Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 114 of 126
Found at i:35062552 original size:40 final size:40
Alignment explanation
Indices: 35062497--35062646 Score: 169
Period size: 40 Copynumber: 3.8 Consensus size: 40
35062487 CCTACGGGAC
35062497 CGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACT
1 CGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACT
* *
35062537 CGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCT
1 CGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACT
* * * * * *
35062577 CGCACAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTT
1 CGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-T
* * *
35062618 AGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 CGCACGAATGCCTTCGGGACTTAACCCGGA
35062647 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 83 0.88
41 8 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACT
Found at i:35070354 original size:30 final size:31
Alignment explanation
Indices: 35070320--35070381 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 31
35070310 CAAGCTTAAT
35070320 AATTTAT-CA-TA-AAAATTCTAGAACATCTTA
1 AATTTATCCATTATAAAATTCTA-AACAT-TTA
35070350 AATTTATCCATTATAAAATTCTAAACATTTA
1 AATTTATCCATTATAAAATTCTAAACATTTA
35070381 A
1 A
35070382 GAGTTATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 7 0.24
31 6 0.21
32 7 0.24
33 9 0.31
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (31 bp):
AATTTATCCATTATAAAATTCTAAACATTTA
Found at i:35072062 original size:13 final size:12
Alignment explanation
Indices: 35072044--35072088 Score: 56
Period size: 13 Copynumber: 3.6 Consensus size: 12
35072034 GGACTCTATA
35072044 TATCTGTTCTGCT
1 TATCTGTTCTG-T
35072057 TATCTGATTCTGT
1 TATCTG-TTCTGT
35072070 TATCTGTATCTG-
1 TATCTGT-TCTGT
35072082 TATCTGT
1 TATCTGT
35072089 AATGGACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.27
13 17 0.57
14 5 0.17
ACGTcount: A:0.13, C:0.18, G:0.16, T:0.53
Consensus pattern (12 bp):
TATCTGTTCTGT
Found at i:35081268 original size:2 final size:2
Alignment explanation
Indices: 35081261--35081306 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
35081251 TAAATGGTTA
35081261 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
35081303 TG TG
1 TG TG
35081307 AAGTTGAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:35084561 original size:13 final size:13
Alignment explanation
Indices: 35084528--35084562 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
35084518 AATGAAATGG
* *
35084528 TTATATGAAGTGT
1 TTATATGAAATAT
35084541 TTATATGAAATAT
1 TTATATGAAATAT
35084554 TTATATGAA
1 TTATATGAA
35084563 TATAAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (13 bp):
TTATATGAAATAT
Found at i:35095958 original size:40 final size:40
Alignment explanation
Indices: 35095924--35096009 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
35095914 GGAAATGGTA
*
35095924 ATATGAAATGGATATACGAAATGTTTATACGGAAATAAAT
1 ATATGAAATGGATATACGAAATGTTGATACGGAAATAAAT
* * * **
35095964 ATATGAAATGGTTATATGAAGTGTTGATAC-GAAATATTT
1 ATATGAAATGGATATACGAAATGTTGATACGGAAATAAAT
35096003 ATATGAA
1 ATATGAA
35096010 TATAAATATG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 14 0.35
40 26 0.65
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.34
Consensus pattern (40 bp):
ATATGAAATGGATATACGAAATGTTGATACGGAAATAAAT
Found at i:35095980 original size:13 final size:13
Alignment explanation
Indices: 35095915--35095983 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
35095905 TGAGTAAATG
*
35095915 GAAATGGTAATAT
1 GAAATGGTTATAT
* *
35095928 GAAATGGATATAC
1 GAAATGGTTATAT
* *
35095941 GAAATGTTTATACG
1 GAAATGGTTATA-T
***
35095955 GAAATAAATATAT
1 GAAATGGTTATAT
35095968 GAAATGGTTATAT
1 GAAATGGTTATAT
35095981 GAA
1 GAA
35095984 GTGTTGATAC
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
13 33 0.79
14 9 0.21
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.30
Consensus pattern (13 bp):
GAAATGGTTATAT
Found at i:35095994 original size:53 final size:53
Alignment explanation
Indices: 35095915--35096024 Score: 134
Period size: 53 Copynumber: 2.1 Consensus size: 53
35095905 TGAGTAAATG
*
35095915 GAAATGGTAATATGAAATGGATATACGAAATGTTTATACGGAA-ATAAATATAT
1 GAAATGGTAATATGAAATGGATATACGAAATATTTATA-GGAATATAAATATAT
* * * * *
35095968 GAAATGGTTATATGAAGT-GTTGATACGAAATATTTATATGAATATAAATATGT
1 GAAATGGTAATATGAAATGGAT-ATACGAAATATTTATAGGAATATAAATATAT
35096021 GAAA
1 GAAA
35096025 AGGGACATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 5 0.10
53 44 0.90
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (53 bp):
GAAATGGTAATATGAAATGGATATACGAAATATTTATAGGAATATAAATATAT
Found at i:35102039 original size:20 final size:20
Alignment explanation
Indices: 35102016--35102133 Score: 87
Period size: 20 Copynumber: 5.9 Consensus size: 20
35102006 GATCAGGGAA
* *
35102016 ACTGAAGTGCAAACAGGGGC
1 ACTGAAGTACAATCAGGGGC
* * * *
35102036 ACTGACGTGCATTCAGGGGT
1 ACTGAAGTACAATCAGGGGC
* *
35102056 ACCGAAATACAATCAGGGGC
1 ACTGAAGTACAATCAGGGGC
* *
35102076 ACAT-AAGTACAATTAGGGGT
1 AC-TGAAGTACAATCAGGGGC
* *
35102096 ACTGAAGTACAAACAAGGGC
1 ACTGAAGTACAATCAGGGGC
*
35102116 AC-GTAAGTGCAATCAGGG
1 ACTG-AAGTACAATCAGGG
35102134 TATAATTTAC
Statistics
Matches: 74, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
19 2 0.03
20 72 0.97
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.16
Consensus pattern (20 bp):
ACTGAAGTACAATCAGGGGC
Found at i:35102094 original size:40 final size:40
Alignment explanation
Indices: 35102048--35102133 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
35102038 TGACGTGCAT
* *
35102048 TCAGGGGTACCGAAATACAATCAGGGGCACATAAGTACAA
1 TCAGGGGTACCGAAATACAAACAAGGGCACATAAGTACAA
* * * * *
35102088 TTAGGGGTACTGAAGTACAAACAAGGGCACGTAAGTGCAA
1 TCAGGGGTACCGAAATACAAACAAGGGCACATAAGTACAA
35102128 TCAGGG
1 TCAGGG
35102134 TATAATTTAC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.16
Consensus pattern (40 bp):
TCAGGGGTACCGAAATACAAACAAGGGCACATAAGTACAA
Found at i:35104744 original size:27 final size:26
Alignment explanation
Indices: 35104683--35104735 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
35104673 GCGAGCTAGT
* *
35104683 GTTCACCAGTTAAGTTACAAACTGGG
1 GTTCGCCAGGTAAGTTACAAACTGGG
* *
35104709 GTTCGCCAGGTAAGTTGCGAACTGGG
1 GTTCGCCAGGTAAGTTACAAACTGGG
35104735 G
1 G
35104736 GTTTCCCAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (26 bp):
GTTCGCCAGGTAAGTTACAAACTGGG
Found at i:35107112 original size:16 final size:15
Alignment explanation
Indices: 35107093--35107126 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35107083 TATTTATTTA
*
35107093 TTTGTTTTCTTTTTCT
1 TTTGTTTTC-CTTTCT
35107109 TTTGTTTTCCTTTCT
1 TTTGTTTTCCTTTCT
35107124 TTT
1 TTT
35107127 TTCATGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (15 bp):
TTTGTTTTCCTTTCT
Found at i:35112391 original size:26 final size:25
Alignment explanation
Indices: 35112355--35112420 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
35112345 ATAAAATACA
*
35112355 TCTTTGCATTCATTTTTGAGCCAA-TAT
1 TCTTT-CATTC-TTTTTGA-ACAATTAT
*
35112382 TCTTTCATTCTTTTTGAATAATTAT
1 TCTTTCATTCTTTTTGAACAATTAT
35112407 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
35112421 GGATTTTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 2 0.06
25 24 0.67
26 5 0.14
27 5 0.14
ACGTcount: A:0.20, C:0.17, G:0.06, T:0.58
Consensus pattern (25 bp):
TCTTTCATTCTTTTTGAACAATTAT
Found at i:35113525 original size:7 final size:7
Alignment explanation
Indices: 35113500--35113592 Score: 52
Period size: 7 Copynumber: 13.6 Consensus size: 7
35113490 AAAAATTAAA
35113500 AAAAAAG
1 AAAAAAG
*
35113507 AGAAAAG
1 AAAAAAG
35113514 AAAAAAG
1 AAAAAAG
*
35113521 AAAAAAT
1 AAAAAAG
* **
35113528 TAAAATC
1 AAAAAAG
35113535 AAAATAA-
1 AAAA-AAG
35113542 AAAAAATG
1 AAAAAA-G
*
35113550 AAAATAAT
1 AAAA-AAG
35113558 AAAAAAG
1 AAAAAAG
*
35113565 --AACAG
1 AAAAAAG
*
35113570 GAAAAAG
1 AAAAAAG
35113577 -AAAAAG
1 AAAAAAG
35113583 -AAAAAG
1 AAAAAAG
35113589 AAAA
1 AAAA
35113593 GGAGAGGTCA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
5 4 0.06
6 14 0.21
7 38 0.57
8 9 0.13
9 2 0.03
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.08
Consensus pattern (7 bp):
AAAAAAG
Found at i:35113538 original size:21 final size:21
Alignment explanation
Indices: 35113475--35113554 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
35113465 AGATTAATTC
*
35113475 AAAAAAATCAAAATCAAAAATTA
1 AAAAAAATGAAAATC-AAAA-TA
* **
35113498 AAAAAAAAGAGAAAAGAAAA-A
1 AAAAAAATGA-AAATCAAAATA
*
35113519 AGAAAAAATTAAAATCAAAATA
1 A-AAAAAATGAAAATCAAAATA
35113541 AAAAAAATGAAAAT
1 AAAAAAATGAAAAT
35113555 AATAAAAAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
21 21 0.47
22 9 0.20
23 12 0.27
24 3 0.07
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (21 bp):
AAAAAAATGAAAATCAAAATA
Found at i:35113547 original size:15 final size:16
Alignment explanation
Indices: 35113529--35113563 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
35113519 AGAAAAAATT
35113529 AAAATCAAAATAA-AA
1 AAAATCAAAATAATAA
*
35113544 AAAATGAAAATAATAA
1 AAAATCAAAATAATAA
35113560 AAAA
1 AAAA
35113564 GAACAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (16 bp):
AAAATCAAAATAATAA
Found at i:35113563 original size:45 final size:45
Alignment explanation
Indices: 35113476--35113566 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 45
35113466 GATTAATTCA
* *
35113476 AAAAAATCAAAATCAAAAATTAAAAAAAAAGAGAAAAGAAAAAAG
1 AAAAAATCAAAATCAAAAATTAAAAAAAAAGAAAAAAAAAAAAAG
* * *
35113521 AAAAAATTAAAATC-AAAA-TAAAAAAAATGAAAATAATAAAAAAG
1 AAAAAATCAAAATCAAAAATTAAAAAAAAAGAAAA-AAAAAAAAAG
35113565 AA
1 AA
35113567 CAGGAAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 13 0.32
44 15 0.37
45 13 0.32
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (45 bp):
AAAAAATCAAAATCAAAAATTAAAAAAAAAGAAAAAAAAAAAAAG
Found at i:35113576 original size:12 final size:12
Alignment explanation
Indices: 35113559--35113595 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
35113549 GAAAATAATA
*
35113559 AAAAAGAACAGG
1 AAAAAGAAAAGG
*
35113571 AAAAAGAAAAAG
1 AAAAAGAAAAGG
35113583 AAAAAGAAAAGG
1 AAAAAGAAAAGG
35113595 A
1 A
35113596 GAGGTCAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGG
Found at i:35113593 original size:5 final size:6
Alignment explanation
Indices: 35113559--35113592 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
35113549 GAAAATAATA
* *
35113559 AAAAAG AACAGG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
35113593 GGAGAGGTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:35116271 original size:85 final size:85
Alignment explanation
Indices: 35116179--35116442 Score: 286
Period size: 85 Copynumber: 3.1 Consensus size: 85
35116169 TCTCGTTGAA
35116179 GTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAGATTACAGTAGAGTAGATCGCA
1 GTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAGATTACAGTAGAGTAGATCGCA
35116244 TCAGGTCTTATCTCCCTGAG
66 TCAGGTCTTATCTCCCTGAG
* ** * * * **
35116264 GTTGCAGTGGAGCAGACTAAAGA-AACAGATCTTATCTCCCTAAGCCGTAGCGGAGTAGA-TAGA
1 GTTGCAGTGGAGCGGGTTAAA-ATAAAAGATCTTATCTCTCTGAG-ATTA-C--AGTAGAGTAGA
* * * *
35116327 -AGC--CAGTAATCCTATCTCCCTGAA
61 TCGCATCAG--GTCTTATCTCCCTGAG
*
35116351 GTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCA
1 GTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAGATTACAGTAGAGTAGATCGCA
* * *
35116416 TCAAGTATTATCTCTCTGAG
66 TCAGGTCTTATCTCCCTGAG
35116436 GTTGCAG
1 GTTGCAG
35116443 CAGAGCAGAA
Statistics
Matches: 140, Mismatches: 27, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
83 6 0.04
84 4 0.03
85 60 0.43
86 6 0.04
87 54 0.39
88 4 0.03
89 6 0.04
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (85 bp):
GTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAGATTACAGTAGAGTAGATCGCA
TCAGGTCTTATCTCCCTGAG
Found at i:35116353 original size:172 final size:172
Alignment explanation
Indices: 35116145--35116495 Score: 558
Period size: 172 Copynumber: 2.0 Consensus size: 172
35116135 TTGGCAATGA
* **
35116145 AGCAGATTGAAGCCAATAATCCTATCTCGTTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATC
1 AGCAGATAGAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATC
* * **
35116210 TTATCTCTCTGAGATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGA
66 TTATCTCTCTGAGATTACAGTAGAGTAGATCGCATCAAGTATTATCTCCCTGAGGTTGCAGCAGA
* * *
35116275 GCAGACTAAAGAAACAGATCTTATCTCCCTAAGCCGTAGCGG
131 GCAGAATAAAGAAACAAATCTTATCTCCCTAAGCAGTAGCGG
* *
35116317 AGTAGATAGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATC
1 AGCAGATAGAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATC
* *
35116382 TTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAAGTATTATCTCTCTGAGGTTGCAGCAGA
66 TTATCTCTCTGAGATTACAGTAGAGTAGATCGCATCAAGTATTATCTCCCTGAGGTTGCAGCAGA
* *
35116447 GCAGAATGAAGAAACAAATCTTATCTCCCTAAGCAGTAGTGG
131 GCAGAATAAAGAAACAAATCTTATCTCCCTAAGCAGTAGCGG
35116489 AGCAGAT
1 AGCAGAT
35116496 CGAGGATGGC
Statistics
Matches: 162, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
172 162 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (172 bp):
AGCAGATAGAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATC
TTATCTCTCTGAGATTACAGTAGAGTAGATCGCATCAAGTATTATCTCCCTGAGGTTGCAGCAGA
GCAGAATAAAGAAACAAATCTTATCTCCCTAAGCAGTAGCGG
Found at i:35116381 original size:87 final size:82
Alignment explanation
Indices: 35116148--35116410 Score: 235
Period size: 87 Copynumber: 3.1 Consensus size: 82
35116138 GCAATGAAGC
* **
35116148 AGATTGAAGCCAATAATCCTATCTCGTTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTA
1 AGATAGAAGCC-ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTA
* * *
35116213 TCTCTCTGAGATTACAGT
65 TCTCCCTAAGAGTACAGT
* * * * * ** *
35116231 AGAGTAG-ATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTAAAGA-AACAGAT
1 AGA-TAGAAGC-CAT-A-ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAA-ATAAAAGAT
*
35116294 CTTATCTCCCTAAGCCGTAGCGGAGT
61 CTTATCTCCCTAAG-AGTA-C--AGT
35116320 AGATAGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTA
1 AGATAGAAGCCA-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTA
* *
35116385 TCTCTCTGAG-GTTACAGT
65 TCTCCCTAAGAG-TACAGT
35116403 AGAGTAGA
1 AGA-TAGA
35116411 TCGCATCAAG
Statistics
Matches: 141, Mismatches: 25, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
83 13 0.09
84 8 0.06
85 49 0.35
86 6 0.04
87 50 0.35
88 6 0.04
89 9 0.06
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (82 bp):
AGATAGAAGCCATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTAT
CTCCCTAAGAGTACAGT
Found at i:35116573 original size:172 final size:171
Alignment explanation
Indices: 35116145--35116574 Score: 400
Period size: 172 Copynumber: 2.5 Consensus size: 171
35116135 TTGGCAATGA
* * ** ** * * * * *
35116145 AGCAGATTGAAGCCAATAATCCTATCTCGTTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATC
1 AGCAGATAGAAGCC-AGAATCCTATCTCCCTGAAGCCGCAGCGAAGCAGATTAAAACAAAAGATC
* * * **
35116210 TTATCTCTCTG-AGATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGG
65 CTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCATCAAGTATTATCTCCCTGAGGTTGCAGCAG
* * *
35116274 AGCAGACTAAAGAAACAGATCTTATCTCCCTAAGCCGTAGCGG
129 AGCAGAATAAAGAAACAAATCTTATCTCCCTAAGCAGTAGCGG
* ** * * * * *
35116317 AGTAGATAGAAGCCAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATC
1 AGCAGATAGAAGCCAG-AATCCTATCTCCCTGAAGCCGCAGCGAAGCAGATTAAAACAAAAGATC
* * *
35116382 TTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAAGTATTATCTCTCTGAGGTTGCAGCAGA
65 CTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAGTATTATCTCCCTGAGGTTGCAGCAGA
* *
35116447 GCAGAATGAAGAAACAAATCTTATCTCCCTAAGCAGTAGTGG
130 GCAGAATAAAGAAACAAATCTTATCTCCCTAAGCAGTAGCGG
* * * * ** **
35116489 AGCAGATCGAGGATGGCAG-ATCTTATCTCCCT-AAGCCGTAGCGAAGCAGATTGAAGCCATTA-
1 AGCAGAT--A-GAAGCCAGAATCCTATCTCCCTGAAGCCGCAGCGAAGCAGATT-AAAACAAAAG
*
35116551 ATCCTATCTCCCTGAAGTTACAGT
62 ATCCTATCTCTCTGAAGTTACAGT
35116575 GGAGCGGATT
Statistics
Matches: 217, Mismatches: 35, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
171 1 0.00
172 192 0.88
173 17 0.08
174 1 0.00
175 6 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (171 bp):
AGCAGATAGAAGCCAGAATCCTATCTCCCTGAAGCCGCAGCGAAGCAGATTAAAACAAAAGATCC
TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAGTATTATCTCCCTGAGGTTGCAGCAGAG
CAGAATAAAGAAACAAATCTTATCTCCCTAAGCAGTAGCGG
Found at i:35116623 original size:216 final size:216
Alignment explanation
Indices: 35116289--35117095 Score: 1240
Period size: 216 Copynumber: 3.7 Consensus size: 216
35116279 ACTAAAGAAA
* *
35116289 CAGATCTTATCTCCCTAAGCCGTAGCGGAGTAGATAGAAGCCAGTAATCCTATCTCCCTGAAGTT
1 CAGATCTTATCTCCCTAAGCCGTAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTT
* * *
35116354 GCAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCA
* *
35116419 AGTATTATCTCTCTGAGGTTGCAGCAGAGCAGAATGAAGAAACAAATCTTATCTCCCTAAGCAGT
131 AGTCTTATCTCTCTGAGGTTGCAGCAGAGCAGACTGAAGAAACAAATCTTATCTCCCTAAGCAGT
*
35116484 AGTGGAGCAGATCGAGGATGG
196 AGTGGAGCAGATCAAGGATGG
* *
35116505 CAGATCTTATCTCCCTAAGCCGTAGCGAAGCAGATTGAAGCCATTAATCCTATCTCCCTGAAGTT
1 CAGATCTTATCTCCCTAAGCCGTAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTT
35116570 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCA
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCA
* * * *
35116635 GGTCTTATCT-TCCTGAGGTTGCAGCAGAGTAGACTGAAGAAACAAACCTTACCTCCCTAAGCAG
131 AGTCTTATCTCT-CTGAGGTTGCAGCAGAGCAGACTGAAGAAACAAATCTTATCTCCCTAAGCAG
35116699 TAGTGGAGCAGATCAAGGATGG
195 TAGTGGAGCAGATCAAGGATGG
*
35116721 CAGATCTTATCTTCCTAAGCCGTAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTT
1 CAGATCTTATCTCCCTAAGCCGTAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTT
* * *
35116786 ACAATGGAGCGGATTAAAATAAAAGATCTTAGCTCTCTGAGGTTGCAGTAGAGTAGATCGCAT-T
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCA
** ** ** *
35116850 AGTTCTTATCTCTCTGAGAATGCAGTGGAGCAGACTGAAGAAGTAGATCTTATCTCCCTAAGCAG
131 AG-TCTTATCTCTCTGAGGTTGCAGCAGAGCAGACTGAAGAAACAAATCTTATCTCCCTAAGCAG
*
35116915 TAGTGGAGCAGATCAAGAATGG
195 TAGTGGAGCAGATCAAGGATGG
* * *
35116937 CAGATCTTATCTCCCTAAGCAGTAGCGGAGCTGATTGAAGCCAGTAATCCTATCTTCCTGAAGTT
1 CAGATCTTATCTCCCTAAGCCGTAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTT
* * * * * *
35117002 GCAGTGGAGCGAATTAAAATAATAGATCTTATCTCTTTGAGGTTCCAGTAGAGTAGATCACATCA
66 ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCA
* * *
35117067 AATCTTATCTCTCTGAAGTTGCAGTAGAG
131 AGTCTTATCTCTCTGAGGTTGCAGCAGAG
35117096 TAGATCACAT
Statistics
Matches: 537, Mismatches: 50, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
215 2 0.00
216 533 0.99
217 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (216 bp):
CAGATCTTATCTCCCTAAGCCGTAGCGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTT
ACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCA
AGTCTTATCTCTCTGAGGTTGCAGCAGAGCAGACTGAAGAAACAAATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCAAGGATGG
Found at i:35116859 original size:388 final size:386
Alignment explanation
Indices: 35116143--35116927 Score: 846
Period size: 388 Copynumber: 2.0 Consensus size: 386
35116133 GGTTGGCAAT
** * *
35116143 GAAGCAGATTGAAGCCAATAATCCTATCTCGTTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGA
1 GAAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGA
**
35116208 TCTTATCTCTCTGAGATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTG
66 TCTTATCTCTCTGAGATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCA
* * * * *
35116273 GAGCAGACTAAAGAAACAGATCTTATCTCCCTAAGCCGTAGCGGAGTAGATAGAAGCCAGTAATC
131 GAGCAGACTAAAGAAACAAACCTTACCTCCCTAAGCAGTAGCGGAGCAGATAGAAGCCAG-AATC
** * * * * * * * *
35116338 CTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAGGTTACAGT
195 CTATCTCCCTGAAGCCGCAGCGGAGCAGATTAAAACAAAAGATCCTATCTCCCTGAAGTTACAAT
* *** * *
35116403 AGAGTAGATCGCATCAAGTATTATCTCTCTGAGGTTGCAGCAGAGCAGAATGAAGAAACAAATCT
260 AGAGCAGATAAAATAAAGTATTAGCTCTCTGAGGTTGCAGCAGAGCAGAAT-AAGAAACAAATCT
* * * * *
35116468 TATCTCCCTAAGCA-GTAGTGGAGCAGA-TCGAGGATGGCAGATCTTATCTCCCTAAGCCGTAGC
324 TATCTCCCTAAGAATGCAGTGGAGCAGACT-GAAGA-AGCAGATCTTATCTCCCTAAGCAGTAGC
*
35116531 GAAGCAGATTGAAGCCATTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGA
1 GAAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGA
* * *
35116596 TCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTTCCTGAGGTTGCAGCA
66 TCTTATCTCTCTGAGATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCA
* * * * *
35116661 GAGTAGACTGAAGAAACAAACCTTACCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCAG-A
131 GAGCAGACTAAAGAAACAAACCTTACCTCCCTAAGCAGTAGCGGAGCAGAT--A-GAAGCCAGAA
* * * ** **
35116725 TCTTATCTTCCT-AAGCCGTAGCGGAGCAGATTGAAGCCAGTA-ATCCTATCTCCCTGAAGTTAC
193 TCCTATCTCCCTGAAGCCGCAGCGGAGCAGATT-AAAACAAAAGATCCTATCTCCCTGAAGTTAC
* * * * * * * **
35116788 AATGGAGCGGATTAAAATAAAAGATCTTAGCTCTCTGAGGTTGCAGTAGAGTAG-AT-CGCATTA
257 AATAGAGCAGA-TAAAAT-AAAG-TATTAGCTCTCTGAGGTTGCAGCAGAGCAGAATAAGAAACA
** * * *
35116851 GTTCTTATCTCTCTGAGAATGCAGTGGAGCAGACTGAAGAAGTAGATCTTATCTCCCTAAGCAGT
319 AATCTTATCTCCCTAAGAATGCAGTGGAGCAGACTGAAGAAGCAGATCTTATCTCCCTAAGCAGT
*
35116916 AGT
384 AGC
*
35116919 GGAGCAGAT
1 GAAGCAGAT
35116928 CAAGAATGGC
Statistics
Matches: 324, Mismatches: 64, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
388 251 0.77
389 34 0.10
390 7 0.02
391 32 0.10
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (386 bp):
GAAGCAGATTGAAGCCAATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGA
TCTTATCTCTCTGAGATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGCA
GAGCAGACTAAAGAAACAAACCTTACCTCCCTAAGCAGTAGCGGAGCAGATAGAAGCCAGAATCC
TATCTCCCTGAAGCCGCAGCGGAGCAGATTAAAACAAAAGATCCTATCTCCCTGAAGTTACAATA
GAGCAGATAAAATAAAGTATTAGCTCTCTGAGGTTGCAGCAGAGCAGAATAAGAAACAAATCTTA
TCTCCCTAAGAATGCAGTGGAGCAGACTGAAGAAGCAGATCTTATCTCCCTAAGCAGTAGC
Found at i:35116942 original size:44 final size:43
Alignment explanation
Indices: 35116873--35116967 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 43
35116863 CTGAGAATGC
* *
35116873 AGTGGAGCAGACTGAAGAAGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGACTCAAGAAGCAGATCTTATCTCCCTAAGCAGT
35116916 AGTGGAGCAGA-TCAAGAATGGCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGACTCAAGAA--GCAGATCTTATCTCCCTAAGCAGT
*
35116960 AGCGGAGC
1 AGTGGAGC
35116968 TGATTGAAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
42 6 0.13
43 11 0.23
44 30 0.64
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (43 bp):
AGTGGAGCAGACTCAAGAAGCAGATCTTATCTCCCTAAGCAGT
Found at i:35117072 original size:41 final size:41
Alignment explanation
Indices: 35117027--35117115 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
35117017 AAAATAATAG
* *
35117027 ATCTTATCTCTTTGAGGTTCCAGTAGAGTAGATCACATCAA
1 ATCTTATCTCTCTGAAGTTCCAGTAGAGTAGATCACATCAA
* *
35117068 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCAT
1 ATCTTATCTCTCTGAAGTTCCAGTAGAGTAGATCACATCAA
35117109 ATCTTAT
1 ATCTTAT
35117116 TTCCTTGGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (41 bp):
ATCTTATCTCTCTGAAGTTCCAGTAGAGTAGATCACATCAA
Found at i:35118004 original size:16 final size:16
Alignment explanation
Indices: 35117971--35118003 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
35117961 TTTTTTGTTG
35117971 TTGTTTTCTATTTCTT
1 TTGTTTTCTATTTCTT
*
35117987 TTGTTTTC-CTTTCTT
1 TTGTTTTCTATTTCTT
35118002 TT
1 TT
35118004 TTCATGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TTGTTTTCTATTTCTT
Found at i:35118710 original size:15 final size:16
Alignment explanation
Indices: 35118679--35118711 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
35118669 TATTTTAATA
35118679 TTTAAATTTGATATTGT
1 TTTAAATTT-ATATTGT
35118696 TTTAAATTT-TATTGT
1 TTTAAATTTATATTGT
35118711 T
1 T
35118712 AGTGTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (16 bp):
TTTAAATTTATATTGT
Found at i:35129763 original size:9 final size:9
Alignment explanation
Indices: 35129749--35129774 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35129739 TTCATTAATT
35129749 TTTTAGTTA
1 TTTTAGTTA
35129758 TTTTAGTTA
1 TTTTAGTTA
35129767 TTTTAGTT
1 TTTTAGTT
35129775 TGTGTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (9 bp):
TTTTAGTTA
Found at i:35134334 original size:24 final size:24
Alignment explanation
Indices: 35134307--35134355 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
35134297 TTTTCATTCA
35134307 CTCT-TTCTTTTTCA-TCTCTCTTTT
1 CTCTATTC-TTTTCACTCTC-CTTTT
35134331 CTCTCATTCTTTTCACTCTCCTTTT
1 CTCT-ATTCTTTTCACTCTCCTTTT
35134356 TTTATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 4 0.18
25 11 0.50
26 7 0.32
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (24 bp):
CTCTATTCTTTTCACTCTCCTTTT
Found at i:35151293 original size:25 final size:26
Alignment explanation
Indices: 35151245--35151293 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
35151235 TTCACCATGA
*
35151245 ATATTTCACATTTCTCAATTAAATCC
1 ATATTTCACATTTCTCAATGAAATCC
*
35151271 ATATTTGACATTT-TCAATGAAAT
1 ATATTTCACATTTCTCAATGAAAT
35151294 TCAATTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (26 bp):
ATATTTCACATTTCTCAATGAAATCC
Found at i:35152794 original size:22 final size:22
Alignment explanation
Indices: 35152766--35152810 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
35152756 ATTATGATGA
35152766 TTGATATGT-TGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
35152788 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
35152810 T
1 T
35152811 GTGTTGATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:35155675 original size:43 final size:44
Alignment explanation
Indices: 35155618--35155748 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 44
35155608 CAAAGTCACC
* *
35155618 AATATTTGCAGACAAGCTGCCATATAGGTTGTGGATAAACCACT
1 AATATTCGCTGACAAGCTGCCATATAGGTTGTGGATAAACCACT
* * * * * *
35155662 AA-ATTCG-TGGACAATCGGCCATTTAGGTTGTGGACGAAGCCATT
1 AATATTCGCT-GACAAGCTGCCATATAGGTTGTGGA-TAAACCACT
* * *
35155706 AATATTCGCTGACAAGCTGTCATGTAGGTTGTTGATAAACCAC
1 AATATTCGCTGACAAGCTGCCATATAGGTTGTGGATAAACCAC
35155749 GAATTTTAGA
Statistics
Matches: 67, Mismatches: 16, Indels: 8
0.74 0.18 0.09
Matches are distributed among these distances:
43 26 0.39
44 15 0.22
45 25 0.37
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
AATATTCGCTGACAAGCTGCCATATAGGTTGTGGATAAACCACT
Found at i:35159526 original size:19 final size:19
Alignment explanation
Indices: 35159502--35159612 Score: 132
Period size: 19 Copynumber: 5.8 Consensus size: 19
35159492 AATCATATCT
*
35159502 TCTAAGATTGCGTATCATA
1 TCTAAGATTGCATATCATA
**
35159521 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
35159540 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
35159559 TCTAAAATTATATATTATA
1 TCTAAGATTGCATATCATA
*
35159578 TTTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
35159597 TCTATGATTGCCTATC
1 TCTAAGATTGCATATC
35159613 CCTGAAGATT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 75 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35159549 original size:38 final size:38
Alignment explanation
Indices: 35159502--35159605 Score: 163
Period size: 38 Copynumber: 2.7 Consensus size: 38
35159492 AATCATATCT
*
35159502 TCTAAGATTGCGTATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
* *
35159540 TCTAAGATTGCATATCATATCTAAAATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
* *
35159578 TTTAAGATTGCATATCATATCTATGATT
1 TCTAAGATTGCATATCATATCTAAGATT
35159606 GCCTATCCCT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:35160234 original size:132 final size:131
Alignment explanation
Indices: 35159976--35160235 Score: 274
Period size: 132 Copynumber: 2.0 Consensus size: 131
35159966 GGGAGATATG
*
35159976 ATTATTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCCGCCATCTTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCCGCCATCTTCGATCTGCT
* * * * * ****
35160041 CCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTA
66 CCACTAATGC-TAGGAAGACAAGATCTGAAATCTTCAACCTACTCCACTGACAACCAAGGAAGTA
35160106 GA
130 GA
* * *
35160108 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATTTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCCGCCATCTTCGATCTGC-
** * ** * *
35160173 TCGCTGTCAATG-TAGGAAGGCAAGATCTGCTATCCTT-AACCTGCTCCACT-ACAACCGAGGAA
65 TC-CACT-AATGCTAGGAAGACAAGATCTGAAAT-CTTCAACCTACTCCACTGACAACCAAGGAA
35160235 G
127 G
35160236 GCAAGGCTTT
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
132 68 0.65
133 28 0.27
134 5 0.05
135 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (131 bp):
ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCCGCCATCTTCGATCTGCT
CCACTAATGCTAGGAAGACAAGATCTGAAATCTTCAACCTACTCCACTGACAACCAAGGAAGTAG
A
Found at i:35164155 original size:24 final size:24
Alignment explanation
Indices: 35164127--35164172 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
35164117 ATCATTTTTT
*
35164127 GCTGCTCATT-CATTTGCTTTTGAA
1 GCTGCTC-TTGCATTTCCTTTTGAA
35164151 GCTGCTCTTGCATTTCCTTTTG
1 GCTGCTCTTGCATTTCCTTTTG
35164173 GGATTGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (24 bp):
GCTGCTCTTGCATTTCCTTTTGAA
Found at i:35174590 original size:42 final size:42
Alignment explanation
Indices: 35174510--35174591 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
35174500 CGCTTTCTCT
* * **
35174510 ATGCCTTAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
35174552 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
35174592 CACACCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:35178710 original size:65 final size:63
Alignment explanation
Indices: 35178571--35178710 Score: 138
Period size: 65 Copynumber: 2.2 Consensus size: 63
35178561 GATACCCGGT
* *** **
35178571 TCACATAGTAGCCCGCACATAGTACTACACATGTGACCATTTTCATCCGATACATGTAGTAGC
1 TCACATAGTAGCCCGCACATAGTACTACACACGTGACCAAGCTCATCCGATACACATAGTAGC
* * * *
35178634 TCACATGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT-ATCCGGTACGCATAGTAG
1 TCACA--TAGTAGCCCGCACATAGTACTACACACGTGA-CCAAGCTCATCCGATACACATAGTAG
35178698 CC
63 -C
35178700 TGCACATAGTA
1 T-CACATAGTA
35178711 CTACACGTGC
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
63 5 0.08
65 48 0.77
66 5 0.08
67 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (63 bp):
TCACATAGTAGCCCGCACATAGTACTACACACGTGACCAAGCTCATCCGATACACATAGTAGC
Found at i:35178775 original size:50 final size:50
Alignment explanation
Indices: 35178635--35178778 Score: 164
Period size: 50 Copynumber: 2.9 Consensus size: 50
35178625 TGTAGTAGCT
**
35178635 CACATGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGG
1 CACATGTAGTAGCCTGCACATAGTACTACACACGTGA-CCTAGCTATCCGG
* *** ** * *
35178686 TACGCATAGTAGCCTGCACATAGTACTACACGTGCGACCTATC-ATTCCGG
1 CACATGTAGTAGCCTGCACATAGTACTACACACGTGACCTAGCTA-TCCGG
*
35178736 CACATGTAGTAGCCTGCACATAATACTACACACGTGACCTAGC
1 CACATGTAGTAGCCTGCACATAGTACTACACACGTGACCTAGC
35178779 AACTTCACTC
Statistics
Matches: 73, Mismatches: 19, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
49 1 0.01
50 42 0.58
51 30 0.41
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (50 bp):
CACATGTAGTAGCCTGCACATAGTACTACACACGTGACCTAGCTATCCGG
Found at i:35178959 original size:15 final size:16
Alignment explanation
Indices: 35178930--35178961 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35178920 AATCCAGTCC
35178930 AAAAATCACATTTTTG
1 AAAAATCACATTTTTG
*
35178946 AAAAATTACATTTTTG
1 AAAAATCACATTTTTG
35178962 CCCCTAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
AAAAATCACATTTTTG
Found at i:35179892 original size:27 final size:27
Alignment explanation
Indices: 35179854--35179987 Score: 214
Period size: 27 Copynumber: 5.0 Consensus size: 27
35179844 GAGGTCAATG
*
35179854 AATGGTCGAAATACCCCCATAGGGTAA
1 AATGATCGAAATACCCCCATAGGGTAA
*
35179881 AATGATCGAAATACCCCCATAAGGTAA
1 AATGATCGAAATACCCCCATAGGGTAA
* *
35179908 AATGACCGAAATACCTCCATAGGGTAA
1 AATGATCGAAATACCCCCATAGGGTAA
35179935 AATGATCGAAATACCCCCATAGGGTAA
1 AATGATCGAAATACCCCCATAGGGTAA
* *
35179962 AATGACCAAAATACCCCCATAGGGTA
1 AATGATCGAAATACCCCCATAGGGTA
35179988 GACTGACTGT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (27 bp):
AATGATCGAAATACCCCCATAGGGTAA
Found at i:35180187 original size:26 final size:26
Alignment explanation
Indices: 35180158--35180238 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
35180148 TGGAGGTAGT
35180158 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTGTG
*
35180184 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGTG
* * *
35180210 ATACTATTATTGGCAGCCTTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTGTG
35180236 ATA
1 ATA
35180239 TTGGTATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.37
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGTG
Found at i:35183565 original size:20 final size:20
Alignment explanation
Indices: 35183536--35183593 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
35183526 ATAAACTATG
* *
35183536 TACCACTCCATTTACTTTCT
1 TACCATTCCATTTACTTACT
*
35183556 TACCATTCCACTTACTTACT
1 TACCATTCCATTTACTTACT
** *
35183576 TTTCATTTCATTTACTTA
1 TACCATTCCATTTACTTA
35183594 GCATAAACTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.48
Consensus pattern (20 bp):
TACCATTCCATTTACTTACT
Found at i:35187741 original size:40 final size:40
Alignment explanation
Indices: 35187686--35188713 Score: 2011
Period size: 40 Copynumber: 25.7 Consensus size: 40
35187676 GAGCATTGGA
35187686 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35187726 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35187766 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35187806 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35187846 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35187886 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35187926 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35187966 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188006 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188046 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188086 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188126 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188166 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188206 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188246 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188286 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188326 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188366 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188406 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188446 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188486 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188526 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35188566 ATATATCCGGGCTAAGACCCGAAGGCAATTATACGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
35188606 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35188646 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
35188686 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
35188714 ATGTGTTTGC
Statistics
Matches: 980, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 980 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:35196561 original size:39 final size:39
Alignment explanation
Indices: 35196397--35196579 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
35196387 TTGAATGCTG
* * * * * * *
35196397 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
35196437 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
35196477 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
35196517 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
35196556 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
35196580 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:35196599 original size:79 final size:80
Alignment explanation
Indices: 35196433--35196614 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
35196423 GCTAAGTGAA
* * * *
35196433 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
35196497 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
35196513 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
35196577 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
35196592 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
35196615 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:35199727 original size:40 final size:40
Alignment explanation
Indices: 35199675--35199833 Score: 221
Period size: 40 Copynumber: 4.0 Consensus size: 40
35199665 AAATGTGTTC
*
35199675 AGGGGTATCGAAGTACAAACATGGGCACGTATGTGCAATT
1 AGGGGTACCGAAGTACAAACATGGGCACGTATGTGCAATT
* * * * *
35199715 ATGGGCACCGAAGTACAAAAAGGGGCACGTATGTGTAATT
1 AGGGGTACCGAAGTACAAACATGGGCACGTATGTGCAATT
* *
35199755 AGGGGTACCGAAGTACAAACA-GGAGAACGTATGTGCAATC
1 AGGGGTACCGAAGTACAAACATGG-GCACGTATGTGCAATT
*
35199795 AGGGGTACCGAAGTACAAACATGGGCACGTATGTACAAT
1 AGGGGTACCGAAGTACAAACATGGGCACGTATGTGCAAT
35199834 CATTCAGTAA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 99 0.96
41 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAACATGGGCACGTATGTGCAATT
Found at i:35199832 original size:20 final size:20
Alignment explanation
Indices: 35199687--35199832 Score: 64
Period size: 20 Copynumber: 7.3 Consensus size: 20
35199677 GGGTATCGAA
*
35199687 GTACAAACATGGGCACGTAT
1 GTACAAACAGGGGCACGTAT
* ** * *
35199707 GTGCAATTATGGGCACCG-AA
1 GTACAAACAGGGGCA-CGTAT
*
35199727 GTACAAAAAGGGGCACGTAT
1 GTACAAACAGGGGCACGTAT
** ** * *
35199747 GTGTAATTAGGGGTACCG-AA
1 GTACAAACAGGGGCA-CGTAT
* *
35199767 GTACAAACAGGAGAACGTAT
1 GTACAAACAGGGGCACGTAT
* * * *
35199787 GTGCAATCAGGGGTACCG-AA
1 GTACAAACAGGGGCA-CGTAT
*
35199807 GTACAAACATGGGCACGTAT
1 GTACAAACAGGGGCACGTAT
35199827 GTACAA
1 GTACAA
35199833 TCATTCAGTA
Statistics
Matches: 88, Mismatches: 32, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
19 6 0.07
20 76 0.86
21 6 0.07
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (20 bp):
GTACAAACAGGGGCACGTAT
Found at i:35205129 original size:334 final size:334
Alignment explanation
Indices: 35204680--35205291 Score: 1224
Period size: 334 Copynumber: 1.8 Consensus size: 334
35204670 GGAGCAAAAT
35204680 AGTAATTTTGCATAAATATGAAATGGGGATTAAATTGAATACTAGAAGTATTAAATGGATTGAAA
1 AGTAATTTTGCATAAATATGAAATGGGGATTAAATTGAATACTAGAAGTATTAAATGGATTGAAA
35204745 TTGTTTATTTAGATCAAGATAAACCACGTACGGACCTAGGTCGAGACAAAGCAAAAGCTTCGGAT
66 TTGTTTATTTAGATCAAGATAAACCACGTACGGACCTAGGTCGAGACAAAGCAAAAGCTTCGGAT
35204810 TAACTCGATTTAACTTTTACGCCCCTCCTCGTCGAGGTAAATTAGTATAAATAGTTATCGTATTA
131 TAACTCGATTTAACTTTTACGCCCCTCCTCGTCGAGGTAAATTAGTATAAATAGTTATCGTATTA
35204875 ATGCTATTTAAATTGTATGTTATTATATTATTTATAATGTGAATTGATCTATGTATAAACAAATG
196 ATGCTATTTAAATTGTATGTTATTATATTATTTATAATGTGAATTGATCTATGTATAAACAAATG
35204940 AATGCTATGATGGTTATTCGAGGGCAAAGAAATCTCTCTTTATGGGAATCACTTCTGGAGTGAAG
261 AATGCTATGATGGTTATTCGAGGGCAAAGAAATCTCTCTTTATGGGAATCACTTCTGGAGTGAAG
35205005 GGATTTTGA
326 GGATTTTGA
35205014 AGTAATTTTGCATAAATATGAAATGGGGATTAAATTGAATACTAGAAGTATTAAATGGATTGAAA
1 AGTAATTTTGCATAAATATGAAATGGGGATTAAATTGAATACTAGAAGTATTAAATGGATTGAAA
35205079 TTGTTTATTTAGATCAAGATAAACCACGTACGGACCTAGGTCGAGACAAAGCAAAAGCTTCGGAT
66 TTGTTTATTTAGATCAAGATAAACCACGTACGGACCTAGGTCGAGACAAAGCAAAAGCTTCGGAT
35205144 TAACTCGATTTAACTTTTACGCCCCTCCTCGTCGAGGTAAATTAGTATAAATAGTTATCGTATTA
131 TAACTCGATTTAACTTTTACGCCCCTCCTCGTCGAGGTAAATTAGTATAAATAGTTATCGTATTA
35205209 ATGCTATTTAAATTGTATGTTATTATATTATTTATAATGTGAATTGATCTATGTATAAACAAATG
196 ATGCTATTTAAATTGTATGTTATTATATTATTTATAATGTGAATTGATCTATGTATAAACAAATG
35205274 AATGCTATGATGGTTATT
261 AATGCTATGATGGTTATT
35205292 GAGTCCTAGT
Statistics
Matches: 278, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
334 278 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (334 bp):
AGTAATTTTGCATAAATATGAAATGGGGATTAAATTGAATACTAGAAGTATTAAATGGATTGAAA
TTGTTTATTTAGATCAAGATAAACCACGTACGGACCTAGGTCGAGACAAAGCAAAAGCTTCGGAT
TAACTCGATTTAACTTTTACGCCCCTCCTCGTCGAGGTAAATTAGTATAAATAGTTATCGTATTA
ATGCTATTTAAATTGTATGTTATTATATTATTTATAATGTGAATTGATCTATGTATAAACAAATG
AATGCTATGATGGTTATTCGAGGGCAAAGAAATCTCTCTTTATGGGAATCACTTCTGGAGTGAAG
GGATTTTGA
Found at i:35206875 original size:150 final size:150
Alignment explanation
Indices: 35206498--35206906 Score: 491
Period size: 151 Copynumber: 2.7 Consensus size: 150
35206488 CACGACCTGT
* * * * **
35206498 GACACGGCTGTGTGACCCTACTCAATGAGTTACA-GGACTGAGGACACGAGTTGGAACATAGCTG
1 GACATGGCCGTGTGACCCTACTCAGTGAGTTACACGGA-TGAGGACACGAGTTGGGACACGGC-G
* * *
35206562 TGTGTCCCTAATTCGAAGGTTACATA-GCCTGAGACACGGGCATGTGGGGAAACCTAGAGAGTTA
64 TGTGTCCCTAGTTCGAAGGTTACA-AGGCCTGAGACACGGGCGTGCGGGGAAACCTAGAGAGTTA
*
35206626 CATGGCTTGGCACACAGGCGTGT
128 CATGGCTTGGCACACAGGCGTGC
* ** * *
35206649 GACATGGCCATGTGACCCTACTCAGTGAGTTACACAAATGAGGACACGAGTTGGGAGACGGCCTT
1 GACATGGCCGTGTGACCCTACTCAGTGAGTTACACGGATGAGGACACGAGTTGGGACACGG-CGT
* ** * * ** *
35206714 GTGTCCATAGTTCGAAGGTTACGCGGCCTAAGACACGGGCGTGCGGGGCAAGTTATAGAGTTACA
65 GTGTCCCTAGTTCGAAGGTTACAAGGCCTGAGACACGGGCGTGCGGGGAAACCTAGAGAGTTACA
35206779 TGGCTTGGCACAC-GGCGTGC
130 TGGCTTGGCACACAGGCGTGC
* * * * *
35206799 GGCATGTCCGTGTGACCCTACTCAGTAAGTTACACGGGTGAGCACACGAGTTGGGACACGGTCGT
1 GACATGGCCGTGTGACCCTACTCAGTGAGTTACACGGATGAGGACACGAGTTGGGACACGG-CGT
*
35206864 GTGTCCCTAGTTCGAAGGTTACAAGGCCTGAGACATGGGCGTG
65 GTGTCCCTAGTTCGAAGGTTACAAGGCCTGAGACACGGGCGTG
35206907 TCTCTCAGCC
Statistics
Matches: 216, Mismatches: 39, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
150 98 0.45
151 116 0.54
152 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (150 bp):
GACATGGCCGTGTGACCCTACTCAGTGAGTTACACGGATGAGGACACGAGTTGGGACACGGCGTG
TGTCCCTAGTTCGAAGGTTACAAGGCCTGAGACACGGGCGTGCGGGGAAACCTAGAGAGTTACAT
GGCTTGGCACACAGGCGTGC
Found at i:35214367 original size:7 final size:7
Alignment explanation
Indices: 35214340--35214387 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
35214330 TAGATACAAT
35214340 ATTTTTA
1 ATTTTTA
* *
35214347 TTTCTTTT
1 ATT-TTTA
35214355 ATTTTTA
1 ATTTTTA
35214362 ATTTTT-
1 ATTTTTA
35214368 ATTTGTTA
1 ATTT-TTA
35214376 ATTTTTA
1 ATTTTTA
35214383 ATTTT
1 ATTTT
35214388 CGAATTGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 4 0.12
7 21 0.62
8 9 0.26
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (7 bp):
ATTTTTA
Found at i:35214379 original size:21 final size:22
Alignment explanation
Indices: 35214340--35214387 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
35214330 TAGATACAAT
* *
35214340 ATTTTTATTTCTTTTATTTTTA
1 ATTTTTATTTCGTTAATTTTTA
35214362 ATTTTTATTT-GTTAATTTTTA
1 ATTTTTATTTCGTTAATTTTTA
35214383 ATTTT
1 ATTTT
35214388 CGAATTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (22 bp):
ATTTTTATTTCGTTAATTTTTA
Found at i:35215811 original size:12 final size:12
Alignment explanation
Indices: 35215794--35215822 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35215784 TCTTCCACCT
35215794 GACCCAGCTCTC
1 GACCCAGCTCTC
35215806 GACCCAGCTCTC
1 GACCCAGCTCTC
35215818 GACCC
1 GACCC
35215823 GGCTGATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.52, G:0.17, T:0.14
Consensus pattern (12 bp):
GACCCAGCTCTC
Found at i:35215997 original size:18 final size:19
Alignment explanation
Indices: 35215970--35216005 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35215960 TTCCACCAAG
*
35215970 CCCAAGACCAAGCCCAATA
1 CCCAAGACCAACCCCAATA
35215989 CCCAA-ACCAACCCCAAT
1 CCCAAGACCAACCCCAAT
35216006 TCCTCCCAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.47, G:0.06, T:0.06
Consensus pattern (19 bp):
CCCAAGACCAACCCCAATA
Found at i:35216686 original size:21 final size:21
Alignment explanation
Indices: 35216662--35216715 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
35216652 TGGTGTTAAG
* *
35216662 TTTGAAATTTTAATTAAAATT
1 TTTGAAATTTTAATGAAAACT
* *
35216683 TTTGAAGGTTTTAATGATAACT
1 TTTGAA-ATTTTAATGAAAACT
*
35216705 TTTAAAATTTT
1 TTTGAAATTTT
35216716 TTATAGTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (21 bp):
TTTGAAATTTTAATGAAAACT
Found at i:35216744 original size:32 final size:31
Alignment explanation
Indices: 35216675--35216747 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
35216665 GAAATTTTAA
* *
35216675 TTAAAATTTTTGAAGGTTTTAATGATAACTT
1 TTAAAATTTTTGAAGGTTTTAATGAAAAATT
* *
35216706 TTAAAATTTTTTATA-GTTTTAATTAAAAATT
1 TTAAAATTTTTGA-AGGTTTTAATGAAAAATT
*
35216737 TTAAAAATTTT
1 TTAAAATTTTT
35216748 AGAGATTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (31 bp):
TTAAAATTTTTGAAGGTTTTAATGAAAAATT
Found at i:35227891 original size:23 final size:23
Alignment explanation
Indices: 35227861--35227907 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
35227851 AATGGAATGG
35227861 AAAGTAAGTAAAGGGAGTAGTTC
1 AAAGTAAGTAAAGGGAGTAGTTC
35227884 AAAGTAAGTAAAGGGAGTAGTTC
1 AAAGTAAGTAAAGGGAGTAGTTC
35227907 A
1 A
35227908 TAGTCTTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.30, T:0.21
Consensus pattern (23 bp):
AAAGTAAGTAAAGGGAGTAGTTC
Found at i:35230322 original size:111 final size:111
Alignment explanation
Indices: 35230128--35230335 Score: 398
Period size: 111 Copynumber: 1.9 Consensus size: 111
35230118 AGGGAAGATA
*
35230128 AATTTATCTACCCTTACCAGTACGTCTTCAATTTTACCTTTCGGATGAGCATAGGATTGATTGGC
1 AATTTATCTACCCTTACCAGTACGTCTTCAATTTTACCTTTCGGATGAGCATAGGATCGATTGGC
*
35230193 TAGTTGCAATGTAACCATAGTAGGTCTTGCTTTCCAGTATGTCTTC
66 TAGTTGCAACGTAACCATAGTAGGTCTTGCTTTCCAGTATGTCTTC
35230239 AATTTATCTACCCTTACCAGTACGTCTTCAATTTTACCTTTCGGATGAGCATAGGATCGATTGGC
1 AATTTATCTACCCTTACCAGTACGTCTTCAATTTTACCTTTCGGATGAGCATAGGATCGATTGGC
35230304 TAGTTGCAACGTAACCATAGTAGGTCTTGCTT
66 TAGTTGCAACGTAACCATAGTAGGTCTTGCTT
35230336 CCTAAAAATA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 95 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (111 bp):
AATTTATCTACCCTTACCAGTACGTCTTCAATTTTACCTTTCGGATGAGCATAGGATCGATTGGC
TAGTTGCAACGTAACCATAGTAGGTCTTGCTTTCCAGTATGTCTTC
Found at i:35243377 original size:16 final size:17
Alignment explanation
Indices: 35243339--35243378 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
35243329 TCTATAATGG
*
35243339 TTTAAAAATATTATACT
1 TTTAAAAATATAATACT
*
35243356 TATAAAAATATAATA-T
1 TTTAAAAATATAATACT
35243372 TTTAAAA
1 TTTAAAA
35243379 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAAAATATAATACT
Found at i:35243668 original size:18 final size:20
Alignment explanation
Indices: 35243657--35243721 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
35243647 TTTTACAATT
35243657 TTTTA-ATATTTTAAAATAA
1 TTTTATATATTTTAAAATAA
*
35243676 TTTTATATATTTTTAAAGTAAA
1 TTTTATATA-TTTTAAAAT-AA
* *
35243698 ATTTACA-ATTTTATAAATAA
1 TTTTATATATTTTA-AAATAA
35243718 TTTT
1 TTTT
35243722 TTTACTAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.14
20 13 0.35
21 12 0.32
22 7 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTATATATTTTAAAATAA
Found at i:35243679 original size:20 final size:21
Alignment explanation
Indices: 35243656--35243722 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
35243646 CTTTTACAAT
35243656 TTTTTA-ATATTTTAAAATAA
1 TTTTTACATATTTTAAAATAA
* *
35243676 -TTTTATATATTTTTAAAGTAA
1 TTTTTACATA-TTTTAAAATAA
**
35243697 AATTTACA-ATTTTATAAATAA
1 TTTTTACATATTTTA-AAATAA
35243718 TTTTT
1 TTTTT
35243723 TTACTAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
19 5 0.14
20 8 0.22
21 19 0.51
22 5 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTTTACATATTTTAAAATAA
Found at i:35251893 original size:34 final size:34
Alignment explanation
Indices: 35251849--35251936 Score: 153
Period size: 33 Copynumber: 2.6 Consensus size: 34
35251839 CATAACTTAC
*
35251849 ATAAATATTTAAAGAATATAAAAAAATGCAATTT
1 ATAAACATTTAAAGAATATAAAAAAATGCAATTT
35251883 ATAAACATTTAAAGAATAT-AAAAAATGCAATTT
1 ATAAACATTTAAAGAATATAAAAAAATGCAATTT
35251916 AT-AACATTTAAAGAATATAAA
1 ATAAACATTTAAAGAATATAAA
35251937 GAATCTATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
32 16 0.31
33 18 0.35
34 18 0.35
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.31
Consensus pattern (34 bp):
ATAAACATTTAAAGAATATAAAAAAATGCAATTT
Found at i:35251922 original size:32 final size:33
Alignment explanation
Indices: 35251849--35251936 Score: 151
Period size: 32 Copynumber: 2.7 Consensus size: 33
35251839 CATAACTTAC
*
35251849 ATAAATATTTAAAGAATATAAAAAAATGCAATTT
1 ATAAACATTTAAAGAATAT-AAAAAATGCAATTT
35251883 ATAAACATTTAAAGAATATAAAAAATGCAATTT
1 ATAAACATTTAAAGAATATAAAAAATGCAATTT
35251916 AT-AACATTTAAAGAATATAAA
1 ATAAACATTTAAAGAATATAAA
35251937 GAATCTATAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 19 0.36
33 16 0.30
34 18 0.34
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.31
Consensus pattern (33 bp):
ATAAACATTTAAAGAATATAAAAAATGCAATTT
Found at i:35258606 original size:27 final size:27
Alignment explanation
Indices: 35258567--35258743 Score: 135
Period size: 27 Copynumber: 6.6 Consensus size: 27
35258557 AAAATTTGTT
* *
35258567 AAATGACCAAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
** *
35258594 AAATTATTGAAATACCCCCGAAT-GGTA
1 AAATTACCGAAATACCCTCG-ATGGGTA
* * *
35258621 AAATTACCAAAATACCCTTGATAGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
** *
35258648 AAATTACTAAAATACCCTCG-TAGGTA
1 AAATTACCGAAATACCCTCGATGGGTA
* * * * *
35258674 AAATTACTGAAATACCCCCAAAGGATA
1 AAATTACCGAAATACCCTCGATGGGTA
* * * *
35258701 AAATTACCGAAAT-CCATCAAAGGATA
1 AAATTACCGAAATACCCTCGATGGGTA
*
35258727 AAATTATCGAAATACCC
1 AAATTACCGAAATACCC
35258744 CCATAGGCTA
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 48 0.39
27 73 0.59
28 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATGGGTA
Found at i:35258678 original size:26 final size:27
Alignment explanation
Indices: 35258575--35258707 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
35258565 TTAAATGACC
* *
35258575 AAAATACCCTCGATGGGTAAAATTATT
1 AAAATACCCTCGATAGGTAAAATTACT
* * *
35258602 GAAATACCCCCGA-ATGGTAAAATTACC
1 AAAATACCCTCGATA-GGTAAAATTACT
*
35258629 AAAATACCCTTGATAGGTAAAATTACT
1 AAAATACCCTCGATAGGTAAAATTACT
35258656 AAAATACCCTCG-TAGGTAAAATTACT
1 AAAATACCCTCGATAGGTAAAATTACT
* * *
35258682 GAAATACCC-CCAAAGGATAAAATTAC
1 AAAATACCCTCGATAGG-TAAAATTAC
35258708 CGAAATCCAT
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 25 0.28
27 62 0.70
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (27 bp):
AAAATACCCTCGATAGGTAAAATTACT
Found at i:35258703 original size:53 final size:52
Alignment explanation
Indices: 35258576--35258757 Score: 161
Period size: 53 Copynumber: 3.4 Consensus size: 52
35258566 TAAATGACCA
* * * * **
35258576 AAATACCCTCGATGGGTAAAATTATTGAAATACCCCCGAATGGTAAAATTACCA
1 AAATACCC-CCATAGGTAAAATTACTGAAATACCCTCGAA-GGTAAAATTACTG
** * *
35258630 AAATACCCTTGATAGGTAAAATTACTAAAATACCCTCGTAGGTAAAATTACTG
1 AAATACCC-CCATAGGTAAAATTACTGAAATACCCTCGAAGGTAAAATTACTG
* * * *
35258683 AAATACCCCCAAAGGATAAAATTACCGAAAT-CCATCAAAGGATAAAATTA-TCG
1 AAATACCCCCATAGG-TAAAATTACTGAAATACCCTCGAAGG-TAAAATTACT-G
35258736 AAATACCCCCATAGGCTAAAAT
1 AAATACCCCCATAGG-TAAAAT
35258758 GACTTTTATA
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 12 0.11
53 61 0.57
54 34 0.32
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (52 bp):
AAATACCCCCATAGGTAAAATTACTGAAATACCCTCGAAGGTAAAATTACTG
Found at i:35258728 original size:26 final size:27
Alignment explanation
Indices: 35258672--35258757 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
35258662 CCCTCGTAGG
* *
35258672 TAAAATTACTGAAATACCCCCAAAGGA
1 TAAAATTACCGAAATACCACCAAAGGA
*
35258699 TAAAATTACCGAAAT-CCATCAAAGGA
1 TAAAATTACCGAAATACCACCAAAGGA
* * * *
35258725 TAAAATTATCGAAATACCCCCATAGGC
1 TAAAATTACCGAAATACCACCAAAGGA
35258752 TAAAAT
1 TAAAAT
35258758 GACTTTTATA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
26 23 0.46
27 27 0.54
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (27 bp):
TAAAATTACCGAAATACCACCAAAGGA
Found at i:35259264 original size:34 final size:34
Alignment explanation
Indices: 35259226--35259290 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
35259216 ATTTGCCACC
35259226 GTTACCG-TAATGGGCTAAGGCCCACACTGATACT
1 GTTACCGTTAA-GGGCTAAGGCCCACACTGATACT
* * * *
35259260 GTTACTGTTAAGGGCTCAGGCCTAGACTGAT
1 GTTACCGTTAAGGGCTAAGGCCCACACTGAT
35259291 TTTGTTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 23 0.88
35 3 0.12
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (34 bp):
GTTACCGTTAAGGGCTAAGGCCCACACTGATACT
Found at i:35261197 original size:21 final size:21
Alignment explanation
Indices: 35261173--35261212 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35261163 GGCAGCAGTG
35261173 AGGGAAGCAGAGGCAACAACA
1 AGGGAAGCAGAGGCAACAACA
*
35261194 AGGGCAGCAGAGGCAACAA
1 AGGGAAGCAGAGGCAACAA
35261213 GAAAATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.20, G:0.35, T:0.00
Consensus pattern (21 bp):
AGGGAAGCAGAGGCAACAACA
Found at i:35261249 original size:30 final size:29
Alignment explanation
Indices: 35261214--35261285 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 29
35261204 AGGCAACAAG
*
35261214 AAAATATGACGAAC-TCTAGCTACAGCTTC
1 AAAATATGACGAACAAC-AGCTACAGCTTC
*
35261243 AAAAATATGATGAACAACAGCTACAGCTTC
1 -AAAATATGACGAACAACAGCTACAGCTTC
35261273 AAAATATGACGAA
1 AAAATATGACGAA
35261286 GATGTTTCTG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 12 0.32
30 25 0.66
31 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.21
Consensus pattern (29 bp):
AAAATATGACGAACAACAGCTACAGCTTC
Found at i:35261610 original size:43 final size:42
Alignment explanation
Indices: 35261571--35261657 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
35261561 GGTCTTTTGT
*
35261571 GGCATTTGTAAAAGAAGCGCCACTAAAGATAATGTTCTTTAGC
1 GGCATTTGTAAAA-AACCGCCACTAAAGATAATGTTCTTTAGC
** * * *
35261614 GGTGTTTGTAATAAACCGCCGCTAAAGATAATGTTCTATAGC
1 GGCATTTGTAAAAAACCGCCACTAAAGATAATGTTCTTTAGC
35261656 GG
1 GG
35261658 TGTTTGTAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
42 28 0.74
43 10 0.26
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
GGCATTTGTAAAAAACCGCCACTAAAGATAATGTTCTTTAGC
Found at i:35261693 original size:43 final size:43
Alignment explanation
Indices: 35261585--35261791 Score: 229
Period size: 43 Copynumber: 4.8 Consensus size: 43
35261575 TTTGTAAAAG
* * *
35261585 AAGCGCCACTAAAGATAATGTTCTTTAGCGGTGTTTGTA--ATA
1 AAGCGCCGCTAAAGATCATGTTCTATAGCGGTGTTTGTAGGA-A
* *
35261627 AACCGCCGCTAAAGATAATGTTCTATAGCGGTGTTTGTAGGAA
1 AAGCGCCGCTAAAGATCATGTTCTATAGCGGTGTTTGTAGGAA
* * **
35261670 AAGCGTCGCTAAATATCATGTTCTATAGCGGTGTTCATAGGAA
1 AAGCGCCGCTAAAGATCATGTTCTATAGCGGTGTTTGTAGGAA
* * * ** * *
35261713 AAACGCTGTTAAAGATCATGTTCTATAGCGACGTTTGTATGTA
1 AAGCGCCGCTAAAGATCATGTTCTATAGCGGTGTTTGTAGGAA
* *
35261756 AGGCGCCGCTAAAGATCATGTTCTATAGCGGCGTTT
1 AAGCGCCGCTAAAGATCATGTTCTATAGCGGTGTTT
35261792 TTCCACATAA
Statistics
Matches: 138, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 36 0.26
43 101 0.73
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
AAGCGCCGCTAAAGATCATGTTCTATAGCGGTGTTTGTAGGAA
Found at i:35263130 original size:31 final size:30
Alignment explanation
Indices: 35263095--35263162 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
35263085 AAATTTAATT
*
35263095 TTTTCTATTAT-TTTTA-TTTTATTTTCAGTAG
1 TTTTCTATT-TGTTTTATTTTTATTTGCA-T-G
*
35263126 TTTTCAATTTGTTTTATTTTTATTTGCATG
1 TTTTCTATTTGTTTTATTTTTATTTGCATG
35263156 TTTTCTA
1 TTTTCTA
35263163 CGTGCTTGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
30 8 0.25
31 14 0.44
32 10 0.31
ACGTcount: A:0.18, C:0.07, G:0.07, T:0.68
Consensus pattern (30 bp):
TTTTCTATTTGTTTTATTTTTATTTGCATG
Found at i:35264612 original size:20 final size:21
Alignment explanation
Indices: 35264575--35264617 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
35264565 CATAGGCATA
35264575 ATCATAATCATAATCATA-AT
1 ATCATAATCATAATCATACAT
*
35264595 ATCATAATC-TCATACATACAT
1 ATCATAATCATAAT-CATACAT
35264616 AT
1 AT
35264618 AACATAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 13 0.65
21 4 0.20
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (21 bp):
ATCATAATCATAATCATACAT
Found at i:35267847 original size:23 final size:22
Alignment explanation
Indices: 35267821--35267869 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
35267811 TTCTAGGCAT
35267821 GTTTATTTATAATTTTTAGTTTA
1 GTTTATTTATAATTTTT-GTTTA
* * *
35267844 GTTTATTTTTTATTTTTGTTTT
1 GTTTATTTATAATTTTTGTTTA
35267866 GTTT
1 GTTT
35267870 TGTTCATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.73
Consensus pattern (22 bp):
GTTTATTTATAATTTTTGTTTA
Found at i:35271087 original size:87 final size:86
Alignment explanation
Indices: 35270932--35271095 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 86
35270922 TACATGCAGA
*
35270932 AGGTTAAGTTCTTACTCTTAATGAATTCATAGCCCAGAATTTAGGTGGTCCTATTAAGACAAACT
1 AGGTTAAGTTCTTACTCTTAACGAATTCATAGCCCAGAATTTAGGTGGTCCTATTAAGACAAACT
35270997 TGATGAATTCACCGACATATG
66 TGATGAATTCACCGACATATG
* * * * * *
35271018 AGGTTGAGTTTCTTACTTTTAACGAGTTCATATCCCA-AAGTTTGGGTGGTCCTATTGAGACAGA
1 AGGTTAAG-TTCTTACTCTTAACGAATTCATAGCCCAGAA-TTTAGGTGGTCCTATTAAGACA-A
35271082 A-TTGATGAATTCAC
63 ACTTGATGAATTCAC
35271096 TAAATTTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
86 9 0.13
87 57 0.84
88 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (86 bp):
AGGTTAAGTTCTTACTCTTAACGAATTCATAGCCCAGAATTTAGGTGGTCCTATTAAGACAAACT
TGATGAATTCACCGACATATG
Found at i:35271771 original size:22 final size:23
Alignment explanation
Indices: 35271743--35271793 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
35271733 TTGATCGTTG
*
35271743 GTTGGCTTA-GCCGTTTCTAGCT
1 GTTGGCTTAGGCAGTTTCTAGCT
35271765 GTTGGCTTATGGCAGTTTCTAGCT
1 GTTGGCTTA-GGCAGTTTCTAGCT
35271789 GTTGG
1 GTTGG
35271794 ACTGGCCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 9 0.35
24 17 0.65
ACGTcount: A:0.10, C:0.18, G:0.31, T:0.41
Consensus pattern (23 bp):
GTTGGCTTAGGCAGTTTCTAGCT
Found at i:35280682 original size:18 final size:18
Alignment explanation
Indices: 35280659--35280701 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
35280649 TTTTGTAACA
*
35280659 TATTAATAAT-ATTTATTT
1 TATTAATAATAATTTA-AT
*
35280677 TATTAACAATAATTTAAT
1 TATTAATAATAATTTAAT
35280695 TATTAAT
1 TATTAAT
35280702 GTTATAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTAATAATAATTTAAT
Found at i:35281082 original size:57 final size:57
Alignment explanation
Indices: 35280992--35281105 Score: 194
Period size: 57 Copynumber: 2.0 Consensus size: 57
35280982 GCAACTATAG
*
35280992 GAATATTGTATATTATTTTGAAAATGTTCCAACAAT-CTCCTCCAATTTTCAAAACAT
1 GAATATTGTATATTATTTTGAAAATGTTCCAACAATCCCCCT-CAATTTTCAAAACAT
*
35281049 GAATATTGTATATTATTTTGAAAATGTTTCAACAATCCCCCTCAATTTTCAAAACAT
1 GAATATTGTATATTATTTTGAAAATGTTCCAACAATCCCCCTCAATTTTCAAAACAT
35281106 TCTAGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
57 50 0.93
58 4 0.07
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.39
Consensus pattern (57 bp):
GAATATTGTATATTATTTTGAAAATGTTCCAACAATCCCCCTCAATTTTCAAAACAT
Found at i:35285477 original size:20 final size:20
Alignment explanation
Indices: 35285447--35285486 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35285437 AAGACTTCCA
*
35285447 AACATCTTAGATAATGTTTTG
1 AACATCTTAGAAAAT-TTTTG
35285468 AACA-CTTAGAAAATTTTTG
1 AACATCTTAGAAAATTTTTG
35285487 GACAAAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
AACATCTTAGAAAATTTTTG
Found at i:35287205 original size:17 final size:17
Alignment explanation
Indices: 35287185--35287217 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35287175 TATGAGTAAA
35287185 AAATGCTAG-GGCAATTG
1 AAATGCT-GTGGCAATTG
35287202 AAATGCTGTGGCAATT
1 AAATGCTGTGGCAATT
35287218 CTCAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
AAATGCTGTGGCAATTG
Found at i:35289064 original size:386 final size:386
Alignment explanation
Indices: 35288351--35289122 Score: 1481
Period size: 386 Copynumber: 2.0 Consensus size: 386
35288341 AAGATACATA
35288351 AAAGATTAATCCACCAATTTATGGGCTTTCACTATTCCAAGATTGGTCCAGTGAATTGCATTCCC
1 AAAGATTAATCCACCAATTTATGGGCTTTCACTATTCCAAGATTGGTCCAGTGAATTGCATTCCC
35288416 GTATTTGTCAATGTCATGAACATGATGAGTTGAATTTGTAGCAACAAAGTCTTGGACAAAAGCAT
66 GTATTTGTCAATGTCATGAACATGATGAGTTGAATTTGTAGCAACAAAGTCTTGGACAAAAGCAT
35288481 TCATCTTTGATTTTAATTGACGTGCCTTGCTTCGAGTGATTGGACCACTAGGAAAAACAACCCCT
131 TCATCTTTGATTTTAATTGACGTGCCTTGCTTCGAGTGATTGGACCACTAGGAAAAACAACCCCT
* * * *
35288546 TGAGTGTCACCTCCTTGGCTCGTATCATTTTCCCCTTCTTTAAGAAGATTTGTCCTCGAATCTGA
196 TGAGTGTCACCTCCTTGGCTCGTATCATTCTCCCCCTCTTCAAGAAGATTCGTCCTCGAATCTGA
*
35288611 GCCTACATCAAATTCAAAAGGAGAAAGATCAGAAACATTAAAAGTAGCACTAACACTATACTCAC
261 ACCTACATCAAATTCAAAAGGAGAAAGATCAGAAACATTAAAAGTAGCACTAACACTATACTCAC
35288676 CAGGAAGATCAATGCGATAAGCATTGTCATTTATTTTCTCGAGTACTTGGAATGGTCCATC
326 CAGGAAGATCAATGCGATAAGCATTGTCATTTATTTTCTCGAGTACTTGGAATGGTCCATC
35288737 AAAGATTAATCCACCAATTTATGGGCTTTCACTATTCCAAGATTGGTCCAGTGAATTGCATTCCC
1 AAAGATTAATCCACCAATTTATGGGCTTTCACTATTCCAAGATTGGTCCAGTGAATTGCATTCCC
35288802 GTATTTGTCAATGTCATGAACATGATGAGTTGAATTTGTAGCAACAAAGTCTTGGACAAAAGCAT
66 GTATTTGTCAATGTCATGAACATGATGAGTTGAATTTGTAGCAACAAAGTCTTGGACAAAAGCAT
*
35288867 TCATCTTTGATTTTAATTGTCGTGCCTTGCTTCGAGTGATTGGACCACTAGGAAAAACAACCCCT
131 TCATCTTTGATTTTAATTGACGTGCCTTGCTTCGAGTGATTGGACCACTAGGAAAAACAACCCCT
35288932 TGAGTGTCACCTCCTTGGCTCGTATCATTCTCCCCCTCTTCAAGAAGATTCGTCCTCGAATCTGA
196 TGAGTGTCACCTCCTTGGCTCGTATCATTCTCCCCCTCTTCAAGAAGATTCGTCCTCGAATCTGA
*
35288997 ACCTACATCAAATTCAAAAGGAGAAAGATCAGAAACATTGAAAGTAGCACTAACACTATACTCAC
261 ACCTACATCAAATTCAAAAGGAGAAAGATCAGAAACATTAAAAGTAGCACTAACACTATACTCAC
35289062 CAGGAAGATCAATGCGATAAGCATTGTCATTTATTTTCTCGAGTACTTGGAATGGTCCATC
326 CAGGAAGATCAATGCGATAAGCATTGTCATTTATTTTCTCGAGTACTTGGAATGGTCCATC
35289123 TCCTCGTGCA
Statistics
Matches: 379, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
386 379 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (386 bp):
AAAGATTAATCCACCAATTTATGGGCTTTCACTATTCCAAGATTGGTCCAGTGAATTGCATTCCC
GTATTTGTCAATGTCATGAACATGATGAGTTGAATTTGTAGCAACAAAGTCTTGGACAAAAGCAT
TCATCTTTGATTTTAATTGACGTGCCTTGCTTCGAGTGATTGGACCACTAGGAAAAACAACCCCT
TGAGTGTCACCTCCTTGGCTCGTATCATTCTCCCCCTCTTCAAGAAGATTCGTCCTCGAATCTGA
ACCTACATCAAATTCAAAAGGAGAAAGATCAGAAACATTAAAAGTAGCACTAACACTATACTCAC
CAGGAAGATCAATGCGATAAGCATTGTCATTTATTTTCTCGAGTACTTGGAATGGTCCATC
Found at i:35294185 original size:12 final size:12
Alignment explanation
Indices: 35294168--35294196 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
35294158 GTAGGCAACT
35294168 TTTTTTTTGCGG
1 TTTTTTTTGCGG
35294180 TTTTTTTTGCGG
1 TTTTTTTTGCGG
35294192 TTTTT
1 TTTTT
35294197 GCTTTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.21, T:0.72
Consensus pattern (12 bp):
TTTTTTTTGCGG
Found at i:35305914 original size:16 final size:16
Alignment explanation
Indices: 35305893--35305924 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35305883 GTTTTGTTGC
*
35305893 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
35305909 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
35305925 CGTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:35306209 original size:51 final size:51
Alignment explanation
Indices: 35306150--35306340 Score: 187
Period size: 51 Copynumber: 3.8 Consensus size: 51
35306140 TCGGTTCACA
* * *
35306150 TAGTAGCCTGAACATAGGACTAAACATGTGACCATCACTATCTGATACACG
1 TAGTAGCCTGAACATAGTACTACACACGTGACCATCACTATCTGATACACG
* * * * *
35306201 TAGTAGCCTGCACATAGTACTGCACACGT-A--ATCGAAGCTATCCGATACGCA
1 TAGTAGCCTGAACATAGTACTACACACGTGACCATC--A-CTATCTGATACACG
* * *
35306252 TAGTAGCCT-ACACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGA-ACATAGTACTACACACGTGACC-ATCACTATCTGATACACG
*
35306302 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGAACATAGTACTACACACGTGACCATCACT
35306341 TTCACTTTCA
Statistics
Matches: 111, Mismatches: 19, Indels: 21
0.74 0.13 0.14
Matches are distributed among these distances:
48 3 0.03
49 4 0.04
50 39 0.35
51 60 0.54
52 1 0.01
53 1 0.01
55 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGAACATAGTACTACACACGTGACCATCACTATCTGATACACG
Found at i:35306309 original size:101 final size:102
Alignment explanation
Indices: 35306148--35306330 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 102
35306138 TATCGGTTCA
*
35306148 CATAGTAGCCTGAACATAGGACTAAACATGTGACCATCACTATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGAACATAGGACTAAACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
*
35306213 CATAGTACTGCACACGTAATCGAAGCTATCCGATACG
66 CATAGTACTACACACGTAATCGAAGCTATCCGATACG
* * *
35306250 CATAGTAGCCT-ACACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTG
1 CATAGTAGCCTGA-ACATAGGACTAAACATGCGACC-ATCACTATCTGATACACGTAGTAGCCTG
35306312 CACATAGTACTACACACGT
64 CACATAGTACTACACACGT
35306331 GACCATCACT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
101 39 0.53
102 31 0.42
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGAACATAGGACTAAACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTAATCGAAGCTATCCGATACG
Found at i:35317164 original size:18 final size:19
Alignment explanation
Indices: 35317131--35317166 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35317121 ATAAATGTGG
*
35317131 TGCTTATCCATGCTTATAA
1 TGCTTATACATGCTTATAA
35317150 TGCTTATAC-TGCTTATA
1 TGCTTATACATGCTTATA
35317167 TTTATTTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.44
Consensus pattern (19 bp):
TGCTTATACATGCTTATAA
Found at i:35321793 original size:18 final size:17
Alignment explanation
Indices: 35321770--35321803 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
35321760 CCACAATTAT
*
35321770 ATACAATTTAATCTCAAA
1 ATACAAATTAAT-TCAAA
35321788 ATACAAATTAATTCAA
1 ATACAAATTAATTCAA
35321804 TTCATCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (17 bp):
ATACAAATTAATTCAAA
Found at i:35322468 original size:21 final size:21
Alignment explanation
Indices: 35322413--35322495 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
35322403 CGAATATGCC
35322413 AACAGAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * * *
35322432 AACAAAACCTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
* *
35322453 AACAGAAGCTCGTAAGAACTA
1 AACAGAAGCTCGTAAGAGCTG
*
35322474 AATAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
35322495 A
1 A
35322496 TCCACCCAAT
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 9 0.18
20 2 0.04
21 38 0.78
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:35337583 original size:40 final size:40
Alignment explanation
Indices: 35337539--35337800 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
35337529 GCTCCTCGTT
* *
35337539 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
35337579 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35337619 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35337658 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35337697 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
35337736 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
35337777 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35337801 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:35340936 original size:24 final size:24
Alignment explanation
Indices: 35340908--35340956 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
35340898 GACAAGCTGT
*
35340908 ATGTAGGTTGTGGACGAAGCTACC
1 ATGTAGGTTGTGGACGAAGCCACC
*
35340932 ATGTAGGTTGTGGATGAAGCCACC
1 ATGTAGGTTGTGGACGAAGCCACC
35340956 A
1 A
35340957 ATTCTTCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (24 bp):
ATGTAGGTTGTGGACGAAGCCACC
Found at i:35364445 original size:15 final size:15
Alignment explanation
Indices: 35364421--35364453 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
35364411 GTATTTAATC
*
35364421 TCATAGTCTAAAGTT
1 TCATAATCTAAAGTT
35364436 TCATAATCTAAAGTT
1 TCATAATCTAAAGTT
35364451 TCA
1 TCA
35364454 AGTATAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (15 bp):
TCATAATCTAAAGTT
Found at i:35365485 original size:24 final size:24
Alignment explanation
Indices: 35365458--35365508 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
35365448 AAACAAGCTG
*
35365458 CCATGTAAGTTGTTGACGAAACAA
1 CCATGTAAGTTGTGGACGAAACAA
* * *
35365482 CCATGTAGGTTGTGGATGAAGCAA
1 CCATGTAAGTTGTGGACGAAACAA
35365506 CCA
1 CCA
35365509 ATTATTCCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (24 bp):
CCATGTAAGTTGTGGACGAAACAA
Found at i:35383809 original size:48 final size:49
Alignment explanation
Indices: 35383626--35383810 Score: 178
Period size: 50 Copynumber: 3.8 Consensus size: 49
35383616 GGTAAAGAGA
* * * * **
35383626 TCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAAGAGAAC
** * * *
35383676 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAAGAGAAC
* * *
35383726 TCCCATGTAAGACCATATCTGGGATATGGGATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAAGAGAAC
*
35383774 AT-CCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
35383811 TGTTATTATC
Statistics
Matches: 113, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
48 35 0.31
49 5 0.04
50 73 0.65
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACAAGAGAAC
Found at i:35388035 original size:442 final size:447
Alignment explanation
Indices: 35387181--35388046 Score: 1314
Period size: 442 Copynumber: 1.9 Consensus size: 447
35387171 CTAGAGTACC
* *
35387181 TGGAACAACGGAAATGTGCAAGTGTACACAATCGCAACAAGTAATAAAGTGACAAGTAAAAGTTG
1 TGGAACAACGAAAATGTGCAAGTGTACACAATCGCAACAAGTAATAAAGTGACAAGTAAAAGTCG
* * * *
35387246 AGTTATCGTAACGACAAGGACTATGGAAATAATTATTTATGAATGCAATTTTAAAAACACTTTGG
66 AGTTATCGTAACCACAAGGACTATGAAAAGAATTAGTTATGAATGCAATTTTAAAAACACTTTGG
* * * *
35387311 TGAAGAAAATTTTTTTTTGATTTGAAGTGGTGATTAAAAACTAGGATTTTAACTAAGTAAAATAA
131 TGAAGAAAA-TATATTTTGATTTGAAGAGGTGATTAAAAACTAAGATTTTAACTAAGTAAAATAA
* * * *
35387376 ATAAAATGAAATAAAGTTCCAATGCACGATTTCGAAAGATGATTTTAATCAAGATGACATAATTG
195 ATAAAATGAAAT--A-CTCAAATGCACGATTTCAAAAGACGATTTTAATCAAGATGACATAATTG
*
35387441 TGTTACATTAATTACATTTCTTAACTTAGAATTATTAAACTCATGTTCATGTTGTTACGAATAAA
257 TGTTACATTAATTACATTTCTTAACTTAGAATTATTAAACTCATGTTCATATTGTTACGAATAAA
* * *
35387506 TTCACGGCAACTTAGTAATTTGCTAACTTATGAACATACTTACCTACCAAAATCCATTTATTTCT
322 TTCACGGCAACTCAGTAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTTATCTCT
* *
35387571 TGACTATATCTCTATTTCAATTCAATTGATTAAAAAAAGTTTAATAACAAAATTTGTTAAT
387 TGACTATATCCCTATGTCAATTCAATTGATTAAAAAAAGTTTAATAACAAAATTTGTTAAT
* *
35387632 TGGAACGACGAAAATGTGCAAGTGTACACAATCGCAACAAGTAATAAAGTGACAAGTAAATGTCG
1 TGGAACAACGAAAATGTGCAAGTGTACACAATCGCAACAAGTAATAAAGTGACAAGTAAAAGTCG
* * * *
35387697 AGTTATCGTACCCACAGGGACTTTGAAAAGAATTAGTTATGAATGCTA-TTT-AAAACACTTTGG
66 AGTTATCGTAACCACAAGGACTATGAAAAGAATTAGTTATGAATGCAATTTTAAAAACACTTTGG
* *
35387760 TGAAGAAAA-ATATTTTG-TTTGAAGAGGATGATTAAAAACTAAGATTTTAAACTAAGTGAACTA
131 TGAAGAAAATATATTTTGATTTGAAGAGG-TGATTAAAAACTAAGATTTT-AACTAAGTAAAATA
* *
35387823 AAT-AAAT-AAAT-CTCAAATGCACGATTTCAAAATACGATTTTCATCAAGATGACATAATTGTG
194 AATAAAATGAAATACTCAAATGCACGATTTCAAAAGACGATTTTAATCAAGATGACATAATTGTG
* * *
35387885 TTAGATTAATTACATTTCTTAACTTAGAATTATTAAACTCATGTTTATATTGTTACGAATAAGTT
259 TTACATTAATTACATTTCTTAACTTAGAATTATTAAACTCATGTTCATATTGTTACGAATAAATT
* *
35387950 CACGGCAACTCGGTAATTTGCTAACTTATGAACATACTCACCTACCAATATCCATTTATCTCTTG
324 CACGGCAACTCAGTAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTTATCTCTTG
35388015 ACTATATCCCTATGTCAATTCAATTGATTAAA
389 ACTATATCCCTATGTCAATTCAATTGATTAAA
35388047 CAAATCTTAG
Statistics
Matches: 378, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
442 196 0.52
446 13 0.03
447 29 0.08
448 15 0.04
449 21 0.06
450 3 0.01
451 101 0.27
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (447 bp):
TGGAACAACGAAAATGTGCAAGTGTACACAATCGCAACAAGTAATAAAGTGACAAGTAAAAGTCG
AGTTATCGTAACCACAAGGACTATGAAAAGAATTAGTTATGAATGCAATTTTAAAAACACTTTGG
TGAAGAAAATATATTTTGATTTGAAGAGGTGATTAAAAACTAAGATTTTAACTAAGTAAAATAAA
TAAAATGAAATACTCAAATGCACGATTTCAAAAGACGATTTTAATCAAGATGACATAATTGTGTT
ACATTAATTACATTTCTTAACTTAGAATTATTAAACTCATGTTCATATTGTTACGAATAAATTCA
CGGCAACTCAGTAATTTGCTAACTTATGAACATACTCACCTACCAAAATCCATTTATCTCTTGAC
TATATCCCTATGTCAATTCAATTGATTAAAAAAAGTTTAATAACAAAATTTGTTAAT
Found at i:35391374 original size:3 final size:3
Alignment explanation
Indices: 35391366--35391402 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
35391356 CTATATGGGA
35391366 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
35391403 TTTTGGGATC
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:35393071 original size:30 final size:30
Alignment explanation
Indices: 35393014--35393075 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
35393004 GCTTTTTGAA
* * *
35393014 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTAAAAAAAGAGGCACCAAATTTTT
35393044 AATATTTAAAAAAAGA-GCAACCAAATTTTT
1 AATATTTAAAAAAAGAGGC-ACCAAATTTTT
35393074 AA
1 AA
35393076 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTAAAAAAAGAGGCACCAAATTTTT
Found at i:35394400 original size:27 final size:27
Alignment explanation
Indices: 35394362--35394448 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
35394352 ATTACCAAAG
* * *
35394362 TACCCTCAATTTATAGAATCACTATTT
1 TACCCTCAATTTACAAAATTACTATTT
*
35394389 TACCCTTC-ATTTACAAAATTACTGTTT
1 TACCC-TCAATTTACAAAATTACTATTT
*
35394416 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCAATTTACAAAATTACTATTT
35394443 TACCCT
1 TACCCT
35394449 TGATTGTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 2 0.04
27 49 0.92
28 2 0.04
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACTATTT
Found at i:35394453 original size:27 final size:27
Alignment explanation
Indices: 35394382--35394453 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
35394372 TTATAGAATC
*
35394382 ACTATTTTACCCTTCATTTACAAAATT
1 ACTATTTTACCCTTGATTTACAAAATT
* *
35394409 ACTGTTTTACCCTCGATTTACAAAATT
1 ACTATTTTACCCTTGATTTACAAAATT
35394436 ACTATTTTACCCTTGATT
1 ACTATTTTACCCTTGATT
35394454 GTGAAATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.44
Consensus pattern (27 bp):
ACTATTTTACCCTTGATTTACAAAATT
Found at i:35408222 original size:17 final size:18
Alignment explanation
Indices: 35408182--35408224 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
35408172 TTTTATAAAA
35408182 ATTGGCCTAAACCTGTAATG
1 ATTGGCCTAAACCTG--ATG
35408202 ATTGGCCTAAACCTG-TG
1 ATTGGCCTAAACCTGATG
35408219 ATTGGC
1 ATTGGC
35408225 TGAATACACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
20 15 0.65
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (18 bp):
ATTGGCCTAAACCTGATG
Found at i:35414189 original size:11 final size:11
Alignment explanation
Indices: 35414159--35414207 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
35414149 AGAGAATGAT
35414159 GAATGA-TGA-
1 GAATGATTGAG
35414168 GAATGGA-TGAG
1 GAAT-GATTGAG
35414179 GAATGATTGAG
1 GAATGATTGAG
* *
35414190 GGATGCTTGAG
1 GAATGATTGAG
35414201 GAATGAT
1 GAATGAT
35414208 GAATGAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 4 0.12
10 7 0.21
11 22 0.67
ACGTcount: A:0.35, C:0.02, G:0.39, T:0.24
Consensus pattern (11 bp):
GAATGATTGAG
Found at i:35417626 original size:28 final size:27
Alignment explanation
Indices: 35417569--35417720 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
35417559 TAAATTGTGC
* *
35417569 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
35417596 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
35417624 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
35417651 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
35417679 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
35417706 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35417721 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:35417634 original size:55 final size:55
Alignment explanation
Indices: 35417569--35417720 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
35417559 TAAATTGTGC
* *
35417569 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
35417624 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
35417679 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
35417721 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:35420408 original size:37 final size:37
Alignment explanation
Indices: 35420358--35420431 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
35420348 AGAGCAAGAC
*
35420358 CATCGACGGACTCCCGAGCTACTTCGGTCGCTAGTGT
1 CATCGACGGACTCCCGAGCTACTTCGGTAGCTAGTGT
35420395 CATCGACGGACTCCCGAGCTACTTCGGTAGCTAGTGT
1 CATCGACGGACTCCCGAGCTACTTCGGTAGCTAGTGT
35420432 GGGCAATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.24
Consensus pattern (37 bp):
CATCGACGGACTCCCGAGCTACTTCGGTAGCTAGTGT
Found at i:35423485 original size:61 final size:61
Alignment explanation
Indices: 35423386--35423502 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
35423376 AAGAACAAAC
* * * * *
35423386 TGCCACCAAAACTAAAAGATCTAGGGCGTTTCATTATACCTTGTTCGATTGGAAAGAAAAT
1 TGCCACCAAAACTAAAAGATCCAAGGAGTTTCACTATACCATGTTCGATTGGAAAGAAAAT
* * *
35423447 TGCCACCAAAATTAGAAGATCCAAGGAGTTTCGCTATACCATGTTCGATTGGAAAG
1 TGCCACCAAAACTAAAAGATCCAAGGAGTTTCACTATACCATGTTCGATTGGAAAG
35423503 CATTATGTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (61 bp):
TGCCACCAAAACTAAAAGATCCAAGGAGTTTCACTATACCATGTTCGATTGGAAAGAAAAT
Found at i:35436779 original size:22 final size:22
Alignment explanation
Indices: 35436754--35436795 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35436744 ATATACACAT
35436754 TTTTTAACTCAAATTCATGCCC
1 TTTTTAACTCAAATTCATGCCC
*
35436776 TTTTTCACTCAAATTCATGC
1 TTTTTAACTCAAATTCATGC
35436796 AGTTTCGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.43
Consensus pattern (22 bp):
TTTTTAACTCAAATTCATGCCC
Found at i:35438542 original size:137 final size:137
Alignment explanation
Indices: 35438109--35438514 Score: 776
Period size: 137 Copynumber: 3.0 Consensus size: 137
35438099 CATGTAATAT
*
35438109 TTTATTTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
1 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
* * *
35438174 TTAATTTCATAAGTATGTATGTGCATTAACACATTTTCTTATTAAAATTTGTTTAATCGGTTGAA
66 TTAATTTCATAAGTATGTATGTGCAGTAACTCTTTTTCTTATTAAAATTTGTTTAATCGGTTGAA
35438239 TTAATTG
131 TTAATTG
35438246 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
1 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
35438311 TTAATTTCATAAGTATGTATGTGCAGTAACTCTTTTTCTTATTAAAATTTGTTTAATCGGTTGAA
66 TTAATTTCATAAGTATGTATGTGCAGTAACTCTTTTTCTTATTAAAATTTGTTTAATCGGTTGAA
35438376 TTAATTG
131 TTAATTG
35438383 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
1 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
35438448 TTAATTTCATAAGTATGTATGTGCAGTAACTCTTTTTCTTATTAAAATTTGTTTAATCGGTTGAA
66 TTAATTTCATAAGTATGTATGTGCAGTAACTCTTTTTCTTATTAAAATTTGTTTAATCGGTTGAA
35438513 TT
131 TT
35438515 GACATAGAGA
Statistics
Matches: 265, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 265 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (137 bp):
TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
TTAATTTCATAAGTATGTATGTGCAGTAACTCTTTTTCTTATTAAAATTTGTTTAATCGGTTGAA
TTAATTG
Found at i:35460645 original size:129 final size:129
Alignment explanation
Indices: 35460372--35460631 Score: 520
Period size: 129 Copynumber: 2.0 Consensus size: 129
35460362 AATAAATGGC
35460372 TTATTTTATATTAATTTGAATATATTATTTTTTTAAGACATAAAGTGGGCCATGTATTATTAAAT
1 TTATTTTATATTAATTTGAATATATTATTTTTTTAAGACATAAAGTGGGCCATGTATTATTAAAT
35460437 TAAATAATAAAATATAAAATTATATTTAATAATTCATTTGAAAATATTTCATTAATAATTTGGG
66 TAAATAATAAAATATAAAATTATATTTAATAATTCATTTGAAAATATTTCATTAATAATTTGGG
35460501 TTATTTTATATTAATTTGAATATATTATTTTTTTAAGACATAAAGTGGGCCATGTATTATTAAAT
1 TTATTTTATATTAATTTGAATATATTATTTTTTTAAGACATAAAGTGGGCCATGTATTATTAAAT
35460566 TAAATAATAAAATATAAAATTATATTTAATAATTCATTTGAAAATATTTCATTAATAATTTGGG
66 TAAATAATAAAATATAAAATTATATTTAATAATTCATTTGAAAATATTTCATTAATAATTTGGG
35460630 TT
1 TT
35460632 TTAATTAATT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 131 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (129 bp):
TTATTTTATATTAATTTGAATATATTATTTTTTTAAGACATAAAGTGGGCCATGTATTATTAAAT
TAAATAATAAAATATAAAATTATATTTAATAATTCATTTGAAAATATTTCATTAATAATTTGGG
Found at i:35460932 original size:13 final size:12
Alignment explanation
Indices: 35460905--35460944 Score: 71
Period size: 12 Copynumber: 3.2 Consensus size: 12
35460895 TAAATTGCTT
35460905 AAAAATCAAGCA
1 AAAAATCAAGCA
35460917 AAAAATCAAGCA
1 AAAAATCAAGCA
35460929 AAAAATCAAGTCA
1 AAAAATCAAG-CA
35460942 AAA
1 AAA
35460945 GCCACTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.68, C:0.15, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAATCAAGCA
Found at i:35461651 original size:74 final size:74
Alignment explanation
Indices: 35461530--35461672 Score: 286
Period size: 74 Copynumber: 1.9 Consensus size: 74
35461520 GAAATACACC
35461530 TGAATTAGCTGAGTGATCCTAACCAGATGACGGCTAATGGACACATAATTGAAATGTGCATGCTC
1 TGAATTAGCTGAGTGATCCTAACCAGATGACGGCTAATGGACACATAATTGAAATGTGCATGCTC
35461595 AATTATGTG
66 AATTATGTG
35461604 TGAATTAGCTGAGTGATCCTAACCAGATGACGGCTAATGGACACATAATTGAAATGTGCATGCTC
1 TGAATTAGCTGAGTGATCCTAACCAGATGACGGCTAATGGACACATAATTGAAATGTGCATGCTC
35461669 AATT
66 AATT
35461673 TAGATCCTGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (74 bp):
TGAATTAGCTGAGTGATCCTAACCAGATGACGGCTAATGGACACATAATTGAAATGTGCATGCTC
AATTATGTG
Found at i:35463785 original size:27 final size:27
Alignment explanation
Indices: 35463755--35463932 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
35463745 ATATTGAGCC
* *
35463755 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
35463782 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
35463809 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * ** *
35463837 CGCACACTTAGTGCCGCGTGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
35463864 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
35463891 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
35463918 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35463933 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35463894 original size:82 final size:81
Alignment explanation
Indices: 35463776--35463931 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35463766 TGCTATATAA
* *
35463776 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35463841 CACTTAGTGCCGCGTGG
65 CACTTAGTGCCGCGTGG
* * **
35463858 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35463922 CACTTAGTGC
65 CACTTAGTGC
35463932 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCGTGG
Found at i:35471920 original size:27 final size:27
Alignment explanation
Indices: 35471890--35472067 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35471880 ATATTGAGTC
* * * *
35471890 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35471917 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35471944 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35471972 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35471999 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35472026 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35472053 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35472068 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35472029 original size:82 final size:81
Alignment explanation
Indices: 35471911--35472066 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35471901 TGCTATATAA
* *
35471911 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35471976 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35471993 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35472057 CACTTAGTGC
65 CACTTAGTGC
35472067 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35478184 original size:24 final size:22
Alignment explanation
Indices: 35478151--35478213 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 22
35478141 ATCCTCACTG
*
35478151 TTTCGTTTCTTTTTATCAATTTTCT
1 TTTC-TTTCTTTTT-TCAATCTT-T
35478176 TTTCTTTCTCTTTTTCAATCTTT
1 TTTCTTTCT-TTTTTCAATCTTT
35478199 TTTCTTGTACTTTTT
1 TTTCTT-T-CTTTTT
35478214 CTTTCTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 7 0.21
24 17 0.50
25 10 0.29
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (22 bp):
TTTCTTTCTTTTTTCAATCTTT
Found at i:35490936 original size:13 final size:13
Alignment explanation
Indices: 35490920--35491008 Score: 90
Period size: 13 Copynumber: 6.7 Consensus size: 13
35490910 AAATGAATAA
35490920 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
35490933 ATGAATTGGTTAT
1 ATGAAATGGTTAT
* *
35490946 ATAGAAATAGATAT
1 AT-GAAATGGTTAT
35490960 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
35490973 ATG-AATCGATTAT
1 ATGAAAT-GGTTAT
* *
35490986 ATAGAAATAGATAT
1 AT-GAAATGGTTAT
35491000 ATGAAATGG
1 ATGAAATGG
35491009 AACATTGGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
12 3 0.05
13 39 0.64
14 16 0.26
15 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.20, T:0.35
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:35490975 original size:40 final size:40
Alignment explanation
Indices: 35490920--35491008 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
35490910 AAATGAATAA
* *
35490920 ATGAAATGGTTATATGAATTGGTTATATAGAAATAGATAT
1 ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
35490960 ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
1 ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
35491000 ATGAAATGG
1 ATGAAATGG
35491009 AACATTGGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.44, C:0.01, G:0.20, T:0.35
Consensus pattern (40 bp):
ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
Found at i:35490992 original size:27 final size:26
Alignment explanation
Indices: 35490929--35491004 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
35490919 AATGAAATGG
*
35490929 TTATATGAATTGGTTATATAGAAATAGA
1 TTATATGAAATGGTTATAT-G-AATAGA
*
35490957 -TATATGAAATGGTTATATGAATCGA
1 TTATATGAAATGGTTATATGAATAGA
* *
35490982 TTATATAGAAATAGATATATGAA
1 TTATAT-GAAATGGTTATATGAA
35491005 ATGGAACATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.12
26 6 0.14
27 31 0.74
ACGTcount: A:0.45, C:0.01, G:0.17, T:0.37
Consensus pattern (26 bp):
TTATATGAAATGGTTATATGAATAGA
Done.