Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 89
Found at i:2447306 original size:4 final size:4
Alignment explanation
Indices: 2447297--2447409 Score: 109
Period size: 4 Copynumber: 28.2 Consensus size: 4
2447287 AATTCCCCCA
* * * *
2447297 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCCC CCTC CCCC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * *
2447345 TCTC TCCC TCCC TCTC TCCC TCCC TCCC TCCC TCCC TCCC TCCC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
2447393 TCTC TCTC TCTC TCTC T
1 TCTC TCTC TCTC TCTC T
2447410 GAAGAAGAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 99 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (4 bp):
TCTC
Found at i:2447617 original size:20 final size:20
Alignment explanation
Indices: 2447587--2447624 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2447577 CTATCCCCGA
2447587 ACCCGACCCG-AAATATTAT
1 ACCCGACCCGAAAATATTAT
2447606 ACCCGAACCCGAAAATATT
1 ACCCG-ACCCGAAAATATT
2447625 TTATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.39, C:0.32, G:0.11, T:0.18
Consensus pattern (20 bp):
ACCCGACCCGAAAATATTAT
Found at i:2447663 original size:2 final size:2
Alignment explanation
Indices: 2447654--2447695 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2447644 AAAATATAAA
2447654 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2447695 A
1 A
2447696 ATCGGGGCGG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2448015 original size:3 final size:3
Alignment explanation
Indices: 2448007--2448062 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
2447997 GCTCATGAAT
2448007 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2448055 TAA TAA TA
1 TAA TAA TA
2448063 GTGCATGGCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:2448418 original size:29 final size:29
Alignment explanation
Indices: 2448376--2448457 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
2448366 ACCCCAACAC
2448376 AGGTCGCCATGCACTCCCAGCGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
***
2448405 AGGTCGCCATGCACTCCCAGCGACCTTGT
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* * *
2448434 AGGTCGCCAAGCAGTCCCGGCGAC
1 AGGTCGCCATGCACTCCCAGCGAC
2448458 AAAGCTTAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.21, C:0.39, G:0.26, T:0.15
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCTACA
Found at i:2448553 original size:23 final size:23
Alignment explanation
Indices: 2448523--2448566 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2448513 GTGCATGGGT
*
2448523 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGATGGGAGATTCC
2448546 TGCATCCATAGATGGGAGATT
1 TGCATCCATAGATGGGAGATT
2448567 GTAGCCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGATGGGAGATTCC
Found at i:2449027 original size:28 final size:30
Alignment explanation
Indices: 2448987--2449046 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 30
2448977 TTTAGTTAAC
2448987 TAGTTTGTTAGTTTAAG-T-TATATTATAT
1 TAGTTTGTTAGTTTAAGTTATATATTATAT
2449015 TAGTTTGTTAGTTTAAGTTATATATTATAT
1 TAGTTTGTTAGTTTAAGTTATATATTATAT
2449045 TA
1 TA
2449047 TATAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 17 0.57
29 1 0.03
30 12 0.40
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TAGTTTGTTAGTTTAAGTTATATATTATAT
Found at i:2449381 original size:20 final size:21
Alignment explanation
Indices: 2449337--2449381 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2449327 AAATATTGTG
**
2449337 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
2449358 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
2449378 TTTA
1 TTTA
2449382 TATTATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:2465318 original size:14 final size:13
Alignment explanation
Indices: 2465287--2465323 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
2465277 TATTTCACCT
2465287 GAAAAAATGAATG
1 GAAAAAATGAATG
2465300 G-AAAAATGAATG
1 GAAAAAATGAATG
2465312 GAAAAAAATGAA
1 G-AAAAAATGAA
2465324 AAAGAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.55
13 1 0.05
14 9 0.41
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.14
Consensus pattern (13 bp):
GAAAAAATGAATG
Found at i:2465356 original size:22 final size:22
Alignment explanation
Indices: 2465287--2465363 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 22
2465277 TATTTCACCT
* *
2465287 GAAAAAATGAATGGAAAAATGAATG
1 GAAAAAATG-A-GGAAAAAAGAA-A
*
2465312 GAAAAAAATGA-AAAAGAAAGAAA
1 G-AAAAAATGAGGAAA-AAAGAAA
*
2465335 GAAAAAATGAGGAAAAAGGAAAA
1 GAAAAAATGAGGAAAAAAG-AAA
2465358 GAAAAA
1 GAAAAA
2465364 TAAAAGAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
22 12 0.28
23 16 0.37
24 5 0.12
25 2 0.05
26 8 0.19
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.08
Consensus pattern (22 bp):
GAAAAAATGAGGAAAAAAGAAA
Found at i:2466774 original size:111 final size:111
Alignment explanation
Indices: 2466527--2467310 Score: 1277
Period size: 111 Copynumber: 7.1 Consensus size: 111
2466517 TTCAGGTTCG
* * * *
2466527 ACCTTGATTCAATGGATCAACTTTCCCATATCTGATATTCCCTTAGAAGAAGTAGAACAGATCCC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
2466592 TCTCTTTCAAGATTTG-TATTCCCTGAGTGACAGCGGAACAAGTCT
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
*
2466637 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
2466702 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
* * *
2466748 ACCTTGATTCAATGAATCAACTTTCCCATATCTGATATTCCCTTAGAAGAAGTGGAACATATCCC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
2466813 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
* * *
2466859 ACCTTGATTCAATGAATCAACTTTCACAGATCTGATATTCCCTCAGAGGAAGCGGAACAGAT-CC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
2466923 -CTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
* *
2466968 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACATATCCC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
2467033 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
*
2467079 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
* *
2467144 TCTCTTTCAAGATTTGATATTCCCTGAGCGACAGTGGAACAAGTCT
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
* * * * * *
2467190 ACCCTGATTCAATGGATCAACTTTCCTAGATCTGATATTCCCTCAGGAGAAGCGGAACAGATCAA
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATC-C
* * * * **
2467255 ATCTCTTTCAAGATTTGATATTCCATAAGTGATAATGGAACAAGTCT
65 CTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
*
2467302 ACCCTGATT
1 ACCTTGATT
2467311 TAATTTTACC
Statistics
Matches: 640, Mismatches: 30, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
109 104 0.16
110 82 0.13
111 404 0.63
112 50 0.08
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (111 bp):
ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCT
Found at i:2467009 original size:220 final size:222
Alignment explanation
Indices: 2466527--2467310 Score: 1286
Period size: 220 Copynumber: 3.5 Consensus size: 222
2466517 TTCAGGTTCG
* * * *
2466527 ACCTTGATTCAATGGATCAACTTTCCCATATCTGATATTCCCTTAGAAGAAGTAGAACAGATCCC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
2466592 TCTCTTTCAAGATTTG-TATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
* *
2466656 ACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
131 ACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
2466721 TTCCCTGAGTGACAGCGGAACAAGTCT
196 TTCCCTGAGTGACAGCGGAACAAGTCT
* * *
2466748 ACCTTGATTCAATGAATCAACTTTCCCATATCTGATATTCCCTTAGAAGAAGTGGAACATATCCC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
2466813 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
* *
2466878 ACTTTCACAGATCTGATATTCCCTCAGAGGAAGCGGAACAGAT-CC-CTCTTTCAAGATTTGATA
131 ACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
2466941 TTCCCTGAGTGACAGCGGAACAAGTCT
196 TTCCCTGAGTGACAGCGGAACAAGTCT
* *
2466968 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACATATCCC
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
2467033 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
66 TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
2467098 ACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
131 ACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
* *
2467163 TTCCCTGAGCGACAGTGGAACAAGTCT
196 TTCCCTGAGTGACAGCGGAACAAGTCT
* * * * * *
2467190 ACCCTGATTCAATGGATCAACTTTCCTAGATCTGATATTCCCTCAGGAGAAGCGGAACAGATCAA
1 ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATC-C
* * * * ** *
2467255 ATCTCTTTCAAGATTTGATATTCCATAAGTGATAATGGAACAAGTCTACCCTGATT
65 CTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATT
2467311 TAATTTTACC
Statistics
Matches: 530, Mismatches: 29, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
220 213 0.40
221 82 0.15
222 186 0.35
223 49 0.09
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (222 bp):
ACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCC
TCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
ACTTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
TTCCCTGAGTGACAGCGGAACAAGTCT
Found at i:2467133 original size:331 final size:330
Alignment explanation
Indices: 2466527--2467310 Score: 1266
Period size: 331 Copynumber: 2.4 Consensus size: 330
2466517 TTCAGGTTCG
* * * **
2466527 ACCTTGATTCAATGGATCAACTTTCCCATATCTGATATTCCCTTAGAAGAAGTAGAACAGATCCC
1 ACCTTGATTCAATGGATCAACTTT-CCAGATCTGATATTCCCTCAGAGGAAGCGGAACAGAT-CC
2466592 TCTCTTTCAAGATTTG-TATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
64 -CTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCA
*
2466656 ACTTTCCCAGATCTGATATTCCCTTAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
128 ACTTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATA
*
2466721 TTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCATATCTGATAT
193 TTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATAT
* * *
2466786 TCCCTTAGAAGAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGA
258 TCCCTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCGACAGCGGA
2466851 ACAAGTCT
323 ACAAGTCT
*
2466859 ACCTTGATTCAATGAATCAACTTTCACAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCC
1 ACCTTGATTCAATGGATCAACTTTC-CAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCC
2466924 TCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAAC
65 TCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAAC
* *
2466989 TTTCCCAGATCTGATATTCCCTCAGAGGAAGTGGAACATATCCCTCTCTTTCAAGATTTGATATT
130 TTTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATT
2467054 CCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTC
195 CCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTC
* *
2467119 CCTCAGAGGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCGACAGTGGAAC
260 CCTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCGACAGCGGAAC
2467184 AAGTCT
325 AAGTCT
*
2467190 ACCCTGATTCAATGGATCAACTTTCCTAGATCTGATATTCCCTCAG-GAGAAGCGGAACAGATCA
1 ACCTTGATTCAATGGATCAACTTTCC-AGATCTGATATTCCCTCAGAG-GAAGCGGAACAGATC-
* * * * ** *
2467254 AATCTCTTTCAAGATTTGATATTCCATAAGTGATAATGGAACAAGTCTACCCTGATT
63 --CCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATT
2467311 TAATTTTACC
Statistics
Matches: 421, Mismatches: 24, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
330 17 0.04
331 302 0.72
332 54 0.13
334 48 0.11
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (330 bp):
ACCTTGATTCAATGGATCAACTTTCCAGATCTGATATTCCCTCAGAGGAAGCGGAACAGATCCCT
CTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACT
TTCCCAGATCTGATATTCCCTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTC
CCTGAGTGACAGCGGAACAAGTCTACCTTGATTCAATGAATCAACTTTCCCAGATCTGATATTCC
CTCAGAAGAAGTGGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGCGACAGCGGAACA
AGTCT
Found at i:2470570 original size:60 final size:60
Alignment explanation
Indices: 2470499--2471474 Score: 554
Period size: 60 Copynumber: 16.2 Consensus size: 60
2470489 GTATTTATAA
* *
2470499 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
2470559 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
* *
2470619 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
*
2470679 GA-TTAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
* * * ** * ** * *
2470737 GATTTAGTAATGATTTGATAGTAATG-ATTTACGACTTGAACAATGAACAATGTTTTGTTCAATT
1 GATTTAGTAATGATTAG-TAATAATGAAATTATTA-TT-AA-TAT--TTAATGATTTGAT--ATT
2470801 AACCAT
58 -A--AT
* * * * * * * * * * *
2470807 -ATTTTCGTTA-CATAACTAGTAATGAAATTA-TAATAATGATTTAGTAATTATTAGTAATAAT
1 GA-TTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-ATTTAATGATT-TGA-TATTAAT
* * * * * *
2470868 GAAATTA-T--T-ATTAATATTTAATG-ATTTGA-TATTAATGATTTAGTAATGATTAG-TAATA
1 G-ATTTAGTAATGATTAGTA-ATAATGAAATT-ATTATTAAT-A-TT--TAATGATTTGATATTA
2470926 AT
59 AT
* * * * * *
2470928 GAAATTA-T--T-ATTAATATTTAATG-ATTTGA-TATTAATGATTTAGTAATGATTAG-TAATA
1 G-ATTTAGTAATGATTAGTA-ATAATGAAATT-ATTATTAAT-A-TT--TAATGATTTGATATTA
2470986 AT
59 AT
* * * * * * * * * *
2470988 GAAATTATTATTAATT--T-TTAATG-ATTTAATAGTAATGATTAGTAATGATTAG-TAATAAT
1 G-ATTTAGTAATGATTAGTAATAATGAAATTATTATTAAT-ATT--TAATGATTTGATATTAAT
* * * * *
2471047 AATTTA-T--T-ATTAATATTTAATG-ATTTGA-TATTAATGATTTAGTAATGATTTGATAGTAA
1 GATTTAGTAATGATTAGTA-ATAATGAAATT-ATTATTAAT-A-TT--TAATGATTTGATATTAA
2471106 T
60 T
* * * * * *
2471107 GATTTACG--A--CTT-G-AACAATGAACAATGT-TTGGTTCA-ATTAACCAT-ATTT--TCGTT
1 GATTTA-GTAATGATTAGTAATAATG-A-AAT-TATT-ATTAATATTTA--ATGATTTGAT-ATT
*
2471161 ACAA
58 A-AT
* * * * *
2471165 AATTATAATAATGATT--TAGTAATGAAATTATTATTAATATTTAATTATTTAATATTAAT
1 GATT-TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
* *
2471224 GATTTAGTAATGATTGGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
2471284 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
* *
2471344 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
2471404 GA-TTAGTAATGATTAGTAATAAT--AATTA-TATTAATATTTAATGATTTGATATTAAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
2471460 GATTTAGTAATGATT
1 GATTTAGTAATGATT
2471475 TGATAGTAAT
Statistics
Matches: 766, Mismatches: 85, Indels: 133
0.78 0.09 0.14
Matches are distributed among these distances:
54 3 0.00
55 1 0.00
56 30 0.04
57 21 0.03
58 80 0.10
59 118 0.15
60 418 0.55
61 15 0.02
62 16 0.02
63 11 0.01
64 9 0.01
65 10 0.01
66 5 0.01
67 4 0.01
68 10 0.01
69 7 0.01
70 8 0.01
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (60 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
Found at i:2470576 original size:21 final size:21
Alignment explanation
Indices: 2470499--2470639 Score: 68
Period size: 21 Copynumber: 7.0 Consensus size: 21
2470489 GTATTTATAA
2470499 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
* * *
2470520 GA--T-GAAATTATTATTAAT
1 GATTTAGTAATGATTAGTAAT
* *
2470538 -ATTTAATGATTTGA-TAGTAAT
1 GATTTAGT-A-ATGATTAGTAAT
2470559 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
* * * *
2470580 -A-AT-GAAATTATTATTAAT
1 GATTTAGTAATGATTAGTAAT
* * *
2470598 -ATTTAATGATTTGA-TATTAAT
1 GATTTAGT-A-ATGATTAGTAAT
2470619 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
2470640 AATGAAATTA
Statistics
Matches: 85, Mismatches: 22, Indels: 26
0.64 0.17 0.20
Matches are distributed among these distances:
17 1 0.01
18 25 0.29
19 4 0.05
20 7 0.08
21 32 0.38
22 16 0.19
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
GATTTAGTAATGATTAGTAAT
Found at i:2470685 original size:10 final size:10
Alignment explanation
Indices: 2470672--2470698 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2470662 AATGATTTGA
2470672 TAGTAATGAT
1 TAGTAATGAT
2470682 TAGTAATGAT
1 TAGTAATGAT
2470692 TAGTAAT
1 TAGTAAT
2470699 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:2470722 original size:21 final size:22
Alignment explanation
Indices: 2470698--2470767 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
2470688 TGATTAGTAA
2470698 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
2470719 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
2470742 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
2470766 TA
1 TA
2470768 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:2470735 original size:14 final size:14
Alignment explanation
Indices: 2470719--2470766 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
2470709 TATTAATATT
*
2470719 TAATGATTTGATAT
1 TAATGATTTGATAG
2470733 TAATGA-TT--TAG
1 TAATGATTTGATAG
2470744 TAATGATTTGATAG
1 TAATGATTTGATAG
2470758 TAATGATTT
1 TAATGATTT
2470767 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:2470748 original size:25 final size:25
Alignment explanation
Indices: 2470719--2470767 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2470709 TATTAATATT
*
2470719 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
2470744 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
2470768 CGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:2470900 original size:21 final size:20
Alignment explanation
Indices: 2470876--2470969 Score: 61
Period size: 21 Copynumber: 4.6 Consensus size: 20
2470866 ATGAAATTAT
2470876 TATTAATATTTAATGATTTGA
1 TATTAATATTTAAT-ATTTGA
* *
2470897 TATTAATGATTTAGTA-ATGA
1 TATTAAT-ATTTAATATTTGA
* * *
2470917 TTAGTAATAATGAA-A-TT-A
1 -TATTAATATTTAATATTTGA
2470935 TTATTAATATTTAATGATTTGA
1 -TATTAATATTTAAT-ATTTGA
2470957 TATTAATGATTTA
1 TATTAAT-ATTTA
2470970 GTAATGATTA
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
18 12 0.21
19 2 0.04
20 7 0.12
21 23 0.41
22 12 0.21
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (20 bp):
TATTAATATTTAATATTTGA
Found at i:2471025 original size:14 final size:14
Alignment explanation
Indices: 2471006--2471112 Score: 57
Period size: 14 Copynumber: 7.7 Consensus size: 14
2470996 TATTAATTTT
2471006 TAATGATTTAATAG
1 TAATGATTTAATAG
2471020 TAATGA--T--TAG
1 TAATGATTTAATAG
*
2471030 TAATGATTAGTAATAA
1 TAATGATT--TAATAG
* *
2471046 TAATTTATTATTAATATT
1 TAA-TGA-T-TTAATA-G
* *
2471064 TAATGATTTGATAT
1 TAATGATTTAATAG
2471078 TAATGA-TT--TAG
1 TAATGATTTAATAG
*
2471089 TAATGATTTGATAG
1 TAATGATTTAATAG
2471103 TAATGATTTA
1 TAATGATTTA
2471113 CGACTTGAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 26
0.69 0.07 0.25
Matches are distributed among these distances:
10 9 0.12
11 8 0.11
12 3 0.04
13 2 0.03
14 26 0.36
15 5 0.07
16 6 0.08
17 9 0.12
18 4 0.05
19 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TAATGATTTAATAG
Found at i:2471030 original size:10 final size:10
Alignment explanation
Indices: 2471017--2471043 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2471007 AATGATTTAA
2471017 TAGTAATGAT
1 TAGTAATGAT
2471027 TAGTAATGAT
1 TAGTAATGAT
2471037 TAGTAAT
1 TAGTAAT
2471044 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:2471067 original size:21 final size:22
Alignment explanation
Indices: 2471043--2471112 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
2471033 TGATTAGTAA
2471043 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
2471064 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
2471087 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
2471111 TA
1 TA
2471113 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:2471085 original size:320 final size:320
Alignment explanation
Indices: 2470744--2471408 Score: 862
Period size: 320 Copynumber: 2.1 Consensus size: 320
2470734 AATGATTTAG
* ** ** *
2470744 TAATGATTTGATAGTAATGATT-T-ACGACTTGA-A-CAATGAACAATGTTTTGTTCAATTAACC
1 TAATGATTTGATAGTAATGATTATAACGACTTGATAGCAATGAACAACGACTTGAACAATGAA-C
* * * * *
2470805 ATAT-TTTCGTT-ACA-TAACTAGTAATGAAATTATAATAATGATTTAGTAATTATTAGTAATAA
65 A-ATGTTTCGTTCA-ATTAACCA-TAATGAAATTACAA-AAT--TATAATAATGATT--TAATAA
*
2470867 TGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAA
122 TGAAATTATTATTAATATTTAATGATTTAATATTAATGATTTAGTAATGATTAGTAATAATGAAA
*
2470932 TTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATT
187 TTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATT
* *
2470997 ATTAATTTTTAATGATTTAATAGTAATGA-TTAGTAATGATTAGTAATAAT-AATTTATTATTAA
252 ATTAATATTTAATGATTTAATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAA
2471060 TATT
317 TATT
* * * * ***
2471064 TAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATGATTTACGACTTGAACAATGAA
1 TAATGATTTGATAGTAATGA-TTA-TAACGACTTGATAGCAATGAACAACGACTTGAACAATGAA
* * **** *
2471129 CAATGTTTGGTTCAATTAACCATATTTTCGTTACAAAATTATAATAATGATTTAGTAATGAAATT
64 CAATGTTTCGTTCAATTAACCATAATGAAATTACAAAATTATAATAATGATTTAATAATGAAATT
* *
2471194 ATTATTAATATTTAATTATTTAATATTAATGATTTAGTAATGATTGGTAATAATGAAATTATTAT
129 ATTATTAATATTTAATGATTTAATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTAT
2471259 TAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATA
194 TAATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATA
* * *
2471324 TTTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTT
259 TTTAATGATTTAATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
2471386 TAATGATTTGATAGTAATGATTA
1 TAATGATTTGATAGTAATGATTA
2471409 GTAATGATTA
Statistics
Matches: 299, Mismatches: 35, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
320 176 0.59
321 26 0.09
322 44 0.15
323 1 0.00
324 12 0.04
325 18 0.06
326 22 0.07
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (320 bp):
TAATGATTTGATAGTAATGATTATAACGACTTGATAGCAATGAACAACGACTTGAACAATGAACA
ATGTTTCGTTCAATTAACCATAATGAAATTACAAAATTATAATAATGATTTAATAATGAAATTAT
TATTAATATTTAATGATTTAATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTA
ATATTTAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
TAATGATTTAATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:2471130 original size:345 final size:332
Alignment explanation
Indices: 2470495--2471417 Score: 1494
Period size: 345 Copynumber: 2.8 Consensus size: 332
2470485 CTATGTATTT
* * *
2470495 ATAAGATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATG
1 ATAAGATTTAGTAATTATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATG
2470560 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTA
66 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTA
2470625 GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATG
131 GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATG
2470690 ATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGA
196 ATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGA
*
2470755 TAGTAATGATTTACGACTTGAACAATGAACAATGTTTTGTTCAATTAACCATATTTTCGTTACAT
261 TAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCG-T---T
2470820 AACTAGTAATGAAATTATA
322 -AC-----A--AAATTATA
2470839 ATAATGATTTAGTAATTATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
1 ATAA-GATTTAGTAATTATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAAT
2470904 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTT
65 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTT
*
2470969 AGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTAATAGTAATGATTAGTAAT
130 AGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAAT
2471034 GATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTG
195 GATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTG
2471099 ATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACA
260 ATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACA
2471164 AAATTATA
325 AAATTATA
* *
2471172 AT-A-A--T-G--A-T-TTAG---TAATGAAATTATTATTAATATTTAATTATTTAATATTAATG
1 ATAAGATTTAGTAATTATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATG
* *
2471225 ATTTAGTAATGATTGGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTA
66 ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTA
* *
2471290 GTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAAT
131 GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAAT
* * *
2471355 GATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA-TTAGTAATGATT
195 GATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATT
2471418 AGTAATAATA
Statistics
Matches: 561, Mismatches: 15, Indels: 29
0.93 0.02 0.05
Matches are distributed among these distances:
320 155 0.28
321 33 0.06
322 34 0.06
323 4 0.01
324 1 0.00
325 1 0.00
327 1 0.00
328 1 0.00
330 1 0.00
332 1 0.00
333 10 0.02
335 1 0.00
340 2 0.00
341 1 0.00
344 5 0.01
345 310 0.55
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (332 bp):
ATAAGATTTAGTAATTATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATG
ATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTA
GTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAATG
ATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAATGATTTAGTAATGATTTGA
TAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATTAACCATATTTTCGTTACAA
AATTATA
Found at i:2471192 original size:25 final size:24
Alignment explanation
Indices: 2471164--2471236 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
2471154 TTTCGTTACA
2471164 AAATTATAATAATGATTTAGTAATG
1 AAATTAT-ATAATGATTTAGTAATG
* * *
2471189 AAATTATTATTAAT-ATTTAATTATT
1 AAATTA-TA-TAATGATTTAGTAATG
*
2471214 TAA-TAT-TAATGATTTAGTAATG
1 AAATTATATAATGATTTAGTAATG
2471236 A
1 A
2471237 TTGGTAATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 9
0.69 0.15 0.17
Matches are distributed among these distances:
21 4 0.11
22 8 0.22
23 1 0.03
24 2 0.05
25 17 0.46
26 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (24 bp):
AAATTATATAATGATTTAGTAATG
Found at i:2471272 original size:35 final size:34
Alignment explanation
Indices: 2471231--2471393 Score: 92
Period size: 35 Copynumber: 5.2 Consensus size: 34
2471221 AATGATTTAG
2471231 TAATGATTGGTAATAATGAAATTATTATTAATATT
1 TAATGATT-GTAATAATGAAATTATTATTAATATT
* * * *
2471266 TAATGATT-TGAT-A-G---TAATGATT--TA-G
1 TAATGATTGTAATAATGAAATTATTATTAATATT
2471291 TAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATT-GTAATAATGAAATTATTATTAATATT
* * * *
2471326 TAATGATT-TGAT-AT----TAATGATT--TA-G
1 TAATGATTGTAATAATGAAATTATTATTAATATT
*
2471351 TAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATT-GTAATAATGAAATTATTATTAATATT
2471386 TAATGATT
1 TAATGATT
2471394 TGATAGTAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 40
0.61 0.11 0.27
Matches are distributed among these distances:
25 16 0.18
26 4 0.04
27 6 0.07
28 15 0.16
29 1 0.01
31 1 0.01
32 15 0.16
33 6 0.07
34 3 0.03
35 24 0.26
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (34 bp):
TAATGATTGTAATAATGAAATTATTATTAATATT
Found at i:2471283 original size:39 final size:39
Alignment explanation
Indices: 2471217--2471403 Score: 91
Period size: 39 Copynumber: 4.7 Consensus size: 39
2471207 AATTATTTAA
* * *
2471217 TATTAATGATTTAGTA-ATGATTGGTAATAATGAAATTAT
1 TATTAAT-ATTTAATATTTGATTAGTAATAATGAAATTAT
* * *
2471256 TATTAATATTTAATGATTTGA-TAGTAATGATTTAGTAATGAT
1 TATTAATATTTAAT-ATTTGATTAGTAAT-A-AT-GAAATTAT
* * * * * * *
2471298 TAGTAATAATGAA-ATTATTATTAATATTTAATG-ATTTGA-
1 TATTAATATTTAATATT-TGATTAGTA-ATAATGAAATT-AT
* *
2471337 TATTAATGATTTAGTA-ATGATTAGTAATAATGAAATTAT
1 TATTAAT-ATTTAATATTTGATTAGTAATAATGAAATTAT
*
2471376 TATTAATTTTTAATGATTTGA-TAGTAAT
1 TATTAATATTTAAT-ATTTGATTAGTAAT
2471404 GATTAGTAAT
Statistics
Matches: 106, Mismatches: 27, Indels: 30
0.65 0.17 0.18
Matches are distributed among these distances:
38 17 0.16
39 47 0.44
40 15 0.14
41 5 0.05
42 21 0.20
43 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.47
Consensus pattern (39 bp):
TATTAATATTTAATATTTGATTAGTAATAATGAAATTAT
Found at i:2471301 original size:21 final size:20
Alignment explanation
Indices: 2471220--2471365 Score: 61
Period size: 21 Copynumber: 7.2 Consensus size: 20
2471210 TATTTAATAT
*
2471220 TAATGATTTAGTAATGATTGG
1 TAAT-ATTTAGTAATGATTAG
* * * *
2471241 TAATA-AT-GAAATTATTAT
1 TAATATTTAGTAATGATTAG
* *
2471259 TAATATTTAATGATTTGA-TAG
1 TAATATTTAGT-A-ATGATTAG
2471280 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
* * * *
2471301 TAATA-AT-GAAATTATTAT
1 TAATATTTAGTAATGATTAG
* * *
2471319 TAATATTTAATGATTTGA-TAT
1 TAATATTTAGT-A-ATGATTAG
2471340 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
2471361 TAATA
1 TAATA
2471366 ATGAAATTAT
Statistics
Matches: 88, Mismatches: 25, Indels: 25
0.64 0.18 0.18
Matches are distributed among these distances:
18 25 0.28
19 4 0.05
20 9 0.10
21 34 0.39
22 16 0.18
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (20 bp):
TAATATTTAGTAATGATTAG
Found at i:2471355 original size:25 final size:25
Alignment explanation
Indices: 2471326--2471490 Score: 90
Period size: 25 Copynumber: 7.0 Consensus size: 25
2471316 TATTAATATT
2471326 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATATTAATGATTTAG
* * *
2471351 TAATGATTAG-TAATAATGAAATTA-
1 TAATGATTTGATATTAATG-ATTTAG
* * *
2471375 TTATTAATT--T-TTAATGATTTGATAG
1 TAATGATTTGATATTAATGA-TT--TAG
*
2471400 TAATGA--T--TAGTAATGA-TTAG
1 TAATGATTTGATATTAATGATTTAG
*
2471420 TAATAATAATT-ATATTAAT-A-TT--
1 TAATGAT--TTGATATTAATGATTTAG
2471442 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATATTAATGATTTAG
*
2471467 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATATTAATGATTTA
2471491 CGACTTGAAC
Statistics
Matches: 108, Mismatches: 16, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
20 10 0.09
21 9 0.08
22 14 0.13
23 5 0.05
24 24 0.22
25 46 0.43
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATATTAATGATTTAG
Found at i:2471405 original size:14 final size:14
Alignment explanation
Indices: 2471386--2471489 Score: 69
Period size: 14 Copynumber: 7.6 Consensus size: 14
2471376 TATTAATTTT
2471386 TAATGATTTGATAG
1 TAATGATTTGATAG
2471400 TAATGA--T--TAG
1 TAATGATTTGATAG
* *
2471410 TAATGATTAGTAATAA
1 TAATGATT--TGATAG
* * *
2471426 TAATTATATTAATATT
1 TAATGAT-TTGATA-G
*
2471442 TAATGATTTGATAT
1 TAATGATTTGATAG
2471456 TAATGA-TT--TAG
1 TAATGATTTGATAG
2471467 TAATGATTTGATAG
1 TAATGATTTGATAG
2471481 TAATGATTT
1 TAATGATTT
2471490 ACGACTTGAA
Statistics
Matches: 73, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
10 9 0.12
11 8 0.11
12 3 0.04
13 2 0.03
14 26 0.36
15 10 0.14
16 14 0.19
17 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:2471410 original size:10 final size:10
Alignment explanation
Indices: 2471397--2471423 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2471387 AATGATTTGA
2471397 TAGTAATGAT
1 TAGTAATGAT
2471407 TAGTAATGAT
1 TAGTAATGAT
2471417 TAGTAAT
1 TAGTAAT
2471424 AATAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:2473722 original size:15 final size:14
Alignment explanation
Indices: 2473699--2473729 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
2473689 TACAACACTA
2473699 AACTTTAATATAAT
1 AACTTTAATATAAT
2473713 AACTTATAATATAAT
1 AACTT-TAATATAAT
2473728 AA
1 AA
2473730 ACTAATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:2474016 original size:39 final size:40
Alignment explanation
Indices: 2473916--2474037 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
2473906 CAAATATAAC
* *
2473916 TTAACTATTTAACTA-C-CACAAACTAATTAAATAATTTT
1 TTAACTATATAACTATCAAACAAACTAATTAAATAATTTT
* * *
2473954 TTTA-TATAACTAACGATCAAAACAAACTAATT-AATTATTTT
1 TTAACTAT-A-TAACTATC-AAACAAACTAATTAAATAATTTT
*
2473995 TTAACTATATAACTATCAAACATACTAATTAAATAATTTT
1 TTAACTATATAACTATCAAACAAACTAATTAAATAATTTT
2474035 TTA
1 TTA
2474038 TTTATGTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
37 3 0.04
38 3 0.04
39 17 0.25
40 19 0.28
41 12 0.18
42 14 0.21
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (40 bp):
TTAACTATATAACTATCAAACAAACTAATTAAATAATTTT
Found at i:2474086 original size:22 final size:21
Alignment explanation
Indices: 2474048--2474088 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2474038 TTTATGTATA
*
2474048 ATATAACTTAAACTAACAATC
1 ATATAACCTAAACTAACAATC
*
2474069 ATATAACCCTAAATTAACAA
1 ATATAA-CCTAAACTAACAA
2474089 ACTAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATAACCTAAACTAACAATC
Found at i:2474178 original size:17 final size:18
Alignment explanation
Indices: 2474141--2474178 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
2474131 CAAACTAAAC
**
2474141 ATTTATAATAATAAACTA
1 ATTTATAATAATAAAAAA
2474159 ATTTA-AATAATAAAAAA
1 ATTTATAATAATAAAAAA
2474176 ATT
1 ATT
2474179 ACCTCACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTATAATAATAAAAAA
Found at i:2474603 original size:29 final size:29
Alignment explanation
Indices: 2474543--2474625 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 29
2474533 AGGAAAGCTT
* * *
2474543 GGTCGCCGGGACTGCTTGGCGACCTACAA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
***
2474572 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCATGGCGACCTACAA
*
2474601 GGTCGCTGGGAGTGCATGGAGACCT
1 GGTCGCTGGGAGTGCATGGCGACCT
2474626 GTGTTGGGGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCATGGCGACCTACAA
Found at i:2474673 original size:32 final size:31
Alignment explanation
Indices: 2474579--2474685 Score: 130
Period size: 32 Copynumber: 3.4 Consensus size: 31
2474569 CAAGGTCGCT
* *
2474579 GGGAGTGCATGGCGACCT-TG-TAGGTCGCT-
1 GGGAGTGCATGGCGACCTGTGTTGGGT-GTTG
*
2474608 GGGAGTGCATGGAGACCTGTGTTGGGGTGTTG
1 GGGAGTGCATGGCGACCTGTGTT-GGGTGTTG
2474640 GGGACGTGCATGGCGACCTGTGTTGGGTGTTG
1 GGGA-GTGCATGGCGACCTGTGTTGGGTGTTG
2474672 GGGACGTGCATGGC
1 GGGA-GTGCATGGC
2474686 ACATGCAGAC
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
29 17 0.25
30 2 0.03
31 3 0.04
32 29 0.42
33 18 0.26
ACGTcount: A:0.12, C:0.16, G:0.47, T:0.25
Consensus pattern (31 bp):
GGGAGTGCATGGCGACCTGTGTTGGGTGTTG
Found at i:2475061 original size:7 final size:7
Alignment explanation
Indices: 2475049--2475076 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
2475039 GTTTGACTCG
2475049 AATTAAA
1 AATTAAA
2475056 AATTAAA
1 AATTAAA
2475063 AATTAAA
1 AATTAAA
2475070 AATTAAA
1 AATTAAA
2475077 CCTCAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATTAAA
Found at i:2485948 original size:22 final size:22
Alignment explanation
Indices: 2485920--2485963 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2485910 TAGGGAAAAC
2485920 CTTCATCAGAAGGAACCTCTGG
1 CTTCATCAGAAGGAACCTCTGG
2485942 CTTCATCAGAAGGAACCTCTGG
1 CTTCATCAGAAGGAACCTCTGG
2485964 TGTAAGAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (22 bp):
CTTCATCAGAAGGAACCTCTGG
Found at i:2493088 original size:40 final size:40
Alignment explanation
Indices: 2493043--2493118 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
2493033 AAAGAAATTT
*
2493043 ATATTTAAATATTTAA-ATAAAAATTGAAGATTTAATTTAA
1 ATATTTAAATA-TTAAGATAAAAATTAAAGATTTAATTTAA
* *
2493083 ATATTTAAATATTAAGATAAAATTTAAATATTTAAT
1 ATATTTAAATATTAAGATAAAAATTAAAGATTTAAT
2493119 ATTATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (40 bp):
ATATTTAAATATTAAGATAAAAATTAAAGATTTAATTTAA
Found at i:2493164 original size:39 final size:38
Alignment explanation
Indices: 2493118--2493248 Score: 142
Period size: 39 Copynumber: 3.4 Consensus size: 38
2493108 AAATATTTAA
* *
2493118 TATTATTAAATCATTAAAGTTCAAATCATTATTAATACT
1 TATTATTAAATCATTAAAATTCAAATAATTATTAATA-T
*
2493157 TATTATTAAATCATTAAAATTCAAATAATTATTAGTAT
1 TATTATTAAATCATTAAAATTCAAATAATTATTAATAT
* ** *
2493195 CATTATTAAATCATTAGCCA--CAAA-AATCATTAAATCAT
1 TATTATTAAATCATTA-AAATTCAAATAATTATT-AAT-AT
2493233 TATTATTAAATCATTA
1 TATTATTAAATCATTA
2493249 GTAGTAAATC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
36 6 0.08
37 6 0.08
38 33 0.41
39 35 0.44
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (38 bp):
TATTATTAAATCATTAAAATTCAAATAATTATTAATAT
Found at i:2493229 original size:8 final size:8
Alignment explanation
Indices: 2493218--2493270 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
2493208 TTAGCCACAA
2493218 AAATCATT
1 AAATCATT
2493226 AAATCATT
1 AAATCATT
*
2493234 --ATTATT
1 AAATCATT
2493240 AAATCATT
1 AAATCATT
* *
2493248 -AGT-AGT
1 AAATCATT
2493254 AAATCATT
1 AAATCATT
2493262 AAATCATT
1 AAATCATT
2493270 A
1 A
2493271 TTAATAAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
6 7 0.20
7 4 0.11
8 24 0.69
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (8 bp):
AAATCATT
Found at i:2493242 original size:14 final size:14
Alignment explanation
Indices: 2493223--2493262 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
2493213 CACAAAAATC
*
2493223 ATTAAATCATTATT
1 ATTAAATCATTAGT
2493237 ATTAAATCATTAGT
1 ATTAAATCATTAGT
*
2493251 AGTAAATCATTA
1 ATTAAATCATTA
2493263 AATCATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (14 bp):
ATTAAATCATTAGT
Found at i:2493262 original size:22 final size:22
Alignment explanation
Indices: 2493237--2493282 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
2493227 AATCATTATT
*
2493237 ATTAAATCATTAGTAGTAAATC
1 ATTAAATCATTAGTAATAAATC
*
2493259 ATTAAATCATTATTAATAAATC
1 ATTAAATCATTAGTAATAAATC
2493281 AT
1 AT
2493283 ATCATTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAAATCATTAGTAATAAATC
Found at i:2493393 original size:2 final size:2
Alignment explanation
Indices: 2493386--2493434 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2493376 AACTTTAAGT
2493386 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2493428 TA TA TA T
1 TA TA TA T
2493435 TCGAATAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2493554 original size:11 final size:11
Alignment explanation
Indices: 2493538--2493681 Score: 55
Period size: 11 Copynumber: 12.1 Consensus size: 11
2493528 AGTTAATTGT
2493538 AATCATTATTA
1 AATCATTATTA
2493549 AATCATTAAAGTTCA
1 AATCATT--A-TT-A
*
2493564 ATTCATTATTA
1 AATCATTATTA
2493575 GTAATCATTATTA
1 --AATCATTATTA
*
2493588 AATCAAAATTATCA
1 AATC---ATTATTA
2493602 AA-CATTATTA
1 AATCATTATTA
*
2493612 AATTATTAGTGTCA
1 AATCATTA-T-T-A
* *
2493626 AATCATTAAATC
1 AATCATT-ATTA
*
2493638 AGT-ATTATTA
1 AATCATTATTA
2493648 AATCATTAGTAGTA
1 AATCATTA-T--TA
2493662 AATC---ATTA
1 AATCATTATTA
2493670 AATCATTATTA
1 AATCATTATTA
2493681 A
1 A
2493682 TAAATCATAT
Statistics
Matches: 100, Mismatches: 12, Indels: 42
0.65 0.08 0.27
Matches are distributed among these distances:
8 6 0.06
10 13 0.13
11 29 0.29
12 6 0.06
13 15 0.15
14 23 0.23
15 8 0.08
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (11 bp):
AATCATTATTA
Found at i:2493650 original size:36 final size:36
Alignment explanation
Indices: 2493605--2493689 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 36
2493595 ATTATCAAAC
*
2493605 ATTATTAAATTATTAGT-GTCAAATCATTAAATCAGT
1 ATTATTAAATCATTAGTAGT-AAATCATTAAATCAGT
*
2493641 ATTATTAAATCATTAGTAGTAAATCATTAAATCATT
1 ATTATTAAATCATTAGTAGTAAATCATTAAATCAGT
*
2493677 ATTAATAAATCAT
1 ATTATTAAATCAT
2493690 ATCATTACAC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
36 43 0.96
37 2 0.04
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (36 bp):
ATTATTAAATCATTAGTAGTAAATCATTAAATCAGT
Found at i:2493669 original size:22 final size:22
Alignment explanation
Indices: 2493644--2493689 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
2493634 AATCAGTATT
*
2493644 ATTAAATCATTAGTAGTAAATC
1 ATTAAATCATTAGTAATAAATC
*
2493666 ATTAAATCATTATTAATAAATC
1 ATTAAATCATTAGTAATAAATC
2493688 AT
1 AT
2493690 ATCATTACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAAATCATTAGTAATAAATC
Found at i:2493862 original size:379 final size:369
Alignment explanation
Indices: 2493417--2494183 Score: 1121
Period size: 379 Copynumber: 2.0 Consensus size: 369
2493407 ATATATATAT
*
2493417 ATATATATATATATATATTCGAATAATTGAATCGAATATAATCTACAAATTTATAAAAAATAATT
1 ATATATATATATATATA-TCGAATAATTGAATCAAATATAATCTACAAATTTATAAAAAATAATT
* *
2493482 AACAAATTTGTTT-GACATTTAAGAAATCAAAAATGTTATAAAATAAAGTTAATTGTAATCATTA
65 AACAAATTTGTTTCG-CATTTAAGAAATCAAAAATGTTATAAAATAAAATTAATAGTAATCATTA
* * *
2493546 TTAAATCATTAAAGTTCAATTCATTATTAGTAATCATTATTAAATCAAAATTATCAAACATTATT
129 TTAAATCATTAAAGTTCAAATCATTATGAGTAATCATTATTAAATC---A-T-T-----ATTATC
* *** *
2493611 AAATTATTAGTGTC-AAATCATTAAATCAGTATTATTAAATCATTAGTAGTAAATCATTAAATCA
184 AAATCATTAGCCACAAAATCATTAAAT-AGTATTATTAAATCATTAGTAGCAAATCATTAAATCA
* *
2493675 TTATTAATAAATCATATCATTA-CACTTAAATTGAGTTTTTTATTATTAAAGTTCGAAACCTTTA
248 TTATTAATAAATCATATCATTACCA-TTAAATTGAGTTTTTTACTATTAAAGTTCGAAACATTTA
2493739 GTAAAAAAAATTAATTTCAGTAAGGAGTTAAAATTGACGTTTTAAACTTTAAGTAATAA
312 GT-AAAAAAATTAATTTCAGTAAGGAGTTAAAATTGACGTTTTAAACTTTAAGTAATAA
* *
2493798 ATATA-ATATATATATATC-AAGTAATTGAATCAAATATAATCTATAAATTTATAAAAATTAATT
1 ATATATATATATATATATCGAA-TAATTGAATCAAATATAATCTACAAATTTATAAAAAATAATT
*
2493861 AACAAATTTGTTTCGCATTTAAGAAATCAAAAATGTTATAAAATAAAATTAGTAGTAATCATTAT
65 AACAAATTTGTTTCGCATTTAAGAAATCAAAAATGTTATAAAATAAAATTAATAGTAATCATTAT
* *
2493926 TAAATCATTAAAGTTTAAATCATTATGAGTAATTATTATTAAATCATTATTATCAAATCATTAGC
130 TAAATCATTAAAGTTCAAATCATTATGAGTAATCATTATTAAATCATTATTATCAAATCATTAGC
* *
2493991 CACAAAATCATTTAATATTATTATTAAATCATTAGTAGCAAATCATTAAATCATTATTAATAAAT
195 CACAAAATCATTAAATAGTATTATTAAATCATTAGTAGCAAATCATTAAATCATTATTAATAAAT
* * ** *
2494056 CATATTATTACCATTAAATTGAGTTTTTTACTATTGAAGTTCGAAACATTTAGTAAAAATTTTCA
260 CATATCATTACCATTAAATTGAGTTTTTTACTATTAAAGTTCGAAACATTTAGTAAAAAAATTAA
*
2494121 TTTCAGTAAGGAGTTAAAATTGACGTTTTAAACTTTATGTAATAA
325 TTTCAGTAAGGAGTTAAAATTGACGTTTTAAACTTTAAGTAATAA
2494166 ATATATATATATATATAT
1 ATATATATATATATATAT
2494184 TCGATTGATT
Statistics
Matches: 355, Mismatches: 26, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
368 57 0.16
369 121 0.34
370 13 0.04
374 1 0.00
375 1 0.00
376 1 0.00
378 2 0.01
379 142 0.40
380 12 0.03
381 5 0.01
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (369 bp):
ATATATATATATATATATCGAATAATTGAATCAAATATAATCTACAAATTTATAAAAAATAATTA
ACAAATTTGTTTCGCATTTAAGAAATCAAAAATGTTATAAAATAAAATTAATAGTAATCATTATT
AAATCATTAAAGTTCAAATCATTATGAGTAATCATTATTAAATCATTATTATCAAATCATTAGCC
ACAAAATCATTAAATAGTATTATTAAATCATTAGTAGCAAATCATTAAATCATTATTAATAAATC
ATATCATTACCATTAAATTGAGTTTTTTACTATTAAAGTTCGAAACATTTAGTAAAAAAATTAAT
TTCAGTAAGGAGTTAAAATTGACGTTTTAAACTTTAAGTAATAA
Found at i:2493933 original size:11 final size:11
Alignment explanation
Indices: 2493917--2493977 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 11
2493907 AATTAGTAGT
2493917 AATCATTATTA
1 AATCATTATTA
2493928 AATCATTAAAGTTTA
1 AATCATT--A--TTA
*
2493943 AATCATTATGA
1 AATCATTATTA
*
2493954 GTAATTATTATTA
1 --AATCATTATTA
2493967 AATCATTATTA
1 AATCATTATTA
2493978 TCAAATCATT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
11 19 0.47
13 11 0.28
15 10 0.25
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (11 bp):
AATCATTATTA
Found at i:2493976 original size:14 final size:14
Alignment explanation
Indices: 2493957--2493988 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2493947 ATTATGAGTA
*
2493957 ATTATTATTAAATC
1 ATTATTATCAAATC
2493971 ATTATTATCAAATC
1 ATTATTATCAAATC
2493985 ATTA
1 ATTA
2493989 GCCACAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTATTATCAAATC
Found at i:2494020 original size:36 final size:36
Alignment explanation
Indices: 2493963--2494058 Score: 124
Period size: 36 Copynumber: 2.7 Consensus size: 36
2493953 AGTAATTATT
*
2493963 ATTAAATCATTATTATCAAATCATTAGCCA-CAAAATC
1 ATTAAATCATTATTATTAAATCATTAG-CAGC-AAATC
* *
2494000 ATTTAAT-ATTATTATTAAATCATTAGTAGCAAATC
1 ATTAAATCATTATTATTAAATCATTAGCAGCAAATC
*
2494035 ATTAAATCATTATTAATAAATCAT
1 ATTAAATCATTATTATTAAATCAT
2494059 ATTATTACCA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
35 12 0.23
36 34 0.65
37 6 0.12
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (36 bp):
ATTAAATCATTATTATTAAATCATTAGCAGCAAATC
Found at i:2494055 original size:22 final size:22
Alignment explanation
Indices: 2494013--2494058 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2494003 TAATATTATT
*
2494013 ATTAAATCATTAGTAGCAAATC
1 ATTAAATCATTAGTAACAAATC
* *
2494035 ATTAAATCATTATTAATAAATC
1 ATTAAATCATTAGTAACAAATC
2494057 AT
1 AT
2494059 ATTATTACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTAAATCATTAGTAACAAATC
Found at i:2494596 original size:22 final size:22
Alignment explanation
Indices: 2494571--2494618 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
2494561 GTATGTCATT
2494571 ATTAAATCATTAGTATCAAATC
1 ATTAAATCATTAGTATCAAATC
** *
2494593 ATTAAATCATTTTTATTAAATC
1 ATTAAATCATTAGTATCAAATC
2494615 ATTA
1 ATTA
2494619 GTAGTAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTAAATCATTAGTATCAAATC
Found at i:2494610 original size:14 final size:14
Alignment explanation
Indices: 2494593--2494632 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
2494583 GTATCAAATC
**
2494593 ATTAAATCATTTTT
1 ATTAAATCATTAGT
2494607 ATTAAATCATTAGT
1 ATTAAATCATTAGT
*
2494621 AGTAAATCATTA
1 ATTAAATCATTA
2494633 AATCATATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (14 bp):
ATTAAATCATTAGT
Found at i:2494611 original size:36 final size:36
Alignment explanation
Indices: 2494569--2494638 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 36
2494559 TTGTATGTCA
2494569 TTATTAAATCATTAGTA-TCAAATCATTAAATCATTT
1 TTATTAAATCATTAGTAGT-AAATCATTAAATCATTT
2494605 TTATTAAATCATTAGTAGTAAATCATTAAATCAT
1 TTATTAAATCATTAGTAGTAAATCATTAAATCAT
2494639 ATCATTACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (36 bp):
TTATTAAATCATTAGTAGTAAATCATTAAATCATTT
Found at i:2497681 original size:6 final size:6
Alignment explanation
Indices: 2497670--2497701 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2497660 TAATTATTAT
*
2497670 ATAAAA ATAAAA ATAAAA ATAAAA CTAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
2497702 TAAACAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:2497706 original size:12 final size:12
Alignment explanation
Indices: 2497671--2497712 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
2497661 AATTATTATA
*
2497671 TAAAAATAAAAA
1 TAAAAATAAAAC
2497683 TAAAAATAAAAC
1 TAAAAATAAAAC
*
2497695 TAAAAATTAAAC
1 TAAAAATAAAAC
2497707 -AAAAAT
1 TAAAAAT
2497713 TTAAATTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 6 0.21
12 22 0.79
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAAAATAAAAC
Found at i:2499310 original size:32 final size:30
Alignment explanation
Indices: 2499274--2499368 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 30
2499264 TATACTTTCA
2499274 AAAGTTAAAATAATAATAATAATATATTTTT
1 AAAGTTAAAATAATAATAA-AATATATTTTT
***
2499305 GAAAGTTTTGGATGAA-AATAAAATATATTTTT
1 -AAAG-TTAAAAT-AATAATAAAATATATTTTT
* * *
2499337 AAAATTAAAATAATAACAAAATATACTTTT
1 AAAGTTAAAATAATAATAAAATATATTTTT
2499367 AA
1 AA
2499369 TTAAGTTAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
29 2 0.04
30 20 0.39
31 3 0.06
32 15 0.29
33 9 0.18
34 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (30 bp):
AAAGTTAAAATAATAATAAAATATATTTTT
Found at i:2501768 original size:31 final size:31
Alignment explanation
Indices: 2501733--2501793 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2501723 AAGACATAAT
*
2501733 ATATGATCAATTTCGTTTTTATTTAATTAAA
1 ATATGATCAATTTCATTTTTATTTAATTAAA
* *
2501764 ATATGATCACTTTTATTTTTATTTAATTAA
1 ATATGATCAATTTCATTTTTATTTAATTAA
2501794 GATGTGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (31 bp):
ATATGATCAATTTCATTTTTATTTAATTAAA
Found at i:2502502 original size:2 final size:2
Alignment explanation
Indices: 2502495--2502536 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2502485 TAGATAAACT
2502495 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2502537 CTAAGAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2504172 original size:5 final size:5
Alignment explanation
Indices: 2504162--2504186 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2504152 TAGAAATGCT
2504162 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
2504187 CATCAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:2512975 original size:80 final size:80
Alignment explanation
Indices: 2512872--2513031 Score: 223
Period size: 80 Copynumber: 2.0 Consensus size: 80
2512862 CTTCCTTTGA
* * * *
2512872 GACGAACATGGGAACAATCAGCTAGTCATAAAATAATAGAGGTGGGTCTTGT-ATTTCCCATTCC
1 GACGAACATGGGAACAATCAGCTAGTCACAAAATAACAGAGGTGGATCTT-TCATTTCACATTCC
2512936 AAGCTTCAAAAATATT
65 AAGCTTCAAAAATATT
* * ** *
2512952 GACGGACATGGGAACGATCAGCTAGTTGCAAAATAACAGAGGTGGATCTTTCATTTCACATTCTA
1 GACGAACATGGGAACAATCAGCTAGTCACAAAATAACAGAGGTGGATCTTTCATTTCACATTCCA
2513017 AGCTTCAAAAATATT
66 AGCTTCAAAAATATT
2513032 AACTTGGACA
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
79 1 0.01
80 69 0.99
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (80 bp):
GACGAACATGGGAACAATCAGCTAGTCACAAAATAACAGAGGTGGATCTTTCATTTCACATTCCA
AGCTTCAAAAATATT
Found at i:2517120 original size:185 final size:184
Alignment explanation
Indices: 2516803--2517191 Score: 629
Period size: 185 Copynumber: 2.1 Consensus size: 184
2516793 ATTAAATTTT
* * *
2516803 AAATTTTAAATATATTATATATAACATATGGGCTTAGCCCAAACCATTTAAAACCCAATTCATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
*
2516868 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
66 TTTAAGATCCAATAACTTTTAAACCTAAAACAATATTAATTAATTAAAAAATTATATAAAATTTT
* *
2516933 TATTTTATAATTATATATAATTTAAATTAATTGTAAATTGTTTTTTTAAATTAAA
131 TATTTTATAATTATATATAATTTAAATTAATTATAAACT-TTTTTTTAAATTAAA
2516988 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
* *
2517053 TTTAAGATCCAATAACTTTTAAACCTAAAACAATATTAATTAATTAAAAAAATTATCT-GAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAAACAATATTAATTAATT-AAAAAATTATATAAAATTT
* *
2517117 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAA
130 TTATTTTATAATTATATATAATTTAAATTAATTATAAACTTTTTTTTAAATTAAA
* * *
2517172 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
2517192 AATTAGAAAA
Statistics
Matches: 190, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
183 8 0.04
184 23 0.12
185 148 0.78
186 11 0.06
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAAACAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATAATTTAAATTAATTATAAACTTTTTTTTAAATTAAA
Found at i:2520052 original size:18 final size:17
Alignment explanation
Indices: 2520025--2520078 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 17
2520015 AATGGTAGTA
*
2520025 GTATCGATACTAGTAAGG
1 GTATCAATACTA-TAAGG
*
2520043 GTATCAATACTAATAGAAAG
1 GTATCAATACT-AT--AAGG
2520063 GTATCAATACTATAAG
1 GTATCAATACTATAAG
2520079 TAAAGATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.07
18 11 0.37
19 3 0.10
20 14 0.47
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (17 bp):
GTATCAATACTATAAGG
Found at i:2520083 original size:21 final size:21
Alignment explanation
Indices: 2520035--2520083 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
2520025 GTATCGATAC
*
2520035 TAGTAAGGGTATCAATACTAA
1 TAGTAAAGGTATCAATACTAA
2520056 TAG-AAAGGTATCAATACT-A
1 TAGTAAAGGTATCAATACTAA
2520075 TAAGTAAAG
1 T-AGTAAAG
2520084 ATGAATTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 16 0.64
21 7 0.28
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (21 bp):
TAGTAAAGGTATCAATACTAA
Found at i:2520903 original size:21 final size:24
Alignment explanation
Indices: 2520847--2520903 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
2520837 TCGTGGGTTT
*
2520847 TATGTGGTCA-TTCGAGACAAAAC
1 TATGTGGTCACTTCAAGACAAAAC
2520870 TATGTGGTC-CTTCAAGAC-AAA-
1 TATGTGGTCACTTCAAGACAAAAC
2520891 TATGTGG-CACTTC
1 TATGTGGTCACTTC
2520904 GGTGCAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 1 0.03
21 11 0.35
22 3 0.10
23 16 0.52
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (24 bp):
TATGTGGTCACTTCAAGACAAAAC
Found at i:2523207 original size:2 final size:2
Alignment explanation
Indices: 2523200--2523245 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2523190 GTAATATCAA
2523200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2523242 AT AT
1 AT AT
2523246 TAAGATAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2533884 original size:40 final size:39
Alignment explanation
Indices: 2533840--2534041 Score: 110
Period size: 38 Copynumber: 4.9 Consensus size: 39
2533830 ATATTTTATA
2533840 TTTAATTTTATATTATAGATATTAATTTTAATATTAATTT
1 TTTAATTTTATATTA-AGATATTAATTTTAATATTAATTT
* *
2533880 TTTAA--ATAAATTAA-ATATTAATGTTTTAATATTATATTAT
1 TTTAATTTTATATTAAGATATTAA--TTTTAATATTA-ATT-T
* ** * *
2533920 AGATATTAATTCTAATATTAATTTTTTAAATAAATTAAATATTAATTT
1 ---T-TTAATT-TTATATTAAGATATT-AAT---TTTAATATTAATTT
* *
2533968 TTTAATATTATATTGTAGATATTAATTTTAATATTAATTT
1 TTTAATTTTATATT-AAGATATTAATTTTAATATTAATTT
* *
2534008 TTTAA--ATAAATTAA-ATATTAATTTCTTAATATTA
1 TTTAATTTTATATTAAGATATTAA-TT-TTAATATTA
2534042 TATTATAGAT
Statistics
Matches: 125, Mismatches: 18, Indels: 40
0.68 0.10 0.22
Matches are distributed among these distances:
36 14 0.11
37 4 0.03
38 31 0.25
39 3 0.02
40 24 0.19
43 10 0.08
44 13 0.10
45 1 0.01
47 7 0.06
48 4 0.03
49 5 0.04
50 9 0.07
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (39 bp):
TTTAATTTTATATTAAGATATTAATTTTAATATTAATTT
Found at i:2533929 original size:64 final size:63
Alignment explanation
Indices: 2533840--2534062 Score: 383
Period size: 64 Copynumber: 3.5 Consensus size: 63
2533830 ATATTTTATA
*
2533840 TTTAATTTTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATGT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAAT-T
*
2533904 TTTAATATTATATTATAGATATTAATTCTAATATTAATTTTTTAAATAAATTAAATATTAATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAA-TT
*
2533968 TTTAATATTATATTGTAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
2534031 TCTTAATATTATATTATAGATATTTAATTTTA
1 T-TTAATATTATATTATAGATA-TTAATTTTA
2534063 TATCATATAA
Statistics
Matches: 151, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
63 3 0.02
64 138 0.91
65 10 0.07
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (63 bp):
TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
Found at i:2534117 original size:20 final size:19
Alignment explanation
Indices: 2534057--2534118 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
2534047 TAGATATTTA
*
2534057 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
2534076 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
2534094 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
2534114 ATTTT
1 ATTTT
2534119 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:2534586 original size:31 final size:31
Alignment explanation
Indices: 2534551--2534609 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2534541 AGTTGTATGG
* *
2534551 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
2534582 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
2534610 CTTTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:2541161 original size:32 final size:32
Alignment explanation
Indices: 2541120--2541188 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
2541110 GTTTTTGCTT
* * ** *
2541120 AGATAAAAGGAGTTTGTTGTGTAAGAGATTGA
1 AGATGAAAGGAGTGTGTCATGTAAGAGATTAA
2541152 AGATGAAAGGAGTGTGTCATGTAAGAGATTAA
1 AGATGAAAGGAGTGTGTCATGTAAGAGATTAA
2541184 AGATG
1 AGATG
2541189 TGTGCCAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.39, C:0.01, G:0.32, T:0.28
Consensus pattern (32 bp):
AGATGAAAGGAGTGTGTCATGTAAGAGATTAA
Found at i:2548243 original size:66 final size:65
Alignment explanation
Indices: 2548149--2548275 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 65
2548139 TACCCATTCA
* **
2548149 ATAGGTACCGATACCCTCTCAAACGAAAAGAATCACAGAATGTAATGAGGGTACCGATACCCCCA
1 ATAGGTACCGATACCCTCTCAAACGAAAAG-ATAACAGAATACAATGAGGGTACCGATACCCCCA
2548214 G
65 G
* ** * * **
2548215 ATAGGTACTGATACCCTCTTGAATGAAAAGTTAACAGAATACGGTGAGGGTACCGATACCC
1 ATAGGTACCGATACCCTCTCAAACGAAAAGATAACAGAATACAATGAGGGTACCGATACCC
2548276 TAAGGAGGGT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
65 25 0.49
66 26 0.51
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (65 bp):
ATAGGTACCGATACCCTCTCAAACGAAAAGATAACAGAATACAATGAGGGTACCGATACCCCCAG
Found at i:2548864 original size:21 final size:21
Alignment explanation
Indices: 2548838--2548898 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
2548828 CGAGGGTTTT
2548838 ATAGGTTCTTCGGGACAACTC
1 ATAGGTTCTTCGGGACAACTC
*
2548859 ATAGGTCCTTCGGGACATACTC
1 ATAGGTTCTTCGGGACA-ACTC
*
2548881 ACAGG-TCATTCGGGACAA
1 ATAGGTTC-TTCGGGACAA
2548899 ATTTCATATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (21 bp):
ATAGGTTCTTCGGGACAACTC
Found at i:2548886 original size:22 final size:21
Alignment explanation
Indices: 2548840--2548898 Score: 82
Period size: 22 Copynumber: 2.8 Consensus size: 21
2548830 AGGGTTTTAT
* *
2548840 AGGTTCTTCGGGACAACTCAT
1 AGGTCCTTCGGGACAACTCAC
2548861 AGGTCCTTCGGGACATACTCAC
1 AGGTCCTTCGGGACA-ACTCAC
*
2548883 AGGTCATTCGGGACAA
1 AGGTCCTTCGGGACAA
2548899 ATTTCATATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 15 0.44
22 19 0.56
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (21 bp):
AGGTCCTTCGGGACAACTCAC
Found at i:2549724 original size:16 final size:15
Alignment explanation
Indices: 2549686--2549724 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2549676 GAAGGCGCAT
*
2549686 TTTAAGGGGAGCGCG
1 TTTAAGGGGAGCGCC
2549701 TTTCAAGGGGAGCGCC
1 TTT-AAGGGGAGCGCC
2549717 TTCTAAGG
1 TT-TAAGG
2549725 TTTTCTTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 17 0.81
17 1 0.05
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.23
Consensus pattern (15 bp):
TTTAAGGGGAGCGCC
Found at i:2550471 original size:13 final size:14
Alignment explanation
Indices: 2550446--2550480 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
2550436 AAAAGTATAT
2550446 AATCTTAATTAATA
1 AATCTTAATTAATA
2550460 AATCTTAA-TAATA
1 AATCTTAATTAATA
*
2550473 AATATTAA
1 AATCTTAA
2550481 CCTAATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (14 bp):
AATCTTAATTAATA
Found at i:2550929 original size:24 final size:23
Alignment explanation
Indices: 2550878--2550929 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
2550868 ATAAAATATT
* *
2550878 ATTTTAATTTAATTAATTAATTA
1 ATTTTAATTGAATTAATAAATTA
2550901 ATTTTGAATTGAATTAA-AAATTA
1 ATTTT-AATTGAATTAATAAATTA
2550924 ACTTTT
1 A-TTTT
2550930 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTTTAATTGAATTAATAAATTA
Found at i:2552470 original size:35 final size:34
Alignment explanation
Indices: 2552431--2552511 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 34
2552421 TTACATTCTA
*
2552431 AACCCTAAATTCCAAAATGCTTCAATTACATGCCC
1 AACCC-AAATTCCAAAATACTTCAATTACATGCCC
*
2552466 AACCCCAAATTCCAAAATACTTTAATTACATGCCC
1 AA-CCCAAATTCCAAAATACTTCAATTACATGCCC
2552501 AACCCAAATTC
1 AACCCAAATTC
2552512 ATAGTCCATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 9 0.21
35 31 0.72
36 3 0.07
ACGTcount: A:0.40, C:0.32, G:0.04, T:0.25
Consensus pattern (34 bp):
AACCCAAATTCCAAAATACTTCAATTACATGCCC
Found at i:2556169 original size:2 final size:2
Alignment explanation
Indices: 2556160--2556193 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2556150 TCTCTAGTCC
2556160 TA TA -A TA TA 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 TA TA TA TA TA T
2556194 CCATTTTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2557506 original size:183 final size:183
Alignment explanation
Indices: 2557198--2557683 Score: 688
Period size: 183 Copynumber: 2.7 Consensus size: 183
2557188 TCGTCGGTAC
* * * * * * *
2557198 GTATCGATACAATTA-AAATATGTATCGACACATAACAATATATCAGGTAAAAATATGAGAAAAT
1 GTATCGATA-ATTTATAAATATGTATCGATACACAACAATATAACATGTAAAAATATGACAAAAC
* * *
2557262 CGGGTTCA-ATATGACAAAACTGGTAAAGCGCTATCGGATATGTTGAAAGTATCGATTTCATTTA
65 CGGTTTCATA-ATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTTCATTTA
* * ** *
2557326 AATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGTAGTGATAGCGCCTAAAAA
129 AATAAGTATCAACACTTTTGAAATTTAAAACAAAAACAGTAATAGCGCCTAAAAA
*
2557381 GTATCGATAATTTATAAATATGTATCGATACACAACAATATAACATGTAAAAATATGATAAAACC
1 GTATCGATAATTTATAAATATGTATCGATACACAACAATATAACATGTAAAAATATGACAAAACC
*
2557446 GGTTTCATAATGATAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTTCATTTAAA
66 GGTTTCATAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTTCATTTAAA
*
2557511 TAAGTATTAACACTTTTGAAATTTAAAACAAAAACAGTAATAGCGCCTAAAAA
131 TAAGTATCAACACTTTTGAAATTTAAAACAAAAACAGTAATAGCGCCTAAAAA
* * * *
2557564 GTATAGATATTTTATAAACATGTATCAATACACAACAATATAACATGTAAAAATATGACAAAACC
1 GTATCGATAATTTATAAATATGTATCGATACACAACAATATAACATGTAAAAATATGACAAAACC
* * * ** *
2557629 GGTTTCATTATGACAAAATCGGTAAAGCGTTACTAGATATATTGAAAGTATCGAT
66 GGTTTCATAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGAT
2557684 ACTTTTGGAA
Statistics
Matches: 272, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
182 4 0.01
183 267 0.98
184 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (183 bp):
GTATCGATAATTTATAAATATGTATCGATACACAACAATATAACATGTAAAAATATGACAAAACC
GGTTTCATAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTTCATTTAAA
TAAGTATCAACACTTTTGAAATTTAAAACAAAAACAGTAATAGCGCCTAAAAA
Found at i:2557790 original size:155 final size:157
Alignment explanation
Indices: 2557522--2557811 Score: 406
Period size: 155 Copynumber: 1.8 Consensus size: 157
2557512 AAGTATTAAC
* * *
2557522 ACTTTTGAAATTTAAAACAAAAACAGTAATAGCGCCTAAAAAGTATAGATATTTTATAAACATGT
1 ACTTTTGAAATTTAAAACAAAAACAGTAATAGCGCCTAAAAAGTATAGATACTTTATAAAAATAT
* * *
2557587 ATCAATACACAACAATATAACATGTAAAAATATGACAAAACCGGTTTCATTATGACAAAATCGGT
66 ATCAAT--AC-AC-A-ATAACAGGTAAAAATATGACAAAACCGATTTCATTATGACAAAACCGGT
2557652 AAAGCGTTACTAGATATATTGAAAGTATCGAT
126 AAAGCGTTACTAGATATATTGAAAGTATCGAT
* * * *
2557684 ACTTTTGGAATTTAAAAGAAAAGCAGTAATAGCGCCTATAAAAGTATCGATACTTTATAAAAATA
1 ACTTTTGAAATTTAAAACAAAAACAGTAATAGCGCCTA-AAAAGTATAGATACTTTATAAAAATA
*
2557749 TATCGAT-C-C-ATAACAGGTAAAAATATGACAAAACCGATTTCATTATGACAAAACCGGTAAAG
65 TATCAATACACAATAACAGGTAAAAATATGACAAAACCGATTTCATTATGACAAAACCGGTAAAG
2557811 C
130 C
2557812 ACTACCGGAT
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
155 51 0.44
158 1 0.01
160 1 0.01
162 35 0.30
163 28 0.24
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (157 bp):
ACTTTTGAAATTTAAAACAAAAACAGTAATAGCGCCTAAAAAGTATAGATACTTTATAAAAATAT
ATCAATACACAATAACAGGTAAAAATATGACAAAACCGATTTCATTATGACAAAACCGGTAAAGC
GTTACTAGATATATTGAAAGTATCGAT
Found at i:2565318 original size:11 final size:11
Alignment explanation
Indices: 2565302--2565362 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
2565292 AAAATTACAT
2565302 TATTAAAAATA
1 TATTAAAAATA
2565313 TATTAAAAATA
1 TATTAAAAATA
* ***
2565324 CATTATTGATA
1 TATTAAAAATA
2565335 -ATTATAAAAT-
1 TATTA-AAAATA
2565345 T-TTAAAAATA
1 TATTAAAAATA
2565355 TATTAAAA
1 TATTAAAA
2565363 TTCTATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
9 5 0.13
10 8 0.21
11 26 0.67
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:2565865 original size:7 final size:7
Alignment explanation
Indices: 2565853--2565898 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
2565843 ATATTTGTAA
2565853 TAAACCC
1 TAAACCC
2565860 TAAACCC
1 TAAACCC
* *
2565867 TAAAACA
1 TAAACCC
*
2565874 TAAACCT
1 TAAACCC
*
2565881 TAAACTC
1 TAAACCC
2565888 TAAACCC
1 TAAACCC
2565895 TAAA
1 TAAA
2565899 TCAGATTATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:2565898 original size:21 final size:21
Alignment explanation
Indices: 2565852--2565891 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2565842 TATATTTGTA
2565852 ATAAACCCTAAACCCTAAAAC
1 ATAAACCCTAAACCCTAAAAC
* *
2565873 ATAAACCTTAAACTCTAAA
1 ATAAACCCTAAACCCTAAA
2565892 CCCTAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAACCCTAAACCCTAAAAC
Found at i:2568114 original size:200 final size:200
Alignment explanation
Indices: 2567771--2571509 Score: 5238
Period size: 200 Copynumber: 18.7 Consensus size: 200
2567761 GGTGTACGCA
* * ** * *
2567771 TTATTGTAAGTATCAATCCCAAAAATATTAAAATCGATAATTATAATGTAATAAGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * * * * *
2567836 ATGCAACAGGTAAAAATATAACGATTTTATGAGAGAATAGGTAAACATATTGTATCCATATTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * *
2567901 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCTAACAAGGTGCGCGCATAAAGTGTCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2567966 TACAT
196 TACAT
* * *
2567971 TTATTGTAAGTATCGATCCTAAAAATATCGAAACCGATAATTATAATGTGATAGGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * * **
2568036 ATGTAACAGATAGAAATATACCAGTTTAATTAGAGAATAGGTAAATATATTGTATAAATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * * * *
2568101 TTAAATTGTGTCGATACTTTTAGTCCATAATGATTGCCCATA-GAGTTGCACGTATAAAGTGTCG
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCA-ACGAGGTGCACGCATAAAGTGTCG
2568165 ATACAT
195 ATACAT
* *
2568171 TTATTGTAAGTATTGATCCAAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * *
2568236 ATGTAACCGGTAGAAATATACTGGTTTAATTAGAGAATAAGTCAACATAATGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* *
2568301 TTAAATTGTGTTGATACTTTTGGTTCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2568366 TACAT
196 TACAT
* *
2568371 TTATTGTAAGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTTAAA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * *
2568436 ATATAACTGGTAAAAATATACCGGTTTTATGAGAGAATAGGT-AACATATTGTATCGATACGTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * * *
2568500 TTAAATTGTGTCAATACTTTTGGTCCAGAATTAATGCCCAACAAGGTGCACGTATAAAGTGTCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2568565 TACAT
196 TACAT
* ***
2568570 TTATTGTAAGTATCGATTCCAAAAACATCGAAATTAATAATTATAATGTAATAGGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * *
2568635 ATGTAATCGGTAGAAATATACCAGTTTAATTAGAGAATAGGTCAACATAATGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* ** * * *
2568700 TAAAAATTGTGTTTATACTTTTAGTCCAGAATAAATGCCCAACGAGGTGCACGCATAAAGTATCG
131 T-TAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCG
2568765 ATACAT
195 ATACAT
* *
2568771 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGATAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * *
2568836 ATGTAACCGGTAAAAATATACCGGTTTTATGAGAGAATATGTAAACATATTGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * * * *
2568901 TTAAATTGTGTCGATACTTTTTGTCCAGAATGAATACCCAACGAGATGCACTCATAAAGTGTTGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2568966 TACAT
196 TACAT
** * * * * *
2568971 TTATTGTAAGTATTAATCCGAAAAATATTGAAACCGGTAATTATAATGTAATAGGTAAATTTATA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * *
2569036 ATGTAACCGGTAAAAATATACCGGTTTTATGAGAGAATAGGTAAACATGTTGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * * *
2569101 TTAAATTGTGTTGATATTTTTGGTCCAGAATGAATTCCCAACGAGGTGCACGCATAAAGTGTTGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
*
2569166 TATAT
196 TACAT
** * * * *
2569171 TTATTGTAAGTATTAATCCCAAAAATATCAAAATCGATAATTATAATGTAATAAGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * *
2569236 ATGCAACAGGTAAAAATATACCGATTTTATGAGAGAATAGGTAAACATATTGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * * * *
2569301 TTAAATTGTGTCGATACTTTTGGTCCAAAATGAATGCCTAACAAGGTGCACGTATAAAGTGTTGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2569366 TACAT
196 TACAT
* * *
2569371 TTATTGTAAGTATCGATCCTAAAAATATCGAAACCGATAATTATAATGTGATAGGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * * **
2569436 ATGTAACCGATAGAAATATACCAGTTTAATTAGAAAATAGGTAAATATATTGTATAAATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATAC-TTT
*
2569501 TTTAAATTGTGTCGATACTTTTGGTCCAAAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCG
130 TTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCG
2569566 ATACAT
195 ATACAT
* *
2569572 TTATTGAAAGTATCAATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * ** *
2569637 ATGTAACCGATAGAAATATACCAATTTAATTAGAAAATAGGTAAACATATTGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
*
2569702 TAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2569767 TACAT
196 TACAT
* *
2569772 TTATTGTAAGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAAATTTAAA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * * **
2569837 ATGTAACCAGTAAAAATATATCGGTTTAATTAGAGAATATGTCAACATAATGTATTAATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * * *
2569902 TAAAATTGTGTCGATACTTTTGATCCAGAATGAATGCCCAACGAGATGCATGCATAAAGTGTCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2569967 TACAT
196 TACAT
* * * *
2569972 TTATTGTAAGTATCGATTCCAAAAATATCGAAATCGATAATTATAATGTAATAGGTAAACTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * *
2570037 ATGTAACCGGTAAAAATATACCGGTTTTATGAGAGAATCGGTAAACATATTGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * *
2570102 TTAAATTGTGTTGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGGCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2570167 TACAT
196 TACAT
* * * *
2570172 TTATTGTAAGTATCGATTCCAAAAACATTGAAATCGATAATTATAATGTAATAGTTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * ** * * *
2570237 ATGTAATCGGTAGAAATATACCGGTTTAATTAGAGAATAAATCAACATAATGTATCGATACGTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * ** *
2570302 TTAAATTATGTCGATACTTTTTGTCCAGAATGAATATCGAACGAGGTGCACGCATAAAGTGTCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2570367 TACAT
196 TACAT
* * * *
2570372 TTATTGAAAGTATCGATCACTAAAATATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * *
2570437 ATGTAACCGGTAAAAATATACCGATTTTATGAGAGAATATGTAAACATATTGTATCGATA-TCTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACT-TT
* * * *
2570501 TTTAAATTGTATCGATACTTTTGGCCCAAAATGAATGTCCAACGAGGTGCACGCATAAAGTGTCG
130 TTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCG
2570566 ATACAT
195 ATACAT
* * *
2570572 TTATTGTAAGTATCGGTCCCAAAAACATCGAAACCGATAATTGTAATGTAATAGGTAAATCTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * ** * *
2570637 ATGTAACTGGTATAAATATATCATTTTAATTAAAGAATAGGTAAACATATTGTATCAATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * * *
2570702 TTAAATTATGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACACATAAAGTGTCAA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2570767 TACAT
196 TACAT
* **
2570772 TTATTGTAAATATCGATCCCAAAAACATCGAAATTGATAATTATAATGTAATAGGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
** * * *
2570837 ATGTAACCGGTAAAAATATATTGGTTTAATTAGAGAATATGTCAACATAATGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
** * *
2570902 AAAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGAACGTATAAAGTGTCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2570967 TACAT
196 TACAT
* * * *
2570972 TTATTATAAGTATCGATCCCAAAAATATCAAAACCGATAATTATAATGTAATAGGTGAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
** * * *
2571037 ATGTAATAGGTAAAAATATATCGGTTTTATGAGAGAATAGGTAAACATATTGTAAT-GATACTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGT-ATCGATACTTT
* * * * *
2571101 TTAAAATTGTGTCGATACTTTTGGTCCATAATGAATGTCCAACGAGGTGCACACATAAAGCGTCG
130 TTTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCG
2571166 ATACAT
195 ATACAT
* * *
2571172 TTATTATAAGTATCGATCCGAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACG
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * * *
2571237 ATGTAATCGATAGAAATATACCGGTTTAATTAGAGAATATGTCAACATAATGTATCGATACTTTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
* * * *
2571302 TAAAATTGTGTTGATACTTTTGGTCCAAAATGAATGCCCAACGAGGTGCACACATAAAGTGTCGA
131 TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
2571367 TACAT
196 TACAT
* * * *
2571372 TTATTATAAGTTTCGATCCCAAAAACATCGAAACCAATAATTATAAAGTAATAGGTAAATTTACA
1 TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * *
2571437 ATGTAACCGGTAAAAATATATCGATTTTATGAGAGAATAGGTAAACATATTGTATCGTTAC-TTT
66 ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
2571501 TTAAATTGT
131 TTAAATTGT
2571510 ATAGTTATGT
Statistics
Matches: 3150, Mismatches: 380, Indels: 19
0.89 0.11 0.01
Matches are distributed among these distances:
199 192 0.06
200 2589 0.82
201 369 0.12
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (200 bp):
TTATTGTAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
ATGTAACCGGTAAAAATATACCGGTTTAATTAGAGAATAGGTAAACATATTGTATCGATACTTTT
TTAAATTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA
TACAT
Found at i:2569047 original size:20 final size:19
Alignment explanation
Indices: 2569002--2569049 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
2568992 AAAATATTGA
2569002 AACCGGT-AATTATAATGT
1 AACCGGTAAATTATAATGT
**
2569020 AATAGGTAAATTTATAATGT
1 AACCGGTAAA-TTATAATGT
2569040 AACCGGTAAA
1 AACCGGTAAA
2569050 AATATACCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 5 0.21
19 2 0.08
20 17 0.71
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (19 bp):
AACCGGTAAATTATAATGT
Found at i:2569055 original size:20 final size:20
Alignment explanation
Indices: 2569012--2569055 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2569002 AACCGGTAAT
* **
2569012 TATAATGTAATAGGTAAATT
1 TATAATGTAACAGGTAAAAA
*
2569032 TATAATGTAACCGGTAAAAA
1 TATAATGTAACAGGTAAAAA
2569052 TATA
1 TATA
2569056 CCGGTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (20 bp):
TATAATGTAACAGGTAAAAA
Found at i:2571833 original size:15 final size:16
Alignment explanation
Indices: 2571812--2571858 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
2571802 AGGCGCGGTC
2571812 CTTCTCAACCAAGCTT
1 CTTCTCAACCAAGCTT
* *
2571828 -TTCTCAACAAAAACCTT
1 CTTCTCAAC--CAAGCTT
2571845 CTTCTCAACCAAGC
1 CTTCTCAACCAAGC
2571859 GCTTCTTCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
15 8 0.33
16 3 0.12
17 5 0.21
18 8 0.33
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (16 bp):
CTTCTCAACCAAGCTT
Found at i:2571863 original size:18 final size:17
Alignment explanation
Indices: 2571812--2571867 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
2571802 AGGCGCGGTC
2571812 CTTCTCAACCAA-GCTT
1 CTTCTCAACCAACGCTT
*
2571828 -TTCTCAACAAAAAC-CTT
1 CTTCTCAAC--CAACGCTT
2571845 CTTCTCAACCAAGCGCTT
1 CTTCTCAACCAA-CGCTT
2571863 CTTCT
1 CTTCT
2571868 GAACAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
15 8 0.25
16 2 0.06
17 6 0.19
18 16 0.50
ACGTcount: A:0.27, C:0.36, G:0.05, T:0.32
Consensus pattern (17 bp):
CTTCTCAACCAACGCTT
Found at i:2574459 original size:24 final size:24
Alignment explanation
Indices: 2574407--2574459 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2574397 TTTCATATTT
* *
2574407 AATTGGAGTTTGAATTTAAATTTA
1 AATTTGAGTTTGAATTTAAATATA
*
2574431 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
2574455 AATTT
1 AATTT
2574460 CGGCTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:2576147 original size:20 final size:20
Alignment explanation
Indices: 2576102--2576147 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2576092 GTTAATATAA
* *
2576102 AGTATCGATACTTTTTTTAT
1 AGTATCGATACTTTTTGTAC
*
2576122 ATGTATCGATACTTTTTGTCC
1 A-GTATCGATACTTTTTGTAC
2576143 AGTAT
1 AGTAT
2576148 GCTTCTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (20 bp):
AGTATCGATACTTTTTGTAC
Found at i:2576312 original size:22 final size:21
Alignment explanation
Indices: 2576282--2576330 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2576272 GGTAACATAA
* *
2576282 TTTTATATAAAGTATCGATACT
1 TTTTGTAT-AAGTATCAATACT
*
2576304 TTTTGTATATGTATCAATACT
1 TTTTGTATAAGTATCAATACT
2576325 TTTTGT
1 TTTTGT
2576331 CCAGTATGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.53
Consensus pattern (21 bp):
TTTTGTATAAGTATCAATACT
Found at i:2576337 original size:20 final size:20
Alignment explanation
Indices: 2576292--2576337 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2576282 TTTTATATAA
* *
2576292 AGTATCGATACTTTTTGTAT
1 AGTATCAATACTTTTTGTAC
*
2576312 ATGTATCAATACTTTTTGTCC
1 A-GTATCAATACTTTTTGTAC
2576333 AGTAT
1 AGTAT
2576338 GCTTCTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (20 bp):
AGTATCAATACTTTTTGTAC
Found at i:2576392 original size:190 final size:190
Alignment explanation
Indices: 2576069--2576415 Score: 613
Period size: 190 Copynumber: 1.8 Consensus size: 190
2576059 ATGTAAAAAT
* *
2576069 ATATCGGTTTAATGGTAACATAAGTTAATATAAAGTATCGATACTTTTTTTATATGTATCGATAC
1 ATATCGGTTTAATGGTAACATAAGTTAATATAAAGTATCGATACTTTTTGTATATGTATCAATAC
*
2576134 TTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGTATAGATACCTATAAAAATGTA
66 TTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGAATAGATACCTATAAAAATGTA
*
2576199 TCGATGCATAATAATATAAAAGGTTAACCGGTTTCAATATACAATGTAATCGGTCAATAA
131 TCGATACATAATAATATAAAAGGTTAACCGGTTTCAATATACAATGTAATCGGTCAATAA
* *
2576259 ATATCGGTTTAATGGTAACATAATTTTATATAAAGTATCGATACTTTTTGTATATGTATCAATAC
1 ATATCGGTTTAATGGTAACATAAGTTAATATAAAGTATCGATACTTTTTGTATATGTATCAATAC
* *
2576324 TTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGAATCGATACGTATAAAAATGTA
66 TTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGAATAGATACCTATAAAAATGTA
*
2576389 TCGATACATAATGATATAAAAGGTTAA
131 TCGATACATAATAATATAAAAGGTTAA
2576416 AAATTGATAA
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
190 148 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (190 bp):
ATATCGGTTTAATGGTAACATAAGTTAATATAAAGTATCGATACTTTTTGTATATGTATCAATAC
TTTTTGTCCAGTATGCTTCTCAAAACTACATGCACGTAAGAAGAATAGATACCTATAAAAATGTA
TCGATACATAATAATATAAAAGGTTAACCGGTTTCAATATACAATGTAATCGGTCAATAA
Found at i:2578299 original size:2 final size:2
Alignment explanation
Indices: 2578292--2578325 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2578282 AAATGTATCG
2578292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2578326 TCCATACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2581011 original size:2 final size:2
Alignment explanation
Indices: 2581006--2581037 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2580996 AAAATACAAC
*
2581006 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2581038 TGTATATGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2588300 original size:19 final size:20
Alignment explanation
Indices: 2588235--2588310 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 20
2588225 ATATGCCTTA
**
2588235 GGGTATCGGCACCATC-TGAG
1 GGGTATCGATACCATCAT-AG
2588255 GGGTATCGATACCATTGCATAG
1 GGGTATCGATACCA-T-CATAG
2588277 GGGTATCGATACC-T-ATAGG
1 GGGTATCGATACCATCATA-G
*
2588296 GGGTATCGGTACCAT
1 GGGTATCGATACCAT
2588311 TTGAGCATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
18 3 0.06
19 13 0.27
20 14 0.29
21 1 0.02
22 16 0.33
23 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCATCATAG
Found at i:2591929 original size:13 final size:13
Alignment explanation
Indices: 2591911--2591935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2591901 ATACATACTA
2591911 TTATTTTTCAAAC
1 TTATTTTTCAAAC
2591924 TTATTTTTCAAA
1 TTATTTTTCAAA
2591936 ATAGTTTTCA
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:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATTTTTCAAAC
Found at i:2593387 original size:16 final size:16
Alignment explanation
Indices: 2593342--2593390 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
2593332 ATTTTGATGG
2593342 ATTTCTGTGTTTTGGAT
1 ATTT-TGTGTTTTGGAT
*
2593359 ATTTGGT-TGTTTGGAT
1 ATTTTGTGT-TTTGGAT
*
2593375 TTTTTGTGTTTTGGAT
1 ATTTTGTGTTTTGGAT
2593391 GTTTAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.78
17 5 0.19
ACGTcount: A:0.10, C:0.02, G:0.27, T:0.61
Consensus pattern (16 bp):
ATTTTGTGTTTTGGAT
Found at i:2598735 original size:24 final size:24
Alignment explanation
Indices: 2598706--2598762 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
2598696 ATTTTTTAAT
2598706 TATTTAAATTTAAATTTATAATCA
1 TATTTAAATTTAAATTTATAATCA
2598730 TATTTAAATTTAAATTTATAATCA
1 TATTTAAATTTAAATTTATAATCA
2598754 TATTTAAAT
1 TATTTAAAT
2598763 ATTTTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTTAAATTTAAATTTATAATCA
Found at i:2602552 original size:21 final size:21
Alignment explanation
Indices: 2602526--2602565 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2602516 AAGAACCAAA
*
2602526 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2602547 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2602566 TCAAAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2606415 original size:22 final size:21
Alignment explanation
Indices: 2606373--2606412 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2606363 GAGTTTATTT
*
2606373 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2606394 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2606413 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2613940 original size:21 final size:22
Alignment explanation
Indices: 2613903--2613951 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
2613893 GTCAAATTAA
* *
2613903 CATTAAA-CAAAATAAAAAAAT
1 CATTAAATGAAAAGAAAAAAAT
*
2613924 -ATTAAATGAAAAGAAAATAAT
1 CATTAAATGAAAAGAAAAAAAT
2613945 CATTAAA
1 CATTAAA
2613952 AAATGATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.26
21 11 0.48
22 6 0.26
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.22
Consensus pattern (22 bp):
CATTAAATGAAAAGAAAAAAAT
Found at i:2615041 original size:23 final size:24
Alignment explanation
Indices: 2615015--2615076 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
2615005 GATATATTCT
*
2615015 GAAGGACTGCGTAGAAATGTTC-C
1 GAAGGACCGCGTAGAAATGTTCAC
* * *
2615038 GAAGGACCACGTAG-ATTTTTCAC
1 GAAGGACCGCGTAGAAATGTTCAC
2615061 GAAGGACCGCGTAGAA
1 GAAGGACCGCGTAGAA
2615077 CCCTCGACTC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 5 0.16
23 26 0.81
24 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.19
Consensus pattern (24 bp):
GAAGGACCGCGTAGAAATGTTCAC
Found at i:2615047 original size:46 final size:46
Alignment explanation
Indices: 2614980--2615076 Score: 117
Period size: 46 Copynumber: 2.1 Consensus size: 46
2614970 AACGTGTACA
* *
2614980 TAGAAATGTCCCGACAGACCACATAGATATATTC-TGAAGGACTGCG
1 TAGAAATGTCCCGACAGACCACATAGAT-TATTCACGAAGGACCGCG
* * *
2615026 TAGAAATGTTCCGA-AGGACCACGTAGATTTTTCACGAAGGACCGCG
1 TAGAAATGTCCCGACA-GACCACATAGATTATTCACGAAGGACCGCG
2615072 TAGAA
1 TAGAA
2615077 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
45 5 0.11
46 39 0.89
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (46 bp):
TAGAAATGTCCCGACAGACCACATAGATTATTCACGAAGGACCGCG
Found at i:2615202 original size:16 final size:17
Alignment explanation
Indices: 2615159--2615208 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 17
2615149 GTTCACATAT
*
2615159 TCATATAATCACGTAGA
1 TCATATAATCACATAGA
2615176 TCA-AT-ATCACATAGA
1 TCATATAATCACATAGA
2615191 -CATATAATCACATAGA
1 TCATATAATCACATAGA
2615207 TC
1 TC
2615209 CTTGTCACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 2 0.07
15 11 0.38
16 12 0.41
17 4 0.14
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (17 bp):
TCATATAATCACATAGA
Found at i:2615240 original size:45 final size:45
Alignment explanation
Indices: 2615191--2615301 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 45
2615181 ATCACATAGA
** * *
2615191 CATATAATCACATAGATCCTTGTCACATAGCTTATATCAAATGTT
1 CATATAATCACATAGATCAATGCCACATAGCTTATAACAAATGTT
* * * *
2615236 CATATAATCACATTGGTCAATGCCACATAGCTTATAACACATTTT
1 CATATAATCACATAGATCAATGCCACATAGCTTATAACAAATGTT
* *
2615281 CATGTAATCACATAGGTCAAT
1 CATATAATCACATAGATCAAT
2615302 ATCATATAGC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (45 bp):
CATATAATCACATAGATCAATGCCACATAGCTTATAACAAATGTT
Found at i:2617606 original size:24 final size:23
Alignment explanation
Indices: 2617574--2617636 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
2617564 ATGATGGAAA
2617574 ATAATAATATAATATAGTAAAT-AT
1 ATAATAATATAATA-A-TAAATAAT
2617598 ATAATAATA-AATAATAAATAAT
1 ATAATAATATAATAATAAATAAT
2617620 AT-ATATATATATATAAT
1 ATAATA-ATATA-ATAAT
2617637 GTGTATACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 8 0.23
22 8 0.23
23 5 0.14
24 14 0.40
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATAATAATATAATAATAAATAAT
Found at i:2617608 original size:14 final size:14
Alignment explanation
Indices: 2617573--2617628 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
2617563 AATGATGGAA
2617573 AATAAT-AATATA-
1 AATAATAAATATAT
*
2617585 ATATAGTAAATATAT
1 A-ATAATAAATATAT
2617600 AATAATAAATA-AT
1 AATAATAAATATAT
*
2617613 AAATAATATATATAT
1 -AATAATAAATATAT
2617628 A
1 A
2617629 TATATAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 1 0.03
13 6 0.17
14 26 0.72
15 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
AATAATAAATATAT
Found at i:2617610 original size:7 final size:7
Alignment explanation
Indices: 2617572--2617620 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
2617562 AAATGATGGA
2617572 AAATAAT
1 AAATAAT
2617579 -AAT-AT
1 AAATAAT
*
2617584 AATATAGT
1 AA-ATAAT
2617592 AAAT-AT
1 AAATAAT
2617598 ATAATAAT
1 A-AATAAT
2617606 AAATAAT
1 AAATAAT
2617613 AAATAAT
1 AAATAAT
2617620 A
1 A
2617621 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
5 2 0.06
6 6 0.17
7 21 0.60
8 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (7 bp):
AAATAAT
Found at i:2617632 original size:34 final size:34
Alignment explanation
Indices: 2617572--2617636 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
2617562 AAATGATGGA
2617572 AAATAATAATATAATATAGTAAATATATAATAAT
1 AAATAATAATATAATATAGTAAATATATAATAAT
*
2617606 AAATAATAA-ATAATATA-TATATATAT-ATAAT
1 AAATAATAATATAATATAGTAAATATATAATAAT
2617637 GTGTATACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 8 0.27
33 8 0.27
34 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (34 bp):
AAATAATAATATAATATAGTAAATATATAATAAT
Found at i:2617733 original size:15 final size:15
Alignment explanation
Indices: 2617673--2617732 Score: 95
Period size: 15 Copynumber: 4.1 Consensus size: 15
2617663 TATAACATAC
*
2617673 ATTATATTTTCAAAA
1 ATTATGTTTTCAAAA
2617688 ATTATGTTTTCAAAA
1 ATTATGTTTTCAAAA
*
2617703 ATTACGTTTTCAAAA
1 ATTATGTTTTCAAAA
2617718 ATTATGTTTT-AAAA
1 ATTATGTTTTCAAAA
2617732 A
1 A
2617733 ACTATAACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 5 0.12
15 37 0.88
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (15 bp):
ATTATGTTTTCAAAA
Found at i:2617840 original size:20 final size:24
Alignment explanation
Indices: 2617793--2617845 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 24
2617783 AAGAAAATTA
2617793 TTTTCAAAAGCTATATATTATATG
1 TTTTCAAAAGCTATATATTATATG
2617817 TTTTCAAAA-CTATATA-TAT-T-
1 TTTTCAAAAGCTATATATTATATG
2617837 TTTTCAAAA
1 TTTTCAAAA
2617846 ATTATATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.31
21 1 0.03
22 3 0.10
23 7 0.24
24 9 0.31
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTTCAAAAGCTATATATTATATG
Found at i:2617999 original size:21 final size:22
Alignment explanation
Indices: 2617942--2617988 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
2617932 CCCTTAATGT
2617942 AATTACATAGGTTAAATATTAA
1 AATTACATAGGTTAAATATTAA
2617964 AATTACATAGGTTAAAT-TATAA
1 AATTACATAGGTTAAATAT-TAA
2617986 AAT
1 AAT
2617989 ATATAGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (22 bp):
AATTACATAGGTTAAATATTAA
Found at i:2619529 original size:35 final size:35
Alignment explanation
Indices: 2619413--2619716 Score: 214
Period size: 35 Copynumber: 8.6 Consensus size: 35
2619403 AAATGATATG
* * *
2619413 CTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTA
1 CTTCACTACTCTTCTGTGAAGGTTGGA-TTGCATTA
* ** * * ** **
2619449 CTCCACTACTCTTCCATGAAGATTGAACTTAAATCG
1 CTTCACTACTCTTCTGTGAAGGTTGGA-TTGCATTA
* * * *
2619485 CTTCACTACTCTTTTGTGATGGCTAGATTGCATTA
1 CTTCACTACTCTTCTGTGAAGGTTGGATTGCATTA
* * * *
2619520 CTTCACTACTCTTCCGTGAAGGTTGAATCGCGTTA
1 CTTCACTACTCTTCTGTGAAGGTTGGATTGCATTA
* * **
2619555 CTTCACTACTCTTCTGTGAATGTTGGACTT-AATCG
1 CTTCACTACTCTTCTGTGAAGGTTGGA-TTGCATTA
* *
2619590 CTTTACTACTCTTTTGTGAAGGTTGGATTGCATTA
1 CTTCACTACTCTTCTGTGAAGGTTGGATTGCATTA
* * * * **
2619625 CTTCAATACTCTTCCGTGAAGATTGAATTGTGTTA
1 CTTCACTACTCTTCTGTGAAGGTTGGATTGCATTA
* * ** **
2619660 CTTCACTACTATTTTGTGAAGGTTGGACTTAAATCG
1 CTTCACTACTCTTCTGTGAAGGTTGGA-TTGCATTA
*
2619696 CTTCACTACTCTTTTGTGAAG
1 CTTCACTACTCTTCTGTGAAG
2619717 ATCGAATTTT
Statistics
Matches: 201, Mismatches: 64, Indels: 6
0.74 0.24 0.02
Matches are distributed among these distances:
34 2 0.01
35 130 0.65
36 69 0.34
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (35 bp):
CTTCACTACTCTTCTGTGAAGGTTGGATTGCATTA
Found at i:2619529 original size:71 final size:72
Alignment explanation
Indices: 2619412--2619546 Score: 193
Period size: 71 Copynumber: 1.9 Consensus size: 72
2619402 CAAATGATAT
2619412 GCTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTACTCCACTACTCTTCCATGAAGATTGAAC
1 GCTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTACTCCACTACTCTTCCATGAAGATTGAAC
2619477 TTAAATC
66 TTAAATC
** * * * *
2619484 GCTTCACTACTCTTTTGTGATGGCT-AGA-TTGCATTACTTCACTACTCTTCCGTGAAGGTTGAA
1 GCTTCACTACTCTTCCGTGAAGGCTGA-ATTTGCATTACTCCACTACTCTTCCATGAAGATTGAA
2619547 TCGCGTTACT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
71 33 0.59
72 23 0.41
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (72 bp):
GCTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTACTCCACTACTCTTCCATGAAGATTGAAC
TTAAATC
Found at i:2619619 original size:105 final size:105
Alignment explanation
Indices: 2619413--2619716 Score: 421
Period size: 105 Copynumber: 2.9 Consensus size: 105
2619403 AAATGATATG
* * * ** *
2619413 CTTCACTACTCTTCCGTGAAGGCTGAATTTGCATTACTCCACTACTCTTCCATGAAGATTGAACT
1 CTTCACTACTCTTCCGTGAAGGTTGAA-TTGCGTTACTTCACTACTCTTCTGTGAAG-TTGGACT
*
2619478 TAAATCGCTTCACTACTCTTTTGTGATGGCTAGATTGCATTA
64 TAAATCGCTTCACTACTCTTTTGTGAAGGCTAGATTGCATTA
*
2619520 CTTCACTACTCTTCCGTGAAGGTTGAATCGCGTTACTTCACTACTCTTCTGTGAATGTTGGACTT
1 CTTCACTACTCTTCCGTGAAGGTTGAATTGCGTTACTTCACTACTCTTCTGTGAA-GTTGGACTT
* * *
2619585 -AATCGCTTTACTACTCTTTTGTGAAGGTTGGATTGCATTA
65 AAATCGCTTCACTACTCTTTTGTGAAGGCTAGATTGCATTA
* * * * *
2619625 CTTCAATACTCTTCCGTGAAGATTGAATTGTGTTACTTCACTACTATTTTGTGAAGGTTGGACTT
1 CTTCACTACTCTTCCGTGAAGGTTGAATTGCGTTACTTCACTACTCTTCTGTGAA-GTTGGACTT
2619690 AAATCGCTTCACTACTCTTTTGTGAAG
65 AAATCGCTTCACTACTCTTTTGTGAAG
2619717 ATCGAATTTT
Statistics
Matches: 176, Mismatches: 19, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
105 94 0.53
106 55 0.31
107 27 0.15
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (105 bp):
CTTCACTACTCTTCCGTGAAGGTTGAATTGCGTTACTTCACTACTCTTCTGTGAAGTTGGACTTA
AATCGCTTCACTACTCTTTTGTGAAGGCTAGATTGCATTA
Done.