08 0.11
Matches are distributed among these distances:
69 8 0.03
71 4 0.02
72 45 0.20
73 98 0.43
74 11 0.05
75 16 0.07
76 23 0.10
77 13 0.06
78 10 0.04
79 1 0.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (72 bp):
TATATTTATTTTCAAAATACTTTAAAAACTATATAATATATATATTTTCAAAAATATGTAAAAAT
TATATAT
Found at i:654520 original size:145 final size:146
Alignment explanation
Indices: 654350--654688 Score: 459
Period size: 145 Copynumber: 2.3 Consensus size: 146
654340 TTTTAAAAAC
*
654350 TATATATATTTTCAAAAATGTTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAAAAT
1 TATATATATTTTC-AAAATATTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAAAAT
*
654415 -TATATAGTATATTTGTTTTCAAAAATACTTTAAAAACTATATAATACAT-ATATTTTCAAAAAT
65 ATATATAGTATATTTATTTTC-AAAATACTTTAAAAACTATATAATACATAATATTTTCAAAAAT
654478 -ATGTAAAAACTATATAT
129 GATGTAAAAACTATATAT
* * *
654495 TATATTTATTTTCAAAATACTTTAAAAACTATATAATATATATTTTTAAAATATGTTTTAAATAT
1 TATATATATTTTCAAAATA-TTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAAAAT
* * * *
654560 ATATATATTATATTTATTTTCAAAATATTTTAAAAACTATATAATATATAAATATTTTCAAACAT
65 ATATATAGTATATTTATTTTCAAAATACTTTAAAAACTATATAATACAT-AATATTTTCAAAAAT
* * *
654625 GTTTTCAAAACTATATAT
129 GATGTAAAAACTATATAT
* *
654643 TATATATAGGTTTTAAAAATATTTTAAAACTATAATATATATATAT
1 TATATATA--TTTTCAAAATATTTAAAAACTAT-ATA-ATATATAT
654689 ATCTATATAT
Statistics
Matches: 170, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
144 5 0.03
145 81 0.48
146 18 0.11
147 13 0.08
148 21 0.12
149 11 0.06
150 13 0.08
151 8 0.05
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (146 bp):
TATATATATTTTCAAAATATTTAAAAACTATATAATATATATTTTTAAAAAATGTTTTAAAAATA
TATATAGTATATTTATTTTCAAAATACTTTAAAAACTATATAATACATAATATTTTCAAAAATGA
TGTAAAAACTATATAT
Found at i:654814 original size:30 final size:31
Alignment explanation
Indices: 654762--654821 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
654752 CTTAGCTTTA
**
654762 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
654792 TATTATGTTTGCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
654822 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:656474 original size:19 final size:19
Alignment explanation
Indices: 656432--656471 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
656422 TCCCTTTTCT
*
656432 TTATTTCATTTCATTTTTA
1 TTATTTCATTTCATTCTTA
*
656451 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATT-CTTA
656471 T
1 T
656472 ATTATTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTCATTTCATTCTTA
Found at i:658083 original size:26 final size:28
Alignment explanation
Indices: 658045--658101 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
658035 TATCATTTAA
658045 AAATAATTATAAA-ATA-ATTAATTTTT
1 AAATAATTATAAACATATATTAATTTTT
*
658071 AAATAAATT-TAAACTATATATTATTTTTT
1 AAAT-AATTATAAAC-ATATATTAATTTTT
658100 AA
1 AA
658102 CAATGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 8 0.31
27 4 0.15
28 3 0.12
29 11 0.42
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATAATTATAAACATATATTAATTTTT
Found at i:660584 original size:11 final size:11
Alignment explanation
Indices: 660570--660632 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
660560 ATAATTAAAT
*
660570 TTATCAAGTTA
1 TTATCAAATTA
* *
660581 TTATAAAATAA
1 TTATCAAATTA
*
660592 TTATTAAATT-
1 TTATCAAATTA
660602 TTATCAAATTA
1 TTATCAAATTA
660613 TTA--AAATTCA
1 TTATCAAATT-A
*
660623 TTATTAAATT
1 TTATCAAATT
660633 TATCAATCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
9 5 0.12
10 13 0.31
11 19 0.45
12 5 0.12
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (11 bp):
TTATCAAATTA
Found at i:660614 original size:32 final size:31
Alignment explanation
Indices: 660548--660638 Score: 130
Period size: 31 Copynumber: 2.9 Consensus size: 31
660538 ACCATTGTGA
* *
660548 TATTATAAAATAATAATTAAATTTATCAAGT
1 TATTATAAAATAATTATTAAATTTATCAAAT
660579 TATTATAAAATAATTATTAAATTTTATCAAAT
1 TATTATAAAATAATTATTAAA-TTTATCAAAT
* *
660611 TATTA-AAATTCATTATTAAATTTATCAA
1 TATTATAAAATAATTATTAAATTTATCAA
660639 TCTTCACTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
30 8 0.15
31 33 0.60
32 14 0.25
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (31 bp):
TATTATAAAATAATTATTAAATTTATCAAAT
Found at i:661219 original size:37 final size:36
Alignment explanation
Indices: 661120--661237 Score: 159
Period size: 35 Copynumber: 3.3 Consensus size: 36
661110 TGGCAACCAA
*
661120 CTTTGAAAAAATGGTTTTCAACGTTTGGTAAATGTTT
1 CTTTGAAAAAA-GGTTTTCAAAGTTTGGTAAATGTTT
*
661157 CTTTG-AAAACGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAAAGGTTTTCAAAGTTTGGTAAATGTTT
* *
661192 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAA-AGGTTTTCAAAGTTTGGTAAATGTTT
*
661229 -GTTGAAAAA
1 CTTTGAAAAA
661238 TCATAATGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 29 0.40
36 16 0.22
37 28 0.38
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.42
Consensus pattern (36 bp):
CTTTGAAAAAAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:662454 original size:15 final size:15
Alignment explanation
Indices: 662430--662461 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
662420 AGGCAGATCG
*
662430 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
662445 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
662460 AA
1 AA
662462 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:665778 original size:21 final size:21
Alignment explanation
Indices: 665754--665849 Score: 76
Period size: 21 Copynumber: 5.2 Consensus size: 21
665744 AACTTTGAAA
665754 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
665775 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
665789 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
665810 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
665824 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
665845 AAATG
1 AAATG
665850 TTTCTTTGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 28
0.64 0.04 0.31
Matches are distributed among these distances:
14 10 0.18
15 8 0.14
16 8 0.14
19 8 0.14
20 8 0.14
21 15 0.26
ACGTcount: A:0.30, C:0.05, G:0.21, T:0.44
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:665895 original size:36 final size:36
Alignment explanation
Indices: 665746--665899 Score: 242
Period size: 35 Copynumber: 4.3 Consensus size: 36
665736 TGGCAACCAA
665746 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
665783 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
665818 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
665853 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
665890 -GTTGAAAAAT
1 CTTTGAAAAAT
665900 CATAATGGGA
Statistics
Matches: 112, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
35 70 0.62
36 14 0.12
37 28 0.25
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:667123 original size:68 final size:68
Alignment explanation
Indices: 667014--667153 Score: 280
Period size: 68 Copynumber: 2.1 Consensus size: 68
667004 TTTTCATGAA
667014 ATGGCTTCTTAGTTAATTGTTGATCAGTGCTGGAATTTACCTTTAATATTGATTACTTTGCTAGG
1 ATGGCTTCTTAGTTAATTGTTGATCAGTGCTGGAATTTACCTTTAATATTGATTACTTTGCTAGG
667079 ATC
66 ATC
667082 ATGGCTTCTTAGTTAATTGTTGATCAGTGCTGGAATTTACCTTTAATATTGATTACTTTGCTAGG
1 ATGGCTTCTTAGTTAATTGTTGATCAGTGCTGGAATTTACCTTTAATATTGATTACTTTGCTAGG
667147 ATC
66 ATC
667150 ATGG
1 ATGG
667154 AAACCCCTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.44
Consensus pattern (68 bp):
ATGGCTTCTTAGTTAATTGTTGATCAGTGCTGGAATTTACCTTTAATATTGATTACTTTGCTAGG
ATC
Found at i:670637 original size:15 final size:15
Alignment explanation
Indices: 670617--670656 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
670607 AATTGGGTTA
670617 TTATTATTATTATT-G
1 TTATTATTATT-TTGG
*
670632 TTATTATAATTTTGG
1 TTATTATTATTTTGG
670647 TTATTATTAT
1 TTATTATTAT
670657 AAGTTTGGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (15 bp):
TTATTATTATTTTGG
Found at i:670653 original size:18 final size:17
Alignment explanation
Indices: 670632--670670 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
670622 ATTATTATTG
*
670632 TTATTATAATTTTGGTTA
1 TTATTATAAGTTTGG-TA
670650 TTATTATAAGTTTGGTA
1 TTATTATAAGTTTGGTA
670667 TTAT
1 TTAT
670671 GTAGTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (17 bp):
TTATTATAAGTTTGGTA
Found at i:687032 original size:12 final size:12
Alignment explanation
Indices: 687017--687042 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
687007 TAACTCCAAT
687017 GAATTAGTATTG
1 GAATTAGTATTG
687029 GAATTAGTATTG
1 GAATTAGTATTG
687041 GA
1 GA
687043 GGAAGAAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (12 bp):
GAATTAGTATTG
Found at i:688952 original size:17 final size:17
Alignment explanation
Indices: 688930--688972 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
688920 ACTATAGGTG
*
688930 GTCTATCCTACTCTAGC
1 GTCTATCCCACTCTAGC
688947 GTCTATCCCACTCTAGC
1 GTCTATCCCACTCTAGC
688964 GTCTATCCC
1 GTCTATCCC
688973 TTTTAGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.40, G:0.12, T:0.33
Consensus pattern (17 bp):
GTCTATCCCACTCTAGC
Found at i:693293 original size:18 final size:18
Alignment explanation
Indices: 693270--693310 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
693260 CTTCAACACG
* *
693270 TTTTAATAAAAATATTAA
1 TTTTAATAAAAACAATAA
*
693288 TTTTAATTAAAACAATAA
1 TTTTAATAAAAACAATAA
693306 TTTTA
1 TTTTA
693311 CAGTTTGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTTAATAAAAACAATAA
Found at i:695913 original size:24 final size:25
Alignment explanation
Indices: 695886--695941 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
695876 TGGGTTGTTT
*
695886 GGTTTGGG-TCAGACCAGTTGGGTC
1 GGTTTGGGCTCAGACCAGTTGGGCC
**
695910 GGTTTGGGCTTGGACCAGTTGGGCC
1 GGTTTGGGCTCAGACCAGTTGGGCC
695935 GGTTTGG
1 GGTTTGG
695942 CTCTTTGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.09, C:0.16, G:0.45, T:0.30
Consensus pattern (25 bp):
GGTTTGGGCTCAGACCAGTTGGGCC
Found at i:696012 original size:3 final size:3
Alignment explanation
Indices: 696004--696043 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
695994 AAAATCAAAT
*
696004 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
696044 CGGTCTATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:696474 original size:130 final size:129
Alignment explanation
Indices: 696225--696709 Score: 531
Period size: 131 Copynumber: 3.7 Consensus size: 129
696215 GAGATTTTTA
* * * * ** *
696225 AAGATGAAATATG-AAAAGGGATCTGCTCCACTGTTCTTCAGGGTAGATCAGATTTGGAAACGTT
1 AAGATCAAATCTGAAAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCAGATCTAAAAACATT
* *
696289 GATTCATTCCACTACTCTTCGGGGAAGATTGAATCGAGGTAGATTTGTTCAACTGCTCCTCACGG
66 GATTCATTCCACTACTCTTCAGGGAAGATTGAATCGAGGTAGATTTG-TCCACTGCTCCTCACGG
*
696354 AAGATCAAATCTGAAAAAGGGATCTGCTCCACTGCTCTTTAGGGTAGATCAGATCTAAAAACATT
1 AAGATCAAATCTGAAAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCAGATCTAAAAACATT
* * * * * * *
696419 AATTCATTTCATTGCACTTCAGGGAAGATTGAATCGAGTTAGATTTGTCCCACTGCTCCTCATGG
66 GATTCATTCCACTACTCTTCAGGGAAGATTGAATCGAGGTAGATTTGT-CCACTGCTCCTCACGG
* * ** * * **
696484 AAGATCAAATCTAAGAAAATGGATCTGCTCTGCTGCTCTTCAGGGTAGATCAGATATTAAAATTT
1 AAGATCAAATCTGA-AAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCAGATCTAAAAACAT
* * * * *
696549 TGATTCATTCCACTACTTTTCAGGGAAGATTGAATCTAGGTAGACTTGATCCACTGCTCCTTAGG
65 TGATTCATTCCACTACTCTTCAGGGAAGATTGAATCGAGGTAGATTTG-TCCACTGCTCCTCACG
696614 G
129 G
* * * * * * ** *
696615 AAGATCAAATCTGGAAAAGGGGATATGTTCCGCTACTCTTCAGGGTAGATCAAATCTGGAAACGT
1 AAGATCAAATCT-GAAAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCAGATCTAAAAACAT
* * * *
696680 TGATTCATTCCATTATTCTTAAGGAAAGAT
65 TGATTCATTCCACTACTCTTCAGGGAAGAT
696710 CAAATCGAAT
Statistics
Matches: 296, Mismatches: 55, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
129 12 0.04
130 112 0.38
131 170 0.57
132 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (129 bp):
AAGATCAAATCTGAAAAAGGGATCTGCTCCACTGCTCTTCAGGGTAGATCAGATCTAAAAACATT
GATTCATTCCACTACTCTTCAGGGAAGATTGAATCGAGGTAGATTTGTCCACTGCTCCTCACGG
Found at i:698031 original size:9 final size:8
Alignment explanation
Indices: 697995--698060 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
697985 TTAGTTATTA
697995 TTTTTTTC
1 TTTTTTTC
698003 GTTTATTTTC
1 -TTT-TTTTC
698013 --TTTTTC
1 TTTTTTTC
698019 TTTTTTTC
1 TTTTTTTC
*
698027 ATTTTTTC
1 TTTTTTTC
*
698035 --TTTCTC
1 TTTTTTTC
*
698041 TTTTTTTA
1 TTTTTTTC
698049 TTTTCTTTC
1 TTTT-TTTC
698058 TTT
1 TTT
698061 AGGCAAAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
6 10 0.22
7 1 0.02
8 21 0.46
9 9 0.20
10 5 0.11
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:698052 original size:19 final size:19
Alignment explanation
Indices: 698004--698058 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 19
697994 ATTTTTTTCG
*
698004 TTTATTTTCTTTTTCTTTT
1 TTTATTTTCTTTCTCTTTT
698023 TTTCATTTTTTCTTTCTCTTTT
1 TTT-A--TTTTCTTTCTCTTTT
698045 TTTATTTTCTTTCT
1 TTTATTTTCTTTCT
698059 TTAGGCAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 13 0.41
20 1 0.03
21 1 0.03
22 17 0.53
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTATTTTCTTTCTCTTTT
Found at i:698061 original size:13 final size:13
Alignment explanation
Indices: 697992--698061 Score: 56
Period size: 13 Copynumber: 5.2 Consensus size: 13
697982 TATTTAGTTA
697992 TTATTTT-TTTCGT
1 TTATTTTCTTTC-T
698005 TTATTTTCTTTTTCT
1 TTATTTTC--TTTCT
698020 TT-TTTTCATTT-T
1 TTATTTTC-TTTCT
* *
698032 TTCTTTCTCTTTTT
1 TTATTT-TCTTTCT
698046 TTATTTTCTTTCT
1 TTATTTTCTTTCT
698059 TTA
1 TTA
698062 GGCAAAGTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
12 3 0.06
13 25 0.52
14 13 0.27
15 3 0.06
16 4 0.08
ACGTcount: A:0.07, C:0.13, G:0.01, T:0.79
Consensus pattern (13 bp):
TTATTTTCTTTCT
Found at i:706755 original size:23 final size:23
Alignment explanation
Indices: 706721--706777 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
706711 CTAGTATAAA
706721 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
706744 TGCACCGTAGTGCCACGTAGAAA
1 TGCACCGAAGTGCCACGTAGAAT
*
706767 TACACCGAAGT
1 TGCACCGAAGT
706778 TCCATATAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:707134 original size:2 final size:2
Alignment explanation
Indices: 707127--707164 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
707117 ATGTCTTATC
707127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
707165 TCACATGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:707234 original size:2 final size:2
Alignment explanation
Indices: 707227--707263 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
707217 TTCATCTTCC
707227 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 T
707264 CATTTTTCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:708492 original size:64 final size:63
Alignment explanation
Indices: 708380--708541 Score: 182
Period size: 64 Copynumber: 2.5 Consensus size: 63
708370 TTCCCTTGAA
* * *
708380 GTGCATCGATGCACTACCCATGCATCGATACACAAATCACCTTAGATGTTTTCA-TTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACAAATCACATTAGATGTTTCCATTTTTAA-GGG
* * *** * *
708444 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGTATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACACAAATCACATTAGATGTTTCCATTTTTAAGGG
*
708508 GTGCATCGATGCACTTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
708542 CTGAACAATT
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
63 2 0.02
64 71 0.87
65 9 0.11
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAAATCACATTAGATGTTTCCATTTTTAAGGG
Found at i:708879 original size:13 final size:13
Alignment explanation
Indices: 708861--708896 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
708851 TTTAACTTCC
708861 AACTCTATTTATG
1 AACTCTATTTATG
708874 AACTCTATTTATG
1 AACTCTATTTATG
708887 AACTCTATTT
1 AACTCTATTT
708897 CAAGATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (13 bp):
AACTCTATTTATG
Found at i:712609 original size:11 final size:12
Alignment explanation
Indices: 712585--712634 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
712575 AGATCTCATG
*
712585 AAAAATACATAC
1 AAAAATACAAAC
712597 AAAAATA-AAAC
1 AAAAATACAAAC
712608 AAAAATTACAAAC
1 AAAAA-TACAAAC
* *
712621 ATATAT-CAAAC
1 AAAAATACAAAC
712632 AAA
1 AAA
712635 TAAGATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 15 0.47
12 10 0.31
13 7 0.22
ACGTcount: A:0.70, C:0.14, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATACAAAC
Found at i:715196 original size:30 final size:30
Alignment explanation
Indices: 715157--715240 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
715147 TTCAAACCGG
*
715157 TTTTGCCGGTTTTCAGCCGGTTCACCCCGA
1 TTTTACCGGTTTTCAGCCGGTTCACCCCGA
* *
715187 TTTTACCGGTTTTCAGCCGATTCACCCCGG
1 TTTTACCGGTTTTCAGCCGGTTCACCCCGA
715217 TTTTACCGGTTTTCAGCCGGTTCA
1 TTTTACCGGTTTTCAGCCGGTTCA
715241 TTGCCAGACC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.12, C:0.31, G:0.21, T:0.36
Consensus pattern (30 bp):
TTTTACCGGTTTTCAGCCGGTTCACCCCGA
Found at i:717745 original size:20 final size:20
Alignment explanation
Indices: 717720--717785 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
717710 GTTTCCAGAT
717720 TCGCAACGCGATTCTAACTA
1 TCGCAACGCGATTCTAACTA
717740 TCGCAACGCGATTACGTAA--A
1 TCGCAACGCGATT-C-TAACTA
* *
717760 TCGCAACGAGATTCTGACTA
1 TCGCAACGCGATTCTAACTA
717780 TCGCAA
1 TCGCAA
717786 TACTGAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.05
19 1 0.03
20 33 0.82
21 1 0.03
22 3 0.08
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGATTCTAACTA
Found at i:717814 original size:19 final size:19
Alignment explanation
Indices: 717787--717845 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
717777 CTATCGCAAT
*
717787 ACTGAATTTCAAATTCGCA
1 ACTGGATTTCAAATTCGCA
*
717806 ACTGGATTTCTGAATTCGCA
1 ACTGGATTTC-AAATTCGCA
* * *
717826 ACAGG-TTTTAATTTCGCA
1 ACTGGATTTCAAATTCGCA
717844 AC
1 AC
717846 ACAAATGTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 9 0.27
19 12 0.36
20 12 0.36
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (19 bp):
ACTGGATTTCAAATTCGCA
Found at i:722124 original size:17 final size:17
Alignment explanation
Indices: 722102--722136 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
722092 AAAAATGACT
722102 ATCGCAACGCAAAATGA
1 ATCGCAACGCAAAATGA
*
722119 ATCGCAACGCGAAATGA
1 ATCGCAACGCAAAATGA
722136 A
1 A
722137 AATCACAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (17 bp):
ATCGCAACGCAAAATGA
Found at i:722159 original size:33 final size:33
Alignment explanation
Indices: 722117--722212 Score: 165
Period size: 33 Copynumber: 2.9 Consensus size: 33
722107 AACGCAAAAT
*
722117 GAATCGCAACGCGAAATGAAAATCACAACGAGA
1 GAATCGCAACGCGAAATGAAAATCGCAACGAGA
*
722150 GAATCGCAACTCGAAATGAAAATCGCAACGAGA
1 GAATCGCAACGCGAAATGAAAATCGCAACGAGA
*
722183 GAATCGCAATGCGAAATGAAAATCGCAACG
1 GAATCGCAACGCGAAATGAAAATCGCAACG
722213 CGATTATAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.46, C:0.21, G:0.22, T:0.11
Consensus pattern (33 bp):
GAATCGCAACGCGAAATGAAAATCGCAACGAGA
Found at i:722215 original size:19 final size:19
Alignment explanation
Indices: 722102--722215 Score: 90
Period size: 19 Copynumber: 6.6 Consensus size: 19
722092 AAAAATGACT
*
722102 ATCGCAACGCAAAATG--A
1 ATCGCAACGCGAAATGAAA
722119 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
722138 ATCACAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
722152 ATCGCAACTCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
722171 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
722185 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
722204 ATCGCAACGCGA
1 ATCGCAACGCGA
722216 TTATAGTTTC
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
14 19 0.25
15 2 0.03
16 4 0.05
17 19 0.25
18 2 0.03
19 31 0.40
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:722234 original size:19 final size:20
Alignment explanation
Indices: 722220--722314 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 20
722210 ACGCGATTAT
*
722220 AGTTTCGCGTTGCGATTTTT
1 AGTTTCGCGTTGCGATTTTC
*
722240 GGTTTCGCGTTGCGATTTTC
1 AGTTTCGCGTTGCGATTTTC
**
722260 A-TTTCGCGTTGCGATAGTC
1 AGTTTCGCGTTGCGATTTTC
* * *
722279 ATTTTTCACGTTGCGATTTTA
1 A-GTTTCGCGTTGCGATTTTC
*
722300 AGTTTCGTGTTGCGA
1 AGTTTCGCGTTGCGA
722315 AAGTAAACTA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 17 0.28
20 29 0.48
21 15 0.25
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
AGTTTCGCGTTGCGATTTTC
Found at i:722246 original size:20 final size:20
Alignment explanation
Indices: 722221--722274 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
722211 CGCGATTATA
*
722221 GTTTCGCGTTGCGATTTTTG
1 GTTTCGCGTTGCGATTTTTC
722241 GTTTCGCGTTGCGA-TTTTC
1 GTTTCGCGTTGCGATTTTTC
*
722260 ATTTCGCGTTGCGAT
1 GTTTCGCGTTGCGAT
722275 AGTCATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.07, C:0.19, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTTCGCGTTGCGATTTTTC
Found at i:722511 original size:94 final size:94
Alignment explanation
Indices: 722365--722743 Score: 656
Period size: 94 Copynumber: 4.1 Consensus size: 94
722355 ATGGATTGCA
* *
722365 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
722429 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
722458 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
722523 TTAGCAGAATTGGCAGCAACAGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
722552 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCATAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
722617 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
722646 TTAC-TTCAACCAAAAGACAAAACAAAAGAC-AATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
722709 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
722739 TTACT
1 TTACT
722744 AAGCAATCTA
Statistics
Matches: 274, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
93 87 0.32
94 187 0.68
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:724427 original size:20 final size:20
Alignment explanation
Indices: 724402--724554 Score: 114
Period size: 20 Copynumber: 8.7 Consensus size: 20
724392 TTTTGGTTGA
*
724402 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGCGAG
*
724422 AATGAAAATCGCAACGCGAA
1 AATGAAAATCGCAACGCGAG
**
724442 AATGACTATCGCAA--CGAG
1 AATGAAAATCGCAACGCGAG
724460 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGCGAG
*
724475 AATGAAAATTGCAA--CGAG
1 AATGAAAATCGCAACGCGAG
724493 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGCGAG
724508 AATGAAAATCGCAA--CGAG
1 AATGAAAATCGCAACGCGAG
724526 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGCGAG
724541 AATGAAAATCGCAA
1 AATGAAAATCGCAA
724555 TGCAATTTTG
Statistics
Matches: 105, Mismatches: 8, Indels: 41
0.68 0.05 0.27
Matches are distributed among these distances:
14 22 0.21
16 15 0.14
17 12 0.11
18 3 0.03
19 23 0.22
20 30 0.29
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGAG
Found at i:724468 original size:14 final size:14
Alignment explanation
Indices: 724449--724537 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
724439 GAAAATGACT
724449 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
724463 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
724482 ATTGCAACGAGAGA
1 ATCGCAACGAGAGA
*
724496 ATCGCAACGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
724515 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
724529 ATCGCAACG
1 ATCGCAACG
724538 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 28 0.47
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 19 0.32
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:724489 original size:33 final size:33
Alignment explanation
Indices: 724400--724554 Score: 220
Period size: 33 Copynumber: 4.5 Consensus size: 33
724390 TCTTTTGGTT
724400 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
**
724439 GAAAATGACTATCGCAACGAGAGAATCGCAACGC
1 G-AAATGAAAATCGCAACGAGAGAATCGCAACGC
*
724473 GAAATGAAAATTGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
724506 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
724539 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
724555 TGCAATTTTG
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
33 77 0.71
34 12 0.11
36 1 0.01
37 1 0.01
38 3 0.03
39 1 0.01
40 14 0.13
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:724590 original size:14 final size:14
Alignment explanation
Indices: 724571--724627 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
724561 TTTGGTTTCG
724571 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
724585 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
724604 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
724618 CGTTGCGATT
1 CGTTGCGATT
724628 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:724603 original size:33 final size:33
Alignment explanation
Indices: 724566--724635 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
724556 GCAATTTTGG
724566 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
724599 TTTCGCGTTGTGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
724632 TTTC
1 TTTC
724636 TCTCGTTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.09, C:0.23, G:0.20, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:724638 original size:21 final size:20
Alignment explanation
Indices: 724612--724690 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
724602 CGCGTTGTGA
724612 TTCTCTCGTTGCGATTTTCAT
1 TTCTCT-GTTGCGATTTTCAT
**
724633 TTCTCTCGTTGCGATAGTCAT
1 TTCTCT-GTTGCGATTTTCAT
* *
724654 TTTTGTGTTGCGATTTTCAT
1 TTCTCTGTTGCGATTTTCAT
724674 TT-TCATGTTGCGATTTT
1 TTCTC-TGTTGCGATTTT
724691 AAGTTTAGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.02
20 26 0.52
21 23 0.46
ACGTcount: A:0.11, C:0.18, G:0.18, T:0.53
Consensus pattern (20 bp):
TTCTCTGTTGCGATTTTCAT
Found at i:725267 original size:21 final size:21
Alignment explanation
Indices: 725221--725319 Score: 148
Period size: 21 Copynumber: 4.8 Consensus size: 21
725211 CGATAGTCAG
725221 ATTCGCATTGCGATTTACGT-
1 ATTCGCATTGCGATTTACGTA
* * *
725241 ATTCGCATAGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTA
725262 ATTCGCATTGCGATTTACGTA
1 ATTCGCATTGCGATTTACGTA
725283 ATTCGCATTGCGATTTACGTA
1 ATTCGCATTGCGATTTACGTA
*
725304 A-TCGCGTTGCGATTTA
1 ATTCGCATTGCGATTTA
725320 GGAAAATCGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 31 0.44
21 40 0.56
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (21 bp):
ATTCGCATTGCGATTTACGTA
Found at i:725272 original size:41 final size:42
Alignment explanation
Indices: 725221--725319 Score: 148
Period size: 41 Copynumber: 2.4 Consensus size: 42
725211 CGATAGTCAG
*
725221 ATTCGCATTGCGATTTACGT-ATTCGCATAGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTAATTCGCATAGCGATTTACCTA
* *
725262 ATTCGCATTGCGATTTACGTAATTCGCATTGCGATTTACGTA
1 ATTCGCATTGCGATTTACGTAATTCGCATAGCGATTTACCTA
*
725304 A-TCGCGTTGCGATTTA
1 ATTCGCATTGCGATTTA
725320 GGAAAATCGC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 34 0.64
42 19 0.36
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.38
Consensus pattern (42 bp):
ATTCGCATTGCGATTTACGTAATTCGCATAGCGATTTACCTA
Found at i:725329 original size:21 final size:20
Alignment explanation
Indices: 725223--725358 Score: 101
Period size: 21 Copynumber: 6.6 Consensus size: 20
725213 ATAGTCAGAT
* *
725223 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGAAA
* * * *
725243 TCGCATAGCGATTTTCCTAAT
1 TCGCATTGCGA-TTTACGAAA
*
725264 TCGCATTGCGATTTACGTAAT
1 TCGCATTGCGATTTACG-AAA
*
725285 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGAAA
* *
725305 TCGCGTTGCGATTTAGGAAAA
1 TCGCATTGCGATTTACG-AAA
** **
725326 TCGCAACGCGAATTTGGGAAA
1 TCGCATTGCG-ATTTACGAAA
*
725347 TCGCAATGCGAT
1 TCGCATTGCGAT
725359 AGTCAAAATC
Statistics
Matches: 95, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
20 32 0.34
21 57 0.60
22 6 0.06
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (20 bp):
TCGCATTGCGATTTACGAAA
Found at i:728310 original size:9 final size:9
Alignment explanation
Indices: 728288--728322 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
728278 GATTTAAATA
728288 TAATTTTA-
1 TAATTTTAT
728296 -AATTTTAT
1 TAATTTTAT
728304 TAATTTTAT
1 TAATTTTAT
728313 TAATTTTAT
1 TAATTTTAT
728322 T
1 T
728323 TTAATCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.28
9 18 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAATTTTAT
Found at i:729157 original size:12 final size:12
Alignment explanation
Indices: 729140--729164 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
729130 CGAAAATTGA
729140 AAAATTTAAATT
1 AAAATTTAAATT
729152 AAAATTTAAATT
1 AAAATTTAAATT
729164 A
1 A
729165 CCCGATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTAAATT
Found at i:729327 original size:20 final size:19
Alignment explanation
Indices: 729291--729329 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
729281 AGGAAAAAAT
*
729291 GAGGAAAAAAATGAATAAA
1 GAGGAAAAAAATAAATAAA
*
729310 GAGGAAAAATATTAAATAAA
1 GAGGAAAAA-AATAAATAAA
729330 TAAAAAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (19 bp):
GAGGAAAAAAATAAATAAA
Found at i:729500 original size:29 final size:30
Alignment explanation
Indices: 729453--729510 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
729443 AAATCAAATA
729453 AAAATTTATAGGGTTAAATCGAAACAAAAC
1 AAAATTTATAGGGTTAAATCGAAACAAAAC
* *
729483 AAAA-TTA-AGGGATTAAATTGAAATAAAA
1 AAAATTTATAGGG-TTAAATCGAAACAAAA
729511 ATGAAGGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 17 0.68
30 4 0.16
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (30 bp):
AAAATTTATAGGGTTAAATCGAAACAAAAC
Found at i:730644 original size:5 final size:5
Alignment explanation
Indices: 730630--730681 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
730620 AAAAATAAGG
* *
730630 AATAA AATAA CATAA AATAA AATAA TAATAA TAATAA AA-AA TA-AA AATAA
1 AATAA AATAA AATAA AATAA AATAA -AATAA -AATAA AATAA AATAA AATAA
730680 AA
1 AA
730682 ATATTTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 6 0.15
5 24 0.59
6 11 0.27
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:730670 original size:19 final size:19
Alignment explanation
Indices: 730618--730684 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
730608 CAAACAAAGC
**
730618 ATAAAAATAAGGAAT-AAA
1 ATAAAAATAAAAAATAAAA
*
730636 ATAACATAA-AATAAAATAATA
1 ATAA-A-AATAA-AAAATAAAA
*
730657 ATAATAATAAAAAATAAAA
1 ATAAAAATAAAAAATAAAA
730676 ATAAAAATA
1 ATAAAAATA
730685 TTTTCAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 4 0.11
19 21 0.55
20 7 0.18
21 6 0.16
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (19 bp):
ATAAAAATAAAAAATAAAA
Found at i:730678 original size:22 final size:21
Alignment explanation
Indices: 730620--730681 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 21
730610 AACAAAGCAT
*
730620 AAAAATAAGGAATAAAATAACA
1 AAAAATAA-AAATAAAATAACA
* *
730642 TAAAATAAAATAATAATAATAATA
1 AAAAAT-AAA-AATAA-AATAACA
730666 AAAAATAAAAATAAAA
1 AAAAATAAAAATAAAA
730682 ATATTTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.06
22 10 0.30
23 10 0.30
24 11 0.33
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (21 bp):
AAAAATAAAAATAAAATAACA
Found at i:730684 original size:22 final size:22
Alignment explanation
Indices: 730620--730684 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
730610 AACAAAGCAT
*
730620 AAAAATAAGGAAT-AAAATAACA
1 AAAAATAA-AAATAAAAATAACA
* * *
730642 TAAAATAAAATAATAATAATAATA
1 AAAAAT-AAA-AATAAAAATAACA
730666 AAAAATAAAAATAAAAATA
1 AAAAATAAAAATAAAAATA
730685 TTTTCAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
22 14 0.41
23 8 0.24
24 12 0.35
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (22 bp):
AAAAATAAAAATAAAAATAACA
Found at i:730722 original size:38 final size:37
Alignment explanation
Indices: 730679--730923 Score: 128
Period size: 36 Copynumber: 6.8 Consensus size: 37
730669 AATAAAAATA
730679 AAAATATTTTCAAAAACATATATAATATATAAATTTCT
1 AAAATATTTTCAAAAAC-TATATAATATATAAATTTCT
* *
730717 AAAATATTTTTTAAAAA-AACTATAATATAT--A----T
1 AAAATA-TTTTCAAAAACTA-TATAATATATAAATTTCT
* ** *
730749 ---ATATTTTCAAAAATTATATAATATATATGTTTTCA
1 AAAATATTTTCAAAAACTATATAATATATA-AATTTCT
* * **
730784 AAAATGTTTT-AAAAACTATATATTATATTTATTT-T
1 AAAATATTTTCAAAAACTATATAATATATAAATTTCT
* *
730819 CAAAATGTTTT-AAAAACTATATAATATATAAATGTTTTCA
1 -AAAATATTTTCAAAAACTATATAATATATAAA---TTTCT
*** *
730859 AAAATATTTTC-AAAAC--TATAATATATGTGCTTTCA
1 AAAATATTTTCAAAAACTATATAATATAT-AAATTTCT
* *
730894 AAAATGTTTTCAAAAATTATAT-ATATATAA
1 AAAATATTTTCAAAAACTATATAATATATAA
730924 GTATATATAA
Statistics
Matches: 159, Mismatches: 25, Indels: 48
0.69 0.11 0.21
Matches are distributed among these distances:
28 19 0.12
29 4 0.03
32 1 0.01
35 15 0.09
36 36 0.23
37 33 0.21
38 25 0.16
39 26 0.16
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (37 bp):
AAAATATTTTCAAAAACTATATAATATATAAATTTCT
Found at i:730758 original size:67 final size:63
Alignment explanation
Indices: 730682--730823 Score: 171
Period size: 63 Copynumber: 2.2 Consensus size: 63
730672 AAAAATAAAA
*
730682 ATATTTTCAAAAACATATATAATATATAAA-TTTCTAAAATATTTTTTAAAAAAACTATA-ATAT
1 ATATTTTCAAAAA-ATATATAATATATAAATTTTC-AAAA-ATGTTTT--AAAAACTATATAT-T
730745 ATAT
60 ATAT
* **
730749 ATATTTTCAAAAATTATATAATATATATGTTTTCAAAAATGTTTTAAAAACTATATATTATAT
1 ATATTTTCAAAAAATATATAATATATAAATTTTCAAAAATGTTTTAAAAACTATATATTATAT
*
730812 TTATTTTCAAAA
1 ATATTTTCAAAA
730824 TGTTTTAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
63 26 0.38
64 2 0.03
65 6 0.09
66 17 0.25
67 17 0.25
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (63 bp):
ATATTTTCAAAAAATATATAATATATAAATTTTCAAAAATGTTTTAAAAACTATATATTATAT
Found at i:730798 original size:37 final size:37
Alignment explanation
Indices: 730752--730922 Score: 197
Period size: 37 Copynumber: 4.6 Consensus size: 37
730742 TATATATATA
*
730752 TTTTCAAAAATTATATAATATATATGTTTTCAAAAATG
1 TTTT-AAAAACTATATAATATATATGTTTTCAAAAATG
* * *
730790 TTTTAAAAACTATATATTATATTTATTTTC-AAAATG
1 TTTTAAAAACTATATAATATATATGTTTTCAAAAATG
*
730826 TTTTAAAAACTATATAATATATAAATGTTTTCAAAAATA
1 TTTTAAAAACTATATAATATAT--ATGTTTTCAAAAATG
* * *
730865 TTTTCAAAAC--TATAATATATGTGCTTTCAAAAATG
1 TTTTAAAAACTATATAATATATATGTTTTCAAAAATG
*
730900 TTTTCAAAAATTATAT-ATATATA
1 TTTT-AAAAACTATATAATATATA
730923 AGTATATATA
Statistics
Matches: 112, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
35 16 0.14
36 31 0.28
37 38 0.34
38 13 0.12
39 14 0.12
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
TTTTAAAAACTATATAATATATATGTTTTCAAAAATG
Found at i:730844 original size:101 final size:105
Alignment explanation
Indices: 730678--730863 Score: 247
Period size: 101 Copynumber: 1.8 Consensus size: 105
730668 AAATAAAAAT
*
730678 AAAAATATTTTCAAAAACATATATAATATATAAATTTCTAAAATATTTTTTAAAAAAACTATAAT
1 AAAAATATTTTCAAAAACATATATAATATATAAATTTCTAAAATATGTTTTAAAAAAACTATAAT
*
730743 ATATATATATTTTCAAAAATTATATAATATATATGTTTTC
66 ATATAAATATTTTCAAAAATTATATAATATATATGTTTTC
* * ** * *
730783 AAAAATGTTTT-AAAAAC-TATATATTATATTTATTT-TCAAA-ATGTTTTAAAAACTA-TATAA
1 AAAAATATTTTCAAAAACATATATAATATATAAATTTCTAAAATATGTTTTAAAAA-AACTATAA
*
730843 TATATAAATGTTTTCAAAAAT
65 TATATAAATATTTTCAAAAAT
730864 ATTTTCAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
101 35 0.49
102 5 0.07
103 15 0.21
104 6 0.08
105 10 0.14
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (105 bp):
AAAAATATTTTCAAAAACATATATAATATATAAATTTCTAAAATATGTTTTAAAAAAACTATAAT
ATATAAATATTTTCAAAAATTATATAATATATATGTTTTC
Found at i:730878 original size:75 final size:75
Alignment explanation
Indices: 730752--730923 Score: 237
Period size: 75 Copynumber: 2.3 Consensus size: 75
730742 TATATATATA
* *
730752 TTTTCAAAAATTATATAATATAT--ATGTTTTCAAAAATGTTTTAAAAACTATATATTATATTTA
1 TTTTCAAAAATTATATAATATATAAATGTTTTCAAAAATATTTTAAAAACTATA-A-TATATGTA
*
730815 TTTTC-AAAATG
64 CTTTCAAAAATG
* * *
730826 TTTT-AAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAAACTATAATATATGTGCT
1 TTTTCAAAAATTATATAATATATAAATGTTTTCAAAAATATTTTAAAAACTATAATATATGTACT
730890 TTCAAAAATG
66 TTCAAAAATG
730900 TTTTCAAAAATTATAT-ATATATAA
1 TTTTCAAAAATTATATAATATATAA
730924 GTATATATAA
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
73 27 0.31
74 23 0.26
75 37 0.43
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (75 bp):
TTTTCAAAAATTATATAATATATAAATGTTTTCAAAAATATTTTAAAAACTATAATATATGTACT
TTCAAAAATG
Found at i:731668 original size:84 final size:82
Alignment explanation
Indices: 731566--732181 Score: 573
Period size: 81 Copynumber: 7.5 Consensus size: 82
731556 CTCGGGAGTC
*
731566 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAGCGTAG
1 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
731631 TCGAACTCGAAGGTCTT
66 TCGAACTCGAAGGTCTT
* * * * * * *
731648 TGGTTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCATATGATGCGCCCTCGAAGCTGAGCG
1 T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCG
* **
731713 TAATCGAACTCGGGGGTC--
63 TAGTCGAACTCGAAGGTCTT
*
731731 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
*
731796 TCGAACTCAAAGGTCTT
66 TCGAACTCGAAGGTCTT
* ** * * * * * * * * * * *
731813 TGCTAACAGATAACCCTTCTAGTCTTGAGTTATGTTGTAAATGTTATGCCCTTGAAGCTGAGTGT
1 T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGT
* *
731878 AATCGAACT-TAAGGGTC--
64 AGTCGAACTCGAA-GGTCTT
* *
731895 TTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
*
731960 TCGAACTCAAAGGTCTT
66 TCGAACTCGAAGGTCTT
* ** * * * * * * * * * * *
731977 TGCTAACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATGTTATGCCCTTGAAGCTGAGTGT
1 T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGT
* * *
732042 AATTGAACT-TAAGGGTC--
64 AGTCGAACTCGAA-GGTCTT
* *
732059 TTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
1 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
732124 TCGAACTCGAAGGTCTT
66 TCGAACTCGAAGGTCTT
** * * * * *
732141 GATGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
732182 AGTTTGTTTA
Statistics
Matches: 414, Mismatches: 103, Indels: 34
0.75 0.19 0.06
Matches are distributed among these distances:
80 78 0.19
81 108 0.26
82 37 0.09
83 70 0.17
84 93 0.22
85 28 0.07
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (82 bp):
TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
TCGAACTCGAAGGTCTT
Found at i:731926 original size:164 final size:164
Alignment explanation
Indices: 731509--732140 Score: 933
Period size: 164 Copynumber: 3.8 Consensus size: 164
731499 CTTCTTGCCA
* * * **
731509 TGAGCTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAATCGAAC-TCGGGAGTCTTTGGCA
1 TGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTAAGG-GTCTTTGGCA
* *
731573 GATAGCCCTTCTCGACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
65 GATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACT
* * ** *
731638 CGAAGGTCTTTGGTTGGCAGATAACCCTTCTTGACT
130 CAAAGGTCTTT-GCTAACAGATAACCCTTCTAGACT
* * * * ** * ***
731674 TAAGTTATGCTGCATATGATGCGCCCTCGAAGCTGAGCGTAATCGAACTCGGGGGTCTTTGGCAG
1 TGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAG
*
731739 ATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
66 ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
*
731804 AAAGGTCTTTGCTAACAGATAACCCTTCTAGTCT
131 AAAGGTCTTTGCTAACAGATAACCCTTCTAGACT
* *
731838 TGAGTTATGTTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAG
1 TGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAG
*
731903 ATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
66 ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
*
731968 AAAGGTCTTTGCTAACAGATAACCCTTCTAGCCT
131 AAAGGTCTTTGCTAACAGATAACCCTTCTAGACT
* * * *
732002 TGAGTTATGATGTAAATGTTATGCCCTTGAAGCTGAGTGTAATTGAACTTAAGGGTCTTTGGCAG
1 TGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAG
*
732067 ATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
66 ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
*
732132 GAAGGTCTT
131 AAAGGTCTT
732141 GATGGCAGGT
Statistics
Matches: 428, Mismatches: 38, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
164 304 0.71
165 121 0.28
166 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (164 bp):
TGAGTTATGTTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAG
ATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
AAAGGTCTTTGCTAACAGATAACCCTTCTAGACT
Found at i:735557 original size:19 final size:19
Alignment explanation
Indices: 735535--735571 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
735525 GAATGTAAAG
735535 AAAATAACAAAATGCAAAT
1 AAAATAACAAAATGCAAAT
*
735554 AAAATAACGAAATGCAAA
1 AAAATAACAAAATGCAAA
735572 ATGTCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.11, G:0.08, T:0.14
Consensus pattern (19 bp):
AAAATAACAAAATGCAAAT
Found at i:737209 original size:12 final size:12
Alignment explanation
Indices: 737192--737216 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
737182 CGAAAATTGA
737192 AAAATTTAAATT
1 AAAATTTAAATT
737204 AAAATTTAAATT
1 AAAATTTAAATT
737216 A
1 A
737217 CCCGATTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTAAATT
Found at i:737379 original size:20 final size:19
Alignment explanation
Indices: 737343--737381 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
737333 AGGAAAAAAT
*
737343 GAGGAAAAAAATGAATAAA
1 GAGGAAAAAAATAAATAAA
*
737362 GAGGAAAAATATTAAATAAA
1 GAGGAAAAA-AATAAATAAA
737382 TAAAAAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (19 bp):
GAGGAAAAAAATAAATAAA
Found at i:737552 original size:29 final size:30
Alignment explanation
Indices: 737505--737562 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
737495 AAATCAAATA
737505 AAAATTTATAGGGTTAAATCGAAACAAAAC
1 AAAATTTATAGGGTTAAATCGAAACAAAAC
* *
737535 AAAA-TTA-AGGGATTAAATTGAAATAAAA
1 AAAATTTATAGGG-TTAAATCGAAACAAAA
737563 ATGAAGGCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 17 0.68
30 4 0.16
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (30 bp):
AAAATTTATAGGGTTAAATCGAAACAAAAC
Found at i:738694 original size:5 final size:5
Alignment explanation
Indices: 738680--738727 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
738670 AAAAATAAGG
* *
738680 AATAA AATAA CATAA AATAA AATAA TAATAA TAA-AT AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA -AATAA -AATAA AATAA AATAA AA
738728 ATATTTTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 2 0.05
5 27 0.73
6 8 0.22
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:738715 original size:18 final size:18
Alignment explanation
Indices: 738668--738730 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
738658 CAAACAAAGC
**
738668 ATAAAAATAAGGAATAAA
1 ATAAAAATAAATAATAAA
*
738686 AT-AACATAAAATAA-AATA
1 ATAAAAAT-AAATAATAA-A
*
738704 ATAATAATAAATAATAAA
1 ATAAAAATAAATAATAAA
738722 ATAAAAATA
1 ATAAAAATA
738731 TTTTCAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 6 0.17
18 24 0.69
19 5 0.14
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (18 bp):
ATAAAAATAAATAATAAA
Found at i:738815 original size:28 final size:26
Alignment explanation
Indices: 738772--738834 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
738762 TAAAATATTT
* *
738772 TTTTTAAAAACTATA-ATATATATATA
1 TTTTCAAAAATTATATA-ATATATATA
*
738798 TTTTCAAAAATTATATAATATATATG
1 TTTTCAAAAATTATATAATATATATA
738824 TTTTCAAAAAT
1 TTTTCAAAAAT
738835 GTTTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (26 bp):
TTTTCAAAAATTATATAATATATATA
Found at i:738844 original size:37 final size:37
Alignment explanation
Indices: 738798--738966 Score: 193
Period size: 37 Copynumber: 4.6 Consensus size: 37
738788 TATATATATA
*
738798 TTTTCAAAAATTATATAATATATATGTTTTCAAAAATG
1 TTTT-AAAAACTATATAATATATATGTTTTCAAAAATG
* * *
738836 TTTTAAAAACTATATATTATATTTATTTTC-AAAATG
1 TTTTAAAAACTATATAATATATATGTTTTCAAAAATG
*
738872 TTTTAAAAACTATATAATATATAAATGTTTTCAAAAATA
1 TTTTAAAAACTATATAATATAT--ATGTTTTCAAAAATG
* * *
738911 TTTTCAAAAC--TATAATATATGTGCTTTCAAAAATG
1 TTTTAAAAACTATATAATATATATGTTTTCAAAAATG
*
738946 TTTTCAAAAATTATAT-ATATA
1 TTTT-AAAAACTATATAATATA
738967 AGTATATATA
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
35 16 0.14
36 31 0.28
37 37 0.33
38 13 0.12
39 14 0.13
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
TTTTAAAAACTATATAATATATATGTTTTCAAAAATG
Found at i:738857 original size:63 final size:66
Alignment explanation
Indices: 738728--738869 Score: 177
Period size: 63 Copynumber: 2.2 Consensus size: 66
738718 TAAAATAAAA
*
738728 ATATTTTCAAAAACATATATAATATATAAATTTCTAAAATATTTTTTTTAAAAACTATAATATAT
1 ATATTTTCAAAAACATATATAATATATAAATTTCTAAAATA-TTGTTTTAAAAACTATAATATAT
738793 AT
65 AT
* **
738795 ATATTTTCAAAAA-TTATATAATATATATGTTT-TCAAAA-A-TGTTTTAAAAACTAT-ATATTA
1 ATATTTTCAAAAACATATATAATATATAAATTTCT-AAAATATTGTTTTAAAAACTATAATA-TA
738855 TAT
64 TAT
*
738858 TTATTTTCAAAA
1 ATATTTTCAAAA
738870 TGTTTTAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
62 3 0.04
63 30 0.44
65 2 0.03
66 20 0.29
67 13 0.19
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (66 bp):
ATATTTTCAAAAACATATATAATATATAAATTTCTAAAATATTGTTTTAAAAACTATAATATATA
T
Found at i:738924 original size:75 final size:73
Alignment explanation
Indices: 738798--738966 Score: 227
Period size: 75 Copynumber: 2.3 Consensus size: 73
738788 TATATATATA
* * *
738798 TTTTCAAAAATTATATAATATATATGTTTTCAAAAATGTTTTAAAAACTATATATTATATTTATT
1 TTTTCAAAAATTATATAATATATATGTTTTCAAAAATATTTTAAAAACTATA-A-TATATGTACT
738863 TTC-AAAATG
64 TTCAAAAATG
* * *
738872 TTTT-AAAAACTATATAATATATAAATGTTTTCAAAAATATTTTCAAAACTATAATATATGTGCT
1 TTTTCAAAAATTATATAATATAT--ATGTTTTCAAAAATATTTTAAAAACTATAATATATGTACT
738936 TTCAAAAATG
64 TTCAAAAATG
738946 TTTTCAAAAATTATAT-ATATA
1 TTTTCAAAAATTATATAATATA
738967 AGTATATATA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
73 27 0.32
74 20 0.24
75 37 0.44
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (73 bp):
TTTTCAAAAATTATATAATATATATGTTTTCAAAAATATTTTAAAAACTATAATATATGTACTTT
CAAAAATG
Found at i:742691 original size:44 final size:42
Alignment explanation
Indices: 742586--742808 Score: 347
Period size: 44 Copynumber: 5.2 Consensus size: 42
742576 AGCATGGGAA
* * *
742586 AACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGA
1 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGG
742628 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTAGTGGG
1 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT-G-GGG
* * *
742672 AACTGTAAGGCTTATCCTTGCACAGAGCAAAGGGACCTGGGGG
1 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT-GGGG
742715 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGG
1 AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCT-GGGG
742758 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGG
1 -AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGG
742801 AACTGTAA
1 AACTGTAA
742809 CGATAATTAA
Statistics
Matches: 168, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
42 44 0.26
43 48 0.29
44 76 0.45
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.17
Consensus pattern (42 bp):
AACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGG
Found at i:742752 original size:87 final size:86
Alignment explanation
Indices: 742585--742808 Score: 369
Period size: 87 Copynumber: 2.6 Consensus size: 86
742575 GAGCATGGGA
* *
742585 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTACCCTTGCA
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGAACTGTAAGGCTTACCCTTGCA
*
742650 CACAACAAAGGGACCTAGTGGG
66 CACAACAAAGGGACCT-GGGGG
* *
742672 -AACTGTAAGGCTTATCCTTGCACAGAGCAAAGGGACCTGGGGGAACTGTAAGGCTTACCCTTGC
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCT-GGGGAACTGTAAGGCTTACCCTTGC
742736 ACACAACAAAGGGACCTGGGGG
65 ACACAACAAAGGGACCTGGGGG
*
742758 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTGGGGAACTGTAA
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGAACTGTAA
742809 CGATAATTAA
Statistics
Matches: 127, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
86 51 0.40
87 76 0.60
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.17
Consensus pattern (86 bp):
AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGAACTGTAAGGCTTACCCTTGCA
CACAACAAAGGGACCTGGGGG
Found at i:747281 original size:16 final size:16
Alignment explanation
Indices: 747260--747293 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
747250 CATCCGCATG
747260 AAGGTCCCCATGAGCC
1 AAGGTCCCCATGAGCC
747276 AAGGTCCCCATGAGCC
1 AAGGTCCCCATGAGCC
747292 AA
1 AA
747294 CGTAGTCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (16 bp):
AAGGTCCCCATGAGCC
Found at i:748021 original size:5 final size:5
Alignment explanation
Indices: 748011--748037 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
748001 AATTTGTGTA
748011 TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TT
748038 GATTCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:756805 original size:16 final size:16
Alignment explanation
Indices: 756784--756817 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
756774 TTACTATTCA
*
756784 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
756800 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
756816 CG
1 CG
756818 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:763941 original size:45 final size:45
Alignment explanation
Indices: 763892--763986 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
763882 TAATTATATG
* * *
763892 TCTTTATATTGAAAGAATAAATTTGTTTGTTGTACATTATTTGTT
1 TCTTTAGATTGAAAGAATAAATTTGTGTGTTGTACATTATTTATT
* * *
763937 TCTTTAGATTTAAAGATTATATTTGTGTGTTGTACATTATTTATT
1 TCTTTAGATTGAAAGAATAAATTTGTGTGTTGTACATTATTTATT
763982 TCTTT
1 TCTTT
763987 TTATGTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (45 bp):
TCTTTAGATTGAAAGAATAAATTTGTGTGTTGTACATTATTTATT
Found at i:768180 original size:7 final size:6
Alignment explanation
Indices: 768140--768179 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
768130 TACTCAAAGC
*
768140 AAGAAA AAGAAGA AAGAAG AAGTAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAA-A AAGAAA AAG-AAA AAGAAA AAGAAA AA
768180 AAGGATTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (6 bp):
AAGAAA
Found at i:768180 original size:13 final size:13
Alignment explanation
Indices: 768140--768180 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
768130 TACTCAAAGC
*
768140 AAGAAAAAGAAGA
1 AAGAAAAAGAAAA
* *
768153 AAGAAGAAGTAAA
1 AAGAAAAAGAAAA
768166 AAGAAAAAGAAAA
1 AAGAAAAAGAAAA
768179 AA
1 AA
768181 AGGATTTGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAGAAAAAGAAAA
Found at i:770270 original size:51 final size:52
Alignment explanation
Indices: 770182--770317 Score: 202
Period size: 51 Copynumber: 2.6 Consensus size: 52
770172 ATCTATCTGG
* *
770182 GGCATCATAAAAGCTCACATCAGCATGAAAAAGACAGAAGTAATCCATGTG-
1 GGCATCTTAAAGGCTCACATCAGCATGAAAAAGACAGAAGTAATCCATGTGA
* *
770233 GGTATCTTAAAGGCTCAAATCAGCATGAAAAAGACAGAAGTAATCCATGTGA
1 GGCATCTTAAAGGCTCACATCAGCATGAAAAAGACAGAAGTAATCCATGTGA
* * *
770285 GGCATCTTGAAGGCTCACACCAGCATAAAAAAG
1 GGCATCTTAAAGGCTCACATCAGCATGAAAAAG
770318 GTTGGGATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 47 0.63
52 28 0.37
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (52 bp):
GGCATCTTAAAGGCTCACATCAGCATGAAAAAGACAGAAGTAATCCATGTGA
Done.