Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003001.1 Hibiscus syriacus cultivar Beakdansim tig00006211_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 149400
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:824 original size:41 final size:41
Alignment explanation
Indices: 767--889 Score: 221
Period size: 41 Copynumber: 3.0 Consensus size: 41
757 CATAAAATAT
767 TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTTTCTA
1 TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTTTCTA
808 TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTTTCTA
1 TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTTTCTA
*
849 TTGCAAATTGTCTTTGTTATCACAA-CTAAGAGCATTTTCTA
1 TTGCAAATTGTCTTTATTATCACAAGC-AAGAGCATTTTCTA
890 ACTCGATTTC
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
40 1 0.01
41 79 0.99
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (41 bp):
TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTTTCTA
Found at i:2428 original size:331 final size:320
Alignment explanation
Indices: 1835--2486 Score: 1011
Period size: 331 Copynumber: 2.0 Consensus size: 320
1825 GGCACTGGAT
*
1835 CATAATCTTCGCTTCCGTTATCAATTTTAAGAGCAGATATGTCACAAATTCCAATATCATCTGCA
1 CATAATCTTCGCTTCCGTTATCAATTTAAAGAGCAGATATGTCACAAATTCCAATATCATCTGCA
1900 AAAGGATGCAACTCTTTTTCATCTCTCATGGAATTAGGATTTTGGTTTTTAGATCAAGAAACACA
66 AAAGGATGCAACTCTTTTTCATCTCTCATGGAATTAGGATTTTGGTTTTTAGATCAAGAAACACA
1965 CCACCATATAGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAATGAACCAGTGAGGG
131 CCACCATATAGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAATGAACCAGTGAGGG
* * *
2030 GGACGGCACAAATTCCCTTGATCAGGAAATAGAAGCAGCAAATGTATCAGAAAGGGTCAGATTAG
196 GGAAGGCACAAATTACCTTGATCAGAAAATAGAAGCAGCAAATGTATCAGAAAGGGTCAGATTAG
*
2095 CTGACATGTAGTTA-TTTCTTCATGTTCTTGGTCAGGGAAAGCTCAAGTATGCAGGTTAA
261 CTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGTATGCAGGTTAA
* * *
2154 CATAATCTTCGCTTCTGTTATCAATTTAAAGAGCGGATATGTCACAAATTCTAATATCATCTGCA
1 CATAATCTTCGCTTCCGTTATCAATTTAAAGAGCAGATATGTCACAAATTCCAATATCATCTGCA
* * * * *
2219 GAAGTATGCAATTCTTTTTCGTCTCTCATGGAATTAGGCTTTTGGTTTTTTAGATCAAGAAACAC
66 AAAGGATGCAACTCTTTTTCATCTCTCATGGAATTAGGATTTTGG-TTTTTAGATCAAGAAACAC
*
2284 ACCACCCCATATAGCAACAGAAGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAGTG
130 ACCA--CCATAT---------AGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAATG
*
2349 AACCAGTGA-GGGGAAGGCACTAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCAGAA
184 AACCAGTGAGGGGGAAGGCACAAATTACCTTGATCAG-AAAATAGAAGCAGCAAATGTATCAGAA
* * *
2413 AGGGTTAGGTTAGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGGAAGCTCAAGTATG
248 AGGGTCAGATTAGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGTATG
2478 CAGGTTAA
313 CAGGTTAA
2486 C
1 C
2487 CATTCCAGTG
Statistics
Matches: 301, Mismatches: 18, Indels: 15
0.90 0.05 0.04
Matches are distributed among these distances:
319 101 0.34
320 23 0.08
322 6 0.02
330 24 0.08
331 103 0.34
332 44 0.15
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (320 bp):
CATAATCTTCGCTTCCGTTATCAATTTAAAGAGCAGATATGTCACAAATTCCAATATCATCTGCA
AAAGGATGCAACTCTTTTTCATCTCTCATGGAATTAGGATTTTGGTTTTTAGATCAAGAAACACA
CCACCATATAGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAATGAACCAGTGAGGG
GGAAGGCACAAATTACCTTGATCAGAAAATAGAAGCAGCAAATGTATCAGAAAGGGTCAGATTAG
CTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGTATGCAGGTTAA
Found at i:7968 original size:21 final size:22
Alignment explanation
Indices: 7921--7976 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
7911 ATAGAATAAT
*
7921 TTAA-ATTAATTTAATTTAAGA
1 TTAATATTAATATAATTTAAGA
*
7942 AT-ATATTAATATAATTTAA-A
1 TTAATATTAATATAATTTAAGA
7962 TTAATATTGAATATA
1 TTAATATT-AATATA
7977 TTACATACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.10
21 20 0.69
22 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TTAATATTAATATAATTTAAGA
Found at i:10012 original size:32 final size:30
Alignment explanation
Indices: 9976--10047 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 30
9966 TAATTAAAAA
* *
9976 TAAATTAAATTAAATTCAAAAGTTAAAGTGAT
1 TAAATTAAAGT-AATTCAAAAGTT-AAGTCAT
* *
10008 TAAATTAGAAGTAATTTAAAAGTTAATTCAT
1 TAAATTA-AAGTAATTCAAAAGTTAAGTCAT
10039 TAAATTAAA
1 TAAATTAAA
10048 AGAACTTTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 2 0.06
31 12 0.34
32 18 0.51
33 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (30 bp):
TAAATTAAAGTAATTCAAAAGTTAAGTCAT
Found at i:14210 original size:39 final size:39
Alignment explanation
Indices: 14167--14321 Score: 159
Period size: 39 Copynumber: 4.0 Consensus size: 39
14157 CCACTTTTCG
* * * *
14167 CAGGCTCCTCGGCTTTGTGCTCACGGTAAGTCCTTACTA
1 CAGGCTCCTCGACTTTATGCACAGGGTAAGTCCTTACTA
* * * * * *
14206 CAGGCTCATCTG-CTTTATGCACAGGATAAGACCTCAGTG
1 CAGGCTCCTC-GACTTTATGCACAGGGTAAGTCCTTACTA
* * *
14245 TAGGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACTA
1 CAGGCTCCTCGACTTTATGCACAGGGTAAGTCCTTACTA
* *
14284 CAGGCTCCTCTACTTTATGCACAGGGAAAGTCCTTACT
1 CAGGCTCCTCGACTTTATGCACAGGGTAAGTCCTTACT
14322 GGGTGTACAT
Statistics
Matches: 91, Mismatches: 23, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
38 1 0.01
39 89 0.98
40 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.30
Consensus pattern (39 bp):
CAGGCTCCTCGACTTTATGCACAGGGTAAGTCCTTACTA
Found at i:19892 original size:39 final size:39
Alignment explanation
Indices: 19837--19993 Score: 206
Period size: 39 Copynumber: 4.0 Consensus size: 39
19827 ACCGTTTTCC
* *
19837 GCAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACT
1 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
* * **
19876 ACAGGCTCCTCTGCTTTGTGCACAGGATAAGAGCTTACT
1 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
** * *
19915 GCAGGCTCCTCAACTTTGTGCTCAGGGTAAGTCCTTACC
1 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
* *
19954 GCAGACTCCTCTTCTTTGTGCACAGGGTAAGTCCTTACT
1 GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
19993 G
1 G
19994 GGTGTACAGG
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (39 bp):
GCAGGCTCCTCTGCTTTGTGCACAGGGTAAGTCCTTACT
Found at i:19971 original size:78 final size:78
Alignment explanation
Indices: 19837--19993 Score: 233
Period size: 78 Copynumber: 2.0 Consensus size: 78
19827 ACCGTTTTCC
** * *
19837 GCAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTACAGGCTCCTCTGCTTTGTGCACAGG
1 GCAGGCTCCTCAACTTTGTGCTCAGGGTAAGTCCTTACCACAGACTCCTCTGCTTTGTGCACAGG
*
19902 ATAAGAGCTTACT
66 ATAAGACCTTACT
* *
19915 GCAGGCTCCTCAACTTTGTGCTCAGGGTAAGTCCTTACCGCAGACTCCTCTTCTTTGTGCACAGG
1 GCAGGCTCCTCAACTTTGTGCTCAGGGTAAGTCCTTACCACAGACTCCTCTGCTTTGTGCACAGG
* *
19980 GTAAGTCCTTACT
66 ATAAGACCTTACT
19993 G
1 G
19994 GGTGTACAGG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (78 bp):
GCAGGCTCCTCAACTTTGTGCTCAGGGTAAGTCCTTACCACAGACTCCTCTGCTTTGTGCACAGG
ATAAGACCTTACT
Found at i:24067 original size:27 final size:27
Alignment explanation
Indices: 24029--24098 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
24019 GGACTAAAGG
* *
24029 AAATTACTAAAATACCATTGAACTGTA
1 AAATGACTAAAATACCACTGAACTGTA
* *
24056 AAATGACTAAAATACCCCTGAAGTGTA
1 AAATGACTAAAATACCACTGAACTGTA
**
24083 AAATGACCCAAATACC
1 AAATGACTAAAATACC
24099 TCTAAGCCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (27 bp):
AAATGACTAAAATACCACTGAACTGTA
Found at i:30649 original size:2 final size:2
Alignment explanation
Indices: 30642--30667 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30632 TAATAACAAT
30642 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
30668 AACATATCAA
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):
TA
Found at i:30730 original size:100 final size:99
Alignment explanation
Indices: 30564--30754 Score: 303
Period size: 100 Copynumber: 1.9 Consensus size: 99
30554 GACTGGGCCA
* *
30564 ATATAAACATATCAATTTTTTTTATCTAAAATAATTTATATACTAATATTTTTAAATTTTTTAAA
1 ATATAAACATATCAATTTTTTGTATATAAAATAATTTATATACTAATATTTTTAAATTTTTTAAA
*
30629 ATATAATAACAATTATATATATATATATATATAT
66 ATATAATAACAACTATATATATATATATATATAT
* * *
30663 ATATAAACATATCAATTTTTTAGTATATAAATTAATTTATATACTAGTATTTTTTTAA-TTTTTA
1 ATATAAACATATCAATTTTTT-GTATATAAAATAATTTATATACTAATA-TTTTTAAATTTTTTA
30727 AAATATAATAACAACTATATATATATAT
64 AAATATAATAACAACTATATATATATAT
30755 GGATTAAATC
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
99 21 0.25
100 56 0.67
101 7 0.08
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (99 bp):
ATATAAACATATCAATTTTTTGTATATAAAATAATTTATATACTAATATTTTTAAATTTTTTAAA
ATATAATAACAACTATATATATATATATATATAT
Found at i:31377 original size:14 final size:14
Alignment explanation
Indices: 31358--31387 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31348 TTAAATTGTG
*
31358 ATTTTTATTTAATT
1 ATTTTTATTAAATT
31372 ATTTTTATTAAATT
1 ATTTTTATTAAATT
31386 AT
1 AT
31388 AATATCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTATTAAATT
Found at i:31432 original size:22 final size:22
Alignment explanation
Indices: 31407--31455 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
31397 TAATTTAGGC
31407 AAAAATAT-TTTTTTATAAATTT
1 AAAAA-ATGTTTTTTATAAATTT
*
31429 AAAAAATGTTTTTTATATATTT
1 AAAAAATGTTTTTTATAAATTT
*
31451 TAAAA
1 AAAAA
31456 GAATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
AAAAAATGTTTTTTATAAATTT
Found at i:31440 original size:23 final size:22
Alignment explanation
Indices: 31407--31460 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
31397 TAATTTAGGC
31407 AAAAATATTTTTTTATAAATTTA
1 AAAAATA-TTTTTTATAAATTTA
* *
31430 AAAAATGTTTTTTATATATTTTA
1 AAAAATATTTTTTATA-AATTTA
31453 AAAGAATA
1 AAA-AATA
31461 AAATTTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 14 0.54
24 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
AAAAATATTTTTTATAAATTTA
Found at i:32727 original size:131 final size:130
Alignment explanation
Indices: 32489--32854 Score: 450
Period size: 131 Copynumber: 2.8 Consensus size: 130
32479 ATAATTTTAA
* * *
32489 GAGAGAAAACGGTGATATCTAATTATTTCCAGTCGAGAATAAATGAACTCTCATACCTTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGAACTCTCATACCTT-AAACA
* * * ** * *
32554 GTCATTTATTACTCCAATCGAAATGAACAGATATCACTATTCCGTCTTAAAATTCAATATCGATA
65 GTCATTTATTACTCCAACCGAAATGAAAAGATATTACTATTCCACCTTAAAAATCAATATCAATA
32619 C
130 C
* * *
32620 GAGTGAAAACGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGAACTCTCATACCTTAAA-CA
* * * * *
32685 GTCATTTATTACCCCAACCAAAACGAAAAGATATTACTATTCCACCTTAAAAATCAATATTAATT
65 GTCATTTATTACTCCAACCGAAATGAAAAGATATTACTATTCCACCTTAAAAATCAATATCAATA
32750 C
130 C
* * * * **
32751 GAGAGAATA--TTAACAT-TGAATTATTTCCAATGGAGAATAAATGGTCTCTCATACCTTAGAAC
1 GAGAGAAAACGATAATATCT-AATTATTTCCAATCGAGAATAAATGAACTCTCATACCTTA-AAC
*
32813 AGTCATTTATTACTCCAACCGAAATGAAAGGATATTACTATT
64 AGTCATTTATTACTCCAACCGAAATGAAAAGATATTACTATT
32855 TTCAATATCG
Statistics
Matches: 202, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
128 1 0.00
129 80 0.40
130 5 0.02
131 116 0.57
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGAACTCTCATACCTTAAACAG
TCATTTATTACTCCAACCGAAATGAAAAGATATTACTATTCCACCTTAAAAATCAATATCAATAC
Found at i:38354 original size:31 final size:31
Alignment explanation
Indices: 38319--38380 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
38309 TAATTTAATC
* * *
38319 ATAT-TTTTAAAT-AAATTTTAACATAAAAT
1 ATATATTTTAAATGAAAATTAAAAATAAAAT
38348 ATATATTTTAAATGAAAATTAAAAATAAAAT
1 ATATATTTTAAATGAAAATTAAAAATAAAAT
38379 AT
1 AT
38381 TTAAATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 4 0.14
30 8 0.29
31 16 0.57
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (31 bp):
ATATATTTTAAATGAAAATTAAAAATAAAAT
Found at i:38383 original size:26 final size:25
Alignment explanation
Indices: 38354--38414 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
38344 AAATATATAT
38354 TTTAAATGAAAATTAAAAATAAAATA
1 TTTAAAT-AAAATTAAAAATAAAATA
* * *
38380 TTTAAATTAAGTTAATAATAAAATA
1 TTTAAATAAAATTAAAAATAAAATA
*
38405 TATTTAATAA
1 T-TTAAATAA
38415 GTTAATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (25 bp):
TTTAAATAAAATTAAAAATAAAATA
Found at i:38394 original size:25 final size:25
Alignment explanation
Indices: 38366--38438 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
38356 TAAATGAAAA
38366 TTAAAAATAAAATATTTAAATTAAG
1 TTAAAAATAAAATATTTAAATTAAG
* *
38391 TTAATAATAAAATATATTTAA-TAAG
1 TTAAAAATAAAATAT-TTAAATTAAG
* * *
38416 TT-AATATAAAAAATTTAAGTTAA
1 TTAAAAATAAAATATTTAAATTAA
38439 TATATATAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
23 3 0.08
24 12 0.31
25 20 0.51
26 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
TTAAAAATAAAATATTTAAATTAAG
Found at i:38407 original size:27 final size:25
Alignment explanation
Indices: 38374--38453 Score: 82
Period size: 22 Copynumber: 3.3 Consensus size: 25
38364 AATTAAAAAT
38374 AAAATATTTAAATTAAGTTAATAATA
1 AAAATATTTAAATTAAGTTAAT-ATA
38400 AAATATATTT-AA-TAAGTTAATATA
1 AAA-ATATTTAAATTAAGTTAATATA
*
38424 AAAA-ATTTAAGTTAA--T-ATATA
1 AAAATATTTAAATTAAGTTAATATA
38445 TAAAATATT
1 -AAAATATT
38454 ATGAATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
21 5 0.10
22 9 0.19
23 5 0.10
24 9 0.19
25 9 0.19
26 5 0.10
27 6 0.12
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AAAATATTTAAATTAAGTTAATATA
Found at i:38411 original size:22 final size:21
Alignment explanation
Indices: 38386--38453 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 21
38376 AATATTTAAA
38386 TTAAGTTAATAATAAAATATATT
1 TTAAGTTAATAATAAAA-ATA-T
38409 TAATAAGTTAAT-ATAAAAA-AT
1 T--TAAGTTAATAATAAAAATAT
38430 TTAAGTTAATATATATAAAATAT
1 TTAAGTTAATA-ATA-AAAATAT
38453 T
1 T
38454 ATGAATTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
19 9 0.23
21 5 0.13
22 5 0.13
23 5 0.13
24 6 0.15
25 9 0.23
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (21 bp):
TTAAGTTAATAATAAAAATAT
Found at i:41094 original size:31 final size:31
Alignment explanation
Indices: 41059--41129 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
41049 CCTGAACTTC
41059 AGATAAAAT-ACTAATTCAACTCCTAAAATTT
1 AGATAAAATAAC-AATTCAACTCCTAAAATTT
* ** *
41090 AGATAAAATAACAATTTAACTTTTAAATTTT
1 AGATAAAATAACAATTCAACTCCTAAAATTT
41121 AGATAAAAT
1 AGATAAAAT
41130 CTGACTTCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (31 bp):
AGATAAAATAACAATTCAACTCCTAAAATTT
Found at i:43368 original size:34 final size:34
Alignment explanation
Indices: 43328--43392 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
43318 TTTAATAGTC
43328 AAACGACTTAATAAAACATCATCCTATAGTCAGA
1 AAACGACTTAATAAAACATCATCCTATAGTCAGA
*
43362 AAACGACTTAATAAAACATCATTCTATAGTC
1 AAACGACTTAATAAAACATCATCCTATAGTC
43393 GGATGACCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (34 bp):
AAACGACTTAATAAAACATCATCCTATAGTCAGA
Found at i:48219 original size:25 final size:25
Alignment explanation
Indices: 48185--48239 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
48175 TTTTTAGTTG
48185 AATAAAACTAATTAAAAAATAAGAA
1 AATAAAACTAATTAAAAAATAAGAA
48210 AATAAAACTAATTAAAAAATAAGAA
1 AATAAAACTAATTAAAAAATAAGAA
48235 AATAA
1 AATAA
48240 TTTAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (25 bp):
AATAAAACTAATTAAAAAATAAGAA
Found at i:48324 original size:16 final size:16
Alignment explanation
Indices: 48303--48333 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48293 AAATTTTAGA
48303 TATGATTTTGTAAAAG
1 TATGATTTTGTAAAAG
48319 TATGATTTTGTAAAA
1 TATGATTTTGTAAAA
48334 ATTGACACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (16 bp):
TATGATTTTGTAAAAG
Found at i:48724 original size:6 final size:6
Alignment explanation
Indices: 48700--48741 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
48690 GATTTTGGTT
* *
48700 ATGA-C ATGATG ACGATC ATGATC ATGATC ATGATC ATGATC A
1 ATGATC ATGATC ATGATC ATGATC ATGATC ATGATC ATGATC A
48742 AGGGCTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (6 bp):
ATGATC
Found at i:48853 original size:17 final size:17
Alignment explanation
Indices: 48831--48899 Score: 74
Period size: 15 Copynumber: 4.3 Consensus size: 17
48821 CCGTGTCCCG
*
48831 ACCCGGATGTTACGGGT
1 ACCCGGATATTACGGGT
*
48848 ACCCGG-TAAT-CGGGT
1 ACCCGGATATTACGGGT
*
48863 ACCCGGATTTTACGGGT
1 ACCCGGATATTACGGGT
*
48880 ACCCGG-TAAT-CGGGT
1 ACCCGGATATTACGGGT
48895 ACCCG
1 ACCCG
48900 ATACCCGATT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
15 21 0.48
16 6 0.14
17 17 0.39
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.22
Consensus pattern (17 bp):
ACCCGGATATTACGGGT
Found at i:48863 original size:15 final size:15
Alignment explanation
Indices: 48843--48899 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
48833 CCGGATGTTA
48843 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
48858 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
48874 ACGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
48890 CGGGTACCCG
1 CGGGTACCCG
48900 ATACCCGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 21 0.58
16 4 0.11
17 11 0.31
ACGTcount: A:0.18, C:0.28, G:0.33, T:0.21
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:48867 original size:32 final size:32
Alignment explanation
Indices: 48831--48899 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
48821 CCGTGTCCCG
48831 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
*
48863 ACCCGGATTTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
48895 ACCCG
1 ACCCG
48900 ATACCCGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.22
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGTAATCGGGT
Found at i:50932 original size:22 final size:22
Alignment explanation
Indices: 50898--50964 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
50888 AGAATCAAAC
50898 ACGCTG-ACGGTTCAGCATTCA
1 ACGCTGAACGGTTCAGCATTCA
50919 ACGCTGAACGGTTCAGCATTCA
1 ACGCTGAACGGTTCAGCATTCA
* *
50941 GCGATGAACGGTTCAGCATTCA
1 ACGCTGAACGGTTCAGCATTCA
50963 AC
1 AC
50965 AGTAAACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 6 0.14
22 36 0.86
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (22 bp):
ACGCTGAACGGTTCAGCATTCA
Found at i:52519 original size:2 final size:2
Alignment explanation
Indices: 52512--52552 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
52502 GGTAATTTCA
52512 AT AT AT AT 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 AT A
52553 GTTTAAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53210 original size:22 final size:18
Alignment explanation
Indices: 53165--53200 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
53155 AACTATAGTA
53165 TGTCATAGTCTTCGTTCG
1 TGTCATAGTCTTCGTTCG
53183 TGTCATAGTCTTCGTTCG
1 TGTCATAGTCTTCGTTCG
53201 GTTGACTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (18 bp):
TGTCATAGTCTTCGTTCG
Found at i:53324 original size:16 final size:15
Alignment explanation
Indices: 53303--53335 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
53293 ATTTTTGGTT
53303 ATGATCATTGATGATG
1 ATGATCATTGAT-ATG
53319 ATGATCATTGATATG
1 ATGATCATTGATATG
53334 AT
1 AT
53336 TTTGGTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.39
Consensus pattern (15 bp):
ATGATCATTGATATG
Found at i:55387 original size:2 final size:2
Alignment explanation
Indices: 55380--55404 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55370 AAACTTTAAT
55380 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
55405 CCTTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56493 original size:158 final size:158
Alignment explanation
Indices: 56178--56661 Score: 639
Period size: 165 Copynumber: 3.0 Consensus size: 158
56168 TCTGTTTTCT
* * * *
56178 TGGTTGATCCTACACTTGCTTTCAAGGTAAATTTGAGTTTTCATATGATGCACACGAATTTGATC
1 TGGTAGATCCTGCTCTTGCTTTCAAGGTAAATTTGAGTTTTCATATGATACACACGAATTTGATC
* * * * *
56243 ATCGAATCTATGTTATTAGACACGAGTGTGAGCGTCAGATACGAGTTTTCAACGATTTAAATCGG
66 ATCGAAGCTATGTTATT-TACTCGGGTGTGAGTGTCAGATACGAGTTTTCAACGATTTAAATCGG
56308 TTATGAATGTCTTTTGTTTTGACAATGTG
130 TTATGAATGTCTTTTGTTTTGACAATGTG
*
56337 TGGTAGATCCTGCTCTTGCTTTCAAGGTAAAATTGAGTTTTCATATGATACACACGAATTTGATC
1 TGGTAGATCCTGCTCTTGCTTTCAAGGTAAATTTGAGTTTTCATATGATACACACGAATTTGATC
** * *
56402 ATTTAAGCCATGTTATTTACTCGGGTGTGAGTGTCAGATACGAGTTTTCAACGATTTACATCGGT
66 ATCGAAGCTATGTTATTTACTCGGGTGTGAGTGTCAGATACGAGTTTTCAACGATTTAAATCGGT
*
56467 TACGAATGTCTTTTGTTTTGACAATGTGTGGAGTG
131 TATGAATGTCTTTTGTTTTGACAA----T---GTG
*
56502 TGGTAGATCCTGCTCTTGCTTTCAAGG-AAATTTTGAGTTTTCATATGATACACACGAATTCGAT
1 TGGTAGATCCTGCTCTTGCTTTCAAGGTAAA-TTTGAGTTTTCATATGATACACACGAATTTGAT
* * * * * * *
56566 CATCGATGCTATGTTATTTAGACTCGGGTGTGAGTATCAGATACGAGTTTTCGATGAATCAAATT
65 CATCGAAGCTATGTTATTT--ACTCGGGTGTGAGTGTCAGATACGAGTTTTCAACGATTTAAATC
56631 GGTTATGAATGTCTTTTGCTTTT-ACAATGTG
128 GGTTATGAATGTCTTTTG-TTTTGACAATGTG
56662 CATTGTGTCT
Statistics
Matches: 285, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
158 66 0.23
159 73 0.26
160 3 0.01
162 1 0.00
163 1 0.00
164 3 0.01
165 76 0.27
167 58 0.20
168 4 0.01
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (158 bp):
TGGTAGATCCTGCTCTTGCTTTCAAGGTAAATTTGAGTTTTCATATGATACACACGAATTTGATC
ATCGAAGCTATGTTATTTACTCGGGTGTGAGTGTCAGATACGAGTTTTCAACGATTTAAATCGGT
TATGAATGTCTTTTGTTTTGACAATGTG
Found at i:56842 original size:199 final size:199
Alignment explanation
Indices: 56502--56866 Score: 493
Period size: 199 Copynumber: 1.8 Consensus size: 199
56492 GTGTGGAGTG
* * * *
56502 TGGTAGATCCTGCTCTTGCTTTCAAGGAAATTTTGAGTTTTCATATGATACACACGAATTCGATC
1 TGGTAGATCATGCACTCGCTTTCAAGGAAATTTTGAGTTTTCATACGATACACACGAATTCGATC
* * * * *
56567 ATCGATGCTATGTTATTTAGACTCGGGTGTGAGTATCAGATACGAGTTTTCGATGAATCAAATTG
66 ATCGAAGCTATGTTATTTAGACTCGAGTGTGAGTATCAGATACGAGTTTTCCACGAATCAAATCG
*
56632 GTTATGAATGTCTTTTGCTTTT-ACAATGTGCATTGTGTCTGCTAGTCCTTGCTTCTGCTTCTGT
131 GTTACGAATGTCTTTTG-TTTTGACAATGTGCATTGTGTCTGCTAGTCCTTGCTTCTGCTTCTGT
56696 TTACT
195 TTACT
* ** *
56701 TGGTAGATCATGCACTCGGTTTCAAGGTAAA-TTTGAGTTTTTGTACGATACACACGAATTTGAT
1 TGGTAGATCATGCACTCGCTTTCAAGG-AAATTTTGAGTTTTCATACGATACACACGAATTCGAT
* * * * * *
56765 CATTGAAGCTATGTTATTTAGACTCGAGTGTGAGTGTCGGATTCGA-TTTTCCCACGATTGAAAT
65 CATCGAAGCTATGTTATTTAGACTCGAGTGTGAGTATCAGATACGAGTTTT-CCACGAATCAAAT
*
56829 CGGTTACGAATGTCTTTTGTTTTGACAATGTGCGTTGT
129 CGGTTACGAATGTCTTTTGTTTTGACAATGTGCATTGT
56867 TAAAAAGGGA
Statistics
Matches: 142, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
198 8 0.06
199 131 0.92
200 3 0.02
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (199 bp):
TGGTAGATCATGCACTCGCTTTCAAGGAAATTTTGAGTTTTCATACGATACACACGAATTCGATC
ATCGAAGCTATGTTATTTAGACTCGAGTGTGAGTATCAGATACGAGTTTTCCACGAATCAAATCG
GTTACGAATGTCTTTTGTTTTGACAATGTGCATTGTGTCTGCTAGTCCTTGCTTCTGCTTCTGTT
TACT
Found at i:60679 original size:39 final size:39
Alignment explanation
Indices: 60636--60739 Score: 190
Period size: 39 Copynumber: 2.7 Consensus size: 39
60626 ATACCTGCAA
*
60636 ATCCGGGTTCGAGTAACATATTCTCGAACATACCCGTGT
1 ATCCGGGTTCGAGTAACATATTCTCGAACATAACCGTGT
*
60675 ATCCGGGTTCGAGTAACATATTCTCGAACATAACTGTGT
1 ATCCGGGTTCGAGTAACATATTCTCGAACATAACCGTGT
60714 ATCCGGGTTCGAGTAACATATTCTCG
1 ATCCGGGTTCGAGTAACATATTCTCG
60740 TATATATGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (39 bp):
ATCCGGGTTCGAGTAACATATTCTCGAACATAACCGTGT
Found at i:65460 original size:223 final size:224
Alignment explanation
Indices: 65065--65507 Score: 752
Period size: 223 Copynumber: 2.0 Consensus size: 224
65055 GTAAATTATC
* *
65065 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA-CTTTAGT
**
65130 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
65195 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AACACTATTAAA-AAATTT
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
65258 GAAACATAAATTACATAACTTTCAAAAAAGTA
194 GAAACATAAATTACATAACTTT-AAAAAAGTA
*
65290 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTA-TA-TTTGGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTACTTTAGT
65353 TAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
*
65417 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
129 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
65482 GAAACATAAATTACATAACTTTAAAA
194 GAAACATAAATTACATAACTTTAAAA
65508 GCAGTTTTAA
Statistics
Matches: 208, Mismatches: 6, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
222 4 0.02
223 111 0.53
224 36 0.17
225 41 0.20
226 16 0.08
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (224 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTACTTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGA
AACATAAATTACATAACTTTAAAAAAGTA
Found at i:65595 original size:20 final size:19
Alignment explanation
Indices: 65572--65617 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
65562 CGATATACCA
65572 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
65592 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
65612 GGTAAA
1 GGTAAA
65618 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:65761 original size:20 final size:19
Alignment explanation
Indices: 65738--65784 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
65728 CGATATAACA
*
65738 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
65758 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
65778 GGTAAAA
1 GGTAAAA
65785 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:68143 original size:33 final size:33
Alignment explanation
Indices: 68101--68166 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
68091 AAATAGATGG
*
68101 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
68134 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
68167 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:69998 original size:19 final size:19
Alignment explanation
Indices: 69954--69997 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
69944 AATGTCGAGT
69954 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
69973 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
69992 T-ATTTT
1 TAATTTT
69998 TTATGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:70758 original size:199 final size:200
Alignment explanation
Indices: 70079--72500 Score: 4580
Period size: 199 Copynumber: 12.1 Consensus size: 200
70069 TTAAGGGTCA
* *
70079 TGTCGATACTAATATAGTTTGTGTCGAAATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACG
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT----G
70144 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
62 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
70209 TAATGTAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
127 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
70273 TAAATAATG
192 TAAATAATG
70282 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
70346 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
70410 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
70475 TAATG
196 TAATG
70480 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
70544 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
70608 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
70673 TAATG
196 TAATG
70678 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
70743 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
70808 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
70873 TAATG
196 TAATG
*
70878 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
70943 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
71007 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
71072 TAATG
196 TAATG
71077 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
71141 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
71206 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
71271 TAATG
196 TAATG
71276 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
71341 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
71405 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
71470 TAATG
196 TAATG
71475 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
71540 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
71605 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
71670 TAATG
196 TAATG
*
71675 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
71740 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
71804 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
71869 TAATG
196 TAATG
*
71874 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
71939 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
72004 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
72069 TAATG
196 TAATG
*
72074 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
72139 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
72203 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
72268 TAATG
196 TAATG
*
72273 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
72338 CATAAAGTGTCGATCCATATAT--AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
72401 GTAATATGTAATTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
131 GTAATATGTAATTTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
72466 ATAATG
195 ATAATG
*
72472 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
72501 CTAATTTAAA
Statistics
Matches: 2199, Mismatches: 11, Indels: 22
0.99 0.00 0.01
Matches are distributed among these distances:
197 53 0.02
198 428 0.19
199 1028 0.47
200 633 0.29
202 10 0.00
203 47 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (200 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATG
Found at i:71312 original size:399 final size:400
Alignment explanation
Indices: 70079--72500 Score: 4555
Period size: 399 Copynumber: 6.1 Consensus size: 400
70069 TTAAGGGTCA
* *
70079 TGTCGATACTAATATAGTTTGTGTCGAAATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACG
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCA--
70144 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
64 -A-CCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
70209 TAATGTAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
127 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
70273 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACA
192 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACA
70337 AGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAA
257 AGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
70401 AAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
322 AAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
70466 AAGTCTAAATAATG
387 AAGTCTAAATAATG
*
70480 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAAC
70544 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
70608 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
70673 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
70738 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
261 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
70803 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
326 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
70868 CTAAATAATG
391 CTAAATAATG
70878 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAAC
70943 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
71007 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
71072 TAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
71136 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
261 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
71201 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
326 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
71266 CTAAATAATG
391 CTAAATAATG
*
71276 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAAC
71341 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
71405 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
71470 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
71535 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
261 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
71600 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
326 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
71665 CTAAATAATG
391 CTAAATAATG
* *
71675 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAAC
71740 CATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
71804 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
*
71869 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
71934 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
261 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
* *
71999 ATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGT
326 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
72064 CTAAATAATG
391 CTAAATAATG
*
72074 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGC-AC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAAC
72138 CAATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
66 C-ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
* *
72202 TGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAA
130 TGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAA
*
72267 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGG
195 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGG
72332 TGCACCCATAAAGTGTCGATCCATATAT--AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
260 TGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAG
*
72395 TATAATGTAATATGTAATTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAT
325 TATAATGTAATATGTAATTTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAA
72460 GTCTAAATAATG
389 GTCTAAATAATG
*
72472 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
72501 CTAATTTAAA
Statistics
Matches: 1997, Mismatches: 14, Indels: 23
0.98 0.01 0.01
Matches are distributed among these distances:
395 36 0.02
396 147 0.07
397 94 0.05
398 656 0.33
399 1004 0.50
400 13 0.01
401 47 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (400 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAAC
CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
CTAAATAATG
Found at i:71709 original size:598 final size:598
Alignment explanation
Indices: 70079--72500 Score: 4597
Period size: 598 Copynumber: 4.0 Consensus size: 598
70069 TTAAGGGTCA
* *
70079 TGTCGATACTAATATAGTTTGTGTCGAAATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACG
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT----G
70144 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
62 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
70209 TAATGTAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
127 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
70273 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACA
192 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACA
70337 AGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAA
257 AGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAA
70402 AGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATA
322 AGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATA
*
70467 AGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AA
387 AGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAA
70531 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCC-AAATCATCGAAC
452 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
70595 CCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGA
516 CCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGA
70660 GAATAAGTCTAAATAATG
581 GAATAAGTCTAAATAATG
70678 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
70743 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
70808 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
70873 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
*
70938 GCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
261 GCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
71003 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
326 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
71068 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACA
391 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACA
71132 AGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
456 AGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAA
71197 AAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
520 AAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
71262 AAGTCTAAATAATG
585 AAGTCTAAATAATG
71276 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
71341 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
71405 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
71470 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
71535 GCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
261 GCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
71600 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
325 ATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGT
71665 CTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAAC
390 CTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAAC
71730 AAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
455 AAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAA
71795 AAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
520 AAGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
*
71860 ATGTCTAAATAATG
585 AAGTCTAAATAATG
*
71874 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
71939 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
72004 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
131 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
*
72069 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGT
196 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
*
72134 GCACCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
261 GCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
* *
72199 TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTC
326 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
72264 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACA
391 TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACA
72329 AGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAA
456 AGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAA
72393 AGTATAATGTAATATGTAATTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
521 AGTATAATGTAATATGTAATTTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAAT
*
72458 ATGTCTAAATAATG
585 AAGTCTAAATAATG
*
72472 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
72501 CTAATTTAAA
Statistics
Matches: 1802, Mismatches: 13, Indels: 17
0.98 0.01 0.01
Matches are distributed among these distances:
595 81 0.04
596 119 0.07
597 462 0.26
598 869 0.48
599 271 0.15
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (598 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
GCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
TAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACA
AGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAA
AGTATAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATA
AGTCTAAATAATG
Found at i:73981 original size:18 final size:18
Alignment explanation
Indices: 73958--74040 Score: 55
Period size: 21 Copynumber: 4.4 Consensus size: 18
73948 ATCGGTCGCA
73958 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
73976 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
73997 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
74018 GAAGAT---GCTGACGAT
1 GAAGATGAAGCTGACGAT
*
74033 GATGATGA
1 GAAGATGA
74041 TGATGATGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 17
0.68 0.09 0.23
Matches are distributed among these distances:
15 13 0.26
18 11 0.22
19 1 0.02
20 1 0.02
21 17 0.34
22 1 0.02
23 1 0.02
24 5 0.10
ACGTcount: A:0.35, C:0.10, G:0.35, T:0.20
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:73982 original size:6 final size:6
Alignment explanation
Indices: 73958--74055 Score: 61
Period size: 6 Copynumber: 16.3 Consensus size: 6
73948 ATCGGTCGCA
* * * * * *
73958 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** ** * * * *
74006 GAAGCT GGCGAT GAAGAT GCTGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
74054 GA
1 GA
74056 TGATCCAAAC
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 72 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:73993 original size:3 final size:3
Alignment explanation
Indices: 73973--74059 Score: 75
Period size: 3 Copynumber: 29.0 Consensus size: 3
73963 TGAAGCTGAC
* * * * * ** *
73973 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * *
74021 GAT GCT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
74060 CCAAACAAGT
Statistics
Matches: 63, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.34, C:0.07, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:74008 original size:42 final size:42
Alignment explanation
Indices: 73961--74051 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
73951 GGTCGCAGAA
*
73961 GATGAAGCTGACGATGAAGATGAC-GATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATG-CTGACGATGATGATGATGAC
* *
74003 GATGAAGCTGGCGATGAAGATGCTGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGCTGACGATGATGATGATGAC
74045 GATGAAG
1 GATGAAG
74052 ATGATGATCC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.34, C:0.09, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGCTGACGATGATGATGATGAC
Found at i:75836 original size:183 final size:184
Alignment explanation
Indices: 75527--76377 Score: 1516
Period size: 183 Copynumber: 4.7 Consensus size: 184
75517 CTTTCAACAT
** * *
75527 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
75592 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
75657 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
75711 ATTATAATGTAATAGATAATTTTGTAATATAACC-GTATAAATATACCGGTTTTATGAGCCAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
75775 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
75840 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
75894 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATAAGCCAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
75959 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
76024 AATGTGTCGATACAATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
76077 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
76142 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* * *
76207 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTT-C-CGAGC-G-TCCCATA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACAC-ATCGGAACCCATA
76258 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
* *
76323 GGTCTATAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
76378 CCATTTAAAA
Statistics
Matches: 646, Mismatches: 18, Indels: 9
0.96 0.03 0.01
Matches are distributed among these distances:
181 122 0.19
182 2 0.00
183 360 0.56
184 162 0.25
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:76200 original size:367 final size:364
Alignment explanation
Indices: 75527--76377 Score: 1508
Period size: 367 Copynumber: 2.3 Consensus size: 364
75517 CTTTCAACAT
** * *
75527 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
75592 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
75657 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
*
75722 ATAGATAATTTTGTAATATAACCGTATAAATATACCGGTTTTATGAGCCAATAGGTCTACAACCT
196 ATAGATAATTTTGTAATATAACCGTATAAATATACCGGTCTTATGAGCCAATAGGTCTACAACCT
75787 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
261 ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
*
75852 CAATTTAAAAAAGTGTCGACATTTTACAC-ATCGGAACCCATA
326 CAATTTAAAAAAGTGTCGACATTTT-C-CGAGC-G-ACCCATA
* *
75894 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATAAGCCAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
75959 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
76024 AATGTGTCGATACAATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
131 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
* *
76088 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACC-GTATAAATATACCGGTCTTATGAGCCAATAGGTCTACAACC
76153 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
260 TATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGAT
* *
76218 ACGATTTAAAAAAGTGTCGACATTTTCCGAGCGTCCCATA
325 ACAATTTAAAAAAGTGTCGACATTTTCCGAGCGACCCATA
76258 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
* *
76323 GGTCTATAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
76378 CCATTTAAAA
Statistics
Matches: 465, Mismatches: 17, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
364 122 0.26
365 2 0.00
366 72 0.15
367 269 0.58
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (364 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTA
ATAGATAATTTTGTAATATAACCGTATAAATATACCGGTCTTATGAGCCAATAGGTCTACAACCT
ATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATA
CAATTTAAAAAAGTGTCGACATTTTCCGAGCGACCCATA
Found at i:78966 original size:22 final size:23
Alignment explanation
Indices: 78933--78994 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
78923 ATAGGTAAAC
*
78933 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
78956 ATAT-ATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
78978 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
78995 ATGGTTATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:79002 original size:23 final size:22
Alignment explanation
Indices: 78933--79009 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
78923 ATAGGTAAAC
* **
78933 ATATGATGTAATAGGTAGCCCTT
1 ATAT-ATGTAATAGGTATCGGTT
*
78956 ATATATGTAATAGGTATCGTTT
1 ATATATGTAATAGGTATCGGTT
78978 ATATAATGTAATAGGTAAT-GGTT
1 ATAT-ATGTAATAGGT-ATCGGTT
79001 ATAT-TGTAA
1 ATATATGTAA
79010 AGTGTCTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.10
22 19 0.40
23 22 0.46
24 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTATCGGTT
Found at i:79192 original size:28 final size:30
Alignment explanation
Indices: 79150--79215 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
79140 GTTACGGTAT
*
79150 ATATTATTATTAAAT-TAAAA-ATTCTAAATA
1 ATATT-TTATTAAATATAAAACAATC-AAATA
79180 ATATTTTA-TAAATATAAAACAATCAAATA
1 ATATTTTATTAAATATAAAACAATCAAATA
*
79209 ATTTTTT
1 ATATTTT
79216 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 5 0.16
29 19 0.59
30 8 0.25
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
ATATTTTATTAAATATAAAACAATCAAATA
Found at i:79423 original size:23 final size:23
Alignment explanation
Indices: 79360--79424 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
79350 AATAGGTAAC
* *
79360 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
79383 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
79406 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
79425 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:79649 original size:18 final size:18
Alignment explanation
Indices: 79628--79664 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
79618 GTAATTGGAG
79628 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
79646 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
79664 T
1 T
79665 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:79672 original size:24 final size:24
Alignment explanation
Indices: 79620--79666 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
79610 TTTCATATGT
* *
79620 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
79644 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
79667 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:84313 original size:414 final size:414
Alignment explanation
Indices: 83119--84365 Score: 2160
Period size: 412 Copynumber: 3.0 Consensus size: 414
83109 GATTTATTTG
* *
83119 AAGAATTAACAAATCTAAATTTAGCCTTAGAATTAGAGAGAGACCCTTTAGCTTAGCATGAGGTT
1 AAGAACTAACAAATCTAAATTTAGCCTTAGAATTAGAGAGAGACCCTTTAGCTCAGCATGAGGTT
* * *
83184 TATATATAGGAGAAATGTAATTGTAATAGCGCTTGACAATTTTGTCCCTTCTGATTTGAACACAG
66 TATATATAGGAGAAATGTGATTGTAATAGCGCTTGATAATTTTATCCCTTCTGATTTGAACACAG
* * *
83249 AATCATATATGAAAGTTTTTGTAGATGTAAAAGAGGAGATAATCATGTTGGATAAGAAAACGAGC
131 AACCATATATGAAAG-TTTTGTAGATGTAAAAGGGGAGATAAACATGTTGGATAAGAAAACGAGC
* * * * * * **
83314 AATAGCCTTAGAATTAGAGAAAGAGGCCCTTGGCTTAGCATGAGGTTTATATATAGGCTCTTAAC
195 AATAACCCTAGAATTAGATAGAGACGCCTTTAACTTAGCATGAGGTTTATATATAGGCTCTTAAC
83379 GTTAGAGTCAAGTTTAGGATGATGATTACTATTTTACAGGTCGATAGGTGAGTAGACATTGTTGC
260 GTTAGAGTCAAGTTTAGGATGATGATTACTATTTTACAGGTCGATAGGTGAGTAGACATTGTTGC
*
83444 TATATCGTAGATTTAACGTTGATGAGATTAACATCAGTCAAGTCAGAACACTATAATTAGCCAGA
325 TATATCGTAGATTTAACGTTGATGAGATTAACATCAGTCAAGTCAGGACACTATAATTAGCCAGA
*
83509 GGATATGAAACTATGAAGTTTTTCT
390 GGATATGAAACTCTGAAGTTTTTCT
* *
83534 AAGAACTAACAAATCTAAATTTAGCCTTAGAATT--AGAGAGACCATTTAGCTCAACATGAGGTT
1 AAGAACTAACAAATCTAAATTTAGCCTTAGAATTAGAGAGAGACCCTTTAGCTCAGCATGAGGTT
83597 TATATATAGGAGAAATGTGATTGTAATAGCGCTTGATAATTTTAT-CCTTCTGATTTGAACACAG
66 TATATATAGGAGAAATGTGATTGTAATAGCGCTTGATAATTTTATCCCTTCTGATTTGAACACAG
*
83661 AACCATATATGAAAGTTTTGTAGATGTAAAAGGGGAGATAAACATGTTTGATAAGAAAACGAGCA
131 AACCATATATGAAAGTTTTGTAGATGTAAAAGGGGAGATAAACATGTTGGATAAGAAAACGAGCA
* * *
83726 ATAGCCCTAGAATTAGATAGAAATGCCCTTTAACTTAGCATGAGGTTTATATATAGGCTCTTAAC
196 ATAACCCTAGAATTAGATAGAGACG-CCTTTAACTTAGCATGAGGTTTATATATAGGCTCTTAAC
83791 GTTAGAGTCAAGTTTAGGATGATGATTACTATTTTACAGGTCGATAGGTGAGTAGACATTGTTGC
260 GTTAGAGTCAAGTTTAGGATGATGATTACTATTTTACAGGTCGATAGGTGAGTAGACATTGTTGC
83856 TATATCGTAGATTTAACGTTGATGAGATTAACATCAGTCAAGTCAGGACACTATAATTAGCCAGA
325 TATATCGTAGATTTAACGTTGATGAGATTAACATCAGTCAAGTCAGGACACTATAATTAGCCAGA
83921 GGATATGAAACTCTGAAGTTTTTCT
390 GGATATGAAACTCTGAAGTTTTTCT
83946 AAGAACTAACAAATCTAAATTTAGCCTTAGAATTAGAGAGAGACCCTTTAGCTCAGCATGAGGTT
1 AAGAACTAACAAATCTAAATTTAGCCTTAGAATTAGAGAGAGACCCTTTAGCTCAGCATGAGGTT
84011 TATATATAGGAGAAATGTGATTGTAATAGCGCTTGATAATTTTATCCCTTCTGATTTGAACACAG
66 TATATATAGGAGAAATGTGATTGTAATAGCGCTTGATAATTTTATCCCTTCTGATTTGAACACAG
84076 AACCATATATGAAAGTTTTGTAGATGTAAAAGGGGAGATAAACATGTTGGATAAGAAAACGAGCA
131 AACCATATATGAAAGTTTTGTAGATGTAAAAGGGGAGATAAACATGTTGGATAAGAAAACGAGCA
* *
84141 ATAATCCTAGAATTAGATAGAGACGCCTTTAACTTAGCATGAGGTTTATATATAGGCTCTTAATG
196 ATAACCCTAGAATTAGATAGAGACGCCTTTAACTTAGCATGAGGTTTATATATAGGCTCTTAACG
* *
84206 TTAGTGTCAAGTTTAGGATGATGATTACTATTTTACAGGTCGATAGATGAGTAGACATTGTTGCT
261 TTAGAGTCAAGTTTAGGATGATGATTACTATTTTACAGGTCGATAGGTGAGTAGACATTGTTGCT
* * *
84271 ATATCGTAGATTTAACGTTGATCATATTAACAACAGTCAAGTCAGGACACTATAATTAGCCAGAG
326 ATATCGTAGATTTAACGTTGATGAGATTAACATCAGTCAAGTCAGGACACTATAATTAGCCAGAG
84336 GATATGAAACTCTGAAG-TTTTCT
391 GATATGAAACTCTGAAGTTTTTCT
*
84359 ACGAACT
1 AAGAACT
84366 TAGTGGCAGA
Statistics
Matches: 793, Mismatches: 35, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
411 67 0.08
412 256 0.32
413 80 0.10
414 253 0.32
415 137 0.17
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (414 bp):
AAGAACTAACAAATCTAAATTTAGCCTTAGAATTAGAGAGAGACCCTTTAGCTCAGCATGAGGTT
TATATATAGGAGAAATGTGATTGTAATAGCGCTTGATAATTTTATCCCTTCTGATTTGAACACAG
AACCATATATGAAAGTTTTGTAGATGTAAAAGGGGAGATAAACATGTTGGATAAGAAAACGAGCA
ATAACCCTAGAATTAGATAGAGACGCCTTTAACTTAGCATGAGGTTTATATATAGGCTCTTAACG
TTAGAGTCAAGTTTAGGATGATGATTACTATTTTACAGGTCGATAGGTGAGTAGACATTGTTGCT
ATATCGTAGATTTAACGTTGATGAGATTAACATCAGTCAAGTCAGGACACTATAATTAGCCAGAG
GATATGAAACTCTGAAGTTTTTCT
Found at i:88173 original size:35 final size:36
Alignment explanation
Indices: 88133--88209 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 36
88123 TAATATTTTT
88133 TTAATAATAATGTTTTATTATTTTTATAGTAATAC-
1 TTAATAATAATGTTTTATTATTTTTATAGTAATACG
88168 TTAATAATAATGTTTTATTATTTTTATAGTAATACG
1 TTAATAATAATGTTTTATTATTTTTATAGTAATACG
88204 TTAATA
1 TTAATA
88210 TTATTGTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 35 0.85
36 6 0.15
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (36 bp):
TTAATAATAATGTTTTATTATTTTTATAGTAATACG
Found at i:97910 original size:3 final size:3
Alignment explanation
Indices: 97902--97932 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
97892 CCATCTTTAT
97902 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
97933 AATCATATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:98127 original size:13 final size:14
Alignment explanation
Indices: 98109--98139 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
98099 TAGTTGAACA
98109 GTCTTCATATGCG-
1 GTCTTCATATGCGC
98122 GTCTTCATATGCGC
1 GTCTTCATATGCGC
98136 GTCT
1 GTCT
98140 ATAATGGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.39
Consensus pattern (14 bp):
GTCTTCATATGCGC
Found at i:98909 original size:15 final size:15
Alignment explanation
Indices: 98889--98920 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
98879 ACTTAAAATC
98889 AAATATATAATTGAA
1 AAATATATAATTGAA
*
98904 AAATATATATTTGAA
1 AAATATATAATTGAA
98919 AA
1 AA
98921 TTGAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (15 bp):
AAATATATAATTGAA
Found at i:101584 original size:97 final size:96
Alignment explanation
Indices: 101413--101589 Score: 221
Period size: 97 Copynumber: 1.8 Consensus size: 96
101403 ACCATAAAAT
* * * *
101413 AAACTGGTCACTCAACTAATTCCACGTAAGCACTATCATGCCATGTATGTTTCCCGTCACACCTC
1 AAACTAGTCACCCAACTAATTCCACGTAAACACTAACATGCCATGTATGTTTCCCGTCACACCTC
*
101478 TTAACGTCTTTTAACATTATCGATTGGTAGC
66 TCAACGTCTTTTAACATTATCGATTGGTAGC
* * * * * *
101509 AAACTAGTCACCCAGCTAATTCCATGTAAACACTTAACGTGCCA-GTTATGTTTTCTGTCACGCC
1 AAACTAGTCACCCAACTAATTCCACGTAAACAC-TAACATGCCATG-TATGTTTCCCGTCACACC
*
101573 TCTCAATGTCTTTTAAC
64 TCTCAACGTCTTTTAAC
101590 GCTGAGTAAC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
96 29 0.43
97 38 0.57
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (96 bp):
AAACTAGTCACCCAACTAATTCCACGTAAACACTAACATGCCATGTATGTTTCCCGTCACACCTC
TCAACGTCTTTTAACATTATCGATTGGTAGC
Found at i:106967 original size:23 final size:20
Alignment explanation
Indices: 106901--106956 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
106891 ACCATAGGCA
106901 AAGGTAGTATCGATACCATC
1 AAGGTAGTATCGATACCATC
*
106921 AAGGTAGTATCGGTACCATC
1 AAGGTAGTATCGATACCATC
106941 AAGGTAGTATCGATAC
1 AAGGTAGTATCGATAC
106957 TACCATGAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (20 bp):
AAGGTAGTATCGATACCATC
Found at i:109155 original size:23 final size:23
Alignment explanation
Indices: 109129--109215 Score: 138
Period size: 23 Copynumber: 3.8 Consensus size: 23
109119 CAGCTCATAT
109129 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
109152 AATTGTACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
109175 AATTACACCGAAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
109198 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
109216 TATAATAATG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:109359 original size:103 final size:103
Alignment explanation
Indices: 109223--109551 Score: 577
Period size: 103 Copynumber: 3.2 Consensus size: 103
109213 CCATATAATA
* *
109223 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGTCAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
*
109288 TCTCACCAGACTTTACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
* *
109326 ATGTTCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGCG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
* * *
109391 TTTCACCAGACTTCACACATGCTCCAAAGAATATATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
*
109429 ATGTCCCGAATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
109494 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
109532 ATGTCCCGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
109552 GACCCTCGAC
Statistics
Matches: 211, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 211 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (103 bp):
ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
Found at i:116805 original size:49 final size:50
Alignment explanation
Indices: 116729--116827 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 50
116719 ACCTAAATGA
116729 TAACCAAGAAGACTTAACTATAAGGACAAGAATGAGTGTTGCAGAATTCC
1 TAACCAAGAAGACTTAACTATAAGGACAAGAATGAGTGTTGCAGAATTCC
116779 TAACCAAGAAGAC-TAACTATAAGGACAAGAATGAGTGTTGCAGAATTCC
1 TAACCAAGAAGACTTAACTATAAGGACAAGAATGAGTGTTGCAGAATTCC
116828 AAATAGCTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 36 0.73
50 13 0.27
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.21
Consensus pattern (50 bp):
TAACCAAGAAGACTTAACTATAAGGACAAGAATGAGTGTTGCAGAATTCC
Found at i:123035 original size:32 final size:32
Alignment explanation
Indices: 122984--123044 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
122974 AAAGATGCAG
122984 TCAAATGCAAATGAAGAGAAATTTAACAACAA
1 TCAAATGCAAATGAAGAGAAATTTAACAACAA
* * *
123016 TCAAATGCAGATTAGGAGAAATTTAACAA
1 TCAAATGCAAATGAAGAGAAATTTAACAA
123045 TAACCAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.21
Consensus pattern (32 bp):
TCAAATGCAAATGAAGAGAAATTTAACAACAA
Found at i:124928 original size:3 final size:3
Alignment explanation
Indices: 124920--124947 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
124910 TGGTAAGGTG
124920 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
124948 GAATTAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:125958 original size:21 final size:21
Alignment explanation
Indices: 125928--126369 Score: 276
Period size: 21 Copynumber: 21.2 Consensus size: 21
125918 ATTTTACATA
*
125928 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
125949 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
125970 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
125991 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
126010 TTCGCGTTACGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
126033 TT--CGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* * *
126054 TT--TGTTGCGATAGTCGAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
126073 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
126096 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
126115 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
126136 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
126159 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
126178 TTCGCGTTGCGATTTATTTCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
126201 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** * *
126220 TTCGCGTTGCGATTTTCTAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
126241 TT--CGTTGTGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
126260 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* * *
126283 TT--CGTTGTGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
126304 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
126323 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
126346 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
126365 TTCGC
1 TTCGC
126370 AACACGAACT
Statistics
Matches: 336, Mismatches: 57, Indels: 56
0.75 0.13 0.12
Matches are distributed among these distances:
19 82 0.24
21 203 0.60
23 51 0.15
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:125989 original size:42 final size:40
Alignment explanation
Indices: 125953--126289 Score: 331
Period size: 42 Copynumber: 8.1 Consensus size: 40
125943 TCCAAGTTCG
125953 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
*
125993 CGTTGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
* * * * ** *
126035 CGTTGCGATTTATTCCAAATT--TGTTGCGATAGTCGAAATT
1 CGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
* * * ** *
126075 CGCGTTGCGATTTATTCCAAATT--CGTTGCGATAGTCCAAGTT
1 --CGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
*
126117 CGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CG--TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
*
126161 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTTCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
* *
126203 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCTAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
*
126243 CGTTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
126285 CGTTG
1 CGTTG
126290 TGATTTATTC
Statistics
Matches: 258, Mismatches: 25, Indels: 26
0.83 0.08 0.08
Matches are distributed among these distances:
40 79 0.31
41 7 0.03
42 153 0.59
43 1 0.00
44 18 0.07
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:126069 original size:63 final size:62
Alignment explanation
Indices: 125934--126356 Score: 463
Period size: 63 Copynumber: 6.8 Consensus size: 62
125924 CATATTCGCA
* * *
125934 TTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCGAAGTTCGCGTTGCGATT-TTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGATTATTCCAAATTCG
* * *
125995 TTGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTTG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA-TTATTCCAAATTCG
* * * *
126058 TTGCGATAGTCGAAATTCGCGTTGCGATTTATTCCAAATTCGTTGCGA-TAGTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATTATTCCAAATTCG
* * *
126119 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA-TAGTCGAAGTTCGC
1 --TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATTATTCCAAATT--C
126183 G
62 G
* * * *
126184 TTGCGATTTATTTC-AAATT--CGTTGCGA--TAGTCCAAGTTCGCGTTGCGATT-TTCTAAATT
1 TTGCGA--TA-GTCGAAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGATTATTCCAAATT
126243 CG
61 CG
* * *
126245 TTGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGTGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA-TTATTCCAAATTCG
*
126308 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGAT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGAT
126357 AGTCGAAGTT
Statistics
Matches: 310, Mismatches: 31, Indels: 41
0.81 0.08 0.11
Matches are distributed among these distances:
58 2 0.01
59 6 0.02
61 75 0.24
62 5 0.02
63 211 0.68
64 1 0.00
65 8 0.03
66 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (62 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATTATTCCAAATTCG
Found at i:126438 original size:21 final size:21
Alignment explanation
Indices: 126413--126459 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
126403 TCGACTATCG
126413 CAACGAATTTGGAATAAATCA
1 CAACGAATTTGGAATAAATCA
*
126434 CAACGAATTTGGAATAAATCG
1 CAACGAATTTGGAATAAATCA
126455 CAACG
1 CAACG
126460 CGAACTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (21 bp):
CAACGAATTTGGAATAAATCA
Found at i:129280 original size:35 final size:35
Alignment explanation
Indices: 129229--129304 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
129219 AAAATAGTCC
* *
129229 TCAATTTCATTATAAACCCCAATTTCTAAAGTAAT
1 TCAATTTCATTATAAACCCCAAATTCTAAAATAAT
* *
129264 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTATAAACCCCAAATTCTAAAATAAT
129299 TCAATT
1 TCAATT
129305 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTATAAACCCCAAATTCTAAAATAAT
Found at i:129842 original size:129 final size:130
Alignment explanation
Indices: 129702--129948 Score: 435
Period size: 130 Copynumber: 1.9 Consensus size: 130
129692 TATTTATATA
* *
129702 ATCAATTTGGTCCTAAATT-AATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTAAATAAATTAATCATTTAATCAGGATCTGACATGTG
*
129766 TTAGCACATGATCATGACATGTG-TCATTGGTGACACATGTCACCACCTAATTATTTATATATGC
66 TTAACACATGATCATGACATGTGTTC-TTGGTGACACATGTCACCACCTAATTATTTATATATGC
129830 T
130 T
129831 ATCAATTTGGTCCTAAATTAAATAAAATTAAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTAAATAAATTAATCATTTAATCAGGATCTGACATGTG
*
129896 TTAACACATGATCATGATATGTGTTCTTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACATGTGTTCTTGGTGACACATGTCACCACCTAATTA
129949 GAAGAAAATT
Statistics
Matches: 112, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
129 19 0.17
130 91 0.81
131 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTAAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACATGTGTTCTTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:129979 original size:130 final size:128
Alignment explanation
Indices: 129716--129979 Score: 318
Period size: 130 Copynumber: 2.0 Consensus size: 128
129706 ATTTGGTCCT
* * *
129716 AAATTAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCAT
1 AAATTAATAAAATTAAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCAT
*** * * **** *
129781 GACATGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 GACATGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
129845 AAATTAAATAAAATTAAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATT-AATAAAATTAAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* *
129910 TGATATGTGTTC-TTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAG
65 TGACATGTG-TCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAG
129973 T-A
126 TCA
129975 AAATT
1 AAATT
129980 TGGGTCTTGG
Statistics
Matches: 115, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
129 5 0.04
130 95 0.83
131 2 0.02
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (128 bp):
AAATTAATAAAATTAAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCAT
GACATGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:130435 original size:15 final size:16
Alignment explanation
Indices: 130411--130447 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
130401 TTTAATTTCT
130411 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
130425 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
130441 TGATTCA
1 T-ATTCA
130448 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:148550 original size:21 final size:21
Alignment explanation
Indices: 148520--148634 Score: 169
Period size: 21 Copynumber: 5.5 Consensus size: 21
148510 TATGGTATAA
*
148520 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
148541 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
* *
148562 AACCCTGTGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
148583 AACCCTGCGGGCTTGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
148604 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
148625 AACCCTGCGG
1 AACCCTGCGG
148635 AGATGGCATA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
20 3 0.03
21 80 0.93
22 3 0.03
ACGTcount: A:0.20, C:0.26, G:0.34, T:0.20
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:148658 original size:42 final size:42
Alignment explanation
Indices: 148528--148658 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
148518 AAAACCCTGC
* * * *
148528 GGGCTAGGCATGTAA-CCTGGCGGGC-TAGGAATGTAACCCTGT
1 GGGCTCGGAATGTAACCCT-GCGGGCAT-GGAATATAACACTGT
* * * *
148570 GGGCTCGGAATGTAACCCTGCGGGCTTGGAATGTAACCCTGC
1 GGGCTCGGAATGTAACCCTGCGGGCATGGAATATAACACTGT
*
148612 GGGCTCGGAATGTAACCCTGCGGAG-ATGGCATATAA-ACTGGT
1 GGGCTCGGAATGTAACCCTGCGG-GCATGGAATATAACACT-GT
148654 GGGCT
1 GGGCT
148659 TGGCATATGA
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
41 2 0.03
42 70 0.91
43 5 0.06
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.21
Consensus pattern (42 bp):
GGGCTCGGAATGTAACCCTGCGGGCATGGAATATAACACTGT
Found at i:148664 original size:21 final size:21
Alignment explanation
Indices: 148638--148685 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
148628 CCTGCGGAGA
*
148638 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
148659 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
148680 GGGCAT
1 TGGCAT
148686 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Done.