Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 4 of 45
Found at i:680328 original size:27 final size:28
Alignment explanation
Indices: 680298--680358 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
680288 TTAATGAGTA
680298 ATATTATATA-AAT-TTTAATATATTTTT
1 ATATTATATATAATATTT-ATATATTTTT
* *
680325 ATATT-TATATTATATTTATATTTTTTT
1 ATATTATATATAATATTTATATATTTTT
680352 ATATTAT
1 ATATTAT
680359 GTTCAAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 4 0.14
27 21 0.72
28 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
ATATTATATATAATATTTATATATTTTT
Found at i:680331 original size:17 final size:17
Alignment explanation
Indices: 680322--680356 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
680312 TTAATATATT
680322 TTTATATTTATATTATA
1 TTTATATTTATATTATA
*
680339 TTTATATTT-TTTTATA
1 TTTATATTTATATTATA
680355 TT
1 TT
680357 ATGTTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATTTATATTATA
Found at i:680337 original size:11 final size:11
Alignment explanation
Indices: 680323--680358 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
680313 TAATATATTT
680323 TTATATTTATA
1 TTATATTTATA
680334 TTATATTTATA
1 TTATATTTATA
*
680345 TT-TTTTTATA
1 TTATATTTATA
680355 TTAT
1 TTAT
680359 GTTCAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATATTTATA
Found at i:682665 original size:2 final size:2
Alignment explanation
Indices: 682654--682701 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
682644 ATTATATGTG
*
682654 TA TA TA -A TA TA T- TA T- TA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
682693 TA TA TA TA T
1 TA TA TA TA T
682702 TTCAAACATG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:682793 original size:18 final size:19
Alignment explanation
Indices: 682770--682806 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
682760 TATATAATAT
682770 AAAATAT-TACAATATAAA
1 AAAATATATACAATATAAA
*
682788 AAAATATATATAATATAAA
1 AAAATATATACAATATAAA
682807 TTATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATATATACAATATAAA
Found at i:682796 original size:32 final size:34
Alignment explanation
Indices: 682760--682844 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
682750 ACAACGTAAT
682760 TATATAATATAAAATATTACA-ATATAAAAAAATA
1 TATATAATATAAAATATTA-ATATATAAAAAAATA
* * **
682794 TATATAATATAAATTATTAATATATTAAAATTTA
1 TATATAATATAAAATATTAATATATAAAAAAATA
*
682828 TATA-AATATATAATATT
1 TATATAATATAAAATATT
682845 TTAAATAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
33 12 0.27
34 32 0.73
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (34 bp):
TATATAATATAAAATATTAATATATAAAAAAATA
Found at i:684464 original size:3 final size:3
Alignment explanation
Indices: 684456--684499 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
684446 ATTTACAATT
**
684456 ATA ATA ATA A-A AGG ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
684500 GGTGATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:690806 original size:2 final size:2
Alignment explanation
Indices: 690799--690828 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
690789 ACCAACTAAC
690799 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
690829 TTTTGGTGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:692600 original size:2 final size:2
Alignment explanation
Indices: 692593--692631 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
692583 TTCAATAGCA
692593 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
692632 ACCTTCTGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:697626 original size:2 final size:2
Alignment explanation
Indices: 697613--697651 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
697603 AGAGCAATAC
*
697613 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
697652 ATAGGCACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:698079 original size:5 final size:5
Alignment explanation
Indices: 698069--698098 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
698059 GCATTGTATA
698069 GGAGG GGAGG GGAGG GGAGG GGAGG GGAGG
1 GGAGG GGAGG GGAGG GGAGG GGAGG GGAGG
698099 AGGGGCCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGAGG
Found at i:700857 original size:2 final size:2
Alignment explanation
Indices: 700850--700898 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
700840 CACCACTTGG
700850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
700892 AT AT AT A
1 AT AT AT A
700899 ACACTATGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:703346 original size:38 final size:37
Alignment explanation
Indices: 703276--703353 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
703266 TTTTTCATTT
*
703276 AAAAAATATTAAATTAAAAATATTAATATAATAATTATA
1 AAAAAATAATAAATTAAAAATATTAATATAAT-A-TATA
* * * *
703315 AAAAAATAATAAA-TAAAATTTTTATTTTAATATATA
1 AAAAAATAATAAATTAAAAATATTAATATAATATATA
703351 AAA
1 AAA
703354 CATTATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 7 0.21
37 1 0.03
38 14 0.41
39 12 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (37 bp):
AAAAAATAATAAATTAAAAATATTAATATAATATATA
Found at i:703408 original size:11 final size:11
Alignment explanation
Indices: 703394--703427 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
703384 AATTTTTATA
703394 TAAATATTAAT
1 TAAATATTAAT
*
703405 TAAAAATTAAT
1 TAAATATTAAT
*
703416 TAAATAATAAT
1 TAAATATTAAT
703427 T
1 T
703428 TACTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATATTAAT
Found at i:704221 original size:17 final size:17
Alignment explanation
Indices: 704199--704233 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
704189 CCTTATTTTT
704199 CATTGTCAGATTGAACG
1 CATTGTCAGATTGAACG
704216 CATTGTCAGATTGAACG
1 CATTGTCAGATTGAACG
704233 C
1 C
704234 TCTCAAACTT
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:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (17 bp):
CATTGTCAGATTGAACG
Found at i:704470 original size:21 final size:20
Alignment explanation
Indices: 704450--704487 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
704440 TTTATTTTAT
704450 TTATGAAAAT-TAAAAAATTA
1 TTAT-AAAATATAAAAAATTA
*
704470 TTATAATATATAAAAAAT
1 TTATAAAATATAAAAAAT
704488 AAATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
TTATAAAATATAAAAAATTA
Found at i:705486 original size:15 final size:15
Alignment explanation
Indices: 705466--705494 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
705456 AAAAATAGAG
705466 AAAAAAATTAAATTA
1 AAAAAAATTAAATTA
705481 AAAAAAATTAAATT
1 AAAAAAATTAAATT
705495 TCAACCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAAATTAAATTA
Found at i:707307 original size:23 final size:23
Alignment explanation
Indices: 707281--707326 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
707271 TACAGGTTAG
707281 TCCTTATTCTTGTTCATATCTTT
1 TCCTTATTCTTGTTCATATCTTT
*
707304 TCCTTATTCTTGTTCATTTCTTT
1 TCCTTATTCTTGTTCATATCTTT
707327 AAGTTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (23 bp):
TCCTTATTCTTGTTCATATCTTT
Found at i:708140 original size:2 final size:2
Alignment explanation
Indices: 708128--708171 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
708118 CTGTGAATGC
*
708128 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
708170 TA
1 TA
708172 AGATTGTGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:708756 original size:6 final size:6
Alignment explanation
Indices: 708740--708775 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
708730 GGGAATTGAT
708740 GGACT- GGACTG GGACTG GGACTG GGACTG GGACTG G
1 GGACTG GGACTG GGACTG GGACTG GGACTG GGACTG G
708776 AAATCAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.17, C:0.17, G:0.50, T:0.17
Consensus pattern (6 bp):
GGACTG
Found at i:714297 original size:24 final size:24
Alignment explanation
Indices: 714270--714322 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
714260 GGTTATTTGT
*
714270 AGCATG-CGTTTTACTTGGGCGCTA
1 AGCATGTCGCTTT-CTTGGGCGCTA
*
714294 AGCATGTGGCTTTCTTGGGCGCTA
1 AGCATGTCGCTTTCTTGGGCGCTA
714318 AGCAT
1 AGCAT
714323 TTCTATTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.32
Consensus pattern (24 bp):
AGCATGTCGCTTTCTTGGGCGCTA
Found at i:714331 original size:24 final size:24
Alignment explanation
Indices: 714270--714332 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
714260 GGTTATTTGT
*
714270 AGCATG-CGTTTTACTTGGGCGCTA
1 AGCATGTCGATTT-CTTGGGCGCTA
* *
714294 AGCATGTGGCTTTCTTGGGCGCTA
1 AGCATGTCGATTTCTTGGGCGCTA
* *
714318 AGCATTTCTATTTCT
1 AGCATGTCGATTTCT
714333 ACTATTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 28 0.88
25 4 0.12
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (24 bp):
AGCATGTCGATTTCTTGGGCGCTA
Found at i:714883 original size:9 final size:9
Alignment explanation
Indices: 714871--714936 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
714861 ATAATATGTA
714871 TATTAAATT
1 TATTAAATT
*
714880 TATTATATT
1 TATTAAATT
714889 TATTATAATAT
1 TATTA-AAT-T
* *
714900 TTTTATATT
1 TATTAAATT
**
714909 TATTAAAAA
1 TATTAAATT
714918 TATTTCAAATT
1 TA-TT-AAATT
714929 TATTAAAT
1 TATTAAAT
714937 GTGTAATAGA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
9 25 0.58
10 8 0.19
11 10 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTAAATT
Found at i:715041 original size:14 final size:14
Alignment explanation
Indices: 715022--715080 Score: 82
Period size: 14 Copynumber: 4.2 Consensus size: 14
715012 AGACTTTGAA
*
715022 ATGTTTATATATAT
1 ATGTATATATATAT
*
715036 ATGTTTATATATAT
1 ATGTATATATATAT
*
715050 ATATATATATATAT
1 ATGTATATATATAT
*
715064 ATATATATATATAT
1 ATGTATATATATAT
715078 ATG
1 ATG
715081 ATCAATTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
ATGTATATATATAT
Found at i:715097 original size:2 final size:2
Alignment explanation
Indices: 715027--715079 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
715017 TTGAAATGTT
* *
715027 TA TA TA TA TA TG TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
715069 TA TA TA TA TA T
1 TA TA TA TA TA T
715080 GATCAATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:721863 original size:2 final size:2
Alignment explanation
Indices: 721858--721883 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
721848 ACACACACAC
721858 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
721884 GAAAACGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:724659 original size:17 final size:17
Alignment explanation
Indices: 724605--724664 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
724595 TAAAATATAA
* *
724605 TATATTT-AAATATAAT
1 TATATTTAAAATTTTAT
*
724621 TA-ATATAAAATTTTATT
1 TATATTTAAAATTTTA-T
724638 TATATTTAAAATTTTAT
1 TATATTTAAAATTTTAT
724655 TATATTTAAA
1 TATATTTAAA
724665 TTTATATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 3 0.08
16 8 0.22
17 14 0.38
18 12 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTTAAAATTTTAT
Found at i:725171 original size:14 final size:14
Alignment explanation
Indices: 725145--725210 Score: 86
Period size: 14 Copynumber: 4.9 Consensus size: 14
725135 TAAAATAAAT
725145 ATATATGTATATTAA
1 ATATAT-TATATTAA
725160 ATATATTATATT-A
1 ATATATTATATTAA
725173 AT-TA-TAT-TTAA
1 ATATATTATATTAA
725184 ATATATTATATTAA
1 ATATATTATATTAA
*
725198 ATTTATTATATTA
1 ATATATTATATTA
725211 TTTTTATAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
10 2 0.04
11 6 0.13
12 4 0.09
13 6 0.13
14 22 0.48
15 6 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
ATATATTATATTAA
Found at i:725178 original size:29 final size:27
Alignment explanation
Indices: 725152--725210 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 27
725142 AATATATATG
725152 TATATTAAATATATTATATT-AATTA-
1 TATATTAAATATATTATATTAAATTAT
725177 TAT-TTAAATATATTATATTAAATTTAT
1 TATATTAAATATATTATATTAAA-TTAT
725204 TATATTA
1 TATATTA
725211 TTTTTATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 16 0.53
25 5 0.17
26 3 0.10
27 3 0.10
28 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TATATTAAATATATTATATTAAATTAT
Found at i:725183 original size:24 final size:23
Alignment explanation
Indices: 725152--725238 Score: 85
Period size: 24 Copynumber: 3.9 Consensus size: 23
725142 AATATATATG
725152 TATATTAAATATATTATATTAAT
1 TATATTAAATATATTATATTAAT
725175 TATATTTAAATATATTATATTAAAT
1 TATA-TTAAATATATTATATT-AAT
* *
725200 T-TATTATAT-TATT-TTTATAAT
1 TATATTAAATATATTATAT-TAAT
*
725221 TA-A-TAAATATATTGTATT
1 TATATTAAATATATTATATT
725239 TATAAATTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
20 4 0.07
21 12 0.22
22 7 0.13
23 9 0.17
24 18 0.33
25 4 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
TATATTAAATATATTATATTAAT
Found at i:725232 original size:38 final size:40
Alignment explanation
Indices: 725152--725251 Score: 102
Period size: 38 Copynumber: 2.6 Consensus size: 40
725142 AATATATATG
* * * *
725152 TATATTAAATATATTATATTA--ATTATATTTAAATATAT
1 TATATTAAATTTATTATATTATTTTTATAATTAAATATAA
725190 TATATTAAATTTATTATATTATTTTTATAATT-AATA-AA
1 TATATTAAATTTATTATATTATTTTTATAATTAAATATAA
** *
725228 TATATTGTATTTA-TAAATTATTTT
1 TATATTAAATTTATTATATTATTTT
725252 AATATTATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
37 10 0.19
38 32 0.60
39 4 0.08
40 7 0.13
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (40 bp):
TATATTAAATTTATTATATTATTTTTATAATTAAATATAA
Found at i:725240 original size:24 final size:24
Alignment explanation
Indices: 725204--725276 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
725194 TTAAATTTAT
*
725204 TATATTATTTTTATAATTAATAAA
1 TATATTATATTTATAATTAATAAA
* * **
725228 TATATTGTATTTATAAATTATTTTA
1 TATATTATATTTAT-AATTAATAAA
*
725253 -ATATTATATTTAAAATTAATAAA
1 TATATTATATTTATAATTAATAAA
725276 T
1 T
725277 TTAATTTGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
23 7 0.19
24 23 0.62
25 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (24 bp):
TATATTATATTTATAATTAATAAA
Found at i:727902 original size:6 final size:6
Alignment explanation
Indices: 727878--727944 Score: 53
Period size: 6 Copynumber: 11.2 Consensus size: 6
727868 TGTTATTTCA
* * * * * * *
727878 TCCTCA TCCTCA TCGTCT TCCTCT TCTTCT TCATCT TCTTCT TCCTCC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT TCCTCT
* *
727926 TCCTCC TCCTCC TCCTCT T
1 TCCTCT TCCTCT TCCTCT T
727945 GTTCTTGTGG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.04, C:0.48, G:0.01, T:0.46
Consensus pattern (6 bp):
TCCTCT
Found at i:737594 original size:15 final size:16
Alignment explanation
Indices: 737568--737606 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
737558 GTATAAATAT
737568 TTATTTTATATTTATA
1 TTATTTTATATTTATA
*
737584 TTATTTT-TATTTTTA
1 TTATTTTATATTTATA
*
737599 TTGTTTTA
1 TTATTTTA
737607 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATTTTATATTTATA
Found at i:741493 original size:22 final size:23
Alignment explanation
Indices: 741468--741521 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 23
741458 AAAAATATAA
*
741468 AATATTAAAATTATTTTATA-TT
1 AATATTTAAATTATTTTATACTT
*
741490 AATATTTATA-TATTTTATACTT
1 AATATTTAAATTATTTTATACTT
741512 AA-ATTTAAAT
1 AATATTTAAAT
741522 AAGAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTAAATTATTTTATACTT
Found at i:744181 original size:21 final size:20
Alignment explanation
Indices: 744147--744185 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
744137 TAATAATTAA
*
744147 TTATAAATCATATAAAAAAT
1 TTATAAAACATATAAAAAAT
744167 TTATAAAAACATATAAAAA
1 TTAT-AAAACATATAAAAA
744186 TAAATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
TTATAAAACATATAAAAAAT
Found at i:748657 original size:1 final size:1
Alignment explanation
Indices: 748651--748685 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
748641 GCATATTAGC
* *
748651 TTTTTTTTTTTTTTTTTTTTTTCTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
748686 CCCTGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:752615 original size:2 final size:2
Alignment explanation
Indices: 752608--752643 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
752598 AATAATTTCA
*
752608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
752644 CTGAATGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:758968 original size:107 final size:107
Alignment explanation
Indices: 758777--758991 Score: 351
Period size: 107 Copynumber: 2.0 Consensus size: 107
758767 CCAGTTTAAC
*
758777 ACCAAGGATTTTTAAAATAAATTTCCCTGGAAAATTTTCAGTCAACTCTTAGGATAATACCAACA
1 ACCAAGGATTTTTAAAATAAATTTCCCTGGAAAAGTTTCAGTCAACTCTTAGGATAATACCAACA
* * *
758842 AAGTCATAGCGTTAGTGTCATATGTGCTCACCTCTTTTGCAG
66 AAGTAATAGCGTTAGTGTCAGATGTACTCACCTCTTTTGCAG
*
758884 ACCAAGGATTTTTAAAATAAATTTCCCTGGAAAAGTTTCAGTCAACTCTTAGGATAATACTAACA
1 ACCAAGGATTTTTAAAATAAATTTCCCTGGAAAAGTTTCAGTCAACTCTTAGGATAATACCAACA
* *
758949 AAGTAATGGCGTT-GCTGTCAGGTGTACTCACCTCTTTTGCAG
66 AAGTAATAGCGTTAG-TGTCAGATGTACTCACCTCTTTTGCAG
758991 A
1 A
758992 TATATATATT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
106 1 0.01
107 99 0.99
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (107 bp):
ACCAAGGATTTTTAAAATAAATTTCCCTGGAAAAGTTTCAGTCAACTCTTAGGATAATACCAACA
AAGTAATAGCGTTAGTGTCAGATGTACTCACCTCTTTTGCAG
Found at i:767847 original size:2 final size:2
Alignment explanation
Indices: 767842--767867 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
767832 TCACACAGAA
767842 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
767868 TATGTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:769409 original size:15 final size:15
Alignment explanation
Indices: 769389--769419 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
769379 TGGAATAAAC
769389 ATTCCAGCCAACCAA
1 ATTCCAGCCAACCAA
769404 ATTCCAGCCAACCAA
1 ATTCCAGCCAACCAA
769419 A
1 A
769420 CATGAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.39, G:0.06, T:0.13
Consensus pattern (15 bp):
ATTCCAGCCAACCAA
Found at i:772802 original size:77 final size:75
Alignment explanation
Indices: 772663--772813 Score: 182
Period size: 77 Copynumber: 2.0 Consensus size: 75
772653 GCTGAGAGAG
* * *
772663 AGAGTGGGGGATGATGAGACTGCTGATAAGGAACTGAAGGTTAATGATACGTAGTTGCCTTCAT-
1 AGAGTGGGGGATGACGAGACTGCTGATAAGGAAATGAAGGTTAAAGATACGTAGTTGCCTTCATA
772727 GGGCTAATGGC
66 GGG-TAATGGC
* **
772738 AGAGTGGGGGATGACGAGAGTGCTGATGGGGGAAAATGAAGGTTAACGAGATA-G-AGTTGCCTT
1 AGAGTGGGGGATGACGAGACTGCTGAT-AAGG-AAATGAAGGTTAA--AGATACGTAGTTGCCTT
772801 CATAGGGTAATGG
62 CATAGGGTAATGG
772814 AAAAGCAGGG
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
75 25 0.38
76 2 0.03
77 30 0.46
78 4 0.06
79 4 0.06
ACGTcount: A:0.29, C:0.10, G:0.38, T:0.23
Consensus pattern (75 bp):
AGAGTGGGGGATGACGAGACTGCTGATAAGGAAATGAAGGTTAAAGATACGTAGTTGCCTTCATA
GGGTAATGGC
Found at i:778938 original size:17 final size:18
Alignment explanation
Indices: 778904--778941 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
778894 TTTCAAATAT
**
778904 ATAATTATATTTTTTAAA
1 ATAATTATATTTAATAAA
778922 ATAATTA-ATTTAATAAA
1 ATAATTATATTTAATAAA
778939 ATA
1 ATA
778942 TATATTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATTATATTTAATAAA
Found at i:779429 original size:27 final size:27
Alignment explanation
Indices: 779393--779447 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
779383 GTATATTAAA
* * * *
779393 AACAAGAATAAAATTAATATTAGTAAT
1 AACAAAAATAAAATAAAAAATAGTAAT
779420 AACAAAAATAAAATAAAAAATAGTAAT
1 AACAAAAATAAAATAAAAAATAGTAAT
779447 A
1 A
779448 GTCTGAGTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (27 bp):
AACAAAAATAAAATAAAAAATAGTAAT
Found at i:780094 original size:16 final size:15
Alignment explanation
Indices: 780067--780097 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
780057 TCTTACATCA
780067 ATTAAATTAAATTAT
1 ATTAAATTAAATTAT
780082 ATTAAAGTTAAATTAT
1 ATTAAA-TTAAATTAT
780098 GTTGTTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (15 bp):
ATTAAATTAAATTAT
Found at i:789993 original size:19 final size:19
Alignment explanation
Indices: 789971--790007 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
789961 AAACAAAGCG
789971 TTTTTTTAAAAATTTTTTA
1 TTTTTTTAAAAATTTTTTA
**
789990 TTTTTTTATTAATTTTTT
1 TTTTTTTAAAAATTTTTT
790008 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTAAAAATTTTTTA
Found at i:790062 original size:17 final size:17
Alignment explanation
Indices: 790031--790073 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
790021 TTTTTTATTT
790031 TATTATTTAATTAATGA
1 TATTATTTAATTAATGA
*
790048 TATTAATTTAA-TAATTA
1 TATT-ATTTAATTAATGA
790065 TA-TATTTAA
1 TATTATTTAA
790074 ATTTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 6 0.25
16 1 0.04
17 11 0.46
18 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
TATTATTTAATTAATGA
Found at i:790603 original size:2 final size:2
Alignment explanation
Indices: 790588--790633 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
790578 GTTTTATGTC
* * *
790588 AT AT AT AA AA AT AT AT AT AT AT AT AT AT AT AA AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
790629 AT AT A
1 AT AT A
790634 AACGCAAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:791937 original size:105 final size:106
Alignment explanation
Indices: 791764--791974 Score: 352
Period size: 105 Copynumber: 2.0 Consensus size: 106
791754 CATGTTCAAC
* * * *
791764 AGTCTTATGCATTATATCAGCCAAATCATCATCAAAGTCAAGCTAGGGTAATACGCTACCTAGAT
1 AGTCTTATGCATTATATCAGCCAAATCATCATCAAAATCAAGCCAGGGTAATAAGCAACCTAGAT
*
791829 TCAGGTCCCAATTTATTACAGATTTAAGTATCATGTTGTAG
66 TCAGGTCCCAATTTATTAAAGATTTAAGTATCATGTTGTAG
*
791870 AGTCTTATGCATTATATCAGCC-GATCATCATCAAAATCAAGCCAGGGTAATAAGCAACCTAGAT
1 AGTCTTATGCATTATATCAGCCAAATCATCATCAAAATCAAGCCAGGGTAATAAGCAACCTAGAT
*
791934 TCAGGTTCCAATTTATTAAAGATTTAAGTATCATGTTGTAG
66 TCAGGTCCCAATTTATTAAAGATTTAAGTATCATGTTGTAG
791975 CTCGTAAAGG
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
105 76 0.78
106 22 0.22
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (106 bp):
AGTCTTATGCATTATATCAGCCAAATCATCATCAAAATCAAGCCAGGGTAATAAGCAACCTAGAT
TCAGGTCCCAATTTATTAAAGATTTAAGTATCATGTTGTAG
Found at i:794163 original size:2 final size:2
Alignment explanation
Indices: 794158--794184 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
794148 TTTTACACAC
794158 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
794185 GACATACGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:796372 original size:37 final size:37
Alignment explanation
Indices: 796322--796398 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
796312 GCAAGCTAAC
*
796322 TAACCTAAAGCCCCCATTTACCCATATATGGCGCACT
1 TAACCTAAAGCCCCCATTCACCCATATATGGCGCACT
796359 TAACCTAAAGCCCCCATTCACCCATATATGGCGCACT
1 TAACCTAAAGCCCCCATTCACCCATATATGGCGCACT
796396 TAA
1 TAA
796399 AAATCGAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.31, C:0.35, G:0.10, T:0.23
Consensus pattern (37 bp):
TAACCTAAAGCCCCCATTCACCCATATATGGCGCACT
Found at i:797232 original size:13 final size:13
Alignment explanation
Indices: 797216--797262 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
797206 ATTTTATTTT
797216 TTTATTATTAATA
1 TTTATTATTAATA
797229 TTTATTATTAAT-
1 TTTATTATTAATA
** *
797241 TAAATATAATAATA
1 TTTAT-TATTAATA
797255 TTTATTAT
1 TTTATTAT
797263 ATTTATAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 3 0.12
13 20 0.77
14 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTATTATTAATA
Found at i:799282 original size:126 final size:129
Alignment explanation
Indices: 799068--799315 Score: 421
Period size: 126 Copynumber: 1.9 Consensus size: 129
799058 AAAACACAAC
*
799068 ATAAATACATAAATTTATTAAAAATTTATATAAAATTAATTATTAATATATCTAAATTTATATCA
1 ATAAATACATAAATTTATTAAAAATTTATATAAAATTAATTATTAACATATCTAAATTTATATCA
799133 AATATATATCATCTTAATATAAAAAAA-TAATGTGAATATAAAAATAATCGT-TAAAATATAAT
66 AATATATATCATCTTAATATAAAAAAATTAATGTGAATATAAAAATAATCGTGTAAAATATAAT
* * * *
799195 ATAAATACGTAAATTTATTAAAATTTTATAT-AAATTAATTATTAACCTATTTAAATTTATATCA
1 ATAAATACATAAATTTATTAAAAATTTATATAAAATTAATTATTAACATATCTAAATTTATATCA
*
799259 AATATATATTATCTTAATATAAAAAAATTAATGTGAATATAAAAATAATCGTGTAAA
66 AATATATATCATCTTAATATAAAAAAATTAATGTGAATATAAAAATAATCGTGTAAA
799316 CTTTGAGTGT
Statistics
Matches: 113, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
126 56 0.50
127 53 0.47
128 4 0.04
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (129 bp):
ATAAATACATAAATTTATTAAAAATTTATATAAAATTAATTATTAACATATCTAAATTTATATCA
AATATATATCATCTTAATATAAAAAAATTAATGTGAATATAAAAATAATCGTGTAAAATATAAT
Found at i:807122 original size:12 final size:12
Alignment explanation
Indices: 807105--807129 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
807095 AAGCATAAAA
807105 ATGTAAGATTTC
1 ATGTAAGATTTC
807117 ATGTAAGATTTC
1 ATGTAAGATTTC
807129 A
1 A
807130 GGACTAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGTAAGATTTC
Found at i:815777 original size:2 final size:2
Alignment explanation
Indices: 815770--815800 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
815760 TATGCTAGCA
*
815770 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
815801 AAAGGGGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:818647 original size:8 final size:8
Alignment explanation
Indices: 818634--818662 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
818624 ATTTTATCTA
818634 TTTTTTCT
1 TTTTTTCT
818642 TTTTTTCT
1 TTTTTTCT
818650 TTTTTT-T
1 TTTTTTCT
818657 TTTTTT
1 TTTTTT
818663 AAATACGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (8 bp):
TTTTTTCT
Found at i:822454 original size:2 final size:2
Alignment explanation
Indices: 822447--822472 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
822437 ACTCATTGTC
822447 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
822473 TAGCATGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:827377 original size:18 final size:18
Alignment explanation
Indices: 827333--827382 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
827323 ATAATTTTAT
*
827333 ATTATTTAAATTTAAATTA
1 ATTATTTAAATATAAA-TA
827352 ATTA-TTAAATATAAA-A
1 ATTATTTAAATATAAATA
827368 ATATATTT-AATATAA
1 AT-TATTTAAATATAA
827383 TTATATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.11
17 9 0.32
18 12 0.43
19 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTTAAATATAAATA
Found at i:827943 original size:22 final size:22
Alignment explanation
Indices: 827915--827957 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
827905 TTTATATAAA
827915 ATATAAAAATAAAATATTTTTT
1 ATATAAAAATAAAATATTTTTT
*
827937 ATATAAATATAAAATATTTTT
1 ATATAAAAATAAAATATTTTT
827958 AAATATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATAAAAATAAAATATTTTTT
Found at i:830320 original size:18 final size:18
Alignment explanation
Indices: 830290--830349 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
830280 GTTTTTTAAA
*
830290 AAAT-ATAAGAAAAAATT
1 AAATAATAAAAAAAAATT
*
830307 AAATAATAAAAAAATATT
1 AAATAATAAAAAAAAATT
*
830325 AACGTAA-AAAATAAAAATT
1 AA-ATAATAAAA-AAAAATT
*
830344 TAATAA
1 AAATAA
830350 GAAATTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 4 0.12
18 20 0.59
19 10 0.29
ACGTcount: A:0.70, C:0.02, G:0.03, T:0.25
Consensus pattern (18 bp):
AAATAATAAAAAAAAATT
Found at i:831774 original size:2 final size:2
Alignment explanation
Indices: 831767--831812 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
831757 TTAATTAGTT
*
831767 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
831809 TA TA
1 TA TA
831813 GGACATGACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:832040 original size:32 final size:31
Alignment explanation
Indices: 831983--832095 Score: 87
Period size: 32 Copynumber: 3.7 Consensus size: 31
831973 TAATTATATA
*
831983 AATAT-AATATATA-TATAAAGTATTTAATAAAT
1 AATATAAATATATATTTTAAA--ATTT-ATAAAT
832015 AATATAAATATATATTTTAAAATTTAT--AT
1 AATATAAATATATATTTTAAAATTTATAAAT
* *
832044 AATATAAATTATTAACATATTAAAATTTATAAA-
1 AATATAAA-TA-T-ATATTTTAAAATTTATAAAT
*
832077 AATA-AAAAATA-ATTTTAAA
1 AATATAAATATATATTTTAAA
832096 CATGATTATA
Statistics
Matches: 69, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
28 7 0.10
29 11 0.16
30 3 0.04
31 4 0.06
32 26 0.38
33 12 0.17
34 6 0.09
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (31 bp):
AATATAAATATATATTTTAAAATTTATAAAT
Found at i:832296 original size:17 final size:17
Alignment explanation
Indices: 832274--832308 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
832264 TTCATAAGTT
*
832274 TTTTTTTTAATATATGA
1 TTTTTTTTAATAAATGA
*
832291 TTTTTTTTCATAAATGA
1 TTTTTTTTAATAAATGA
832308 T
1 T
832309 CAATTTAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTTTTTTAATAAATGA
Found at i:832884 original size:2 final size:2
Alignment explanation
Indices: 832877--832912 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
832867 ACACTTAGAA
832877 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
832913 ATTTTATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:834290 original size:18 final size:18
Alignment explanation
Indices: 834269--834329 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
834259 TCGAATTAAG
834269 TTAAATTTAATATAATAT
1 TTAAATTTAATATAATAT
**
834287 TTAAATTTGGTAT-A-AT
1 TTAAATTTAATATAATAT
834303 TT-AATTT-ATA-AATA-
1 TTAAATTTAATATAATAT
834317 TTAATATTTAATA
1 TTAA-ATTTAATA
834330 AAAATAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
14 5 0.14
15 7 0.20
16 8 0.23
17 4 0.11
18 11 0.31
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TTAAATTTAATATAATAT
Found at i:837488 original size:15 final size:15
Alignment explanation
Indices: 837468--837526 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
837458 ATTGTATGAT
837468 TTATATTTAAATATA
1 TTATATTTAAATATA
***
837483 TTATATTATTTTTATA
1 TTATATT-TAAATATA
837499 TT-TA-TTAAATATA
1 TTATATTTAAATATA
* *
837512 TAATATTTATATATA
1 TTATATTTAAATATA
837527 ATTTTATACG
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
13 6 0.18
14 3 0.09
15 17 0.52
16 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATTTAAATATA
Found at i:837493 original size:24 final size:25
Alignment explanation
Indices: 837443--837523 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
837433 ATAAATATAA
* * *
837443 TATATGTATTAATATATTGTATGATT
1 TATATTTA-TAATATATTATATTATT
837469 TATATTTA-AATATATTATATTATTTT
1 TATATTTATAATATATTATATTA--TT
*
837495 TATATTTATTAA-ATA-TATAATATT
1 TATATTTA-TAATATATTATATTATT
837519 TATAT
1 TATAT
837524 ATAATTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
24 19 0.40
26 23 0.49
27 3 0.06
28 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTATAATATATTATATTATT
Found at i:843323 original size:50 final size:50
Alignment explanation
Indices: 843268--843369 Score: 141
Period size: 50 Copynumber: 2.0 Consensus size: 50
843258 AATATTTACA
* *
843268 ATATAATATATAACAACATATACATTTGATCCTTCAAGCAGTTATGCTCT
1 ATATAATATATAACAACACATACACTTGATCCTTCAAGCAGTTATGCTCT
* * * * *
843318 ATATAATATATGAGAATACATACACTTGTTCCTTTAAGCAGTTATGCTCT
1 ATATAATATATAACAACACATACACTTGATCCTTCAAGCAGTTATGCTCT
843368 AT
1 AT
843370 CTTTAATTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (50 bp):
ATATAATATATAACAACACATACACTTGATCCTTCAAGCAGTTATGCTCT
Found at i:846263 original size:33 final size:32
Alignment explanation
Indices: 846199--846290 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 32
846189 TATAAATTTT
* **
846199 TAATCAAAAATAATTTTATACATAATAAAAAATA
1 TAAT-AAAAATAATTATATATTTAA-AAAAAATA
846233 TAATAAAAATAATTATATATTTAAACAAAAATA
1 TAATAAAAATAATTATATATTTAAA-AAAAATA
* * *
846266 TTATAATACAT-ATAATATATTTAAA
1 TAATAA-AAATAATTATATATTTAAA
846291 TATAATTAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 1 0.02
33 42 0.84
34 7 0.14
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (32 bp):
TAATAAAAATAATTATATATTTAAAAAAAATA
Found at i:847606 original size:21 final size:21
Alignment explanation
Indices: 847582--847621 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
847572 ATAATTATTT
847582 TAAT-TTAATTATAAAAATATA
1 TAATATTAA-TATAAAAATATA
847603 TAATATTAATATAAAAATA
1 TAATATTAATATAAAAATA
847622 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATATTAATATAAAAATATA
Found at i:847632 original size:19 final size:21
Alignment explanation
Indices: 847585--847633 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
847575 ATTATTTTAA
847585 TTTAATTATAAAAATATATAAT
1 TTTAA-TATAAAAATATATAAT
* *
847607 ATTAATATAAAAATA-AT-TT
1 TTTAATATAAAAATATATAAT
847626 TTTAATAT
1 TTTAATAT
847634 TTTAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 8 0.33
20 2 0.08
21 10 0.42
22 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAATATAAAAATATATAAT
Found at i:849811 original size:18 final size:18
Alignment explanation
Indices: 849788--849823 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
849778 CTGCTAAAAT
849788 AAAAG-AAAAGCGGTAAGA
1 AAAAGAAAAAG-GGTAAGA
849806 AAAAGAAAAAGGGTAAGA
1 AAAAGAAAAAGGGTAAGA
849824 GGCTATTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.06
Consensus pattern (18 bp):
AAAAGAAAAAGGGTAAGA
Found at i:858245 original size:17 final size:17
Alignment explanation
Indices: 858213--858245 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
858203 CCTAAAAGAG
858213 TAATATATTATAGAAAA
1 TAATATATTATAGAAAA
858230 TAATAATATTAT-GAAA
1 TAAT-ATATTATAGAAA
858246 TGGAATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAATATATTATAGAAAA
Found at i:859424 original size:6 final size:6
Alignment explanation
Indices: 859415--859470 Score: 66
Period size: 6 Copynumber: 10.0 Consensus size: 6
859405 TATTAAAATT
* *
859415 AATATA AATATA AA-AT- ATTTTA AATAT- AAT-TA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
859459 AATATA AATATA
1 AATATA AATATA
859471 TAATTATTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
4 2 0.05
5 9 0.21
6 31 0.74
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:861211 original size:27 final size:25
Alignment explanation
Indices: 861180--861230 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
861170 ACATTCGATA
*
861180 AAAATAATATATTAAAATATATTTTTT
1 AAAATAAT-TAATAAAATA-ATTTTTT
*
861207 AAAATTATTAATAAAATAATTTTT
1 AAAATAATTAATAAAATAATTTTT
861231 AATCAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 9 0.41
27 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAAATAATTAATAAAATAATTTTTT
Found at i:861240 original size:25 final size:23
Alignment explanation
Indices: 861188--861232 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
861178 TAAAAATAAT
* *
861188 ATATTAA-AATATATTTTTTAAA
1 ATATTAATAAAATAATTTTTAAA
861210 ATTATTAATAAAATAATTTTTAA
1 A-TATTAATAAAATAATTTTTAA
861233 TCAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 6 0.32
24 12 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATATTAATAAAATAATTTTTAAA
Found at i:861274 original size:35 final size:35
Alignment explanation
Indices: 861204--861274 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
861194 AAATATATTT
* *
861204 TTTAAAATTATTAATAAAATAATTTTTAATCAATA
1 TTTAAAATTATCAATAAAATAATTTTTAATAAATA
* *
861239 TTTATAATTATCAATTAAATAATTTTATAA-AAATA
1 TTTAAAATTATCAATAAAATAATTTT-TAATAAATA
861274 T
1 T
861275 AAAAAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 28 0.90
36 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (35 bp):
TTTAAAATTATCAATAAAATAATTTTTAATAAATA
Found at i:863109 original size:23 final size:24
Alignment explanation
Indices: 863083--863140 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
863073 GTATTTATTT
*
863083 TATTAAAAAATTTATA-TTTGATA
1 TATTAAATAATTTATATTTTGATA
* *
863106 TATT-AATAATATATATTTTTATA
1 TATTAAATAATTTATATTTTGATA
863129 TATTAAATAATT
1 TATTAAATAATT
863141 AAATAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 9 0.31
23 14 0.48
24 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TATTAAATAATTTATATTTTGATA
Found at i:863229 original size:23 final size:23
Alignment explanation
Indices: 863189--863256 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
863179 TAATTTTATT
*
863189 TTTAATAA-AATAAAATAAAATAA
1 TTTAATAATAAT-ATATAAAATAA
* *
863212 TTTAATAATAATATATAAATTTA
1 TTTAATAATAATATATAAAATAA
* *
863235 TAT-ATTATCAATATATAAAATA
1 TTTAATAAT-AATATATAAAATA
863257 TAAATATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
22 4 0.11
23 29 0.81
24 3 0.08
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (23 bp):
TTTAATAATAATATATAAAATAA
Found at i:864333 original size:24 final size:22
Alignment explanation
Indices: 864306--864370 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 22
864296 AATAATTTTA
864306 AATATAATATATTTAAATATAATT
1 AATATAATATATTTAAATA-AA-T
864330 AATATAATATATTTATAATAAAT
1 AATATAATATATTTA-AATAAAT
* *
864353 ATTATATATTTATTTAAA
1 AATATA-ATATATTTAAA
864371 ATTTGTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 8 0.22
24 25 0.68
25 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATAATATATTTAAATAAAT
Found at i:864372 original size:20 final size:20
Alignment explanation
Indices: 864304--864365 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 20
864294 TTAATAATTT
864304 TAAATATAATATATTTAAATATAA
1 TAAATATAATATA-TT---TATAA
*
864328 TTAATATAATATATTTATAA
1 TAAATATAATATATTTATAA
*
864348 TAAATATTATATATTTAT
1 TAAATATAATATATTTAT
864366 TTAAAATTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 21 0.60
23 2 0.06
24 12 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATATAATATATTTATAA
Found at i:873644 original size:19 final size:19
Alignment explanation
Indices: 873609--873646 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
873599 AAATTACTTG
*
873609 TTAATATAAATTAATTTAA
1 TTAATATAAAATAATTTAA
873628 TTAATAATAAAAT-ATTTAA
1 TTAAT-ATAAAATAATTTAA
873647 ATATTAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTAATATAAAATAATTTAA
Found at i:874237 original size:15 final size:15
Alignment explanation
Indices: 874213--874242 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
874203 TATGAATTAT
*
874213 AATTTTAATAATAAA
1 AATTTAAATAATAAA
874228 AATTTAAATAATAAA
1 AATTTAAATAATAAA
874243 TAATAACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTTAAATAATAAA
Found at i:888195 original size:4 final size:4
Alignment explanation
Indices: 888175--888210 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
888165 TAAAATTAAA
*
888175 AAAG AAAG AGAAA AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG A-AAG AAAG AAAG AAAG AAAG AAAG AAA
888211 TTATTGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.90
5 3 0.10
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:888203 original size:12 final size:12
Alignment explanation
Indices: 888172--888210 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
888162 TATTAAAATT
888172 AAAAAAGAAAGA
1 AAAAAAGAAAGA
888184 GAAAAAAGAAAGA
1 -AAAAAAGAAAGA
*
888197 AAGAAAGAAAGA
1 AAAAAAGAAAGA
888209 AA
1 AA
888211 TTATTGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:888562 original size:14 final size:14
Alignment explanation
Indices: 888543--888576 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
888533 AATTTTAAAT
888543 AATTTAAATATTAA
1 AATTTAAATATTAA
888557 AATTTAAATATTAA
1 AATTTAAATATTAA
*
888571 ATTTTA
1 AATTTA
888577 TCATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTAAATATTAA
Found at i:889033 original size:28 final size:29
Alignment explanation
Indices: 888982--889059 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 29
888972 AATATAAATA
* * * *
888982 TATATTTCATATAAAAAT-TTTTATTTTTT
1 TATATTT-ATATATAAATATATTATATTAT
*
889011 TATTTTTATATATAAA-ATATTATATTAT
1 TATATTTATATATAAATATATTATATTAT
*
889039 TATATTTATATTTAAATATAT
1 TATATTTATATATAAATATAT
889060 ATTAATAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 30 0.75
29 10 0.25
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TATATTTATATATAAATATATTATATTAT
Found at i:889045 original size:30 final size:28
Alignment explanation
Indices: 888980--889045 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 28
888970 TAAATATAAA
* *
888980 TATATATTTCATATAAAAATTTTTATTTT
1 TATAT-TTTCATATAAAAATTTATATTAT
* *
889009 TTTATTTTTATATATAAAATATTATATTAT
1 TATATTTTCATATA-AAAAT-TTATATTAT
889039 TATATTT
1 TATATTT
889046 ATATTTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 8 0.27
29 9 0.30
30 13 0.43
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TATATTTTCATATAAAAATTTATATTAT
Found at i:892179 original size:3 final size:3
Alignment explanation
Indices: 892173--892201 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
892163 TTTTTTAATT
892173 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
892202 TTTCTTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:896006 original size:20 final size:20
Alignment explanation
Indices: 895955--896051 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
895945 TTTTATTATT
*
895955 TTTATTTTATA-ATTA-TAT
1 TTTATTTTATATATTATTAA
*
895973 TTTAAATATTATATATTATTAA
1 TTT--ATTTTATATATTATTAA
**
895995 TTTATTTTATATAAAATTTAA
1 TTTATTTTATATATTA-TTAA
* *
896016 TATATTTATATATATT-TTTA
1 TTTATTT-TATATATTATTAA
*
896036 -TTATTTTATTTATTAT
1 TTTATTTTATATATTAT
896052 AATCATAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
18 10 0.16
19 6 0.10
20 20 0.33
21 14 0.23
22 11 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATTTTATATATTATTAA
Found at i:896150 original size:24 final size:24
Alignment explanation
Indices: 896123--896214 Score: 79
Period size: 24 Copynumber: 4.0 Consensus size: 24
896113 TAAATTTTAA
896123 TATTTTTATATTTATATCATATTT
1 TATTTTTATATTTATATCATATTT
*
896147 TATTTTTATA-TTATTTCATGATTT
1 TATTTTTATATTTATATCAT-ATTT
*
896171 T-TATTTTAT-TTTA-ATTAT-TTT
1 TAT-TTTTATATTTATATCATATTT
* * *
896192 TA-TTATATAATTATATTATATTT
1 TATTTTTATATTTATATCATATTT
896215 AAAATTATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
20 5 0.09
21 7 0.12
22 5 0.09
23 15 0.27
24 24 0.43
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (24 bp):
TATTTTTATATTTATATCATATTT
Found at i:896190 original size:20 final size:19
Alignment explanation
Indices: 896146--896195 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
896136 ATATCATATT
* *
896146 TTATTTTTATATTATTTCA
1 TTATTTTTATTTTATTTAA
*
896165 TGATTTTTATTTTATTTTAA
1 TTATTTTTATTTTA-TTTAA
896185 TTATTTTTATT
1 TTATTTTTATT
896196 ATATAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTTTTATTTTATTTAA
Found at i:896192 original size:10 final size:9
Alignment explanation
Indices: 896117--896197 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
896107 ATTATATAAA
*
896117 TTTTAATAT
1 TTTTATTAT
896126 TTTTA-TAT
1 TTTTATTAT
* *
896134 TTATATCAT
1 TTTTATTAT
896143 ATTTTATT-T
1 -TTTTATTAT
*
896152 TTATATTA-
1 TTTTATTAT
* *
896160 TTTCATGAT
1 TTTTATTAT
896169 TTTTATTTTAT
1 TTTTA--TTAT
*
896180 TTTAATTAT
1 TTTTATTAT
896189 TTTTATTAT
1 TTTTATTAT
896198 ATAATTATAT
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
8 18 0.33
9 24 0.44
10 5 0.09
11 7 0.13
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.69
Consensus pattern (9 bp):
TTTTATTAT
Found at i:896204 original size:17 final size:16
Alignment explanation
Indices: 896174--896223 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
896164 ATGATTTTTA
896174 TTTTATTT-TAATTAT
1 TTTTATTTATAATTAT
896189 TTTTATTATATAATTAT
1 TTTTATT-TATAATTAT
* *
896206 ATTATATTTAAAATTAT
1 -TTTTATTTATAATTAT
896223 T
1 T
896224 AGATTTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 7 0.23
16 2 0.07
17 15 0.50
18 6 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATTTATAATTAT
Found at i:896273 original size:45 final size:45
Alignment explanation
Indices: 896223--896312 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
896213 TTAAAATTAT
896223 TAGATTTAATGTAAGATAGAGCTAGCTTGGTGATCCCTTGTGTGC
1 TAGATTTAATGTAAGATAGAGCTAGCTTGGTGATCCCTTGTGTGC
896268 TAGATTTAATGTAAGATAGAGCTAGCTTGGTGATCCCTTGTGTGC
1 TAGATTTAATGTAAGATAGAGCTAGCTTGGTGATCCCTTGTGTGC
896313 CTTTAATAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (45 bp):
TAGATTTAATGTAAGATAGAGCTAGCTTGGTGATCCCTTGTGTGC
Found at i:897148 original size:13 final size:11
Alignment explanation
Indices: 897124--897172 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 11
897114 GTATGTTATT
897124 TATATTATATA
1 TATATTATATA
897135 TATATATATAATA
1 TATAT-TAT-ATA
*
897148 TATACTTATATC
1 TATA-TTATATA
897160 TATACTTATATA
1 TATA-TTATATA
897172 T
1 T
897173 GAGTTAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
11 5 0.15
12 17 0.52
13 10 0.30
14 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (11 bp):
TATATTATATA
Found at i:902784 original size:824 final size:824
Alignment explanation
Indices: 901187--902844 Score: 3111
Period size: 824 Copynumber: 2.0 Consensus size: 824
901177 AAAATTAAAT
*
901187 ATACTAATGT-CGGACGTATACTTTTATTTCTGACACTTGCACCCGATTTCAAGTAATATAGATT
1 ATACTAAT-TCCGGACGTATACTTTTATTTCCGACACTTGCACCCGATTTCAAGTAATATAGATT
*
901251 TATGTAATTTAATCATCTAAAGTAGCTTTTCTCATTTGTTGTTTGCTTTCGTTATATGTTTAGGG
65 TATGTAATTTAATCATCTAAAATAGCTTTTCTCATTTGTTGTTTGCTTTCGTTATATGTTTAGGG
901316 CAAGAGACAAATGTGGAGTCACATTTCCAAGGGGATATAGTTCCGAACCAAGGCATCAATGAGAG
130 CAAGAGACAAATGTGGAGTCACATTTCCAAGGGGATATAGTTCCGAACCAAGGCATCAATGAGAG
*
901381 TTACGGGTACCTTCCTGGCTCATTCCCACTCGAAGGTACGATTTACAAGTATCTTTTGCCAAAAA
195 TTACGGGTACCTTCCTGGCTCATTCCCACTCAAAGGTACGATTTACAAGTATCTTTTGCCAAAAA
901446 TCCTAAACCTGTCATAAGTAACAAGGAATAATTAAATTAGTGGTATTAAATTGTGCTTCATTTAT
260 TCCTAAACCTGTCATAAGTAACAAGGAATAATTAAATTAGTGGTATTAAATTGTGCTTCATTTAT
901511 GATTTATAGCATTCTGTATTTGCAGTGCTCAAATGTGGATATGTTCTTATATAATACTTTAATAT
325 GATTTATAGCATTCTGTATTTGCAGTGCTCAAATGTGGATATGTTCTTATATAATACTTTAATAT
901576 TTCTGGGTTAATTTTTAATATGACTCCGGTAAACATTTAACACCTCCTTTATATATAAATATGAA
390 TTCTGGGTTAATTTTTAATATGACTCCGGTAAACATTTAACACCTCCTTTATATATAAATATGAA
*
901641 TTGATGCTGATACCTATGCTGCTCCGACTCTTATTTTTCTTGAAATACTTGTGTCCGACATGTAT
455 TTAATGCTGATACCTATGCTGCTCCGACTCTTATTTTTCTTGAAATACTTGTGTCCGACATGTAT
901706 TTGGACATGGGTGTTAAGGTATAACCCTCCAAATACATGAAAAAACTTAGAAAAAAATTAAACAT
520 TTGGACATGGGTGTTAAGGTATAACCCTCCAAATACATGAAAAAACTTAGAAAAAAATTAAACAT
* * *
901771 ACCCATATCCGATGTTCACATCTGAGTCCGAGTAACATAGGTTGATACATTTTAATCATTTAAAG
585 ACCCATATCCGATATTCACACCTGAGTCCGAGTAACATAGGTTGATACATTATAATCATTTAAAG
*
901836 TAATTTTTCTCATTTGCTGTTTGCTTTCTTTATATATTAAGGGCAAGAGACTAATGTCAAATCTC
650 TAATTTTTCTCATTTGCTGTTTGCTTTCTTTATATATTAAGGGCAAGAGACAAATGTCAAATCTC
* *
901901 ATTTCCCATGGGATACAGTTCCGAACCAAGGCCAGACCATTGAGGCTTACAAGCAGCTTCCTGGC
715 ATTTCCCATGGGATACAGTTCCGAACCAAGGCAAGACCAGTGAGGCTTACAAGCAGCTTCCTGGC
901966 TCATTCCCATTTAAAGGTATGATTTACGAGTATCTTTTGTCAAAA
780 TCATTCCCATTTAAAGGTATGATTTACGAGTATCTTTTGTCAAAA
* *
902011 ATACTCATTCCGGACGTATACTTTTATTTCCGACACTTGTACCCGATTTCAAGTAATATAGATTT
1 ATACTAATTCCGGACGTATACTTTTATTTCCGACACTTGCACCCGATTTCAAGTAATATAGATTT
902076 ATGTAATTTAATCATCTAAAATAGCTTTTCTCATTTGTTGTTTGCTTTCGTTATATGTTTAGGGC
66 ATGTAATTTAATCATCTAAAATAGCTTTTCTCATTTGTTGTTTGCTTTCGTTATATGTTTAGGGC
* *
902141 AAGAGACAATTGTGGAGTCATATTTCCAAGGGGATATAGTTCCGAACCAAGGCATCAATGAGAGT
131 AAGAGACAAATGTGGAGTCACATTTCCAAGGGGATATAGTTCCGAACCAAGGCATCAATGAGAGT
* *
902206 TACGGGTACCTTCGTGGCTCATTCCCACTCAAAGGTACGATTTTCAAGTATCTTTTGCCAAAAAT
196 TACGGGTACCTTCCTGGCTCATTCCCACTCAAAGGTACGATTTACAAGTATCTTTTGCCAAAAAT
*
902271 CCTAAATCTGTCATAAGTAACAAGGAATAATTAAATTAGTGGTATTAAATTGTGCTTCATTTATG
261 CCTAAACCTGTCATAAGTAACAAGGAATAATTAAATTAGTGGTATTAAATTGTGCTTCATTTATG
902336 ATTTATAGCATTCTGTATTTGCAGTGCTCAAATGTGGATATGTTCTTATATAATACTTTAATATT
326 ATTTATAGCATTCTGTATTTGCAGTGCTCAAATGTGGATATGTTCTTATATAATACTTTAATATT
*
902401 TCTGGGTTAATTTTTAATATGACTCTGGTAAACATTTAACACCTCCTTTATATATAAATATGAAT
391 TCTGGGTTAATTTTTAATATGACTCCGGTAAACATTTAACACCTCCTTTATATATAAATATGAAT
902466 TAATGCTGATACCTATGCTGCTCCGACTCTTATTTTTCTTGAAATACTTGTGTCCGACATGTATT
456 TAATGCTGATACCTATGCTGCTCCGACTCTTATTTTTCTTGAAATACTTGTGTCCGACATGTATT
902531 TGGACATGGGTGTTAAGGTATAACCCTCCAAATACATGAAAAAACTTAGAAAAAAATTAAACATA
521 TGGACATGGGTGTTAAGGTATAACCCTCCAAATACATGAAAAAACTTAGAAAAAAATTAAACATA
* *
902596 CTCATATCCGATATTCACACCTGAGTCCGAGTAACATAGGTTGGTACATTATAATCATTTAAAGT
586 CCCATATCCGATATTCACACCTGAGTCCGAGTAACATAGGTTGATACATTATAATCATTTAAAGT
*
902661 AATTTTTCTTATTTGCTGTTTGCTTTCTTTATATATTAAGGGCAAGAGACAAATGTCAAATCTCA
651 AATTTTTCTCATTTGCTGTTTGCTTTCTTTATATATTAAGGGCAAGAGACAAATGTCAAATCTCA
902726 TTTCCCATGGGATACAGTTCCGAACCAAGGCAAGACCAGTGAGGCTTACAAGCAGCTTCCTGGCT
716 TTTCCCATGGGATACAGTTCCGAACCAAGGCAAGACCAGTGAGGCTTACAAGCAGCTTCCTGGCT
902791 CATTCCCATTTAAAGGTATGATTTACGAGTATCTTTTGTCAAAA
781 CATTCCCATTTAAAGGTATGATTTACGAGTATCTTTTGTCAAAA
902835 ATACTAATTC
1 ATACTAATTC
902845 TGTCATGCTT
Statistics
Matches: 811, Mismatches: 22, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
823 1 0.00
824 810 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (824 bp):
ATACTAATTCCGGACGTATACTTTTATTTCCGACACTTGCACCCGATTTCAAGTAATATAGATTT
ATGTAATTTAATCATCTAAAATAGCTTTTCTCATTTGTTGTTTGCTTTCGTTATATGTTTAGGGC
AAGAGACAAATGTGGAGTCACATTTCCAAGGGGATATAGTTCCGAACCAAGGCATCAATGAGAGT
TACGGGTACCTTCCTGGCTCATTCCCACTCAAAGGTACGATTTACAAGTATCTTTTGCCAAAAAT
CCTAAACCTGTCATAAGTAACAAGGAATAATTAAATTAGTGGTATTAAATTGTGCTTCATTTATG
ATTTATAGCATTCTGTATTTGCAGTGCTCAAATGTGGATATGTTCTTATATAATACTTTAATATT
TCTGGGTTAATTTTTAATATGACTCCGGTAAACATTTAACACCTCCTTTATATATAAATATGAAT
TAATGCTGATACCTATGCTGCTCCGACTCTTATTTTTCTTGAAATACTTGTGTCCGACATGTATT
TGGACATGGGTGTTAAGGTATAACCCTCCAAATACATGAAAAAACTTAGAAAAAAATTAAACATA
CCCATATCCGATATTCACACCTGAGTCCGAGTAACATAGGTTGATACATTATAATCATTTAAAGT
AATTTTTCTCATTTGCTGTTTGCTTTCTTTATATATTAAGGGCAAGAGACAAATGTCAAATCTCA
TTTCCCATGGGATACAGTTCCGAACCAAGGCAAGACCAGTGAGGCTTACAAGCAGCTTCCTGGCT
CATTCCCATTTAAAGGTATGATTTACGAGTATCTTTTGTCAAAA
Found at i:903013 original size:71 final size:71
Alignment explanation
Indices: 902897--903032 Score: 211
Period size: 71 Copynumber: 1.9 Consensus size: 71
902887 ATGTTAAATT
* *
902897 GTGCTTTATTTATGATTTATAACATTATAATCCTCTAATATTTCTTTGTT-ATTATTTAATATGA
1 GTGCTTTATTTATGACTTATAACATCATAATCCTCTAATATTTCTTTGTTAATT-TTTAATATGA
902961 CTCACTA
65 CTCACTA
* * *
902968 GTGCTTTGTTTATGACTTATAACGTCATAATCCTTTAATATTTCTTTGTTAATTTTTAATATGAC
1 GTGCTTTATTTATGACTTATAACATCATAATCCTCTAATATTTCTTTGTTAATTTTTAATATGAC
903033 GCAATAATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 56 0.95
72 3 0.05
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (71 bp):
GTGCTTTATTTATGACTTATAACATCATAATCCTCTAATATTTCTTTGTTAATTTTTAATATGAC
TCACTA
Found at i:906060 original size:2 final size:2
Alignment explanation
Indices: 906047--906087 Score: 55
Period size: 2 Copynumber: 20.0 Consensus size: 2
906037 GTTGTTTCCT
* *
906047 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
906088 GTATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:906698 original size:21 final size:22
Alignment explanation
Indices: 906662--906708 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
906652 AATATATATT
*
906662 ATATATCATTTTTTTAAATTAA
1 ATATATCATTTATTTAAATTAA
*
906684 ATATAT-ATTTATTTAATTTAA
1 ATATATCATTTATTTAAATTAA
906705 ATAT
1 ATAT
906709 CGTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATATCATTTATTTAAATTAA
Found at i:909074 original size:2 final size:2
Alignment explanation
Indices: 909067--909101 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
909057 TTTATCATGG
* *
909067 GT GT GT GT GG GT GT GT GT CT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
909102 AGAGAGAGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.51, T:0.46
Consensus pattern (2 bp):
GT
Found at i:909106 original size:2 final size:2
Alignment explanation
Indices: 909101--909131 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
909091 GTGTGTGTGT
909101 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
909132 TTTGTGTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:914118 original size:18 final size:17
Alignment explanation
Indices: 914095--914134 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
914085 ATTTATATTA
*
914095 TAAATTATATCATTTAAT
1 TAAATT-TATAATTTAAT
*
914113 TAAATTTATAATTTTAT
1 TAAATTTATAATTTAAT
914130 TAAAT
1 TAAAT
914135 ATTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATTTATAATTTAAT
Found at i:914196 original size:21 final size:21
Alignment explanation
Indices: 914147--914186 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
914137 TTATTATTTT
*
914147 ATTATGTA-TTAATTTTTAAA
1 ATTATATATTTAATTTTTAAA
914167 ATTATATATTTAATTTTTAA
1 ATTATATATTTAATTTTTAA
914187 TTTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
ATTATATATTTAATTTTTAAA
Found at i:914396 original size:57 final size:57
Alignment explanation
Indices: 914335--914452 Score: 236
Period size: 57 Copynumber: 2.1 Consensus size: 57
914325 TTCAAAGAGC
914335 TATTGCATGTCGCACACACTTGCATCATTTAAGCATAGGCTTAATAATCAAATTAAA
1 TATTGCATGTCGCACACACTTGCATCATTTAAGCATAGGCTTAATAATCAAATTAAA
914392 TATTGCATGTCGCACACACTTGCATCATTTAAGCATAGGCTTAATAATCAAATTAAA
1 TATTGCATGTCGCACACACTTGCATCATTTAAGCATAGGCTTAATAATCAAATTAAA
914449 TATT
1 TATT
914453 TTGCTTTGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (57 bp):
TATTGCATGTCGCACACACTTGCATCATTTAAGCATAGGCTTAATAATCAAATTAAA
Found at i:916105 original size:86 final size:89
Alignment explanation
Indices: 916006--916180 Score: 223
Period size: 91 Copynumber: 2.0 Consensus size: 89
915996 ATTTACCTAT
* * *
916006 TTTTTTCAATATATTACAATTTATTA-AGTTATTAAATATGTAAA-AA-TAAATTATTAGATATA
1 TTTTTTCAATATATTACAATTTAATAGA-TTATTAAATATATAAATAATTAAATTATTAAATATA
* *
916068 TTAAAATTTTAAATACATATATTTA
65 TTAAAATATTAAAAACATATATTTA
* *
916093 TTTTTT-AGTATATTACAATTTAATGGATTATTAAATATATAAATGTAATTTAAATTATTAAATA
1 TTTTTTCAATATATTACAATTTAATAGATTATTAAATATATAAA--TAA-TTAAATTATTAAATA
916157 TATTAAAATATTAAAAACATATAT
63 TATTAAAATATTAAAAACATATAT
916181 AATATATGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
86 31 0.41
87 7 0.09
89 2 0.03
91 35 0.47
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (89 bp):
TTTTTTCAATATATTACAATTTAATAGATTATTAAATATATAAATAATTAAATTATTAAATATAT
TAAAATATTAAAAACATATATTTA
Found at i:916167 original size:10 final size:9
Alignment explanation
Indices: 916121--916171 Score: 54
Period size: 8 Copynumber: 5.8 Consensus size: 9
916111 TTTAATGGAT
916121 TATTAAATA
1 TATTAAATA
*
916130 TA-TAAATG
1 TATTAAATA
916138 TAATTTAAAT-
1 T-A-TTAAATA
916148 TATTAAATA
1 TATTAAATA
916157 TATTAAA-A
1 TATTAAATA
916165 TATTAAA
1 TATTAAA
916172 AACATATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
8 20 0.54
9 11 0.30
10 1 0.03
11 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
TATTAAATA
Found at i:916577 original size:11 final size:10
Alignment explanation
Indices: 916563--916615 Score: 54
Period size: 11 Copynumber: 5.1 Consensus size: 10
916553 TTTAAAATCT
916563 ATATAAATATA
1 ATAT-AATATA
*
916574 ATAT-ATAAA
1 ATATAATATA
916583 ATATAATAATA
1 ATATAAT-ATA
*
916594 ATATAATAAA
1 ATATAATATA
916604 ATATAAATATA
1 ATAT-AATATA
916615 A
1 A
916616 AAATTATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 8 0.23
10 8 0.23
11 19 0.54
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
ATATAATATA
Found at i:916578 original size:5 final size:5
Alignment explanation
Indices: 916563--916615 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
916553 TTTAAAATCT
* *
916563 ATATAA ATATA ATAT- ATAAA ATATA ATAATA ATATA ATAAA ATATAA
1 ATAT-A ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATAT-A
916610 ATATA A
1 ATATA A
916616 AAATTATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
4 3 0.08
5 23 0.57
6 14 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (5 bp):
ATATA
Found at i:916580 original size:13 final size:13
Alignment explanation
Indices: 916562--916615 Score: 65
Period size: 14 Copynumber: 4.0 Consensus size: 13
916552 TTTTAAAATC
916562 TATATAAATATAA
1 TATATAAATATAA
916575 TATATAAAATATAA
1 TATAT-AAATATAA
916589 TA-ATAATATAATAA
1 TATATAA-AT-ATAA
*
916603 AATATAAATATAA
1 TATATAAATATAA
916616 AAATTATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 2 0.06
13 13 0.36
14 17 0.47
15 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TATATAAATATAA
Found at i:916606 original size:16 final size:16
Alignment explanation
Indices: 916565--916615 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
916555 TAAAATCTAT
*
916565 ATAAATATAATATATAAA
1 ATAAA-ATAATA-ATATA
*
916583 ATATAATAATAATATA
1 ATAAAATAATAATATA
916599 ATAAAAT-ATAAATATA
1 ATAAAATAAT-AATATA
916615 A
1 A
916616 AAATTATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 2 0.07
16 17 0.59
17 6 0.21
18 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAATAATAATATA
Found at i:916616 original size:13 final size:13
Alignment explanation
Indices: 916563--916617 Score: 58
Period size: 13 Copynumber: 4.1 Consensus size: 13
916553 TTTAAAATCT
*
916563 ATATAAATATAAT
1 ATATAAATATAAA
916576 ATATAAAATATAATA
1 ATAT-AAATATAA-A
*
916591 ATA-ATATAATAAA
1 ATATAAAT-ATAAA
916604 ATATAAATATAAA
1 ATATAAATATAAA
916617 A
1 A
916618 ATTATCAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 17 0.49
14 15 0.43
15 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATATAAATATAAA
Found at i:916716 original size:2 final size:2
Alignment explanation
Indices: 916711--916742 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
916701 AAAAGAGAGC
916711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
916743 CAAATCCGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:919270 original size:2 final size:2
Alignment explanation
Indices: 919263--919294 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
919253 CCAATGGGTA
919263 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
919295 GCTGATTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:921530 original size:25 final size:27
Alignment explanation
Indices: 921496--921548 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
921486 ATAAAAAATA
*
921496 AAATTAATAT-TTATAAA-AATATTTT
1 AAATTAATATAATATAAATAATATTTT
* *
921521 AAATTTATATAATATAAATAATTTTTT
1 AAATTAATATAATATAAATAATATTTT
921548 A
1 A
921549 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 6 0.26
27 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATTAATATAATATAAATAATATTTT
Found at i:921659 original size:16 final size:16
Alignment explanation
Indices: 921638--921694 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
921628 AAAATTTATA
921638 TAAATATAAAATATTT
1 TAAATATAAAATATTT
921654 TAAATATAAAA-ATTT
1 TAAATATAAAATATTT
* *
921669 ATATATAAAAAATATTT
1 -TAAATATAAAATATTT
921686 TAAATATAA
1 TAAATATAA
921695 TTATAGTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.11
16 27 0.77
17 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATATAAAATATTT
Found at i:921681 original size:32 final size:33
Alignment explanation
Indices: 921623--921694 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
921613 AATTATTTTT
* *
921623 ATATTAAAATTTATATAAATATAAAATATTTTAA
1 ATATAAAAATTTATAT-AATAAAAAATATTTTAA
921657 ATATAAAAATTTATAT-ATAAAAAATATTTTAA
1 ATATAAAAATTTATATAATAAAAAATATTTTAA
921689 ATATAA
1 ATATAA
921695 TTATAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 21 0.58
34 15 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
ATATAAAAATTTATATAATAAAAAATATTTTAA
Found at i:921705 original size:77 final size:74
Alignment explanation
Indices: 921507--921698 Score: 183
Period size: 77 Copynumber: 2.5 Consensus size: 74
921497 AATTAATATT
* * * * * *
921507 TATAAAAAT-ATTTTAAATTTATATAATATAAATAATT-TTTTATTAAAATTTATGTAAATATAA
1 TATAAAAATGATTTAAAAATAATTTAATAT--ATAATTATTATATTAAAATTTATATAAATATAA
921570 AATATTTGAAA
64 AATATTTGAAA
* *
921581 TATAAATATGATTTAAAAATAATTTAATTTATAATTATTTTTATATTAAAATTTATATAAATATA
1 TATAAAAATGATTTAAAAATAATTTAATATATAATTA---TTATATTAAAATTTATATAAATATA
*
921646 AAATATTTTAAA
63 AAATATTTGAAA
* *
921658 TATAAAAATTTATATATAAAAAATATTTTAA-ATATAATTAT
1 TATAAAAA-TGAT-T-T-AAAAATAATTTAATATATAATTAT
921699 AGTATTATAA
Statistics
Matches: 96, Mismatches: 13, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
73 6 0.06
74 8 0.08
75 15 0.16
77 42 0.44
78 3 0.03
79 1 0.01
80 9 0.09
81 12 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (74 bp):
TATAAAAATGATTTAAAAATAATTTAATATATAATTATTATATTAAAATTTATATAAATATAAAA
TATTTGAAA
Found at i:921713 original size:30 final size:30
Alignment explanation
Indices: 921629--921713 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 30
921619 TTTTATATTA
921629 AAATTTATATAAATATAAAATATTTTAAATAT
1 AAATTTATAT--ATATAAAATATTTTAAATAT
*
921661 AAAAATTTATATATAAAAAATATTTTAAATAT
1 --AAATTTATATATATAAAATATTTTAAATAT
921693 -AA-TTATAGTATTATAAAATAT
1 AAATTTATA-TA-TATAAAATAT
921714 AATTTACCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
28 5 0.11
29 4 0.09
30 9 0.19
32 19 0.40
34 10 0.21
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (30 bp):
AAATTTATATATATAAAATATTTTAAATAT
Found at i:934922 original size:23 final size:21
Alignment explanation
Indices: 934887--934932 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
934877 ATATTTAATT
934887 TTTAAAAATTATTTTTATATA
1 TTTAAAAATTATTTTTATATA
934908 TTTAAAAATTATATTTT-TATA
1 TTTAAAAATTAT-TTTTATATA
934929 TTTA
1 TTTA
934933 TTTTAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAAAAATTATTTTTATATA
Done.