Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 109 of 126
Found at i:21569352 original size:19 final size:19
Alignment explanation
Indices: 21569328--21569365 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21569318 AAACAAATAA
21569328 CAAATAATAAAAATCAAAT
1 CAAATAATAAAAATCAAAT
21569347 CAAATAATAAAAATCAAAT
1 CAAATAATAAAAATCAAAT
21569366 AAAAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (19 bp):
CAAATAATAAAAATCAAAT
Found at i:21569373 original size:14 final size:14
Alignment explanation
Indices: 21569333--21569373 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
21569323 AATAACAAAT
21569333 AATAAAAATCAAATCA
1 AATAAAAA--AAATCA
*
21569349 AATAATAAAAATCA
1 AATAAAAAAAATCA
21569363 AATAAAAAAAA
1 AATAAAAAAAA
21569374 ACTTACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 16 0.70
16 7 0.30
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAAAAAAATCA
Found at i:21570476 original size:36 final size:37
Alignment explanation
Indices: 21570406--21570477 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 37
21570396 TTGACAACTT
* * *
21570406 TTGAAACTTTAAAAGCTTCTCTAAGCAGATGCTCAAG
1 TTGAAAATTTAAAAGATTCTCTAAGCAGAGGCTCAAG
*
21570443 TTGAAAATTTAAAA-ATTTTCTAAGCAGAGGCTCAA
1 TTGAAAATTTAAAAGATTCTCTAAGCAGAGGCTCAA
21570478 TAACTTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 18 0.58
37 13 0.42
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (37 bp):
TTGAAAATTTAAAAGATTCTCTAAGCAGAGGCTCAAG
Found at i:21570589 original size:41 final size:41
Alignment explanation
Indices: 21570535--21570686 Score: 155
Period size: 41 Copynumber: 3.7 Consensus size: 41
21570525 TTTAATTGGT
* * *
21570535 TCATCTAATCAGAGGC-ATAGAAACTTTAAAATTTAAAAATC
1 TCATCTGACCAGAGGCAAT-GAAACTTTAAAATTTAAAAAAC
* * * **
21570576 TCCTCTGACCAGAGGCAATGAAACATTAGAATTTAAAAGGC
1 TCATCTGACCAGAGGCAATGAAACTTTAAAATTTAAAAAAC
* * *
21570617 TCTTCTGACCAGAGGCTATGAAA-TTTTAAATTTAAAAAAC
1 TCATCTGACCAGAGGCAATGAAACTTTAAAATTTAAAAAAC
* * *
21570657 TCATTTGACTAGAGGCAATGAAATTTTAAA
1 TCATCTGACCAGAGGCAATGAAACTTTAAA
21570687 TTAAAAGTCT
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
40 31 0.34
41 57 0.63
42 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (41 bp):
TCATCTGACCAGAGGCAATGAAACTTTAAAATTTAAAAAAC
Found at i:21570912 original size:34 final size:36
Alignment explanation
Indices: 21570844--21570922 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 36
21570834 AGGCTATAAT
* * * *
21570844 ACTTTAAATAAAGCTTCTTTGACCAAAGGCAATGAC
1 ACTTTAAATAAAGCTCCTCTGACCAAAAGCAATGAA
*
21570880 ACTTTAAAT-AA-CTCCTCTGACCAAAAGTAATGAA
1 ACTTTAAATAAAGCTCCTCTGACCAAAAGCAATGAA
21570914 ACTTTAAAT
1 ACTTTAAAT
21570923 TAAAAATTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
34 27 0.71
35 2 0.05
36 9 0.24
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (36 bp):
ACTTTAAATAAAGCTCCTCTGACCAAAAGCAATGAA
Found at i:21582160 original size:18 final size:18
Alignment explanation
Indices: 21582137--21582171 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21582127 AATTTTATTC
*
21582137 TAAAATGAGATATAAAAT
1 TAAAATGAAATATAAAAT
*
21582155 TAAAATTAAATATAAAA
1 TAAAATGAAATATAAAA
21582172 AAAACCATAA
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:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
TAAAATGAAATATAAAAT
Found at i:21583705 original size:19 final size:19
Alignment explanation
Indices: 21583665--21583705 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
21583655 AACAAATAAC
*
21583665 AAAAATAAAAATAAGATCA
1 AAAAATAAAAATAAAATCA
*
21583684 AAAAATAAAAATAAAATGA
1 AAAAATAAAAATAAAATCA
21583703 AAA
1 AAA
21583706 TGAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAATAAAATCA
Found at i:21583711 original size:25 final size:25
Alignment explanation
Indices: 21583665--21583713 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21583655 AACAAATAAC
*
21583665 AAAAATAAAAATAAGATCAAAAAAT
1 AAAAATAAAAATAAAATCAAAAAAT
*
21583690 AAAAAT-AAAATGAAAATGAAAAAA
1 AAAAATAAAAAT-AAAATCAAAAAA
21583714 AATACTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (25 bp):
AAAAATAAAAATAAAATCAAAAAAT
Found at i:21584117 original size:11 final size:11
Alignment explanation
Indices: 21584081--21584117 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
21584071 TTCGGTGACC
*
21584081 AAAAAATTTTC
1 AAAAAATTTTA
21584092 AAAAAATTTTA
1 AAAAAATTTTA
21584103 AAAAAATTCTTA
1 AAAAAATT-TTA
21584115 AAA
1 AAA
21584118 TAATCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAAAATTTTA
Found at i:21587506 original size:33 final size:30
Alignment explanation
Indices: 21587467--21587561 Score: 84
Period size: 33 Copynumber: 3.0 Consensus size: 30
21587457 GTAAGTGATC
*
21587467 AAATTATATCCAAACAATAAAAAATAAATAATT
1 AAATTATAT-CAAA-AATAAAAAATAAA-AATA
* * *
21587500 ATATTATAT-TAAAATAATAAATAAAAATA
1 AAATTATATCAAAAATAAAAAATAAAAATA
21587529 AAATTATATTCAAATAATGAAAAAATAATAAAT
1 AAATTATA-TCAAA-AAT-AAAAAATAA-AAAT
21587562 TAATAGTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
29 10 0.20
30 13 0.26
31 4 0.08
32 3 0.06
33 16 0.32
34 4 0.08
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (30 bp):
AAATTATATCAAAAATAAAAAATAAAAATA
Found at i:21587561 original size:29 final size:29
Alignment explanation
Indices: 21587482--21587563 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 29
21587472 ATATCCAAAC
* *
21587482 AATAAAAAATAAATAATTATATTATATTAA
1 AATAATAAATAAATAA-TAAATTATATTAA
*
21587512 AATAATAAATAAA-AATAAAATTATATTCA
1 AATAATAAATAAATAAT-AAATTATATTAA
21587541 AATAATGAAA-AAATAATAAATTA
1 AATAAT-AAATAAATAATAAATTA
21587564 ATAGTCACAC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.02
29 27 0.59
30 18 0.39
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (29 bp):
AATAATAAATAAATAATAAATTATATTAA
Found at i:21590307 original size:69 final size:71
Alignment explanation
Indices: 21590226--21590372 Score: 239
Period size: 71 Copynumber: 2.1 Consensus size: 71
21590216 TTTGTTTAAA
21590226 ATTTTTT-TCTATTTGTCTTGAGCTC-TTTATTTTTT-ATTTTTTATCTATTTATCTTGAGCTTT
1 ATTTTTTATCTATTTGTCTTGAGCTCTTTTATTTTTTAATTTTTTATCTATTTATCTTGAGCTTT
*
21590288 TTTTTT
66 TTTTAT
* *
21590294 ATTTTTTATCTATTTGTCTTGAGCTCTTTTTTTTTTTAATTTTTTATCTATTTGTCTTGAGCTTT
1 ATTTTTTATCTATTTGTCTTGAGCTCTTTTATTTTTTAATTTTTTATCTATTTATCTTGAGCTTT
21590359 TTTTAT
66 TTTTAT
21590365 -TTTTTTAT
1 ATTTTTTAT
21590373 TTTCTTTTTA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
68 7 0.10
69 18 0.25
70 17 0.23
71 31 0.42
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (71 bp):
ATTTTTTATCTATTTGTCTTGAGCTCTTTTATTTTTTAATTTTTTATCTATTTATCTTGAGCTTT
TTTTAT
Found at i:21590336 original size:38 final size:36
Alignment explanation
Indices: 21590226--21590368 Score: 204
Period size: 33 Copynumber: 4.0 Consensus size: 36
21590216 TTTGTTTAAA
*
21590226 ATTTTTT-TCTATTTGTCTTGAGCTCTTTATTTTTT
1 ATTTTTTATCTATTTGTCTTGAGCTCTTTTTTTTTT
*
21590261 ATTTTTTATCTATTTATCTTGAG--C-TTTTTTTTT
1 ATTTTTTATCTATTTGTCTTGAGCTCTTTTTTTTTT
21590294 ATTTTTTATCTATTTGTCTTGAGCTCTTTTTTTTTTT
1 ATTTTTTATCTATTTGTCTTGAGCTC-TTTTTTTTTT
*
21590331 AATTTTTTATCTATTTGTCTTGAGCTTTTTTTATTTTT
1 -ATTTTTTATCTATTTGTCTTGAGCTCTTTTT-TTTTT
21590369 TTATTTTCTT
Statistics
Matches: 97, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
33 30 0.31
34 1 0.01
35 8 0.08
36 14 0.14
37 14 0.14
38 30 0.31
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.69
Consensus pattern (36 bp):
ATTTTTTATCTATTTGTCTTGAGCTCTTTTTTTTTT
Found at i:21590800 original size:24 final size:24
Alignment explanation
Indices: 21590773--21590818 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
21590763 ACATGTTATT
21590773 ATTC-AAAATATTTTAAAAACTTTG
1 ATTCAAAAATA-TTTAAAAACTTTG
21590797 ATTCAAAAATATTTAAAAACTT
1 ATTCAAAAATATTTAAAAACTT
21590819 AAGCTATAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (24 bp):
ATTCAAAAATATTTAAAAACTTTG
Found at i:21592164 original size:2 final size:2
Alignment explanation
Indices: 21592153--21592181 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21592143 ACCGTTCACA
21592153 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21592182 ATCTATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:21593202 original size:3 final size:3
Alignment explanation
Indices: 21593194--21593235 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
21593184 AAATAGGCAT
21593194 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
21593236 AACACATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:21595353 original size:2 final size:2
Alignment explanation
Indices: 21595346--21595375 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21595336 GAAAACGAAG
*
21595346 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21595376 GAATAATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21597690 original size:17 final size:18
Alignment explanation
Indices: 21597648--21597686 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
21597638 AATGTCTTCC
*
21597648 ATATGACCCATAAAAACT
1 ATATGACCCATAAAAACA
21597666 ATATGACCC-TAAAAA-A
1 ATATGACCCATAAAAACA
21597682 ATATG
1 ATATG
21597687 GACCAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (18 bp):
ATATGACCCATAAAAACA
Found at i:21602877 original size:17 final size:17
Alignment explanation
Indices: 21602838--21602881 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
21602828 AATAATGATA
21602838 AAAAAT-AATAATAAAC
1 AAAAATAAATAATAAAC
* *
21602854 ATTAAATAAATAATAAAT
1 A-AAAATAAATAATAAAC
21602872 AAAAATAAAT
1 AAAAATAAAT
21602882 TAAATGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 12 0.52
18 10 0.43
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAATAAATAATAAAC
Found at i:21602880 original size:21 final size:21
Alignment explanation
Indices: 21602819--21602886 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
21602809 TTCAATAATA
**
21602819 AAATAATGAAATAATGATAAA-
1 AAATAAT-AAATAAAAATAAAT
*
21602840 AAATAAT-AATAAACATTAAAT
1 AAATAATAAATAAA-AATAAAT
21602861 AAATAATAAATAAAAATAAATT
1 AAATAATAAATAAAAATAAA-T
21602883 AAAT
1 AAAT
21602887 GTTTAATTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.13
20 4 0.10
21 19 0.49
22 11 0.28
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (21 bp):
AAATAATAAATAAAAATAAAT
Found at i:21602885 original size:11 final size:11
Alignment explanation
Indices: 21602819--21602886 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
21602809 TTCAATAATA
21602819 AAATAATGAAAT
1 AAATAAT-AAAT
*
21602831 -AATGATAAA-
1 AAATAATAAAT
21602840 AAATAAT-AAT
1 AAATAATAAAT
* *
21602850 AAACATTAAAT
1 AAATAATAAAT
21602861 AAATAATAAAT
1 AAATAATAAAT
21602872 AAA-AATAAATT
1 AAATAATAAA-T
21602883 AAAT
1 AAAT
21602887 GTTTAATTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
9 2 0.04
10 19 0.42
11 24 0.53
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.26
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:21603027 original size:3 final size:3
Alignment explanation
Indices: 21603019--21603063 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
21603009 CAGTTTTTAA
21603019 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
21603064 ATAAAAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:21610812 original size:27 final size:27
Alignment explanation
Indices: 21610765--21610829 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
21610755 GGTATTTGTT
21610765 TTATTTGTTTTATGGCTTTATTGATTTA
1 TTATTTGTTTTATGGCTTTATT-ATTTA
* *
21610793 TT-TTTGTTTTAT-GTTATTATTTTTTA
1 TTATTTGTTTTATGGCT-TTATTATTTA
21610819 TTATTT-TTTTA
1 TTATTTGTTTTA
21610830 AAAATATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 13 0.39
27 18 0.55
28 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (27 bp):
TTATTTGTTTTATGGCTTTATTATTTA
Found at i:21610876 original size:13 final size:12
Alignment explanation
Indices: 21610853--21610887 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
21610843 TGATTTAATT
21610853 TTAGAAAAAAAA
1 TTAGAAAAAAAA
21610865 TTAGAGAAAAAAA
1 TTAGA-AAAAAAA
*
21610878 TTATAAAAAA
1 TTAGAAAAAA
21610888 TATAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (12 bp):
TTAGAAAAAAAA
Found at i:21613214 original size:15 final size:16
Alignment explanation
Indices: 21613187--21613217 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21613177 AACAAATACT
21613187 TTCATTATTTTTATTG
1 TTCATTATTTTTATTG
21613203 TTCATT-TTTTTATTG
1 TTCATTATTTTTATTG
21613218 AAACTTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.71
Consensus pattern (16 bp):
TTCATTATTTTTATTG
Found at i:21613240 original size:24 final size:25
Alignment explanation
Indices: 21613197--21613245 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
21613187 TTCATTATTT
*
21613197 TTATTGTTCATTTTTTTATTGAAAC
1 TTATTGTTCATTTTTTTATTAAAAC
21613222 TTATTGTTCA-TTTTTTATTAAAAC
1 TTATTGTTCATTTTTTTATTAAAAC
21613246 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (25 bp):
TTATTGTTCATTTTTTTATTAAAAC
Found at i:21613670 original size:5 final size:5
Alignment explanation
Indices: 21613660--21613707 Score: 60
Period size: 5 Copynumber: 8.8 Consensus size: 5
21613650 ACAAATAACA
21613660 AAAAT AAAAT AAAAAT AAAAT AAAATT AGAAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT -AAAAT AAAAT AAAA-T --AAAAT AAAAT AAAAT AAAA
21613708 CTAACCGAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 28 0.72
6 6 0.15
7 1 0.03
8 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:21613694 original size:18 final size:17
Alignment explanation
Indices: 21613660--21613707 Score: 73
Period size: 18 Copynumber: 2.9 Consensus size: 17
21613650 ACAAATAACA
21613660 AAAATAAAA-TAAAAAT
1 AAAATAAAATTAAAAAT
21613676 AAAATAAAATTAGAAAAT
1 AAAATAAAATTA-AAAAT
21613694 AAAATAAAA-TAAAA
1 AAAATAAAATTAAAA
21613708 CTAACCGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.40
17 4 0.13
18 14 0.47
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATAAAATTAAAAAT
Found at i:21614973 original size:40 final size:40
Alignment explanation
Indices: 21614917--21615202 Score: 223
Period size: 40 Copynumber: 7.3 Consensus size: 40
21614907 TAACTTTTAA
* * * *
21614917 AAATTTAAAAGACTCATTTGACCAGAGGTCATGAAATTTT
1 AAATTTAAAAGGCTCATTTAACCAGAGGTAATGAAACTTT
* * * *
21614957 AAATTTAAAAGGCTCATCTGACCAGAGATAATTAAACTTT
1 AAATTTAAAAGGCTCATTTAACCAGAGGTAATGAAACTTT
* * * *
21614997 AAATTTAAAAGGCTCTTTTAACTAGAGGTTATAAAACTTT
1 AAATTTAAAAGGCTCATTTAACCAGAGGTAATGAAACTTT
*** *
21615037 AAATTTAAAAAAATTTCGTTTAA--AGA--TAATGAAACTTT
1 AAATTT--AAAAGGCTCATTTAACCAGAGGTAATGAAACTTT
* * *
21615075 AAA--T----GGCTCCTTTGACAAGAGGTAATGAAACTTT
1 AAATTTAAAAGGCTCATTTAACCAGAGGTAATGAAACTTT
* * * * *
21615109 AAATTTAAAAAGCTCATCTAACCAAAAGTTATGAAACTTT
1 AAATTTAAAAGGCTCATTTAACCAGAGGTAATGAAACTTT
* * * * *
21615149 AAATTTAAAAAGCTCATCTAACCAGAAGTAATAAAATTTT
1 AAATTTAAAAGGCTCATTTAACCAGAGGTAATGAAACTTT
21615189 AAATTTAAAAGGCT
1 AAATTTAAAAGGCT
21615203 AAGAGGGCTA
Statistics
Matches: 197, Mismatches: 37, Indels: 24
0.76 0.14 0.09
Matches are distributed among these distances:
30 6 0.03
32 3 0.02
34 15 0.08
36 2 0.01
38 13 0.07
40 147 0.75
42 11 0.06
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (40 bp):
AAATTTAAAAGGCTCATTTAACCAGAGGTAATGAAACTTT
Found at i:21617279 original size:96 final size:96
Alignment explanation
Indices: 21617115--21617301 Score: 374
Period size: 96 Copynumber: 1.9 Consensus size: 96
21617105 ACAAAAAATA
21617115 TTGATAGTGACTTCTTAATTTTACGTCTAACGATCGAGTCCTTAGACCAATAAGTTATGATTGCT
1 TTGATAGTGACTTCTTAATTTTACGTCTAACGATCGAGTCCTTAGACCAATAAGTTATGATTGCT
21617180 TGGTGACCTACTAAGGATATTAGAGAGAATG
66 TGGTGACCTACTAAGGATATTAGAGAGAATG
21617211 TTGATAGTGACTTCTTAATTTTACGTCTAACGATCGAGTCCTTAGACCAATAAGTTATGATTGCT
1 TTGATAGTGACTTCTTAATTTTACGTCTAACGATCGAGTCCTTAGACCAATAAGTTATGATTGCT
21617276 TGGTGACCTACTAAGGATATTAGAGA
66 TGGTGACCTACTAAGGATATTAGAGA
21617302 TGTGAACTAA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (96 bp):
TTGATAGTGACTTCTTAATTTTACGTCTAACGATCGAGTCCTTAGACCAATAAGTTATGATTGCT
TGGTGACCTACTAAGGATATTAGAGAGAATG
Found at i:21619654 original size:15 final size:16
Alignment explanation
Indices: 21619620--21619655 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21619610 AGAGAAAAAG
* *
21619620 AAAAAAATTAAAATTA
1 AAAAAAATAAAAACTA
21619636 AAAAAAATAAAAACTA
1 AAAAAAATAAAAACTA
21619652 AAAA
1 AAAA
21619656 TGATAGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAAAATAAAAACTA
Found at i:21620977 original size:41 final size:41
Alignment explanation
Indices: 21620887--21620988 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
21620877 TTACATCATG
* * *** *
21620887 AAAGGCATTCGCATTTGCATCACTTGCATTTGCTTCATGAG
1 AAAGACATTCGCATTTGCATCACTGGCATTAAATTCATGAC
* *
21620928 AAAAACATTTGCATTTGCATCACTGGCATCTAAATT-ATGAC
1 AAAGACATTCGCATTTGCATCACTGGCAT-TAAATTCATGAC
21620969 AAAGACATTCGCATTTGCAT
1 AAAGACATTCGCATTTGCAT
21620989 TATTGTATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 47 0.94
42 3 0.06
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (41 bp):
AAAGACATTCGCATTTGCATCACTGGCATTAAATTCATGAC
Found at i:21621468 original size:33 final size:33
Alignment explanation
Indices: 21621396--21621546 Score: 112
Period size: 33 Copynumber: 4.6 Consensus size: 33
21621386 TAAGATATGA
* * * *
21621396 TGAGATTTAAGCCCAATTAAGTTAGCA-TTTAG
1 TGAGATTTAAGCCCAATTTAGTTGGCACCTAAG
* *
21621428 ATAAGATTTAAGCCCAATTTAGTTGGTACCTAAG
1 -TGAGATTTAAGCCCAATTTAGTTGGCACCTAAG
* * * *
21621462 TGAGATTTAAGCTCAAATTAGTTGGTACC-CA-
1 TGAGATTTAAGCCCAATTTAGTTGGCACCTAAG
* ** * *
21621493 -GAGATTTAAGTCCAAAATAATTGGCACCTAAA
1 TGAGATTTAAGCCCAATTTAGTTGGCACCTAAG
*
21621525 TGAGATATTAAGCCTAATTTAG
1 TGAGAT-TTAAGCCCAATTTAG
21621547 CTGACACCAA
Statistics
Matches: 92, Mismatches: 21, Indels: 9
0.75 0.17 0.07
Matches are distributed among these distances:
30 23 0.25
31 1 0.01
32 1 0.01
33 54 0.59
34 13 0.14
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (33 bp):
TGAGATTTAAGCCCAATTTAGTTGGCACCTAAG
Found at i:21623696 original size:32 final size:28
Alignment explanation
Indices: 21623626--21623708 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 28
21623616 TTTTTCATAA
* *
21623626 TTTTT-ATTTTTTTATTTT-TTTGCTCAAT
1 TTTTTGATATTTTTATTTTATTT-CT-GAT
*
21623654 TTTTTTATATTTCTATTATTTTATTTCTGAT
1 TTTTTGATA-TT-T-TTATTTTATTTCTGAT
21623685 TTTTATGATATTTTTATTTTATTT
1 TTTT-TGATATTTTTATTTTATTT
21623709 TTATGTGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
28 5 0.11
29 13 0.28
30 3 0.07
31 9 0.20
32 13 0.28
33 3 0.07
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (28 bp):
TTTTTGATATTTTTATTTTATTTCTGAT
Found at i:21627956 original size:33 final size:34
Alignment explanation
Indices: 21627882--21628030 Score: 130
Period size: 33 Copynumber: 4.5 Consensus size: 34
21627872 TTGCTTCTAA
* * **
21627882 TTAGATGAAT-CTTTCAAATACCATTGCCT-TTA
1 TTAGAGGAATCCTTTCAAATACCATTACCTATGG
* * * * *
21627914 TATATAGGAATCCTTT-AAATGCCATCACTTTTGG
1 T-TAGAGGAATCCTTTCAAATACCATTACCTATGG
* *
21627948 TTAGAGGAAT-ATTTCAAATACCATTACCTAAGG
1 TTAGAGGAATCCTTTCAAATACCATTACCTATGG
*
21627981 TTAGAGGAA-CCTTTCAAATACCATTACCTCTGG
1 TTAGAGGAATCCTTTCAAATACCATTACCTATGG
*
21628014 TTAAAGGAAT-CTTTCAA
1 TTAGAGGAATCCTTTCAA
21628031 TAATCATCAT
Statistics
Matches: 92, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
32 4 0.04
33 82 0.89
34 6 0.07
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (34 bp):
TTAGAGGAATCCTTTCAAATACCATTACCTATGG
Found at i:21628096 original size:33 final size:32
Alignment explanation
Indices: 21628059--21628134 Score: 75
Period size: 35 Copynumber: 2.3 Consensus size: 32
21628049 AAAAGTGTTC
21628059 TTTTTAAGTTACATAGCCTT-T-GTTTAGAGGAGT
1 TTTTTAAGTTACATAG-CTTCTAG-TTA-AGGAGT
*
21628092 TTTTTCAAAGTTTCATAGCTTCTAGTTAAGGAGT
1 TTTTT--AAGTTACATAGCTTCTAGTTAAGGAGT
*
21628126 TTTTCAAGT
1 TTTTTAAGT
21628135 ATTATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
32 4 0.11
33 5 0.14
34 13 0.35
35 14 0.38
36 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (32 bp):
TTTTTAAGTTACATAGCTTCTAGTTAAGGAGT
Found at i:21628608 original size:267 final size:264
Alignment explanation
Indices: 21628070--21628612 Score: 557
Period size: 267 Copynumber: 2.0 Consensus size: 264
21628060 TTTTAAGTTA
* *
21628070 CATAGCCTTTGTTTAGAGGAGTTTTTTCAAAGTTTCATAGCTTCTAGTTAAGGAGTTTTTCAAGT
1 CATAGCCTTTG-TTAGAGGAGTTTTTTAAAAGTTTCATAGCTTCTAGTTAAGAAGTTTTTCAAGT
* * * *
21628135 ATTATAATATCTGGTTAGATAAGCTTTTTAATTTTAAAAGCCTTTGGATAGAAGACTTTCAAAAT
65 ATCATAACATCTGGTTAGATAAGCTTTTTAATTTTAAAAGCCTATAGATAGAAGACTTTCAAAAT
* *
21628200 TAAGCATGATTTGTAAAACCAAATGACATAATCTATAAGACCTCCTATATTTTTTATTTCAAATA
130 TAAGCATGATTTGTAAAACCAAATGACATAATCTATAACACCTCCTAAATTTTTTATTTCAAATA
* * * * * * * * *
21628265 TCATAATATTTGGTTAAATGAGTTATTTAAAATCTCAAAATCTCTAGTTAAAAGAGTTTTTTCAA
195 CCATAACATCTAGTCAAAGGAGTTATTAAAAATATCAAAACCTCTAGTTAAAAGAGTTTTTTCAA
*
21628330 ACCTT
260 ACCTC
* * *
21628335 CATAGCCTTTAGTTAGAGGAGTCTTTTTAAAAGTTTTATTGCTTTTAGTTATA-AACGTTTTTCA
1 CATAGCCTTT-GTTAGAGGAGT-TTTTTAAAAGTTTCATAGCTTCTAGTTA-AGAA-GTTTTTCA
* * * *
21628399 AGTATCATAGCCTTTGGTTAGAGT-AGTTTTTTAATTTTAAAAGCCTATAGATA-AAGGACTCTT
62 AGTATCATAACATCTGGTTAGA-TAAGCTTTTTAATTTTAAAAGCCTATAGATAGAA-GA--CTT
* * *
21628462 TCAAAATTAAGTATGATTTGT-AAACC-AATGTATATAATCTATAACACCT-TTCAAATTTTTT-
123 TCAAAATTAAGCATGATTTGTAAAACCAAATG-ACATAATCTATAACACCTCCT-AAATTTTTTA
* * * * * * * *
21628523 TTTCAAGTGCCATAGCCTCTAGTCAAAGGAGTT-TTAAAAAAGTATCATAACCTCTGGTTAGAGG
186 TTTCAAATACCATAACATCTAGTCAAAGGAGTTATT-AAAAA-TATCAAAACCTCTAGTTAAAAG
*
21628587 AGTTTTTT-AAA-GTAC
249 AGTTTTTTCAAACCT-C
21628602 CATAGCCTTTG
1 CATAGCCTTTG
21628613 GTTAAAAAGT
Statistics
Matches: 228, Mismatches: 37, Indels: 25
0.79 0.13 0.09
Matches are distributed among these distances:
265 20 0.09
266 32 0.14
267 99 0.43
268 54 0.24
269 23 0.10
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (264 bp):
CATAGCCTTTGTTAGAGGAGTTTTTTAAAAGTTTCATAGCTTCTAGTTAAGAAGTTTTTCAAGTA
TCATAACATCTGGTTAGATAAGCTTTTTAATTTTAAAAGCCTATAGATAGAAGACTTTCAAAATT
AAGCATGATTTGTAAAACCAAATGACATAATCTATAACACCTCCTAAATTTTTTATTTCAAATAC
CATAACATCTAGTCAAAGGAGTTATTAAAAATATCAAAACCTCTAGTTAAAAGAGTTTTTTCAAA
CCTC
Found at i:21628615 original size:34 final size:34
Alignment explanation
Indices: 21628520--21628771 Score: 138
Period size: 34 Copynumber: 7.3 Consensus size: 34
21628510 TTTCAAATTT
* * * * *
21628520 TTTTTTCAAGTGCCATAGCCTCTAGTCAAAGGAG
1 TTTTTTAAAGTACCATAGCCTTTGGTTAAAGGAG
** * * * *
21628554 TTTTAAAAAAGTATCATAACCTCTGGTTAGAGGAG
1 TTTT-TTAAAGTACCATAGCCTTTGGTTAAAGGAG
*
21628589 TTTTTTAAAGTACCATAGCCTTTGGTTAAA-AAG
1 TTTTTTAAAGTACCATAGCCTTTGGTTAAAGGAG
* *
21628622 TTTTTTTAAAATGTA--ATAACCTTTGGTTAGAA-AAG
1 -TTTTTT-AAA-GTACCATAGCCTTTGGTTA-AAGGAG
* * * *
21628657 TTTTTTAAAGTGCCATAACCTCTGGTTAAAAGAG
1 TTTTTTAAAGTACCATAGCCTTTGGTTAAAGGAG
* * * * ** *
21628691 TTCTTTTTTAA-CATCATAGCCTTTAGTTGGAGGAA
1 -T-TTTTTAAAGTACCATAGCCTTTGGTTAAAGGAG
* *
21628726 TTTTTTAAAAT-CTCATAGCATTTGGTTAAAGGAG
1 TTTTTTAAAGTAC-CATAGCCTTTGGTTAAAGGAG
21628760 TTATTTTAAAGT
1 TT-TTTTAAAGT
21628772 TTTATTGCCT
Statistics
Matches: 165, Mismatches: 40, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
32 2 0.01
33 14 0.08
34 83 0.50
35 56 0.34
36 10 0.06
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (34 bp):
TTTTTTAAAGTACCATAGCCTTTGGTTAAAGGAG
Found at i:21628641 original size:68 final size:70
Alignment explanation
Indices: 21628569--21628698 Score: 192
Period size: 68 Copynumber: 1.9 Consensus size: 70
21628559 AAAAAGTATC
** * *
21628569 ATAACCTCTGGTTAGAGGAGTTTTTTAAAGTACCATAGCCTTTGGTTAAAA-AGTT-TTTTTAAA
1 ATAACCTCTGGTTAGAAAAGTTTTTTAAAGTACCATAACCTCTGGTTAAAAGAGTTCTTTTTAAA
21628632 ATGTA
66 ATGTA
* *
21628637 ATAACCTTTGGTTAGAAAAGTTTTTTAAAGTGCCATAACCTCTGGTTAAAAGAGTTCTTTTT
1 ATAACCTCTGGTTAGAAAAGTTTTTTAAAGTACCATAACCTCTGGTTAAAAGAGTTCTTTTT
21628699 TAACATCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 45 0.83
69 4 0.07
70 5 0.09
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.40
Consensus pattern (70 bp):
ATAACCTCTGGTTAGAAAAGTTTTTTAAAGTACCATAACCTCTGGTTAAAAGAGTTCTTTTTAAA
ATGTA
Found at i:21629319 original size:3 final size:3
Alignment explanation
Indices: 21629313--21629348 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
21629303 TCATTTTTTT
21629313 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21629349 CTCTTTATTT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21630382 original size:3 final size:3
Alignment explanation
Indices: 21630374--21630436 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
21630364 CTTTTAATCT
21630374 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21630422 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
21630437 TTAAGGAAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21630566 original size:7 final size:6
Alignment explanation
Indices: 21630538--21630562 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21630528 ATTTTTTTTT
21630538 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
21630563 ATAATGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:21630769 original size:22 final size:21
Alignment explanation
Indices: 21630727--21630787 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
21630717 AAATAAAAAT
*
21630727 AATAATAAA-TAATTTAA-TA
1 AATAATAAATTAATTAAATTA
21630746 AATAATAAATTAAATTAAATTA
1 AATAATAAATT-AATTAAATTA
* *
21630768 AATATTTAATTCAATTAAAT
1 AATAATAAATT-AATTAAAT
21630788 CTCTTGAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.26
20 1 0.03
21 6 0.17
22 19 0.54
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAATAAATTAATTAAATTA
Found at i:21642796 original size:209 final size:209
Alignment explanation
Indices: 21642427--21642852 Score: 809
Period size: 209 Copynumber: 2.0 Consensus size: 209
21642417 TGAATCTGTT
*
21642427 CTTTTAAGGAGCTCTTAAGTTTGATTAAGAGTCCCTAGAGAATAGGTTTTGGTCTATTAATCAGA
1 CTTTTAAGGAGCTCTTAAGTTTGATTAAGAGTCCCTAGAGAATAGGTTTTGGTCTATTAATCAAA
21642492 ACATGATTTAATAATTCGATTACATATGAAAAAAGTTATAATACCCTTACATGCCCATCCAAAAG
66 ACATGATTTAATAATTCGATTACATATGAAAAAAGTTATAATACCCTTACATGCCCATCCAAAAG
*
21642557 ATAGTATCATTTTATTTTAAATTATCCTAAGATCTTGATTCTAACGGTTTTAAGTTTTAATGTTG
131 ATAGTACCATTTTATTTTAAATTATCCTAAGATCTTGATTCTAACGGTTTTAAGTTTTAATGTTG
21642622 AATATTAAAAATAA
196 AATATTAAAAATAA
21642636 CTTTTAAGGAGCTCTTAAGTTTGATTAAGAGTCCCTAGAGAATAGGTTTTGGTCTATTAATCAAA
1 CTTTTAAGGAGCTCTTAAGTTTGATTAAGAGTCCCTAGAGAATAGGTTTTGGTCTATTAATCAAA
*
21642701 ACATGATTTAATAATTTGATTACATATGAAAAAA-TTATAATACCCTTACATGCCCATCCAAAAG
66 ACATGATTTAATAATTCGATTACATATGAAAAAAGTTATAATACCCTTACATGCCCATCCAAAAG
21642765 ATAGTACCATTTTATTTTAAATTATTCCTAAGATCTTGATTCTAACGGTTTTAAGTTTTAATGTT
131 ATAGTACCATTTTATTTTAAATTA-TCCTAAGATCTTGATTCTAACGGTTTTAAGTTTTAATGTT
21642830 GAATATTAAAAATAA
195 GAATATTAAAAATAA
21642845 CTTTTAAG
1 CTTTTAAG
21642853 ATTTTTTATC
Statistics
Matches: 213, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
208 53 0.25
209 160 0.75
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (209 bp):
CTTTTAAGGAGCTCTTAAGTTTGATTAAGAGTCCCTAGAGAATAGGTTTTGGTCTATTAATCAAA
ACATGATTTAATAATTCGATTACATATGAAAAAAGTTATAATACCCTTACATGCCCATCCAAAAG
ATAGTACCATTTTATTTTAAATTATCCTAAGATCTTGATTCTAACGGTTTTAAGTTTTAATGTTG
AATATTAAAAATAA
Found at i:21643542 original size:25 final size:25
Alignment explanation
Indices: 21643470--21643542 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 25
21643460 CCATTTGGAT
*
21643470 AAATTTAGAAAAAATTTC-TCATCTAA
1 AAATTTA-TAAAAATTTCATCAT-TAA
* **
21643496 AAATTTATAAAAATTT-ACCATTTG
1 AAATTTATAAAAATTTCATCATTAA
*
21643520 AAATTTCTAAAAATTTCATCATT
1 AAATTTATAAAAATTTCATCATT
21643543 GGACAATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 16 0.41
25 16 0.41
26 7 0.18
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.40
Consensus pattern (25 bp):
AAATTTATAAAAATTTCATCATTAA
Found at i:21643576 original size:19 final size:18
Alignment explanation
Indices: 21643547--21643589 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
21643537 ATCATTGGAC
21643547 AATTATTATTTATTCTCAA
1 AATT-TTATTTATTCTCAA
*
21643566 ATATTTTATTTTTTCTCAA
1 A-ATTTTATTTATTCTCAA
21643585 AATTT
1 AATTT
21643590 AATCATACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 15 0.68
20 3 0.14
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTTATTTATTCTCAA
Found at i:21644602 original size:20 final size:21
Alignment explanation
Indices: 21644577--21644616 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21644567 GATAAAACCA
*
21644577 ATAAAATAAAATAAT-AAAAT
1 ATAAAACAAAATAATGAAAAT
21644597 ATAAAACAAAATAATGAAAA
1 ATAAAACAAAATAATGAAAA
21644617 ACTGGGCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (21 bp):
ATAAAACAAAATAATGAAAAT
Found at i:21649937 original size:20 final size:18
Alignment explanation
Indices: 21649900--21649940 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
21649890 GTTTTATGGT
21649900 AATATAATTTATTATTTA
1 AATATAATTTATTATTTA
* *
21649918 AATATATATTTTTTATTTT
1 AATATA-ATTTATTATTTA
21649937 AATA
1 AATA
21649941 AAACATAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
AATATAATTTATTATTTA
Found at i:21650125 original size:77 final size:79
Alignment explanation
Indices: 21649993--21650137 Score: 267
Period size: 78 Copynumber: 1.9 Consensus size: 79
21649983 AATATTTTTT
*
21649993 AAAAATTCCATATCATTTTAAAACTAAAAACCAAATTTGTATTAAAAATATTATTTTGCTAA-AA
1 AAAAATTCCATATCATTTTAAAACTAAAAACCAAATTTATATTAAAAATATTATTTTGCTAATAA
21650057 ATTTTTAATTAAAA
66 ATTTTTAATTAAAA
21650071 AAAAATTCCATATCATTTTAAAACTAAAAACC-AATTTATATTAAAAATATTATTTTGCTAATAA
1 AAAAATTCCATATCATTTTAAAACTAAAAACCAAATTTATATTAAAAATATTATTTTGCTAATAA
21650135 ATT
66 ATT
21650138 ATATTAAAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 28 0.43
78 37 0.57
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.39
Consensus pattern (79 bp):
AAAAATTCCATATCATTTTAAAACTAAAAACCAAATTTATATTAAAAATATTATTTTGCTAATAA
ATTTTTAATTAAAA
Found at i:21650908 original size:19 final size:19
Alignment explanation
Indices: 21650884--21650922 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
21650874 TAAAAACAAA
21650884 AATATT-TAATGAATAAAAT
1 AATATTATAATGAA-AAAAT
21650903 AATATTATAATGAAAAAAT
1 AATATTATAATGAAAAAAT
21650922 A
1 A
21650923 TAAAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AATATTATAATGAAAAAAT
Found at i:21655423 original size:26 final size:26
Alignment explanation
Indices: 21655401--21655451 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
21655391 AAAAATTTAA
21655401 TAAAAATTAATA-TTAAA-TTAATTT
1 TAAAAATTAATATTTAAATTTAATTT
**
21655425 TATTAATTAATATTTAAATTTAATTT
1 TAAAAATTAATATTTAAATTTAATTT
21655451 T
1 T
21655452 CAATTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 5 0.22
26 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TAAAAATTAATATTTAAATTTAATTT
Found at i:21664565 original size:6 final size:6
Alignment explanation
Indices: 21664530--21664568 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
21664520 TAGAAGTGAA
* * *
21664530 AGAGAA AGAGAA AGAGAT AGAAAT AGAGAT AGAGAT AGA
1 AGAGAT AGAGAT AGAGAT AGAGAT AGAGAT AGAGAT AGA
21664569 AGTGGAAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (6 bp):
AGAGAT
Found at i:21669999 original size:463 final size:463
Alignment explanation
Indices: 21669127--21670044 Score: 1748
Period size: 463 Copynumber: 2.0 Consensus size: 463
21669117 TTATGAACCA
21669127 TACCAAAATCTTATCCTATAATTAACATATCATCAACATATAATAAGAAAATAATAAAATTTATC
1 TACCAAAATCTTATCCTATAATTAACATATCATCAACATATAATAAGAAAATAATAAAATTTATC
21669192 ATCAAAAATTTTTTTGACATACACACAAGGATCCGTTACTAATCTTTTATAGCTATGGCTCACCA
66 ATCAAAAATTTTTTTGACATACACACAAGGATCCGTTACTAATCTTTTATAGCTATGGCTCACCA
*
21669257 TAAAAGAATTTAACTTTTTGTACCACTATCACGAAGTTTGTTTCAAGCTATACAAGTTTTTTTTT
131 TAAAAGAATCTAACTTTTTGTACCACTATCACGAAGTTTGTTTCAAGCTATACAAGTTTTTTTTT
21669322 TAGTTCACAAACTAAGTGCTCTTTCCCTTTCATTTCAAAACCCTTTTGATGATTCATATAAATGT
196 TAGTTCACAAACTAAGTGCTCTTTCCCTTTCATTTCAAAACCCTTTTGATGATTCATATAAATGT
*
21669387 CCTCCTACAAGTCACCATGTAAGTATACAATCTTGACATCAATTTACTCCAGCTCAAAATTCAAA
261 CCTCCTACAAGTCACCATGTAAGTATACAATCTTGACATCAAGTTACTCCAGCTCAAAATTCAAA
* * *
21669452 TTAACTGTTAATTCTAGTATCATTCGAATAAAACTTATCTTTAAAACGAAAAAGAAGATCTCATC
326 CTAACTGTTAATTCTAGTATCATTCGAATAAAACTTAACTTTAAAACGAAAAAAAAGATCTCATC
21669517 AAAATTGATGTCTGATTTTTAAGAAAATTTTTTTACCATAAATTAAATTTTGTACCTCACTAGTT
391 AAAATTGATGTCTGATTTTTAAGAAAATTTTTTTACCATAAATTAAATTTTGTACCTCACTAGTT
21669582 AAATTTTT
456 AAATTTTT
*
21669590 TACCAACATCTTATCCTATAATTAACATATCATCAACATATAATAAGAAAATAATAAAATTTATC
1 TACCAAAATCTTATCCTATAATTAACATATCATCAACATATAATAAGAAAATAATAAAATTTATC
*
21669655 ATCAAAATTTTTTTTGACATACACACAAGGATCCGTTACTAATCTTTTATAGCTATGGCTCACCA
66 ATCAAAAATTTTTTTGACATACACACAAGGATCCGTTACTAATCTTTTATAGCTATGGCTCACCA
21669720 TAAAAGAATCTAACTTTTTGTACCACTATCACGAAGTTTGTTTCAAGCTATACAAGTTTTTTTTT
131 TAAAAGAATCTAACTTTTTGTACCACTATCACGAAGTTTGTTTCAAGCTATACAAG-TTTTTTTT
*
21669785 TTAGTTCACAAACTAAGTGCTCTTTCCCTTTCATTTCAAAACCTTTTTGATGATTCATATAAATG
195 TTAGTTCACAAACTAAGTGCTCTTTCCCTTTCATTTCAAAACCCTTTTGATGATTCATATAAATG
21669850 TCCT-CTACAAGTCACCATGTAAGTATACAATCTTGACATCAAGTTACTCCAGCTCAAAATTCAA
260 TCCTCCTACAAGTCACCATGTAAGTATACAATCTTGACATCAAGTTACTCCAGCTCAAAATTCAA
21669914 ACTAACTGTTAATTCTAGTATCATTCGAATAAAACTTAACTTTAAAACGAAAAAAAAGATCTCAT
325 ACTAACTGTTAATTCTAGTATCATTCGAATAAAACTTAACTTTAAAACGAAAAAAAAGATCTCAT
21669979 CAAAATTGATGTCTGATTTTTAAGAAAATTTTTTTACCATAAATTAAATTTTGTACCTCACTAGT
390 CAAAATTGATGTCTGATTTTTAAGAAAATTTTTTTACCATAAATTAAATTTTGTACCTCACTAGT
21670044 T
455 T
21670045 TGTTACCATT
Statistics
Matches: 446, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
463 370 0.83
464 76 0.17
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (463 bp):
TACCAAAATCTTATCCTATAATTAACATATCATCAACATATAATAAGAAAATAATAAAATTTATC
ATCAAAAATTTTTTTGACATACACACAAGGATCCGTTACTAATCTTTTATAGCTATGGCTCACCA
TAAAAGAATCTAACTTTTTGTACCACTATCACGAAGTTTGTTTCAAGCTATACAAGTTTTTTTTT
TAGTTCACAAACTAAGTGCTCTTTCCCTTTCATTTCAAAACCCTTTTGATGATTCATATAAATGT
CCTCCTACAAGTCACCATGTAAGTATACAATCTTGACATCAAGTTACTCCAGCTCAAAATTCAAA
CTAACTGTTAATTCTAGTATCATTCGAATAAAACTTAACTTTAAAACGAAAAAAAAGATCTCATC
AAAATTGATGTCTGATTTTTAAGAAAATTTTTTTACCATAAATTAAATTTTGTACCTCACTAGTT
AAATTTTT
Found at i:21675586 original size:112 final size:112
Alignment explanation
Indices: 21675389--21675611 Score: 392
Period size: 112 Copynumber: 2.0 Consensus size: 112
21675379 ACTGTTCAGC
*
21675389 ATGTGCACAGCATAACATAGATACAATGGACATGGTTATGAGCATGTGGGTTGTGAGAATTTATC
1 ATGTGCACAGCATAACATAGATACAATGGACATGGTTATGAGCATGTGGGTTATGAGAATTTATC
21675454 TTGGAACTTGGGGTCAATGGGAAACCTATGTTCCCAGCAACACCAGT
66 TTGGAACTTGGGGTCAATGGGAAACCTATGTTCCCAGCAACACCAGT
* * *
21675501 ATGTGCACAGTATAACCTAGATACAATGGACATGGTTATGAGCATGTGGGTTATGAGAATTTATT
1 ATGTGCACAGCATAACATAGATACAATGGACATGGTTATGAGCATGTGGGTTATGAGAATTTATC
* *
21675566 TTGGAACTTGTGGTCAATGGGAAACCTATGTTTCCAGCAACACCAG
66 TTGGAACTTGGGGTCAATGGGAAACCTATGTTCCCAGCAACACCAG
21675612 CATGCTATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 105 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (112 bp):
ATGTGCACAGCATAACATAGATACAATGGACATGGTTATGAGCATGTGGGTTATGAGAATTTATC
TTGGAACTTGGGGTCAATGGGAAACCTATGTTCCCAGCAACACCAGT
Found at i:21678098 original size:1 final size:1
Alignment explanation
Indices: 21678092--21678117 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
21678082 AATAAAGAAG
21678092 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
21678118 GCATCATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21682336 original size:52 final size:53
Alignment explanation
Indices: 21682256--21682412 Score: 205
Period size: 52 Copynumber: 3.0 Consensus size: 53
21682246 TGGACAAGAA
*
21682256 GACTTGCAA-AAGAAGAATTCTAAGAGAAAGA-AGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAA-AAGAATTCTAAGAGAAAGAGAGATTCTTAATAGGCAAGTTT
* *
21682308 GACTTGCAAGAAAAGAATTCTAAAAGAAA-AGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAAAAGAATTCTAAGAGAAAGAGAGATTCTTAATAGGCAAGTTT
* * * * *
21682360 GACTTACAGGAGAAGAATTCTAAGAG-GAGAGAGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAAAAGAATTCTAAGAGAAAGAGAGATTCTTAATAGGCAAGTTT
21682412 G
1 G
21682413 TATGATTATA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 2 0.02
52 88 0.96
53 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.25
Consensus pattern (53 bp):
GACTTGCAAGAAAAGAATTCTAAGAGAAAGAGAGATTCTTAATAGGCAAGTTT
Found at i:21683214 original size:11 final size:11
Alignment explanation
Indices: 21683198--21683237 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
21683188 AATCCCATAA
21683198 GAGATTTGTTT
1 GAGATTTGTTT
*
21683209 GAGATTTGTTA
1 GAGATTTGTTT
21683220 GAGATTTGTTT
1 GAGATTTGTTT
21683231 GAGATTT
1 GAGATTT
21683238 TTCAGATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:21683351 original size:52 final size:52
Alignment explanation
Indices: 21683264--21683420 Score: 217
Period size: 52 Copynumber: 3.0 Consensus size: 52
21683254 TGGACAAGAA
* * *
21683264 GACTTGTAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
21683316 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * * *
21683368 GACTTACAGGAGAAGAATTCTAAGAGGAGAGAGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
21683420 G
1 G
21683421 TATGGTTATA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 89 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:21684720 original size:30 final size:29
Alignment explanation
Indices: 21684637--21684713 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
21684627 AAATTGAAGG
** *
21684637 ATTTATTTATGTATAAATTAAAGGTTAAA
1 ATTTATTTAAATATAAATTAAATGTTAAA
* *
21684666 AGTTTATTTGAATGTAAATTAAATGTTAAA
1 A-TTTATTTAAATATAAATTAAATGTTAAA
21684696 TATTTATTTAAATATAAA
1 -ATTTATTTAAATATAAA
21684714 AAAAATGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 1 0.03
30 37 0.95
31 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (29 bp):
ATTTATTTAAATATAAATTAAATGTTAAA
Found at i:21689883 original size:32 final size:31
Alignment explanation
Indices: 21689846--21689917 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
21689836 GGTCTTCAAA
21689846 TTTATTTTTATGAATTTTATCTAAGTATATTT
1 TTTATTTTT-TGAATTTTATCTAAGTATATTT
** * * *
21689878 TTTATTATTTTGTTTTTTCTTTTAGTATATTT
1 TTTATT-TTTTGAATTTTATCTAAGTATATTT
21689910 TTTATTTT
1 TTTATTTT
21689918 AATAAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 2 0.06
32 29 0.85
33 3 0.09
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (31 bp):
TTTATTTTTTGAATTTTATCTAAGTATATTT
Found at i:21690245 original size:2 final size:2
Alignment explanation
Indices: 21690238--21690264 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21690228 TTAATTCTGA
21690238 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21690265 AGTGTGTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21691377 original size:24 final size:23
Alignment explanation
Indices: 21691345--21691409 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 23
21691335 TTTAATGATG
21691345 ATTTTAAAAAAATAA-AAGAGAAAT
1 ATTTTAAAAAAA-AATAAGA-AAAT
*
21691369 ATTTTAAAAATAAAATAAGATAAT
1 ATTTTAAAAA-AAAATAAGAAAAT
*
21691393 ATTTTAAATAAAAATAA
1 ATTTTAAAAAAAAATAA
21691410 TTCTTAAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 7 0.19
24 24 0.65
25 6 0.16
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (23 bp):
ATTTTAAAAAAAAATAAGAAAAT
Found at i:21695395 original size:157 final size:155
Alignment explanation
Indices: 21695173--21695465 Score: 505
Period size: 157 Copynumber: 1.9 Consensus size: 155
21695163 TTTGACATAT
*
21695173 TATATTTCTTCCTCGGTTAGTTGTAAATTTTCTTGGTGCCCAAATCTATATCTCTACGTATATTC
1 TATATTTCTTCCTCGGTTAGTTGTAAATTTTCTTGATGCCCAAATCTATATCTCTACGTATATTC
21695238 ATGTGAGTGAGTTGTAGAATATTTTTAATCATTATATTCTTGTAGATGAAAATATCAAAGTATAA
66 ATGTG-GTGAGTTGTAGAATATTTTTAATCATTATATTCTTGTAGATGAAAATATC-AAGTATAA
21695303 TCGAGATATAGTGATAGTCAAAAACTA
129 TCGAGATATAGTGATAGTCAAAAACTA
* *
21695330 TATATTTCTTCCTTGGTTAGTTGTAAATTTTCTTGATGCCCAAATCTATATCTCTATGTATATTC
1 TATATTTCTTCCTCGGTTAGTTGTAAATTTTCTTGATGCCCAAATCTATATCTCTACGTATATTC
* * *
21695395 ATTTGGTGAGTTGTAGAATATTTTTAATCATTGTATTCTTGTGGATGAAAATATCAAGTATAATC
66 ATGTGGTGAGTTGTAGAATATTTTTAATCATTATATTCTTGTAGATGAAAATATCAAGTATAATC
*
21695460 GTGATA
131 GAGATA
21695466 GTAAAAATGT
Statistics
Matches: 129, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
155 15 0.12
156 48 0.37
157 66 0.51
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (155 bp):
TATATTTCTTCCTCGGTTAGTTGTAAATTTTCTTGATGCCCAAATCTATATCTCTACGTATATTC
ATGTGGTGAGTTGTAGAATATTTTTAATCATTATATTCTTGTAGATGAAAATATCAAGTATAATC
GAGATATAGTGATAGTCAAAAACTA
Found at i:21695513 original size:157 final size:157
Alignment explanation
Indices: 21695188--21695473 Score: 414
Period size: 156 Copynumber: 1.8 Consensus size: 157
21695178 TTCTTCCTCG
* *
21695188 GTTAGTTGTAAATTTTCTTGGTGCCCAAATCTATATCTCTACGTATATTCATGTGAGTGAGTTGT
1 GTTAGTCGTAAATTTTCTTGATGCCCAAATCTATATCTCTACGTATATTCATGTGAGTGAGTTGT
***
21695253 AGAATATTTTTAATCATTATATTCTTGTAGATGAAAATATCAAAGTATAATCGAGATATAGTGAT
66 AGAATATTTTTAATCATTATATTCTTGTAGATGAAAATATCAAAGTATAATCGAGATATAAAAAT
** * *
21695318 AGTCAAAAACTATATATTTCTTCCTTG
131 AGTCAAAAACTATATATTTCTAACATA
* * *
21695345 GTTAGTTGTAAATTTTCTTGATGCCCAAATCTATATCTCTATGTATATTCATTTG-GTGAGTTGT
1 GTTAGTCGTAAATTTTCTTGATGCCCAAATCTATATCTCTACGTATATTCATGTGAGTGAGTTGT
* * *
21695409 AGAATATTTTTAATCATTGTATTCTTGTGGATGAAAATATC-AAGTATAATCGTGATAGTAAAAA
66 AGAATATTTTTAATCATTATATTCTTGTAGATGAAAATATCAAAGTATAATCGAGATA-TAAAAA
21695473 T
130 T
21695474 GTTTGTATGT
Statistics
Matches: 119, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
155 15 0.13
156 52 0.44
157 52 0.44
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (157 bp):
GTTAGTCGTAAATTTTCTTGATGCCCAAATCTATATCTCTACGTATATTCATGTGAGTGAGTTGT
AGAATATTTTTAATCATTATATTCTTGTAGATGAAAATATCAAAGTATAATCGAGATATAAAAAT
AGTCAAAAACTATATATTTCTAACATA
Found at i:21698193 original size:2 final size:2
Alignment explanation
Indices: 21698180--21698225 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
21698170 CCAGGTAATA
* *
21698180 AT AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21698222 AT AT
1 AT AT
21698226 CCCCTCCTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21706381 original size:25 final size:23
Alignment explanation
Indices: 21706353--21706400 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
21706343 GAAGAAGGAG
*
21706353 AAGAAGAAGTAACGACAAACGACAA
1 AAGAAGAAGGAAC-A-AAACGACAA
21706378 AAGAAGAAGGAACAAAACGACAA
1 AAGAAGAAGGAACAAAACGACAA
21706401 CCAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 1 0.05
25 12 0.55
ACGTcount: A:0.62, C:0.15, G:0.21, T:0.02
Consensus pattern (23 bp):
AAGAAGAAGGAACAAAACGACAA
Found at i:21707822 original size:20 final size:20
Alignment explanation
Indices: 21707797--21707840 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
21707787 TTTGTTATTG
*
21707797 TTAATTTTATTTATT-TAAAT
1 TTAATTTTATATATTAT-AAT
21707817 TTAATTTTATATATTATAAT
1 TTAATTTTATATATTATAAT
21707837 TTAA
1 TTAA
21707841 GAGGATTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAATTTTATATATTATAAT
Found at i:21713186 original size:16 final size:16
Alignment explanation
Indices: 21713165--21713196 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21713155 CCAAAATTAG
*
21713165 ATTTATTTTGTTATTT
1 ATTTATTTTATTATTT
21713181 ATTTATTTTATTATTT
1 ATTTATTTTATTATTT
21713197 CTAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
ATTTATTTTATTATTT
Found at i:21715115 original size:24 final size:25
Alignment explanation
Indices: 21715088--21715135 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
21715078 TAATTATATC
* *
21715088 ATTTTATTTGATAGTAAT-TTAAAA
1 ATTTTATATGACAGTAATCTTAAAA
21715112 ATTTTATATGACAGTAATCTTAAA
1 ATTTTATATGACAGTAATCTTAAA
21715136 TCATCATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (25 bp):
ATTTTATATGACAGTAATCTTAAAA
Found at i:21716840 original size:48 final size:47
Alignment explanation
Indices: 21716763--21716859 Score: 110
Period size: 48 Copynumber: 2.0 Consensus size: 47
21716753 ATGAATTGAT
*
21716763 ATTTATAAAATTTTTAAAAAAGTTTAATTT-TAATGTATTTAATATTAA
1 ATTTATAAAATTTTTAAAAAAGTTAAATTTATAAT-T-TTTAATATTAA
*
21716811 ATTT-TAAAATTTTTTATAAAA-TTAAAATTTCATAATTTTTAATATTAA
1 ATTTATAAAA-TTTTTAAAAAAGTT-AAATTT-ATAATTTTTAATATTAA
21716859 A
1 A
21716860 AAATAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
47 7 0.16
48 31 0.72
49 1 0.02
50 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (47 bp):
ATTTATAAAATTTTTAAAAAAGTTAAATTTATAATTTTTAATATTAA
Found at i:21717468 original size:20 final size:19
Alignment explanation
Indices: 21717445--21717485 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
21717435 ATATCTAAAT
* *
21717445 TTATTTAAATATATTAAAAA
1 TTATATAAAAATA-TAAAAA
21717465 TTATATAAAAATATAAAAA
1 TTATATAAAAATATAAAAA
21717484 TT
1 TT
21717486 TAAATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTATATAAAAATATAAAAA
Found at i:21718519 original size:17 final size:17
Alignment explanation
Indices: 21718497--21718531 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
21718487 GCCTTTTCTA
*
21718497 TATCTAATATCATTATT
1 TATCTAATATAATTATT
*
21718514 TATCTATTATAATTATT
1 TATCTAATATAATTATT
21718531 T
1 T
21718532 TTTATCTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
TATCTAATATAATTATT
Found at i:21720770 original size:2 final size:2
Alignment explanation
Indices: 21720763--21720791 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21720753 ATCTTTGATT
21720763 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21720792 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21721863 original size:167 final size:167
Alignment explanation
Indices: 21721670--21721973 Score: 547
Period size: 167 Copynumber: 1.8 Consensus size: 167
21721660 ACCTTTGCTT
*
21721670 AGAGGAGTATGGTTGCTCTTTTGAAGGGGACTGAAATAGATATGAATCTTAAGTTTGAAAAAAAT
1 AGAGGAGTATGGTTGCTCTTTTGAAGGAGACTGAAATAGATATGAATCTTAAGTTTGAAAAAAAT
*
21721735 AA-AGTACTAAAACAAAAGAGCTATTGTCTTTAGCTTCTAGGTTTAATGGTTAAGAAAGCTTAGA
66 AAGA-TACTAAAACAAAAGAGCTATTGTCTTTAGCTTCTAGGCTTAATGGTTAAGAAAGCTTAGA
21721799 AAGACATATTAACCTTTGCTTTAGCATTCTTAAAACTC
130 AAGACATATTAACCTTTGCTTTAGCATTCTTAAAACTC
21721837 AGAGGAGTATGGTTGCTCTTTTGAAGGAGACTGAAATAGATATGAATCTTAAGTTTGAAAAAAAT
1 AGAGGAGTATGGTTGCTCTTTTGAAGGAGACTGAAATAGATATGAATCTTAAGTTTGAAAAAAAT
* *
21721902 AAGATATTAAAAGAAAAGAGCTATTGTCTTTAGCTTCTAGGCTTAATGGTTAAGAAAGCTTAGAA
66 AAGATACTAAAACAAAAGAGCTATTGTCTTTAGCTTCTAGGCTTAATGGTTAAGAAAGCTTAGAA
*
21721967 AGGCATA
131 AGACATA
21721974 CAATGTGAGA
Statistics
Matches: 131, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
167 130 0.99
168 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (167 bp):
AGAGGAGTATGGTTGCTCTTTTGAAGGAGACTGAAATAGATATGAATCTTAAGTTTGAAAAAAAT
AAGATACTAAAACAAAAGAGCTATTGTCTTTAGCTTCTAGGCTTAATGGTTAAGAAAGCTTAGAA
AGACATATTAACCTTTGCTTTAGCATTCTTAAAACTC
Found at i:21724975 original size:2 final size:2
Alignment explanation
Indices: 21724958--21724997 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
21724948 AAATGTAGAA
*
21724958 AT AT GAT AT A- AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21724998 TTAAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21726104 original size:35 final size:35
Alignment explanation
Indices: 21726058--21726126 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
21726048 CGTAATCAAG
* *
21726058 TGAAAAGTCAATAGTTGAATAATAGCTTAATTGTA
1 TGAAAAATCAATAATTGAATAATAGCTTAATTGTA
*
21726093 TGAAAAATCAATAATTGAATAATAGTTTAATTGT
1 TGAAAAATCAATAATTGAATAATAGCTTAATTGT
21726127 GTACATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.45, C:0.04, G:0.14, T:0.36
Consensus pattern (35 bp):
TGAAAAATCAATAATTGAATAATAGCTTAATTGTA
Found at i:21728482 original size:2 final size:2
Alignment explanation
Indices: 21728475--21728517 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
21728465 GGACACATAG
21728475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21728517 T
1 T
21728518 TTTTTTTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21728693 original size:30 final size:29
Alignment explanation
Indices: 21728655--21728737 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 29
21728645 GAATTTTATC
21728655 ATTTTATTTAAATAAACTCTTAAACATTA
1 ATTTTATTTAAATAAACTCTTAAACATTA
* * * * **
21728684 ATTTATATTTGAATGAATTTTTAAATTTTA
1 ATTT-TATTTAAATAAACTCTTAAACATTA
21728714 ATTTGTATTTAAATAAACTCTTAA
1 ATTT-TATTTAAATAAACTCTTAA
21728738 TATAAATCAA
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 4 0.10
30 38 0.90
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (29 bp):
ATTTTATTTAAATAAACTCTTAAACATTA
Found at i:21730411 original size:24 final size:25
Alignment explanation
Indices: 21730376--21730428 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
21730366 ATTAAATGAT
21730376 AATTAGAATGTAT-AATAATTTTTA
1 AATTAGAATGTATAAATAATTTTTA
*
21730400 AATTA-AAGTGTATAAATATTTTTTA
1 AATTAGAA-TGTATAAATAATTTTTA
21730425 AATT
1 AATT
21730429 GATAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 10 0.38
25 14 0.54
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (25 bp):
AATTAGAATGTATAAATAATTTTTA
Found at i:21730435 original size:19 final size:19
Alignment explanation
Indices: 21730411--21730447 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21730401 ATTAAAGTGT
* *
21730411 ATAAATATTTTTTAAATTG
1 ATAAATATATTTCAAATTG
21730430 ATAAATATATTTCAAATT
1 ATAAATATATTTCAAATT
21730448 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
ATAAATATATTTCAAATTG
Found at i:21734043 original size:20 final size:20
Alignment explanation
Indices: 21734014--21734056 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
21734004 AATTGTTCTT
*
21734014 TTCGTTCATGACAACCCTTA
1 TTCGTCCATGACAACCCTTA
21734034 TTCGTCCATGACAACCCTTA
1 TTCGTCCATGACAACCCTTA
21734054 TTC
1 TTC
21734057 TGCTTTCAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.09, T:0.35
Consensus pattern (20 bp):
TTCGTCCATGACAACCCTTA
Found at i:21736355 original size:19 final size:19
Alignment explanation
Indices: 21736328--21736389 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
21736318 GTATTTGTTT
*
21736328 AACAGAAAATTAGTTGATC
1 AACAAAAAATTAGTTGATC
21736347 AACAAAAAA-TA-TT--T-
1 AACAAAAAATTAGTTGATC
*
21736361 AACAGAAAATTAGTTGATC
1 AACAAAAAATTAGTTGATC
21736380 AACAAAAAAT
1 AACAAAAAAT
21736390 AATTTAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 8 0.23
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 17 0.49
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (19 bp):
AACAAAAAATTAGTTGATC
Found at i:21736362 original size:33 final size:34
Alignment explanation
Indices: 21736325--21736396 Score: 137
Period size: 33 Copynumber: 2.1 Consensus size: 34
21736315 AAGGTATTTG
21736325 TTTAACAGAAAATTAGTTGATCAACAAAAAAT-A
1 TTTAACAGAAAATTAGTTGATCAACAAAAAATAA
21736358 TTTAACAGAAAATTAGTTGATCAACAAAAAATAA
1 TTTAACAGAAAATTAGTTGATCAACAAAAAATAA
21736392 TTTAA
1 TTTAA
21736397 TGATCAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 32 0.84
34 6 0.16
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.29
Consensus pattern (34 bp):
TTTAACAGAAAATTAGTTGATCAACAAAAAATAA
Found at i:21736538 original size:18 final size:18
Alignment explanation
Indices: 21736512--21736795 Score: 152
Period size: 18 Copynumber: 16.7 Consensus size: 18
21736502 AGCATAATTT
*
21736512 TATTGATAAATAATATTA
1 TATTAATAAATAATATTA
21736530 TATTAATAAATAA-A-TA
1 TATTAATAAATAATATTA
21736546 -A-T-AT--ATAA-A-TA
1 TATTAATAAATAATATTA
21736557 TATTAATAAATAATATTA
1 TATTAATAAATAATATTA
*
21736575 TATGAATAAATAATA-TA
1 TATTAATAAATAATATTA
*
21736592 CTGTTAAT--AT-A-A-TA
1 -TATTAATAAATAATATTA
* *
21736606 TATTAATAAATAGTGTTA
1 TATTAATAAATAATATTA
*
21736624 TATTACTAAAT-A-A-TA
1 TATTAATAAATAATATTA
*
21736639 TATT-A-AAATATTATTA
1 TATTAATAAATAATATTA
*
21736655 TATTAATTAATAAATATTA
1 TATTAATAAAT-AATATTA
*
21736674 TAATAAT--AT-AT-TTA
1 TATTAATAAATAATATTA
21736688 TATTAATAAATAATATTA
1 TATTAATAAATAATATTA
* *
21736706 TCTTAATAAA-AATATTG
1 TATTAATAAATAATATTA
* *
21736723 TATTATGTTAATAAATCATT-
1 TATTA-ATAAAT-AAT-ATTA
21736743 TATTAATAAATAATATATTATAA
1 TATTAATAAAT-A-ATA-T-T-A
*
21736766 TATTAATAAATAATATAA
1 TATTAATAAATAATATTA
* *
21736784 AAATAATAAATA
1 TATTAATAAATA
21736796 GTTTTATTTT
Statistics
Matches: 208, Mismatches: 26, Indels: 64
0.70 0.09 0.21
Matches are distributed among these distances:
11 7 0.03
12 1 0.00
13 13 0.06
14 15 0.07
15 13 0.06
16 16 0.08
17 19 0.09
18 74 0.36
19 19 0.09
20 12 0.06
21 7 0.03
22 1 0.00
23 11 0.05
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (18 bp):
TATTAATAAATAATATTA
Found at i:21736553 original size:15 final size:14
Alignment explanation
Indices: 21736535--21736591 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
21736525 TATTATATTA
21736535 ATAAATAAATAATAT
1 ATAAAT-AATAATAT
*
21736550 ATAAAT-ATATTA-
1 ATAAATAATAATAT
*
21736562 ATAAATAATATTAT
1 ATAAATAATAATAT
*
21736576 ATGAATAAATAATAT
1 ATAAAT-AATAATAT
21736591 A
1 A
21736592 CTGTTAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 6 0.17
13 11 0.31
14 5 0.14
15 14 0.39
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATAAATAATAATAT
Found at i:21736558 original size:27 final size:26
Alignment explanation
Indices: 21736528--21736582 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
21736518 TAAATAATAT
21736528 TATATTAATAAATAAATAATATATAAA
1 TATATTAATAAAT-AATAATATATAAA
* *
21736555 TATATTAATAAATAATATTATATGAA
1 TATATTAATAAATAATAATATATAAA
21736581 TA
1 TA
21736583 AATAATATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
TATATTAATAAATAATAATATATAAA
Found at i:21736610 original size:49 final size:47
Alignment explanation
Indices: 21736512--21736782 Score: 179
Period size: 49 Copynumber: 5.7 Consensus size: 47
21736502 AGCATAATTT
* *
21736512 TATTGATAAATAATATTATATTAATAAATAA-ATA-AT-ATATAAATA
1 TATTAATAAATAATATTATATTAATAAATAATATATTTAATAT-AATA
*
21736557 TATTAATAAATAATATTATATGAATAAATAATATACTGTTAATATAATA
1 TATTAATAAATAATATTATATTAATAAATAATATA-T-TTAATATAATA
* * * * *
21736606 TATTAATAAATAGTGTTATATTACTAAATAATATATTAAAATATTATTA
1 TATTAATAAATAATATTATATTAATAAATAATATATT-TAATA-TAATA
* * * *
21736655 TATTAATTAATAAATATTATAATAATATAT-TTATA-TTAATAAATAATA
1 TATTAATAAAT-AATATTATATTAATAAATAATATATTTAAT--ATAATA
* * *
21736703 TTATCTTAATAAA-AATATTGTATTATGTTAATAA-ATCATTT-AT-TAATA
1 -TA--TTAATAAATAATATTATATTA-ATAAATAATAT-ATTTAATATAATA
* * *
21736751 -AATAAT--ATATTATAATATTAATAAATAATATA
1 TATTAATAAATAATATTATATTAATAAATAATATA
21736783 AAAATAATAA
Statistics
Matches: 176, Mismatches: 31, Indels: 41
0.71 0.12 0.17
Matches are distributed among these distances:
42 8 0.05
43 11 0.06
44 4 0.02
45 29 0.16
46 4 0.02
47 4 0.02
48 15 0.09
49 67 0.38
50 22 0.12
51 10 0.06
52 2 0.01
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (47 bp):
TATTAATAAATAATATTATATTAATAAATAATATATTTAATATAATA
Found at i:21736640 original size:33 final size:31
Alignment explanation
Indices: 21736512--21736762 Score: 133
Period size: 31 Copynumber: 7.7 Consensus size: 31
21736502 AGCATAATTT
*
21736512 TATTGATAAATAATATTATATTAATAAATAA-A
1 TATTAATAAAT-AT-TTATATTAATAAATAATA
* * *
21736544 TAATATATAAATATATTA-ATAAAT-AATATTA
1 TATTA-ATAAATAT-TTATATTAATAAATAATA
* * *
21736575 TATGAATAAATAATATACTGTTAAT--ATAATA
1 TATTAATAAAT-ATTTA-TATTAATAAATAATA
*
21736606 TATTAATAAATAGTGTTATATTACTAAATAATA
1 TATTAATAAATA-T-TTATATTAATAAATAATA
*
21736639 TATT-A-AAATATTATTATATTAATTAATAA-A
1 TATTAATAAATA-T-TTATATTAATAAATAATA
21736669 TATTATAATAATATATTTATATTAATAAATAATA
1 TA-T-TAATAA-ATATTTATATTAATAAATAATA
* *
21736703 TTATCTTAATAAAAATATTGTATTATGTTAATAAATCATT
1 -TA--TTAAT--AAATATT-TA-TA--TTAATAAATAATA
*
21736743 TATTAATAAATA-ATATATTA
1 TATTAATAAATATTTATATTA
21736763 TAATATTAAT
Statistics
Matches: 173, Mismatches: 23, Indels: 48
0.71 0.09 0.20
Matches are distributed among these distances:
30 19 0.11
31 53 0.31
32 19 0.11
33 34 0.20
34 4 0.02
35 14 0.08
36 6 0.03
37 9 0.05
38 2 0.01
39 2 0.01
40 11 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (31 bp):
TATTAATAAATATTTATATTAATAAATAATA
Found at i:21736672 original size:22 final size:22
Alignment explanation
Indices: 21736644--21736778 Score: 66
Period size: 22 Copynumber: 6.1 Consensus size: 22
21736634 TAATATATTA
*
21736644 AAATATTATTATATTAATTAAT
1 AAATATTATAATATTAATTAAT
*
21736666 AAATATTATAATAATATATTTATAT
1 AAATATTATAAT-AT-TAATTA-AT
* * *
21736691 TAATA-AATAATATTATCTTAAT
1 AAATATTATAATATTA-ATTAAT
* ** *
21736713 AAA-AATATTGTATTATGTTAAT
1 AAATATTATAATATTA-ATTAAT
*
21736735 AAATCA-T-T--TATTAATAAAT
1 AAAT-ATTATAATATTAATTAAT
*
21736754 AATATATTATAATATTAATAAAT
1 AA-ATATTATAATATTAATTAAT
21736777 AA
1 AA
21736779 TATAAAAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 23
0.72 0.10 0.19
Matches are distributed among these distances:
19 7 0.08
20 8 0.09
21 2 0.02
22 34 0.38
23 21 0.24
24 11 0.12
25 6 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
AAATATTATAATATTAATTAAT
Found at i:21736673 original size:14 final size:14
Alignment explanation
Indices: 21736654--21736699 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
21736644 AAATATTATT
21736654 ATATTAATTAATAA
1 ATATTAATTAATAA
21736668 ATATT-A-TAATAA
1 ATATTAATTAATAA
21736680 TATATTTATATTAATAA
1 -ATA-TTA-ATTAATAA
21736697 ATA
1 ATA
21736700 ATATTATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 6 0.22
13 4 0.15
14 7 0.26
16 4 0.15
17 6 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATTAATTAATAA
Found at i:21736685 original size:35 final size:35
Alignment explanation
Indices: 21736625--21736788 Score: 104
Period size: 35 Copynumber: 4.6 Consensus size: 35
21736615 ATAGTGTTAT
* * * *
21736625 ATTACTAAATAATATATTAAAATATTATTATATTA
1 ATTAATAAATATTATAATAATATATTATTATATTA
21736660 ATTAATAAATATTATAATAATATA-T-TTATATTA
1 ATTAATAAATATTATAATAATATATTATTATATTA
* ** * * *
21736693 ATAAAT-AATATTATCTTAATAAAAATATTGTATTA
1 ATTAATAAATATTATAATAAT-ATATTATTATATTA
* *
21736728 TGTTAATAAATCATTTATTAATAA-ATAATATATTATAAT-
1 -ATTAATAAAT-A-TTA-TAATAATAT-AT-TATTATATTA
* *
21736767 ATTAATAAATAATATAAAAATA
1 ATTAATAAATATTATAATAATA
21736789 ATAAATAGTT
Statistics
Matches: 98, Mismatches: 20, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
32 12 0.12
33 15 0.15
34 2 0.02
35 32 0.33
36 7 0.07
37 4 0.04
38 11 0.11
39 4 0.04
40 11 0.11
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (35 bp):
ATTAATAAATATTATAATAATATATTATTATATTA
Found at i:21736783 original size:9 final size:10
Alignment explanation
Indices: 21736746--21736795 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
21736736 AATCATTTAT
21736746 TAATAAATAA
1 TAATAAATAA
*
21736756 TATATTATAATAT
1 TA-A-TA-AATAA
21736769 TAATAAATAA
1 TAATAAATAA
21736779 T-ATAAA-AA
1 TAATAAATAA
21736787 TAATAAATA
1 TAATAAATA
21736796 GTTTTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
8 3 0.09
9 10 0.30
10 8 0.24
11 3 0.09
12 3 0.09
13 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TAATAAATAA
Found at i:21736789 original size:38 final size:38
Alignment explanation
Indices: 21736540--21736789 Score: 114
Period size: 38 Copynumber: 6.1 Consensus size: 38
21736530 TATTAATAAA
* *
21736540 TAAATAATATATAAATATATTAATAAATAATATTATATGAA
1 TAAATAATATATTATTATATTAATAAATAATA-TA-AT-AA
* * *
21736581 TAAATAATATACTGTTAATATAATATATTAATAAATAGTGTTATATTAC
1 TAAATAATATA----T--TAT--TATATTAATAAATA---ATATAATAA
** *
21736630 TAAATAATATATTAAAATATTATTATATTAATTAATA-AATAT
1 TAAATAATATATTATTATATTA--ATA--AA-TAATATAATAA
*
21736672 TATAATAATATA-T-TTATATTAATAAATAATATTATCTTAA
1 TA-AATAATATATTATTATATTAATAAATAATA-TA--ATAA
* * * *
21736712 TAAA-AATAT-TGTATTATGTTAATAAATCATTTATTAA
1 TAAATAATATAT-TATTATATTAATAAATAATATAATAA
* *
21736749 TAAATAATATATTATAATATTAATAAATAATATAAAAA
1 TAAATAATATATTATTATATTAATAAATAATATAATAA
21736787 TAA
1 TAA
21736790 TAAATAGTTT
Statistics
Matches: 160, Mismatches: 23, Indels: 55
0.67 0.10 0.23
Matches are distributed among these distances:
36 5 0.03
37 10 0.06
38 34 0.21
39 9 0.06
40 19 0.12
41 23 0.14
42 6 0.04
43 16 0.10
45 4 0.03
46 2 0.01
47 1 0.01
49 26 0.16
50 1 0.01
51 2 0.01
52 2 0.01
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (38 bp):
TAAATAATATATTATTATATTAATAAATAATATAATAA
Found at i:21736858 original size:71 final size:69
Alignment explanation
Indices: 21736741--21736909 Score: 173
Period size: 71 Copynumber: 2.4 Consensus size: 69
21736731 TAATAAATCA
* *
21736741 TTTATTAATAAATAATATATTATAATATTAATAAATAATATAAAAATAATAA-ATAGTTTTATTT
1 TTTAATAATAAATAATAT-TT-TAATATTAATAAATAATATAAAAAT-ATAATATAGTTTTATAT
*
21736805 TAAGTATT
63 TAA-TAAT
* * * * **
21736813 TTTTATATTAACATAATATTTTAATATTAA-AAATTATTATTAAAATATAATTATTTTTTTATAT
1 TTTAATAATAA-ATAATATTTTAATATTAATAAA-TAATATAAAAATATAA-TATAGTTTTATAT
21736877 TAATAAT
63 TAATAAT
21736884 TTTAATAATAAATAAT-TTTTAATATT
1 TTTAATAATAAATAATATTTTAATATT
21736910 TTAATAGTTA
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
69 10 0.12
70 12 0.15
71 31 0.38
72 22 0.27
73 7 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (69 bp):
TTTAATAATAAATAATATTTTAATATTAATAAATAATATAAAAATATAATATAGTTTTATATTAA
TAAT
Found at i:21736878 original size:37 final size:36
Alignment explanation
Indices: 21736831--21736900 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
21736821 TAACATAATA
*
21736831 TTTTAATATTAAAAATTATTATTAA-AATATAATTATT
1 TTTTAATATTAAAAATT-TTAATAATAA-ATAATTATT
* *
21736868 TTTTTATATTAATAATTTTAATAATAAATAATT
1 TTTTAATATTAAAAATTTTAATAATAAATAATT
21736901 TTTAATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 12 0.41
37 17 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (36 bp):
TTTTAATATTAAAAATTTTAATAATAAATAATTATT
Found at i:21736886 original size:16 final size:16
Alignment explanation
Indices: 21736797--21736909 Score: 50
Period size: 16 Copynumber: 6.6 Consensus size: 16
21736787 TAATAAATAG
*
21736797 TTTTATTTTAAGT-ATT
1 TTTTATATTAA-TAATT
21736813 TTTTATATTAACATAATAT
1 TTTTATATT-A-ATAAT-T
* *
21736832 TTTAATATTAAAAATT
1 TTTTATATTAATAATT
* *
21736848 ATTATTAAAATATAATTATTT
1 -TT-TT-ATAT-TAA-TAATT
21736869 TTTTATATTAATAA-T
1 TTTTATATTAATAATT
* *
21736884 TTTAATAATAAATAATT
1 TTTTAT-ATTAATAATT
*
21736901 TTTAATATT
1 TTTTATATT
21736910 TTAATAGTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
15 6 0.08
16 20 0.27
17 18 0.24
18 8 0.11
19 14 0.19
20 5 0.07
21 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (16 bp):
TTTTATATTAATAATT
Found at i:21736909 original size:32 final size:32
Alignment explanation
Indices: 21736785--21736909 Score: 83
Period size: 37 Copynumber: 3.7 Consensus size: 32
21736775 ATAATATAAA
* * *
21736785 AATAATAAAT-AGTTTT-ATTTTAAGTATTTTT
1 AATAATAAATAATTTTTAATATTAA-TAATTTT
* * *
21736816 TATATTAACATAATATTTTAATATTAAAAATTATT
1 AATAATAA-ATAAT-TTTTAATATTAATAATT-TT
* * *
21736851 ATTAAAATATAATTATTTTTTTATATTAATAATTTT
1 A--ATAATA-AA-TAATTTTTAATATTAATAATTTT
21736887 AATAATAAATAATTTTTAATATT
1 AATAATAAATAATTTTTAATATT
21736910 TTAATAGTTA
Statistics
Matches: 70, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
31 6 0.09
32 14 0.20
33 3 0.04
34 12 0.17
35 8 0.11
36 3 0.04
37 20 0.29
38 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (32 bp):
AATAATAAATAATTTTTAATATTAATAATTTT
Found at i:21738847 original size:30 final size:28
Alignment explanation
Indices: 21738795--21738867 Score: 74
Period size: 30 Copynumber: 2.5 Consensus size: 28
21738785 TATCATTTTA
* *
21738795 ATTAATAAATTTATAATTTAAATATCAT
1 ATTAAAAAATTTTTAATTTAAATATCAT
*
21738823 ATTAAAAAATTTTTAAATTTTAAATATTAT
1 ATTAAAAAATTTTT-AA-TTTAAATATCAT
* *
21738853 AGTAAATATATTTTT
1 ATTAAA-AAATTTTT
21738868 TATATTTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.32
29 2 0.05
30 16 0.43
31 7 0.19
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
ATTAAAAAATTTTTAATTTAAATATCAT
Found at i:21739200 original size:4 final size:4
Alignment explanation
Indices: 21739187--21739221 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
21739177 TCCCAATCTT
*
21739187 TTTC -TTC TTTC TTTC TTTC TTTC TTGC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
21739222 CCATTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:21740058 original size:11 final size:11
Alignment explanation
Indices: 21740036--21740068 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
21740026 TGTTTTAATT
21740036 TTTTGTTTCTAA
1 TTTTG-TTCTAA
21740048 TTTTGTTCTAA
1 TTTTGTTCTAA
21740059 TTTT-TTCTAA
1 TTTTGTTCTAA
21740069 ATGACTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.29
11 10 0.48
12 5 0.24
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (11 bp):
TTTTGTTCTAA
Found at i:21741267 original size:26 final size:26
Alignment explanation
Indices: 21741238--21741288 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
21741228 TTCAAGTATC
21741238 ATTCGAATTGGTGCTTCACTATTCAA
1 ATTCGAATTGGTGCTTCACTATTCAA
*
21741264 ATTCGAATTGGTGCTTCATTATTCA
1 ATTCGAATTGGTGCTTCACTATTCA
21741289 TGTTGTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (26 bp):
ATTCGAATTGGTGCTTCACTATTCAA
Found at i:21742729 original size:17 final size:18
Alignment explanation
Indices: 21742709--21742742 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21742699 TTGATTAATC
21742709 TCTTAAA-TATCAAGATG
1 TCTTAAACTATCAAGATG
*
21742726 TCTTAAACTGTCAAGAT
1 TCTTAAACTATCAAGAT
21742743 TTTGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TCTTAAACTATCAAGATG
Found at i:21753671 original size:59 final size:59
Alignment explanation
Indices: 21753599--21753717 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
21753589 AGATTAATCA
*
21753599 TGTCGGAATATTTCAGTTTAGATTAAACATAAAATTGAAAATCATTTGAGTTGTGAATT
1 TGTCAGAATATTTCAGTTTAGATTAAACATAAAATTGAAAATCATTTGAGTTGTGAATT
*
21753658 TGTCAGAATATTTCAGTTTAGATTAAACATAAAATTGAAAATCATTTGGGTTGTGAATT
1 TGTCAGAATATTTCAGTTTAGATTAAACATAAAATTGAAAATCATTTGAGTTGTGAATT
21753717 T
1 T
21753718 TATCTTTAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (59 bp):
TGTCAGAATATTTCAGTTTAGATTAAACATAAAATTGAAAATCATTTGAGTTGTGAATT
Found at i:21754388 original size:136 final size:135
Alignment explanation
Indices: 21754246--21754509 Score: 422
Period size: 136 Copynumber: 1.9 Consensus size: 135
21754236 CTAAAAACTA
* * * * * *
21754246 AATTACTTGGTTCATGGTTGTGAAATATCTGGCTAACATTCTTCCTGAAGCCTGGGTTGCTGACT
1 AATTACTTGGTTCATGGTTATGAAATATATGGCCAACATTCTTCCTGAAACCTAGGTTGCTCAC-
* * *
21754311 TCCTTG-ATCATCATATCCTTTTTTAAAGTTTGATGCTTTTATGGAGTTAGGGGGAGTGCATGCT
65 ACCCTGAATCATCATATCCTTTTTTAAAG-TTGATGCTTTTATGGAATTAGGGGGAGTGCATGCT
21754375 TTTATGC
129 TTTATGC
21754382 AATTACTTGGTTCATGGTTATGAAATATATGGCCAACATTCTTCCTGAAACCTAGGTTGCTCACA
1 AATTACTTGGTTCATGGTTATGAAATATATGGCCAACATTCTTCCTGAAACCTAGGTTGCTCACA
21754447 CCCTGAATCATCATATCCTTTTTTAAAGTTGATGCTTTTATGGAATTAGGGGGAGTGCATGCT
66 CCCTGAATCATCATATCCTTTTTTAAAGTTGATGCTTTTATGGAATTAGGGGGAGTGCATGCT
21754510 GCAATGGTTG
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
135 38 0.32
136 80 0.68
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (135 bp):
AATTACTTGGTTCATGGTTATGAAATATATGGCCAACATTCTTCCTGAAACCTAGGTTGCTCACA
CCCTGAATCATCATATCCTTTTTTAAAGTTGATGCTTTTATGGAATTAGGGGGAGTGCATGCTTT
TATGC
Found at i:21760416 original size:17 final size:18
Alignment explanation
Indices: 21760394--21760435 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21760384 AATCCAATTG
*
21760394 TTTTTGTTT-CTTTTTTT
1 TTTTTGTTTGCTTTTCTT
21760411 TTTTTGTTTGCTTTTCTT
1 TTTTTGTTTGCTTTTCTT
*
21760429 CTTTTGT
1 TTTTTGT
21760436 CAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.81
Consensus pattern (18 bp):
TTTTTGTTTGCTTTTCTT
Found at i:21765287 original size:17 final size:17
Alignment explanation
Indices: 21765265--21765299 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21765255 CATACTTTTA
*
21765265 TATATTTTTAATACAAT
1 TATATTTCTAATACAAT
21765282 TATATTTCTAATACAAT
1 TATATTTCTAATACAAT
21765299 T
1 T
21765300 GGATAAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATTTCTAATACAAT
Found at i:21771204 original size:21 final size:21
Alignment explanation
Indices: 21771180--21771241 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 21
21771170 TATTATATGA
21771180 ATAAAATAATATTTTTATTAT
1 ATAAAATAATATTTTTATTAT
* *
21771201 AT-AAAT-AT-TTATTATTAA
1 ATAAAATAATATTTTTATTAT
*
21771219 ATTAAAATAATATCTTATATTAT
1 A-TAAAATAATAT-TTTTATTAT
21771242 TAATATATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
18 9 0.29
19 3 0.10
20 8 0.26
21 4 0.13
22 1 0.03
23 6 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATAATATTTTTATTAT
Found at i:21771225 original size:40 final size:41
Alignment explanation
Indices: 21771181--21771274 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
21771171 ATTATATGAA
* *
21771181 TAAAATAATATTTTTATTATATAA-ATATTTAT-TATTAAAT
1 TAAAATAATATTTATATTAT-TAATATATTAATATATTAAAT
*
21771221 TAAAATAATATCTTATATTATTAATATATTAATATATTATAT
1 TAAAATAATAT-TTATATTATTAATATATTAATATATTAAAT
21771263 TAACAAT-ATATT
1 TAA-AATAATATT
21771275 ATTAAAATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
40 14 0.30
41 16 0.34
42 14 0.30
43 3 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (41 bp):
TAAAATAATATTTATATTATTAATATATTAATATATTAAAT
Found at i:21771252 original size:8 final size:8
Alignment explanation
Indices: 21771226--21771372 Score: 54
Period size: 8 Copynumber: 18.2 Consensus size: 8
21771216 TAAATTAAAA
*
21771226 TAATATCT
1 TAATATAT
21771234 T-ATATTAT
1 TAATA-TAT
21771242 TAATATAT
1 TAATATAT
21771250 TAATATAT
1 TAATATAT
*
21771258 T-ATATTAA
1 TAATA-TAT
*
21771266 CAATATAT
1 TAATATAT
* * *
21771274 TATTAAAA
1 TAATATAT
21771282 TAATATAT
1 TAATATAT
*
21771290 T-ATTTAT
1 TAATATAT
21771297 TAATAT-T
1 TAATATAT
* * *
21771304 ATACTTTTAAA
1 -TA-ATAT-AT
*
21771315 TAATATGT
1 TAATATAT
*
21771323 TAATA-AA
1 TAATATAT
21771330 TAATATAT
1 TAATATAT
*
21771338 TAATACAT
1 TAATATAT
*
21771346 TAATAAAT
1 TAATATAT
*
21771354 AAATA-AT
1 TAATATAT
21771361 ATAATAATAT
1 -TAAT-ATAT
21771371 TA
1 TA
21771373 TTATTATTAT
Statistics
Matches: 99, Mismatches: 27, Indels: 25
0.66 0.18 0.17
Matches are distributed among these distances:
7 20 0.20
8 62 0.63
9 13 0.13
10 4 0.04
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (8 bp):
TAATATAT
Found at i:21771253 original size:24 final size:24
Alignment explanation
Indices: 21771226--21771275 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
21771216 TAAATTAAAA
* **
21771226 TAATATCTTATATTATTAATATAT
1 TAATATATTATATTAACAATATAT
21771250 TAATATATTATATTAACAATATAT
1 TAATATATTATATTAACAATATAT
21771274 TA
1 TA
21771276 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATATATTATATTAACAATATAT
Found at i:21771305 original size:29 final size:28
Alignment explanation
Indices: 21771206--21771302 Score: 90
Period size: 29 Copynumber: 3.5 Consensus size: 28
21771196 ATTATATAAA
* * *
21771206 TATTTATTATTAAATTAAAATAATATCT
1 TATTTATTAATATATTAAAATAATATAT
* *
21771234 TATATTATTAATATATTAATATATTATAT
1 TAT-TTATTAATATATTAAAATAATATAT
** *
21771263 TA-ACAAT-ATATTATTAAAATAATATAT
1 TATTTATTAATA-TATTAAAATAATATAT
21771290 TATTTATTAATAT
1 TATTTATTAATAT
21771303 TATACTTTTA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
26 3 0.06
27 18 0.35
28 6 0.12
29 25 0.48
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TATTTATTAATATATTAAAATAATATAT
Found at i:21771329 original size:15 final size:15
Alignment explanation
Indices: 21771239--21771369 Score: 72
Period size: 15 Copynumber: 8.5 Consensus size: 15
21771229 TATCTTATAT
*
21771239 TATTAATATATTAATA
1 TATTAATA-AATAATA
* *
21771255 TATTATATTAACAATA
1 TATTA-ATAAATAATA
*
21771271 TATTATTAAAATAATA
1 TATTAAT-AAATAATA
* *
21771287 TATTATTTATTAATATTA
1 TATTA---ATAAATAATA
*
21771305 TACTT-TTAAATAATA
1 TA-TTAATAAATAATA
*
21771320 TGTTAATAAATAATA
1 TATTAATAAATAATA
*
21771335 TATTAATACAT--TA
1 TATTAATAAATAATA
*
21771348 -ATAAATAAATAATA
1 TATTAATAAATAATA
*
21771362 TAATAATA
1 TATTAATA
21771370 TTATTATTAT
Statistics
Matches: 85, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
12 8 0.09
13 2 0.02
14 4 0.05
15 32 0.38
16 26 0.31
17 2 0.02
18 8 0.09
19 3 0.04
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (15 bp):
TATTAATAAATAATA
Found at i:21771374 original size:3 final size:3
Alignment explanation
Indices: 21771368--21771396 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21771358 AATATAATAA
21771368 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21771397 ACAATGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21775242 original size:2 final size:2
Alignment explanation
Indices: 21775230--21775267 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
21775220 TCTGATCCAG
* *
21775230 TA TA CA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21775268 AAATTATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:21779447 original size:22 final size:22
Alignment explanation
Indices: 21779422--21779474 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
21779412 TTTTAAGCAT
* * **
21779422 TATTTTTTGTTTTTTTCTTCTA
1 TATTTTTTGTTTTATTATTAAA
21779444 TATTTATTT-TTTTATTATTAAA
1 TATTT-TTTGTTTTATTATTAAA
21779466 TATTTTTTG
1 TATTTTTTG
21779475 AAAGGTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (22 bp):
TATTTTTTGTTTTATTATTAAA
Found at i:21781103 original size:26 final size:27
Alignment explanation
Indices: 21781074--21781124 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
21781064 TAATCTAATA
*
21781074 TATATTTTATTATT-TATTTA-ATTTTG
1 TATATTTAATT-TTATATTTATATTTTG
21781100 TATATTTAATTTTATATTTATATTT
1 TATATTTAATTTTATATTTATATTT
21781125 AAAAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 2 0.09
26 16 0.73
27 4 0.18
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
TATATTTAATTTTATATTTATATTTTG
Found at i:21781107 original size:14 final size:13
Alignment explanation
Indices: 21781074--21781124 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
21781064 TAATCTAATA
* *
21781074 TATATTTTATTAT
1 TATATTTAATTTT
21781087 T-TATTTAATTTT
1 TATATTTAATTTT
21781099 GTATATTTAA-TTT
1 -TATATTTAATTTT
21781112 TATATTTATATTT
1 TATATTTA-ATTT
21781125 AAAAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 17 0.53
13 6 0.19
14 9 0.28
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TATATTTAATTTT
Found at i:21781141 original size:20 final size:19
Alignment explanation
Indices: 21781116--21781155 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21781106 TAATTTTATA
21781116 TTTATATTTAAAAATAATAT
1 TTTATA-TTAAAAATAATAT
21781136 TTTATATTAAAAATAATAT
1 TTTATATTAAAAATAATAT
21781155 T
1 T
21781156 AAATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTATATTAAAAATAATAT
Found at i:21781173 original size:17 final size:16
Alignment explanation
Indices: 21781131--21781187 Score: 70
Period size: 15 Copynumber: 3.8 Consensus size: 16
21781121 ATTTAAAAAT
21781131 AATATTTTATATTAAA
1 AATATTTTATATTAAA
21781147 AATA----ATATTAAA
1 AATATTTTATATTAAA
21781159 TAATATTTTATATTAAA
1 -AATATTTTATATTAAA
21781176 AA-ATTTTATATT
1 AATATTTTATATT
21781188 TTATTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.22
13 4 0.11
15 10 0.28
16 6 0.17
17 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AATATTTTATATTAAA
Found at i:21783061 original size:22 final size:23
Alignment explanation
Indices: 21783036--21783079 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
21783026 AAAAAATCAA
21783036 ATTTTCTTGAATTATT-TTTATC
1 ATTTTCTTGAATTATTATTTATC
* *
21783058 ATTTTCTTTATTTATTATTTAT
1 ATTTTCTTGAATTATTATTTAT
21783080 AAAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (23 bp):
ATTTTCTTGAATTATTATTTATC
Done.