Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_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: 3382237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 17
Found at i:998396 original size:89 final size:86
Alignment explanation
Indices: 998114--998416 Score: 545
Period size: 85 Copynumber: 3.5 Consensus size: 86
998104 ATATAAAATT
998114 AATAAAAAAATGGTTTGACTAATTCTATATATTTGAATTCTGAAAATAAGATAATTCCTTTTTTT
1 AATAAAAAAATGGTTTGACTAATTCTATATATTTGAATTCTGAAAATAAGATAATTCCTTTTTTT
998179 TGTAAAATCTAAAATTAATAA
66 TGTAAAATCTAAAATTAATAA
*
998200 AATAAAAAAATGGTATGACTAATTCTATATATTTGAATTCTGAAAATAAGATAATTCC-TTTTTT
1 AATAAAAAAATGGTTTGACTAATTCTATATATTTGAATTCTGAAAATAAGATAATTCCTTTTTTT
998264 TGTAAAATCTAAAATTAATAA
66 TGTAAAATCTAAAATTAATAA
*
998285 AATAAAAAAATGGTTTGACTAATTCTACATATTTGAATTCTGAAAATAAGATAATTCCTTTTTTT
1 AATAAAAAAATGGTTTGACTAATTCTATATATTTGAATTCTGAAAATAAGATAATTCC-TTTTTT
998350 GTGTGTAAAATCTAAAATTAATAA
65 -T-TGTAAAATCTAAAATTAATAA
*
998374 AACAAAAAAATGGTTTGACTAATTCTATATATTTGAATTCTGA
1 AATAAAAAAATGGTTTGACTAATTCTATATATTTGAATTCTGA
998417 CCGGTTTCAA
Statistics
Matches: 208, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
85 83 0.40
86 57 0.27
87 5 0.02
88 1 0.00
89 62 0.30
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (86 bp):
AATAAAAAAATGGTTTGACTAATTCTATATATTTGAATTCTGAAAATAAGATAATTCCTTTTTTT
TGTAAAATCTAAAATTAATAA
Found at i:999832 original size:22 final size:21
Alignment explanation
Indices: 999791--999833 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
999781 CGTCCAACTC
* *
999791 AAAAAATAATATTTTTTAATA
1 AAAAAATAATAATTTATAATA
999812 AAAAAATAATGAATTTATAATA
1 AAAAAATAAT-AATTTATAATA
999834 TATGAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAAAATAATAATTTATAATA
Found at i:1009547 original size:48 final size:48
Alignment explanation
Indices: 1009447--1009608 Score: 245
Period size: 48 Copynumber: 3.4 Consensus size: 48
1009437 TCGAACATGG
*
1009447 TGCTCACATTCAAATCCGAGTCTATGGTTAGACACAAACTCATATCCA-A
1 TGCTCACGTTCAAATCCGAGTCTAT-GTTAGACACAAACTCATAT-CAGA
*
1009496 TGCTCATGTTCAAATCCGAGTCTATGTTAGACACAAACTCATATCAGA
1 TGCTCACGTTCAAATCCGAGTCTATGTTAGACACAAACTCATATCAGA
* * * *
1009544 TGCTCACATTCAAATCCGAGTCTATGTTAGGCACAAGCTCATATCCGA
1 TGCTCACGTTCAAATCCGAGTCTATGTTAGACACAAACTCATATCAGA
1009592 TGCTCACGTTCAAATCC
1 TGCTCACGTTCAAATCC
1009609 AAGTAACTTA
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
47 2 0.02
48 79 0.76
49 23 0.22
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (48 bp):
TGCTCACGTTCAAATCCGAGTCTATGTTAGACACAAACTCATATCAGA
Found at i:1011376 original size:18 final size:18
Alignment explanation
Indices: 1011353--1011398 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1011343 AATATTTCCA
1011353 GTAATCTTATTCTCACTG
1 GTAATCTTATTCTCACTG
* *
1011371 GTAATCATGTTCTCACTG
1 GTAATCTTATTCTCACTG
*
1011389 ATAATCTTAT
1 GTAATCTTAT
1011399 ATTCTGTGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (18 bp):
GTAATCTTATTCTCACTG
Found at i:1011768 original size:17 final size:17
Alignment explanation
Indices: 1011737--1011769 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1011727 ATTATTATTA
1011737 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
1011754 TTAAA-ATAAACAATAA
1 TTAAATATAAA-AATAA
1011770 AATAGTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:1016517 original size:6 final size:6
Alignment explanation
Indices: 1016508--1016532 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1016498 GGGATGATAA
1016508 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
1016533 AAACCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:1016626 original size:12 final size:13
Alignment explanation
Indices: 1016590--1016633 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
1016580 GCCCCGATTA
1016590 CCCGATTACCCGC
1 CCCGATTACCCGC
1016603 CCCGATTACCCGC
1 CCCGATTACCCGC
*
1016616 CCCGA-TACCCGA
1 CCCGATTACCCGC
1016628 CCCGAT
1 CCCGAT
1016634 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:1016707 original size:19 final size:19
Alignment explanation
Indices: 1016683--1016722 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1016673 AATAAATTTA
1016683 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
1016702 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
1016721 AT
1 AT
1016723 ACCCCCCGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:1017018 original size:2 final size:2
Alignment explanation
Indices: 1017011--1017039 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1017001 CGATGTGATG
1017011 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1017040 TAAACATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1017689 original size:20 final size:21
Alignment explanation
Indices: 1017652--1017691 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
1017642 ATAATCCTAT
1017652 TATTTCAAAATTATAAAAAAA
1 TATTTCAAAATTATAAAAAAA
*
1017673 TATTT-AAAA-TATCAAAAAA
1 TATTTCAAAATTATAAAAAAA
1017692 GGACTTCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TATTTCAAAATTATAAAAAAA
Found at i:1019287 original size:3 final size:3
Alignment explanation
Indices: 1019281--1019358 Score: 129
Period size: 3 Copynumber: 26.0 Consensus size: 3
1019271 TATATGTATT
* *
1019281 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1019329 TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1019359 GAAATCCATA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1019680 original size:36 final size:38
Alignment explanation
Indices: 1019639--1019742 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 38
1019629 AAGGTTAAAC
*
1019639 AAGTTCTTCTTATTATGAACTTC-CTT-TTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTCTTATTCTTCAGAT
*
1019675 GAGTTCTTCTCATTATGAACTCTCTTCTTCATTCTTCAGAT
1 AAGTTCTTCTCATTATGAACT-TC-TCTT-ATTCTTCAGAT
*
1019716 AAATTCTTCTCATTATGAACTTTCTCT
1 AAGTTCTTCTCATTATGAAC-TTCTCT
1019743 GGAAAAGTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
36 19 0.33
37 2 0.03
39 3 0.05
40 3 0.05
41 30 0.52
42 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.48
Consensus pattern (38 bp):
AAGTTCTTCTCATTATGAACTTCTCTTATTCTTCAGAT
Found at i:1019997 original size:113 final size:113
Alignment explanation
Indices: 1019777--1020556 Score: 1135
Period size: 113 Copynumber: 6.9 Consensus size: 113
1019767 AAAGTCGAAT
* *
1019777 AAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTC
1 AAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-
* * * * * *
1019842 TTC-CTGGCAATGTTAATCCATCAATTGATGAATTTAAACAAAAGGTTGAAC
62 TTCTCTGGAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAAC
*
1019893 AAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT
1 AAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
* *
1019958 CTGGAAAAGCTGATCCATCTAA-TGATGGATTTGAGCAAAAGGTTGAAC
66 CTGGAAAAGCTAATCCATC-AAGTGATGGATTTAAGCAAAAGGTTGAAC
**
1020006 AAGCTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1 AAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
* *
1020071 CTGGAAAAGCTGATCCATCGAA-TGATGGATTTAAGCATAAGGTTGAAC
66 CTGGAAAAGCTAATCCATC-AAGTGATGGATTTAAGCAAAAGGTTGAAC
*
1020119 AAATTCTTCTCATTATGAA-TTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1 AAATTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* * *
1020183 TCTGGCAAAGCTAATCCATCAAGTGATGGATTCAGGCAAAAGGTTGAAC
65 TCTGGAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAAC
*
1020232 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1 AAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
* *
1020297 CTGGAAAAGCTGATCCATCGAA-TGATGGATTTAAGCATAAGGTTGAAC
66 CTGGAAAAGCTAATCCATC-AAGTGATGGATTTAAGCAAAAGGTTGAAC
1020345 AAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1 AAATTCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* * * *
1020409 TCTGGCAAAGCTAATTCATCAAGTGATGGATTCAGGCAAAAGGTTGAAC
65 TCTGGAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAAC
*
1020458 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1 AAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
* * *
1020523 CT-GACAATGTTAATCCATTGAA-TGATGGATTTAA
66 CTGGA-AAAGCTAATCCA-TCAAGTGATGGATTTAA
1020557 ATCTTTGCTA
Statistics
Matches: 607, Mismatches: 46, Indels: 25
0.90 0.07 0.04
Matches are distributed among these distances:
112 13 0.02
113 545 0.90
114 11 0.02
116 38 0.06
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (113 bp):
AAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
CTGGAAAAGCTAATCCATCAAGTGATGGATTTAAGCAAAAGGTTGAAC
Found at i:1020323 original size:339 final size:337
Alignment explanation
Indices: 1019679--1020553 Score: 1256
Period size: 339 Copynumber: 2.6 Consensus size: 337
1019669 TCAGATGAGT
* * * *
1019679 TCTTCTCATTATGAACTCTCTTCTTCATTCTTCAGATAAATTCTTCTCATTATGAACTTTCTCTG
1 TCTTCTCATTATGAACT-TTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * *
1019744 GAAAA---G-T--T-G-ATG-TTGA-TTAAAC-TAAAGTCGAATAAATTCTTCTCATTATGAACT
65 GAAAAGCTGATCATCGAATGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATGAACT
*
1019798 TCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC-CTGGCAATGTTAATCCA
130 TCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGCAATGTTAATCCA
* * *
1019862 TCAATTGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCT
191 TCAA-TGATGGATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
* *
1019927 TCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCTAATGATGGATTTGA
255 TCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCGAATGATGGATTTAA
*
1019992 GCAAAAGGTTGAACAAGC
320 GCAAAAGGTTGAACAAAC
1020010 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
*
1020075 AAAAGCTGATCCATCGAATGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATGAATT
66 AAAAGCTGAT-CATCGAATGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATGAACT
* * *
1020140 TCTTATTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAGCTAATCCATCAA
130 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAATGTTAATCCATCAA
**
1020205 GTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
195 -TGATGGATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
1020270 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAATGATGGATTTAAGCAT
259 ATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCGAATGATGGATTTAAGCAA
*
1020335 AAGGTTGAACAAAT
324 AAGGTTGAACAAAC
1020349 TCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TCTTCTCATTATGAACTTT-TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * * *
1020413 GCAAAGCTAATTCATC-AAGTGATGGATTCAGGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
65 GAAAAGCTGA-TCATCGAA-TGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATGAA
*
1020477 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGACAATGTTAATCCATT
128 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAATGTTAATCCA-T
*
1020542 GAATGATGGATT
192 CAATGATGGATT
1020554 TAAATCTTTG
Statistics
Matches: 490, Mismatches: 37, Indels: 26
0.89 0.07 0.05
Matches are distributed among these distances:
330 48 0.10
331 17 0.03
333 1 0.00
334 1 0.00
337 1 0.00
338 9 0.02
339 356 0.73
340 7 0.01
341 5 0.01
342 45 0.09
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (337 bp):
TCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCATCGAATGATGGATTTAAGCATAAGGTTGAACAAATTCTTCTCATTATGAACTT
CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAATGTTAATCCATCAAT
GATGGATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGATCCATCGAATGATGGATTTAAGCAAAA
GGTTGAACAAAC
Found at i:1021500 original size:84 final size:86
Alignment explanation
Indices: 1021289--1021506 Score: 289
Period size: 84 Copynumber: 2.5 Consensus size: 86
1021279 CCTACTGAAT
* *
1021289 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG-CAAATTCATCTTTCAACTTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCCAAATTCATCTTTCAAATTCA
1021353 ATGATTGGTTTTGGTTCATACCAAAC
66 ATGA-----TTTGGTTCATACCAAAC
* *** *
1021379 TAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCCTTCTTCATCTTTCAAATTTA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCCAAATTCATCTTTCAAATTCA
*
1021444 ATGA-TTGGTTC-TGCCAAAC
66 ATGATTTGGTTCATACCAAAC
*
1021463 CAGATCAGATAACTCAAAGAACACTTCTAGAAGATGTTATGAGC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGC
1021507 ACATGGCATT
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
84 49 0.42
85 7 0.06
90 41 0.35
91 20 0.17
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (86 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCCAAATTCATCTTTCAAATTCA
ATGATTTGGTTCATACCAAAC
Found at i:1022324 original size:16 final size:16
Alignment explanation
Indices: 1022303--1022339 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1022293 GAATTTTCGA
1022303 AAATAAATTGAATCTT-
1 AAATAAATTGAA-CTTG
1022319 AAATAAATTGAACTTG
1 AAATAAATTGAACTTG
1022335 AAATA
1 AAATA
1022340 GATAGAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (16 bp):
AAATAAATTGAACTTG
Found at i:1022664 original size:1 final size:1
Alignment explanation
Indices: 1022660--1022745 Score: 64
Period size: 1 Copynumber: 86.0 Consensus size: 1
1022650 TTGACCCCCC
* * * * * * * * * *
1022660 TTTTTCTTTTTTCTCTTTTTTTTCTTTTTTCTCTCTTTTTTTCTTTTTCTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1022725 TTTCTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
1022746 CTTCAAGCAT
Statistics
Matches: 61, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:1022678 original size:9 final size:9
Alignment explanation
Indices: 1022660--1022747 Score: 88
Period size: 9 Copynumber: 9.7 Consensus size: 9
1022650 TTGACCCCCC
1022660 TTTT-TCTT
1 TTTTCTCTT
1022668 TTTTCTCTT
1 TTTTCTCTT
*
1022677 TTTTTTCTT
1 TTTTCTCTT
1022686 TTTTCTCTCT
1 TTTTCTCT-T
*
1022696 TTTTTTCTT
1 TTTTCTCTT
* *
1022705 TTTCTTTTTT
1 TTT-TCTCTT
*
1022715 TTTTCTTTT
1 TTTTCTCTT
*
1022724 TTTTCTTTT
1 TTTTCTCTT
*
1022733 TTTTTTCTT
1 TTTTCTCTT
1022742 TTTTCT
1 TTTTCT
1022748 TCAAGCATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
8 4 0.06
9 49 0.71
10 16 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:1022682 original size:11 final size:11
Alignment explanation
Indices: 1022666--1022745 Score: 85
Period size: 11 Copynumber: 7.4 Consensus size: 11
1022656 CCCCTTTTTC
1022666 TTTTTTCTCTT
1 TTTTTTCTCTT
1022677 TTTTTTCT-TT
1 TTTTTTCTCTT
* *
1022687 TTTCTCTCTTTT
1 TTT-TTTCTCTT
*
1022699 TTTCTTTTTCTT
1 TTT-TTTCTCTT
*
1022711 TTTTTTTTCTT
1 TTTTTTCTCTT
1022722 TTTTTTCT-TT
1 TTTTTTCTCTT
1022732 TTTTTT-TCTT
1 TTTTTTCTCTT
1022742 TTTT
1 TTTT
1022746 CTTCAAGCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
9 1 0.02
10 19 0.31
11 27 0.44
12 14 0.23
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTCTCTT
Found at i:1022694 original size:20 final size:20
Alignment explanation
Indices: 1022660--1022747 Score: 116
Period size: 20 Copynumber: 4.7 Consensus size: 20
1022650 TTGACCCCCC
1022660 TTTTTC-TTTTT-TCTCTTT
1 TTTTTCTTTTTTCTCTCTTT
1022678 TTTTTCTTTTTTCTCTC-TT
1 TTTTTCTTTTTTCTCTCTTT
1022697 TTTTTC-TTTTTCT-T-TTT
1 TTTTTCTTTTTTCTCTCTTT
* *
1022714 TTTTTCTTTTTTTTCTTTTT
1 TTTTTCTTTTTTCTCTCTTT
1022734 TTTTTCTTTTTTCT
1 TTTTTCTTTTTTCT
1022748 TCAAGCATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
17 9 0.15
18 19 0.31
19 14 0.23
20 20 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTCTTTTTTCTCTCTTT
Found at i:1022748 original size:18 final size:18
Alignment explanation
Indices: 1022660--1022748 Score: 126
Period size: 18 Copynumber: 4.8 Consensus size: 18
1022650 TTGACCCCCC
*
1022660 TTTTTCTTTTTTCTCTTT
1 TTTTTCTTTTTTCTTTTT
*
1022678 TTTTTCTTTTTTCTCTCTT
1 TTTTTCTTTTTTCT-TTTT
1022697 TTTTTC-TTTTTCTTTTT
1 TTTTTCTTTTTTCTTTTT
1022714 TTTTTCTTTTTTTTCTTTTT
1 TTTTTC--TTTTTTCTTTTT
1022734 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
1022749 CAAGCATAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
17 9 0.14
18 30 0.47
19 8 0.12
20 17 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTCTTTTTTCTTTTT
Found at i:1035154 original size:29 final size:27
Alignment explanation
Indices: 1035121--1035181 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
1035111 TCTCTCTCTG
1035121 TTTCTGT-TGTTCCCTCGTCTCTGTTTTTT
1 TTTCTGTAT-TTCCCTC-TCTCT-TTTTTT
* *
1035150 TTTCTGTATTTCTCTCTGTCTTTTTTT
1 TTTCTGTATTTCCCTCTCTCTTTTTTT
1035177 TTTCT
1 TTTCT
1035182 CACAGATGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 11 0.38
28 4 0.14
29 13 0.45
30 1 0.03
ACGTcount: A:0.02, C:0.21, G:0.10, T:0.67
Consensus pattern (27 bp):
TTTCTGTATTTCCCTCTCTCTTTTTTT
Found at i:1035477 original size:3 final size:3
Alignment explanation
Indices: 1035471--1035530 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
1035461 TATATGTATT
*
1035471 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1035519 TAA TAA TAA TAA
1 TAA TAA TAA TAA
1035531 GAAATCCATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1038429 original size:3 final size:3
Alignment explanation
Indices: 1038421--1038515 Score: 163
Period size: 3 Copynumber: 31.7 Consensus size: 3
1038411 TTTACCCATA
*
1038421 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1038469 CAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1038516 AATATATATT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1039968 original size:13 final size:13
Alignment explanation
Indices: 1039952--1039997 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
1039942 ATATAATAAA
1039952 TAAATATTTATTT
1 TAAATATTTATTT
*
1039965 TAAATAAATTATTT
1 TAAAT-ATTTATTT
1039979 T-AATATTTATTT
1 TAAATATTTATTT
*
1039991 TTAATAT
1 TAAATAT
1039998 CGAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 8 0.28
13 13 0.45
14 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:1051352 original size:13 final size:15
Alignment explanation
Indices: 1051334--1051365 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1051324 ATGCTTGAAG
1051334 AAAAAAA-AA-AGAA
1 AAAAAAAGAAGAGAA
1051347 AAAAAAAGAAGAGAA
1 AAAAAAAGAAGAGAA
1051362 AAAA
1 AAAA
1051366 GAGGGGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAGAGAA
Found at i:1051732 original size:19 final size:20
Alignment explanation
Indices: 1051699--1051740 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
1051689 TTCAAGTTCA
*
1051699 ATTTATTGGAGATTCAATTT
1 ATTTATTGGAAATTCAATTT
1051719 ATTT-TTGGAAATTCAATTT
1 ATTTATTGGAAATTCAATTT
1051738 ATT
1 ATT
1051741 CTTTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTATTGGAAATTCAATTT
Found at i:1052662 original size:83 final size:83
Alignment explanation
Indices: 1052523--1052851 Score: 597
Period size: 83 Copynumber: 4.0 Consensus size: 83
1052513 AATGTGCTCC
*
1052523 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGGACAGAACCAATCATTAAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGGACAGAACCAATCATTGAATT
1052588 TAGAAGATGAATTTGCCA
66 TAGAAGATGAATTTGCCA
1052606 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGGACAGAACCAATCATTGAATT
1052671 TAGAAGATGAATTTGCCA
66 TAGAAGATGAATTTGCCA
*
1052689 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTAGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGGACAGAACCAATCATTGAATT
1052754 TAGAAGATGAATTTGCCA
66 TAGAAGATGAATTTGCCA
* *
1052772 ATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTGAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TAGGACAGAACCAATCATTGAAT
*
1052836 TTGGAAGATGAATTTG
65 TTAGAAGATGAATTTG
1052852 TTCATAGTAG
Statistics
Matches: 239, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
83 236 0.99
84 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGGACAGAACCAATCATTGAATT
TAGAAGATGAATTTGCCA
Found at i:1053861 original size:117 final size:116
Alignment explanation
Indices: 1053650--1054327 Score: 985
Period size: 117 Copynumber: 5.9 Consensus size: 116
1053640 ATTCAAATCT
*
1053650 ATCATTTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 ATCAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
*
1053715 GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTC
66 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTGAATTC
1053766 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATC-AATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
*
1053831 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTC
65 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTGAATTC
* * *
1053883 ATCAAATTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGGA
1 ATC-AATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
* *
1053948 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
65 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTGAATTC
*
1054000 ATCACTTGATGGATTAT-TTTTGCCAGAGAA-GTTCATAAATGAGAAGAA--C-TCATCTGAAGA
1 ATCAATTGATGGATTATCTTTT-CCAGAGAAGGTTCAT-AATGAGAAGAACTCGTCATCTGAAGA
* *
1054060 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTC
64 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTGAATTC
* * * * * *
1054113 ATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAA-AACTCGTCATCTGAAGAA
1 ATCAATTGATGGATTATCTTTTCCAGAGAAG-GTTCATAATGAGAAGAACTCGTCATCTGAAGAA
* **
1054176 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
65 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTGAATTC
* * * * * **
1054228 ATCATTTGATGGATCAACATTGCCA-ATTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 ATCAATTGATGGATTATCTTTTCCAGAGAAG-GTTCATAATGAGAAGAACTCGTCATCTGAAGAA
* *
1054292 GAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
65 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA
1054328 TAATTCTATC
Statistics
Matches: 527, Mismatches: 24, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
112 4 0.01
113 85 0.16
114 10 0.02
115 114 0.22
116 86 0.16
117 228 0.43
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (116 bp):
ATCAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTATTTGAATTC
Found at i:1054652 original size:3 final size:3
Alignment explanation
Indices: 1054646--1054748 Score: 179
Period size: 3 Copynumber: 34.3 Consensus size: 3
1054636 TACCCATATC
*
1054646 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
1054694 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1054742 ATT ATT A
1 ATT ATT A
1054749 AATATATATT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1056199 original size:13 final size:13
Alignment explanation
Indices: 1056183--1056228 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
1056173 ATATAATAAA
1056183 TAAATATTTATTT
1 TAAATATTTATTT
*
1056196 TAAATAAATTATTT
1 TAAAT-ATTTATTT
1056210 T-AATATTTATTT
1 TAAATATTTATTT
*
1056222 TTAATAT
1 TAAATAT
1056229 CGAAGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 8 0.28
13 13 0.45
14 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:1057726 original size:35 final size:34
Alignment explanation
Indices: 1057641--1057727 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1057631 ATTTGATATT
*
1057641 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
1057675 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
1057713 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1057728 ACTAAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:1058380 original size:20 final size:18
Alignment explanation
Indices: 1058331--1058382 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
1058321 AAAGGCGATG
1058331 GCGACATCATATATGGTT
1 GCGACATCATATATGGTT
1058349 GCGACATCATATATGGTT
1 GCGACATCATATATGGTT
* *
1058367 GTGGCATCATATATGG
1 GCGACATCATATATGG
1058383 CTACGGTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (18 bp):
GCGACATCATATATGGTT
Found at i:1059841 original size:111 final size:111
Alignment explanation
Indices: 1059701--1059922 Score: 390
Period size: 111 Copynumber: 2.0 Consensus size: 111
1059691 ATTACAAAAA
* * *
1059701 TTAATTCTTAATCTAATAATCATATATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
1059766 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
*
1059812 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
1059877 AATTAAAACGTTAAAATGTTACCGTATCAGTAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
1059923 ATGATTTTCA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATACATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:1062141 original size:21 final size:21
Alignment explanation
Indices: 1062117--1062165 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1062107 CTATGTGTAT
1062117 CGATGCACATTCAATGTGCAC
1 CGATGCACATTCAATGTGCAC
1062138 CGATGCACATTCAATGTGCAC
1 CGATGCACATTCAATGTGCAC
*
1062159 CTATGCA
1 CGATGCA
1062166 TCAAGGGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (21 bp):
CGATGCACATTCAATGTGCAC
Found at i:1065254 original size:23 final size:23
Alignment explanation
Indices: 1065228--1065272 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1065218 GGACCATATA
1065228 GGTTTGCACCGAAGTGCCACATG
1 GGTTTGCACCGAAGTGCCACATG
* *
1065251 GGTTTGCACCGACGTGTCACAT
1 GGTTTGCACCGAAGTGCCACAT
1065273 ATTTGTCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (23 bp):
GGTTTGCACCGAAGTGCCACATG
Found at i:1065311 original size:21 final size:21
Alignment explanation
Indices: 1065268--1065312 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
1065258 ACCGACGTGT
*
1065268 CACATATTTGTCCCAGATGAC
1 CACATATTTGTCCCAGAAGAC
1065289 CACATATTTGTCCC-GAAGAAC
1 CACATATTTGTCCCAGAAG-AC
1065310 CAC
1 CAC
1065313 GTAAAACCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.24
Consensus pattern (21 bp):
CACATATTTGTCCCAGAAGAC
Found at i:1065472 original size:21 final size:21
Alignment explanation
Indices: 1065448--1065498 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
1065438 CATAGAATTT
*
1065448 GTTCACATTCA-TTGGTTCAAA
1 GTTCACATTCACTT-ATTCAAA
1065469 GTTCACATTCACTTATTCAAA
1 GTTCACATTCACTTATTCAAA
*
1065490 GCTCACATT
1 GTTCACATT
1065499 TCCATAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (21 bp):
GTTCACATTCACTTATTCAAA
Found at i:1065881 original size:22 final size:20
Alignment explanation
Indices: 1065834--1065887 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1065824 CATGCTTGGA
*
1065834 GGTATCGGTACCACCCTAAG
1 GGTATCGATACCACCCTAAG
*
1065854 GGTATCGATACCACCCTTCAGG
1 GGTATCGATACCACCC-T-AAG
1065876 GGTATCGATACC
1 GGTATCGATACC
1065888 TCTGCATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 15 0.50
21 1 0.03
22 14 0.47
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (20 bp):
GGTATCGATACCACCCTAAG
Found at i:1066004 original size:21 final size:21
Alignment explanation
Indices: 1065978--1066037 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 21
1065968 ATTCGATGTT
1065978 TTAAGGGTATCGATACCATC-C
1 TTAA-GGTATCGATACCATCTC
*
1065999 TTAAGGTATCAATACCCATCTC
1 TTAAGGTATCGATA-CCATCTC
1066021 TTAAGGTATCGATACCA
1 TTAAGGTATCGATACCA
1066038 CTATCAACAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.26
21 12 0.34
22 14 0.40
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (21 bp):
TTAAGGTATCGATACCATCTC
Found at i:1069003 original size:74 final size:75
Alignment explanation
Indices: 1068856--1069005 Score: 223
Period size: 74 Copynumber: 2.0 Consensus size: 75
1068846 AAAGTTAATG
* *
1068856 TAAATAATTTTTAATTTTTAATCAAATTTTAGTAATCCCAAAACAGTTAGTATAAATAGTTTGAG
1 TAAATAATTTTAAATTTTTAATCAAATTTTAATAAT--C-AAACAGTTAGTATAAATAGTTTGAG
1068921 GATAAAATTAGTA
63 GATAAAATTAGTA
1068934 TAAATAATTTTAAATTTTTAATCAAACTTTTAATAAT-AAA-AGTTAGTATAAATAGTTTGAGGA
1 TAAATAATTTTAAATTTTTAATCAAA-TTTTAATAATCAAACAGTTAGTATAAATAGTTTGAGGA
*
1068997 TGAAATTAG
65 TAAAATTAG
1069006 AATGTTTAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
74 31 0.46
75 3 0.04
78 25 0.37
79 9 0.13
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.40
Consensus pattern (75 bp):
TAAATAATTTTAAATTTTTAATCAAATTTTAATAATCAAACAGTTAGTATAAATAGTTTGAGGAT
AAAATTAGTA
Found at i:1072037 original size:36 final size:36
Alignment explanation
Indices: 1071985--1072058 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
1071975 GGTTCTATTG
**
1071985 TAATATTTTATTCTTGAAGAATAAGACT-TCACAACT
1 TAATATTTTAGGCTTGAAGAATAAGACTGT-ACAACT
1072021 TAATATTTTAGGCTTGAAGAATAAGACTGTACAACT
1 TAATATTTTAGGCTTGAAGAATAAGACTGTACAACT
1072057 TA
1 TA
1072059 TTATATTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (36 bp):
TAATATTTTAGGCTTGAAGAATAAGACTGTACAACT
Found at i:1073554 original size:55 final size:54
Alignment explanation
Indices: 1073424--1073724 Score: 410
Period size: 55 Copynumber: 5.5 Consensus size: 54
1073414 TTTATTAAGA
* * * *
1073424 TGCACACATAGTGCCTATACGG-TAGTTCATTAACTCATGATGAATTTCGTGG-GT
1 TGCACACATAGTGCATGTACGGTTA-TTCATCAACTCATGATGAATTT-GTGGATT
**
1073478 TGCACACATAGTGTTTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATT-TGTGGATT
*
1073533 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATT-TGTGGATT
* *
1073588 TGCACACATAGAGCATGTACGATTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATT-TGTGGATT
* *
1073643 TACACACATAGTGTC-TGTACGGTTATTCATCAACTCATGATGAATTTCGTTGATT
1 TGCACACATAGTG-CATGTACGGTTATTCATCAACTCATGATGAATTT-GTGGATT
*
1073698 TGCACACATAGTGCCTGTACGGTTATT
1 TGCACACATAGTGCATGTACGGTTATT
1073725 TGTTGAAAAC
Statistics
Matches: 224, Mismatches: 17, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
54 45 0.20
55 178 0.79
56 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (54 bp):
TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTTGTGGATT
Found at i:1078415 original size:31 final size:31
Alignment explanation
Indices: 1078379--1078437 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1078369 AACTTAAAAG
* *
1078379 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1078410 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1078438 ACATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1078512 original size:22 final size:21
Alignment explanation
Indices: 1078464--1078512 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
1078454 ATAAATTATT
**
1078464 TAAATAAATCAATCCATATTT
1 TAAATAAATCAATCCATATAA
1078485 TAAAATAAATCAATCCATACTAA
1 T-AAATAAATCAATCCATA-TAA
1078508 TAAAT
1 TAAAT
1078513 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.88
23 2 0.08
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATAAATCAATCCATATAA
Found at i:1078521 original size:32 final size:31
Alignment explanation
Indices: 1078483--1078616 Score: 127
Period size: 32 Copynumber: 4.7 Consensus size: 31
1078473 CAATCCATAT
1078483 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
1078515 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
1078545 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
1078563 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1078595 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
1078617 AACTACAATA
Statistics
Matches: 85, Mismatches: 1, Indels: 32
0.72 0.01 0.27
Matches are distributed among these distances:
20 1 0.01
22 14 0.16
23 1 0.01
24 2 0.02
25 1 0.01
26 15 0.18
28 1 0.01
30 1 0.01
31 2 0.02
32 47 0.55
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:1078534 original size:54 final size:54
Alignment explanation
Indices: 1078452--1079291 Score: 406
Period size: 54 Copynumber: 15.6 Consensus size: 54
1078442 ACAACTACAA
1078452 TAATAAATTATTT-AAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
1078505 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
1078562 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* *
1078617 -AACTACA--A--T--AATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1078665 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT-C---C
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *** * * *
1078715 --AT-AA--ATTTAAAATAAATCAATCTATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
* * * ** * *
1078763 -AAT--A-T-TTTAAAATAAATCAATTCATA--CT--AATAAAT-TATTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
1078807 TAAATAAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTAATCA
1 T-AATAAAT---TA-TTTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCC
1078872 ATAC
51 ATAC
1078876 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATC-ATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*** * * *
1078929 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
* ** * ** * **
1078982 -CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATAC
** ** *
1079032 -AATCCA-TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-CA-AC
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAA--A--T-AAATCAATCCATAC
* * * * *
1079089 TCATACAACTA--CAATAATAAATCAATCCATATTTTAAAATAAATCAATTCATAT
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1079143 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
1079197 TAATAAATTATTTAAAATAAATTAATCAATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAAT--A--AATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATAC
*
1079261 TAATAAATTATTTAAAATAAATCAATTCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
1079292 CAACTACAAT
Statistics
Matches: 621, Mismatches: 83, Indels: 163
0.72 0.10 0.19
Matches are distributed among these distances:
43 6 0.01
44 3 0.00
45 29 0.05
46 8 0.01
47 2 0.00
48 81 0.13
49 8 0.01
50 18 0.03
51 1 0.00
52 13 0.02
53 64 0.10
54 191 0.31
55 11 0.02
56 8 0.01
57 22 0.04
58 56 0.09
59 4 0.01
60 14 0.02
62 3 0.00
63 3 0.00
64 54 0.09
65 2 0.00
66 1 0.00
68 14 0.02
69 5 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:1078555 original size:80 final size:80
Alignment explanation
Indices: 1078466--1079260 Score: 508
Period size: 80 Copynumber: 9.9 Consensus size: 80
1078456 AAATTATTTA
1078466 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1078531 CCATACAACTACAAT
66 CCATACAACTAAAAT
1078546 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1078611 CCATACAACTACAAT
66 CCATACAACTAAAAT
*
1078626 AATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* **
1078691 CCAT---ATTTTAA-
66 CCATACAACTAAAAT
* * *
1078702 AATAAATCAATCCATAAATTTAAAATAAATCAATCTATAC-AACTACA--A--T--AATAAATCA
1 AATAAATCAATCCAT-ATTTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCA
* * **
1078760 AT-CA-A-TATTTTAA-
64 ATCCATACAACTAAAAT
* ** * ** * ** **
1078773 AATAAATCAATTCATACTAATAAATTATTTAAAATAAATA--AATCCA-TATTTTAAAATAAATC
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATC
*
1078835 AATTCATACTAA-TAAATTATTT
63 AATCCATAC-AACTAAA--A--T
* * ** * ** * ** **
1078857 AAAATAAATTAATCAATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAAAATAAA
1 --AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAA
1078919 TC-ATCCATACTAA-TAAATTATTT
61 TCAATCCATAC-AACTAAA--A--T
*** * * * *
1078942 AAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAAATC
1 --AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
1079000 AATCCATACTAA-TAAATTATTT
63 AATCCATAC-AACTAAA--A--T
1079022 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
*
1079087 A-CTCATACAACTACAAT
64 ATC-CATACAACTAAAAT
* *
1079104 AATAAATCAATCCATATTTTAAAATAAATCAATTCATATTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
***
1079169 CCATA-TTTTAAAAT
66 CCATACAACTAAAAT
* * * *
1079183 AAATCAATTC-ATACTAATAAATTATTTAAAATAAATTAATCAATACTAATAAATTATTTAAAAT
1 -AAT-AAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT
1079247 AAATCAATCCATAC
58 AAATCAATCCATAC
1079261 TAATAAATTA
Statistics
Matches: 615, Mismatches: 56, Indels: 81
0.82 0.07 0.11
Matches are distributed among these distances:
70 6 0.01
71 42 0.07
72 6 0.01
73 1 0.00
74 1 0.00
75 1 0.00
76 27 0.04
77 31 0.05
78 1 0.00
79 25 0.04
80 268 0.44
81 10 0.02
82 5 0.01
83 10 0.02
84 4 0.01
85 47 0.08
86 130 0.21
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTAAAAT
Found at i:1078592 original size:22 final size:23
Alignment explanation
Indices: 1078517--1078591 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1078507 ATAAATTATT
1078517 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1078539 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1078565 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1078588 TAAA
1 TAAA
1078592 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1078672 original size:22 final size:23
Alignment explanation
Indices: 1078597--1078671 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
1078587 ATAAATTATT
1078597 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
1078619 CTACAATAATAAATCAATTCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1078645 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1078668 TAAA
1 TAAA
1078672 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1078682 original size:32 final size:32
Alignment explanation
Indices: 1078643--1079292 Score: 373
Period size: 32 Copynumber: 22.7 Consensus size: 32
1078633 CAATTCATAT
1078643 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1078675 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1078697 TTTAAAATAAATCAATCCATAAATTTAAAATAAATCAA
1 TTTAAAATAAATCAATCCAT--A-CT--AATAAAT-TA
* ** *
1078735 TCTATACAACTACAAT-AATAAAT-C-AATCAA-TA
1 T-T-TA-AAATA-AATCAATCCATACTAATAAATTA
*
1078767 TTTTAAAATAAATCAATTCATACTAATAAATTA
1 T-TTAAAATAAATCAATCCATACTAATAAATTA
*
1078800 TTTAAAATAAAT-AA---AT-C-CAT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1078822 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1078854 TTTAAAATAAATTAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1078886 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1078908 TTTAAAATAAATC-ATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1078939 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1078969 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1078987 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1079019 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1079041 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1079073 TTTAAAATAAATCAA-CTCATAC-AACTACA--A
1 TTTAAAATAAATCAATC-CATACTAA-TAAATTA
1079103 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1079121 TTTAAAATAAATCAATTCATATTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1079153 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1079175 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1079207 TTTAAAATAAATTAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1079239 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1079271 TTTAAAATAAATCAATTCATAC
1 TTTAAAATAAATCAATCCATAC
1079293 AACTACAATA
Statistics
Matches: 489, Mismatches: 30, Indels: 198
0.68 0.04 0.28
Matches are distributed among these distances:
20 2 0.00
21 2 0.00
22 101 0.21
23 12 0.02
24 9 0.02
25 3 0.01
26 42 0.09
27 5 0.01
28 13 0.03
29 4 0.01
30 15 0.03
31 29 0.06
32 225 0.46
33 5 0.01
34 5 0.01
35 1 0.00
38 1 0.00
39 1 0.00
40 2 0.00
41 9 0.02
42 3 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1078701 original size:22 final size:22
Alignment explanation
Indices: 1078675--1078788 Score: 120
Period size: 22 Copynumber: 5.0 Consensus size: 22
1078665 TAATAAATTA
1078675 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1078697 TTTAAAATAAATCAATCCATAAA
1 TTTAAAATAAATCAATCCAT-AT
* *
1078720 TTTAAAATAAATCAATCTATACAAC
1 TTTAAAATAAATCAATCCAT---AT
** *
1078745 TACAATAATAAATCAATCAATAT
1 TTTAA-AATAAATCAATCCATAT
*
1078768 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
1078789 CTAATAAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
22 34 0.44
23 24 0.31
25 5 0.06
26 14 0.18
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1078794 original size:18 final size:18
Alignment explanation
Indices: 1078773--1078851 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
1078763 AATATTTTAA
1078773 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
* * * *
1078791 AATAAAT-TATTTAAAAT
1 AATAAATCAATTCATACT
* *
1078808 AAATAAATCCATATT-TTA-A
1 -AATAAAT-CA-ATTCATACT
1078827 AATAAATCAATTCATACT
1 AATAAATCAATTCATACT
1078845 AATAAAT
1 AATAAAT
1078852 TATTTAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
16 3 0.07
17 10 0.22
18 28 0.62
20 1 0.02
21 3 0.07
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:1078826 original size:22 final size:22
Alignment explanation
Indices: 1078800--1078842 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1078790 TAATAAATTA
1078800 TTTAAAATAAATAAATCCATAT
1 TTTAAAATAAATAAATCCATAT
* *
1078822 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATAAATCCATA
1078843 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATAAATCCATAT
Found at i:1078862 original size:14 final size:14
Alignment explanation
Indices: 1078845--1078897 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
1078835 AATTCATACT
1078845 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
1078859 AATAAATTAATCAATACT
1 AATAAATT-AT--TTA-A
1078877 AATAAATTATTTAA
1 AATAAATTATTTAA
1078891 AATAAAT
1 AATAAAT
1078898 CAATCCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 15 0.48
15 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:1078911 original size:22 final size:21
Alignment explanation
Indices: 1078886--1078927 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
1078876 TAATAAATTA
1078886 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATC-ATCCATAT
1078908 TTTAAAATAAATCATCCATA
1 TTTAAAATAAATCATCCATA
1078928 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTAAAATAAATCATCCATAT
Found at i:1078936 original size:21 final size:22
Alignment explanation
Indices: 1078888--1078935 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1078878 ATAAATTATT
**
1078888 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1078910 TAAAATAAATC-ATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1078932 TAAA
1 TAAA
1078936 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1079016 original size:22 final size:23
Alignment explanation
Indices: 1078941--1079015 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
1078931 ATAAATTATT
1078941 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
1078963 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1078989 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1079012 TAAA
1 TAAA
1079016 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1079045 original size:22 final size:22
Alignment explanation
Indices: 1079019--1079061 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1079009 TAATAAATTA
1079019 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1079041 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1079062 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1079070 original size:22 final size:22
Alignment explanation
Indices: 1079021--1079069 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1079011 ATAAATTATT
**
1079021 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1079043 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1079066 TAAA
1 TAAA
1079070 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1079150 original size:22 final size:22
Alignment explanation
Indices: 1079104--1079149 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1079094 CAACTACAAT
*
1079104 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTATAA
*
1079126 AATAAATCAATTCATATTAATAA
1 AATAAATCAATCCATATT-ATAA
1079149 A
1 A
1079150 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAATCAATCCATATTATAA
Found at i:1079179 original size:22 final size:22
Alignment explanation
Indices: 1079153--1079195 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1079143 TAATAAATTA
1079153 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1079175 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
1079196 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1079204 original size:22 final size:22
Alignment explanation
Indices: 1079155--1079203 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1079145 ATAAATTATT
**
1079155 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1079177 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1079200 TAAA
1 TAAA
1079204 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1079215 original size:14 final size:14
Alignment explanation
Indices: 1079198--1079282 Score: 53
Period size: 14 Copynumber: 5.5 Consensus size: 14
1079188 AATTCATACT
1079198 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
1079212 AATAAATTAATCAATACT
1 AATAAATT-AT--TTA-A
1079230 AATAAATTATTTAA
1 AATAAATTATTTAA
* * *
1079244 AATAAATCAATCCATACT
1 AATAAAT-TAT--TTA-A
1079262 AATAAATTATTTAA
1 AATAAATTATTTAA
1079276 AATAAAT
1 AATAAAT
1079283 CAATTCATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
14 22 0.42
15 8 0.15
17 8 0.15
18 15 0.28
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:1079330 original size:22 final size:22
Alignment explanation
Indices: 1079302--1079396 Score: 75
Period size: 22 Copynumber: 4.2 Consensus size: 22
1079292 CAACTACAAT
1079302 AATAAATCAATCCATATTTTAA
1 AATAAATCAATCCATATTTTAA
**
1079324 AATAAATCAAT-CATACTAATAA
1 AATAAATCAATCCATA-TTTTAA
* ** * **
1079346 ATTATTTAAAATAAATTATTTTAA
1 AATAAAT-CAATCCA-TATTTTAA
*
1079370 AATAAATCAATCCATATTTTAT
1 AATAAATCAATCCATATTTTAA
1079392 AATAA
1 AATAA
1079397 TTTATTTTAA
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
21 4 0.08
22 31 0.58
23 7 0.13
24 9 0.17
25 2 0.04
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAATCAATCCATATTTTAA
Found at i:1079370 original size:15 final size:15
Alignment explanation
Indices: 1079341--1079458 Score: 139
Period size: 15 Copynumber: 7.5 Consensus size: 15
1079331 CAATCATACT
1079341 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1079355 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
1079370 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
1079392 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
1079407 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1079422 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1079437 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1079452 AATAAAT
1 AATAAAT
1079459 AACCTTATTA
Statistics
Matches: 90, Mismatches: 6, Indels: 15
0.81 0.05 0.14
Matches are distributed among these distances:
14 9 0.10
15 64 0.71
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1079413 original size:52 final size:46
Alignment explanation
Indices: 1079118--1079458 Score: 180
Period size: 54 Copynumber: 7.0 Consensus size: 46
1079108 AATCAATCCA
*
1079118 TATTTTAAAATAAATCAATTCATATTAATAAATTATTTAAAATAAATCAAT
1 TATTTTAAAATAAATCAA-TCATAATAATAAATTATTTAAAAT--A--AAT
*
1079169 CCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
1 ---TATTTTAAAATAAATCAA-TCATAATAATAAATTATTTAAAATAAAT
** * * * * * *
1079219 TAATCAATACTAATAAAT-TAT-TTAA-AATAAATCAATCCATACTAATAAAT
1 T-AT-TTTA-AAATAAATCAATCATAATAATAAAT-TAT--TTA-AAATAAAT
* * *
1079269 TA-TTTAAAATAAATCAATTCATACA-ACTACAA-TA-AT-AAATCAAT
1 TATTTTAAAATAAATCAA-TCATA-ATAATA-AATTATTTAAAATAAAT
*
1079313 CCATATTTTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAAT
1 ---TATTTTAAAATAAATCAATCATAATAATAAATTATTTAAAATAAAT
*
1079362 TATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAAT-CATA----ATAATAAATTA-TTTAAAATAAAT
* * **
1079414 TATTTTATAATAAAT-TATTTTAA-AATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCATAATAATAAATTA-TTTAAAATAAAT
1079459 AACCTTATTA
Statistics
Matches: 231, Mismatches: 30, Indels: 61
0.72 0.09 0.19
Matches are distributed among these distances:
44 6 0.03
45 21 0.09
46 38 0.16
47 24 0.10
48 20 0.09
49 16 0.07
50 24 0.10
51 13 0.06
52 27 0.12
54 42 0.18
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (46 bp):
TATTTTAAAATAAATCAATCATAATAATAAATTATTTAAAATAAAT
Found at i:1079433 original size:67 final size:68
Alignment explanation
Indices: 1079302--1079443 Score: 198
Period size: 67 Copynumber: 2.1 Consensus size: 68
1079292 CAACTACAAT
*
1079302 AATAAATCAATCCATATTTTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATTATTT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCATACAAATAAATTATTTAAAATAAATTATTT
1079367 TAA
66 TAA
* ** ** *
1079370 AATAAATCAATCCATATTTTATAAT-AATTTATTTTA-AAATAAATTATTTTATAATAAATTATT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCATACAAATAAATTA-TTTAAAATAAATTATT
1079433 TTAA
65 TTAA
1079437 AATAAAT
1 AATAAAT
1079444 TATTTTAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 9 0.14
67 33 0.50
68 24 0.36
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.42
Consensus pattern (68 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCATACAAATAAATTATTTAAAATAAATTATTT
TAA
Found at i:1081180 original size:43 final size:43
Alignment explanation
Indices: 1081119--1081205 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
1081109 AAGATCTTAT
1081119 GTTTTTGTGCAGGTCAACTTCAAAATGAATTTTCCCTTCAGAA
1 GTTTTTGTGCAGGTCAACTTCAAAATGAATTTTCCCTTCAGAA
1081162 GTTTTTGTGCAGGTCAACTTCAAAATGAATTTTCCCTTCAGAA
1 GTTTTTGTGCAGGTCAACTTCAAAATGAATTTTCCCTTCAGAA
1081205 G
1 G
1081206 CTTACAAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (43 bp):
GTTTTTGTGCAGGTCAACTTCAAAATGAATTTTCCCTTCAGAA
Found at i:1081722 original size:37 final size:37
Alignment explanation
Indices: 1081672--1081753 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
1081662 TCAAAACGGA
*
1081672 TAATCAAAACCATCCAAGAAGGGATCCTCTTCACAGG
1 TAATCAATACCATCCAAGAAGGGATCCTCTTCACAGG
1081709 TAATCAATACCATCCAAGAAGGGATCCTCTTCACAGG
1 TAATCAATACCATCCAAGAAGGGATCCTCTTCACAGG
1081746 TAATCAAT
1 TAATCAAT
1081754 CTTCCATTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.22
Consensus pattern (37 bp):
TAATCAATACCATCCAAGAAGGGATCCTCTTCACAGG
Found at i:1090408 original size:23 final size:24
Alignment explanation
Indices: 1090360--1090454 Score: 125
Period size: 23 Copynumber: 4.3 Consensus size: 24
1090350 AGAAAGCCTT
1090360 AGAGA-GAGGGGAAGGGAAGAGAG
1 AGAGAGGAGGGGAAGGGAAGAGAG
*
1090383 AGAGAGGAGGGGAAGGGAAG-GGG
1 AGAGAGGAGGGGAAGGGAAGAGAG
1090406 AGAGAGGAGGGGAA--G--G-G-G
1 AGAGAGGAGGGGAAGGGAAGAGAG
1090424 AGAGAGGAGGGGAAGGGAAGAGAG
1 AGAGAGGAGGGGAAGGGAAGAGAG
1090448 AGAGAGG
1 AGAGAGG
1090455 GAGGCATGCG
Statistics
Matches: 64, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
18 15 0.23
19 2 0.03
20 1 0.02
21 1 0.02
22 1 0.02
23 22 0.34
24 22 0.34
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (24 bp):
AGAGAGGAGGGGAAGGGAAGAGAG
Found at i:1090420 original size:18 final size:18
Alignment explanation
Indices: 1090397--1090447 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
1090387 AGGAGGGGAA
1090397 GGGAAGGGGAGAGAGGAG
1 GGGAAGGGGAGAGAGGAG
1090415 GGGAAGGGGAGAGAGGAG
1 GGGAAGGGGAGAGAGGAG
*
1090433 GGGAAGGGAAGAGAG
1 GGGAAGGGGAGAGAG
1090448 AGAGAGGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (18 bp):
GGGAAGGGGAGAGAGGAG
Found at i:1091350 original size:15 final size:15
Alignment explanation
Indices: 1091289--1091423 Score: 69
Period size: 15 Copynumber: 8.7 Consensus size: 15
1091279 TTTTAGTATC
*
1091289 ATTTTAATAAAATAT
1 ATTTTAATAATATAT
1091304 ATTATTAA-AATAT-T
1 ATT-TTAATAATATAT
* * *
1091318 A-ATTATTATTATAT
1 ATTTTAATAATATAT
*
1091332 ATTTTAATAATATTT
1 ATTTTAATAATATAT
*
1091347 ATTTTTAATATTATAT
1 A-TTTTAATAATATAT
* * * *
1091363 AATATGTACTCAGATAT
1 -AT-TTTAATAATATAT
1091380 ATTATATAATAATATAT
1 ATT-T-TAATAATATAT
* *
1091397 AATTTAATAATTTAGT
1 ATTTTAATAATATA-T
1091413 ATTATTAATAA
1 ATT-TTAATAA
1091424 AACACTAATA
Statistics
Matches: 87, Mismatches: 22, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
12 3 0.03
13 4 0.05
14 4 0.05
15 27 0.31
16 23 0.26
17 26 0.30
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTTTAATAATATAT
Found at i:1093952 original size:31 final size:31
Alignment explanation
Indices: 1093917--1093978 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
1093907 CACGGAAGTA
*
1093917 TGAAATATTTCTTGGCCACCTCGCAAGGAAC
1 TGAAATATTTCTTCGCCACCTCGCAAGGAAC
1093948 TGAAATATTTCTTCGCCACCTCGCAAGGAAC
1 TGAAATATTTCTTCGCCACCTCGCAAGGAAC
1093979 GTTATTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (31 bp):
TGAAATATTTCTTCGCCACCTCGCAAGGAAC
Found at i:1094599 original size:14 final size:14
Alignment explanation
Indices: 1094580--1094633 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
1094570 TATAAAAACA
* *
1094580 AAATCAAAATGAGT
1 AAATCAAAATAAAT
1094594 AAATCAAAATAAAT
1 AAATCAAAATAAAT
** *
1094608 AAATCAAAGGAAAA
1 AAATCAAAATAAAT
1094622 AAAT-AAAATAAA
1 AAATCAAAATAAA
1094634 AAGAAAAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
13 6 0.18
14 27 0.82
ACGTcount: A:0.70, C:0.06, G:0.07, T:0.17
Consensus pattern (14 bp):
AAATCAAAATAAAT
Found at i:1094630 original size:19 final size:18
Alignment explanation
Indices: 1094599--1094641 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
1094589 TGAGTAAATC
* *
1094599 AAAATAAATAAATCAAAGG
1 AAAA-AAATAAATAAAAAG
1094618 AAAAAAATAAAATAAAAAG
1 AAAAAAAT-AAATAAAAAG
1094637 AAAAA
1 AAAAA
1094642 TGAGAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAAATAAATAAAAAG
Found at i:1094754 original size:39 final size:37
Alignment explanation
Indices: 1094710--1094786 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 37
1094700 TAAAAAAGTG
* *
1094710 TTTAAAAACTATATATTATAAATTTTTAAAAATGTTTTT
1 TTTAAAAACTATATATTAT--ATTTTCAAAAATATTTTT
*
1094749 TTTAAAATCTATATATTATATTTTCAAAAATATTTTT
1 TTTAAAAACTATATATTATATTTTCAAAAATATTTTT
1094786 T
1 T
1094787 GAATTTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 17 0.49
39 18 0.51
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (37 bp):
TTTAAAAACTATATATTATATTTTCAAAAATATTTTT
Found at i:1094803 original size:30 final size:29
Alignment explanation
Indices: 1094765--1094845 Score: 108
Period size: 32 Copynumber: 2.7 Consensus size: 29
1094755 ATCTATATAT
* **
1094765 TATATTTTCAAAAATATTTTTTGAATTTA
1 TATATTTTCAAAAATATTTTTTAAAACTA
1094794 TATAATTTTCAAAAAAATATTTTTTAAAACTA
1 TAT-ATTTTC--AAAAATATTTTTTAAAACTA
1094826 TATATTTTCAAAAATATTTT
1 TATATTTTCAAAAATATTTT
1094846 CAAAAATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 14 0.30
30 6 0.13
31 6 0.13
32 20 0.43
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (29 bp):
TATATTTTCAAAAATATTTTTTAAAACTA
Found at i:1094844 original size:12 final size:12
Alignment explanation
Indices: 1094827--1094852 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1094817 TTAAAACTAT
1094827 ATATTTTCAAAA
1 ATATTTTCAAAA
1094839 ATATTTTCAAAA
1 ATATTTTCAAAA
1094851 AT
1 AT
1094853 TATATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:1094851 original size:29 final size:29
Alignment explanation
Indices: 1094765--1094857 Score: 114
Period size: 29 Copynumber: 3.1 Consensus size: 29
1094755 ATCTATATAT
* *
1094765 TATATTTTCAAAAATATTTTTTGAATTTA
1 TATATTTTCAAAAATATTTTTTAAAATTA
*
1094794 TATAATTTTCAAAAAAATATTTTTTAAAACTA
1 TAT-ATTTTC--AAAAATATTTTTTAAAATTA
**
1094826 TATATTTTCAAAAATATTTTCAAAAATTA
1 TATATTTTCAAAAATATTTTTTAAAATTA
1094855 TAT
1 TAT
1094858 TATATAAGTT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 23 0.42
30 6 0.11
31 6 0.11
32 20 0.36
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.48
Consensus pattern (29 bp):
TATATTTTCAAAAATATTTTTTAAAATTA
Found at i:1094862 original size:34 final size:33
Alignment explanation
Indices: 1094824--1095038 Score: 176
Period size: 34 Copynumber: 6.4 Consensus size: 33
1094814 TTTTTAAAAC
*
1094824 TATATATTTTCAAAAATATTTTCAAAAATTATAT
1 TATATATTTTCAAAAATGTTTT-AAAAATTATAT
* *
1094858 TATATAAGTTTTCAAAAATGTTTTCAAAACTATAT
1 TATAT-A-TTTTCAAAAATGTTTTAAAAATTATAT
* *
1094893 TTTATAAGTTTC--AAATG-TTTAAAAATTATATT
1 TATAT-ATTTTCAAAAATGTTTTAAAAATTATA-T
* *
1094925 TATATTTTTTCTAAAATGTTTTAAAAATTATAT
1 TATATATTTTCAAAAATGTTTTAAAAATTATAT
* *
1094958 ATATATAGTTTT-AAAAGTGTTTTAAAAA--CTA-
1 -TATATA-TTTTCAAAAATGTTTTAAAAATTATAT
* *
1094989 TATATATTTTCAAATAT-TTTTAGAAACTATATAT
1 TATATATTTTCAAAAATGTTTTA-AAAAT-TATAT
1095023 TATACGTATTTTCAAA
1 TATA--TATTTTCAAA
1095039 CCGTTGCAAA
Statistics
Matches: 147, Mismatches: 18, Indels: 30
0.75 0.09 0.15
Matches are distributed among these distances:
29 9 0.06
30 13 0.09
31 15 0.10
32 12 0.08
33 8 0.05
34 45 0.31
35 20 0.14
36 25 0.17
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (33 bp):
TATATATTTTCAAAAATGTTTTAAAAATTATAT
Found at i:1095023 original size:99 final size:99
Alignment explanation
Indices: 1094824--1095003 Score: 244
Period size: 99 Copynumber: 1.8 Consensus size: 99
1094814 TTTTTAAAAC
*
1094824 TATATATTTTCAAAAATATTTTCAAAAATTATATTATATAAGTTTTCAAAAATGTTTTCAAAACT
1 TATATATTTTCAAAAATATTTTCAAAAATTATATTATATAAGTTTTCAAAAATGTTTTAAAAACT
1094889 ATATTTTATAAGTTTCAAATGTTTAAAAATTATATT
66 ATA--TTATAAGTTTCAAATGTTTAAAAATTATATT
* * * *
1094925 TATATTTTTTCTAAAATGTTTT-AAAAATTATA-TATATATAGTTTT-AAAAGTGTTTTAAAAAC
1 TATATATTTTCAAAAATATTTTCAAAAATTATATTATATA-AGTTTTCAAAAATGTTTTAAAAAC
*
1094987 TATA-TAT-ATTTTCAAAT
65 TATATTATAAGTTTCAAAT
1095004 ATTTTTAGAA
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
95 9 0.12
96 3 0.04
99 25 0.35
100 16 0.22
101 19 0.26
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.48
Consensus pattern (99 bp):
TATATATTTTCAAAAATATTTTCAAAAATTATATTATATAAGTTTTCAAAAATGTTTTAAAAACT
ATATTATAAGTTTCAAATGTTTAAAAATTATATT
Found at i:1095474 original size:22 final size:24
Alignment explanation
Indices: 1095421--1095474 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
1095411 ATCAATTTTA
1095421 TAATATTTAATTAAATAATTATTT
1 TAATATTTAATTAAATAATTATTT
*
1095445 TAATATTT-TTTAAA-AA-TATTT
1 TAATATTTAATTAAATAATTATTT
1095466 TCAATATTT
1 T-AATATTT
1095475 CATTTATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 6 0.21
22 9 0.32
23 5 0.18
24 8 0.29
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TAATATTTAATTAAATAATTATTT
Found at i:1096693 original size:32 final size:32
Alignment explanation
Indices: 1096657--1096739 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
1096647 ACTCATGTGC
*
1096657 ATTATCTGAATGCAACACTAACTCTATTTTAA
1 ATTATCTGAATGCAACACTAACTATATTTTAA
* * **
1096689 ATTATCTAAATGCAACACTGACTATATTTTGC
1 ATTATCTGAATGCAACACTAACTATATTTTAA
* *
1096721 ATTATTTGAATACAACACT
1 ATTATCTGAATGCAACACT
1096740 TGCTTTGTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.37
Consensus pattern (32 bp):
ATTATCTGAATGCAACACTAACTATATTTTAA
Found at i:1096731 original size:64 final size:63
Alignment explanation
Indices: 1096654--1096775 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 63
1096644 GACACTCATG
*
1096654 TGCATTATCTGAATGCAACACTAACTCTATTTTAAATTATCTAAATGCAACACTGACTATATTT
1 TGCATTATCTGAATACAACACTAACTCTATTTTAAATTATCTAAATGCAACACT-ACTATATTT
* ** * * ** *
1096718 TGCATTATTTGAATACAACACTTGCTTTGTTTTGCATTATTTAAATGCAACACTACTA
1 TGCATTATCTGAATACAACACTAACTCTATTTTAAATTATCTAAATGCAACACTACTA
1096776 GTATATGATC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
63 4 0.08
64 45 0.92
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (63 bp):
TGCATTATCTGAATACAACACTAACTCTATTTTAAATTATCTAAATGCAACACTACTATATTT
Found at i:1098555 original size:16 final size:17
Alignment explanation
Indices: 1098520--1098566 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
1098510 AGAAAAGTGG
* *
1098520 AGAAAAGAAGAAGAAGA
1 AGAAATGAAGAAGAAAA
1098537 AGAAATGAAG-AGAAAA
1 AGAAATGAAGAAGAAAA
*
1098553 AGAAATGAATAAGA
1 AGAAATGAAGAAGA
1098567 TGAAATGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (17 bp):
AGAAATGAAGAAGAAAA
Found at i:1102149 original size:27 final size:27
Alignment explanation
Indices: 1102111--1102166 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
1102101 AAAAAAACAT
1102111 ATATCATCATTCTCAAGCGTTGAGATA
1 ATATCATCATTCTCAAGCGTTGAGATA
1102138 ATATCATCATTCTCAAGCGTTGAGATA
1 ATATCATCATTCTCAAGCGTTGAGATA
1102165 AT
1 AT
1102167 GGTAGAGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (27 bp):
ATATCATCATTCTCAAGCGTTGAGATA
Found at i:1102846 original size:26 final size:28
Alignment explanation
Indices: 1102786--1102848 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
1102776 AATTTAAATT
* *
1102786 TATTATTATTAAAATTATCATTATATTA
1 TATTATTATTAAAATAATCAATATATTA
*
1102814 TAATTATTATTAATATAAT-AATATATTA
1 T-ATTATTATTAAAATAATCAATATATTA
1102842 T-TTATTA
1 TATTATTA
1102849 AATATTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 6 0.19
28 10 0.32
29 15 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
TATTATTATTAAAATAATCAATATATTA
Found at i:1102852 original size:19 final size:18
Alignment explanation
Indices: 1102785--1102843 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 18
1102775 AAATTTAAAT
1102785 TTATTATT-AT-TAA-AA
1 TTATTATTAATATAATAA
* *
1102800 TTATCATT-ATATTATAA
1 TTATTATTAATATAATAA
1102817 TTATTATTAATATAATAA
1 TTATTATTAATATAATAA
1102835 TATATTATT
1 T-TATTATT
1102844 TATTAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.25
16 2 0.06
17 9 0.25
18 9 0.25
19 7 0.19
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTATTAATATAATAA
Found at i:1104194 original size:30 final size:30
Alignment explanation
Indices: 1104150--1104206 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
1104140 TTTTTTTACC
* *
1104150 ATAAGTTTATTTATTTTTTTAATTATTGTT
1 ATAAGTTTAATTATTTATTTAATTATTGTT
* *
1104180 ATAATTTTAATTATTTATTTGATTATT
1 ATAAGTTTAATTATTTATTTAATTATT
1104207 ATCTAATTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (30 bp):
ATAAGTTTAATTATTTATTTAATTATTGTT
Found at i:1104300 original size:2 final size:2
Alignment explanation
Indices: 1104293--1104332 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
1104283 GTCATTATTA
1104293 AT AT AT AT AT AT -T AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1104333 GCCCCTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1104310 original size:11 final size:11
Alignment explanation
Indices: 1104294--1104332 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
1104284 TCATTATTAA
1104294 TATATATATAT
1 TATATATATAT
1104305 TATATATATAT
1 TATATATATAT
1104316 TATATATATA-
1 TATATATATAT
1104326 TATATAT
1 TATATAT
1104333 GCCCCTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATATATAT
Found at i:1105569 original size:21 final size:21
Alignment explanation
Indices: 1105530--1105578 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1105520 TTTTTATATA
*
1105530 ATTATTTTTTCATAGTATTT-
1 ATTATTTTTTCATAATATTTC
1105550 ATATATTTTCTT-ATAATATTTC
1 AT-TATTTT-TTCATAATATTTC
1105572 ATTATTT
1 ATTATTT
1105579 GCAAGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 19 0.76
22 4 0.16
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTTCATAATATTTC
Found at i:1114942 original size:22 final size:22
Alignment explanation
Indices: 1114917--1114993 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
1114907 ATCTACATTC
1114917 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1114939 TTCAAAGATGAAAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1114961 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1114983 TTCAAAGATGA
1 TTCAAAGATGA
1114994 AAGCTTTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1115819 original size:165 final size:166
Alignment explanation
Indices: 1115509--1115831 Score: 524
Period size: 165 Copynumber: 2.0 Consensus size: 166
1115499 AAAATGAGCA
*
1115509 TTATCTTCAGATTGGGTCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
* **
1115574 ATTTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
* *
1115639 CTTAGTTTTTTACTTAGTAAACTATTTCTAACAGCC
131 CATAGTTTCTTACTTAGTAAACTATTTCTAACAGCC
* ** *
1115675 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAACG
1 TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
*
1115738 ATTTCCATAGTTTCTCATTCAATCTTTTTTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
66 ATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
1115803 TCATAGTTTCTTACTTAGTAAACTATTTC
130 TCATAGTTTCTTACTTAGTAAACTATTTC
1115832 CCACATCTGT
Statistics
Matches: 145, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
164 39 0.27
165 65 0.45
166 41 0.28
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (166 bp):
TTATCTTCAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAACAGAATGAGAAAACG
ATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTT
CATAGTTTCTTACTTAGTAAACTATTTCTAACAGCC
Found at i:1115963 original size:75 final size:75
Alignment explanation
Indices: 1115835--1116386 Score: 978
Period size: 75 Copynumber: 7.3 Consensus size: 75
1115825 CTATTTCCCA
* *
1115835 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1115900 ACCTTCGGGT
66 ACCTTCGGGT
*
1115910 CATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1115975 GCCTTCGGGT
66 ACCTTCGGGT
1115985 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1116050 GCCTTCGGGT
66 ACCTTCGGGT
1116060 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1116125 GCCTTCGGGT
66 ACCTTCGGGT
*
1116135 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1116200 ACCTTCGGGT
66 ACCTTCGGGT
*
1116210 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1116275 ACCTTAGGGT
66 ACCTTCGGGT
* *
1116285 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1116350 AACCTTCGGGT
65 AACCTTCGGGT
* *
1116361 CATCTGTAAGCCCTTCAGTGCATGAT
1 CATCTGTAAGTCCTGCAGTGCATGAT
1116387 ATTTTCAACA
Statistics
Matches: 464, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
75 429 0.92
76 35 0.08
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (75 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCTTCGGGT
Found at i:1116539 original size:3 final size:3
Alignment explanation
Indices: 1116531--1116598 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
1116521 AAATTTAAAT
** * * *
1116531 TTA TTA TTA TTA AAA TTA TTA TTA TAA TTA TAA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1116579 ATA ATA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
1116599 AATATTACAA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:1117984 original size:28 final size:27
Alignment explanation
Indices: 1117940--1118039 Score: 67
Period size: 28 Copynumber: 3.4 Consensus size: 27
1117930 TATTTATTTT
*
1117940 TTTTAATTTATTGTTATAATTTTAATTA
1 TTTT-ATTTATTATTATAATTTTAATTA
**
1117968 TTTTATTTGATTATTATCTAATTGCAAATTTA
1 TTTTATTT-ATTATTA--TAATT-TTAA-TTA
*
1118000 TTTTATTTCTATTATTAT-ACTTTAATTA
1 TTTTA-TT-TATTATTATAATTTTAATTA
*
1118028 TTATATTATATT
1 TTTTATT-TATT
1118040 TCATTTCATT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
27 10 0.18
28 17 0.30
29 2 0.04
30 7 0.12
31 3 0.05
32 8 0.14
33 9 0.16
34 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTATTTATTATTATAATTTTAATTA
Found at i:1118698 original size:31 final size:33
Alignment explanation
Indices: 1118663--1118724 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1118653 ATAATTAAAC
1118663 ATTATAAAAATTAT-A-ATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATTTAGTTTTATTTAA
* * *
1118694 ATTATTAAAATTTTAATATTTATTTTTATTT
1 ATTATAAAAATTATAATATTTAGTTTTATTT
1118725 TTTTAATATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 12 0.46
32 1 0.04
33 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
ATTATAAAAATTATAATATTTAGTTTTATTTAA
Found at i:1124226 original size:23 final size:23
Alignment explanation
Indices: 1124200--1124291 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
1124190 CACCACAACT
*
1124200 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
1124223 CGTAGAATTGCACCGAAGTGTCG
1 CGTAGAAATGCACCGAAGTGCCA
* *
1124246 TGTAGAATTGCACCGAAGTG-CA
1 CGTAGAAATGCACCGAAGTGCCA
*
1124268 GCGTAGAAATACACCGAAGTGCCA
1 -CGTAGAAATGCACCGAAGTGCCA
1124292 TATAAAATGT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
22 1 0.02
23 55 0.95
24 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:1125528 original size:62 final size:63
Alignment explanation
Indices: 1125460--1125601 Score: 207
Period size: 62 Copynumber: 2.3 Consensus size: 63
1125450 AATTTTAAGG
**
1125460 GGGTGCATCGATACACTAACTGTGCATCGGTACACTCCTGGCATTCGATGTTT-TT-TTTAAA
1 GGGTGCATCGATACACTAACTGTGCATCGGTACACTCAAGGCATTCGATGTTTCTTCTTTAAA
* *
1125521 TGGGTGCATCGATGCACTAACTGTGCATCGGTATACTCAAGGCATTCGATGTTTCTTCTTTAAA
1 -GGGTGCATCGATACACTAACTGTGCATCGGTACACTCAAGGCATTCGATGTTTCTTCTTTAAA
* *
1125585 GAGTGCATCGGTACACT
1 GGGTGCATCGATACACT
1125602 TTGAATGTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
62 49 0.69
63 16 0.23
64 6 0.08
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (63 bp):
GGGTGCATCGATACACTAACTGTGCATCGGTACACTCAAGGCATTCGATGTTTCTTCTTTAAA
Found at i:1130320 original size:16 final size:17
Alignment explanation
Indices: 1130301--1130333 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1130291 CATATCTCTT
1130301 ATCTCTT-GTTCATATG
1 ATCTCTTAGTTCATATG
1130317 ATCTCTTACGTTCATAT
1 ATCTCTTA-GTTCATAT
1130334 TCTATATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (17 bp):
ATCTCTTAGTTCATATG
Found at i:1130712 original size:30 final size:30
Alignment explanation
Indices: 1130672--1130764 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
1130662 CCGAAGGACC
1130672 ACTATCCATATGTTCTGAAGAACATAGGTA
1 ACTATCCATATGTTCTGAAGAACATAGGTA
* * *
1130702 ACTGTCCATATGTCCCT-AAGGACATAGGTAA
1 ACTATCCATATGT-TCTGAAGAACATAGGT-A
*
1130733 ACTATCTATATG-TCTCGAA-AGACATAGGTA
1 ACTATCCATATGTTCT-GAAGA-ACATAGGTA
1130763 AC
1 AC
1130765 CCTCGACTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
29 2 0.04
30 26 0.51
31 23 0.45
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (30 bp):
ACTATCCATATGTTCTGAAGAACATAGGTA
Found at i:1130757 original size:31 final size:31
Alignment explanation
Indices: 1130672--1130763 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
1130662 CCGAAGGACC
1130672 ACTATCCATATGT-TCTG-AAGAACATAGGT-A
1 ACTATCCATATGTCTC-GAAAG-ACATAGGTAA
* * * *
1130702 ACTGTCCATATGTCCCTAAGGACATAGGTAA
1 ACTATCCATATGTCTCGAAAGACATAGGTAA
*
1130733 ACTATCTATATGTCTCGAAAGACATAGGTAA
1 ACTATCCATATGTCTCGAAAGACATAGGTAA
1130764 CCCTCGACTC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
30 20 0.40
31 30 0.60
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (31 bp):
ACTATCCATATGTCTCGAAAGACATAGGTAA
Found at i:1136847 original size:41 final size:41
Alignment explanation
Indices: 1136802--1136893 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
1136792 TTCCATAATT
* * * *
1136802 CAATTCAATTCGGTCATGAAAACATGTATTTATTCACAAAC
1 CAATTCAATTAGATAATGAAAACATGTATTAATTCACAAAC
** *
1136843 CAATTCAATTAGATAATGGTAACATGTATTAATTCACAATC
1 CAATTCAATTAGATAATGAAAACATGTATTAATTCACAAAC
1136884 CAATTCAATT
1 CAATTCAATT
1136894 TAACCAATGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (41 bp):
CAATTCAATTAGATAATGAAAACATGTATTAATTCACAAAC
Found at i:1143751 original size:19 final size:20
Alignment explanation
Indices: 1143724--1143763 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1143714 TAAATAGTAT
*
1143724 TTGACGATCTATGAAA-CAC
1 TTGACGATCAATGAAATCAC
*
1143743 TTGATGATCAATGAAATCAC
1 TTGACGATCAATGAAATCAC
1143763 T
1 T
1143764 GTAACAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
TTGACGATCAATGAAATCAC
Found at i:1144513 original size:17 final size:18
Alignment explanation
Indices: 1144477--1144517 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1144467 ATATTATGTA
*
1144477 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
1144495 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
1144512 TTTACT
1 TTTACT
1144518 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:1153933 original size:20 final size:21
Alignment explanation
Indices: 1153908--1153951 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1153898 ACCGGAAAAA
*
1153908 CTAAGGGGGA-AAAATATTTT
1 CTAAGGGAGATAAAATATTTT
1153928 CTAA-GGAGATAAAATATTTT
1 CTAAGGGAGATAAAATATTTT
1153948 -TAAG
1 CTAAG
1153952 AGAATAGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (21 bp):
CTAAGGGAGATAAAATATTTT
Found at i:1154272 original size:21 final size:21
Alignment explanation
Indices: 1154248--1154287 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1154238 TTTTCAAAGG
1154248 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
1154269 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1154288 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:1154337 original size:19 final size:19
Alignment explanation
Indices: 1154313--1154351 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1154303 TCGAATGCAT
1154313 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1154332 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1154351 T
1 T
1154352 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1154376 original size:64 final size:63
Alignment explanation
Indices: 1154248--1154456 Score: 203
Period size: 64 Copynumber: 3.2 Consensus size: 63
1154238 TTTTCAAAGG
* * *
1154248 CATGCACCGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCA
1 CATGCACCGATGCATC--T-CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGCA
1154312 TT
62 TT
1154314 CCATGCACCGATGCACTCTCCATGCATCGATGCACTC-TGATTTAATTAAAACATCGAATGCATT
1 -CATGCACCGATGCA-TCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-T
1154378 T
63 T
* * * * *
1154379 GATGCATCGATGCATAATCCATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCAC
1 CATGCACCGATGCAT-CTCCATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCA-
1154441 TT
62 TT
*
1154443 CATGCATCGATGCA
1 CATGCACCGATGCA
1154457 CTCTTAGTGC
Statistics
Matches: 125, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
63 2 0.02
64 83 0.66
65 17 0.14
66 7 0.06
67 14 0.11
68 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCATCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
Found at i:1154457 original size:17 final size:19
Alignment explanation
Indices: 1154429--1154477 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
1154419 ATTTTTCAAA
1154429 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
1154447 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
1154466 CACCGATGCACT
1 CATCGATGCACT
1154478 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:1156421 original size:22 final size:21
Alignment explanation
Indices: 1156397--1156436 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1156387 GAGAAATTAT
1156397 TTTTAAAATAT-AAAAATGATG
1 TTTTAAAAT-TGAAAAATGATG
1156418 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
1156437 AAACAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATG
Found at i:1157748 original size:27 final size:27
Alignment explanation
Indices: 1157685--1157735 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1157675 TAAAATGGTT
1157685 CGGTTCGG--TTCGGTTTGGCTTTAAA
1 CGGTTCGGTTTTCGGTTTGGCTTTAAA
1157710 CGGTTCGGTTTTCGGTTTGG-TTTAAA
1 CGGTTCGGTTTTCGGTTTGGCTTTAAA
1157736 GGCTTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 8 0.33
26 6 0.25
27 10 0.42
ACGTcount: A:0.12, C:0.14, G:0.31, T:0.43
Consensus pattern (27 bp):
CGGTTCGGTTTTCGGTTTGGCTTTAAA
Found at i:1163326 original size:21 final size:21
Alignment explanation
Indices: 1163302--1163341 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1163292 TTTTCAAAGG
1163302 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
1163323 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
1163342 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:1163391 original size:19 final size:19
Alignment explanation
Indices: 1163367--1163405 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1163357 TCGAATGCAT
1163367 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
**
1163386 TCCATGCATTGATGCACTC
1 TCCATGCACCGATGCACTC
1163405 T
1 T
1163406 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.28
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1163508 original size:65 final size:63
Alignment explanation
Indices: 1163302--1163509 Score: 195
Period size: 64 Copynumber: 3.2 Consensus size: 63
1163292 TTTTCAAAGG
* ** * * *
1163302 CATGCACCGATGCATCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCAT
1 CATGCATCGATGCA-CAAT-CCATGCATCGATGCA-CGCTGATTTAATTAAAACATCGAATGCAT
1163367 T
63 T
* ** * *
1163368 CCATGCACCGATGCACTCTCCATGCATTGATGCACTCTGATTTAATTAAAACATCGAATGCATTT
1 -CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTTAATTAAAACATCGAATGCA-TT
* * *
1163433 GATGCATCGATGCACAATCCATGCATCGATGCACCAGGCT-ATTT-TTTCAAACATCGAATGCAC
1 CATGCATCGATGCACAATCCATGCATCGATGCA-C--GCTGATTTAATTAAAACATCGAATGCA-
1163496 TT
62 TT
1163498 CATGCATCGATG
1 CATGCATCGATG
1163510 AATCGATGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
64 51 0.43
65 46 0.39
66 6 0.05
67 16 0.13
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (63 bp):
CATGCATCGATGCACAATCCATGCATCGATGCACGCTGATTTAATTAAAACATCGAATGCATT
Found at i:1164419 original size:83 final size:83
Alignment explanation
Indices: 1164280--1164438 Score: 255
Period size: 83 Copynumber: 1.9 Consensus size: 83
1164270 TCGAGAGAGT
* * * **
1164280 TTTACTCCATCTAAATTTCTTTTAATATCTAAATTTAAACCTATAACAATATCTTTTAAATTTAA
1 TTTACTCCAACTAAATATATTTTAATATCTAAATTTAAACAGATAACAATATCTTTTAAATTTAA
1164345 AATATTAAACATGTGCGA
66 AATATTAAACATGTGCGA
* *
1164363 TTTACTCCAACTAGATATATTTTAATATCTAAATTTAAACAGATAATAATATCTTTTAAATTTAA
1 TTTACTCCAACTAAATATATTTTAATATCTAAATTTAAACAGATAACAATATCTTTTAAATTTAA
1164428 AATATTAAACA
66 AATATTAAACA
1164439 CGTATACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.42
Consensus pattern (83 bp):
TTTACTCCAACTAAATATATTTTAATATCTAAATTTAAACAGATAACAATATCTTTTAAATTTAA
AATATTAAACATGTGCGA
Found at i:1167739 original size:59 final size:55
Alignment explanation
Indices: 1167672--1167995 Score: 185
Period size: 57 Copynumber: 5.6 Consensus size: 55
1167662 TTCGAGACAT
* * **
1167672 TCAAGAAATAAAGTGAACAATTTATTTCTTTTTTTACAATATAGAATCATACTTGATTC
1 TCAAGAAATAAA-TCAACAATTTATTTC---TTTTACAAAATAGAATCATACAAGATTC
*
1167731 TCAAGAAATAAATCCAACGAATTAATTTCTTTTACAAAATAGAATCATACAAGATTC
1 TCAAGAAATAAAT-CAAC-AATTTATTTCTTTTACAAAATAGAATCATACAAGATTC
* * * * *
1167788 T-ATGAAAATAAATTTAACAATTTATTTTCTTCTACAAGACTA-AATCGAT-CTAGATT-
1 TCAAG-AAATAAA-TCAACAATTTA-TTTCTTTTACAA-AATAGAATC-ATACAAGATTC
** *** * * *
1167844 TCCAAGAAAATAAATTTGATGTTTTATTTCCTTTTACCAAACAGAATCATATAAG-TT-
1 T-CAAG-AAATAAA-TCAACAATTTATTT-CTTTTACAAAATAGAATCATACAAGATTC
* *
1167901 TCATAGGAAAATAAATTCAACAATTTATTTCCTTTT-CAAAGTTAGAATCAACACAAGATTC
1 TCA-A-G-AAATAAA-TCAACAATTTATTT-CTTTTACAAA-ATAGAATC-ATACAAGATTC
*
1167962 TAAGATGAAATAAATTCAACAATTTATTTCTTTT
1 TCA-A-GAAATAAA-TCAACAATTTATTTCTTTT
1167996 TTTCCAGTGT
Statistics
Matches: 212, Mismatches: 35, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
56 10 0.05
57 71 0.33
58 69 0.33
59 25 0.12
60 33 0.16
61 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.37
Consensus pattern (55 bp):
TCAAGAAATAAATCAACAATTTATTTCTTTTACAAAATAGAATCATACAAGATTC
Found at i:1167797 original size:57 final size:56
Alignment explanation
Indices: 1167670--1167995 Score: 241
Period size: 58 Copynumber: 5.6 Consensus size: 56
1167660 GATTCGAGAC
* * * **
1167670 ATTC-AAG-AAATAAAGTGAACAATTTATTTCTTTTTTTACAATATAGAATCATACTTG
1 ATTCTAAGAAAATAAATTCAACAATTTATTTC---TTTTACAAAATAGAATCATACAAG
* *
1167727 ATTCTCAAG-AAATAAATCCAACGAATTAATTTCTTTTACAAAATAGAATCATACAAG
1 ATTCT-AAGAAAATAAATTCAAC-AATTTATTTCTTTTACAAAATAGAATCATACAAG
* * * * *
1167784 ATTCTATGAAAATAAATTTAACAATTTATTTTCTTCTACAAGACTA-AATCGAT-CTAG
1 ATTCTAAGAAAATAAATTCAACAATTTA-TTTCTTTTACAA-AATAGAATC-ATACAAG
* ** *** * * *
1167841 ATTTCCAAGAAAATAAATTTGATGTTTTATTTCCTTTTACCAAACAGAATCATATAAG
1 A-TTCTAAGAAAATAAATTCAACAATTTATTT-CTTTTACAAAATAGAATCATACAAG
* * * *
1167899 TTTCATAGGAAAATAAATTCAACAATTTATTTCCTTTT-CAAAGTTAGAATCAACACAAG
1 ATTC-TAAGAAAATAAATTCAACAATTTATTT-CTTTTACAAA-ATAGAATC-ATACAAG
1167958 ATTCTAAGATGAAATAAATTCAACAATTTATTTCTTTT
1 ATTCTAAGA--AAATAAATTCAACAATTTATTTCTTTT
1167996 TTTCCAGTGT
Statistics
Matches: 212, Mismatches: 41, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
56 7 0.03
57 73 0.34
58 75 0.35
59 26 0.12
60 31 0.15
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (56 bp):
ATTCTAAGAAAATAAATTCAACAATTTATTTCTTTTACAAAATAGAATCATACAAG
Done.