Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 163 of 195
Found at i:27164702 original size:15 final size:16
Alignment explanation
Indices: 27164668--27164752 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 16
27164658 TTCAGATTTG
*
27164668 CAAGAATTTTCAGGTTCA
1 CAAGAA-TTT-AGATTCA
27164686 CAAGAATTT-GATTCA
1 CAAGAATTTAGATTCA
*
27164701 CAAAAATTTTCA-AGTTCA
1 CAAGAA-TTT-AGA-TTCA
*
27164719 CAAGAATTT-GATTCT
1 CAAGAATTTAGATTCA
*
27164734 CAAGATTTTAAGATTCA
1 CAAGAATTT-AGATTCA
27164751 CA
1 CA
27164753 TATGAGAGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
15 21 0.39
16 4 0.07
17 14 0.26
18 15 0.28
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (16 bp):
CAAGAATTTAGATTCA
Found at i:27164718 original size:33 final size:33
Alignment explanation
Indices: 27164627--27164732 Score: 122
Period size: 33 Copynumber: 3.1 Consensus size: 33
27164617 AGGTTCAAAA
** *
27164627 ATTCACAAAAATTTTCATTTTCGCAAGAATTTTCAG
1 ATTCACAAAAATTTTCAAGTTCACAAGAA-TTT--G
** * *
27164663 ATTTGCAAGAATTTTCAGGTTCACAAGAATTTG
1 ATTCACAAAAATTTTCAAGTTCACAAGAATTTG
27164696 ATTCACAAAAATTTTCAAGTTCACAAGAATTTG
1 ATTCACAAAAATTTTCAAGTTCACAAGAATTTG
27164729 ATTC
1 ATTC
27164733 TCAAGATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
33 34 0.57
35 3 0.05
36 23 0.38
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (33 bp):
ATTCACAAAAATTTTCAAGTTCACAAGAATTTG
Found at i:27164720 original size:18 final size:18
Alignment explanation
Indices: 27164628--27164727 Score: 82
Period size: 18 Copynumber: 5.7 Consensus size: 18
27164618 GGTTCAAAAA
* **
27164628 TTCACAAAAATTTTCATT
1 TTCACAAGAATTTTCAAG
*
27164646 TTCGCAAGAATTTTC-AG
1 TTCACAAGAATTTTCAAG
** *
27164663 ATTTGCAAGAATTTTCAGG
1 -TTCACAAGAATTTTCAAG
*
27164682 TTCACAAGAA-TTT-GA-
1 TTCACAAGAATTTTCAAG
*
27164697 TTCACAAAAATTTTCAAG
1 TTCACAAGAATTTTCAAG
27164715 TTCACAAGAATTT
1 TTCACAAGAATTT
27164728 GATTCTCAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
15 9 0.14
16 3 0.05
17 4 0.06
18 47 0.73
19 1 0.02
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TTCACAAGAATTTTCAAG
Found at i:27164861 original size:21 final size:20
Alignment explanation
Indices: 27164808--27164868 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
27164798 AATTGCAAAG
27164808 TTCACATCCAACATTTAAAAA
1 TTCACATCCAA-ATTTAAAAA
* * * *
27164829 TTCATATTCAAATTTTGAAGA
1 TTCACATCCAAA-TTTAAAAA
27164850 TTCACATCCAAAGTTTAAA
1 TTCACATCCAAA-TTTAAA
27164869 GCTTTTCATT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (20 bp):
TTCACATCCAAATTTAAAAA
Found at i:27165204 original size:14 final size:14
Alignment explanation
Indices: 27165185--27165265 Score: 80
Period size: 14 Copynumber: 6.1 Consensus size: 14
27165175 TCAAAATTTC
*
27165185 TTAAAGATTTTCAT
1 TTAAAGATTCTCAT
*
27165199 TTAAAGATTTTCAT
1 TTAAAGATTCTCAT
*
27165213 TTAAA-AAT-TC--
1 TTAAAGATTCTCAT
*
27165223 TTAAAAATTCTCAT
1 TTAAAGATTCTCAT
*
27165237 TTAAAAATTCTCAT
1 TTAAAGATTCTCAT
*
27165251 TCAAAGATTCTCAT
1 TTAAAGATTCTCAT
27165265 T
1 T
27165266 ACTTTTAACT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
10 5 0.08
11 2 0.03
12 4 0.07
13 2 0.03
14 46 0.78
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (14 bp):
TTAAAGATTCTCAT
Found at i:27165224 original size:38 final size:38
Alignment explanation
Indices: 27165165--27165261 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 38
27165155 TTCATTCGAT
* * *
27165165 AAATTTTCATTCAAAATTTCTTAAAGATTTTCATTTAA
1 AAATTTTCATTCAAAAATTCTTAAAAATTCTCATTTAA
* *
27165203 AGATTTTCATTTAAAAATTCTTAAAAATTCTCATTTAA
1 AAATTTTCATTCAAAAATTCTTAAAAATTCTCATTTAA
* *
27165241 AAATTCTCATTCAAAGATTCT
1 AAATTTTCATTCAAAAATTCT
27165262 CATTACTTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.44
Consensus pattern (38 bp):
AAATTTTCATTCAAAAATTCTTAAAAATTCTCATTTAA
Found at i:27165226 original size:24 final size:24
Alignment explanation
Indices: 27165199--27165247 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
27165189 AGATTTTCAT
* *
27165199 TTAAAGATTTTCATTTAAAAATTC
1 TTAAAAATTCTCATTTAAAAATTC
27165223 TTAAAAATTCTCATTTAAAAATTC
1 TTAAAAATTCTCATTTAAAAATTC
27165247 T
1 T
27165248 CATTCAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAAAATTCTCATTTAAAAATTC
Found at i:27166320 original size:17 final size:17
Alignment explanation
Indices: 27166294--27166331 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
27166284 TCAATTTAAG
27166294 TTTTCATTTTCTCT-TA
1 TTTTCATTTTCTCTCTA
*
27166310 TTTTACATTTTTTCTCTA
1 TTTT-CATTTTCTCTCTA
27166328 TTTT
1 TTTT
27166332 TTCATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 9 0.47
18 6 0.32
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTCATTTTCTCTCTA
Found at i:27166322 original size:19 final size:19
Alignment explanation
Indices: 27166300--27166384 Score: 60
Period size: 19 Copynumber: 4.7 Consensus size: 19
27166290 TAAGTTTTCA
27166300 TTTTCTCT-TATTTTACATT
1 TTTTCTCTAT-TTTTACATT
*
27166319 TTTTCTCTATTTTTTCATT
1 TTTTCTCTATTTTTACATT
* *
27166338 TTTT-TTTCATTTTTTTCA-T
1 TTTTCTCT-A-TTTTTACATT
27166357 TTTT-TC-ATTTTT-CATT
1 TTTTCTCTATTTTTACATT
27166373 TTTT-TC-ATTTTT
1 TTTTCTCTATTTTT
27166385 TTCATTTTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
15 2 0.03
16 18 0.31
17 1 0.02
18 2 0.03
19 27 0.46
20 9 0.15
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTCTCTATTTTTACATT
Found at i:27166329 original size:18 final size:20
Alignment explanation
Indices: 27166300--27166362 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
27166290 TAAGTTTTCA
27166300 TTTTCTCTTA-TTTTACATT
1 TTTTCTCTTATTTTTACATT
*
27166319 TTTTCTC-TATTTTTTCATT
1 TTTTCTCTTATTTTTACATT
*
27166338 TTTT-T-TTCATTTTTTTCATT
1 TTTTCTCTT-A-TTTTTACATT
27166358 TTTTC
1 TTTTC
27166363 ATTTTTCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 4 0.11
19 20 0.53
20 14 0.37
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCTCTTATTTTTACATT
Found at i:27166339 original size:17 final size:17
Alignment explanation
Indices: 27166294--27166392 Score: 53
Period size: 19 Copynumber: 5.6 Consensus size: 17
27166284 TCAATTTAAG
27166294 TTTTCATTTTCTCT-TAT
1 TTTTCATTTTCTCTAT-T
*
27166311 TTTACATTTTTTCTCTATT
1 TTTTCA--TTTTCTCTATT
* *
27166330 TTTTCATTTTTTTTTCATTT
1 TTTTCA-TTTTCTCT-A-TT
*
27166350 TTTTCATTTTTTC-A-T
1 TTTTCATTTTCTCTATT
*
27166365 TTTTCATTTT-TTTCATTT
1 TTTTCATTTTCTCT-A-TT
27166383 TTTTCATTTT
1 TTTTCATTTT
27166393 TCATCATTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
14 1 0.01
15 11 0.16
16 1 0.01
17 6 0.09
18 18 0.27
19 21 0.31
20 9 0.13
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTCATTTTCTCTATT
Found at i:27166340 original size:9 final size:9
Alignment explanation
Indices: 27166310--27166404 Score: 99
Period size: 9 Copynumber: 10.4 Consensus size: 9
27166300 TTTTCTCTTA
*
27166310 TTTTACATT
1 TTTTTCATT
27166319 TTTTCTC-TAT
1 TTTT-TCAT-T
27166329 TTTTTCATTTT
1 TTTTTCA--TT
27166340 TTTTTCATT
1 TTTTTCATT
27166349 TTTTTCA-T
1 TTTTTCATT
27166357 TTTTTCA--
1 TTTTTCATT
27166364 TTTTTCATT
1 TTTTTCATT
27166373 TTTTTCATT
1 TTTTTCATT
27166382 TTTTTCATT
1 TTTTTCATT
*
27166391 TTTCATCATT
1 TTT-TTCATT
27166401 TTTT
1 TTTT
27166405 ATATCTCCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
7 7 0.09
8 8 0.11
9 37 0.49
10 14 0.19
11 8 0.11
12 1 0.01
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTCATT
Found at i:27166380 original size:33 final size:35
Alignment explanation
Indices: 27166329--27166403 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 35
27166319 TTTTCTCTAT
27166329 TTTTTCATTTTTTTTTCATTTTTTTCATTTTT-TCA
1 TTTTTCA-TTTTTTTTCATTTTTTTCATTTTTATCA
27166364 TTTTTCA-TTTTTTTCATTTTTTTCATTTTTCATCA
1 TTTTTCATTTTTTTTCATTTTTTTCATTTTT-ATCA
27166399 TTTTT
1 TTTTT
27166404 TATATCTCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
33 23 0.61
35 15 0.39
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (35 bp):
TTTTTCATTTTTTTTCATTTTTTTCATTTTTATCA
Found at i:27166393 original size:19 final size:19
Alignment explanation
Indices: 27166310--27166404 Score: 94
Period size: 19 Copynumber: 5.2 Consensus size: 19
27166300 TTTTCTCTTA
* *
27166310 TTTTACATTTTTTCTC-TAT
1 TTTTTCATTTTTTTTCAT-T
27166329 TTTTTCATTTTTTTTTCATT
1 TTTTTCA-TTTTTTTTCATT
27166349 TTTTTCA--TTTTTTCA--
1 TTTTTCATTTTTTTTCATT
27166364 TTTTTCA-TTTTTTTCATT
1 TTTTTCATTTTTTTTCATT
**
27166382 TTTTTCATTTTTCATCATT
1 TTTTTCATTTTTTTTCATT
27166401 TTTT
1 TTTT
27166405 ATATCTCCCA
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
15 7 0.11
16 8 0.12
17 8 0.12
18 7 0.11
19 19 0.29
20 16 0.24
21 1 0.02
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTCATTTTTTTTCATT
Found at i:27166402 original size:25 final size:24
Alignment explanation
Indices: 27166340--27166396 Score: 105
Period size: 24 Copynumber: 2.3 Consensus size: 24
27166330 TTTTCATTTT
27166340 TTTTTCATTTTTTTCATTTTTTCA
1 TTTTTCATTTTTTTCATTTTTTCA
27166364 TTTTTCATTTTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA-TTTTTTCA
27166389 TTTTTCAT
1 TTTTTCAT
27166397 CATTTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTCATTTTTTTCATTTTTTCA
Found at i:27168808 original size:18 final size:18
Alignment explanation
Indices: 27168782--27168827 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
27168772 ATGGCATTCT
*
27168782 AGGGAATGTATACCCTAC
1 AGGGTATGTATACCCTAC
*
27168800 AGGGTATGTATATCCTAC
1 AGGGTATGTATACCCTAC
27168818 AGGGTATGTA
1 AGGGTATGTA
27168828 AATTGTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (18 bp):
AGGGTATGTATACCCTAC
Found at i:27170528 original size:49 final size:48
Alignment explanation
Indices: 27170439--27170533 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
27170429 ATTTTATTTT
*
27170439 TTTCTAAATTTTTCACCATTTGGGTCAATTTAAAAATTTTCTTTTTGA
1 TTTCTAAATTTTTCACCATTTGGGTCAATTTAAAAATTTTCATTTTGA
* * *
27170487 TTTCTAAATTTTTTACCATTTTGGTCTATTTAAAAATTTTTCATTTT
1 TTTCTAAATTTTTCACCATTTGGGTCAATTTAAAAA-TTTTCATTTT
27170534 CTTTTTATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 33 0.79
49 9 0.21
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (48 bp):
TTTCTAAATTTTTCACCATTTGGGTCAATTTAAAAATTTTCATTTTGA
Found at i:27170744 original size:22 final size:21
Alignment explanation
Indices: 27170702--27170744 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
27170692 TATTCTCAAA
**
27170702 AATTTTATTTTATATTTTTTT
1 AATTTTATTTTATATAGTTTT
*
27170723 AATTATTATTTTTTATAGTTTT
1 AATT-TTATTTTATATAGTTTT
27170745 TGTAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
AATTTTATTTTATATAGTTTT
Found at i:27170756 original size:22 final size:21
Alignment explanation
Indices: 27170702--27170756 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
27170692 TATTCTCAAA
* *
27170702 AATTTTATTTTATATTTTTTT
1 AATTTTTTTTTATATTTTTGT
27170723 AATTATTATTTTTTATAGTTTTTGT
1 AA-T-TT-TTTTTTATA-TTTTTGT
27170748 AATTTTTTT
1 AATTTTTTT
27170757 AAATATTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
21 2 0.07
22 5 0.18
23 4 0.14
24 9 0.32
25 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
AATTTTTTTTTATATTTTTGT
Found at i:27177013 original size:6 final size:6
Alignment explanation
Indices: 27177002--27177063 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
27176992 CTAAAAATAA
* * * * * *
27177002 TAAAAT TAAAAT TAAAAAT CAAAAT TCAAAT TAAGAC TAAAAG TAAAAC
1 TAAAAT TAAAAT T-AAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
*
27177051 CAAAAT TAAAAT T
1 TAAAAT TAAAAT T
27177064 TTTGGGCCTT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (6 bp):
TAAAAT
Found at i:27177669 original size:18 final size:18
Alignment explanation
Indices: 27177621--27177674 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
27177611 TTAATAGAGA
* *
27177621 TTTCATATTTGCAAAAAT
1 TTTCAGATTTGTAAAAAT
* *
27177639 TTT-AGATTCGTAAAGAT
1 TTTCAGATTTGTAAAAAT
27177656 TTTCAGATTTGTAAAAAT
1 TTTCAGATTTGTAAAAAT
27177674 T
1 T
27177675 AAAAAATTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (18 bp):
TTTCAGATTTGTAAAAAT
Found at i:27177692 original size:27 final size:27
Alignment explanation
Indices: 27177662--27177714 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
27177652 AGATTTTCAG
*
27177662 ATTTGTAAAAATTAAAAAATTCACAAA
1 ATTTATAAAAATTAAAAAATTCACAAA
* * *
27177689 ATTTATAAGAATTCAAAGATTCACAA
1 ATTTATAAAAATTAAAAAATTCACAA
27177715 GACTTTTAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (27 bp):
ATTTATAAAAATTAAAAAATTCACAAA
Found at i:27177727 original size:17 final size:17
Alignment explanation
Indices: 27177705--27177738 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27177695 AAGAATTCAA
*
27177705 AGATTCACAAGACTTTT
1 AGATTCACAAGAATTTT
*
27177722 AGATTCATAAGAATTTT
1 AGATTCACAAGAATTTT
27177739 TGTTTTATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (17 bp):
AGATTCACAAGAATTTT
Found at i:27177842 original size:17 final size:16
Alignment explanation
Indices: 27177809--27177859 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
27177799 CAAGAAATTT
*
27177809 AGTTCATAAAGATTTCA
1 AGTTCATAAA-AGTTCA
27177826 AGTTCATAAAAGCTTCA
1 AGTTCATAAAAG-TTCA
*
27177843 GGTTCATAAAAGTTCA
1 AGTTCATAAAAGTTCA
27177859 A
1 A
27177860 ATTTGTAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (16 bp):
AGTTCATAAAAGTTCA
Found at i:27178122 original size:17 final size:17
Alignment explanation
Indices: 27178083--27178122 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
27178073 TCAAATTCAT
* *
27178083 AATTCAATTTTACAAGA
1 AATTCAAATTTACAAAA
*
27178100 ATTTCAAATTTACAAAA
1 AATTCAAATTTACAAAA
27178117 AATTCA
1 AATTCA
27178123 GATTCGTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (17 bp):
AATTCAAATTTACAAAA
Found at i:27178208 original size:16 final size:16
Alignment explanation
Indices: 27178165--27178198 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27178155 ATTCACAATA
*
27178165 AATTCAATTTCATAAG
1 AATTCAAATTCATAAG
27178181 AATTCAAATTCATAAG
1 AATTCAAATTCATAAG
27178197 AA
1 AA
27178199 CTTAGATTCA
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:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
AATTCAAATTCATAAG
Found at i:27178360 original size:18 final size:18
Alignment explanation
Indices: 27178334--27178368 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27178324 TTCGCAAGAA
27178334 CTCAAATTCATAAGATTT
1 CTCAAATTCATAAGATTT
* *
27178352 CTCAGATTCGTAAGATT
1 CTCAAATTCATAAGATT
27178369 GTAAAGATTC
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:0.34, C:0.17, G:0.11, T:0.37
Consensus pattern (18 bp):
CTCAAATTCATAAGATTT
Found at i:27178388 original size:17 final size:18
Alignment explanation
Indices: 27178355--27178389 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27178345 AAGATTTCTC
27178355 AGATTCGTAAGATTGTAA
1 AGATTCGTAAGATTGTAA
27178373 AGATTCGTAA-ATTGTAA
1 AGATTCGTAAGATTGTAA
27178390 TTTACATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (18 bp):
AGATTCGTAAGATTGTAA
Found at i:27178678 original size:45 final size:44
Alignment explanation
Indices: 27178629--27178746 Score: 166
Period size: 45 Copynumber: 2.6 Consensus size: 44
27178619 ATTTCGTAAC
*
27178629 CAAAATTTCAAAGATTCTCATTCGAAAAATTTTA-AGATTTCACAT
1 CAAAATTTCAAA-ATTCTCATTTGAAAAATTTTAGAG-TTTCACAT
*
27178674 CAAAATTTCAAACATTCTCATTTAAAAAATTTTAGAGTTTCACAT
1 CAAAATTTCAAA-ATTCTCATTTGAAAAATTTTAGAGTTTCACAT
27178719 CTAAAATTTCAAAACTTCTCATTTGAAA
1 C-AAAATTTCAAAA-TTCTCATTTGAAA
27178747 GACTTTAGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
45 41 0.62
46 25 0.38
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (44 bp):
CAAAATTTCAAAATTCTCATTTGAAAAATTTTAGAGTTTCACAT
Found at i:27180953 original size:31 final size:31
Alignment explanation
Indices: 27180917--27180978 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
27180907 GTTTACAAAG
27180917 ATATTTTCAAACAAGAGTTTAAAAACTTAAT
1 ATATTTTCAAACAAGAGTTTAAAAACTTAAT
27180948 ATATTTTCAAACAAGAGTTTAAAAACTTAAT
1 ATATTTTCAAACAAGAGTTTAAAAACTTAAT
27180979 TGCTCATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (31 bp):
ATATTTTCAAACAAGAGTTTAAAAACTTAAT
Found at i:27184580 original size:14 final size:13
Alignment explanation
Indices: 27184530--27184580 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
27184520 TCTTAAAATC
27184530 TGTGATTTCA--T
1 TGTGATTTCATTT
*
27184541 TGTGATTTTATTT
1 TGTGATTTCATTT
*
27184554 TGTGAATTCATTT
1 TGTGATTTCATTT
*
27184567 CTGTGATTTGATTT
1 -TGTGATTTCATTT
27184581 GATTAATTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
11 9 0.28
13 12 0.38
14 11 0.34
ACGTcount: A:0.18, C:0.06, G:0.18, T:0.59
Consensus pattern (13 bp):
TGTGATTTCATTT
Found at i:27184707 original size:6 final size:6
Alignment explanation
Indices: 27184692--27184771 Score: 70
Period size: 6 Copynumber: 13.2 Consensus size: 6
27184682 CTAAAAATGA
* * * * * *
27184692 TAAAAC TAAAAT TAAAAAC CAAAAT TAAAAT TAAGAC TAAAAT TAAAAC
1 TAAAAT TAAAAT T-AAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* * *
27184741 CAAAGT TAAAAT TAAAAC TAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
27184772 TTTGGACCTT
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
6 52 0.93
7 4 0.07
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.25
Consensus pattern (6 bp):
TAAAAT
Found at i:27184742 original size:30 final size:30
Alignment explanation
Indices: 27184692--27184769 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
27184682 CTAAAAATGA
27184692 TAAAACTAAAATTAAAAACCAAAATTAAAAT
1 TAAAACTAAAATT-AAAACCAAAATTAAAAT
* *
27184723 TAAGACTAAAATTAAAACCAAAGTTAAAAT
1 TAAAACTAAAATTAAAACCAAAATTAAAAT
27184753 TAAAACTAAAATTAAAA
1 TAAAACTAAAATTAAAA
27184770 TTTTTGGACC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 32 0.73
31 12 0.27
ACGTcount: A:0.65, C:0.09, G:0.03, T:0.23
Consensus pattern (30 bp):
TAAAACTAAAATTAAAACCAAAATTAAAAT
Found at i:27185583 original size:15 final size:16
Alignment explanation
Indices: 27185559--27185591 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27185549 TATCATCGAT
*
27185559 ACAACGCAATC-TTAA
1 ACAACACAATCTTTAA
27185574 ACAACACAATCTTTAA
1 ACAACACAATCTTTAA
27185590 AC
1 AC
27185592 TAAAAGGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.48, C:0.27, G:0.03, T:0.21
Consensus pattern (16 bp):
ACAACACAATCTTTAA
Found at i:27192348 original size:15 final size:15
Alignment explanation
Indices: 27192328--27192358 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27192318 TGTCACAAAA
*
27192328 AAAAATTAAAAGTAT
1 AAAAATAAAAAGTAT
27192343 AAAAATAAAAAGTAT
1 AAAAATAAAAAGTAT
27192358 A
1 A
27192359 TTTAAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAATAAAAAGTAT
Found at i:27192400 original size:3 final size:3
Alignment explanation
Indices: 27192392--27192432 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
27192382 TATTTTTTAA
27192392 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27192433 AACTTTTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27192951 original size:14 final size:14
Alignment explanation
Indices: 27192928--27192967 Score: 57
Period size: 12 Copynumber: 3.0 Consensus size: 14
27192918 AATTTCTAAA
27192928 TGAAACCCTAAAAT
1 TGAAACCCTAAAAT
*
27192942 TGAAATCCT-AAA-
1 TGAAACCCTAAAAT
27192954 TGAAACCCTAAAAT
1 TGAAACCCTAAAAT
27192968 CAAAACCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 8 0.36
13 6 0.27
14 8 0.36
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (14 bp):
TGAAACCCTAAAAT
Found at i:27192952 original size:26 final size:26
Alignment explanation
Indices: 27192923--27192985 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
27192913 TTATAAATTT
** *
27192923 CTAAATGAAACCCTAAAATTGAAATC
1 CTAAATGAAACCCTAAAATCAAAACC
27192949 CTAAATGAAACCCTAAAATCAAAACC
1 CTAAATGAAACCCTAAAATCAAAACC
*
27192975 CTCAATGAAAC
1 CTAAATGAAAC
27192986 TTAAAACCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.06, T:0.19
Consensus pattern (26 bp):
CTAAATGAAACCCTAAAATCAAAACC
Found at i:27192975 original size:14 final size:13
Alignment explanation
Indices: 27192925--27192985 Score: 63
Period size: 14 Copynumber: 4.7 Consensus size: 13
27192915 ATAAATTTCT
27192925 AAATGAAACCCTA
1 AAATGAAACCCTA
*
27192938 AAATTGAAATCCT-
1 AAA-TGAAACCCTA
27192951 AAATGAAACCCTA
1 AAATGAAACCCTA
*
27192964 AAATCAAAACCCT-
1 AAAT-GAAACCCTA
*
27192977 CAATGAAAC
1 AAATGAAAC
27192986 TTAAAACCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 12 0.30
13 13 0.32
14 15 0.38
ACGTcount: A:0.52, C:0.23, G:0.07, T:0.18
Consensus pattern (13 bp):
AAATGAAACCCTA
Found at i:27198542 original size:49 final size:51
Alignment explanation
Indices: 27198471--27198592 Score: 146
Period size: 49 Copynumber: 2.5 Consensus size: 51
27198461 AAAGATGAAG
* *
27198471 AAATTTTTT-AAGTTGTTAAGCCTCTATCTAAAGAAGCTTTTT-C-TA-GA
1 AAATTTTTTAAAATTGTTAAGCCTCTATCTAAAGAAACTTTTTACATATGA
* * *
27198518 TAAATTTTTTAAAATTGTTGAGCCTCTATTTAGAGAAACTTTTTACATATGA
1 -AAATTTTTTAAAATTGTTAAGCCTCTATCTAAAGAAACTTTTTACATATGA
*
27198570 AAA-TATTTAAAATTGTTAAGCCT
1 AAATTTTTTAAAATTGTTAAGCCT
27198593 TTGCTTAGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
48 9 0.14
49 28 0.44
50 19 0.30
51 5 0.08
52 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (51 bp):
AAATTTTTTAAAATTGTTAAGCCTCTATCTAAAGAAACTTTTTACATATGA
Found at i:27198629 original size:50 final size:48
Alignment explanation
Indices: 27198475--27198684 Score: 147
Period size: 50 Copynumber: 4.3 Consensus size: 48
27198465 ATGAAGAAAT
* * * * * *
27198475 TTTTTAAGTTGTTAAGCCTCTA-TCTAAAGAAGCTTTTTCTAGATAA-ATT
1 TTTTAAAGTTGTTAAGCCTCTACT-TAGAGGACCTTTTTC-ATATAAGA-A
* * * * *
27198524 TTTTAAAATTGTTGAGCCTCTATTTAGAGAAACTTTTTACATATGAA-AA
1 TTTTAAAGTTGTTAAGCCTCTACTTAGAGGACCTTTTT-CATAT-AAGAA
* * * ** *
27198573 TATTTAAAATTGTTAAGCCTTTGCTTAGAGGAGTTTTCTTTATATAAGAA
1 T-TTTAAAGTTGTTAAGCCTCTACTTAGAGGACCTTT-TTCATATAAGAA
** *
27198623 TTTTTAAAGTCATTGAGCCTCTACTTAGAGGACCTTTTTCATATAAGAA
1 -TTTTAAAGTTGTTAAGCCTCTACTTAGAGGACCTTTTTCATATAAGAA
27198672 TTTTAAAGTTGTT
1 TTTTAAAGTTGTT
27198685 GAGTTTTTGC
Statistics
Matches: 128, Mismatches: 26, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
48 11 0.09
49 48 0.38
50 66 0.52
51 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (48 bp):
TTTTAAAGTTGTTAAGCCTCTACTTAGAGGACCTTTTTCATATAAGAA
Found at i:27198687 original size:48 final size:48
Alignment explanation
Indices: 27198524--27198687 Score: 159
Period size: 50 Copynumber: 3.3 Consensus size: 48
27198514 TAGATAAATT
* *
27198524 TTTTAAAATTGTTGAGCCTCTATTTAGAGAAACTTTTTACATATGAA-AA
1 TTTTAAAATTGTTGAGCCTCTACTTAGAGGAACTTTTT-CATAT-AAGAA
* * * ** *
27198573 TATTTAAAATTGTTAAGCCTTTGCTTAGAGGAGTTTTCTTTATATAAGAA
1 T-TTTAAAATTGTTGAGCCTCTACTTAGAGGAACTTT-TTCATATAAGAA
* ** *
27198623 TTTTTAAAGTCATTGAGCCTCTACTTAGAGGACCTTTTTCATATAAGAA
1 -TTTTAAAATTGTTGAGCCTCTACTTAGAGGAACTTTTTCATATAAGAA
*
27198672 TTTTAAAGTTGTTGAG
1 TTTTAAAATTGTTGAG
27198688 TTTTTGCCTA
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
48 14 0.15
49 14 0.15
50 61 0.66
51 3 0.03
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (48 bp):
TTTTAAAATTGTTGAGCCTCTACTTAGAGGAACTTTTTCATATAAGAA
Found at i:27198728 original size:44 final size:45
Alignment explanation
Indices: 27198676--27198792 Score: 175
Period size: 44 Copynumber: 2.6 Consensus size: 45
27198666 TAAGAATTTT
* *
27198676 AAAGTTGTTGAGTTTTTGCCTAAAGGAGCCATTTTAAG-TTTTCA
1 AAAGTTGTTGAGCTTTTGCCTAGAGGAGCCATTTTAAGTTTTTCA
* *
27198720 AAAGTTGTTGAGCTTTTGCCTAGAGAAGCCATTTTAAGTTTTTTA
1 AAAGTTGTTGAGCTTTTGCCTAGAGGAGCCATTTTAAGTTTTTCA
*
27198765 AAA-TTGTTGAGCTTTTGCTTAGAGGAGC
1 AAAGTTGTTGAGCTTTTGCCTAGAGGAGC
27198793 TTTTTTAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 58 0.88
45 8 0.12
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (45 bp):
AAAGTTGTTGAGCTTTTGCCTAGAGGAGCCATTTTAAGTTTTTCA
Found at i:27198893 original size:49 final size:46
Alignment explanation
Indices: 27198754--27198894 Score: 131
Period size: 49 Copynumber: 3.0 Consensus size: 46
27198744 GAAGCCATTT
* * * *
27198754 TAAGTTTTTTAAAATTGTTGAGCTTTTGCTTAGAGGAGCTTTTTTAA
1 TAAGTTTTTTAAAGTTGTTGAGCATTT-ATTAGAAGAGCTTTTTTAA
* ** * *
27198801 TATGAATTTTAAAGTTGTTGA-CACTCTTATTAAAAGAGTTTTTTATATA
1 TAAGTTTTTTAAAGTTGTTGAGCA-T-TTATTAGAAGAGCTTTTT-TA-A
*
27198850 TAAGTTTTTTAAAGTTGTTGAGCATTTATTTAGATGAGCTTTTTT
1 TAAGTTTTTTAAAGTTGTTGAGCATTTA-TTAGAAGAGCTTTTTT
27198895 CATATGAGAA
Statistics
Matches: 73, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
46 1 0.01
47 30 0.41
48 8 0.11
49 32 0.44
50 2 0.03
ACGTcount: A:0.28, C:0.06, G:0.16, T:0.50
Consensus pattern (46 bp):
TAAGTTTTTTAAAGTTGTTGAGCATTTATTAGAAGAGCTTTTTTAA
Found at i:27199306 original size:44 final size:44
Alignment explanation
Indices: 27199236--27199340 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 44
27199226 TAGATGAAAA
* * *
27199236 TTTT-AAAA-TTGTTGAGCCTTTGCCTAGATGAGCCATTTTAAG
1 TTTTCAAAAGTTGTTGAGCCTCTACCTAGAGGAGCCATTTTAAG
*
27199278 TTTTCAAAAGTTGTTGAGCCTCTACCTAGAGGAGTCATTTTAAG
1 TTTTCAAAAGTTGTTGAGCCTCTACCTAGAGGAGCCATTTTAAG
*
27199322 TTTTCAAAAGTTATTGAGC
1 TTTTCAAAAGTTGTTGAGC
27199341 ATTTGGTAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 4 0.07
43 4 0.07
44 48 0.86
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (44 bp):
TTTTCAAAAGTTGTTGAGCCTCTACCTAGAGGAGCCATTTTAAG
Found at i:27199646 original size:19 final size:20
Alignment explanation
Indices: 27199622--27199660 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
27199612 TTAGGCTTGG
27199622 GGCCCAA-TTT-CATTTTTTA
1 GGCCCAAGTTTAC-TTTTTTA
27199641 GGCCCAAGTTTACTTTTTTA
1 GGCCCAAGTTTACTTTTTTA
27199661 TTTTTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 10 0.56
21 1 0.06
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (20 bp):
GGCCCAAGTTTACTTTTTTA
Found at i:27200037 original size:23 final size:23
Alignment explanation
Indices: 27200004--27200057 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
27199994 TAAAAGAAAC
*
27200004 AAAAAAA-AAACATTCCA-AAAAA
1 AAAAAAACAAACA-TCAATAAAAA
*
27200026 AAAAAAACAAACATGAATAAAAA
1 AAAAAAACAAACATCAATAAAAA
27200049 AAAAAAACA
1 AAAAAAACA
27200058 CAGTCCCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 9 0.32
23 19 0.68
ACGTcount: A:0.80, C:0.11, G:0.02, T:0.07
Consensus pattern (23 bp):
AAAAAAACAAACATCAATAAAAA
Found at i:27201845 original size:10 final size:10
Alignment explanation
Indices: 27201830--27201867 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
27201820 AACATTATTT
27201830 TTTTAATAAA
1 TTTTAATAAA
27201840 TTTTAATAAA
1 TTTTAATAAA
27201850 TTTT-A-AAA
1 TTTTAATAAA
*
27201858 TTTTATTAAA
1 TTTTAATAAA
27201868 ATGATGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 7 0.28
9 1 0.04
10 17 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:27206760 original size:35 final size:35
Alignment explanation
Indices: 27206721--27206820 Score: 92
Period size: 35 Copynumber: 2.9 Consensus size: 35
27206711 TCAGTCTTAA
* * * * *
27206721 TCATTTTTATTTTTTGACTTACGGCTTAGTCCCAG
1 TCATTATTATTTTTTGACTTACAGCTCAATACCAG
* ** *
27206756 TCATTCTGGTTTTTTGACTTGCAGCTCAATACCAG
1 TCATTATTATTTTTTGACTTACAGCTCAATACCAG
* * *
27206791 TTATTATTATTTTTTGACTTATAGTTCAAT
1 TCATTATTATTTTTTGACTTACAGCTCAAT
27206821 TTTGGTCATC
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (35 bp):
TCATTATTATTTTTTGACTTACAGCTCAATACCAG
Found at i:27207588 original size:3 final size:3
Alignment explanation
Indices: 27207575--27207632 Score: 100
Period size: 3 Copynumber: 19.3 Consensus size: 3
27207565 CATTAAACAA
27207575 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
27207621 AAT AAT AA- AAT A
1 AAT AAT AAT AAT A
27207633 TGTAAATTAA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27207705 original size:25 final size:25
Alignment explanation
Indices: 27207655--27207744 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 25
27207645 TTAAGAATGT
**
27207655 AAATATAA-AATATAAAAACCATATAA
1 AAATATAATAAT-TAAAAATTA-ATAA
27207681 AAATATAATAATTAAAAATTAAT--
1 AAATATAATAATTAAAAATTAATAA
*
27207704 -AATATAATAATTAATAA-TAATAA
1 AAATATAATAATTAAAAATTAATAA
*
27207727 ATAATA-AAT-TTTAAAAAT
1 A-AATATAATAATTAAAAAT
27207745 ATAAATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
21 4 0.08
22 16 0.30
23 6 0.11
24 3 0.06
25 6 0.11
26 15 0.28
27 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATATAATAATTAAAAATTAATAA
Found at i:27207707 original size:22 final size:21
Alignment explanation
Indices: 27207691--27207733 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
27207681 AAATATAATA
27207691 ATTAAAAATTAATAATATAATA
1 ATTAAAAA-TAATAATATAATA
*
27207713 ATTAATAATAATAA-ATAATA
1 ATTAAAAATAATAATATAATA
27207733 A
1 A
27207734 ATTTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAATAATAATATAATA
Found at i:27207757 original size:15 final size:16
Alignment explanation
Indices: 27207654--27207757 Score: 60
Period size: 15 Copynumber: 6.8 Consensus size: 16
27207644 ATTAAGAATG
*
27207654 TAAATATAAAATATAA
1 TAAATATAAAAAATAA
*
27207670 AAACCATATAAAAATATAA
1 TAA--ATATAAAAA-ATAA
*
27207689 T-AAT-TAAAAATTAA
1 TAAATATAAAAAATAA
* *
27207703 T-AATATAATAATTAA
1 TAAATATAAAAAATAA
*
27207718 T--A-ATAATAAATAA
1 TAAATATAAAAAATAA
* *
27207731 TAAATTTTAAAAAT-A
1 TAAATATAAAAAATAA
27207746 TAAATATAAAAA
1 TAAATATAAAAA
27207758 GCTTGGCCTA
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
13 11 0.16
14 8 0.11
15 28 0.40
16 10 0.14
18 9 0.13
19 4 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAATATAAAAAATAA
Found at i:27207781 original size:9 final size:9
Alignment explanation
Indices: 27207762--27207791 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
27207752 TAAAAAGCTT
27207762 GGCCTAAAAG
1 GGCC-AAAAG
27207772 GGCCAAAAG
1 GGCCAAAAG
27207781 GGCCAAAAG
1 GGCCAAAAG
27207790 GG
1 GG
27207792 GAGCCCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.40, C:0.20, G:0.37, T:0.03
Consensus pattern (9 bp):
GGCCAAAAG
Found at i:27208892 original size:20 final size:20
Alignment explanation
Indices: 27208854--27208892 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27208844 GGCTTTTGGT
*
27208854 TTTCTCTTTTCTTTCTTTTC
1 TTTCTCTTTTCTTTATTTTC
* *
27208874 TTTCTTTTTTTTTTATTTT
1 TTTCTCTTTTCTTTATTTT
27208893 TTCCCTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTCTCTTTTCTTTATTTTC
Found at i:27209433 original size:14 final size:15
Alignment explanation
Indices: 27209414--27209444 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27209404 AGAAATTATT
27209414 AAATAAT-AAAAATA
1 AAATAATAAAAAATA
27209428 AAATAATAAAAAATA
1 AAATAATAAAAAATA
27209443 AA
1 AA
27209445 TGAATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATAATAAAAAATA
Found at i:27209450 original size:15 final size:14
Alignment explanation
Indices: 27209413--27209451 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
27209403 GAGAAATTAT
27209413 TAAATAAT-AAAAA
1 TAAATAATAAAAAA
27209426 TAAAATAATAAAAAA
1 T-AAATAATAAAAAA
27209441 TAAATGAATAA
1 TAAAT-AATAA
27209452 TTATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.04
14 11 0.48
15 11 0.48
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
TAAATAATAAAAAA
Found at i:27209672 original size:14 final size:14
Alignment explanation
Indices: 27209655--27209758 Score: 51
Period size: 13 Copynumber: 7.8 Consensus size: 14
27209645 CCCAAAACCT
27209655 TAAAATTAAAATCC
1 TAAAATTAAAATCC
**
27209669 TAAAATCGAAATCC
1 TAAAATTAAAATCC
* *
27209683 T-AAATGAAACT-C
1 TAAAATTAAAATCC
*
27209695 TAAAATTGAAA-CTC
1 TAAAATTAAAATC-C
*
27209709 T-AAATTGAAA-CC
1 TAAAATTAAAATCC
* *
27209721 ATAAATTTAAAAGCC
1 -TAAAATTAAAATCC
* *
27209736 T-AAA-TGAAACCC
1 TAAAATTAAAATCC
27209748 TAAAATTAAAA
1 TAAAATTAAAA
27209759 CTCCAAGGTT
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
12 10 0.15
13 29 0.43
14 27 0.40
15 2 0.03
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.25
Consensus pattern (14 bp):
TAAAATTAAAATCC
Found at i:27209697 original size:26 final size:24
Alignment explanation
Indices: 27209667--27209759 Score: 87
Period size: 26 Copynumber: 3.6 Consensus size: 24
27209657 AAATTAAAAT
*
27209667 CCTAAAATCGAAATCCTAAATGAAA
1 CCTAAAATTGAAA-CCTAAATGAAA
27209692 CTCTAAAATTGAAACTCTAAATTGAAA
1 C-CTAAAATTGAAAC-CTAAA-TGAAA
* *
27209719 CCATAAATTTAAAAGCCTAAATGAAA
1 CC-TAAAATTGAAA-CCTAAATGAAA
*
27209745 CCCTAAAATTAAAAC
1 -CCTAAAATTGAAAC
27209760 TCCAAGGTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
25 3 0.05
26 32 0.55
27 22 0.38
28 1 0.02
ACGTcount: A:0.52, C:0.18, G:0.06, T:0.24
Consensus pattern (24 bp):
CCTAAAATTGAAACCTAAATGAAA
Found at i:27209725 original size:13 final size:13
Alignment explanation
Indices: 27209682--27209780 Score: 71
Period size: 14 Copynumber: 7.5 Consensus size: 13
27209672 AATCGAAATC
27209682 CTAAA-TGAAACT
1 CTAAATTGAAACT
27209694 CTAAAATTGAAACT
1 CT-AAATTGAAACT
27209708 CTAAATTGAAAC-
1 CTAAATTGAAACT
*
27209720 CATAAATTTAAAAGC-
1 C-TAAA-TTGAAA-CT
*
27209735 CTAAA-TGAAACC
1 CTAAATTGAAACT
*
27209747 CTAAAATTAAAACT
1 CT-AAATTGAAACT
* *
27209761 CCAAGGTTGAAACT
1 CTAA-ATTGAAACT
27209775 CTAAAT
1 CTAAAT
27209781 GGTACCTTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
11 1 0.01
12 9 0.13
13 23 0.33
14 34 0.49
15 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.25
Consensus pattern (13 bp):
CTAAATTGAAACT
Found at i:27209759 original size:14 final size:14
Alignment explanation
Indices: 27209649--27209759 Score: 79
Period size: 14 Copynumber: 8.3 Consensus size: 14
27209639 ATGCAACCCA
* *
27209649 AAACCTTAAAATTA
1 AAACCCTAAAATTG
* *
27209663 AAATCCTAAAATCG
1 AAACCCTAAAATTG
*
27209677 AAATCCT-AAA-TG
1 AAACCCTAAAATTG
*
27209689 AAACTCTAAAATTG
1 AAACCCTAAAATTG
*
27209703 AAACTCT-AAATTG
1 AAACCCTAAAATTG
* * *
27209716 AAACCATAAATTTA
1 AAACCCTAAAATTG
*
27209730 AAAGCCT-AAA-TG
1 AAACCCTAAAATTG
*
27209742 AAACCCTAAAATTA
1 AAACCCTAAAATTG
27209756 AAAC
1 AAAC
27209760 TCCAAGGTTG
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
12 13 0.17
13 22 0.29
14 40 0.53
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.24
Consensus pattern (14 bp):
AAACCCTAAAATTG
Found at i:27210029 original size:17 final size:18
Alignment explanation
Indices: 27210000--27210035 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27209990 TTTTTGTAAC
*
27210000 ATAAAATAATAAAATTAA
1 ATAAAATAATAAAAATAA
27210018 ATAAAA-AATAAAAATAA
1 ATAAAATAATAAAAATAA
27210035 A
1 A
27210036 AATAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
ATAAAATAATAAAAATAA
Found at i:27210759 original size:15 final size:15
Alignment explanation
Indices: 27210739--27211230 Score: 140
Period size: 15 Copynumber: 33.2 Consensus size: 15
27210729 TAATATATAT
27210739 TAATATTATTATTAA
1 TAATATTATTATTAA
27210754 TAATA-T-TTATTAA
1 TAATATTATTATTAA
27210767 T-ATATTA-TATTAA
1 TAATATTATTATTAA
*
27210780 TAGTATGTTATTTATTAA
1 TA--ATATTA-TTATTAA
*
27210798 TAATA-TATTATTTAT
1 TAATATTATTA-TTAA
**
27210813 TAATA-TATTATTTCT
1 TAATATTATTA-TTAA
27210828 TAATATTATTTATTAA
1 TAATATTA-TTATTAA
27210844 TACAT-TTA-TATTAA
1 TA-ATATTATTATTAA
27210858 TAATA-TATTATATTAA
1 TAATATTA-T-TATTAA
* *
27210874 TAAATAATATTAATAAA
1 T-AATATTATT-ATTAA
* *
27210891 TAA-ATAAATATTAA
1 TAATATTATTATTAA
* *
27210905 GAAATATATATTAATAAA
1 -TAATAT-TATT-ATTAA
**
27210923 TAATA-TATTATATTCG
1 TAATATTA-T-TATTAA
*
27210939 TAA-ATAATTATTAA
1 TAATATTATTATTAA
* * *
27210953 GAA-ATAATATACTAA
1 TAATATTAT-TATTAA
*
27210968 TACATATTATTATAAA
1 TA-ATATTATTATTAA
27210984 TAA-A-TATTA-TAA
1 TAATATTATTATTAA
* *
27210996 TAATATACTAATAATAAA
1 TAATAT--T-ATTATTAA
*
27211014 CAATATTA-TATTAA
1 TAATATTATTATTAA
*
27211028 TAA-A-TAATATT-A
1 TAATATTATTATTAA
* *
27211040 TAATA-TATAAATAA
1 TAATATTATTATTAA
* *
27211054 TAATA-TACTATGAA
1 TAATATTATTATTAA
*
27211068 TAA-A-TAATATT-A
1 TAATATTATTATTAA
*
27211080 TAATA-TATTTATTAG
1 TAATATTA-TTATTAA
27211095 TAATA-TATTATT--
1 TAATATTATTATTAA
27211107 T-AT-TTATATATT-A
1 TAATATTAT-TATTAA
27211120 TAATATTATTTATTAA
1 TAATATTA-TTATTAA
27211136 TAGTATATTATTTATTAA
1 TA--ATATTA-TTATTAA
*
27211154 TATTAATATATTATT-A
1 TAAT-AT-TATTATTAA
*
27211170 TAATA-T-TTATTTA
1 TAATATTATTATTAA
**
27211183 TAATAACATGTATTAA
1 TAATATTAT-TATTAA
*
27211199 T-ATTTTATTTATTAA
1 TAATATTA-TTATTAA
* *
27211214 T-ATAATATTATTTA
1 TAATATTATTATTAA
27211228 TAA
1 TAA
27211231 GTAAAATTAT
Statistics
Matches: 364, Mismatches: 56, Indels: 114
0.68 0.10 0.21
Matches are distributed among these distances:
11 5 0.01
12 28 0.08
13 53 0.15
14 66 0.18
15 77 0.21
16 60 0.16
17 36 0.10
18 39 0.11
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
TAATATTATTATTAA
Found at i:27210765 original size:13 final size:13
Alignment explanation
Indices: 27210717--27210868 Score: 92
Period size: 13 Copynumber: 11.8 Consensus size: 13
27210707 ATTATTCTTT
27210717 ATAATTATTTATTA
1 ATAA-TATTTATTA
27210731 AT-ATA--TATTA
1 ATAATATTTATTA
*
27210741 ATATTA-TTATTA
1 ATAATATTTATTA
27210753 ATAATATTTATTA
1 ATAATATTTATTA
27210766 AT-ATATTATATTA
1 ATAATATT-TATTA
*
27210779 ATAGTATGTTATTTA
1 ATAATAT-TTA-TTA
*
27210794 TTAATA---A-T-
1 ATAATATTTATTA
*
27210802 ATATTATTTATTA
1 ATAATATTTATTA
*
27210815 ATATATTATTTCTTA
1 ATA-A-TATTTATTA
*
27210830 ATATTATTTATTA
1 ATAATATTTATTA
27210843 ATACAT-TTATATTA
1 ATA-ATATT-TATTA
27210857 ATAATATATTAT
1 ATAATAT-TTAT
27210869 ATTAATAAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
8 4 0.04
9 1 0.01
10 7 0.06
11 4 0.04
12 18 0.17
13 34 0.31
14 20 0.19
15 20 0.19
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (13 bp):
ATAATATTTATTA
Found at i:27210797 original size:18 final size:16
Alignment explanation
Indices: 27210716--27210871 Score: 112
Period size: 18 Copynumber: 9.6 Consensus size: 16
27210706 TATTATTCTT
*
27210716 TATAATTATTTATTAA
1 TATATTTATTTATTAA
*
27210732 TATATATTAATATTATTAT
1 TATAT-TT-AT-TTATTAA
*
27210751 TA-ATAATATTTATTAA
1 TATAT-TTATTTATTAA
27210767 TATA-TTA--TATTAA
1 TATATTTATTTATTAA
27210780 TAGTATGTTATTTATTAA
1 TA-TAT-TTATTTATTAA
27210798 TAATATATTATTTATTAA
1 T-ATAT-TTATTTATTAA
*
27210816 TATA-TTATTTCTT-A
1 TATATTTATTTATTAA
27210830 -ATA-TTATTTATTAA
1 TATATTTATTTATTAA
* *
27210844 TACATTTATATTAATAA
1 TATATTTAT-TTATTAA
27210861 TATATTATATT
1 TATATT-TATT
27210872 AATAAATAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
13 19 0.17
14 4 0.04
15 12 0.11
16 19 0.17
17 20 0.18
18 31 0.27
19 9 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (16 bp):
TATATTTATTTATTAA
Found at i:27210885 original size:89 final size:82
Alignment explanation
Indices: 27210720--27210889 Score: 184
Period size: 94 Copynumber: 2.0 Consensus size: 82
27210710 ATTCTTTATA
*
27210720 ATTATTTATTAATATATATTAATATTATTATTAATAATATTTATTAATATATTATATTAATAGTA
1 ATTATTTATTAATATATATTAATATTATTATTAATAATATTTAATAATATATTATATTAATAG-A
* *
27210785 TGTTATTTATTAATAATAT
65 -GATATATATTAATAATAT
27210804 ATTATTTATTAATATATTATTTCTTAATATTATTTATTAATACATTTATATTAATAATATATTAT
1 ATTATTTATTAATATA-TA----TTAATATTA-TTATTAATA-A--TAT-TTAATAATATATTAT
27210869 ATTAATA-A-ATA-ATATTAATAA
56 ATTAATAGAGATATATATTAATAA
27210890 ATAAATAAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 15
0.80 0.03 0.16
Matches are distributed among these distances:
84 16 0.22
85 2 0.03
89 18 0.25
90 11 0.15
91 1 0.01
92 1 0.01
93 3 0.04
94 21 0.29
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (82 bp):
ATTATTTATTAATATATATTAATATTATTATTAATAATATTTAATAATATATTATATTAATAGAG
ATATATATTAATAATAT
Found at i:27210909 original size:10 final size:10
Alignment explanation
Indices: 27210851--27210911 Score: 51
Period size: 10 Copynumber: 6.4 Consensus size: 10
27210841 TAATACATTT
27210851 ATATTAATAA
1 ATATTAATAA
*
27210861 TATATTATATTA
1 -ATATTA-ATAA
27210873 ATA--AAT-A
1 ATATTAATAA
27210880 ATATTAATAA
1 ATATTAATAA
27210890 ATA--AATAA
1 ATATTAATAA
*
27210898 ATATTAAGAA
1 ATATTAATAA
27210908 ATAT
1 ATAT
27210912 ATATTAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
7 4 0.10
8 10 0.24
9 4 0.10
10 12 0.29
11 9 0.21
12 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (10 bp):
ATATTAATAA
Found at i:27210925 original size:65 final size:63
Alignment explanation
Indices: 27210856--27211079 Score: 192
Period size: 60 Copynumber: 3.5 Consensus size: 63
27210846 CATTTATATT
*
27210856 AATAATATATTATATTAATAAATAATATTAATAAATAAATAAATATTAAGAAATATATATTAATA
1 AATAATATATTATATTAATAAATAATATTAATAAAT-AAT-AATATTAATAAATATATATTAATA
** * * *
27210921 AATAATATATTATATTCGTAAATAATTATTAAGAAATAAT-ATACTAATACATAT-TATT-ATA
1 AATAATATATTATATTAATAAATAA-TATTAATAAATAATAATATTAATAAATATATATTAATA
* * * *
27210982 AATAA-ATATTATAATAATATACTAATAATAA-ACAAT-ATTATATTAATAAATAATATTATAAT
1 AATAATATATTATATTAATA-AATAATATTAATA-AATAATAATATTAATAAAT-ATA-TAT--T
27211044 ATATA
60 A-ATA
*
27211049 AATAATA-ATATACTATGAATAAATAATATTA
1 AATAATATAT-TA-TATTAATAAATAATATTA
27211080 TAATATATTT
Statistics
Matches: 128, Mismatches: 17, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
59 3 0.02
60 29 0.23
61 14 0.11
62 4 0.03
63 14 0.11
65 27 0.21
66 10 0.08
67 10 0.08
68 11 0.09
69 6 0.05
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.39
Consensus pattern (63 bp):
AATAATATATTATATTAATAAATAATATTAATAAATAATAATATTAATAAATATATATTAATA
Found at i:27210944 original size:34 final size:33
Alignment explanation
Indices: 27210856--27210963 Score: 132
Period size: 34 Copynumber: 3.3 Consensus size: 33
27210846 CATTTATATT
*
27210856 AATAATATATTATATTAATAAATAATATTAATA
1 AATAATATATTATATTAGTAAATAATATTAATA
*
27210889 AATAA-ATA-AATATTAAG-AAATATATATTAATA
1 AATAATATATTATATT-AGTAAATA-ATATTAATA
* *
27210921 AATAATATATTATATTCGTAAATAATTATTAAGA
1 AATAATATATTATATTAGTAAATAA-TATTAATA
27210955 AATAATATA
1 AATAATATA
27210964 CTAATACATA
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
31 10 0.16
32 18 0.28
33 10 0.16
34 26 0.41
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (33 bp):
AATAATATATTATATTAGTAAATAATATTAATA
Found at i:27210945 original size:48 final size:47
Alignment explanation
Indices: 27210851--27211039 Score: 157
Period size: 48 Copynumber: 4.1 Consensus size: 47
27210841 TAATACATTT
*
27210851 ATATTAATAATATATTATATTAATAAATA-ATATTA-ATAAATAAATAA
1 ATATTAAGAA-ATA-TATATTAATAAATATATATTATATAAATAAATAA
***
27210898 ATATTAAGAAATATATATTAATAAATAATATATTATATTCGTAAATAA
1 ATATTAAGAAATATATATTAATAAAT-ATATATTATATAAATAAATAA
* * *
27210946 TTATTAAGAAATA-ATA-TACT-AATACATATTAT-T--ATAAATAA
1 ATATTAAGAAATATATATTAATAAATATATATTATATAAATAAATAA
* * *
27210987 ATATTATA-ATAATATACTAATAATAAACA-ATATTATATTAATAAAT-A
1 ATATTA-AGA-AATATA-TATTAATAAATATATATTATATAAATAAATAA
27211034 ATATTA
1 ATATTA
27211040 TAATATATAA
Statistics
Matches: 119, Mismatches: 11, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
41 13 0.11
42 5 0.04
43 2 0.02
44 10 0.08
45 26 0.22
46 11 0.09
47 25 0.21
48 27 0.23
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.40
Consensus pattern (47 bp):
ATATTAAGAAATATATATTAATAAATATATATTATATAAATAAATAA
Found at i:27210989 original size:31 final size:31
Alignment explanation
Indices: 27210748--27211058 Score: 120
Period size: 31 Copynumber: 10.3 Consensus size: 31
27210738 TTAATATTAT
*
27210748 TATTAATA-ATA-T-TTATTAAT--ATATTA
1 TATTAATACATATTATTATTAATAAATAATA
* * *
27210774 TATTAATAGTATGTTATTTATTAATAATATATTATT
1 TATTAATA-CATATTA-TTATTAATAA-ATA--ATA
* * *
27210810 TATTAAT--ATATTATTTCTTAAT--ATTATT
1 TATTAATACATATTA-TTATTAATAAATAATA
*
27210838 TATTAATACAT-TTA-TATTAATAATATATTA
1 TATTAATACATATTATTATTAATAA-ATAATA
* * *
27210868 TATTAATAAATAATATTAATAAATAAATAA-A
1 TATTAATACATATTATT-ATTAATAAATAATA
* *
27210899 TATTAAGAAATA-TA-TATTAATAAATAATA
1 TATTAATACATATTATTATTAATAAATAATA
* * * *
27210928 TATTATATTCGTAAATAATTATTAAGAAATAATA
1 TATTA-ATAC--ATATTATTATTAATAAATAATA
* * *
27210962 TACTAATACATATTATTATAAATAAATATTA
1 TATTAATACATATTATTATTAATAAATAATA
* * * * *
27210993 TAATAAT--ATACTAATAATAA-ACAATATTA
1 TATTAATACATATTATTATTAATA-AATAATA
* * *
27211022 TATTAATAAATAATATTA-TAATATATAA-A
1 TATTAATACATATTATTATTAATAAATAATA
*
27211051 TAATAATA
1 TATTAATA
27211059 TACTATGAAT
Statistics
Matches: 217, Mismatches: 40, Indels: 53
0.70 0.13 0.17
Matches are distributed among these distances:
26 8 0.04
27 6 0.03
28 24 0.11
29 41 0.19
30 26 0.12
31 53 0.24
32 6 0.03
33 24 0.11
34 21 0.10
36 8 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
TATTAATACATATTATTATTAATAAATAATA
Found at i:27211008 original size:47 final size:45
Alignment explanation
Indices: 27210715--27211084 Score: 123
Period size: 44 Copynumber: 8.2 Consensus size: 45
27210705 TTATTATTCT
* * * *
27210715 TTATAATTATTTATTAATATATATTA-ATATTATTATTAAT-AATA
1 TTATAATAATATA-TAATATATAATACATATTATTATAAATAAATA
* * * * *
27210759 TT-TATTAATATATTATAT-TAATAGTATGTTATTTATTAATAATATA
1 TTATAATAATATATAATATATAATA-CATATTA-TTATAAATAA-ATA
* * ** * *
27210805 TTATTTATTAATATAT--TATTTCTTA-ATATTATTTATTAATACAT-
1 TTA--TAATAATATATAATATATAATACATATTA-TTATAAATAAATA
* * * *
27210849 TTATATTAATAATATATTATATTAATAAATAATATTAATAAATAAATAA
1 TTATAATAAT-ATATAATATA-TAATACATATTATT-ATAAATAAAT-A
* * * **
27210898 ATATTAAGAA-ATAT-ATAT-TAATAAATAATATATTATATTCGTAAATAA
1 TTA-TAATAATATATAATATATAATACAT-AT-TATTATA--AATAAAT-A
* *
27210946 TTAT--TAAGAAATAATATACTAATACATATTATTATAAATAAATA
1 TTATAATAATATATAATATA-TAATACATATTATTATAAATAAATA
*
27210990 TTATAATAATATACTAATA-ATAA-ACAATATTA-TATTAATAAATA
1 TTATAATAATATA-TAATATATAATAC-ATATTATTATAAATAAATA
* * * *
27211034 ATATTATAATATATAA-ATAATAAT--ATACTATGAATAAAT-AATA
1 TTATAATAATATATAATAT-ATAATACATATTAT-TATAAATAAATA
27211077 TTATAATA
1 TTATAATA
27211085 TATTTATTAG
Statistics
Matches: 252, Mismatches: 39, Indels: 71
0.70 0.11 0.20
Matches are distributed among these distances:
41 4 0.02
42 18 0.07
43 29 0.12
44 51 0.20
45 30 0.12
46 38 0.15
47 40 0.16
48 18 0.07
49 20 0.08
50 4 0.02
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (45 bp):
TTATAATAATATATAATATATAATACATATTATTATAAATAAATA
Found at i:27211032 original size:44 final size:43
Alignment explanation
Indices: 27210851--27211084 Score: 133
Period size: 44 Copynumber: 5.3 Consensus size: 43
27210841 TAATACATTT
* *
27210851 ATATTAATAAT-ATATTATATTAATAAATAATATTAATAAATAAATAA
1 ATATT-ATAATAATA-TATAATAATAAACAATATT-AT--ATAAATAA
* * ***
27210898 ATATTA-AGA-AATATATATTAATAAATAATATATTATATTCGTAA
1 ATATTATA-ATAATATATAATAATAAA-CA-ATATTATATAAATAA
* *
27210942 ATAATTATTAAGAA-ATA-ATATACTAATAC-ATATTATTATAAATAA
1 AT-ATTA-TAATAATATATA-ATAATAA-ACAATATTA-TATAAATAA
*
27210987 ATATTATAATAATATACTAATAATAAACAATATTATATTAATAA
1 ATATTATAATAATATA-TAATAATAAACAATATTATATAAATAA
* * * * *
27211031 ATAATATTATAATATATAAATAATAATATACTATGA-ATAAAT-A
1 ATATTATAATAATATAT-AATAATAA-ACAATATTATATAAATAA
27211074 ATATTATAATA
1 ATATTATAATA
27211085 TATTTATTAG
Statistics
Matches: 149, Mismatches: 21, Indels: 38
0.72 0.10 0.18
Matches are distributed among these distances:
43 16 0.11
44 57 0.38
45 44 0.30
46 18 0.12
47 14 0.09
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (43 bp):
ATATTATAATAATATATAATAATAAACAATATTATATAAATAA
Found at i:27211070 original size:40 final size:37
Alignment explanation
Indices: 27210994--27211087 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 37
27210984 TAAATATTAT
*
27210994 AATAATA-TACTAATA-ATAAACAATATTATATTAATA
1 AATAATATTA-TAATATATAAACAATATTATATGAATA
*
27211030 AATAATATTATAATATATAAATAATAATATACTATGAATA
1 AATAATATTATAATATATAAACAAT-AT-TA-TATGAATA
27211070 AATAATATTATAATATAT
1 AATAATATTATAATATAT
27211088 TTATTAGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
36 12 0.24
37 10 0.20
38 2 0.04
39 2 0.04
40 25 0.49
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (37 bp):
AATAATATTATAATATATAAACAATATTATATGAATA
Found at i:27211072 original size:21 final size:20
Alignment explanation
Indices: 27210992--27211086 Score: 97
Period size: 21 Copynumber: 4.8 Consensus size: 20
27210982 AATAAATATT
27210992 ATAATAATATACTAATAATAA
1 ATAATAATATACT-ATAATAA
* *
27211013 ACAATATTATA-T-TAATAA
1 ATAATAATATACTATAATAA
* *
27211031 ATAATATTATAATAT-ATAA
1 ATAATAATATACTATAATAA
27211050 ATAATAATATACTATGAATAA
1 ATAATAATATACTAT-AATAA
* *
27211071 ATAATATTATAATATA
1 ATAATAATATACTATA
27211087 TTTATTAGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
18 16 0.25
19 18 0.29
20 3 0.05
21 26 0.41
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (20 bp):
ATAATAATATACTATAATAA
Found at i:27211108 original size:18 final size:18
Alignment explanation
Indices: 27211085--27211188 Score: 92
Period size: 18 Copynumber: 5.7 Consensus size: 18
27211075 TATTATAATA
*
27211085 TATTTATTAGTAATATAT
1 TATTTATTAATAATATAT
27211103 TATTTATTTATATATTATAATAT
1 TATTTA-TTA-ATA--AT-ATAT
*
27211126 TATTTATTAATAGTATAT
1 TATTTATTAATAATATAT
*
27211144 TATTTATTAAT-AT-TAA
1 TATTTATTAATAATATAT
27211160 TATATTATT-ATAATAT-T
1 TAT-TTATTAATAATATAT
27211177 TATTTA-TAATAA
1 TATTTATTAATAA
27211189 CATGTATTAA
Statistics
Matches: 72, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
15 1 0.01
16 14 0.19
17 11 0.15
18 22 0.31
19 4 0.06
20 2 0.03
21 3 0.04
22 5 0.07
23 10 0.14
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTATTAATAATATAT
Found at i:27211222 original size:78 final size:77
Alignment explanation
Indices: 27211080--27211228 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 77
27211070 AATAATATTA
* *
27211080 TAATATATTTATTAGTAATATATTATTTATTTATATATTATAATATTATTTATTAATAGTATATT
1 TAATATATTTATTAGTAATATATTATTTATATATACATTATAATATTATTTATTAATAGTATATT
27211145 ATTTATTAATAT
66 ATTTATTAATAT
27211157 TAATATA-TTATTA-TAATAT-TTATTTATA-ATAACATGTATTAATATTTTATTTATTAATA-T
1 TAATATATTTATTAGTAATATATTATTTATATAT-ACAT-TA-TAATA--TTATTTATTAATAGT
27211217 AATATTATTTAT
61 -ATATTATTTAT
27211229 AAGTAAAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
73 2 0.03
74 11 0.17
75 8 0.12
76 11 0.17
77 8 0.12
78 24 0.38
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (77 bp):
TAATATATTTATTAGTAATATATTATTTATATATACATTATAATATTATTTATTAATAGTATATT
ATTTATTAATAT
Found at i:27215663 original size:115 final size:115
Alignment explanation
Indices: 27215456--27215689 Score: 301
Period size: 115 Copynumber: 2.0 Consensus size: 115
27215446 ATATCTTTGA
* **
27215456 GACGTCGCTACTTTAGAGGCGTTTGAATATAAAAATGGCTCAATATTAGTGACATTTGTATCTTT
1 GACGCCGCTACTTTAGAGGCGTTTGAATATAAAAACAGCTCAATATTAGTGACATTTGTATCTTT
* * *
27215521 TAGTTGCTGCTATTTCAGTGGCATTTTTATGAGAAAAACGTCATTGCATT
66 TAGTCGCTGCTATTTCAATGGCATTTTTATGAGAAAAACGCCATTGCATT
* * * *
27215571 GACGCCGCTACTTTAGAGGCGTTTGAATATGAAAACAGCTTAGTATTAGT-AGCGTTTGTATCTT
1 GACGCCGCTACTTTAGAGGCGTTTGAATATAAAAACAGCTCAATATTAGTGA-CATTTGTATCTT
* ** * *
27215635 TTAGTCG-TCGTTATTTCAATGGTGTTTTTATGAGAAAAATGCCGTTGCATT
65 TTAGTCGCT-GCTATTTCAATGGCATTTTTATGAGAAAAACGCCATTGCATT
27215686 GACG
1 GACG
27215690 GCGTTTGTAA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
114 2 0.02
115 100 0.98
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (115 bp):
GACGCCGCTACTTTAGAGGCGTTTGAATATAAAAACAGCTCAATATTAGTGACATTTGTATCTTT
TAGTCGCTGCTATTTCAATGGCATTTTTATGAGAAAAACGCCATTGCATT
Found at i:27223874 original size:357 final size:357
Alignment explanation
Indices: 27223203--27224849 Score: 1432
Period size: 357 Copynumber: 4.5 Consensus size: 357
27223193 ACATATCACT
*
27223203 ACACAAATTCTAACACTATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATC
1 ACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATC
* * * * * * * *
27223268 ATAGTTTGTAGT-TAATTACTGAAGGTGGTTGTAGAAAACAATGCCTTTAATAATTTCCCT-AAA
66 ACAGTTTGTA-TATAATTACTAAAGGTGATTGCAAAAAATAACGCCTTTAATAATTTCTCTAAAA
* * * * *
27223331 AAATTTTCTCAGATTATTAAATGCGTCTTTTATTATGAGACACCTTCAATATACGACGACGGTAA
130 AAATTTTCTCAGATTATTAAAGGCGTCTTTTATTATAAAACACCTTCAATATACCACGATGGTAA
*** * * * *
27223396 TGGAAGGCGTTTATTAGAAAAGGCACCTTCAATATACTTTTAAACTTAGAAATCCATTATTGAAA
195 TGGAAGGCGTTTATTAGAAAATATACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAG
* * * * * *
27223461 ATGTTTGTTAATAACATATGCCTTCAAAATTTTTTCGCTTAATATTTTAGGAATTATTAAAGGCG
260 GTGTTTGTTAATAACAGACGCCTTCAAAATTTTTTCACTAAATATTTTAAGAATTATTAAAGGCG
* * * * *
27223526 TTTTTTACTGTAAAATACCTTCTATATATCGCC
325 TCTTCTACTGTAAAATACCTTTTATATACCGTC
* ** * ***
27223559 ACACAAATTGTAACACTGTTATTGAAGGCGTATATTTAAGATAGACAACTTTAATAATTTCTATC
1 ACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATC
* * * * * * * *
27223624 GCAGTTTATATATAATTA-TAAAAGGCGATTTCAAAAAACAACACCTTCAATAATTTTTCTAAAA
66 ACAGTTTGTATATAATTACT-AAAGGTGATTGCAAAAAATAACGCCTTTAATAATTTCTCTAAAA
* * *
27223688 AACTTTTCTCGGATTATTAAAGGCGTCTTTTATTATAAAACACCTTCAATATACCATGATGGTAA
130 AAATTTTCTCAGATTATTAAAGGCGTCTTTTATTATAAAACACCTTCAATATACCACGATGGTAA
*
27223753 TGGAAGGCGTTTATTAGAAAATATGCCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAG
195 TGGAAGGCGTTTATTAGAAAATATACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAG
* * *
27223818 GTATTTGTTAATAACAGACGCCTTCAAAATTTTTTCACTAAATAGTTTAAGAATTATTAAAGACG
260 GTGTTTGTTAATAACAGACGCCTTCAAAATTTTTTCACTAAATATTTTAAGAATTATTAAAGGCG
* * * *
27223883 TTTTCTACTATAAAATACCTTATATATACCATC
325 TCTTCTACTGTAAAATACCTTTTATATACCGTC
* * * ** * * *
27223916 ACATAAATTGTAACACTGTTATTAAAGGCGTATATTTAAGATAGATGCATTTAACAATTTCTATC
1 ACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATC
* * * * * * *
27223981 ACAGTTTGTATATAATTACTGAAGGTGGTTGCAGATAATAACGCCTTCAATAAATTCTCAAAAAA
66 ACAGTTTGTATATAATTACTAAAGGTGATTGCAAAAAATAACGCCTTTAATAATTTCTCTAAAAA
* * * **
27224046 AATTTTCT-TGATTATTAAAGGCGTCTTTAATTATAAAATACCTTCAATAATTTATTATAAACTT
131 AATTTTCTCAGATTATTAAAGGCGTCTTTTATTATAAAACACCTTC---AA--TA-TA-CCAC--
** * * * * * **
27224110 TGGAAATCTATAATTATTGAAGGCATTTTTTTATAAAAT-TCACCTTTAATA-AGTTGGTTGGAC
187 --G--AT-GGT-A--ATGGAAGGC-GTTTATTAGAAAATAT-ACCTTCAATATACCT--TT--A-
* ** * * * * * * * * *
27224173 AA-TT-TTAAAGGTTTATAATTAAAGGCATCTTTTTTTGTAAAAAAATACCTTCAATAATCTTCA
237 AACTTAGT-AA--TCCATTACTGAAGG----TGTTTGT-TAATAACAGA-C-GC------CTTC-
* * * *
27224236 ATAAAATTTTTTCACTAAAAATTTTTAGAATTATTAAAGGCATCTTTTACTGTAAAATACCTTTT
285 --AAAATTTTTTCACTAAATATTTTAAGAATTATTAAAGGCGTCTTCTACTGTAAAATACCTTTT
*
27224301 ATATATCGTC
348 ATATACCGTC
* *
27224311 ACACAAATTCTAACACTATTATTGAAGGTGTATATCCAAGAAAGATGCCTTTAATAA-TTCATAT
1 ACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTC-TAT
* * * * * * *
27224375 CACAGTTTGTAGATAACTATTAAATGTTG-TTGCAAAAAATAACACATTTAATAATTTCCCTAAA
65 CACAGTTTGTATATAATTACTAAA-GGTGATTGCAAAAAATAACGCCTTTAATAATTTCTCTAAA
* * * * **
27224439 AAAATTTTC-CTGGATTATTAAAGGCATCTTTTATTATGACACGTCTTCAATATACCACGATGGT
129 AAAATTTTCTC-AGATTATTAAAGGCGTCTTTTATTATAAAACACCTTCAATATACCACGATGGT
* * *
27224503 AATGGAAGGCGTTTATTAGAAAA-AGGTACCTTCAATATTCCTTTAAAATTAGTAATCTATTACT
193 AATGGAAGGCGTTTATTAGAAAATA--TACCTTCAATATACCTTTAAACTTAGTAATCCATTACT
* * **
27224567 GAAGGCGTTTGTTAATAACAGACGCCTTC-AAATTTTTCTCACTTAATATTTTGGGAATTATTAA
256 GAAGGTGTTTGTTAATAACAGACGCCTTCAAAATTTTT-TCACTAAATATTTTAAGAATTATTAA
* * *
27224631 AGGCGGCTTCTACTGTCAAATGCCTTTTATATACCGTC
320 AGGCGTCTTCTACTGTAAAATACCTTTTATATACCGTC
* * * *
27224669 ACACAAATTTTAACACTGTTATTGAAGGCGTATAACCAAAAAAAGATGCCTTTAATAATTTTTAT
1 ACACAAATTCTAACACTGTTATTGAAGGCGTATATCC-AAGAAAGATGCCTTTAATAATTTCTAT
* * * * * ** *
27224734 CATAGTTTATAGATAATTACTAAAGGCGATTGCATAAAATAGTGCCTTTAATAATTTTTCTCAAA
65 CACAGTTTGTATATAATTACTAAAGGTGATTGCAAAAAATAACGCCTTTAATAATTTCTCT-AAA
* *
27224799 AAAATTTT-TCAGATTGTTAAAGGCGTCTTTTATTATAAACCACCTTCAATA
129 AAAATTTTCTCAGATTATTAAAGGCGTCTTTTATTATAAAACACCTTCAATA
27224850 ATTTGTTATA
Statistics
Matches: 1023, Mismatches: 205, Indels: 123
0.76 0.15 0.09
Matches are distributed among these distances:
355 2 0.00
356 133 0.13
357 323 0.32
358 90 0.09
359 102 0.10
360 14 0.01
361 6 0.01
362 2 0.00
363 1 0.00
367 2 0.00
368 1 0.00
369 9 0.01
370 5 0.00
371 1 0.00
373 11 0.01
374 29 0.03
375 4 0.00
376 6 0.01
377 6 0.01
378 14 0.01
379 26 0.03
380 2 0.00
381 1 0.00
382 1 0.00
383 7 0.01
384 7 0.01
385 2 0.00
386 1 0.00
389 2 0.00
390 2 0.00
391 2 0.00
392 4 0.00
393 2 0.00
394 3 0.00
395 168 0.16
396 32 0.03
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (357 bp):
ACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATC
ACAGTTTGTATATAATTACTAAAGGTGATTGCAAAAAATAACGCCTTTAATAATTTCTCTAAAAA
AATTTTCTCAGATTATTAAAGGCGTCTTTTATTATAAAACACCTTCAATATACCACGATGGTAAT
GGAAGGCGTTTATTAGAAAATATACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGG
TGTTTGTTAATAACAGACGCCTTCAAAATTTTTTCACTAAATATTTTAAGAATTATTAAAGGCGT
CTTCTACTGTAAAATACCTTTTATATACCGTC
Found at i:27225656 original size:25 final size:25
Alignment explanation
Indices: 27225613--27225675 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
27225603 TTGAATGAGG
* * * **
27225613 GCTGAATGGTGTTTCTGAGTAGTTT
1 GCTGAATGGTGTGTATGAGCACATT
*
27225638 GCTGAAGGGTGTGTATGAGCACATT
1 GCTGAATGGTGTGTATGAGCACATT
27225663 GCTGAATGGTGTG
1 GCTGAATGGTGTG
27225676 CTAAATGTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.37, T:0.35
Consensus pattern (25 bp):
GCTGAATGGTGTGTATGAGCACATT
Found at i:27228902 original size:36 final size:35
Alignment explanation
Indices: 27228836--27228903 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 35
27228826 ATATATAAAC
* * *
27228836 CAAATGTTTTTTGGGCATAAATATACAACTGATAA
1 CAAACGTTTTTTGAGCATAAACATACAACTGATAA
* *
27228871 CAAACGTTTTTCTGAGCATAAACCTATAACTGA
1 CAAACGTTTTT-TGAGCATAAACATACAACTGA
27228904 CTTCACATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 10 0.37
36 17 0.63
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (35 bp):
CAAACGTTTTTTGAGCATAAACATACAACTGATAA
Found at i:27229166 original size:65 final size:65
Alignment explanation
Indices: 27229086--27229235 Score: 266
Period size: 65 Copynumber: 2.3 Consensus size: 65
27229076 CAAAAAAAAA
* *
27229086 CTTCAATAATACCAACTAAAAATTAATCAAATGGATTATGAAGGGCGTTTTCTTACGGCTAACAC
1 CTTCAATAATCCCAACTAAAAATTAATCAAATGGATTATGAAGGGCGTTTTCCTACGGCTAACAC
*
27229151 CTTCAATAATCCCAACTAAAAATTAATCAAATGGATTATGAAGGGCGTTTTCCTACGGGTAACAC
1 CTTCAATAATCCCAACTAAAAATTAATCAAATGGATTATGAAGGGCGTTTTCCTACGGCTAACAC
27229216 CTTCAATAATCCCAAC-AAAA
1 CTTCAATAATCCCAACTAAAA
27229236 TGTTTATGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
64 4 0.05
65 78 0.95
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (65 bp):
CTTCAATAATCCCAACTAAAAATTAATCAAATGGATTATGAAGGGCGTTTTCCTACGGCTAACAC
Found at i:27239834 original size:21 final size:20
Alignment explanation
Indices: 27239800--27239844 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
27239790 ACATCTTACT
27239800 TTTTATTTTATCTTTAATAA
1 TTTTATTTTATCTTTAATAA
* *
27239820 TTTTATCTTTTTCTTTACTAA
1 TTTTAT-TTTATCTTTAATAA
27239841 TTTT
1 TTTT
27239845 TGAAACATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATTTTATCTTTAATAA
Found at i:27242313 original size:15 final size:14
Alignment explanation
Indices: 27242290--27242346 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
27242280 TCTTTTGGCT
*
27242290 TTTTTTTTAATTTC
1 TTTTATTTAATTTC
27242304 TCTTTATTTAATTTC
1 T-TTTATTTAATTTC
*
27242319 TTTGATTTAAATTT-
1 TTTTATTT-AATTTC
27242333 TATTTACTTTAATT
1 T-TTTA-TTTAATT
27242347 GATTTTTCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 8 0.22
15 25 0.69
16 3 0.08
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTTATTTAATTTC
Found at i:27242988 original size:14 final size:14
Alignment explanation
Indices: 27242966--27243001 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
27242956 ATTTGATTAT
27242966 AACCAAAACCAAATA
1 AACC-AAACCAAATA
*
27242981 AACCAAACCGAATA
1 AACCAAACCAAATA
27242995 AACCAAA
1 AACCAAA
27243002 TTCACTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.64, C:0.28, G:0.03, T:0.06
Consensus pattern (14 bp):
AACCAAACCAAATA
Found at i:27249460 original size:18 final size:18
Alignment explanation
Indices: 27249395--27249460 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 18
27249385 GATTCTATAC
*
27249395 ATTGCATTCATTACATGT
1 ATTGCATGCATTACATGT
* * *
27249413 ATTTCATGCATTATATGC
1 ATTGCATGCATTACATGT
** * *
27249431 ATCACATTCATTCCATGT
1 ATTGCATGCATTACATGT
27249449 ATTGCATGCATT
1 ATTGCATGCATT
27249461 GCTTATTTTT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (18 bp):
ATTGCATGCATTACATGT
Found at i:27249652 original size:23 final size:23
Alignment explanation
Indices: 27249618--27249682 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
27249608 TTAATATCAC
27249618 TTTC-TAAAACCTTCAGGTGAAT
1 TTTCTTAAAACCTTCAGGTGAAT
27249640 TTTCTTAAAACCTTCAGGT-AAT
1 TTTCTTAAAACCTTCAGGTGAAT
* *
27249662 CTTCTTAAAAACCTTTAGGTG
1 TTTCTT-AAAACCTTCAGGTG
27249683 TTATCTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.32
23 26 0.68
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTTCTTAAAACCTTCAGGTGAAT
Found at i:27249851 original size:22 final size:22
Alignment explanation
Indices: 27249801--27249851 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
27249791 AAGTTTGATT
* *
27249801 TGTAAAACCTTCAAATATAATC
1 TGTAAGACCTTCAAACATAATC
** *
27249823 TCAAAGACCTTCAAACATTATC
1 TGTAAGACCTTCAAACATAATC
27249845 TGTAAGA
1 TGTAAGA
27249852 TCTTGGGCAT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (22 bp):
TGTAAGACCTTCAAACATAATC
Found at i:27251781 original size:15 final size:16
Alignment explanation
Indices: 27251763--27251814 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 16
27251753 TTTGGTAGTT
*
27251763 TTTAAATTTTCTTTG-
1 TTTAAATTTTATTTGA
27251778 TTT-AA-TTTATTTGA
1 TTTAAATTTTATTTGA
27251792 TTTAAATTTTATTT-A
1 TTTAAATTTTATTTGA
*
27251807 TTTTAATT
1 TTTAAATT
27251815 GATTTTTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 7 0.22
14 5 0.16
15 13 0.41
16 7 0.22
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTAAATTTTATTTGA
Found at i:27254657 original size:2 final size:2
Alignment explanation
Indices: 27254650--27254680 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27254640 ATTGACTAGT
*
27254650 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27254681 GTGATCGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27255710 original size:2 final size:2
Alignment explanation
Indices: 27255628--27255694 Score: 98
Period size: 2 Copynumber: 33.5 Consensus size: 2
27255618 CTTTAGTGTG
* *
27255628 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
27255670 TA TA TA TA TA CA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
27255695 TTAAGAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27257156 original size:8 final size:9
Alignment explanation
Indices: 27257126--27257271 Score: 58
Period size: 9 Copynumber: 14.6 Consensus size: 9
27257116 GTTAATATAA
27257126 AAAAATTTT
1 AAAAATTTT
* **
27257135 TAAAATTCA
1 AAAAATTTT
27257144 AAAAATTTT
1 AAAAATTTT
27257153 AAAAATTTTCT
1 AAAAA-TTT-T
27257164 AAAAACTTTT
1 AAAAA-TTTT
**
27257174 AAAAAATTAA
1 -AAAAATTTT
*
27257184 AAAAATATAT
1 AAAAAT-TTT
*
27257194 AAACAATTCT
1 AAA-AATTTT
27257204 ACAAAATTTTTT
1 A-AAAA--TTTT
*
27257216 AAAAAATCTAT
1 -AAAAAT-TTT
* *
27257227 AAATATTAT
1 AAAAATTTT
27257236 AAAAATTTTTCT
1 AAAAA--TTT-T
27257248 AAAAATTTT
1 AAAAATTTT
*
27257257 TAAAATTTAT
1 AAAAATTT-T
27257267 AAAAA
1 AAAAA
27257272 AATTTTTAAT
Statistics
Matches: 105, Mismatches: 18, Indels: 27
0.70 0.12 0.18
Matches are distributed among these distances:
9 38 0.36
10 30 0.29
11 23 0.22
12 13 0.12
13 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:27257157 original size:11 final size:10
Alignment explanation
Indices: 27257125--27257277 Score: 64
Period size: 11 Copynumber: 15.0 Consensus size: 10
27257115 AGTTAATATA
27257125 AAAAAATTTT
1 AAAAAATTTT
* *
27257135 -TAAAA-TTC
1 AAAAAATTTT
27257143 AAAAAATTTT
1 AAAAAATTTT
*
27257153 AAAAATTTTCT
1 AAAAAATTT-T
*
27257164 AAAAACTTTT
1 AAAAAATTTT
*
27257174 AAAAAA-TTA
1 AAAAAATTTT
*
27257183 AAAAAATATAT
1 AAAAAAT-TTT
* *
27257194 AAACAATTCT
1 AAAAAATTTT
*
27257204 ACAAAATTTTTT
1 A-AAAA-ATTTT
*
27257216 AAAAAA-TCT
1 AAAAAATTTT
* *
27257225 ATAAATATTAT
1 A-AAAAATTTT
*
27257236 AAAAATTTTT
1 AAAAAATTTT
*
27257246 CTAAAAATTTT
1 -AAAAAATTTT
*
27257257 -TAAAATTTAT
1 AAAAAATTT-T
27257267 AAAAAAATTTT
1 -AAAAAATTTT
27257278 TAATTTCAAA
Statistics
Matches: 104, Mismatches: 26, Indels: 25
0.67 0.17 0.16
Matches are distributed among these distances:
8 2 0.02
9 26 0.25
10 30 0.29
11 35 0.34
12 11 0.11
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAAAATTTT
Found at i:27257237 original size:42 final size:42
Alignment explanation
Indices: 27257126--27257261 Score: 131
Period size: 42 Copynumber: 3.3 Consensus size: 42
27257116 GTTAATATAA
* * *
27257126 AAAAATTTTT--AAAATTCAAAAAAT-TTTAAAAATT-TTCT
1 AAAAATTTTTAAAAAATTAAAAAAATATATAAAAATTCTACT
*
27257164 AAAAACTTTTAAAAAATTAAAAAAATATATAAACAATTCTAC-
1 AAAAATTTTTAAAAAATTAAAAAAATATATAAA-AATTCTACT
* * * * *
27257206 AAAATTTTTTAAAAAATCTATAAATAT-TATAAAAATTTTTCT
1 AAAAATTTTTAAAAAAT-TAAAAAAATATATAAAAATTCTACT
27257248 AAAAATTTTTAAAA
1 AAAAATTTTTAAAA
27257262 TTTATAAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
38 9 0.11
40 13 0.16
41 11 0.14
42 38 0.47
43 9 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (42 bp):
AAAAATTTTTAAAAAATTAAAAAAATATATAAAAATTCTACT
Found at i:27257251 original size:32 final size:33
Alignment explanation
Indices: 27257183--27257252 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
27257173 TAAAAAATTA
*
27257183 AAAAAATATATAAACAATTCTACAAAATTTTTT
1 AAAAAATATATAAACAATTATACAAAATTTTTT
* *
27257216 AAAAAATCTATAAA-TATTATA-AAAATTTTTCT
1 AAAAAATATATAAACAATTATACAAAATTTTT-T
27257248 AAAAA
1 AAAAA
27257253 TTTTTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 9 0.27
32 11 0.33
33 13 0.39
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (33 bp):
AAAAAATATATAAACAATTATACAAAATTTTTT
Found at i:27257253 original size:31 final size:31
Alignment explanation
Indices: 27257183--27257280 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 31
27257173 TAAAAAATTA
* * *
27257183 AAAAAATATATAAACAATTCTACAAAATTTTTT
1 AAAAAATCTATAAA-ATTTATA-AAAATTTTTT
27257216 AAAAAATCTAT-AAATATTATAAAAATTTTTCT
1 AAAAAATCTATAAAAT-TTATAAAAATTTTT-T
* * *
27257248 -AAAAATTTTTAAAATTTATAAAAAAATTTTT
1 AAAAAATCTATAAAATTTAT-AAAAATTTTTT
27257279 AA
1 AA
27257281 TTTCAAAAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
31 23 0.43
32 21 0.39
33 10 0.19
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (31 bp):
AAAAAATCTATAAAATTTATAAAAATTTTTT
Found at i:27257272 original size:21 final size:20
Alignment explanation
Indices: 27257123--27257280 Score: 81
Period size: 21 Copynumber: 7.8 Consensus size: 20
27257113 TCAGTTAATA
27257123 TAAAAAAATTTTT-AAAA-T
1 TAAAAAAATTTTTAAAAATT
*
27257141 TCAAAAAA-TTTTAAAAATTT
1 TAAAAAAATTTTTAAAAA-TT
** * *
27257161 TCTAAAAACTTTTAAAAAAT
1 TAAAAAAATTTTTAAAAATT
* *
27257181 TAAAAAAATATATAAACAATT
1 TAAAAAAATTTTTAAA-AATT
* * *
27257202 CTACAAAATTTTTTAAAAAATC
1 -TAAAAAAATTTTT-AAAAATT
* * *
27257224 TATAAATA-TTATAAAAATTTT
1 TAAAAAAATTTTTAAAAA--TT
** *
27257245 TCTAAAAATTTTTAAAATTT
1 TAAAAAAATTTTTAAAAATT
27257265 ATAAAAAAATTTTTAA
1 -TAAAAAAATTTTTAA
27257281 TTTCAAAAAC
Statistics
Matches: 104, Mismatches: 25, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
17 4 0.04
18 11 0.11
19 5 0.05
20 25 0.24
21 37 0.36
22 19 0.18
23 3 0.03
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAAAATTTTTAAAAATT
Found at i:27257334 original size:25 final size:24
Alignment explanation
Indices: 27257300--27257350 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
27257290 CTATTTAGAA
* *
27257300 AATTTTTAAAAATTCTAACTTTTTT
1 AATTTATAAAAATTC-AAATTTTTT
*
27257325 AATTTATAAACATTCAAATTTTTT
1 AATTTATAAAAATTCAAATTTTTT
27257349 AA
1 AA
27257351 AAAATTTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (24 bp):
AATTTATAAAAATTCAAATTTTTT
Found at i:27257382 original size:10 final size:10
Alignment explanation
Indices: 27257348--27257421 Score: 82
Period size: 10 Copynumber: 7.4 Consensus size: 10
27257338 TCAAATTTTT
27257348 TAAAAAATTTC
1 TAAAAAA-TTC
27257359 TAAACAAATT-
1 TAAA-AAATTC
27257369 TAAAAAATTC
1 TAAAAAATTC
*
27257379 TAAATAATTC
1 TAAAAAATTC
27257389 -AAAACAATTC
1 TAAAA-AATTC
27257399 T-AAAAATTC
1 TAAAAAATTC
*
27257408 TAAAAAATTT
1 TAAAAAATTC
27257418 TAAA
1 TAAA
27257422 TTTTAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
9 14 0.25
10 32 0.58
11 6 0.11
12 3 0.05
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:27257387 original size:19 final size:19
Alignment explanation
Indices: 27257324--27257431 Score: 89
Period size: 19 Copynumber: 5.6 Consensus size: 19
27257314 CTAACTTTTT
*
27257324 TAATTTATAAACATTC-AAA
1 TAATTTA-AAAAATTCTAAA
**
27257343 TTTTTTAAAAAATTTCTAAA
1 TAATTTAAAAAA-TTCTAAA
*
27257363 CAAATTTAAAAAATTCTAAA
1 -TAATTTAAAAAATTCTAAA
*
27257383 TAATTCAAAACAATTCTAAA
1 TAATTTAAAA-AATTCTAAA
*
27257403 -AATTCTAAAAAATTTTAAA
1 TAATT-TAAAAAATTCTAAA
27257422 T--TTTAAAAAA
1 TAATTTAAAAAA
27257432 ATTAACAATA
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
17 7 0.10
18 6 0.08
19 28 0.38
20 23 0.32
21 9 0.12
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATTTAAAAAATTCTAAA
Found at i:27257684 original size:21 final size:21
Alignment explanation
Indices: 27257660--27257712 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
27257650 TAAAAAATTT
*
27257660 AAAATTTTAATAAA-AATCTAA
1 AAAATTTCAA-AAACAATCTAA
*
27257681 AAAATTTCAAAAACAAT-TTA
1 AAAATTTCAAAAACAATCTAA
27257701 AAAA-TTCAAAAA
1 AAAATTTCAAAAA
27257713 ATATATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.28
20 9 0.31
21 12 0.41
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATTTCAAAAACAATCTAA
Found at i:27257693 original size:19 final size:18
Alignment explanation
Indices: 27257644--27257726 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 18
27257634 AAGATTTTTT
* *
27257644 AAATTTTAAAAAATTTAA
1 AAATTTCAAAAAATTAAA
* *
27257662 AATTTTAATAAAAATCTAAA
1 AAATTTCA-AAAAAT-TAAA
*
27257682 AAATTTCAAAAACAATTTAA
1 AAATTTC-AAAA-AATTAAA
27257702 AAA-TTCAAAAAATATATAA
1 AAATTTCAAAAAAT-TA-AA
27257721 AAATTT
1 AAATTT
27257727 GAAATTGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.06
18 11 0.22
19 14 0.27
20 19 0.37
21 4 0.08
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTTCAAAAAATTAAA
Found at i:27258003 original size:20 final size:20
Alignment explanation
Indices: 27257980--27258035 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
27257970 TTTTTTTAAC
27257980 TTTTAGAATTTTTAAAAACT
1 TTTTAGAATTTTTAAAAACT
**
27258000 TTTTAGAA-TTTTAAAATGT
1 TTTTAGAATTTTTAAAAACT
* *
27258019 TTTCAAAATTTTTAAAA
1 TTTTAGAATTTTTAAAA
27258036 TTTTGTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTAGAATTTTTAAAAACT
Found at i:27258011 original size:28 final size:27
Alignment explanation
Indices: 27257972--27258039 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
27257962 ATTCATTTTT
* *
27257972 TTTTTAACTTTTAGAAT-TTTTAAAAA
1 TTTTTAAATTTTAAAATGTTTTAAAAA
*
27257998 CTTTTTAGAATTTTAAAATGTTTTCAAAA
1 -TTTTTA-AATTTTAAAATGTTTTAAAAA
27258027 TTTTTAAAATTTT
1 TTTTT-AAATTTT
27258040 GTTATATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 6 0.17
28 20 0.57
29 9 0.26
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (27 bp):
TTTTTAAATTTTAAAATGTTTTAAAAA
Found at i:27258036 original size:20 final size:20
Alignment explanation
Indices: 27257986--27258036 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
27257976 TAACTTTTAG
* * *
27257986 AATTTTTAAAAACTTTTTAG
1 AATTTTTAAAATCTTTTCAA
*
27258006 AA-TTTTAAAATGTTTTCAA
1 AATTTTTAAAATCTTTTCAA
27258025 AATTTTTAAAAT
1 AATTTTTAAAAT
27258037 TTTGTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (20 bp):
AATTTTTAAAATCTTTTCAA
Found at i:27258051 original size:20 final size:19
Alignment explanation
Indices: 27257989--27258120 Score: 92
Period size: 20 Copynumber: 6.8 Consensus size: 19
27257979 CTTTTAGAAT
* *
27257989 TTTTAAAAACTTTTTAGA-A
1 TTTT-AAAATTTTTTATATA
* *
27258008 TTTTAAAATGTTTTCA-AAA
1 TTTTAAAAT-TTTTTATATA
27258027 TTTTTAAAATTTTGTTATATA
1 -TTTTAAAATTTT-TTATATA
** *
27258048 TTTT-AAGCTTTTTATATT
1 TTTTAAAATTTTTTATATA
* *
27258066 TTTTAAATATTTTTTAAAGA
1 TTTTAAA-ATTTTTTATATA
27258086 TTTTAAAATTTTTTATAT-
1 TTTTAAAATTTTTTATATA
27258104 TTTATCAAAATTTTTTA
1 TTT-T-AAAATTTTTTA
27258121 ATCTTTTTTG
Statistics
Matches: 90, Mismatches: 14, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
18 18 0.20
19 30 0.33
20 40 0.44
21 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTAAAATTTTTTATATA
Found at i:27258075 original size:29 final size:30
Alignment explanation
Indices: 27258028--27258100 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
27258018 TTTTCAAAAT
*
27258028 TTTTAAAATTTTGTT--ATATATTTT-AAGC
1 TTTTAAAATTTT-TTAAATATATTTTAAAGA
* * *
27258056 TTTTTATATTTTTTAAATATTTTTTAAAGA
1 TTTTAAAATTTTTTAAATATATTTTAAAGA
27258086 TTTTAAAATTTTTTA
1 TTTTAAAATTTTTTA
27258101 TATTTTATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 2 0.06
28 10 0.28
29 8 0.22
30 16 0.44
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (30 bp):
TTTTAAAATTTTTTAAATATATTTTAAAGA
Found at i:27258077 original size:11 final size:11
Alignment explanation
Indices: 27258061--27258121 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 11
27258051 TAAGCTTTTT
27258061 ATATTTTTTAA
1 ATATTTTTTAA
27258072 ATATTTTTTAA
1 ATATTTTTTAA
*
27258083 AGA--TTTTAA
1 ATATTTTTTAA
27258092 A-ATTTTTT--
1 ATATTTTTTAA
*
27258100 ATATTTTATCAA
1 ATATTTT-TTAA
27258112 A-ATTTTTTAA
1 ATATTTTTTAA
27258122 TCTTTTTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
8 2 0.05
9 12 0.29
10 8 0.20
11 18 0.44
12 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
ATATTTTTTAA
Found at i:27258099 original size:39 final size:37
Alignment explanation
Indices: 27257987--27258121 Score: 119
Period size: 38 Copynumber: 3.5 Consensus size: 37
27257977 AACTTTTAGA
* * * * *
27257987 ATTTTTAAAAACTTTTTAGAATTTTAAAATGTTTTCAA
1 ATTTTTTAAAATTTTTTAAAATTTTAAAAT-TTTTTAT
* * **
27258025 AATTTTTAAAATTTTGTTATATATTTT-AAGCTTTTTAT
1 ATTTTTTAAAATTTT-TTA-AAATTTTAAAATTTTTTAT
27258063 ATTTTTTAAATATTTTTTAAAGATTTTAAAATTTTTTAT
1 ATTTTTTAAA-ATTTTTTAAA-ATTTTAAAATTTTTTAT
*
27258102 ATTTTATCAAAATTTTTTAA
1 ATTTT-TTAAAATTTTTTAA
27258122 TCTTTTTTGA
Statistics
Matches: 77, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
37 1 0.01
38 34 0.44
39 33 0.43
40 9 0.12
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (37 bp):
ATTTTTTAAAATTTTTTAAAATTTTAAAATTTTTTAT
Found at i:27258118 original size:29 final size:28
Alignment explanation
Indices: 27257987--27258118 Score: 92
Period size: 29 Copynumber: 4.6 Consensus size: 28
27257977 AACTTTTAGA
* * * *
27257987 ATTTTTAAAAACTTTTTAGAA-TTTTAAA
1 ATTTTTCAAAA-TTTTTAAAATTTTTTAT
27258015 ATGTTTTCAAAATTTTTAAAATTTTGTTAT
1 AT-TTTTCAAAATTTTTAAAATTTT-TTAT
** *
27258045 ATATTTT-AAGCTTTTT-ATATTTTTTAAAT
1 AT-TTTTCAAAATTTTTAAAATTTTTT--AT
*
27258074 ATTTTTTAAAGA-TTTTAAAATTTTTTAT
1 ATTTTTCAAA-ATTTTTAAAATTTTTTAT
27258102 ATTTTATCAAAATTTTT
1 ATTTT-TCAAAATTTTT
27258119 TAATCTTTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
27 2 0.02
28 28 0.34
29 36 0.44
30 16 0.20
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (28 bp):
ATTTTTCAAAATTTTTAAAATTTTTTAT
Found at i:27258136 original size:9 final size:9
Alignment explanation
Indices: 27258024--27258177 Score: 74
Period size: 9 Copynumber: 15.8 Consensus size: 9
27258014 AATGTTTTCA
*
27258024 AAATTTTTA
1 AAATTTTTT
27258033 AAATTTTGTT
1 AAATTTT-TT
* *
27258043 ATATATTTT
1 AAATTTTTT
**
27258052 AAGCTTTTT
1 AAATTTTTT
*
27258061 ATATTTTTT
1 AAATTTTTT
27258070 AAATATTTTTT
1 -AA-ATTTTTT
* *
27258081 AAAGATTTTA
1 AAA-TTTTTT
27258091 AAATTTTTT
1 AAATTTTTT
* *
27258100 ATATTTTATCA
1 AAATTTT-T-T
27258111 AAATTTTTT
1 AAATTTTTT
*
27258120 AATCTTTTTT
1 AA-ATTTTTT
* *
27258130 GAATTTTCT
1 AAATTTTTT
27258139 AAATTTTTTTT
1 AAA--TTTTTT
*
27258150 GAAATTATGTT
1 -AAATT-TTTT
27258161 AGAATTTTTT
1 A-AATTTTTT
27258171 AAATTTT
1 AAATTTT
27258178 AAAAAAAAAT
Statistics
Matches: 106, Mismatches: 27, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
9 46 0.43
10 32 0.30
11 25 0.24
12 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (9 bp):
AAATTTTTT
Found at i:27258361 original size:9 final size:10
Alignment explanation
Indices: 27258332--27258405 Score: 71
Period size: 10 Copynumber: 7.5 Consensus size: 10
27258322 CTTAAAAAAA
27258332 TTTTAGAATT
1 TTTTAGAATT
*
27258342 TTTTGGAATT
1 TTTTAGAATT
27258352 TTTTAG-ATT
1 TTTTAGAATT
* *
27258361 TTTTTGAACT
1 TTTTAGAATT
* *
27258371 TTTTAAAAAT
1 TTTTAGAATT
*
27258381 TTTT-GAAAT
1 TTTTAGAATT
27258390 TTTTAGAACTT
1 TTTTAGAA-TT
27258401 TTTTA
1 TTTTA
27258406 TTTTTTCTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
9 16 0.31
10 30 0.58
11 6 0.12
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.59
Consensus pattern (10 bp):
TTTTAGAATT
Found at i:27258361 original size:19 final size:20
Alignment explanation
Indices: 27258332--27258404 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 20
27258322 CTTAAAAAAA
*
27258332 TTTTAGAATTTTTTGGAATT
1 TTTTAGAATTTTTTGGAACT
*
27258352 TTTTAG-ATTTTTTTGAACT
1 TTTTAGAATTTTTTGGAACT
* * *
27258371 TTTTAAAAATTTTT-GAAAT
1 TTTTAGAATTTTTTGGAACT
27258390 TTTTAGAACTTTTTT
1 TTTTAGAA-TTTTTT
27258405 ATTTTTTCTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 27 0.61
20 17 0.39
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTTAGAATTTTTTGGAACT
Found at i:27265053 original size:22 final size:24
Alignment explanation
Indices: 27265022--27265066 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
27265012 TTACTTTTAC
27265022 AATATAATATTATAGAA-TAAAAT
1 AATATAATATTATAGAATTAAAAT
*
27265045 AATAT-ATATTATATAATTAAAA
1 AATATAATATTATAGAATTAAAA
27265067 ATAGGATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATATAATATTATAGAATTAAAAT
Found at i:27265454 original size:59 final size:59
Alignment explanation
Indices: 27265357--27265470 Score: 201
Period size: 59 Copynumber: 1.9 Consensus size: 59
27265347 ATTTTGATTA
* * *
27265357 TAATGATTTCTTAATTGATCTTATTATTCATTTGGATATCCTTAGATTTAGTAGGATGT
1 TAATGATTTCTTAATTGATCTTATTATTCATCTAGATATCCCTAGATTTAGTAGGATGT
27265416 TAATGATTTCTTAATTGATCTTATTATTCATCTAGATATCCCTAGATTTAGTAGG
1 TAATGATTTCTTAATTGATCTTATTATTCATCTAGATATCCCTAGATTTAGTAGG
27265471 CATGGTTTTC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (59 bp):
TAATGATTTCTTAATTGATCTTATTATTCATCTAGATATCCCTAGATTTAGTAGGATGT
Found at i:27267463 original size:25 final size:25
Alignment explanation
Indices: 27267435--27267497 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
27267425 GCTCACCAAA
*
27267435 TGATGCAAATGCATGGTTTTTATTG
1 TGATGCAAATGCATGGTTTTCATTG
27267460 TGATGCAAATGCATGGTTTTCATTG
1 TGATGCAAATGCATGGTTTTCATTG
27267485 TGATGCAAATGCA
1 TGATGCAAATGCA
27267498 AATTTCAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (25 bp):
TGATGCAAATGCATGGTTTTCATTG
Found at i:27267534 original size:70 final size:71
Alignment explanation
Indices: 27267485--27267616 Score: 207
Period size: 71 Copynumber: 1.9 Consensus size: 71
27267475 GTTTTCATTG
*
27267485 TGATGCAAATGCAA-ATTTC-AAACAATGATTTAAA-TACTCACCAAATGATGCAAATGCTTGGT
1 TGATGCAAATGCAATA-TTCAAAACAATGATTTAAATTA-TCACCAAATGATGCAAATGCATGGT
27267547 ATAAACAA
64 ATAAACAA
*
27267555 TGATGCAAATGCAATATTCAAAACAATGATTTAAATTATCACCAAATAATGCAAATGCATGG
1 TGATGCAAATGCAATATTCAAAACAATGATTTAAATTATCACCAAATGATGCAAATGCATGG
27267617 GCCAAACAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
70 17 0.30
71 38 0.67
72 2 0.04
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (71 bp):
TGATGCAAATGCAATATTCAAAACAATGATTTAAATTATCACCAAATGATGCAAATGCATGGTAT
AAACAA
Found at i:27267624 original size:71 final size:70
Alignment explanation
Indices: 27267485--27267633 Score: 203
Period size: 71 Copynumber: 2.1 Consensus size: 70
27267475 GTTTTCATTG
* * * *
27267485 TGATGCAAATGCAAATTTCAAACAATGATTTAAATACTCACCAAATGATGCAAATGCTTGGTATA
1 TGATGCAAATGCAAATTTCAAACAATGATTTAAATACTCACCAAATAATGCAAATGCATGGGACA
27267550 AACAA
66 AACAA
27267555 TGATGCAAATGC-AATATTCAAAACAATGATTTAAATTA-TCACCAAATAATGCAAATGCATGGG
1 TGATGCAAATGCAAAT-TTC-AAACAATGATTTAAA-TACTCACCAAATAATGCAAATGCATGGG
*
27267618 CCAAACAA
63 ACAAACAA
*
27267626 TTATGCAA
1 TGATGCAA
27267634 TTTATAAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
69 3 0.04
70 15 0.21
71 50 0.71
72 2 0.03
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (70 bp):
TGATGCAAATGCAAATTTCAAACAATGATTTAAATACTCACCAAATAATGCAAATGCATGGGACA
AACAA
Found at i:27267658 original size:50 final size:50
Alignment explanation
Indices: 27267598--27267732 Score: 168
Period size: 50 Copynumber: 2.8 Consensus size: 50
27267588 AATTATCACC
* * *
27267598 AAATAATGCAAATGCATGGGCCAAACAATTATGCAATTTATAAATTCCCT
1 AAATGATGCAAATGCATGAGCCAAACAATTATGCAATTTATAAATTACCT
* * * *
27267648 AAATGATGCAAATGCATGATCCAAACAATTATGTAGTTTATAAATTACTT
1 AAATGATGCAAATGCATGAGCCAAACAATTATGCAATTTATAAATTACCT
* *
27267698 AAATGATGCAAATTCATGATCC-AACAA--ATGCAATT
1 AAATGATGCAAATGCATGAGCCAAACAATTATGCAATT
27267733 ATCAAAACAG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
47 6 0.08
49 5 0.07
50 64 0.85
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.30
Consensus pattern (50 bp):
AAATGATGCAAATGCATGAGCCAAACAATTATGCAATTTATAAATTACCT
Found at i:27269090 original size:22 final size:23
Alignment explanation
Indices: 27269060--27269106 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
27269050 TCTAAAATGA
27269060 ATATAAAATATGGCTA-TTTATC
1 ATATAAAATATGGCTACTTTATC
*
27269082 ATATTAAATATGGCTACCTTTATC
1 ATATAAAATATGGCTA-CTTTATC
27269106 A
1 A
27269107 AAAAGCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.68
24 7 0.32
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (23 bp):
ATATAAAATATGGCTACTTTATC
Done.