Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_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: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 20
Found at i:1349402 original size:33 final size:33
Alignment explanation
Indices: 1349322--1349411 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
1349312 AAAATCGCAA
*
1349322 TGCGATTTGT-ATTTCGCGTTGCGATTTTGTCGT
1 TGCGATTT-TCATTTCGCATTGCGATTTTGTCGT
1349355 TGCGA-TTTCATTTCGCATTGCGATTTTGTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
1349387 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCATTGCGAT
1349412 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
31 1 0.02
32 29 0.54
33 24 0.44
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTTTGTCGT
Found at i:1349410 original size:19 final size:19
Alignment explanation
Indices: 1349354--1349453 Score: 77
Period size: 19 Copynumber: 5.5 Consensus size: 19
1349344 GATTTTGTCG
1349354 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1349372 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
1349386 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*** *
1349405 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
** *
1349425 TTGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
1349444 TTGCGATTTT
1 TTGCGATTTT
1349454 AAGTTTCGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
14 6 0.09
15 3 0.04
16 4 0.06
17 4 0.06
18 9 0.13
19 24 0.36
20 17 0.25
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1349430 original size:20 final size:19
Alignment explanation
Indices: 1349396--1349450 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
1349386 TTGCGATTTT
*
1349396 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1349415 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
1349435 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
1349451 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1351459 original size:19 final size:19
Alignment explanation
Indices: 1351435--1351574 Score: 191
Period size: 19 Copynumber: 7.6 Consensus size: 19
1351425 AAAACAGACT
* *
1351435 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
1351454 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1351473 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1351492 ATCGCATTGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1351511 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
1351525 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1351544 ATTGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1351563 ATCGCATTGCGA
1 ATCGCAATGCGA
1351575 TTTTCTCGTT
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
14 11 0.10
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 90 0.84
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1351588 original size:14 final size:14
Alignment explanation
Indices: 1351569--1351622 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
1351559 GAAAATCGCA
1351569 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
1351583 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
1351600 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
1351616 TTGCGAT
1 TTGCGAT
1351623 AACCATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:1351588 original size:52 final size:52
Alignment explanation
Indices: 1351435--1351568 Score: 178
Period size: 52 Copynumber: 2.5 Consensus size: 52
1351425 AAAACAGACT
* * *
1351435 ATCGCAACGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAA
*
1351492 ATCGCATTGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAA
*
1351544 ATTGCAATGCGAAATGAAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCA
1351569 TTGCGATTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
52 45 0.63
53 1 0.01
55 2 0.03
57 23 0.32
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAA
Found at i:1351630 original size:33 final size:34
Alignment explanation
Indices: 1351564--1351642 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 34
1351554 GAAATGAAAA
***
1351564 TCGCATTGCGATTTTCTCGTTGCGATTTTCA-TT
1 TCGCATTGCGATTTTCTCGTTGCGATAACCATTT
1351597 TCGCATTGCGATTTTCTCGTTGCGATAACCATTT
1 TCGCATTGCGATTTTCTCGTTGCGATAACCATTT
*
1351631 TCGCGTTGCGAT
1 TCGCATTGCGAT
1351643 AGCCATTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 28 0.68
34 13 0.32
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (34 bp):
TCGCATTGCGATTTTCTCGTTGCGATAACCATTT
Found at i:1351664 original size:20 final size:20
Alignment explanation
Indices: 1351607--1351664 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1351597 TCGCATTGCG
* *
1351607 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
1351627 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1351647 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
1351665 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:1352723 original size:24 final size:24
Alignment explanation
Indices: 1352696--1352749 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1352686 GTATTCGAAA
* *
1352696 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
1352720 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
1352744 TTTGAT
1 TTTGAT
1352750 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:1352941 original size:12 final size:12
Alignment explanation
Indices: 1352924--1352948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1352914 ATATAATCCT
1352924 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1352936 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1352948 G
1 G
1352949 TCCCGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1355246 original size:19 final size:19
Alignment explanation
Indices: 1355221--1355351 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
1355211 GGAAATTACT
1355221 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1355240 ATTGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1355254 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1355273 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
1355287 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* **
1355306 ATCACAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
1355320 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1355339 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1355352 TTTAATTTCG
Statistics
Matches: 80, Mismatches: 17, Indels: 30
0.63 0.13 0.24
Matches are distributed among these distances:
14 25 0.31
15 3 0.04
16 6 0.08
17 6 0.08
18 3 0.04
19 37 0.46
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1355263 original size:33 final size:33
Alignment explanation
Indices: 1355221--1355347 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
1355211 GGAAATTACT
*
1355221 ATCGCAATGCGAAATGAAAATTGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
1355254 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
1355286 TTTCGCAATGCGAAATGAAAATCACAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1355320 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1355348 CGAATTTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 80 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1355328 original size:66 final size:66
Alignment explanation
Indices: 1355222--1355354 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
1355212 GAAATTACTA
** *
1355222 TCGCAATGCGAAATGAAAATTGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1355287 T
66 T
*
1355288 TCGCAATGCGAAATGAAAATCACAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1355353 T
66 T
1355354 T
1 T
1355355 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:1355369 original size:19 final size:20
Alignment explanation
Indices: 1355347--1355389 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1355337 AAATCGCAAC
1355347 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
1355366 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
1355386 GCGA
1 GCGA
1355390 TTCTCGTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:1355419 original size:31 final size:32
Alignment explanation
Indices: 1355362--1355421 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1355352 TTTAATTTCG
*
1355362 CGTTGCGATTTTCATTTTCGCGTTGCGATTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCT
1355394 CGTTGCGATTTTCA-TTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
1355422 AGTACTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCT
Found at i:1355544 original size:13 final size:14
Alignment explanation
Indices: 1355528--1355563 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1355518 CATCAATTAA
1355528 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
1355541 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1355555 ACAAATCAA
1 ACAAATCAA
1355564 TTAAACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1356975 original size:21 final size:21
Alignment explanation
Indices: 1356909--1356975 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1356899 GTGAATCGGG
*
1356909 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1356929 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1356951 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1356972 CTCT
1 CTCT
1356976 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1356994 original size:42 final size:41
Alignment explanation
Indices: 1356909--1357031 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
1356899 GTGAATCGGG
* * * * *
1356909 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
1356951 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
1356993 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
1357032 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:1359059 original size:39 final size:37
Alignment explanation
Indices: 1359016--1359142 Score: 127
Period size: 39 Copynumber: 3.4 Consensus size: 37
1359006 TCTTTTGGTT
*
1359016 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACG-GA-AATGAAAATCGCAACGC
** * * *
1359055 GAAATGACTATCGCGAC---CA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGGAAATGAAAATCGCAACGC
*
1359088 GAAATGAAAATCGCAATCGCGAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CG-GAAATGAAAATCGCAACGC
1359127 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1359143 TGCGATTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
33 26 0.37
34 2 0.03
38 1 0.01
39 42 0.59
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (37 bp):
GAAATGAAAATCGCAACGGAAATGAAAATCGCAACGC
Found at i:1359067 original size:19 final size:19
Alignment explanation
Indices: 1359016--1359147 Score: 139
Period size: 19 Copynumber: 7.1 Consensus size: 19
1359006 TCTTTTGGTT
*
1359016 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1359035 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
1359055 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
1359073 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1359088 GAAATGAAAATCGCAATCGC
1 GAAATGAAAATCGCAA-CGC
*
1359108 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1359127 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1359146 GA
1 GA
1359148 TTTTTGGTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.11
15 2 0.02
18 2 0.02
19 46 0.48
20 35 0.37
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1360757 original size:35 final size:35
Alignment explanation
Indices: 1360706--1360773 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
1360696 AACACAATCA
*
1360706 TCAATTTCATTATAAACC-CTAAATTCCAAAATAAT
1 TCAATTACATTATAAACCTC-AAATTCCAAAATAAT
* *
1360741 TCAATTACATTTTAAACCTCAAATTCTAAAATA
1 TCAATTACATTATAAACCTCAAATTCCAAAATA
1360774 CTTTAGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (35 bp):
TCAATTACATTATAAACCTCAAATTCCAAAATAAT
Found at i:1368269 original size:15 final size:16
Alignment explanation
Indices: 1368237--1368269 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1368227 AATCTAAGCG
*
1368237 TAGATATAAAATTCGA
1 TAGAAATAAAATTCGA
1368253 TAGAAATAAAA-TCGA
1 TAGAAATAAAATTCGA
1368268 TA
1 TA
1368270 CTTAAATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (16 bp):
TAGAAATAAAATTCGA
Found at i:1369980 original size:30 final size:31
Alignment explanation
Indices: 1369944--1370028 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 31
1369934 TAAAATATAT
*
1369944 AACTTTTAAAAATTATATTTTTAGTCC-CTA
1 AACTTTTAAAAATTATATTTTTAGTCCACCA
* * *
1369974 AACTTTTACAAGTT-TATACTTTAG-CCACCA
1 AACTTTTAAAAATTATAT-TTTTAGTCCACCA
* *
1370004 AACTTTTAAAACTTACA-TTTTAGTC
1 AACTTTTAAAAATTATATTTTTAGTC
1370029 ACAAACAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
29 10 0.23
30 32 0.74
31 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (31 bp):
AACTTTTAAAAATTATATTTTTAGTCCACCA
Found at i:1371388 original size:46 final size:45
Alignment explanation
Indices: 1371333--1371421 Score: 142
Period size: 46 Copynumber: 2.0 Consensus size: 45
1371323 TTGAAAAAAC
* * *
1371333 CTGAGTGCATCGATGCATGGTCTTGTGTATCGATGCATCAAATGTA
1 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGTA
1371379 CTGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATG
1 CTGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATG
1371422 CATTCGATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 19 0.47
46 21 0.52
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (45 bp):
CTGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGTA
Found at i:1371471 original size:20 final size:20
Alignment explanation
Indices: 1371443--1371481 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1371433 CAAGAAATTA
1371443 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
1371463 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
1371482 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:1380160 original size:91 final size:91
Alignment explanation
Indices: 1379998--1380169 Score: 217
Period size: 91 Copynumber: 1.9 Consensus size: 91
1379988 GGTGCACTAA
* * **
1379998 GAGTGTATCGATGCATAAAATGTATTCGATGTTTTGAAAAAGCCTGAGTGCATCGATGCATGGTC
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTAAGAAAAAGCCTGAGTGCATCGATGCATGGTC
*
1380063 TTGTGCATCGATGCATCAAATGCACT
66 TGGTGCATCGATGCATCAAATGCACT
*
1380089 GAGTGCATCGATGCATAAAATGCATTCGATGTTCAAGAAATTAA-TC-GA-TGCATCGATGCATG
1 GAGTGCATCGATGCATAAAATGCATTCGATGTT-AAGAAA--AAGCCTGAGTGCATCGATGCATG
*
1380151 GAT-TGGTGCATCGGTGCAT
63 G-TCTGGTGCATCGATGCAT
1380170 GCCCTTGAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
91 60 0.86
92 7 0.10
93 1 0.01
94 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (91 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTAAGAAAAAGCCTGAGTGCATCGATGCATGGTC
TGGTGCATCGATGCATCAAATGCACT
Found at i:1381312 original size:41 final size:41
Alignment explanation
Indices: 1381255--1381336 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
1381245 TGTTTATTTT
*
1381255 TTGGGGATGGGAATTAACCGAAACCGTAGGGATCCGTAAGG
1 TTGGGGATAGGAATTAACCGAAACCGTAGGGATCCGTAAGG
1381296 TTGGGGATAGGAATTAACCGAAACCGTAGGGATCCGTAAGG
1 TTGGGGATAGGAATTAACCGAAACCGTAGGGATCCGTAAGG
1381337 GATGAGTATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.15, G:0.35, T:0.20
Consensus pattern (41 bp):
TTGGGGATAGGAATTAACCGAAACCGTAGGGATCCGTAAGG
Found at i:1382232 original size:20 final size:18
Alignment explanation
Indices: 1382195--1382235 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
1382185 AATAATTTAT
*
1382195 TTATTTATTATTAAAATA
1 TTATTTATTATAAAAATA
1382213 TTATTTATATAATAAAAATA
1 TTATTTAT-T-ATAAAAATA
1382233 TTA
1 TTA
1382236 AGATTACTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 1 0.05
20 11 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATTTATTATAAAAATA
Found at i:1382435 original size:23 final size:21
Alignment explanation
Indices: 1382391--1382443 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
1382381 TGAATACATA
*
1382391 AATAATATTA-TTAATAATTT
1 AATAATATTATTTAATAAATT
1382411 AATAATATTATTTATATGAAATT
1 AATAATATTATTTA-AT-AAATT
1382434 AATAA-ATTAT
1 AATAATATTAT
1382444 ATAAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.34
21 3 0.10
22 7 0.24
23 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AATAATATTATTTAATAAATT
Found at i:1382456 original size:22 final size:21
Alignment explanation
Indices: 1382431--1382478 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1382421 TTTATATGAA
*
1382431 ATTAATAAATTATATAAATTTT
1 ATTAATAAATTAT-TAAATATT
* *
1382453 ATTAATAATTTATTATATATT
1 ATTAATAAATTATTAAATATT
1382474 ATTAA
1 ATTAA
1382479 AATAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAATAAATTATTAAATATT
Found at i:1382551 original size:21 final size:22
Alignment explanation
Indices: 1382525--1382567 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1382515 TTGAGTATAT
1382525 TATTATAATATTAAAAA-ATTA
1 TATTATAATATTAAAAATATTA
*
1382546 TATTATATTATTAAAAATATTA
1 TATTATAATATTAAAAATATTA
1382568 ATAAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TATTATAATATTAAAAATATTA
Found at i:1382558 original size:29 final size:29
Alignment explanation
Indices: 1382520--1382578 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
1382510 TATAATTGAG
*
1382520 TATATTATT-ATAATATTAAAAAATTATAT
1 TATATTATTAAAAATATTAAAAAA-TATAT
*
1382549 TATATTATTAAAAATATTAATAAATATAT
1 TATATTATTAAAAATATTAAAAAATATAT
1382578 T
1 T
1382579 TTAAATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TATATTATTAAAAATATTAAAAAATATAT
Found at i:1382578 original size:21 final size:21
Alignment explanation
Indices: 1382498--1382641 Score: 56
Period size: 21 Copynumber: 7.0 Consensus size: 21
1382488 ATAATATCTT
* **
1382498 ATATTATTATAATATAATTGAGT
1 ATATTA-TATAATAT-ATTAAAA
1382521 ATATTAT-T-ATAATATTAAAA
1 ATATTATATAAT-ATATTAAAA
*
1382541 A-ATTATATTATATTATTAAAA
1 ATATTATATAATA-TATTAAAA
**
1382562 ATATTA-ATAAATATATTTTAA
1 ATATTATAT-AATATATTAAAA
*
1382583 ATATT-T-TAATA-ATT-AAC
1 ATATTATATAATATATTAAAA
* *
1382600 ATTTTGATTAAAATGATATT-AAA
1 ATATT-A-TATAAT-ATATTAAAA
*
1382623 ATATTATATTA-ATATTAAA
1 ATATTATATAATATATTAAA
1382642 TTCATAAAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 31
0.67 0.10 0.22
Matches are distributed among these distances:
17 5 0.05
18 3 0.03
19 14 0.15
20 13 0.14
21 33 0.35
22 10 0.11
23 15 0.16
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.47
Consensus pattern (21 bp):
ATATTATATAATATATTAAAA
Found at i:1382591 original size:23 final size:24
Alignment explanation
Indices: 1382528--1382594 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 24
1382518 AGTATATTAT
* *
1382528 TATAATATTAAAAA-ATT-AT-AT
1 TATATTATTAAAAATATTAATAAA
1382549 TATATTATTAAAAATATTAATAAA
1 TATATTATTAAAAATATTAATAAA
* *
1382573 TATATT-TTAAATATTTTAATAA
1 TATATTATTAAAAATATTAATAA
1382595 TTAACATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.33
22 3 0.08
23 16 0.41
24 7 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TATATTATTAAAAATATTAATAAA
Found at i:1387172 original size:16 final size:16
Alignment explanation
Indices: 1387153--1387190 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
1387143 CCGACATTCG
1387153 CGAGGGGTGGGTTAGT
1 CGAGGGGTGGGTTAGT
1387169 CGAGGGGTGGGTTAGT
1 CGAGGGGTGGGTTAGT
1387185 CGAGGG
1 CGAGGG
1387191 TGTAGAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.13, C:0.08, G:0.58, T:0.21
Consensus pattern (16 bp):
CGAGGGGTGGGTTAGT
Found at i:1389866 original size:25 final size:25
Alignment explanation
Indices: 1389825--1389877 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
1389815 AGAATGCATT
1389825 ATAAAAAGATATAAATAT-TATAAAA
1 ATAAAAAGATATAAATATAT-TAAAA
*
1389850 ATAAAAA-ATATGTAATATATTAAAA
1 ATAAAAAGATAT-AAATATATTAAAA
1389875 ATA
1 ATA
1389878 TTATTCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 20 0.80
26 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (25 bp):
ATAAAAAGATATAAATATATTAAAA
Found at i:1399664 original size:20 final size:21
Alignment explanation
Indices: 1399639--1399695 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 21
1399629 AACAAAAGGA
*
1399639 GTAGTATCGGTACTAC-ATAG
1 GTAGTATCGATACTACTATAG
1399659 GTAGTATCGATACTACTATAG
1 GTAGTATCGATACTACTATAG
1399680 TGTATGATATCGATAC
1 -GTA-G-TATCGATAC
1399696 CAATATCGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 15 0.47
21 4 0.12
22 3 0.09
23 1 0.03
24 9 0.28
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (21 bp):
GTAGTATCGATACTACTATAG
Found at i:1400202 original size:2 final size:2
Alignment explanation
Indices: 1400191--1400230 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1400181 TATATATATA
* *
1400191 TG TG TA TG TG TG TG TA 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
1400231 ACGATCAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.45, T:0.50
Consensus pattern (2 bp):
TG
Found at i:1408199 original size:20 final size:21
Alignment explanation
Indices: 1408174--1408214 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1408164 AACCAAAGGA
1408174 GTAGTATCAGTACTAC-ATAG
1 GTAGTATCAGTACTACTATAG
*
1408194 GTAGTATCGGTACTACTATAG
1 GTAGTATCAGTACTACTATAG
1408215 TGTATGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (21 bp):
GTAGTATCAGTACTACTATAG
Found at i:1412779 original size:32 final size:34
Alignment explanation
Indices: 1412734--1412799 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
1412724 TAAGAAAACA
** *
1412734 ATCTCAAGTGAGATAAATCT-T-CTATTTCGAGT
1 ATCTCAAACGAGATAAATATATGCTATTTCGAGT
1412766 ATCTCAAACGAGATAAATATATGCTATTTCGAGT
1 ATCTCAAACGAGATAAATATATGCTATTTCGAGT
1412800 GAAACTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 17 0.59
33 1 0.03
34 11 0.38
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (34 bp):
ATCTCAAACGAGATAAATATATGCTATTTCGAGT
Found at i:1412839 original size:39 final size:40
Alignment explanation
Indices: 1412765--1412846 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 40
1412755 CTATTTCGAG
*
1412765 TATCTCAAACGAGATAAATATATGCTATTTCGAGTGAAAC
1 TATCACAAACGAGATAAATATATGCTATTTCGAGTGAAAC
* ** *
1412805 TATCACAAGCGAGATAAA-ATATTTTGTTTCGAGTGAAAC
1 TATCACAAACGAGATAAATATATGCTATTTCGAGTGAAAC
1412844 TAT
1 TAT
1412847 ATCAATCAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 21 0.57
40 16 0.43
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (40 bp):
TATCACAAACGAGATAAATATATGCTATTTCGAGTGAAAC
Found at i:1413055 original size:42 final size:40
Alignment explanation
Indices: 1412942--1413055 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 40
1412932 GCCCGAAGGT
** *
1412942 CTTATTGATGGCTTGAATGACTTATCATCATGCTCAAAAGA
1 CTTA-TGATGGCCCGAAGGACTTATCATCATGCTCAAAAGA
** * * *
1412983 CTTATAGATGAACCGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTAT-GATGGCCCGAAGGACTT-ATCATCATGCTCAAAAGA
1413025 CTTACTGATGGCCCGAAGGACTTACTCATCA
1 CTTA-TGATGGCCCGAAGGACTTA-TCATCA
1413056 AGAAACCCTT
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
40 1 0.02
41 16 0.28
42 39 0.68
43 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (40 bp):
CTTATGATGGCCCGAAGGACTTATCATCATGCTCAAAAGA
Found at i:1413142 original size:19 final size:19
Alignment explanation
Indices: 1413120--1413180 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
1413110 CTATCTCAAG
1413120 CGAGATAAAACTTCTGTTT
1 CGAGATAAAACTTCTGTTT
* ****
1413139 CGAG-TGAAACTATCTCAAG
1 CGAGATAAAACT-TCTGTTT
*
1413158 CGAGATAAATCTTCTGTTT
1 CGAGATAAAACTTCTGTTT
1413177 CGAG
1 CGAG
1413181 TGAAACTATC
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
18 6 0.21
19 18 0.62
20 5 0.17
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (19 bp):
CGAGATAAAACTTCTGTTT
Found at i:1413226 original size:39 final size:39
Alignment explanation
Indices: 1413086--1413393 Score: 397
Period size: 39 Copynumber: 8.2 Consensus size: 39
1413076 CTTAGTTTCT
* *
1413086 TAAAATCTTTTGTTTCGAGCGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
1413125 TAAAA-CTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
*
1413163 T-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
* * *
1413201 TAAAATCTTCTGTTTCAAG-CAAA--A-CT------ATA
1 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
** *
1413230 TAAAATCTTCTGTTTCGAGCAAAACTATCTCAAGCAAGA
1 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
*
1413269 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAATCGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
* *
1413308 TAAAATCTTTTGTTTCGAGTGAAACTATCTCAAGTGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
* * *
1413347 TAAAATATTCTATTTTGAGTGAAACTATCTCAAGCGAGA
1 TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
1413386 TAAAATCT
1 TAAAATCT
1413394 GGTTTTAATA
Statistics
Matches: 235, Mismatches: 22, Indels: 24
0.84 0.08 0.09
Matches are distributed among these distances:
29 20 0.09
30 3 0.01
32 1 0.00
33 2 0.01
35 2 0.01
36 1 0.00
37 3 0.01
38 68 0.29
39 135 0.57
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (39 bp):
TAAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGA
Found at i:1413242 original size:29 final size:29
Alignment explanation
Indices: 1413200--1413257 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
1413190 CTCAAGTGAG
1413200 ATAAAATCTTCTGTTTCAAGCAAAACTAT
1 ATAAAATCTTCTGTTTCAAGCAAAACTAT
*
1413229 ATAAAATCTTCTGTTTCGAGCAAAACTAT
1 ATAAAATCTTCTGTTTCAAGCAAAACTAT
1413258 CTCAAGCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (29 bp):
ATAAAATCTTCTGTTTCAAGCAAAACTAT
Found at i:1413335 original size:107 final size:105
Alignment explanation
Indices: 1413124--1413323 Score: 330
Period size: 107 Copynumber: 1.9 Consensus size: 105
1413114 CTCAAGCGAG
** *
1413124 ATAAAACTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTA
1 ATAAAACTTCTGTTTCGAGCAAAACTATCTCAAGCAAGATAAATCTTCTGTTTCGAGTGAAACTA
1413189 TCTCAAGTGAGATAAAATCTTCTGTTTCAAGCAAAACTAT
66 TCTCAAGTGAGATAAAATCTTCTGTTTCAAGCAAAACTAT
1413229 ATAAAATCTTCTGTTTCGAGCAAAACTATCTCAAGCAAGATAAAATCTTCTGTTTCGAGTGAAAC
1 ATAAAA-CTTCTGTTTCGAGCAAAACTATCTCAAGCAAGAT-AAATCTTCTGTTTCGAGTGAAAC
*
1413294 TATCTCAA-TCGAGATAAAATCTTTTGTTTC
64 TATCTCAAGT-GAGATAAAATCTTCTGTTTC
1413324 GAGTGAAACT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
105 6 0.07
106 32 0.36
107 50 0.57
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (105 bp):
ATAAAACTTCTGTTTCGAGCAAAACTATCTCAAGCAAGATAAATCTTCTGTTTCGAGTGAAACTA
TCTCAAGTGAGATAAAATCTTCTGTTTCAAGCAAAACTAT
Found at i:1413374 original size:146 final size:144
Alignment explanation
Indices: 1413086--1413361 Score: 471
Period size: 146 Copynumber: 1.9 Consensus size: 144
1413076 CTTAGTTTCT
* * *
1413086 TAAAATCTTTTGTTTCGAGCGAAACTATCTCAAGCGAGATAAAACTTCTGTTTCGAGTGAAACTA
1 TAAAATCTTCTGTTTCGAGCAAAACTATCTCAAGCAAGATAAAACTTCTGTTTCGAGTGAAACTA
* *
1413151 TCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGATAAAATCTTCTGTTT
66 TCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGATAAAATATTCTATTT
1413216 CAAGCAAAACTATA
131 CAAGCAAAACTATA
1413230 TAAAATCTTCTGTTTCGAGCAAAACTATCTCAAGCAAGATAAAATCTTCTGTTTCGAGTGAAACT
1 TAAAATCTTCTGTTTCGAGCAAAACTATCTCAAGCAAGATAAAA-CTTCTGTTTCGAGTGAAACT
* *
1413295 ATCTCAATCGAGATAAAATCTTTTGTTTCGAGTGAAACTATCTCAAGTGAGATAAAATATTCTAT
65 ATCTCAAGCGAGAT-AAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGATAAAATATTCTAT
1413360 TT
129 TT
1413362 TGAGTGAAAC
Statistics
Matches: 123, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
144 41 0.33
145 33 0.27
146 49 0.40
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (144 bp):
TAAAATCTTCTGTTTCGAGCAAAACTATCTCAAGCAAGATAAAACTTCTGTTTCGAGTGAAACTA
TCTCAAGCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGTGAGATAAAATATTCTATTT
CAAGCAAAACTATA
Found at i:1413469 original size:76 final size:77
Alignment explanation
Indices: 1413368--1413538 Score: 195
Period size: 76 Copynumber: 2.2 Consensus size: 77
1413358 ATTTTGAGTG
* * * * *
1413368 AAACTATCTCAAGCGAGATAAAATCTGGTTTTAATAAAAATAATCT-TGAGTGAAAT-AAATCTT
1 AAACTATCTCAAGCGAGATAAAATCTGGTTCTAAGAAAAAAAATATGT-AGTGAAATGAAAT-GT
* *
1413431 CTTGTTTCGGGTAA
64 ATTGTTTCGAGTAA
* * * *
1413445 AAACTATCTCAAGCGTGAT-GAATCTTGTTCTAAGAAAAAAAATATGTATTGAAATGAAATGTAT
1 AAACTATCTCAAGCGAGATAAAATCTGGTTCTAAGAAAAAAAATATGTAGTGAAATGAAATGTAT
1413509 TGTTTCGAGTAA
66 TGTTTCGAGTAA
*
1413521 AAACTGTCTCAAGCGAGA
1 AAACTATCTCAAGCGAGA
1413539 CAGTCTATCT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
76 56 0.71
77 23 0.29
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.32
Consensus pattern (77 bp):
AAACTATCTCAAGCGAGATAAAATCTGGTTCTAAGAAAAAAAATATGTAGTGAAATGAAATGTAT
TGTTTCGAGTAA
Found at i:1418294 original size:6 final size:5
Alignment explanation
Indices: 1418271--1418318 Score: 51
Period size: 6 Copynumber: 8.6 Consensus size: 5
1418261 AAAGTAGTAA
1418271 AAAATT AAAAT AAAAT AAACAT AAATAT AAAAAT AAAAAT AAAAT AAA
1 AAAA-T AAAAT AAAAT AAA-AT AAA-AT -AAAAT -AAAAT AAAAT AAA
1418319 TATGTATAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
5 17 0.44
6 19 0.49
7 3 0.08
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:1418303 original size:23 final size:23
Alignment explanation
Indices: 1418277--1418321 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1418267 GTAAAAAATT
1418277 AAAAT-AAAATAAACATAAATATA
1 AAAATAAAAATAAA-ATAAATATA
1418300 AAAATAAAAATAAAATAAATAT
1 AAAATAAAAATAAAATAAATAT
1418322 GTATAAGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAATAAAAATAAAATAAATATA
Found at i:1426638 original size:20 final size:20
Alignment explanation
Indices: 1426594--1426648 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1426584 ATTTTCCACG
* **
1426594 AATTTGTAAAACCTTCGGGT
1 AATTTGTAAATCCTTAAGGT
*
1426614 CATTTGTAAATCCTTAAGGT
1 AATTTGTAAATCCTTAAGGT
*
1426634 AATTTGTGAATCCTT
1 AATTTGTAAATCCTT
1426649 TATATCATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (20 bp):
AATTTGTAAATCCTTAAGGT
Found at i:1427364 original size:14 final size:14
Alignment explanation
Indices: 1427345--1427395 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 14
1427335 CGAGTGACGT
1427345 TTATTATATAAATA
1 TTATTATATAAATA
1427359 TTATTATATATAATAA
1 TTATTATATA-AAT-A
1427375 TTA-TATTATAAATA
1 TTATTA-TATAAATA
1427389 TTATTAT
1 TTATTAT
1427396 TTATAAAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 15 0.45
15 10 0.30
16 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATTATATAAATA
Found at i:1427370 original size:16 final size:16
Alignment explanation
Indices: 1427349--1427402 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
1427339 TGACGTTTAT
1427349 TATATAAATATTATTA
1 TATATAAATATTATTA
1427365 TATAT-AATA--ATTA
1 TATATAAATATTATTA
1427378 TATTATAAATATTATTA
1 TA-TATAAATATTATTA
*
1427395 TTTATAAA
1 TATATAAA
1427403 GCCCAAAGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
13 6 0.18
14 3 0.09
15 8 0.24
16 11 0.33
17 5 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATAAATATTATTA
Found at i:1427927 original size:16 final size:16
Alignment explanation
Indices: 1427906--1427944 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
1427896 AAGAACAAAA
1427906 CAAGAGAAACAGAAAG
1 CAAGAGAAACAGAAAG
1427922 CAAGAGAAACAGAAAG
1 CAAGAGAAACAGAAAG
1427938 CAAGAGA
1 CAAGAGA
1427945 GACAACAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.62, C:0.13, G:0.26, T:0.00
Consensus pattern (16 bp):
CAAGAGAAACAGAAAG
Found at i:1431324 original size:23 final size:23
Alignment explanation
Indices: 1431289--1431336 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1431279 ATCAAGTACA
* *
1431289 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCACTTAT
*
1431312 ATAATGTAATAGGTAGCACTTAT
1 ATAATATAATAGGTAGCACTTAT
1431335 AT
1 AT
1431337 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCACTTAT
Found at i:1431334 original size:87 final size:87
Alignment explanation
Indices: 1431174--1431336 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
1431164 TATGTTATAT
1431174 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
*
1431239 AACGCTTATATAATAAAATAGG
66 AACACTTATATAATAAAATAGG
* * *
1431261 CATTTAACCGGAAATATTATCAAGTACAATAATATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
*
1431326 AGCACTTATAT
66 AACACTTATAT
1431337 TGACCTATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGAT
AACACTTATATAATAAAATAGG
Found at i:1432080 original size:181 final size:182
Alignment explanation
Indices: 1431612--1432722 Score: 1648
Period size: 181 Copynumber: 6.1 Consensus size: 182
1431602 TTTCATTGTA
* *
1431612 TTAGGCGCTATAACTTATTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGAC
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
* * *
1431677 ACTTTC-A-ATAT-A-TTATCCTTTTACCGGTTTTGTCATTTTGTGACCGGTTTTGTCATATTTT
66 ACTTGCAACATATCAGGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTT
* * *
1431738 TACATGTTATATTGTTATGGATCGATACATTTT-TTAAAAGTATCGACACTTT
131 TACCTGTTATATTGTTATAGATCGATACATTTTCAT-AAAGTATCGACACTTT
* * *
1431790 TTAGGTGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCAAT
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
* * * * *
1431855 ACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTTTCATATATT
66 ACTTGCAACATATCAGGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTT
* *
1431920 TACCTGTTATATTGTTATAGATCGATATATTTTCATAAAGTGTCGACACTTT
131 TACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTTT
* *
1431972 TTAGGCGCTAT-ACTTCTTCTCTTTTAAATTCATAAAGTTTCGATA-TTCATATTAAATTATCGA
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTT-ATATTAAATTATCGA
* * * *
1432035 CACTTTCAATATATCATGTATCCTTTTATCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
65 CACTTGCAACATATCAGGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
* *
1432100 TTACATGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTT
130 TTACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTTT
* * *
1432153 TTAGGCGCTAT-ACTTCTTCTCTTTTAAAGTCATAAAGTGTCGATACTCATATTAAATTATCGAC
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
* * * *
1432217 ACTTTCAATATATCATGTATCCTTTTACCAGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTT
66 ACTTGCAACATATCAGGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTT
* * *
1432282 TACCTGTTATATTGTTATAGATCAATATATTTT-TTAAAAGTATCGACACTTT
131 TACCTGTTATATTGTTATAGATCGATACATTTTCAT-AAAGTATCGACACTTT
*
1432334 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATTGAC
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
* * * *
1432399 ACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTTATATTTT
66 ACTTGCAACATATCAGGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTT
*
1432464 TACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTT
131 TACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTTT
1432516 TTAGGCGCTAT-ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
* * * *
1432580 ACTTGCAACATATCCGGTATCGTTTTACCGGATTTGTCATTTTGAGACTGGTTTTGTCATATTTT
66 ACTTGCAACATATCAGGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTT
* * ** *
1432645 TACCTGTAATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACGTT
131 TACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTTT
* *
1432697 TTAGGTGCTATAATTTCTTCTCTTTT
1 TTAGGCGCTATAACTTCTTCTCTTTT
1432723 TATTTCCAAA
Statistics
Matches: 849, Mismatches: 73, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
178 65 0.08
179 1 0.00
180 7 0.01
181 499 0.59
182 275 0.32
183 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (182 bp):
TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGAC
ACTTGCAACATATCAGGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTT
TACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTATCGACACTTT
Found at i:1432389 original size:363 final size:362
Alignment explanation
Indices: 1431612--1432722 Score: 1732
Period size: 363 Copynumber: 3.1 Consensus size: 362
1431602 TTTCATTGTA
*
1431612 TTAGGCGCTATAACTTATTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGAC
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGAC
*
1431677 ACTTTC-AATAT-AT-TATCCTTTTACCGGTTTTGTCATTTTGTGACCGGTTTTGTCATATTTTT
66 ACTTTCAAATATCATGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTT
* * * *
1431739 ACATGTTATATTGTTATGGATCGATACATTTT-TTAAAAGTATCGACACTTTTTAGGTGCTATAA
131 ACATGTTATATTGTTATAGATCGATACATTTTCAT-AAAGTGTCGACACTTTTTAGGCGCTAT-A
* *
1431803 CTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCAATACTTGCAACATAT
194 CTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTGCAACATAT
* * *
1431868 CCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTTTCATATATTTACCTGTTATATT
259 CCGGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATT
* *
1431933 GTTATAGATCGATATA-TTTTCATAAAGTGTCGACACTTT
324 GTTATAGATCGATATATTTTTTA-AAAGTATCGACACTTT
*
1431972 TTAGGCGCTAT-ACTTCTTCTCTTTTAAATTCATAAAGTTTCGATA-TTCATATTAAATTATCGA
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTT-ATATTAAATTATCGA
*
1432035 CACTTTCAATATATCATGTATCCTTTTATCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
65 CACTTTCAA-ATATCATGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTT
1432100 TTACATGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
129 TTACATGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATA
* * * * *
1432165 CTTCTTCTCTTTTAAAGTCATAAAGTGTCGATACTCATATTAAATTATCGACACTTTCAATATAT
194 CTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTGCAACATAT
** * *
1432230 CATGTATCCTTTTACCAGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATT
259 CCGGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATT
*
1432295 GTTATAGATCAATATATTTTTTAAAAGTATCGACACTTT
324 GTTATAGATCGATATATTTTTTAAAAGTATCGACACTTT
* *
1432334 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATTGAC
1 TTAGGCGCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGAC
* ** * * *
1432399 ACTTGCAACATATCCGGTAGCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTTATATTTT
66 ACTTTCAA-ATATCATGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTT
*
1432464 TACCTGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAC
130 TACATGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAC
1432529 TTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTGCAACATATC
195 TTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTGCAACATATC
* * *
1432594 CGGTATCGTTTTACCGGATTTGTCATTTTGAGACTGGTTTTGTCATATTTTTACCTGTAATATTG
260 CGGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTG
* * * *
1432659 TTATGGATCGATACATTTTTTTAAAGTATCGACACGTT
325 TTATAGATCGATATATTTTTTAAAAGTATCGACACTTT
* *
1432697 TTAGGTGCTATAATTTCTTCTCTTTT
1 TTAGGCGCTATAACTTCTTCTCTTTT
1432723 TATTTCCAAA
Statistics
Matches: 686, Mismatches: 56, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
358 2 0.00
359 54 0.08
360 12 0.02
361 4 0.01
362 160 0.23
363 451 0.66
364 3 0.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (362 bp):
TTAGGCGCTATAACTTCTTCTCTTTTAAATTCATAAAGTGTCGATACTTATATTAAATTATCGAC
ACTTTCAAATATCATGTATCCTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTT
ACATGTTATATTGTTATAGATCGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATACT
TCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTGCAACATATCC
GGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGT
TATAGATCGATATATTTTTTAAAAGTATCGACACTTT
Found at i:1436712 original size:200 final size:197
Alignment explanation
Indices: 1436258--1436822 Score: 758
Period size: 200 Copynumber: 2.8 Consensus size: 197
1436248 TGTAGACCTA
** * *
1436258 TTTGCTCATAAAACCAATATATTTAGACGGGTTACATTGTTAATTTACCTATTACATTATATTTA
1 TTTGCTCA-AAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTA
* * *
1436323 TGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGGCACATTTTAGTGCAATTGG
65 TGTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACAC-TTTTTGTGCACTTGG
* * * *
1436388 TTTTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTATAC
129 TTTTAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGTATTTGTGTCGATAATTTTTATAC
1436453 ACCTG
194 A-CTG
* * * *
1436458 TTTTCTCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACTTATTACATCATAATTAT
1 TTTGCTCAAAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
** * * *
1436523 GGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTGTTGTGCACTTGGT
66 GTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACTTT-TTGTGCACTTGG-
**
1436588 TTTTAAAATACACGCTGGACAAAAAGTATCGACACTTGTTGTATTTGTGTCGATAATTTATGTAT
129 TTTTAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGTATTTGTGTCGATAATTT-T-TAT
1436653 ACA-TG
192 ACACTG
* *
1436658 TTTGCTCAAAAACCGGTATATTTAGGCCGGTTACATTGTTATTTTACCTATTACATTAT-ATCTA
1 TTTGCTCAAAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAAT-TA
1436722 TGTATTTCGATGTTTTTAGTAT-GAACACTTCTTATAAATGTATCGACACTTTTTTCGTGCACTT
65 TGTATTTCGATGTTTTTAGTATCG-ACACTTCTTATAAATGTATCGACAC-TTTTT-GTGCACTT
* * * *
1436786 GGTTTGAAAATACATTATGGACAACATGTATCGACAC
127 GGTTTTAAAATACATTCTGGACAAAAAGTATCGACAC
1436823 GAATGAATAA
Statistics
Matches: 318, Mismatches: 39, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
198 3 0.01
199 105 0.33
200 190 0.60
201 14 0.04
202 6 0.02
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (197 bp):
TTTGCTCAAAAACCGGTATATTTAGACCGGTTACATTGTTAATTTACCTATTACATTATAATTAT
GTATTTCGATGTTTTTAGTATCGACACTTCTTATAAATGTATCGACACTTTTTGTGCACTTGGTT
TTAAAATACATTCTGGACAAAAAGTATCGACACTTGTTGTATTTGTGTCGATAATTTTTATACAC
TG
Found at i:1437034 original size:24 final size:24
Alignment explanation
Indices: 1437003--1437059 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
1436993 CGAAATTTAC
1437003 ATTTAAATTCAAACTCAAACTC-A
1 ATTTAAATTCAAACTCAAACTCTA
* *
1437026 ATTTGAAATTTAAATTCAAACTCTA
1 ATTT-AAATTCAAACTCAAACTCTA
1437051 ATTATAAAT
1 ATT-TAAAT
1437060 GAAATGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.14
24 16 0.55
25 8 0.28
26 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (24 bp):
ATTTAAATTCAAACTCAAACTCTA
Found at i:1440689 original size:103 final size:103
Alignment explanation
Indices: 1440464--1440678 Score: 394
Period size: 103 Copynumber: 2.1 Consensus size: 103
1440454 GTCGAGGGTC
*
1440464 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTTTGGTGAGACACATAC
1 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
1440529 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1440567 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1440632 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1440670 TATGTGGTC
1 TATGTGGTC
1440679 CTTATGGACA
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1440764 original size:23 final size:23
Alignment explanation
Indices: 1440705--1440765 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
1440695 TATGGTACTA
* *
1440705 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTATATGCGGCACTC
* *
1440728 CGGTGCAATTATATGTGGCACTT
1 CGGTGCAATTATATGCGGCACTC
1440751 CGGTGCAATTATATG
1 CGGTGCAATTATATG
1440766 AGTTGTGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (23 bp):
CGGTGCAATTATATGCGGCACTC
Found at i:1441158 original size:140 final size:140
Alignment explanation
Indices: 1440992--1441267 Score: 534
Period size: 140 Copynumber: 2.0 Consensus size: 140
1440982 ACATGACATG
*
1440992 ATATGTATATGCGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGATATCATAGGAAC
1 ATATGTATATGCGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
1441057 ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
66 ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
1441122 TGAGTGATAT
131 TGAGTGATAT
*
1441132 ATATGTATATGTGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
1 ATATGTATATGCGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
1441197 ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
66 ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
1441262 TGAGTG
131 TGAGTG
1441268 GTATGAAATG
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 134 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.35
Consensus pattern (140 bp):
ATATGTATATGCGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
TGAGTGATAT
Found at i:1446319 original size:35 final size:35
Alignment explanation
Indices: 1446278--1446347 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
1446268 ATGATTTATA
1446278 TGTGTGCATGAGTATATGTGTTATTGATAGGAATG
1 TGTGTGCATGAGTATATGTGTTATTGATAGGAATG
*
1446313 TGTGTGCATGAGTATATGTGTTATTGATATGAATG
1 TGTGTGCATGAGTATATGTGTTATTGATAGGAATG
1446348 GTAAATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.03, G:0.30, T:0.41
Consensus pattern (35 bp):
TGTGTGCATGAGTATATGTGTTATTGATAGGAATG
Found at i:1446990 original size:103 final size:101
Alignment explanation
Indices: 1446765--1446982 Score: 375
Period size: 103 Copynumber: 2.1 Consensus size: 101
1446755 GTCGAGGGTC
*
1446765 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACGTAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1446830 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCTTT-G-ATATGTATATGATTCTTAAGGAATGA
1446868 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1446933 TTGATACATATT-ATATGTATATGATTCTTAAGGAATGA
66 TTGAT-C-T-TTGATATGTATATGATTCTTAAGGAATGA
1446971 TATGTGGTCCTT
1 TATGTGGTCCTT
1446983 ATGGACATTA
Statistics
Matches: 111, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
103 107 0.96
104 1 0.01
105 1 0.01
106 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (101 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCTTTGATATGTATATGATTCTTAAGGAATGA
Found at i:1447065 original size:23 final size:23
Alignment explanation
Indices: 1446989--1447066 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
1446979 CCTTATGGAC
*
1446989 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
1447013 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
1447036 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
1447059 ATTATATG
1 ATTATATG
1447067 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:1447479 original size:140 final size:140
Alignment explanation
Indices: 1447297--1447576 Score: 551
Period size: 140 Copynumber: 2.0 Consensus size: 140
1447287 ATATGACATG
*
1447297 ATATGTATATGTTCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
1 ATATGTATATGTGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
1447362 ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
66 ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
1447427 TGAGTGGTAT
131 TGAGTGGTAT
1447437 ATATGTATATGTGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
1 ATATGTATATGTGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
1447502 ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
66 ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
1447567 TGAGTGGTAT
131 TGAGTGGTAT
1447577 GAAATGATAG
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (140 bp):
ATATGTATATGTGCAATTGGTTATGGTATATGTTATATGATATGGACATAAGAGATCATAGGAAC
ATGAGATAAGAGATATGAATGATAATGACATATATGTATGCATATATTTGTTACATGTAAAAGTA
TGAGTGGTAT
Found at i:1448759 original size:15 final size:15
Alignment explanation
Indices: 1448735--1448778 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
1448725 ATGAGGTTGT
1448735 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
* *
1448750 GGTTGGGAAGAGGTG
1 GGTTGAGAAGAGCTG
1448765 GGTTGAGAAGAGCT
1 GGTTGAGAAGAGCT
1448779 TTGAGAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.05, G:0.50, T:0.20
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:1449713 original size:198 final size:199
Alignment explanation
Indices: 1449118--1450019 Score: 1493
Period size: 199 Copynumber: 4.5 Consensus size: 199
1449108 TGACCTATTT
1449118 TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
1 TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
* * * *
1449183 TCGATGTTTTTGGGATTGACACTTCTTATATATTTATCGACACTTTTTAGTGCACTTGGTTTTGA
66 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTTTTGA
* *
1449248 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTAT
131 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACCTGT
1449313 TTTC
196 TTTC
1449317 TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
1 TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
* * *
1449382 TCTATGTTTTTGGGATCGACACTTCTTATATATGTATCGATACTTTTTAGTGCACATGGTTTTGA
66 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTTTTGA
*
1449447 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGT
131 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACCTGT
1449512 TTTC
196 TTTC
* *
1449516 TCAAAAATCGGTATACTTAGACCGGTTACATTATTAATTTACCTATTACATCAT-ATTATGGGTT
1 TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
** * *
1449580 TCGATGTTTTTAAGATCGATACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGA
66 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTTTTGA
*
1449645 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACATGT
131 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACCTGT
1449710 TTTC
196 TTTC
* * * **
1449714 TCAAAAACCGGTATACTTGGGCCGGTTAAATTGTTAATTTACCTATTACATCATAATTATGTTTT
1 TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
1449779 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTTTTGA
66 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTTTTGA
* *
1449844 AATACATTTTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCAATACGTTTTGTACACCTGT
131 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACCTGT
1449909 TTTC
196 TTTC
* * * * * *
1449913 TCAAAAACTGGTATATTTAGA-CGGTTACATTGTTAATTTTCCTATTACATTATAATAATGGATT
1 TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
* * *
1449977 TCAATGTTTTTGGGAACGACACTTCTTATAAATATATCGACAC
66 TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACAC
1450020 ATAAGTTTAC
Statistics
Matches: 658, Mismatches: 44, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
198 261 0.40
199 397 0.60
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (199 bp):
TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
TCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTTTTGA
AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACCTGT
TTTC
Found at i:1449859 original size:397 final size:397
Alignment explanation
Indices: 1449118--1450019 Score: 1502
Period size: 397 Copynumber: 2.3 Consensus size: 397
1449108 TGACCTATTT
1449118 TCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
1 TCAAAAA-CGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
* * *
1449183 TCGATGTTTTTGGGATTGACACTTCTTATATATTTATCGACACTTTTTAGTGCACTTGGTTTTGA
65 TCGATGTTTTTGGGATCGACACTTCTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGA
* *
1449248 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTAT
130 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACATAT
*
1449313 TTTCTCAAAAACCGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATG
195 TTTCTCAAAAACCGGTATACTTAGACCGGTTAAATTGTTAATTTACCTATTACATCATAATTATG
* * *
1449378 GGTTTCTATGTTTTTGGGATCGACACTTCTTATATATGTATCGATACTTTTTAGTGCACATGGTT
260 GGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTT
* *
1449443 TTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACAC
325 TTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCAATACGTTTTGTACAC
1449508 CTGTTTTC
390 CTGTTTTC
*
1449516 TCAAAAATCGGTATACTTAGACCGGTTACATTATTAATTTACCTATTACATCAT-ATTATGGGTT
1 TCAAAAA-CGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
** * *
1449580 TCGATGTTTTTAAGATCGATACTTCTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGA
65 TCGATGTTTTTGGGATCGACACTTCTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGA
*
1449645 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACATGT
130 AATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACATAT
* *
1449710 TTTCTCAAAAACCGGTATACTTGGGCCGGTTAAATTGTTAATTTACCTATTACATCATAATTATG
195 TTTCTCAAAAACCGGTATACTTAGACCGGTTAAATTGTTAATTTACCTATTACATCATAATTATG
**
1449775 TTTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTT
260 GGTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTT
*
1449840 TTGAAATACATTTTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCAATACGTTTTGTACAC
325 TTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCAATACGTTTTGTACAC
1449905 CTGTTTTC
390 CTGTTTTC
* * * * *
1449913 TCAAAAACTGGTATATTTAGA-CGGTTACATTGTTAATTTTCCTATTACATTATAATAATGGATT
1 TCAAAAAC-GGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTT
* *
1449977 TCAATGTTTTTGGGAACGACACTTCTTATAAATATATCGACAC
65 TCGATGTTTTTGGGATCGACACTTCTTATAAATATATCGACAC
1450020 ATAAGTTTAC
Statistics
Matches: 468, Mismatches: 34, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
396 30 0.06
397 386 0.82
398 52 0.11
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (397 bp):
TCAAAAACGGTATACTTAGACCGGTTACATTGTTAATTTACCTATTACATCATAATTATGGGTTT
CGATGTTTTTGGGATCGACACTTCTTATAAATATATCGACACTTTTTAGTGCACTTGGTTTTGAA
ATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCGATACGTTTTGTACACATATT
TTCTCAAAAACCGGTATACTTAGACCGGTTAAATTGTTAATTTACCTATTACATCATAATTATGG
GTTTCGATGTTTTTGGGATCGACACTTCTTATAAATGTATCGACACTTTTTAGTGCACATGGTTT
TGAAATACATTCTGGACCAAAAGTATCGACACTTGTTTTATTTGTGTCAATACGTTTTGTACACC
TGTTTTC
Found at i:1450440 original size:19 final size:19
Alignment explanation
Indices: 1450416--1450465 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1450406 TTACATTCAC
*
1450416 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
1450435 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
1450454 ATACAAAATTAA
1 ATACAAAATTAA
1450466 TCGTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:1453896 original size:19 final size:19
Alignment explanation
Indices: 1453864--1453931 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 19
1453854 CATTTATACA
* *
1453864 ACCTAAAATATCATTTTCT
1 ACCTATAATATCATTTTTT
*
1453883 ACCTATAATGTCATTTTTT
1 ACCTATAATATCATTTTTT
*
1453902 ACCTATAACATCATTTTTT
1 ACCTATAATATCATTTTTT
*
1453921 ACATATAATAT
1 ACCTATAATAT
1453932 TAAATAAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.01, T:0.46
Consensus pattern (19 bp):
ACCTATAATATCATTTTTT
Found at i:1454629 original size:182 final size:179
Alignment explanation
Indices: 1454319--1455522 Score: 1596
Period size: 182 Copynumber: 6.6 Consensus size: 179
1454309 TACGCGTACT
* * ** *
1454319 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACAT
1 TATTAAATTATCGACACTTTCAATATATCCGGTA--TTTTTACCGGTTTTGTCATTTTTAGACCT
* * *
1454384 GTTTTGTCCTATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTTAAAAGTATCGACAC-
64 GTTTTGTCCTA-TTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACG
*
1454448 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
128 TTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAACTGTCGATACTTA
* * ** * * *
1454501 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTACCTATTTTATCATTTTGAGACCG
1 TATTAAATTATCGACACTTTCAATATATCCGGTA-TT-TTTACCGGTTTTGTCATTTTTAGACCT
* ** ***
1454566 GTTTTGTCATATTTTAGGTTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCGACACG
64 GTTTTGTCCTATTTTA-CCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACG
* *
1454631 TTTTAGGCGCTATACCTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
128 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTA
* * * ** *
1454683 CATTAAATTATCGACACTTTCAATATATCTGATACCGCTTT-CCGGTTTTGTCATTTTTAGACCG
1 TATTAAATTATCGACACTTTCAATATATCCGGTA--TTTTTACCGGTTTTGTCATTTTTAGACCT
1454747 GTTTTGTCCTATTTTTACCTGTTATATT-TCTATGGATCGATACATTTTTTTAAAGTGTCGACAC
64 GTTTTGTCCTA-TTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTGTCGACAC
* *
1454811 GTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATAGTTA
127 GTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTA
* *
1454864 TATTAAATTATCGACACTTTCAATATATTCGGTATCGTTTTATCGGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAATATATCCGGTAT--TTTTACCGGTTTTGTCATTTTTAGACCT
* *
1454929 GTTTTGTCCTTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTTTTAAAGTGTCGACACG
64 GTTTTGTCC-TATTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACG
*
1454994 TTTTAGGCGCAATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTA
128 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTA
* * *
1455046 TATTAAATTATCGACACTTTCAATATATCTGGTATCGTTTTATCGGTTTTGTCATTTTTTAGACA
1 TATTAAATTATCGACACTTTCAATATATCCGGTAT--TTTTACCGGTTTTGTCA-TTTTTAGACC
* * * *
1455111 TGTTTTGTCCTTTTTTTATCTATTATATTGTTATGAATCGATACATTTTTTTAAAGTGTCGACAC
63 TGTTTTGTCC-TATTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACAC
1455176 GTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACT-TCGATACTTA
127 GTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTA
1455228 TATTAAATTATCGACACTTTCAATATATCCGGTATCGTTTTA-CGGTTTTGTCATTTTTAGACCT
1 TATTAAATTATCGACACTTTCAATATATCCGGTAT--TTTTACCGGTTTTGTCATTTTTAGACCT
* * *
1455292 GTTTTGTCCTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATTGACAC-T
64 GTTTTGTCCTATTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGT
* * *
1455356 TTATAGGCGCTATAACTTATTCTCTTTTAAATTCCA-AAAGTGTCGATATTTA
129 TT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAACTGTCGATACTTA
* * ** * * *
1455408 TATTAAATTATCGACACTTTTAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTTTTAAACA
1 TATTAAATTATCGACACTTTCAATATATCCGGTA--TTTTTACCGGTTTTGTCA-TTTTTAGACC
1455473 TGTTTTGTCCTAGTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
63 TGTTTTGTCCTA-TTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1455523 CATTTGTATC
Statistics
Matches: 923, Mismatches: 78, Indels: 41
0.89 0.07 0.04
Matches are distributed among these distances:
178 3 0.00
179 82 0.09
180 67 0.07
181 179 0.19
182 437 0.47
183 155 0.17
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (179 bp):
TATTAAATTATCGACACTTTCAATATATCCGGTATTTTTACCGGTTTTGTCATTTTTAGACCTGT
TTTGTCCTATTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTT
TAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTA
Found at i:1455026 original size:363 final size:363
Alignment explanation
Indices: 1454319--1455522 Score: 1800
Period size: 363 Copynumber: 3.3 Consensus size: 363
1454309 TACGCGTACT
* * *
1454319 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCA-TTTTTAGACA
1 TATTAAATTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTTAGACA
* * *
1454383 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATAGATCGATACATTTTTTAAAAGTATCGACAC
66 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACAC
* *
1454448 -TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTATATTAAAGTA
131 GTTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAACTGTCGATACTTATATTAAATTA
* ** * * *
1454511 TCGACACTTTCAACATATCCGGTA--GTTATTTACCTATTTTATCATTTTGAGACCGGTTTTGTC
194 TCGACACTTTCAATATATCCGGTATCG-T-TTTA-CGGTTTTGTCATTTTTAGACCTGTTTTGTC
* * ** ***
1454574 ATATTTTAGGTTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCGACACGTTTTAGGC
256 CTTTTTTA-CCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGC
*
1454639 GCTATACCTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
320 GCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * *
1454683 CATTAAATTATCGACACTTTCAATATATCTGATACCGCTTT-CCGGTTTTGTCA-TTTTTAGACC
1 TATTAAATTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTTAGACA
*
1454746 GGTTTTGTCCTATTTTTACCTGTTATATT-TCTATGGATCGATACATTTTTTTAAAGTGTCGACA
66 TGTTTTGTCCTATTTTTACCTGTTATATTGT-TATGGATCGATACATTTTTTTAAAGTGTCGACA
* *
1454810 CGTTTTAAGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATAGTTATATTAAATTAT
130 CGTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTATATTAAATTAT
*
1454875 CGACACTTTCAATATATTCGGTATCGTTTTATCGGTTTTGTCATTTTTAGACCTGTTTTGTCCTT
195 CGACACTTTCAATATATCCGGTATCGTTTTA-CGGTTTTGTCATTTTTAGACCTGTTTTGTCC-T
* *
1454940 TTTTTACCTGTTATATTGTTATGAATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCA
258 TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCT
*
1455005 ATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTA
323 ATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * *
1455046 TATTAAATTATCGACACTTTCAATATATCTGGTATCGTTTTATCGGTTTTGTCATTTTTTAGACA
1 TATTAAATTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTTAGACA
* * * *
1455111 TGTTTTGTCCTTTTTTTATCTATTATATTGTTATGAATCGATACATTTTTTTAAAGTGTCGACAC
66 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACAC
1455176 GTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACT-TCGATACTTATATTAAATTATC
131 GTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTATATTAAATTATC
1455240 GACACTTTCAATATATCCGGTATCGTTTTACGGTTTTGTCATTTTTAGACCTGTTTTGTCCTTTT
196 GACACTTTCAATATATCCGGTATCGTTTTACGGTTTTGTCATTTTTAGACCTGTTTTGTCCTTTT
* *
1455305 TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATTGACAC-TTTATAGGCGCTAT
261 TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTT-TAGGCGCTAT
* *
1455369 AACTTATTCTCTTTTAAATTCCA-AAAGTGTCGATATTTA
325 AACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTA
* * *
1455408 TATTAAATTATCGACACTTTTAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTTTTAAACA
1 TATTAAATTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTTAGACA
*
1455473 TGTTTTGTCCTAGTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
1455523 CATTTGTATC
Statistics
Matches: 763, Mismatches: 66, Indels: 24
0.89 0.08 0.03
Matches are distributed among these distances:
361 3 0.00
362 200 0.26
363 344 0.45
364 106 0.14
365 109 0.14
366 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (363 bp):
TATTAAATTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTTAGACA
TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACAC
GTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTATATTAAATTATC
GACACTTTCAATATATCCGGTATCGTTTTACGGTTTTGTCATTTTTAGACCTGTTTTGTCCTTTT
TTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTATA
ACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:1455479 original size:545 final size:544
Alignment explanation
Indices: 1454319--1455522 Score: 1757
Period size: 545 Copynumber: 2.2 Consensus size: 544
1454309 TACGCGTACT
* * *
1454319 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACAT
1 TATTAAATTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACAT
1454384 GTTTTGTCCTATTTTTACCTGTTATATTGTTAT-AGATCGATACATTTTTTAAAAGTATCGACAC
66 GTTTTGTCCTATTTTTACCTGTTATATTGTTATGA-ATCGATACATTTTTTAAAAGTATCGACAC
* *
1454448 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
130 TTTATAGGCGCAATAACTTCTTCTCTTTTAAATTCCAAAACTGTCGATACTTATATTAAAGTATC
* *
1454513 GACACTTTCAACATATCCGGTAGTTATTTACCTATTTTATCATTTTGAGACCGGTTTTGTCATAT
195 GACACTTTCAACATATCCGGTAGTTATTTACCGATTTTATCATTTTGAGACAGGTTTTGTCATAT
* *
1454578 TTTAGGTTGTTATATTGTTATGGATCGATACATTTGCATAAAGTGTCGACACGTTTTAGGCGCTA
260 TTTA-GTTATTATATTGTTATGAATCGATACATTTGCATAAAGTGTCGACACGTTTTAGGCGCTA
* *
1454643 TACCTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTACATTAAATTATCGACACTTTCAATA
324 TAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTACATTAAATTATCGACACTTTCAATA
* *
1454708 TATCTGATACCGCTTTCCGGTTTTGTCATTTTTAGACCGGTTTTGTCCTATTTTTACCTGTTATA
389 TATCCGATACCGCTTTACGGTTTTGTCATTTTTAGACCGGTTTTGTCCTATTTTTACCTGTTATA
* *
1454773 TTTCTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAAGCGCTATAACTTCTTCTCTT
454 TTTCTATGGATCGATACATTTTTTTAAAGTATCGACACGTTTTAAGCGCTATAACTTATTCTCTT
1454838 TTAAATTCAGAAACTGTCGATAGTTA
519 TTAAATTCAGAAACTGTCGATAGTTA
* * * *
1454864 TATTAAATTATCGACACTTTCAATATAT-TCGGTATCGTTTTATCGGTTTTGTCATTTTTAGACC
1 TATTAAATTATCGACACTTTCAATATATCT-GGTAGCGCTTTACCGGTTTTGTCATTTTTAGACA
* * *
1454928 TGTTTTGTCCTTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTTTTAAAGTGTCGACAC
65 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGAATCGATACATTTTTTAAAAGTATCGACAC
*
1454993 GTTT-TAGGCGCAATAACTTCTTCTCTTTTAAATT-CAGAAACTGTCGATACTTATATTAAATTA
130 -TTTATAGGCGCAATAACTTCTTCTCTTTTAAATTCCA-AAACTGTCGATACTTATATTAAAGTA
* * * * * * *
1455056 TCGACACTTTCAATATATCTGGTA-TCGT-TTTATCGGTTTTGTCATTTTTTAGACATGTTTTGT
193 TCGACACTTTCAACATATCCGGTAGT--TATTTACCGATTTTATCA-TTTTGAGACAGGTTTTGT
* * ***
1455119 CCTTTTTTTA-TCTATTATATTGTTATGAATCGATACATTTTTTTAAAGTGTCGACACGTTTTAG
255 -CATATTTTAGT-TATTATATTGTTATGAATCGATACATTTGCATAAAGTGTCGACACGTTTTAG
*
1455183 GCGCTATAACTTCTTCTCTTTTAAATTCAGAAACT-TCGATACTTATATTAAATTATCGACACTT
318 GCGCTATAACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTACATTAAATTATCGACACTT
* * * *
1455247 TCAATATATCCGGTATCGTTTTACGGTTTTGTCATTTTTAGACCTGTTTTGTCCT-TTTTTACCT
383 TCAATATATCCGATACCGCTTTACGGTTTTGTCATTTTTAGACCGGTTTTGTCCTATTTTTACCT
* *
1455311 GTTATATTGT-TATGGATCGATACATTTTTTTAAAGTATTGACAC-TTTATAGGCGCTATAACTT
448 GTTATATT-TCTATGGATCGATACATTTTTTTAAAGTATCGACACGTTT-TAAGCGCTATAACTT
* *
1455374 ATTCTCTTTTAAATTCCA-AAAGTGTCGATATTTA
511 ATTCTCTTTTAAATT-CAGAAACTGTCGATAGTTA
* * *
1455408 TATTAAATTATCGACACTTTTAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTTTTAAACA
1 TATTAAATTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCA-TTTTTAGACA
* *
1455473 TGTTTTGTCCTAGTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
65 TGTTTTGTCCTATTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
1455523 CATTTGTATC
Statistics
Matches: 591, Mismatches: 54, Indels: 28
0.88 0.08 0.04
Matches are distributed among these distances:
543 3 0.01
544 141 0.24
545 340 0.58
546 100 0.17
547 7 0.01
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (544 bp):
TATTAAATTATCGACACTTTCAATATATCTGGTAGCGCTTTACCGGTTTTGTCATTTTTAGACAT
GTTTTGTCCTATTTTTACCTGTTATATTGTTATGAATCGATACATTTTTTAAAAGTATCGACACT
TTATAGGCGCAATAACTTCTTCTCTTTTAAATTCCAAAACTGTCGATACTTATATTAAAGTATCG
ACACTTTCAACATATCCGGTAGTTATTTACCGATTTTATCATTTTGAGACAGGTTTTGTCATATT
TTAGTTATTATATTGTTATGAATCGATACATTTGCATAAAGTGTCGACACGTTTTAGGCGCTATA
ACTTCTTCTCTTTTAAATTCAGAAACTGTCGATACTTACATTAAATTATCGACACTTTCAATATA
TCCGATACCGCTTTACGGTTTTGTCATTTTTAGACCGGTTTTGTCCTATTTTTACCTGTTATATT
TCTATGGATCGATACATTTTTTTAAAGTATCGACACGTTTTAAGCGCTATAACTTATTCTCTTTT
AAATTCAGAAACTGTCGATAGTTA
Found at i:1466965 original size:3 final size:3
Alignment explanation
Indices: 1466957--1467048 Score: 168
Period size: 3 Copynumber: 31.0 Consensus size: 3
1466947 TCAATCCTTA
1466957 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1467005 TAT TA- TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1467049 ATTTTGATAT
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 84 0.98
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1472998 original size:15 final size:16
Alignment explanation
Indices: 1472972--1473016 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1472962 TCCGTATCCA
*
1472972 ATCCGAAAAAATTAGAT
1 ATCC-AAAAATTTAGAT
*
1472989 ATCCAAAAATTTGGAT
1 ATCCAAAAATTTAGAT
1473005 ATCC-AAAATTTA
1 ATCCAAAAATTTA
1473017 AGATCGGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 7 0.28
16 14 0.56
17 4 0.16
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (16 bp):
ATCCAAAAATTTAGAT
Found at i:1473823 original size:64 final size:65
Alignment explanation
Indices: 1473702--1473833 Score: 194
Period size: 64 Copynumber: 2.0 Consensus size: 65
1473692 ATCAAGTCTC
* * * *
1473702 AAATCAACACAGGATGTTCACATTAAAAATACCACACAAGAGTATCAAATCTCAACAATACAATA
1 AAATCAACACAAGATGTTCAAAATAAAAATACCACACAAGAGTATCAAATCTCAACAACACAATA
* * *
1473767 AAATCAACACAAGATGTTCAAAAT-AAAATACCACACAAGAGTATCAAGTCTTAACAACATAATA
1 AAATCAACACAAGATGTTCAAAATAAAAATACCACACAAGAGTATCAAATCTCAACAACACAATA
1473831 AAA
1 AAA
1473834 GAGATAATAG
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
64 39 0.65
65 21 0.35
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.20
Consensus pattern (65 bp):
AAATCAACACAAGATGTTCAAAATAAAAATACCACACAAGAGTATCAAATCTCAACAACACAATA
Found at i:1501123 original size:24 final size:24
Alignment explanation
Indices: 1501096--1501150 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
1501086 AGTGCATTCA
1501096 TGCACTCCTATATTAGTACCTATG
1 TGCACTCCTATATTAGTACCTATG
*
1501120 TGCACTCCTATATTTGTACCTATG
1 TGCACTCCTATATTAGTACCTATG
1501144 TGCACTC
1 TGCACTC
1501151 ATGTATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (24 bp):
TGCACTCCTATATTAGTACCTATG
Found at i:1501737 original size:14 final size:14
Alignment explanation
Indices: 1501718--1501746 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1501708 GATGTCCCAC
1501718 TATTGTTTTAAATT
1 TATTGTTTTAAATT
1501732 TATTGTTTTAAATT
1 TATTGTTTTAAATT
1501746 T
1 T
1501747 CTAGTTGGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
TATTGTTTTAAATT
Found at i:1503614 original size:16 final size:16
Alignment explanation
Indices: 1503488--1503605 Score: 155
Period size: 16 Copynumber: 7.4 Consensus size: 16
1503478 TCAAAGTAGT
*
1503488 TGATTACCGAGGCAAC
1 TGATTACCGTGGCAAC
*
1503504 TGATTACCGTTGCAAC
1 TGATTACCGTGGCAAC
* *
1503520 TGATTGCCATGGCAAC
1 TGATTACCGTGGCAAC
*
1503536 TGATTGCCGTGGCAAC
1 TGATTACCGTGGCAAC
*
1503552 TGATTGCCGTGGCAAC
1 TGATTACCGTGGCAAC
* * *
1503568 TGATTTCCGTGGTAAG
1 TGATTACCGTGGCAAC
1503584 TGATTACCGTGGCAAC
1 TGATTACCGTGGCAAC
1503600 TGATTA
1 TGATTA
1503606 TCGTAGCAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 90 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (16 bp):
TGATTACCGTGGCAAC
Found at i:1504293 original size:23 final size:26
Alignment explanation
Indices: 1504228--1504294 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
1504218 TTTATCATAA
* *
1504228 TAAAGAGCTATTAAATCTCTTTTAAT
1 TAAAGAGATAATAAATCTCTTTTAAT
1504254 TAAAGAGATAATAAATCTCTTTTAA-
1 TAAAGAGATAATAAATCTCTTTTAAT
1504279 TAAA-AGA-AATAAATCT
1 TAAAGAGATAATAAATCT
1504295 ATTTCATCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
23 9 0.23
24 3 0.08
25 4 0.10
26 23 0.59
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (26 bp):
TAAAGAGATAATAAATCTCTTTTAAT
Found at i:1505583 original size:17 final size:19
Alignment explanation
Indices: 1505561--1505600 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1505551 AAGGAAAACA
1505561 AAAGAGAAA-T-ATTAAAT
1 AAAGAGAAACTAATTAAAT
1505578 AAAGAGAAACTAAATTAAAT
1 AAAGAGAAACT-AATTAAAT
1505598 AAA
1 AAA
1505601 TAAAGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
20 10 0.50
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (19 bp):
AAAGAGAAACTAATTAAAT
Found at i:1505613 original size:16 final size:16
Alignment explanation
Indices: 1505589--1505628 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1505579 AAGAGAAACT
*
1505589 AAATTAAAT-AAATAA
1 AAATAAAATAAAATAA
1505604 AGAATAAAATAAAATAA
1 A-AATAAAATAAAATAA
1505621 AAATAAAA
1 AAATAAAA
1505629 AGACAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.64
17 7 0.32
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAATAA
Found at i:1509449 original size:23 final size:23
Alignment explanation
Indices: 1509396--1509480 Score: 143
Period size: 23 Copynumber: 3.6 Consensus size: 23
1509386 AAAGAGCTAT
1509396 TAAATCTCTTTTAATTAAAGAGAAAA
1 TAAATCTCTTTTAA-TAAA-AG-AAA
1509422 TAAATCTCTTTTAATAAAAGAAA
1 TAAATCTCTTTTAATAAAAGAAA
1509445 TAAATCTCTTTTAATAAAAGAAA
1 TAAATCTCTTTTAATAAAAGAAA
1509468 TAAATCTCTTTTA
1 TAAATCTCTTTTA
1509481 TCTTTATCCT
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
23 39 0.66
24 2 0.03
25 4 0.07
26 14 0.24
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (23 bp):
TAAATCTCTTTTAATAAAAGAAA
Found at i:1510250 original size:34 final size:35
Alignment explanation
Indices: 1510128--1510253 Score: 121
Period size: 35 Copynumber: 3.6 Consensus size: 35
1510118 ATACTACCAG
* * * * *
1510128 TGTGTCACATTCATATGATGCAGAATAATGTATCA
1 TGTGTCACATTCAAATAATGCACAATAGTGTGTCA
** * * *
1510163 TGTGTTGCATTGAGATAATGCACAGTAGTGTGTCA
1 TGTGTCACATTCAAATAATGCACAATAGTGTGTCA
* *
1510198 TGTGTCACATTTAGATAATGCACAATA-TCGTGTCA
1 TGTGTCACATTCAAATAATGCACAATAGT-GTGTCA
1510233 T-TGTCACATTCAAATAATGCA
1 TGTGTCACATTCAAATAATGCA
1510254 AAGTAGTTAC
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
34 19 0.25
35 56 0.75
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (35 bp):
TGTGTCACATTCAAATAATGCACAATAGTGTGTCA
Found at i:1518299 original size:31 final size:31
Alignment explanation
Indices: 1518264--1518369 Score: 88
Period size: 31 Copynumber: 3.3 Consensus size: 31
1518254 TCGCTACGGC
*
1518264 TAATTCCTTTTATAGGTTTTACACTGACTGG
1 TAATTCCTTTTATAGGTTTAACACTGACTGG
* * * * *
1518295 TAATTCCTATCTCTGGTAGGTTCAGTCGCTG-TTGG
1 TAATTCCT-T-T-T-ATAGGTTTA-ACACTGACTGG
* *
1518330 TAATTCCTTTTATAGGTTCAACACCGACTGG
1 TAATTCCTTTTATAGGTTTAACACTGACTGG
1518361 TAATTCCTT
1 TAATTCCTT
1518370 ACGAACCTCA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
30 3 0.05
31 28 0.48
32 2 0.03
33 2 0.03
34 2 0.03
35 17 0.29
36 4 0.07
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.42
Consensus pattern (31 bp):
TAATTCCTTTTATAGGTTTAACACTGACTGG
Found at i:1518316 original size:66 final size:66
Alignment explanation
Indices: 1518239--1518368 Score: 199
Period size: 66 Copynumber: 2.0 Consensus size: 66
1518229 GGTATGAAAA
** *
1518239 CTCTGGTAGGTTCAGTCGCT-ACGGCTAATTCCTTTTATAGGTTTTACACTGACTGGTAATTCCT
1 CTCTGGTAGGTTCAGTCGCTGACGG-TAATTCCTTTTATAGGTTCAACACCGACTGGTAATTCCT
1518303 AT
65 AT
**
1518305 CTCTGGTAGGTTCAGTCGCTGTTGGTAATTCCTTTTATAGGTTCAACACCGACTGGTAATTCCT
1 CTCTGGTAGGTTCAGTCGCTGACGGTAATTCCTTTTATAGGTTCAACACCGACTGGTAATTCCT
1518369 TACGAACCTC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 56 0.97
67 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (66 bp):
CTCTGGTAGGTTCAGTCGCTGACGGTAATTCCTTTTATAGGTTCAACACCGACTGGTAATTCCTA
T
Found at i:1524875 original size:165 final size:164
Alignment explanation
Indices: 1524604--1524929 Score: 618
Period size: 165 Copynumber: 2.0 Consensus size: 164
1524594 TGGAGACTGA
1524604 AGCTAAACCTGATATTACCTCAATACCAAACTCTAATTCACTTTGAGTGGTAAACCTGATAATTT
1 AGCTAAACCTGATATTACCTCAATACCAAACTCTAATTCACTTTGAGTGGTAAACCTGATAATTT
1524669 TTCTAGGAATACATCGGGAAAATATCACACTGTTCAGATATCCTCAAGTGTTGGGACTGTTCGGG
66 TTCTAGGAATACATCGGGAAAATATCACACTGTTCAGATATCCTCAAGTGTTGGGACTGTTCGGG
1524734 AAAAAT-ATCACTATTCAGAGCCCTTGATATCCTG
131 AAAAATCA-CACTATTCAGAGCCCTTGATATCCTG
*
1524768 AGCTAAACCTGATATTACCTCAATACCAAGCTCTAATTCACTTTTGAGTGGTAAACCTGATAATT
1 AGCTAAACCTGATATTACCTCAATACCAAACTCTAATTCAC-TTTGAGTGGTAAACCTGATAATT
1524833 TTTCTAGGAATACATCGGGAAAATATCACACTGTTCAGATATCCTCAAGTGTTGGGACTGTTCGG
65 TTTCTAGGAATACATCGGGAAAATATCACACTGTTCAGATATCCTCAAGTGTTGGGACTGTTCGG
1524898 GAAAAATCACACTATTCAGAGCCCTTGATATC
130 GAAAAATCACACTATTCAGAGCCCTTGATATC
1524930 TCTGTACAGA
Statistics
Matches: 159, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
164 40 0.25
165 118 0.74
166 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (164 bp):
AGCTAAACCTGATATTACCTCAATACCAAACTCTAATTCACTTTGAGTGGTAAACCTGATAATTT
TTCTAGGAATACATCGGGAAAATATCACACTGTTCAGATATCCTCAAGTGTTGGGACTGTTCGGG
AAAAATCACACTATTCAGAGCCCTTGATATCCTG
Found at i:1527144 original size:20 final size:19
Alignment explanation
Indices: 1527121--1527174 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1527111 TATCCATGCG
1527121 TATCGATACTAACCCTTCAA
1 TATCGATACTAACCC-TCAA
* * *
1527141 TATCGATAACAAACCCTGAG
1 TATCGAT-ACTAACCCTCAA
1527161 TATCGATACTAACC
1 TATCGATACTAACC
1527175 TGTTGGTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 6 0.21
20 16 0.55
21 7 0.24
ACGTcount: A:0.37, C:0.28, G:0.09, T:0.26
Consensus pattern (19 bp):
TATCGATACTAACCCTCAA
Found at i:1528504 original size:24 final size:24
Alignment explanation
Indices: 1528472--1528603 Score: 111
Period size: 24 Copynumber: 5.5 Consensus size: 24
1528462 CATATAGTGC
*
1528472 CAGGAGTACACATATGTACTAATA
1 CAGGAGTACACATAGGTACTAATA
* *
1528496 CAGGAGTACCCAAAGGTACTAATA
1 CAGGAGTACACATAGGTACTAATA
* * * *
1528520 TAGGAGTACCCAAAGGCACTAATA
1 CAGGAGTACACATAGGTACTAATA
* * * *
1528544 CAGGAGTGCACATATGCACTAGTA
1 CAGGAGTACACATAGGTACTAATA
* ** *
1528568 TAATAGTATACATAGGTACTAATA
1 CAGGAGTACACATAGGTACTAATA
* *
1528592 TAGGAGTGCACA
1 CAGGAGTACACA
1528604 CATACACTAT
Statistics
Matches: 85, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 85 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.22
Consensus pattern (24 bp):
CAGGAGTACACATAGGTACTAATA
Found at i:1533327 original size:10 final size:10
Alignment explanation
Indices: 1533312--1533349 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
1533302 AACTTCCAAA
1533312 AAGAAAAAAG
1 AAGAAAAAAG
1533322 AAGAAAAAAG
1 AAGAAAAAAG
*
1533332 AAGGAAAAAG
1 AAGAAAAAAG
1533342 AAGTAAAA
1 AAG-AAAA
1533350 TAAAATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 22 0.88
11 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:1534753 original size:18 final size:18
Alignment explanation
Indices: 1534696--1534758 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
1534686 TAATAGTTAT
* **
1534696 TTCATTTAAGTATTCTAG
1 TTCATTTAATTAAACTAG
*
1534714 TTCACTTAATTAAACTAG
1 TTCATTTAATTAAACTAG
1534732 TTCATTTAATTAAACT-G
1 TTCATTTAATTAAACTAG
1534749 TTTCATTTAA
1 -TTCATTTAA
1534759 GTTTCCACGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 1 0.03
18 38 0.97
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (18 bp):
TTCATTTAATTAAACTAG
Found at i:1535153 original size:21 final size:21
Alignment explanation
Indices: 1535120--1535162 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1535110 GACAAATGGG
*
1535120 TGTCTACAATCATCCTAGAGT
1 TGTCCACAATCATCCTAGAGT
* *
1535141 TGTCCACATTCATCCTGGAGT
1 TGTCCACAATCATCCTAGAGT
1535162 T
1 T
1535163 TCATCAAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (21 bp):
TGTCCACAATCATCCTAGAGT
Found at i:1540535 original size:3 final size:3
Alignment explanation
Indices: 1540529--1540608 Score: 101
Period size: 3 Copynumber: 27.0 Consensus size: 3
1540519 ATTATTATTT
1540529 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
1540575 TAGA TAA TAA AAA TAA TAG TTT TAA TAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1540609 AAAAAAAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
2 4 0.06
3 60 0.90
4 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1540862 original size:45 final size:45
Alignment explanation
Indices: 1540813--1541320 Score: 876
Period size: 45 Copynumber: 11.3 Consensus size: 45
1540803 ATAAATGGCT
* *
1540813 CGAAGGCTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
*
1540858 CGAAGGTTTTGAAAACATAATGCACTGAAGGGCTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
*
1540903 CGAAGGCTTTGAAAA-ATCATGCACTGAAGGGCTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
*
1540947 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACTGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1540992 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
* * *
1541037 CAAAGGTTTTGAAAACATCTTGTACTGAAGGGCTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
** *
1541082 CGAAGGTTTTGAAAACATCATGCACTGAAGGATTTATAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
*
1541127 CGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
*
1541172 CGATGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
*
1541217 CGAAGGTTTTGAAAACATCATGCACTGAA-GACTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1541261 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
1541306 CGAAGGTTTTGAAAA
1 CGAAGGTTTTGAAAA
1541321 AGGGCTTACA
Statistics
Matches: 437, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
44 85 0.19
45 352 0.81
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (45 bp):
CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
Found at i:1541126 original size:135 final size:135
Alignment explanation
Indices: 1540813--1541602 Score: 1225
Period size: 134 Copynumber: 6.0 Consensus size: 135
1540803 ATAAATGGCT
* * *
1540813 CGAAGGCTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATAA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
* *
1540878 TGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA-ATCATGCACTGAAGGGCTTACAGA
66 TGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
1540942 TGACC
131 TGACC
*
1540947 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACTGATGACCCGAAGGTTTTGAAAACATCA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
* * * *
1541012 TGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCTTGTACTGAAGGGCTTACAGA
66 TGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
1541077 TGACC
131 TGACC
** *
1541082 CGAAGGTTTTGAAAACATCATGCACTGAAGGATTTATAGATGACCCGAAGGTTTTGAAAACATCA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
*
1541147 TGCACTGAAGGACTTACAGATGACCCGATGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
66 TGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
1541212 TGACC
131 TGACC
*
1541217 CGAAGGTTTTGAAAACATCATGCACTGAA-GACTTACAGATGACCCGAAGGTTTTGAAAACATCA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
*
1541281 TGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTG-----A--A---A---AAGGGCTTACAGA
66 TGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
1541333 TGACC
131 TGACC
** *
1541338 TAAAGGTTTTGAAAACATCATGCACTGAAGGGTTTACAGATGACCCGAAGGTTTTGAAAACATCA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
* * * * *
1541403 TGC-CTGAATGACTTACAAATGACCCGGAGGTTTTGAAAACTTCATGCACTAAAGGGCTTACAGA
66 TGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
1541467 TGACC
131 TGACC
1541472 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
* * *
1541537 TGCACTGAAGGACTTACAAATGATCCGGAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
66 TGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
1541602 T
131 T
1541603 AGGGAAATAG
Statistics
Matches: 603, Mismatches: 37, Indels: 31
0.90 0.06 0.05
Matches are distributed among these distances:
121 73 0.12
122 36 0.06
124 1 0.00
127 1 0.00
128 1 0.00
129 1 0.00
131 1 0.00
134 249 0.41
135 240 0.40
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (135 bp):
CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
TGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGA
TGACC
Found at i:1541324 original size:32 final size:32
Alignment explanation
Indices: 1541288--1541352 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
1541278 TCATGCACTG
*
1541288 AAGGGCTTACAGATGACCCGAAGGTTTTGAAA
1 AAGGGCTTACAGATGACCCAAAGGTTTTGAAA
*
1541320 AAGGGCTTACAGATGACCTAAAGGTTTTGAAA
1 AAGGGCTTACAGATGACCCAAAGGTTTTGAAA
1541352 A
1 A
1541353 CATCATGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (32 bp):
AAGGGCTTACAGATGACCCAAAGGTTTTGAAA
Found at i:1541375 original size:77 final size:82
Alignment explanation
Indices: 1541245--1541579 Score: 392
Period size: 89 Copynumber: 4.0 Consensus size: 82
1541235 CATGCACTGA
1541245 AGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
1 AGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
1541310 GGTTTTGAAAA-A-G-G
66 GGTTTTGAAAACATGCG
** *
1541324 -G-CTTACAGATGACCTAAAGGTTTTGAAAACATCATGCACTGAAGGGTTTACAGATGACCCGAA
1 AGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
1541387 GGTTTTGAAAACATCATGCCTG
66 GGTTTTG-AAA-A-CATG-C-G
* * * *
1541409 AATGACTTACAAATGACCCGGAGGTTTTGAAAACTTCATGCACTAAAGGGCTTACAGATGACCCG
1 -A-GACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCG
1541474 AAGGTTTTGAAAACATCATGCACTG
64 AAGGTTTTG-AAA-A-CATG--C-G
* * * *
1541499 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAAATGATCCG
1 -A-GACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCG
*
1541564 GAGGTTTTGAAAACAT
64 AAGGTTTTGAAAACAT
1541580 CATGCACTGA
Statistics
Matches: 222, Mismatches: 21, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
77 66 0.30
78 4 0.02
79 1 0.00
81 1 0.00
82 1 0.00
85 1 0.00
87 3 0.01
88 2 0.01
89 76 0.34
90 67 0.30
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (82 bp):
AGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
GGTTTTGAAAACATGCG
Found at i:1541389 original size:45 final size:45
Alignment explanation
Indices: 1541320--1541602 Score: 442
Period size: 45 Copynumber: 6.3 Consensus size: 45
1541310 GGTTTTGAAA
**
1541320 AAGGGCTTACAGATGACCTAAAGGTTTTGAAAACATCATGCACTG
1 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
*
1541365 AAGGGTTTACAGATGACCCGAAGGTTTTGAAAACATCATGC-CTG
1 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
* * * * * *
1541409 AATGACTTACAAATGACCCGGAGGTTTTGAAAACTTCATGCACTA
1 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1541454 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1541499 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
* * * *
1541544 AAGGACTTACAAATGATCCGGAGGTTTTGAAAACATCATGCACTG
1 AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
1541589 AAGGGCTTACAGAT
1 AAGGGCTTACAGAT
1541603 AGGGAAATAG
Statistics
Matches: 215, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 38 0.18
45 177 0.82
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (45 bp):
AAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTG
Found at i:1541436 original size:166 final size:170
Alignment explanation
Indices: 1540813--1541591 Score: 976
Period size: 179 Copynumber: 4.4 Consensus size: 170
1540803 ATAAATGGCT
* * *
1540813 CGAAGGCTTTGAAAACAACATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATAA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
* * * *
1540878 TGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAA-ATCATGCACTGAAGGGCTTACAGA
66 TGCACTGAA-GACTTACAAATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGA
*
1540942 TGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACTGATGACC
130 TGACCCGAAGGTTTTG---A-A-CA--CAC--AAGGGCTTACAGATGACC
* *
1540992 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAACATCT
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
* * * * ** *
1541057 TGTACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGATTTATAGA
66 TGCACTGAA-GACTTACAAATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGA
*
1541122 TGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACC
130 TGACCCGAAGGTTTTG---A-A-CA--CAC--AAGGGCTTACAGATGACC
*
1541172 CGATGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
* *
1541237 TGCACTGAAGACTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGAT
66 TGCACTGAAGACTTACAAATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGAT
1541302 GACCCGAAGGTTTTG-A-A-A-AAGGGCTTACAGATGACC
131 GACCCGAAGGTTTTGAACACACAAGGGCTTACAGATGACC
** *
1541338 TAAAGGTTTTGAAAACATCATGCACTGAAGGGTTTACAGATGACCCGAAGGTTTTGAAAACATCA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
* *
1541403 TGC-CTGAATGACTTACAAATGACCCGGAGGTTTTGAAAACTTCATGCACTAAAGGGCTTACAGA
66 TGCACTGAA-GACTTACAAATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGA
1541467 TGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACC
130 TGACCCGAAGGTTTTG---A-A-CA--CAC--AAGGGCTTACAGATGACC
* * * *
1541517 CGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAAATGATCCGGAGGTTTTGAAAACATCA
1 CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
1541582 TGCACTGAAG
66 TGCACTGAAG
1541592 GGCTTACAGA
Statistics
Matches: 548, Mismatches: 36, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
165 5 0.01
166 148 0.27
169 1 0.00
171 1 0.00
172 1 0.00
173 1 0.00
174 1 0.00
176 1 0.00
179 245 0.45
180 144 0.26
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (170 bp):
CGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCA
TGCACTGAAGACTTACAAATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGAT
GACCCGAAGGTTTTGAACACACAAGGGCTTACAGATGACC
Found at i:1541483 original size:211 final size:211
Alignment explanation
Indices: 1541119--1541531 Score: 702
Period size: 211 Copynumber: 2.0 Consensus size: 211
1541109 AAGGATTTAT
* *
1541119 AGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGATGGTTTTGA
1 AGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGA
* * *
1541184 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGAC
66 AAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGAC
1541249 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
131 TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1541314 TTGAAAAAGGGCTTAC
196 TTGAAAAAGGGCTTAC
* **
1541330 AGATGACCTAAAGGTTTTGAAAACATCATGCACTGAAGGGTTTACAGATGACCCGAAGGTTTTGA
1 AGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGA
* * * *
1541395 AAACATCATGC-CTGAATGACTTACAAATGACCCGGAGGTTTTGAAAACTTCATGCACTAAAGGG
66 AAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGTTTTGAAAACATCATGCACTAAA-GA
1541459 CTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
130 CTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1541524 TTTGAAAA
195 TTTGAAAA
1541532 CATCATGCAC
Statistics
Matches: 189, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
210 44 0.23
211 145 0.77
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (211 bp):
AGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGA
AAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGAC
TTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
TTGAAAAAGGGCTTAC
Found at i:1542320 original size:20 final size:22
Alignment explanation
Indices: 1542274--1542341 Score: 118
Period size: 22 Copynumber: 3.1 Consensus size: 22
1542264 CTATTTGAAA
1542274 AGAGAATTTATCATCTTTGGAG
1 AGAGAATTTATCATCTTTGGAG
*
1542296 AGAGAATCTATCATCTTTGGAG
1 AGAGAATTTATCATCTTTGGAG
*
1542318 AGAGAATTTATCATCTTTGAAG
1 AGAGAATTTATCATCTTTGGAG
1542340 AG
1 AG
1542342 TGTAGATGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (22 bp):
AGAGAATTTATCATCTTTGGAG
Found at i:1542682 original size:35 final size:36
Alignment explanation
Indices: 1542643--1542715 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
1542633 CATCAAAATA
*
1542643 ATTGGTTCGT-AAAACATTTGACAAAACATTCATCC
1 ATTGGGTCGTAAAAACATTTGACAAAACATTCATCC
*
1542678 ATTGGGTGGTAAAAAACATTTGACAAAACATTCATCC
1 ATTGGGTCGT-AAAAACATTTGACAAAACATTCATCC
1542715 A
1 A
1542716 GCTGTGGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 8 0.24
37 26 0.76
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (36 bp):
ATTGGGTCGTAAAAACATTTGACAAAACATTCATCC
Found at i:1546546 original size:8 final size:8
Alignment explanation
Indices: 1546533--1546590 Score: 89
Period size: 8 Copynumber: 6.9 Consensus size: 8
1546523 TCAATTATTT
1546533 CTTTTTTC
1 CTTTTTTC
1546541 CTTTTTTTC
1 C-TTTTTTC
1546550 CTTTTTTCC
1 CTTTTTT-C
1546559 CTTTTTTTC
1 C-TTTTTTC
1546568 CTTTTTTC
1 CTTTTTTC
1546576 CTTTTTTC
1 CTTTTTTC
1546584 CTTTTTT
1 CTTTTTT
1546591 TTCAAATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
8 29 0.62
9 12 0.26
10 6 0.13
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
CTTTTTTC
Found at i:1546548 original size:9 final size:9
Alignment explanation
Indices: 1546534--1546591 Score: 93
Period size: 9 Copynumber: 6.7 Consensus size: 9
1546524 CAATTATTTC
1546534 TTTTTTCCT
1 TTTTTTCCT
1546543 TTTTTTCCT
1 TTTTTTCCT
*
1546552 TTTTTCCCT
1 TTTTTTCCT
1546561 TTTTTTCC-
1 TTTTTTCCT
1546569 TTTTTTCC-
1 TTTTTTCCT
1546577 TTTTTTCCT
1 TTTTTTCCT
1546586 TTTTTT
1 TTTTTT
1546592 TCAAATATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
8 16 0.35
9 30 0.65
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:1549430 original size:8 final size:7
Alignment explanation
Indices: 1549410--1549444 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
1549400 ATAAAAGTAT
1549410 AAATGCA
1 AAATGCA
1549417 AAATGCA
1 AAATGCA
1549424 AAGATGCA
1 AA-ATGCA
1549432 AAATGC-
1 AAATGCA
1549438 AAATGCA
1 AAATGCA
1549445 TGTATGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 13 0.50
8 7 0.27
ACGTcount: A:0.54, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:1549432 original size:15 final size:15
Alignment explanation
Indices: 1549412--1549440 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1549402 AAAAGTATAA
1549412 ATGCAAAATGCAAAG
1 ATGCAAAATGCAAAG
1549427 ATGCAAAATGCAAA
1 ATGCAAAATGCAAA
1549441 TGCATGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATGCAAAATGCAAAG
Found at i:1554203 original size:3 final size:3
Alignment explanation
Indices: 1554195--1554221 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1554185 TTGTTTTTAA
1554195 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1554222 TGATATCTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1557536 original size:20 final size:21
Alignment explanation
Indices: 1557513--1557591 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
1557503 TTGGTGCAGA
*
1557513 GGGAATCGATCCCCCCTTGA-
1 GGGAACCGATCCCCCCTTGAG
1557533 GGGAACCGATCCCCCCTTTGAAG
1 GGGAACCGATCCCCCC-TTG-AG
* **
1557556 GGGAACCGATTCCCCCTACAG
1 GGGAACCGATCCCCCCTTGAG
* *
1557577 GGGAATCGATACCCC
1 GGGAACCGATCCCCC
1557592 TAGGGTTCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
20 15 0.30
21 18 0.36
22 2 0.04
23 15 0.30
ACGTcount: A:0.23, C:0.35, G:0.25, T:0.16
Consensus pattern (21 bp):
GGGAACCGATCCCCCCTTGAG
Found at i:1557563 original size:23 final size:21
Alignment explanation
Indices: 1557511--1557572 Score: 81
Period size: 20 Copynumber: 2.9 Consensus size: 21
1557501 TTTTGGTGCA
*
1557511 GAGGGAATCGATCCCCCC-TT
1 GAGGGAACCGATCCCCCCTTT
1557531 GAGGGAACCGATCCCCCCTTT
1 GAGGGAACCGATCCCCCCTTT
*
1557552 GAAGGGGAACCGATTCCCCCT
1 G-A-GGGAACCGATCCCCCCT
1557573 ACAGGGGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 17 0.46
21 3 0.08
22 1 0.03
23 16 0.43
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCTTT
Found at i:1562484 original size:3 final size:3
Alignment explanation
Indices: 1562478--1562560 Score: 103
Period size: 3 Copynumber: 27.0 Consensus size: 3
1562468 TATTATTTTT
* * *
1562478 TAA TAA TAA TAT TAA TAA TAA TAA TAT TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
1562526 TAA TATA TAA TAA TATA TAA TAA TTT TAA TAA TAA
1 TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
1562561 AAAAAACTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 62 0.91
4 6 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1562498 original size:15 final size:15
Alignment explanation
Indices: 1562478--1562560 Score: 130
Period size: 15 Copynumber: 5.4 Consensus size: 15
1562468 TATTATTTTT
1562478 TAATAATAATATTAA
1 TAATAATAATATTAA
1562493 TAATAATAATATTAA
1 TAATAATAATATTAA
1562508 TAATAATAATATTAA
1 TAATAATAATATTAA
*
1562523 TAATAATATATAATAA
1 TAATAATA-ATATTAA
*
1562539 TATATAATAATTTTAA
1 TA-ATAATAATATTAA
1562555 TAATAA
1 TAATAA
1562561 AAAAAACTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
15 42 0.67
16 15 0.24
17 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATATTAA
Found at i:1563120 original size:132 final size:131
Alignment explanation
Indices: 1562911--1563148 Score: 372
Period size: 132 Copynumber: 1.8 Consensus size: 131
1562901 CGGATAAAAT
*
1562911 AGCCAAGAGGGAGTGAATTGGCAATTAAAATTTTGGTGGAAGCTTGACAGAAAATAAAAAATATT
1 AGCCAAGAGGGAGTGAATTGGCAATTAAAATTTTGGTGGAAGCTTGACAGAAAATAAAAAATAAT
*
1562976 TGCACAACGATTTAGAGTGGTTCGACTTTCTCAACCAAAGTGTTGAGTTAATCGATTGACGGAAT
66 TGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGTGTTGAGTTAATCGATTGACGGAAT
1563041 C
131 C
* ** *
1563042 AGCCAAGAGGGGGGTGAATTGGCAATTAAAATTTT-GTGGAAGCTCTTG-CAGAAAATTGAAAGT
1 AGCCAAGA-GGGAGTGAATTGGCAATTAAAATTTTGGTGGAAG--CTTGACAGAAAATAAAAAAT
*
1563105 AATTGCACAGCGATTTAGAGTGGTTCGACTTTATCAACCAAAGT
63 AATTGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGT
1563149 CTACGTCCAC
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
131 15 0.15
132 78 0.80
133 4 0.04
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (131 bp):
AGCCAAGAGGGAGTGAATTGGCAATTAAAATTTTGGTGGAAGCTTGACAGAAAATAAAAAATAAT
TGCACAACGATTTAGAGTGGTTCGACTTTATCAACCAAAGTGTTGAGTTAATCGATTGACGGAAT
C
Found at i:1564642 original size:20 final size:21
Alignment explanation
Indices: 1564614--1564672 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
1564604 TACTATGTGT
1564614 AGTAGTATCGATATCGTCTAA
1 AGTAGTATCGATATCGTCTAA
* *
1564635 AG-AGTATCGATACTACTTGTAA
1 AGTAGTATCGATA-T-CGTCTAA
1564657 AGTAGTATCGATATCG
1 AGTAGTATCGATATCG
1564673 GTCATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
20 10 0.31
21 4 0.12
22 8 0.25
23 10 0.31
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (21 bp):
AGTAGTATCGATATCGTCTAA
Found at i:1564672 original size:43 final size:45
Alignment explanation
Indices: 1564575--1564672 Score: 139
Period size: 44 Copynumber: 2.2 Consensus size: 45
1564565 AACCTAACAA
* * **
1564575 TATCGATA-CTTCTCAAGGAGTATCGATACTACTATGTGTAGTAG
1 TATCGATATCGTCTCAAAGAGTATCGATACTACTATGTAAAGTAG
1564619 TATCGATATCGTCT-AAAGAGTATCGATACTACT-TGTAAAGTAG
1 TATCGATATCGTCTCAAAGAGTATCGATACTACTATGTAAAGTAG
1564662 TATCGATATCG
1 TATCGATATCG
1564673 GTCATTGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 19 0.39
44 26 0.53
45 4 0.08
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (45 bp):
TATCGATATCGTCTCAAAGAGTATCGATACTACTATGTAAAGTAG
Found at i:1565060 original size:19 final size:19
Alignment explanation
Indices: 1565019--1565060 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1565009 TTGAATAATT
* * *
1565019 AAATCGAATATAATATTTG
1 AAATCGAATATAAAATATA
1565038 AAATCGAATATAAAATATA
1 AAATCGAATATAAAATATA
1565057 AAAT
1 AAAT
1565061 TCATTAACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (19 bp):
AAATCGAATATAAAATATA
Found at i:1571662 original size:2 final size:2
Alignment explanation
Indices: 1571655--1571686 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1571645 TTATTTCTTT
1571655 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1571687 ATACATTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1580344 original size:19 final size:18
Alignment explanation
Indices: 1580239--1580367 Score: 66
Period size: 22 Copynumber: 6.5 Consensus size: 18
1580229 CGAGACCATT
1580239 TTATATAGTATATATATATATA
1 TTATATA-T-TAT-TATAT-TA
1580261 TATATATATATATATATATATA
1 T-TATATAT-TAT-TATAT-TA
* *
1580283 TATATATATATGTTATAGTA
1 T-TATATAT-TATTATATTA
*
1580303 TT-TATATTATTATATCA
1 TTATATATTATTATATTA
*
1580320 TATATATATTATTTTACTTA
1 T-TATATATTATTATA-TTA
1580340 TTATATAAATTATT-T-TTA
1 TTATAT--ATTATTATATTA
1580358 TTACTATATT
1 TTA-TATATT
1580368 TTAAATATCT
Statistics
Matches: 93, Mismatches: 7, Indels: 19
0.78 0.06 0.16
Matches are distributed among these distances:
17 11 0.12
18 12 0.13
19 20 0.22
20 7 0.08
21 10 0.11
22 27 0.29
23 6 0.06
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TTATATATTATTATATTA
Found at i:1580346 original size:2 final size:2
Alignment explanation
Indices: 1580240--1580328 Score: 112
Period size: 2 Copynumber: 44.5 Consensus size: 2
1580230 GAGACCATTT
1580240 TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1580283 TA TA TA TA TA TG T- TA TA GTA TT TA TA T- TA T- TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A TA TA
1580324 TA TA T
1 TA TA T
1580329 TATTTTACTT
Statistics
Matches: 78, Mismatches: 3, Indels: 12
0.84 0.03 0.13
Matches are distributed among these distances:
1 3 0.04
2 69 0.88
3 6 0.08
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Done.