Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 51
Found at i:2520399 original size:13 final size:13
Alignment explanation
Indices: 2520383--2520438 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
2520373 AAAGTGTTTG
2520383 AATATAAGTATTA
1 AATATAAGTATTA
2520396 AATATAAAGTA-T-
1 AATAT-AAGTATTA
2520408 --TAT-AGTATATA
1 AATATAAGTAT-TA
*
2520419 AATATAAGTATTG
1 AATATAAGTATTA
2520432 AATATAA
1 AATATAA
2520439 AATATATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
8 4 0.11
10 4 0.11
13 17 0.49
14 10 0.29
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.38
Consensus pattern (13 bp):
AATATAAGTATTA
Found at i:2520414 original size:22 final size:22
Alignment explanation
Indices: 2520210--2520430 Score: 92
Period size: 22 Copynumber: 9.9 Consensus size: 22
2520200 TATGGATATA
2520210 AGTATTAAATATAAAGTATTAT
1 AGTATTAAATATAAAGTATTAT
2520232 AGTATATAAATAT-AAGTATTA-
1 AGTAT-TAAATATAAAGTATTAT
* * * *
2520253 AATATAAAATATATTAATTATCAT
1 AGTATTAAATATA--AAGTATTAT
*
2520277 A--ATTAATATATTAAGTATTAT
1 AGTATTAA-ATATAAAGTATTAT
* *
2520298 A-TA-TATATATATA-TA-TAT
1 AGTATTAAATATAAAGTATTAT
*
2520316 A-TATATAAAGTATAAATTA-TAT
1 AGTAT-TAAA-TATAAAGTATTAT
*
2520338 AATA-TAAAGTATTAAAGTA-TAT
1 AGTATTAAA-TA-TAAAGTATTAT
* *
2520360 AATA-TAAAGTAATAAAGTGTTTGAATAT
1 AGTATTAAA-T-ATAAA--G--T-ATTAT
2520388 AAGTATTAAATATAAAGTATTAT
1 -AGTATTAAATATAAAGTATTAT
2520411 AGTATATAAATAT-AAGTATT
1 AGTAT-TAAATATAAAGTATT
2520431 GAATATAAAA
Statistics
Matches: 160, Mismatches: 16, Indels: 46
0.72 0.07 0.21
Matches are distributed among these distances:
18 6 0.04
19 2 0.01
20 14 0.09
21 26 0.16
22 59 0.37
23 31 0.19
24 3 0.02
26 2 0.01
27 1 0.01
28 8 0.05
29 4 0.03
30 4 0.03
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
AGTATTAAATATAAAGTATTAT
Found at i:2520426 original size:179 final size:179
Alignment explanation
Indices: 2520126--2520469 Score: 636
Period size: 179 Copynumber: 1.9 Consensus size: 179
2520116 AAAATATAAG
2520126 TATATAAGTATATATATAAAGTATAAAGTATATAATATAAAGTATTAAAGTATATAATATAAAGT
1 TATATAAGTATATATATAAAGTATAAAGTATATAATATAAAGTATTAAAGTATATAATATAAAGT
*
2520191 AATAAAGTGTATGGATATAAGTATTAAATATAAAGTATTATAGTATATAAATATAAGTATTAAAT
66 AATAAAGTGTATGAATATAAGTATTAAATATAAAGTATTATAGTATATAAATATAAGTATTAAAT
2520256 ATAAAATATATTAATTATCATAATTAATATATTAAGTATTATATATATA
131 ATAAAATATATTAATTATCATAATTAATATATTAAGTATTATATATATA
*
2520305 TATATATA-TATATATATAAAGTATAAATTATATAATATAAAGTATTAAAGTATATAATATAAAG
1 TATATA-AGTATATATATAAAGTATAAAGTATATAATATAAAGTATTAAAGTATATAATATAAAG
* *
2520369 TAATAAAGTGTTTGAATATAAGTATTAAATATAAAGTATTATAGTATATAAATATAAGTATTGAA
65 TAATAAAGTGTATGAATATAAGTATTAAATATAAAGTATTATAGTATATAAATATAAGTATTAAA
2520434 TATAAAATATATTAATTATCATAATTAATATATTAA
130 TATAAAATATATTAATTATCATAATTAATATATTAA
2520470 CTATATTTAT
Statistics
Matches: 160, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
179 159 0.99
180 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.40
Consensus pattern (179 bp):
TATATAAGTATATATATAAAGTATAAAGTATATAATATAAAGTATTAAAGTATATAATATAAAGT
AATAAAGTGTATGAATATAAGTATTAAATATAAAGTATTATAGTATATAAATATAAGTATTAAAT
ATAAAATATATTAATTATCATAATTAATATATTAAGTATTATATATATA
Found at i:2520436 original size:36 final size:35
Alignment explanation
Indices: 2520108--2520445 Score: 202
Period size: 36 Copynumber: 9.5 Consensus size: 35
2520098 TATACATATA
* *
2520108 TAAACTATAAAATATA-AGTATATAAGTAT-A-TAT
1 TAAA-TATAAAGTATATAGTATATAAATATAAGTAT
2520141 ATAAAGTATAAAGTATATA--ATATAAAGTATTAAAGTA-
1 -TAAA-TATAAAGTATATAGTATATAAA-TA-T-AAGTAT
* * **
2520178 TATAATATAAAGTAATAAAGTGTATGGATATAAGTAT
1 TA-AATATAAAGT-ATATAGTATATAAATATAAGTAT
2520215 TAAATATAAAGTATTATAGTATATAAATATAAGTAT
1 TAAATATAAAGTA-TATAGTATATAAATATAAGTAT
* * *
2520251 TAAATATAAAATATATTAAT-TATCATAAT-TAATATAT
1 TAAATATAAAGTATA-TAGTATAT-A-AATATAA-GTAT
* * *
2520288 TAAGTAT-TA-TATATA-TATATATATATATA-TAT
1 TAAATATAAAGTATATAGTATATAAATATA-AGTAT
*
2520320 ATAAAGTATAAATTATATA--ATATAAAGTATTAAAGTA-
1 -TAAA-TATAAAGTATATAGTATATAAA-TA-T-AAGTAT
* * * *
2520357 TATAATATAAAGTAATAAAGTGTTTGAATATAAGTAT
1 TA-AATATAAAGT-ATATAGTATATAAATATAAGTAT
2520394 TAAATATAAAGTATTATAGTATATAAATATAAGTAT
1 TAAATATAAAGTA-TATAGTATATAAATATAAGTAT
* *
2520430 TGAATATAAAATATAT
1 TAAATATAAAGTATAT
2520446 TAATTATCAT
Statistics
Matches: 240, Mismatches: 31, Indels: 65
0.71 0.09 0.19
Matches are distributed among these distances:
32 5 0.02
33 13 0.05
34 25 0.10
35 23 0.10
36 124 0.52
37 33 0.14
38 9 0.04
39 8 0.03
ACGTcount: A:0.53, C:0.01, G:0.08, T:0.38
Consensus pattern (35 bp):
TAAATATAAAGTATATAGTATATAAATATAAGTAT
Found at i:2520465 original size:21 final size:21
Alignment explanation
Indices: 2520439--2520511 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
2520429 TTGAATATAA
2520439 AATATATTAATTATCATAATT
1 AATATATTAATTATCATAATT
*
2520460 AATATATTAACTAT-AT--TT
1 AATATATTAATTATCATAATT
*
2520478 ATTA-ATTTAATTATCATAATT
1 AATATA-TTAATTATCATAATT
*
2520499 AATAT-TTTATTAT
1 AATATATTAATTAT
2520512 AACATTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
17 1 0.02
18 12 0.29
19 2 0.05
20 9 0.21
21 18 0.43
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATATTAATTATCATAATT
Found at i:2520499 original size:18 final size:19
Alignment explanation
Indices: 2520442--2520504 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
2520432 AATATAAAAT
2520442 ATATTAATTATCATAATTAA
1 ATATTAATTATCATAATT-A
* *
2520462 TATATTAACTAT-ATTTATTA
1 -ATATTAATTATCA-TAATTA
2520482 AT-TTAATTATCATAATTA
1 ATATTAATTATCATAATTA
2520500 ATATT
1 ATATT
2520505 TTATTATAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 14 0.40
19 5 0.14
20 2 0.06
21 14 0.40
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTAATTATCATAATTA
Found at i:2520679 original size:16 final size:16
Alignment explanation
Indices: 2520660--2520710 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
2520650 TCATTTACAA
*
2520660 GTCAGGTTGAAAATAG
1 GTCAGGTTGAAAACAG
* *
2520676 GTCAGGTTCATAACAG
1 GTCAGGTTGAAAACAG
*
2520692 GCCAGGTTGAAAACAG
1 GTCAGGTTGAAAACAG
2520708 GTC
1 GTC
2520711 GGGTAATACC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (16 bp):
GTCAGGTTGAAAACAG
Found at i:2522188 original size:29 final size:29
Alignment explanation
Indices: 2522155--2522213 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2522145 TTATATTTGG
2522155 TAAAAGATTAAGCATTCAGACATGTCATT
1 TAAAAGATTAAGCATTCAGACATGTCATT
*
2522184 TAAAAGATTAAGCATTCAGATATGTCATT
1 TAAAAGATTAAGCATTCAGACATGTCATT
2522213 T
1 T
2522214 GCTGTGTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAAAGATTAAGCATTCAGACATGTCATT
Found at i:2531768 original size:17 final size:18
Alignment explanation
Indices: 2531748--2531785 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2531738 ATTATATAAG
2531748 TAAAAT-ATTAAATAAAT
1 TAAAATGATTAAATAAAT
*
2531765 T-AAATGCTTAAATAAAT
1 TAAAATGATTAAATAAAT
2531782 TAAA
1 TAAA
2531786 TACAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 4 0.22
17 12 0.67
18 2 0.11
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAAATGATTAAATAAAT
Found at i:2532642 original size:24 final size:24
Alignment explanation
Indices: 2532615--2532662 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2532605 ATGATATGTT
2532615 AATAATAAAATGTGATTTGAGGAG
1 AATAATAAAATGTGATTTGAGGAG
2532639 AATAATAAAATGTGATTTGAGGAG
1 AATAATAAAATGTGATTTGAGGAG
2532663 TCATCACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (24 bp):
AATAATAAAATGTGATTTGAGGAG
Found at i:2533325 original size:131 final size:131
Alignment explanation
Indices: 2533083--2533450 Score: 470
Period size: 131 Copynumber: 2.8 Consensus size: 131
2533073 TAATTCTAAG
* * * *
2533083 AGAGAAAACGATAATATCTAATTATTTCCGATCGAGAATAAATAACCTATCATGCCTTAAAGCAT
1 AGAGAAAACGATAATATCTAATTATTTCTGATCGAGAATAAATGACCTCTCATGCCTTAAAGCAA
* * * *
2533148 TCATTTATTACTCCACTCGAAATGAAAATATATCATTATTTCGTCTTAAAATTCAATATTGATTC
66 TCATTTATTACTCCAATCGAAATGAAAAGATATCACTATTTCGTCTTAAAAATCAATATTGATTC
*
2533213 G
131 A
* * * * * * *
2533214 AGTGAGAACGATAATATCTAATGATTTCTAATCGATAATAAATGATCTCTTATGCCTTAAAGCAA
1 AGAGAAAACGATAATATCTAATTATTTCTGATCGAGAATAAATGACCTCTCATGCCTTAAAGCAA
* *
2533279 TCATTTATTACTCTAATCGAAATGAAGAGATATCACTATTAT-GTCTTAAAAATCAATATTGATT
66 TCATTTATTACTCCAATCGAAATGAAAAGATATCACTATT-TCGTCTTAAAAATCAATATTGATT
2533343 CA
130 CA
* * * * *
2533345 AGAGAAAATGGTAATATATAATTATTT-TCGATCGAGAATAAATGACCTCTCATGCCGTAAAACA
1 AGAGAAAACGATAATATCTAATTATTTCT-GATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * *
2533409 ATCATTTATTTCTCCAACCGAAATGAAAAGATATTACTATTT
65 ATCATTTATTACTCCAATCGAAATGAAAAGATATCACTATTT
2533451 TCAATATCGA
Statistics
Matches: 200, Mismatches: 35, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
130 2 0.01
131 197 0.99
132 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (131 bp):
AGAGAAAACGATAATATCTAATTATTTCTGATCGAGAATAAATGACCTCTCATGCCTTAAAGCAA
TCATTTATTACTCCAATCGAAATGAAAAGATATCACTATTTCGTCTTAAAAATCAATATTGATTC
A
Found at i:2535909 original size:21 final size:22
Alignment explanation
Indices: 2535883--2535954 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
2535873 AGTCGAGGGT
*
2535883 TTCATAGGTCATTCGGGATA-A
1 TTCATAGGTCATTCGGGACATA
2535904 TTCATAGGTCATTCGGGACATA
1 TTCATAGGTCATTCGGGACATA
* *
2535926 TTCATAGGTCCTTCGGGACAAA
1 TTCATAGGTCATTCGGGACATA
2535948 TTTCATA
1 -TTCATA
2535955 TGCCACTCAG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 19 0.41
22 21 0.46
23 6 0.13
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (22 bp):
TTCATAGGTCATTCGGGACATA
Found at i:2535931 original size:22 final size:21
Alignment explanation
Indices: 2535883--2535946 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
2535873 AGTCGAGGGT
*
2535883 TTCATAGGTCATTCGGGATAA
1 TTCATAGGTCATTCGGGACAA
2535904 TTCATAGGTCATTCGGGACATA
1 TTCATAGGTCATTCGGGACA-A
*
2535926 TTCATAGGTCCTTCGGGACAA
1 TTCATAGGTCATTCGGGACAA
2535947 ATTTCATATG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 20 0.50
22 20 0.50
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (21 bp):
TTCATAGGTCATTCGGGACAA
Found at i:2537416 original size:3 final size:3
Alignment explanation
Indices: 2537408--2537469 Score: 115
Period size: 3 Copynumber: 20.3 Consensus size: 3
2537398 CTGCAACATT
2537408 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
2537454 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
2537470 GTCGGCACGA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2538194 original size:18 final size:18
Alignment explanation
Indices: 2538141--2538188 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
2538131 TGGCTATCAT
2538141 GTGAATATTATTTCAAAA
1 GTGAATATTATTTCAAAA
2538159 GTGAATATTATTTCAAAA
1 GTGAATATTATTTCAAAA
*
2538177 GTGAAAATTATT
1 GTGAATATTATT
2538189 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (18 bp):
GTGAATATTATTTCAAAA
Found at i:2538250 original size:15 final size:17
Alignment explanation
Indices: 2538219--2538251 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
2538209 TTGTCAACAT
2538219 TTTTGTTAATAAAATAA
1 TTTTGTTAATAAAATAA
2538236 TTTTGTT-AT-AAATAA
1 TTTTGTTAATAAAATAA
2538251 T
1 T
2538252 ATTTAAGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTTTGTTAATAAAATAA
Found at i:2538757 original size:66 final size:66
Alignment explanation
Indices: 2538675--2538808 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
2538665 TTATAAGATT
2538675 ATTTAATATTTTATACTTATTTATTTATTTATTTTTAATTATTTGTTTTATGATAATATATCAAT
1 ATTTAATATTTTATACTTATTTATTTATTTATTTTTAATTATTTGTTTTATGATAATATATCAAT
2538740 G
66 G
*
2538741 ATTTAATATTTTATACTTATTTATTTATTTATTTTTATTTATTTGTTTTATGATAATATATCAAT
1 ATTTAATATTTTATACTTATTTATTTATTTATTTTTAATTATTTGTTTTATGATAATATATCAAT
2538806 G
66 G
2538807 AT
1 AT
2538809 AAATCTTACA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (66 bp):
ATTTAATATTTTATACTTATTTATTTATTTATTTTTAATTATTTGTTTTATGATAATATATCAAT
G
Found at i:2538771 original size:18 final size:18
Alignment explanation
Indices: 2538750--2538784 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2538740 GATTTAATAT
2538750 TTTATACTTATTTATTTA
1 TTTATACTTATTTATTTA
**
2538768 TTTATTTTTATTTATTT
1 TTTATACTTATTTATTT
2538785 GTTTTATGAT
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:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATACTTATTTATTTA
Found at i:2538777 original size:14 final size:14
Alignment explanation
Indices: 2538760--2538789 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2538750 TTTATACTTA
2538760 TTTATTTATTTATT
1 TTTATTTATTTATT
*
2538774 TTTATTTATTTGTT
1 TTTATTTATTTATT
2538788 TT
1 TT
2538790 ATGATAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:2539740 original size:39 final size:39
Alignment explanation
Indices: 2539664--2539741 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
2539654 ATAAAAAAAA
** **
2539664 ATGACATTGTTGATCATGTACACTTGAATGTTTCTGATT
1 ATGACATTGTTGATCAAATACACTTGAATGTAACTGATT
* *
2539703 ATGACATTGTTGGTCAAATACACTTGGATGTAACTGATT
1 ATGACATTGTTGATCAAATACACTTGAATGTAACTGATT
2539742 TCTTCACCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (39 bp):
ATGACATTGTTGATCAAATACACTTGAATGTAACTGATT
Found at i:2543053 original size:6 final size:6
Alignment explanation
Indices: 2543042--2543106 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
2543032 TAGCCAACAT
* * * *
2543042 TATAAA TAT-AA -ATAAA TATAAA GATAATA TATATA TATATA TATATA
1 TATAAA TATAAA TATAAA TATAAA TATAA-A TATAAA TATAAA TATAAA
* *
2543089 TATATA TATATA TATAAA
1 TATAAA TATAAA TATAAA
2543107 AGAGAAAGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
4 2 0.04
5 4 0.08
6 42 0.81
7 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (6 bp):
TATAAA
Found at i:2543058 original size:10 final size:10
Alignment explanation
Indices: 2543042--2543104 Score: 63
Period size: 10 Copynumber: 6.2 Consensus size: 10
2543032 TAGCCAACAT
2543042 TATAAATATA
1 TATAAATATA
*
2543052 AATAAATATA
1 TATAAATATA
* *
2543062 AAGATAATATA
1 TATA-AATATA
*
2543073 TATATATATA
1 TATAAATATA
*
2543083 TATATATATA
1 TATAAATATA
*
2543093 TATATATATA
1 TATAAATATA
2543103 TA
1 TA
2543105 AAAGAGAAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
10 39 0.83
11 8 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TATAAATATA
Found at i:2543075 original size:2 final size:2
Alignment explanation
Indices: 2543068--2543104 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2543058 TATAAAGATA
2543068 AT AT AT AT AT 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 AT AT AT AT AT A
2543105 AAAGAGAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2545438 original size:19 final size:19
Alignment explanation
Indices: 2545381--2545438 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
2545371 TTTTGTTTCA
*
2545381 AGAGAAATTGTCTCAAGTG
1 AGAGAAATTGTCTCATGTG
* * *
2545400 AGACGGAATT-TAT--TGCG
1 AGA-GAAATTGTCTCATGTG
2545417 AGAGAAATTGTCTCATGTG
1 AGAGAAATTGTCTCATGTG
2545436 AGA
1 AGA
2545439 CAAAATTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 8
0.65 0.16 0.19
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
19 11 0.39
20 5 0.18
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (19 bp):
AGAGAAATTGTCTCATGTG
Found at i:2545732 original size:38 final size:36
Alignment explanation
Indices: 2545543--2545803 Score: 104
Period size: 38 Copynumber: 7.1 Consensus size: 36
2545533 ATCTTAAGTG
* * * *
2545543 AAATTTTGTTTCAAGAAAAACTTGTCTCCAGTGAGACA
1 AAATTTT-TTTCAAGGAAAA-TTATCTCAAGTGAGATA
* * **
2545581 AAA-TTTGTTCTAAGGAAAACTATCTCAAGCAAGATA
1 AAATTTTTTTC-AAGGAAAATTATCTCAAGTGAGATA
* ** * * *
2545617 AAGTTTTTATTTTGAGAGAAAATTGTCTCAAATGAGATG
1 AA-ATTTT-TTTCAAG-GAAAATTATCTCAAGTGAGATA
* ** **
2545656 AAA---TTTTCAAAGAGAAACAATCTCAAGTGAGACG
1 AAATTTTTTTCAAGGA-AAATTATCTCAAGTGAGATA
*
2545690 AAATTTGTGTTTCAAGGAAAATTATCTCAAGCGAGATA
1 AAATTT-T-TTTCAAGGAAAATTATCTCAAGTGAGATA
** **
2545728 AAATTTTTATTCCAA-GAGAAATTATCTTGAGTGAGACG
1 AAATTTTT-TT-CAAGGA-AAATTATCTCAAGTGAGATA
* ** *
2545766 AAA--CTTTTCAAGAGAAAGCTATCTCAAGAGAGATA
1 AAATTTTTTTCAAG-GAAAATTATCTCAAGTGAGATA
2545801 AAA
1 AAA
2545804 AAATTGTTTC
Statistics
Matches: 161, Mismatches: 46, Indels: 35
0.67 0.19 0.14
Matches are distributed among these distances:
33 2 0.01
34 25 0.16
35 19 0.12
36 21 0.13
37 15 0.09
38 51 0.32
39 28 0.17
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (36 bp):
AAATTTTTTTCAAGGAAAATTATCTCAAGTGAGATA
Found at i:2545746 original size:111 final size:109
Alignment explanation
Indices: 2545567--2545803 Score: 271
Period size: 111 Copynumber: 2.2 Consensus size: 109
2545557 GAAAAACTTG
* * ***
2545567 TCTCCAGTGAGACAAAATTTGTTCTAAGGAAAACTATCTCAAGCAAGATAAAGTTTTTATTTTGA
1 TCTCAAGTGAGACAAAATTTGTTCTAAGGAAAACTATCTCAAGCAAGATAAAATTTTTATTCCAA
* *
2545632 GAGAAAATTGTCTCAAATGAGATGAAA-TTTTCAAAGAGAAA-CAA
66 GAG-AAATTATCTCAAATGAGACGAAACTTTTC-AAGAGAAAGCAA
* * * *
2545676 TCTCAAGTGAGACGAAATTTGTGTTTCAAGGAAAATTATCTCAAGCGAGATAAAATTTTTATTCC
1 TCTCAAGTGAGACAAAATTTGT-TCT-AAGGAAAACTATCTCAAGCAAGATAAAATTTTTATTCC
** * *
2545741 AAGAGAAATTATCTTGAGTGAGACGAAACTTTTCAAGAGAAAGCTA
64 AAGAGAAATTATCTCAAATGAGACGAAACTTTTCAAGAGAAAGCAA
* *
2545787 TCTCAAGAGAGATAAAA
1 TCTCAAGTGAGACAAAA
2545804 AAATTGTTTC
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
109 20 0.19
110 28 0.26
111 58 0.55
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (109 bp):
TCTCAAGTGAGACAAAATTTGTTCTAAGGAAAACTATCTCAAGCAAGATAAAATTTTTATTCCAA
GAGAAATTATCTCAAATGAGACGAAACTTTTCAAGAGAAAGCAA
Found at i:2545829 original size:73 final size:72
Alignment explanation
Indices: 2545699--2545876 Score: 169
Period size: 73 Copynumber: 2.4 Consensus size: 72
2545689 GAAATTTGTG
* * *** * *
2545699 TTTCAAGGAAAATTATCTCAAGCGAGATAAAATTTTTATTCCAAGAGAAATTATCTTGAGTGAGA
1 TTTCAAGGAAAACTATCTCAAGAGAGATAAAAAAATTATTCCAAAAGAAACTATCTTGAGTGAGA
2545764 CGAAACT
66 CGAAACT
* * * *
2545771 TTTCAAGAGAAAGCTATCTCAAGAGAGATAAAAAAATTGTTTCAAAAGAAACTGTCTTGAGTGAG
1 TTTCAAG-GAAAACTATCTCAAGAGAGATAAAAAAATTATTCCAAAAGAAACTATCTTGAGTGAG
*
2545836 A-TAATACTT
65 ACGAA-AC-T
* * * *
2545845 GTTTTAAGGGAAACTATCTGAAGTGAGATAAA
1 -TTTCAAGGAAAACTATCTCAAGAGAGATAAA
2545877 GTTTTTGTTT
Statistics
Matches: 85, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
72 9 0.11
73 49 0.58
74 21 0.25
75 6 0.07
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.29
Consensus pattern (72 bp):
TTTCAAGGAAAACTATCTCAAGAGAGATAAAAAAATTATTCCAAAAGAAACTATCTTGAGTGAGA
CGAAACT
Found at i:2549534 original size:21 final size:20
Alignment explanation
Indices: 2549505--2549554 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
2549495 TTTAAATTCA
*
2549505 AAATACAAAGATGAAAATGC
1 AAATGCAAAGATGAAAATGC
* *
2549525 ATAATGCAAATATGTAAATGC
1 A-AATGCAAAGATGAAAATGC
2549546 AAATGCAAA
1 AAATGCAAA
2549555 TGCAAAAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.20
Consensus pattern (20 bp):
AAATGCAAAGATGAAAATGC
Found at i:2550749 original size:243 final size:243
Alignment explanation
Indices: 2550408--2552430 Score: 2814
Period size: 243 Copynumber: 8.4 Consensus size: 243
2550398 AAGCATTTAG
* * * *
2550408 TCTTTTACCCAAAGGCATTTAACCTTTCATCTATCTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* * * * * *
2550473 ACAACAAGGCCATTACTATTTTACTCAAAGGTATTTAAACTTTTATCTAACTGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
*
2550538 CCTTTCTTTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
131 CCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* *
2550603 ACTGGCATAATTGACACATTTCTGTCAAATGCATAGCTAGGCCATTAA
196 ACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* * *
2550651 TCTTTTACTAAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
2550716 ACGGCTAGGCCATTAATCTTTTACTCAAAGGTATTCAACCTTTCATCTAACTGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * * *
2550781 CCTTTTTGTCAAATGCACAGCTAGGCCGTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCCA
131 CCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* *
2550846 ACTGGCATAATTGACACCTTTCTTTCAAATGCACATCTAGGCCATTAA
196 ACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* * *
2550894 TCTTTTACACAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGACACATTTCTGTCAAATCC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
2550959 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * * * * * *
2551024 CCTTTCTGTCAGATACACAACTAGGTCATTATTCTTTTACTCAAAGGTATTTAACCTTTCATCAA
131 CCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
** * *
2551089 ACTGGTC-TAATTGACACCTTTCTGTCAAATATACAACTAGGCCGTTAA
196 ACTGG-CATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* *
2551137 TCTTTTACTCAAAGTTATTTAA-CTTCTCATCTAACTGGCATAATTGATACATTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTT-TCATCTAACTGGCATAATTGACACATTTCTGTCAAATG
* * * * *
2551201 CATAACTAGGTCGTTAATCTTTTACTCAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGAC
65 CACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGAC
** * * * * *
2551266 ATATTTCTATCAAATGCACAACTAGGCCATTAATATTTTACTCAAATGTATTTAACGTTTCATTT
130 ACCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCT
* * *
2551331 AACT-TCATAATTGACACCTTTCTATCAAATACACAGCTAGGCCATTAA
195 AACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
2551379 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGATACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
2551444 ACAGCTAGGCCATTAATTTTTTACTCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * * *
2551509 CCTTTCTATCAAATGCATAGCTAGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTA
131 CCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* *
2551574 ACT---ATTA-T-A-A------T-T--AA-G--CA-C-AGGCCGTTAA
196 ACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* * * *
2551602 TCTTTTACTTAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAAAGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* * *
2551667 ATAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * * * *
2551732 CCTTTATGTCAAATGCATAGCTAGGCCATTAATCTTTTACTCAAAGTTATTTAACTTTTCATCTA
131 CCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* * * *
2551797 ACTGGCATAATTGATACCTTTCTGTCAAATGCACAACTAGGTCGTTAA
196 ACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* * * * * *
2551845 TCTTTTACTCAAATGTATTTAACCTTTCATCCAACTTGCATAATTGAAACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* * *
2551910 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATTTAAATGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * *
2551975 CCTTTCTTTCAAATGCATAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTA
131 CCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* * * *
2552040 ACTGGCATAATTGATACCTTTCTATCAAATGCATAGCTAGGCCATTAT
196 ACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* *
2552088 TGTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
2552153 ACAGCTAGGCCATTAATCTTTTACTCAAAAGTATTTAACCTTTCATCTAACTGGTATAATTGACA
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * * * *
2552218 TCTTTCTATCAAATACACAGCTAAGCCGTTAATCTTTTACTCAAAGGTATTTAACCTTTCATGTA
131 CCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* * * * *
2552283 ACTGGCATAATTGACTCCTTTTTGTCAAATGCACAGCTAAGTCGTTAA
196 ACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
* * * * *
2552331 TCTTTTACTCAAAGGTATTTAATCTTTCATCCAATTGGCATAATTGACACCTTTCTGTCAAAAGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
2552396 ACAACTAGGCCATTAATCTTTTACTCAAAAGTATT
66 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATT
2552431 ATTAATAATA
Statistics
Matches: 1587, Mismatches: 169, Indels: 48
0.88 0.09 0.03
Matches are distributed among these distances:
223 190 0.12
224 1 0.00
225 2 0.00
226 3 0.00
227 1 0.00
228 3 0.00
229 1 0.00
230 1 0.00
231 1 0.00
235 1 0.00
236 1 0.00
237 1 0.00
238 3 0.00
239 2 0.00
240 3 0.00
241 3 0.00
242 219 0.14
243 1150 0.72
244 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (243 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
CCTTTCTATCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
ACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
Found at i:2551585 original size:81 final size:81
Alignment explanation
Indices: 2550408--2551576 Score: 1714
Period size: 81 Copynumber: 14.4 Consensus size: 81
2550398 AAGCATTTAG
* * *
2550408 TCTTTTACCCAAAGGCATTTAACCTTTCATCTATCTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
2550473 ACAACAAGGCCATTAC
66 ACAGCTAGGCCATTAA
* * * *
2550489 TATTTTACTCAAAGGTATTTAAACTTTTATCTAACTGGCATAATTGACACCTTTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2550554 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
*
2550570 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2550635 ATAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * **
2550651 TCTTTTACTAAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2550716 ACGGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
2550732 TCTTTTACTCAAAGGTATTCAACCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2550797 ACAGCTAGGCCGTTAA
66 ACAGCTAGGCCATTAA
* *
2550813 TCTTTTACTCAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGACACCTTTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2550878 ACATCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
2550894 TCTTTTACACAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGACACATTTCTGTCAAATCC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2550959 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
2550975 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAGATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
* * *
2551040 ACAACTAGGTCATTAT
66 ACAGCTAGGCCATTAA
* *
2551056 TCTTTTACTCAAAGGTATTTAACCTTTCATCAAACTGGTC-TAATTGACACCTTTCTGTCAAATA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGG-CATAATTGACACCTTTCTGTCAAATG
* * *
2551120 TACAACTAGGCCGTTAA
65 CACAGCTAGGCCATTAA
* * *
2551137 TCTTTTACTCAAAGTTATTTAA-CTTCTCATCTAACTGGCATAATTGATACATTTCTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTT-TCATCTAACTGGCATAATTGACACCTTTCTGTCAAATG
* * * *
2551201 CATAACTAGGTCGTTAA
65 CACAGCTAGGCCATTAA
* ** *
2551218 TCTTTTACTCAAAGGTATTTAACCTTTCATCCAACTGGCATAATTGACATATTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2551283 ACAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * * * * *
2551299 TATTTTACTCAAATGTATTTAACGTTTCATTTAACT-TCATAATTGACACCTTTCTATCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2551363 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* *
2551379 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGATACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
2551444 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
2551460 TTTTTTACTCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
*
2551525 ATAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
2551541 TATTTTACTCAAAAGTATTTAACCATTCATCTAACT
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT
2551577 ATTATAATTA
Statistics
Matches: 984, Mismatches: 99, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
80 75 0.08
81 905 0.92
82 4 0.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:2551645 original size:61 final size:61
Alignment explanation
Indices: 2551531--2551646 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
2551521 ATGCATAGCT
**
2551531 AGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTAACTATTATAATTAAGCAC
1 AGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTAACTAGCATAATTAAGCAC
* * * * * * *
2551592 AGGCCGTTAATCTTTTACTTAAAGGTATTTAACCTTTCATCTAATTGGCATAATT
1 AGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTAACTAGCATAATT
2551647 GACACCTTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (61 bp):
AGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTAACTAGCATAATTAAGCAC
Found at i:2551706 original size:142 final size:142
Alignment explanation
Indices: 2551450--2551727 Score: 439
Period size: 142 Copynumber: 2.0 Consensus size: 142
2551440 ATGCACAGCT
*
2551450 AGGCCATTAATTTTTTACTCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
1 AGGCCATTAATCTTTTACTCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
* * *
2551515 TATCAAATGCATAGCTAGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTAACTATT
66 TATCAAAAGCATAACTAGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTAACTAGT
2551580 ATAATTAAGCAC
131 ATAATTAAGCAC
* * * *
2551592 AGGCCGTTAATCTTTTACTTAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTC
1 AGGCCATTAATCTTTTACTCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
* * * * *
2551657 TGTCAAAAGCATAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGT
66 TATCAAAAGCATAACTAGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTAACTAGT
2551722 ATAATT
131 ATAATT
2551728 GACACCTTTA
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
142 123 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (142 bp):
AGGCCATTAATCTTTTACTCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
TATCAAAAGCATAACTAGGCCATTAATATTTTACTCAAAAGTATTTAACCATTCATCTAACTAGT
ATAATTAAGCAC
Found at i:2551727 original size:81 final size:81
Alignment explanation
Indices: 2551592--2552430 Score: 1210
Period size: 81 Copynumber: 10.4 Consensus size: 81
2551582 AATTAAGCAC
* * *
2551592 AGGCCGTTAATCTTTTACTTAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTC
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
* * *
2551657 TGTCAAAAGCATAACT
66 TGTCAAATGCACAGCT
* *
2551673 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACACCTTTA
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
*
2551738 TGTCAAATGCATAGCT
66 TGTCAAATGCACAGCT
* * *
2551754 AGGCCATTAATCTTTTACTCAAAGTTATTTAACTTTTCATCTAACTGGCATAATTGATACCTTTC
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
*
2551819 TGTCAAATGCACAACT
66 TGTCAAATGCACAGCT
* * * * * * *
2551835 AGGTCGTTAATCTTTTACTCAAATGTATTTAACCTTTCATCCAACTTGCATAATTGAAACCTTTA
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
2551900 TGTCAAATGCACAGCT
66 TGTCAAATGCACAGCT
* * *
2551916 AGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATTTAAATGGCATAATTGACACCTTTC
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
* *
2551981 TTTCAAATGCATAGCT
66 TGTCAAATGCACAGCT
* *
2551997 AGGCCATTAATCTTTTACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGATACCTTTC
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
* *
2552062 TATCAAATGCATAGCT
66 TGTCAAATGCACAGCT
* * * *
2552078 AGGCCATTATTGTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACACATTTC
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
2552143 TGTCAAATGCACAGCT
66 TGTCAAATGCACAGCT
* * *
2552159 AGGCCATTAATCTTTTACTCAAAAGTATTTAACCTTTCATCTAACTGGTATAATTGACATCTTTC
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
* *
2552224 TATCAAATACACAGCT
66 TGTCAAATGCACAGCT
* * * * *
2552240 AAGCCGTTAATCTTTTACTCAAAGGTATTTAACCTTTCATGTAACTGGCATAATTGACTCCTTTT
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
2552305 TGTCAAATGCACAGCT
66 TGTCAAATGCACAGCT
* * * * * *
2552321 AAGTCGTTAATCTTTTACTCAAAGGTATTTAATCTTTCATCCAATTGGCATAATTGACACCTTTC
1 AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
* *
2552386 TGTCAAAAGCACAACT
66 TGTCAAATGCACAGCT
*
2552402 AGGCCATTAATCTTTTACTCAAAAGTATT
1 AGGCCATTAATCTTTTACTCAAAGGTATT
2552431 ATTAATAATA
Statistics
Matches: 680, Mismatches: 78, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 680 1.00
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (81 bp):
AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTC
TGTCAAATGCACAGCT
Found at i:2552594 original size:57 final size:55
Alignment explanation
Indices: 2552531--2552651 Score: 134
Period size: 57 Copynumber: 2.2 Consensus size: 55
2552521 TTTGCTTGGA
** *
2552531 TTGCACACACCCTACCAATACAAAAATTTATAAACTTACTATGAATTTATTATATT
1 TTGCACACAAACTACCAATACAAAAATTCATAAACTTACTATGAATTTATTA-ATT
* * * ** * *
2552587 CTTGCACACAAAGTGCCCATACTGAAATTCATAAACTTATTATGAATTTATTAGTT
1 -TTGCACACAAACTACCAATACAAAAATTCATAAACTTACTATGAATTTATTAATT
2552643 TTGCACACA
1 TTGCACACA
2552652 TAGTACCATA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 9 0.17
56 2 0.04
57 43 0.80
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (55 bp):
TTGCACACAAACTACCAATACAAAAATTCATAAACTTACTATGAATTTATTAATT
Found at i:2552685 original size:18 final size:18
Alignment explanation
Indices: 2552658--2552696 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2552648 CACATAGTAC
* *
2552658 CATATGGTAATCACCATA
1 CATATAGTAATCAACATA
2552676 CATATAGTAATCAACATA
1 CATATAGTAATCAACATA
2552694 CAT
1 CAT
2552697 TTATAACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (18 bp):
CATATAGTAATCAACATA
Found at i:2553004 original size:20 final size:21
Alignment explanation
Indices: 2552979--2553035 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
2552969 TGGCTCAATA
*
2552979 GTATCGATACCCT-TACCATG
1 GTATCGATACACTATACCATG
*
2552999 GTATCGATATTACTATACCATG
1 GTATCGATA-CACTATACCATG
* *
2553021 GTACCGATACTCTAT
1 GTATCGATACACTAT
2553036 TACGGTATCG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 9 0.30
21 6 0.20
22 15 0.50
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (21 bp):
GTATCGATACACTATACCATG
Found at i:2555692 original size:10 final size:10
Alignment explanation
Indices: 2555669--2555712 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
2555659 GACATTATAA
*
2555669 ATATAAATAA
1 ATATAAATAT
*
2555679 ATATAAAGAT
1 ATATAAATAT
*
2555689 ATATATATAT
1 ATATAAATAT
*
2555699 ATATATATAT
1 ATATAAATAT
2555709 ATAT
1 ATAT
2555713 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
ATATAAATAT
Found at i:2555694 original size:4 final size:4
Alignment explanation
Indices: 2555664--2555712 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
2555654 TACCCGACAT
* * * * *
2555664 TATA AATA TAAA TAAA TATA AAGA TATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
2555712 T
1 T
2555713 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (4 bp):
TATA
Found at i:2555717 original size:2 final size:2
Alignment explanation
Indices: 2555712--2555768 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
2555702 TATATATATA
2555712 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2555754 TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG T
2555769 AAACATGAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:2570901 original size:12 final size:12
Alignment explanation
Indices: 2570884--2570930 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
2570874 AGGATATAAC
*
2570884 AATCAAATCCAG
1 AATCAAATTCAG
2570896 AATCAAATTCAG
1 AATCAAATTCAG
2570908 AATCAAATTCAG
1 AATCAAATTCAG
2570920 AATCAAATTCA
1 AATCAAATTCA
2570931 AGTGAATCCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.51, C:0.19, G:0.06, T:0.23
Consensus pattern (12 bp):
AATCAAATTCAG
Found at i:2576138 original size:27 final size:26
Alignment explanation
Indices: 2576095--2576145 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
2576085 ATGGTATGAC
*
2576095 GTGGCAGTTTCTAGAAGGTCTAGTTA
1 GTGGCAGTTTCTAGAAGATCTAGTTA
2576121 GTGGCAGTTTTCTAGAAGATCTAGT
1 GTGGCAG-TTTCTAGAAGATCTAGT
2576146 CAGCGCCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (26 bp):
GTGGCAGTTTCTAGAAGATCTAGTTA
Found at i:2582323 original size:15 final size:15
Alignment explanation
Indices: 2582303--2582335 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2582293 ATCAACAGAC
2582303 ATAATTTTTATATAA
1 ATAATTTTTATATAA
*
2582318 ATAATTTTTATTTAA
1 ATAATTTTTATATAA
2582333 ATA
1 ATA
2582336 TTTAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATAATTTTTATATAA
Found at i:2582527 original size:20 final size:20
Alignment explanation
Indices: 2582488--2582527 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2582478 GTAATCCTAT
**
2582488 TCACTGGTAATCTTTTATTC
1 TCACTGGTAATCTTACATTC
2582508 TCACTGGTAATCTTACATTC
1 TCACTGGTAATCTTACATTC
2582528 CGTGAACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (20 bp):
TCACTGGTAATCTTACATTC
Found at i:2585815 original size:69 final size:69
Alignment explanation
Indices: 2585703--2585838 Score: 182
Period size: 69 Copynumber: 2.0 Consensus size: 69
2585693 GGATTTTTTA
* * ** * * *
2585703 CCCCTTAAAATTTAAAACATAACCTCGTTTGCCCCAAACCGCTAACACCGTTAAATAAAACATGG
1 CCCCCTAAAATTTAAAACATAACCTCCTCCGCCCCAAACCGCTAACACCATCAAATAAAACACGG
2585768 GTGC
66 GTGC
* * *
2585772 CCCCCTAAAATTTAAAACGTTACCTCCTCCGCCCCCAACCGCTAACACCATCAAATAAAACACGG
1 CCCCCTAAAATTTAAAACATAACCTCCTCCGCCCCAAACCGCTAACACCATCAAATAAAACACGG
2585837 GT
66 GT
2585839 AAATTAATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 57 1.00
ACGTcount: A:0.35, C:0.34, G:0.10, T:0.21
Consensus pattern (69 bp):
CCCCCTAAAATTTAAAACATAACCTCCTCCGCCCCAAACCGCTAACACCATCAAATAAAACACGG
GTGC
Found at i:2590346 original size:31 final size:31
Alignment explanation
Indices: 2590308--2590463 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
2590298 AGGTTCGAGG
*
2590308 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2590339 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
2590370 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
2590401 GTTTACCTATGTTCTTCGGGATATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
2590432 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
2590463 G
1 G
2590464 GTCCTTCGGG
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
31 116 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:2592097 original size:39 final size:39
Alignment explanation
Indices: 2592052--2592128 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
2592042 GGGTTGTTCG
*
2592052 GGTCCATATCTGTTGGGTCTTGGTTGTAACTGGGCTTCA
1 GGTCCATATCTGTTGCGTCTTGGTTGTAACTGGGCTTCA
2592091 GGTCCATATCTGTTGCGTCTTGGTTGTAACTGGGCTTC
1 GGTCCATATCTGTTGCGTCTTGGTTGTAACTGGGCTTC
2592129 GGGTTGTAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.12, C:0.19, G:0.30, T:0.39
Consensus pattern (39 bp):
GGTCCATATCTGTTGCGTCTTGGTTGTAACTGGGCTTCA
Found at i:2592214 original size:27 final size:26
Alignment explanation
Indices: 2592158--2592221 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
2592148 TTTGGGCCTG
* * *
2592158 TAATAAAATTATAATAATTAGTTATAA
1 TAATATAA-TATAATAATAAGTAATAA
*
2592185 TAATATAATATAATAATAACGTAATTA
1 TAATATAATATAATAATAA-GTAATAA
2592212 TAATATAATA
1 TAATATAATA
2592222 ATATAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (26 bp):
TAATATAATATAATAATAAGTAATAA
Found at i:2592228 original size:13 final size:13
Alignment explanation
Indices: 2592167--2592228 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
2592157 GTAATAAAAT
*
2592167 TATAATAAT-TAGT
1 TATAATAATATA-A
2592180 TATAATAATATAA
1 TATAATAATATAA
2592193 TATAAT-A-ATAA
1 TATAATAATATAA
**
2592204 CGTAAT--TATAA
1 TATAATAATATAA
2592215 TATAATAATATAA
1 TATAATAATATAA
2592228 T
1 T
2592229 TATATTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 16 0.40
12 1 0.03
13 21 0.52
14 2 0.05
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:2592459 original size:36 final size:36
Alignment explanation
Indices: 2592412--2592518 Score: 169
Period size: 36 Copynumber: 3.0 Consensus size: 36
2592402 ATCTATTCTT
*
2592412 GCTTCACTACTCTTTTGTGAAGGCTGGATGTGCATC
1 GCTTCACTACTCTTTTGTGAAGGCTGAATGTGCATC
* *
2592448 GCTTCACTACTCTTATGTGAAGGCTGAATGTGCATT
1 GCTTCACTACTCTTTTGTGAAGGCTGAATGTGCATC
* *
2592484 GCTTCACTACTCTTTTGTGAAGGCCGATTGTGCAT
1 GCTTCACTACTCTTTTGTGAAGGCTGAATGTGCAT
2592519 TACTTGAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (36 bp):
GCTTCACTACTCTTTTGTGAAGGCTGAATGTGCATC
Found at i:2599383 original size:38 final size:38
Alignment explanation
Indices: 2599303--2599383 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
2599293 ACCTCACTTT
* **
2599303 CTTTCTTTTTCATAAATGGATTCTTACTACCTCACTTT
1 CTTTCTTTTTCATAAATGGATTCTTACTAACTCACTCA
* *
2599341 CTTTCTTTTTCATAAATGTATTCTTACTAGATTCAC-CA
1 CTTTCTTTTTCATAAATGGATTCTTACTA-ACTCACTCA
2599379 CTTTC
1 CTTTC
2599384 AAGTTTCCCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 33 0.89
39 4 0.11
ACGTcount: A:0.22, C:0.23, G:0.05, T:0.49
Consensus pattern (38 bp):
CTTTCTTTTTCATAAATGGATTCTTACTAACTCACTCA
Found at i:2599383 original size:42 final size:38
Alignment explanation
Indices: 2599292--2599369 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
2599282 TTGCATCATT
2599292 TACCTCACTTTCTTTCTTTTTCATAAATGGATTCTTAC
1 TACCTCACTTTCTTTCTTTTTCATAAATGGATTCTTAC
*
2599330 TACCTCACTTTCTTTCTTTTTCATAAATGTATTCTTAC
1 TACCTCACTTTCTTTCTTTTTCATAAATGGATTCTTAC
2599368 TA
1 TA
2599370 GATTCACCAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.04, T:0.51
Consensus pattern (38 bp):
TACCTCACTTTCTTTCTTTTTCATAAATGGATTCTTAC
Found at i:2605690 original size:13 final size:14
Alignment explanation
Indices: 2605664--2605739 Score: 68
Period size: 13 Copynumber: 5.4 Consensus size: 14
2605654 TTTGGGCCTG
*
2605664 TAATAAAATTATAA
1 TAATATAATTATAA
*
2605678 TAAT-TAGTTATAA
1 TAATATAATTATAA
2605691 TAATATAATATAATAA
1 TAATATAAT-T-ATAA
*
2605707 TAATGTAATTATAA
1 TAATATAATTATAA
2605721 T-ATAATAA-TATAA
1 TAAT-ATAATTATAA
*
2605734 TTATAT
1 TAATAT
2605740 TAAAACCAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
13 21 0.40
14 17 0.33
15 2 0.04
16 12 0.23
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TAATATAATTATAA
Found at i:2605720 original size:27 final size:26
Alignment explanation
Indices: 2605664--2605727 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
2605654 TTTGGGCCTG
* * *
2605664 TAATAAAATTATAATAATTAGTTATAA
1 TAATATAA-TATAATAATAAGTAATAA
*
2605691 TAATATAATATAATAATAATGTAATTA
1 TAATATAATATAATAATAA-GTAATAA
2605718 TAATATAATA
1 TAATATAATA
2605728 ATATAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
TAATATAATATAATAATAAGTAATAA
Found at i:2605725 original size:19 final size:19
Alignment explanation
Indices: 2605686--2605738 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2605676 AATAATTAGT
2605686 TATAATAATATAA-TAT-A
1 TATAATAATATAATTATAA
*
2605703 -ATAATAATGTAATTATAA
1 TATAATAATATAATTATAA
2605721 TATAATAATATAATTATA
1 TATAATAATATAATTATA
2605739 TTAAAACCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 11 0.35
17 3 0.10
18 1 0.03
19 16 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TATAATAATATAATTATAA
Found at i:2605863 original size:18 final size:18
Alignment explanation
Indices: 2605840--2605878 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2605830 CAAATAAGCT
*
2605840 TTGAACTTTAATGACACG
1 TTGAACTTAAATGACACG
2605858 TTGAACTTAAATGACACG
1 TTGAACTTAAATGACACG
2605876 TTG
1 TTG
2605879 TTTGGATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (18 bp):
TTGAACTTAAATGACACG
Found at i:2608202 original size:105 final size:105
Alignment explanation
Indices: 2607932--2608219 Score: 235
Period size: 105 Copynumber: 2.7 Consensus size: 105
2607922 GTCAGAATCC
* * ** * *
2607932 AAGTGAAGCAGCTACAGGAATTTGATAAAACTGCCAAAGG-CATCACTGAAGAC-AGAGAAACTG
1 AAGTAAAGCAGCTACAAGAACATGATAAAATTGCCAAAGGTC-TAACTGAAGACAAG-GAAACTG
* * ** *
2607995 AAGAGAATTCGAGTTTAGAGTACAAGGAATTGGAAGCAAATTCAAATG
64 AAAAGAATTTGAGTTTAGAG--C-TTG---CGGAAGCAAATTCAAATG
* * *
2608043 GAGTAAAGCAGCTACAAGAACATGATAAAATTGCGAAAGGTCTAACTGAAGACAATGAAACT-AG
1 AAGTAAAGCAGCTACAAGAACATGATAAAATTGCCAAAGGTCTAACTGAAGACAAGGAAACTGA-
*
2608107 AAAGAATTTGAGTTTAGAGCTTGCGGAAGCAAGTTCAAATG
65 AAAGAATTTGAGTTTAGAGCTTGCGGAAGCAAATTCAAATG
* * * * * * * *
2608148 AAGTAAAGCGGCTCCAGGAA-TTCGATAAAGTTGCCATAGG-CGTTACTGAGGACAAGGAAACTG
1 AAGTAAAGCAGCTACAAGAACAT-GATAAAATTGCCAAAGGTC-TAACTGAAGACAAGGAAACTG
2608211 AAAAGAATT
64 AAAAGAATT
2608220 CTATTTTAAA
Statistics
Matches: 145, Mismatches: 26, Indels: 18
0.77 0.14 0.10
Matches are distributed among these distances:
104 2 0.01
105 71 0.49
106 1 0.01
108 1 0.01
109 1 0.01
110 1 0.01
111 66 0.46
112 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.20
Consensus pattern (105 bp):
AAGTAAAGCAGCTACAAGAACATGATAAAATTGCCAAAGGTCTAACTGAAGACAAGGAAACTGAA
AAGAATTTGAGTTTAGAGCTTGCGGAAGCAAATTCAAATG
Found at i:2609030 original size:58 final size:58
Alignment explanation
Indices: 2608940--2609056 Score: 198
Period size: 58 Copynumber: 2.0 Consensus size: 58
2608930 GTGTAATCGG
2608940 TGGTGATCATAACTTGTGCCATGCTCCACTATATGTCTAGTTCCAGCACAGCAAGTTC
1 TGGTGATCATAACTTGTGCCATGCTCCACTATATGTCTAGTTCCAGCACAGCAAGTTC
* * * *
2608998 TGGTGATCATAACTTGTGCCGTGCTCCACTATATGTCTAGTTCCGGCACGGCGAGTTC
1 TGGTGATCATAACTTGTGCCATGCTCCACTATATGTCTAGTTCCAGCACAGCAAGTTC
2609056 T
1 T
2609057 TGGTATAATG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.32
Consensus pattern (58 bp):
TGGTGATCATAACTTGTGCCATGCTCCACTATATGTCTAGTTCCAGCACAGCAAGTTC
Found at i:2616168 original size:21 final size:22
Alignment explanation
Indices: 2616135--2616189 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
2616125 AGGAAAGAAA
2616135 AAGGGGAAAAAATAAAGAACTG
1 AAGGGGAAAAAATAAAGAACTG
*
2616157 AAGGGG-AAAAATAAAGATCTG
1 AAGGGGAAAAAATAAAGAACTG
**
2616178 AAGAAGAAAAAA
1 AAGGGGAAAAAA
2616190 GGATTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.62, C:0.04, G:0.25, T:0.09
Consensus pattern (22 bp):
AAGGGGAAAAAATAAAGAACTG
Found at i:2617363 original size:2 final size:2
Alignment explanation
Indices: 2617356--2617410 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
2617346 CTAAAACATA
2617356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2617398 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2617411 AGTCCATGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2618257 original size:2 final size:2
Alignment explanation
Indices: 2618250--2618275 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2618240 CTCAAACATA
2618250 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
2618276 TAATGGAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2618371 original size:2 final size:2
Alignment explanation
Indices: 2618364--2618405 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
2618354 TCAATTAAAT
* *
2618364 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2618406 ATTTTAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2619349 original size:2 final size:2
Alignment explanation
Indices: 2619342--2619394 Score: 63
Period size: 2 Copynumber: 26.5 Consensus size: 2
2619332 TCAATCGTCT
* * *
2619342 TC TC TC TC GC T- TC TC GC ATC TC TC TC TC TC TC TC CC TC TC TC
1 TC TC TC TC TC TC TC TC TC -TC TC TC TC TC TC TC TC TC TC TC TC
2619384 TC TC TC TC TC T
1 TC TC TC TC TC T
2619395 TTTCTCTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
1 1 0.02
2 41 0.95
3 1 0.02
ACGTcount: A:0.02, C:0.49, G:0.04, T:0.45
Consensus pattern (2 bp):
TC
Found at i:2620028 original size:18 final size:18
Alignment explanation
Indices: 2620005--2620070 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
2619995 TAGTTGAAAA
2620005 TCGCGTTGCGATTCCATT
1 TCGCGTTGCGATTCCATT
2620023 TCGCGTTGCGATTCCATT
1 TCGCGTTGCGATTCCATT
* *
2620041 TTGCGTTGCGATTTCATT
1 TCGCGTTGCGATTCCATT
2620059 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2620071 AGTCTACATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (18 bp):
TCGCGTTGCGATTCCATT
Found at i:2620803 original size:22 final size:22
Alignment explanation
Indices: 2620776--2620829 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
2620766 AATTTGGAAA
*
2620776 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAAATGTAGACT
*
2620798 ATCGCAACAACAAATGTAGACT
1 ATCGCAACGACAAATGTAGACT
2620820 ATCGCAACGA
1 ATCGCAACGA
2620830 ATTTGGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAAATGTAGACT
Found at i:2624631 original size:19 final size:21
Alignment explanation
Indices: 2624607--2624646 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2624597 TTGAAAATTA
2624607 AAAGG-ACAAATT-TAAAGTC
1 AAAGGAACAAATTATAAAGTC
*
2624626 AAAGGAATAAATTATAAAGTC
1 AAAGGAACAAATTATAAAGTC
2624647 CATAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.23
Consensus pattern (21 bp):
AAAGGAACAAATTATAAAGTC
Found at i:2625196 original size:19 final size:19
Alignment explanation
Indices: 2625172--2625209 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2625162 GACTCATCAC
*
2625172 TTCTCAATTTACATGTCAA
1 TTCTCAACTTACATGTCAA
2625191 TTCTCAACTTACATGTCAA
1 TTCTCAACTTACATGTCAA
2625210 ACTAATCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (19 bp):
TTCTCAACTTACATGTCAA
Found at i:2635466 original size:12 final size:12
Alignment explanation
Indices: 2635435--2635468 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2635425 TACTATACGG
2635435 TATGAACAGTAC
1 TATGAACAGTAC
* *
2635447 TGTAAACAGTAC
1 TATGAACAGTAC
2635459 TATGAACAGT
1 TATGAACAGT
2635469 GAAAAATTTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (12 bp):
TATGAACAGTAC
Found at i:2638277 original size:18 final size:18
Alignment explanation
Indices: 2638254--2638292 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2638244 TGTTCGAAAG
*
2638254 GATTGAAGTAAATGATAA
1 GATTGAAGTAAATAATAA
*
2638272 GATTGAATTAAATAATAA
1 GATTGAAGTAAATAATAA
2638290 GAT
1 GAT
2638293 CGGATGGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (18 bp):
GATTGAAGTAAATAATAA
Found at i:2638408 original size:26 final size:26
Alignment explanation
Indices: 2638370--2638422 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2638360 TGACCCAAGA
*
2638370 ATATCACCAAGCTC-AGAAATGATTGG
1 ATATCACCAAGCTCTA-AAATGAATGG
* *
2638396 ATATCATCGAGCTCTAAAATGAATGG
1 ATATCACCAAGCTCTAAAATGAATGG
2638422 A
1 A
2638423 ATAAAACTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (26 bp):
ATATCACCAAGCTCTAAAATGAATGG
Found at i:2639428 original size:24 final size:24
Alignment explanation
Indices: 2639401--2639491 Score: 139
Period size: 24 Copynumber: 3.8 Consensus size: 24
2639391 TCGATTTGAT
*
2639401 TTCTGATTTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
2639425 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
2639449 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
2639473 TTCTGATCTGTTACTTGAC
1 TTCTGATCTGATACTTGAC
2639492 CTGATTTATG
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
23 1 0.02
24 60 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:2643185 original size:18 final size:18
Alignment explanation
Indices: 2643162--2643200 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2643152 TGTTCGAAAG
*
2643162 GATTGAAGTAAATGATAA
1 GATTGAAGTAAATAATAA
*
2643180 GATTGAATTAAATAATAA
1 GATTGAAGTAAATAATAA
2643198 GAT
1 GAT
2643201 CGGATGGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (18 bp):
GATTGAAGTAAATAATAA
Found at i:2643316 original size:26 final size:26
Alignment explanation
Indices: 2643278--2643330 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
2643268 TGACCCAAGA
*
2643278 ATATCACCAAGCTC-AGAAATGATTGG
1 ATATCACCAAGCTCTA-AAATGAATGG
* *
2643304 ATATCATCGAGCTCTAAAATGAATGG
1 ATATCACCAAGCTCTAAAATGAATGG
2643330 A
1 A
2643331 ATAAAACTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (26 bp):
ATATCACCAAGCTCTAAAATGAATGG
Found at i:2644334 original size:24 final size:24
Alignment explanation
Indices: 2644307--2644397 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
2644297 TCGATTTGAT
*
2644307 TTCTGATTTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
*
2644331 TTCTGATATGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
2644355 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
2644379 TTCTGATCTGTTACTTGAC
1 TTCTGATCTGATACTTGAC
2644398 CTGATTTATG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
23 1 0.02
24 59 0.97
25 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:2644359 original size:12 final size:12
Alignment explanation
Indices: 2644322--2644360 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
2644312 ATTTGATACT
2644322 TGACATGGATTC
1 TGACATGGATTC
*
2644334 TGATAT-GATATC
1 TGACATGGAT-TC
2644346 TGACATGGATTC
1 TGACATGGATTC
2644358 TGA
1 TGA
2644361 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:2647681 original size:95 final size:95
Alignment explanation
Indices: 2647518--2647710 Score: 386
Period size: 95 Copynumber: 2.0 Consensus size: 95
2647508 TTAAACCAAG
2647518 TCTACATCCACTACCTTAGCTCTGCACTAAGGATTTTCTAACAAATTCACTAATTTTTTTCTTTC
1 TCTACATCCACTACCTTAGCTCTGCACTAAGGATTTTCTAACAAATTCACTAATTTTTTTCTTTC
2647583 TTTTTCTAGGGTCAAGCGTAACCTTTACAA
66 TTTTTCTAGGGTCAAGCGTAACCTTTACAA
2647613 TCTACATCCACTACCTTAGCTCTGCACTAAGGATTTTCTAACAAATTCACTAATTTTTTTCTTTC
1 TCTACATCCACTACCTTAGCTCTGCACTAAGGATTTTCTAACAAATTCACTAATTTTTTTCTTTC
2647678 TTTTTCTAGGGTCAAGCGTAACCTTTACAA
66 TTTTTCTAGGGTCAAGCGTAACCTTTACAA
2647708 TCT
1 TCT
2647711 CCCTAGTTTT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.40
Consensus pattern (95 bp):
TCTACATCCACTACCTTAGCTCTGCACTAAGGATTTTCTAACAAATTCACTAATTTTTTTCTTTC
TTTTTCTAGGGTCAAGCGTAACCTTTACAA
Found at i:2651823 original size:46 final size:46
Alignment explanation
Indices: 2651773--2652031 Score: 385
Period size: 46 Copynumber: 5.6 Consensus size: 46
2651763 TAAGTAATAT
*
2651773 GCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* *
2651819 GCATGAAAGGATGTCATAAATTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCAT-AATTAAAATGCATGAAAGGATGCATTAAG
* *
2651866 GCATGAAAGGATGCCATAAGTAAAATGCATGAAAGGATGCATTAAT
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
*
2651912 GCATGAAAGGATGCCATAATTAAAATGCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
* * * *
2651958 GTATAAAAGGATGCCACAAATTAAAATGCATGAAA-GATAACATTAAG
1 GCATGAAAGGATGCCA-TAATTAAAATGCATGAAAGGAT-GCATTAAG
*
2652005 GCATGAAAGGATGCCATAATTTAAATG
1 GCATGAAAGGATGCCATAATTAAAATG
2652032 TATAAATAGA
Statistics
Matches: 191, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
46 110 0.58
47 81 0.42
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAG
Found at i:2651898 original size:93 final size:93
Alignment explanation
Indices: 2651773--2652029 Score: 385
Period size: 93 Copynumber: 2.8 Consensus size: 93
2651763 TAAGTAATAT
* *
2651773 GCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
2651838 ATTAAAATGCATGAAAT-GATGCATTAAG
66 ATTAAAATGCATG-AATGGATGCATTAAG
* *
2651866 GCATGAAAGGATGCCATAAGTAAAATGCATGAAAGGATGCATTAATGCATGAAAGGATGCCAT-A
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
2651930 ATTAAAATGCATGAATGGATGCATTAAG
66 ATTAAAATGCATGAATGGATGCATTAAG
* * * *
2651958 GTATAAAAGGATGCCACAAATTAAAATGCATGAAA-GATAACATTAAGGCATGAAAGGATGCCAT
1 GCATGAAAGGATGCCA-TAATTAAAATGCATGAAAGGAT-GCATTAAGGCATGAAAGGATGCCAT
*
2652022 AATTTAAA
64 AAATTAAA
2652030 TGTATAAATA
Statistics
Matches: 149, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
91 3 0.02
92 42 0.28
93 98 0.66
94 6 0.04
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (93 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
ATTAAAATGCATGAATGGATGCATTAAG
Found at i:2651942 original size:119 final size:119
Alignment explanation
Indices: 2651691--2651951 Score: 354
Period size: 119 Copynumber: 2.2 Consensus size: 119
2651681 TCAGATTCAA
2651691 AATTAAAATGCATGAAAGGATGCCACAAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAG
1 AATTAAAATGCATGAAAGGATGCCACAAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAG
* *
2651756 GATGTCATAAGTAATATGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGC
66 GATGCCATAAGTAAAATGCATGAAAGGATACC--AATT-AAATGCATGAAAGGATGC
* * * *
2651813 -ATT--AAGGCATGAAAGGATGTCATAAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAG
1 AATTAAAATGCATGAAAGGATGCCACAAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAG
*
2651875 GATGCCATAAGTAAAATGCATGAAAGGAT-GC-ATT-AATGCATGAAAGGATGCC
66 GATGCCATAAGTAAAATGCATGAAAGGATACCAATTAAATGCATGAAAGGATG-C
*
2651927 ATAATTAAAATGCATGAATGGATGC
1 --AATTAAAATGCATGAAAGGATGC
2651952 ATTAAGGTAT
Statistics
Matches: 123, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
113 16 0.13
114 1 0.01
115 3 0.02
117 3 0.02
118 1 0.01
119 96 0.78
121 3 0.02
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.23
Consensus pattern (119 bp):
AATTAAAATGCATGAAAGGATGCCACAAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAG
GATGCCATAAGTAAAATGCATGAAAGGATACCAATTAAATGCATGAAAGGATGC
Found at i:2652031 original size:139 final size:139
Alignment explanation
Indices: 2651771--2652023 Score: 427
Period size: 139 Copynumber: 1.8 Consensus size: 139
2651761 CATAAGTAAT
* * *
2651771 ATGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCAT
1 ATGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCAC
*
2651836 AAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAAAG
66 AAATTAAAATGCATGAAATGATACATTAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAAAG
2651901 GATGCATTA
131 GATGCATTA
* * *
2651910 ATGCATGAAAGGATGCCATAATTAAAATGCATGAATGGATGCATTAAGGTATAAAAGGATGCCAC
1 ATGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCAC
2651975 AAATTAAAATGCATGAAA-GATAACATTAAGGCATGAAAGGATGCCATAA
66 AAATTAAAATGCATGAAATGAT-ACATTAAGGCATGAAAGGATGCCATAA
2652024 TTTAAATGTA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
138 3 0.03
139 103 0.97
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.23
Consensus pattern (139 bp):
ATGCATGAAAGGATACCATAATTAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCAC
AAATTAAAATGCATGAAATGATACATTAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAAAG
GATGCATTA
Found at i:2652083 original size:139 final size:139
Alignment explanation
Indices: 2651790--2652071 Score: 338
Period size: 139 Copynumber: 2.0 Consensus size: 139
2651780 AGGATACCAT
* * * *
2651790 AATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAAATTAAAATGCATGAAAT
1 AATTAAAATGAATGAAAGGATGCATTAAGGCATAAAAGGATGCCACAAATTAAAATGCATGAAAT
* * *
2651855 GATGCATTAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAAAGGATGCATTAATGCATGAAA
66 GATACATTAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAAAAGATGCATTAATACATGAAA
* * *
2651920 GGATGCCAT
131 AGATGCAAA
* * *
2651929 AATTAAAATGCATGAATGGATGCATTAAGGTATAAAAGGATGCCACAAATTAAAATGCATGAAA-
1 AATTAAAATGAATGAAAGGATGCATTAAGGCATAAAAGGATGCCACAAATTAAAATGCATGAAAT
* * * **
2651993 GATAACATTAAGGCATGAAAGGATGCCATAATTTAAATGTAT-AAATAGATGTGTTAATACGA-G
66 GAT-ACATTAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAAA-AGATGCATTAATAC-ATG
2652056 AAAAGA-GACAAA
128 AAAAGATG-CAAA
2652068 AATT
1 AATT
2652072 GAAGTTAATG
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
138 7 0.06
139 115 0.93
140 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (139 bp):
AATTAAAATGAATGAAAGGATGCATTAAGGCATAAAAGGATGCCACAAATTAAAATGCATGAAAT
GATACATTAAGGCATGAAAGGATGCCATAAGTAAAATGCATGAAAAGATGCATTAATACATGAAA
AGATGCAAA
Found at i:2658002 original size:13 final size:13
Alignment explanation
Indices: 2657984--2658013 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2657974 GGTGGTCAAC
2657984 GGTCAACAGGTCG
1 GGTCAACAGGTCG
2657997 GGTCAACAGGTCG
1 GGTCAACAGGTCG
2658010 GGTC
1 GGTC
2658014 GGGTCAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:2666492 original size:60 final size:59
Alignment explanation
Indices: 2666357--2666492 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
2666347 ATAGTCGGGT
* *
2666357 GACTATTTTGTA-ACCTTTAATAGTCGGGGACTCAACAAAGCAACACTCTATAGTCGAAA
1 GACTA-TTTGTATACTTTTAATAGTCGGGGACTCAACAAAACAACACTCTATAGTCGAAA
* * * * **
2666416 GACCATTT-TATAACTTTTAATAGTTGAGGGACTCAACAAAACATCACTCTATAGTCTAGG
1 GACTATTTGTAT-ACTTTTAATAGTCG-GGGACTCAACAAAACAACACTCTATAGTCGAAA
2666476 GACTATTTGTATACTTT
1 GACTATTTGTATACTTT
2666493 ACCTAATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
57 2 0.03
58 3 0.05
59 16 0.25
60 40 0.62
61 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (59 bp):
GACTATTTGTATACTTTTAATAGTCGGGGACTCAACAAAACAACACTCTATAGTCGAAA
Found at i:2669233 original size:20 final size:20
Alignment explanation
Indices: 2669185--2669223 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2669175 ACTTATAATC
2669185 CTAAAAAAAATATTTTTTAA
1 CTAAAAAAAATATTTTTTAA
2669205 CTAAAAAAAATATTTTTTA
1 CTAAAAAAAATATTTTTTA
2669224 TCAGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
CTAAAAAAAATATTTTTTAA
Found at i:2670549 original size:20 final size:20
Alignment explanation
Indices: 2670520--2670559 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2670510 TGAATAGAGT
* *
2670520 AAATTGATCCGAAAGAATAA
1 AAATTAATCCAAAAGAATAA
2670540 AAATTAATCCAAAAGAATAA
1 AAATTAATCCAAAAGAATAA
2670560 TTCTCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (20 bp):
AAATTAATCCAAAAGAATAA
Found at i:2681086 original size:117 final size:116
Alignment explanation
Indices: 2680869--2681168 Score: 409
Period size: 117 Copynumber: 2.6 Consensus size: 116
2680859 TTTATATATT
**
2680869 TTCCC-GAA-CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCCGAGGAG
1 TTCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAGCAAAGGAG
* * * *
2680931 CCTGCAATAATAACGTCTCTATCCAGTCGCTTCCATCACTACAATGTGTAGG
65 CCTGCAATAATAACGTCCCCATCCAGTCACTTCCATCACTACAATGTATAGG
* *
2680983 TTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTTCCCTAAGCACACAACAAAGGAG
1 TT-CCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAG
* *
2681048 CCTGCAGTAATAACTTCCCCATCCAGTCAC-TCCAATCACTACAATGTATAGG
65 CCTGCAATAATAACGTCCCCATCCAGTCACTTCC-ATCACTACAATGTATAGG
*
2681100 TTCCCAGAACCATACACCCA----CACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGC
1 TTCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGC
*
2681161 CTGAAATA
66 CTGCAATA
2681169 CTTCCCTCAG
Statistics
Matches: 166, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
112 44 0.27
114 2 0.01
115 3 0.02
116 25 0.15
117 92 0.55
ACGTcount: A:0.33, C:0.34, G:0.15, T:0.18
Consensus pattern (116 bp):
TTCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAGCAAAGGAGC
CTGCAATAATAACGTCCCCATCCAGTCACTTCCATCACTACAATGTATAGG
Found at i:2682220 original size:29 final size:28
Alignment explanation
Indices: 2682085--2682232 Score: 120
Period size: 29 Copynumber: 5.1 Consensus size: 28
2682075 TATTTTACAG
* * * *
2682085 AAATAGCACCATTTTTAAAATAATTACCA
1 AAATAGCACC-CTTTTGAATTAATTCCCA
**
2682114 AAATAGCA-CCTTTTCGAATTAAATTATCA
1 AAATAGCACCCTTTT-GAATT-AATTCCCA
**
2682143 AAATAGCA-TTTTTTGAATTAAATTCCCA
1 AAATAGCACCCTTTTGAATT-AATTCCCA
* *
2682171 AAATATCACCCTTTTCAAATTAATTCCCA
1 AAATAGCACCCTTTT-GAATTAATTCCCA
* *
2682200 GAATAGCACCCATTTTGAATTAATTCTCA
1 AAATAGCACCC-TTTTGAATTAATTCCCA
2682229 AAAT
1 AAAT
2682233 GTCACTCGGT
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
27 4 0.04
28 23 0.24
29 62 0.64
30 8 0.08
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.34
Consensus pattern (28 bp):
AAATAGCACCCTTTTGAATTAATTCCCA
Found at i:2682269 original size:17 final size:18
Alignment explanation
Indices: 2682247--2682280 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2682237 CTCGGTCAAC
2682247 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
2682264 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
2682281 AAAACCGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:2682275 original size:13 final size:13
Alignment explanation
Indices: 2682257--2682282 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2682247 GGTCAACGGT
2682257 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
2682270 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
2682283 AACCGGTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.46, T:0.15
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:2688558 original size:117 final size:117
Alignment explanation
Indices: 2688349--2688642 Score: 459
Period size: 117 Copynumber: 2.5 Consensus size: 117
2688339 TTTTCCCGAA
* **
2688349 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCTGAGGAGCCTGAAGTAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCAC-ACAACAAAGGAGCCTGAAGTAA
* * *
2688413 TAACGTTTCTATCCAGTCGCTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
65 TAACGTTCCCATCCAGTCACTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
* *
2688466 CATACACCCACCTGCACACCAGTAAGGACTTTCCCTAAGCACACAACAAAGGAGCCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAACAAAGGAGCCTGAAGTAAT
2688531 AAC-TTACCCATCCAGTCAC-TCCAATCACTACAATGTGTAGGTTCCCCAGAAC
66 AACGTT-CCCATCCAGTCACTTCC-ATCACTACAATGTGTAGGTTCCCCAGAAC
*
2688583 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAACAAAGGAGCCTGAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAACAAAGGAGCCTGAA
2688643 ATATTTCCCT
Statistics
Matches: 163, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
116 6 0.04
117 157 0.96
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.18
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACACAACAAAGGAGCCTGAAGTAAT
AACGTTCCCATCCAGTCACTTCCATCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:2689624 original size:29 final size:28
Alignment explanation
Indices: 2689592--2689748 Score: 120
Period size: 29 Copynumber: 5.4 Consensus size: 28
2689582 TTTTTAAAAT
* *
2689592 AATTACCAAAATAGCACCTTTTCAAATTA
1 AATT-CCAAAATAACACCTTTTCGAATTA
** *
2689621 AATTCTCAGGATAACACTTTTTCGAATTA
1 AATTC-CAAAATAACACCTTTTCGAATTA
* * *
2689650 AATTCTCAAGATAACACTTTTTTGAATTA
1 AATTC-CAAAATAACACCTTTTCGAATTA
* *
2689679 AATTCCTAAAATATCACACATTTCGAATT-
1 AATTCC-AAAATAACAC-CTTTTCGAATTA
* *
2689708 AATTCCCAAAATAGCACCCATTTCGAATT-
1 AATT-CCAAAATAACA-CCTTTTCGAATTA
2689737 AATTCCTAAAAT
1 AATTCC-AAAAT
2689749 GTCACTCGGT
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
28 4 0.04
29 94 0.86
30 11 0.10
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (28 bp):
AATTCCAAAATAACACCTTTTCGAATTA
Found at i:2689712 original size:58 final size:59
Alignment explanation
Indices: 2689640--2689753 Score: 142
Period size: 58 Copynumber: 1.9 Consensus size: 59
2689630 GATAACACTT
* * ** *
2689640 TTTCGAATTAAATTCTCAAGATAACA-CTTTTTTGAATTAAATTCCTAAAATATCACACA
1 TTTCGAATTAAATTCCCAAAATAACACCCATTTCGAATT-AATTCCTAAAATATCACACA
* *
2689699 TTTCGAATT-AATTCCCAAAATAGCACCCATTTCGAATTAATTCCTAAAATGTCAC
1 TTTCGAATTAAATTCCCAAAATAACACCCATTTCGAATTAATTCCTAAAATATCAC
2689754 TCGGTCAACG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
58 29 0.62
59 18 0.38
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (59 bp):
TTTCGAATTAAATTCCCAAAATAACACCCATTTCGAATTAATTCCTAAAATATCACACA
Found at i:2689778 original size:17 final size:18
Alignment explanation
Indices: 2689756--2689796 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2689746 AATGTCACTC
2689756 GGTCAAC-GGTCAGATCG
1 GGTCAACGGGTCAGATCG
* *
2689773 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCAGATCG
2689791 GGTCAA
1 GGTCAA
2689797 AACCGGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.20, C:0.22, G:0.41, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCAGATCG
Found at i:2695586 original size:23 final size:22
Alignment explanation
Indices: 2695539--2695619 Score: 101
Period size: 22 Copynumber: 3.7 Consensus size: 22
2695529 TGGTGCAGGA
2695539 GGTACCGATACCCCCTTTGAAG
1 GGTACCGATACCCCCTTTGAAG
* *
2695561 GGTACCGATTCCCCCTTTGAGTG
1 GGTACCGATACCCCCTTTGA-AG
** *
2695584 GGTACCGATACCCCC-CAGGAG
1 GGTACCGATACCCCCTTTGAAG
2695605 GGTACCGATACCCCC
1 GGTACCGATACCCCC
2695620 ATGGGGTCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 16 0.31
22 20 0.39
23 15 0.29
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.20
Consensus pattern (22 bp):
GGTACCGATACCCCCTTTGAAG
Found at i:2695609 original size:21 final size:22
Alignment explanation
Indices: 2695534--2695619 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 22
2695524 CATTTTGGTG
2695534 CAGGA-GGTACCGATACCCCCT
1 CAGGAGGGTACCGATACCCCCT
** * *
2695555 TTGAAGGGTACCGATTCCCCCT
1 CAGGAGGGTACCGATACCCCCT
** *
2695577 TTGAGTGGGTACCGATACCCCC-
1 CAG-GAGGGTACCGATACCCCCT
2695599 CAGGAGGGTACCGATACCCCC
1 CAGGAGGGTACCGATACCCCC
2695620 ATGGGGTCTG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 19 0.36
22 19 0.36
23 15 0.28
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.19
Consensus pattern (22 bp):
CAGGAGGGTACCGATACCCCCT
Found at i:2697034 original size:20 final size:21
Alignment explanation
Indices: 2696994--2697033 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2696984 CAGATTGCCC
2696994 AGAGGGTACCGATACCCCCCA
1 AGAGGGTACCGATACCCCCCA
2697015 AGAGGGTACCGATACCCCC
1 AGAGGGTACCGATACCCCC
2697034 ATGTAAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.10
Consensus pattern (21 bp):
AGAGGGTACCGATACCCCCCA
Found at i:2698815 original size:100 final size:98
Alignment explanation
Indices: 2698696--2698895 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 98
2698686 GTGGCTCACA
2698696 AGTTGATTGATTTAGCTAGCTTTACAAGAGAATTGGAGCATATTGACAACTCAACACTCAAAAAT
1 AGTTGATTGATTTAGCTAGCTTTACAAGAGAATTGGAGCATATTGACAACTCAACACTCAAAAAT
2698761 GAGCGGAAGTTTAACTTGGCTTTTGAGAGAGATAG
66 GAGCGGAAG-TTAAC-TGGCTTTTGAGAGAGATAG
*
2698796 AGTTGATTGATTTAGCTAGCTTTACAAGAGAATTGGAGCATATTGACAACTCAACACTCAAACAT
1 AGTTGATTGATTTAGCTAGCTTTACAAGAGAATTGGAGCATATTGACAACTCAACACTCAAAAAT
2698861 GAGCGGAAGTTAACTGGCTTTTGAGAGAGATAG
66 GAGCGGAAGTTAACTGGCTTTTGAGAGAGATAG
2698894 AG
1 AG
2698896 AAGTTAGGGG
Statistics
Matches: 99, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
98 21 0.21
99 5 0.05
100 73 0.74
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
AGTTGATTGATTTAGCTAGCTTTACAAGAGAATTGGAGCATATTGACAACTCAACACTCAAAAAT
GAGCGGAAGTTAACTGGCTTTTGAGAGAGATAG
Found at i:2700843 original size:13 final size:13
Alignment explanation
Indices: 2700825--2700850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2700815 GATAACAAGG
2700825 TTCAGATCGAAAC
1 TTCAGATCGAAAC
2700838 TTCAGATCGAAAC
1 TTCAGATCGAAAC
2700851 GACATTGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
TTCAGATCGAAAC
Found at i:2701709 original size:38 final size:38
Alignment explanation
Indices: 2701620--2701710 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 38
2701610 AAGTCATTCG
*
2701620 GGCCATCAGTAAGTCTTTCGAGCATGATGTTTAATCCTTCA
1 GGCCATCA-TAAGTCTTTCGAGCAAGATG--TAATCCTTCA
* *
2701661 GGTCATCATAAGTCTTTCGAGCAAGATG-AGGTCCTTC-
1 GGCCATCATAAGTCTTTCGAGCAAGATGTA-ATCCTTCA
2701698 GGCCATCCATAAG
1 GGCCAT-CATAAG
2701711 ACCTTCGGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
37 6 0.14
38 12 0.27
40 19 0.43
41 7 0.16
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (38 bp):
GGCCATCATAAGTCTTTCGAGCAAGATGTAATCCTTCA
Found at i:2701983 original size:233 final size:231
Alignment explanation
Indices: 2701533--2703311 Score: 2013
Period size: 233 Copynumber: 7.6 Consensus size: 231
2701523 AGAAAAAAAA
*
2701533 TTCTCATTTAAATCT-AAATATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTA-CTAGT-AATC
1 TTCTCATTTAAATCTGAAA-ATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATT
** * * *
2701595 ATTTGTAGAATTAGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATG-TTTAATCCTT
65 ATTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
* * *
2701659 CAGGTCATC-ATAAGTCTTTCGAGCAAGATG--AGGTCCTTCGGCCATCCATAAGACCTTCGGAT
130 CGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGCCATCCATAAGACCTTCGG-C
2701721 AGGATGTTTTCACATGTTTCTCGAAAAATGAGAAAGGT
194 AGGATGTTTTCACATGTTTCTCGAAAAATGAGAAAGGT
* * *
2701759 TTCTCAGTTAAATCTGAAAATTGAAATTTTTTAAAAGTAACAAAAGTTTCTTACCTAGTAAATTA
1 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTA
* **
2701824 TTTCCAGAATTGGTAAGTCCTTCGAGCCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTC
66 TTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTC
* * * *
2701889 GGGTCATCTGTAAATCTTTCGAGCAATATGATAAGTCCTTCGGCCCATCCATAAGAACTTCAGGC
131 GGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG-CCATCCATAAGACCTTC-GGC
* **
2701954 AGGATGTTTTCACATGTTTCTCGAAAAATGAGTAATAT
194 AGGATGTTTTCACATGTTTCTCGAAAAATGAGAAAGGT
*
2701992 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAATAAGAAAAGTTTCTTACCTAGTAAATTA
1 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTA
* *
2702057 TTTCCATAATTGGTAAGTCGTTCGGGCGGGCCATCAGTAAG--TTTCGAGCATGATGCTTAAATC
66 TTTCCAGAATTGGTAAGTCCTT----CGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATC
* * ** * * *
2702120 CGTCGAGTCATCCGTAAGTCTTTCGAGCAAGATGATAAGTTCTTCGAGCCATCCAAAAGACATTC
127 CTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCG-GCCATCCATAAGACCTTC
* * * *
2702185 GGGCGGGATGCTTTCACATGTCTT-TTGAAAAATGAGAAAAGT
191 -GGCAGGATGTTTTCACATGT-TTCTCGAAAAATGAGAAAGGT
* *
2702227 TTTTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAATGTTTCTTACCTAGTAAATTA
1 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTA
* * *
2702292 TTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATTCATC
66 TTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTC
* *
2702357 GGGTTATCTATAAGTCTTTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGC
131 GGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTC-GGCCATCCATAAGACCTTC-GGC
* * *
2702422 AAGATTTTTTCACATGTTTCTCAAAAAATGAGAAAGGT
194 AGGATGTTTTCACATGTTTCTCGAAAAATGAGAAAGGT
* *
2702460 TTCTCATTTAAA--T-AAAATT----TTTTT--AATGTAAGAAAAGTCTCTTACCTAGTAAATTA
1 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTA
* * ** *
2702516 TTTCCAGAATTGGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATTTTTT
66 TTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTC
* * * * * *
2702581 GAGTCATATATAATTCTTTCAAGCAAGATGATCA-T--TT-GGACCAT-CTTAAGACCTTCGGAC
131 GGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG-CCATCCATAAGACCTTCGG-C
2702641 AGGATGTTTTCACATG-TTCTCGAAAAATGAGAAAGGT
194 AGGATGTTTTCACATGTTTCTCGAAAAATGAGAAAGGT
* *
2702678 TTCTCATTT-AATCTAAAAATTGAAA-TTTTGAAAAGTAAGAAAAGTTTCTTACCTAATAAATTA
1 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTA
** * *
2702741 TTTTTAGAATTGGTAAGTCCTTCGGGCCATCAGTATGTCTTTCGAGCATGATGCTTAAATACTTC
66 TTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTC
* * *
2702806 GGGTCATCTATAAGTCTTTGGAGCAAGATGATAGGTCCTTCAGGCCATCCCATAAGACCTTTTGG
131 GGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTC-GGCCAT-CCATAAGACC-TTCGG
* * *
2702871 CAGGATGTTTTCACATGTCTCTTGAAAAATGAGAAAAGT
193 CAGGATGTTTTCACATGTTTCTCGAAAAATGAGAAAGGT
2702910 TTCTCATTTAAATCTGAAAATTGAAATTTTT-AAAAGTAAGAAAAGTTTCTTACCTAGTAAATTA
1 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTA
* *
2702974 TTTCCATAATTGGTAAGTCCTTCGGGCCATCGGTAAGTCTTTC-AGGCCATCGGTAAGTCTTTCG
66 TTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGA-G-CAT--G--A-----T-G
* * *
2703038 AACATGATGAGTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCTTTCGGC
119 --C----T---TAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGC
* * * * **
2703103 CATCAATAAGACCTTCGGACAAGG-TGTTTTCGA-TTGTTTTTTGAAAAATGAGAAAAAT
175 CATCCATAAGACCTTCGG-C-AGGATGTTTTC-ACATGTTTCTCGAAAAATGAGAAAGGT
* * * * * *
2703161 ATTCTCATTTAAATATG-AAATTGAAGTTTTTGAAAAGTGAGAAATGATTTCCAAAGTTTCTTAG
1 -TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAG-TTT-C----TTACCTAG
* * * * ** *
2703225 T-AACTACTTCCAAAATTAGTAAGTCCTTCAAGCCATCAGTAAGTCTTTCGAGCATGATGATTAA
59 TAAATTATTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
* *
2703289 ATCCTTTGGGTCATATATAAGTC
124 ATCCTTCGGGTCATCTATAAGTC
2703312 ATTCAGGCAG
Statistics
Matches: 1327, Mismatches: 152, Indels: 137
0.82 0.09 0.08
Matches are distributed among these distances:
217 2 0.00
218 31 0.02
219 29 0.02
220 10 0.01
221 2 0.00
223 5 0.00
224 115 0.09
225 113 0.09
226 52 0.04
227 8 0.01
228 52 0.04
229 21 0.02
230 26 0.02
231 41 0.03
232 44 0.03
233 334 0.25
234 10 0.01
235 188 0.14
236 4 0.00
237 36 0.03
238 1 0.00
240 1 0.00
243 1 0.00
244 1 0.00
246 2 0.00
247 1 0.00
250 5 0.00
251 51 0.04
252 38 0.03
253 48 0.04
254 2 0.00
256 3 0.00
257 42 0.03
258 8 0.01
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (231 bp):
TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTA
TTTCCAGAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTC
GGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGCCATCCATAAGACCTTCGGCAG
GATGTTTTCACATGTTTCTCGAAAAATGAGAAAGGT
Found at i:2702440 original size:468 final size:458
Alignment explanation
Indices: 2701528--2703311 Score: 1982
Period size: 468 Copynumber: 3.8 Consensus size: 458
2701518 AAATGAGAAA
*
2701528 AAAAATTCTCATTTAAATCTAAATATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTA-CTAGT-
1 AAAATTTCTCATTTAAATCTAAA-ATTGAAATTTTT-AAAAGTAAGAAAAGTTTCTTACCTAGTA
* ** * *
2701591 AATCATTTGTAGAATTAGTAAGTCATT-CGGGCCATCAGTAAGTCTTTCGAGCATGATG-TTTAA
64 AATTATTTCCAGAATTGGTAAGTC-TTGCGGGCCATCAGTAAG-CTTTCGAGCATGATGCTTAAA
* *
2701654 TCCTTCAGGTCAT-CATAAGTCTTTCGAGCAAGATG--AGGTCCTTCGGCCATCCATAAGACCTT
127 TCCTTCAGGTCATCCATAAGTCTTTCGAGCAAGATGATAAGT-CTTCGGCCAT-CAAAAGACCTT
* * *
2701716 CGGATAGGATGTTTTCACATGTTTCTCGAAAAATGAGAAAGGTTTCTCAGTTAAATCTGAAAATT
190 CGGACAGGATGTTTTCACATGTTT-TCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATT
* *
2701781 GAAATTTTTTAAAAGTAACAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTT
254 GAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTT
** * * *
2701846 CGAGCCATCAGTAAGTCTTTTAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAATCTTTCGA
319 CGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATCTATAAGTCTTTCGA
* * *
2701911 GCAATATGATAAGTCCTTCGGCCCATCCATAAGAACTTCAGGCAGGATGTTTTCACATGTTTCTC
384 GCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATGTTTCTC
2701976 GAAAAATGAG
449 GAAAAATGAG
* *
2701986 TAATATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAATAAGAAAAGTTTCTTACCTAGT
1 -AAAATTTCTCATTTAAATCT-AAAATTGAAATTTTT-AAAAGTAAGAAAAGTTTCTTACCTAGT
*
2702051 AAATTATTTCCATAATTGGTAAGTCGTTCGGGCGGGCCATCAGTAAG-TTTCGAGCATGATGCTT
63 AAATTATTTCCAGAATTGGTAAGTC-TT---GCGGGCCATCAGTAAGCTTTCGAGCATGATGCTT
* *
2702115 AAATCCGTC-GAGTCATCCGTAAGTCTTTCGAGCAAGATGATAAGTTCTTCGAGCCATCCAAAAG
124 AAATCCTTCAG-GTCATCCATAAGTCTTTCGAGCAAGATGATAAG-TCTTCG-GCCAT-CAAAAG
* * * * * *
2702179 ACATTCGGGCGGGATGCTTTCACATGTCTTTTGAAAAATGAGAAAAGTTTTTCATTTAAATCTGA
185 ACCTTCGGACAGGATGTTTTCACATGT-TTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGA
*
2702244 AAATTGAAATTTTTGAAAAGTAAGAAATGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAG
249 AAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAG
* * * * *
2702309 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATTCATCGGGTTATCTATAAGTCT
314 TCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATCTATAAGTCT
* * *
2702374 TTTGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGCAAGATTTTTTCACATGT
379 TTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATGT
*
2702439 TTCTCAAAAAATGAG
444 TTCTCGAAAAATGAG
* * *
2702454 AAAGGTTTCTCATTTAAA--TAAAATT----TTTTT-AATGTAAGAAAAGTCTCTTACCTAGTAA
1 AAA-ATTTCTCATTTAAATCTAAAATTGAAATTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTAA
* *
2702512 ATTATTTCCAGAATTGGTAAGTCTTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAAT-
65 ATTATTTCCAGAATTGGTAAGTCTTGCGGGCCATCAGTAAG-CTTTCGAGCATGATGCTTAAATC
* ** ** * * * **
2702576 TTTTTGAGTCATATATAATTCTTTCAAGCAAGATGATCA-T-TT-GGACCATCTTAAGACCTTCG
129 CTTCAG-GTCATCCATAAGTCTTTCGAGCAAGATGATAAGTCTTCGG-CCATCAAAAGACCTTCG
* * *
2702638 GACAGGATGTTTTCACATGTTCTCGAAAAATGAGAAAGGTTTCTCATTT-AATCTAAAAATTGAA
192 GACAGGATGTTTTCACATGTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAA
* ** *
2702702 A-TTTTGAAAAGTAAGAAAAGTTTCTTACCTAATAAATTATTTTTAGAATTGGTAAGTCCTTCGG
257 ATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTCGA
* *
2702766 GCCATCAGTATGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATCTATAAGTCTTTGGAGCA
322 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATCTATAAGTCTTTCGAGCA
* * ** * *
2702831 AGATGATAGGTCCTTCAGGCCATCCCATAAGACCTTTTGGCAGGATGTTTTCACATGTCTCTTGA
387 AGATGATAAGTCCTTCGGGCCAT-CCATAAGACCTTCAGGCAGGATGTTTTCACATGTTTCTCGA
2702896 AAAATGAG
451 AAAATGAG
2702904 AAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTA
1 AAAA-TTTCTCATTTAAATCT-AAAATTGAAATTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTA
* *
2702969 AATTATTTCCATAATTGGTAAGTCCTTCGGGCCATCGGTAAGTCTTTCAGGCCATCGGTAAGTCT
64 AATTATTTCCAGAATTGGTAAGT-CTT---G----C-----G-------GGCCATCAGTAAG-CT
* ** * *
2703034 TTCGAACATGATGAGTAAATCCTTCAGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCTTT
108 TTCGAGCATGATGCTTAAATCCTTCAGGTCATCCATAAGTCTTTCGAGCAAGATGATAAGTC-TT
* * *
2703099 CGGCCATCAATAAGACCTTCGGACAAGG-TGTTTTCGA-TTGTTTTTTGAAAAATGAGAAAAATA
172 CGGCCATCAA-AAGACCTTCGGAC-AGGATGTTTTC-ACATG-TTTTCGAAAAATGAGAAAAGT-
* * * * * *
2703162 TTCTCATTTAAATATG-AAATTGAAGTTTTTGAAAAGTGAGAAATGATTTCCAAAGTTTCTTAGT
232 TTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAG-TTT-C----TTACCTAGT
* * * * * *
2703226 -AACTACTTCCAAAATTAGTAAGTCCTTCAAGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
291 AAATTATTTCCAGAATTGGTAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
* * *
2703290 TCCTTTGGGTCATATATAAGTC
356 TACTTCGGGTCATCTATAAGTC
2703312 ATTCAGGCAG
Statistics
Matches: 1122, Mismatches: 135, Indels: 105
0.82 0.10 0.08
Matches are distributed among these distances:
449 139 0.12
450 73 0.07
451 25 0.02
452 29 0.03
453 11 0.01
454 2 0.00
455 16 0.01
456 1 0.00
457 53 0.05
458 49 0.04
459 101 0.09
460 8 0.01
461 26 0.02
463 15 0.01
464 14 0.01
465 42 0.04
466 2 0.00
467 9 0.01
468 269 0.24
469 2 0.00
471 1 0.00
478 58 0.05
479 4 0.00
481 7 0.01
482 24 0.02
483 21 0.02
484 17 0.02
485 21 0.02
486 3 0.00
487 1 0.00
490 73 0.07
491 6 0.01
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (458 bp):
AAAATTTCTCATTTAAATCTAAAATTGAAATTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTAAA
TTATTTCCAGAATTGGTAAGTCTTGCGGGCCATCAGTAAGCTTTCGAGCATGATGCTTAAATCCT
TCAGGTCATCCATAAGTCTTTCGAGCAAGATGATAAGTCTTCGGCCATCAAAAGACCTTCGGACA
GGATGTTTTCACATGTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTT
TTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTCGAGCCA
TCAGTAAGTCTTTCGAGCATGATGCTTAAATACTTCGGGTCATCTATAAGTCTTTCGAGCAAGAT
GATAAGTCCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACATGTTTCTCGAAAAAT
GAG
Found at i:2703008 original size:20 final size:20
Alignment explanation
Indices: 2702985--2703037 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
2702975 TTCCATAATT
*
2702985 GGTAAGTCCTTCGGGCCATC
1 GGTAAGTCTTTCGGGCCATC
*
2703005 GGTAAGTCTTTCAGGCCATC
1 GGTAAGTCTTTCGGGCCATC
2703025 GGTAAGTCTTTCG
1 GGTAAGTCTTTCG
2703038 AACATGATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.30
Consensus pattern (20 bp):
GGTAAGTCTTTCGGGCCATC
Found at i:2703775 original size:133 final size:134
Alignment explanation
Indices: 2703627--2703904 Score: 380
Period size: 134 Copynumber: 2.1 Consensus size: 134
2703617 GAATAGTAGA
* *
2703627 AATCAACGTCCCCAGATCTGA-TTTCCCTCAAGAAGAAG-AGGAATAGAACCCTCTCTTTCAAGA
1 AATCAACGTCCCCAGATCTGATTTTCCCTCAAGAAGAAGCA-GAATAGAACCATATCTTTCAAGA
* * * * * **
2703690 TTTGATATTCTCTTAGTAACACTGGAACAAGTCTTCCTCGATTCAATCTTCCCTGAAGAACAGTG
65 TTTGATATTCCCTGAGGAACAATGGAACAAATCTTCCTCGATTCAAAATTCCCTGAAGAACAGTG
2703755 GAATG
130 GAATG
* *
2703760 AATCAACGTCCCCAGATCTGATTTTCCCTCAAGAATAAGCAGAATAGATCCATATCTTTCAAGAT
1 AATCAACGTCCCCAGATCTGATTTTCCCTCAAGAAGAAGCAGAATAGAACCATATCTTTCAAGAT
* * * * *
2703825 TTTATCTTCCCTGAGGAATAATGGAACAAATTTTCCTTGATTCAAAATTCCCTGAAGAACAGTGG
66 TTGATATTCCCTGAGGAACAATGGAACAAATCTTCCTCGATTCAAAATTCCCTGAAGAACAGTGG
2703890 AATG
131 AATG
*
2703894 AATCAATGTCC
1 AATCAACGTCC
2703905 TCGATTCAAT
Statistics
Matches: 126, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
133 21 0.17
134 104 0.83
135 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (134 bp):
AATCAACGTCCCCAGATCTGATTTTCCCTCAAGAAGAAGCAGAATAGAACCATATCTTTCAAGAT
TTGATATTCCCTGAGGAACAATGGAACAAATCTTCCTCGATTCAAAATTCCCTGAAGAACAGTGG
AATG
Found at i:2703956 original size:177 final size:175
Alignment explanation
Indices: 2703723--2704083 Score: 474
Period size: 175 Copynumber: 2.1 Consensus size: 175
2703713 GGAACAAGTC
* * * *
2703723 TTCCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATCTGATTTTCCC
1 TTCCTCGATTCAATCTTCCCTAAAGAACAATAGAATGAATCAACATCCCCAGATCTGATTTTCCC
* * * * *
2703788 TCAAGAATAAGCAGAATAGATCCATATCTTTCAAGATTTTATCTTCCCTGAGGAATAATGGAACA
66 TCAAG-A-AAGCAGAACAAATCCATATCTTTCAAGATTTAATCTTCCCCGAGGAACAATGGAACA
* * * *
2703853 AATTTTCCTTGATTCAAAATTCCCTGAAGAACAGTGGAATGAATCAATG
129 AA-TTGCCTTGATTCAAAATTCCCTGAA-AAAAGTAGAATGAATCAACG
* *
2703902 -TCCTCGATTCAATCTT-CCTAAAGAACAATAGAATGAATTAACATCTCCAGATCTGATTTTCCC
1 TTCCTCGATTCAATCTTCCCTAAAGAACAATAGAATGAATCAACATCCCCAGATCTGATTTTCCC
** * * * *
2703965 TCAAGAAAGTGGAACAAATCCCTCTCTTTCAAGATTTAATCTTCCCCGAGGAACAGTGGAAGAAA
66 TCAAGAAAGCAGAACAAATCCATATCTTTCAAGATTTAATCTTCCCCGAGGAACAATGGAACAAA
*
2704030 TTGCCTTGATTCAATATTCCCTGAAAAAAGTAGAATGAATCAACG
131 TTGCCTTGATTCAAAATTCCCTGAAAAAAGTAGAATGAATCAACG
2704075 TTCCTCGAT
1 TTCCTCGAT
2704084 CTGATCTACC
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
173 17 0.11
174 31 0.19
175 48 0.30
176 1 0.01
177 46 0.29
178 16 0.10
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (175 bp):
TTCCTCGATTCAATCTTCCCTAAAGAACAATAGAATGAATCAACATCCCCAGATCTGATTTTCCC
TCAAGAAAGCAGAACAAATCCATATCTTTCAAGATTTAATCTTCCCCGAGGAACAATGGAACAAA
TTGCCTTGATTCAAAATTCCCTGAAAAAAGTAGAATGAATCAACG
Found at i:2710538 original size:12 final size:11
Alignment explanation
Indices: 2710517--2710547 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
2710507 AAAAAAGAGA
2710517 AAATTAAAATG
1 AAATTAAAATG
2710528 AAATTAGAAATG
1 AAATTA-AAATG
2710540 AAATTAAA
1 AAATTAAA
2710548 GGGTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (11 bp):
AAATTAAAATG
Found at i:2715231 original size:542 final size:547
Alignment explanation
Indices: 2714517--2715613 Score: 1991
Period size: 542 Copynumber: 2.0 Consensus size: 547
2714507 AAGCATACCA
2714517 CAAATTTGTTGTTTTAGTTCAAATGAATGTGTTTTTTAAATGAAAATACTTTTTAGGTGCCCAAT
1 CAAATTTGTTGTTTTAGTTCAAATGAATGTGTTTTTTAAATGAAAATACTTTTTAGGTGCCCAAT
2714582 TACACCCTAATCAAATTGGTAGCGACTCATTGAATCACGTTTTATCGTTAATCGATCATCAAATT
66 TACACCCTAATCAAATTGGTAGCGACTCATTGAATCACGTTTTATCGTTAATCGATCATCAAATT
2714647 ATTTTTGAAACGAGGCCCCTTTTTTCCCCTTTTTGAAAAATTATTTCGACAGCTTTGCGACTCTG
131 ATTTTTGAAACGAGGCCCCTTTTTTCCCCTTTTTGAAAAATTATTTCGACAGCTTTGCGACTCTG
2714712 CTGGGGACATATTTTAGAGAGTCAGACCATTAGTCGACTAATTAATTGTCTTCGCAAATGAAAAT
196 CTGGGGACATATTTTAGAGAGTCAGACCATTAGTCGACTAATTAATTGTCTTCGCAAATGAAAAT
2714777 TACAAGCTCGTTCTAATTTGGTTTTTGATTCCTTG-TTGGTTTAAATAAGTGTTTATGATTTGAT
261 TACAAGCTCGTTCTAATTTGGTTTTTGATTCCTTGTTTGGTTTAAATAAGTGTTTATGATTTGAT
2714841 TAACCACTAAATAGTTGTACTGACTTGTTTGTT-GTG-TTTCAGAGTAAATAAATGTTCAAGA-T
326 TAACCACTAAATAGTTGTACTGACTTGTTTGTTGGTGTTTTCAGAGTAAATAAATGTTCAAGATT
2714903 TTGAGATTTCTG-TT-TGTTGTTTGATATGTTTGCGC-TTCCACATAC--CACATTGCATTATCA
391 TTGAGATTTCTGTTTGTGTTGTTTGATATGTTTGCGCTTTCCACATACATCAC-TTGCATTATC-
2714963 ATACACATGAGCTAAAA-CC-TAGGAGTGAGAAACTACTCCTTAGTGTGGTTTTCACCTCTGTAC
454 ATA-ACATGAGCTAAAACCCATAGGAGTGAGAAACTACTCCTTAGTGTGGTTTTCACCTCTGTAC
2715026 GGGATAGTAGATAGCTCATGGGGCTCACGC
518 GGGATAGTAGATAGCTCATGGGGCTCACGC
2715056 CAAATTTGTTGTTTTAGTTCAAATGAATGTGTTTTTTAAATGACAAATACTTTTTAGGTGCCCAA
1 CAAATTTGTTGTTTTAGTTCAAATGAATGTGTTTTTTAAATGA-AAATACTTTTTAGGTGCCCAA
2715121 TTACACCCTAATCAAAGATTGGTAGCGACTCATTGAATCACGTTTTATCGTTAATCGATCATCAA
65 TTACACCCTAATC-AA-ATTGGTAGCGACTCATTGAATCACGTTTTATCGTTAATCGATCATCAA
2715186 ATTATTTTTGAAACGAGGCCCCTTTTTTCCCCTTTTTGAAAAATTATTTCGACAGCTTTGCGACT
128 ATTATTTTTGAAACGAGGCCCCTTTTTTCCCCTTTTTGAAAAATTATTTCGACAGCTTTGCGACT
2715251 CTGCTGGGGACATATTTTAGAGAGTCAGACCATTAGTCGACTAATTAATTGTCTTCGCAAATGAA
193 CTGCTGGGGACATATTTTAGAGAGTCAGACCATTAGTCGACTAATTAATTGTCTTCGCAAATGAA
2715316 AATTACAAGCTCGTTCTAATTTGGTTTTTGATTCCTTGTTTGGTTTAAATAAGTGTTTATGATTT
258 AATTACAAGCTCGTTCTAATTTGGTTTTTGATTCCTTGTTTGGTTTAAATAAGTGTTTATGATTT
2715381 GATTAACCACTAAATAGTTGTACTGACTTGTTTGTTGGTGTTTTCAGAGTAAATAAATGTTCAAG
323 GATTAACCACTAAATAGTTGTACTGACTTGTTTGTTGGTGTTTTCAGAGTAAATAAATGTTCAAG
*
2715446 ATTTTGAGATTTCTGTTTGGTGTTGTTTGATATGTTTTCGCTTTTCCACATACATTGTGCACTTG
388 ATTTTGAGATTTCTGTTT-GTGTTGTTTGATATGTTTGCGC-TTTCCACATACA---T-CACTTG
2715511 CATTATCATAACATGAGCTAAAACCCTATAGGAGTGAGAAACTACTCCTTAGTGTGGTTTTCACC
447 CATTATCATAACATGAGCTAAAACCC-ATAGGAGTGAGAAACTACTCCTTAGTGTGGTTTTCACC
2715576 TCTGTACGGGATAGTAGATAGCTCATGGGGCTCACGC
511 TCTGTACGGGATAGTAGATAGCTCATGGGGCTCACGC
2715613 C
1 C
2715614 TTATGGTCCT
Statistics
Matches: 536, Mismatches: 1, Indels: 24
0.96 0.00 0.04
Matches are distributed among these distances:
539 43 0.08
540 34 0.06
541 2 0.00
542 216 0.40
543 62 0.12
544 3 0.01
545 25 0.05
546 13 0.02
547 2 0.00
549 20 0.04
551 10 0.02
554 13 0.02
555 5 0.01
556 10 0.02
557 78 0.15
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (547 bp):
CAAATTTGTTGTTTTAGTTCAAATGAATGTGTTTTTTAAATGAAAATACTTTTTAGGTGCCCAAT
TACACCCTAATCAAATTGGTAGCGACTCATTGAATCACGTTTTATCGTTAATCGATCATCAAATT
ATTTTTGAAACGAGGCCCCTTTTTTCCCCTTTTTGAAAAATTATTTCGACAGCTTTGCGACTCTG
CTGGGGACATATTTTAGAGAGTCAGACCATTAGTCGACTAATTAATTGTCTTCGCAAATGAAAAT
TACAAGCTCGTTCTAATTTGGTTTTTGATTCCTTGTTTGGTTTAAATAAGTGTTTATGATTTGAT
TAACCACTAAATAGTTGTACTGACTTGTTTGTTGGTGTTTTCAGAGTAAATAAATGTTCAAGATT
TTGAGATTTCTGTTTGTGTTGTTTGATATGTTTGCGCTTTCCACATACATCACTTGCATTATCAT
AACATGAGCTAAAACCCATAGGAGTGAGAAACTACTCCTTAGTGTGGTTTTCACCTCTGTACGGG
ATAGTAGATAGCTCATGGGGCTCACGC
Found at i:2717558 original size:20 final size:20
Alignment explanation
Indices: 2717533--2717575 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2717523 AACCAGATTG
2717533 CCAAGAGGGTACCGATACCC
1 CCAAGAGGGTACCGATACCC
2717553 CCAAGAGGGTACCGATACCC
1 CCAAGAGGGTACCGATACCC
2717573 CCA
1 CCA
2717576 TGTAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.37, G:0.23, T:0.09
Consensus pattern (20 bp):
CCAAGAGGGTACCGATACCC
Found at i:2722041 original size:23 final size:22
Alignment explanation
Indices: 2722010--2722088 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
2722000 TGGTGTAGGA
*
2722010 GGTATCGATACCCCCTTTGAAGG
1 GGTACCGATACCCCCTTTG-AGG
*
2722033 GGTACCGAT-TCCCCTTTGAGTG
1 GGTACCGATACCCCCTTTGAG-G
* **
2722055 GCTACCGATACCCCCTAGGA-G
1 GGTACCGATACCCCCTTTGAGG
2722076 GGTACCGATACCC
1 GGTACCGATACCC
2722089 TTCACGGGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 15 0.32
22 17 0.36
23 15 0.32
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (22 bp):
GGTACCGATACCCCCTTTGAGG
Found at i:2722083 original size:21 final size:21
Alignment explanation
Indices: 2722005--2722088 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
2721995 ACATTTGGTG
*
2722005 TAGGA-GGTATCGATACCCCC
1 TAGGAGGGTACCGATACCCCC
* * *
2722025 TTTGAAGGGGTACCGAT-TCCCC
1 -TAGGA-GGGTACCGATACCCCC
**
2722047 TTTGAGTGGCTACCGATACCCCC
1 TAGGAG-GG-TACCGATACCCCC
2722070 TAGGAGGGTACCGATACCC
1 TAGGAGGGTACCGATACCC
2722089 TTCACGGGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.02
21 19 0.39
22 13 0.27
23 16 0.33
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (21 bp):
TAGGAGGGTACCGATACCCCC
Found at i:2722671 original size:18 final size:17
Alignment explanation
Indices: 2722636--2722668 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2722626 AAAAAATGGA
2722636 TTTTGTTTTTAAATTGT
1 TTTTGTTTTTAAATTGT
*
2722653 TTTT-TTTTTTAATTGT
1 TTTTGTTTTTAAATTGT
2722669 GTTGTATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTTGTTTTTAAATTGT
Found at i:2722706 original size:13 final size:14
Alignment explanation
Indices: 2722679--2722713 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
2722669 GTTGTATTGA
2722679 TTTTCAAACCTTGG
1 TTTTCAAACCTTGG
2722693 TTTTCAAA-CTTGG
1 TTTTCAAACCTTGG
2722706 TTTTCAAA
1 TTTTCAAA
2722714 ATTGCCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (14 bp):
TTTTCAAACCTTGG
Found at i:2724201 original size:13 final size:13
Alignment explanation
Indices: 2724183--2724207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2724173 CTTTTTAATG
2724183 TGTTTGGATTTAC
1 TGTTTGGATTTAC
2724196 TGTTTGGATTTA
1 TGTTTGGATTTA
2724208 TTATGGATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.24, T:0.56
Consensus pattern (13 bp):
TGTTTGGATTTAC
Found at i:2730852 original size:20 final size:20
Alignment explanation
Indices: 2730800--2730855 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
2730790 TTCCAGAATT
*
2730800 GTTAAGTCCTTCAAGCCATC
1 GTTAAGTCCTTCGAGCCATC
2730820 GTTAAGTCCTTCGAGCCATC
1 GTTAAGTCCTTCGAGCCATC
*
2730840 GTTAAGTCTTTCGAGC
1 GTTAAGTCCTTCGAGC
2730856 ATGATGCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (20 bp):
GTTAAGTCCTTCGAGCCATC
Found at i:2731036 original size:247 final size:237
Alignment explanation
Indices: 2730570--2732156 Score: 1252
Period size: 229 Copynumber: 6.8 Consensus size: 237
2730560 TTCCAGAATT
* * * * *
2730570 GGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCTTTCAAGTCATCTAT
1 GGTAAGTCCTTCGAGCCATC-GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGT
* * **
2730635 AAGTCTTTCGAGCAAGATGATAGGTCCTTCGGGCCATCCATAAGACCTTCAGATAGGATGTTTCA
65 AAGTCTTTCGAGCAAGATGATAAGTCCTTC-GGCCATCCATAAGAACTTC-G-GGGGATGTTTCA
* * * *
2730700 CATGTTTCTCAAAAATGAGAAAGCTTTCTCAGTTAAATCTGAAAATTGAAATTTTTAAAAGTAAG
127 CATGTTTCTCGAAAATGAGAAA-ATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAAAGTAAG
*
2730765 AAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGTTAAGTCCTTC
191 AAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTC
*
2730812 AAGCCATCGTTAAGTCCTTCGAGCCATCGTTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
1 --G-----G-TAAGTCCTTCGAGCCATCG-TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAG
* *
2730877 TCATCTGTAAGTCTTTCGAGCAATATGATAAATCCTTCGGCCCATCCATAAGAACTTCGGGGGAT
57 TCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG-CCATCCATAAGAACTTCGGGGGAT
*
2730942 GTTT-TCATGTTTCTCGAAAATGAGAAATATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAA
121 GTTTCACATGTTTCTCGAAAATGAGAAA-ATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAA
* * *
2731006 AATAAGAAAAGTTTCTTACCTAGCAAATTATTTCCATAATTGGTAAGTCCTTC
185 AGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTC
* *
2731059 GG--A---C--C-A-TCA--GTAAG--TTTCGAGCATGATGCTTAAATCCTTCGAGTCATCCGTA
1 GGTAAGTCCTTCGAGCCATCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
* * * * *
2731111 AGTCTTCCGAGTAAGATGATAAGTTCTTTGAGCCATCCAAAAG-ACATTCGGGCAGGATGCTTTC
66 AGTCTTTCGAGCAAGATGATAAGTCCTTCG-GCCATCCATAAGAAC-TTCGGG--GGATG-TTTC
*
2731175 ACATGTCTT-TCGAAAAATGAG-AAAGTTCTCATTT-AATCTGAAAATTGAAACTTTTGAAAAGT
126 ACATGT-TTCTCG-AAAATGAGAAAATTTCTCATTTAAATCTGAAAATTGAAA-TTTTGAAAAGT
*
2731237 AAGAAAAGTTTCTTACCTAGTAAATTATTTTCAGAATTGGTAAGTCCTTC
188 AAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTC
* * ** * * *
2731287 GG---G--C--C-A-TCA--GTAAGTCTTTCAAAAATGATGTTTAAAT-CTTCGGGTCATCTATA
1 GGTAAGTCCTTCGAGCCATCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
* **
2731340 AGTATTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAG-ACATTCAAGCAGGATGTTTTC
66 AGTCTTTCGAGCAAGATGATAAGTCCTTC-GGCCATCCATAAGAAC-TTC--GGGGGATG-TTTC
* * * * **
2731404 ACA-GTTTCTCAAAAAATGAGAAAGGTTTCTCATTTAAATATGAAAA-TGAATTTTTTTAAAGTA
126 ACATGTTTCTC-GAAAATGAGAAA-ATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAAAGTA
* *
2731467 AGAAAAGTCTCTTACCTAGTAAATTATTTCCATAATTGGTAAGTCCTTC
189 AGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTC
* * * ** * * *
2731516 GG---G--C--C-A-TCA--GTAACTCTTTCAAGCATGATGCTTAAATATTTTGGGTCATATGTA
1 GGTAAGTCCTTCGAGCCATCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
* * * * * * *
2731570 A-T-TATTCAAGCAAGATGATTAGTCATTTGGACCATCTATAAGACCTTCGGGCAAGATGTTTTC
66 AGTCT-TTCGAGCAAGATGATAAGTCCTTCGG-CCATCCATAAGAACTTCGGG--GGATG-TTTC
* * *
2731633 ACATGTTTCTCAAAAAATGAGAAAGGTTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAGT-
126 ACATGTTTCTC-GAAAATGAGAAA-ATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAAAGTA
* * * *
2731697 AGAAAA-ATTCTTACCTAATAAA-TATTTCTAGAATTGGTAAGTCTTTC
189 AGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTC
* * *
2731744 GG---G--C--C-A--CA--GT-A-TGTTTCGAGCATGATGATT-AATCCTTCGGGTCATCTGTA
1 GGTAAGTCCTTCGAGCCATCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
* * * *
2731794 AGTCTTTGGAGCAAGATGATAGGTCCTTCAGGCTATCCATAAG-ACTTCGAGCAGGATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTCCTTC-GGCCATCCATAAGAACTTCG-G-GGGATG-TTTCA
* * * * *
2731858 CGTGTCTCTTGAAAAATGAGAAAAGTTTCTAATTTAAATCTGAAAATTGAAATTTTTGAAAATTA
127 CATGTTTCTCG-AAAATGAGAAAA-TTTCTCATTTAAATCTGAAAATTGAAA-TTTTGAAAAGTA
*
2731923 AGAAAAGTTTCTTACCTAGTAAATTATTTCCATAATTGGTAAGTCCTTC
189 AGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTC
* ** *
2731972 GG---G-CCATC--G-----GTAAGTCTTTCGAGCATGATGAGT-AATCCTTC-AGGTCATCTAT
1 GGTAAGTCCTTCGAGCCATCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGA-GTCATCTGT
* * **
2732024 AA-TCCTTTCGAGCAAGATGATAAGTCTTTCGAGCCATCCATAAGACCTTCAGACAAGG-TGTTT
65 AAGT-CTTTCGAGCAAGATGATAAGTCCTTCG-GCCATCCATAAGAACTTC-G--GGGGATG-TT
* * *
2732087 TCGA-TTGTTT-TAGAAAATGAGAAAATTTCTCATTT-AATCTGAAAATTGAAGTTTTTGAAAAG
124 TC-ACATGTTTCTCGAAAATGAGAAAATTTCTCATTTAAATCTGAAAATTGAA-ATTTTGAAAAG
*
2732149 TGAGAAAA
187 TAAGAAAA
2732157 TGATTTCCAA
Statistics
Matches: 1141, Mismatches: 141, Indels: 138
0.80 0.10 0.10
Matches are distributed among these distances:
224 77 0.07
225 131 0.11
226 11 0.01
227 46 0.04
228 183 0.16
229 238 0.21
230 119 0.10
231 96 0.08
232 16 0.01
233 5 0.00
234 1 0.00
237 1 0.00
240 1 0.00
244 1 0.00
245 1 0.00
247 103 0.09
248 8 0.01
249 5 0.00
250 98 0.09
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (237 bp):
GGTAAGTCCTTCGAGCCATCGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGAGTCATCTGTA
AGTCTTTCGAGCAAGATGATAAGTCCTTCGGCCATCCATAAGAACTTCGGGGGATGTTTCACATG
TTTCTCGAAAATGAGAAAATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAAAGTAAGAAAAG
TTTCTTACCTAGTAAATTATTTCCAGAATTGGTAAGTCCTTC
Found at i:2731484 original size:229 final size:230
Alignment explanation
Indices: 2730822--2732246 Score: 1573
Period size: 229 Copynumber: 6.2 Consensus size: 230
2730812 AAGCCATCGT
*
2730822 TAAGTCCTTCGAGCCATC-GTTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
1 TAAGTCCTTCGGGCCATCAG-TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTA
* * * *
2730886 AGTCTTTCGAGCAATATGATAAATCCTTCGGCCCATCCATAAGA-ACTTCG-G-GGGATGTTTTC
65 AGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACA-TTCGAGCAGGATGTTTTC
* * * * *
2730948 A-TGTTTCTC-GAAAATGAGAAATATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAAAATAA
129 ACAGTTTCTCAAAAAATGAGAAA-GTTTCTCATTTAAATCTGAAAATTGAATTTTTGAAAAGTAA
*
2731011 GAAAAGTTTCTTACCTAGCAAATTATTTCCATAATTGG
193 GAAAAGTTTCTTACCTAGTAAATTATTTCCATAATTGG
* * *
2731049 TAAGTCCTTCGGACCATCAGTAAG--TTTCGAGCATGATGCTTAAATCCTTCGAGTCATCCGTAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* * * * * * * *
2731112 GTCTTCCGAGTAAGATGATAAGTTCTTTGAGCCATCCAAAAGACATTCGGGCAGGATGCTTTCAC
66 GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCGAGCAGGATGTTTTCAC
* *
2731177 ATGTCTT-TCGAAAAATGAGAAAG-TTCTCATTT-AATCTGAAAATTGAAACTTTTGAAAAGTAA
131 A-GT-TTCTCAAAAAATGAGAAAGTTTCTCATTTAAATCTGAAAATTG-AATTTTTGAAAAGTAA
* *
2731239 GAAAAGTTTCTTACCTAGTAAATTATTTTCAGAATTGG
193 GAAAAGTTTCTTACCTAGTAAATTATTTCCATAATTGG
* ** * *
2731277 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAAAATGATGTTTAAAT-CTTCGGGTCATCTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* *
2731341 GTATTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCAAGCAGGATGTTTTCAC
66 GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCGAGCAGGATGTTTTCAC
* **
2731406 AGTTTCTCAAAAAATGAGAAAGGTTTCTCATTTAAATATGAAAA-TGAATTTTTTTAAAGTAAGA
131 AGTTTCTCAAAAAATGAGAAA-GTTTCTCATTTAAATCTGAAAATTGAATTTTTGAAAAGTAAGA
*
2731470 AAAGTCTCTTACCTAGTAAATTATTTCCATAATTGG
195 AAAGTTTCTTACCTAGTAAATTATTTCCATAATTGG
* * ** * *
2731506 TAAGTCCTTCGGGCCATCAGTAACTCTTTCAAGCATGATGCTTAAATATTTTGGGTCATATGTAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* * * * * * * * *
2731571 -T-TATTCAAGCAAGATGATTAGTCATTTGGACCATCTATAAGACCTTCGGGCAAGATGTTTTCA
66 GTCT-TTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCGAGCAGGATGTTTTCA
* *
2731634 CATGTTTCTCAAAAAATGAGAAAGGTTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAGT-A
130 CA-GTTTCTCAAAAAATGAGAAA-GTTTCTCATTTAAATCTGAAAATTGAATTTTTGAAAAGTAA
* * * *
2731698 GAAAA-ATTCTTACCTAATAAA-TATTTCTAGAATTGG
193 GAAAAGTTTCTTACCTAGTAAATTATTTCCATAATTGG
* * *
2731734 TAAGTCTTTCGGGCCA-CAGT-A-TGTTTCGAGCATGATGATT-AATCCTTCGGGTCATCTGTAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* * * *
2731795 GTCTTTGGAGCAAGATGATAGGTCCTTCAGGCTATCCATAAGAC-TTCGAGCAGGATGTTTTCAC
66 GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCGAGCAGGATGTTTTCAC
** * *
2731859 -GTGTCTCTTGAAAAATGAGAAAAGTTTCTAATTTAAATCTGAAAATTGAAATTTTTGAAAATTA
131 AGT-T-TCTCAAAAAATGAG-AAAGTTTCTCATTTAAATCTGAAAATTG-AATTTTTGAAAAGTA
2731923 AGAAAAGTTTCTTACCTAGTAAATTATTTCCATAATTGG
192 AGAAAAGTTTCTTACCTAGTAAATTATTTCCATAATTGG
* ** * *
2731962 TAAGTCCTTCGGGCCATCGGTAAGTCTTTCGAGCATGATGAGT-AATCCTTCAGGTCATCTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* * *
2732026 -TCCTTTCGAGCAAGATGATAAGTCTTTCGAGCCATCCATAAGACCTTC-AGACAAGG-TGTTTT
66 GT-CTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCGAG-C-AGGATGTTTT
** * *
2732088 CGATTGTTT-T-AGAAAATGAGAAAATTTCTCATTT-AATCTGAAAATTGAAGTTTTTGAAAAGT
128 C-ACAGTTTCTCAAAAAATGAGAAAGTTTCTCATTTAAATCTGAAAATTGAA-TTTTTGAAAAGT
* * * * * *
2732150 GAGAAAATGATTTCCAAAGTTTCTTAGTAAACTACTTCCA-AATTAG
191 AAGAAAA-G-TTT-C----TTACCTAGTAAATTATTTCCATAATTGG
** * *
2732196 TAAGTCCTTCAAGCCATCAATAAGTCTTTCGAGCATGATGATTAAATCCTT
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTT
2732247 TGAGTCATAT
Statistics
Matches: 1016, Mismatches: 136, Indels: 84
0.82 0.11 0.07
Matches are distributed among these distances:
222 2 0.00
223 1 0.00
224 70 0.07
225 137 0.13
226 10 0.01
227 65 0.06
228 185 0.18
229 248 0.24
230 114 0.11
231 98 0.10
232 12 0.01
233 5 0.00
234 45 0.04
235 24 0.02
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (230 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
GTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCGAGCAGGATGTTTTCAC
AGTTTCTCAAAAAATGAGAAAGTTTCTCATTTAAATCTGAAAATTGAATTTTTGAAAAGTAAGAA
AAGTTTCTTACCTAGTAAATTATTTCCATAATTGG
Found at i:2732021 original size:685 final size:683
Alignment explanation
Indices: 2730505--2732156 Score: 1914
Period size: 685 Copynumber: 2.4 Consensus size: 683
2730495 AATCTCATTA
* *
2730505 AATCT-AAATATTGAAA-TTTTGAAAAGTAAGAAAATTTTCTTACCTAGTAAATCATTTCCAGAA
1 AATCTGAAA-ATTGAAACTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAA
* * ** ** *
2730568 TTGGTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCTTTCAAGTCATCT
65 TTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAAAATGATGAGTAAATC-TTCAGGTCATCT
* * * *
2730633 ATAAGTC-TTTCGAGCAAGATGATAGGTCCTTCGGGCCATCCATAAGACCTTCAGA-TAGGATG-
129 ATAA-TCATTTCGAGCAAGATGATAAGTCCTTCGAGCCATCCATAAGACATTCAGACAAGG-TGT
* * * * *
2730695 TTTC-ACATGTTTCTCAAAAATGAGAAAGCTTTCTCAGTTAAATCTGAAAATTGAAATTTTT-AA
192 TTTCGACA-GTTT-TAAAAAATGAGAAA-ATTTCTCA-TTTAATATGAAAATTGAAGTTTTTGAA
*
2730758 AAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAATTGTTAAGTCCTTCAAGCCATCGTT
253 AAGTAAGAAAAGTCTCTTACCTAGTAAATTATTTCC---A----TAA----TT---G-----G-T
* * * *
2730823 AAGTCCTTCGAGCCATCGTTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
298 AAGTCCTTCGAGCCATCGTTAACTCTTTCAAGCATGATGCTTAAATACTTCGGGTCATATGTAAG
* * * * *
2730888 TCTTTCGAGCAATATGATAAATCCTTCGGCCCATCCATAAGAACTTCGGGGGATGTTTTCATGTT
363 TCTTTCAAGCAAGATGATAAATCATTCGGACCATCCATAAGAACTTCGGGAGATGTTTTCATGTT
* * * *
2730953 TCTCGAAAATGAGAAATATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAAAATAAGAAAAGT
428 TCTCAAAAATGAGAAAGATTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAATAAGAAAAGA
* *
2731018 TTCTTACCTAGCAAATTATTTCCATAATTGGTAAGTCCTTCGGACCATCAGTAAGTTTCGAGCAT
493 TTCTTACCTAACAAATTATTTCCAGAATTGGTAAGTCCTTCGGACCATCAGTAAGTTTCGAGCAT
* * * *
2731083 GATGCTTAAATCCTTCGAGTCATCCGTAAGTCTTCCGAGTAAGATGATAAGTTCTTTGAGCCATC
558 GATGATTAAATCCTTCGAGTCATCCGTAAGTCTTCCGAGCAAGATGATAAGTCCTTAGAGCCATC
* *
2731148 CAAAAGACATTCGGGCAGGATGCTTTCACATGTCTTTCGAAAAATGAGAAAGTTCTCATTT
623 CAAAAGACATTCGAGCAGGATGCTTTCACATGTCTTTCGAAAAATGAGAAAGTTCTAATTT
*
2731209 AATCTGAAAATTGAAACTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTTCAGAAT
1 AATCTGAAAATTGAAACTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAAT
** *
2731274 TGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAAAATGATGTTTAAATCTTCGGGTCATCTAT
66 TGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAAAATGATGAGTAAATCTTCAGGTCATCTAT
*
2731339 AAGT-ATTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACATTCA-AGC-AGGATGTT
131 AA-TCATTTCGAGCAAGATGATAAGTCCTTCGAGCCATCCATAAGACATTCAGA-CAAGG-TGTT
* **
2731401 TTC-ACAGTTTCTCAAAAAATGAGAAAGGTTTCTCATTTAAATATGAAAA-TGAA-TTTTTTTAA
193 TTCGACAGTTT-T-AAAAAATGAGAAA-ATTTCTCATTT-AATATGAAAATTGAAGTTTTTGAAA
*
2731463 AGTAAGAAAAGTCTCTTACCTAGTAAATTATTTCCATAATTGGTAAGTCCTTCGGGCCATCAG-T
254 AGTAAGAAAAGTCTCTTACCTAGTAAATTATTTCCATAATTGGTAAGTCCTTCGAGCCATC-GTT
* * *
2731527 AACTCTTTCAAGCATGATGCTTAAATATTTTGGGTCATATGTAA-T-TATTCAAGCAAGATGATT
318 AACTCTTTCAAGCATGATGCTTAAATACTTCGGGTCATATGTAAGTCT-TTCAAGCAAGATGATA
* * * *
2731590 AGTCATTTGGACCATCTATAAGACCTTCGGGCAAGATGTTTTCACATGTTTCTCAAAAAATGAGA
382 AATCATTCGGACCATCCATAAGAACTTCGGG--AGATGTTTT--CATGTTTCTC-AAAAATGAGA
* * *
2731655 AAGGTTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAGT-AGAAAA-ATTCTTACCTAATAA
442 AAGATTTCTCATTTAAATCTAAAAATTGAAATTTTGAAAAATAAGAAAAGATTCTTACCTAACAA
* * * *
2731718 A-TATTTCTAGAATTGGTAAGTCTTTCGGGCCA-CAGTATGTTTCGAGCATGATGATT-AATCCT
507 ATTATTTCCAGAATTGGTAAGTCCTTCGGACCATCAGTAAGTTTCGAGCATGATGATTAAATCCT
* * ** * * *
2731780 TCGGGTCATCTGTAAGTCTTTGGAGCAAGATGATAGGTCCTTCAG-GCTATCCATAAGAC-TTCG
572 TCGAGTCATCCGTAAGTCTTCCGAGCAAGATGATAAGTCCTT-AGAGCCATCCAAAAGACATTCG
* *
2731843 AGCAGGATGTTTTCACGTGTCTCTT-GAAAAATGAGAAAAGTTTCTAATTT
636 AGCAGGATGCTTTCACATGTCT-TTCGAAAAATGAG-AAAG-TTCTAATTT
* * *
2731893 AAATCTGAAAATTGAAATTTTTGAAAATTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCATAA
1 -AATCTGAAAATTGAAACTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAA
* * **
2731958 TTGGTAAGTCCTTCGGGCCATCGGTAAGTCTTTCGAGCATGATGAGT-AATCCTTCAGGTCATCT
65 TTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAAAATGATGAGTAAAT-CTTCAGGTCATCT
* * *
2732022 ATAATCCTTTCGAGCAAGATGATAAGTCTTTCGAGCCATCCATAAGACCTTCAGACAAGGTGTTT
129 ATAATCATTTCGAGCAAGATGATAAGTCCTTCGAGCCATCCATAAGACATTCAGACAAGGTGTTT
** * * *
2732087 TCGATTGTTTTAGAAAATGAGAAAATTTCTCATTTAATCTGAAAATTGAAGTTTTTGAAAAGTGA
194 TCGACAGTTTTAAAAAATGAGAAAATTTCTCATTTAATATGAAAATTGAAGTTTTTGAAAAGTAA
2732152 GAAAA
259 GAAAA
2732157 TGATTTCCAA
Statistics
Matches: 834, Mismatches: 86, Indels: 76
0.84 0.09 0.08
Matches are distributed among these distances:
682 43 0.05
683 112 0.13
684 119 0.14
685 206 0.25
686 22 0.03
687 16 0.02
688 47 0.06
690 1 0.00
693 2 0.00
697 3 0.00
701 1 0.00
703 6 0.01
704 126 0.15
705 130 0.16
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (683 bp):
AATCTGAAAATTGAAACTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAATTATTTCCAGAAT
TGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAAAATGATGAGTAAATCTTCAGGTCATCTAT
AATCATTTCGAGCAAGATGATAAGTCCTTCGAGCCATCCATAAGACATTCAGACAAGGTGTTTTC
GACAGTTTTAAAAAATGAGAAAATTTCTCATTTAATATGAAAATTGAAGTTTTTGAAAAGTAAGA
AAAGTCTCTTACCTAGTAAATTATTTCCATAATTGGTAAGTCCTTCGAGCCATCGTTAACTCTTT
CAAGCATGATGCTTAAATACTTCGGGTCATATGTAAGTCTTTCAAGCAAGATGATAAATCATTCG
GACCATCCATAAGAACTTCGGGAGATGTTTTCATGTTTCTCAAAAATGAGAAAGATTTCTCATTT
AAATCTAAAAATTGAAATTTTGAAAAATAAGAAAAGATTCTTACCTAACAAATTATTTCCAGAAT
TGGTAAGTCCTTCGGACCATCAGTAAGTTTCGAGCATGATGATTAAATCCTTCGAGTCATCCGTA
AGTCTTCCGAGCAAGATGATAAGTCCTTAGAGCCATCCAAAAGACATTCGAGCAGGATGCTTTCA
CATGTCTTTCGAAAAATGAGAAAGTTCTAATTT
Found at i:2732746 original size:129 final size:132
Alignment explanation
Indices: 2732546--2732839 Score: 298
Period size: 130 Copynumber: 2.2 Consensus size: 132
2732536 AACTCGATTA
* * * *
2732546 AATCTTTCCT-AAGGAATAGTGGAATAATCAACGTCCCCAGATCTGATTTTCCCTCAAGAAAAAG
1 AATC-TTCCTGAA-GAACAGTGGAAGAATCAACATCCCCAGATCTGAATTTCCCTCAAGAAAAAG
** * * * * * *
2732610 TGGAATAGAACCCA-TCTCTTTTAAGA-TTGATATTCCTTGAGTAACAGT-GAA-TAATTCTTCC
64 CAGAATAG-A-CCATTCCCTTTCAAGATTTGATATTCCCTGAGGAACAATGGAACAAATT-TTCC
2732671 -TCAATTC
126 AT-AATTC
*
2732678 AATCTTCCTGAAGAACAGTGGAAGAATCAACAT-CCCAGATCT-AATTTCCCTCAAGAATAAGCA
1 AATCTTCCTGAAGAACAGTGGAAGAATCAACATCCCCAGATCTGAATTTCCCTCAAGAAAAAGCA
* * * * *
2732741 TAATAGATCATTCCCTTTCAAGATTTGATCTTCCCTGAGGAATAATGGAACAAATTTTCCATGAT
66 GAATAGACCATTCCCTTTCAAGATTTGATATTCCCTGAGGAACAATGGAACAAATTTTCCATAAT
2732806 TC
131 TC
*
2732808 AATATTCCTGAAGAACAGTGGAATGAATCAAC
1 AATCTTCCTGAAGAACAGTGGAA-GAATCAAC
2732840 GTTCCTTGAT
Statistics
Matches: 136, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
127 2 0.01
128 11 0.08
129 39 0.29
130 42 0.31
131 36 0.26
132 6 0.04
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (132 bp):
AATCTTCCTGAAGAACAGTGGAAGAATCAACATCCCCAGATCTGAATTTCCCTCAAGAAAAAGCA
GAATAGACCATTCCCTTTCAAGATTTGATATTCCCTGAGGAACAATGGAACAAATTTTCCATAAT
TC
Found at i:2732939 original size:175 final size:175
Alignment explanation
Indices: 2732667--2733044 Score: 447
Period size: 175 Copynumber: 2.2 Consensus size: 175
2732657 TGAATAATTC
* * *
2732667 TTCCTCAATTCAATCTT-CCTGAAGAACAGTGGAAGAATCAACATCCCAGATCTAATTTCCCTCA
1 TTCCTCGATTC-ATCTTCCCTGAAGAACAATAGAAGAATCAACATCCCAGATCTAATTTCCCTCA
* * * * * * * * *
2732731 AGAATAAGCATAATAGATCATTCCCTTTCAAGATTTGATCTTCCCTGAGGAATAATGGAACAAAT
65 AGAAGAAGCAGAACAAATCACTCCCTTTCAAGATTTAATATTCCCCGAGGAACAATGGAACAAAT
* * * * *
2732796 TTTCCATGATTCAAT-ATTCCTGAAGAACAGTGGAATGAATCAACG
130 CTTCCATGATTCAATAATCCCTGAAAAACAGTAGAATGAATCAACA
* * *
2732841 TTCCTTGATTCATCTTCCCTAAAGAACAATAGAATGAATCAACATCTCCAGATCTAATTTTCCTC
1 TTCCTCGATTCATCTTCCCTGAAGAACAATAGAA-GAATCAACATC-CCAGATCTAATTTCCCTC
** * * *
2732906 AAG-AGAAGTGGAACAAATCCCTCTCTTTCAAGATTTAATATTCCCCGAGGAACAGTGGAACAAA
64 AAGAAGAAGCAGAACAAATCACTCCCTTTCAAGATTTAATATTCCCCGAGGAACAATGGAACAAA
* *
2732970 TCTTCCTTGATTCAATAATCCCTGAAAAATAGTAGAATGAATCAACA
129 TCTTCCATGATTCAATAATCCCTGAAAAACAGTAGAATGAATCAACA
* *
2733017 TTCCTCGATTGATCTACCCTGAAGAACA
1 TTCCTCGATTCATCTTCCCTGAAGAACA
2733045 GTGGGGATAT
Statistics
Matches: 169, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
173 5 0.03
174 23 0.14
175 72 0.43
176 69 0.41
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (175 bp):
TTCCTCGATTCATCTTCCCTGAAGAACAATAGAAGAATCAACATCCCAGATCTAATTTCCCTCAA
GAAGAAGCAGAACAAATCACTCCCTTTCAAGATTTAATATTCCCCGAGGAACAATGGAACAAATC
TTCCATGATTCAATAATCCCTGAAAAACAGTAGAATGAATCAACA
Found at i:2733128 original size:41 final size:41
Alignment explanation
Indices: 2733082--2733166 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
2733072 TCAAGAAAAA
2733082 AAAACAAAA-ACAACAAAAAACTTACCTTTCTTCAACGGAAG
1 AAAACAAAACAC-ACAAAAAACTTACCTTTCTTCAACGGAAG
2733123 AAAACAAAACACACAAAAAACTTACCTTTCTTCAACGGAAG
1 AAAACAAAACACACAAAAAACTTACCTTTCTTCAACGGAAG
2733164 AAA
1 AAA
2733167 CCTTTGACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 41 0.95
42 2 0.05
ACGTcount: A:0.54, C:0.22, G:0.07, T:0.16
Consensus pattern (41 bp):
AAAACAAAACACACAAAAAACTTACCTTTCTTCAACGGAAG
Found at i:2739548 original size:96 final size:95
Alignment explanation
Indices: 2739384--2739575 Score: 375
Period size: 96 Copynumber: 2.0 Consensus size: 95
2739374 AACGTCTTTA
2739384 TGGGGCAATATCAATATGTTAAAGGCTTAGCTCCAAAGCGTTAGGATCTTTAGGGAATAAGGATG
1 TGGGGCAATATCAATATGTTAAAGGCTTAGCTCCAAAGCGTTAGGATCTTTAGGGAATAAGGATG
2739449 AAATCCACTAAAAGCATTAAAGTATATGCCC
66 AAATCCACTAAAAGCATTAAAG-ATATGCCC
2739480 TGGGGCAATATCAATATGTTAAAGGCTTAGCTCCAAAGCGTTAGGATCTTTAGGGAATAAGGATG
1 TGGGGCAATATCAATATGTTAAAGGCTTAGCTCCAAAGCGTTAGGATCTTTAGGGAATAAGGATG
2739545 AAATCCACTAAAAGCATTAAAGATATGCCC
66 AAATCCACTAAAAGCATTAAAGATATGCCC
2739575 T
1 T
2739576 AAGATGGAAA
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 9 0.09
96 87 0.91
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (95 bp):
TGGGGCAATATCAATATGTTAAAGGCTTAGCTCCAAAGCGTTAGGATCTTTAGGGAATAAGGATG
AAATCCACTAAAAGCATTAAAGATATGCCC
Found at i:2747559 original size:60 final size:59
Alignment explanation
Indices: 2747495--2747653 Score: 144
Period size: 60 Copynumber: 2.6 Consensus size: 59
2747485 GCATATCCTC
* *
2747495 AAATTATGACTCTCATTTTAAATTGGTCTCTAAACTTTTCAATATTCCAATTTTATCCCT
1 AAATTATGACTCTCATTTTAAATTGGTC-CTAAACTTTTCAATATTCCAATTTCATCACT
* * * * * * *
2747555 AAATTATTG-CTATAATTCTATATTAGTCCTCAAACTTTTGAATATTTCAATTTCATCACT
1 AAATTA-TGACTCTCATTTTAAATTGGTCCT-AAACTTTTCAATATTCCAATTTCATCACT
* *
2747615 ACAA-CATGAC-CTTCATTTTAAATTGGTCCCCAAACTTTT
1 A-AATTATGACTC-TCATTTTAAATTGGT-CCTAAACTTTT
2747654 TGAACATTCC
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
59 4 0.05
60 67 0.87
61 6 0.08
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.43
Consensus pattern (59 bp):
AAATTATGACTCTCATTTTAAATTGGTCCTAAACTTTTCAATATTCCAATTTCATCACT
Done.