Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 50 of 208
Found at i:19524044 original size:93 final size:93
Alignment explanation
Indices: 19523927--19524110 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
19523917 TTTGTAAAAT
*
19523927 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTGTATTAATTGTTACTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTATATTAATTGTTACTAAAATTATCAAATT
19523992 ATATCAAATTATTAATTATTAATTGTTA
66 ATATCAAATTATTAATTATTAATTGTTA
* *
19524020 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTATATTAATTGTTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTATTAATTATATTAATTGTTACTAAAATTATCAAATT
*
19524085 ATATCAAATTATTAATTGTTAATTGT
66 ATATCAAATTATTAATTATTAATTGT
19524111 ATTAATTGTT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (93 bp):
CTAACATTTTGTTAGTAAAATTATTAATTATTAATTATATTAATTGTTACTAAAATTATCAAATT
ATATCAAATTATTAATTATTAATTGTTA
Found at i:19524047 original size:33 final size:34
Alignment explanation
Indices: 19524005--19524078 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
19523995 TCAAATTATT
*
19524005 AATTATTAATTGTTACTAACATT-TTGTTAGTAA
1 AATTATTAATTGTTAATAACATTATTGTTAGTAA
* *
19524038 AATTATTAATTGTTAATTATATTAATTGTTAGTAA
1 AATTATTAATTGTTAATAACATT-ATTGTTAGTAA
19524073 AATTAT
1 AATTAT
19524079 CAAATTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 20 0.56
35 16 0.44
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (34 bp):
AATTATTAATTGTTAATAACATTATTGTTAGTAA
Found at i:19524077 original size:16 final size:16
Alignment explanation
Indices: 19524009--19524077 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
19523999 ATTATTAATT
* *
19524009 ATTAATTGTTACTAAC
1 ATTAATTGTTAGTAAA
19524025 ATT--TTGTTAGTAAAA
1 ATTAATTGTTAGT-AAA
* * *
19524040 TTATTAATTGTTAATTAT
1 --ATTAATTGTTAGTAAA
19524058 ATTAATTGTTAGTAAA
1 ATTAATTGTTAGTAAA
19524074 ATTA
1 ATTA
19524078 TCAAATTATA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
14 7 0.17
15 2 0.05
16 20 0.50
17 3 0.08
18 1 0.03
19 7 0.17
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATTAATTGTTAGTAAA
Found at i:19525413 original size:27 final size:27
Alignment explanation
Indices: 19525375--19525463 Score: 133
Period size: 27 Copynumber: 3.1 Consensus size: 27
19525365 AACATACCTT
19525375 TATCATTTCGTTTATTTTATTAAGCAA
1 TATCATTTCGTTTATTTTATTAAGCAA
19525402 TATCATTTCGTTTATTTTATTAAGGCTCAAAA
1 TATCATTTCGTTTATTTTATTAA-G--C--AA
19525434 TATCATTTCGTTTATTTTATTAAGCAA
1 TATCATTTCGTTTATTTTATTAAGCAA
19525461 TAT
1 TAT
19525464 GAGATATGAG
Statistics
Matches: 57, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
27 28 0.49
28 1 0.02
29 1 0.02
30 1 0.02
31 1 0.02
32 25 0.44
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (27 bp):
TATCATTTCGTTTATTTTATTAAGCAA
Found at i:19526007 original size:22 final size:21
Alignment explanation
Indices: 19525969--19526012 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
19525959 CAAAAAAATA
*
19525969 TAAAAATATAATTTTATTATTT
1 TAAAAATATAATATTA-TATTT
19525991 TAAAAATTATAA-ATTATATTT
1 TAAAAA-TATAATATTATATTT
19526012 T
1 T
19526013 TACTATGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAAAATATAATATTATATTT
Found at i:19541314 original size:20 final size:19
Alignment explanation
Indices: 19541274--19541314 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
19541264 TTCTTTATAC
**
19541274 ATTTTTTAATTTTTTTGAA
1 ATTTTTTAATTTTTTAAAA
19541293 ATTTTTATAATTTTTTAAAA
1 ATTTTT-TAATTTTTTAAAA
19541313 AT
1 AT
19541315 ATAAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTTAATTTTTTAAAA
Found at i:19541360 original size:21 final size:21
Alignment explanation
Indices: 19541284--19541355 Score: 60
Period size: 24 Copynumber: 3.3 Consensus size: 21
19541274 ATTTTTTAAT
19541284 TTTTTTG-AAATT-TTTAT-AA
1 TTTTTTGAAAATTATTT-TGAA
* *
19541303 TTTTTTAAAAATATAAATTTTGGA
1 TTTTTTGAAAAT-T--ATTTTGAA
19541327 TTTTTTGAAAATTATTTTGAA
1 TTTTTTGAAAATTATTTTGAA
19541348 TTATTTTG
1 TT-TTTTG
19541356 TAATTTTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
19 6 0.14
20 4 0.10
21 10 0.24
22 5 0.12
23 2 0.05
24 15 0.36
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTTTTTGAAAATTATTTTGAA
Found at i:19542476 original size:34 final size:34
Alignment explanation
Indices: 19542433--19542497 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
19542423 GGTGGTAGCA
*
19542433 GAGTCCCTAGTTAAGTCCCCCAAGAACCATAACG
1 GAGTCCCTAGTCAAGTCCCCCAAGAACCATAACG
*
19542467 GAGTCCCTAGTCGAGTCCCCCAAGAACCATA
1 GAGTCCCTAGTCAAGTCCCCCAAGAACCATA
19542498 TTAAGGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (34 bp):
GAGTCCCTAGTCAAGTCCCCCAAGAACCATAACG
Found at i:19546955 original size:7 final size:7
Alignment explanation
Indices: 19546943--19546977 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
19546933 ACTAAGGCAT
19546943 CTCATGG
1 CTCATGG
19546950 CTCATGG
1 CTCATGG
19546957 CTCATGG
1 CTCATGG
19546964 CTCATGG
1 CTCATGG
19546971 CTCATGG
1 CTCATGG
19546978 TGGCACTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
CTCATGG
Found at i:19547376 original size:31 final size:30
Alignment explanation
Indices: 19547314--19547385 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
19547304 TTGATACATG
* *
19547314 AACTTTGATTTGGTGCAATTGTACACATAA
1 AACTTTGATTTGCTGCAAATGTACACATAA
* *
19547344 AACTTTGATTGTGCTTCAAATGTATACATAA
1 AACTTTGATT-TGCTGCAAATGTACACATAA
*
19547375 AACTTTAATTT
1 AACTTTGATTT
19547386 TGATTCAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 11 0.31
31 25 0.69
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (30 bp):
AACTTTGATTTGCTGCAAATGTACACATAA
Found at i:19547393 original size:31 final size:31
Alignment explanation
Indices: 19547333--19547393 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
19547323 TTGGTGCAAT
* *
19547333 TGTACACATAAAACTTTGATTGTGCTTCAAA
1 TGTACACATAAAACTTTAATTGTGATTCAAA
* *
19547364 TGTATACATAAAACTTTAATTTTGATTCAA
1 TGTACACATAAAACTTTAATTGTGATTCAA
19547394 TCATGCATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (31 bp):
TGTACACATAAAACTTTAATTGTGATTCAAA
Found at i:19553558 original size:8 final size:8
Alignment explanation
Indices: 19553545--19553570 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
19553535 ATTTAAATTG
19553545 ATTTTAAA
1 ATTTTAAA
19553553 ATTTTAAA
1 ATTTTAAA
19553561 ATTTTAAA
1 ATTTTAAA
19553569 AT
1 AT
19553571 ATTCTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTAAA
Found at i:19554200 original size:90 final size:90
Alignment explanation
Indices: 19554047--19554234 Score: 367
Period size: 90 Copynumber: 2.1 Consensus size: 90
19554037 TTTTTTAAAT
19554047 TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAGTTACTCAACTTTGGA
1 TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAGTTACTCAACTTTGGA
19554112 GTAGCTAACAAAACAATCGCCTATG
66 GTAGCTAACAAAACAATCGCCTATG
19554137 TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAGTTACTCAACTTTGGA
1 TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAGTTACTCAACTTTGGA
*
19554202 GTAGCTAATAAAACAATCGCCTATG
66 GTAGCTAACAAAACAATCGCCTATG
19554227 TTTCATTT
1 TTTCATTT
19554235 CAATCACTCA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 97 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (90 bp):
TTTCATTTTAAATTATATCATATAAGATTTTAGGCTAAATTAACTAACAGTTACTCAACTTTGGA
GTAGCTAACAAAACAATCGCCTATG
Found at i:19554415 original size:3 final size:3
Alignment explanation
Indices: 19554371--19554475 Score: 139
Period size: 3 Copynumber: 36.3 Consensus size: 3
19554361 GCTGGGCAAC
* * *
19554371 AGA A-A AGA AGA A-A AGA GGA A-A AGA A-A A-A AAA AGA GAGG AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
19554412 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
19554460 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
19554476 ATGGACATAC
Statistics
Matches: 92, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
2 10 0.11
3 80 0.87
4 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19565547 original size:31 final size:31
Alignment explanation
Indices: 19565483--19565550 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
19565473 TAAAAAATAG
* * *
19565483 AAATTCGACTATTTTTAAAAGGTTGATGATC
1 AAATTTGACTATTTTTAAAAGGTTAAGGATC
*
19565514 AAATTTGACTATTTTTAAAAGGTTAAGGGTC
1 AAATTTGACTATTTTTAAAAGGTTAAGGATC
19565545 AAATTT
1 AAATTT
19565551 AATTAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (31 bp):
AAATTTGACTATTTTTAAAAGGTTAAGGATC
Found at i:19575953 original size:14 final size:14
Alignment explanation
Indices: 19575910--19575955 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
19575900 TTTGGACAAT
*
19575910 TTATAATATTTTTTA
1 TTATAA-ATTTTATA
19575925 -TA-AAATTTATATA
1 TTATAAATTT-TATA
19575938 TTATAAATTTTATA
1 TTATAAATTTTATA
19575952 TTAT
1 TTAT
19575956 TTTTTTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 4 0.15
13 5 0.19
14 12 0.44
15 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:19583727 original size:79 final size:79
Alignment explanation
Indices: 19583630--19583789 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 79
19583620 GAGCTCACAG
19583630 GGCCCTAAAAATAGTTTGGGAACAATCCGAAACTAATTTGAATCAAAATAGAAAAAATATGCAAA
1 GGCCCTAAAAATAGTTTGGGAACAATCCGAAACTAATTTGAATCAAAATAGAAAAAATATGCAAA
19583695 AATTAGAAAATTTT
66 AATTAGAAAATTTT
*
19583709 GGCCCTAAAAATAGTTTGGGAACAATCCGGAACTAATTTGAATCAAAATAGAAAAAATATGCAAA
1 GGCCCTAAAAATAGTTTGGGAACAATCCGAAACTAATTTGAATCAAAATAGAAAAAATATGCAAA
19583774 AATTAGAAAATTTT
66 AATTAGAAAATTTT
19583788 GG
1 GG
19583790 AAACAGGGGT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (79 bp):
GGCCCTAAAAATAGTTTGGGAACAATCCGAAACTAATTTGAATCAAAATAGAAAAAATATGCAAA
AATTAGAAAATTTT
Found at i:19594779 original size:21 final size:21
Alignment explanation
Indices: 19594753--19594808 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
19594743 AACAGCGGTG
*
19594753 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
19594774 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
19594795 GCGGTCAGATTAGA
1 GCGGTGAGATTAGA
19594809 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.11, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:19598041 original size:7 final size:7
Alignment explanation
Indices: 19598029--19598058 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
19598019 CCTTTCATTA
19598029 TTTCCTT
1 TTTCCTT
19598036 TTTCCTT
1 TTTCCTT
19598043 TTTCCTT
1 TTTCCTT
19598050 TTTCCTT
1 TTTCCTT
19598057 TT
1 TT
19598059 CATTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTCCTT
Found at i:19604328 original size:23 final size:23
Alignment explanation
Indices: 19604270--19604328 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 23
19604260 TATTTTTTAA
* *
19604270 ATATTTAAAATTATTAAAATATT
1 ATATTTAATATTATTAAAATATC
19604293 ATATTTTTCAATATTATTAAACATA-C
1 ATA--TTT-AATATTATTAAA-ATATC
19604319 ATATTTAATA
1 ATATTTAATA
19604329 ATTTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
23 7 0.23
24 3 0.10
25 3 0.10
26 14 0.47
27 3 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATTTAATATTATTAAAATATC
Found at i:19604402 original size:20 final size:22
Alignment explanation
Indices: 19604362--19604403 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
19604352 ATTAAGAATA
*
19604362 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
19604384 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
19604404 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:19604451 original size:16 final size:17
Alignment explanation
Indices: 19604415--19604451 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
19604405 AATTTTATTT
*
19604415 TAATAATAAATTTTGAA
1 TAATAATAAATTTTAAA
19604432 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
19604447 TAATA
1 TAATA
19604452 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:19604498 original size:15 final size:15
Alignment explanation
Indices: 19604480--19604536 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
19604470 ATTCAATATT
19604480 AATATTTTAATAATA
1 AATATTTTAATAATA
*
19604495 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
19604514 AATATATTAATAATA
1 AATATTTTAATAATA
19604529 AATATTTT
1 AATATTTT
19604537 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 17 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:19605030 original size:15 final size:14
Alignment explanation
Indices: 19604986--19605023 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
19604976 CTAGAAAAGT
* *
19604986 AAATTATTTTCCAA
1 AAATCATTTTCCGA
19605000 AAATCATTTTCCGA
1 AAATCATTTTCCGA
19605014 AAATCATTTT
1 AAATCATTTT
19605024 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (14 bp):
AAATCATTTTCCGA
Found at i:19606484 original size:243 final size:243
Alignment explanation
Indices: 19606056--19606542 Score: 956
Period size: 243 Copynumber: 2.0 Consensus size: 243
19606046 GTAACAAGGC
19606056 GCAACACCGTGCCTTTGAACATGAGAAACACAGGCAGGCATCCTGGACCCGACAACAGGGATCCA
1 GCAACACCGTGCCTTTGAACATGAGAAACACAGGCAGGCATCCTGGACCCGACAACAGGGATCCA
19606121 CATCCTCGACAATCATCATAAGGAATAGGCAGGCAGGAAACTATAAGGGTGCTTTTTCCAAAGAT
66 CATCCTCGACAATCATCATAAGGAATAGGCAGGCAGGAAACTATAAGGGTGCTTTTTCCAAAGAT
19606186 GCTAGATTATGTTGTAGGAGAAAGCTGAATCCTAAGGGATGAACCAAAAAAGAAAAAAAACAATG
131 GCTAGATTATGTTGTAGGAGAAAGCTGAATCCTAAGGGATGAACCAAAAAAGAAAAAAAACAATG
19606251 GAAGACTAACATATACTATGGCTGAAATGTAATGGAAACAAACACTTA
196 GAAGACTAACATATACTATGGCTGAAATGTAATGGAAACAAACACTTA
19606299 GCAACACCGTGCCTTTGAACATGAGAAACACAGGCAGGCATCCTGGACCCGACAACAGGGATCCA
1 GCAACACCGTGCCTTTGAACATGAGAAACACAGGCAGGCATCCTGGACCCGACAACAGGGATCCA
* *
19606364 CATCCTCGACGATCATCATAAGGAATAGGCAGGCAGGAAACTATAAGGGTGCTTTTTTCAAAGAT
66 CATCCTCGACAATCATCATAAGGAATAGGCAGGCAGGAAACTATAAGGGTGCTTTTTCCAAAGAT
19606429 GCTAGATTATGTTGTAGGAGAAAGCTGAATCCTAAGGGATGAACCAAAAAAGAAAAAAAACAATG
131 GCTAGATTATGTTGTAGGAGAAAGCTGAATCCTAAGGGATGAACCAAAAAAGAAAAAAAACAATG
19606494 GAAGACTAACATATACTATGGCTGAAATGTAATGGAAACAAACACTTA
196 GAAGACTAACATATACTATGGCTGAAATGTAATGGAAACAAACACTTA
19606542 G
1 G
19606543 TATATATATA
Statistics
Matches: 242, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
243 242 1.00
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (243 bp):
GCAACACCGTGCCTTTGAACATGAGAAACACAGGCAGGCATCCTGGACCCGACAACAGGGATCCA
CATCCTCGACAATCATCATAAGGAATAGGCAGGCAGGAAACTATAAGGGTGCTTTTTCCAAAGAT
GCTAGATTATGTTGTAGGAGAAAGCTGAATCCTAAGGGATGAACCAAAAAAGAAAAAAAACAATG
GAAGACTAACATATACTATGGCTGAAATGTAATGGAAACAAACACTTA
Found at i:19614232 original size:19 final size:19
Alignment explanation
Indices: 19614188--19614232 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
19614178 ATTTTATTAT
19614188 TATTATTACTAATATATAA
1 TATTATTACTAATATATAA
* *
19614207 TAATATTAACTAATTTA-AA
1 TATTATT-ACTAATATATAA
19614226 TATTATT
1 TATTATT
19614233 TAAATGCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTATTACTAATATATAA
Found at i:19614354 original size:13 final size:13
Alignment explanation
Indices: 19614338--19614362 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19614328 TAAACCAAAA
19614338 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
19614351 TTTTCAAAAGCA
1 TTTTCAAAAGCA
19614363 ATGAAGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:19625648 original size:50 final size:50
Alignment explanation
Indices: 19625524--19625772 Score: 277
Period size: 50 Copynumber: 4.8 Consensus size: 50
19625514 GATAATAACA
* * ** * *
19625524 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
*
19625575 TGCTC-ATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
19625625 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
19625675 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
19625730 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
19625773 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
49 2 0.01
50 91 0.54
51 32 0.19
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:19625703 original size:100 final size:104
Alignment explanation
Indices: 19625523--19625772 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
19625513 TGATAATAAC
** *
19625523 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCTCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
19625588 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
19625625 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
19625688 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
19625730 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
19625773 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:19625888 original size:13 final size:13
Alignment explanation
Indices: 19625867--19625898 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19625857 GCTTGGATCA
*
19625867 TCATCAAATAAAT
1 TCATAAAATAAAT
19625880 TCATAAAATAAAT
1 TCATAAAATAAAT
19625893 TCATAA
1 TCATAA
19625899 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:19626145 original size:30 final size:30
Alignment explanation
Indices: 19626110--19626167 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19626100 CCTCGACTCT
*
19626110 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
19626140 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
19626168 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:19628570 original size:22 final size:22
Alignment explanation
Indices: 19628527--19628585 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
19628517 CCAAATTTGA
*
19628527 TAAAAAAATTTTAGATACCAAA-T
1 TAAAAAAA--TTAAATACCAAATT
*
19628550 TAAAAAAAGTTAAATATCAAATT
1 TAAAAAAA-TTAAATACCAAATT
*
19628573 TTAAAAAATTAAA
1 TAAAAAAATTAAA
19628586 GGTTAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (22 bp):
TAAAAAAATTAAATACCAAATT
Found at i:19632477 original size:24 final size:23
Alignment explanation
Indices: 19632445--19632489 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
19632435 TCATTTGGCC
19632445 AATTTGCTATTTATACCCAAAAGA
1 AATTTGCTATTTATA-CCAAAAGA
19632469 AATTTGCTATTTATACCAAAA
1 AATTTGCTATTTATACCAAAA
19632490 CAAGCTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (23 bp):
AATTTGCTATTTATACCAAAAGA
Found at i:19633616 original size:21 final size:21
Alignment explanation
Indices: 19633592--19633633 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19633582 TGAATTTAAC
*
19633592 TCAATTTAATAAAATTCACAT
1 TCAATTCAATAAAATTCACAT
**
19633613 TCAATTCAATTCAATTCACAT
1 TCAATTCAATAAAATTCACAT
19633634 ATTAGGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATAAAATTCACAT
Found at i:19633624 original size:10 final size:11
Alignment explanation
Indices: 19633604--19633633 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
19633594 AATTTAATAA
19633604 AATTCACATTC
1 AATTCACATTC
19633615 AATTCA-ATTC
1 AATTCACATTC
19633625 AATTCACAT
1 AATTCACAT
19633634 ATTAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTCACATTC
Found at i:19636276 original size:3 final size:3
Alignment explanation
Indices: 19636268--19636299 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
19636258 TATTGGATTA
19636268 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
19636300 ATGAACTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:19639804 original size:24 final size:22
Alignment explanation
Indices: 19639760--19639804 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
19639750 ATCTTTTTAT
*
19639760 TTTTATTTTAAAAATTTAGTCA
1 TTTTATTTTAAAAATTAAGTCA
*
19639782 TTTTACTTTTCAAAATTCAAGTC
1 TTTTA-TTTTAAAAATT-AAGTC
19639805 TAATTGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.51
Consensus pattern (22 bp):
TTTTATTTTAAAAATTAAGTCA
Found at i:19642473 original size:106 final size:106
Alignment explanation
Indices: 19642303--19642503 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
19642293 AAGCTTTAAG
*
19642303 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
19642368 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
19642409 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
19642474 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
19642504 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:19645421 original size:24 final size:24
Alignment explanation
Indices: 19645394--19645443 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
19645384 AGAACTATGC
19645394 ACAATAAAACAAATAAAAGAACTT
1 ACAATAAAACAAATAAAAGAACTT
*
19645418 ACAATAAAACAAATAAAAGAGCTT
1 ACAATAAAACAAATAAAAGAACTT
19645442 AC
1 AC
19645444 TTGCCAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.16
Consensus pattern (24 bp):
ACAATAAAACAAATAAAAGAACTT
Found at i:19654628 original size:105 final size:104
Alignment explanation
Indices: 19654487--19654754 Score: 430
Period size: 104 Copynumber: 2.6 Consensus size: 104
19654477 TTGTATATAA
** *
19654487 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
19654552 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
19654592 AGGGGTTGCTAAGTGTTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
19654656 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* ** *
19654696 AGGGGTTGCTAAATGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
19654755 ATAACGGTTA
Statistics
Matches: 150, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
104 82 0.55
105 67 0.45
106 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:19657083 original size:20 final size:20
Alignment explanation
Indices: 19657037--19657086 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
19657027 CTTACTAAAC
19657037 GAAAAATAAGTCATTTTTGA
1 GAAAAATAAGTCATTTTTGA
* *
19657057 TGTAAAATGAGTCATTTTCTGA
1 -GAAAAATAAGTCATTTT-TGA
19657079 -AAAAATAA
1 GAAAAATAA
19657087 CTCTTCTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (20 bp):
GAAAAATAAGTCATTTTTGA
Found at i:19660109 original size:7 final size:6
Alignment explanation
Indices: 19660092--19660172 Score: 60
Period size: 6 Copynumber: 13.2 Consensus size: 6
19660082 TCATTCTTTC
* *
19660092 TTTCTT TTTCTCT TTTC-- TTTCTT TCATTCTT TGTT-TT GTTTCTT TCTCTC
1 TTTCTT TTTCT-T TTTCTT TTTCTT T--TTCTT T-TTCTT -TTTCTT TTTCTT
* *
19660142 ATTCTT TTTCTA TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
19660173 ATCATCATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
4 4 0.07
6 39 0.66
7 10 0.17
8 6 0.10
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTCTT
Found at i:19660116 original size:25 final size:25
Alignment explanation
Indices: 19660076--19660166 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 25
19660066 GAAACCTTAA
*
19660076 CTTTTCTCATTCTTTCTTTCTTTTTCT
1 CTTTTCT--TTCTTTCATTCTTTTTCT
19660103 CTTTTCTTTCTTTCATTCTTTGTT-T
1 CTTTTCTTTCTTTCATTCTTT-TTCT
*
19660128 -TGTTTCTTTCTCTCATTCTTTTTCT
1 CT-TTTCTTTCTTTCATTCTTTTTCT
* *
19660153 ATTTCTTTTTCTTT
1 CTTT-TCTTTCTTT
19660167 TTCTTTATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
24 3 0.05
25 35 0.64
26 10 0.18
27 7 0.13
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.71
Consensus pattern (25 bp):
CTTTTCTTTCTTTCATTCTTTTTCT
Found at i:19660245 original size:28 final size:29
Alignment explanation
Indices: 19660181--19660256 Score: 111
Period size: 28 Copynumber: 2.7 Consensus size: 29
19660171 TTATCATCAT
*
19660181 AATATAATAATATATATACTTAACTTTTA
1 AATATTATAATATATATACTTAACTTTTA
*
19660210 AATATTATAATATATAT-TTTAAC-TTTA
1 AATATTATAATATATATACTTAACTTTTA
19660237 AATATTTATAATATATATAC
1 AATA-TTATAATATATATAC
19660257 ACTTATGCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 8 0.19
28 18 0.43
29 16 0.38
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (29 bp):
AATATTATAATATATATACTTAACTTTTA
Found at i:19662779 original size:13 final size:14
Alignment explanation
Indices: 19662763--19662804 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
19662753 TTTCAATTTT
19662763 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
19662776 ATTTTAAGAATAATA
1 ATTTTAATAAT-ATA
19662791 ATTTTAAATAATAT
1 ATTTT-AATAATAT
19662805 TCAACATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:19662795 original size:15 final size:16
Alignment explanation
Indices: 19662768--19662797 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
19662758 ATTTTATTTT
19662768 AATAATAAATTTTAAG
1 AATAATAAATTTTAAG
19662784 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
19662798 ATAATATTCA
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:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAG
Found at i:19665837 original size:2 final size:2
Alignment explanation
Indices: 19665830--19665860 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19665820 TATTCTGCGT
19665830 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
19665861 TATATCAGTT
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:19683886 original size:46 final size:46
Alignment explanation
Indices: 19683819--19684001 Score: 321
Period size: 46 Copynumber: 4.0 Consensus size: 46
19683809 ACAATGTTAT
* *
19683819 AACTCAGTATGGTTTCCTTCACTAAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
19683865 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
19683911 AACTCGGTATGGTTTTCTTCACTGAAACACTATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
19683957 AACTCAGTATGGCTTTCTTCACTGAAACACCATACCTACTTTTCA
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCA
19684002 TAATTTTCCA
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:19685254 original size:17 final size:17
Alignment explanation
Indices: 19685232--19685279 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
19685222 AAATTCTTTT
19685232 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAC
*
19685249 TAAATCACAGAATTCAC
1 TAAATCACAAAATTCAC
*
19685266 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
19685280 TTCTAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.50, C:0.21, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAC
Found at i:19687450 original size:30 final size:30
Alignment explanation
Indices: 19687356--19687450 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
19687346 ATTTAAAATC
* * *
19687356 TAATGTGAGAAAAATTATCAAATTCAAATCCC
1 TAAT-TGAAAAAAATTATCAAATTCAAA-ACT
* * * *
19687388 AATATTG-AAATAATTATCAAGTTTAAAACT
1 TA-ATTGAAAAAAATTATCAAATTCAAAACT
*
19687418 TAATTGAAAAAAATTATCAAATTCAAAGCT
1 TAATTGAAAAAAATTATCAAATTCAAAACT
19687448 TAA
1 TAA
19687451 ATAATAATTG
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
29 4 0.08
30 24 0.49
31 16 0.33
32 3 0.06
33 2 0.04
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (30 bp):
TAATTGAAAAAAATTATCAAATTCAAAACT
Found at i:19687556 original size:15 final size:15
Alignment explanation
Indices: 19687536--19687568 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19687526 AACTATCAAG
19687536 TCAAATCAAACAACA
1 TCAAATCAAACAACA
*
19687551 TCAAATCAAACGACA
1 TCAAATCAAACAACA
19687566 TCA
1 TCA
19687569 GATGGAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.27, G:0.03, T:0.15
Consensus pattern (15 bp):
TCAAATCAAACAACA
Found at i:19699301 original size:27 final size:27
Alignment explanation
Indices: 19699271--19699322 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
19699261 CAATCACCTT
*
19699271 TTTTTTCATGTTTGTAGGGTTAAGACC
1 TTTTTTAATGTTTGTAGGGTTAAGACC
19699298 TTTTTTAATGTTTGTAGGGTTAAGA
1 TTTTTTAATGTTTGTAGGGTTAAGA
19699323 ACTCAACATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.06, G:0.23, T:0.50
Consensus pattern (27 bp):
TTTTTTAATGTTTGTAGGGTTAAGACC
Found at i:19702293 original size:43 final size:41
Alignment explanation
Indices: 19702231--19702363 Score: 124
Period size: 43 Copynumber: 3.1 Consensus size: 41
19702221 CAAAGCAACC
**
19702231 AATTGTTTCTGTTTATCCAATGATGCACTATGGGTGCTAATAT
1 AATTGTTTCAATTTATCCAATGATGCACTATGGGT-C-AATAT
* *
19702274 AATTGTTTCAATTTGTCCAA-GAATGCACCTTATGTGTCAATAT
1 AATTGTTTCAATTTATCCAATG-ATGCA-C-TATGGGTCAATAT
* * * *
19702317 AATTGCTTCGATTTATCCGATGATGCACTATGTGTGTCAGTAT
1 AATTGTTTCAATTTATCCAATGATGCACTATG-G-GTCAATAT
19702360 AATT
1 AATT
19702364 ACTCTGGTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
41 4 0.05
42 2 0.03
43 59 0.80
44 3 0.04
45 6 0.08
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (41 bp):
AATTGTTTCAATTTATCCAATGATGCACTATGGGTCAATAT
Found at i:19702383 original size:43 final size:43
Alignment explanation
Indices: 19702246--19702383 Score: 106
Period size: 43 Copynumber: 3.2 Consensus size: 43
19702236 TTTCTGTTTA
* ** *
19702246 TCCAATGATGCA-C-TATGGGTGCTAATATAATTGTTTCAATTTG
1 TCCAATGATGCACCTTATGTGT-C-AATATAATTACTTCGATTTG
* *
19702289 TCCAA-GAATGCACCTTATGTGTCAATATAATTGCTTCGATTTA
1 TCCAATG-ATGCACCTTATGTGTCAATATAATTACTTCGATTTG
* * * *
19702332 TCCGATGATGCA-CTATGTGTGTCAGTATAATTAC-TCTGGTTTG
1 TCCAATGATGCACCT-TATGTGTCAATATAATTACTTC-GATTTG
19702375 TCCAATGAT
1 TCCAATGAT
19702384 ACTGTAACTG
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
42 5 0.06
43 64 0.82
44 3 0.04
45 6 0.08
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (43 bp):
TCCAATGATGCACCTTATGTGTCAATATAATTACTTCGATTTG
Found at i:19703741 original size:45 final size:46
Alignment explanation
Indices: 19703674--19703797 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
19703664 CATATGACCT
*
19703674 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
19703717 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
19703763 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
19703798 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:19703780 original size:46 final size:45
Alignment explanation
Indices: 19703674--19703908 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
19703664 CATATGACCT
*
19703674 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
19703717 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
19703763 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
19703800 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
19703837 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
19703874 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
19703909 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:19703801 original size:37 final size:37
Alignment explanation
Indices: 19703759--19703935 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
19703749 AGCTGAAGCT
* **
19703759 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
19703796 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
19703833 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
19703870 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
19703907 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
19703936 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:19719038 original size:16 final size:16
Alignment explanation
Indices: 19719019--19719051 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19719009 AGGGTATATT
*
19719019 GTGATAATTATCTTAG
1 GTGATAATTACCTTAG
19719035 GTGATAATTACCTTAG
1 GTGATAATTACCTTAG
19719051 G
1 G
19719052 GTTTCTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (16 bp):
GTGATAATTACCTTAG
Found at i:19721265 original size:30 final size:30
Alignment explanation
Indices: 19721221--19721314 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
19721211 TTTTATTATG
* *
19721221 CCAATATCTCGATACCCATATTTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
19721252 CTAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
19721282 CCAATATTTGATACCTATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
19721312 CCA
1 CCA
19721315 TAAATATGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 51 0.89
31 6 0.11
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.45
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:19721276 original size:15 final size:15
Alignment explanation
Indices: 19721258--19721308 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
19721248 CTTTCTAATA
19721258 TTTGATACCCATATC
1 TTTGATACCCATATC
** *
19721273 TTTGACTTTCCA-ATA
1 TTTGA-TACCCATATC
*
19721288 TTTGATACCTATATC
1 TTTGATACCCATATC
19721303 TTTGAT
1 TTTGAT
19721309 TTTCCATAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 3 0.11
15 20 0.74
16 4 0.15
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:19724000 original size:16 final size:17
Alignment explanation
Indices: 19723971--19724003 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19723961 GCCCAGAACA
19723971 CAATGTTCACAGAATTT
1 CAATGTTCACAGAATTT
*
19723988 CAATTTTCA-AGAATTT
1 CAATGTTCACAGAATTT
19724004 GCACCTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (17 bp):
CAATGTTCACAGAATTT
Found at i:19725910 original size:30 final size:30
Alignment explanation
Indices: 19725864--19725957 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
19725854 TTTTATTATG
*
19725864 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
* *
19725895 CCAATATTTGATACCCGTATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
19725925 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
19725955 CCA
1 CCA
19725958 TAAATATGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 50 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:19726780 original size:32 final size:32
Alignment explanation
Indices: 19726729--19726805 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
19726719 TTTTTCTTTG
* * *
19726729 AATTTTTTAGTTTTTTTTTTC-AGATT-TTAG
1 AATTTTTAAATTTTTTTTTTCTAGATTCTTAA
*
19726759 AATATTTTCAATTTTTATTTTTCTAGATTCTTAA
1 AAT-TTTTAAATTTTT-TTTTTCTAGATTCTTAA
19726793 AATTTTTAAATTT
1 AATTTTTAAATTT
19726806 CATAGTTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 3 0.08
31 10 0.26
32 6 0.15
33 14 0.36
34 6 0.15
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (32 bp):
AATTTTTAAATTTTTTTTTTCTAGATTCTTAA
Found at i:19726806 original size:25 final size:25
Alignment explanation
Indices: 19726768--19726819 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
19726758 GAATATTTTC
**
19726768 AATTTTTATTTTTC-TAGATTCTTAA
1 AATTTTTAAATTTCATAGATTC-TAA
*
19726793 AATTTTTAAATTTCATAGTTTCTAA
1 AATTTTTAAATTTCATAGATTCTAA
19726818 AA
1 AA
19726820 GCTATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (25 bp):
AATTTTTAAATTTCATAGATTCTAA
Found at i:19726931 original size:14 final size:14
Alignment explanation
Indices: 19726888--19726938 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
19726878 AAATTTAATA
*
19726888 TTTAAAATATTATTT
1 TTTAAATTA-TATTT
*
19726903 TTT-AATTTTAGTTT
1 TTTAAATTATA-TTT
19726917 TTTAAATTATATTT
1 TTTAAATTATATTT
*
19726931 TTAAAATT
1 TTTAAATT
19726939 TAAAACTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.07
14 19 0.63
15 9 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TTTAAATTATATTT
Found at i:19726938 original size:29 final size:28
Alignment explanation
Indices: 19726866--19726939 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
19726856 TTAATATCTT
19726866 ATATATTTTTGAAAA-TTTAATATTTAAA
1 ATATATTTTT-AAAATTTTAATATTTAAA
* * *
19726894 ATATTATTTTT-TAATTTTAGTTTTTTAAA
1 ATA-TATTTTTAAAATTTTA-ATATTTAAA
*
19726923 TTATATTTTTAAAATTT
1 ATATATTTTTAAAATTT
19726940 AAAACTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.05
28 14 0.38
29 21 0.57
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (28 bp):
ATATATTTTTAAAATTTTAATATTTAAA
Found at i:19726940 original size:28 final size:27
Alignment explanation
Indices: 19726866--19726941 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
19726856 TTAATATCTT
19726866 ATATATTTTTGAAAATTTAATATTTAAA
1 ATATATTTTT-AAAATTTAATATTTAAA
* * * *
19726894 ATATTATTTTTTAATTTTAGTTTTTTAAA
1 ATA-TATTTTTAAAATTTA-ATATTTAAA
*
19726923 TTATATTTTTAAAATTTAA
1 ATATATTTTTAAAATTTAA
19726942 AACTTTTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
28 22 0.58
29 16 0.42
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (27 bp):
ATATATTTTTAAAATTTAATATTTAAA
Found at i:19727340 original size:27 final size:29
Alignment explanation
Indices: 19727306--19727379 Score: 89
Period size: 27 Copynumber: 2.6 Consensus size: 29
19727296 ATATTTTTTT
* *
19727306 CATAAAAAATATTAAAAAATTATAAAAA-
1 CATAAAAAATATTAAAAAATAAGAAAAAC
* *
19727334 C-TGAAAAATAATAAAAAATAAGAAAAAC
1 CATAAAAAATATTAAAAAATAAGAAAAAC
*
19727362 CATAAAAAATTTTAAAAA
1 CATAAAAAATATTAAAAA
19727380 CCAGAAAGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 22 0.59
28 2 0.05
29 13 0.35
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.22
Consensus pattern (29 bp):
CATAAAAAATATTAAAAAATAAGAAAAAC
Found at i:19727358 original size:19 final size:19
Alignment explanation
Indices: 19727307--19727371 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
19727297 TATTTTTTTC
*
19727307 ATAAAAAATATTA-AAAAATT
1 ATAAAAAATA--AGAAAAATA
*
19727327 ATAAAAACT--GAAAAATA
1 ATAAAAAATAAGAAAAATA
**
19727344 ATAAAAAATAAGAAAAACC
1 ATAAAAAATAAGAAAAATA
19727363 ATAAAAAAT
1 ATAAAAAAT
19727372 TTTAAAAACC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
17 14 0.38
19 15 0.41
20 8 0.22
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (19 bp):
ATAAAAAATAAGAAAAATA
Found at i:19727419 original size:25 final size:26
Alignment explanation
Indices: 19727363--19727420 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
19727353 AAGAAAAACC
* *
19727363 ATAAAAAATTTTAAAAACCAGAAAGT
1 ATAAAAAATTATAAAAACCAGAAAAT
* * *
19727389 AAAAAAAATTAT-AAAACTATAAAAT
1 ATAAAAAATTATAAAAACCAGAAAAT
19727414 ATAAAAA
1 ATAAAAA
19727421 TATATGAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.22
Consensus pattern (26 bp):
ATAAAAAATTATAAAAACCAGAAAAT
Found at i:19727448 original size:8 final size:8
Alignment explanation
Indices: 19727393--19727497 Score: 70
Period size: 8 Copynumber: 11.9 Consensus size: 8
19727383 GAAAGTAAAA
19727393 AAAATTAT
1 AAAATTAT
*
19727401 AAAACTAT
1 AAAATTAT
19727409 AAAA-TAT
1 AAAATTAT
19727416 AAAAATATAT
1 -AAAAT-TAT
19727426 GAAAATTGATAT
1 -AAAA-T--TAT
19727438 AAAATTAT
1 AAAATTAT
19727446 AAATATTAT
1 AAA-ATTAT
19727455 -AAATTAT
1 AAAATTAT
*
19727462 AAAATTCT
1 AAAATTAT
19727470 AATAAATTAT
1 -A-AAATTAT
19727480 AAAAAAATTAT
1 ---AAAATTAT
19727491 AAAATTA
1 AAAATTA
19727498 AAATATTTAA
Statistics
Matches: 82, Mismatches: 4, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
7 8 0.10
8 36 0.44
9 6 0.07
10 14 0.17
11 12 0.15
12 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (8 bp):
AAAATTAT
Found at i:19727477 original size:45 final size:44
Alignment explanation
Indices: 19727390--19727501 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 44
19727380 CCAGAAAGTA
* *
19727390 AAAAAAATTATAAAACTATAAAATATAAAAATATATGAAAATTGAT
1 AAAAAAATTATAAAATTATAAATTATAAAAATATAT-AAAATT-AT
* * *
19727436 -ATAAAATTATAAATATTATAAATTATAAAATTCTA-ATAAATTAT
1 AAAAAAATTATAAA-ATTATAAATTATAAAAATATATA-AAATTAT
19727480 AAAAAAATTATAAAATTA-AAAT
1 AAAAAAATTATAAAATTATAAAT
19727502 ATTTAAACTT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
43 4 0.07
44 7 0.12
45 29 0.51
46 17 0.30
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (44 bp):
AAAAAAATTATAAAATTATAAATTATAAAAATATATAAAATTAT
Found at i:19727492 original size:18 final size:18
Alignment explanation
Indices: 19727450--19727493 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19727440 AATTATAAAT
**
19727450 ATTATAAATTATAAAATT
1 ATTATAAATTATAAAAAA
* *
19727468 CTAATAAATTATAAAAAA
1 ATTATAAATTATAAAAAA
19727486 ATTATAAA
1 ATTATAAA
19727494 ATTAAAATAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTATAAATTATAAAAAA
Found at i:19727529 original size:21 final size:22
Alignment explanation
Indices: 19727497--19727546 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
19727487 TTATAAAATT
* *
19727497 AAAAT-AT-TTAAACTTTTGTA
1 AAAATCATATTAAACTTCTATA
19727517 AAAA-CATATTAAACTTCTATA
1 AAAATCATATTAAACTTCTATA
19727538 AAAATCATA
1 AAAATCATA
19727547 AATATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 15 0.60
22 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATCATATTAAACTTCTATA
Found at i:19727567 original size:19 final size:20
Alignment explanation
Indices: 19727497--19727567 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 20
19727487 TTATAAAATT
* *
19727497 AAAATATTTAAACTTTTGTAA
1 AAAATA-TTAAACTTCTATAA
19727518 AAACATATTAAACTTCTAT-A
1 AAA-ATATTAAACTTCTATAA
19727538 AAAATCA-TAAA-TAT-TATAA
1 AAAAT-ATTAAACT-TCTATAA
19727557 AAAATATTAAA
1 AAAATATTAAA
19727568 AGTATTGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
18 5 0.12
19 17 0.40
20 5 0.12
21 13 0.30
22 3 0.07
ACGTcount: A:0.56, C:0.07, G:0.01, T:0.35
Consensus pattern (20 bp):
AAAATATTAAACTTCTATAA
Found at i:19727597 original size:29 final size:29
Alignment explanation
Indices: 19727546--19727601 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
19727536 TAAAAATCAT
*
19727546 AAATATTATAAAAAATATTAAAAGTATTG
1 AAATATTATAAAAAATATAAAAAGTATTG
*
19727575 AAAT-TTATATAAACATATAAAAAGTAT
1 AAATATTATA-AAAAATATAAAAAGTAT
19727602 AAAAAAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (29 bp):
AAATATTATAAAAAATATAAAAAGTATTG
Found at i:19728087 original size:19 final size:18
Alignment explanation
Indices: 19728058--19728097 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
19728048 CAATTTTAAT
19728058 ATTTTTATATTTTTTACA
1 ATTTTTATATTTTTTACA
*
19728076 ATTTTTATTATTTTTTAGA
1 ATTTTTA-TATTTTTTACA
19728095 ATT
1 ATT
19728098 CTAAAACGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTATATTTTTTACA
Found at i:19728154 original size:26 final size:26
Alignment explanation
Indices: 19728078--19728154 Score: 66
Period size: 28 Copynumber: 2.8 Consensus size: 26
19728068 TTTTTACAAT
* *
19728078 TTTTATTATTTTTTAGAATTCTAAAACG
1 TTTTATTA-ATTTTATAATT-TAAAACG
* *
19728106 TTTTTTTAATTTTAAATATTTTAACAA-G
1 TTTTATTAATTTT--ATAATTTAA-AACG
19728134 TTTTATTAATTTTATAATTTA
1 TTTTATTAATTTTATAATTTA
19728155 TTAGATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
26 7 0.17
27 4 0.10
28 23 0.57
29 6 0.15
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTATTAATTTTATAATTTAAAACG
Found at i:19728254 original size:9 final size:9
Alignment explanation
Indices: 19728021--19728294 Score: 86
Period size: 9 Copynumber: 29.8 Consensus size: 9
19728011 TTTTATGATT
19728021 TTTTTAATAA
1 TTTTT-ATAA
19728031 TTTTTATAA
1 TTTTTATAA
*
19728040 GTTTATATCAA
1 -TTTTTAT-AA
*
19728051 TTTTAAT-A
1 TTTTTATAA
*
19728059 TTTTTATAT
1 TTTTTATAA
*
19728068 TTTTTACAA
1 TTTTTATAA
*
19728077 TTTTTATTA
1 TTTTTATAA
19728086 TTTTT-TAGA
1 TTTTTATA-A
* * *
19728095 ATTCTAAAA
1 TTTTTATAA
*
19728104 CGTTTTTTTAA
1 --TTTTTATAA
19728115 -TTTTA-AA
1 TTTTTATAA
*
19728122 TATTTTAACAA
1 T-TTTT-ATAA
*
19728133 GTTTTATTAA
1 TTTTTA-TAA
19728143 -TTTTATAA
1 TTTTTATAA
*
19728151 TTTATTA-GA
1 TTT-TTATAA
**
19728160 TTTTT-TGT
1 TTTTTATAA
19728168 TTTTTATAA
1 TTTTTATAA
* *
19728177 TATATATAA
1 TTTTTATAA
19728186 GTTTTTATAAAA
1 -TTTTTAT--AA
19728198 TTTTTTATAA
1 -TTTTTATAA
*
19728208 TTTTAATAA
1 TTTTTATAA
*
19728217 GTTTATATCAA
1 -TTTTTAT-AA
**
19728228 TTTAAATAA
1 TTTTTATAA
19728237 -TTTT-T-A
1 TTTTTATAA
19728243 TTTTTATAA
1 TTTTTATAA
*
19728252 TTTTTCTAAA
1 TTTTTAT-AA
19728262 TTTTTAT--
1 TTTTTATAA
* *
19728269 TTTTAATATT
1 TTTTTATA-A
*
19728279 TTTTTATGA
1 TTTTTATAA
19728288 TTTTTAT
1 TTTTTAT
19728295 GGGAAAATAT
Statistics
Matches: 195, Mismatches: 41, Indels: 57
0.67 0.14 0.19
Matches are distributed among these distances:
6 1 0.01
7 13 0.07
8 26 0.13
9 76 0.39
10 59 0.30
11 11 0.06
12 9 0.05
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:19730318 original size:23 final size:23
Alignment explanation
Indices: 19730284--19730330 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
19730274 AATTTTGTAT
*
19730284 TTTTATGATTAAAAAATTAAAAA
1 TTTTATGATTAAAAAAGTAAAAA
*
19730307 TTTTAT-ATTTAAAATAGTAAAAA
1 TTTTATGA-TTAAAAAAGTAAAAA
19730330 T
1 T
19730331 AACTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
TTTTATGATTAAAAAAGTAAAAA
Found at i:19736518 original size:32 final size:32
Alignment explanation
Indices: 19736477--19736542 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
19736467 TCTTTATCCG
19736477 AGTAAGAGGCGAAACATAATCAACTTGAACTC
1 AGTAAGAGGCGAAACATAATCAACTTGAACTC
19736509 AGTAAGAGGCGAAACATAATCAACTTGAACTC
1 AGTAAGAGGCGAAACATAATCAACTTGAACTC
19736541 AG
1 AG
19736543 GACAGCTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (32 bp):
AGTAAGAGGCGAAACATAATCAACTTGAACTC
Found at i:19741752 original size:16 final size:15
Alignment explanation
Indices: 19741731--19741773 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
19741721 AATTTTTTTT
19741731 AAAAATTAAATTAATA
1 AAAAATTAAATT-ATA
*
19741747 AAAAATATAAA-TATT
1 AAAAAT-TAAATTATA
19741762 AAAAATTAAATT
1 AAAAATTAAATT
19741774 TATCATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 9 0.38
16 7 0.29
17 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATTAAATTATA
Found at i:19742632 original size:19 final size:19
Alignment explanation
Indices: 19742608--19742644 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19742598 CTTAGATCAA
*
19742608 TTTTTTATTTTTCCTAATT
1 TTTTTTATTTATCCTAATT
19742627 TTTTTTATTTATCCTAAT
1 TTTTTTATTTATCCTAAT
19742645 CATTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTATTTATCCTAATT
Found at i:19747191 original size:13 final size:13
Alignment explanation
Indices: 19747175--19747204 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19747165 ATTGTCATGT
19747175 AATTATTTTTCTG
1 AATTATTTTTCTG
*
19747188 AATTGTTTTTCTG
1 AATTATTTTTCTG
19747201 AATT
1 AATT
19747205 TAGCTGATTG
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:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (13 bp):
AATTATTTTTCTG
Found at i:19748173 original size:82 final size:81
Alignment explanation
Indices: 19748082--19748331 Score: 186
Period size: 82 Copynumber: 3.1 Consensus size: 81
19748072 CATATAAGAA
*
19748082 TATTAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATG
1 TATTTATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAATTATG
19748147 TTTAAATATGATTAAAT
65 TTTAAATATGATTAAAT
* * * * * * * *
19748164 TATTTATTATT---CATATTAATAATCTTATCAAAATTTAA-ATAACA-A--TAACAATAA-TA-
1 TATTTATTATTAAGAATTTTATTAA-ATTAT-ATATTTTAATATAATATATTTAATAATAATTAT
* *
19748220 ATTTACCAA-A--A-CAAAT
64 GTTTA--AATATGATTAAAT
* *
19748236 T-TCTGGTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAAT
1 TAT-T--T-ATTATTAAGAATTTTATTAAATTATATATTTTAA-TATAATATATTTAATAATAAT
*
19748300 TATGTTTAAATATGATTAAAA
61 TATGTTTAAATATGATTAAAT
19748321 TATTTATTATT
1 TATTTATTATT
19748332 GATAATAATA
Statistics
Matches: 121, Mismatches: 24, Indels: 46
0.63 0.13 0.24
Matches are distributed among these distances:
71 1 0.01
72 6 0.05
73 1 0.01
74 5 0.04
75 9 0.07
76 17 0.14
77 4 0.03
78 13 0.11
79 13 0.11
80 4 0.03
81 17 0.14
82 19 0.16
83 5 0.04
84 1 0.01
85 5 0.04
86 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (81 bp):
TATTTATTATTAAGAATTTTATTAAATTATATATTTTAATATAATATATTTAATAATAATTATGT
TTAAATATGATTAAAT
Found at i:19748251 original size:157 final size:157
Alignment explanation
Indices: 19748085--19748394 Score: 539
Period size: 157 Copynumber: 2.0 Consensus size: 157
19748075 ATAAGAATAT
*
19748085 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
19748150 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
19748215 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
19748242 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
19748307 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
19748372 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
19748395 ATGCTAAGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 144 1.00
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:19748545 original size:16 final size:16
Alignment explanation
Indices: 19748524--19748591 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
19748514 GATTTGCTAT
19748524 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19748540 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
19748556 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
19748572 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
19748588 TACA
1 TACA
19748592 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19749028 original size:32 final size:32
Alignment explanation
Indices: 19748959--19749028 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
19748949 TTATAAGTTT
*
19748959 TAAAAAAGATTGAAAATATTTTAAAAATTAAA
1 TAAAAAAGATTGAAAATATTTTAAAAACTAAA
19748991 -AAAAAACGATTGAAAATATTTTAAAAAACT-AA
1 TAAAAAA-GATTGAAAATATTTT-AAAAACTAAA
19749023 TAAAAA
1 TAAAAA
19749029 TTAAATTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
31 6 0.18
32 17 0.50
33 11 0.32
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (32 bp):
TAAAAAAGATTGAAAATATTTTAAAAACTAAA
Found at i:19750169 original size:95 final size:95
Alignment explanation
Indices: 19749994--19750174 Score: 233
Period size: 95 Copynumber: 1.9 Consensus size: 95
19749984 TTAATGGTGT
* * * *
19749994 AAAAAGGCTCTCAAACTTTTTCAAAAAAACAATTAAGCCTTTGCTTCTTCTTTTTTTGCACTAAA
1 AAAAAGGCCCTCAAAATTTTTCAAAAAAACAATTAAGCCCTAGCTTCTTCTTTTTTTGCACTAAA
* * *
19750059 TTGGATATTTGAACTGTCAAAATGCATAAA
66 TTGGATACTTAAACTGCCAAAATGCATAAA
*
19750089 AAAAAGGCCCTCAAAATTTTTCAAAAAAAGCAATTGAGCCCCTAGTCTT-TT-TTTTTTTGCACT
1 AAAAAGGCCCTCAAAATTTTTCAAAAAAA-CAATTAAG-CCCTAG-CTTCTTCTTTTTTTGCACT
*
19750152 -AATTGGGTACTTAAACTGCCAAA
63 AAATTGGATACTTAAACTGCCAAA
19750175 TTACATCAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
95 46 0.62
96 19 0.26
97 6 0.08
98 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (95 bp):
AAAAAGGCCCTCAAAATTTTTCAAAAAAACAATTAAGCCCTAGCTTCTTCTTTTTTTGCACTAAA
TTGGATACTTAAACTGCCAAAATGCATAAA
Found at i:19752261 original size:4 final size:4
Alignment explanation
Indices: 19752254--19752284 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
19752244 TATCTGTGTG
19752254 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
19752285 GTTTTACCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:19753866 original size:9 final size:9
Alignment explanation
Indices: 19753852--19753918 Score: 64
Period size: 9 Copynumber: 7.4 Consensus size: 9
19753842 TTTGGTTAAA
*
19753852 AATTAACTG
1 AATTAACCG
19753861 AATTAACCG
1 AATTAACCG
**
19753870 AATTATTCG
1 AATTAACCG
* *
19753879 AATTAATCA
1 AATTAACCG
*
19753888 AATTACCCG
1 AATTAACCG
19753897 AATT-ACTCG
1 AATTAAC-CG
19753906 AATTAACCG
1 AATTAACCG
19753915 AATT
1 AATT
19753919 GAATCACTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 1 0.02
9 44 0.94
10 2 0.04
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (9 bp):
AATTAACCG
Found at i:19753881 original size:18 final size:18
Alignment explanation
Indices: 19753852--19753923 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
19753842 TTTGGTTAAA
* *
19753852 AATTAACTGAATTAACCG
1 AATTAACCGAATTAATCG
** *
19753870 AATTATTCGAATTAATCA
1 AATTAACCGAATTAATCG
* *
19753888 AATTACCCGAATTACTCG
1 AATTAACCGAATTAATCG
19753906 AATTAACCGAATTGAATC
1 AATTAACCGAATT-AATC
19753924 ACTACATAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
18 39 0.93
19 3 0.07
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.31
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:19753918 original size:27 final size:27
Alignment explanation
Indices: 19753852--19753918 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
19753842 TTTGGTTAAA
* *
19753852 AATTAACTGAATTAACCGAATTATTCG
1 AATTAACCGAATTAACCGAATTACTCG
* * *
19753879 AATTAATCAAATTACCCGAATTACTCG
1 AATTAACCGAATTAACCGAATTACTCG
19753906 AATTAACCGAATT
1 AATTAACCGAATT
19753919 GAATCACTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACTCG
Found at i:19754066 original size:18 final size:18
Alignment explanation
Indices: 19754026--19754066 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
19754016 AATTTTTATG
* *
19754026 ATTGGATTGGGTTGGGTA
1 ATTGGATTGGGTTAGATA
19754044 ATTGGATTGGGTTAGATA
1 ATTGGATTGGGTTAGATA
*
19754062 TTTGG
1 ATTGG
19754067 GTTTGGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (18 bp):
ATTGGATTGGGTTAGATA
Found at i:19755273 original size:8 final size:8
Alignment explanation
Indices: 19755260--19755294 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
19755250 TGTAGAGGCT
19755260 TGGGGCAG
1 TGGGGCAG
19755268 TGGGGCAG
1 TGGGGCAG
19755276 TGGGGCAG
1 TGGGGCAG
19755284 TGGGGCAG
1 TGGGGCAG
19755292 TGG
1 TGG
19755295 AATCACTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.11, C:0.11, G:0.63, T:0.14
Consensus pattern (8 bp):
TGGGGCAG
Found at i:19758729 original size:16 final size:17
Alignment explanation
Indices: 19758694--19758727 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19758684 TATTTAATAT
19758694 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
19758711 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
19758728 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATTTGATTAAAAA
Found at i:19784265 original size:21 final size:23
Alignment explanation
Indices: 19784241--19784288 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
19784231 AATAAAGAAG
*
19784241 AAAATAGC-AAGAAAA-TAATAA
1 AAAATAGCAAAAAAAAGTAATAA
19784262 AAAATAGCAAAAAAAAGTAATAA
1 AAAATAGCAAAAAAAAGTAATAA
19784285 AAAA
1 AAAA
19784289 ACAGGAGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.33
22 6 0.25
23 10 0.42
ACGTcount: A:0.75, C:0.04, G:0.08, T:0.12
Consensus pattern (23 bp):
AAAATAGCAAAAAAAAGTAATAA
Found at i:19784776 original size:8 final size:8
Alignment explanation
Indices: 19784763--19784808 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
19784753 ATTATTTTAG
19784763 AAAATTTT
1 AAAATTTT
19784771 AAAATTTT
1 AAAATTTT
19784779 AAAATTTT
1 AAAATTTT
19784787 ATAAATATTT
1 A-AAAT-TTT
**
19784797 TTAATTTT
1 AAAATTTT
19784805 AAAA
1 AAAA
19784809 ATTATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 22 0.69
9 7 0.22
10 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AAAATTTT
Found at i:19784800 original size:28 final size:28
Alignment explanation
Indices: 19784773--19784824 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
19784763 AAAATTTTAA
*
19784773 AATTTT-AAAATTTTA-TAAATATTTTT
1 AATTTTAAAAATTATATTAAATATTTTT
19784799 AATTTTAAAAATTATATTAAATATTT
1 AATTTTAAAAATTATATTAAATATTT
19784825 AAAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 6 0.26
27 8 0.35
28 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
AATTTTAAAAATTATATTAAATATTTTT
Found at i:19784809 original size:27 final size:27
Alignment explanation
Indices: 19784756--19784831 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
19784746 CAAAACTATT
*
19784756 ATTTTAGAAA-ATTTTAAAATTTTAAA
1 ATTTTATAAATATTTTAAAATTTTAAA
*
19784782 ATTTTATAAATATTTT-TAATTTTAAAA
1 ATTTTATAAATATTTTAAAATTTT-AAA
* *
19784809 ATTATATTAAATATTTAAAAATT
1 ATTTTA-TAAATATTTTAAAATT
19784832 ATTTTGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 15 0.37
27 13 0.32
28 9 0.22
29 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (27 bp):
ATTTTATAAATATTTTAAAATTTTAAA
Found at i:19784826 original size:26 final size:25
Alignment explanation
Indices: 19784773--19784824 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
19784763 AAAATTTTAA
*
19784773 AATTTTAAAATTTTATAAATATTTTT
1 AATTTTAAAATTATATAAATA-TTTT
19784799 AATTTTAAAAATTATATTAAATATTT
1 AATTTT-AAAATTATA-TAAATATTT
19784825 AAAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 11 0.48
28 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
AATTTTAAAATTATATAAATATTTT
Found at i:19787383 original size:29 final size:29
Alignment explanation
Indices: 19787341--19787404 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
19787331 GTTGATAAAG
19787341 AAAATTTTAAGAAAACACATTCTAGCACC
1 AAAATTTTAAGAAAACACATTCTAGCACC
19787370 AAAATTTTAAGAAAACACATTCTAGCACC
1 AAAATTTTAAGAAAACACATTCTAGCACC
19787399 ACAAAT
1 A-AAAT
19787405 CAGATTTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.50, C:0.20, G:0.06, T:0.23
Consensus pattern (29 bp):
AAAATTTTAAGAAAACACATTCTAGCACC
Found at i:19795018 original size:22 final size:22
Alignment explanation
Indices: 19794990--19795033 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19794980 TATGCTTCTC
*
19794990 GACTTTCCTTGTTTCTGCATGA
1 GACTTTCCTTGCTTCTGCATGA
*
19795012 GACTTTCCTTGCTTCTGTATGA
1 GACTTTCCTTGCTTCTGCATGA
19795034 CATCCCTTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (22 bp):
GACTTTCCTTGCTTCTGCATGA
Found at i:19796314 original size:13 final size:12
Alignment explanation
Indices: 19796293--19796327 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
19796283 ACAACTGTAC
19796293 TTAACTAACTTT
1 TTAACTAACTTT
*
19796305 CTTGACTAACTTT
1 -TTAACTAACTTT
19796318 TTAACTAACT
1 TTAACTAACT
19796328 CTTATTCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.31, C:0.20, G:0.03, T:0.46
Consensus pattern (12 bp):
TTAACTAACTTT
Found at i:19799391 original size:17 final size:17
Alignment explanation
Indices: 19799354--19799393 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
19799344 TAATTCTCAA
*
19799354 ATAAATAAATTATGATT
1 ATAAATAAATTATGATG
* *
19799371 ATAATTAAATTATTATG
1 ATAAATAAATTATGATG
19799388 ATAAAT
1 ATAAAT
19799394 TATGAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
ATAAATAAATTATGATG
Found at i:19810425 original size:18 final size:18
Alignment explanation
Indices: 19810398--19810443 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
19810388 TATACTCTTG
*
19810398 TTATTATTATTT-ATTTA
1 TTATTTTTATTTCATTTA
19810415 TGTATTTTTATTTCATTTA
1 T-TATTTTTATTTCATTTA
19810434 TTCATTTTTA
1 TT-ATTTTTA
19810444 AATTTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 11 0.44
19 13 0.52
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATTTTTATTTCATTTA
Found at i:19813067 original size:20 final size:20
Alignment explanation
Indices: 19813029--19813067 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19813019 TGTTACCATT
*
19813029 AATTGGTTGAGATATTAGTA
1 AATTGGTTGAGATAATAGTA
19813049 AATTGAGTTGA-ATAATAGT
1 AATTG-GTTGAGATAATAGT
19813068 GTGTTTCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (20 bp):
AATTGGTTGAGATAATAGTA
Found at i:19815684 original size:28 final size:30
Alignment explanation
Indices: 19815611--19815738 Score: 88
Period size: 29 Copynumber: 4.3 Consensus size: 30
19815601 TTTTCTTAAA
* * **
19815611 AATATTTTAGAATTTTTTACATATACATTTT
1 AATATTTTAAAAATTTTTATTTATA-ATTTT
19815642 GAA-ATTTTAGAAAATTTTTATTTATAATTTT
1 -AATATTTTA-AAAATTTTTATTTATAATTTT
**
19815673 -AT-TTTTAAAAATATTTTA-ACATAATTTT
1 AATATTTTAAAAAT-TTTTATTTATAATTTT
**
19815701 AATATTTTAAGTATTTTATATTTAT--TTTT
1 AATATTTTAAAAATTTT-TATTTATAATTTT
*
19815730 AATTTTTTA
1 AATATTTTA
19815739 GAATTATTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
28 13 0.17
29 28 0.36
30 10 0.13
31 13 0.17
32 14 0.18
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (30 bp):
AATATTTTAAAAATTTTTATTTATAATTTT
Found at i:19820507 original size:15 final size:15
Alignment explanation
Indices: 19820487--19820515 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19820477 TCACTTCAAT
19820487 TACTGACAAAAGTAC
1 TACTGACAAAAGTAC
19820502 TACTGACAAAAGTA
1 TACTGACAAAAGTA
19820516 ATTGATGGCA
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:0.48, C:0.17, G:0.14, T:0.21
Consensus pattern (15 bp):
TACTGACAAAAGTAC
Found at i:19826444 original size:36 final size:36
Alignment explanation
Indices: 19826403--19826593 Score: 229
Period size: 36 Copynumber: 5.0 Consensus size: 36
19826393 GGTAGCTTTA
19826403 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
19826439 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAA---GT
*
19826478 AGCTTTAACTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -G------CTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* * *
19826521 GCTATACTTATCCGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
19826557 GATATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
19826593 G
1 G
19826594 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
36 100 0.73
39 2 0.01
40 1 0.01
42 1 0.01
43 2 0.01
46 31 0.23
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:19826504 original size:82 final size:82
Alignment explanation
Indices: 19826367--19826593 Score: 321
Period size: 82 Copynumber: 2.9 Consensus size: 82
19826357 TTTGAGTACT
* *
19826367 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGACAAAGT
19826432 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
19826449 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGACAAAGT
*
19826514 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* *
19826531 TCCGATCAAGTGAAAAAGTGATAAGT-G-A----T-A-T--ACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGACAAAGT
19826586 GATAAGTG
66 GATAAGTG
19826594 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
72 31 0.23
74 1 0.01
75 1 0.01
76 1 0.01
80 1 0.01
81 1 0.01
82 101 0.74
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGCTACACTTA
Found at i:19832480 original size:14 final size:14
Alignment explanation
Indices: 19832453--19832486 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19832443 ATCCGAATTT
*
19832453 ATTTCCAGGTACGAA
1 ATTT-CAGGGACGAA
19832468 ATTTCAGGGACGAA
1 ATTTCAGGGACGAA
19832482 ATTTC
1 ATTTC
19832487 CAAAAAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (14 bp):
ATTTCAGGGACGAA
Found at i:19833883 original size:36 final size:36
Alignment explanation
Indices: 19833842--19834032 Score: 229
Period size: 36 Copynumber: 5.0 Consensus size: 36
19833832 GGTAGCTTTA
19833842 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
*
19833878 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAA---GT
*
19833917 AGCTTTAACTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -G------CTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* * *
19833960 GCTATACTTATCCGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
* *
19833996 GCTATACTTATTTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
19834032 G
1 G
19834033 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
36 100 0.73
39 2 0.01
40 1 0.01
42 1 0.01
43 2 0.01
46 31 0.23
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
Found at i:19833943 original size:82 final size:82
Alignment explanation
Indices: 19833806--19833996 Score: 319
Period size: 82 Copynumber: 2.3 Consensus size: 82
19833796 TTTGAGTACT
* * *
19833806 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGAAAAAGT
19833871 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
19833888 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGAAAAAGT
*
19833953 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* *
19833970 TCCGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
19833997 CTATACTTAT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 102 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:19854400 original size:3 final size:3
Alignment explanation
Indices: 19854392--19854438 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
19854382 GGCAGTTTCT
* * *
19854392 CAC CAC CAC CAC CAC CAC CTC CAC CAC CTTC CTC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC C-AC CAC CAC CAC CAC CAC
19854438 C
1 C
19854439 TCCTAATCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 37 0.95
4 2 0.05
ACGTcount: A:0.26, C:0.66, G:0.00, T:0.09
Consensus pattern (3 bp):
CAC
Found at i:19861415 original size:16 final size:16
Alignment explanation
Indices: 19861394--19861425 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19861384 CAACTGCAAA
19861394 CACCAAACAGGAAAAG
1 CACCAAACAGGAAAAG
19861410 CACCAAACAGGAAAAG
1 CACCAAACAGGAAAAG
19861426 AACAGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.19, T:0.00
Consensus pattern (16 bp):
CACCAAACAGGAAAAG
Found at i:19862482 original size:105 final size:105
Alignment explanation
Indices: 19862348--19862559 Score: 415
Period size: 105 Copynumber: 2.0 Consensus size: 105
19862338 AGCATGGTAT
19862348 CAACCCCAGATACATAGTGCACACACATACCATCTGATTCAAGGCCTTAGCTAAGACCTGCTGCG
1 CAACCCCAGATACATAGTGCACACACATACCATCTGATTCAAGGCCTTAGCTAAGACCTGCTGCG
19862413 TAAAAACTGTTCTCTGCTCGAAACAAGCTGAGCAAGCATC
66 TAAAAACTGTTCTCTGCTCGAAACAAGCTGAGCAAGCATC
*
19862453 CAACCCCAGATACATAGTGCACACGCATACCATCTGATTCAAGGCCTTAGCTAAGACCTGCTGCG
1 CAACCCCAGATACATAGTGCACACACATACCATCTGATTCAAGGCCTTAGCTAAGACCTGCTGCG
19862518 TAAAAACTGTTCTCTGCTCGAAACAAGCTGAGCAAGCATC
66 TAAAAACTGTTCTCTGCTCGAAACAAGCTGAGCAAGCATC
19862558 CA
1 CA
19862560 TTATCTGGAA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (105 bp):
CAACCCCAGATACATAGTGCACACACATACCATCTGATTCAAGGCCTTAGCTAAGACCTGCTGCG
TAAAAACTGTTCTCTGCTCGAAACAAGCTGAGCAAGCATC
Found at i:19865252 original size:4 final size:4
Alignment explanation
Indices: 19865243--19865267 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
19865233 ATATTTTGTA
19865243 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
19865268 GATAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:19865418 original size:63 final size:63
Alignment explanation
Indices: 19865340--19865465 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
19865330 AGTAACTCTC
* *
19865340 GGCTAATTATCCTATTCAACACTCGTTTGTTGAAAATTTTGTATCATGTAAAATTTAATATGA
1 GGCTAATTATCCTATTCAACACTAGTTTGTTGAAAATTTTGTATCATGTAAAAATTAATATGA
19865403 GGCTAATTATCCTATTCAACACTAGTTTGTTGAAAATTTTGTATCATGTAAAAATTAATATGA
1 GGCTAATTATCCTATTCAACACTAGTTTGTTGAAAATTTTGTATCATGTAAAAATTAATATGA
19865466 ATTATTAAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (63 bp):
GGCTAATTATCCTATTCAACACTAGTTTGTTGAAAATTTTGTATCATGTAAAAATTAATATGA
Found at i:19869716 original size:54 final size:54
Alignment explanation
Indices: 19869656--19869764 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
19869646 AACCAAACAA
*
19869656 TGTTCAAATTCTTTGGCACCGCGTGGCATCCTAAATGATGGATCTCTACAATTC
1 TGTTCAAATTCTTTGGCACCGCATGGCATCCTAAATGATGGATCTCTACAATTC
* * * *
19869710 TGTTCAAATTCTTTGGCACCGTATGGCATCGTAAGTGATGGATCTGTACAATTC
1 TGTTCAAATTCTTTGGCACCGCATGGCATCCTAAATGATGGATCTCTACAATTC
19869764 T
1 T
19869765 CGAGGTACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (54 bp):
TGTTCAAATTCTTTGGCACCGCATGGCATCCTAAATGATGGATCTCTACAATTC
Done.