Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 32 of 35
Found at i:4667327 original size:32 final size:32
Alignment explanation
Indices: 4667264--4667360 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
4667254 TTCAACGATT
4667264 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
* *
4667297 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
4667329 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4667361 AGTAAGCTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 47 0.78
33 13 0.22
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4667418 original size:13 final size:13
Alignment explanation
Indices: 4667400--4667424 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4667390 ACATTACTCA
4667400 AATGTATCGATAC
1 AATGTATCGATAC
4667413 AATGTATCGATA
1 AATGTATCGATA
4667425 AACTGATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:4667491 original size:52 final size:52
Alignment explanation
Indices: 4667435--4667563 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
4667425 AACTGATCTT
4667435 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
4667487 TGTATCGATACATGCAGGCAAATTTGCTCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
4667539 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
4667564 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4674079 original size:42 final size:42
Alignment explanation
Indices: 4674032--4674148 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 42
4674022 GAGAAAGAAG
*
4674032 AGATAGGAGGGATGATAGGAGGAGAGATAGAAGAGATAGTAC
1 AGATAGGAGGGATGATAGGAGGAGAGATAGAAGAGATAATAC
* * *
4674074 AGATAGGAGGGATGATAGGAGAAGAAATA-AGAGAGATAATAG
1 AGATAGGAGGGATGATAGGAGGAGAGATAGA-AGAGATAATAC
* * *
4674116 AGAGAGGAGGGATGACAGGAGGAG-GAGAGAAGA
1 AGATAGGAGGGATGATAGGAGGAGAGATAGAAGA
4674149 AGATGGAAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 6 0.09
42 58 0.91
ACGTcount: A:0.45, C:0.02, G:0.42, T:0.11
Consensus pattern (42 bp):
AGATAGGAGGGATGATAGGAGGAGAGATAGAAGAGATAATAC
Found at i:4679616 original size:2 final size:2
Alignment explanation
Indices: 4679609--4679641 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4679599 CTTAGCAATT
*
4679609 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4679642 TAAAATCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4680624 original size:17 final size:18
Alignment explanation
Indices: 4680599--4680641 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
4680589 TGACACAAAA
4680599 AATAAAAAATA-AAACAC
1 AATAAAAAATACAAACAC
*
4680616 AATATAAAATACTAAACAC
1 AATAAAAAATAC-AAACAC
4680635 AA-AAAAA
1 AATAAAAA
4680642 TAGCATGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 8 0.36
ACGTcount: A:0.74, C:0.12, G:0.00, T:0.14
Consensus pattern (18 bp):
AATAAAAAATACAAACAC
Found at i:4684830 original size:9 final size:9
Alignment explanation
Indices: 4684816--4684845 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4684806 AGTTTACTAC
4684816 TTTTCTTCT
1 TTTTCTTCT
4684825 TTTTCTTCT
1 TTTTCTTCT
*
4684834 TCTTCTTCT
1 TTTTCTTCT
4684843 TTT
1 TTT
4684846 CTTGTTCCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTCTTCT
Found at i:4685225 original size:3 final size:3
Alignment explanation
Indices: 4685217--4685247 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4685207 TGTTGAAAAT
4685217 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
4685248 GTGAGGTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4694112 original size:32 final size:33
Alignment explanation
Indices: 4694070--4694138 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
4694060 TATAAATTAA
*
4694070 ATATAAATTTTTAA-GTATTAATA-ATTTATTTT
1 ATATAAA-TTTTAATATATTAATATATTTATTTT
* **
4694102 ATATATATTTTAATATATTCGTATATTTATTTT
1 ATATAAATTTTAATATATTAATATATTTATTTT
4694135 ATAT
1 ATAT
4694139 TTATGTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 6 0.19
32 12 0.39
33 13 0.42
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (33 bp):
ATATAAATTTTAATATATTAATATATTTATTTT
Found at i:4694119 original size:12 final size:11
Alignment explanation
Indices: 4694096--4694158 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
4694086 ATTAATAATT
4694096 TATTTTATATA
1 TATTTTATATA
4694107 TATTTTA-ATA
1 TATTTTATATA
* *
4694117 TATTCGTATATT
1 TATT-TTATATA
*
4694129 TATTTTATATT
1 TATTTTATATA
* *
4694140 TATGTTATTTA
1 TATTTTATATA
*
4694151 TATATTAT
1 TATTTTAT
4694159 TTTTTAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
10 7 0.16
11 30 0.70
12 6 0.14
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (11 bp):
TATTTTATATA
Found at i:4694173 original size:39 final size:39
Alignment explanation
Indices: 4694130--4694206 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
4694120 TCGTATATTT
* **
4694130 ATTTTATATTTATGTTATTTATATATTATT-TTTTAAAAA
1 ATTTTAAATTTAAATTATTT-TATATTATTATTTTAAAAA
* *
4694169 ATTTTAAATTTAAATTATTTTATTTTTTTATTTTAAAA
1 ATTTTAAATTTAAATTATTTTATATTATTATTTTAAAA
4694207 TAATATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 7 0.22
39 25 0.78
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (39 bp):
ATTTTAAATTTAAATTATTTTATATTATTATTTTAAAAA
Found at i:4698592 original size:22 final size:22
Alignment explanation
Indices: 4698564--4698605 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
4698554 TATTAAAAAT
4698564 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
4698586 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
4698606 AATAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:4699250 original size:27 final size:22
Alignment explanation
Indices: 4699188--4699241 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
4699178 ACGTGCAAAC
*
4699188 ATGAAAATAATTTTATATTAAT
1 ATGAAATTAATTTTATATTAAT
4699210 ATGAAATTAATTTTATATTAAT
1 ATGAAATTAATTTTATATTAAT
4699232 ATGAAATTAA
1 ATGAAATTAA
4699242 ATTAATTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (22 bp):
ATGAAATTAATTTTATATTAAT
Found at i:4699267 original size:27 final size:27
Alignment explanation
Indices: 4699195--4699250 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 27
4699185 AACATGAAAA
4699195 TAATTTTATATTAATATG-----AAAT
1 TAATTTTATATTAATATGAAATTAAAT
4699217 TAATTTTATATTAATATGAAATTAAAT
1 TAATTTTATATTAATATGAAATTAAAT
4699244 TAATTTT
1 TAATTTT
4699251 GTATAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 18 0.62
27 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
TAATTTTATATTAATATGAAATTAAAT
Found at i:4699591 original size:2 final size:2
Alignment explanation
Indices: 4699584--4699612 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4699574 TGAACTTTTC
4699584 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4699613 TTTTGCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4701547 original size:2 final size:2
Alignment explanation
Indices: 4701540--4701575 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4701530 ATCATTCTCA
4701540 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
4701576 CATCCATGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4707551 original size:16 final size:16
Alignment explanation
Indices: 4707530--4707560 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4707520 TAAAAAAATT
4707530 AATATATTTATATCAA
1 AATATATTTATATCAA
4707546 AATATATTTATATCA
1 AATATATTTATATCA
4707561 TACATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATATTTATATCAA
Found at i:4707810 original size:2 final size:2
Alignment explanation
Indices: 4707803--4707837 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4707793 ACAAAAATGA
4707803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4707838 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4707842 original size:2 final size:2
Alignment explanation
Indices: 4707837--4707869 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4707827 ATATATATAT
4707837 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4707870 ATACCTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4708794 original size:3 final size:3
Alignment explanation
Indices: 4708786--4708831 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4708776 AATATCTAGC
4708786 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4708832 GCCCTAATTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4708873 original size:135 final size:135
Alignment explanation
Indices: 4708714--4708966 Score: 420
Period size: 135 Copynumber: 1.9 Consensus size: 135
4708704 AATTACAATT
* *
4708714 TTTTTTATACATGCATGTAATTTTATATATCTAAAAATTTAA-TTTTTATTTTTAAATTTTTAAA
1 TTTTTTATACATGCATGTAATTTTATATATCTAAAAATATAATTTTTTATTTTTAAATTTTGAAA
* *
4708778 TATCTAGCA-TAATAATAATAATAATAATAATAATAATAATAATAATAATAATAAGCCCTAATTG
66 TATCAAGCATTAA-AAGAAT-ATAATAATAATAATAATAATAATAATAATAATAAGCCCTAATTG
4708842 AAATTAA
129 AAATTAA
* *
4708849 TTTTTTATATATGCATGTAATTTTATATATCTAAAAATATAATTTTTTATTTTTAAATTTTGGAA
1 TTTTTTATACATGCATGTAATTTTATATATCTAAAAATATAATTTTTTATTTTTAAATTTTGAAA
4708914 TATCAAGCATTAAAAGAATATAATAATAATAATAATAATAATAATAATAATAA
66 TATCAAGCATTAAAAGAATATAATAATAATAATAATAATAATAATAATAATAA
4708967 TAAAAAGTAC
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
135 74 0.67
136 33 0.30
137 3 0.03
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (135 bp):
TTTTTTATACATGCATGTAATTTTATATATCTAAAAATATAATTTTTTATTTTTAAATTTTGAAA
TATCAAGCATTAAAAGAATATAATAATAATAATAATAATAATAATAATAATAAGCCCTAATTGAA
ATTAA
Found at i:4708941 original size:3 final size:3
Alignment explanation
Indices: 4708933--4708969 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4708923 TTAAAAGAAT
4708933 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4708970 AAAGTACATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:4709320 original size:12 final size:12
Alignment explanation
Indices: 4709299--4709337 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
4709289 ATCAACTATT
4709299 ATATTTAATATA
1 ATATTTAATATA
4709311 ATA-TTAA-ATA
1 ATATTTAATATA
4709321 ATATTTAATATA
1 ATATTTAATATA
4709333 ATATT
1 ATATT
4709338 CATATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.24
11 8 0.32
12 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTTAATATA
Found at i:4709346 original size:2 final size:2
Alignment explanation
Indices: 4709339--4709379 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
4709329 TATAATATTC
*
4709339 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4709380 AAAATAGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4709346 original size:22 final size:22
Alignment explanation
Indices: 4709298--4709380 Score: 89
Period size: 22 Copynumber: 3.7 Consensus size: 22
4709288 TATCAACTAT
*
4709298 TATATTTA-ATATAATATTAAA
1 TATATTTATATATAATATTATA
4709319 TAATATTTA-ATATAATATTCATA
1 T-ATATTTATATATAATATT-ATA
*
4709342 TATATGTATATATATATATATATA
1 TATATTTATATATA-ATAT-TATA
*
4709366 TATATATATATATAA
1 TATATTTATATATAA
4709381 AAATAGATGG
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
21 1 0.02
22 23 0.43
23 9 0.17
24 20 0.37
25 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
TATATTTATATATAATATTATA
Found at i:4710300 original size:70 final size:71
Alignment explanation
Indices: 4710148--4710309 Score: 183
Period size: 70 Copynumber: 2.3 Consensus size: 71
4710138 AATAGTCTAG
* *
4710148 GGCTTGACTCATTTTG--AAACATGAGTTTGACTCAAAAGGAAAACAAAAAGACTTCAGCGGCAG
1 GGCTTGACTCATTTTGAAAAAAATGAGTTTGACTCAAAAAGAAAACAAAAAGACTTCAGCGGCAG
*
4710211 TCCAAT
66 CCCAAT
* * *
4710217 GGCTTGA-TCCA-TTTGAAAAAAATGAGTTTGACTTAAAAAGAAAACAAAAAGACATT-AGTGGT
1 GGCTTGACT-CATTTTGAAAAAAATGAGTTTGACTCAAAAAGAAAACAAAAAGAC-TTCAGCGGC
*
4710279 AGCCTCGA-
64 AGCC-CAAT
*
4710287 GGTTTGACTCATTTTGAAAAAAA
1 GGCTTGACTCATTTTGAAAAAAA
4710310 AAAAAAGAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
68 5 0.06
69 9 0.12
70 48 0.62
71 16 0.21
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (71 bp):
GGCTTGACTCATTTTGAAAAAAATGAGTTTGACTCAAAAAGAAAACAAAAAGACTTCAGCGGCAG
CCCAAT
Found at i:4710436 original size:69 final size:68
Alignment explanation
Indices: 4710362--4710551 Score: 186
Period size: 70 Copynumber: 2.7 Consensus size: 68
4710352 AACATTCCTA
* *
4710362 GGGCTTGAGCCATTTTGAAAAACGAGTATGACTTAAAAAGAAAATAAAGAAAACTC-AGTTGCAA
1 GGGCTTGA-CCATTTTGAAAAACGAGTTTGACTTAAAAAGAAAATAAA-AAAACTCTAGTAGCAA
4710426 TCT-T
64 TCTCT
* * * * *
4710430 GGGGCTTGACCTATTTTGAGAAAATGAGTTTAACTTAAAAATAAAATGAAAAAACTCTAGTAGTA
1 -GGGCTTGACC-ATTTTGA-AAAACGAGTTTGACTTAAAAAGAAAATAAAAAAACTCTAGTAGCA
*
4710495 GTCTCT
63 ATCTCT
* * * *
4710501 GAGCTCGATCCATTTTGCGAAAACGAGTTTGACTTAAAAAGAGAAAGAAAA
1 GGGCTTGA-CCATTTTG-AAAAACGAGTTTGACTTAAAAAGA-AAATAAAA
4710552 GACAAACGCA
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
68 2 0.02
69 22 0.22
70 65 0.66
71 9 0.09
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (68 bp):
GGGCTTGACCATTTTGAAAAACGAGTTTGACTTAAAAAGAAAATAAAAAAACTCTAGTAGCAATC
TCT
Found at i:4712440 original size:21 final size:21
Alignment explanation
Indices: 4712416--4712462 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4712406 TGCATTGATT
* *
4712416 CATTATGTGAATGTATCGATA
1 CATTATATAAATGTATCGATA
*
4712437 CATTATATAAATGTATTGATA
1 CATTATATAAATGTATCGATA
4712458 CATTA
1 CATTA
4712463 GTTGGCCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (21 bp):
CATTATATAAATGTATCGATA
Found at i:4714675 original size:145 final size:145
Alignment explanation
Indices: 4714502--4714789 Score: 558
Period size: 145 Copynumber: 2.0 Consensus size: 145
4714492 AAAGCATCAC
* *
4714502 ACAAAGAGCAAAAACAAACAACTTAAGATCAAGAAGCTCTAAAAGAAGACAAATTGCATGAGCCA
1 ACAAAGAGCAAAAACAAACAACTCAAGATCAAGAAGCTCCAAAAGAAGACAAATTGCATGAGCCA
4714567 ATTCAATTTAAAAGAGAAAAGAATCATCTTAGGGAGTTGACTTATGTCAAAGAAGGTGAGATAAT
66 ATTCAATTTAAAAGAGAAAAGAATCATCTTAGGGAGTTGACTTATGTCAAAGAAGGTGAGATAAT
4714632 TGGTGATCCAAATGA
131 TGGTGATCCAAATGA
4714647 ACAAAGAGCAAAAACAAACAACTCAAGATCAAGAAGCTCCAAAAGAAGACAAATTGCATGAGCCA
1 ACAAAGAGCAAAAACAAACAACTCAAGATCAAGAAGCTCCAAAAGAAGACAAATTGCATGAGCCA
4714712 ATTCAATTTAAAAGAGAAAAGAATCATCTTAGGGAGTTGACTTATGTCAAAGAAGGTGAGATAAT
66 ATTCAATTTAAAAGAGAAAAGAATCATCTTAGGGAGTTGACTTATGTCAAAGAAGGTGAGATAAT
4714777 TGGTGATCCAAAT
131 TGGTGATCCAAAT
4714790 CAAGGTATAA
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 141 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (145 bp):
ACAAAGAGCAAAAACAAACAACTCAAGATCAAGAAGCTCCAAAAGAAGACAAATTGCATGAGCCA
ATTCAATTTAAAAGAGAAAAGAATCATCTTAGGGAGTTGACTTATGTCAAAGAAGGTGAGATAAT
TGGTGATCCAAATGA
Found at i:4721133 original size:2 final size:2
Alignment explanation
Indices: 4721126--4721162 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4721116 CATTCTTCCT
* *
4721126 AC AC AC AC AC AC GC GC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
4721163 TACAGACCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.49, G:0.05, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4722753 original size:78 final size:76
Alignment explanation
Indices: 4722603--4723044 Score: 419
Period size: 78 Copynumber: 5.7 Consensus size: 76
4722593 AAATAAAGAT
* * * * *
4722603 TTTTCACTATCAGGGATACTCCAACCTGGTTTTTTTCGAGGGGATACTCCAACCTCGATTTTA-T
1 TTTTCACCATCAGGGATACTCCAACC-CGTTATTTTCGA-GGGATACTCCAACCTTGGTTTTATT
4722667 TTCTAAAACACAAAA
64 TTC-AAAACAC-AAA
* *
4722682 TTTTCACCATCAGGGATACTCCAACCCGTTATTTTCTAGGAGATACTCTAACCTTGGTTTTATTT
1 TTTTCACCATCAGGGATACTCCAACCCGTTATTTTCGAGG-GATACTCCAACCTTGGTTTTATTT
**
4722747 TCAAAACACCGA
65 TCAAAACACAAA
* * *
4722759 TTTTCCACCATCGGGGATACTCCAACCCGTTATTTTCGAGTGGATAATCCAACCTTGGCTTTA-T
1 TTTT-CACCATCAGGGATACTCCAACCCGTTATTTTCGAG-GGATACTCCAACCTTGGTTTTATT
* *
4722823 TTCTAAAACATCGAT
64 TTC-AAAACA-CAAA
* *
4722838 TTTTCA-CATCGGGGATACTCCAACCTTGTTATTTTCGAGAGGATACTCCAACGC-TGGTTTTAT
1 TTTTCACCATCAGGGATACTCCAACC-CGTTATTTTCGAG-GGATACTCCAAC-CTTGGTTTTAT
* **
4722901 TTCCAAAACACTGA
63 TTTCAAAACACAAA
* * * * ** *
4722915 TTTTCCACAATCAAGGATACTCCAACCCCGTTTTTTTTGAGGGATACTCCAACCCCGGCTTTATT
1 TTTT-CACCATCAGGGATACTCCAA-CCCGTTATTTTCGAGGGATACTCCAACCTTGGTTTTATT
* *
4722980 TTTAAAACATCAAT
64 TTCAAAACA-CAAA
*
4722994 TTTTCA-CATC-GAGGATACTCCAACCCCGTTATTTTCAAAGGGATACTCCAA
1 TTTTCACCATCAG-GGATACTCCAA-CCCGTTATTTTC-GAGGGATACTCCAA
4723045 ACCCATTTTT
Statistics
Matches: 304, Mismatches: 43, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
77 61 0.20
78 173 0.57
79 68 0.22
80 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (76 bp):
TTTTCACCATCAGGGATACTCCAACCCGTTATTTTCGAGGGATACTCCAACCTTGGTTTTATTTT
CAAAACACAAA
Found at i:4722869 original size:156 final size:154
Alignment explanation
Indices: 4722600--4723044 Score: 547
Period size: 156 Copynumber: 2.8 Consensus size: 154
4722590 CTAAAATAAA
* * * **
4722600 GATTTTTCACTATCAGGGATACTCCAACCTGGTTTTTTTCGAGGGGATACTCCAACCTCGATTTT
1 GATTTTCCACAATCAGGGATACTCCAACC-CGTTTTTTTCGA-GGGATACTCCAACCTCGGCTTT
* * *
4722665 ATTTCTAAAACA-CAAAATTTTCACCATCAGGGATACTCCAACCCGTTATTTTCTAG-GAGATAC
64 ATTTCTAAAACATC-AATTTTTCA-CATCGGGGATACTCCAACCCGTTATTTTCGAGAG-GATAC
* *
4722728 TCTAAC-CTTGGTTTTATTTTCAAAACACC
126 TCCAACGC-TGGTTTTATTTCCAAAACACC
* * * * *
4722757 GATTTTCCACCATCGGGGATACTCCAACCCGTTATTTTCGAGTGGATAATCCAACCTTGGCTTTA
1 GATTTTCCACAATCAGGGATACTCCAACCCGTTTTTTTCGAG-GGATACTCCAACCTCGGCTTTA
* *
4722822 TTTCTAAAACATCGATTTTTCACATCGGGGATACTCCAACCTTGTTATTTTCGAGAGGATACTCC
65 TTTCTAAAACATCAATTTTTCACATCGGGGATACTCCAACC-CGTTATTTTCGAGAGGATACTCC
*
4722887 AACGCTGGTTTTATTTCCAAAACACT
129 AACGCTGGTTTTATTTCCAAAACACC
* * *
4722913 GATTTTCCACAATCAAGGATACTCCAACCCCGTTTTTTTTGAGGGATACTCCAACCCCGGCTTTA
1 GATTTTCCACAATCAGGGATACTCCAA-CCCGTTTTTTTCGAGGGATACTCCAACCTCGGCTTTA
* * *
4722978 TTTTTAAAACATCAATTTTTCACATCGAGGATACTCCAACCCCGTTATTTTC-AAAGGGATACTC
65 TTTCTAAAACATCAATTTTTCACATCGGGGATACTCCAA-CCCGTTATTTTCGAGA-GGATACTC
4723042 CAA
128 CAA
4723045 ACCCATTTTT
Statistics
Matches: 250, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
155 21 0.08
156 185 0.74
157 44 0.18
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (154 bp):
GATTTTCCACAATCAGGGATACTCCAACCCGTTTTTTTCGAGGGATACTCCAACCTCGGCTTTAT
TTCTAAAACATCAATTTTTCACATCGGGGATACTCCAACCCGTTATTTTCGAGAGGATACTCCAA
CGCTGGTTTTATTTCCAAAACACC
Found at i:4723024 original size:234 final size:235
Alignment explanation
Indices: 4722583--4723029 Score: 600
Period size: 234 Copynumber: 1.9 Consensus size: 235
4722573 AATTCATATA
* * *
4722583 TTTATTTCTAAAATAAAGATTTTTCACTATCAGGGATACTCCAACCTGGTTTTTTTCGAGGGGAT
1 TTTATTTCTAAAACAAAGATTTTTCACTATCAGGGATACTCCAACCTGGTTATTTTCGAGAGGAT
* * *
4722648 ACTCCAACCTCGATTTTATTTCTAAAACACAAAATTTTCACCATCAGGGATACTCCAACCCGTTA
66 ACTCCAACCTCGATTTTATTTCCAAAACACAAAATTTTCACAATCAAGGATACTCCAACCCGTTA
* ** * * *
4722713 TTTTCTAGGAGATACTCTAACCTTGGTTTTATTTTCAAAACACCGATTTTCCACCATCGGGGATA
131 TTTTCTAGGAGATACTCCAACCCCGGCTTTATTTTCAAAACACCAATTTTCCACCATCGAGGATA
4722778 CTCCAACCCGTTATTTTCGAGTGGATAATCCAACCTTGGC
196 CTCCAACCCGTTATTTTCGAGTGGATAATCCAACCTTGGC
** * *
4722818 TTTATTTCTAAAACATCGATTTTTCAC-ATCGGGGATACTCCAACCTTGTTATTTTCGAGAGGAT
1 TTTATTTCTAAAACAAAGATTTTTCACTATCAGGGATACTCCAACCTGGTTATTTTCGAGAGGAT
* **
4722882 ACTCCAACGCT-GGTTTTATTTCCAAAACAC-TGATTTTCCACAATCAAGGATACTCCAACCCCG
66 ACTCCAAC-CTCGATTTTATTTCCAAAACACAAAATTTT-CACAATCAAGGATACTCCAA-CCCG
* * * *
4722945 TT-TTTTTTGAGG-GATACTCCAACCCCGGCTTTATTTTTAAAACATCAATTTTTCA-CATCGAG
128 TTATTTTCT-AGGAGATACTCCAACCCCGGCTTTATTTTCAAAACACCAATTTTCCACCATCGAG
4723007 GATACTCCAACCCCGTTATTTTC
192 GATACTCCAA-CCCGTTATTTTC
4723030 AAAGGGATAC
Statistics
Matches: 184, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
233 21 0.11
234 128 0.70
235 35 0.19
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (235 bp):
TTTATTTCTAAAACAAAGATTTTTCACTATCAGGGATACTCCAACCTGGTTATTTTCGAGAGGAT
ACTCCAACCTCGATTTTATTTCCAAAACACAAAATTTTCACAATCAAGGATACTCCAACCCGTTA
TTTTCTAGGAGATACTCCAACCCCGGCTTTATTTTCAAAACACCAATTTTCCACCATCGAGGATA
CTCCAACCCGTTATTTTCGAGTGGATAATCCAACCTTGGC
Found at i:4725027 original size:377 final size:378
Alignment explanation
Indices: 4724307--4725068 Score: 1499
Period size: 377 Copynumber: 2.0 Consensus size: 378
4724297 CCCACCAAAC
4724307 ACCATGGTGAGGCTAGGATCCTAATTATTAAGAGGAAATGAGACATCCGCCTTCGTGAGTAACCC
1 ACCATGGTGAGGCTAGGATCCTAA-TATTAAGAGGAAATGAGACATCCGCCTTCGTGAGTAACCC
*
4724372 TCCGCATAGGCATGGCAATACCTTTTGGGGTGTAAATTACCTATGTCTCTCGTGAGTAACCCTCC
65 TCCGCATAGGCATGGCAATACCTTTTGGGGTGTAAATTACCTATGTCTCTCATGAGTAACCCTCC
4724437 ACATTTGCATAGGAAAATACATCCACCGAGTCAAACCTAATCTGTCGAACCCATGATGGGTCTAG
130 ACATTTGCATAGGAAAATACATCCACCGAGTCAAACCTAATCTGTCGAACCCATGATGGGTCTAG
4724502 GATTACGGTGCCTCGACTATCCTTACCGGACAAAGGAACGATTCGGATACCGATTTAGGCATCTA
195 GATTACGGTGCCTCGACTATCCTTACCGGACAAAGGAACGATTCGGATACCGATTTAGGCATCTA
4724567 TCCAAACTCATAAAGTGGACTCTACAAGCCAAACCGTGTTAAACCATACCAAAGTGTTGTTAGGA
260 TCCAAACTCATAAAGTGGACTCTACAAGCCAAACCGTGTTAAACCATACCAAAGTGTTGTTAGGA
4724632 TAACCCGAAAAGTAAGATCACTTGCGAAAACATTTCTTACCTTTACTCCTACAT
325 TAACCCGAAAAGTAAGATCACTTGCGAAAACATTTCTTACCTTTACTCCTACAT
4724686 ACCATGGTGAGGCTAGGATCCTAA-ATTAAGAGGAAATGAGACATCCGCCTTCGTGAGTAACCCT
1 ACCATGGTGAGGCTAGGATCCTAATATTAAGAGGAAATGAGACATCCGCCTTCGTGAGTAACCCT
4724750 CCGCATAGGCATGGCAATACCTTTTGGGGTGTAAATTACCTATGTCTCTCATGAGTAACCCTCCA
66 CCGCATAGGCATGGCAATACCTTTTGGGGTGTAAATTACCTATGTCTCTCATGAGTAACCCTCCA
4724815 CATTTGCATAGGAAAATACATCCACCGAGTCAAACCTAATCTGTCGAACCCATGATGGGTCTAGG
131 CATTTGCATAGGAAAATACATCCACCGAGTCAAACCTAATCTGTCGAACCCATGATGGGTCTAGG
4724880 ATTACGGTGCCTCGACTATCCTTACCGGACAAAGGAACGATTCGGATACCGATTTAGGCATCTAT
196 ATTACGGTGCCTCGACTATCCTTACCGGACAAAGGAACGATTCGGATACCGATTTAGGCATCTAT
4724945 CCAAACTCATAAAGTGGACTCTACAAGCCAAACCGTGTTAAACCATACCAAAGTGTTGTTAGGAT
261 CCAAACTCATAAAGTGGACTCTACAAGCCAAACCGTGTTAAACCATACCAAAGTGTTGTTAGGAT
4725010 AACCCGAAAAGTAAGATCACTTGCGAAAACATTTCTTACCTTTACTCCTACAT
326 AACCCGAAAAGTAAGATCACTTGCGAAAACATTTCTTACCTTTACTCCTACAT
4725063 ACCATG
1 ACCATG
4725069 TTTACGAATA
Statistics
Matches: 382, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
377 358 0.94
379 24 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (378 bp):
ACCATGGTGAGGCTAGGATCCTAATATTAAGAGGAAATGAGACATCCGCCTTCGTGAGTAACCCT
CCGCATAGGCATGGCAATACCTTTTGGGGTGTAAATTACCTATGTCTCTCATGAGTAACCCTCCA
CATTTGCATAGGAAAATACATCCACCGAGTCAAACCTAATCTGTCGAACCCATGATGGGTCTAGG
ATTACGGTGCCTCGACTATCCTTACCGGACAAAGGAACGATTCGGATACCGATTTAGGCATCTAT
CCAAACTCATAAAGTGGACTCTACAAGCCAAACCGTGTTAAACCATACCAAAGTGTTGTTAGGAT
AACCCGAAAAGTAAGATCACTTGCGAAAACATTTCTTACCTTTACTCCTACAT
Found at i:4728027 original size:52 final size:52
Alignment explanation
Indices: 4727949--4728077 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
4727939 CGAAATATGA
* * *
4727949 AAATTTTCCTATATGTATCGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTACCTGTATGTATCGATACATTTCATAGTGTATCGATAAATCTGGGC
*
4728001 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATAAATCTGGGC
1 AAATTTACCTGTATGTATCGATACATTTCATAGTGTATCGATAAATCTGGGC
**
4728053 AAATTTACCTGCGTGTATCGATACA
1 AAATTTACCTGTATGTATCGATACA
4728078 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (52 bp):
AAATTTACCTGTATGTATCGATACATTTCATAGTGTATCGATAAATCTGGGC
Found at i:4728088 original size:52 final size:52
Alignment explanation
Indices: 4727961--4728095 Score: 173
Period size: 52 Copynumber: 2.6 Consensus size: 52
4727951 ATTTTCCTAT
** * * *
4727961 ATGTATCGATACATTTCATAGTGTATCGATATATCTGGGCAAATTTGCCTGT
1 ATGTATCGATACATAACATAGTGTATCGATAAATCTGGGCAAATTTACCTGC
**
4728013 ATGTATCGATACATTTCATAGTGTATCGATAAATCTGGGCAAATTTACCTGC
1 ATGTATCGATACATAACATAGTGTATCGATAAATCTGGGCAAATTTACCTGC
* *
4728065 GTGTATCGATACA-AAGATCAGTGTATCGATA
1 ATGTATCGATACATAACAT-AGTGTATCGATA
4728096 CAATGTATCG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
51 2 0.03
52 73 0.97
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
ATGTATCGATACATAACATAGTGTATCGATAAATCTGGGCAAATTTACCTGC
Found at i:4728104 original size:13 final size:13
Alignment explanation
Indices: 4728086--4728110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4728076 CAAAGATCAG
4728086 TGTATCGATACAA
1 TGTATCGATACAA
4728099 TGTATCGATACA
1 TGTATCGATACA
4728111 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4737976 original size:20 final size:20
Alignment explanation
Indices: 4737951--4738004 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
4737941 ATTTGCCTGC
4737951 ATGTATCGATACATTTTATA
1 ATGTATCGATACATTTTATA
*
4737971 ATGTATAGATACATTTTATA
1 ATGTATCGATACATTTTATA
*
4737991 GTGTATCGATACAT
1 ATGTATCGATACAT
4738005 CTAGGCAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTATA
Found at i:4738016 original size:72 final size:72
Alignment explanation
Indices: 4737899--4738056 Score: 307
Period size: 72 Copynumber: 2.2 Consensus size: 72
4737889 AGTTGCTTAC
4737899 ATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACA
4737964 TTTTATA
66 TTTTATA
*
4737971 ATGTATAGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACA
4738036 TTTTATA
66 TTTTATA
4738043 ATGTATCGATACAT
1 ATGTATCGATACAT
4738057 CTGGGCAAAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 84 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (72 bp):
ATGTATCGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACA
TTTTATA
Found at i:4738027 original size:52 final size:52
Alignment explanation
Indices: 4737971--4738087 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
4737961 ACATTTTATA
* *
4737971 ATGTATAGATACATTTTATAGTGTATCGATACATCTAGGCAAATTTGCCTGC
1 ATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCCTGC
*
4738023 ATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGC
1 ATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCCTGC
4738075 ATGTATCGATACA
1 ATGTATCGATACA
4738088 AAGATCAATG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (52 bp):
ATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGCCTGC
Found at i:4738098 original size:52 final size:52
Alignment explanation
Indices: 4737992--4738107 Score: 180
Period size: 52 Copynumber: 2.2 Consensus size: 52
4737982 CATTTTATAG
***
4737992 TGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATTTTATAA
1 TGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATAAGATAA
*
4738044 TGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAA
1 TGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATAAGAT-AA
4738096 TGTATCGATACA
1 TGTATCGATACA
4738108 ATGTATCGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 2 0.03
52 57 0.97
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (52 bp):
TGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATAAGATAA
Found at i:4738111 original size:13 final size:13
Alignment explanation
Indices: 4738093--4738120 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4738083 ATACAAAGAT
4738093 CAATGTATCGATA
1 CAATGTATCGATA
4738106 CAATGTATCGATA
1 CAATGTATCGATA
4738119 CA
1 CA
4738121 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4738201 original size:13 final size:13
Alignment explanation
Indices: 4738183--4738207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4738173 CAAAAAAATA
4738183 TGTATCGATACAT
1 TGTATCGATACAT
4738196 TGTATCGATACA
1 TGTATCGATACA
4738208 ACACTTTATG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4738700 original size:10 final size:10
Alignment explanation
Indices: 4738685--4738733 Score: 64
Period size: 10 Copynumber: 4.8 Consensus size: 10
4738675 CTTTTTTTTT
4738685 AAAAAAAAAC
1 AAAAAAAAAC
4738695 AAAAAAAAAC
1 AAAAAAAAAC
*
4738705 AAAAAGAAAC
1 AAAAAAAAAC
4738715 AACAACAAAAA-
1 AA-AA-AAAAAC
4738726 AAAAAAAA
1 AAAAAAAA
4738734 GAAGAAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 4 0.11
10 23 0.66
11 4 0.11
12 4 0.11
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:4738746 original size:18 final size:17
Alignment explanation
Indices: 4738685--4738754 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 17
4738675 CTTTTTTTTT
4738685 AAAAAAAAACAAAA-AA-
1 AAAAAAAAA-AAAAGAAG
* *
4738701 AAACAAAAAGAAACAACAAC
1 AAA-AAAAA-AAA-AAGAAG
4738721 AAAAAAAAAAAAAGAAG
1 AAAAAAAAAAAAAGAAG
*
4738738 AAAAGAAAAGAAAAGAA
1 AAAA-AAAAAAAAAGAA
4738755 CCTGCTTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
16 3 0.07
17 15 0.33
18 17 0.38
19 7 0.16
20 3 0.07
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAGAAG
Found at i:4739821 original size:61 final size:59
Alignment explanation
Indices: 4739730--4740287 Score: 512
Period size: 61 Copynumber: 9.2 Consensus size: 59
4739720 TCCTTTTCAT
* * * * *
4739730 TCCTCAAAGAGCAAGACAGCCTTTCCTTTTAAAGCCCACACAAGTTGATGGTATCTTTCAG
1 TCCTCAAAGAGCAGGAC-GTCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
* * * * * *
4739791 TCCTTAAAAAGCAGGACGTCTTTCCTTTTTAAAACCCATACTAGTTGATGGCACATTTTAG
1 TCCTCAAAGAGCAGGACGTCTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCAC-TTTTAG
* *
4739852 TCCTCAAAGAGTAAGACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTTAG
1 TCCTCAAAGAGCAGGACGTCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC-ACTTTTAG
* * * * *
4739913 TCCTCAAAGAACAGGATGCCTTT-CTTTTAAAGCCCACACAAGTTGATGGTACCTTTTAG
1 TCCTCAAAGAGCAGGACGTCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
* * * * * * *
4739972 TCCTCAAAGATCAAGACACTTTTTCCTTTTAAAGCCCACATAAGTTGGTGGTACCTTTCAG
1 TCCTCAAAGAGCAGGAC-GTCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
* * *
4740033 TCCTCAAAGAGCAGGACG-CATTTTTCTTTTAAAGCCCACATAAATTGGTGGCACATTTTAG
1 TCCTCAAAGAGCAGGACGTC--TTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTTAG
* * ** *
4740094 TCCTCAAAGAGTAGGACGCCTTCTGTTTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGACGTCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
* * * *
4740155 TCCTCATAGAGCATGACGTCTTTCCCTTTTAAAGCCCATATAAGTTGGTGGCACTTTCTAG
1 TCCTCAAAGAGCAGGACGTCTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-TAG
* * * * * * * * *
4740216 TCCCCAAAGAGTAGAAC-AC-TTCTTTTTTAAAGCCTACAGAAGCTGGTGGCACCTTATAG
1 TCCTCAAAGAGCAGGACGTCTTTC-CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
4740275 TCCTCAAAGAGCA
1 TCCTCAAAGAGCA
4740288 CGATGCCTCT
Statistics
Matches: 412, Mismatches: 68, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
58 2 0.00
59 85 0.21
60 24 0.06
61 294 0.71
62 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (59 bp):
TCCTCAAAGAGCAGGACGTCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAG
Found at i:4740155 original size:242 final size:243
Alignment explanation
Indices: 4739721--4740287 Score: 661
Period size: 242 Copynumber: 2.3 Consensus size: 243
4739711 AACCTTTTAT
* * * * *
4739721 CCTTTTCATTCCTCAAAGAGCAAGACAGC-CTTTCCTTTTAAAGCCCACACAAGTTGATGGTATC
1 CCTTTT-AGTCCTCAAAGATCAAGACA-CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACC
* * * *
4739785 TTTCAGTCCTTAAAAAGCAGGACGTCTTTCCTTTTTAAAACCCATACTAGTTGATGGCACATTTT
64 TTTCAGTCCTCAAAGAGCAGGACGTCTTTCCTTTTTAAAACCCACACTAATTGATGGCACATTTT
*
4739850 AGTCCTCAAAGAGTAAGACGTCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTTAGTC
129 AGTCCTCAAAGAGTAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTTAGTC
* *
4739915 CTCAAAGAACAGGATGCCTTT-CTTTTAAAGCCCACACAAGTTGATGGTA
194 CTCAAAGAACAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGATGGCA
*
4739964 CCTTTTAGTCCTCAAAGATCAAGACACTTTTTCCTTTTAAAGCCCACATAAGTTGGTGGTACCTT
1 CCTTTTAGTCCTCAAAGATCAAGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTT
* * *
4740029 TCAGTCCTCAAAGAGCAGGACG-CATTT-TTCTTTTAAAGCCCACA-TAAATTGGTGGCACATTT
66 TCAGTCCTCAAAGAGCAGGACGTC-TTTCCT-TTTTAAAACCCACACT-AATTGATGGCACATTT
* ** * *
4740091 TAGTCCTCAAAGAGTAGGACGCCTTCTGTTTTTAAAGCCCATACAAGTTGGTGGCACCTTTTAGT
128 TAGTCCTCAAAGAGTAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTTAGT
* * * * * * *
4740156 CCTCATAGAGCATGACGTCTTTCCCTTTTAAAGCCCATATAAGTTGGTGGCA
193 CCTCAAAGAACAGGACGCCTTT-CCTTTTAAAGCCCACACAAGTTGATGGCA
* * * * * *
4740208 -CTTTCTAGTCCCCAAAGAGT--AGAACACTTCTT--TTTTAAAGCCTACAGAAGCTGGTGGCAC
1 CCTTT-TAGTCCTCAAAGA-TCAAG-ACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTAC
4740268 CTTAT-AGTCCTCAAAGAGCA
63 CTT-TCAGTCCTCAAAGAGCA
4740288 CGATGCCTCT
Statistics
Matches: 280, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
241 4 0.01
242 218 0.78
243 13 0.05
244 44 0.16
245 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (243 bp):
CCTTTTAGTCCTCAAAGATCAAGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTACCTT
TCAGTCCTCAAAGAGCAGGACGTCTTTCCTTTTTAAAACCCACACTAATTGATGGCACATTTTAG
TCCTCAAAGAGTAAGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAACTTTTAGTCCT
CAAAGAACAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGATGGCA
Found at i:4742916 original size:79 final size:78
Alignment explanation
Indices: 4742784--4743255 Score: 463
Period size: 79 Copynumber: 6.1 Consensus size: 78
4742774 TCATTCATGT
* * *
4742784 TTTTATTTCTAAAATA-CTGATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCA-CATCGAGGATACTCCAACCCCGTTATTTTCGAGGGG
4742848 ATACTCCAACCTCGA
64 ATACTCCAACCTCGA
* * ** *
4742863 TTTTATTT-TAAAAATATCGATTTTTCACAATCGATGATACTCCAACCTTGTTATTTTCGAAGGG
1 TTTTATTTCT-AAAACATCGATTTTTCAC-ATCGAGGATACTCCAACCCCGTTATTTTCGAGGGG
*
4742927 ATACTCTAACCTCGA
64 ATACTCCAACCTCGA
* * *
4742942 TTTTATTT-TCAGAACATCGATTTTCCATCATCGGGGATACTCCAACCCCGTTA-TTTCTGAGGG
1 TTTTATTTCT-AAAACATCGATTTTTCA-CATCGAGGATACTCCAACCCCGTTATTTTC-GAGGG
* *
4743005 AATAATCCAA---C--
63 GATACTCCAACCTCGA
*
4743016 -TTTATTTCTAAAACATCGA-TTTTCTACATC-AGGGATACTCCAACCCTGTTATTTTCGAGGGG
1 TTTTATTTCTAAAACATCGATTTTTC-ACATCGA-GGATACTCCAACCCCGTTATTTTCGAGGGG
*
4743078 ATACTCCAATGC-CGA
64 ATACTCCAA-CCTCGA
* *
4743093 TTTTATTT-TCAAAACATCGATTTTTCACAATCG-GAGATACTCCAACCCGGTTATTTTCGAGGA
1 TTTTATTTCT-AAAACATCGATTTTTCAC-ATCGAG-GATACTCCAACCCCGTTATTTTCGAGGG
* *
4743156 GATACTCTAACCTCGG
63 GATACTCCAACCTCGA
* * * **
4743172 CTTTATTTCTAAAACATTGATTTTTCACATC-AGGGATACTCCAACCTCGTTATTTTTAAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACATCGA-GGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
4743236 CACTCCAACCTCGT
65 TACTCCAACCTCGA
4743250 TTTTAT
1 TTTTAT
4743256 CTCCCAAATA
Statistics
Matches: 328, Mismatches: 41, Indels: 49
0.78 0.10 0.12
Matches are distributed among these distances:
72 39 0.12
73 21 0.06
74 1 0.00
75 1 0.00
76 1 0.00
77 1 0.00
78 71 0.22
79 190 0.58
80 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (78 bp):
TTTTATTTCTAAAACATCGATTTTTCACATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGAT
ACTCCAACCTCGA
Found at i:4743109 original size:151 final size:150
Alignment explanation
Indices: 4742802--4743255 Score: 488
Period size: 151 Copynumber: 2.9 Consensus size: 150
4742792 CTAAAATACT
* *
4742802 GATTTTCCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGATTTT
1 GATTTTCCA-CATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAATAATCCAA---C---TTT
* * * *
4742867 ATTT-TAAAAATATCGATTTTTCACAATC-GATGATACTCCAACCTTGTTATTTTCGAAGGGATA
59 ATTTCT-AAAACATCGATTTTTCAC-ATCAG-GGATACTCCAACCCTGTTATTTTCGAGGGGATA
* *
4742930 CTCTAACCTCGATTTTATTTTCAGAACATC
121 CTCCAACCTCGATTTTATTTTCAAAACATC
4742960 GATTTTCCATCATCGGGGATACTCCAACCCCGTTA-TTTCTGAGGGAATAATCCAACTTTATTTC
1 GATTTTCCA-CATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGAATAATCCAACTTTATTTC
4743024 TAAAACATCGA-TTTTCTACATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAAT
64 TAAAACATCGATTTTTC-ACATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAA-
*
4743088 GC-CGATTTTATTTTCAAAACATC
127 CCTCGATTTTATTTTCAAAACATC
* * * * **
4743111 GATTTTTCACAATCGGAGATACTCCAACCCGGTTATTTTCGAGGAGATACTCTAACCTCGGCTTT
1 GATTTTCCAC-ATCGGGGATACTCCAACCCCGTTATTTTCGAGG-GA-A---TAATC-CAACTTT
* ** *
4743176 ATTTCTAAAACATTGATTTTTCACATCAGGGATACTCCAA-CCTCGTTATTTTTAAGGGGACACT
59 ATTTCTAAAACATCGATTTTTCACATCAGGGATACTCCAACCCT-GTTATTTTCGAGGGGATACT
*
4743240 CCAACCTCGTTTTTAT
123 CCAACCTCGATTTTAT
4743256 CTCCCAAATA
Statistics
Matches: 258, Mismatches: 22, Indels: 33
0.82 0.07 0.11
Matches are distributed among these distances:
150 1 0.00
151 97 0.38
152 26 0.10
153 2 0.01
155 1 0.00
156 8 0.03
157 71 0.28
158 52 0.20
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (150 bp):
GATTTTCCACATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAATAATCCAACTTTATTTCTA
AAACATCGATTTTTCACATCAGGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAACCTC
GATTTTATTTTCAAAACATC
Found at i:4746160 original size:32 final size:33
Alignment explanation
Indices: 4746098--4746162 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
4746088 ACACACCCAG
* * *
4746098 ATATATCGATATATATTGCTTTGTATCGATACA
1 ATATATCGATACATATTGCATTGTAACGATACA
*
4746131 ATATATCGATACATGTT-CATTGTAACGATACA
1 ATATATCGATACATATTGCATTGTAACGATACA
4746163 CACTAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (33 bp):
ATATATCGATACATATTGCATTGTAACGATACA
Found at i:4746225 original size:13 final size:13
Alignment explanation
Indices: 4746207--4746236 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4746197 GCTAAAACTC
4746207 ACATTGTATCGAT
1 ACATTGTATCGAT
4746220 ACATTGTATCGAT
1 ACATTGTATCGAT
4746233 ACAT
1 ACAT
4746237 GAAGGATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:4748669 original size:28 final size:28
Alignment explanation
Indices: 4748637--4748698 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
4748627 AATTGCGCCT
4748637 ATTCAATTCCCATGACG-GATATGATTTC
1 ATTCAATTCCCATGA-GTGATATGATTTC
* *
4748665 ATTCAATTTCCATTAGTGATATGATTTC
1 ATTCAATTCCCATGAGTGATATGATTTC
4748693 ATTCAA
1 ATTCAA
4748699 ATCCATAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (28 bp):
ATTCAATTCCCATGAGTGATATGATTTC
Found at i:4749325 original size:20 final size:21
Alignment explanation
Indices: 4749287--4749326 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4749277 AAACACATCA
4749287 ATATTGATTTGTATTCAATAAT
1 ATATTGATTTGTA-TCAATAAT
*
4749309 ATATTTATTTGTA-CAATA
1 ATATTGATTTGTATCAATA
4749327 TTAATTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (21 bp):
ATATTGATTTGTATCAATAAT
Found at i:4753156 original size:20 final size:20
Alignment explanation
Indices: 4753105--4753179 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
4753095 AAAAAGACAT
* ** *
4753105 AATGTATGGATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
4753125 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * * *
4753145 CATGTATTGATATATTGAAA
1 AATGTATCGATACATTCAAA
4753165 AATGTATCGATACAT
1 AATGTATCGATACAT
4753180 CAGGGTATGA
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:4753173 original size:40 final size:39
Alignment explanation
Indices: 4753102--4753179 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
4753092 GGTAAAAAGA
* *
4753102 CATAATGTATGGATACATTGTAGAATATATCGATACATT
1 CATAATGTATGGATACATTGAAAAATATATCGATACATT
* * *
4753141 CATACATGTATTGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATGGATACATTGAAAAATATATCGATACAT
4753180 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (39 bp):
CATAATGTATGGATACATTGAAAAATATATCGATACATT
Found at i:4753899 original size:29 final size:28
Alignment explanation
Indices: 4753705--4754200 Score: 609
Period size: 28 Copynumber: 17.3 Consensus size: 28
4753695 TGAAAAGGGT
* * *
4753705 TGCCATTGACTTGCATGGGCTTTAAAAGGG
1 TGCCACTGACTTG--TGGGCTTTGAAAGAG
*
4753735 TGCCACTGACTTGCGTGGGCTTTGAAAGAA
1 TGCCACTGACTT--GTGGGCTTTGAAAGAG
* *
4753765 TGCCACTAACTCGTGGGCTTTGAAAG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
4753792 ATGCCACTGACTTGTGGGCTTTGAAAGAG
1 -TGCCACTGACTTGTGGGCTTTGAAAGAG
*
4753821 TGCCACTGACTTGTGGGTTTTGAAA-AGG
1 TGCCACTGACTTGTGGGCTTTGAAAGA-G
* * *
4753849 TACCACTGACTTGCGTGAGCTTTAAAAGGAG
1 TGCCACTGACTT--GTGGGCTTTGAAA-GAG
4753880 TGCCACTGACTTGTGGGCTTTGAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* * * *
4753908 TGCCACTGAATTGTGGGCTTCGCAATAG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* * *
4753936 TGCCACTAACTTGTGGGCTTCGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* *
4753964 TGCCACTGACTTGTGGGCTCTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
* *
4753992 TGCCACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
4754020 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
*
4754049 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
*
4754078 TGCCATTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAA-GAG
* *
4754107 TGCCTCTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGAG
*
4754135 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
*
4754164 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTG-AAAGAG
4754193 TGCCACTG
1 TGCCACTG
4754201 GCTTAAGTGC
Statistics
Matches: 410, Mismatches: 44, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.00
28 221 0.54
29 131 0.32
30 43 0.10
31 12 0.03
32 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGAG
Found at i:4754300 original size:57 final size:57
Alignment explanation
Indices: 4754214--4754803 Score: 911
Period size: 57 Copynumber: 10.4 Consensus size: 57
4754204 TAAGTGCCTG
* * *
4754214 ACTGAC-T-TGGGCTTTG-AAAGGGTGCCACTGAGTTGTGGGCTTTGAAATGGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
*
4754268 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCC
*
4754326 ACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
* * * *
4754383 ACTAACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGCTTTGAAATGGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
4754440 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
* * *
4754497 ACTGAGTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCC
* *
4754554 ACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCC
* * * *
4754612 ACTAACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGCTTTGAAATGGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
* * *
4754669 ACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTATGGGATTTGAAAGGGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
*
4754725 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCC
4754783 ACTGACTTGTGGGCTTTGAAA
1 ACTGACTTGTGGGCTTTGAAA
4754804 GGGATGAACA
Statistics
Matches: 493, Mismatches: 34, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
54 6 0.01
55 1 0.00
56 86 0.17
57 240 0.49
58 160 0.32
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.29
Consensus pattern (57 bp):
ACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC
Found at i:4754584 original size:200 final size:199
Alignment explanation
Indices: 4754221--4754805 Score: 1019
Period size: 200 Copynumber: 2.9 Consensus size: 199
4754211 CTGACTGACT
*
4754221 TGGGCTTTGAAAGGGTGCCACTGAGTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
1 TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
* * *
4754286 AAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAG
66 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGAG
* *
4754351 TGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACT
129 TGCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACT
4754415 AACTTG
194 AACTTG
* *
4754421 TGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTGACTTGTGGGCTTT
*
4754486 GAAAGGGTGCCACTGAGTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
65 GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
4754551 GCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTA
130 GCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTA
4754616 ACTTG
195 ACTTG
*
4754621 TGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTT
1 TGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTT
* *
4754686 GAAAGGGTGCCACTGACTTATGGGATTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
65 GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
4754751 GCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
130 GCCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGG
4754806 GATGAACATT
Statistics
Matches: 368, Mismatches: 14, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
199 55 0.15
200 264 0.72
201 49 0.13
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (199 bp):
TGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTG
CCACTGATTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTAA
CTTG
Found at i:4754804 original size:29 final size:29
Alignment explanation
Indices: 4754214--4754805 Score: 945
Period size: 29 Copynumber: 20.8 Consensus size: 29
4754204 TAAGTGCCTG
4754214 ACTGAC-T-TGGGCTTTGAAAGG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
* *
4754240 ACTGAGTTGTGGGCTTTGAAATG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754268 ACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754297 ACTGATTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
4754326 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
4754355 ACTGACTTGTGGGCTTTGAAAGG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754383 ACTAACTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
* *
4754412 ACTAACTTGTGGGCTTTGAAATG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754440 ACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
4754469 ACTGACTTGTGGGCTTTGAAAGG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754497 ACTGAGTTGTGGGCTTTGAAAGG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754525 ACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754554 ACTGATTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
4754583 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754612 ACTAACTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
* *
4754641 ACTAACTTGTGGGCTTTGAAATG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
4754669 ACTGACTTGTGGGCTTTGAAAGG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
* *
4754697 ACTGACTTATGGGATTTGAAAGG-GTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754725 ACTGACTTGTGGGCTTTGAAAAGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
*
4754754 ACTGATTTGTGGGCTTTGAAAGGAGTGCC
1 ACTGACTTGTGGGCTTTGAAAGGAGTGCC
4754783 ACTGACTTGTGGGCTTTGAAAGG
1 ACTGACTTGTGGGCTTTGAAAGG
4754806 GATGAACATT
Statistics
Matches: 529, Mismatches: 30, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
26 5 0.01
27 1 0.00
28 222 0.42
29 301 0.57
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.29
Consensus pattern (29 bp):
ACTGACTTGTGGGCTTTGAAAGGAGTGCC
Found at i:4756038 original size:11 final size:11
Alignment explanation
Indices: 4756025--4756096 Score: 94
Period size: 11 Copynumber: 6.7 Consensus size: 11
4756015 GACCCTTCTA
* *
4756025 TTTTTTTGCTA
1 TTTTTTTGTTT
*
4756036 TTTTTTT-CTT
1 TTTTTTTGTTT
4756046 TTTTTTT-TTT
1 TTTTTTTGTTT
*
4756056 TTGTTTTGTTT
1 TTTTTTTGTTT
4756067 TTTTTTTGTTT
1 TTTTTTTGTTT
4756078 TTTTTTTGTTT
1 TTTTTTTGTTT
4756089 TTTTTTTG
1 TTTTTTTG
4756097 GGTGTAAAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
10 17 0.30
11 39 0.70
ACGTcount: A:0.01, C:0.03, G:0.08, T:0.88
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:4756040 original size:1 final size:1
Alignment explanation
Indices: 4756036--4756095 Score: 75
Period size: 1 Copynumber: 60.0 Consensus size: 1
4756026 TTTTTTGCTA
* * * * *
4756036 TTTTTTTCTTTTTTTTTTTTTTGTTTTGTTTTTTTTTTGTTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4756096 GGGTGTAAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.92
Consensus pattern (1 bp):
T
Found at i:4756067 original size:27 final size:26
Alignment explanation
Indices: 4756025--4756095 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
4756015 GACCCTTCTA
* *
4756025 TTTTTTTGCTATTTTTTTCTTTT-TTT
1 TTTTTTTG-TTTTTTTTTTTTTTGTTT
4756051 TTTTTTTGTTTTGTTTTTTTTTTGTTT
1 TTTTTTTGTTTT-TTTTTTTTTTGTTT
4756078 TTTTTTTGTTTTTTTTTT
1 TTTTTTTGTTTTTTTTTT
4756096 GGGTGTAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 3 0.07
26 23 0.56
27 15 0.37
ACGTcount: A:0.01, C:0.03, G:0.07, T:0.89
Consensus pattern (26 bp):
TTTTTTTGTTTTTTTTTTTTTTGTTT
Found at i:4770150 original size:20 final size:20
Alignment explanation
Indices: 4770103--4770177 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
4770093 AAAAAGACAT
* ** *
4770103 AATGTATTGATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
4770123 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
4770143 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
4770163 AATGTATCGATACAT
1 AATGTATCGATACAT
4770178 CAGGGTATGA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:4770171 original size:40 final size:39
Alignment explanation
Indices: 4770100--4770177 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
4770090 GGTAAAAAGA
* * *
4770100 CATAATGTATTGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4770139 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4770178 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4770987 original size:23 final size:23
Alignment explanation
Indices: 4770961--4771017 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
4770951 ATAATTAAGG
*
4770961 TGTATAATAAACTTTGTACACAA
1 TGTATAATAAAATTTGTACACAA
*
4770984 TGTATAATAAAATTTTTACACAA
1 TGTATAATAAAATTTGTACACAA
4771007 TGTATAATAAA
1 TGTATAATAAA
4771018 GTTGAAACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (23 bp):
TGTATAATAAAATTTGTACACAA
Found at i:4773414 original size:50 final size:50
Alignment explanation
Indices: 4773344--4773565 Score: 345
Period size: 50 Copynumber: 4.4 Consensus size: 50
4773334 AACTTGATGG
* * *
4773344 ACCTTTCTCTATTGTTAAAGGTTGGTGAAGAATCGTCAACAATTATGGAC
1 ACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCC
* *
4773394 ACCTCTTTCTATTGTCAAAGGTTGATGAAGAATCGTCAACAATTATGGCC
1 ACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCC
* * * *
4773444 ACCTCTCTCTATTATCAAAGGTTGGTAAAAAATCGTCAACAATTACGGCC
1 ACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCC
* *
4773494 ACCTCTCTTTATTGTCAAATGTTGGTGAAGAATCGTCAACAATTATGGCC
1 ACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCC
4773544 ACCTCTCTCTATTGTCAAAGGT
1 ACCTCTCTCTATTGTCAAAGGT
4773566 ACTTTCCACC
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 153 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (50 bp):
ACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCC
Found at i:4777986 original size:50 final size:50
Alignment explanation
Indices: 4777932--4778166 Score: 285
Period size: 50 Copynumber: 4.7 Consensus size: 50
4777922 TATACTTAGA
*
4777932 GTCAATAATTATGGTCACCTTTTTCTATTGTCAAAAGTTGATGAAGAATC
1 GTCAATAATTATGGTCACCTTTCTCTATTGTCAAAAGTTGATGAAGAATC
* * * * *
4777982 GTCAACAATTATGGCCACCTCTCTTTATTGTC-AAAGATTGGTGAAGAATC
1 GTCAATAATTATGGTCACCTTTCTCTATTGTCAAAAG-TTGATGAAGAATC
* * *
4778032 GTCAATAATTATGGTCA-CTTCTCTATATTGTCAAATGTTGGTGAAGAATC
1 GTCAATAATTATGGTCACCTT-TCTCTATTGTCAAAAGTTGATGAAGAATC
* * * * *
4778082 GTCAATAATTACGGCCATCTCTCTCTATTATCAAAAGTTGATGAAGAATC
1 GTCAATAATTATGGTCACCTTTCTCTATTGTCAAAAGTTGATGAAGAATC
* * *
4778132 ATCAATAATTATGATCACCTCTCTCTATTGTCAAA
1 GTCAATAATTATGGTCACCTTTCTCTATTGTCAAA
4778167 GGTGCTTTCC
Statistics
Matches: 157, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 6 0.04
50 146 0.93
51 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (50 bp):
GTCAATAATTATGGTCACCTTTCTCTATTGTCAAAAGTTGATGAAGAATC
Found at i:4778078 original size:100 final size:100
Alignment explanation
Indices: 4777932--4778166 Score: 321
Period size: 100 Copynumber: 2.4 Consensus size: 100
4777922 TATACTTAGA
* *
4777932 GTCAATAATTATGGTCACCTT-TTTCTATTGTCAAAAGTTGATGAAGAATCGTCAACAATTATGG
1 GTCAATAATTATGGTCA-CTTCTCTCTATTGTCAAAAGTTGATGAAGAATCGTCAACAATTACGG
* * *
4777996 CCACCTCTCTTTATTGTC-AAAGATTGGTGAAGAATC
65 CCACCTCTCTCTATTATCAAAAG-TTGATGAAGAATC
* * * *
4778032 GTCAATAATTATGGTCACTTCTCTATATTGTCAAATGTTGGTGAAGAATCGTCAATAATTACGGC
1 GTCAATAATTATGGTCACTTCTCTCTATTGTCAAAAGTTGATGAAGAATCGTCAACAATTACGGC
*
4778097 CATCTCTCTCTATTATCAAAAGTTGATGAAGAATC
66 CACCTCTCTCTATTATCAAAAGTTGATGAAGAATC
* * *
4778132 ATCAATAATTATGATCACCTCTCTCTATTGTCAAA
1 GTCAATAATTATGGTCACTTCTCTCTATTGTCAAA
4778167 GGTGCTTTCC
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
99 3 0.03
100 112 0.94
101 4 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (100 bp):
GTCAATAATTATGGTCACTTCTCTCTATTGTCAAAAGTTGATGAAGAATCGTCAACAATTACGGC
CACCTCTCTCTATTATCAAAAGTTGATGAAGAATC
Found at i:4779449 original size:2 final size:2
Alignment explanation
Indices: 4779444--4779478 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4779434 TTTTTTATTT
4779444 TA TA TA 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
4779479 GAGGATTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4779736 original size:20 final size:20
Alignment explanation
Indices: 4779711--4779752 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4779701 TTATATAAAA
4779711 TTTAAATCAATTT-TATTTAT
1 TTTAAAT-AATTTATATTTAT
4779731 TTTAAATAATTTATATTTAT
1 TTTAAATAATTTATATTTAT
4779751 TT
1 TT
4779753 AATTTGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAAATAATTTATATTTAT
Found at i:4780081 original size:8 final size:7
Alignment explanation
Indices: 4780054--4780078 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4780044 TAGATATCTC
4780054 TTTTATT
1 TTTTATT
4780061 TTTTATT
1 TTTTATT
4780068 TTTTATT
1 TTTTATT
4780075 TTTT
1 TTTT
4780079 TATAATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:4780977 original size:5 final size:5
Alignment explanation
Indices: 4780959--4780990 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
4780949 ACATCCAATT
4780959 AAAT- AAAT- AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT
4780991 TTGAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:4783189 original size:129 final size:129
Alignment explanation
Indices: 4782959--4783221 Score: 526
Period size: 129 Copynumber: 2.0 Consensus size: 129
4782949 TAAACTTCCT
4782959 TTCTCATTAAAACATTTCTTAAACTTGTGATATTTACATAATATTACCAAAAGGGTTTTCGGATT
1 TTCTCATTAAAACATTTCTTAAACTTGTGATATTTACATAATATTACCAAAAGGGTTTTCGGATT
4783024 TCAATGGAGCAGCTATCCACATTGGACCATTGTAATGCAAAAGGGAGCATTATATTGTATCATA
66 TCAATGGAGCAGCTATCCACATTGGACCATTGTAATGCAAAAGGGAGCATTATATTGTATCATA
4783088 TTCTCATTAAAACATTTCTTAAACTTGTGATATTTACATAATATTACCAAAAGGGTTTTCGGATT
1 TTCTCATTAAAACATTTCTTAAACTTGTGATATTTACATAATATTACCAAAAGGGTTTTCGGATT
4783153 TCAATGGAGCAGCTATCCACATTGGACCATTGTAATGCAAAAGGGAGCATTATATTGTATCATA
66 TCAATGGAGCAGCTATCCACATTGGACCATTGTAATGCAAAAGGGAGCATTATATTGTATCATA
4783217 TTCTC
1 TTCTC
4783222 CAAATTGCAA
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 134 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.35
Consensus pattern (129 bp):
TTCTCATTAAAACATTTCTTAAACTTGTGATATTTACATAATATTACCAAAAGGGTTTTCGGATT
TCAATGGAGCAGCTATCCACATTGGACCATTGTAATGCAAAAGGGAGCATTATATTGTATCATA
Found at i:4789900 original size:31 final size:29
Alignment explanation
Indices: 4789843--4789907 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 29
4789833 ATTTATATTT
*
4789843 AATTATAA-AATATATAAATATAAAAATA
1 AATTTTAATAATATATAAATATAAAAATA
4789871 ATATTTTAATAATATAATAAATA-ATAAAATA
1 A-ATTTTAATAATAT-ATAAATATA-AAAATA
4789902 AATTTT
1 AATTTT
4789908 CAAGTTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 1 0.03
29 6 0.19
30 11 0.34
31 14 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
AATTTTAATAATATATAAATATAAAAATA
Found at i:4790673 original size:8 final size:8
Alignment explanation
Indices: 4790653--4790692 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
4790643 GAAAGATTAA
4790653 TTTTTTT-
1 TTTTTTTC
*
4790660 TCTTTTTC
1 TTTTTTTC
4790668 TTTTTTTC
1 TTTTTTTC
4790676 --TTTTTC
1 TTTTTTTC
4790682 TTTTTTTC
1 TTTTTTTC
4790690 TTT
1 TTT
4790693 CTCTTATCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
6 6 0.21
7 6 0.21
8 16 0.57
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:4790673 original size:14 final size:14
Alignment explanation
Indices: 4790654--4790697 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
4790644 AAAGATTAAT
4790654 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
4790668 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
*
4790682 TTTTTTTCTTTCTC
1 TTTTTTTCTTTTTC
4790696 TT
1 TT
4790698 ATCATTCAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:4791269 original size:30 final size:30
Alignment explanation
Indices: 4791234--4791297 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
4791224 TAAATCATTT
4791234 AAAATTAA-AGTTGAGTGAA-AAAATTTAATC
1 AAAATTAATA-TTGAGT-AACAAAATTTAATC
*
4791264 AAAATTAATATTTAGTAACAAAATTTAATC
1 AAAATTAATATTGAGTAACAAAATTTAATC
4791294 AAAA
1 AAAA
4791298 GTAGTGGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 2 0.06
30 28 0.90
31 1 0.03
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (30 bp):
AAAATTAATATTGAGTAACAAAATTTAATC
Found at i:4791653 original size:32 final size:32
Alignment explanation
Indices: 4791593--4791681 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 32
4791583 AATGACTATT
4791593 AAATTTATAATAAAATTATATCTAATATTCATC
1 AAATTTATAA-AAAATTATATCTAATATTCATC
* * *
4791626 AAATTTA-AAAATAATTTTATTTAATATTTATC
1 AAATTTATAAAA-AATTATATCTAATATTCATC
4791658 AAATTTAT-AAAAATTATATCTAAT
1 AAATTTATAAAAAATTATATCTAAT
4791682 CATTAAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
31 13 0.27
32 29 0.59
33 7 0.14
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (32 bp):
AAATTTATAAAAAATTATATCTAATATTCATC
Found at i:4793389 original size:30 final size:30
Alignment explanation
Indices: 4793353--4793412 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4793343 GGTCTTGGAA
4793353 TAAAAATTGCCTGTGTTTGAAAAATAAACT
1 TAAAAATTGCCTGTGTTTGAAAAATAAACT
4793383 TAAAAATTGCCTGTGTTTGAAAAATAAACT
1 TAAAAATTGCCTGTGTTTGAAAAATAAACT
4793413 ATGACATTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (30 bp):
TAAAAATTGCCTGTGTTTGAAAAATAAACT
Found at i:4802044 original size:20 final size:20
Alignment explanation
Indices: 4802000--4802073 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 20
4801990 TTCTACTATT
* *
4802000 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATA-AGTGAA
4802021 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* * **
4802041 TGTATTGATATATGCGTGAAA
1 TGTATCGATACATAAGTG-AA
4802062 TGTATCGATACA
1 TGTATCGATACA
4802074 AAACCACTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 19 0.43
21 25 0.57
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:4808246 original size:97 final size:97
Alignment explanation
Indices: 4808112--4808291 Score: 238
Period size: 97 Copynumber: 1.9 Consensus size: 97
4808102 AAATTTTATT
* * * *
4808112 CATCGGGGATACTCCAACCCCTTCATTCCGAAGGGATACT-CAAGCCTCGCTTTTAAACTCATCA
1 CATCGGGGATACTCCAACCCATTCACTCCGAAGGGATACTCCAA-CCCCACTTTTAAACTCATCA
*
4808176 AAATTTAAATCTTATTTTTGCCTAAATTGTCAC
65 AAATTCAAATCTTATTTTTGCCTAAATTGTCAC
* * * *
4808209 CATCGGGGATACTCTAATCCCATTC-CTCCGAGGGGATACTCCAACCCCACTTTTACACTTATCA
1 CATCGGGGATACTCCAA-CCCATTCACTCCGAAGGGATACTCCAACCCCACTTTTAAACTCATCA
*
4808273 AGATTCAAATCTTATTTTT
65 AAATTCAAATCTTATTTTT
4808292 ACTCAAATTA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
97 62 0.87
98 9 0.13
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (97 bp):
CATCGGGGATACTCCAACCCATTCACTCCGAAGGGATACTCCAACCCCACTTTTAAACTCATCAA
AATTCAAATCTTATTTTTGCCTAAATTGTCAC
Found at i:4809323 original size:15 final size:15
Alignment explanation
Indices: 4809303--4809331 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4809293 ATACAATGGC
4809303 ATGATTATGTTCCCA
1 ATGATTATGTTCCCA
4809318 ATGATTATGTTCCC
1 ATGATTATGTTCCC
4809332 GATTCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (15 bp):
ATGATTATGTTCCCA
Found at i:4810513 original size:21 final size:20
Alignment explanation
Indices: 4810483--4810521 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
4810473 CACATTTTTG
4810483 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
4810503 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
4810522 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:4810604 original size:19 final size:19
Alignment explanation
Indices: 4810580--4810693 Score: 144
Period size: 19 Copynumber: 6.6 Consensus size: 19
4810570 AAACAGAAAC
4810580 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
4810599 TGTATCGAT--ATAA----
1 TGTATCGATACATAAGTGT
4810612 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
4810631 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
4810644 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
4810663 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
4810682 TGTATCGATACA
1 TGTATCGATACA
4810694 ATGTATCGCT
Statistics
Matches: 83, Mismatches: 0, Indels: 24
0.78 0.00 0.22
Matches are distributed among these distances:
13 20 0.24
15 6 0.07
17 6 0.07
19 51 0.61
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:4810621 original size:32 final size:32
Alignment explanation
Indices: 4810580--4810674 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
4810570 AAACAGAAAC
*
4810580 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4810612 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4810644 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
4810675 TAAGTGTTGT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4810641 original size:51 final size:51
Alignment explanation
Indices: 4810609--4810706 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
4810599 TGTATCGATA
*
4810609 TAATGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAG
1 TAATGTATCGATACATAAGTGTTGTATCGATACAAAGTATCGATACATAAG
** * *
4810660 TGTTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGCTACA
1 TAATGTATCGATACATAAGTGTTGTATCGATACAAAGTATCGATACA
4810707 AAGCTACTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (51 bp):
TAATGTATCGATACATAAGTGTTGTATCGATACAAAGTATCGATACATAAG
Found at i:4810654 original size:13 final size:13
Alignment explanation
Indices: 4810599--4810655 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
4810589 ACATAAGTGT
*
4810599 TGTATCGATATAA
1 TGTATCGATACAA
4810612 TGTATCGATACATAA
1 TGTATCGATAC--AA
4810627 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
4810644 TGTATCGATACA
1 TGTATCGATACA
4810656 TAAGTGTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4813916 original size:14 final size:13
Alignment explanation
Indices: 4813897--4813937 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
4813887 AGAAAAAGTA
4813897 TTTTATTTTTTACT
1 TTTTATTTTTTA-T
4813911 TTTTATTTTATTAT
1 TTTTATTTT-TTAT
*
4813925 TATTATTTTTTAT
1 TTTTATTTTTTAT
4813938 AAGGGTGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 4 0.16
14 18 0.72
15 3 0.12
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:4814483 original size:115 final size:111
Alignment explanation
Indices: 4814305--4814728 Score: 428
Period size: 115 Copynumber: 3.8 Consensus size: 111
4814295 ACATTACACG
* *
4814305 AAAAATGAATTATCCTATATAAAGGACATTTGTACGCCACTTTATGACTCTAGACAATGACCTAT
1 AAAAATGAATTATCCTATATAAAGGACATTCGTACGCCACTTTATGACTCTAGACAATAACCTAT
4814370 TTTAGGGCCAATCCCTTGGTGCCCACATCTACGTAATTAATGCAAAAAA
66 TTTAGGGCCAATCCCTTGGTGCCCA-ATCTACGTAATTAATGC--AAAA
* * *
4814419 AAAAATGAATTATCCTATATAAAGGGGCATTCGTACACCACTTTATGACTTTAGACAATAACCTA
1 AAAAATGAATTATCCTATATAAA-GGACATTCGTACGCCACTTTATGACTCTAGACAATAACCTA
* ** *** * *
4814484 TTTCAAAGCCAATATTTTGGTGCCTGAATCTACGTAATTAATGC-CAA
65 TTTTAGGGCCAATCCCTTGGTGCC-CAATCTACGTAATTAATGCAAAA
* * * * * *
4814531 AAAAATGAATTATTCTAAATAAAGGACGTTCGTACGGCACATTATGACTCTAGACAATAATCTA-
1 AAAAATGAATTATCCTATATAAAGGACATTCGTACGCCACTTTATGACTCTAGACAATAACCTAT
* * * * *
4814595 TTTCGAGGCTAATCCCTTGGTGTCCAAATACTATGTAATTTATGCAAAA
66 TTTAG-GGCCAATCCCTTGGTG-CCCAAT-CTACGTAATTAATGCAAAA
* * * * * * **
4814644 AAAAAT---TT-TCCTACATAAAGGGCATTCGTACGCCACTTTACGAATCTAGATAATGATTTAT
1 AAAAATGAATTATCCTATATAAAGGACATTCGTACGCCACTTTATGACTCTAGACAATAACCTAT
* *
4814705 TTTGGGGCTAATCCCTTGGTGCCC
66 TTTAGGGCCAATCCCTTGGTGCCC
4814729 GCATATTACA
Statistics
Matches: 256, Mismatches: 47, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
108 2 0.01
109 57 0.22
110 8 0.03
111 48 0.19
112 38 0.15
113 8 0.03
114 23 0.09
115 71 0.28
116 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (111 bp):
AAAAATGAATTATCCTATATAAAGGACATTCGTACGCCACTTTATGACTCTAGACAATAACCTAT
TTTAGGGCCAATCCCTTGGTGCCCAATCTACGTAATTAATGCAAAA
Found at i:4814749 original size:109 final size:109
Alignment explanation
Indices: 4814237--4814750 Score: 387
Period size: 109 Copynumber: 4.7 Consensus size: 109
4814227 GTATGTCACT
* * * * * * *
4814237 TTTATGACCCTAGAC-A-AGCCCATTTCAAAGCCAATCCCTTGGTGCCCGA-GTGCTATGTACAT
1 TTTATGACTCTAGACAATAACCTATTTCAAGGCCAATCCCTTGGTGCCC-ACATACTACGTA-AT
* ** * *
4814299 TACACG-AAAAATGAATTATCCTATATAAAGGACATTTGTACGCCAC
64 TA-ATGCAAAAAAAAATTTTCCTATATAAAGGACATTCGTACGCCAC
* * *
4814345 TTTATGACTCTAGACAATGACCTATTTTAGGGCCAATCCCTTGGTGCCCACAT-CTACGTAATTA
1 TTTATGACTCTAGACAATAACCTATTTCAAGGCCAATCCCTTGGTGCCCACATACTACGTAATTA
* *
4814409 ATGCAAAAAAAAAAATGAATTATCCTATATAAAGGGGCATTCGTACACCAC
66 ATGC--AAAAAAAAAT---TT-TCCTATATAAA-GGACATTCGTACGCCAC
* * *** *
4814460 TTTATGACTTTAGACAATAACCTATTTCAAAGCCAATATTTTGGTGCCTGA-AT-CTACGTAATT
1 TTTATGACTCTAGACAATAACCTATTTCAAGGCCAATCCCTTGGTGCC-CACATACTACGTAATT
* * *
4814523 AATGCCAAAAAAATGAATTATT-CTAAATAAAGGACGTTCGTACGGCAC
65 AATG-CAAAAAAA--AATT-TTCCTATATAAAGGACATTCGTACGCCAC
* * * * * * * *
4814571 ATTATGACTCTAGACAATAATCTATTTCGAGGCTAATCCCTTGGTGTCCAAATACTATGTAATTT
1 TTTATGACTCTAGACAATAACCTATTTCAAGGCCAATCCCTTGGTGCCCACATACTACGTAATTA
* *
4814636 ATGCAAAAAAAAATTTTCCTACATAAAGGGCATTCGTACGCCAC
66 ATGCAAAAAAAAATTTTCCTATATAAAGGACATTCGTACGCCAC
* * * * ** *** * * * * *
4814680 TTTACGAATCTAGATAATGATTTATTTTGGGGCTAATCCCTTGGTGCCCGCATATTACATAACTA
1 TTTATGACTCTAGACAATAACCTATTTCAAGGCCAATCCCTTGGTGCCCACATACTACGTAATTA
4814745 ATGCAA
66 ATGCAA
4814751 TTAAATCCCA
Statistics
Matches: 324, Mismatches: 63, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
107 2 0.01
108 20 0.06
109 89 0.27
110 35 0.11
111 61 0.19
112 20 0.06
113 3 0.01
114 19 0.06
115 70 0.22
116 5 0.02
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (109 bp):
TTTATGACTCTAGACAATAACCTATTTCAAGGCCAATCCCTTGGTGCCCACATACTACGTAATTA
ATGCAAAAAAAAATTTTCCTATATAAAGGACATTCGTACGCCAC
Found at i:4814964 original size:31 final size:31
Alignment explanation
Indices: 4814929--4814988 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
4814919 CTCCAGATTA
*
4814929 TAAATGTTTATCAAAATATGTT-TTTTTATCT
1 TAAAT-TTTATAAAAATATGTTATTTTTATCT
* *
4814960 TAAATTTTTTAAAAATATTTTATTTTTAT
1 TAAATTTTATAAAAATATGTTATTTTTAT
4814989 TATATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (31 bp):
TAAATTTTATAAAAATATGTTATTTTTATCT
Found at i:4815600 original size:15 final size:14
Alignment explanation
Indices: 4815575--4815626 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 14
4815565 TTCCTTATTC
4815575 TTTTCTTCTTTCCT
1 TTTTCTTCTTTCCT
4815589 TTTTCTTTCTTTCTCAT
1 TTTTC-TTCTTTC-C-T
*
4815606 TTCTTCCTCTTTCCT
1 TT-TTCTTCTTTCCT
4815621 TTTTCT
1 TTTTCT
4815627 CACTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 8 0.25
15 10 0.31
16 2 0.06
17 9 0.28
18 3 0.09
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTCTTTCCT
Found at i:4826912 original size:26 final size:26
Alignment explanation
Indices: 4826876--4826930 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
4826866 AGATATTCAG
4826876 ATATTTTGAAGAATGATGATGTAAAA
1 ATATTTTGAAGAATGATGATGTAAAA
4826902 ATATTTTGAAGAATGATGATGTAAAA
1 ATATTTTGAAGAATGATGATGTAAAA
4826928 ATA
1 ATA
4826931 ATGAATAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATTTTGAAGAATGATGATGTAAAA
Found at i:4833056 original size:2 final size:2
Alignment explanation
Indices: 4833049--4833095 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
4833039 GGATTACTAA
*
4833049 AG AG AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4833091 AG AG A
1 AG AG A
4833096 ATGAGTTAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.02, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4833995 original size:23 final size:23
Alignment explanation
Indices: 4833969--4834013 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
4833959 TAATTTAATC
4833969 ATAATTCTGGTAAA-AAAATAAAT
1 ATAATTC-GGTAAACAAAATAAAT
4833992 ATAATTCGGTAAACTAAAATAA
1 ATAATTCGGTAAAC-AAAATAA
4834014 CAAAACCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 7 0.35
ACGTcount: A:0.56, C:0.07, G:0.09, T:0.29
Consensus pattern (23 bp):
ATAATTCGGTAAACAAAATAAAT
Found at i:4835182 original size:24 final size:26
Alignment explanation
Indices: 4835141--4835191 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 26
4835131 TTTATTATAT
* *
4835141 GTTATAATAATTTTTATTATAGTTTA
1 GTTATAATAATTTATATTATAATTTA
*
4835167 GTTA-AAT-ATTTATATTTTAATTTA
1 GTTATAATAATTTATATTATAATTTA
4835191 G
1 G
4835192 AAATATGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 15 0.68
25 3 0.14
26 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (26 bp):
GTTATAATAATTTATATTATAATTTA
Found at i:4836779 original size:16 final size:16
Alignment explanation
Indices: 4836760--4836795 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4836750 ATTTTTTTAA
4836760 AAATTTAAATTATTTT
1 AAATTTAAATTATTTT
* *
4836776 AAATTTTAATTGTTTT
1 AAATTTAAATTATTTT
4836792 AAAT
1 AAAT
4836796 ATTTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
AAATTTAAATTATTTT
Found at i:4837516 original size:19 final size:19
Alignment explanation
Indices: 4837488--4837531 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
4837478 ATATGATCAT
*
4837488 TTTTTATTTTTT-ATCCAC
1 TTTTTATTTTTTAATCAAC
*
4837506 TTTTTATTTTTTAATCAAT
1 TTTTTATTTTTTAATCAAC
4837525 TTTTTAT
1 TTTTTAT
4837532 CAGTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTATTTTTTAATCAAC
Found at i:4837527 original size:18 final size:17
Alignment explanation
Indices: 4837483--4837528 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
4837473 TAAAAATATG
*
4837483 ATCATTTTTTATTTTTT
1 ATCAATTTTTATTTTTT
*
4837500 ATCCACTTTTTATTTTTT
1 AT-CAATTTTTATTTTTT
4837518 AATCAATTTTT
1 -ATCAATTTTT
4837529 TATCAGTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (17 bp):
ATCAATTTTTATTTTTT
Found at i:4837575 original size:25 final size:26
Alignment explanation
Indices: 4837539--4837592 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
4837529 TATCAGTAAA
* * *
4837539 ATTTTTAAAATAATAATAATTAATTT
1 ATTTTTAAAATAAAAATAAATAATAT
4837565 ATTTTT-AAATAAAAATAAATAATAT
1 ATTTTTAAAATAAAAATAAATAATAT
4837590 ATT
1 ATT
4837593 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTTTTAAAATAAAAATAAATAATAT
Found at i:4839659 original size:11 final size:11
Alignment explanation
Indices: 4839645--4839704 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 11
4839635 TTAATTTAAA
4839645 ATATTTAAAAT
1 ATATTTAAAAT
4839656 ATATTTAATAAAAT
1 ATA-TT--TAAAAT
4839670 ATATTTAAAAT
1 ATATTTAAAAT
*
4839681 AAATTTAATAAAAT
1 ATA-TT--TAAAAT
4839695 ATATTTAAAA
1 ATATTTAAAA
4839705 ATAAAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
11 16 0.39
12 4 0.10
13 4 0.10
14 17 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATTTAAAAT
Found at i:4839663 original size:25 final size:25
Alignment explanation
Indices: 4839645--4839709 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
4839635 TTAATTTAAA
*
4839645 ATATTTAAAATATATTTAATAAAAT
1 ATATTTAAAATAAATTTAATAAAAT
4839670 ATATTTAAAATAAATTTAATAAAAT
1 ATATTTAAAATAAATTTAATAAAAT
4839695 ATATTTAAAAATAAA
1 ATATTT-AAAATAAA
4839710 AAAATCGACC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 30 0.79
26 8 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATATTTAAAATAAATTTAATAAAAT
Found at i:4839681 original size:16 final size:14
Alignment explanation
Indices: 4839650--4839702 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
4839640 TTAAAATATT
4839650 TAAAATATATTTAA
1 TAAAATATATTTAA
4839664 TAAAATATA-TT--
1 TAAAATATATTTAA
*
4839675 TAAAATAAATTTAA
1 TAAAATATATTTAA
4839689 TAAAATATATTTAA
1 TAAAATATATTTAA
4839703 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 8 0.24
12 2 0.06
13 2 0.06
14 22 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAATATATTTAA
Found at i:4846911 original size:13 final size:13
Alignment explanation
Indices: 4846893--4846948 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
4846883 ATGATAAATA
4846893 TATCGATACAATG
1 TATCGATACAATG
4846906 TATCGAT---AT-
1 TATCGATACAATG
*
4846915 AAT-GATA-AATG
1 TATCGATACAATG
*
4846926 TATTGATACAATG
1 TATCGATACAATG
4846939 TATCGATACA
1 TATCGATACA
4846949 TTTATTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
8 3 0.09
9 2 0.06
10 4 0.11
11 2 0.06
12 4 0.11
13 20 0.57
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:4846912 original size:33 final size:33
Alignment explanation
Indices: 4846870--4846968 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
4846860 AAAAACTCAG
*
4846870 ATGTATCGATACAATGATAAATATATCGATACA
1 ATGTATCGATACAATGATAAATGTATCGATACA
* *
4846903 ATGTATCGATATAATGATAAATGTATTGATACA
1 ATGTATCGATACAATGATAAATGTATCGATACA
* * *
4846936 ATGTATCGATACATTTATTAATGTATCGATACA
1 ATGTATCGATACAATGATAAATGTATCGATACA
4846969 TTTCCTTGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACAATGATAAATGTATCGATACA
Found at i:4846927 original size:20 final size:21
Alignment explanation
Indices: 4846897--4846938 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4846887 TAAATATATC
*
4846897 GATACAATGTATCGATATAAT
1 GATACAATGTATCGATACAAT
*
4846918 GATA-AATGTATTGATACAAT
1 GATACAATGTATCGATACAAT
4846938 G
1 G
4846939 TATCGATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (21 bp):
GATACAATGTATCGATACAAT
Found at i:4847187 original size:62 final size:62
Alignment explanation
Indices: 4847121--4847245 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
4847111 TCTAGAAATG
* *
4847121 TATCGATACATTTGGACAAAAATATGACTTTTTCATCCTTTTTGCCTTCCGAACACTCTATC
1 TATCGATACATTTGGACAAAAATATGACTTTTTCATCATTTTTACCTTCCGAACACTCTATC
* * *
4847183 TATCGATACATTTGGATAAAAATGTGACTTTTTCATCATTTTTACCTTTCGAACACTCTATC
1 TATCGATACATTTGGACAAAAATATGACTTTTTCATCATTTTTACCTTCCGAACACTCTATC
4847245 T
1 T
4847246 TGACTAGGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (62 bp):
TATCGATACATTTGGACAAAAATATGACTTTTTCATCATTTTTACCTTCCGAACACTCTATC
Found at i:4847955 original size:21 final size:21
Alignment explanation
Indices: 4847929--4848005 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
4847919 AAATTATCCA
4847929 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
4847950 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
4847971 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
4847992 AATGTATCGATACA
1 AATGTATCGATACA
4848006 GGGTCTCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:4848065 original size:19 final size:19
Alignment explanation
Indices: 4848041--4848108 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4848031 AATTCAACAA
4848041 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4848060 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4848075 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4848092 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4848109 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4848080 original size:13 final size:13
Alignment explanation
Indices: 4848062--4848086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4848052 ACATAAGTTT
4848062 TGTATCGATACAA
1 TGTATCGATACAA
4848075 TGTATCGATACA
1 TGTATCGATACA
4848087 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4848084 original size:32 final size:32
Alignment explanation
Indices: 4848043--4848105 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4848033 TTCAACAATT
*
4848043 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4848075 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4848106 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4848166 original size:13 final size:13
Alignment explanation
Indices: 4848148--4848173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4848138 CATTTTTCTG
4848148 TGTATCGATACAT
1 TGTATCGATACAT
4848161 TGTATCGATACAT
1 TGTATCGATACAT
4848174 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4848171 original size:33 final size:33
Alignment explanation
Indices: 4848129--4848194 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4848119 CCAAGGAAAA
***
4848129 GTATCGATACATTTTTCTGTGTATCGATACATT
1 GTATCGATACATGGATCTGTGTATCGATACATT
*
4848162 GTATCGATACATGGATCTTTGTATCGATACATT
1 GTATCGATACATGGATCTGTGTATCGATACATT
4848195 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
GTATCGATACATGGATCTGTGTATCGATACATT
Found at i:4850627 original size:51 final size:52
Alignment explanation
Indices: 4850551--4850649 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
4850541 AATTCTCCGC
* * * *
4850551 AATCGGGGATATTCCATCTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
4850602 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
4850650 TTTCACAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 30 0.70
52 13 0.30
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (52 bp):
AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
Found at i:4857081 original size:61 final size:60
Alignment explanation
Indices: 4857003--4858415 Score: 1559
Period size: 55 Copynumber: 24.3 Consensus size: 60
4856993 TTAGCCCTTC
*
4857003 CCAGTCCTCAAAAAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * *
4857064 CCAGTCCTCAAAGAGCAGGATGCTTTTTATTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTT
* * **
4857125 CCAGTCCCCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* **
4857185 -CAGTCCTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * * * *
4857244 -CAGTCCTTAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTT
* * * *
4857305 -CAGTCCCCAAAGAGCAGGAC-CC----CTTTCAAAGCCCGCACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTT
* **
4857360 -CAGTCCCCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* *
4857414 CCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCA-CTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * ** *
4857468 CCTAGTCTTCAGAGAGCAGGACGCCTTCACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CC-AGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * *
4857530 CCAATCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTT
* * * * **
4857591 CTAGTCCCCAAAGAGCAAGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
*
4857651 -CAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* *
4857711 CCAATCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* *
4857766 CCAATCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * *
4857821 CCAATCCTCAAAGAGCAGGATGCC-TTTC----GAAGCCCACACAAGTTGGTGGCATTTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTT
* *
4857877 TCAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * * * *
4857932 CCAATCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCTATACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTT
* * *
4857993 TCAGTCCCCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* *
4858054 CCAATCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * * *
4858109 CCAATCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTC
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * *
4858164 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* * * *
4858225 CCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGGCCACACAAGTTGGTGGCA-CTT
1 CCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
* *
4858285 CCTAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CC-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTT
*
4858342 -CAGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTT
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTT
*
4858397 -TAGTCCTCAAAGAGCAGGA
1 CCAGTCCTCAAAGAGCAGGA
4858416 TACACTTTAT
Statistics
Matches: 1209, Mismatches: 107, Indels: 78
0.87 0.08 0.06
Matches are distributed among these distances:
54 7 0.01
55 482 0.40
56 64 0.05
57 8 0.01
59 112 0.09
60 119 0.10
61 407 0.34
62 10 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (60 bp):
CCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
Found at i:4857605 original size:232 final size:230
Alignment explanation
Indices: 4857003--4858415 Score: 1620
Period size: 232 Copynumber: 6.1 Consensus size: 230
4856993 TTAGCCCTTC
* * *
4857003 CCAGTCCTCAAAAAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
*
4857068 TCCTCAAAGAGCAGGATGCTTTTTATTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCC
66 TCCTCAAAGAGCAGGATGC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCC
* * *
4857133 CAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCAGTCCTCAAAGA
130 CAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGA
*
4857198 GCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
190 GCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATCTT
* * * * * *
4857244 -CAGTCCTTAAAGAGTAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CA
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCA
* * * * *
4857307 GTCCCCAAAGAGCAGGA--C---CCCTTTCAAAGCCCGCACAAGTTGGTGGCACCTTT-CAGTCC
65 GTCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCC
* *
4857366 CCAAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
129 CCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCA
4857431 GGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-CTT
193 GGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATCTT
* * **
4857468 CCTAGTCTTCAGAGAGCAGGACGCCTTCACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
1 CC-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* *
4857533 ATCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
65 GTCCTCAAAGAGCAGGATGC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
* * * *
4857598 CCAAAGAGCAAGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCAGTCCTCAAAG
129 CCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAG
* *
4857663 AGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
189 AGCAGGA---C-AC--CTTTCAAAGCCCACACAAGTTGGTGGCATCTT
* * *
4857711 CCAATCCTCAAAGAGCAGGA------TGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAA
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* *
4857770 TCCTCAAAGAGCAGGATGC----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTC
66 TCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCCC
** * *
4857830 AAAGAGCAGGATGCCTTTCGAAGCCCACACAAGTTGGTGGCATTTTTTCAGTCCTCAAAGAGCAG
131 AAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA--CTTTCAGTCCTCAAAGAGCAG
** *
4857895 GATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
194 GACACCTTTCAAAGCCCACACAAGTTGGTGGCATCTT
* * * * * * *
4857932 CCAATCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCTATACAAGTTGGTGGCATTTTTCAG
1 CCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* * *
4857997 TCCCCAAAGAGCAGGACGCCTTCTTC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCC
66 TCCTCAAAGAGCAGGATG-CTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
* ** * *
4858061 TCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCA
129 CCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCA
4858126 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTT
193 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCATCTT
* * * *
4858163 CCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 -CCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* * *
4858228 GTCCTCAAAGAGCAGGATGCCTTCTCCTTTT-AAAGGCCACACAAGTTGGTGGCA-CTTCCTAGT
65 GTCCTCAAAGAGCAGGATG-CTT-TTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGT
* *
4858291 CCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
127 CCCCAAAGAGCAGGACCCCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGA
* *
4858355 GCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA-CTTT
190 GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATC-TT
**
4858396 TTAGTCCTCAAAGAGCAGGA
1 CCAGTCCTCAAAGAGCAGGA
4858416 TACACTTTAT
Statistics
Matches: 1023, Mismatches: 101, Indels: 105
0.83 0.08 0.09
Matches are distributed among these distances:
221 52 0.05
223 1 0.00
224 3 0.00
225 52 0.05
226 63 0.06
227 70 0.07
228 2 0.00
229 29 0.03
230 72 0.07
231 14 0.01
232 300 0.29
233 96 0.09
234 46 0.04
235 3 0.00
236 75 0.07
237 27 0.03
238 1 0.00
239 1 0.00
240 67 0.07
241 5 0.00
242 40 0.04
243 4 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (230 bp):
CCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
TCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCCC
AAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGA
CACCTTTCAAAGCCCACACAAGTTGGTGGCATCTT
Found at i:4857738 original size:27 final size:27
Alignment explanation
Indices: 4857708--4857848 Score: 78
Period size: 27 Copynumber: 5.1 Consensus size: 27
4857698 TTGGTGGCAT
4857708 TTTCCAATCCTCAAAGAGCAGGATGCC
1 TTTCCAATCCTCAAAGAGCAGGATGCC
* * ** *
4857735 TTTCAAAGCC-CACACA-AGTTGG-TGGCAT
1 TTTCCAATCCTCA-A-AGAGCAGGAT-GC-C
4857763 TTTCCAATCCTCAAAGAGCAGGATGCC
1 TTTCCAATCCTCAAAGAGCAGGATGCC
* * ** *
4857790 TTTCAAAGCC-CACACA-AGTTGG-TGGCAT
1 TTTCCAATCCTCA-A-AGAGCAGGAT-GC-C
4857818 TTTCCAATCCTCAAAGAGCAGGATGCC
1 TTTCCAATCCTCAAAGAGCAGGATGCC
4857845 TTTC
1 TTTC
4857849 GAAGCCCACA
Statistics
Matches: 80, Mismatches: 20, Indels: 28
0.62 0.16 0.22
Matches are distributed among these distances:
26 6 0.08
27 36 0.45
28 32 0.40
29 6 0.08
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (27 bp):
TTTCCAATCCTCAAAGAGCAGGATGCC
Found at i:4859120 original size:21 final size:21
Alignment explanation
Indices: 4859096--4859172 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
4859086 AATTTATCCA
4859096 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
4859117 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
4859138 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
4859159 AATGTATCGATACA
1 AATGTATCGATACA
4859173 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:4859232 original size:19 final size:20
Alignment explanation
Indices: 4859208--4859261 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
4859198 AATTCAACAA
4859208 TTTGTATCGATACATA-AGT-
1 TTTGTATCGATACATAGA-TC
* *
4859227 TTTGTATCGATAGATGGATC
1 TTTGTATCGATACATAGATC
4859247 TTTGTATCGATACAT
1 TTTGTATCGATACAT
4859262 TTGGAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTGTATCGATACATAGATC
Found at i:4861699 original size:51 final size:52
Alignment explanation
Indices: 4861623--4861721 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
4861613 AATTCTCCAC
* * * *
4861623 AATCGGGGATATTCCATCTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
4861674 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
4861722 TTTCACAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 30 0.70
52 13 0.30
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (52 bp):
AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
Done.