Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 53 of 208
Found at i:20625707 original size:23 final size:22
Alignment explanation
Indices: 20625679--20625721 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
20625669 AAATAAACTT
20625679 AAAATAAAAAATATTATATTTTA
1 AAAATAAAAAATA-TATATTTTA
20625702 AAAATAAAAAATATATATTT
1 AAAATAAAAAATATATATTT
20625722 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATAAAAAATATATATTTTA
Found at i:20627978 original size:6 final size:6
Alignment explanation
Indices: 20627967--20627994 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
20627957 CATTTATAGG
20627967 AACTTC AACTTC AACTTC AACTTC AACT
1 AACTTC AACTTC AACTTC AACTTC AACT
20627995 AATTTTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
AACTTC
Found at i:20643665 original size:20 final size:20
Alignment explanation
Indices: 20643624--20643667 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20643614 GAAGGTGGAA
*
20643624 TTAGGTATTTTGACTTCCAT
1 TTAGGTATTTTGACTTCAAT
20643644 TTAGGTATTTTG-CTTTCAAT
1 TTAGGTATTTTGAC-TTCAAT
20643664 TTAG
1 TTAG
20643668 ACATGTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.52
Consensus pattern (20 bp):
TTAGGTATTTTGACTTCAAT
Found at i:20656413 original size:41 final size:40
Alignment explanation
Indices: 20656383--20656517 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
20656373 ATTATAATCC
*
20656383 CGCACACTAAGTGCCTTACATAGCCAAAGCTATCT-CAGT
1 CGCACACTAAGTGCCTTACATAGCCAAAGCTATCTCCAAT
* * * *
20656422 CTTACACACTAAGTGCCATATATAGCTAAAGCTAT-TCCCAAT
1 C--GCACACTAAGTGCCTTACATAGCCAAAGCTATCT-CCAAT
* * *
20656464 CGCACACTAAGTGCCATTA-ATATCCGAAGCTATCTCGAAT
1 CGCACACTAAGTGCC-TTACATAGCCAAAGCTATCTCCAAT
20656504 CGCACACTAAGTGC
1 CGCACACTAAGTGC
20656518 TAAACATAGT
Statistics
Matches: 79, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
39 1 0.01
40 43 0.54
41 31 0.39
42 4 0.05
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (40 bp):
CGCACACTAAGTGCCTTACATAGCCAAAGCTATCTCCAAT
Found at i:20674253 original size:20 final size:20
Alignment explanation
Indices: 20674212--20674255 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
20674202 GAAGGTGGAA
*
20674212 TTAGGTATTTTGACTTCCAT
1 TTAGGTATTTTGACTTCAAT
20674232 TTAGGTATTTTG-CTTTCAAT
1 TTAGGTATTTTGAC-TTCAAT
20674252 TTAG
1 TTAG
20674256 ACATGTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.52
Consensus pattern (20 bp):
TTAGGTATTTTGACTTCAAT
Found at i:20687247 original size:41 final size:40
Alignment explanation
Indices: 20687182--20687365 Score: 174
Period size: 40 Copynumber: 4.5 Consensus size: 40
20687172 CAATGTTTTG
* * **
20687182 CACACTAAATGCCATCGCATAGCCGAAGCTAT-TATAATCCCA
1 CACACTAAGTGCCAT-ACATAGCCGAAGCTATCTCCAAT--CA
* *
20687224 CACACTAAGTGCCTTACATAGCCGAAGCTATCT-CAGTCTCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCCA--ATCA
* ** *
20687265 CACACTAAGTGCCATATATAGATGAAGCTATCTCCAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCCAATCA
* * *
20687305 CGCACTAAGTGCCATAAATAGCCGAAGCTATCTCGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCCAATCA
* *
20687345 CACACTAAGTGCTAAACATAG
1 CACACTAAGTGCCATACATAG
20687366 TCGATTAATC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
40 53 0.45
41 47 0.40
42 16 0.14
43 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCCAATCA
Found at i:20691582 original size:3 final size:3
Alignment explanation
Indices: 20691574--20691610 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
20691564 TACACTTGTA
20691574 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20691611 TACCATACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:20691863 original size:17 final size:17
Alignment explanation
Indices: 20691828--20691910 Score: 59
Period size: 17 Copynumber: 5.0 Consensus size: 17
20691818 ATTTATTTCT
20691828 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
20691842 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
* *
20691859 TAATATACTTTATAATTAA
1 TAATATA-ATTA-ATTTAA
*
20691878 T-TTATAATTAATTT-A
1 TAATATAATTAATTTAA
* *
20691893 TATATATATTTAAATTAA
1 TA-ATATAATTAATTTAA
20691911 ATCATTATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
14 8 0.15
15 3 0.06
16 7 0.13
17 21 0.40
18 8 0.15
19 6 0.11
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:20691877 original size:24 final size:22
Alignment explanation
Indices: 20691845--20691910 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 22
20691835 ATATTTATAA
*
20691845 TATAATTAATTTAATAATATACTT
1 TATAATTAATTT-ATAAT-TAATT
20691869 TATAATTAATTTATAATTAATT
1 TATAATTAATTTATAATTAATT
20691891 TAT-ATATATATTTA-AATTAA
1 TATAAT-TA-ATTTATAATTAA
20691911 ATCATTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 2 0.05
22 15 0.38
23 10 0.26
24 12 0.31
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATAATTAATTTATAATTAATT
Found at i:20691883 original size:11 final size:11
Alignment explanation
Indices: 20691845--20691894 Score: 73
Period size: 11 Copynumber: 4.4 Consensus size: 11
20691835 ATATTTATAA
20691845 TATAATTAATT
1 TATAATTAATT
*
20691856 TAATAATATACTT
1 T-ATAAT-TAATT
20691869 TATAATTAATT
1 TATAATTAATT
20691880 TATAATTAATT
1 TATAATTAATT
20691891 TATA
1 TATA
20691895 TATATATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 20 0.57
12 10 0.29
13 5 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATAATTAATT
Found at i:20691884 original size:35 final size:33
Alignment explanation
Indices: 20691845--20691910 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 33
20691835 ATATTTATAA
20691845 TATAATTAATTTA-ATAATATACTTTATAATTAATT
1 TATAATTAATTTATAT-ATATA-TTTA-AATTAATT
20691880 TATAATTAATTTATATATATATTTAAATTAA
1 TATAATTAATTTATATATATATTTAAATTAA
20691911 ATCATTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 6 0.20
34 4 0.13
35 18 0.60
36 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (33 bp):
TATAATTAATTTATATATATATTTAAATTAATT
Found at i:20694448 original size:34 final size:37
Alignment explanation
Indices: 20694410--20694477 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
20694400 TAAATTTCAT
*
20694410 TAATATTA-TGATATTTTA-ATA-AAAATATAAAAAA
1 TAATATTATTAATATTTTATATATAAAATATAAAAAA
20694444 TAATATTATTAATATTTTATATATAAAATATAAA
1 TAATATTATTAATATTTTATATATAAAATATAAA
20694478 TTTTAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 8 0.27
35 9 0.30
36 3 0.10
37 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (37 bp):
TAATATTATTAATATTTTATATATAAAATATAAAAAA
Found at i:20694471 original size:28 final size:29
Alignment explanation
Indices: 20694434--20694490 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
20694424 TTTAATAAAA
*
20694434 ATATAAAAAATA-ATATTATT-AATATTTT
1 ATATAAAAAATATAAATT-TTAAATATTTT
*
20694462 ATATATAAAATATAAATTTTAAATATTTT
1 ATATAAAAAATATAAATTTTAAATATTTT
20694491 TAAGCATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
ATATAAAAAATATAAATTTTAAATATTTT
Found at i:20694492 original size:30 final size:30
Alignment explanation
Indices: 20694434--20694490 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
20694424 TTTAATAAAA
20694434 ATATAAAAAATAATATTATTAATATTTTAT
1 ATATAAAAAATAATATTATTAATATTTTAT
*
20694464 ATATAAAATATAA-ATT-TTAAATATTTT
1 ATATAAAAAATAATATTATT-AATATTTT
20694491 TAAGCATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 11 0.44
30 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
ATATAAAAAATAATATTATTAATATTTTAT
Found at i:20696618 original size:18 final size:18
Alignment explanation
Indices: 20696592--20696633 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
20696582 TTGATATGGT
*
20696592 TGGTGGTGAAGAAGAATG
1 TGGTGGTGAAGAAGAAGG
*
20696610 TGGTTGTGAAGAAGAAGG
1 TGGTGGTGAAGAAGAAGG
20696628 TGGTGG
1 TGGTGG
20696634 CGATCATTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.24
Consensus pattern (18 bp):
TGGTGGTGAAGAAGAAGG
Found at i:20698419 original size:20 final size:20
Alignment explanation
Indices: 20698392--20698439 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
20698382 ATTTAGTGTG
*
20698392 TTTTTTTGTTTTTTTTTTA-
1 TTTTTTTGTTGTTTTTTTAC
20698411 TTATTTTTGTTGTTTTTTTAC
1 TT-TTTTTGTTGTTTTTTTAC
20698432 TTTTTTTG
1 TTTTTTTG
20698440 ATATATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.06, C:0.02, G:0.08, T:0.83
Consensus pattern (20 bp):
TTTTTTTGTTGTTTTTTTAC
Found at i:20698428 original size:31 final size:32
Alignment explanation
Indices: 20698375--20698438 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
20698365 GTAAAATTAA
**
20698375 TTTATTAATTTAGTGTGTTTTTTTGTTTTTTT
1 TTTATTAATTTAGTGTGTTTTTTTACTTTTTT
* *
20698407 TTTATTATTTTTGT-TGTTTTTTTACTTTTTT
1 TTTATTAATTTAGTGTGTTTTTTTACTTTTTT
20698438 T
1 T
20698439 GATATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.78
Consensus pattern (32 bp):
TTTATTAATTTAGTGTGTTTTTTTACTTTTTT
Found at i:20698486 original size:26 final size:27
Alignment explanation
Indices: 20698440--20698506 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
20698430 ACTTTTTTTG
*
20698440 ATATATTTTGGTAAATAAAAAATTTAT
1 ATATATTTTGGTAAATAAAAAAATTAT
*
20698467 ATATTTTTTGGTAAATAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAATTAT
20698494 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
20698507 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 11 0.30
27 26 0.70
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.45
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAATTAT
Found at i:20698576 original size:19 final size:19
Alignment explanation
Indices: 20698539--20698590 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
20698529 TTTAAAACCC
** *
20698539 ATAATAAAACGTTACAAAA
1 ATAATAAAATATTAAAAAA
20698558 ATAATAAAATATTAAAAAA
1 ATAATAAAATATTAAAAAA
**
20698577 ATACCAAAATATTA
1 ATAATAAAATATTA
20698591 TATATTCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (19 bp):
ATAATAAAATATTAAAAAA
Found at i:20699306 original size:10 final size:10
Alignment explanation
Indices: 20699293--20699442 Score: 57
Period size: 10 Copynumber: 15.1 Consensus size: 10
20699283 TCCTTCCCTC
20699293 TTCTTCTTCT
1 TTCTTCTTCT
* *
20699303 TTCTTTTTTT
1 TTCTTCTTCT
*
20699313 TCTCTTCTCCT
1 T-TCTTCTTCT
20699324 TTCCTT-TTCT
1 TT-CTTCTTCT
*
20699334 TTC--CTTAT
1 TTCTTCTTCT
20699342 TT-TTCTTTCT
1 TTCTTC-TTCT
* **
20699352 TTCCTCCCCT
1 TTCTTCTTCT
20699362 TTCCTT-TTCT
1 TT-CTTCTTCT
20699372 TTC--CTTCT
1 TTCTTCTTCT
20699380 TT-TTCTTTCT
1 TTCTTC-TTCT
* *
20699390 TTCCTCTCCT
1 TTCTTCTTCT
*
20699400 TTCCTT-TTCC
1 TT-CTTCTTCT
*
20699410 TTCTTTTTCT
1 TTCTTCTTCT
*
20699420 TGCTTCCTTTCT
1 TTCTT-C-TTCT
20699432 TTCTTCTTCT
1 TTCTTCTTCT
20699442 T
1 T
20699443 CCCCTCTCCT
Statistics
Matches: 100, Mismatches: 23, Indels: 34
0.64 0.15 0.22
Matches are distributed among these distances:
8 11 0.11
9 7 0.07
10 55 0.55
11 19 0.19
12 8 0.08
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.67
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:20699318 original size:21 final size:21
Alignment explanation
Indices: 20699294--20699443 Score: 88
Period size: 18 Copynumber: 7.4 Consensus size: 21
20699284 CCTTCCCTCT
*
20699294 TCTTCTTCTTTCTTTTTTTTC
1 TCTTCTTCTTTCTTTTCTTTC
*
20699315 TCTTCTCCTTTCCTTTTCTTTC
1 TCTTCTTCTTT-CTTTTCTTTC
*
20699337 -CTTATT-TTTC-TTTCTTTC
1 TCTTCTTCTTTCTTTTCTTTC
**
20699355 -C-TCCCCTTTCCTTTTCTTTC
1 TCTTCTTCTTT-CTTTTCTTTC
20699375 -CTTCTT-TTTC-TTTCTTTC
1 TCTTCTTCTTTCTTTTCTTTC
* *
20699393 -C-TCTCCTTTCCTTTTCCTTC
1 TCTTCTTCTTT-CTTTTCTTTC
* *
20699413 TTTTTCTTGC-TTCCTTTCTTTC
1 -TCTTCTT-CTTTCTTTTCTTTC
20699435 TTCTTCTTC
1 -TCTTCTTC
20699444 CCCTCTCCTT
Statistics
Matches: 101, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.04
18 24 0.24
19 4 0.04
20 22 0.22
21 17 0.17
22 24 0.24
23 5 0.05
24 1 0.01
ACGTcount: A:0.01, C:0.33, G:0.01, T:0.66
Consensus pattern (21 bp):
TCTTCTTCTTTCTTTTCTTTC
Found at i:20699391 original size:28 final size:28
Alignment explanation
Indices: 20699360--20699439 Score: 76
Period size: 34 Copynumber: 2.8 Consensus size: 28
20699350 CTTTCCTCCC
*
20699360 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTG
20699388 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTG
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTG
20699422 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
20699440 CTTCCCCTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.16
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 17 0.38
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTG
Found at i:20699430 original size:38 final size:38
Alignment explanation
Indices: 20699318--20699408 Score: 164
Period size: 38 Copynumber: 2.4 Consensus size: 38
20699308 TTTTTTCTCT
20699318 TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
* *
20699356 TCCCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
20699394 TCTCCTTTCCTTTTC
1 TCTCCTTTCCTTTTC
20699409 CTTCTTTTTC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (38 bp):
TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
Found at i:20699435 original size:22 final size:23
Alignment explanation
Indices: 20699400--20699442 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20699390 TTCCTCTCCT
*
20699400 TTCCTTTTCCTTCTTTTTCTTGC
1 TTCCTTTTCCTTCTTCTTCTTGC
*
20699423 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
20699443 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.67
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTGC
Found at i:20699440 original size:28 final size:30
Alignment explanation
Indices: 20699362--20699443 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 30
20699352 TTCCTCCCCT
*
20699362 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
* *
20699394 TCTCCTTTCCTTT-TCCTTCTT-TTTC-TTGC
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
20699423 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
20699444 CCCTCTCCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
27 4 0.10
28 13 0.31
29 4 0.10
30 4 0.10
31 6 0.14
32 4 0.10
33 7 0.17
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:20699596 original size:18 final size:18
Alignment explanation
Indices: 20699572--20699607 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20699562 CAGTTCAGGT
*
20699572 TTTTTTTTTCTGTTTTTTA
1 TTTTTTTGT-TGTTTTTTA
20699591 TTTTTTTGTTGTTTTTT
1 TTTTTTTGTTGTTTTTT
20699608 TATATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.86
Consensus pattern (18 bp):
TTTTTTTGTTGTTTTTTA
Found at i:20702451 original size:31 final size:31
Alignment explanation
Indices: 20702431--20702514 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
20702421 AACGTTTTCA
* *
20702431 ATCATTTTTATTTTGATCACTCATGTTTTAG
1 ATCATTTTTATTTTGGTCACTCATGTTTTAC
*
20702462 ATTATTTTTATTTTGGTCACTCATGTTTTAC
1 ATCATTTTTATTTTGGTCACTCATGTTTTAC
* *
20702493 ATCGTTTCTATTTTGGTCACTC
1 ATCATTTTTATTTTGGTCACTC
20702515 TCCATTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (31 bp):
ATCATTTTTATTTTGGTCACTCATGTTTTAC
Found at i:20706939 original size:18 final size:19
Alignment explanation
Indices: 20706902--20706939 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
20706892 TCACTTCTTT
* *
20706902 TTTTCTTTTTTCATTTTTC
1 TTTTCTTTTTTCAATATTC
20706921 TTTT-TTTTTTCAATATTC
1 TTTTCTTTTTTCAATATTC
20706939 T
1 T
20706940 GATTTTGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTTTTTTCAATATTC
Found at i:20707964 original size:5 final size:5
Alignment explanation
Indices: 20707949--20707991 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
20707939 TTCAAAGAGC
20707949 TTTGAG TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TT
1 TTTG-G TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TTTGG TT
20707992 GGATGGATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.02, C:0.00, G:0.37, T:0.60
Consensus pattern (5 bp):
TTTGG
Found at i:20711467 original size:18 final size:18
Alignment explanation
Indices: 20711444--20711478 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20711434 CACAGAAATA
20711444 AAAATAA-ATAATAATAAT
1 AAAATAATA-AATAATAAT
20711462 AAAATAATAAATAATAA
1 AAAATAATAAATAATAA
20711479 AACGAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATAATAAATAATAAT
Found at i:20719136 original size:2 final size:2
Alignment explanation
Indices: 20719125--20719161 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
20719115 TTTTAAGCAA
20719125 AT AT AT -T AT AT AT AT AT AT AT AT AT AT GAT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A
20719162 ATTATTTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20735266 original size:19 final size:19
Alignment explanation
Indices: 20735236--20735275 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20735226 TTAAAAATTC
20735236 AAAATAATAAAAATATTATA
1 AAAATAATAAAAATATT-TA
*
20735256 AAAATAA-AAAAGTATTTA
1 AAAATAATAAAAATATTTA
20735274 AA
1 AA
20735276 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATAATAAAAATATTTA
Found at i:20735276 original size:27 final size:26
Alignment explanation
Indices: 20735246--20735311 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
20735236 AAAATAATAA
**
20735246 AAATATTATAAAAA-TAAAAAAGTATTT
1 AAAT-TTA-AAAAAGTAAAAAAAAATTT
20735273 AAATTTAAAAAATGTAAAAAAAAATTT
1 AAATTTAAAAAA-GTAAAAAAAAATTT
*
20735300 AAATTTCAAAAA
1 AAATTTAAAAAA
20735312 CTTCAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.15
26 3 0.09
27 26 0.76
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (26 bp):
AAATTTAAAAAAGTAAAAAAAAATTT
Found at i:20735319 original size:27 final size:28
Alignment explanation
Indices: 20735269--20735324 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
20735259 ATAAAAAAGT
20735269 ATTTAAATTTAAAAAATGTAAAAA-AAA
1 ATTTAAATTTAAAAAATGTAAAAATAAA
* *
20735296 ATTTAAATTTCAAAAACT-TCAAAATAAA
1 ATTTAAATTT-AAAAAATGTAAAAATAAA
20735324 A
1 A
20735325 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (28 bp):
ATTTAAATTTAAAAAATGTAAAAATAAA
Found at i:20743150 original size:15 final size:16
Alignment explanation
Indices: 20743119--20743154 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
20743109 AAATTTTGTT
20743119 AATTTTAAATATATAA
1 AATTTTAAATATATAA
*
20743135 AATTTT-AATATTTAA
1 AATTTTAAATATATAA
20743150 AATTT
1 AATTT
20743155 AAACTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTTAAATATATAA
Found at i:20743491 original size:36 final size:36
Alignment explanation
Indices: 20743425--20743494 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
20743415 ATAATTTTAG
****
20743425 ATTATTAAGAATAAAATTATATGTGGAAGTGTATTT
1 ATTATTAAGAATAAAATTATATCCAAAAGTGTATTT
20743461 ATTATTAAGAATAAAATTATATCCAAAAGTGTAT
1 ATTATTAAGAATAAAATTATATCCAAAAGTGTAT
20743495 ATAAATTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.39
Consensus pattern (36 bp):
ATTATTAAGAATAAAATTATATCCAAAAGTGTATTT
Found at i:20748942 original size:18 final size:20
Alignment explanation
Indices: 20748900--20748946 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
20748890 TAAACATTAA
*
20748900 AATATATAAAAATGGAAATT
1 AATATATAAAAATAGAAATT
20748920 AATATATAAAAATAGAAA-T
1 AATATATAAAAATAGAAATT
20748939 -ATATATAA
1 AATATATAA
20748947 TCTGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 17 0.65
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (20 bp):
AATATATAAAAATAGAAATT
Found at i:20748982 original size:18 final size:18
Alignment explanation
Indices: 20748969--20749005 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20748959 GATATAAATT
20748969 ATAAAAAATTTATAAAAA
1 ATAAAAAATTTATAAAAA
* *
20748987 ATATAAAATTTACAAAAA
1 ATAAAAAATTTATAAAAA
20749005 A
1 A
20749006 AAATACGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAAATTTATAAAAA
Found at i:20749064 original size:10 final size:10
Alignment explanation
Indices: 20749049--20749075 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20749039 TAATGATATT
20749049 ATTATAAAAA
1 ATTATAAAAA
20749059 ATTATAAAAA
1 ATTATAAAAA
20749069 ATTATAA
1 ATTATAA
20749076 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:20752293 original size:22 final size:22
Alignment explanation
Indices: 20752257--20752310 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
20752247 ATTATTAGAA
20752257 AATAT-AAAAATAGAAATAAAT
1 AATATAAAAAATAGAAATAAAT
*
20752278 -ATATAAAAAATCAGAAATATAT
1 AATATAAAAAAT-AGAAATAAAT
*
20752300 AATCTAAAAAA
1 AATATAAAAAA
20752311 CATATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 9 0.32
23 9 0.32
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (22 bp):
AATATAAAAAATAGAAATAAAT
Found at i:20752299 original size:20 final size:19
Alignment explanation
Indices: 20752258--20752300 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
20752248 TTATTAGAAA
20752258 ATATAAAAATAGAAATAAAT
1 ATATAAAAATAGAAAT-AAT
20752278 ATATAAAAAATCAGAAAT-AT
1 ATAT-AAAAAT-AGAAATAAT
20752298 ATA
1 ATA
20752301 ATCTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 6 0.29
22 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
ATATAAAAATAGAAATAAT
Found at i:20756389 original size:29 final size:29
Alignment explanation
Indices: 20756339--20756397 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
20756329 TGTTTTCCTA
* *
20756339 ACAACAATGGTACTAGGGAGTGATCGAAG
1 ACAACAATGGTACTAAGAAGTGATCGAAG
* *
20756368 ACAACAATGGTATTAATAAGTGATCGAAG
1 ACAACAATGGTACTAAGAAGTGATCGAAG
20756397 A
1 A
20756398 TTAACTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.20
Consensus pattern (29 bp):
ACAACAATGGTACTAAGAAGTGATCGAAG
Found at i:20758993 original size:38 final size:38
Alignment explanation
Indices: 20758914--20758994 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
20758904 ATAAATTTAA
* * * * *
20758914 TTTTAATGATTTGGGAATTTAGGTTTTTGTTTTTGTTT
1 TTTTTATGATTTGAGAATTTAGGTTTTTCTTTTAGTCT
*
20758952 TTTTTATGATTTTAGAATTTAGGTTTTTACTTTTAG-CT
1 TTTTTATGATTTGAGAATTTAGGTTTTT-CTTTTAGTCT
20758990 TTTTT
1 TTTTT
20758995 GAATGTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
38 31 0.86
39 5 0.14
ACGTcount: A:0.17, C:0.02, G:0.16, T:0.64
Consensus pattern (38 bp):
TTTTTATGATTTGAGAATTTAGGTTTTTCTTTTAGTCT
Found at i:20772895 original size:52 final size:49
Alignment explanation
Indices: 20772810--20773176 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
20772800 TTTGAGTACT
* ** *
20772810 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
20772856 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
20772908 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
20772954 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
20773006 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
20773052 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
20773104 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
20773150 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
20773177 GCTGCACTTA
Statistics
Matches: 291, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
46 154 0.53
48 2 0.01
49 5 0.02
50 3 0.01
52 127 0.44
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:20772930 original size:98 final size:98
Alignment explanation
Indices: 20772810--20773165 Score: 604
Period size: 98 Copynumber: 3.6 Consensus size: 98
20772800 TTTGAGTACT
* *
20772810 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
20772875 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
20772908 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
20772973 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
20773006 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
20773071 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
20773104 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
20773166 AGTGATAAGT
Statistics
Matches: 246, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 246 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:20773188 original size:37 final size:37
Alignment explanation
Indices: 20773140--20773285 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
20773130 GATAGCTTTA
*
20773140 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
20773177 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
20773214 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
20773251 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
20773286 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:20793348 original size:116 final size:112
Alignment explanation
Indices: 20793228--20793717 Score: 380
Period size: 112 Copynumber: 4.4 Consensus size: 112
20793218 AGAAAATTTG
** * *
20793228 TTTTTTGGTGCTGGCCTATCAATGGTCGGCACCACCTTTACGGGAAAAAATAATATTTTTTTTTA
1 TTTTTTGGTGCTGGCCTGCCAATGGCCGGCACCACCTTTA-TGGAAAAAA-AATA-TTTTTTTTA
* **
20793293 CAATTTGGGTGTCATTGGCCGGCACCAGTATACGAAAAAATTTAAATTTTT
63 CATTTTGGGTGTCATTGGCCGGCACCAGTATACGAAAAAATTTAAA-TTAA
* * * *
20793344 TTTTTTTGTGGTGGCCTGTCAATGGCCGGCACCACCTTTAT-GTAAAAAAA-A------TTACAT
1 TTTTTTGGTGCTGGCCTGCCAATGGCCGGCACCACCTTTATGGAAAAAAAATATTTTTTTTACAT
*** *
20793401 TTTGGGGTGTCATTGGCCGGCACCAGTATACGAAATTTTTTTTAAAAAAAATTAC
66 TTT-GGGTGTCATTGGCCGGCACCAGTATACGAAA--AAATTT-----AAATTAA
* * ****
20793456 TTTTTTGGTGGC-GGCCTGCCAATGGCTGGCACCACCTTTATGTAAAATTTTTTATTTTTTTTAC
1 TTTTTTGGT-GCTGGCCTGCCAATGGCCGGCACCACCTTTATGGAAAA-AAAATATTTTTTTTAC
* *
20793520 ATTTTGGAGTGTCATTAGCCAGCACCAGTATACGAAAAAATTTAAA--AA
64 ATTTTGG-GTGTCATTGGCCGGCACCAGTATACGAAAAAATTTAAATTAA
**** * * * *
20793568 AAAATTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAACAAATTTTTTTTTTACAT
1 TTTTTTGGTGCTGGCCTGCCAATGGCCGGCACCACCTTTATGGAAAAAAAATATTTTTTTTACAT
* * *
20793633 TTTGAGGTGTCATTGGTCGACACCAGTATACG-AAAAA--TAAA-AAA
66 TTTG-GGTGTCATTGGCCGGCACCAGTATACGAAAAAATTTAAATTAA
*** * *
20793677 AAATTTGGTGGTGGTCTGCCAATGGCCGGCACCACCTTTAT
1 TTTTTTGGTGCTGGCCTGCCAATGGCCGGCACCACCTTTAT
20793718 ATAATTTTTT
Statistics
Matches: 307, Mismatches: 45, Indels: 51
0.76 0.11 0.13
Matches are distributed among these distances:
105 8 0.03
106 31 0.10
108 7 0.02
109 41 0.13
110 5 0.02
111 40 0.13
112 79 0.26
113 9 0.03
114 9 0.03
115 1 0.00
116 36 0.12
119 3 0.01
120 2 0.01
121 36 0.12
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (112 bp):
TTTTTTGGTGCTGGCCTGCCAATGGCCGGCACCACCTTTATGGAAAAAAAATATTTTTTTTACAT
TTTGGGTGTCATTGGCCGGCACCAGTATACGAAAAAATTTAAATTAA
Found at i:20793545 original size:121 final size:110
Alignment explanation
Indices: 20793395--20793753 Score: 358
Period size: 112 Copynumber: 3.2 Consensus size: 110
20793385 GTAAAAAAAA
* ***
20793395 TTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAATTTTTTTTAAAAAAAATTACTTTT
1 TTACATTTTGGAGTGTCATTGGCC-GCACCAGTATACGAAA--AAATTTAAAAAAAA--A-----
* ****
20793460 TTGGTGGCGGCCTGCCAATGGCTGGCACCACCTTTATGTAAAATTTTTTATTTTTT
56 TTGGTGGCGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAACAAATT-TTTTTT
* *
20793516 TTACATTTTGGAGTGTCATTAGCCAGCACCAGTATACGAAAAAATTTAAAAAAAAATTGGTGGTG
1 TTACATTTTGGAGTGTCATTGGCC-GCACCAGTATACGAAAAAATTTAAAAAAAAATTGGTGGCG
20793581 GCCTGCCAATGGCCGGCACCACCTTTATGTAAAACAAATTTTTTTT
65 GCCTGCCAATGGCCGGCACCACCTTTATGTAAAACAAATTTTTTTT
*
20793627 TTACATTTT-GAGGTGTCATTGGTCGACACCAGTATACG-AAAAA--TAAAAAAAAATTTGGTGG
1 TTACATTTTGGA-GTGTCATTGGCCG-CACCAGTATACGAAAAAATTTAAAAAAAAA-TTGGTGG
* * * *
20793688 TGGTCTGCCAATGGCCGGCACCACCTTTA--T---ATAATTTTTTTTT
63 CGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAACAAATTTTTTTT
* *
20793731 TTACATTTTGGGGTATCATTGGC
1 TTACATTTTGGAGTGTCATTGGC
20793754 AGGCCATCAC
Statistics
Matches: 214, Mismatches: 20, Indels: 25
0.83 0.08 0.10
Matches are distributed among these distances:
104 29 0.14
105 1 0.00
107 1 0.00
108 10 0.05
109 35 0.16
110 8 0.04
111 37 0.17
112 43 0.20
117 1 0.00
119 11 0.05
121 38 0.18
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (110 bp):
TTACATTTTGGAGTGTCATTGGCCGCACCAGTATACGAAAAAATTTAAAAAAAAATTGGTGGCGG
CCTGCCAATGGCCGGCACCACCTTTATGTAAAACAAATTTTTTTT
Found at i:20793732 original size:109 final size:111
Alignment explanation
Indices: 20793459--20793732 Score: 362
Period size: 111 Copynumber: 2.5 Consensus size: 111
20793449 AAATTACTTT
* * *
20793459 TTTGGTGGCGGCCTGCCAATGGCTGGCACCACCTTTATGTAAAATTTTTTATTTTTTTTACATTT
1 TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGT-AAATTTTTTTTTTTTTTTACATTT
20793524 TGGAGTGTCATTAGCCAGCACCAGTATACGAAAAAATTTAAAAAAAAA
65 TGGAGTGTCATTAGCCAGCACCAGTATACGAAAAAA-TTAAAAAAAAA
*****
20793572 -TTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAACAAATTTTTTTTTTACATTTT
1 TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTTTTTTTACATTTT
* *
20793636 -GAGGTGTCATTGGTC-GACACCAGTATACG-AAAAA-TAAAAAAAAA
66 GGA-GTGTCATTAGCCAG-CACCAGTATACGAAAAAATTAAAAAAAAA
* *
20793680 TTTGGTGGTGGTCTGCCAATGGCCGGCACCACCTTTATAT-AATTTTTTTTTTT
1 TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTTT
20793733 ACATTTTGGG
Statistics
Matches: 141, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
108 18 0.13
109 37 0.26
110 8 0.06
111 41 0.29
112 37 0.26
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (111 bp):
TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTTTTTTTACATTTT
GGAGTGTCATTAGCCAGCACCAGTATACGAAAAAATTAAAAAAAAA
Found at i:20793992 original size:107 final size:107
Alignment explanation
Indices: 20793863--20794067 Score: 297
Period size: 107 Copynumber: 1.9 Consensus size: 107
20793853 ATTTTTTTTT
* * *
20793863 AATTTTTTCGTATTCTAGTGCCGGCCAATGACACTCGAAAATGTAAAAAAAAAATTTAC-ATAAA
1 AATTTTTTCGTATACTAGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAA--TACTATAAA
*
20793927 GGTGGTGC-CGCCATTGACAGGCCACCACCAAAAAAAAAATTAA
64 GGTGGTGCTCGCCATTGACAGGCCAACACCAAAAAAAAAATTAA
* * *
20793970 AATTTTTTCGTATACTGGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAATCCTGTAAAGG
1 AATTTTTTCGTATACTAGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAATACTATAAAGG
* *
20794035 TGGTGCTGGCCATTGACAGGCCAACACCCAAAA
66 TGGTGCTCGCCATTGACAGGCCAACACCAAAAA
20794068 TTTTTTTTTC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
105 2 0.02
106 12 0.14
107 73 0.84
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (107 bp):
AATTTTTTCGTATACTAGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAATACTATAAAGG
TGGTGCTCGCCATTGACAGGCCAACACCAAAAAAAAAATTAA
Found at i:20794084 original size:107 final size:106
Alignment explanation
Indices: 20793817--20794076 Score: 294
Period size: 107 Copynumber: 2.5 Consensus size: 106
20793807 AAAATGTAAC
* * *
20793817 ATAAAGGTGATGCCGGCCATTGGCAGGCCACCA-CC--AATTTTTTTTTAATTTTTTCGTATTCT
1 ATAAAGGTGGTG-CGGCCATTGACAGGCCACCACCCAAAATTTTTTTTTAATTTTTTCGTATACT
* * *
20793879 AGTGCCGGCCAATGACACTCGAAAATGTAAAAAAAAAATTTA
65 AGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAATCTA
* * ***** **
20793921 CATAAAGGTGGTGCCGCCATTGACAGGCCACCACCAAAAAAAAAATTAAAATTTTTTCGTATACT
1 -ATAAAGGTGGTGCGGCCATTGACAGGCCACCACCCAAAATTTTTTTTTAATTTTTTCGTATACT
*
20793986 GGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAATCCT-
65 AGTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAAT-CTA
* *
20794028 GTAAAGGTGGTGCTGGCCATTGACAGGCCAACACCCAAAATTTTTTTTT
1 ATAAAGGTGGTGC-GGCCATTGACAGGCCACCACCCAAAATTTTTTTTT
20794077 CCTTTTTTTT
Statistics
Matches: 123, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
104 18 0.15
105 12 0.10
106 12 0.10
107 80 0.65
108 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (106 bp):
ATAAAGGTGGTGCGGCCATTGACAGGCCACCACCCAAAATTTTTTTTTAATTTTTTCGTATACTA
GTGCCGGCCAATGACACCCCAAAATGTAAAAAAAAAATCTA
Found at i:20796317 original size:66 final size:66
Alignment explanation
Indices: 20796235--20796363 Score: 222
Period size: 66 Copynumber: 2.0 Consensus size: 66
20796225 AAAACTTTTA
**
20796235 AGTAATTGAAGTATGCGTAAAACGCGTGATATGCGTGGAACAATAAAGGAATGAGGTTGTAGTTT
1 AGTAATTGAAAAATGCGTAAAACGCGTGATATGCGTGGAACAATAAAGGAATGAGGTTGTAGTTT
20796300 G
66 G
* *
20796301 AGTAATTGAAAAATGCGTGAAACGCGTGATATGTGTGGAACAATAAAGGAATGAGGTTGTAGT
1 AGTAATTGAAAAATGCGTAAAACGCGTGATATGCGTGGAACAATAAAGGAATGAGGTTGTAGT
20796364 CACAGACACG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.26
Consensus pattern (66 bp):
AGTAATTGAAAAATGCGTAAAACGCGTGATATGCGTGGAACAATAAAGGAATGAGGTTGTAGTTT
G
Found at i:20804042 original size:22 final size:23
Alignment explanation
Indices: 20804017--20804069 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
20804007 AAAAATATTC
20804017 TTATTTTACA-AAATA-AATTATA
1 TTATTTTA-AGAAATATAATTATA
* *
20804039 TTATTTTAAGAAATATAATTTTT
1 TTATTTTAAGAAATATAATTATA
20804062 TTATTTTA
1 TTATTTTA
20804070 TATCACGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 13 0.48
23 13 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATTTTAAGAAATATAATTATA
Found at i:20807013 original size:26 final size:26
Alignment explanation
Indices: 20806960--20807013 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
20806950 AGTAATTGTT
* *
20806960 TTTATTAATTTTAAATATTATATTAA
1 TTTATTAATTTTAAATATTAAATAAA
*
20806986 TTTATT-ATTGTTAAATGTTAAATAAA
1 TTTATTAATT-TTAAATATTAAATAAA
20807012 TT
1 TT
20807014 ATTGAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTATTAATTTTAAATATTAAATAAA
Found at i:20807227 original size:22 final size:21
Alignment explanation
Indices: 20807197--20807237 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
20807187 AAATACAATT
*
20807197 CAAAATTATTAAATATTATTA
1 CAAAATTATAAAATATTATTA
20807218 CAAACATTATAAAATATTAT
1 CAAA-ATTATAAAATATTAT
20807238 GGATTATGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
CAAAATTATAAAATATTATTA
Found at i:20843335 original size:31 final size:31
Alignment explanation
Indices: 20843297--20843359 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
20843287 AAGGTGAAAG
20843297 CATGATTAATTAAGTTAATTAACAAATTAAC
1 CATGATTAATTAAGTTAATTAACAAATTAAC
20843328 CATGATTAATTAAGTTAATTAACAAATTAAC
1 CATGATTAATTAAGTTAATTAACAAATTAAC
20843359 C
1 C
20843360 TTAGTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (31 bp):
CATGATTAATTAAGTTAATTAACAAATTAAC
Found at i:20845757 original size:13 final size:13
Alignment explanation
Indices: 20845739--20845765 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20845729 TAGTTCAGAC
20845739 CTAGTGATTGGGT
1 CTAGTGATTGGGT
20845752 CTAGTGATTGGGT
1 CTAGTGATTGGGT
20845765 C
1 C
20845766 AAATGGGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.11, G:0.37, T:0.37
Consensus pattern (13 bp):
CTAGTGATTGGGT
Found at i:20848138 original size:23 final size:26
Alignment explanation
Indices: 20848100--20848147 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
20848090 TGTTAATATT
*
20848100 ATTTTTTTGTTTAATT-CA-AGTTAA
1 ATTTTTTTGTTAAATTACATAGTTAA
20848124 ATTTTTTT-TTAAATTACATAGTTA
1 ATTTTTTTGTTAAATTACATAGTTA
20848148 TCAAGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 10 0.48
25 5 0.24
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.58
Consensus pattern (26 bp):
ATTTTTTTGTTAAATTACATAGTTAA
Found at i:20854625 original size:53 final size:53
Alignment explanation
Indices: 20854561--20854733 Score: 276
Period size: 53 Copynumber: 3.3 Consensus size: 53
20854551 AGCTTCTTTG
* * * **
20854561 GATTCAAATATGACAAATTAGA-TCCTAGTTGTAAAGAATTTTTTTTAAATGTT
1 GATTCAAATATGATAAATTA-ATTCATAGTTGTCAAGAACATTTTTTAAATGTT
*
20854614 GAATCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
1 GATTCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
20854667 GATTCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
1 GATTCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
20854720 GATTCAAATATGAT
1 GATTCAAATATGAT
20854734 TATTGTTTGT
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
52 1 0.01
53 111 0.99
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (53 bp):
GATTCAAATATGATAAATTAATTCATAGTTGTCAAGAACATTTTTTAAATGTT
Found at i:20855075 original size:46 final size:45
Alignment explanation
Indices: 20854981--20855111 Score: 194
Period size: 46 Copynumber: 2.9 Consensus size: 45
20854971 TATTTTCTAT
* *
20854981 CATGTGCATGATAGAAATGGA-TTTGTTTGTATTAAAGTGAATGA
1 CATGTGCATGATAGAAATGGATTTTTTTTGTATTAAAGTGTATGA
*
20855025 CATGTGCATGATAGAAAT-GATTTTTTTTTTGTATTAAAGTGTATGG
1 CATGTGCATGATAGAAATGGA--TTTTTTTTGTATTAAAGTGTATGA
*
20855071 CATGTGCATGATAGAAATGGATTTTTTTTGTAATAAAGTGT
1 CATGTGCATGATAGAAATGGATTTTTTTTGTATTAAAGTGT
20855112 TTGGTTATTG
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
43 2 0.03
44 18 0.23
45 19 0.24
46 38 0.48
47 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (45 bp):
CATGTGCATGATAGAAATGGATTTTTTTTGTATTAAAGTGTATGA
Found at i:20857055 original size:33 final size:33
Alignment explanation
Indices: 20856973--20857056 Score: 80
Period size: 33 Copynumber: 2.5 Consensus size: 33
20856963 TGGTCCAACC
* * ** * *
20856973 ATGGTCTTACGTTCAAGGTGTCATAACCTAGTT
1 ATGGTCTTACATTTAAAATGTCATAACCCAGCT
* *
20857006 ATGGTCTTTTCA-TTAAAATGTCATAGCCCAGCT
1 ATGGTC-TTACATTTAAAATGTCATAACCCAGCT
20857039 ATGGTCTTACATTTAAAA
1 ATGGTCTTACATTTAAAA
20857057 ATTTTCAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
32 4 0.10
33 33 0.82
34 3 0.08
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGTCATAACCCAGCT
Found at i:20857558 original size:27 final size:27
Alignment explanation
Indices: 20857537--20857591 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
20857527 AAATATTATA
20857537 AGCTATTACACAGCCTTTAATAAATAT
1 AGCTATTACACAGCCTTTAATAAATAT
20857564 AGCTATTACACAGCCTTTAATAAATAT
1 AGCTATTACACAGCCTTTAATAAATAT
20857591 A
1 A
20857592 CTTTACTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (27 bp):
AGCTATTACACAGCCTTTAATAAATAT
Found at i:20857561 original size:31 final size:30
Alignment explanation
Indices: 20857526--20857590 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 30
20857516 ACACTTTATC
20857526 TAAATATTATAAGCTATTACACAGCCTTTAA
1 TAAATATTAT-AGCTATTACACAGCCTTTAA
20857557 T-AA-A-TATAGCTATTACACAGCCTTTAA
1 TAAATATTATAGCTATTACACAGCCTTTAA
20857584 TAAATAT
1 TAAATAT
20857591 ACTTTACTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 21 0.68
28 5 0.16
29 2 0.06
30 2 0.06
31 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (30 bp):
TAAATATTATAGCTATTACACAGCCTTTAA
Found at i:20860091 original size:46 final size:44
Alignment explanation
Indices: 20859987--20860094 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
20859977 TGTCTTTAAC
** * * *
20859987 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
20860031 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
20860077 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
20860095 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:20860986 original size:9 final size:9
Alignment explanation
Indices: 20860972--20861006 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
20860962 TTCTATTCTG
20860972 TTTCTTTTC
1 TTTCTTTTC
*
20860981 TTTCTTTTT
1 TTTCTTTTC
*
20860990 TTTCTATTC
1 TTTCTTTTC
20860999 TTTCTTTT
1 TTTCTTTT
20861007 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:20860999 original size:18 final size:19
Alignment explanation
Indices: 20860972--20861011 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
20860962 TTCTATTCTG
*
20860972 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
20860990 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
20861009 TTT
1 TTT
20861012 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:20861028 original size:5 final size:5
Alignment explanation
Indices: 20861015--20861087 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
20861005 TTGTTTTATG
20861015 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
20861063 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
20861088 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:20861040 original size:19 final size:19
Alignment explanation
Indices: 20861016--20861058 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
20861006 TGTTTTATGT
20861016 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
20861035 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
20861054 ATATA
1 ATATA
20861059 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:20861068 original size:24 final size:24
Alignment explanation
Indices: 20861022--20861086 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
20861012 ATGTATATAT
* * *
20861022 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
20861046 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
20861070 ATTACTATAATATAATA
1 A-TAATATAATATAATA
20861087 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.56
25 12 0.35
26 1 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.37
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:20876452 original size:27 final size:26
Alignment explanation
Indices: 20876422--20876473 Score: 61
Period size: 27 Copynumber: 1.9 Consensus size: 26
20876412 CATGTGGTAG
20876422 AAGC-TAATATAGAAATTGTAGTTTCAA
1 AAGCATAAT-TAGAAATTG-AGTTTCAA
*
20876449 AAGCATTAATTAGGAATTGAGTTTC
1 AAGCA-TAATTAGAAATTGAGTTTC
20876474 CAAGGCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 10 0.45
28 8 0.36
29 4 0.18
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (26 bp):
AAGCATAATTAGAAATTGAGTTTCAA
Found at i:20882792 original size:21 final size:21
Alignment explanation
Indices: 20882766--20882817 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
20882756 AACAGCGGTG
* *
20882766 GCGGTGATATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
20882787 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
20882808 GCGGTGAGAT
1 GCGGTGAGAT
20882818 AAGAATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.08, G:0.37, T:0.33
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:20883198 original size:17 final size:17
Alignment explanation
Indices: 20883178--20883222 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
20883168 TATTACTAGA
20883178 AATTTTTAATTATAAAT
1 AATTTTTAATTATAAAT
** *
20883195 AATTTAAAATAATAAAT
1 AATTTTTAATTATAAAT
20883212 AATTTTTAATT
1 AATTTTTAATT
20883223 TTTAATTATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTTTAATTATAAAT
Found at i:20884748 original size:20 final size:21
Alignment explanation
Indices: 20884718--20884759 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
20884708 TATTCTTAAC
*
20884718 TACTCTTTTGAGATTTTTTGT
1 TACTCTTTTGAGATTTTATGT
20884739 TACT-TTTTGAGATTTTATGT
1 TACTCTTTTGAGATTTTATGT
20884759 T
1 T
20884760 GATGTTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (21 bp):
TACTCTTTTGAGATTTTATGT
Found at i:20885463 original size:23 final size:21
Alignment explanation
Indices: 20885436--20885481 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 21
20885426 ATGTTAAGTA
20885436 AATATATTATATTATTGTATAAT
1 AATATATTATATTA-T-TATAAT
20885459 AATATATTATATTATTATAAT
1 AATATATTATATTATTATAAT
20885480 AA
1 AA
20885482 AACAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 8 0.35
22 1 0.04
23 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATATATTATATTATTATAAT
Found at i:20885478 original size:18 final size:18
Alignment explanation
Indices: 20885438--20885480 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
20885428 GTTAAGTAAA
*
20885438 TATATTATATTATTGTAT
1 TATAATATATTATTGTAT
*
20885456 AATAATATATTATAT-TAT
1 TATAATATATTAT-TGTAT
20885474 TATAATA
1 TATAATA
20885481 AAACAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TATAATATATTATTGTAT
Found at i:20886037 original size:31 final size:32
Alignment explanation
Indices: 20885981--20886042 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
20885971 AAATTTAGGC
20885981 AAATATTTTTAAAATACTTTTTTTTAATTTTA
1 AAATATTTTTAAAATACTTTTTTTTAATTTTA
20886013 AAATATTTTTAAAATAC-TTTTTTTAATTTT
1 AAATATTTTTAAAATACTTTTTTTTAATTTT
20886043 TTTTTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (32 bp):
AAATATTTTTAAAATACTTTTTTTTAATTTTA
Found at i:20892077 original size:30 final size:30
Alignment explanation
Indices: 20892043--20892105 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
20892033 ACTTATTTTG
20892043 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
20892073 TTGTTAATTTTGTTTTTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
20892103 TTG
1 TTG
20892106 CTTGTTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:20892199 original size:34 final size:35
Alignment explanation
Indices: 20892155--20892221 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
20892145 CAGTAAAATA
*
20892155 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
20892189 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
20892222 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:20894148 original size:38 final size:39
Alignment explanation
Indices: 20894106--20894215 Score: 125
Period size: 38 Copynumber: 2.8 Consensus size: 39
20894096 TCGGATAGTT
* *
20894106 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAAC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAAC
* * * *
20894144 CGAAGTAAAG-TGACACTCAGTATCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAAC
*
20894182 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGTAAAGT--TGACACCCAGTGTCTCATCGA
20894216 CTCGAGGTCG
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 18 0.31
38 22 0.37
41 19 0.32
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAAC
Found at i:20894211 original size:41 final size:38
Alignment explanation
Indices: 20894106--20894215 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 38
20894096 TCGGATAGTT
* *
20894106 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAAC
1 CGAAGTAAAG-TGACACCCAGTGTCTCATCGAACCTAAC
* * * *
20894144 CGAAGTAAAGTGACACTCAGTATCTCATCGAATCTATC
1 CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAAC
20894182 CGAAGTAAAATAGTGACACCCAGTGTCTCATCGA
1 CGAAGT--AA-AGTGACACCCAGTGTCTCATCGA
20894216 CTCGAGGTCG
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
37 18 0.30
38 19 0.32
40 2 0.03
41 21 0.35
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (38 bp):
CGAAGTAAAGTGACACCCAGTGTCTCATCGAACCTAAC
Found at i:20894353 original size:18 final size:17
Alignment explanation
Indices: 20894307--20894360 Score: 72
Period size: 18 Copynumber: 3.1 Consensus size: 17
20894297 TTTCCAATTC
20894307 TCAATTCAAATTCACTT
1 TCAATTCAAATTCACTT
* *
20894324 TCATTTCAAAATTTACTT
1 TCAATTC-AAATTCACTT
20894342 TCAATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
20894360 T
1 T
20894361 TTCATTCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:20895093 original size:25 final size:25
Alignment explanation
Indices: 20895054--20895115 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
20895044 TTTATTTCTC
* *
20895054 CTTTCTTTCTT-TCCCTTTTTCTTTT
1 CTTTCTTT-TTCTCCCTGTTTCGTTT
20895079 CTTTCTTTTTCTCCCTGTTTCGTTT
1 CTTTCTTTTTCTCCCTGTTTCGTTT
*
20895104 CTATTCTGTTTC
1 CT-TTCTTTTTC
20895116 GTTTCTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 22 0.69
26 8 0.25
ACGTcount: A:0.02, C:0.27, G:0.05, T:0.66
Consensus pattern (25 bp):
CTTTCTTTTTCTCCCTGTTTCGTTT
Found at i:20895333 original size:18 final size:18
Alignment explanation
Indices: 20895312--20895356 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
20895302 TAACAACAAC
*
20895312 AATAATTAT-TATTATAAT
1 AATAAATATCTATT-TAAT
20895330 AATAAATATCTATTTAAT
1 AATAAATATCTATTTAAT
*
20895348 AACAAATAT
1 AATAAATAT
20895357 AAATATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAAATATCTATTTAAT
Found at i:20895608 original size:9 final size:9
Alignment explanation
Indices: 20895587--20895619 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
20895577 ATTTCATAAT
20895587 ATAATAA-A
1 ATAATAACA
20895595 ATAATAACA
1 ATAATAACA
20895604 ATAATAACA
1 ATAATAACA
20895613 ATAATAA
1 ATAATAA
20895620 TATATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:20896087 original size:24 final size:23
Alignment explanation
Indices: 20896060--20896104 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
20896050 AATCTAATAT
*
20896060 TAATCTAACATTAATCTCTAATGG
1 TAATATAACATTAATC-CTAATGG
* *
20896084 TAATATAATATTTATCCTAAT
1 TAATATAACATTAATCCTAAT
20896105 TTTGTTGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (23 bp):
TAATATAACATTAATCCTAATGG
Found at i:20896687 original size:29 final size:27
Alignment explanation
Indices: 20896622--20896690 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
20896612 TTGTACGTAG
*
20896622 TTATACAAATAAAAGTAGAGGGATCAA
1 TTATACAAATAAAAGTAGAGGGATAAA
* *
20896649 TTTTGAACAAATAAAAGTAGAGTGACTAAA
1 TTAT--ACAAATAAAAGTAGAGGGA-TAAA
20896679 TTCATACAAATA
1 TT-ATACAAATA
20896691 GATAAGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.09
29 25 0.74
30 5 0.15
31 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (27 bp):
TTATACAAATAAAAGTAGAGGGATAAA
Found at i:20913448 original size:4 final size:4
Alignment explanation
Indices: 20913439--20913464 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20913429 TTTACTATTT
20913439 TGGC TGGC TGGC TGGC TGGC TGGC TG
1 TGGC TGGC TGGC TGGC TGGC TGGC TG
20913465 TCCTGTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.50, T:0.27
Consensus pattern (4 bp):
TGGC
Found at i:20914532 original size:22 final size:23
Alignment explanation
Indices: 20914495--20914537 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20914485 ATTAAATCTC
*
20914495 TAAGATTACAAAATCATATCTTG
1 TAAGATTACAAAATCAAATCTTG
*
20914518 TAAGATTAC-ATATCAAATCT
1 TAAGATTACAAAATCAAATCT
20914538 ATGATTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (23 bp):
TAAGATTACAAAATCAAATCTTG
Found at i:20919641 original size:22 final size:21
Alignment explanation
Indices: 20919611--20919668 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
20919601 GAATGGTATC
20919611 TACAAATCAAATCTCTAAGAT
1 TACAAATCAAATCTCTAAGAT
* *
20919632 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCAAATC-TCTAAGAT
*
20919655 TACATATCAAATCT
1 TACAAATCAAATCT
20919669 ACGATTCCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (21 bp):
TACAAATCAAATCTCTAAGAT
Found at i:20924203 original size:52 final size:48
Alignment explanation
Indices: 20924141--20924333 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
20924131 GAAATGTGAT
* * *
20924141 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
20924193 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
20924240 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
20924286 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
20924334 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.22
47 53 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:20927751 original size:26 final size:29
Alignment explanation
Indices: 20927699--20927756 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 29
20927689 CATGTAAAGG
20927699 TTTTAAAATCGATATATCAAATAATAA-A
1 TTTTAAAATCGATATATCAAATAATAATA
20927727 TTTTAAAAT-G-TATAT-AAATATATAATA
1 TTTTAAAATCGATATATCAAATA-ATAATA
20927754 TTT
1 TTT
20927757 GAAATACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.18
26 9 0.32
27 5 0.18
28 9 0.32
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTTAAAATCGATATATCAAATAATAATA
Found at i:20929056 original size:13 final size:13
Alignment explanation
Indices: 20929038--20929062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20929028 TAAGATGAAT
20929038 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
20929051 TTGCTTGTGTTT
1 TTGCTTGTGTTT
20929063 TAGACCTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:20929683 original size:270 final size:270
Alignment explanation
Indices: 20929202--20929713 Score: 988
Period size: 270 Copynumber: 1.9 Consensus size: 270
20929192 AACTTCATAG
20929202 TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
1 TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
20929267 AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTCTGA
66 AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTCTGA
20929332 ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
131 ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
20929397 GGAAAGTAAATAGCCCTAGATTTCCAATCTTTCAAAGATGGTTAGAGATGTGTTAGTTATAGCAG
196 GGAAAGTAAATAGCCCTAGATTTCCAATCTTTCAAAGATGGTTAGAGATGTGTTAGTTATAGCAG
20929462 TTTATACGGT
261 TTTATACGGT
20929472 TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
1 TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
* *
20929537 AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTGAGGATAAAACGTTTGA
66 AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTCTGA
20929602 ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
131 ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
* *
20929667 GGAAAGTGAATAGCCCTAGATTTCCACTCTTTCAAAGATGGTTAGAG
196 GGAAAGTAAATAGCCCTAGATTTCCAATCTTTCAAAGATGGTTAGAG
20929714 TATAGTTGCT
Statistics
Matches: 238, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
270 238 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (270 bp):
TGCTTGTAGTCAATCAAGTATGGCAGCACATGTTTCTCTTGGTGAACCACAACAAAAAAATAAAA
AGGCATATGCAAGCTTTGTATAAAATGCATGAGTTAGAAAATGGTGGTAAGGATAAAACGTCTGA
ATTGGATAAGTATCTAGCTGAGACTAATGAGAATTTTGTTGAAGATTTTGATATTTTATTATGCT
GGAAAGTAAATAGCCCTAGATTTCCAATCTTTCAAAGATGGTTAGAGATGTGTTAGTTATAGCAG
TTTATACGGT
Found at i:20934411 original size:23 final size:23
Alignment explanation
Indices: 20934385--20934431 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
20934375 ATAATTATAA
20934385 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
20934408 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
20934431 A
1 A
20934432 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:20934581 original size:26 final size:27
Alignment explanation
Indices: 20934530--20934586 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
20934520 ACAGAATAGC
* *
20934530 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGAAGAAAGGAAAG
20934557 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAG
20934583 AAAA
1 AAAA
20934587 TTTGAGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.67, C:0.04, G:0.30, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAG
Found at i:20940691 original size:3 final size:3
Alignment explanation
Indices: 20940683--20940714 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
20940673 GAGCTGAAAC
20940683 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
20940715 AGAGGGCGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20947892 original size:64 final size:64
Alignment explanation
Indices: 20947764--20947893 Score: 163
Period size: 64 Copynumber: 2.0 Consensus size: 64
20947754 GCGAGTATCC
* * * * *
20947764 TGATCGATATTGATTCTGCATGTGTTACGGACATACCGCAGCTCTTTGTGAACGTCCTGTTATA
1 TGATCGATATTGATCCTGCATATATTACGGACATACCGCAGCTCTTTATGAACGTCCTGATATA
* * * *
20947828 TGATCGGTATTGATCCTGCATATATTGCGGATATACCGCAGCTCTTTATGAGCGTTCC-GATATA
1 TGATCGATATTGATCCTGCATATATTACGGACATACCGCAGCTCTTTATGAACG-TCCTGATATA
20947892 TG
1 TG
20947894 GCTCTTCATG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 53 0.95
65 3 0.05
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (64 bp):
TGATCGATATTGATCCTGCATATATTACGGACATACCGCAGCTCTTTATGAACGTCCTGATATA
Found at i:20948083 original size:48 final size:48
Alignment explanation
Indices: 20948020--20948114 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
20948010 TAAACTCTAA
* *
20948020 TGAGTTTCCTGTTATAG-CCAGAATAAGCTTCATGTTACATGGCTCACG
1 TGAGCTTCCTATTATAGCCCAG-ATAAGCTTCATGTTACATGGCTCACG
* *
20948068 TGAGCTTCCTATTATAGCCCAGATAAGCTTCCTGTTACATTGCTCAC
1 TGAGCTTCCTATTATAGCCCAGATAAGCTTCATGTTACATGGCTCAC
20948115 ACAAGCTCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 38 0.90
49 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (48 bp):
TGAGCTTCCTATTATAGCCCAGATAAGCTTCATGTTACATGGCTCACG
Found at i:20948367 original size:42 final size:41
Alignment explanation
Indices: 20948279--20948392 Score: 113
Period size: 42 Copynumber: 2.8 Consensus size: 41
20948269 CCTTTCGAGG
** * *
20948279 CTTTAGCGGCGTTTCTGAAAAAGCGCCGCTAATACTCGGGG
1 CTTTAGCAACGTTTTTGAAAAAGCGCCGCTAATACTCGGGA
* * *
20948320 CTTTAGCAACGTTTTTTGAAAAAGCGTCGCTAATGCTTGGGA
1 CTTTAGCAACG-TTTTTGAAAAAGCGCCGCTAATACTCGGGA
* ***
20948362 TTTTAGTGGCGTTTTTG-AAAAGCGCCGCTAA
1 CTTTAGCAACGTTTTTGAAAAAGCGCCGCTAA
20948393 AAACATTTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
40 13 0.22
41 15 0.25
42 32 0.53
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
CTTTAGCAACGTTTTTGAAAAAGCGCCGCTAATACTCGGGA
Found at i:20948779 original size:15 final size:14
Alignment explanation
Indices: 20948741--20948775 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
20948731 ACTAGTTTAA
20948741 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
20948755 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
20948770 GGTTTA
1 GGTTTA
20948776 AGGGTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:20948788 original size:28 final size:28
Alignment explanation
Indices: 20948755--20948809 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
20948745 TAGGGAGTAT
* *
20948755 GGATTTAGGGATTATGGTTTAAGGGTTG
1 GGATTTAAGGATTATGGGTTAAGGGTTG
* *
20948783 GGATTTAAGGTTTATGGGTTAGGGGTT
1 GGATTTAAGGATTATGGGTTAAGGGTT
20948810 AGACGTTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (28 bp):
GGATTTAAGGATTATGGGTTAAGGGTTG
Found at i:20948796 original size:21 final size:20
Alignment explanation
Indices: 20948762--20948802 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
20948752 TATGGATTTA
*
20948762 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
20948782 GGGATTTAAGGTTTATGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
20948803 AGGGGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:20949422 original size:16 final size:16
Alignment explanation
Indices: 20949396--20949428 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20949386 CTTAGTTTTT
20949396 TTTATAAAAATA-TAA
1 TTTATAAAAATAGTAA
20949411 TTTATAAAAAATAGTAA
1 TTTAT-AAAAATAGTAA
20949428 T
1 T
20949429 AATAAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTATAAAAATAGTAA
Found at i:20951474 original size:45 final size:44
Alignment explanation
Indices: 20951410--20951607 Score: 193
Period size: 45 Copynumber: 4.6 Consensus size: 44
20951400 TTTGAGTACT
* *
20951410 TCTGATCAAGAGATAAAGTGATAAGTGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGTAGC-TTAGCTACACTTA
* *
20951455 TCTGATCAAGTGAAAAAGTGATAAGTGCTA-CATAAGTGCTATACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTG-TAGC-TTA--GCTACACTTA
20951502 TCTGATCAAGTGAAAAAGTGATAA--GT-G-TTA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGTAGCTTAGCTACACTTA
*
20951538 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGT-GTAGCTTAGCTACACTTA
* * *
20951583 TTTGATC-AGGGACAAA-TGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
20951608 ATCATACGTA
Statistics
Matches: 131, Mismatches: 9, Indels: 29
0.78 0.05 0.17
Matches are distributed among these distances:
36 28 0.21
38 1 0.01
39 2 0.02
40 1 0.01
41 3 0.02
42 3 0.02
43 9 0.07
44 9 0.07
45 40 0.31
46 2 0.02
47 33 0.25
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGTAGCTTAGCTACACTTA
Found at i:20951486 original size:36 final size:36
Alignment explanation
Indices: 20951486--20951564 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
20951476 TAAGTGCTAC
20951486 ATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTG
1 ATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTG
* *
20951522 ATAAGTGTTATACTTATCTGATCAAGTGACAAAGTG
1 ATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTG
20951558 ATAAGTG
1 ATAAGTG
20951565 GTAGCTTAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (36 bp):
ATAAGTGCTATACTTATCTGATCAAGTGAAAAAGTG
Found at i:20956400 original size:43 final size:43
Alignment explanation
Indices: 20956340--20956430 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
20956330 CTTTGAGTTC
* * *
20956340 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
20956382 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
20956425 ATTACC
1 ATTACC
20956431 TTGCAATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:20957004 original size:18 final size:18
Alignment explanation
Indices: 20956981--20957015 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20956971 GCTATAGCGG
*
20956981 CACTTTTTGCGGCGCTTT
1 CACTTTTAGCGGCGCTTT
*
20956999 CACTTTTAGTGGCGCTT
1 CACTTTTAGCGGCGCTT
20957016 AACAGCGCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.43
Consensus pattern (18 bp):
CACTTTTAGCGGCGCTTT
Found at i:20963342 original size:23 final size:25
Alignment explanation
Indices: 20963302--20963362 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
20963292 TTTATATATC
* *
20963302 TATATTTATTCCTTTTATTCACATACA
1 TATATTT-TT-CTTATATGCACATACA
* *
20963329 TATATTTTTCTTATATGTACATATA
1 TATATTTTTCTTATATGCACATACA
20963354 TATATTTTT
1 TATATTTTT
20963363 ATATTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 21 0.70
26 2 0.07
27 7 0.23
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (25 bp):
TATATTTTTCTTATATGCACATACA
Found at i:20965929 original size:31 final size:30
Alignment explanation
Indices: 20965889--20965948 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
20965879 TTTTATTTTA
*
20965889 TTTATTTTAATATTATATTATCCTATAAAC
1 TTTATTTTAACATTATATTATCCTATAAAC
*
20965919 TTTATATTTAACATTATATTATCTTATAAA
1 TTTAT-TTTAACATTATATTATCCTATAAA
20965949 AGTTTTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTATTTTAACATTATATTATCCTATAAAC
Found at i:20980488 original size:21 final size:20
Alignment explanation
Indices: 20980464--20980518 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
20980454 CAAAACAATT
*
20980464 AAAATATTTAGAAAAATTAGA
1 AAAATATATA-AAAAATTAGA
* *
20980485 AAAATTATATAAAATATTATA
1 AAAA-TATATAAAAAATTAGA
20980506 AAAATATA-AAAAA
1 AAAATATATAAAAA
20980519 TTATTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 16 0.55
22 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAATATATAAAAAATTAGA
Found at i:20980498 original size:10 final size:10
Alignment explanation
Indices: 20980476--20980531 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
20980466 AATATTTAGA
*
20980476 AAAATTAGA-
1 AAAATTATAT
20980485 AAAATTATAT
1 AAAATTATAT
20980495 AAAA-TATTAT
1 AAAATTA-TAT
* *
20980505 AAAAATATAA
1 AAAATTATAT
*
20980515 AAAATTATTT
1 AAAATTATAT
20980525 AAAATTA
1 AAAATTA
20980532 AAAAATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
9 10 0.26
10 27 0.69
11 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTATAT
Found at i:20980527 original size:20 final size:19
Alignment explanation
Indices: 20980484--20980587 Score: 86
Period size: 21 Copynumber: 5.2 Consensus size: 19
20980474 GAAAAATTAG
*
20980484 AAAAATTATATAAAATATTAT
1 AAAAA-TATAAAAAATATT-T
20980505 AAAAATATAAAAAATTATTT
1 AAAAATATAAAAAA-TATTT
20980525 -AAAAT-TAAAAAATATATT
1 AAAAATATAAAAAATAT-TT
* * *
20980543 AGAATTCTTAAAAAATATTT
1 AAAAAT-ATAAAAAATATTT
*
20980563 AAAAATTATAAAAATACATTT
1 AAAAA-TATAAAAA-ATATTT
20980584 AAAA
1 AAAA
20980588 TATTAAAATT
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
17 3 0.04
18 9 0.13
19 8 0.12
20 20 0.29
21 29 0.42
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATATAAAAAATATTT
Found at i:20980588 original size:20 final size:20
Alignment explanation
Indices: 20980485--20980588 Score: 92
Period size: 20 Copynumber: 5.2 Consensus size: 20
20980475 AAAAATTAGA
*
20980485 AAAATTATATAAAATAT-TAT
1 AAAATTATA-AAAATATATTT
*
20980505 AAAAATATAAAAA-ATTATTT
1 AAAATTATAAAAATA-TATTT
20980525 AAAATTA-AAAAATATA-TT
1 AAAATTATAAAAATATATTT
* *
20980543 AGAATTCTTAAAAA-ATATTT
1 AAAATT-ATAAAAATATATTT
*
20980563 AAAAATTATAAAAATACATTT
1 -AAAATTATAAAAATATATTT
20980584 AAAAT
1 AAAAT
20980589 ATTAAAATTG
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
18 8 0.12
19 15 0.22
20 35 0.51
21 10 0.15
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAATTATAAAAATATATTT
Found at i:20980608 original size:25 final size:26
Alignment explanation
Indices: 20980574--20980623 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
20980564 AAAATTATAA
* * *
20980574 AAATACATTTA-AAATATTAAAATTG
1 AAATAAATTTATAAAAATAAAAATTG
20980599 AAATAAATTTATAAAAATAAAAATT
1 AAATAAATTTATAAAAATAAAAATT
20980624 TGAACTGGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATAAATTTATAAAAATAAAAATTG
Found at i:20980760 original size:19 final size:19
Alignment explanation
Indices: 20980738--20980786 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
20980728 TAATATTTTT
*
20980738 TTATCAAACTAAAATTTCA
1 TTATCAAACTAAAAATTCA
*
20980757 TTATCCAAA-AAAAAATTCA
1 TTAT-CAAACTAAAAATTCA
*
20980776 TTATCCAACTA
1 TTATCAAACTA
20980787 TTAGCACATG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 3 0.12
19 17 0.71
20 4 0.17
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (19 bp):
TTATCAAACTAAAAATTCA
Found at i:20981063 original size:10 final size:9
Alignment explanation
Indices: 20981043--20981274 Score: 80
Period size: 9 Copynumber: 24.6 Consensus size: 9
20981033 TTTTATGTTT
20981043 TTTTTATAA
1 TTTTTATAA
20981052 TTTTTATAAA
1 TTTTTAT-AA
*
20981062 TTTATATTAA
1 TTTTTA-TAA
* ** *
20981072 CTTCAATAC
1 TTTTTATAA
* **
20981081 TTTTAATTT
1 TTTTTATAA
20981090 TTTTTATAA
1 TTTTTATAA
*
20981099 TTTTTTATAG
1 -TTTTTATAA
*
20981109 TTTTTATAT
1 TTTTTATAA
*
20981118 TTTTTACAAAA
1 TTTTT--ATAA
*
20981129 TTTTAATACA
1 TTTTTATA-A
20981139 TTTTTATAAA
1 TTTTTAT-AA
*
20981149 ATTTTA-AA
1 TTTTTATAA
20981157 TATTTTA-AA
1 T-TTTTATAA
20981166 TATGGTTTATAA
1 T-T--TTTATAA
20981178 TTTTTATAAA
1 TTTTTAT-AA
***
20981188 AAATTATAA
1 TTTTTATAA
20981197 TTTATTAT-A
1 TTT-TTATAA
20981206 TTTATTATAA
1 TTT-TTATAA
*
20981216 TATTTATAA
1 TTTTTATAA
*
20981225 GTTTATATTAA
1 -TTTTTA-TAA
*
20981236 TTTTCAT-A
1 TTTTTATAA
20981244 -TTTT-TAA
1 TTTTTATAA
**
20981251 TATTCAATAA
1 T-TTTTATAA
20981261 TTTTTATAA
1 TTTTTATAA
20981270 TTTTT
1 TTTTT
20981275 CTTTTTTTAA
Statistics
Matches: 166, Mismatches: 37, Indels: 40
0.68 0.15 0.16
Matches are distributed among these distances:
6 1 0.01
7 4 0.02
8 3 0.02
9 81 0.49
10 58 0.35
11 16 0.10
12 3 0.02
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:20988574 original size:3 final size:3
Alignment explanation
Indices: 20988566--20988601 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
20988556 ATTCCCTGCC
20988566 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
20988602 GTATGAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
CTG
Found at i:20991536 original size:3 final size:3
Alignment explanation
Indices: 20991530--20991563 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
20991520 TAAATATCAC
20991530 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
20991564 GGCTTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20997191 original size:42 final size:42
Alignment explanation
Indices: 20997132--20997216 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
20997122 TGGAATCTTA
20997132 TCATACAAGAACATCAAAGCACT-TATAATCTTATCATACACT
1 TCATACAAGAACATCAAAGCA-TGTATAATCTTATCATACACT
20997174 TCATACAAGAACATCAAAGCATGTATAATCTTATCATACACT
1 TCATACAAGAACATCAAAGCATGTATAATCTTATCATACACT
20997216 T
1 T
20997217 ACTTCTCAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.29
Consensus pattern (42 bp):
TCATACAAGAACATCAAAGCATGTATAATCTTATCATACACT
Found at i:21015846 original size:21 final size:20
Alignment explanation
Indices: 21015807--21015864 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
21015797 ACATGGGTAA
* *
21015807 CAAATATATTATATTTTTCT
1 CAAAAATATGATATTTTTCT
*
21015827 CAAAAATTATGATTTTTTTCT
1 CAAAAA-TATGATATTTTTCT
**
21015848 TTAAAATATGATATTTT
1 CAAAAATATGATATTTT
21015865 GGATTCAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
CAAAAATATGATATTTTTCT
Done.