Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 219 of 228
Found at i:64323637 original size:84 final size:83
Alignment explanation
Indices: 64323523--64323730 Score: 272
Period size: 84 Copynumber: 2.5 Consensus size: 83
64323513 CGGTGCTTAG
* * *
64323523 AAAAAATCGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAAGTCAATAAAGATCATG
1 AAAAAA-CGCCACTAAAGA-CATGATCTTTAGCGGCGCTTAGAAAAAAAGCCAATAAAGATCATC
*
64323588 ATCTTTAGCGGCGCTTGTGC
64 ATCTTTAACGGCGCTTGTGC
* * * * * * *
64323608 AAAAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTATAGAAAACGCCACTAAAGATCATCT
1 AAAAAACGCCACTAAAGA-CATGATCTTTAGCGGCGCTTAGAAAAAAAGCCAATAAAGATCATCA
64323673 TCTTTAACGGCGCTTGTGC
65 TCTTTAACGGCGCTTGTGC
*
64323692 AAAAAACGCCACTAAATTACATGATCTTTAGCGGCGCTT
1 AAAAAACGCCACTAAA-GACATGATCTTTAGCGGCGCTT
64323731 GGGAATAAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 100 0.93
85 7 0.07
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (83 bp):
AAAAAACGCCACTAAAGACATGATCTTTAGCGGCGCTTAGAAAAAAAGCCAATAAAGATCATCAT
CTTTAACGGCGCTTGTGC
Found at i:64323750 original size:43 final size:43
Alignment explanation
Indices: 64323482--64323731 Score: 226
Period size: 41 Copynumber: 5.9 Consensus size: 43
64323472 GCGCTTACAG
* ** * * * *
64323482 AAAAAACGCCGCTAAAGGTCATGTTCTTTATCGGTGCTT-AG-
1 AAAAAACGCCACTAAAGACCATGATCTTTAGCGGCGCTTGTGC
* * *
64323523 AAAAAATCGCCACTAAAGATCATGTTCTTTAGCGGCGCTT-AG-
1 AAAAAA-CGCCACTAAAGACCATGATCTTTAGCGGCGCTTGTGC
* * * *
64323565 AAAAAAAGTCAATAAAGATCATGATCTTTAGCGGCGCTTGTGC
1 AAAAAACGCCACTAAAGACCATGATCTTTAGCGGCGCTTGTGC
* * *
64323608 AAAAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTAT--
1 AAAAAACGCCACTAAAGACCATGATCTTTAGCGGCGCTTGTGC
* * ** *
64323649 AGAAAACGCCACTAAAGATCATCTTCTTTAACGGCGCTTGTGC
1 AAAAAACGCCACTAAAGACCATGATCTTTAGCGGCGCTTGTGC
*
64323692 AAAAAACGCCACTAAATTA-CATGATCTTTAGCGGCGCTTG
1 AAAAAACGCCACTAAA-GACCATGATCTTTAGCGGCGCTTG
64323732 GGAATAAAAC
Statistics
Matches: 174, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
41 68 0.39
42 38 0.22
43 67 0.39
44 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (43 bp):
AAAAAACGCCACTAAAGACCATGATCTTTAGCGGCGCTTGTGC
Found at i:64323827 original size:42 final size:41
Alignment explanation
Indices: 64323760--64323877 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 41
64323750 AAGTAAAATT
* * **
64323760 CTTTAGCGGCGCTTTATCTACAAACGCCACTAAAAG-TAGTTG
1 CTTTAGCGGCGCTTTTTC-AAAAACGCCACTAAAAGATA-TAA
* * *
64323802 CTTTAGCGGCGCTTATTTCAGAAACGCCACTATATGATATAA
1 CTTTAGCGGCGCTT-TTTCAAAAACGCCACTAAAAGATATAA
*
64323844 CTTTTAGCGGCGCTTTTTTTAAAAACGCCACTAA
1 C-TTTAGCGGCGC-TTTTTCAAAAACGCCACTAA
64323878 TTTTGGGATT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 30 0.48
43 31 0.49
44 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTTTCAAAAACGCCACTAAAAGATATAA
Found at i:64324277 original size:21 final size:21
Alignment explanation
Indices: 64324249--64324315 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
64324239 TTCTTTTGAT
*
64324249 CCTCTGCTTCTCTCGCTGCGG
1 CCTCTGCTTCTCTCGCTGCAG
* *
64324270 CCTTTGCTTCTCTCGCTACAG
1 CCTCTGCTTCTCTCGCTGCAG
* *
64324291 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
64324312 CCTC
1 CCTC
64324316 AGTTTTAAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.03, C:0.46, G:0.18, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:64329845 original size:9 final size:9
Alignment explanation
Indices: 64329831--64330034 Score: 104
Period size: 9 Copynumber: 23.2 Consensus size: 9
64329821 TTTTTATGTA
64329831 TTATGTAAG
1 TTATGTAAG
*
64329840 TTATGTAAC
1 TTATGTAAG
*
64329849 TTACGTAAG
1 TTATGTAAG
** *
64329858 TTATCAAAC
1 TTATGTAAG
* *
64329867 TAATGTATG
1 TTATGTAAG
*
64329876 TTATGTATG
1 TTATGTAAG
64329885 -T-TGTAAG
1 TTATGTAAG
*
64329892 TTAT-TATG
1 TTATGTAAG
64329900 TATTATGTAAG
1 --TTATGTAAG
64329911 TTATGT-A-
1 TTATGTAAG
*
64329918 TTATGTAGG
1 TTATGTAAG
*
64329927 TTGTGTAAG
1 TTATGTAAG
*
64329936 TTGTGTAAG
1 TTATGTAAG
* *
64329945 ATATTTAAG
1 TTATGTAAG
*
64329954 TTAAGTAAG
1 TTATGTAAG
*
64329963 TTTTGT-A-
1 TTATGTAAG
64329970 TTATGTAAG
1 TTATGTAAG
*
64329979 TTATGTATG
1 TTATGTAAG
*
64329988 CTATGT-A-
1 TTATGTAAG
*
64329995 TAATGTAAGTTG
1 TTATGTAA---G
*
64330007 TTATGTTA-
1 TTATGTAAG
64330015 TTATGTAAG
1 TTATGTAAG
*
64330024 TTATGAAAG
1 TTATGTAAG
64330033 TT
1 TT
64330035 TAAATATAAG
Statistics
Matches: 143, Mismatches: 37, Indels: 30
0.68 0.18 0.14
Matches are distributed among these distances:
7 20 0.14
8 16 0.11
9 94 0.66
10 4 0.03
11 3 0.02
12 6 0.04
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:64329900 original size:19 final size:20
Alignment explanation
Indices: 64329876--64329924 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
64329866 CTAATGTATG
64329876 TTATGTATGT-TGTAAGTTA
1 TTATGTATGTATGTAAGTTA
64329895 TTATGTAT-TATGTAAGTTA
1 TTATGTATGTATGTAAGTTA
64329914 TGTAT-TATGTA
1 T-TATGTATGTA
64329925 GGTTGTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 1 0.04
19 21 0.78
20 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (20 bp):
TTATGTATGTATGTAAGTTA
Found at i:64329994 original size:25 final size:22
Alignment explanation
Indices: 64329886--64330028 Score: 68
Period size: 25 Copynumber: 6.5 Consensus size: 22
64329876 TTATGTATGT
64329886 TGTAAGTTAT-TA--TGTATTA
1 TGTAAGTTATGTATGTGTATTA
* *
64329905 TGTAAGTTATGTATTATGTAGGTTG
1 TGTAAGTTATGTA-TGTGTA--TTA
* * *
64329930 TGTAAGTTGTGTAAG-ATATTTA
1 TGTAAGTTATGTATGTGTA-TTA
* * *
64329952 AGTTAAG-TAAGT-TTTGTATTA
1 TG-TAAGTTATGTATGTGTATTA
*
64329973 TGTAAGTTATGTATGCTATGTATAA
1 TGTAAGTTATGTATG---TGTATTA
*
64329998 TGTAAGTTGT-TATGT-TATTA
1 TGTAAGTTATGTATGTGTATTA
64330018 TGTAAGTTATG
1 TGTAAGTTATG
64330029 AAAGTTTAAA
Statistics
Matches: 90, Mismatches: 20, Indels: 26
0.66 0.15 0.19
Matches are distributed among these distances:
19 10 0.11
20 19 0.21
21 9 0.10
22 9 0.10
23 10 0.11
24 4 0.04
25 29 0.32
ACGTcount: A:0.29, C:0.01, G:0.22, T:0.48
Consensus pattern (22 bp):
TGTAAGTTATGTATGTGTATTA
Found at i:64334207 original size:41 final size:40
Alignment explanation
Indices: 64334162--64334308 Score: 145
Period size: 41 Copynumber: 3.6 Consensus size: 40
64334152 GGTTCTGTAC
* * *
64334162 CTAGCAGGCTTAGTGCCGGTGAAGTAATTCAGACTTTACGT
1 CTAGCAGGCTAAATGCCGGTGAA-TAATTCAGACTTTAAGT
* * *
64334203 CTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATATGT
1 CTAGCAGGCTAAATGCCGGTGAATA-A-TTCAGACTTTAAGT
* * * *
64334244 CTAGCAGGCTAAGTGCCGGTGTACTGAA-TCAGGCTTTAAGC
1 CTAGCAGGCTAAATGCCGGTG-AAT-AATTCAGACTTTAAGT
64334285 CTAGCAGGCTAAATGCCGGTGAAT
1 CTAGCAGGCTAAATGCCGGTGAAT
64334309 CTGTTTAAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
39 2 0.02
40 4 0.04
41 80 0.90
43 2 0.02
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CTAGCAGGCTAAATGCCGGTGAATAATTCAGACTTTAAGT
Found at i:64337497 original size:15 final size:16
Alignment explanation
Indices: 64337462--64337499 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
64337452 ACCGTTGAAA
*
64337462 CCCTAAATCTCAAACC
1 CCCTAAACCTCAAACC
*
64337478 CCCTAAACCTCCAA-C
1 CCCTAAACCTCAAACC
64337493 CCCTAAA
1 CCCTAAA
64337500 TTAACCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (16 bp):
CCCTAAACCTCAAACC
Found at i:64338121 original size:41 final size:41
Alignment explanation
Indices: 64338010--64338328 Score: 204
Period size: 41 Copynumber: 7.8 Consensus size: 41
64338000 TTTTGTTATT
** * *
64338010 ATTAGCGGCGCTTC-GGCAAAAACGCCGCTAAAGG---TAGC
1 ATTAGCGGCGC-TCAGATAAAAACGCCGCTAAAGGCAAGAGA
* * *
64338048 ATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCAAGAGT
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGGCAAGAGA
* * ** *
64338090 ATTAGTGGCGCTCAGATAAAAACGCCACTAAAAACACGA-A
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCAAGAGA
* * * *
64338130 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAA-GAACAGAGA
1 -ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCA-AGAGA
* * * * * ** * *
64338172 ATTAGTGGCGCTCAGACAATAACGCCACTAATGATACGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCAAGAGA
** * *
64338213 ATTAGCGGCGCTTGGACAAAAACGCCGCTAAAGGCTAGA-A
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCAAGAGA
* * *
64338253 CATTAGTGGCGCTCAGATAAAAACGCCGTTAAAGATC-AGAGA
1 -ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCAAGAGA
* * * *
64338295 ATTAGCGGCTCTAAAATAAAAACGCCACTAAAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG
64338329 TTTAAAAATC
Statistics
Matches: 212, Mismatches: 57, Indels: 22
0.73 0.20 0.08
Matches are distributed among these distances:
37 1 0.00
38 12 0.06
39 16 0.08
40 1 0.00
41 161 0.76
42 21 0.10
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCAAGAGA
Found at i:64338176 original size:82 final size:82
Alignment explanation
Indices: 64338047--64338279 Score: 299
Period size: 82 Copynumber: 2.8 Consensus size: 82
64338037 CTAAAGGTAG
* * *
64338047 CATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCAAGAGTATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGGCAAGAGAATTAGTGGCGCTCAGATAAAAA
64338112 CGCCACTAAAAACACGAA
65 CGCCACTAAAAACACGAA
* * * *
64338130 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAA-GAACAGAGAATTAGTGGCGCTCAGACAATAA
1 CATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCA-AGAGAATTAGTGGCGCTCAGATAAAAA
** * *
64338194 CGCCACTAATGATACGAG
65 CGCCACTAAAAACACGAA
* * *
64338212 CATTAGCGGCGCTTGGACAAAAACGCCGCTAAAGGCTAGA-ACATTAGTGGCGCTCAGATAAAAA
1 CATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCAAGAGA-ATTAGTGGCGCTCAGATAAAAA
64338276 CGCC
65 CGCC
64338280 GTTAAAGATC
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
81 3 0.02
82 110 0.85
83 16 0.12
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (82 bp):
CATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCAAGAGAATTAGTGGCGCTCAGATAAAAAC
GCCACTAAAAACACGAA
Found at i:64338299 original size:82 final size:81
Alignment explanation
Indices: 64338048--64338328 Score: 293
Period size: 82 Copynumber: 3.4 Consensus size: 81
64338038 TAAAGGTAGC
* * *
64338048 ATTAGCGGCGCTTACATATAAAACGCCGCTAAAGGCAAGAGTATTAGTGGCGCTCAGATAAAAAC
1 ATTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGGC-AGA-AATTAGTGGCGCTCAGATAAAAAC
*
64338113 GCCACTAAA-AACACGA-A
63 GCCACTAAAGATCACGAGA
* * * *
64338130 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGACAATAAC
1 -ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAG-GCAGA-AATTAGTGGCGCTCAGATAAAAAC
* *
64338195 GCCACTAATGAT-ACGAGC
63 GCCACTAAAGATCACGAGA
* *
64338213 ATTAGCGGCGCTTGGACAAAAACGCCGCTAAAGGCTAGAACATTAGTGGCGCTCAGATAAAAACG
1 ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGC-AGAA-ATTAGTGGCGCTCAGATAAAAACG
**
64338278 CCGTTAAAGATCA-GAGA
64 CCACTAAAGATCACGAGA
* * *
64338295 ATTAGCGGCTC-TAAAATAAAAACGCCACTAAAGG
1 ATTAGCGGCGCTTAGAA-AAAAACGCCGCTAAAGG
64338329 TTTAAAAATC
Statistics
Matches: 166, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
81 4 0.02
82 145 0.87
83 17 0.10
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (81 bp):
ATTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGGCAGAAATTAGTGGCGCTCAGATAAAAACGCC
ACTAAAGATCACGAGA
Found at i:64339300 original size:14 final size:14
Alignment explanation
Indices: 64339281--64339312 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
64339271 GTATAATAAA
*
64339281 ATATTTAAAAATAT
1 ATATTTAAAAAAAT
64339295 ATATTTAAAAAAAT
1 ATATTTAAAAAAAT
64339309 ATAT
1 ATAT
64339313 ATATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATTTAAAAAAAT
Found at i:64339324 original size:16 final size:16
Alignment explanation
Indices: 64339287--64339317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64339277 TAAAATATTT
*
64339287 AAAAATATATATTTAA
1 AAAAATATATATATAA
64339303 AAAAATATATATATA
1 AAAAATATATATATA
64339318 TATAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAAATATATATATAA
Found at i:64344022 original size:15 final size:15
Alignment explanation
Indices: 64344004--64344060 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
64343994 CTAATTTAAA
64344004 AAAGAAATTATATAT
1 AAAGAAATTATATAT
*
64344019 AAAGAAA-TACTAAAT
1 AAAGAAATTA-TATAT
** *
64344034 AATTAATTTATATAT
1 AAAGAAATTATATAT
64344049 AAAGAAATTATA
1 AAAGAAATTATA
64344061 GTTTATTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (15 bp):
AAAGAAATTATATAT
Found at i:64354990 original size:17 final size:17
Alignment explanation
Indices: 64354968--64355013 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
64354958 AATTGATGAG
64354968 AATCTGATACACTATTC
1 AATCTGATACACTATTC
64354985 AATCTGATACACTATTC
1 AATCTGATACACTATTC
64355002 AATCTGATACAC
1 AATCTGATACAC
64355014 CCAAGCTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (17 bp):
AATCTGATACACTATTC
Found at i:64355544 original size:8 final size:9
Alignment explanation
Indices: 64355523--64355548 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
64355513 TTGTGGAAAT
64355523 TTTTTAATA
1 TTTTTAATA
64355532 TTTTTAATA
1 TTTTTAATA
64355541 TTTTTAAT
1 TTTTTAAT
64355549 TTATTGGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTAATA
Found at i:64356370 original size:29 final size:29
Alignment explanation
Indices: 64356337--64356424 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 29
64356327 ATAATTTGAG
64356337 ATAATTTGATAATTTTACTAACAATTAAT
1 ATAATTTGATAATTTTACTAACAATTAAT
* * * * *
64356366 ATAA-TTAACAA--TTAAT-A-ATTTGAT
1 ATAATTTGATAATTTTACTAACAATTAAT
64356390 ATAATTTGATAATTTTACTAACAATTAAT
1 ATAATTTGATAATTTTACTAACAATTAAT
64356419 ATAATT
1 ATAATT
64356425 AACAATTAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 10
0.69 0.16 0.16
Matches are distributed among these distances:
24 9 0.20
25 6 0.14
26 4 0.09
27 4 0.09
28 6 0.14
29 15 0.34
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (29 bp):
ATAATTTGATAATTTTACTAACAATTAAT
Found at i:64356395 original size:53 final size:53
Alignment explanation
Indices: 64356317--64356530 Score: 235
Period size: 53 Copynumber: 4.3 Consensus size: 53
64356307 ATTTTGTTGC
*
64356317 AACAATTAATATAATTTGAGATAATTTGATAATTTTACTAACAATTAATATAATT
1 AACAATT-A-ATAATTTGATATAATTTGATAATTTTACTAACAATTAATATAATT
64356372 AACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATATAATT
1 AACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATATAATT
* *
64356425 AACAATTAATAATTT--TACTAA----A-AATGTTAGTAAC----AAT-TAA-T
1 AACAATTAATAATTTGATA-TAATTTGATAATTTTACTAACAATTAATATAATT
* * *
64356466 ---AATTAATAATTTAATATAATTTGATAATTTTAGTAACAATTAATACAATT
1 AACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATATAATT
64356516 AACAATTAATAATTT
1 AACAATTAATAATTT
64356531 TACTAACAAA
Statistics
Matches: 137, Mismatches: 5, Indels: 36
0.77 0.03 0.20
Matches are distributed among these distances:
38 12 0.09
39 3 0.02
40 2 0.01
41 1 0.01
42 3 0.02
43 4 0.03
44 11 0.08
47 10 0.07
48 4 0.03
49 2 0.01
50 1 0.01
51 2 0.01
52 3 0.02
53 71 0.52
54 1 0.01
55 7 0.05
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (53 bp):
AACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATATAATT
Found at i:64356444 original size:35 final size:37
Alignment explanation
Indices: 64356398--64356477 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 37
64356388 ATATAATTTG
* *
64356398 ATAATTTTACTAACAA-TTAAT-ATAATTAACAATTA
1 ATAATTTTACTAAAAAGTTAATAACAATTAACAATTA
* *
64356433 ATAATTTTACTAAAAATGTTAGTAACAATTAATAATTA
1 ATAATTTTACTAAAAA-GTTAATAACAATTAACAATTA
64356471 ATAATTT
1 ATAATTT
64356478 AATATAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 15 0.39
37 4 0.11
38 19 0.50
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (37 bp):
ATAATTTTACTAAAAAGTTAATAACAATTAACAATTA
Found at i:64356475 original size:91 final size:90
Alignment explanation
Indices: 64356317--64356547 Score: 304
Period size: 91 Copynumber: 2.5 Consensus size: 90
64356307 ATTTTGTTGC
* * * *
64356317 AACAATTAATATAATTTGAGATAATTTGATAATTTTACTAACAA--TTAATATAATTAACAATTA
1 AACAATTAATATAA-TT-A-ACAA-TTAATAATTTTACTAAAAATGTTAATACAATTAACAATTA
*
64356380 ATAATTTGATATAATTTGATAATTTTACT
62 ATAATTTAATATAATTTGATAATTTTACT
* *
64356409 AACAATTAATATAATTAACAATTAATAATTTTACTAAAAATGTTAGTAACAATTAATAATTAATA
1 AACAATTAATATAATTAACAATTAATAATTTTACTAAAAATGTTAAT-ACAATTAACAATTAATA
*
64356474 ATTTAATATAATTTGATAATTTTAGT
65 ATTTAATATAATTTGATAATTTTACT
*
64356500 AACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATGTTAA
1 AACAATTAATATAATTAACAATTAATAATTTTACT-A-AAAATGTTAA
64356548 ATTTTACAAA
Statistics
Matches: 124, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
88 17 0.14
89 3 0.02
90 5 0.04
91 75 0.60
92 15 0.12
93 9 0.07
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (90 bp):
AACAATTAATATAATTAACAATTAATAATTTTACTAAAAATGTTAATACAATTAACAATTAATAA
TTTAATATAATTTGATAATTTTACT
Found at i:64357514 original size:12 final size:12
Alignment explanation
Indices: 64357497--64357524 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
64357487 GGCTACTCGG
64357497 TAGTGTAGGAAA
1 TAGTGTAGGAAA
64357509 TAGTGTAGGAAA
1 TAGTGTAGGAAA
64357521 TAGT
1 TAGT
64357525 TTAAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (12 bp):
TAGTGTAGGAAA
Found at i:64377369 original size:78 final size:79
Alignment explanation
Indices: 64377163--64377376 Score: 203
Period size: 78 Copynumber: 2.7 Consensus size: 79
64377153 GTTTATTATA
*
64377163 CAGGTCTTATCTCCCTGAATTACAGTGGAACGACCAAAGATTTCAGATCTTATCTCCTG-AGTTA
1 CAGGTCTTATCTCCCTGAGTTACAGTGGAA-GACC-AA-ATTTCAGATCTTATCTCCTGAAGTTA
* *
64377227 CACGGAGTAGATTGAAG
63 CACAGAGTAGATCGAAG
* * *
64377244 CA-GTAATCTATCTCCCTGAGATTACAGTGG-AG--C-GATTATAAAGGATC-TATCTCTCTGAA
1 CAGGT-CT-TATCTCCCTGAG-TTACAGTGGAAGACCAAATT-T-CA-GATCTTATCTC-CTGAA
*
64377303 GTTACAGCAGAGTAGATCG-AT
59 GTTACA-CAGAGTAGATCGAAG
64377324 CAGGTCTTAT-TCCCTGAGTTACAGTGGAAGACCAAATTTCAGATCTTATCTCC
1 CAGGTCTTATCTCCCTGAGTTACAGTGGAAGACCAAATTTCAGATCTTATCTCC
64377377 CTGAGTTCAG
Statistics
Matches: 108, Mismatches: 10, Indels: 33
0.72 0.07 0.22
Matches are distributed among these distances:
76 3 0.03
77 10 0.09
78 22 0.20
79 18 0.17
80 15 0.14
81 19 0.18
82 12 0.11
83 9 0.08
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (79 bp):
CAGGTCTTATCTCCCTGAGTTACAGTGGAAGACCAAATTTCAGATCTTATCTCCTGAAGTTACAC
AGAGTAGATCGAAG
Found at i:64378175 original size:1 final size:1
Alignment explanation
Indices: 64378171--64378209 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
64378161 CTGTTCTTCG
* * *
64378171 TTTTTTTTTTTTTTTTTTTATTTTATTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
64378210 ATACAATCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.05, C:0.00, G:0.03, T:0.92
Consensus pattern (1 bp):
T
Found at i:64378194 original size:20 final size:20
Alignment explanation
Indices: 64378171--64378211 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
64378161 CTGTTCTTCG
* *
64378171 TTTTTTTTTTTTTTTTTTTA
1 TTTTATTTTTTTTGTTTTTA
64378191 TTTTATTTTTTTTGTTTTTA
1 TTTTATTTTTTTTGTTTTTA
64378211 T
1 T
64378212 ACAATCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.00, G:0.02, T:0.90
Consensus pattern (20 bp):
TTTTATTTTTTTTGTTTTTA
Found at i:64386599 original size:15 final size:15
Alignment explanation
Indices: 64386579--64386619 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
64386569 ACTGAACAGA
*
64386579 AAAACAGAGTAGAGC
1 AAAACAGAGCAGAGC
*
64386594 AAAACAGAACAGAGC
1 AAAACAGAGCAGAGC
*
64386609 AGAACAGAGCA
1 AAAACAGAGCA
64386620 TGTATGTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.56, C:0.17, G:0.24, T:0.02
Consensus pattern (15 bp):
AAAACAGAGCAGAGC
Found at i:64387399 original size:42 final size:42
Alignment explanation
Indices: 64387352--64387434 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
64387342 GACCTAGACA
* *
64387352 CACGCCCATGTCCTTGCCCGTATGGCTCACACGGGCTAGGCG
1 CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGCG
* *
64387394 CACGCCCATATCCTTGTCCGTGTGGCTCACACGGCCTAGGC
1 CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGC
64387435 ACACACACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.14, C:0.39, G:0.27, T:0.20
Consensus pattern (42 bp):
CACGCCCATATCCTTGCCCGTATGGCTCACACGGCCTAGGCG
Found at i:64387612 original size:103 final size:105
Alignment explanation
Indices: 64387399--64387625 Score: 286
Period size: 103 Copynumber: 2.2 Consensus size: 105
64387389 AGGCGCACGC
* *
64387399 CCATATCCTTGTCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
1 CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
*
64387464 CCTAAATCATAACAGTGAGTTACATAGCCTGGACACAAGT
66 CCTAAATCATAACAGTGAGTTACACAGCCTGGACACAAGT
* * ** *
64387504 CCATGTCCTTGCCCGTGTGGCTCACACGGCCT-GAGCACACGC-C-CATGTCC-CTGGCTGTGTG
1 CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAG-GCACACACACTCATG-CCTCTAGCCATGTA
*
64387565 GTCCTAAATCATAAACAGTGAG-TACACGGCCTGGACACACA-T
64 GTCCTAAATCAT-AACAGTGAGTTACACAGCCTGGACACA-AGT
*
64387607 CCATGTCCTTGCCTGTGTG
1 CCATGTCCTTGCCCGTGTG
64387626 AACCCTACAC
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
103 57 0.53
104 14 0.13
105 37 0.34
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (105 bp):
CCATGTCCTTGCCCGTGTGGCTCACACGGCCTAGGCACACACACTCATGCCTCTAGCCATGTAGT
CCTAAATCATAACAGTGAGTTACACAGCCTGGACACAAGT
Found at i:64389614 original size:45 final size:43
Alignment explanation
Indices: 64389540--64389656 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
64389530 AAGGATAAGT
* * ** * * *
64389540 AGACAATAGCAGAAAGATACTATGACATCATGATATAAATGATTA
1 AGACCATAGCTGAAAGACGCTATGGCATCATG--ATAAAGGACTA
* *
64389585 AGACCATAGTTGAAAGACGCTATGGCATCATGGTAAAGGACTA
1 AGACCATAGCTGAAAGACGCTATGGCATCATGATAAAGGACTA
*
64389628 AGACCATAGCTGAAAGACGTTATGGCATC
1 AGACCATAGCTGAAAGACGCTATGGCATC
64389657 TTTGATAGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 35 0.57
45 26 0.43
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (43 bp):
AGACCATAGCTGAAAGACGCTATGGCATCATGATAAAGGACTA
Found at i:64389802 original size:27 final size:27
Alignment explanation
Indices: 64389735--64389819 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
64389725 ACATCATAGT
* *
64389735 TAGTTTGACAGGACATTAAAAATGGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
* ** ** *
64389762 GAGACCGATGGGACATTAAAGATAGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
* *
64389789 TAGTTCGACAGGACATTAAATACAGGA
1 TAGTTCGACAGGACATTAAAAATAGGA
64389816 TAGT
1 TAGT
64389820 CTGCCAGGAC
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (27 bp):
TAGTTCGACAGGACATTAAAAATAGGA
Found at i:64409545 original size:44 final size:42
Alignment explanation
Indices: 64409261--64409633 Score: 204
Period size: 44 Copynumber: 8.6 Consensus size: 42
64409251 GTTTATTATA
* * **
64409261 CAGG-TCTTATCTCCCTGAGAATACAGTGGAACAGACCAAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* *
64409302 AATTTCA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG
1 -----CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* * * * * *
64409348 ATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA-
1 -CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* * * * * *
64409390 -AGGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCACAT
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAG
** **
64409431 CAGG-TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* * *
64409472 AATTTCGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
1 CA----GGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
* **
64409518 CCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
1 -CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
** * * *
64409562 ACACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATA
1 -CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-AAA-G
* * *
64409607 AAGGATCTTATCTCTCTGAGGTTACAG
1 CAGGATCTTATCTCCCTGAGATTACAG
64409634 CAGAGTAGAT
Statistics
Matches: 252, Mismatches: 56, Indels: 40
0.72 0.16 0.11
Matches are distributed among these distances:
38 1 0.00
39 24 0.10
40 3 0.01
41 29 0.12
42 6 0.02
43 31 0.12
44 88 0.35
45 3 0.01
46 66 0.26
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAG
Found at i:64409575 original size:87 final size:87
Alignment explanation
Indices: 64409484--64409645 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
64409474 TTTCGGATCT
* * * *
64409484 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
64409548 GGAGCAGATCGAAGACACTATCC
65 AGAGCAGATCGAAGACACTATCC
* * * *
64409571 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
64409636 GAGTAGATCG
66 GAGCAGATCG
64409646 CATCAAGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:64409749 original size:218 final size:213
Alignment explanation
Indices: 64409308--64409749 Score: 480
Period size: 218 Copynumber: 2.0 Consensus size: 213
64409298 AAAGAATTTC
* * *
64409308 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
* *
64409373 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCT
* * ** * * *
64409438 TATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGGTTACAG
131 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGA-CGTATCTCCCTAAAGTTACAG
* ** *
64409503 TGGAGCAGATTGAAGCCAG
195 CGGAGCAGACAGAAGACAG
*
64409522 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-T
* * * *
64409585 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATC
65 TACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATC
* * * *
64409650 AAGTCTTATTTCCCTGAAGA-TGCAGTGGAACAGACTGAAA-ACAATAAGG-CGTGTCTCCCTAA
125 AAGTCTTATCTCCCTG-AGATTACAGTGGAACAGAC-CAAAGA-AATAAGGACGTATCTCCCTAA
** * *
64409712 AGTTGTAGCGGAGCGGACAGAAGATAG
187 AGTTACAGCGGAGCAGACAGAAGACAG
*
64409739 TGATTCTTATC
1 AGA-TCTTATC
64409750 ATGTCTAATC
Statistics
Matches: 188, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
212 1 0.01
213 28 0.15
214 43 0.23
217 30 0.16
218 76 0.40
219 10 0.05
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (213 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCT
TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAAATAAGGACGTATCTCCCTAAAGTTACAGC
GGAGCAGACAGAAGACAG
Found at i:64410220 original size:15 final size:16
Alignment explanation
Indices: 64410200--64410229 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
64410190 CTAACAAAAG
64410200 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
64410215 AACCCAATAACCCAC
1 AACCCAATAACCCAC
64410230 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:64411494 original size:19 final size:21
Alignment explanation
Indices: 64411470--64411511 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
64411460 TCCTGCTTTT
*
64411470 TATTTATTTA-ATAT-CTATA
1 TATTTATATATATATACTATA
64411489 TATTTATATATATATACTATA
1 TATTTATATATATATACTATA
64411510 TA
1 TA
64411512 ATATTTATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 4 0.20
21 7 0.35
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTTATATATATATACTATA
Found at i:64411520 original size:20 final size:20
Alignment explanation
Indices: 64411474--64411534 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
64411464 GCTTTTTATT
*
64411474 TATTTA-ATAT-CTATATATT
1 TATTTATATATACTATATA-A
*
64411493 TATATATATATACTATATAA
1 TATTTATATATACTATATAA
** *
64411513 TATTTATACCTACAATATAA
1 TATTTATATATACTATATAA
64411533 TA
1 TA
64411535 CACGTGCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.15
20 22 0.65
21 7 0.21
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTTATATATACTATATAA
Found at i:64414466 original size:18 final size:18
Alignment explanation
Indices: 64414436--64414475 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
64414426 ATAGGGATTC
64414436 ATAT-GTAAAATATATTA
1 ATATAGTAAAATATATTA
*
64414453 ATATAGTAATATATATTA
1 ATATAGTAAAATATATTA
*
64414471 CTATA
1 ATATA
64414476 TTACCAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATAGTAAAATATATTA
Found at i:64415195 original size:16 final size:16
Alignment explanation
Indices: 64415150--64415196 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
64415140 TGATTTTCAG
*
64415150 TTTATATTTCTTTTTC
1 TTTATATTTATTTTTC
64415166 TTT-TATTTACTTTTATC
1 TTTATATTTA-TTTT-TC
64415183 TTTAT-TTTATTTTT
1 TTTATATTTATTTTT
64415197 TTCCTCTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 6 0.22
16 11 0.41
17 9 0.33
18 1 0.04
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTATATTTATTTTTC
Found at i:64416830 original size:62 final size:61
Alignment explanation
Indices: 64416756--64416893 Score: 179
Period size: 64 Copynumber: 2.2 Consensus size: 61
64416746 ACATATTTGT
* * * *
64416756 ATATATATTATATTTTATACCTTATATTATTTATATATCTTTATATACGTATTTTTTTTAATTTT
1 ATATATA-TATATTTAATACCTTATATTA--CATATATCTTTATATAC--ATATTTTTAAATTTT
64416821 C
61 C
*
64416822 ATA-ATATATATTTAATATCTTATATTACATATATCTTTATATACATATTTTTAAATTTTC
1 ATATATATATATTTAATACCTTATATTACATATATCTTTATATACATATTTTTAAATTTTC
64416882 ATATATATATAT
1 ATATATATATAT
64416894 ACATACTTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 17 0.26
61 8 0.12
62 16 0.24
64 19 0.29
65 3 0.05
66 3 0.05
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.57
Consensus pattern (61 bp):
ATATATATATATTTAATACCTTATATTACATATATCTTTATATACATATTTTTAAATTTTC
Found at i:64416855 original size:16 final size:16
Alignment explanation
Indices: 64416836--64416869 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
64416826 TATATATTTA
64416836 ATATC-TTATATTACAT
1 ATATCTTTATA-TACAT
64416852 ATATCTTTATATACAT
1 ATATCTTTATATACAT
64416868 AT
1 AT
64416870 TTTTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATCTTTATATACAT
Found at i:64423849 original size:105 final size:104
Alignment explanation
Indices: 64423727--64423917 Score: 346
Period size: 105 Copynumber: 1.8 Consensus size: 104
64423717 ATTTGATATA
* *
64423727 ATTTTTTGATTTTTATGTATTTTTAAAAACTTTTGTTACATATATGTTTTTAAAATTTTTAAAAG
1 ATTTTTTGATTTTTATGTATTTTTAAAAACTTTTGTTACATATATATATTTAAAATTTTTAAAAG
*
64423792 CAAGATTGAATAGACGTAACAATTTGATATAATTTTTTG
66 AAAGATTGAATAGACGTAACAATTTGATATAATTTTTTG
64423831 ATTTTTTGATTTTTTATGTATTTTTAAAAACTTTTGTTACATATATATATTTAAAATTTTTAAAA
1 ATTTTTTGA-TTTTTATGTATTTTTAAAAACTTTTGTTACATATATATATTTAAAATTTTTAAAA
64423896 GAAAGATTGAATAGACGTAACA
65 GAAAGATTGAATAGACGTAACA
64423918 GGTAAATATT
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
104 9 0.11
105 74 0.89
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (104 bp):
ATTTTTTGATTTTTATGTATTTTTAAAAACTTTTGTTACATATATATATTTAAAATTTTTAAAAG
AAAGATTGAATAGACGTAACAATTTGATATAATTTTTTG
Found at i:64436997 original size:25 final size:25
Alignment explanation
Indices: 64436969--64437022 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
64436959 TTTTAAAGTT
* * *
64436969 AAATACTAATGGACAAT-AAATAATA
1 AAATAATAATAGAAAATAAAATAA-A
64436994 AAATAATAATAGAAAATAAAATAAA
1 AAATAATAATAGAAAATAAAATAAA
64437019 AAAT
1 AAAT
64437023 TAATCTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.22
Consensus pattern (25 bp):
AAATAATAATAGAAAATAAAATAAA
Found at i:64437473 original size:19 final size:19
Alignment explanation
Indices: 64437444--64437482 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
64437434 CAATTAATTA
64437444 ATTTTTAAAATATTTTATAT
1 ATTTTTAAAATATTTT-TAT
64437464 ATTTTT-AAATATTTTTAT
1 ATTTTTAAAATATTTTTAT
64437482 A
1 A
64437483 AAATTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTAAAATATTTTTAT
Found at i:64437489 original size:20 final size:20
Alignment explanation
Indices: 64437446--64437496 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
64437436 ATTAATTAAT
*
64437446 TTTTAAAATATTTTAT-ATA
1 TTTTAAAATATTTTATAAAA
*
64437465 TTTTTAAATATTTTTATAAAA
1 TTTTAAAATA-TTTTATAAAA
64437486 TTTTCAAAATA
1 TTTT-AAAATA
64437497 AAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 6 0.23
22 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAATATTTTATAAAA
Found at i:64446531 original size:16 final size:15
Alignment explanation
Indices: 64446470--64446540 Score: 60
Period size: 15 Copynumber: 4.8 Consensus size: 15
64446460 TTAGCAAACA
*
64446470 AAATAAATTAATTAT
1 AAATAAATTATTTAT
* *
64446485 AAATAAATACATATAT
1 AAATAAAT-TATTTAT
64446501 GAAATAAA--A--TAT
1 -AAATAAATTATTTAT
64446513 AAATAGAATTATTTAT
1 AAATA-AATTATTTAT
64446529 AAATAAATTATT
1 AAATAAATTATT
64446541 AAATATGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
11 5 0.11
12 5 0.11
14 2 0.04
15 15 0.33
16 12 0.26
17 7 0.15
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (15 bp):
AAATAAATTATTTAT
Found at i:64446543 original size:28 final size:28
Alignment explanation
Indices: 64446472--64446556 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 28
64446462 AGCAAACAAA
*
64446472 ATAAATTAATTATAAATA-AATACATAT
1 ATAAATAAATTATAAATAGAATACATAT
* * *
64446499 ATGAAATAAAATATAAATAGAAT-TATTT
1 AT-AAATAAATTATAAATAGAATACATAT
64446527 ATAAATAAATTATTAAATATGAAT-CATAT
1 ATAAATAAATTA-TAAATA-GAATACATAT
64446556 A
1 A
64446557 AAAACATAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 11 0.23
28 25 0.53
29 11 0.23
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (28 bp):
ATAAATAAATTATAAATAGAATACATAT
Found at i:64456813 original size:15 final size:16
Alignment explanation
Indices: 64456777--64456814 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
64456767 ATTTTGTTCA
* *
64456777 TTGCTTTGATTTTTCT
1 TTGCTTCGATTCTTCT
64456793 TTGCTTCGATTCTTC-
1 TTGCTTCGATTCTTCT
64456808 TTGCTTC
1 TTGCTTC
64456815 AGTCTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.05, C:0.21, G:0.13, T:0.61
Consensus pattern (16 bp):
TTGCTTCGATTCTTCT
Found at i:64461452 original size:4 final size:4
Alignment explanation
Indices: 64461443--64461468 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
64461433 CATGTGTTTT
64461443 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
64461469 GTTAATTGAA
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:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:64467836 original size:51 final size:50
Alignment explanation
Indices: 64467760--64467895 Score: 123
Period size: 51 Copynumber: 2.7 Consensus size: 50
64467750 GTATAATGAT
* * *
64467760 AAATTTAGCCCTCAAAGTTTACACATTCTATCAAATT-GTCATCGATTTAAA
1 AAATTTAACCCACAAA-TTTACACATTCTATCAAATTAATCAT-GATTTAAA
* * *
64467811 AAATTTAACCCACAACATTTACACATT-TCGTCAATTTAATCATGATTTAAC
1 AAATTTAACCCACAA-ATTTACACATTCT-ATCAAATTAATCATGATTTAAA
* ** *
64467862 ATATTTAACCCGTAATAATTACACATTCTATCAA
1 AAATTTAACCCACAA-ATTTACACATTCTATCAA
64467896 CATTTACGCA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
50 1 0.01
51 62 0.90
52 6 0.09
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (50 bp):
AAATTTAACCCACAAATTTACACATTCTATCAAATTAATCATGATTTAAA
Found at i:64468768 original size:11 final size:11
Alignment explanation
Indices: 64468746--64468779 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
64468736 TTCTCCATTC
64468746 TTTTTTATTTTA
1 TTTTTTA-TTTA
64468758 TTTTTTATTTA
1 TTTTTTATTTA
*
64468769 TTTTTAATTTA
1 TTTTTTATTTA
64468780 AAATATAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:64469340 original size:13 final size:12
Alignment explanation
Indices: 64469324--64469353 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
64469314 TTTTTAAGGT
64469324 TTTTTTTTTGTAG
1 TTTTTTTTT-TAG
64469337 TTTTTTTTTTAG
1 TTTTTTTTTTAG
64469349 TTTTT
1 TTTTT
64469354 GTTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTTAG
Found at i:64469567 original size:17 final size:18
Alignment explanation
Indices: 64469526--64469567 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
64469516 CGTATATACA
64469526 TTTATATTTCTATTATAT
1 TTTATATTTCTATTATAT
64469544 TTATATATTT-T-TTCATAT
1 TT-TATATTTCTATT-ATAT
64469562 TTTATA
1 TTTATA
64469568 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.27
18 9 0.41
19 7 0.32
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATATTTCTATTATAT
Found at i:64469606 original size:23 final size:25
Alignment explanation
Indices: 64469561--64469607 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
64469551 TTTTTTCATA
* *
64469561 TTTTATAATATATATATATACATTC
1 TTTTAAAATATATATATAAACATTC
64469586 TTTTAAAAT-TAT-TATAAACATT
1 TTTTAAAATATATATATAAACATT
64469608 TTATTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTAAAATATATATATAAACATTC
Found at i:64473507 original size:21 final size:20
Alignment explanation
Indices: 64473468--64473507 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
64473458 AATTTAAAAG
**
64473468 AAATTTAATTTCATGATAAA
1 AAATTTAATTTCAAAATAAA
64473488 AAATTTATATTTCAAAATAA
1 AAATTTA-ATTTCAAAATAA
64473508 TTAGAAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (20 bp):
AAATTTAATTTCAAAATAAA
Found at i:64473547 original size:28 final size:27
Alignment explanation
Indices: 64473485--64473549 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
64473475 ATTTCATGAT
*
64473485 AAAAAATTT-ATATTTCAAAATAATTA
1 AAAAAATTTAATATTTAAAAATAATTA
* * *
64473511 GAAAGATTTAATTTTTAAATAATAATTA
1 AAAAAATTTAATATTTAAA-AATAATTA
64473539 AAAAAATTTAA
1 AAAAAATTTAA
64473550 AAGATGTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 7 0.23
27 7 0.23
28 17 0.55
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (27 bp):
AAAAAATTTAATATTTAAAAATAATTA
Found at i:64485387 original size:43 final size:42
Alignment explanation
Indices: 64485339--64485428 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
64485329 AAATATATAA
64485339 AATAAGAATTGAAAG-GAAAACTTAAAGTTAAATACTAATAAAC
1 AATAAGAATT-AAAGAGAAAACTTAAA-TTAAATACTAATAAAC
* *** *
64485382 AATAAGAATTTAAGAGAAGTTTTAAATTAAATACTAATAGAC
1 AATAAGAATTAAAGAGAAAACTTAAATTAAATACTAATAAAC
64485424 AATAA
1 AATAA
64485429 ATAATAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 23 0.56
43 18 0.44
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.27
Consensus pattern (42 bp):
AATAAGAATTAAAGAGAAAACTTAAATTAAATACTAATAAAC
Found at i:64499749 original size:34 final size:34
Alignment explanation
Indices: 64499699--64499763 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
64499689 ACGACCGTTT
* * * *
64499699 ACGATACTATTTACGTATACAGTATTGTTCATCC
1 ACGACACTATTCACGTAGACAGTACTGTTCATCC
*
64499733 ACGACACTATTCACGTAGACGGTACTGTTCA
1 ACGACACTATTCACGTAGACAGTACTGTTCA
64499764 CATATACAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (34 bp):
ACGACACTATTCACGTAGACAGTACTGTTCATCC
Found at i:64517705 original size:14 final size:14
Alignment explanation
Indices: 64517686--64517716 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
64517676 TATGATATGC
64517686 CATTGTACAGGACT
1 CATTGTACAGGACT
64517700 CATTGTACAGGACT
1 CATTGTACAGGACT
64517714 CAT
1 CAT
64517717 GGAGTAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (14 bp):
CATTGTACAGGACT
Found at i:64528253 original size:4 final size:4
Alignment explanation
Indices: 64528244--64528281 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
64528234 TCATGTGTTT
64528244 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
64528282 GTTAATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:64529996 original size:41 final size:41
Alignment explanation
Indices: 64529951--64530056 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
64529941 ACTGGCAATT
* * *
64529951 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCA
*
64529992 AGCCTGCTAGACGTATAGTCTGAAACATTTCACCAGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCA
64530033 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
64530057 TTATCTCATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCAGCATCA
Found at i:64531132 original size:16 final size:17
Alignment explanation
Indices: 64531111--64531143 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
64531101 TTGCCCCTAA
64531111 TATTTA-TACTTTTTGC
1 TATTTAGTACTTTTTGC
*
64531127 TATTTAGTCCTTTTTGC
1 TATTTAGTACTTTTTGC
64531144 ACAAAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (17 bp):
TATTTAGTACTTTTTGC
Found at i:64534429 original size:23 final size:23
Alignment explanation
Indices: 64534400--64534521 Score: 145
Period size: 23 Copynumber: 5.3 Consensus size: 23
64534390 ATAAGTGCCG
64534400 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * * * *
64534423 CATTGATACGTAGTCGTAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
*
64534446 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
64534469 CACTAATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
64534492 CATTGAAATATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
64534515 CACTGAT
1 CACTGAT
64534522 CAATAACACT
Statistics
Matches: 78, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:64534467 original size:46 final size:46
Alignment explanation
Indices: 64534400--64534521 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
64534390 ATAAGTGCCG
* * * *
64534400 CACTGATATGTAGCCGAAGCTACCATTGATACGTAGTCGTAGCTAT
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
64534446 CACTGAAATGTAGCCGAAGCTACCACTAATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
* *
64534492 CATTGAAATATAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
64534522 CAATAACACT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:64536240 original size:51 final size:51
Alignment explanation
Indices: 64536163--64536299 Score: 127
Period size: 51 Copynumber: 2.7 Consensus size: 51
64536153 TGGTATAATG
* * * * *
64536163 ATAAATTTAGCCCTCAAAATTGACACATTCTATCAATTTG-TTATTGATTTA
1 ATAAATTTAACCCACAAAATTTACACATTCTATCAATTTGATCA-TCATTTA
* *
64536214 ATAAATTTAACCCACAACATTTACACATT-TCGTCAATTTGATCATCATTTA
1 ATAAATTTAACCCACAAAATTTACACATTCT-ATCAATTTGATCATCATTTA
*** *
64536265 ACGTATTTAACCCATAATAA-TTACACATTCTATCA
1 ATAAATTTAACCCACAA-AATTTACACATTCTATCA
64536300 GCATTTACGC
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
50 1 0.01
51 64 0.93
52 4 0.06
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (51 bp):
ATAAATTTAACCCACAAAATTTACACATTCTATCAATTTGATCATCATTTA
Found at i:64536909 original size:32 final size:32
Alignment explanation
Indices: 64536868--64536929 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
64536858 ATTTTTATTT
*
64536868 AGTTAAATTTGA-CTTTAAACCCTTTAAAAAAA
1 AGTTAAATTTGATCATT-AACCCTTTAAAAAAA
* *
64536900 AGTTGAATTTGATCATTAACCTTTTAAAAA
1 AGTTAAATTTGATCATTAACCCTTTAAAAA
64536930 GAGTCAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (32 bp):
AGTTAAATTTGATCATTAACCCTTTAAAAAAA
Found at i:64537028 original size:21 final size:18
Alignment explanation
Indices: 64537001--64537044 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
64536991 ATTTCATATT
*
64537001 ATTTTTTTAAAAATTTTATG
1 ATTTTTTTTAAAA-TTT-TG
*
64537021 ATTTTTTTTGAAATTTTG
1 ATTTTTTTTAAAATTTTG
64537039 ATTTTT
1 ATTTTT
64537045 GAATATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (18 bp):
ATTTTTTTTAAAATTTTG
Found at i:64539700 original size:24 final size:24
Alignment explanation
Indices: 64539673--64539723 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
64539663 ATCAAAGTCG
* *
64539673 AATATATTATGCTAATAAATACTA
1 AATATATTATACCAATAAATACTA
*
64539697 AATATATTATACCCATAAATACTA
1 AATATATTATACCAATAAATACTA
64539721 AAT
1 AAT
64539724 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (24 bp):
AATATATTATACCAATAAATACTA
Found at i:64541007 original size:34 final size:35
Alignment explanation
Indices: 64540947--64541013 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
64540937 CAAACACCAG
*
64540947 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* * *
64540982 AAAACATTTTCCCG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
64541014 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:64550261 original size:17 final size:17
Alignment explanation
Indices: 64550221--64550268 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
64550211 CGTTTATCAA
64550221 TTTTTATAATCAAACTC
1 TTTTTATAATCAAACTC
* * *
64550238 -ATTTATAATTAAGCTC
1 TTTTTATAATCAAACTC
64550254 TTTTTATATATCAAA
1 TTTTTATA-ATCAAA
64550269 GATAAAAATG
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
16 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTTTATAATCAAACTC
Found at i:64554866 original size:4 final size:4
Alignment explanation
Indices: 64554857--64554888 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
64554847 CAGCTTCAAC
64554857 CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
64554889 TATATATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:64565399 original size:14 final size:15
Alignment explanation
Indices: 64565368--64565415 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
64565358 GTAGGGATCC
64565368 ATATGTAATATT-CT-
1 ATAT-TAATATTACTA
*
64565382 ATATTAATA-TAGTA
1 ATATTAATATTACTA
64565396 ATA-TAATATTACTA
1 ATATTAATATTACTA
64565410 ATATTA
1 ATATTA
64565416 TCAACTCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 1 0.04
13 11 0.39
14 14 0.50
15 2 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (15 bp):
ATATTAATATTACTA
Found at i:64565448 original size:17 final size:17
Alignment explanation
Indices: 64565426--64565463 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
64565416 TCAACTCCTT
*
64565426 TTTTCT-TTTCTAGTTTA
1 TTTTCTATTT-TAGTATA
64565443 TTTTCTATTTTAGTATA
1 TTTTCTATTTTAGTATA
64565460 TTTT
1 TTTT
64565464 ACATCTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.16, C:0.08, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTCTATTTTAGTATA
Found at i:64572182 original size:21 final size:21
Alignment explanation
Indices: 64572148--64572188 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
64572138 AGACGAGCAA
* * *
64572148 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
64572169 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
64572189 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:64590793 original size:51 final size:51
Alignment explanation
Indices: 64590753--64590864 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
64590743 GTCCTCAAAG
*
64590753 TTTACACA-TTCTATCAATTTG-TTATTGATTTAACAAATTTAACCCACAATA
1 TTTACACATTTC-ATCAATTTGATCA-TGATTTAACAAATTTAACCCACAATA
* * **
64590804 TTTACACATTTCGTCAATTTGATCATGATTTAACATATTTAACCCGTAATA
1 TTTACACATTTCATCAATTTGATCATGATTTAACAAATTTAACCCACAATA
*
64590855 ATTACACATT
1 TTTACACATT
64590865 CTATCAACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 48 0.91
52 5 0.09
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (51 bp):
TTTACACATTTCATCAATTTGATCATGATTTAACAAATTTAACCCACAATA
Found at i:64591614 original size:17 final size:17
Alignment explanation
Indices: 64591574--64591617 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
64591564 GTATTTCATA
64591574 TTATTTTTTTAAATTTTT
1 TTATTTTTTTAAA-TTTT
64591592 TATATTTTTTTGAAA-TTT
1 T-TATTTTTTT-AAATTTT
64591610 TTATTTTT
1 TTATTTTT
64591618 GAATATTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.29
18 5 0.21
19 9 0.38
20 3 0.12
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (17 bp):
TTATTTTTTTAAATTTT
Found at i:64591744 original size:16 final size:15
Alignment explanation
Indices: 64591718--64591752 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
64591708 ATATAATAAA
64591718 ATATTAAATATATAT
1 ATATTAAATATATAT
64591733 ATATTAAAATATATAT
1 ATATT-AAATATATAT
64591749 ATAT
1 ATAT
64591753 ATGTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATTAAATATATAT
Found at i:64595489 original size:30 final size:29
Alignment explanation
Indices: 64595453--64595510 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
64595443 GTGATTTCTG
*
64595453 AAAATTGAATC-AAATCAATATTTCATATAT
1 AAAATTGAA-CAAAATCAA-AGTTCATATAT
*
64595483 AAAATTGTACAAAATCAAAGTTCATATA
1 AAAATTGAACAAAATCAAAGTTCATATA
64595511 CAACATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTGAACAAAATCAAAGTTCATATAT
Found at i:64595931 original size:19 final size:18
Alignment explanation
Indices: 64595904--64595942 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
64595894 AAGTTTATAA
*
64595904 TTTTTTATATTATGTTAT
1 TTTTTTATATTATGTAAT
64595922 TTTTTATATATTATGTAAT
1 TTTTT-TATATTATGTAAT
64595941 TT
1 TT
64595943 AGAACACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTTTATATTATGTAAT
Found at i:64596679 original size:21 final size:23
Alignment explanation
Indices: 64596637--64596679 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
64596627 CTGCCACCGC
*
64596637 CTCTGACCAGCGCCGCACCTGCT
1 CTCTGACCAGCGCCGCAACTGCT
*
64596660 CTCTG-CCATCGCC-CAACTGC
1 CTCTGACCAGCGCCGCAACTGC
64596680 ACCTGCAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 7 0.39
23 5 0.28
ACGTcount: A:0.14, C:0.49, G:0.19, T:0.19
Consensus pattern (23 bp):
CTCTGACCAGCGCCGCAACTGCT
Found at i:64601438 original size:9 final size:9
Alignment explanation
Indices: 64601424--64601498 Score: 116
Period size: 9 Copynumber: 8.4 Consensus size: 9
64601414 TTTGGTTAAA
64601424 AATTAACCG
1 AATTAACCG
64601433 AATTAACCG
1 AATTAACCG
64601442 AATTAACCG
1 AATTAACCG
64601451 AATTAACCG
1 AATTAACCG
64601460 AATTAACCG
1 AATTAACCG
*
64601469 AATT-CCCG
1 AATTAACCG
*
64601477 AATTACCCG
1 AATTAACCG
*
64601486 AATTAACCT
1 AATTAACCG
64601495 AATT
1 AATT
64601499 GAATCATACA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
8 7 0.11
9 55 0.89
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:64602321 original size:15 final size:16
Alignment explanation
Indices: 64602301--64602334 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
64602291 AAAAAGAGTC
64602301 AAATATTTTTTT-ATG
1 AAATATTTTTTTAATG
64602316 AAATATTTTTTTAATG
1 AAATATTTTTTTAATG
64602332 AAA
1 AAA
64602335 ACATTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
AAATATTTTTTTAATG
Found at i:64602327 original size:16 final size:15
Alignment explanation
Indices: 64602301--64602334 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
64602291 AAAAAGAGTC
*
64602301 AAATATTTTTTTATG
1 AAATATTTTTTAATG
64602316 AAATATTTTTTTAATG
1 AAATA-TTTTTTAATG
64602332 AAA
1 AAA
64602335 ACATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
AAATATTTTTTAATG
Found at i:64604011 original size:125 final size:125
Alignment explanation
Indices: 64603789--64604034 Score: 384
Period size: 125 Copynumber: 2.0 Consensus size: 125
64603779 ACAGGTGTCC
* * * *
64603789 GAAATGGAACATAAATATGACAAGACAACCACGGCTTTTCAAGAACTCGTTGATGGCCTTGTAGC
1 GAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAGA
* *
64603854 GAAAATTGACTCCAAGGACAGTAGTTTGCGGGATTGGGAGCTTCGATATAAGGAAATGGG
66 GAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAACGAAATGGG
* ** * * *
64603914 GAAATGGTACATAAATATGATGAGACGACCGCAGCTCTTCAAGGACTCGTCGATGGCCTTGTAGA
1 GAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAGA
64603979 GAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAACGAAA
66 GAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAACGAAA
64604035 CCGTGAGACA
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 109 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (125 bp):
GAAATGGAACATAAATATGACAAGACAACCACAGCTCTTCAAGAACTCGTCGATGGCCTTGTAGA
GAAAATTGACTCCAAGGACAGTAGTTTACGGGATTGGGAGCTTCGATATAACGAAATGGG
Found at i:64611254 original size:30 final size:30
Alignment explanation
Indices: 64611218--64611274 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
64611208 CAAAATTAGG
**
64611218 CTCCATATTTACAAACCTAAATTAAACTTA
1 CTCCATATTTACAAACAGAAATTAAACTTA
64611248 CTCCATATTTACAAACAGAAATTAAAC
1 CTCCATATTTACAAACAGAAATTAAAC
64611275 CTACCTACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.30
Consensus pattern (30 bp):
CTCCATATTTACAAACAGAAATTAAACTTA
Found at i:64611580 original size:17 final size:17
Alignment explanation
Indices: 64611562--64611619 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 17
64611552 ATGTGTAATA
64611562 AAAAATT-ATAAAAAAT
1 AAAAATTAATAAAAAAT
*
64611578 AAAAATTAATAAAATTAT
1 AAAAATTAATAAAA-AAT
* *
64611596 TAAATTCTAATAAAAAAT
1 AAAAAT-TAATAAAAAAT
64611614 ATAAAA
1 A-AAAA
64611620 ATATTTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 7 0.22
17 6 0.19
18 8 0.25
19 11 0.34
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATTAATAAAAAAT
Found at i:64611618 original size:19 final size:18
Alignment explanation
Indices: 64611558--64611619 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 18
64611548 CGTGATGTGT
*
64611558 AATAAAAAATT-ATAAAA
1 AATATAAAATTAATAAAA
64611575 AATA-AAAATTAAT-AAA
1 AATATAAAATTAATAAAA
* *
64611591 ATTATTAAATTCTAATAAAA
1 AATA-TAAAAT-TAATAAAA
64611611 AATATAAAA
1 AATATAAAA
64611620 ATATTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
16 12 0.33
17 6 0.17
18 4 0.11
19 8 0.22
20 6 0.17
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATAAAATTAATAAAA
Found at i:64611852 original size:9 final size:9
Alignment explanation
Indices: 64611838--64611975 Score: 92
Period size: 9 Copynumber: 15.1 Consensus size: 9
64611828 TTTTGGTACA
64611838 ATAATTTTT
1 ATAATTTTT
64611847 ATAATTTTTTT
1 ATAA--TTTTT
*
64611858 ATAAATTTT
1 ATAATTTTT
64611867 AT-ATTTTT
1 ATAATTTTT
64611875 A-AATTTTT
1 ATAATTTTT
64611883 ATAATTTTCT
1 ATAATTTT-T
*
64611893 -TACTATTTT
1 ATAAT-TTTT
*
64611902 ATAAAATTTT
1 AT-AATTTTT
*
64611912 ATAACTTTTGC
1 ATAA-TTTT-T
*
64611923 AT-TTTTTT
1 ATAATTTTT
64611931 ATAA-TTTT
1 ATAATTTTT
64611939 A-AATATTTT
1 ATAAT-TTTT
64611948 ATAATTTTT
1 ATAATTTTT
64611957 A-AATTGTTT
1 ATAATT-TTT
*
64611966 ATAAATTTT
1 ATAATTTTT
64611975 A
1 A
64611976 ACTCTTTTTT
Statistics
Matches: 102, Mismatches: 11, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
7 2 0.02
8 24 0.24
9 44 0.43
10 20 0.20
11 12 0.12
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:64611887 original size:36 final size:36
Alignment explanation
Indices: 64611838--64611975 Score: 124
Period size: 36 Copynumber: 3.8 Consensus size: 36
64611828 TTTTGGTACA
64611838 ATAATTTTTATAATTTTTTTATAAATTTTATATTTTT
1 ATAATTTTTATAATTTTTTTAT-AATTTTATATTTTT
* *
64611875 A-AATTTTTATAATTTTCTTACT-ATTTTATAAAATTTT
1 ATAATTTTTATAATTTTTTTA-TAATTTTAT--ATTTTT
* ** *
64611912 ATAACTTTT-GCATTTTTTTATAATTTTAAATATTTT
1 ATAATTTTTATAATTTTTTTATAATTTTATAT-TTTT
*
64611948 ATAATTTTTA-AA-TTGTTTATAAATTTTA
1 ATAATTTTTATAATTTTTTTAT-AATTTTA
64611976 ACTCTTTTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
35 15 0.18
36 39 0.48
37 22 0.27
38 6 0.07
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (36 bp):
ATAATTTTTATAATTTTTTTATAATTTTATATTTTT
Found at i:64611915 original size:54 final size:51
Alignment explanation
Indices: 64611854--64611975 Score: 122
Period size: 54 Copynumber: 2.3 Consensus size: 51
64611844 TTTATAATTT
*
64611854 TTTTATAAATTTTATATTTTTA-AATTTTTATAATTTTCTTACT-ATTTTATAAAA
1 TTTTATAAATTTTATATTTTTATAA-TTTTA-AATATT-TTA-TAATTTT-TAAAA
* * *
64611908 TTTTATAACTTTTGCATTTTTTTATAATTTTAAATATTTTATAATTTTTAAAT
1 TTTTATAAATTTT--ATATTTTTATAATTTTAAATATTTTATAATTTTTAAAA
64611961 TGTTTATAAATTTTA
1 T-TTTATAAATTTTA
64611976 ACTCTTTTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
52 1 0.02
53 6 0.10
54 31 0.53
55 5 0.09
56 13 0.22
57 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (51 bp):
TTTTATAAATTTTATATTTTTATAATTTTAAATATTTTATAATTTTTAAAA
Found at i:64614083 original size:31 final size:29
Alignment explanation
Indices: 64614019--64614087 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
64614009 ACGATAACGT
* *
64614019 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGTCAAACAA
*
64614048 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAATGTAACAT--GTCAAACAA
64614079 AAGTGACTA
1 AAGTGACTA
64614088 TTTTGGTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGTCAAACAA
Found at i:64618748 original size:8 final size:8
Alignment explanation
Indices: 64618737--64618765 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
64618727 TCTTTTTACT
64618737 ATTTTAAA
1 ATTTTAAA
64618745 ATTTTAAA
1 ATTTTAAA
64618753 ATTTTAAA
1 ATTTTAAA
64618761 ATTTT
1 ATTTT
64618766 TTAAAGAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTTAAA
Found at i:64620175 original size:16 final size:16
Alignment explanation
Indices: 64620154--64620189 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 16
64620144 CCTTTATTCA
64620154 TTTATTTTTGTGTATC
1 TTTATTTTTGTGTATC
64620170 TTTA---TTGTGTATC
1 TTTATTTTTGTGTATC
64620183 TTTATTT
1 TTTATTT
64620190 ATTTTGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 6
0.74 0.00 0.26
Matches are distributed among these distances:
13 13 0.76
16 4 0.24
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (16 bp):
TTTATTTTTGTGTATC
Found at i:64620179 original size:13 final size:13
Alignment explanation
Indices: 64620161--64620188 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
64620151 TCATTTATTT
64620161 TTGTGTATCTTTA
1 TTGTGTATCTTTA
64620174 TTGTGTATCTTTA
1 TTGTGTATCTTTA
64620187 TT
1 TT
64620189 TATTTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.64
Consensus pattern (13 bp):
TTGTGTATCTTTA
Found at i:64627158 original size:18 final size:18
Alignment explanation
Indices: 64627131--64627223 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
64627121 TATGACCGTT
64627131 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
64627149 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
**
64627167 TACAATACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
64627185 TACAGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
64627203 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
64627221 TAC
1 TAC
64627224 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:64636552 original size:4 final size:4
Alignment explanation
Indices: 64636543--64636568 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
64636533 CATGGGTTTT
64636543 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
64636569 GTTAATTGAA
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:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:64638488 original size:18 final size:17
Alignment explanation
Indices: 64638461--64638600 Score: 96
Period size: 18 Copynumber: 8.2 Consensus size: 17
64638451 ACATATAAGA
64638461 ATATAATTTTATTAAATT
1 ATAT-ATTTTATTAAATT
64638479 ATATATTTTTATTAAA-T
1 ATATA-TTTTATTAAATT
* *
64638496 -TATA-TTTAAT-AATA
1 ATATATTTTATTAAATT
*
64638510 AT-TATTTTAAATTATATT
1 ATATATTTT--ATTAAATT
* * *
64638528 TTATAGTATTA-TATATT
1 ATATA-TTTTATTAAATT
* *
64638545 AT-GATTTTAGTAAATT
1 ATATATTTTATTAAATT
64638561 CATATATTTTATTAAATT
1 -ATATATTTTATTAAATT
64638579 ATATATTTTTATTAAATT
1 ATATA-TTTTATTAAATT
64638597 ATAT
1 ATAT
64638601 TTAATAATAA
Statistics
Matches: 96, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 8 0.08
16 10 0.10
17 18 0.19
18 46 0.48
19 2 0.02
20 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (17 bp):
ATATATTTTATTAAATT
Found at i:64638803 original size:39 final size:41
Alignment explanation
Indices: 64638747--64638852 Score: 101
Period size: 44 Copynumber: 2.5 Consensus size: 41
64638737 TTTCCTTATG
* *
64638747 CTATTACACCATC-ATTCCATTCAACCAAACACAA-GAATA-
1 CTATTACGCC-TCTATTCCATTCAACCAAACAAAAGGAATAC
*
64638786 CTATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGGATTAC
1 CTATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGGAATAC
*
64638832 CTATTACGCCTTTATTCCATT
1 CTATTACGCCTCTATTCCATT
64638853 ACGCCTCTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
38 2 0.04
39 9 0.16
41 8 0.15
43 1 0.02
44 20 0.36
45 4 0.07
46 11 0.20
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGGAATAC
Found at i:64638851 original size:46 final size:44
Alignment explanation
Indices: 64638759--64638852 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
64638749 ATTACACCAT
*
64638759 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTC
* *
64638803 CATTCCATTCAACCAAACAAAAGGATTACCTATTACGCCTTTATTC
1 CATTCCATTCAACCAAACAAAA-GAATA-CTATTACGCCTCTATTC
64638849 CATT
1 CATT
64638853 ACGCCTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 21 0.47
45 4 0.09
46 20 0.44
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCCATTCAACCAAACAAAAGAATACTATTACGCCTCTATTC
Found at i:64638855 original size:16 final size:16
Alignment explanation
Indices: 64638834--64638886 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
64638824 AGGATTACCT
*
64638834 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
64638850 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
64638866 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
64638882 ATTAC
1 ATTAC
64638887 AGCGAACCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:64641310 original size:17 final size:18
Alignment explanation
Indices: 64641288--64641322 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
64641278 TTTGTGGGAA
*
64641288 ATTTTTAT-TTTTTTAAT
1 ATTTTTATAATTTTTAAT
64641305 ATTTTTATAATTTTTAAT
1 ATTTTTATAATTTTTAAT
64641323 TTATTGGCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATAATTTTTAAT
Found at i:64642469 original size:24 final size:24
Alignment explanation
Indices: 64642442--64642494 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
64642432 ATCAAAGTCG
* *
64642442 AATATATTATGCTAATAAATGCTA
1 AATATATTATACTAATAAATACTA
*
64642466 AATATATTATACTCATAAATACTA
1 AATATATTATACTAATAAATACTA
64642490 AATAT
1 AATAT
64642495 TCTAGAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (24 bp):
AATATATTATACTAATAAATACTA
Found at i:64646845 original size:101 final size:102
Alignment explanation
Indices: 64646730--64646914 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
64646720 AAAGTGATGG
*
64646730 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
64646793 ACTATGTACAGGCTACTATGCGTATCGGATAGCTTCGA
65 ACTATGTACAGGCTACTATGCGTATCGGATAGCTTCGA
* * *
64646831 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
64646896 CTATGTGCAGGCTACTATG
66 CTATGTACAGGCTACTATG
64646915 TGAACCCATA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 39 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGCGTATCGGATAGCTTCGA
Found at i:64646849 original size:51 final size:50
Alignment explanation
Indices: 64646730--64646914 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
64646720 AAAGTGATGG
* * * * * *
64646730 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-AT-GA
* *
64646780 TCGCATGTGTAGTACTATGTACAGGCTACTATGCGTATCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAG-TAT-GA
* * *
64646831 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-ATGA
64646882 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
64646915 TGAACCCATA
Statistics
Matches: 115, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
50 36 0.31
51 77 0.67
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTATGA
Found at i:64647025 original size:33 final size:33
Alignment explanation
Indices: 64646983--64647068 Score: 172
Period size: 33 Copynumber: 2.6 Consensus size: 33
64646973 ATGTGAAAGG
64646983 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
64647016 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
64647049 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
64647069 ACTGTATCCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
Found at i:64647110 original size:43 final size:42
Alignment explanation
Indices: 64647046--64647199 Score: 168
Period size: 44 Copynumber: 3.6 Consensus size: 42
64647036 CCGAATCACT
* * *
64647046 GGTGGTTGCTAAGTGCTGATTCCACTGTATCCTTGATTGTGAAA
1 GGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTAT--AA
*
64647090 GG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGATTATAA
1 GGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAA
* * * ** *
64647130 GGTGGTTGCTAAGTGATGATTCCACCGGGATCCTTTGAACATGA
1 GGTGGTTGCTAAGTGCTGATTCCACC-GTAT-CATTGATTATAA
64647174 GGTGGTTGCTAAGTGCTGATTCCACC
1 GGTGGTTGCTAAGTGCTGATTCCACC
64647200 ATGTAACGGT
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.04
41 18 0.19
42 15 0.16
43 22 0.23
44 35 0.37
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (42 bp):
GGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTATAA
Found at i:64686149 original size:104 final size:105
Alignment explanation
Indices: 64685915--64686182 Score: 441
Period size: 104 Copynumber: 2.6 Consensus size: 105
64685905 TTGTATATAA
** * *
64685915 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGTG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
64685979 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
64686020 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
64686085 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
64686124 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
64686183 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
104 85 0.56
105 67 0.44
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:64688103 original size:3 final size:3
Alignment explanation
Indices: 64688095--64688129 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
64688085 GAATTAGTCC
64688095 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
64688130 CCTATTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:64688617 original size:22 final size:23
Alignment explanation
Indices: 64688564--64688617 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
64688554 AAATATACTT
*
64688564 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
64688587 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
64688609 TATATATAT
1 TATATATAT
64688618 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:64712154 original size:99 final size:99
Alignment explanation
Indices: 64711983--64712616 Score: 1051
Period size: 99 Copynumber: 6.4 Consensus size: 99
64711973 AAACCATAGT
* *
64711983 TTGCAATTTAAAAGATCAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACATAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
64712048 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
64712082 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
64712147 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* *
64712181 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
64712246 TGAAGCTACAACAGCGAATCTCA-TTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
64712279 TTGCAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTT-CTGGC-ATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
* *
64712342 TGAAGCTACAACGGCGAATCTTACTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* *
64712376 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
* *
64712441 TGAAGCTACAACAGCGAATCTTATTTCCCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * * * *
64712475 TTGTAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTT-CTGGCAATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
* *
64712539 TGAAGCTACAACGGCGAATCTCACTTCTCCGACA
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
*
64712573 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCC
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
64712617 TCGGCAAGAC
Statistics
Matches: 498, Mismatches: 33, Indels: 8
0.92 0.06 0.01
Matches are distributed among these distances:
96 35 0.07
97 54 0.11
98 140 0.28
99 269 0.54
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (99 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:64712395 original size:195 final size:197
Alignment explanation
Indices: 64711983--64712616 Score: 1110
Period size: 197 Copynumber: 3.2 Consensus size: 197
64711973 AAACCATAGT
* * * *
64711983 TTGCAATTTAAAAGATCAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACATAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
* *
64712048 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
* * *
64712113 GAATCTTACTTCCAGGCGATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
131 GAATCTTACTT-CTGGCAATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCCCG
64712178 ACA
195 ACA
64712181 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
64712246 TGAAGCTACAACAGCGAATCTCA-TTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
*
64712310 GAATCTTACTTCTGGC-ATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA
131 GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGA
64712374 CA
196 CA
64712376 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
* * *
64712441 TGAAGCTACAACAGCGAATCTTATTTCCCCGACATTGTAATTTAAAAGATCGAAGCCACAACAGT
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
*
64712506 GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCTCCGA
131 GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGA
64712571 CA
196 CA
*
64712573 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCC
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
64712617 TCGGCAAGAC
Statistics
Matches: 420, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
195 135 0.32
196 60 0.14
197 141 0.34
198 84 0.20
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (197 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACAGT
GAATCTTACTTCTGGCAATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGA
CA
Found at i:64712514 original size:294 final size:296
Alignment explanation
Indices: 64711983--64712616 Score: 1049
Period size: 294 Copynumber: 2.1 Consensus size: 296
64711973 AAACCATAGT
* *
64711983 TTGCAATTTAAAAGATCAAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACATAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
64712048 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
*
64712113 GAATCTTACTTCCAGGCGATGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
131 GAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
* * *
64712178 ACATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAGCA
196 ACATTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTTACTT-CAGGCAATGCAGCGGAACA
64712243 GATTGAAGCTACAACAGCGAATCTCA-TTCCCCGACA
260 GATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
* * *
64712279 TTGCAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTT-CTGGC-ATGCAGTGGAACAGAT
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
* *
64712342 TGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
66 TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
* * *
64712407 GAATCTTACTTCCAGGCGATGCAGCGGAGCAGATTGAAGCTACAACAGCGAATCTTATTTCCCCG
131 GAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
* * * *
64712472 ACATTGTAATTTAAAAGATCGAAGCCACAACAGTGAATCTTACTTCTGGCAATGCAGTGGAACAG
196 ACATTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCAGGCAATGCAGCGGAACAG
* *
64712537 ATTGAAGCTACAACGGCGAATCTCACTTCTCCGACA
261 ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
*
64712573 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCC
1 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
64712617 TCGGCAAGAC
Statistics
Matches: 313, Mismatches: 23, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
293 40 0.13
294 229 0.73
295 5 0.02
296 39 0.12
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (296 bp):
TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTGGAACAGAT
TGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGC
GAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCG
ACATTGCAATTTAAAAGATCGAAGCCACAACAGCGAATCTTACTTCAGGCAATGCAGCGGAACAG
ATTGAAGCTACAACAGCGAATCTCACTTCCCCGACA
Found at i:64713934 original size:3 final size:3
Alignment explanation
Indices: 64713926--64713971 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
64713916 GAATTAGTCC
* * *
64713926 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAC TAC TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
64713972 CCTATTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:64714458 original size:22 final size:23
Alignment explanation
Indices: 64714405--64714458 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
64714395 AAATATACTT
*
64714405 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
64714428 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
64714450 TATATATAT
1 TATATATAT
64714459 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:64715865 original size:13 final size:13
Alignment explanation
Indices: 64715847--64715876 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
64715837 TCCAGCAACT
64715847 ATGAATTTATTTC
1 ATGAATTTATTTC
*
64715860 ATGAATTTATTTG
1 ATGAATTTATTTC
64715873 ATGA
1 ATGA
64715877 TGATCCGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:64716052 original size:50 final size:50
Alignment explanation
Indices: 64715971--64716068 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
64715961 ATTTGGGTAA
* *
64715971 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCGAGATG
* *
64716021 AGAGGTCTCATGTAAGACCATGTTTGAGACATGGCATTGGCACCGAGA
1 AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCGAGA
64716069 CCATGTCTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCGAGATG
Found at i:64716070 original size:31 final size:31
Alignment explanation
Indices: 64716035--64716099 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
64716025 GTCTCATGTA
*
64716035 AGACCATGTTTGAGACATGGCATTGGCACCG
1 AGACCATGTCTGAGACATGGCATTGGCACCG
* *
64716066 AGACCATGTCTGAGGCATGGCATTGGCATCG
1 AGACCATGTCTGAGACATGGCATTGGCACCG
64716097 AGA
1 AGA
64716100 TGAGAGGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (31 bp):
AGACCATGTCTGAGACATGGCATTGGCACCG
Found at i:64716120 original size:81 final size:81
Alignment explanation
Indices: 64715985--64716149 Score: 244
Period size: 81 Copynumber: 2.0 Consensus size: 81
64715975 GTCCCATGTA
* *
64715985 AGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCTCATGTAAGACCATGTTTGAGA
1 AGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTCTGAGA
*
64716050 CATGGCATTGGCACCG
66 CATAGCATTGGCACCG
*
64716066 AGACCATGTCTGAGG-CATGGCATTGGCA-TCGAGATGAGAGGTCCCATGTAAGACCATGTCTGG
1 AGACCATGTCTG-GGACATGGCATTGGCACT-GAGATGAGAGGTCCCATGTAAGACCATGTCTGA
* *
64716129 GACATAGCATTTGCACTG
64 GACATAGCATTGGCACCG
64716147 AGA
1 AGA
64716150 TGAGAGGTCC
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 73 0.96
82 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (81 bp):
AGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCCATGTAAGACCATGTCTGAGA
CATAGCATTGGCACCG
Found at i:64716125 original size:50 final size:49
Alignment explanation
Indices: 64716066--64716244 Score: 198
Period size: 50 Copynumber: 3.6 Consensus size: 49
64716056 ATTGGCACCG
64716066 AGACCATGTCTGAGG-CATGGCATTGGCATCGAGATGAGAGGTCCCATGTA
1 AGACCATGTCTG-GGACATGGCATTGGCA-CGAGATGAGAGGTCCCATGTA
* * **
64716116 AGACCATGTCTGGGACATAGCATTTGCACTGAGATGAGAGGTCCCCCGTA
1 AGACCATGTCTGGGACATGGCATTGGCAC-GAGATGAGAGGTCCCATGTA
* * * **
64716166 AGACCATCTCTGGGACATGGCATGGGCACCGACATGAGTACATCCCATGTA
1 AGACCATGTCTGGGACATGGCATTGGCA-CGAGATGAG-AGGTCCCATGTA
* * *
64716217 AGACCATGTTTGGGATATGGCTTTGGCA
1 AGACCATGTCTGGGACATGGCATTGGCA
64716245 TGTTATTATC
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.03
50 72 0.67
51 32 0.30
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (49 bp):
AGACCATGTCTGGGACATGGCATTGGCACGAGATGAGAGGTCCCATGTA
Found at i:64721961 original size:82 final size:82
Alignment explanation
Indices: 64721859--64722016 Score: 210
Period size: 82 Copynumber: 1.9 Consensus size: 82
64721849 ATCCTAGCAA
* * * * *
64721859 ACTTCATTTTACTTCAATAATACACGACAGAGTTTTAGAACAGATAGTCCTTATGGA-CATCCCA
1 ACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTCCCTAT-AACCATCCCA
64721923 CAAGATAATCCAAGGTGG
65 CAAGATAATCCAAGGTGG
* ** *
64721941 ACTTCTTTTTACTTTGATAATACACGACAGACTTCTAGAACAAATAGTCCCTATAACCGTCCCAC
1 ACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTCCCTATAACCATCCCAC
*
64722006 AAGATAGTCCA
66 AAGATAATCCA
64722017 TGGCAGACTT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 1 0.02
82 64 0.98
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (82 bp):
ACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTCCCTATAACCATCCCAC
AAGATAATCCAAGGTGG
Found at i:64722026 original size:82 final size:82
Alignment explanation
Indices: 64721844--64722026 Score: 208
Period size: 82 Copynumber: 2.2 Consensus size: 82
64721834 TACAATTCCG
* * * * *
64721844 AGATAATCCTA-GCAAACTTCATTTTACTTCAATAATACACGACAGAGTTTTAGAACAGATAGTC
1 AGATAATCCAAGGCAGACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTC
* *
64721908 CTTATGGACATCCCACA
66 CCTATGAACATCCCACA
** * **
64721925 AGATAATCCAAGGTGGACTTCTTTTTACTTTGATAATACACGACAGACTTCTAGAACAAATAGTC
1 AGATAATCCAAGGCAGACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTC
*
64721990 CCTAT-AACCGTCCCACA
66 CCTATGAA-CATCCCACA
* *
64722007 AGATAGTCCATGGCAGACTT
1 AGATAATCCAAGGCAGACTT
64722027 TCCAGATATG
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
81 11 0.13
82 72 0.87
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (82 bp):
AGATAATCCAAGGCAGACTTCATTTTACTTCAATAATACACGACAGACTTCTAGAACAAATAGTC
CCTATGAACATCCCACA
Done.