Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 118 of 318
Found at i:37251637 original size:50 final size:46
Alignment explanation
Indices: 37251566--37251687 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 46
37251556 TGTCTTCGAC
** * *
37251566 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--ATATA-A-ATAAT
* * * *
37251616 ATGGGCTTACATGGCTCATTCCTATCTCCAAAGCCATATAACTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATAAATAAT
*
37251662 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
37251688 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
46 26 0.43
47 1 0.02
48 5 0.08
50 29 0.48
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATAAATAAT
Found at i:37264124 original size:65 final size:65
Alignment explanation
Indices: 37264038--37264175 Score: 240
Period size: 65 Copynumber: 2.1 Consensus size: 65
37264028 GAGCACTACC
* *
37264038 GCAGCTCTTTGTGAGCGTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
1 GCAGCTCTTTATAAGCGTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
*
37264103 GCAGCTCTTTATAAGCTTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
1 GCAGCTCTTTATAAGCGTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
*
37264168 GCAACTCT
1 GCAGCTCT
37264176 CTGTTACCTT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (65 bp):
GCAGCTCTTTATAAGCGTCCTGACATATAATCGGTTGTGATCCTGAATATAGTGCAGACACAAAA
Found at i:37269610 original size:10 final size:10
Alignment explanation
Indices: 37269583--37269642 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
37269573 TTAAATTCTA
37269583 AAAGATAAAT
1 AAAGATAAAT
37269593 ACAA-ATAAAT
1 A-AAGATAAAT
*
37269603 AAAGATAATT
1 AAAGATAAAT
*
37269613 AAGGATAAAT
1 AAAGATAAAT
37269623 AAAGATAAAT
1 AAAGATAAAT
37269633 GAAA-ATAAAT
1 -AAAGATAAAT
37269643 CCTAAGATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:37271641 original size:20 final size:20
Alignment explanation
Indices: 37271616--37271654 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
37271606 CCACCCAAAC
37271616 AAAATAAAGTAATAAATAAT
1 AAAATAAAGTAATAAATAAT
37271636 AAAATAAAGTAATAAATAA
1 AAAATAAAGTAATAAATAA
37271655 ATAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAATAAAGTAATAAATAAT
Found at i:37276680 original size:20 final size:20
Alignment explanation
Indices: 37276655--37276693 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
37276645 TACGAGTATG
37276655 TTTAAATGTTTTATATGATA
1 TTTAAATGTTTTATATGATA
37276675 TTTAAATGTTTTATATGAT
1 TTTAAATGTTTTATATGAT
37276694 GTCATAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTAAATGTTTTATATGATA
Found at i:37277254 original size:21 final size:20
Alignment explanation
Indices: 37277223--37277262 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
37277213 AGTCGAGGAC
37277223 TAAAGTGGAAACAAATTAAAAT
1 TAAAGTGG-AA-AAATTAAAAT
37277245 TAAA-TGGAAAAATTAAAA
1 TAAAGTGGAAAAATTAAAA
37277263 AGAAAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 3 0.17
22 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.12, T:0.23
Consensus pattern (20 bp):
TAAAGTGGAAAAATTAAAAT
Found at i:37293864 original size:22 final size:23
Alignment explanation
Indices: 37293795--37293875 Score: 67
Period size: 22 Copynumber: 3.5 Consensus size: 23
37293785 ATATATATAA
*
37293795 TAAAA-AAATAGATATAACAATT
1 TAAAATAAATAGATAAAACAATT
* * *
37293817 TGAAATTGATAATATATAAAAAAATT
1 T-AAAAT-A-AATAGATAAAACAATT
*
37293843 TAAAGTAAATA-ATAAAACAATT
1 TAAAATAAATAGATAAAACAATT
*
37293865 TAAAATGAATA
1 TAAAATAAATA
37293876 ATACATGAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
22 20 0.43
23 7 0.15
24 1 0.02
25 5 0.11
26 14 0.30
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (23 bp):
TAAAATAAATAGATAAAACAATT
Found at i:37293876 original size:22 final size:22
Alignment explanation
Indices: 37293827--37293878 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
37293817 TGAAATTGAT
*
37293827 AATATATAAAAAAATTTAAAGTA
1 AATA-ATAAAAAAATTTAAAATA
* *
37293850 AATAATAAAACAATTTAAAATG
1 AATAATAAAAAAATTTAAAATA
37293872 AATAATA
1 AATAATA
37293879 CATGAAGCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AATAATAAAAAAATTTAAAATA
Found at i:37294206 original size:3 final size:3
Alignment explanation
Indices: 37294198--37294225 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37294188 GCTTAAAGAA
37294198 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
37294226 GAAATATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37294379 original size:22 final size:22
Alignment explanation
Indices: 37294354--37294395 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
37294344 CTCAATGTAT
37294354 ATAAAAAAACAATTTAAAATGG
1 ATAAAAAAACAATTTAAAATGG
* * *
37294376 ATAATAATACAATTTTAAAT
1 ATAAAAAAACAATTTAAAAT
37294396 AATCAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (22 bp):
ATAAAAAAACAATTTAAAATGG
Found at i:37298309 original size:3 final size:3
Alignment explanation
Indices: 37298301--37298334 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
37298291 ATGACAACAC
* *
37298301 ATA ATA ATA ATA ATA ATA ATG ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37298335 AATTAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:37304863 original size:22 final size:22
Alignment explanation
Indices: 37304819--37304864 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
37304809 CAATACTAAC
*
37304819 AATAAAATAATAACAACATAAT
1 AATAAAATAATAACAACACAAT
*
37304841 AATAAAATGATAACGAA-ACAAT
1 AATAAAATAATAAC-AACACAAT
37304863 AA
1 AA
37304865 GGAATCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (22 bp):
AATAAAATAATAACAACACAAT
Found at i:37308976 original size:23 final size:23
Alignment explanation
Indices: 37308934--37308977 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
37308924 AATTTAATCT
*
37308934 TTTCTTTTCTCCATTTATTAAGG
1 TTTCTTTTCTCCATTAATTAAGG
**
37308957 TTTCTTTTCTTTATTAATTAA
1 TTTCTTTTCTCCATTAATTAA
37308978 AGTAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.14, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTCTTTTCTCCATTAATTAAGG
Found at i:37313903 original size:14 final size:14
Alignment explanation
Indices: 37313864--37313903 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
37313854 ATTTTCTTTA
37313864 ATTATTTTCA-AAT
1 ATTATTTTCATAAT
*
37313877 ATTATTTTTATAAT
1 ATTATTTTCATAAT
*
37313891 ATTATTATCATAA
1 ATTATTTTCATAA
37313904 ATTGTATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTATTTTCATAAT
Found at i:37316219 original size:17 final size:19
Alignment explanation
Indices: 37316189--37316231 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
37316179 TGTAATCATC
37316189 ATAATT-TTTATTAAAT-T
1 ATAATTATTTATTAAATAT
*
37316206 GTAATTATTT-TTAAATAT
1 ATAATTATTTATTAAATAT
37316224 ATAATTAT
1 ATAATTAT
37316232 CACACCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
ATAATTATTTATTAAATAT
Found at i:37319517 original size:16 final size:16
Alignment explanation
Indices: 37319498--37319536 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
37319488 TATCAGTGGA
37319498 TTGAATTA-TTTAGATT
1 TTGAATTATTTTAGA-T
37319514 TTGAATTATTTTAGAT
1 TTGAATTATTTTAGAT
37319530 TTGAATT
1 TTGAATT
37319537 GAAAGGTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (16 bp):
TTGAATTATTTTAGAT
Found at i:37327912 original size:21 final size:21
Alignment explanation
Indices: 37327878--37327918 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37327868 GCATGAATAA
*
37327878 AATAGTATACAAATGAGTGAC
1 AATAGTATACAAATAAGTGAC
37327899 AATAGTATGA-AAATAAGTGA
1 AATAGTAT-ACAAATAAGTGA
37327919 ACGGATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.24
Consensus pattern (21 bp):
AATAGTATACAAATAAGTGAC
Found at i:37329172 original size:18 final size:18
Alignment explanation
Indices: 37329151--37329188 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
37329141 AAAACGAAAT
37329151 AAAAAAAAACTAGTTGTA
1 AAAAAAAAACTAGTTGTA
37329169 AAAAAAAAACTAGTTGTA
1 AAAAAAAAACTAGTTGTA
37329187 AA
1 AA
37329189 TAAATATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.21
Consensus pattern (18 bp):
AAAAAAAAACTAGTTGTA
Found at i:37329358 original size:17 final size:17
Alignment explanation
Indices: 37329303--37329347 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
37329293 GTAATACCTA
37329303 AAATAT-AA-AAATAAAG
1 AAATATAAATAAAT-AAG
37329319 AAAGTATAAATAAATAAG
1 AAA-TATAAATAAATAAG
37329337 AAATATAAATA
1 AAATATAAATA
37329348 GATGAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 11 0.42
18 8 0.31
19 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (17 bp):
AAATATAAATAAATAAG
Found at i:37329969 original size:44 final size:44
Alignment explanation
Indices: 37329870--37329985 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 44
37329860 TAAAAAGATT
*
37329870 AATAATAATAATAATAA-TAAT-GATAATAGTAATAGAAAATAAA
1 AATAATAATAATAATAAGTAATAG-TAATAGCAATAGAAAATAAA
* *
37329913 AA-GATAATAATAATATAGTAATAGTAATAGCCATA-AAAATAAA
1 AATAATAATAATAATA-AGTAATAGTAATAGCAATAGAAAATAAA
* * *
37329956 AATAATAGTAATAATACGGTAATAATAATA
1 AATAATAATAATAATA-AGTAATAGTAATA
37329986 AATAGTAATA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 12 0.20
43 13 0.21
44 35 0.57
45 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.28
Consensus pattern (44 bp):
AATAATAATAATAATAAGTAATAGTAATAGCAATAGAAAATAAA
Found at i:37330059 original size:3 final size:3
Alignment explanation
Indices: 37329426--37330040 Score: 178
Period size: 3 Copynumber: 203.0 Consensus size: 3
37329416 TACAAAAATG
** * *
37329426 ATA ATA ATA ATA A-A ATA AGTTA ATA ATA ATA ATA ATA ACC GTA GTA
1 ATA ATA ATA ATA ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
37329472 GTA ATA ATA AAA AT- ATA ATA GTA AAA ATA ATA CTA A-A TATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * * ** * * *
37329516 ATA GTA ATA TTA ATA ATA AAA ATA ATA GCA ATA AAA ATA AAA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
37329564 ATA ATA ACA ATG ACA ATAA AGA ATA ATA GTA ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
37329610 ATA ATA ATA ATA ATA ATA ATG ATG ATG ATG ATGA A-A AT- ATGA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT-A ATA
** * * * * * *
37329655 ACC ATA ATC ACA ACTA TATT ATAA ATA ATAA ATA ATA ATA ATG ATA GTC
1 ATA ATA ATA ATA A-TA -ATA AT-A ATA AT-A ATA ATA ATA ATA ATA ATA
* * ** * * * ** * * *
37329704 TTA ATA ATG ATA ACG ACA ATA A-A AAA AT- GTA GGA ATG ATA ATG CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
37329750 ATA TATA A-A ATA ATA ATA ATT GTA A-A A-A GATA ATA AGA ATA GTA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
** ** * ** * *
37329794 GCA ATA ATA AGG GTA ATA ACG ATA ATAA ATA ATA ATA CTAA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA
* * * *
37329841 AAA ATA ATA ATA GA-A ATA ATA AAA AGA TTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
37329886 ATA ATG ATA ATA GTA ATA GAAA ATA A-A A-A GATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * *** * * * *
37329930 GTA ATA GTA ATA GCC ATA AAA ATA AAA ATA ATA GTA ATA ATA CGGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA
* * * * * * * *
37329977 ATA ATA ATAA ATA GTA ATA ATA ATA ACA ACA ACA ACA ACA ACA ACA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37330023 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
37330041 GCAATAATTT
Statistics
Matches: 439, Mismatches: 141, Indels: 64
0.68 0.22 0.10
Matches are distributed among these distances:
2 23 0.05
3 382 0.87
4 28 0.06
5 6 0.01
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:37331134 original size:16 final size:16
Alignment explanation
Indices: 37331102--37331158 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
37331092 TGGGCTGTTA
*
37331102 ATTTTTGGGCTTGGGGT
1 ATTTTTGGG-TTTGGGT
37331119 ATTTTTGGGTTTGGGT
1 ATTTTTGGGTTTGGGT
* * *
37331135 A-GTTGGGGTTTAGGT
1 ATTTTTGGGTTTGGGT
37331150 -TTTTTGGGT
1 ATTTTTGGGT
37331159 CTTTTAGTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 17 0.52
16 7 0.21
17 9 0.27
ACGTcount: A:0.07, C:0.02, G:0.40, T:0.51
Consensus pattern (16 bp):
ATTTTTGGGTTTGGGT
Found at i:37331555 original size:27 final size:26
Alignment explanation
Indices: 37331525--37331576 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
37331515 ACAAGGATGT
*
37331525 GTATAAGAATTTCAAAATAAATAATAC
1 GTATAAGAATTT-AAAAGAAATAATAC
* *
37331552 GTATAATAGTTTAAAAGAAATAATA
1 GTATAAGAATTTAAAAGAAATAATA
37331577 TATGTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.31
Consensus pattern (26 bp):
GTATAAGAATTTAAAAGAAATAATAC
Found at i:37335415 original size:3 final size:3
Alignment explanation
Indices: 37335407--37335434 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37335397 TATATCACTC
37335407 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
37335435 GCAACAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:37335933 original size:31 final size:32
Alignment explanation
Indices: 37335873--37335942 Score: 81
Period size: 34 Copynumber: 2.2 Consensus size: 32
37335863 CGATATGTTC
*
37335873 TTTTAATAAATAAAAAAATTAAACTAATATATAA
1 TTTTAATAAAT-AAAAAATTAAACAAATAT-TAA
* *
37335907 TTTTAATAAAT-AAAATTTAAA-AAATATTTA
1 TTTTAATAAATAAAAAATTAAACAAATATTAA
37335937 TTTTAA
1 TTTTAA
37335943 AGATTCGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 8 0.24
31 5 0.15
32 9 0.27
34 11 0.33
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (32 bp):
TTTTAATAAATAAAAAATTAAACAAATATTAA
Found at i:37337534 original size:30 final size:30
Alignment explanation
Indices: 37337483--37337549 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
37337473 TTGATATGTT
*
37337483 TATATATTTTTAACATGTTATAAATTATAA
1 TATATATTTTTAACATCTTATAAATTATAA
* * *
37337513 TATATA-TTTTAAGTATCTTATAATTTATCA
1 TATATATTTTTAA-CATCTTATAAATTATAA
37337543 TCATATA
1 T-ATATA
37337550 AAATTTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 6 0.19
30 20 0.65
31 5 0.16
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATATTTTTAACATCTTATAAATTATAA
Found at i:37340419 original size:3 final size:3
Alignment explanation
Indices: 37340411--37340436 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37340401 TATACATATA
37340411 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
37340437 AAGAATGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37342152 original size:44 final size:44
Alignment explanation
Indices: 37342083--37342825 Score: 338
Period size: 44 Copynumber: 16.6 Consensus size: 44
37342073 CTTCAGTCTA
* * *
37342083 CTCCATTGTATCTTCAGGGAGATAAGACTTGTAACTTTAACCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * * * *
37342127 CTCCACTGTAACTTCGGGGAAATAAG-GTTAGTGACTTTGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTT-GTAACTTTAATCTG
* * * * *
37342171 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTG-TAACTTTAATCTG
* ** *
37342216 CTCTACTGTAACTTCATAGAGATAAGA-TCTGTAA-TTTATAGCTCCAACCTA
1 CTCCACTGTAACTTCAGGGAGATAAGACT-TGTAACTTTA-A--T-----CTG
* * * * * *
37342267 TTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTG-TAACTTTAATCTG
* * *
37342312 CTGCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * * ** * *
37342356 CTCTACCGTAACTTCAGGGAGATAAG-GTTAGTGGCTTTGATTTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTT-GTAACTTTAATCTG
* * * * * * *
37342400 CTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGACTT-GTAACTTTAATCTG
* * * * *
37342445 CTCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * * * ** * *
37342489 CTCCACTGCATCTTTAGGGAGATAAG-GTTAGTGGCTTCAATCAG
1 CTCCACTGTAACTTCAGGGAGATAAGACTT-GTAACTTTAATCTG
* * * * * * *
37342533 CTTCACTGCAACTTCAGGAAGATAAGA-TTCGCCATCTTCAGTCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTT-G-TAACTTTAATCTG
* * * * *
37342578 CTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACCTA
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * ** * ** ** *
37342622 CTCCACTGCATCTTCAGAGG-GAT-AGGGTTAATGGCTTCGATATG
1 CTCCACTGTAACTTCAG-GGAGATAAGACTT-GTAACTTTAATCTG
* * * * * *
37342666 CTCCACTGCAACTTTAGGGTGATAAGA-TT-CACCCTATTCAGTCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTA-ACT-TT-AATCTG
* * * *
37342711 CCCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAAACTA
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
* * * * **
37342755 CTCCACTGCATCTTCAGAGAGATAAGA-TTAATGGCTTTAATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTT-GTAACTTTAATCTG
* * * * *
37342799 TTTCACTGCAACTTTAGGAAGATAAGA
1 CTCCACTGTAACTTCAGGGAGATAAGA
37342826 TTTGCCATAA
Statistics
Matches: 523, Mismatches: 145, Indels: 62
0.72 0.20 0.08
Matches are distributed among these distances:
43 19 0.04
44 299 0.57
45 164 0.31
46 7 0.01
47 1 0.00
50 1 0.00
51 26 0.05
52 3 0.01
53 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTTAATCTG
Found at i:37342345 original size:96 final size:97
Alignment explanation
Indices: 37342172--37342350 Score: 274
Period size: 96 Copynumber: 1.9 Consensus size: 97
37342162 TTTGATCTGC
* * *
37342172 TCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGTAACTTCATAGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGAGAG
37342237 ATAAGATCTGTAA-TTTATAGCTCCAACCTAT
66 ATAAGATCTGTAACTTTATAGCTCCAACCTAT
* *
37342268 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTGC-ACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCT-CTACTGCAACTTCAGAGA
37342332 GATAAGA-CTTGTAACTTTA
65 GATAAGATC-TGTAACTTTA
37342351 ACCTGCTCTA
Statistics
Matches: 75, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 1 0.01
96 69 0.92
97 5 0.07
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (97 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCTACTGCAACTTCAGAGAG
ATAAGATCTGTAACTTTATAGCTCCAACCTAT
Found at i:37342435 original size:133 final size:133
Alignment explanation
Indices: 37342268--37342833 Score: 711
Period size: 133 Copynumber: 4.3 Consensus size: 133
37342258 TCCAACCTAT
* * * * *
37342268 TCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTGCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * * * * * * ** *
37342333 ATAAGACTTGTAACTTTAACCTGCTCTACCGTAACTTCAGGGAGATAAGGTTAGTGGCTTTGATT
66 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCAATC
37342398 TGC
131 TGC
* * *
37342401 TCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCGCTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* *
37342466 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTTAGGGAGATAAGGTTAGTGGCTTCAATC
66 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCAATC
*
37342531 AGC
131 TGC
* * ** *
37342534 TTCACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* *
37342599 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGAGG-GATAGGGTTAATGGCTTCGAT
66 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAG-GGAGATAAGGTTAATGGCTTCAAT
*
37342663 ATGC
130 CTGC
* * * * * * *
37342667 TCCACTGCAACTTTAGGGTGATAAGATTCACCCTATTCAGTCTGCCCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * * *
37342732 ATAAGACTTGTAACTTCAAACTACTCCACTGCATCTTCAGAGAGATAAGATTAATGGCTTTAATC
66 ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCAATC
*
37342797 TGT
131 TGC
* * * *
37342800 TTCACTGCAACTTTAGGAAGATAAGATTTGCCAT
1 TCCACTGCAACTTCAGGGAGATAAGATTTACCAT
37342834 AATTCGTAGC
Statistics
Matches: 376, Mismatches: 55, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
132 1 0.00
133 373 0.99
134 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (133 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGGGAGATAAGGTTAATGGCTTCAATC
TGC
Found at i:37342437 original size:229 final size:229
Alignment explanation
Indices: 37342035--37342471 Score: 658
Period size: 229 Copynumber: 1.9 Consensus size: 229
37342025 TATCTTTAAT
* * * *
37342035 CTATTCCACTGCAACTTCAAGGAAATAAGATCCGATGTCTTCAGTCTACTCCATTGTATCTTCAG
1 CTATTCCACTGCAACTTCAAGGAAATAAGATCCGATATCTTCAGTCTACTCCACTGCAACTTCAG
* *
37342100 GGAGATAAGACTTGTAACTTTAACCTGCTCCACTGTAACTTCGGGGAAATAAGGTTAGTGACTTT
66 GGAGATAAGACTTGTAACTTTAACCTGCTCCACCGTAACTTCAGGGAAATAAGGTTAGTGACTTT
* * * *
37342165 GATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGTAACTT
131 GATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCACTGCAACTT
*
37342230 CATAGAGATAAGATCTGTAATTTATAGCTCCAAC
196 CAGAGAGATAAGATCTGTAATTTATAGCTCCAAC
* * ** * * *
37342264 CTATTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTGCACTGCAACTTCAG
1 CTATTCCACTGCAACTTCAAGGAAATAAGATCCGATATCTTCAGTCTACTCCACTGCAACTTCAG
* * *
37342329 GGAGATAAGACTTGTAACTTTAACCTGCTCTACCGTAACTTCAGGGAGATAAGGTTAGTGGCTTT
66 GGAGATAAGACTTGTAACTTTAACCTGCTCCACCGTAACTTCAGGGAAATAAGGTTAGTGACTTT
* *
37342394 GATTTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCGCTGCAACTT
131 GATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCACTGCAACTT
*
37342459 CAGGGAGATAAGA
196 CAGAGAGATAAGA
37342472 CTTGTAACTT
Statistics
Matches: 184, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
229 184 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (229 bp):
CTATTCCACTGCAACTTCAAGGAAATAAGATCCGATATCTTCAGTCTACTCCACTGCAACTTCAG
GGAGATAAGACTTGTAACTTTAACCTGCTCCACCGTAACTTCAGGGAAATAAGGTTAGTGACTTT
GATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCACTGCAACTT
CAGAGAGATAAGATCTGTAATTTATAGCTCCAAC
Found at i:37342593 original size:89 final size:89
Alignment explanation
Indices: 37342073--37342830 Score: 301
Period size: 89 Copynumber: 8.5 Consensus size: 89
37342063 GATCCGATGT
* * * * * * * *
37342073 CTTCAGTCTACTCCATTGTATCTTCAGGGAGATAAGACTTGTAACTTTAACCTGCTCCACTGTAA
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGCAACTTCAACCTGCTCCACTGCAA
** * *
37342138 CTTCGGGGAAATAAG-GTTAGT-G
66 CTTTAGGGAGATAAGAGTTACTAG
** * * * * ** * *
37342160 ACTTTGATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCTCTACTGT
1 -CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGC-AACTTCAACCTGCTCCACTGC
* **
37342225 AACTTCATAGAGATAAGATCTGTAATTTA-TAG
64 AACTTTAGGGAGATAAGA---G----TTACTAG
* * * * * * ** *
37342257 CTCCAACCTATTCCACTGTAACTTCAGGGAA-ATAAGATTTGCTATCTTCAGTCTGCTGCACTGC
1 CTTCAATCTACTCCACTGCAACTTCA-GGAAGATAAGACTTGC-AACTTCAACCTGCTCCACTGC
* * * *
37342321 AACTTCAGGGAGATAAGACTT-GTAA
64 AACTTTAGGGAGATAAGAGTTACTAG
* * * * * * * * *** ** **
37342346 CTTTAACCTGCTCTACCGTAACTTCAGGGAGATAAG-GTTAGTGGCTTTGATTTGCTCCACTGCA
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTT-GCAACTTCAACCTGCTCCACTGCA
* * *
37342410 ACTTCAGGGAGATAAGATTTACTAT
65 ACTTTAGGGAGATAAGAGTTACTAG
* * * * * *
37342435 CTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTGCAT
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGCAACTTCAACCTGCTCCACTGCAA
* *
37342500 CTTTAGGGAGATAAG-GTTAGTGG
66 CTTTAGGGAGATAAGAGTTACTAG
* * **
37342523 CTTCAATC-AGCTTCACTGCAACTTCAGGAAGATAAGA-TTCGCCATCTTCAGTCTGCTCCACTG
1 CTTCAATCTA-CTCCACTGCAACTTCAGGAAGATAAGACTT-G-CAACTTCAACCTGCTCCACTG
* * *
37342586 CAACTTTAGGGAGATAAGACTT-GTAA
63 CAACTTTAGGGAGATAAGAGTTACTAG
* * * ** * **
37342612 CTTCAACCTACTCCACTGCATCTTCA-GAGGGAT-AGGGTT--AATGGCTTCGATATGCTCCACT
1 CTTCAATCTACTCCACTGCAACTTCAGGA-AGATAAGACTTGCAA---CTTCAACCTGCTCCACT
*
37342673 GCAACTTTAGGGTGATAAGA-TTCACCCTA-
62 GCAACTTTAGGGAGATAAGAGTT-A--CTAG
* * * * * * * * *
37342702 -TTCAGTCTGCCCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAAACTACTCCACTGCAT
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGCAACTTCAACCTGCTCCACTGCAA
* * * *
37342766 CTTCAGAGAGATAAGA-TTAATGG
66 CTTTAGGGAGATAAGAGTTACTAG
* ** * * *
37342789 CTTTAATCTGTTTCACTGCAACTTTAGGAAGATAAGATTTGC
1 CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGC
37342831 CATAATTCGT
Statistics
Matches: 506, Mismatches: 128, Indels: 72
0.72 0.18 0.10
Matches are distributed among these distances:
85 1 0.00
86 1 0.00
87 5 0.01
88 177 0.35
89 234 0.46
90 10 0.02
91 2 0.00
92 2 0.00
93 1 0.00
96 66 0.13
97 7 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (89 bp):
CTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGACTTGCAACTTCAACCTGCTCCACTGCAA
CTTTAGGGAGATAAGAGTTACTAG
Found at i:37342750 original size:266 final size:266
Alignment explanation
Indices: 37342270--37342833 Score: 790
Period size: 266 Copynumber: 2.1 Consensus size: 266
37342260 CAACCTATTC
* * *
37342270 CACTGTAACTTCAGGGAA-ATAAGATTTGCTATCTTCAGTCTGCTGCACTGCAACTTCAGGGAGA
1 CACTGCAACTTCA-GGAAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * * * * *
37342334 TAAGACTTGTAACTTTAACCTGCTCTACCGTAACTTCAGGGAGATAAGGTTAGTGGCTTTGATTT
65 TAAGACTTGTAACTTCAACCTACTCCACCGCAACTTCAGGGAGATAAGGTTAATGGCTTCGATAT
* * * * *
37342399 GCTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTACTCCGCTGCAACTTCAGGG
130 GCTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTCAGTCTACCCCACTGCAACTTCAGGG
* * * * *
37342464 AGATAAGACTTGTAACTTCAACCTACTCCACTGCATCTTTAGGGAGATAAGGTTAGTGGCTTCAA
195 AGATAAGACTTGTAACTTCAAACTACTCCACTGCATCTTCAGAGAGATAAGATTAATGGCTTCAA
37342529 TCAGCTT
260 TCAGCTT
* *
37342536 CACTGCAACTTCAGGAAGATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGAT
1 CACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
* * *
37342601 AAGACTTGTAACTTCAACCTACTCCACTGCATCTTCAGAGG-GATAGGGTTAATGGCTTCGATAT
66 AAGACTTGTAACTTCAACCTACTCCACCGCAACTTCAG-GGAGATAAGGTTAATGGCTTCGATAT
* * * * *
37342665 GCTCCACTGCAACTTTAGGGTGATAAGATTCACCCTATTCAGTCTGCCCCACTGTAACTTCAGGG
130 GCTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTCAGTCTACCCCACTGCAACTTCAGGG
*
37342730 AGATAAGACTTGTAACTTCAAACTACTCCACTGCATCTTCAGAGAGATAAGATTAATGGCTTTAA
195 AGATAAGACTTGTAACTTCAAACTACTCCACTGCATCTTCAGAGAGATAAGATTAATGGCTTCAA
* *
37342795 TCTGTTT
260 TCAGCTT
*
37342802 CACTGCAACTTTAGGAAGATAAGATTTGCCAT
1 CACTGCAACTTCAGGAAGATAAGATTTGCCAT
37342834 AATTCGTAGC
Statistics
Matches: 261, Mismatches: 35, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
265 4 0.02
266 255 0.98
267 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (266 bp):
CACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
AAGACTTGTAACTTCAACCTACTCCACCGCAACTTCAGGGAGATAAGGTTAATGGCTTCGATATG
CTCCACTGCAACTTCAGGGAGATAAGATTCACCATATTCAGTCTACCCCACTGCAACTTCAGGGA
GATAAGACTTGTAACTTCAAACTACTCCACTGCATCTTCAGAGAGATAAGATTAATGGCTTCAAT
CAGCTT
Found at i:37354603 original size:254 final size:253
Alignment explanation
Indices: 37354155--37354618 Score: 624
Period size: 254 Copynumber: 1.8 Consensus size: 253
37354145 GAATATTGAG
* * * *
37354155 ATTCTCTTATTTTGAAGAAATAAAACATCACATCCAGCACGTAGGACACAACATTCAAACCTTTG
1 ATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGCACACAACATTCAAACCTTCG
* * * *
37354220 ATATCAAAATCATCTCATAATTCCCAGAATTTATGCATTCAAAAGTTAAAAAGGATATTCGGTCG
66 ATACCAAAACCATCTCATAATTCCCAGAACTCATGCATTCAAAAGTTAAAAAGGATATTCGGTCG
* * * * * * *
37354285 TTCCGTCAAACGATAAATCGAAACCCAGCACGTTGGGCATAATTTCTCTAAATTTCCGAACACGA
131 TTCCGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACACGA
*
37354350 AATATTGCCTTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTAAA
196 AATATTACCTTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTAAA
* * * *
37354408 ATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAACACGTAGCACACGATATTTCAAACCTTC
1 ATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGCACACAACA-TTCAAACCTTC
* ** * ** *
37354473 GATACCAAAACCATCTCATAATTTCC-GAAACTCATGTTTTGAAATTTTAAAAAGGATATTTGGT
65 GATACCAAAACCATCTCATAATTCCCAG-AACTCATGCATTCAAAAGTTAAAAAGGATATTCGGT
* * * *
37354537 TGTTCGGTCAAATGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTGCAAACAC
129 CGTTCCGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACAC
37354602 GAAATATTACCTTGTTT
194 GAAATATTACCTTGTTT
37354619 TGAATAAAAC
Statistics
Matches: 178, Mismatches: 31, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
253 47 0.26
254 131 0.74
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (253 bp):
ATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGCACACAACATTCAAACCTTCG
ATACCAAAACCATCTCATAATTCCCAGAACTCATGCATTCAAAAGTTAAAAAGGATATTCGGTCG
TTCCGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATCTCTCGAAATTTCCAAACACGA
AATATTACCTTGTTTAAAAAAATCTTGAATAAAAATGTAATAGTATGAAACGATTAAA
Found at i:37359202 original size:33 final size:33
Alignment explanation
Indices: 37359165--37359240 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
37359155 TGAGCGTGAA
*
37359165 AGGAAAGATTGTGAGAGAGCTCAGAGTAAAGGG
1 AGGAAAGATTGAGAGAGAGCTCAGAGTAAAGGG
* *
37359198 AGGAAAGATTGAGAGAGAGCTTAGAGTAAGGGG
1 AGGAAAGATTGAGAGAGAGCTCAGAGTAAAGGG
37359231 AGGAAAGATT
1 AGGAAAGATT
37359241 CAGGTCCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.41, C:0.04, G:0.39, T:0.16
Consensus pattern (33 bp):
AGGAAAGATTGAGAGAGAGCTCAGAGTAAAGGG
Found at i:37364464 original size:34 final size:34
Alignment explanation
Indices: 37364400--37364466 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
37364390 TTTATACTAA
* *
37364400 TCAAATTTATATATTTACTGAATTATTATAAAAC
1 TCAAAGTTATATATTTAATGAATTATTATAAAAC
37364434 TCAAAGTTATATATTGTAAT-AATT-TATATAAAA
1 TCAAAGTTATATATT-TAATGAATTAT-TATAAAA
37364467 TAATAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 1 0.03
34 25 0.86
35 3 0.10
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (34 bp):
TCAAAGTTATATATTTAATGAATTATTATAAAAC
Found at i:37364470 original size:17 final size:18
Alignment explanation
Indices: 37364450--37364485 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
37364440 TTATATATTG
*
37364450 TAATAATTTA-TATAAAA
1 TAATAAATTATTATAAAA
37364467 TAATAAATTATTATAAAA
1 TAATAAATTATTATAAAA
37364485 T
1 T
37364486 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAAATTATTATAAAA
Found at i:37364662 original size:18 final size:17
Alignment explanation
Indices: 37364621--37364667 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
37364611 TTATGTCATT
37364621 TTTATAATAA-TA-AAA
1 TTTATAATAATTATAAA
*
37364636 TTT-TCATAATTATTAAA
1 TTTATAATAATTA-TAAA
37364653 TTTATAATAATTATA
1 TTTATAATAATTATA
37364668 TAATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 5 0.19
15 5 0.19
17 8 0.31
18 8 0.31
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTATAATAATTATAAA
Found at i:37366263 original size:13 final size:13
Alignment explanation
Indices: 37366245--37366269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37366235 GGCCTACACG
37366245 GGTGAACCACATA
1 GGTGAACCACATA
37366258 GGTGAACCACAT
1 GGTGAACCACAT
37366270 GGGCATGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (13 bp):
GGTGAACCACATA
Found at i:37371715 original size:37 final size:37
Alignment explanation
Indices: 37371674--37371747 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
37371664 TAGAGGACAT
*
37371674 GTTGAGGGGCTGCATTATAGATTTTCGAGGTAGTTGG
1 GTTGAGGGGCTGCATTATAGATTTTCGAGGCAGTTGG
* *
37371711 GTTGAGGGGTTGCATTATAGATTTTTGAGGCAGTTGG
1 GTTGAGGGGCTGCATTATAGATTTTCGAGGCAGTTGG
37371748 AAGGAGTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.19, C:0.07, G:0.38, T:0.36
Consensus pattern (37 bp):
GTTGAGGGGCTGCATTATAGATTTTCGAGGCAGTTGG
Found at i:37384827 original size:19 final size:17
Alignment explanation
Indices: 37384795--37384829 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
37384785 AAATTTGATA
37384795 TTTTTTTATAGTTTAGG
1 TTTTTTTATAGTTTAGG
37384812 TTTTTTTAGTATGTTTAG
1 TTTTTTTA-TA-GTTTAG
37384830 ATTTCATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (17 bp):
TTTTTTTATAGTTTAGG
Found at i:37391266 original size:213 final size:214
Alignment explanation
Indices: 37390894--37391323 Score: 709
Period size: 213 Copynumber: 2.0 Consensus size: 214
37390884 TCGGGGTGAA
* *
37390894 GGGGTATTGTTAGTCCAGAGGTGTTGAGCCAAAAATATCCTCAATATTAGGTGTAGGTGCTTACT
1 GGGGTATTGTTAGTCCAGAGGTGCTGAGCCAAAAATATCCTCAATATTAGGTGTAGGTGCTTACC
*
37390959 GATGGAGCTCTGGGTGGTATGAGAACGATCCAGAGTATGCTGAGTGTTGAGGCTCAAGGTCGTTG
66 GATGGAGCTCTGGGTGGTATGAGAACGATCCAGAGTATGCTGAGTATTGAGGCTCAAGGTCGTTG
* *
37391024 CCAAATATGTCCTCGAACGAAGGAGGATTCGGAT-GGGGGTTTGTGAGGCTTCTTCAGATGATTC
131 CCAAATATGTCCTCGAACGAAGAAGGATTCGGATGGGGGGTTTGTGAGGCTTCCTCAGATGATTC
*
37391088 ATATTCATGCTCGGGATCG
196 ATATTCATGCTCAGGATCG
* *
37391107 GGGGTATTGTTAGTCCAGAGGTGCTGAGCCAAAAATATCCTTAATATTAGGTGTAGGTGCTTGCC
1 GGGGTATTGTTAGTCCAGAGGTGCTGAGCCAAAAATATCCTCAATATTAGGTGTAGGTGCTTACC
* * * * *
37391172 GATGGGGCTTTGGGTGGTATGAGAATGATCCAGAGTTTGTTGAGTATTGAGGCTCAAGGTCGTTG
66 GATGGAGCTCTGGGTGGTATGAGAACGATCCAGAGTATGCTGAGTATTGAGGCTCAAGGTCGTTG
* * *
37391237 CCAAATATGTCCTCGAATGAAGAAGGATTCGGATGGGGGGTTTGTGAGGTTTCCTCGGATGATTC
131 CCAAATATGTCCTCGAACGAAGAAGGATTCGGATGGGGGGTTTGTGAGGCTTCCTCAGATGATTC
37391302 ATATTCATGCTCAGGATCG
196 ATATTCATGCTCAGGATCG
37391321 GGG
1 GGG
37391324 TTTGAGACAG
Statistics
Matches: 200, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
213 152 0.76
214 48 0.24
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.30
Consensus pattern (214 bp):
GGGGTATTGTTAGTCCAGAGGTGCTGAGCCAAAAATATCCTCAATATTAGGTGTAGGTGCTTACC
GATGGAGCTCTGGGTGGTATGAGAACGATCCAGAGTATGCTGAGTATTGAGGCTCAAGGTCGTTG
CCAAATATGTCCTCGAACGAAGAAGGATTCGGATGGGGGGTTTGTGAGGCTTCCTCAGATGATTC
ATATTCATGCTCAGGATCG
Found at i:37392586 original size:140 final size:140
Alignment explanation
Indices: 37392433--37392684 Score: 459
Period size: 140 Copynumber: 1.8 Consensus size: 140
37392423 TTTAATTAGT
* *
37392433 TATAATCTATTCAATTGAAATGTATTAAATTATTTTTTATTTAATCTTTAAATTAATTTTTTCAA
1 TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTAATTTTTTAAA
*
37392498 TTAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAAGTATTTAATTTTTATTTTTTAAT
66 TAAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAAGTATTTAATTTTTATTTTTTAAT
37392563 TGAAGTTATC
131 TGAAGTTATC
*
37392573 TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTGATTTTTTAAA
1 TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTAATTTTTTAAA
*
37392638 TAAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAATTATT
66 TAAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAAGTATT
37392685 AAGTTAAAGT
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 107 1.00
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (140 bp):
TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTAATTTTTTAAA
TAAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAAGTATTTAATTTTTATTTTTTAAT
TGAAGTTATC
Found at i:37392681 original size:19 final size:19
Alignment explanation
Indices: 37392657--37392697 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
37392647 AGAAATTCAA
* *
37392657 TTAATTTTTAATTTAAACT
1 TTAATTATTAAGTTAAACT
*
37392676 TTAATTATTAAGTTAAAGT
1 TTAATTATTAAGTTAAACT
37392695 TTA
1 TTA
37392698 TGTATTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
TTAATTATTAAGTTAAACT
Found at i:37392840 original size:170 final size:175
Alignment explanation
Indices: 37392573--37393009 Score: 589
Period size: 170 Copynumber: 2.4 Consensus size: 175
37392563 TGAAGTTATC
* *
37392573 TATAATCTATTCAATTGAAATGGATTAAATTATTTTTTATTTAATCTTTAAATTGATTTTTTAAA
1 TATAATATATTCAATTGAAATGTATTAAATTA-TTTTTATTTAATCTTTAAATTGA-TTTTT-AA
* * * * *
37392638 TAAAAATTAAGAAATTCAATTAATTTTTAATTTAAACTTTAATTATTAAGTTAAAGTTTATGTAT
63 TTAAAATTAAGAAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTTAATGTAT
37392703 TTAA-TTTTTA-TTTTTAATTGAAATTATCTATACTTTAATTGGT-TA
128 TTAATTTTTTATTTTTTAATTGAAATTATCTATACTTTAATTGGTATA
* *
37392748 -A-AATATATTCAATTGAAATGTATTAAAATATTTTTATTTAATCTTTAAATTGAGTTTTAATTA
1 TATAATATATTCAATTGAAATGTATTAAATTATTTTTATTTAATCTTTAAATTGATTTTTAATTA
37392811 AAATTAAGAAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTTAATGTATTTA
66 AAATTAAGAAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTTAATGTATTTA
37392876 ATTTTTTTATTTTTTAATTGAAATTATCTATACTTTAATTGGTATA
131 A-TTTTTTATTTTTTAATTGAAATTATCTATACTTTAATTGGTATA
* *
37392922 TTAGTTGGTTTTAATCT-TTCAATTGAAATGTTTTAAATTATTATTTATTTAATCTTTAAATTGA
1 -TA--------TAATATATTCAATTGAAATGTATTAAATTATT-TTTATTTAATCTTTAAATTGA
*
37392986 TTTTATAATTAAAATTAAAAAATC
56 TTTT-TAATTAAAATTAAGAAATC
37393010 ATGGGAAATC
Statistics
Matches: 231, Mismatches: 14, Indels: 23
0.86 0.05 0.09
Matches are distributed among these distances:
170 66 0.29
171 4 0.02
172 29 0.13
173 59 0.26
174 3 0.01
176 1 0.00
184 23 0.10
185 28 0.12
186 18 0.08
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.51
Consensus pattern (175 bp):
TATAATATATTCAATTGAAATGTATTAAATTATTTTTATTTAATCTTTAAATTGATTTTTAATTA
AAATTAAGAAATCCAATTAATTTTTAATTTAAACTTTAATTATCAAGTTAAACTTAATGTATTTA
ATTTTTTATTTTTTAATTGAAATTATCTATACTTTAATTGGTATA
Found at i:37392849 original size:19 final size:18
Alignment explanation
Indices: 37392827--37392879 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
37392817 AGAAATCCAA
37392827 TTAATTTTTAATTTAAAC
1 TTAATTTTTAATTTAAAC
* * *
37392845 TTTAATTATCAAGTTAAAC
1 -TTAATTTTTAATTTAAAC
37392864 TTAATGTATTTAATTT
1 TTAAT-T-TTTAATTT
37392880 TTTTATTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (18 bp):
TTAATTTTTAATTTAAAC
Found at i:37416214 original size:3 final size:3
Alignment explanation
Indices: 37416163--37416254 Score: 52
Period size: 3 Copynumber: 32.7 Consensus size: 3
37416153 GCTGATAATG
* * * * * * *
37416163 TAA TAG TAA TGA TAA TAG TAA TAA TAG TAA AAA TAA AAA TAA -CA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
37416210 TAA TAA -AA -AA TAA -GA TAA TAA TAA TAG CAA TAA -AA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37416253 TA
1 TA
37416255 GTGATATTAG
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
2 10 0.15
3 55 0.85
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:37416219 original size:18 final size:18
Alignment explanation
Indices: 37416197--37416233 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
37416187 TAGTAAAAAT
37416197 AAAAATAACATAATAATA
1 AAAAATAACATAATAATA
*
37416215 AAAAATAAGATAATAATA
1 AAAAATAACATAATAATA
37416233 A
1 A
37416234 TAGCAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAAATAACATAATAATA
Found at i:37419050 original size:15 final size:15
Alignment explanation
Indices: 37419032--37419082 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
37419022 TCACTCAAAT
*
37419032 CTTCACTATCGAACC
1 CTTCATTATCGAACC
*
37419047 CTTCTTTATCAGAA-C
1 CTTCATTATC-GAACC
37419062 CTTCATTATC-AGACC
1 CTTCATTATCGA-ACC
37419077 CTTCAT
1 CTTCAT
37419083 CACCATCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 1 0.03
14 1 0.03
15 25 0.83
16 3 0.10
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.35
Consensus pattern (15 bp):
CTTCATTATCGAACC
Found at i:37419944 original size:107 final size:108
Alignment explanation
Indices: 37419816--37420011 Score: 290
Period size: 107 Copynumber: 1.8 Consensus size: 108
37419806 TGATGTCGGT
* * * *
37419816 CATCTAGTTCCCCAAATCCAAATTTTTTTTATCTGATAAAGT-AGGTGCCGACCATTACTGTGCC
1 CATCTAGTTCCCCAAACCCAAATTTTATTTATCTGATAAAGTGA-GTGCCGACCATCAATGTGCC
*
37419880 AACA-CAAAAAAATTATTTTTTAATCCGAAAAGCTGATGATGAC
65 AACACCAAAAAAAATATTTTTTAATCCGAAAAGCTGATGATGAC
*
37419923 CATCTAGTATTCCC-AACCCAAATTTTATTTATCTGATAAAGTGAGTGCCGACCATCAATGTGCC
1 CATCTAGT-TCCCCAAACCCAAATTTTATTTATCTGATAAAGTGAGTGCCGACCATCAATGTGCC
37419987 AACACCCAAAAAAAATATTTTTTAA
65 AACA-CCAAAAAAAATATTTTTTAA
37420012 AAATTATAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
107 56 0.71
108 5 0.06
109 18 0.23
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (108 bp):
CATCTAGTTCCCCAAACCCAAATTTTATTTATCTGATAAAGTGAGTGCCGACCATCAATGTGCCA
ACACCAAAAAAAATATTTTTTAATCCGAAAAGCTGATGATGAC
Found at i:37419994 original size:52 final size:52
Alignment explanation
Indices: 37419833--37419996 Score: 129
Period size: 52 Copynumber: 3.1 Consensus size: 52
37419823 TTCCCCAAAT
* *
37419833 CCAAATTTTTTTTATCTGATAAAGT-AGGTGCCGACCATTACTGTGCCAACAC
1 CCAAATTTTTTTTATCTGATAAAGTGA-GTGCCGACCATCAATGTGCCAACAC
** * ** * * * *
37419885 AAAAAAATTATTTTTTAATCCGA-AAAGCTGA-TGATGACCATCTAGTATTCCCA-AC
1 --CCAAATT-TTTTTT-ATCTGATAAAG-TGAGTGCCGACCATC-AATGTGCCAACAC
*
37419940 CCAAATTTTATTTATCTGATAAAGTGAGTGCCGACCATCAATGTGCCAACAC
1 CCAAATTTTTTTTATCTGATAAAGTGAGTGCCGACCATCAATGTGCCAACAC
37419992 CCAAA
1 CCAAA
37419997 AAAAATATTT
Statistics
Matches: 82, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
51 14 0.17
52 25 0.30
53 5 0.06
54 5 0.06
55 20 0.24
56 12 0.15
57 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (52 bp):
CCAAATTTTTTTTATCTGATAAAGTGAGTGCCGACCATCAATGTGCCAACAC
Found at i:37430484 original size:13 final size:13
Alignment explanation
Indices: 37430451--37430493 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
37430441 TTTTAAATTA
*
37430451 TTTTGGTTTTA-T
1 TTTTTGTTTTATT
*
37430463 TTTAT-TTTTATT
1 TTTTTGTTTTATT
37430475 TTTTTGTTTTATT
1 TTTTTGTTTTATT
37430488 TTTTTG
1 TTTTTG
37430494 GTTGTGGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 13 0.50
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (13 bp):
TTTTTGTTTTATT
Found at i:37430924 original size:176 final size:176
Alignment explanation
Indices: 37430634--37431552 Score: 760
Period size: 176 Copynumber: 5.2 Consensus size: 176
37430624 GAGATAAGAC
* ** *
37430634 TGGCTTAAATCTGCTCCATTGCCTG-TACATGGAGATAAGATTTGCCCTCTTCGAT--CT--ACT
1 TGGCTAAAATCTGCTCCATTG-CTGATACATGGAGATAAGATTCACCATCTTCGATCACTCCACT
* * *
37430694 GCAACCTCAGGGA-ATTAAGATCTTCAATCTTCAGTCTGCTCCCTTGA-TACCTCAGGAAGATAA
65 GCAACTTCAGGGAGA-TAAGATCTTCAATCTTCAGTCTGCTTCCTT-ACTACCTCAGAAAGATAA
* ** *
37430757 GACTTATTCTTCAATTTGTTCTCTTGCTACCTCAGAGAGATAAGGCTGG
128 GACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGG
* *
37430806 TGG-TAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATTTTTGATCTACTCCACT
1 TGGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTTCGATC-ACTCCACT
* * *
37430870 GCAACTTCATGGAGGTAAGATCTTCAATCTTCAGTCTGCTTTCTTACTACCTCAGAAAGATAAGA
65 GCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAGA
* * * * * *
37430935 CTCATTCTTCAACTTGCTCTCTTGCTACCTCAAAGAGGTGAGACGGG
130 CTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGG
* * * *
37430982 TGG-TAAAATCTTCTCCATTG-TCGATACATGGAGATAAAATTCACCATATTCGATGCACTCCTC
1 TGGCTAAAATCTGCTCCATTGCT-GATACATGGAGATAAGATTCACCATCTTCGAT-CACTCCAC
** * * * * *
37431045 TGCAACTTTGGGGAGATAAGATCTTTAATCTCCAGTCTTCTTTCC-TGCTACCTTAGAAAGATAA
64 TGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGC-TTCCTTACTACCTCAGAAAGATAA
* * *
37431109 GACTCATTCTTTAACCTGCTCTTTTGCTACCTCAGAGAGATAAGGCTTG
128 GACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGG
* ** * * * * *
37431158 CGGCTTCAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCATCCTCCG-TCAGCTCCGC
1 TGGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCAT-CTTCGATCA-CTCCAC
* ** * * * * * *
37431222 TACTGC-TCAGGGAGATAAGATCTTCAATCTTTAGTCTACTTCCTTGCTACATCAGGACGATAAG
64 TGCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAG
* * * *
37431286 ACT-ATTATCTTCAACCTACTCTCTTGTTACCTTAGAGAGATAAGG-TCAG
129 ACTCA-T-TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GG
* ** ** ** *
37431335 TGGCTAAAATCCGCT-CATTGCCAATACATGGAGATAAGATTTGCCATCTTCGATCTGTTCCGCT
1 TGGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTTCGATC-ACTCCACT
* ** * *** * * * * * *
37431399 ACTGCTT-AGGAAGATAAGATCTGGGATTTTCATTCTGC-TCCACTGCAATCTCAGAAAGATAAG
65 GCAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCC-TTACTACCTCAGAAAGATAAG
* * * * * *
37431462 ACTTCAATCTTCAACATCCTCTCTTACTACTTCAGAGAGATAAGGTTTGG
129 AC-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG-CTGG
* * * * *
37431512 -GGCTTAAATCTACTCTATTGCCGATACATGGTGATAAGATT
1 TGGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATT
37431553 TGCCTCCTCC
Statistics
Matches: 608, Mismatches: 111, Indels: 51
0.79 0.14 0.07
Matches are distributed among these distances:
170 3 0.00
171 41 0.07
172 3 0.00
174 2 0.00
175 14 0.02
176 420 0.69
177 120 0.20
178 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (176 bp):
TGGCTAAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTTCGATCACTCCACTG
CAACTTCAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGAAAGATAAGAC
TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGG
Found at i:37431416 original size:352 final size:351
Alignment explanation
Indices: 37430634--37431567 Score: 888
Period size: 353 Copynumber: 2.7 Consensus size: 351
37430624 GAGATAAGAC
* ** * *
37430634 TGGCTTAAATCTGCTCCATTGCCTGTACATGGAGATAAGATTTGCCCTCTTCGATC-TACTGCAA
1 TGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTTGCCATCTTCGATCTTTCTGCAA
* * * *
37430698 C-CTCAGGGAA-TTAAGATCTTCAATCTTCAGTCTGCTCCCTTGATACCTCAGGAAGATAAGACT
66 CTCTTA-GGAAGATAAGATCTTCAATCTTCAGTCTGCTCCC-TGCTACCTCAGAAAGATAAGACT
* ** * * * * *
37430761 TATTCTTCAATTTGTTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATCTGCTCCATT
129 CATTCTTCAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGCGGCTTAAATCTACTCCATT
* * * ** * * *
37430825 GCTGATACATGGAGATAAGATTCACCAT-TTTTGATCTACTCCACTGCAACTTCATGGAGGTAAG
194 GCCGATACATGGAGATAAGATTCGCCATCCTCCGATCTACTCCACTACAACTTCAGGGAGATAAG
* * * * *
37430889 ATCTTCAATCTTCAGTCTGCTTTCTTACTACCTCAGAAAGATAAGACTCATTCTTCAACTTGCTC
259 ATCTTCAATCTTCAGTCTACTTCCTTACTACATCAGAAAGATAAGACTCATTCTTCAACCTACTC
* * *
37430954 TCTTGCTACCTCAAAGAGGTGAGACGGG
324 TCTTGCTACCTCAAAGAGATAAGACGAG
* * * * ** * *
37430982 TGG-TAAAATCTTCTCCATTGTCGATACATGGAGATAAAATTCACCATATTCGATGCACTCCTCT
1 TGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTTGCCATCTTCGAT---CT-TTCT
* * * * * * *
37431046 GCAACT-TTGGGGAGATAAGATCTTTAATCTCCAGTCTTCTTTCCTGCTACCTTAGAAAGATAAG
62 GCAACTCTTAGGAAGATAAGATCTTCAATCTTCAGTCTGC-TCCCTGCTACCTCAGAAAGATAAG
* * * *
37431110 ACTCATTCTTTAACCTGCTCTTTTGCTACCTCAGAGAGATAAGGCTTGCGGCTTCAATCTACTCC
126 ACTCATTCTTCAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGCGGCTTAAATCTACTCC
* **
37431175 ATTGCCGATACATGGAGATAAGATTCGCCATCCTCCG-TC-AGCTCCGCTACTGC-TCAGGGAGA
191 ATTGCCGATACATGGAGATAAGATTCGCCATCCTCCGATCTA-CTCCACTACAACTTCAGGGAGA
* * * *
37431237 TAAGATCTTCAATCTTTAGTCTACTTCCTTGCTACATCAGGACGATAAGACT-ATTATCTTCAAC
255 TAAGATCTTCAATCTTCAGTCTACTTCCTTACTACATCAGAAAGATAAGACTCA-T-TCTTCAAC
* * * *
37431301 CTACTCTCTTGTTACCTTAGAGAGATAAGGTC-AG
318 CTACTCTCTTGCTACCTCAAAGAGATAA-GACGAG
* * *
37431335 TGGCTAAAATCCGCT-CATTGCCAATACATGGAGATAAGATTTGCCATCTTCGATCTGTTCCGCT
1 TGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTTGCCATCTTCGATCT-TTCTGCA
*** * * * *
37431399 ACTGCTTAGGAAGATAAGATCTGGGATTTTCATTCTGCTCCACTGCAATCTCAGAAAGATAAGAC
65 ACT-CTTAGGAAGATAAGATCTTCAATCTTCAGTCTGCTCC-CTGCTACCTCAGAAAGATAAGAC
* * * * * * *
37431464 TTCAATCTTCAACATCCTCTCTTACTACTTCAGAGAGATAAGGTTTGGGGCTTAAATCTACTCTA
128 -TCATTCTTCAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGCGGCTTAAATCTACTCCA
* * *
37431529 TTGCCGATACATGGTGATAAGATTTGCC-TCCTCCAATCT
192 TTGCCGATACATGGAGATAAGATTCGCCATCCTCCGATCT
37431568 TCAATCTTCA
Statistics
Matches: 465, Mismatches: 100, Indels: 36
0.77 0.17 0.06
Matches are distributed among these distances:
347 41 0.09
348 3 0.01
350 10 0.02
351 6 0.01
352 193 0.42
353 199 0.43
354 13 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (351 bp):
TGGCTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTTGCCATCTTCGATCTTTCTGCAA
CTCTTAGGAAGATAAGATCTTCAATCTTCAGTCTGCTCCCTGCTACCTCAGAAAGATAAGACTCA
TTCTTCAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGCGGCTTAAATCTACTCCATTGC
CGATACATGGAGATAAGATTCGCCATCCTCCGATCTACTCCACTACAACTTCAGGGAGATAAGAT
CTTCAATCTTCAGTCTACTTCCTTACTACATCAGAAAGATAAGACTCATTCTTCAACCTACTCTC
TTGCTACCTCAAAGAGATAAGACGAG
Found at i:37431635 original size:44 final size:44
Alignment explanation
Indices: 37431566--37431651 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
37431556 CTCCTCCAAT
**
37431566 CTTCAATCTTCAGTCTGTTTCCTTGCTACCTCAG-GAAGATAAGA
1 CTTCAATCTTCAACCTGTTTCCTTGCTACCTCAGAG-AGATAAGA
37431610 CTTCAATCTTCAACCTGCTTT-CTTGCTACCTCAGAGAGATAA
1 CTTCAATCTTCAACCTG-TTTCCTTGCTACCTCAGAGAGATAA
37431652 TGTCAGTGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 34 0.89
45 4 0.11
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.34
Consensus pattern (44 bp):
CTTCAATCTTCAACCTGTTTCCTTGCTACCTCAGAGAGATAAGA
Found at i:37431866 original size:133 final size:133
Alignment explanation
Indices: 37431667--37431921 Score: 388
Period size: 133 Copynumber: 1.9 Consensus size: 133
37431657 GTGGCTAAAA
*
37431667 TCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCATCAATCTGCCCCACTACTGCCTAG
1 TCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCATCAATCTGCCCCACTACTGCCTAG
*
37431732 GGAGATAAGATCTACAAAT-TCCAGTCTGCTTCCTTGCTACCTCAGAAAGATAAGACTACTATTG
66 GGAGATAAGATCTAC-AATCTCCAGTCTGCTTCCTTGCTACCACAGAAAGATAAGACTACTATTG
37431796 CCAG
130 CCAG
* * * * *
37431800 TCTGCTCCATTGCCGGTACATGGAGATAAGATTCACTAT-ATTCGATCTGCTCCACTACTGCTTA
1 TCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCA-TCAATCTGCCCCACTACTGCCTA
* * *
37431864 GGGAGGTAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCACAGAAAGATAAGACT
65 GGGAGATAAGATCTACAATCTCCAGTCTGCTTCCTTGCTACCACAGAAAGATAAGACT
37431922 CAACTTTCAA
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
132 4 0.04
133 106 0.96
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (133 bp):
TCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCATCAATCTGCCCCACTACTGCCTAG
GGAGATAAGATCTACAATCTCCAGTCTGCTTCCTTGCTACCACAGAAAGATAAGACTACTATTGC
CAG
Found at i:37432282 original size:64 final size:64
Alignment explanation
Indices: 37432158--37432312 Score: 193
Period size: 64 Copynumber: 2.4 Consensus size: 64
37432148 TGATAAGAAA
* * * * * **
37432158 GAATCAAATGCTCCTAACTAAATGAGATATGAGTGATGTTAAATAATTAGGACACTATAATTGAA
1 GAATCAAATGCTCCTAACTAGATG-TA-ATG-CTTATGTCAAATAATTAGGACACTATAATCAAA
37432223 AT
63 AT
* **
37432225 GAATCAAATGCTCTTAACTAGATGTAATGCTTATGTCAAATAATTAGGATGCTATAATCAAAAT
1 GAATCAAATGCTCCTAACTAGATGTAATGCTTATGTCAAATAATTAGGACACTATAATCAAAAT
37432289 GAATCAAATGCTCCTAACTAGATG
1 GAATCAAATGCTCCTAACTAGATG
37432313 CGTGATTTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 51 0.66
65 3 0.04
66 1 0.01
67 22 0.29
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (64 bp):
GAATCAAATGCTCCTAACTAGATGTAATGCTTATGTCAAATAATTAGGACACTATAATCAAAAT
Found at i:37433952 original size:28 final size:27
Alignment explanation
Indices: 37433913--37433975 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
37433903 TCACTATGAC
37433913 CTTTGTTTTATTGTTTG-CTTTTCCTTTT
1 CTTT-TTTTATT-TTTGACTTTTCCTTTT
**
37433941 CTTTTTTCTATTTTTGTACTTTTGTTTTT
1 CTTTTTT-TATTTTTG-ACTTTTCCTTTT
37433970 CTTTTT
1 CTTTTT
37433976 GGATGCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 7 0.23
28 8 0.27
29 15 0.50
ACGTcount: A:0.05, C:0.13, G:0.08, T:0.75
Consensus pattern (27 bp):
CTTTTTTTATTTTTGACTTTTCCTTTT
Found at i:37440262 original size:13 final size:13
Alignment explanation
Indices: 37440229--37440271 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
37440219 TTTTAAATTA
*
37440229 TTTTGGTTTTA-T
1 TTTTTGTTTTATT
*
37440241 TTTAT-TTTTATT
1 TTTTTGTTTTATT
37440253 TTTTTGTTTTATT
1 TTTTTGTTTTATT
37440266 TTTTTG
1 TTTTTG
37440272 GTTGTGGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 13 0.50
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (13 bp):
TTTTTGTTTTATT
Found at i:37440711 original size:176 final size:174
Alignment explanation
Indices: 37440403--37441332 Score: 869
Period size: 176 Copynumber: 5.3 Consensus size: 174
37440393 TTTTTTTGGG
* * * ** * *
37440403 GAGATAAGACTGG-CTTAAATCTGCTCCATTGCATG-TACATGGAGATAAGATTTGCCCTCTTCG
1 GAGATAAGGCTGGTGTTAAATCTGCTCCATTGC-CGATACATGGAGATAAGATTCACCATTTTCG
* * * * * * ** *
37440466 ATCTACT--GC-A-ACCTCAGGGAAATAAGATCTTCAATATTCAGTCTGCTCCCTTGTTACCTCA
65 ATCTGCTCCGCTACAGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCA
* * * *
37440527 GGAAGATAAGACTTATTCTTCAATTTGTTCTCTTGCTACCTCAGA
130 GAAAGATAAGACTCATTCTTCAACTTGCTCTCTTGCTACCTCAGA
* **
37440572 GAGATAAGGCTGGTGATAAAGTCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTTT
1 GAGATAAGGCTGGTGTTAAA-TCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCG
* * *
37440637 ATCTGCTCCACTGCAGCTTCAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTACTACCTC
65 ATCTGCTCCGCTACAGCTT-AAGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTC
*
37440702 AGAAAGATAAGACTCATTCTTCAACTTGCTCTCTTGCTACCTCAAA
129 AGAAAGATAAGACTCATTCTTCAACTTGCTCTCTTGCTACCTCAGA
* * * * * *
37440748 GAGGTAAGGCAGGTGGTAAAATCTTCTCCATTGCCGATACATGGAGATAAAATTCACCATATTCG
1 GAGATAAGGCTGGT-GTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCG
** * * * * *
37440813 ATCCACTCCTCTGCAAG-TGGAGGGAGATAAGATCTTTAATCTTCAGTCTGCTTTCTTGCTACCT
65 ATCTGCTCCGCTAC-AGCT-TAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCT
* * * *
37440877 CAGAAAGATAAGACTCATTCTTTAACTTTCTCTATTGCTACCCCAGA
128 CAGAAAGATAAGACTCATTCTTCAACTTGCTCTCTTGCTACCTCAGA
* * * * ** *
37440924 GAGATAAGGCTTGGGGCTTCAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCCTG
1 GAGATAAGGC-TGGTG-TTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTC
* * * *
37440989 GATCTGCTCCGCTACTGCTTAAGGAGATAAGATCTTTAATCTTTAGTCTAC-TTCATTGCTACCT
64 GATCTGCTCCGCTACAGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTTC-TTGCTACCT
* * * * *
37441053 CAGGAAGATAAGACT-ATTATCTTCAACCTACTCTCTTGTTACCTCAAA
128 CAGAAAGATAAGACTCA-T-TCTTCAACTTGCTCTCTTGCTACCTCAGA
* * *
37441101 GAGATAAGGTCAGTGG-CTAAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCACCATTTT
1 GAGATAAGG-C--TGGTGTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTT
* * * * * * * * * * *
37441165 CAATCTGTTCTGCTACTGCTTAGGGAGATAAGATCTGT-GATTTTCAGTCTG-TTCCACTACAAC
63 CGATCTGCTCCGCTACAGCTTAAGGAGATAAGATCT-TCAATCTTCAGTCTGCTTTC-TTGCTAC
* * *
37441228 CTCA-AGAAGATAAGACATCAATCTTCAACATGCTCTCTTACTACCTCAGA
126 CTCAGA-AAGATAAGAC-TCATTCTTCAACTTGCTCTCTTGCTACCTCAGA
* * *
37441278 GAGATAAGGTTTGGGGCTTAAATCTACTCCATTGCCGATACATGGAGATAAGATT
1 GAGATAAGG-CTGGTG-TTAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
37441333 TGCCTCTTCC
Statistics
Matches: 626, Mismatches: 109, Indels: 44
0.80 0.14 0.06
Matches are distributed among these distances:
169 12 0.02
170 5 0.01
171 41 0.07
173 1 0.00
175 10 0.02
176 288 0.46
177 262 0.42
178 3 0.00
179 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (174 bp):
GAGATAAGGCTGGTGTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATTTTCGA
TCTGCTCCGCTACAGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAG
AAAGATAAGACTCATTCTTCAACTTGCTCTCTTGCTACCTCAGA
Found at i:37441493 original size:147 final size:147
Alignment explanation
Indices: 37441226--37441494 Score: 414
Period size: 147 Copynumber: 1.8 Consensus size: 147
37441216 TTCCACTACA
**
37441226 ACCTCAAGAAGATAAGACATCAATCTTCAACATGCTCTCTTACTACCTCAGAGAGATAAGGTTTG
1 ACCTCAAGAAGATAAGACATCAATCTTCAACATGCTCTCTTACTACCTCAGAGAGATAAGGTCAG
* * *
37441291 GGGCTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTTGCCTCTTCCAATCTTAAATCTT
66 GGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCTCATCCAATCTTAAATCTT
37441356 CATTCTACTTCCTTGCT
131 CATTCTACTTCCTTGCT
* * * * *
37441373 ACCTCAAGAAGATAAGACTTCAATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAATGTCAG
1 ACCTCAAGAAGATAAGACATCAATCTTCAACATGCTCTCTTACTACCTCAGAGAGATAAGGTCAG
* *
37441438 TGGCTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCAT-CAATCT
66 GGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCC-TCATCCAATCT
37441495 GCCCCACTAC
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
147 106 0.97
148 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (147 bp):
ACCTCAAGAAGATAAGACATCAATCTTCAACATGCTCTCTTACTACCTCAGAGAGATAAGGTCAG
GGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCTCATCCAATCTTAAATCTT
CATTCTACTTCCTTGCT
Found at i:37441646 original size:133 final size:133
Alignment explanation
Indices: 37441445--37441701 Score: 390
Period size: 133 Copynumber: 1.9 Consensus size: 133
37441435 CAGTGGCTAA
* *
37441445 AATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCATCAATCTGCCCCACTACTGCCT
1 AATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCATCAATCTGCCCCACTACTGCCT
*
37441510 AGGGAGATAAGATCTACAAAT-TCCAGTCTGCTTTCTTCCTACCTCAGGAAGATAAGACTACAAT
66 AGGGAGATAAGATCTAC-AATCTCCAGTCTGCTTCCTTCCTACCTCAGGAAGATAAGACTACAAT
37441574 CGCC
130 CGCC
* * * * * *
37441578 AATCTACTCCATTGTCGATACATGGAGATAAGATTCACTATCTTCGATCTGCTCCACTACTGCTT
1 AATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCATCAATCTGCCCCACTACTGCCT
* * *
37441643 AGGGAGGTAAGATCTTCAATCTTCAGTCTGCTTCCTTCCTACCTCAGGAAGATAAGACT
66 AGGGAGATAAGATCTACAATCTCCAGTCTGCTTCCTTCCTACCTCAGGAAGATAAGACT
37441702 CAACTTTTAA
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
132 3 0.03
133 108 0.97
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (133 bp):
AATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCATCAATCTGCCCCACTACTGCCT
AGGGAGATAAGATCTACAATCTCCAGTCTGCTTCCTTCCTACCTCAGGAAGATAAGACTACAATC
GCC
Found at i:37442069 original size:64 final size:67
Alignment explanation
Indices: 37441934--37442092 Score: 209
Period size: 64 Copynumber: 2.4 Consensus size: 67
37441924 GCCATGATAA
* * * *
37441934 AAAAT-AATCAAATGCTCTTAACTAAATGATATATGAGTGATGTCAAATAATTAGGACGCTATGA
1 AAAATGAATCAAATGCTCTTAACTAGATGATATATGACTGATGTCAAATAATTAGGACACTATAA
37441998 TC
66 TC
* * * *
37442000 GAAATGAATCAAATGCTCTTAACTAGA-GGTA-ATG-CTTATGTCAAATAATTAGGATACTATAA
1 AAAATGAATCAAATGCTCTTAACTAGATGATATATGACTGATGTCAAATAATTAGGACACTATAA
37442062 TC
66 TC
*
37442064 AAAATGAATCAAATGCTCCTAACTAGATG
1 AAAATGAATCAAATGCTCTTAACTAGATG
37442093 CGAGATTTAT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
64 50 0.62
65 4 0.05
66 7 0.09
67 20 0.25
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (67 bp):
AAAATGAATCAAATGCTCTTAACTAGATGATATATGACTGATGTCAAATAATTAGGACACTATAA
TC
Found at i:37443106 original size:21 final size:22
Alignment explanation
Indices: 37443073--37443135 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
37443063 TGGCCTCTCC
37443073 TTTTCTTTC-TTTTTTTTTAAAA
1 TTTTC-TTCATTTTTTTTTAAAA
* * *
37443095 TTTT-TTGATTTTCTTTTTTAAT
1 TTTTCTTCATTTT-TTTTTAAAA
*
37443117 TTTTCTTCTTTTTTTTTTA
1 TTTTCTTCATTTTTTTTTA
37443136 TTTTGATTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
20 2 0.06
21 4 0.12
22 20 0.62
23 6 0.19
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCTTCATTTTTTTTTAAAA
Found at i:37443734 original size:28 final size:28
Alignment explanation
Indices: 37443698--37443760 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
37443688 TCACTATGAC
*
37443698 CTTTGTTCTATTGTTTG-CTTTTCCTTTT
1 CTTTTTTCTATT-TTTGACTTTTCCTTTT
**
37443726 CTTTTTTCTATTTTTGTACTTTTGTTTTT
1 CTTTTTTCTATTTTTG-ACTTTTCCTTTT
37443755 CTTTTT
1 CTTTTT
37443761 GGATGCCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 4 0.13
28 11 0.37
29 15 0.50
ACGTcount: A:0.05, C:0.14, G:0.08, T:0.73
Consensus pattern (28 bp):
CTTTTTTCTATTTTTGACTTTTCCTTTT
Found at i:37452631 original size:13 final size:13
Alignment explanation
Indices: 37452607--37452650 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
37452597 TTCCTGTAAA
*
37452607 CATTTCACATAAC
1 CATTTCATATAAC
**
37452620 CATTTTGTATAAC
1 CATTTCATATAAC
*
37452633 CAATTCATATAAC
1 CATTTCATATAAC
37452646 CATTT
1 CATTT
37452651 GTCATCTGGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:37452795 original size:46 final size:46
Alignment explanation
Indices: 37452733--37452868 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
37452723 TTATATTTGA
* * * *** *
37452733 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTTGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTCATAT
*
37452779 CATGTTGCCATGGTATCTTTCAGCCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
37452825 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
37452869 TTCAGAGAGC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 4 0.05
46 75 0.95
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:37453356 original size:23 final size:24
Alignment explanation
Indices: 37453325--37453375 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
37453315 AAGTTCAAGC
*
37453325 GAGCACTATAGGGAGGCTCACAAA
1 GAGCACTATAGGGAAGCTCACAAA
* *
37453349 GAGC-CTATCGGGAAGCTCACGAA
1 GAGCACTATAGGGAAGCTCACAAA
37453372 GAGC
1 GAGC
37453376 TGTATTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.33, C:0.24, G:0.31, T:0.12
Consensus pattern (24 bp):
GAGCACTATAGGGAAGCTCACAAA
Found at i:37458587 original size:29 final size:27
Alignment explanation
Indices: 37458512--37458587 Score: 64
Period size: 29 Copynumber: 2.7 Consensus size: 27
37458502 TATCATATAA
*
37458512 ATATCTTATAATATAATTATAATAAATT
1 ATATTTTATAATA-AATTATAATAAATT
* **
37458540 A-ATTTAATATCATTTATTACTAATAAATAT
1 ATATTT--TATAATAAATTA-TAATAAAT-T
37458570 ATATTTTATAATAAATTA
1 ATATTTTATAATAAATTA
37458588 GATTTTTACT
Statistics
Matches: 36, Mismatches: 7, Indels: 9
0.69 0.13 0.17
Matches are distributed among these distances:
27 3 0.08
28 5 0.14
29 22 0.61
30 2 0.06
31 4 0.11
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATTTTATAATAAATTATAATAAATT
Found at i:37458592 original size:17 final size:18
Alignment explanation
Indices: 37458560--37458593 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37458550 CATTTATTAC
*
37458560 TAATAAATATATATTTTA
1 TAATAAATATAGATTTTA
37458578 TAATAAAT-TAGATTTT
1 TAATAAATATAGATTTT
37458594 TACTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TAATAAATATAGATTTTA
Found at i:37458764 original size:23 final size:19
Alignment explanation
Indices: 37458719--37458766 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 19
37458709 AATTATCCTT
*
37458719 AATTAAACTAAATTCACTT
1 AATTAAACTAAATTCACTC
37458738 AATTAAACTATAATTAACCACTC
1 AATTAAACTA-AATT---CACTC
37458761 AATTAA
1 AATTAA
37458767 CTTTTTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.42
20 4 0.17
23 10 0.42
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTAAACTAAATTCACTC
Found at i:37461794 original size:26 final size:26
Alignment explanation
Indices: 37461755--37461838 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
37461745 TAAATAAGAA
*
37461755 TTAAAAAATGAATGTGAAATGGATCT
1 TTAAAAAATAAATGTGAAATGGATCT
* ** *
37461781 TTGAAAAAAT-AATG-AAAACAAGA--A
1 TT-AAAAAATAAATGTGAAA-TGGATCT
37461805 TTAAAAAATAAATGTGAAATGGATCT
1 TTAAAAAATAAATGTGAAATGGATCT
37461831 TTAAAAAA
1 TTAAAAAA
37461839 AATAATGAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 12
0.69 0.12 0.19
Matches are distributed among these distances:
23 7 0.16
24 8 0.18
25 6 0.14
26 16 0.36
27 7 0.16
ACGTcount: A:0.56, C:0.04, G:0.14, T:0.26
Consensus pattern (26 bp):
TTAAAAAATAAATGTGAAATGGATCT
Found at i:37461807 original size:50 final size:51
Alignment explanation
Indices: 37461736--37461849 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 51
37461726 CTCAAAATAT
* * * *
37461736 AAAAATAA-GTAAATAAGAATTAAAAAATGAATGTGAAATGGATCTTT-GA
1 AAAAATAATGAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
37461785 AAAAATAATGAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
1 AAAAATAATGAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
37461836 AAAAATAATGAAAA
1 AAAAATAATGAAAA
37461850 AAAACTCAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
49 8 0.14
50 36 0.61
51 15 0.25
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.24
Consensus pattern (51 bp):
AAAAATAATGAAAACAAGAATTAAAAAATAAATGTGAAATGGATCTTTAAA
Found at i:37461864 original size:15 final size:14
Alignment explanation
Indices: 37461831--37461873 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
37461821 AAATGGATCT
37461831 TTAAAAAAAA-TAA
1 TTAAAAAAAACTAA
*
37461844 TGAAAAAAAACTCAA
1 TTAAAAAAAACT-AA
37461859 TTAAAATAAAACTAA
1 TTAAAA-AAAACTAA
37461874 AATGAAAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 9 0.36
14 1 0.04
15 9 0.36
16 6 0.24
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (14 bp):
TTAAAAAAAACTAA
Found at i:37463011 original size:17 final size:17
Alignment explanation
Indices: 37462989--37463034 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
37462979 TTGGACTTTA
37462989 ATTTTGGTTTTTTTATT
1 ATTTTGGTTTTTTTATT
* *
37463006 ATTTTGATTTATTTTGTT
1 ATTTTGGTTT-TTTTATT
37463024 -TTTTGGTTTTT
1 ATTTTGGTTTTT
37463035 GTATAAGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 17 0.68
18 6 0.24
ACGTcount: A:0.11, C:0.00, G:0.13, T:0.76
Consensus pattern (17 bp):
ATTTTGGTTTTTTTATT
Found at i:37475400 original size:17 final size:17
Alignment explanation
Indices: 37475378--37475412 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37475368 CACAGGTAGC
37475378 CGTGTGTCGCACACAGG
1 CGTGTGTCGCACACAGG
37475395 CGTGTGTCGCACACAGG
1 CGTGTGTCGCACACAGG
37475412 C
1 C
37475413 AGTCCACACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.31, G:0.34, T:0.17
Consensus pattern (17 bp):
CGTGTGTCGCACACAGG
Found at i:37480180 original size:25 final size:25
Alignment explanation
Indices: 37480146--37480201 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
37480136 GTTTTAGTTG
37480146 TTGGGCCATTTGGGCCTTGTATTTT
1 TTGGGCCATTTGGGCCTTGTATTTT
*
37480171 TTGGGCCATTTGGGCTTTGTATTTT
1 TTGGGCCATTTGGGCCTTGTATTTT
37480196 TTGGGC
1 TTGGGC
37480202 TGGGTTTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.07, C:0.14, G:0.30, T:0.48
Consensus pattern (25 bp):
TTGGGCCATTTGGGCCTTGTATTTT
Found at i:37480722 original size:44 final size:44
Alignment explanation
Indices: 37480663--37480867 Score: 108
Period size: 44 Copynumber: 4.4 Consensus size: 44
37480653 TGCTCTGCTA
* * *
37480663 CAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTG
1 CAACTTCAGGAAGATAAGGCTGGTAGCTTCAATCTACTCCACTG
* * * *
37480707 CAACTTCAGGAAGATAAAAGTCACCATAATTTGTAGCTTTAATCTATTCCACTG
1 CAACTTCAGGAAGAT--AAG---GC-----TGGTAGCTTCAATCTACTCCACTG
* ** * * * * *
37480761 CAACGTCAAGGAA-ATAAGATTCGCTATCTTCAGTCTGCTCCGCTG
1 CAACTTC-AGGAAGATAAGGCT-GGTAGCTTCAATCTACTCCACTG
* * *
37480806 CAAATTCTAGG-AGATAAGGCTGGTGGCTTCAATCTGCTCCACTG
1 CAACTTC-AGGAAGATAAGGCTGGTAGCTTCAATCTACTCCACTG
*
37480850 CAACTTTAGGAAGATAAG
1 CAACTTCAGGAAGATAAG
37480868 ATCCGCCATA
Statistics
Matches: 117, Mismatches: 30, Indels: 28
0.67 0.17 0.16
Matches are distributed among these distances:
43 3 0.03
44 45 0.38
45 29 0.25
46 3 0.03
49 1 0.01
52 3 0.03
54 28 0.24
55 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
CAACTTCAGGAAGATAAGGCTGGTAGCTTCAATCTACTCCACTG
Found at i:37480877 original size:143 final size:143
Alignment explanation
Indices: 37480627--37481305 Score: 925
Period size: 143 Copynumber: 4.7 Consensus size: 143
37480617 AGAACTTTAG
* * * *
37480627 GGAAATAAGATTCACTATCTTCAGTCTGCTCTGCTACAACTT-TAGGGAGATAAGGCTGGTGGCT
1 GGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCTA-GGAGATAAGGCTGGTGGCT
* * * *
37480691 TCAATCTACTCCACTGCAACTTCAGGAAGATAAAAGT-CACCATAATTTGTAGCTTTAATCTATT
65 TCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA-TCCGCCATAATTTGTAACTTTAATCTATT
37480755 CCACTGCAACGTCAA
129 CCACTGCAACGTCAA
* *
37480770 GGAAATAAGATTCGCTATCTTCAGTCTGCTCCGCTGCAAATTCTAGGAGATAAGGCTGGTGGCTT
1 GGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCTAGGAGATAAGGCTGGTGGCTT
* *
37480835 CAATCTGCTCCACTGCAACTTTAGGAAGATAAGATCCGCCATAATTTGTAACTTTAACCTATTCC
66 CAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCC
* * *
37480900 ACTGCAACATTAG
131 ACTGCAACGTCAA
* * * * * *
37480913 GGAAATAAGATTCACTGTCTTTAGTCTGCTCCACTACAACTTCAAGGAGATAAGGGTGGTGGCTT
1 GGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCTAGGAGATAAGGCTGGTGGCTT
* * * *
37480978 CAATCTGTTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATATGTTCC
66 CAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCC
* *
37481043 ACTACAATGTCAA
131 ACTGCAACGTCAA
* * * * *
37481056 GGAAATAAGATTCGTTGTCTTCAGTTTGCTCTGTTGCAACTT-TAGGCAGATAAGGCGGGTGGCT
1 GGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCTAGG-AGATAAGGCTGGTGGCT
* *
37481120 TCAATCTGCTCTACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAACTTTAATCTATTC
65 TCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAACTTTAATCTATTC
*
37481185 CACTGCAACGTTAA
130 CACTGCAACGTCAA
* * * *
37481199 GGAAATGAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAAGTTC-AGGGAGATAAGGTTGGTGGCT
1 GGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCTA-GGAGATAAGGCTGGTGGCT
* *
37481263 TCAATCTGCTCCACTGCAACTTCAGGAATATAAGATCTGCCAT
65 TCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCAT
37481306 CTTTGATCTA
Statistics
Matches: 470, Mismatches: 61, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
142 4 0.01
143 462 0.98
144 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (143 bp):
GGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGCAACTTCTAGGAGATAAGGCTGGTGGCTT
CAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAACTTTAATCTATTCC
ACTGCAACGTCAA
Found at i:37481352 original size:20 final size:20
Alignment explanation
Indices: 37481324--37481372 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
37481314 TACTCCATTG
*
37481324 CAACCTCAAGGAGATATCTA
1 CAACTTCAAGGAGATATCTA
37481344 CAACTTCAAGGAGATATCTA
1 CAACTTCAAGGAGATATCTA
37481364 CAACTTCAA
1 CAACTTCAA
37481373 TTTGCTCCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (20 bp):
CAACTTCAAGGAGATATCTA
Found at i:37481647 original size:30 final size:30
Alignment explanation
Indices: 37481612--37481673 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
37481602 GTCATTGCTC
37481612 ATTGTTCATCAAGATTCTATCATTGACACA
1 ATTGTTCATCAAGATTCTATCATTGACACA
37481642 ATTGTTCATCAAGATTCTATCATTGACACA
1 ATTGTTCATCAAGATTCTATCATTGACACA
37481672 AT
1 AT
37481674 ATCTTATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (30 bp):
ATTGTTCATCAAGATTCTATCATTGACACA
Found at i:37482512 original size:20 final size:19
Alignment explanation
Indices: 37482489--37482587 Score: 58
Period size: 20 Copynumber: 5.0 Consensus size: 19
37482479 TTTTGCCTTG
37482489 GTTTCTCCTTTTT-CTCTTTT
1 GTTT-TCCTTTTTGCT-TTTT
*
37482509 GTTTTTCTTTTTTGCTTTTT
1 G-TTTTCCTTTTTGCTTTTT
* *
37482529 CTTTTCCTTTTATTTCTTTTT
1 GTTTTCC-TTT-TTGCTTTTT
* *
37482550 TTATTTTCTTTTTG-TTTTT
1 GT-TTTCCTTTTTGCTTTTT
* * *
37482569 CTTTTCTTTTTTTCTTTTT
1 GTTTTCCTTTTTGCTTTTT
37482588 TTCTTTTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
18 8 0.13
19 16 0.26
20 17 0.27
21 17 0.27
22 4 0.06
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (19 bp):
GTTTTCCTTTTTGCTTTTT
Found at i:37482520 original size:12 final size:12
Alignment explanation
Indices: 37482497--37482605 Score: 85
Period size: 13 Copynumber: 8.4 Consensus size: 12
37482487 TGGTTTCTCC
37482497 TTTTTCTCTTTTG
1 TTTTTCT-TTTTG
37482510 TTTTTCTTTTTTG
1 TTTTTC-TTTTTG
*
37482523 CTTTTTCTTTTCCTT
1 -TTTTTCTTTT--TG
*
37482538 TTATTTCTTTTTT
1 TT-TTTCTTTTTG
37482551 TATTTTCTTTTTG
1 T-TTTTCTTTTTG
*
37482564 TTTTTCTTTTCTT
1 TTTTTCTTTT-TG
37482577 TTTTTCTTTTT-
1 TTTTTCTTTTTG
* *
37482588 TTCTTTTTTTTTA
1 TT-TTTCTTTTTG
37482601 TTTTT
1 TTTTT
37482606 TTAAGGTGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 19
0.78 0.04 0.18
Matches are distributed among these distances:
11 2 0.02
12 21 0.25
13 41 0.49
14 10 0.12
15 9 0.11
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.83
Consensus pattern (12 bp):
TTTTTCTTTTTG
Found at i:37482521 original size:8 final size:8
Alignment explanation
Indices: 37482510--37482597 Score: 74
Period size: 8 Copynumber: 10.6 Consensus size: 8
37482500 TTCTCTTTTG
37482510 TTTTTCTT
1 TTTTTCTT
*
37482518 TTTTGCTT
1 TTTTTCTT
37482526 TTTCTT-TT
1 TTT-TTCTT
* *
37482534 CCTTTTATT
1 -TTTTTCTT
37482543 TCTTTT-TT
1 T-TTTTCTT
37482551 TATTTTCTT
1 T-TTTTCTT
37482560 TTTGTT-TT
1 TTT-TTCTT
37482568 TCTTTTCTT
1 T-TTTTCTT
37482577 TTTTTCTT
1 TTTTTCTT
37482585 TTTTTCTT
1 TTTTTCTT
37482593 TTTTT
1 TTTTT
37482598 TTATTTTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
8 48 0.72
9 19 0.28
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTCTT
Found at i:37482548 original size:48 final size:43
Alignment explanation
Indices: 37482497--37482607 Score: 69
Period size: 42 Copynumber: 2.7 Consensus size: 43
37482487 TGGTTTCTCC
* *
37482497 TTTTTCTCTTTTGTTTTTCTTTT-TTGCTTTTTC--TTTTCCTTT
1 TTTTTCTTTTTTGTTTTTCTTTTCTT--TTTTTCTTTTTTCTTTT
* *
37482539 TATTTCTTTTTT-TATTTTCTTTT-TGTTTTTC--TTTTCTTTT
1 TTTTTCTTTTTTGT-TTTTCTTTTCTTTTTTTCTTTTTTCTTTT
* * *
37482579 TTTCT-TTTTTTCTTTTT-TTTTATTTTTTT
1 TTTTTCTTTTTTGTTTTTCTTTTCTTTTTTT
37482608 AAGGTGAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
38 4 0.07
39 16 0.27
40 18 0.31
41 1 0.02
42 20 0.34
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.83
Consensus pattern (43 bp):
TTTTTCTTTTTTGTTTTTCTTTTCTTTTTTTCTTTTTTCTTTT
Found at i:37482551 original size:1 final size:1
Alignment explanation
Indices: 37482545--37482607 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
37482535 CTTTTATTTC
* * * * * * * *
37482545 TTTTTTTATTTTCTTTTTGTTTTTCTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
37482608 AAGGTGAAAT
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.03, C:0.08, G:0.02, T:0.87
Consensus pattern (1 bp):
T
Found at i:37482556 original size:17 final size:15
Alignment explanation
Indices: 37482510--37482605 Score: 84
Period size: 17 Copynumber: 5.9 Consensus size: 15
37482500 TTCTCTTTTG
* *
37482510 TTTTTCTTTTTTGCT
1 TTTTTTTTTTTTTCT
* *
37482525 TTTTCTTTTCCTTTTAT
1 TTTT-TTTT-TTTTTCT
37482542 TTCTTTTTTTATTTTCT
1 TT-TTTTTTT-TTTTCT
37482559 TTTTGTTTTTCTTTTCT
1 TTTT-TTTTT-TTTTCT
37482576 TTTTTTCTTTTTTTCT
1 TTTTTT-TTTTTTTCT
37482592 TTTTTTTTATTTTT
1 TTTTTTTT-TTTTT
37482606 TTAAGGTGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.09
16 24 0.36
17 35 0.52
18 2 0.03
ACGTcount: A:0.03, C:0.11, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTTTTTCT
Found at i:37482556 original size:29 final size:25
Alignment explanation
Indices: 37482497--37482607 Score: 107
Period size: 25 Copynumber: 4.2 Consensus size: 25
37482487 TGGTTTCTCC
*
37482497 TTTTTCTCTTTTGTTTTTCTTTTTTGC
1 TTTTTCT-TTTTGTTTTTCTTTTTT-T
*
37482524 TTTTTCTTTTCCTTTTATTTCTTTTTTT
1 TTTTTCTTTT--TGTT-TTTCTTTTTTT
* *
37482552 ATTTTCTTTTTGTTTTTCTTTTCTT
1 TTTTTCTTTTTGTTTTTCTTTTTTT
*
37482577 TTTTTCTTTTT-TTCTTTTTTTTTATT
1 TTTTTCTTTTTGTT-TTTCTTTTT-TT
37482603 TTTTT
1 TTTTT
37482608 AAGGTGAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.03
25 27 0.38
26 13 0.18
27 7 0.10
28 12 0.17
29 10 0.14
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.83
Consensus pattern (25 bp):
TTTTTCTTTTTGTTTTTCTTTTTTT
Found at i:37492509 original size:8 final size:8
Alignment explanation
Indices: 37492498--37492535 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
37492488 GGCAAAAGAT
37492498 GAAAAGCC
1 GAAAAGCC
37492506 GAAAAGCC
1 GAAAAGCC
37492514 GAAAAGCC
1 GAAAAGCC
*
37492522 GAAATGCC
1 GAAAAGCC
37492530 GAAAAG
1 GAAAAG
37492536 TCAGTATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.50, C:0.21, G:0.26, T:0.03
Consensus pattern (8 bp):
GAAAAGCC
Found at i:37495443 original size:21 final size:22
Alignment explanation
Indices: 37495418--37495472 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
37495408 ATAAATAAGA
* *
37495418 AAAAATAATAAGGGCAA-GAAT
1 AAAAATAATAAGGCCAATAAAT
*
37495439 AAAAATAA-ACAAGCCAATAAAT
1 AAAAATAATA-AGGCCAATAAAT
37495461 AAAAATAATAAG
1 AAAAATAATAAG
37495473 AAAAAACTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 1 0.04
21 13 0.48
22 12 0.44
23 1 0.04
ACGTcount: A:0.67, C:0.07, G:0.11, T:0.15
Consensus pattern (22 bp):
AAAAATAATAAGGCCAATAAAT
Found at i:37495663 original size:13 final size:13
Alignment explanation
Indices: 37495645--37495670 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37495635 AACTAAATAA
37495645 ATAATAACAAAAG
1 ATAATAACAAAAG
37495658 ATAATAACAAAAG
1 ATAATAACAAAAG
37495671 TGAGGATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
ATAATAACAAAAG
Found at i:37497223 original size:39 final size:38
Alignment explanation
Indices: 37497126--37497272 Score: 177
Period size: 39 Copynumber: 3.7 Consensus size: 38
37497116 CAAATTTTCG
* * *
37497126 CACACTAAGTGCCAATACATAGTCGAAGCTATTTTAATC
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCAATC
* *
37497165 CTGTACACTAAATGCCATACATAGCCAAAGCTATCTCAATC
1 C---ACACTAAGTGCCATACATAGCCGAAGCTATCTCAATC
*
37497206 ACACACTAAGTGCCATACATAACCGAAGCTATCTCAAATC
1 -CACACTAAGTGCCATACATAGCCGAAGCTATCTC-AATC
37497246 GCACACTAAGTGCCATACATAGCCGAA
1 -CACACTAAGTGCCATACATAGCCGAA
37497273 TTGTCGTCAA
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
39 31 0.33
40 29 0.31
41 21 0.23
42 12 0.13
ACGTcount: A:0.37, C:0.28, G:0.12, T:0.22
Consensus pattern (38 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCAATC
Found at i:37497262 original size:40 final size:39
Alignment explanation
Indices: 37497123--37497272 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 39
37497113 ACTCAAATTT
* * *
37497123 TCGCACACTAAGTGCCAATACATAGTCGAAGCTATTTTAA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCAA
* * *
37497163 TCCTGTACACTAAATGCCATACATAGCCAAAGCTATCTCAA
1 T-C-GCACACTAAGTGCCATACATAGCCGAAGCTATCTCAA
* *
37497204 TCACACACTAAGTGCCATACATAACCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTC-AA
37497244 TCGCACACTAAGTGCCATACATAGCCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAA
37497273 TTGTCGTCAA
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 30 0.32
40 31 0.33
41 21 0.22
42 12 0.13
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.23
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAA
Found at i:37499410 original size:20 final size:20
Alignment explanation
Indices: 37499381--37499426 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
37499371 AAGATAGTGG
*
37499381 CTTGTTACACGCCTTGGAGC
1 CTTGTCACACGCCTTGGAGC
37499401 CTTGTCACACGCCTTGGAGC
1 CTTGTCACACGCCTTGGAGC
37499421 CTTGTC
1 CTTGTC
37499427 CTGTTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.33, G:0.24, T:0.30
Consensus pattern (20 bp):
CTTGTCACACGCCTTGGAGC
Found at i:37500428 original size:53 final size:52
Alignment explanation
Indices: 37500372--37500471 Score: 148
Period size: 53 Copynumber: 1.9 Consensus size: 52
37500362 GGGAGATTTT
*
37500372 TTTTTTTA-CAAAATAGGTGCCTCCATTAAAGGAGGCTGGCACCAAAAAATAA
1 TTTTTTAATCAAAATAGGTGCCTCCATTAAAGGAGG-TGGCACCAAAAAATAA
* * *
37500424 TTTTTTAATCCAATTAGGTGCCTTCATTAAAGGAGGTGGCACCAAAAA
1 TTTTTTAATCAAAATAGGTGCCTCCATTAAAGGAGGTGGCACCAAAAA
37500472 TAGTAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 19 0.44
53 24 0.56
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (52 bp):
TTTTTTAATCAAAATAGGTGCCTCCATTAAAGGAGGTGGCACCAAAAAATAA
Found at i:37500841 original size:3 final size:3
Alignment explanation
Indices: 37500833--37500890 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
37500823 TGACATGCAT
37500833 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37500881 ATA ATA ATA A
1 ATA ATA ATA A
37500891 ACATACTATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37501781 original size:30 final size:31
Alignment explanation
Indices: 37501747--37501808 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
37501737 GATTCATCCA
*
37501747 TGGAAAAT-AAAATAAAGAAAATGATGA-AAT
1 TGGAAAATGAAAAAAAAGAAAA-GATGATAAT
* *
37501777 TGGAAAGTGAAAAAAAATAAAAGATGATAAT
1 TGGAAAATGAAAAAAAAGAAAAGATGATAAT
37501808 T
1 T
37501809 AATTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (31 bp):
TGGAAAATGAAAAAAAAGAAAAGATGATAAT
Found at i:37505640 original size:68 final size:68
Alignment explanation
Indices: 37505555--37505703 Score: 201
Period size: 68 Copynumber: 2.2 Consensus size: 68
37505545 TAAGGTTTTG
* ** * * *
37505555 CAGACTGTGTGAGAATAAGTAGCCCGTGTGGCTAGACTGTGTGAGGCACAC-GACTGTGTGAAAA
1 CAGACCGTGTGAGAATAAACAACCCGTGTGGCTAGACCGTGTGAGGCACACAG-CCGTGTGAAAA
37505619 TGTT
65 TGTT
*
37505623 CAGACCGTGTGAGAATAAACAACCCGTGTGGCTAGACCGTGTGAGGCACACAGCCGTGTGGAAAT
1 CAGACCGTGTGAGAATAAACAACCCGTGTGGCTAGACCGTGTGAGGCACACAGCCGTGTGAAAAT
37505688 GTT
66 GTT
* *
37505691 CAAACCGTATGAG
1 CAGACCGTGTGAG
37505704 TGGCCCATGT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 70 0.99
69 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.21
Consensus pattern (68 bp):
CAGACCGTGTGAGAATAAACAACCCGTGTGGCTAGACCGTGTGAGGCACACAGCCGTGTGAAAAT
GTT
Found at i:37508094 original size:14 final size:15
Alignment explanation
Indices: 37508070--37508098 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37508060 TTATGCATGT
37508070 TATGATTTGATATGA
1 TATGATTTGATATGA
37508085 TATG-TTTGATATGA
1 TATGATTTGATATGA
37508099 CCTAGCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TATGATTTGATATGA
Found at i:37511617 original size:15 final size:16
Alignment explanation
Indices: 37511576--37511621 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
37511566 TTTATGTCAT
* *
37511576 TTTTATAATAATAAAA
1 TTTTATAATTATTAAA
37511592 TTTTCATAATTATTAAA
1 TTTT-ATAATTATTAAA
37511609 -TTTATAATTATTA
1 TTTTATAATTATTA
37511622 TATAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 7 0.26
17 10 0.37
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTATAATTATTAAA
Found at i:37513726 original size:30 final size:30
Alignment explanation
Indices: 37513692--37513754 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
37513682 ATTTAACAAG
*
37513692 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
* *
37513722 CAAATACCTTTAAAATAATAAGAAAATTAA
1 CAAATACCTCTAAAATAATAAAAAAATTAA
37513752 CAA
1 CAA
37513755 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAAAAAAATTAA
Found at i:37515625 original size:27 final size:27
Alignment explanation
Indices: 37515577--37515633 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
37515567 AAAAAGAAAA
*
37515577 AAAAAAGAAAACTAAAGCGAAAAATACG
1 AAAAAAGAAAACGAAAGCGAAAAATA-G
37515605 AAAAAAGAAGAA-GAAAG-GAAAAATAG
1 AAAAAAGAA-AACGAAAGCGAAAAATAG
37515631 AAA
1 AAA
37515634 GTAAAAGGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 4 0.15
27 8 0.30
28 13 0.48
29 2 0.07
ACGTcount: A:0.72, C:0.05, G:0.18, T:0.05
Consensus pattern (27 bp):
AAAAAAGAAAACGAAAGCGAAAAATAG
Found at i:37518511 original size:64 final size:64
Alignment explanation
Indices: 37518391--37518511 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 64
37518381 ACACACAGTC
* * * ***
37518391 GTGTCCTTCACCCTTGTGATCATTATTTTGTAATCAGTGAGTTACACGGTTGGGACAGATGCCT
1 GTGTCCTTAACCCGTGTGATCATTATATTGTAATCAGTGAGTTACACGGCCAGGACAGATGCCT
* * *
37518455 GTGTCCTTAACCCGTGTGCTCATTATATTGTAATTAGTGAGTTACATGGCCAGGACA
1 GTGTCCTTAACCCGTGTGATCATTATATTGTAATCAGTGAGTTACACGGCCAGGACA
37518512 CACACCCGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (64 bp):
GTGTCCTTAACCCGTGTGATCATTATATTGTAATCAGTGAGTTACACGGCCAGGACAGATGCCT
Found at i:37518523 original size:64 final size:64
Alignment explanation
Indices: 37518369--37518526 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 64
37518359 CCCATGTGTC
** * * *
37518369 TTACATGGCCTA--ACACACAGTCGTGTCCTTCACCCTTGTGATCATTATTTTGTAATCAGTGAG
1 TTACATGGCC-AGGACACACACCCGTGTCCTTAACCCGTGTGATCATTATATTGTAATCAGTGAG
* *** * ** * * *
37518432 TTACACGGTTGGGACAGATGCCTGTGTCCTTAACCCGTGTGCTCATTATATTGTAATTAGTGAG
1 TTACATGGCCAGGACACACACCCGTGTCCTTAACCCGTGTGATCATTATATTGTAATCAGTGAG
37518496 TTACATGGCCAGGACACACACCCGTGTCCTT
1 TTACATGGCCAGGACACACACCCGTGTCCTT
37518527 GGCTCGTGTG
Statistics
Matches: 70, Mismatches: 23, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
63 7 0.10
64 63 0.90
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (64 bp):
TTACATGGCCAGGACACACACCCGTGTCCTTAACCCGTGTGATCATTATATTGTAATCAGTGAG
Found at i:37533188 original size:6 final size:6
Alignment explanation
Indices: 37533177--37533211 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
37533167 ACAGTTAGAA
37533177 ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT ACAGA
1 ACAGAT ACAGAT ACAGAT ACAGAT ACAGAT ACAGA
37533212 GTTGGGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.14
Consensus pattern (6 bp):
ACAGAT
Found at i:37535766 original size:21 final size:21
Alignment explanation
Indices: 37535740--37535820 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
37535730 TATGAGGAAG
37535740 GGCACATAGCCGTGTGGCTGA
1 GGCACATAGCCGTGTGGCTGA
* *
37535761 GGCACAT-GCCCGTGTGAAG-AGG
1 GGCACATAG-CCGTGTG--GCTGA
* *
37535783 GGCACATGGCCGTGTGACTGA
1 GGCACATAGCCGTGTGGCTGA
*
37535804 GGCACACAGCCGTGTGG
1 GGCACATAGCCGTGTGG
37535821 ACCAGGAACA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 1 0.02
21 29 0.62
22 15 0.32
23 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.16
Consensus pattern (21 bp):
GGCACATAGCCGTGTGGCTGA
Found at i:37536582 original size:4 final size:4
Alignment explanation
Indices: 37536573--37536598 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
37536563 ATCATAGACA
37536573 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
37536599 CTATATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:37538369 original size:29 final size:29
Alignment explanation
Indices: 37538328--37538396 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
37538318 ACACCAGGGG
37538328 ACACACGGCTGTGTACTTAACCGTGTATC
1 ACACACGGCTGTGTACTTAACCGTGTATC
37538357 ACACACGGCTGTGTACTTAACCGTGTATC
1 ACACACGGCTGTGTACTTAACCGTGTATC
37538386 ACACACGGCTG
1 ACACACGGCTG
37538397 AGACACACGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (29 bp):
ACACACGGCTGTGTACTTAACCGTGTATC
Found at i:37541842 original size:42 final size:42
Alignment explanation
Indices: 37541795--37541940 Score: 114
Period size: 42 Copynumber: 3.5 Consensus size: 42
37541785 ATGAGTTTTC
* * *
37541795 GTTTAACGCTAATAGGTTTTAGTTCAGCTCTCTCGAGCTTCA
1 GTTTAACCCTAATAGGTTTCAGTTCAACTCTCTCGAGCTTCA
** * *
37541837 GTTTAACCCTTCTAGGTTTCAGTTCAACTCTGTTGAGCTTCA
1 GTTTAACCCTAATAGGTTTCAGTTCAACTCTCTCGAGCTTCA
** * * ** * *
37541879 AATTAACCCTTATGGGTTTTTGTTCAACTC-CTATGAGCTTCT
1 GTTTAACCCTAATAGGTTTCAGTTCAACTCTCT-CGAGCTTCA
* * *
37541921 GTTTATCCCTTATGGGTTTC
1 GTTTAACCCTAATAGGTTTC
37541941 CGTTTAGCAC
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 1 0.01
42 83 0.99
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (42 bp):
GTTTAACCCTAATAGGTTTCAGTTCAACTCTCTCGAGCTTCA
Found at i:37547254 original size:24 final size:24
Alignment explanation
Indices: 37547227--37547346 Score: 93
Period size: 24 Copynumber: 5.0 Consensus size: 24
37547217 AGCTTCTGTT
37547227 ATATGGCTCTTTATGAGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
* * * *
37547251 ATATGGTTATTTGTGAACTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
* *
37547275 ATTATGGCTC-TTATGAGCTTTCTG
1 A-TATGGCTCTTTATGAGCTTCCCG
* ** *
37547299 TTATATAGC-CTAAATAAGCTTCCCG
1 --ATATGGCTCTTTATGAGCTTCCCG
*
37547324 ATA-GGCTCTTTATGGGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
37547347 TTACATGGCT
Statistics
Matches: 70, Mismatches: 21, Indels: 11
0.69 0.21 0.11
Matches are distributed among these distances:
22 2 0.03
23 15 0.21
24 32 0.46
25 20 0.29
26 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (24 bp):
ATATGGCTCTTTATGAGCTTCCCG
Found at i:37548394 original size:42 final size:40
Alignment explanation
Indices: 37548328--37548411 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 40
37548318 GTTCAAAATT
*
37548328 TGTCACACAGGCAGAGACATAGGCGTGTGTCTTAGCCGTG
1 TGTCACACAGGCAGAGACACAGGCGTGTGTCTTAGCCGTG
*
37548368 TGTCACACACGGCTTAGA-ACACAGGCGTGTGTCTTGGCCGTG
1 TGTCACACA-GGC--AGAGACACAGGCGTGTGTCTTAGCCGTG
37548410 TG
1 TG
37548412 AAACCTGCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 9 0.23
41 3 0.08
42 24 0.62
43 3 0.08
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (40 bp):
TGTCACACAGGCAGAGACACAGGCGTGTGTCTTAGCCGTG
Found at i:37552866 original size:13 final size:13
Alignment explanation
Indices: 37552848--37552874 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37552838 GATATAGATT
37552848 CAGATTCAAATAA
1 CAGATTCAAATAA
37552861 CAGATTCAAATAA
1 CAGATTCAAATAA
37552874 C
1 C
37552875 TGATATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (13 bp):
CAGATTCAAATAA
Found at i:37554109 original size:31 final size:31
Alignment explanation
Indices: 37554068--37554131 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
37554058 CCTTTTCATA
*
37554068 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
37554099 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
37554130 TT
1 TT
37554132 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:37554375 original size:24 final size:24
Alignment explanation
Indices: 37554339--37554442 Score: 176
Period size: 23 Copynumber: 4.4 Consensus size: 24
37554329 CTGGAGGCCT
*
37554339 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
37554364 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
37554388 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
37554411 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
37554434 AGCCCTTTT
1 AGCCCTTTT
37554443 GCACTCCCTC
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
23 46 0.60
24 27 0.35
25 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:37554504 original size:11 final size:11
Alignment explanation
Indices: 37554488--37554538 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 11
37554478 GCATTTATGA
37554488 ACATATCATGT
1 ACATATCATGT
37554499 ACATATCA--T
1 ACATATCATGT
*
37554508 ACATGTCATGT
1 ACATATCATGT
*
37554519 GCATATCA--T
1 ACATATCATGT
37554528 ACATATCATGT
1 ACATATCATGT
37554539 TTATCAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 16 0.50
11 16 0.50
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (11 bp):
ACATATCATGT
Found at i:37554516 original size:20 final size:20
Alignment explanation
Indices: 37554488--37554538 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
37554478 GCATTTATGA
37554488 ACATATCATGTACATATCAT
1 ACATATCATGTACATATCAT
* *
37554508 ACATGTCATGTGCATATCAT
1 ACATATCATGTACATATCAT
37554528 ACATATCATGT
1 ACATATCATGT
37554539 TTATCAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
ACATATCATGTACATATCAT
Found at i:37554603 original size:25 final size:25
Alignment explanation
Indices: 37554575--37554622 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
37554565 ATATATAAAC
* * *
37554575 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
37554600 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
37554623 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:37555928 original size:27 final size:27
Alignment explanation
Indices: 37555898--37556005 Score: 87
Period size: 27 Copynumber: 3.9 Consensus size: 27
37555888 GTAAATCTAC
37555898 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
37555925 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
37555951 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* **
37555981 AAATC-AGAGGTATTTTGGTAATTTT
1 AAACCAAG-GGTATTTCAGTAATTTT
37556006 ACAAATTGAG
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.05
27 38 0.58
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:37556099 original size:27 final size:27
Alignment explanation
Indices: 37555960--37556154 Score: 119
Period size: 27 Copynumber: 7.2 Consensus size: 27
37555950 TAGAAAGTCA
* *
37555960 AGGGTATTTCT-GTAACTTTGTAAATC-
1 AGGGTATTT-TGGTAATTTTATAAATCG
* *
37555986 AGAGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTATAAATCG
* * * * *
37556014 AGGGTATTTCGATAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
37556040 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
*
37556067 AGGGGTATTTTGGTAATTTTGTAAATCG
1 A-GGGTATTTTGGTAATTTTATAAATCG
***** * *
37556095 AGGGTAAAACAGTAATTCTATAAATCA
1 AGGGTATTTTGGTAATTTTATAAATCG
*** *
37556122 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
37556149 AGGGTA
1 AGGGTA
37556155 AAACGGTAAT
Statistics
Matches: 134, Mismatches: 29, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
26 5 0.04
27 124 0.93
28 5 0.04
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:37556154 original size:81 final size:81
Alignment explanation
Indices: 37556078--37556262 Score: 262
Period size: 81 Copynumber: 2.3 Consensus size: 81
37556068 GGGGTATTTT
* * * *
37556078 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATGGTAATTTTGT
1 GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATATAAATCAAGGGTAAAACGGTAATTATGT
37556143 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * * *
37556159 GGTAATTCTATAAGTCGAGGGGAAAACGGTAATTATGTAAATCAGGGGTAAAACGGTAATTATGT
1 GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATATAAATCAAGGGTAAAACGGTAATTATGT
*
37556224 AAATCGGGGGTAAAAC
66 AAATCGAGGGTAAAAC
*
37556240 GGTAATTCTGTAAATCGGGGGTA
1 GGTAATTCTGTAAATCGAGGGTA
37556263 CTTTCATAAT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 89 1.00
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (81 bp):
GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATATAAATCAAGGGTAAAACGGTAATTATGT
AAATCGAGGGTAAAAC
Done.