Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 14367614
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 51264 characters in sequence are not A, C, G, or T
File 20 of 31
Found at i:9662121 original size:25 final size:25
Alignment explanation
Indices: 9662093--9662191 Score: 146
Period size: 25 Copynumber: 4.0 Consensus size: 25
9662083 ACTCGTAATA
*
9662093 TTGATTAAGTTGTTGTGTGGATATG
1 TTGATTAAGTTGTTGTTTGGATATG
*
9662118 TTGATTAAGTTGTTGTTTGAATATG
1 TTGATTAAGTTGTTGTTTGGATATG
*
9662143 TT-ATTTAAGTTATTGTTTGGATATG
1 TTGA-TTAAGTTGTTGTTTGGATATG
*
9662168 TTGTTTAAGTTGTTGTTTGGATAT
1 TTGATTAAGTTGTTGTTTGGATAT
9662192 TTGGTTTTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
24 1 0.02
25 65 0.98
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (25 bp):
TTGATTAAGTTGTTGTTTGGATATG
Found at i:9667482 original size:79 final size:79
Alignment explanation
Indices: 9667351--9667501 Score: 275
Period size: 79 Copynumber: 1.9 Consensus size: 79
9667341 GCTCCTTGCA
* *
9667351 TTTGTCCTTTTTCACCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAGTAACTGAA
1 TTTGTCCTTTTTCACCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAGCAACTAAA
9667416 TGCGAGTCTATGCT
66 TGCGAGTCTATGCT
*
9667430 TTTGTCCTTTTTCATCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAGCAACTAAA
1 TTTGTCCTTTTTCACCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAGCAACTAAA
9667495 TGCGAGT
66 TGCGAGT
9667502 ACTGCTAAGA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (79 bp):
TTTGTCCTTTTTCACCCCTCAGTGGTCAGTGCTTGTCCTCCATTGTTGAGTCTAGAGCAACTAAA
TGCGAGTCTATGCT
Found at i:9677616 original size:19 final size:19
Alignment explanation
Indices: 9677592--9677631 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
9677582 TACTATAATT
9677592 TACAATATTGCCTTATATG
1 TACAATATTGCCTTATATG
9677611 TACAATATTGCCTTATATG
1 TACAATATTGCCTTATATG
9677630 TA
1 TA
9677632 GATGTTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (19 bp):
TACAATATTGCCTTATATG
Found at i:9692650 original size:2 final size:2
Alignment explanation
Indices: 9692643--9692690 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
9692633 GTTACAATTC
* *
9692643 AT AT AT AT AT AT AT AT AT AT AT GT AT AT ACT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
9692686 AT AT A
1 AT AT A
9692691 CATGAGAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9702572 original size:15 final size:14
Alignment explanation
Indices: 9702529--9702577 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
9702519 GCTAATAAAT
*
9702529 AATAATTAAAATAA
1 AATAAATAAAATAA
*
9702543 AGTAAATAAATATAA
1 AATAAATAAA-ATAA
*
9702558 AATAGTATAAAATAA
1 AATA-AATAAAATAA
9702573 AATAA
1 AATAA
9702578 CTTAATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 8 0.29
15 15 0.54
16 5 0.18
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAA
Found at i:9702587 original size:18 final size:17
Alignment explanation
Indices: 9702547--9702607 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
9702537 AAATAAAGTA
*
9702547 AATAAATATAAAAT-AGT
1 AATAAA-ATAAAATAATT
9702564 -ATAAAATAAAATAACTT
1 AATAAAATAAAATAA-TT
*
9702581 AATAAAATTAAACTAATT
1 AATAAAA-TAAAATAATT
9702599 AA-AAAATAA
1 AATAAAATAA
9702608 CTAAATCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 7 0.18
16 9 0.24
17 5 0.13
18 10 0.26
19 7 0.18
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (17 bp):
AATAAAATAAAATAATT
Found at i:9702999 original size:16 final size:16
Alignment explanation
Indices: 9702978--9703013 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9702968 ACTTTCAAGC
9702978 GTGATATTGATGGTGT
1 GTGATATTGATGGTGT
*
9702994 GTGATATTGATGGTTT
1 GTGATATTGATGGTGT
9703010 GTGA
1 GTGA
9703014 CCAAACCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.44
Consensus pattern (16 bp):
GTGATATTGATGGTGT
Found at i:9703909 original size:29 final size:29
Alignment explanation
Indices: 9703867--9703927 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
9703857 TGATTAGCTT
* *
9703867 TTGGTACAAAATAAATATTAAAAATGAAC
1 TTGGTAAAAAATAAACATTAAAAATGAAC
9703896 TTGGTAAAAAATAAACATTAAAAATGAAC
1 TTGGTAAAAAATAAACATTAAAAATGAAC
9703925 TTG
1 TTG
9703928 TTACCTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (29 bp):
TTGGTAAAAAATAAACATTAAAAATGAAC
Found at i:9706252 original size:2 final size:2
Alignment explanation
Indices: 9706245--9706280 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9706235 ATTCGTCCAC
9706245 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9706281 GTGGGCTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9708947 original size:37 final size:37
Alignment explanation
Indices: 9708906--9708979 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
9708896 TGGGAATGAA
9708906 TCTTGTGGTGAGAGTGATATGAGTTATTTTATAGTTT
1 TCTTGTGGTGAGAGTGATATGAGTTATTTTATAGTTT
9708943 TCTTGTGGTGAGAGTGATATGAGTTATTTTATAGTTT
1 TCTTGTGGTGAGAGTGATATGAGTTATTTTATAGTTT
9708980 CACTTTAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.49
Consensus pattern (37 bp):
TCTTGTGGTGAGAGTGATATGAGTTATTTTATAGTTT
Found at i:9709260 original size:6 final size:6
Alignment explanation
Indices: 9709249--9709286 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
9709239 CTTAGTTCAT
9709249 GTGCCA GTGCCA GTGCCA GTGCCA GTGCCA GTGCCA GT
1 GTGCCA GTGCCA GTGCCA GTGCCA GTGCCA GTGCCA GT
9709287 TGTATAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (6 bp):
GTGCCA
Found at i:9724292 original size:21 final size:20
Alignment explanation
Indices: 9724253--9724303 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
9724243 ATTAATAAAT
9724253 TAAAA-TAAATAAATTAACA
1 TAAAATTAAATAAATTAACA
*
9724272 TATAATTAAATAAATTTAACA
1 TAAAATTAAATAAA-TTAACA
9724293 TAAAATTAAAT
1 TAAAATTAAAT
9724304 TAAAATCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 8 0.29
21 16 0.57
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATTAAATAAATTAACA
Found at i:9737675 original size:18 final size:18
Alignment explanation
Indices: 9737649--9737684 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9737639 TAAATATTTT
9737649 TAATAAAAAATAAATAAA
1 TAATAAAAAATAAATAAA
* *
9737667 TAATTAAAAATTAATAAA
1 TAATAAAAAATAAATAAA
9737685 AATGTGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAATAAAAAATAAATAAA
Found at i:9737768 original size:23 final size:22
Alignment explanation
Indices: 9737741--9737804 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
9737731 AATAAATATT
**
9737741 TTATTAATTATTTTTAATTATA
1 TTATTAATTATAATTAATTATA
9737763 TATATTTAA-TATAATTAATTATA
1 T-TA-TTAATTATAATTAATTATA
9737786 TTATT-ATTATAA--AATTATA
1 TTATTAATTATAATTAATTATA
9737805 AAATTTCCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 7 0.19
20 1 0.03
21 7 0.19
22 3 0.08
23 15 0.41
24 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTAATTATAATTAATTATA
Found at i:9739443 original size:13 final size:13
Alignment explanation
Indices: 9739425--9739450 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9739415 AAAATTCTTG
9739425 ATTTTCTACAAGA
1 ATTTTCTACAAGA
9739438 ATTTTCTACAAGA
1 ATTTTCTACAAGA
9739451 TTATGAGCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
ATTTTCTACAAGA
Found at i:9742863 original size:19 final size:19
Alignment explanation
Indices: 9742828--9742865 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9742818 TAATGGCATC
*
9742828 CCTCTTCGTTTCAAGCCCA
1 CCTCTTCGTTACAAGCCCA
*
9742847 CCTCTTCGTTACTAGCCCA
1 CCTCTTCGTTACAAGCCCA
9742866 TCTGCCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.42, G:0.11, T:0.32
Consensus pattern (19 bp):
CCTCTTCGTTACAAGCCCA
Found at i:9745350 original size:28 final size:29
Alignment explanation
Indices: 9745276--9745351 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
9745266 AATCTTTAAT
*
9745276 TATAAAAATTTATTTAATTTAAAATAAAAA
1 TATAAAAATTTATTTAA-ATAAAATAAAAA
* * *
9745306 TATAAAAACTTAATTAAATATAATAAAAA
1 TATAAAAATTTATTTAAATAAAATAAAAA
9745335 -ATAAAAATTTATTTAAA
1 TATAAAAATTTATTTAAA
9745352 AATTTTTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 15 0.38
29 10 0.25
30 15 0.38
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (29 bp):
TATAAAAATTTATTTAAATAAAATAAAAA
Found at i:9746052 original size:14 final size:14
Alignment explanation
Indices: 9746033--9746068 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9746023 TCTTTTATTG
9746033 TTATTTATATTTAT
1 TTATTTATATTTAT
*
9746047 TTATTTATTTTTAT
1 TTATTTATATTTAT
9746061 TCTATTTA
1 T-TATTTA
9746069 CTCATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATTTATATTTAT
Found at i:9746877 original size:2 final size:2
Alignment explanation
Indices: 9746870--9746899 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9746860 CCATTCAGTT
*
9746870 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9746900 CTATCATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9747436 original size:7 final size:7
Alignment explanation
Indices: 9747424--9747463 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
9747414 ATCCCACCCA
9747424 CAGCATC
1 CAGCATC
9747431 CAGCATC
1 CAGCATC
9747438 CAGCATC
1 CAGCATC
9747445 CAGCATC
1 CAGCATC
9747452 CAGCA-C
1 CAGCATC
9747458 CAGCAT
1 CAGCAT
9747464 AACAAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.30, C:0.42, G:0.15, T:0.12
Consensus pattern (7 bp):
CAGCATC
Found at i:9748235 original size:13 final size:13
Alignment explanation
Indices: 9748217--9748241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9748207 TTTAGTTTTG
9748217 AAAAGAAAAAAGA
1 AAAAGAAAAAAGA
9748230 AAAAGAAAAAAG
1 AAAAGAAAAAAG
9748242 GAAAGCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAGA
Found at i:9758096 original size:2 final size:2
Alignment explanation
Indices: 9758089--9758117 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9758079 CTCTATATGA
9758089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9758118 ATTCGGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9759255 original size:206 final size:205
Alignment explanation
Indices: 9758883--9759344 Score: 521
Period size: 206 Copynumber: 2.2 Consensus size: 205
9758873 CCTTATCTCA
* * * *
9758883 AAAGTAGAAATAAATGATACCTAAAAATCTGTTTGGATATAAATGGTGAGACAGCTCCGTTGATG
1 AAAGTAGAAATAAGTGATATCTAAAAATCTGTTTGGATATAGATGGTGACACAGCTCCGTTGATG
* * * * * * * ** *
9758948 TCTAACGGTAAGTTGCTGGATACTAGAGTTGAGTAAAAATGGGTCGAATTGAATGATATGATCAA
66 TCCAACGGTAAGTAGCTGAAAACTAAAGGTGAGGAAAAATGGGTCGAATTGAATGATACAACCAA
* * * *** *
9759013 TTTAAATGAAATTTGGATAAAATAATTTAATTTGATTGGTCTATTTGGTTTTTGATCCAAAAATT
131 TTTAAATGAAATTTGGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTGATCCAAAAACT
* *
9759078 TTAATTCTAT
196 TCAATACTAT
* * * **
9759088 AAAGTAGAAATAAGTGACATTTAAAAATCTAGTTTGGATATAGATGGTGACACAGTTGTGTTGAT
1 AAAGTAGAAATAAGTGATATCTAAAAATCT-GTTTGGATATAGATGGTGACACAGCTCCGTTGAT
* * * *
9759153 GTCCAATGGTAGGTAGCTGAAAACTAAAGGTGAGGAAAAATGGGTCGAATTGAATGATCCAACCG
65 GTCCAACGGTAAGTAGCTGAAAACTAAAGGTGAGGAAAAATGGGTCGAATTGAATGATACAACCA
* ** *
9759218 ATTTAAATGAAATTTAGG-TAAAGCAATTTGGTTTGATTGATCCATTCAATTTTTGATCTAAAAA
130 ATTTAAATGAAATTT-GGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTGATCCAAAAA
*
9759282 CTTCAGTACTAT
194 CTTCAATACTAT
* * **
9759294 AAAGTAGAAATAAGTGATGTCTAAAAATTTGGTTTTCATATAGATGGTGAC
1 AAAGTAGAAATAAGTGATATCTAAAAATCT-GTTTGGATATAGATGGTGAC
9759345 GTGGATGTGT
Statistics
Matches: 211, Mismatches: 44, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
205 26 0.12
206 183 0.87
207 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.34
Consensus pattern (205 bp):
AAAGTAGAAATAAGTGATATCTAAAAATCTGTTTGGATATAGATGGTGACACAGCTCCGTTGATG
TCCAACGGTAAGTAGCTGAAAACTAAAGGTGAGGAAAAATGGGTCGAATTGAATGATACAACCAA
TTTAAATGAAATTTGGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTGATCCAAAAACT
TCAATACTAT
Found at i:9759428 original size:206 final size:206
Alignment explanation
Indices: 9758883--9759437 Score: 499
Period size: 206 Copynumber: 2.7 Consensus size: 206
9758873 CCTTATCTCA
* * * * * * * **
9758883 AAAGTAGAAATAAATGATACCTAAAAATCT-GTTTGGATATAAATGGTGAGACAGCTCCGTTGAT
1 AAAGTAGAAATAAGTGACATCTAAAAATCTAGTTTGCATATAGATGGTGACACAGATGTGTTGAT
* * * ** * * * *
9758947 GTCTAACGGTAAGTTGCTGGATACTAGAGTTG-AGTAAAAATGGGTCGAATTGAATGATATGATC
66 ATCCAATGGTAAGTAACTGAAAACTAAAGGTGAAG-AAAAATGGGTCGAATTGAATGATATGATC
* * * * ***
9759011 AATTTAAATGAAATTTGGATAAAATAATTTAATTTGATTGGTCTATTTGGTTTTTGATCCAAAAA
130 GATTTAAATGAAATTTGGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTGATCCAAAAA
* * *
9759076 TTTTAATTCTAT
195 CTTCAATACTAT
* * *
9759088 AAAGTAGAAATAAGTGACATTTAAAAATCTAGTTTGGATATAGATGGTGACACAGTTGTGTTGAT
1 AAAGTAGAAATAAGTGACATCTAAAAATCTAGTTTGCATATAGATGGTGACACAGATGTGTTGAT
* * * * *** *
9759153 GTCCAATGGTAGGTAGCTGAAAACTAAAGGTGAGGAAAAATGGGTCGAATTGAATGATCCAACCG
66 ATCCAATGGTAAGTAACTGAAAACTAAAGGTGAAGAAAAATGGGTCGAATTGAATGATATGATCG
* ** *
9759218 ATTTAAATGAAATTTAGG-TAAAGCAATTTGGTTTGATTGATCCATTCAATTTTTGATCTAAAAA
131 ATTTAAATGAAATTT-GGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTGATCCAAAAA
*
9759282 CTTCAGTACTAT
195 CTTCAATACTAT
** * * * *** *
9759294 AAAGTAGAAATAAGTGATGTCTAAAAATTTGGTTTTCATATAGATGGTGACGTGGATGTGTTGTT
1 AAAGTAGAAATAAGTGACATCTAAAAATCTAGTTTGCATATAGATGGTGACACAGATGTGTTGAT
** * * * *
9759359 ATCCAA-GGATAAGTAACTGAAAACT-AAGGATGAATCAAAATAGGTCAAATCGAATGATGTGAT
66 ATCCAATGG-TAAGTAACTGAAAACTAAAGG-TGAAGAAAAATGGGTCGAATTGAATGATATGAT
*
9759422 CGATTTAAATAAAATT
129 CGATTTAAATGAAATT
9759438 CAGTTATTCT
Statistics
Matches: 282, Mismatches: 63, Indels: 9
0.80 0.18 0.03
Matches are distributed among these distances:
205 32 0.11
206 247 0.88
207 3 0.01
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (206 bp):
AAAGTAGAAATAAGTGACATCTAAAAATCTAGTTTGCATATAGATGGTGACACAGATGTGTTGAT
ATCCAATGGTAAGTAACTGAAAACTAAAGGTGAAGAAAAATGGGTCGAATTGAATGATATGATCG
ATTTAAATGAAATTTGGATAAAACAATTTAATTTGATTGATCCATTCAATTTTTGATCCAAAAAC
TTCAATACTAT
Found at i:9765909 original size:6 final size:6
Alignment explanation
Indices: 9765898--9765928 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9765888 ATTATTTAAC
9765898 AATAAA AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
9765929 TTGTCCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:9772687 original size:22 final size:22
Alignment explanation
Indices: 9772652--9772696 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9772642 CATACAAGGT
* *
9772652 CTTATTAACTAGTCACGCAATG
1 CTTATCAACCAGTCACGCAATG
*
9772674 CTTATCAACCAGTCATGCAATG
1 CTTATCAACCAGTCACGCAATG
9772696 C
1 C
9772697 CATATCAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (22 bp):
CTTATCAACCAGTCACGCAATG
Found at i:9772739 original size:22 final size:22
Alignment explanation
Indices: 9772714--9772772 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
9772704 ATTAATCATA
*
9772714 CAATACCTAAAAATCAATCACG
1 CAATGCCTAAAAATCAATCACG
* * *
9772736 CAATGCTTAAAAATTAATCATG
1 CAATGCCTAAAAATCAATCACG
*
9772758 CAATGCCCAAAAATC
1 CAATGCCTAAAAATC
9772773 GGTTACACAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.22
Consensus pattern (22 bp):
CAATGCCTAAAAATCAATCACG
Found at i:9772789 original size:44 final size:44
Alignment explanation
Indices: 9772703--9772792 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
9772693 ATGCCATATC
* * *
9772703 AATTAATCATACAATACCTAAAAATCAATCACGCAATGCTTAAA
1 AATTAATCATACAATACCCAAAAATCAATCACACAATACTTAAA
* * ** *
9772747 AATTAATCATGCAATGCCCAAAAATCGGTTACACAATACTTAAA
1 AATTAATCATACAATACCCAAAAATCAATCACACAATACTTAAA
9772791 AA
1 AA
9772793 CCACCAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (44 bp):
AATTAATCATACAATACCCAAAAATCAATCACACAATACTTAAA
Found at i:9779615 original size:24 final size:24
Alignment explanation
Indices: 9779567--9779617 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
9779557 TTGGAACTTA
**
9779567 TTATTCATTATTCTAATATTTTGG
1 TTATTCATTATTCTAATATCCTGG
* *
9779591 TTATTCCTTATTCTGATATCCTGG
1 TTATTCATTATTCTAATATCCTGG
9779615 TTA
1 TTA
9779618 CTGTTTGTTA
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:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (24 bp):
TTATTCATTATTCTAATATCCTGG
Found at i:9786815 original size:6 final size:6
Alignment explanation
Indices: 9786801--9786838 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
9786791 CAGAATCAAT
*
9786801 AGAAGA AGAACA AGAACA AGAACA AGAACA AGAACA AG
1 AGAACA AGAACA AGAACA AGAACA AGAACA AGAACA AG
9786839 GGGCATACAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.66, C:0.13, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAACA
Found at i:9788861 original size:26 final size:25
Alignment explanation
Indices: 9788832--9788897 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
9788822 TCATCTAAAC
* *
9788832 TAAAATCATATAATTTTTCATTTTTT
1 TAAAAT-ATATAATTTTTAATTATTT
* *
9788858 TAAAA-AAATTAAGTTTTAATTATTT
1 TAAAATATA-TAATTTTTAATTATTT
*
9788883 TAAAATATATTATTT
1 TAAAATATATAATTT
9788898 AATTTTGCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
24 2 0.06
25 22 0.71
26 7 0.23
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (25 bp):
TAAAATATATAATTTTTAATTATTT
Found at i:9789345 original size:2 final size:2
Alignment explanation
Indices: 9789338--9789377 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9789328 TACATGTATG
9789338 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9789378 ACTAGTTAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9793480 original size:14 final size:14
Alignment explanation
Indices: 9793461--9793492 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9793451 GAGGATAGAG
9793461 AGAAAAAAAAAAGA
1 AGAAAAAAAAAAGA
9793475 AGAAAAAAAAAAGA
1 AGAAAAAAAAAAGA
9793489 AGAA
1 AGAA
9793493 GAGCCAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAGA
Found at i:9795254 original size:14 final size:14
Alignment explanation
Indices: 9795203--9795256 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
9795193 TATTATAATC
9795203 TTATATATTTTAT-
1 TTATATATTTTATA
* *
9795216 TTTTATTTTGTTAATA
1 TTATATATT-TT-ATA
9795232 TTAT-T-TTTTATA
1 TTATATATTTTATA
9795244 TTATATATTTTAT
1 TTATATATTTTAT
9795257 TTTAATTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
12 7 0.21
13 10 0.30
14 10 0.30
15 3 0.09
16 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTATATATTTTATA
Found at i:9795269 original size:29 final size:28
Alignment explanation
Indices: 9795237--9795305 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
9795227 TAATATTATT
**
9795237 TTTTATATTATATATTTTATTTTAATTTC
1 TTTTATATTATATA-TAAATTTTAATTTC
*
9795266 TTTTACCTA-AATATATAAATTTTAATTTC
1 TTTTA--TATTATATATAAATTTTAATTTC
*
9795295 TTTTATTTTAT
1 TTTTATATTAT
9795306 TTTAATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
27 1 0.03
28 2 0.06
29 22 0.69
30 5 0.16
31 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTATATTATATATAAATTTTAATTTC
Found at i:9795320 original size:14 final size:13
Alignment explanation
Indices: 9795300--9795353 Score: 56
Period size: 14 Copynumber: 4.0 Consensus size: 13
9795290 ATTTCTTTTA
9795300 TTTTATTTTAA-T
1 TTTTATTTTAATT
* *
9795312 TTTTATATTATATA
1 TTTTATTTTA-ATT
9795326 TTTTATTTTAATAT
1 TTTTATTTTAAT-T
9795340 TTTTAATTTTAATT
1 TTTT-ATTTTAATT
9795354 ATAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 9 0.26
13 3 0.09
14 14 0.41
15 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTTTAATT
Found at i:9797510 original size:130 final size:131
Alignment explanation
Indices: 9797276--9797537 Score: 474
Period size: 130 Copynumber: 2.0 Consensus size: 131
9797266 AAATTTAAAA
* *
9797276 TTCTGACTCGTAACATTTAGTATTAAAATAAACTTAAATCTTCACTTAATGTGGGTCCCATGAGA
1 TTCTGACTCGTAACATTTAGTATTAAAATAAACTTAAATCTTCACTTAATGTGAGCCCCATGAGA
9797341 GATACAATGGTCAAGCTAGATCTAGACTGATATAAAAGTCTCTCTCCTTTACAGGTA-AAGAGCT
66 GATACAATGGTCAAGCTAGATCTAGACTGATATAAAAGTCTCTCTCCTTTACAGG-AGAAGAGCT
9797405 AG
130 AG
9797407 TTCTGACTCGTAACATTTAGTATTAAAATAAACTTAAATCTTCAC-TAATGTGAGCCCCATGAGA
1 TTCTGACTCGTAACATTTAGTATTAAAATAAACTTAAATCTTCACTTAATGTGAGCCCCATGAGA
*
9797471 GATACAATGGTCAAGCTAGATCTAGATTGATATAAAAGTCTCTCTCCTTTACAGGAGAAGAGCTA
66 GATACAATGGTCAAGCTAGATCTAGACTGATATAAAAGTCTCTCTCCTTTACAGGAGAAGAGCTA
9797536 G
131 G
9797537 T
1 T
9797538 GCAGTGAGGA
Statistics
Matches: 127, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
129 1 0.01
130 81 0.64
131 45 0.35
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (131 bp):
TTCTGACTCGTAACATTTAGTATTAAAATAAACTTAAATCTTCACTTAATGTGAGCCCCATGAGA
GATACAATGGTCAAGCTAGATCTAGACTGATATAAAAGTCTCTCTCCTTTACAGGAGAAGAGCTA
G
Found at i:9821006 original size:534 final size:531
Alignment explanation
Indices: 9820001--9821059 Score: 1378
Period size: 534 Copynumber: 2.0 Consensus size: 531
9819991 AAGCACTGAC
* *
9820001 TTGTGAATTCTACCTTTGCAAGTATTATTTCGAGTCACTCTTGCTTCAATACATATAATAATTTA
1 TTGTGAATTCTACCTTTGCAAGTATTATTTCAAGTCACTCTTCCTTCAATACATATAATAATTTA
* * *
9820066 CCTTTTAGACTTAGAAATATAAATATTACTATGATTAAACAATATTAGATTATGGATTCTGGTGC
66 CCTATTAGACTTAAAAATATAAATATTACTATGATTAAACAATATTAGATTATGGATTCTAGTGC
* * * * *
9820131 CAGTGGTCATATATGTTGTTCCTTAAGTAGTTTCATTCATGCTAAAGCTATCAAGAATTGCTTTA
131 CAGTGATCATATATGTTGTTCCTTAAGGAGCTTCATTCATGATAAAACTATCAAGAATTGCTTTA
* * ** * *
9820196 TCCATCTACCTAATGATAAAAGAGTTCTTATGTCTCATGTCAGAACAATAAGGCTAAATCCAAAG
196 TCCAACTACCTAATGATAAAAAAGTTCCCATGTCTCACGTCAGAACAATAAGGCTAAATCCAAAA
*
9820261 TTAAACTTATAAAATATCCCGTACGTCCCAAGTTTCAAGTTCAATCTAATTTCAATAGGTTAGCT
261 TTAAACTTATAAAATATCCCGTACGTCCCAAGTTTCAAGTTCAATATAATTTCAATAGGTTAGCT
* ** *
9820326 CACCAGAACTAAGAAAAATTGTGTACTTTTCATTGATACACACTGTGTTGTATAAGACATTCTCT
326 CACCAAAACTAAGAAAAATTGTGTACTTTTCATTGATACACACCATGTTGTACAAGACATTCTCT
* *
9820391 CATGGATACTGATTAGGGTTGCTAGGACTTTCTCAAGGCTACACTTCACGCAAGATAAATCAAAT
391 CATGGATACTGATTAGGATTGCTAGGACTTTCTCAAGACTACACTTCACGCAAGATAAATCAAAT
*
9820456 AAACAAGACATATCAAGTTTCCGTTTTGACAAAATAGTCAAGTTTCCCTTTAGTTTTACAATCAA
456 AAACAAGACATATCAAGTTTCCGTTTTGACAAAATAGTCAAGTTTCCCTTTAGTTCTACAATCAA
9820521 TGCTTATTTAT
521 TGCTTATTTAT
* * *
9820532 TTGTGAATTCTACCTTTGTAGGTATTATTTCAAG-CTACTTTTCCTTCAATACATCA-AATAATT
1 TTGTGAATTCTACCTTTGCAAGTATTATTTCAAGTC-ACTCTTCCTTCAATACAT-ATAATAATT
* * *
9820595 TGCCTATTAGATTTAAAAATGTAAATATTACTATGATTAAACAA-AGTTATTGCATTATGGATTC
64 TACCTATTAGACTTAAAAATATAAATATTACTATGATTAAACAATA-TTA--G-ATTATGGATTC
*
9820659 TAGTGCCAGTGATCATATATGTTGTTCCTTAAGGAGCTTCATTCACT-ATAAAACTGTCAAGAAT
125 TAGTGCCAGTGATCATATATGTTGTTCCTTAAGGAGCTTCATTCA-TGATAAAACTATCAAGAAT
* * * * *
9820723 TGCTTTGTCCAACTGCCTAATGATAAAAAAGTTCCCATGTCTCACGT-AGGAATAGTAAAG-TCA
189 TGCTTTATCCAACTACCTAATGATAAAAAAGTTCCCATGTCTCACGTCA-GAACAATAAGGCT-A
** * *** * *
9820786 AATCCAAAATTAGTCTTATGAAATATTTTGTATGTCCTAAGTTTCAAGTTCAATATAATTTCAAT
252 AATCCAAAATTAAACTTATAAAATATCCCGTACGTCCCAAGTTTCAAGTTCAATATAATTTCAAT
* * * ***
9820851 TGGTTAGCTCACTAAAACTAAGAAAAATTGTGTATTTTTCATTGATATGTACCATGTTGTACAAG
317 AGGTTAGCTCACCAAAACTAAGAAAAATTGTGTACTTTTCATTGATACACACCATGTTGTACAAG
* * * * ** *
9820916 ACATTCTCTCATGGATAGTGATT-GGCATTGCTAAGGA-TTTCTCATGATTATACTTCATTCGAG
382 ACATTCTCTCATGGATACTGATTAGG-ATTGCT-AGGACTTTCTCAAGACTACACTTCACGCAAG
* * * ** * * *
9820979 ATAAATTAGATGAACAAGACATATCAAGTTTTTGTTTTGACAAACTAGTCGAGTTTCCTTTTAGT
445 ATAAATCAAATAAACAAGACATATCAAGTTTCCGTTTTGACAAAATAGTCAAGTTTCCCTTTAGT
9821044 TCTACAATCAATGCTT
510 TCTACAATCAATGCTT
9821060 GTAAAACAAA
Statistics
Matches: 452, Mismatches: 65, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
530 2 0.00
531 96 0.21
532 1 0.00
533 5 0.01
534 343 0.76
535 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (531 bp):
TTGTGAATTCTACCTTTGCAAGTATTATTTCAAGTCACTCTTCCTTCAATACATATAATAATTTA
CCTATTAGACTTAAAAATATAAATATTACTATGATTAAACAATATTAGATTATGGATTCTAGTGC
CAGTGATCATATATGTTGTTCCTTAAGGAGCTTCATTCATGATAAAACTATCAAGAATTGCTTTA
TCCAACTACCTAATGATAAAAAAGTTCCCATGTCTCACGTCAGAACAATAAGGCTAAATCCAAAA
TTAAACTTATAAAATATCCCGTACGTCCCAAGTTTCAAGTTCAATATAATTTCAATAGGTTAGCT
CACCAAAACTAAGAAAAATTGTGTACTTTTCATTGATACACACCATGTTGTACAAGACATTCTCT
CATGGATACTGATTAGGATTGCTAGGACTTTCTCAAGACTACACTTCACGCAAGATAAATCAAAT
AAACAAGACATATCAAGTTTCCGTTTTGACAAAATAGTCAAGTTTCCCTTTAGTTCTACAATCAA
TGCTTATTTAT
Found at i:9839204 original size:19 final size:19
Alignment explanation
Indices: 9839182--9839219 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9839172 ATACTAAAAA
* *
9839182 ACTTTTAATATATATATAT
1 ACTTTAAATATAAATATAT
9839201 ACTTTAAATATAAATATAT
1 ACTTTAAATATAAATATAT
9839220 TTACTCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ACTTTAAATATAAATATAT
Found at i:9839859 original size:14 final size:14
Alignment explanation
Indices: 9839840--9839883 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
9839830 CTGTTCAAAA
9839840 TGTATCGATACATT
1 TGTATCGATACATT
9839854 TGTATCGATACATT
1 TGTATCGATACATT
*
9839868 TGTATCGATACTTT
1 TGTATCGATACATT
9839882 TG
1 TG
9839884 AGATAGTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (14 bp):
TGTATCGATACATT
Found at i:9842940 original size:14 final size:15
Alignment explanation
Indices: 9842921--9842949 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9842911 TAGATGCAAA
9842921 ATAATC-TTATAATT
1 ATAATCTTTATAATT
9842935 ATAATCTTTATAATT
1 ATAATCTTTATAATT
9842950 TCTTTGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
ATAATCTTTATAATT
Found at i:9843042 original size:19 final size:21
Alignment explanation
Indices: 9843018--9843062 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
9843008 TATAAATAAA
*
9843018 CTCATATA-TAAA-AAAATAT
1 CTCATACATTAAATAAAATAT
9843037 CTCATACATTAAATAAAATAT
1 CTCATACATTAAATAAAATAT
9843058 -TCATA
1 CTCATA
9843063 ATGTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 9 0.39
21 7 0.30
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (21 bp):
CTCATACATTAAATAAAATAT
Found at i:9849701 original size:22 final size:22
Alignment explanation
Indices: 9849676--9849752 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
9849666 ACGTAATACA
9849676 TAAAAATCAATCACACTATGTT
1 TAAAAATCAATCACACTATGTT
*
9849698 TAAAAATTAAT-A-ACGTAATGTT
1 TAAAAATCAATCACAC-T-ATGTT
* *
9849720 TAAAAATTAATCACACAATGTT
1 TAAAAATCAATCACACTATGTT
*
9849742 CAAAAATCAAT
1 TAAAAATCAAT
9849753 TTTACGATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
20 2 0.04
21 2 0.04
22 40 0.85
23 1 0.02
24 2 0.04
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (22 bp):
TAAAAATCAATCACACTATGTT
Found at i:9852808 original size:4 final size:4
Alignment explanation
Indices: 9852799--9852842 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
9852789 AGTTTATCAT
9852799 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
9852843 CTGATAATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:9855675 original size:13 final size:13
Alignment explanation
Indices: 9855657--9855683 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9855647 ATTTGACATC
9855657 CGTAAAGAGTGGG
1 CGTAAAGAGTGGG
9855670 CGTAAAGAGTGGG
1 CGTAAAGAGTGGG
9855683 C
1 C
9855684 TGCTGATCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.11, G:0.44, T:0.15
Consensus pattern (13 bp):
CGTAAAGAGTGGG
Found at i:9866636 original size:13 final size:13
Alignment explanation
Indices: 9866618--9866642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9866608 AAGGTTTTAA
9866618 CTTTTTCTGTTGT
1 CTTTTTCTGTTGT
9866631 CTTTTTCTGTTG
1 CTTTTTCTGTTG
9866643 GTGATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (13 bp):
CTTTTTCTGTTGT
Found at i:9875391 original size:35 final size:35
Alignment explanation
Indices: 9875352--9875424 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
9875342 TTGTCTTTCA
*
9875352 CTTTACAAATCACTTCTATCTTATCAAGCCTCTCC
1 CTTTACAAATCACTTCTATCTTAACAAGCCTCTCC
*
9875387 CTTTACAAATCACTTCTATCTTAACAAGCCTTTCC
1 CTTTACAAATCACTTCTATCTTAACAAGCCTCTCC
9875422 CTT
1 CTT
9875425 CTGTTCTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.38
Consensus pattern (35 bp):
CTTTACAAATCACTTCTATCTTAACAAGCCTCTCC
Found at i:9877019 original size:2 final size:2
Alignment explanation
Indices: 9877012--9877038 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9877002 AGTTAACATT
9877012 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9877039 GTTTTGCCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9898142 original size:23 final size:23
Alignment explanation
Indices: 9898115--9898167 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
9898105 TTAATTTTTA
9898115 GGTATTGTGTGACTAGTTAATAT
1 GGTATTGTGTGACTAGTTAATAT
* * *
9898138 GGTATTATGTGACTGGTTGATAT
1 GGTATTGTGTGACTAGTTAATAT
9898161 GGTATTG
1 GGTATTG
9898168 CATGATTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (23 bp):
GGTATTGTGTGACTAGTTAATAT
Found at i:9898256 original size:22 final size:22
Alignment explanation
Indices: 9898231--9898326 Score: 97
Period size: 21 Copynumber: 4.4 Consensus size: 22
9898221 ACGTAATATT
*
9898231 TAAAAACTAGTCACACAATGCC
1 TAAAAACTAGTCACACAATACC
* * *
9898253 TAAAAATTAGTCTCACAAATACT
1 TAAAAACTAGTCACAC-AATACC
9898276 TAAAAACTAGTCACACAA-ACC
1 TAAAAACTAGTCACACAATACC
* **
9898297 TAGAAACTAGT-ATGCAATACC
1 TAAAAACTAGTCACACAATACC
*
9898318 TAATAACTA
1 TAAAAACTA
9898327 ATTGATTTGC
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
20 4 0.07
21 22 0.37
22 16 0.27
23 18 0.30
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.23
Consensus pattern (22 bp):
TAAAAACTAGTCACACAATACC
Found at i:9898258 original size:23 final size:21
Alignment explanation
Indices: 9898231--9898307 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
9898221 ACGTAATATT
*
9898231 TAAAAACTAGTCACACAATGCC
1 TAAAAACTAGTCACACAAT-AC
* *
9898253 TAAAAATTAGTCTCACAAATAC
1 TAAAAACTAGTCACAC-AATAC
9898275 TTAAAAACTAGTCACACAA-ACC
1 -TAAAAACTAGTCACACAATA-C
*
9898297 TAGAAACTAGT
1 TAAAAACTAGT
9898308 ATGCAATACC
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 11 0.24
22 18 0.39
23 17 0.37
ACGTcount: A:0.48, C:0.22, G:0.08, T:0.22
Consensus pattern (21 bp):
TAAAAACTAGTCACACAATAC
Found at i:9900326 original size:23 final size:22
Alignment explanation
Indices: 9900290--9900341 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
9900280 AGGGTCAATG
* *
9900290 CGTGACTGGTTATTTTGGCATAA
1 CGTGACTGGATA-TTAGGCATAA
* *
9900313 CGTGAGTGGATATTAGGCATTA
1 CGTGACTGGATATTAGGCATAA
9900335 CGTGACT
1 CGTGACT
9900342 TATTATTAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (22 bp):
CGTGACTGGATATTAGGCATAA
Found at i:9902482 original size:23 final size:23
Alignment explanation
Indices: 9902433--9902482 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
9902423 ATGTTCACGA
*
9902433 AATGACCTATCAACTACTCACGC
1 AATGACCTATCAACTACTCACAC
* * *
9902456 AATGACCTATCAATTAGTCACAT
1 AATGACCTATCAACTACTCACAC
9902479 AATG
1 AATG
9902483 CGAAACCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (23 bp):
AATGACCTATCAACTACTCACAC
Found at i:9911069 original size:2 final size:2
Alignment explanation
Indices: 9911062--9911086 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9911052 TCAAAGGTGA
9911062 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
9911087 CAAGAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9911464 original size:2 final size:2
Alignment explanation
Indices: 9911457--9911502 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
9911447 CTATACTTTG
9911457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9911499 AT AT
1 AT AT
9911503 GGTCTTTGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9913571 original size:29 final size:29
Alignment explanation
Indices: 9913507--9913571 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
9913497 TTATTTTAAT
* * **
9913507 TTAAAAAAATTGAAAATATAATGATGAAA
1 TTAATAAAATTGAAAATATAACGAAAAAA
9913536 TTCAATAAAATT-AAAATATAACGACAAAAA
1 TT-AATAAAATTGAAAATATAACGA-AAAAA
9913566 TTAATA
1 TTAATA
9913572 TTAAATCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.28
Consensus pattern (29 bp):
TTAATAAAATTGAAAATATAACGAAAAAA
Found at i:9915308 original size:21 final size:20
Alignment explanation
Indices: 9915268--9915311 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
9915258 GAGTATAATA
*
9915268 TTTAAAAAATATTTTAAAAT
1 TTTAAAAAATATTTGAAAAT
9915288 TTTAAAAAA-ATTTAGATAAAT
1 TTTAAAAAATATTT-GA-AAAT
9915309 TTT
1 TTT
9915312 TATTCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAAAAATATTTGAAAAT
Found at i:9917390 original size:13 final size:13
Alignment explanation
Indices: 9917374--9917400 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9917364 TATTATTTCC
9917374 ATACCATGATTGA
1 ATACCATGATTGA
9917387 ATACCATGATTGA
1 ATACCATGATTGA
9917400 A
1 A
9917401 ATCAAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATACCATGATTGA
Found at i:9919849 original size:31 final size:31
Alignment explanation
Indices: 9919809--9919867 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
9919799 CCAATTTTCC
* *
9919809 TTACTATTTAATCTTCCAAACTTTTCACCCT
1 TTACAATTTAATCCTCCAAACTTTTCACCCT
* *
9919840 TTACAATTTAGTCCTCTAAACTTTTCAC
1 TTACAATTTAATCCTCCAAACTTTTCAC
9919868 GAATTACAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (31 bp):
TTACAATTTAATCCTCCAAACTTTTCACCCT
Found at i:9919875 original size:31 final size:31
Alignment explanation
Indices: 9919826--9919893 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
9919816 TTAATCTTCC
** *
9919826 AAACTTTTCACCCTTTACAA-TTTAGTCCTCT
1 AAACTTTTCACCAATTACAAGTTGA-TCCTCT
*
9919857 AAACTTTTCACGAATTACAAGTTGATCCTCT
1 AAACTTTTCACCAATTACAAGTTGATCCTCT
9919888 -AACTTT
1 AAACTTT
9919894 GTTTTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 6 0.19
31 23 0.72
32 3 0.09
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (31 bp):
AAACTTTTCACCAATTACAAGTTGATCCTCT
Found at i:9919937 original size:30 final size:29
Alignment explanation
Indices: 9919869--9919938 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
9919859 ACTTTTCACG
* *
9919869 AATTACAAGTTGATCCTCTAACTTTGTTTT
1 AATTACAATTTTA-CCTCTAACTTTGTTTT
9919899 AATTACAATTTTACCTCTTAACTTT-TTATT
1 AATTACAATTTTACCTC-TAACTTTGTT-TT
*
9919929 ATTTACAATT
1 AATTACAATT
9919939 CTATCCATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.17
30 29 0.83
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.50
Consensus pattern (29 bp):
AATTACAATTTTACCTCTAACTTTGTTTT
Found at i:9920405 original size:22 final size:19
Alignment explanation
Indices: 9920378--9920432 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 19
9920368 TTTAATAAAA
9920378 TAATATTATTTTATCATTATTT
1 TAATATTATTTTATCA-TA--T
*
9920400 TAATATTATTTAATCATAT
1 TAATATTATTTTATCATAT
*
9920419 AAATATTATTTTAT
1 TAATATTATTTTAT
9920433 TTTAACATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.43
21 2 0.07
22 15 0.50
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATATTATTTTATCATAT
Found at i:9920807 original size:20 final size:20
Alignment explanation
Indices: 9920780--9920821 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
9920770 AGCAAGATTT
* *
9920780 ATTTTGGGTTTTTGTTTTGGA
1 ATTTGGGGTTGTT-TTTTGGA
9920801 ATTTGGGGTTGTTTTTTGGA
1 ATTTGGGGTTGTTTTTTGGA
9920821 A
1 A
9920822 AACTACTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.12, C:0.00, G:0.31, T:0.57
Consensus pattern (20 bp):
ATTTGGGGTTGTTTTTTGGA
Found at i:9921405 original size:15 final size:15
Alignment explanation
Indices: 9921355--9921405 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
9921345 ATTGTTTAGA
*
9921355 ATAAAAAAATAAATG
1 ATAAAAAAATTAATG
*
9921370 AGAAAAAAATT-A-G
1 ATAAAAAAATTAATG
9921383 ATTAAAAAATATTAATG
1 A-TAAAAAA-ATTAATG
9921400 ATAAAA
1 ATAAAA
9921406 TTTAGATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
13 2 0.07
14 7 0.24
15 12 0.41
16 6 0.21
17 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.24
Consensus pattern (15 bp):
ATAAAAAAATTAATG
Found at i:9921405 original size:29 final size:28
Alignment explanation
Indices: 9921350--9921413 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
9921340 TCATGATTGT
*
9921350 TTAGAATAAAAAAATAAATGAGAAAAAAA
1 TTAGATTAAAAAAATAAATGAG-AAAAAA
* * *
9921379 TTAGATTAAAAAATATTAATGA-TAAAAT
1 TTAGATTAAAAAA-ATAAATGAGAAAAAA
9921407 TTAGATT
1 TTAGATT
9921414 CTTATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 11 0.37
29 12 0.40
30 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (28 bp):
TTAGATTAAAAAAATAAATGAGAAAAAA
Found at i:9928724 original size:21 final size:22
Alignment explanation
Indices: 9928685--9928729 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
9928675 AATTATTTTC
*
9928685 TAAATTTTTTAATTTAAAA-AA
1 TAAATTTTTTAATTAAAAATAA
9928706 TAAATTTTTTTAA-TAAAAATAA
1 TAAA-TTTTTTAATTAAAAATAA
9928728 TA
1 TA
9928730 GTGAAAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATTTTTTAATTAAAAATAA
Found at i:9929720 original size:44 final size:42
Alignment explanation
Indices: 9929672--9929767 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 42
9929662 TCCCCCCACA
*
9929672 CCACCATAACCTCCTCCATGTCCCGCACCACCACCCCACCGCCG
1 CCACCATAACCTCCTCCATGT-CCGC-CAACCACCCCACCGCCG
* *
9929716 CCACCATAA---CCTCCATGTCCGCCAACCACCGCTCCGCCG
1 CCACCATAACCTCCTCCATGTCCGCCAACCACCCCACCGCCG
9929755 CC-CCATAACCTCC
1 CCACCATAACCTCC
9929768 ACGTCCTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
38 6 0.13
39 16 0.35
40 4 0.09
41 11 0.24
44 9 0.20
ACGTcount: A:0.21, C:0.57, G:0.09, T:0.12
Consensus pattern (42 bp):
CCACCATAACCTCCTCCATGTCCGCCAACCACCCCACCGCCG
Found at i:9929824 original size:39 final size:40
Alignment explanation
Indices: 9929708--9929846 Score: 142
Period size: 39 Copynumber: 3.5 Consensus size: 40
9929698 ACCACCACCC
* * ** *
9929708 CACCGCCGCCACCATAACCTCCATGTCCGCCAACC--ACCG
1 CACCGCCGCC-CCATAACCTCCACGTCCTCCTCCCTGTCCG
*
9929747 CTCCGCCGCCCCATAACCTCCACGTCCTCCTCCCTGTCCG
1 CACCGCCGCCCCATAACCTCCACGTCCTCCTCCCTGTCCG
* *
9929787 CACCGCCGCCCCATAACCTCC-GGTCCTCCTCCCTGTCCTC
1 CACCGCCGCCCCATAACCTCCACGTCCTCCTCCCTGTCC-G
* *
9929827 CACC-ACGCCACATAACCTCC
1 CACCGCCGCCCCATAACCTCC
9929847 CTGTCCGCAC
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
38 20 0.23
39 39 0.45
40 27 0.31
ACGTcount: A:0.17, C:0.56, G:0.12, T:0.16
Consensus pattern (40 bp):
CACCGCCGCCCCATAACCTCCACGTCCTCCTCCCTGTCCG
Found at i:9929931 original size:23 final size:23
Alignment explanation
Indices: 9929897--9929941 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9929887 CACCACCAAT
*
9929897 GTCCTCCGCCATATCCACCACCC
1 GTCCTCCACCATATCCACCACCC
*
9929920 GTCCTCCACCATATCCGCCACC
1 GTCCTCCACCATATCCACCACC
9929942 ACCATAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.56, G:0.09, T:0.18
Consensus pattern (23 bp):
GTCCTCCACCATATCCACCACCC
Found at i:9933708 original size:28 final size:29
Alignment explanation
Indices: 9933662--9933716 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
9933652 TATGATTTAA
9933662 AATAAAAATAAAAATATTTAATTAAATAT
1 AATAAAAATAAAAATATTTAATTAAATAT
* * *
9933691 AATAAAAAT-TAAGTATTTATTTAAAT
1 AATAAAAATAAAAATATTTAATTAAAT
9933717 TTTTTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
AATAAAAATAAAAATATTTAATTAAATAT
Found at i:9935921 original size:2 final size:2
Alignment explanation
Indices: 9935914--9935943 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9935904 TTCATATAAG
9935914 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9935944 GGAATCTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9936343 original size:27 final size:27
Alignment explanation
Indices: 9936304--9936370 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
9936294 TCTACGTCCA
* *
9936304 CCATATCCACCGTGGCCACCTCGCCCT
1 CCATGTCCTCCGTGGCCACCTCGCCCT
9936331 CCATGTCCTCCGTGGCCACCTCGCCCT
1 CCATGTCCTCCGTGGCCACCTCGCCCT
9936358 CCATGTCCTCCGT
1 CCATGTCCTCCGT
9936371 TGCTGCCACG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.10, C:0.51, G:0.16, T:0.22
Consensus pattern (27 bp):
CCATGTCCTCCGTGGCCACCTCGCCCT
Found at i:9945183 original size:18 final size:16
Alignment explanation
Indices: 9945152--9945188 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
9945142 GATAAACGAG
9945152 AAAGTAAATAAAAATA
1 AAAGTAAATAAAAATA
9945168 AAAGTAAAAGTAAAAATA
1 AAAGT-AAA-TAAAAATA
9945186 AAA
1 AAA
9945189 AAATATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 3 0.16
18 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
AAAGTAAATAAAAATA
Found at i:9948091 original size:36 final size:36
Alignment explanation
Indices: 9948017--9948091 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
9948007 TAAGTTATTA
* * **
9948017 TATTTTTATTTTGAATCAAATAAATTTTTATATTTT
1 TATTTTTATTTTGAATCAAATAAACTCTTATACCTT
9948053 TATTTTTATTTTGAATCAAATAAACTCTTATACCTT
1 TATTTTTATTTTGAATCAAATAAACTCTTATACCTT
9948089 TAT
1 TAT
9948092 GAATAATAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (36 bp):
TATTTTTATTTTGAATCAAATAAACTCTTATACCTT
Found at i:9948374 original size:27 final size:29
Alignment explanation
Indices: 9948315--9948378 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
9948305 TAACTTAAAA
*
9948315 TAAAAATATAAAAATTTAATTGAATGTAG
1 TAAAAATATAAAAATTTAATTAAATGTAG
*
9948344 TAAAAA-ATAAAAA-TTAATTTAAATGT-T
1 TAAAAATATAAAAATTTAA-TTAAATGTAG
9948371 TAAAAATA
1 TAAAAATA
9948379 ATTTAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 10 0.32
28 15 0.48
29 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (29 bp):
TAAAAATATAAAAATTTAATTAAATGTAG
Found at i:9949532 original size:5 final size:5
Alignment explanation
Indices: 9949522--9949550 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
9949512 CGGCATTGTT
9949522 TAATC TAATC TAATC TAATC TAATC TAAT
1 TAATC TAATC TAATC TAATC TAATC TAAT
9949551 AGAAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATC
Found at i:9953828 original size:15 final size:15
Alignment explanation
Indices: 9953808--9953839 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9953798 GGGAAAAAGA
9953808 TTATGATCATCTTCT
1 TTATGATCATCTTCT
9953823 TTATGATCATCTTCT
1 TTATGATCATCTTCT
9953838 TT
1 TT
9953840 TCCATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (15 bp):
TTATGATCATCTTCT
Found at i:9964979 original size:17 final size:17
Alignment explanation
Indices: 9964958--9964996 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
9964948 AATTTCAGGT
9964958 AAATATTTATT-TTTAA
1 AAATATTTATTATTTAA
9964974 ATAATA-TTATTATTTAA
1 A-AATATTTATTATTTAA
9964991 AAATAT
1 AAATAT
9964997 AAATGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATATTTATTATTTAA
Found at i:9965059 original size:21 final size:21
Alignment explanation
Indices: 9965028--9965078 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
9965018 TTTGAAATAT
9965028 AAATAATTTAAAAATTATTAAA
1 AAAT-ATTTAAAAATTATTAAA
* ** *
9965050 TAATATTTAAATTTTTTTAAA
1 AAATATTTAAAAATTATTAAA
9965071 AAATATTT
1 AAATATTT
9965079 TTTAATAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATATTTAAAAATTATTAAA
Found at i:9967173 original size:250 final size:250
Alignment explanation
Indices: 9966732--9967233 Score: 986
Period size: 250 Copynumber: 2.0 Consensus size: 250
9966722 TTTCACGGCT
9966732 GAATCAATTGCAAGCTTTGCACCAACATCCTGCCAATGAGCAAGAAATAACTAAATAAATATCTC
1 GAATCAATTGCAAGCTTTGCACCAACATCCTGCCAATGAGCAAGAAATAACTAAATAAATATCTC
9966797 AGGATGGAAGAGTATAACAAGTCAATGGGCATATAGATGGCACCCAGAGCAAAAATGTACAATCT
66 AGGATGGAAGAGTATAACAAGTCAATGGGCATATAGATGGCACCCAGAGCAAAAATGTACAATCT
9966862 GAATCCATACTACTGTCTTACACGATGTGACATGTGATAACTGGAAAGGGATACAGGACATGCGG
131 GAATCCATACTACTGTCTTACACGATGTGACATGTGATAACTGGAAAGGGATACAGGACATGCGG
9966927 TGCTACATACTAAAATTCTATCAGTATTCTCAAAATCTAAGATTATGACACTCAA
196 TGCTACATACTAAAATTCTATCAGTATTCTCAAAATCTAAGATTATGACACTCAA
*
9966982 GAATCAATTGCAAGCTTTGCACCAACATCCTGCGAATGAGCAAGAAATAACTAAATAAATATCTC
1 GAATCAATTGCAAGCTTTGCACCAACATCCTGCCAATGAGCAAGAAATAACTAAATAAATATCTC
*
9967047 AGGATGGAAGAGTATAACAAGTCAATGGGCATATAGATGGCACCTAGAGCAAAAATGTACAATCT
66 AGGATGGAAGAGTATAACAAGTCAATGGGCATATAGATGGCACCCAGAGCAAAAATGTACAATCT
9967112 GAATCCATACTACTGTCTTACACGATGTGACATGTGATAACTGGAAAGGGATACAGGACATGCGG
131 GAATCCATACTACTGTCTTACACGATGTGACATGTGATAACTGGAAAGGGATACAGGACATGCGG
9967177 TGCTACATACTAAAATTCTATCAGTATTCTCAAAATCTAAGATTATGACACTCAA
196 TGCTACATACTAAAATTCTATCAGTATTCTCAAAATCTAAGATTATGACACTCAA
9967232 GA
1 GA
9967234 TTAGCCTAAA
Statistics
Matches: 250, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
250 250 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (250 bp):
GAATCAATTGCAAGCTTTGCACCAACATCCTGCCAATGAGCAAGAAATAACTAAATAAATATCTC
AGGATGGAAGAGTATAACAAGTCAATGGGCATATAGATGGCACCCAGAGCAAAAATGTACAATCT
GAATCCATACTACTGTCTTACACGATGTGACATGTGATAACTGGAAAGGGATACAGGACATGCGG
TGCTACATACTAAAATTCTATCAGTATTCTCAAAATCTAAGATTATGACACTCAA
Found at i:9975248 original size:18 final size:18
Alignment explanation
Indices: 9975225--9975262 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9975215 ATGTAAGATC
* *
9975225 ATATTTTATTTTATTCTA
1 ATATTTTAATTTATGCTA
9975243 ATATTTTAATTTATGCTA
1 ATATTTTAATTTATGCTA
9975261 AT
1 AT
9975263 GAGTAGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (18 bp):
ATATTTTAATTTATGCTA
Found at i:10006530 original size:24 final size:24
Alignment explanation
Indices: 10006497--10006545 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10006487 AGAACAAATA
*
10006497 ATTTTATTAATTATTTTTAT-TTTT
1 ATTTTATTAATT-TTTATATATTTT
*
10006521 ATTTTTTTAATTTTTATATATTTT
1 ATTTTATTAATTTTTATATATTTT
10006545 A
1 A
10006546 ATATAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (24 bp):
ATTTTATTAATTTTTATATATTTT
Found at i:10006533 original size:15 final size:16
Alignment explanation
Indices: 10006510--10006547 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10006500 TTATTAATTA
10006510 TTTTT-ATTTTTAT-T
1 TTTTTAATTTTTATAT
10006524 TTTTTAATTTTTATAT
1 TTTTTAATTTTTATAT
*
10006540 ATTTTAAT
1 TTTTTAAT
10006548 ATAATTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTAATTTTTATAT
Found at i:10007293 original size:20 final size:21
Alignment explanation
Indices: 10007255--10007293 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10007245 AAATCCAAAT
*
10007255 TATTTACTAAATATATTTATA
1 TATTTACAAAATATATTTATA
10007276 TATTTACAAAAT-TATTTA
1 TATTTACAAAATATATTTA
10007294 CTAAATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTACAAAATATATTTATA
Found at i:10007293 original size:33 final size:33
Alignment explanation
Indices: 10007251--10007368 Score: 121
Period size: 33 Copynumber: 3.6 Consensus size: 33
10007241 ATCAAAATCC
*
10007251 AAATTATTTACTAAATATATTTATATATTTACA
1 AAATTATTTACTAAATATGTTTATATATTTACA
* * ** *
10007284 AAATTATTTACTAAATATGTTCATAAAAAT-CT
1 AAATTATTTACTAAATATGTTTATATATTTACA
* * * * *
10007316 AAATAATTTATTAAATATGTTTTTATGTTTACG
1 AAATTATTTACTAAATATGTTTATATATTTACA
*
10007349 AAAGTATTTACTAAATATGT
1 AAATTATTTACTAAATATGT
10007369 CCACATCATT
Statistics
Matches: 66, Mismatches: 18, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
32 23 0.35
33 43 0.65
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (33 bp):
AAATTATTTACTAAATATGTTTATATATTTACA
Found at i:10007313 original size:65 final size:65
Alignment explanation
Indices: 10007239--10007368 Score: 179
Period size: 65 Copynumber: 2.0 Consensus size: 65
10007229 TTTGTTTTCA
* * *
10007239 TCATCAAAATCCAAATTATTTACTAAATATATTTATATATTTACAAAATTATTTACTAAATATGT
1 TCATAAAAATCCAAATAATTTACTAAATATATTTATATATTTACAAAAGTATTTACTAAATATGT
* * * * * *
10007304 TCATAAAAATCTAAATAATTTATTAAATATGTTTTTATGTTTACGAAAGTATTTACTAAATATGT
1 TCATAAAAATCCAAATAATTTACTAAATATATTTATATATTTACAAAAGTATTTACTAAATATGT
10007369 CCACATCATT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (65 bp):
TCATAAAAATCCAAATAATTTACTAAATATATTTATATATTTACAAAAGTATTTACTAAATATGT
Found at i:10008706 original size:32 final size:32
Alignment explanation
Indices: 10008666--10008732 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
10008656 CTAACTAGTT
* *
10008666 AACAGTATTATAGTCTAACTAGTTAATTAACC
1 AACAGTATTATAGTCTAACTAGCTAACTAACC
* * *
10008698 AACAGTATTTTGGTTTAACTAGCTAACTAACC
1 AACAGTATTATAGTCTAACTAGCTAACTAACC
10008730 AAC
1 AAC
10008733 TAATATTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (32 bp):
AACAGTATTATAGTCTAACTAGCTAACTAACC
Found at i:10009808 original size:29 final size:28
Alignment explanation
Indices: 10009755--10009809 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
10009745 ATTCAAAAAA
* *
10009755 ATTCAATAAATCTTTGTACTTTTATTAT
1 ATTCAATAAACCTTTATACTTTTATTAT
10009783 ATTCAATCAAACCTTTATA-TTGTTATT
1 ATTCAAT-AAACCTTTATACTT-TTATT
10009810 TGAATCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.51
Consensus pattern (28 bp):
ATTCAATAAACCTTTATACTTTTATTAT
Found at i:10009848 original size:30 final size:29
Alignment explanation
Indices: 10009796--10009860 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
10009786 CAATCAAACC
10009796 TTTATATTGTTATTTGAATCAAATAAGCT
1 TTTATATTGTTATTTGAATCAAATAAGCT
* *
10009825 TTTATATTTTTATTTTGAGTCAAATAAGCT
1 TTTATATTGTTA-TTTGAATCAAATAAGCT
*
10009855 CTTATA
1 TTTATA
10009861 ACTAATGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (29 bp):
TTTATATTGTTATTTGAATCAAATAAGCT
Found at i:10016535 original size:2 final size:2
Alignment explanation
Indices: 10016528--10016562 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10016518 TTCCTCTGTG
10016528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10016563 GAATTTTGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10016873 original size:2 final size:2
Alignment explanation
Indices: 10016868--10016906 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10016858 TATATATATA
10016868 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
10016907 TGAAAATTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:10041209 original size:75 final size:75
Alignment explanation
Indices: 10041086--10041224 Score: 215
Period size: 75 Copynumber: 1.9 Consensus size: 75
10041076 GCAACATGGT
* * *
10041086 ATGGTGGGGATGTGATAAGGGATGGTGAGAATGTGTGACACGTCATGGTGAGAATATGTGACATA
1 ATGGTGGGGATGTGACAAGAGATGGTGAGAATGTGAGACACGTCATGGTGAGAATATGTGACATA
10041151 GTTATGAGAC
66 GTTATGAGAC
* * * *
10041161 ATGGTGGGGATGTGACACGAGATGGTGGGATTGTGAGACACGTTATGGTGAGAATATGTGACAT
1 ATGGTGGGGATGTGACAAGAGATGGTGAGAATGTGAGACACGTCATGGTGAGAATATGTGACAT
10041225 GACTATGACA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 57 1.00
ACGTcount: A:0.28, C:0.07, G:0.38, T:0.27
Consensus pattern (75 bp):
ATGGTGGGGATGTGACAAGAGATGGTGAGAATGTGAGACACGTCATGGTGAGAATATGTGACATA
GTTATGAGAC
Found at i:10041223 original size:23 final size:23
Alignment explanation
Indices: 10041170--10041223 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
10041160 CATGGTGGGG
* *
10041170 ATGTGACACGAGATGGTGGGATT
1 ATGTGACACGAGATGGTGAGAAT
* * **
10041193 GTGAGACACGTTATGGTGAGAAT
1 ATGTGACACGAGATGGTGAGAAT
10041216 ATGTGACA
1 ATGTGACA
10041224 TGACTATGAC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (23 bp):
ATGTGACACGAGATGGTGAGAAT
Found at i:10041279 original size:23 final size:23
Alignment explanation
Indices: 10041252--10041306 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
10041242 GTTTAGAGTT
** *
10041252 TGTGACATGCCATGGAGGGAATA
1 TGTGACATGCCAAAGAGAGAATA
* * *
10041275 TGTGATATGGCAAAGTGAGAATA
1 TGTGACATGCCAAAGAGAGAATA
10041298 TGTGACATG
1 TGTGACATG
10041307 GCATAATAGG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.25
Consensus pattern (23 bp):
TGTGACATGCCAAAGAGAGAATA
Found at i:10041688 original size:23 final size:23
Alignment explanation
Indices: 10041618--10041689 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
10041608 GCTATGGTGG
* *
10041618 GAATGTGTGACACGACATGGCTT
1 GAATATGTGACACGCCATGGCTT
* * * * *
10041641 AAACAGGTGACATGCCATGCCTT
1 GAATATGTGACACGCCATGGCTT
*
10041664 GAATATGTGACACGCCATGGTTT
1 GAATATGTGACACGCCATGGCTT
10041687 GAA
1 GAA
10041690 ATAGAAAAAA
Statistics
Matches: 36, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (23 bp):
GAATATGTGACACGCCATGGCTT
Found at i:10042397 original size:31 final size:31
Alignment explanation
Indices: 10042362--10042531 Score: 205
Period size: 31 Copynumber: 5.5 Consensus size: 31
10042352 GGATGCTTAA
* *
10042362 CGTGTAACAACATTTTACTTGATAAGCATGC
1 CGTGTAACAACATTTTACTTGATATGCATGG
*
10042393 CGTGTAACAACATTTGACTTGATATGCATGG
1 CGTGTAACAACATTTTACTTGATATGCATGG
* * * * *
10042424 TGTGTAATAACATTTTATTTGATATTCATGA
1 CGTGTAACAACATTTTACTTGATATGCATGG
*
10042455 AGTGTAACAACATTTTACTTGATATGCATGG
1 CGTGTAACAACATTTTACTTGATATGCATGG
* * * * * *
10042486 CATGTACCAACAATTTAATTGATATTCATTG
1 CGTGTAACAACATTTTACTTGATATGCATGG
10042517 CGTGTAACAACATTT
1 CGTGTAACAACATTT
10042532 ATTTCTTTCT
Statistics
Matches: 115, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 115 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (31 bp):
CGTGTAACAACATTTTACTTGATATGCATGG
Found at i:10042508 original size:93 final size:92
Alignment explanation
Indices: 10042363--10042535 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 92
10042353 GATGCTTAAC
* * *
10042363 GTGTAACAACATTTTACTTGATAAGCATGCCGTGTAACAACATTTGACTTGATATGCATGGTGTG
1 GTGTAACAACATTTTACTTGATAAGCATGCCATGTAACAACATTTGAATTGATATGCATGGCGTG
*
10042428 TAATAACATTTTATTTGATATTCATGAA
66 TAACAACA-TTTATTTGATATTCATGAA
* * * * *
10042456 GTGTAACAACATTTTACTTGATATGCATGGCATGTACCAACAATTT-AATTGATATTCATTGCGT
1 GTGTAACAACATTTTACTTGATAAGCATGCCATGTAACAAC-ATTTGAATTGATATGCATGGCGT
10042520 GTAACAACATTTATTT
65 GTAACAACATTTATTT
10042536 CTTTCTTCAG
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
92 7 0.10
93 59 0.84
94 4 0.06
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (92 bp):
GTGTAACAACATTTTACTTGATAAGCATGCCATGTAACAACATTTGAATTGATATGCATGGCGTG
TAACAACATTTATTTGATATTCATGAA
Found at i:10049515 original size:34 final size:35
Alignment explanation
Indices: 10049450--10049516 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
10049440 TGAGGGGGAG
* *
10049450 TAATGAAGGATATTAGAGAATCATGATAGATATCA
1 TAATGAAGGATAATAGAGAATCATGACAGATATCA
10049485 TAATGAAGGATAATAGAG-ATCATGACAGATAT
1 TAATGAAGGATAATAGAGAATCATGACAGATAT
10049517 GTTGGGTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.43
35 17 0.57
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (35 bp):
TAATGAAGGATAATAGAGAATCATGACAGATATCA
Found at i:10049547 original size:30 final size:30
Alignment explanation
Indices: 10049501--10049568 Score: 109
Period size: 30 Copynumber: 2.2 Consensus size: 30
10049491 AGGATAATAG
*
10049501 AGATCATGACAGATATGTTGGGTATCATGAC
1 AGAT-ATGACAGATATGTTGGGGATCATGAC
*
10049532 AGATATGACATATATGTTGGGGATCATGAC
1 AGATATGACAGATATGTTGGGGATCATGAC
10049562 AGATATG
1 AGATATG
10049569 CTCCTTGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.29
Consensus pattern (30 bp):
AGATATGACAGATATGTTGGGGATCATGAC
Found at i:10055871 original size:14 final size:14
Alignment explanation
Indices: 10055828--10055879 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
10055818 AAATTAAATT
10055828 AAATTTTAATTATA
1 AAATTTTAATTATA
** *
10055842 AAA-AATAATATTTA
1 AAATTTTAAT-TATA
10055856 AAATTTTAATTATA
1 AAATTTTAATTATA
*
10055870 AATTTTTAAT
1 AAATTTTAAT
10055880 ATTTTAAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
13 4 0.14
14 21 0.72
15 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTTAATTATA
Found at i:10059197 original size:45 final size:45
Alignment explanation
Indices: 10059142--10059236 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
10059132 AAATTTCCAA
*
10059142 TACGTGAATGACTAGCGAATGCAGGGATACCTCCTTTTAAAGTGT
1 TACGTGAATGACTAGCGAAAGCAGGGATACCTCCTTTTAAAGTGT
* *
10059187 TACGTGAATGACTAGGGAAAGCAGGGGTACCTCCTTTTAAAGTGT
1 TACGTGAATGACTAGCGAAAGCAGGGATACCTCCTTTTAAAGTGT
10059232 TACGT
1 TACGT
10059237 TGTTACGTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (45 bp):
TACGTGAATGACTAGCGAAAGCAGGGATACCTCCTTTTAAAGTGT
Found at i:10060511 original size:11 final size:11
Alignment explanation
Indices: 10060495--10060524 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10060485 TAATTAAATT
10060495 AAAATAATTCA
1 AAAATAATTCA
10060506 AAAATAATTCA
1 AAAATAATTCA
10060517 AAAA-AATT
1 AAAATAATT
10060525 AAATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATAATTCA
Found at i:10061489 original size:113 final size:112
Alignment explanation
Indices: 10061291--10061993 Score: 650
Period size: 113 Copynumber: 6.5 Consensus size: 112
10061281 GAGTTTACTC
* ** * *
10061291 TAAATAAAATAATGTATTAGTAAGCAATTAATTAACTGTGTAATCTTATATAAATTAAAATATAA
1 TAAATAAAATAATGTATTAGTAAGCAATTAATTAAATAAGTAATATTATATAATTTAAAA-ATAA
* * *
10061356 GTAAATTAATTCATATATTAATGAGGTTAATTAAA-AATTTTAATTAAA
65 TTAAATTAATTAATGTATTAATGAGGTTAATTAAATAA-TTTAATTAAA
* *
10061404 TAAATAAAATAGTGTATTAGTAAGCAATTAATTAAATAGGTAATATTATA-ATATTTAAAAAATA
1 TAAATAAAATAATGTATTAGTAAGCAATTAATTAAATAAGTAATATTATATA-ATTT-AAAAATA
* * * *
10061468 TTTGAATTAATTAATGTATTAATGAGATTCATTAAATAATTTAATTAAA
64 ATTAAATTAATTAATGTATTAATGAGGTTAATTAAATAATTTAATTAAA
* ***
10061517 TAAATAAAATAATGTATTAGTAAGCAATTAATTATATAAGTAATA-T-TATAATATTACTTAT-A
1 TAAATAAAATAATGTATTAGTAAGCAATTAATTAAATAAGTAATATTATATAAT-TTAAAAATAA
* * *
10061579 -T-AATTAATTAATGCATTAATG-GG---ATTAATTAAGTTAA-T---
65 TTAAATTAATTAATGTATTAATGAGGTTAATTAAATAATTTAATTAAA
* * *
10061617 TAAATAAAA-AATGTATTACTAAACAA-TAATTAAATAAGTAATATTATATAATTTAAAAATATT
1 TAAATAAAATAATGTATTAGTAAGCAATTAATTAAATAAGTAATATTATATAATTTAAAAATAAT
*
10061680 TAAATTAATTAATTTATTAATG-GG----TT---TAA-TTAATT-AA
66 TAAATTAATTAATGTATTAATGAGGTTAATTAAATAATTTAATTAAA
* * * *
10061717 T---TAAAATACTATATTAGTCAGCAATTAATTAAATAAGTAATACTATATAATTT-AAAATAAT
1 TAAATAAAATAATGTATTAGTAAGCAATTAATTAAATAAGTAATATTATATAATTTAAAAATAAT
* * *
10061778 TAAATTAATTAGTGTATTAATGAGCTTAAATAAATAATTTAATTAAA
66 TAAATTAATTAATGTATTAATGAGGTTAATTAAATAATTTAATTAAA
* * * *
10061825 TAAAT-AAATAAATATATTAGTACA-CAATTAATTAAATAATTAATAATATATAATATAAAAACT
1 TAAATAAAAT-AATGTATTAGTA-AGCAATTAATTAAATAAGTAATATTATATAATTTAAAAA-T
* * * *
10061888 AATTAAATTAATTAATGTATTAATTAGCTAAATTAAATAGTGTACTACATTAAA
63 AATTAAATTAATTAATGTATTAATGAGGTTAATTAAATAAT-T--TA-ATTAAA
* *
10061942 TAAA-AATAATATTGTATTAGTAA-CAATTAATTAAATAATTAAGT-TTATATAA
1 TAAATAA-AATAATGTATTAGTAAGCAATTAATTAAATAAGTAA-TATTATATAA
10061994 GTTCCTAATT
Statistics
Matches: 494, Mismatches: 57, Indels: 75
0.79 0.09 0.12
Matches are distributed among these distances:
97 9 0.02
98 59 0.12
99 49 0.10
100 16 0.03
101 3 0.01
102 20 0.04
103 2 0.00
104 12 0.02
106 3 0.01
107 7 0.01
108 22 0.04
109 1 0.00
110 4 0.01
111 47 0.10
112 10 0.02
113 169 0.34
114 7 0.01
116 29 0.06
117 22 0.04
118 3 0.01
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.39
Consensus pattern (112 bp):
TAAATAAAATAATGTATTAGTAAGCAATTAATTAAATAAGTAATATTATATAATTTAAAAATAAT
TAAATTAATTAATGTATTAATGAGGTTAATTAAATAATTTAATTAAA
Found at i:10061843 original size:111 final size:112
Alignment explanation
Indices: 10061704--10061979 Score: 321
Period size: 111 Copynumber: 2.4 Consensus size: 112
10061694 TATTAATGGG
* * * *
10061704 TTTAATTAATTAATTAAA-ATACTATATTAGTCAGCAATTAATTAAATAAGTAATACTATATAAT
1 TTTAATTAAATAAATAAATA-AATATATTAGTCA-CAATTAATTAAATAAGTAATAATATATAAT
* *
10061768 -TTAAAA-TAATTAAATTAATTAGTGTATTAATGAGCTTAAA-TAAATAA
64 ATAAAAACTAATTAAATTAATTAATGTATTAATGAGC-TAAATTAAATAA
*
10061815 TTTAATTAAATAAATAAATAAATATATTAGTACACAATTAATTAAATAATTAATAATATATAATA
1 TTTAATTAAATAAATAAATAAATATATTAGT-CACAATTAATTAAATAAGTAATAATATATAATA
* *
10061880 TAAAAACTAATTAAATTAATTAATGTATTAATTAGCTAAATTAAATAG
65 TAAAAACTAATTAAATTAATTAATGTATTAATGAGCTAAATTAAATAA
* *
10061928 TGTACTACATTAAAT-AA-AAATAATATTGTATTAGTAACAATTAATTAAATAA
1 T-T--TA-ATTAAATAAATAAATAA-A-TATATTAGTCACAATTAATTAAATAA
10061980 TTAAGTTTAT
Statistics
Matches: 143, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
111 54 0.38
112 12 0.08
113 34 0.24
114 1 0.01
115 6 0.04
116 21 0.15
117 15 0.10
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.38
Consensus pattern (112 bp):
TTTAATTAAATAAATAAATAAATATATTAGTCACAATTAATTAAATAAGTAATAATATATAATAT
AAAAACTAATTAAATTAATTAATGTATTAATGAGCTAAATTAAATAA
Found at i:10061867 original size:12 final size:12
Alignment explanation
Indices: 10061803--10061903 Score: 59
Period size: 12 Copynumber: 8.4 Consensus size: 12
10061793 ATTAATGAGC
*
10061803 TTAAATAAATAA
1 TTAATTAAATAA
10061815 TTTAATTAAATAA
1 -TTAATTAAATAA
* *
10061828 ATAAATAAATATA
1 TTAATTAAATA-A
* * *
10061841 TT-AGTACACAA
1 TTAATTAAATAA
10061852 TTAATTAAATAA
1 TTAATTAAATAA
10061864 TTAA-T-AAT-A
1 TTAATTAAATAA
10061873 TATAATATAAA-AA
1 T-TAAT-TAAATAA
*
10061886 CTAATTAAATTAA
1 TTAATTAAA-TAA
10061899 TTAAT
1 TTAAT
10061904 GTATTAATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
9 2 0.03
10 6 0.09
11 8 0.12
12 29 0.43
13 22 0.33
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (12 bp):
TTAATTAAATAA
Found at i:10067351 original size:14 final size:17
Alignment explanation
Indices: 10067328--10067368 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
10067318 ACATGTATAT
10067328 TTGTGATGATGCGTTTG
1 TTGTGATGATGCGTTTG
10067345 TTGTGATGATGCGTTTG
1 TTGTGATGATGCGTTTG
10067362 TTGTGAT
1 TTGTGAT
10067369 TGCAATCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.12, C:0.05, G:0.34, T:0.49
Consensus pattern (17 bp):
TTGTGATGATGCGTTTG
Found at i:10071542 original size:18 final size:17
Alignment explanation
Indices: 10071516--10071549 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10071506 TCCCCTATTT
*
10071516 CTCACTTCTCTCTTCTCC
1 CTCAATTCTCT-TTCTCC
10071534 CTCAATTCTCTTTCTC
1 CTCAATTCTCTTTCTC
10071550 TCTATCGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.09, C:0.44, G:0.00, T:0.47
Consensus pattern (17 bp):
CTCAATTCTCTTTCTCC
Found at i:10080422 original size:32 final size:32
Alignment explanation
Indices: 10080360--10080419 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
10080350 GAGAGAAATG
*
10080360 TAAAGACTACAATTTTTAATCTAAATAAATAA
1 TAAAGACTACAATTTTTAATCGAAATAAATAA
*
10080392 TAAA-ACTAGAATATTTTAATCG-AATAAA
1 TAAAGACTACAAT-TTTTAATCGAAATAAA
10080420 ATATCCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 13 0.52
32 12 0.48
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.33
Consensus pattern (32 bp):
TAAAGACTACAATTTTTAATCGAAATAAATAA
Found at i:10086395 original size:3 final size:3
Alignment explanation
Indices: 10086387--10086414 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10086377 AACTTGGCGC
10086387 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
10086415 AAAACCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:10087542 original size:2 final size:2
Alignment explanation
Indices: 10087535--10087566 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10087525 TTTAATGTCT
10087535 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10087567 ATGTCCAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:10090492 original size:12 final size:12
Alignment explanation
Indices: 10090475--10090499 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10090465 CCTCATAATG
10090475 TTTTTATAAAAT
1 TTTTTATAAAAT
10090487 TTTTTATAAAAT
1 TTTTTATAAAAT
10090499 T
1 T
10090500 AGTTTACCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTTATAAAAT
Found at i:10090622 original size:2 final size:2
Alignment explanation
Indices: 10090617--10090644 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10090607 ATTGATTCAT
10090617 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10090645 AAGACTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10093643 original size:252 final size:252
Alignment explanation
Indices: 10093116--10093996 Score: 736
Period size: 252 Copynumber: 3.6 Consensus size: 252
10093106 NNNNNNNNNN
* * * * * *
10093116 ATTCTCGAGTTTAAAGT-TTTTACG-GTTGACTAAA-TTTAATGTATGCATTAATAATGGTAAGG
1 ATTCTCGAGTTTAAAGTATTTTATGACTT-AC-AAATTTTAATATATGCATGAATAATAGTAAAG
* * * * * *
10093178 ATAAAAAGAATTATGATGAAAGTTATTAATTGACAAGTCATAACGTAAAGCCATAAGAATTAATA
64 ATAAAAAGAATTATGATGAAAATTAGTAATTAAAAAGCCATAACGTAAAGCAATAAGAATTAATA
*
10093243 TAAAACATTATAAAGGCGAAACAAGCATTTTAAAAATATTGACGTAAATATATGAGATTTAACAT
129 TAAAACATTATAAAGGCGAAACAAGCATTTTAAAAATATTGACATAAATATATGAGATTTAACAT
* * * * *
10093308 AACAAGTCAATTATGTCTCATAAATATTATTTTTGAAGAAATTAAACATTTAAATTATT
194 AACAAGTCAATTATGCCTAATAAACATAATTTTTGAAAAAATTAAACATTTAAATTATT
* * * *
10093367 ATTCTCGAGTTTAATGTGTTTTATGACTTACACATTTTAATTTATGTC-TGAATAATAGTAAAGA
1 ATTCTCGAGTTTAAAGTATTTTATGACTTACAAATTTTAATATATG-CATGAATAATAGTAAAGA
* * *
10093431 TAAAAAGAGTTATGATGAAAATTAGTATTTAAAAAGCCTTAACGTATAA-CAATAAGAATTAATA
65 TAAAAAGAATTATGATGAAAATTAGTAATTAAAAAGCCATAACGTA-AAGCAATAAGAATTAATA
* * * * * *
10093495 TAAAACATTATAAAGGTGGAATAAGCATTTTCAAAATATTGACATAAATATGTGAGATTTAACGT
129 TAAAACATTATAAAGGCGAAACAAGCATTTTAAAAATATTGACATAAATATATGAGATTTAACAT
* * *
10093560 TACAAGTCAATTATGCCTAATAAACATAATTTTTTTAAAAAATTAAACATTTAAATTGTT
194 AACAAGTCAATTATGCCTAATAAACATAA-TTTTTGAAAAAATTAAACATTTAAATTATT
* ** *
10093620 ATT-TCGGGTTTAAAGTATTTTATGGTTTATAAATTTTAATATATGCATGAATAATA--ACAA-A
1 ATTCTCGAGTTTAAAGTATTTTATGACTTACAAATTTTAATATATGCATGAATAATAGTA-AAGA
* ** * * ** **
10093681 -AATAA-AA--AT--T---AA-TAGT--GGAAAAA-CCTTGACGTAAAGCGGTAAGAATTAACGT
65 TAAAAAGAATTATGATGAAAATTAGTAATTAAAAAGCCATAACGTAAAGCAATAAGAATTAATAT
* ** * * ** * * *
10093733 AAAATATTATAAAAGTTG-AACAAGTATTATAAAAATATTGATGTAAATGTGTGAGATTTAACTT
130 AAAACATTAT-AAAGGCGAAACAAGCATTTTAAAAATATTGACATAAATATATGAGATTTAACAT
* * ** * * * * *
10093797 AACAAATTAATTATATCAAATAAACATGAA-TTTTGAAGAAATTAAATATTTTAATTGTT
194 AACAAGTCAATTATGCCTAATAAACAT-AATTTTTGAAAAAATTAAACATTTAAATTATT
* * * ** * * * *
10093856 ATTCTCGAGTTTAAAATGTTTTACGGTTTACAAATTTTAATAAATGCTTGAATAATAGCAAGGAT
1 ATTCTCGAGTTTAAAGTATTTTATGACTTACAAATTTTAATATATGCATGAATAATAGTAAAGAT
* * ** * * *
10093921 AAAAAG-ATTATAATGAAAATTAGTAGTTTAAAAA-CTTTAATGTAAAGTC-GTAAGAATTAATG
66 AAAAAGAATTATGATGAAAATTAGTA-ATTAAAAAGCCATAACGTAAAG-CAATAAGAATTAATA
*
10093983 TAAAAAATTATAAA
129 TAAAACATTATAAA
10093997 AGTGAAATAA
Statistics
Matches: 516, Mismatches: 85, Indels: 59
0.78 0.13 0.09
Matches are distributed among these distances:
236 30 0.06
237 135 0.26
238 14 0.03
239 2 0.00
240 9 0.02
241 2 0.00
242 2 0.00
244 2 0.00
246 2 0.00
247 2 0.00
248 5 0.01
249 4 0.01
250 5 0.01
251 58 0.11
252 209 0.41
253 35 0.07
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (252 bp):
ATTCTCGAGTTTAAAGTATTTTATGACTTACAAATTTTAATATATGCATGAATAATAGTAAAGAT
AAAAAGAATTATGATGAAAATTAGTAATTAAAAAGCCATAACGTAAAGCAATAAGAATTAATATA
AAACATTATAAAGGCGAAACAAGCATTTTAAAAATATTGACATAAATATATGAGATTTAACATAA
CAAGTCAATTATGCCTAATAAACATAATTTTTGAAAAAATTAAACATTTAAATTATT
Found at i:10094176 original size:251 final size:251
Alignment explanation
Indices: 10093711--10094176 Score: 518
Period size: 251 Copynumber: 1.9 Consensus size: 251
10093701 AAACCTTGAC
* * * *
10093711 GTAAAGCGGTAAGAATTAACGTAAAATATTATAAAAGTTGAACAAGTATTATAAAAATATTGATG
1 GTAAAGCGGTAAGAATTAACGTAAAAAATTATAAAAGTTGAACAAATATTATAAAAATATTAACG
* * *
10093776 TAAATGTGTGAGATTTAACTTAACAAATTAATTATATCAAATAAACATGAATTTTGAAGAAATTA
66 TAAATGTGTGAAATTTAACGTAACAAAATAATTATATCAAATAAACATGAATTTTGAAGAAATTA
* * * * * ***
10093841 AATATTTTAATTGTTATTCTCGAGTTTAAAATGTTTTACGGTTTACAAATTTTAATAAATGCTTG
131 AATATTTTAATTGTTATTATCGAGTTTAAAATATTTAACAGTGTACAAATTTTAATAAATAAATG
**
10093906 AATAATAGCAAGGATAAAAAGATTATAATGAAAATTAGTAGTTTAAAAACTTTAAT
196 AATAATAGCAAAAATAAAAAGATTATAATGAAAATTAGTAGTTTAAAAACTTTAAT
* * *
10093962 GTAAAGTC-GTAAGAATTAATGTAAAAAATTATAAAAG-TGAAATAAATGTTA-AAAAATATTAA
1 GTAAAG-CGGTAAGAATTAACGTAAAAAATTATAAAAGTTG-AACAAATATTATAAAAATATTAA
* * * *
10094024 CGTATATGTGTGAAATTTAACGTAACAAAATAATTA-AGTCAAAATAAA-TTTATTTTTTGTAA-
64 CGTAAATGTGTGAAATTTAACGTAACAAAATAATTATA-TC-AAATAAACATGA-ATTTTG-AAG
* * * *
10094086 AAATTAAATA-TTTAATTTTTTATTATTGAG-TTAAACATATTTAACAGTGTATAAATTTTAATT
125 AAATTAAATATTTTAA-TTGTTATTATCGAGTTTAAA-ATATTTAACAGTGTACAAATTTTAATA
* *
10094149 TATAAATGAGTAATTA-CAAAAATAAAAA
188 AATAAATGAATAA-TAGCAAAAATAAAAA
10094177 TAATTATAGT
Statistics
Matches: 176, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
249 1 0.01
250 57 0.32
251 113 0.64
252 5 0.03
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (251 bp):
GTAAAGCGGTAAGAATTAACGTAAAAAATTATAAAAGTTGAACAAATATTATAAAAATATTAACG
TAAATGTGTGAAATTTAACGTAACAAAATAATTATATCAAATAAACATGAATTTTGAAGAAATTA
AATATTTTAATTGTTATTATCGAGTTTAAAATATTTAACAGTGTACAAATTTTAATAAATAAATG
AATAATAGCAAAAATAAAAAGATTATAATGAAAATTAGTAGTTTAAAAACTTTAAT
Found at i:10101027 original size:21 final size:20
Alignment explanation
Indices: 10100993--10101033 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
10100983 TTAACATGTC
10100993 AAACACGATAAACACATTTA
1 AAACACGATAAACACATTTA
*
10101013 AAACACGTTTAAACACATTTA
1 AAACACG-ATAAACACATTTA
10101034 TTTAATCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.51, C:0.20, G:0.05, T:0.24
Consensus pattern (20 bp):
AAACACGATAAACACATTTA
Found at i:10101374 original size:17 final size:17
Alignment explanation
Indices: 10101340--10101374 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10101330 TCACTTCAGC
* *
10101340 AGTTTTTTTTTTTGAAA
1 AGTTTTTTTTATTCAAA
10101357 AGTTTTTTTTATTCAAA
1 AGTTTTTTTTATTCAAA
10101374 A
1 A
10101375 CAAAAATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.60
Consensus pattern (17 bp):
AGTTTTTTTTATTCAAA
Found at i:10102460 original size:2 final size:2
Alignment explanation
Indices: 10102455--10102483 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10102445 TTTTTTGTAT
10102455 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10102484 TAAGTAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10121516 original size:21 final size:21
Alignment explanation
Indices: 10121492--10121532 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10121482 AATTCCATCC
*
10121492 TATGATTTAATAAAGTTATGA
1 TATGATTTAATAAAGCTATGA
10121513 TATGATTTAATAAAGCTATG
1 TATGATTTAATAAAGCTATG
10121533 GATGTAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.41
Consensus pattern (21 bp):
TATGATTTAATAAAGCTATGA
Found at i:10121726 original size:2 final size:2
Alignment explanation
Indices: 10121719--10121752 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
10121709 TGACAATGTC
*
10121719 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10121753 TTGAATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10127779 original size:21 final size:21
Alignment explanation
Indices: 10127753--10127793 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10127743 AATTCCATCT
10127753 TATGATTTAATAAAGTTATGA
1 TATGATTTAATAAAGTTATGA
10127774 TATGATTTAATAAAGTTATG
1 TATGATTTAATAAAGTTATG
10127794 GATGAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
TATGATTTAATAAAGTTATGA
Done.