Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 29 of 50
Found at i:12895423 original size:43 final size:43
Alignment explanation
Indices: 12895337--12895472 Score: 177
Period size: 43 Copynumber: 3.2 Consensus size: 43
12895327 TTTTGTGTGA
* * * *
12895337 TGATGATGACCCAGCTATGTGCGTAT-AGGAGTGCACATGAGC
1 TGATGATGACCCAACTATATGCGAATGGGGAGTGCACATGAGC
* *
12895379 TGATGATGACCTAGCTATATGC-AAGTGGGGAGTGCACATGAGC
1 TGATGATGACCCAACTATATGCGAA-TGGGGAGTGCACATGAGC
* *
12895422 TGATGATGACCCAACTATGTGCGAATGGGGAGTGCACATGAGT
1 TGATGATGACCCAACTATATGCGAATGGGGAGTGCACATGAGC
12895465 TGATGATG
1 TGATGATG
12895473 GTGGGATGGT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 21 0.25
43 59 0.71
44 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.24
Consensus pattern (43 bp):
TGATGATGACCCAACTATATGCGAATGGGGAGTGCACATGAGC
Found at i:12898912 original size:21 final size:21
Alignment explanation
Indices: 12898861--12898928 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
12898851 TTGAATGGAG
* *
12898861 GCATCAGTCGTTGTCATAAAT
1 GCATCAGTCTTTGTCATGAAT
* * * *
12898882 GCGTCGGTCTTTTTTATGAAT
1 GCATCAGTCTTTGTCATGAAT
12898903 GCATCAGTCTTTGTCATGAATT
1 GCATCAGTCTTTGTCATGAA-T
12898925 GCAT
1 GCAT
12898929 GAACATATCC
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
21 31 0.86
22 5 0.14
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (21 bp):
GCATCAGTCTTTGTCATGAAT
Found at i:12905639 original size:206 final size:209
Alignment explanation
Indices: 12905280--12905680 Score: 605
Period size: 208 Copynumber: 1.9 Consensus size: 209
12905270 TTGAACTAGA
*
12905280 ATAGAATTAAATAAATAAATTCTCTAATGATGAAATCTCAAGAAAACCAAAAGTGATTTCTTGAG
1 ATAGAATTAAATAAATAAATTCTCTAATGATGAAATCTCAAGAAAACCAAAAGTGACTTCTTGAG
* **
12905345 AATTTCTAGGTGAGAGAATTTTTCAAAATTTTACCATGAGTGTTTGGAAGATTTTGAAAAATTTT
66 AATTTATAGGT-AGAGAATTTTTCAAAATTTTACCATGAGCATTTGGAAGATTTTGAAAAATTTT
* *
12905410 CAATATTAAGAATTTTTATTTA-TTTCAAAAAACTAATAAAATAGAAATAAGAAAAG-AAATAAA
130 CAATATCAAGAATTTTCATTTATTTTCAAAAAACTAATAAAATAGAAATAAGAAAAGTAAATAAA
12905473 TTGAAAGATAAAGTT
195 TTGAAAGATAAAGTT
* * *
12905488 ATAGAATTAAGTAAATTAGTTCT-TCAATGATGAAATCTCAAGAAAACCAAAAGT-AGCTTCTTG
1 ATAGAATTAAATAAATAAATTCTCT-AATGATGAAATCTCAAGAAAACCAAAAGTGA-CTTCTTG
* * *
12905551 AGAATTTATAGGT-GAGAATTTTTTAAAATTTTACCATGAGCATTTGGGAGATTTTGGAAAATTT
64 AGAATTTATAGGTAGAGAATTTTTCAAAATTTTACCATGAGCATTTGGAAGATTTTGAAAAATTT
* * *
12905615 TCAATATCAAGAATTTTCATTTATTTTGAAAAAACTAATAAATTAGAAATAGGAAAAGTAAATAA
129 TCAATATCAAGAATTTTCATTTATTTTCAAAAAACTAATAAAATAGAAATAAGAAAAGTAAATAA
12905680 A
194 A
12905681 ATTAAGATAT
Statistics
Matches: 174, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
206 67 0.39
207 33 0.19
208 74 0.43
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (209 bp):
ATAGAATTAAATAAATAAATTCTCTAATGATGAAATCTCAAGAAAACCAAAAGTGACTTCTTGAG
AATTTATAGGTAGAGAATTTTTCAAAATTTTACCATGAGCATTTGGAAGATTTTGAAAAATTTTC
AATATCAAGAATTTTCATTTATTTTCAAAAAACTAATAAAATAGAAATAAGAAAAGTAAATAAAT
TGAAAGATAAAGTT
Found at i:12909641 original size:29 final size:29
Alignment explanation
Indices: 12909608--12909666 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
12909598 TTCCAATTTT
12909608 ACCCCAAATGAACCCTCGAACTCCGAACA
1 ACCCCAAATGAACCCTCGAACTCCGAACA
12909637 ACCCCAAATGAACCCTCGAACTCCGAACA
1 ACCCCAAATGAACCCTCGAACTCCGAACA
12909666 A
1 A
12909667 TCATTTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.41, G:0.10, T:0.10
Consensus pattern (29 bp):
ACCCCAAATGAACCCTCGAACTCCGAACA
Found at i:12917262 original size:15 final size:13
Alignment explanation
Indices: 12917232--12917256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12917222 TTCCAGAAAA
12917232 TTTATAAAATCAT
1 TTTATAAAATCAT
12917245 TTTATAAAATCA
1 TTTATAAAATCA
12917257 CATTTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:12923686 original size:2 final size:2
Alignment explanation
Indices: 12923673--12923716 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
12923663 AACACTTTAC
*
12923673 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
12923716 A
1 A
12923717 CACAAACAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:12929335 original size:33 final size:33
Alignment explanation
Indices: 12929271--12929335 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
12929261 TCAACAACAG
** *
12929271 ATAAAATATTAATATTTTAATATTATTTTATTA
1 ATAAAATATTAATATTTTAATAAAATATTATTA
*
12929304 ATAAAATATT-ATTTTATTAATAAAATATTATT
1 ATAAAATATTAATATT-TTAATAAAATATTATT
12929336 TTATTTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
ATAAAATATTAATATTTTAATAAAATATTATTA
Found at i:12929348 original size:19 final size:19
Alignment explanation
Indices: 12929289--12929340 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
12929279 TTAATATTTT
12929289 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
12929308 AATATTATTTTATTAATAA
1 AATATTATTTTATTAATAA
12929327 AATATTATTTTATT
1 AATATTATTTTATT
12929341 TCAAAAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATATTATTTTATTAATAA
Found at i:12938371 original size:28 final size:29
Alignment explanation
Indices: 12938330--12938389 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
12938320 GTCTATGGGC
* *
12938330 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCACTTTTAGGGGGCAAAAATGT
* *
12938358 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCACTTTTA-GGGGGCAAAAATGT
12938388 AA
1 AA
12938390 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.38
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGGCAAAAATGT
Found at i:12942031 original size:21 final size:21
Alignment explanation
Indices: 12942007--12942051 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
12941997 CTTTGGTTTT
12942007 TCTATTTT-TCTTCCTT-TCCTC
1 TCTATTTTCTC-T-CTTGTCCTC
12942028 TCTATTTTCTCTCTTGTCCTC
1 TCTATTTTCTCTCTTGTCCTC
12942049 TCT
1 TCT
12942052 TATGGCCTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 17 0.77
22 2 0.09
ACGTcount: A:0.04, C:0.33, G:0.02, T:0.60
Consensus pattern (21 bp):
TCTATTTTCTCTCTTGTCCTC
Found at i:12942797 original size:19 final size:19
Alignment explanation
Indices: 12942761--12942797 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12942751 GGGTTTGGTG
* *
12942761 AGAAACCCTTGGCTAGTTA
1 AGAAACCCTCGGCCAGTTA
12942780 AGAAACCCTCGGCCAGTT
1 AGAAACCCTCGGCCAGTT
12942798 GACAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
AGAAACCCTCGGCCAGTTA
Found at i:12951315 original size:36 final size:37
Alignment explanation
Indices: 12951232--12951322 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 37
12951222 ACTATGTCCC
* *
12951232 CATCATGTGCACTCCCACACCGCACACGACAATATCAT
1 CATCATGTGCACTCCCACACCACACAC-ACAACATCAT
* * *
12951270 CATCGTGTGCACTCCCACACCACACAC-CACCCTCAT
1 CATCATGTGCACTCCCACACCACACACACAACATCAT
**
12951306 TGTCATGTGCACTCCCA
1 CATCATGTGCACTCCCA
12951323 TATCGCACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
36 20 0.44
38 25 0.56
ACGTcount: A:0.26, C:0.43, G:0.11, T:0.20
Consensus pattern (37 bp):
CATCATGTGCACTCCCACACCACACACACAACATCAT
Found at i:12954369 original size:28 final size:28
Alignment explanation
Indices: 12954329--12954421 Score: 136
Period size: 28 Copynumber: 3.3 Consensus size: 28
12954319 TGATAGCTTT
*
12954329 AACATTTTTGTCTTC-ATTTAGACAAGAA
1 AACATATTTGTC-TCAATTTAGACAAGAA
*
12954357 AACATATTTGTCTCAATTTAGAGAAGAA
1 AACATATTTGTCTCAATTTAGACAAGAA
12954385 AACATATTTGTCTCAATTTAGACAAGATA
1 AACATATTTGTCTCAATTTAGACAAGA-A
12954414 AA-ATATTT
1 AACATATTT
12954422 TTTTGTCTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
27 2 0.03
28 55 0.92
29 3 0.05
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (28 bp):
AACATATTTGTCTCAATTTAGACAAGAA
Found at i:12961592 original size:20 final size:20
Alignment explanation
Indices: 12961567--12961612 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
12961557 TTTTGACCCC
12961567 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
12961587 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
12961607 ATTTGA
1 ATTTGA
12961613 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:12961688 original size:28 final size:27
Alignment explanation
Indices: 12961657--12961709 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
12961647 TTTGGAGTAT
*
12961657 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
12961685 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
12961710 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:12961715 original size:28 final size:28
Alignment explanation
Indices: 12961657--12961715 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
12961647 TTTGGAGTAT
* *
12961657 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
12961685 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
12961713 AGG
1 AGG
12961716 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:12968985 original size:2 final size:2
Alignment explanation
Indices: 12968978--12969056 Score: 124
Period size: 2 Copynumber: 39.5 Consensus size: 2
12968968 TACATGCTTG
*
12968978 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TGN TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
*
12969020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12969057 GCTATAGATA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.01
2 69 0.97
3 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12971311 original size:29 final size:29
Alignment explanation
Indices: 12971278--12971342 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
12971268 CAAAATTCTT
12971278 AACTAACAAATCTGGAAAGTAGTGGAAGA
1 AACTAACAAATCTGGAAAGTAGTGGAAGA
12971307 AACTAACAAATCTGGAAAGTAGTGGAAGA
1 AACTAACAAATCTGGAAAGTAGTGGAAGA
*
12971336 AATTAAC
1 AACTAAC
12971343 TTACTTGAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.18
Consensus pattern (29 bp):
AACTAACAAATCTGGAAAGTAGTGGAAGA
Found at i:12973419 original size:35 final size:35
Alignment explanation
Indices: 12973372--12973497 Score: 112
Period size: 37 Copynumber: 3.5 Consensus size: 35
12973362 TACACCACTC
*
12973372 CACTTCATTCATCGTCATGTGCACCCCATACTCGCA
1 CACTTCA-TCATCATCATGTGCACCCCATACTCGCA
* *
12973408 CA-TTCTATCATCATCATGTGCGCACTCCTTACTCGCA
1 CACTTC-ATCATCATCATGT--GCACCCCATACTCGCA
* *
12973445 CACTTCAACATCATCATGTGTGCACTCCC-TACTCACA
1 CACTTCATCATCATCA--TGTGCAC-CCCATACTCGCA
* *
12973482 CACTTCAACATTATCA
1 CACTTCATCATCATCA
12973498 CACAACATTA
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
35 14 0.18
36 3 0.04
37 51 0.67
38 5 0.07
39 3 0.04
ACGTcount: A:0.25, C:0.37, G:0.09, T:0.29
Consensus pattern (35 bp):
CACTTCATCATCATCATGTGCACCCCATACTCGCA
Found at i:12973457 original size:37 final size:37
Alignment explanation
Indices: 12973392--12973497 Score: 135
Period size: 37 Copynumber: 2.9 Consensus size: 37
12973382 ATCGTCATGT
*
12973392 GCAC-CCCATACTCGCACA-TTCTATCATCATCATGTGC
1 GCACTCCC-TACTCGCACACTTC-AACATCATCATGTGC
* *
12973429 GCACTCCTTACTCGCACACTTCAACATCATCATGTGT
1 GCACTCCCTACTCGCACACTTCAACATCATCATGTGC
* *
12973466 GCACTCCCTACTCACACACTTCAACATTATCA
1 GCACTCCCTACTCGCACACTTCAACATCATCA
12973498 CACAACATTA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 56 0.92
38 5 0.08
ACGTcount: A:0.26, C:0.38, G:0.08, T:0.27
Consensus pattern (37 bp):
GCACTCCCTACTCGCACACTTCAACATCATCATGTGC
Found at i:12976130 original size:42 final size:42
Alignment explanation
Indices: 12976021--12976137 Score: 162
Period size: 42 Copynumber: 2.8 Consensus size: 42
12976011 TGGACCCAGT
* * * * * *
12976021 TATGTGCGATTAGGAGTGCACATAAACCATTGCTGACTCGGC
1 TATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGAC
*
12976063 TATGTGCTAGTGGGAGTGCACATAAGCCGTTGCTGACCCGAC
1 TATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGAC
*
12976105 TATGTGCGAGTGGGAGTGCACATAAGTCGTTGC
1 TATGTGCGAGTGGGAGTGCACATAAGCCGTTGC
12976138 ATATGAGATG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (42 bp):
TATGTGCGAGTGGGAGTGCACATAAGCCGTTGCTGACCCGAC
Found at i:12993879 original size:43 final size:42
Alignment explanation
Indices: 12993785--12993920 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 42
12993775 TTGTGTGATA
* * *
12993785 ATGATGACCCAGA-TATGTGCGATGT-GGGATTGCACATGAGCTG
1 ATGATGACCC-GACTATGTGCGA-GTAGGGAGTGCGCATAAGC-G
12993828 ATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGTCG
1 ATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAG-CG
* * *
12993871 ATGTTGACCTTG-CTATGTGTGAGTAGGGAGTGCGCATAAGCCG
1 ATGATGACC-CGACTATGTGCGAGTAGGGAGTGCGCATAAG-CG
12993914 ATGATGA
1 ATGATGA
12993921 TGACCCAGCT
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
42 4 0.05
43 75 0.93
44 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (42 bp):
ATGATGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCG
Found at i:13004448 original size:11 final size:11
Alignment explanation
Indices: 13004407--13004450 Score: 56
Period size: 10 Copynumber: 4.2 Consensus size: 11
13004397 ATTAACTCTT
13004407 ATTAAAGT-AA
1 ATTAAAGTAAA
13004417 ATTAAAGTAAA
1 ATTAAAGTAAA
*
13004428 A-TAATGTAAA
1 ATTAAAGTAAA
*
13004438 ATTAAACTAAA
1 ATTAAAGTAAA
13004449 AT
1 AT
13004451 AACTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 17 0.59
11 12 0.41
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (11 bp):
ATTAAAGTAAA
Found at i:13008199 original size:19 final size:20
Alignment explanation
Indices: 13008165--13008202 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
13008155 GAAGAAGACC
13008165 AGCTGCTGGAAAATTCAAGA
1 AGCTGCTGGAAAATTCAAGA
13008185 AGCTGCTGG-AAATTCAAG
1 AGCTGCTGGAAAATTCAAG
13008203 GTATTTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (20 bp):
AGCTGCTGGAAAATTCAAGA
Found at i:13010475 original size:29 final size:28
Alignment explanation
Indices: 13010354--13010492 Score: 138
Period size: 29 Copynumber: 4.9 Consensus size: 28
13010344 ATATTATATA
* * *
13010354 TTGTCTAAATTGAGACAAATATGATTTC
1 TTGTCTAAATTAAGACAAACATGTTTTC
* * * *
13010382 TTGTCTAGATTAAGAGAAAAAATATTTTTC
1 TTGTCTAAATTAAGA-CAAACAT-GTTTTC
* *
13010412 TTATCTTAAATTAAGACAAACA--TATTC
1 TTGTC-TAAATTAAGACAAACATGTTTTC
*
13010439 TTGTCTAAATTAAGACTGAACATGTTTTC
1 TTGTCTAAATTAAGAC-AAACATGTTTTC
13010468 TTGTCTAAATTAAGACAAACATGTT
1 TTGTCTAAATTAAGACAAACATGTT
13010493 AAAGCTGTCA
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
26 11 0.12
27 12 0.13
28 21 0.23
29 25 0.28
30 12 0.13
31 9 0.10
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.39
Consensus pattern (28 bp):
TTGTCTAAATTAAGACAAACATGTTTTC
Found at i:13024943 original size:2 final size:2
Alignment explanation
Indices: 13024936--13024981 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
13024926 ATCGAATTTC
13024936 AT AT AT AT CAT 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
13024979 AT A
1 AT A
13024982 GAAAATAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13029945 original size:42 final size:42
Alignment explanation
Indices: 13029884--13030008 Score: 180
Period size: 42 Copynumber: 3.0 Consensus size: 42
13029874 TGTTGATGTG
**
13029884 GACCCGACTATGTATGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
13029926 GACCC-AGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGCT
1 GACCCGA-CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* **
13029968 GACCCGACTATGTGCGAGTGGGAGTGTGCATAAGCCGTTGC
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
13030009 GTATGAGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 72 0.97
43 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (42 bp):
GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:13037527 original size:20 final size:21
Alignment explanation
Indices: 13037486--13037530 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
13037476 CCTAGGTGGA
*
13037486 AAAATTCAAAGGAAAAGTGTG
1 AAAATTCAAAGGAAAAGAGTG
13037507 AAAATTC-AAGGAAACA-AGTG
1 AAAATTCAAAGGAAA-AGAGTG
13037527 AAAA
1 AAAA
13037531 AGATAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.58, C:0.07, G:0.20, T:0.16
Consensus pattern (21 bp):
AAAATTCAAAGGAAAAGAGTG
Found at i:13037531 original size:21 final size:20
Alignment explanation
Indices: 13037484--13037531 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
13037474 ACCCTAGGTG
13037484 GAAAAATTCAAAGGAAAAGT
1 GAAAAATTCAAAGGAAAAGT
*
13037504 GTGAAAATTC-AAGGAAACAAGT
1 G-AAAAATTCAAAGG-AA-AAGT
13037526 GAAAAA
1 GAAAAA
13037532 GATAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.58, C:0.06, G:0.21, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAAGGAAAAGT
Found at i:13040578 original size:42 final size:42
Alignment explanation
Indices: 13040512--13040720 Score: 310
Period size: 42 Copynumber: 5.0 Consensus size: 42
13040502 TGTTGATGTG
* ** *
13040512 GACCCGACTATGTGTGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCAAGTGGGAGTGCACATAAGCCGTTGCT
*
13040554 GACCCGGCTATGTGCTAGTGGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCAAGTGGGAGTGCACATAAGCCGTTGCT
* * *
13040596 GACCCGGCTATGTGCAAGTGAGAGTGCACACAAGCCATTGCT
1 GACCCGGCTATGTGCAAGTGGGAGTGCACATAAGCCGTTGCT
* * *
13040638 GACCCGGCTATGTGCAAGTGAGAGTGCACACAAGCCATTGCT
1 GACCCGGCTATGTGCAAGTGGGAGTGCACATAAGCCGTTGCT
*
13040680 GACCCGGCTATGTGCAAGTGGGAGTGCGCATAAGCCGTTGC
1 GACCCGGCTATGTGCAAGTGGGAGTGCACATAAGCCGTTGC
13040721 ATATGAGATG
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 155 1.00
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (42 bp):
GACCCGGCTATGTGCAAGTGGGAGTGCACATAAGCCGTTGCT
Found at i:13043892 original size:16 final size:16
Alignment explanation
Indices: 13043871--13043904 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13043861 ATATCACATG
* *
13043871 AATTAGAATTTAGCTC
1 AATTAGAAGTTACCTC
13043887 AATTAGAAGTTACCTC
1 AATTAGAAGTTACCTC
13043903 AA
1 AA
13043905 ATATGCCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (16 bp):
AATTAGAAGTTACCTC
Found at i:13045461 original size:18 final size:18
Alignment explanation
Indices: 13045440--13045499 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
13045430 ATTAGAAATC
**
13045440 TTTACAAATCTGGAAAGA
1 TTTACAAATCTATAAAGA
13045458 TTTACAAATCTATAAAGA
1 TTTACAAATCTATAAAGA
*
13045476 TTAACAAATCTATAAAGA
1 TTTACAAATCTATAAAGA
13045494 -TTACAA
1 TTTACAA
13045500 GCAAGCACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
17 5 0.13
18 33 0.87
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (18 bp):
TTTACAAATCTATAAAGA
Found at i:13047602 original size:42 final size:42
Alignment explanation
Indices: 13047509--13047867 Score: 249
Period size: 42 Copynumber: 8.8 Consensus size: 42
13047499 AGCTCATGTG
** **
13047509 CACTCCCCACTCGCACAT-GACTGGGTCATCATCAACTTATGCA
1 CACT-CCCACTCGCACATAG-CCAGGTCATCATCGGCTTATGCA
* * * * * *
13047552 TACCCCCACTCTCATATAGCCAGGTCCTCATCGGCTTATGCG
1 CACTCCCACTCGCACATAGCCAGGTCATCATCGGCTTATGCA
* *
13047594 CACTCCCACTGGCACATGGCCAGGTCATCATCGGCTTATGCA
1 CACTCCCACTCGCACATAGCCAGGTCATCATCGGCTTATGCA
* * *
13047636 CACT--C-CT-----ATTG---GGTCATCATCGACTTATGCG
1 CACTCCCACTCGCACATAGCCAGGTCATCATCGGCTTATGCA
* * * * *
13047667 TACCCCCACTCGCATATAGCCAGGTCTTCATCGGCTTATGCG
1 CACTCCCACTCGCACATAGCCAGGTCATCATCGGCTTATGCA
* **
13047709 CACTCCCACTAGCACATAGCTGGGTCATCATCGGCTTATGCA
1 CACTCCCACTCGCACATAGCCAGGTCATCATCGGCTTATGCA
* * * * * *
13047751 CACTTCTACTGGCACATGGCCGGGTCATCATCGGCTTATACA
1 CACTCCCACTCGCACATAGCCAGGTCATCATCGGCTTATGCA
* * * * * **
13047793 CACTCCTACTAGCACAT-GGCGGAGTCATCATCGGCGTATGTG
1 CACTCCCACTCGCACATAGCCAG-GTCATCATCGGCTTATGCA
* * *
13047835 CACTCCTACTAGCACATAGCCGGGTCATCATCG
1 CACTCCCACTCGCACATAGCCAGGTCATCATCG
13047868 ACATACAAAA
Statistics
Matches: 254, Mismatches: 48, Indels: 29
0.77 0.15 0.09
Matches are distributed among these distances:
31 20 0.08
33 1 0.00
34 5 0.02
39 5 0.02
40 1 0.00
41 4 0.02
42 211 0.83
43 7 0.03
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (42 bp):
CACTCCCACTCGCACATAGCCAGGTCATCATCGGCTTATGCA
Found at i:13047671 original size:115 final size:115
Alignment explanation
Indices: 13047530--13047754 Score: 378
Period size: 115 Copynumber: 2.0 Consensus size: 115
13047520 CGCACATGAC
*
13047530 TGGGTCATCATCAACTTATGCATACCCCCACTCTCATATAGCCAGGTCCTCATCGGCTTATGCGC
1 TGGGTCATCATCAACTTATGCATACCCCCACTCGCATATAGCCAGGTCCTCATCGGCTTATGCGC
* *
13047595 ACTCCCACTGGCACATGGCCAGGTCATCATCGGCTTATGCACACTCCTAT
66 ACTCCCACTAGCACATAGCCAGGTCATCATCGGCTTATGCACACTCCTAT
* * *
13047645 TGGGTCATCATCGACTTATGCGTACCCCCACTCGCATATAGCCAGGTCTTCATCGGCTTATGCGC
1 TGGGTCATCATCAACTTATGCATACCCCCACTCGCATATAGCCAGGTCCTCATCGGCTTATGCGC
**
13047710 ACTCCCACTAGCACATAGCTGGGTCATCATCGGCTTATGCACACT
66 ACTCCCACTAGCACATAGCCAGGTCATCATCGGCTTATGCACACT
13047755 TCTACTGGCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 102 1.00
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (115 bp):
TGGGTCATCATCAACTTATGCATACCCCCACTCGCATATAGCCAGGTCCTCATCGGCTTATGCGC
ACTCCCACTAGCACATAGCCAGGTCATCATCGGCTTATGCACACTCCTAT
Found at i:13060761 original size:42 final size:42
Alignment explanation
Indices: 13060691--13060908 Score: 222
Period size: 42 Copynumber: 5.2 Consensus size: 42
13060681 CACCCTCCCA
* * ** * *
13060691 TCATCATCAGCTCATGTGCACTCCCCACTCGCACATGGCTGGG
1 TCATCATCGGCTTATGCACACT-CCCACTCGCACATAGCCGGG
* ** * * * *
13060734 TCATCATTGGCTTATGCGTACCCCCACTTGCATATAGCCGAG
1 TCATCATCGGCTTATGCACACTCCCACTCGCACATAGCCGGG
*
13060776 TCATCATCGGCTTATGCACACTCCCACTCGCACATAGCGGGG
1 TCATCATCGGCTTATGCACACTCCCACTCGCACATAGCCGGG
* **
13060818 TCATCATCGGCTTATGCACACTCCCACTCGCACATGGCAAGG
1 TCATCATCGGCTTATGCACACTCCCACTCGCACATAGCCGGG
** * *
13060860 TCATCATCGG-TGTATGTGCACTCCTACTCGCACATAGCCAGG
1 TCATCATCGGCT-TATGCACACTCCCACTCGCACATAGCCGGG
13060902 TCATCAT
1 TCATCAT
13060909 TGACATACAA
Statistics
Matches: 147, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
41 1 0.01
42 130 0.88
43 16 0.11
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.25
Consensus pattern (42 bp):
TCATCATCGGCTTATGCACACTCCCACTCGCACATAGCCGGG
Found at i:13067277 original size:42 final size:42
Alignment explanation
Indices: 13067225--13067308 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
13067215 CATCTCATAT
13067225 GCAACAGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
1 GCAACAGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
* * *
13067267 GCAACGGCTTATGTGCACTCCCACTCGCACATAGTCGGGTCA
1 GCAACAGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
13067309 ATATCAATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.19
Consensus pattern (42 bp):
GCAACAGCTTATGCGCACTCCCACTCGCACATAGCCGGGTCA
Found at i:13068821 original size:35 final size:35
Alignment explanation
Indices: 13068754--13068822 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
13068744 TTTCACCAAG
* * *
13068754 CTTTTACAATGGCTTTTACCAGGCTCAGCCAAAAC
1 CTTTCACAATGGCTTTTACCAGGATCAACCAAAAC
*
13068789 CTTTCACAATGGTTTTTACC-GAGATCAACCAAAA
1 CTTTCACAATGGCTTTTACCAG-GATCAACCAAAA
13068823 TCCAACAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 1 0.03
35 28 0.97
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (35 bp):
CTTTCACAATGGCTTTTACCAGGATCAACCAAAAC
Found at i:13077371 original size:27 final size:28
Alignment explanation
Indices: 13077314--13077371 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
13077304 GGACAAATGT
** *
13077314 CCTGGTGGTGGAAAATTACTGTTTTGCC
1 CCTGGTGGTGGAAAATTACCATTTTGAC
13077342 CCTGG-GGTGGTAAAATTACCATTTT-AC
1 CCTGGTGGTGG-AAAATTACCATTTTGAC
13077369 CCT
1 CCT
13077372 TATGCTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACCATTTTGAC
Found at i:13092593 original size:21 final size:21
Alignment explanation
Indices: 13092551--13092593 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13092541 CTTGTACCGG
*
13092551 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
13092572 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
13092593 T
1 T
13092594 TAACCAGTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:13099454 original size:73 final size:72
Alignment explanation
Indices: 13099262--13099454 Score: 214
Period size: 73 Copynumber: 2.7 Consensus size: 72
13099252 GACAAAATGA
* * * *
13099262 TCTTAGTCGACTAAC-TACGCTCTTAGTTGACTAAGTTGTCTTTGTCTTCTG-A-TCCCAGTTTT
1 TCTTAGTCGACTAACTTAC-TTCTTAGTCGACTAAGTTGTTTTTGTC-T-TGAAGT-CCAGTTTC
*
13099324 TGGCAATGAGC
62 TGGCAATAAGC
* *
13099335 TCTTAGTCGACTAACTTCCTTCTTAGTCGATTAAGTTGTTTTTGTCTTGAAGTCCAGATTTCTGG
1 TCTTAGTCGACTAACTTACTTCTTAGTCGACTAAGTTGTTTTTGTCTTGAAGTCCAG-TTTCTGG
13099400 CAATAAGC
65 CAATAAGC
* * *
13099408 TCTTAGTCGATTGACTTACTTCTTGGTCGACTAAGTT-TTTTCTGTCT
1 TCTTAGTCGACTAACTTACTTCTTAGTCGACTAAGTTGTTTT-TGTCT
13099455 CTCAAACCTC
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
71 2 0.02
72 10 0.10
73 89 0.86
74 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (72 bp):
TCTTAGTCGACTAACTTACTTCTTAGTCGACTAAGTTGTTTTTGTCTTGAAGTCCAGTTTCTGGC
AATAAGC
Found at i:13101058 original size:19 final size:19
Alignment explanation
Indices: 13101031--13101069 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13101021 ATGTTAAACA
*
13101031 ATTTTTAATTATAAATAAT
1 ATTTATAATTATAAATAAT
*
13101050 ATTTATAATTATACATAAT
1 ATTTATAATTATAAATAAT
13101069 A
1 A
13101070 GCATGAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTATAATTATAAATAAT
Found at i:13101405 original size:2 final size:2
Alignment explanation
Indices: 13101394--13101434 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
13101384 AATATTCTTT
*
13101394 TA TA -A TA TA TA 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 TA TA TA TA TA TA
13101435 GATAGTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13117769 original size:22 final size:20
Alignment explanation
Indices: 13117740--13117779 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13117730 GGACAAGTGT
13117740 ATGGTGAAAATTTGAAAACAA
1 ATGGTG-AAATTTGAAAACAA
*
13117761 ATGGATGAAATTTTAAAAC
1 ATGG-TGAAATTTGAAAAC
13117780 GGACCAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (20 bp):
ATGGTGAAATTTGAAAACAA
Found at i:13128144 original size:28 final size:30
Alignment explanation
Indices: 13128103--13128162 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
13128093 GTCTATGGGC
* *
13128103 AATTTTTCAGTTTT-T-GGGGTAAAAATGT
1 AATTTTTCACTTTTATAGGGGCAAAAATGT
* *
13128131 AATTTTTGACTTTTATAGGGGCAAAAGTGT
1 AATTTTTCACTTTTATAGGGGCAAAAATGT
13128161 AA
1 AA
13128163 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
29 1 0.04
30 13 0.50
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.42
Consensus pattern (30 bp):
AATTTTTCACTTTTATAGGGGCAAAAATGT
Found at i:13142100 original size:94 final size:93
Alignment explanation
Indices: 13141994--13142180 Score: 356
Period size: 94 Copynumber: 2.0 Consensus size: 93
13141984 TTATCATTAT
13141994 TTTTATTTATGAGTCTATAATTATCTTAATAAATATTTCCTATTTAAGACAAATTTTGTCTTAAA
1 TTTTATTTATGAGTCTATAATTATCTTAATAAATATTTCCTATTTAAGACAAATTTTGTCTTAAA
13142059 AAAATATTTTTATATTAAGACAATTTTA
66 AAAATATTTTTATATTAAGACAATTTTA
*
13142087 NTTTTATTTATGAGTTTATAATTATCTTAATAAATATTTCCTATTTAAGACAAATTTTGTCTTAA
1 -TTTTATTTATGAGTCTATAATTATCTTAATAAATATTTCCTATTTAAGACAAATTTTGTCTTAA
13142152 AAAAATATTTTTATATTAAGACAATTTTA
65 AAAAATATTTTTATATTAAGACAATTTTA
13142181 ACTTACTAAA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (93 bp):
TTTTATTTATGAGTCTATAATTATCTTAATAAATATTTCCTATTTAAGACAAATTTTGTCTTAAA
AAAATATTTTTATATTAAGACAATTTTA
Found at i:13142192 original size:36 final size:36
Alignment explanation
Indices: 13142118--13142194 Score: 86
Period size: 36 Copynumber: 2.1 Consensus size: 36
13142108 TTATCTTAAT
**
13142118 AAATATTTCCTATTTAAGACAAATTTTGTCTTAAAA
1 AAATATTTCCTATTTAAGACAAATTTTAACTTAAAA
* *
13142154 AAATATTT-TTATATTAAGAC-AATTTTAACTTACTAA
1 AAATATTTCCTAT-TTAAGACAAATTTTAACTTA-AAA
13142190 AAATA
1 AAATA
13142195 ACATGATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 13 0.37
36 22 0.63
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (36 bp):
AAATATTTCCTATTTAAGACAAATTTTAACTTAAAA
Found at i:13142969 original size:26 final size:26
Alignment explanation
Indices: 13142940--13142990 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
13142930 TATCAAAGAT
*
13142940 TATAAGGAGATAAAACATAAGTCCAC
1 TATAAAGAGATAAAACATAAGTCCAC
*
13142966 TATAAAGAGATAAAACATGAGTCCA
1 TATAAAGAGATAAAACATAAGTCCA
13142991 TTATCCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.20
Consensus pattern (26 bp):
TATAAAGAGATAAAACATAAGTCCAC
Found at i:13147852 original size:42 final size:43
Alignment explanation
Indices: 13147806--13147898 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 43
13147796 GTAAGAGTGT
*
13147806 ACATAAGCCAATGATGACCCGGCCATGT-ATGAGT-GGGAATGC
1 ACATAAGCCAATGATGACCCAGCCATGTGAT-AGTAGGGAATGC
* * *
13147848 ACATAAGCCGATGATGACCCAGCCATGTGCTAGTAGGGAGTGC
1 ACATAAGCCAATGATGACCCAGCCATGTGATAGTAGGGAATGC
13147891 ACATAAGC
1 ACATAAGC
13147899 TGATGACGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 29 0.64
43 16 0.36
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (43 bp):
ACATAAGCCAATGATGACCCAGCCATGTGATAGTAGGGAATGC
Found at i:13148408 original size:19 final size:19
Alignment explanation
Indices: 13148372--13148408 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13148362 AGGTTTAGTG
*
13148372 AGAAACCCTCGGCCAGTTA
1 AGAAACCCTCGACCAGTTA
*
13148391 AGAAACCCTCGACTAGTT
1 AGAAACCCTCGACCAGTT
13148409 GAAAATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (19 bp):
AGAAACCCTCGACCAGTTA
Found at i:13151228 original size:42 final size:42
Alignment explanation
Indices: 13151173--13151303 Score: 154
Period size: 42 Copynumber: 3.1 Consensus size: 42
13151163 GTAATGATAT
* * * * * *
13151173 TGACCCGGCTATGTACGAGTAGGAGAGCGCAGAAACCGATGA
1 TGACCAGGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGA
* * *
13151215 TGACCAGGCTATGTGCGAGTGGGAGTGTGCATAAGTCGATGT
1 TGACCAGGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGA
** *
13151257 TGACTTGGCTATGTGCGACTAGGAGTGTGCATAAGCCGATGA
1 TGACCAGGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGA
13151299 TGACC
1 TGACC
13151304 CAACTATGTG
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.22
Consensus pattern (42 bp):
TGACCAGGCTATGTGCGAGTAGGAGTGTGCATAAGCCGATGA
Found at i:13153452 original size:80 final size:80
Alignment explanation
Indices: 13153384--13153532 Score: 176
Period size: 80 Copynumber: 1.9 Consensus size: 80
13153374 TAATATTTCC
* * *
13153384 ATAAATCACCAT-CATACTTAGCCCATAGAGTATATGATCAT-CTCAACACATACATCTCATGGC
1 ATAAATCA-CATACATACTTAGCCCATAGAGCACATAAT-ATGCTCAACACATACATCTCATGGC
* *
13153447 AAACATTTCATAGTCTA
64 AAACATATAATAGTCTA
* * * * *
13153464 ATAAATCACTTACATGCTTAGCCCATAGTGCACATAATATGCTTAACACATACATCTCATGGCAT
1 ATAAATCACATACATACTTAGCCCATAGAGCACATAATATGCTCAACACATACATCTCATGGCAA
13153529 ACAT
66 ACAT
13153533 GTTACAATCT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 4 0.07
80 55 0.93
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (80 bp):
ATAAATCACATACATACTTAGCCCATAGAGCACATAATATGCTCAACACATACATCTCATGGCAA
ACATATAATAGTCTA
Found at i:13165897 original size:42 final size:42
Alignment explanation
Indices: 13165808--13165940 Score: 162
Period size: 42 Copynumber: 3.1 Consensus size: 42
13165798 ACCATCCAAC
* * * * *
13165808 CATCATTAGCTCATGTGCACTCCCCACTCGCACATTGCTAGGT
1 CATCATAAGCTCATGTGCACTCCACAC-CACACATAGCTGGGT
13165851 CATCATAAGCTCATGTGCACTCCACACCACACATAGCTGGGT
1 CATCATAAGCTCATGTGCACTCCACACCACACATAGCTGGGT
* *
13165893 CATCATCAA-CTCATGTGCACTCCCACACGA-ACATAGTTGGGT
1 CATCAT-AAGCTCATGTGCACT-CCACACCACACATAGCTGGGT
13165935 CATCAT
1 CATCAT
13165941 TATCACATAA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
42 47 0.58
43 34 0.42
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (42 bp):
CATCATAAGCTCATGTGCACTCCACACCACACATAGCTGGGT
Found at i:13168107 original size:19 final size:19
Alignment explanation
Indices: 13168070--13168108 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13168060 CTATAAAATA
* *
13168070 TCTTGAATTTCTAGTAGCT
1 TCTTGAATTTCCAGCAGCT
13168089 TCTTGAATTTCCAGCAGCT
1 TCTTGAATTTCCAGCAGCT
13168108 T
1 T
13168109 GTCTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
TCTTGAATTTCCAGCAGCT
Found at i:13168944 original size:42 final size:42
Alignment explanation
Indices: 13168878--13168960 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
13168868 TGTTGATGTG
* *
13168878 GACCCGTCTATGTGTGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* **
13168920 GACCCGACTATGTGCGAGTGGGAGTGTGCATAAGCCGTTGC
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
13168961 ATATGAGATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.24
Consensus pattern (42 bp):
GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:13176017 original size:43 final size:42
Alignment explanation
Indices: 13175957--13176131 Score: 271
Period size: 42 Copynumber: 4.1 Consensus size: 42
13175947 ACCATCCCAC
* * *
13175957 CATCATCAGCTCATGTGCACTCCCCACTCGCACATAGTTGAGT
1 CATCATCAGCTCATGTGCACT-CCCACACGCACATAGCTGGGT
13176000 CATCATCAGCTCATGTGCACT-CCACACCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACA-CGCACATAGCTGGGT
13176042 CATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGGT
* * *
13176084 CATCATCAGCTCATGTACACTTCTACACGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGGT
13176126 CATCAT
1 CATCAT
13176132 TATCACATAA
Statistics
Matches: 124, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
41 4 0.03
42 94 0.76
43 26 0.21
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (42 bp):
CATCATCAGCTCATGTGCACTCCCACACGCACATAGCTGGGT
Found at i:13185659 original size:35 final size:35
Alignment explanation
Indices: 13185618--13185811 Score: 199
Period size: 35 Copynumber: 5.5 Consensus size: 35
13185608 ATTAGGTTGT
* * *
13185618 GCCTAATTAACTAAATTGCTTAATTAAGTCATTGG
1 GCCTAATTAATTAAATTGTTTAATTAAGTTATTGG
****
13185653 GCCTAATTAATTAAATTAAACAATTAAGTTATTGG
1 GCCTAATTAATTAAATTGTTTAATTAAGTTATTGG
* * * *
13185688 GCCTAATTGATTGAATTTGTTTAATTAAGTCATTAG
1 GCCTAATTAATT-AAATTGTTTAATTAAGTTATTGG
* * * *
13185724 GCCTAGTTGATTAAAATTGTTTAATTAAATTGTTGG
1 GCCTAATTAATT-AAATTGTTTAATTAAGTTATTGG
* *
13185760 GCTTAATTAATTAAATTATTTAATTAAGTTATTGG
1 GCCTAATTAATTAAATTGTTTAATTAAGTTATTGG
* *
13185795 GCTTAATTGATTAAATT
1 GCCTAATTAATTAAATT
13185812 AAACAATTAA
Statistics
Matches: 130, Mismatches: 28, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
35 76 0.58
36 54 0.42
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (35 bp):
GCCTAATTAATTAAATTGTTTAATTAAGTTATTGG
Found at i:13185715 original size:71 final size:70
Alignment explanation
Indices: 13185618--13185832 Score: 241
Period size: 71 Copynumber: 3.0 Consensus size: 70
13185608 ATTAGGTTGT
* ** *
13185618 GCCTAATTAACTAAATTGCTTAATTAAGTCATTGGGCCTAATTAATTAAATTAAACAATTAAGTT
1 GCCTAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTGATTAAATTAAACAATTAAGTT
13185683 ATTGG
66 ATTGG
* * * * * **** *
13185688 GCCTAATTGATTGAATTTGTTTAATTAAGTCATTAGGCCTAGTTGATTAAAATTGTTTAATTAAA
1 GCCTAATTAATT-AAATTATTTAATTAAGTCATTGGGCCTAATTGATT-AAATTAAACAATTAAG
*
13185753 TTGTTGG
64 TTATTGG
* * *
13185760 GCTTAATTAATTAAATTATTTAATTAAGTTATTGGGCTTAATTGATTAAATTAAACAATTAAGTT
1 GCCTAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTGATTAAATTAAACAATTAAGTT
13185825 AATTGG
66 -ATTGG
13185831 GC
1 GC
13185833 TTCTTAAGAA
Statistics
Matches: 115, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
70 23 0.20
71 65 0.57
72 27 0.23
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (70 bp):
GCCTAATTAATTAAATTATTTAATTAAGTCATTGGGCCTAATTGATTAAATTAAACAATTAAGTT
ATTGG
Found at i:13187426 original size:15 final size:13
Alignment explanation
Indices: 13187406--13187446 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
13187396 TCTCCTAAAG
13187406 CCTCACTTAATGAAC
1 CCTCACTT--TGAAC
13187421 CCTCAC-TTGAAC
1 CCTCACTTTGAAC
13187433 CCTCAC-TTGAAC
1 CCTCACTTTGAAC
13187445 CC
1 CC
13187447 CTTAATGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 19 0.73
14 1 0.04
15 6 0.23
ACGTcount: A:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (13 bp):
CCTCACTTTGAAC
Found at i:13187433 original size:12 final size:12
Alignment explanation
Indices: 13187416--13187446 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
13187406 CCTCACTTAA
13187416 TGAACCCTCACT
1 TGAACCCTCACT
13187428 TGAACCCTCACT
1 TGAACCCTCACT
13187440 TGAACCC
1 TGAACCC
13187447 CTTAATGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.10, T:0.23
Consensus pattern (12 bp):
TGAACCCTCACT
Found at i:13189885 original size:113 final size:112
Alignment explanation
Indices: 13189737--13189941 Score: 304
Period size: 113 Copynumber: 1.8 Consensus size: 112
13189727 TAATTCACCT
* * * * *
13189737 AATTTTAAAATAATTTTATTTTATCCATTTAATTAATCTCATTAATTAATACCAAAATAAAAATG
1 AATTTGAAAATAATTTTATTTTATACAATTAATTAATCTCACTAATTAATACCAAAAT-AAAATA
13189802 ATTTTCAATCCAAGGCTAAAA-TAAATTAGTTTCATTAATTTTAACCC
65 ATTTTCAATCCAAGGCTAAAATTAAATTAGTTTCATTAATTTTAACCC
* * * *
13189849 AATTTGAAAATAAATTTTATTTTGTACAATTAATTAATCTTACTAATTAATACTAAAATCAAATA
1 AATTTGAAAAT-AATTTTATTTTATACAATTAATTAATCTCACTAATTAATACCAAAATAAAATA
13189914 ATTTTCAATCCAAGGCTAAAATTAAATT
65 ATTTTCAATCCAAGGCTAAAATTAAATT
13189942 TCCAAAATAA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
112 35 0.43
113 47 0.57
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (112 bp):
AATTTGAAAATAATTTTATTTTATACAATTAATTAATCTCACTAATTAATACCAAAATAAAATAA
TTTTCAATCCAAGGCTAAAATTAAATTAGTTTCATTAATTTTAACCC
Found at i:13189965 original size:15 final size:15
Alignment explanation
Indices: 13189945--13189978 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13189935 TTAAATTTCC
13189945 AAAATAAAATTTTA-A
1 AAAAT-AAATTTTAGA
13189960 AAAATAAATTTTAGA
1 AAAATAAATTTTAGA
13189975 AAAA
1 AAAA
13189979 AATTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAATAAATTTTAGA
Found at i:13194579 original size:32 final size:33
Alignment explanation
Indices: 13194497--13194583 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
13194487 AACCGTGGGA
* * *
13194497 GAGGAAGAGAAAAGAGAACGGTTTTGCTGCACTTT
1 GAGGAAG-GAAAA-AGAAAGCTTTTGCTGCAATTT
13194532 GAGGAAGGAAAAAGAAAGCTTTTGCTGCAATTT
1 GAGGAAGGAAAAAGAAAGCTTTTGCTGCAATTT
** *
13194565 TTGG-AGGAAGAAGAAAGCT
1 GAGGAAGGAAAAAGAAAGCT
13194584 GAAAATTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 14 0.30
33 20 0.43
34 5 0.11
35 7 0.15
ACGTcount: A:0.38, C:0.09, G:0.31, T:0.22
Consensus pattern (33 bp):
GAGGAAGGAAAAAGAAAGCTTTTGCTGCAATTT
Found at i:13194911 original size:35 final size:35
Alignment explanation
Indices: 13194835--13194968 Score: 182
Period size: 35 Copynumber: 3.8 Consensus size: 35
13194825 AGAAAAATTA
* *
13194835 CAGAAAAATTGGAGCTGCTTCCTGCCAA-TTTGTG
1 CAGAAAAATTGGAGCTGTTTGCTGCCAATTTTGTG
*
13194869 CCGAAAAATTGGAGCTGTTTGCTGCCAATTTTGTG
1 CAGAAAAATTGGAGCTGTTTGCTGCCAATTTTGTG
* *
13194904 CAAAAAAATTGGAGCTGTTTGCTACCAATTTTGTG
1 CAGAAAAATTGGAGCTGTTTGCTGCCAATTTTGTG
13194939 CAGAAAAATTGGACAGCT-TTGTGCTGCCAA
1 CAGAAAAATTGG--AGCTGTT-TGCTGCCAA
13194969 AATTGAGGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
34 25 0.28
35 49 0.56
36 2 0.02
37 12 0.14
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (35 bp):
CAGAAAAATTGGAGCTGTTTGCTGCCAATTTTGTG
Found at i:13195200 original size:16 final size:17
Alignment explanation
Indices: 13195179--13195216 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
13195169 CATGGAAGAG
13195179 AGAAAAAG-AAAGAAAA
1 AGAAAAAGAAAAGAAAA
*
13195195 AG-AAAAGAAAAGAAAT
1 AGAAAAAGAAAAGAAAA
13195211 AGAAAA
1 AGAAAA
13195217 TAAGTGGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 11 0.58
17 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AGAAAAAGAAAAGAAAA
Found at i:13195269 original size:25 final size:25
Alignment explanation
Indices: 13195208--13195266 Score: 100
Period size: 25 Copynumber: 2.3 Consensus size: 25
13195198 AAAGAAAAGA
13195208 AATAGAAAATAAGTGGGCATGACCC
1 AATAGAAAATAAGTGGGCATGACCC
*
13195233 AATAGAAAATAAGTGGGCATGGCCC
1 AATAGAAAATAAGTGGGCATGACCC
13195258 AATAAGAAA
1 AAT-AGAAA
13195267 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 27 0.84
26 5 0.16
ACGTcount: A:0.47, C:0.14, G:0.24, T:0.15
Consensus pattern (25 bp):
AATAGAAAATAAGTGGGCATGACCC
Found at i:13244605 original size:116 final size:116
Alignment explanation
Indices: 13244401--13244621 Score: 388
Period size: 116 Copynumber: 1.9 Consensus size: 116
13244391 GTCGGGTGTT
* *
13244401 ACACGTGGCATCATGTCATTGGCCCGTTTTTAATTTCTTAACTATTAAACTTTCTCTCTCCATCT
1 ACACGTGGCATCATGTCATTGGCCCGTTTTTAATTTCTTAACTATTAAACTTTCTCTCTCCACCA
* *
13244466 TTTAAATTCCTTCAATTATCCATGATAATATTGGATAAAAATAAAGACATG
66 CTTAAATTCCTTCAATTATCCATGATAATATTGAATAAAAATAAAGACATG
* *
13244517 ACACGTGGCATCATGTCATTGGCCCGTTTTTAATTTCTTGACTATTAAGCTTTCTCTCTCCACCA
1 ACACGTGGCATCATGTCATTGGCCCGTTTTTAATTTCTTAACTATTAAACTTTCTCTCTCCACCA
13244582 CTTAAATTCCTTCAATTATCCATGATAATATTGAATAAAA
66 CTTAAATTCCTTCAATTATCCATGATAATATTGAATAAAA
13244622 TCCATGTGCT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 99 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (116 bp):
ACACGTGGCATCATGTCATTGGCCCGTTTTTAATTTCTTAACTATTAAACTTTCTCTCTCCACCA
CTTAAATTCCTTCAATTATCCATGATAATATTGAATAAAAATAAAGACATG
Found at i:13247379 original size:19 final size:19
Alignment explanation
Indices: 13247355--13247392 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13247345 ACTTATCAAC
*
13247355 CTCAAATGATACTCCAATA
1 CTCAAATCATACTCCAATA
13247374 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13247393 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13258740 original size:21 final size:21
Alignment explanation
Indices: 13258716--13258757 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13258706 GTTCATGTAA
* *
13258716 TTCATGATAAAGACTGATGCC
1 TTCATGACAAAGAATGATGCC
13258737 TTCATGACAAAGAATGATGCC
1 TTCATGACAAAGAATGATGCC
13258758 ATTATTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (21 bp):
TTCATGACAAAGAATGATGCC
Found at i:13260348 original size:20 final size:20
Alignment explanation
Indices: 13260320--13260358 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13260310 ATTGAGCTAA
13260320 ATGTACATG-GTAAAAAAGTG
1 ATGTACATGTG-AAAAAAGTG
*
13260340 ATGTTCATGTGAAAAAAGT
1 ATGTACATGTGAAAAAAGT
13260359 TCAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (20 bp):
ATGTACATGTGAAAAAAGTG
Found at i:13264527 original size:28 final size:29
Alignment explanation
Indices: 13264486--13264545 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
13264476 GTCTATGGGC
*
13264486 AATTTTTCAATTTT-TGGGGTAAAAATGT
1 AATTTTTCAATTTTAGGGGGTAAAAATGT
* *
13264514 AATTTTTCACTTTTACGGGGGTAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGTAAAAATGT
13264544 AA
1 AA
13264546 ATTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
30 14 0.52
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGTAAAAATGT
Found at i:13270259 original size:140 final size:139
Alignment explanation
Indices: 13270007--13270285 Score: 513
Period size: 140 Copynumber: 2.0 Consensus size: 139
13269997 TTTGAACATA
13270007 CCAAGTCATTCACTTTTGCATGAAAATTAATTTGGTCATATAAGAATTACTAGCTCCTTTATGAT
1 CCAAGTCATTCACTTTTGCATGAAAATTAATTTGGTCATATAAGAATTACTAGCTCCTTTATGAT
* * *
13270072 TCCCAATCAAAAGGATCTAAGTATCTTCATACTCTAATTCTTACTTCAATGACCAAGACAAAAAT
66 TCCCAATCAAAAAGATCTAAGCATCTTCATACTCTAATTCTTACTTCAATGAACAAGACAAAAAT
13270137 GCCATAATT
131 GCCATAATT
*
13270146 NCCAAGTCATTCACTTTTGCATGAAAATTGATTTGGTCATATAAGAATTACTAGCTCCTTTATGA
1 -CCAAGTCATTCACTTTTGCATGAAAATTAATTTGGTCATATAAGAATTACTAGCTCCTTTATGA
13270211 TTCCCAATCAAAAAGATCTAAGCATCTTCATACTCTAATTCTTACTTCAATGAACAAGACAAAAA
65 TTCCCAATCAAAAAGATCTAAGCATCTTCATACTCTAATTCTTACTTCAATGAACAAGACAAAAA
13270276 TGCCATAATT
130 TGCCATAATT
13270286 GAGATCATAT
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.33
Consensus pattern (139 bp):
CCAAGTCATTCACTTTTGCATGAAAATTAATTTGGTCATATAAGAATTACTAGCTCCTTTATGAT
TCCCAATCAAAAAGATCTAAGCATCTTCATACTCTAATTCTTACTTCAATGAACAAGACAAAAAT
GCCATAATT
Found at i:13271457 original size:58 final size:58
Alignment explanation
Indices: 13271367--13271478 Score: 179
Period size: 58 Copynumber: 1.9 Consensus size: 58
13271357 CATCTTTGTA
* * * *
13271367 TGCATGGCATTTATTAAATCGCATAAAATAAATCTATCACCTGCATACTACTTTGCAT
1 TGCATAGCATTTATTAAATCGCACAAAATAAATCTATCACATGCAAACTACTTTGCAT
*
13271425 TGCATAGCATTTATTAAATTGCACAAAATAAATCTATCACATGCAAACTACTTT
1 TGCATAGCATTTATTAAATCGCACAAAATAAATCTATCACATGCAAACTACTTT
13271479 TGGATGATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (58 bp):
TGCATAGCATTTATTAAATCGCACAAAATAAATCTATCACATGCAAACTACTTTGCAT
Found at i:13310234 original size:13 final size:13
Alignment explanation
Indices: 13310216--13310240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13310206 TTCCAGAATA
13310216 TTTATAAAATCAT
1 TTTATAAAATCAT
13310229 TTTATAAAATCA
1 TTTATAAAATCA
13310241 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13311498 original size:19 final size:20
Alignment explanation
Indices: 13311474--13311518 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
13311464 CTTCTAAACC
13311474 TCAAATCATACTCCAATAA-
1 TCAAATCATACTCCAATAAG
13311493 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
13311513 TCAAAT
1 TCAAAT
13311519 GGAGCCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:13316696 original size:29 final size:29
Alignment explanation
Indices: 13316654--13316713 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
13316644 GTAAGTGCAC
13316654 TATGTTAAGTGAGCTTGTTATGCCATATA
1 TATGTTAAGTGAGCTTGTTATGCCATATA
13316683 TATGTTAAGTGAGCTTGTTATGCCATATA
1 TATGTTAAGTGAGCTTGTTATGCCATATA
13316712 TA
1 TA
13316714 AATGGAGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (29 bp):
TATGTTAAGTGAGCTTGTTATGCCATATA
Found at i:13330392 original size:73 final size:73
Alignment explanation
Indices: 13330258--13330434 Score: 175
Period size: 73 Copynumber: 2.4 Consensus size: 73
13330248 GCAGAATGCT
* * * **
13330258 CTTAGT-AGACTAACTTA-TGTCTTTGTCGACTAAGTTGTCTCTGTTTTCTATTTCCAGTTTCTG
1 CTTAGTCA-ACTAACTTACT-TCTTGGTCGACTAAGTTGTCTCTGTCTTCGAAGTCCAGTTTCTG
* *
13330321 GCAGTGAGC-A
64 GCAAT-AACTA
13330331 CTTAGTCAACTAACTTACTTCTTGGTCGACTAAGTTGGT-TCTGTCTT-GAAGTCCAGATTTCTG
1 CTTAGTCAACTAACTTACTTCTTGGTCGACTAAGTT-GTCTCTGTCTTCGAAGTCCAG-TTTCTG
*
13330394 GCAATAACTT
64 GCAATAACTA
* **
13330404 CTTAGTCGACTAACCCACTTCTTGGTCGACT
1 CTTAGTCAACTAACTTACTTCTTGGTCGACT
13330435 TCTTGGTTCT
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
72 8 0.09
73 76 0.86
74 4 0.05
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (73 bp):
CTTAGTCAACTAACTTACTTCTTGGTCGACTAAGTTGTCTCTGTCTTCGAAGTCCAGTTTCTGGC
AATAACTA
Found at i:13341893 original size:38 final size:40
Alignment explanation
Indices: 13341851--13341950 Score: 143
Period size: 38 Copynumber: 2.5 Consensus size: 40
13341841 AAAGTGCCCG
*
13341851 TGTGCACGATGTGGGGGGATGCACACAATG-C-CACTAAT-
1 TGTGCACGATGTGGGGGGATGCACACAATGACTC-CGAATA
* *
13341889 TGTGCACGATGTGGGGGGATACACACAATGACTCCGATTA
1 TGTGCACGATGTGGGGGGATGCACACAATGACTCCGAATA
13341929 TGTGCACGATGTGGGGGGATGC
1 TGTGCACGATGTGGGGGGATGC
13341951 GCATGAGCTG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
38 29 0.53
39 4 0.07
40 22 0.40
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACAATGACTCCGAATA
Found at i:13351207 original size:78 final size:77
Alignment explanation
Indices: 13351076--13351241 Score: 260
Period size: 78 Copynumber: 2.1 Consensus size: 77
13351066 TGAATTTCCC
*
13351076 AAATTAAAATACTATCCTTAATTTTAGGAATTCCTTTTAAAGTAGGAATCAATTTCCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTCCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
*
13351141 TATGAATCACTCA
66 T-TGAATCACCCA
* * * *
13351154 AAATTAAAATTCTATCTTTAATTTTCGGAATTGCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTCCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
13351219 TTGAATCACCCA
66 TTGAATCACCCA
*
13351231 AAATTGAAATA
1 AAATTAAAATA
13351242 GATGGTATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
77 19 0.24
78 61 0.76
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (77 bp):
AAATTAAAATACTATCCTTAATTTTAGGAATTCCTTTTAAAGTAGGAAACAATTTCCTATTTTTT
TTGAATCACCCA
Found at i:13356679 original size:37 final size:37
Alignment explanation
Indices: 13356638--13356747 Score: 103
Period size: 37 Copynumber: 3.0 Consensus size: 37
13356628 ATAATGTTGT
* **
13356638 ATGATGATAATGAGGTGTGCGAGTAGGGAGTGCACAC
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
* * * *
13356675 ATGATGACATTGAAATGTGTGAGTAAGGAGTGCACAT
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
* * *** *
13356712 ATGGTGGTATTGCCTTGTGCGTGTAGGGAGTGCACA
1 ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACA
13356748 AGAGCTGAGG
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.27, C:0.11, G:0.35, T:0.26
Consensus pattern (37 bp):
ATGATGATATTGAAATGTGCGAGTAGGGAGTGCACAC
Found at i:13360623 original size:28 final size:27
Alignment explanation
Indices: 13360584--13360637 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
13360574 ATGTCCTGGT
13360584 GGTGGAAAATTA-CAATTTTACCCCTAG
1 GGTGGAAAATTATC-ATTTTACCCCTAG
13360611 GGTGGTAAAATTATCATTTTACCCCTA
1 GGTGG-AAAATTATCATTTTACCCCTA
13360638 TACTCCAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 5 0.20
28 19 0.76
29 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTATCATTTTACCCCTAG
Found at i:13364952 original size:15 final size:15
Alignment explanation
Indices: 13364932--13364978 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
13364922 TAAAACAACC
13364932 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
13364947 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
* *
13364962 TTAAAACCAAAATCT
1 TTAAAATCAAAAACT
13364977 TT
1 TT
13364979 GATCTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:13366373 original size:13 final size:13
Alignment explanation
Indices: 13366355--13366379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13366345 TTTCAGAAAA
13366355 TTTATAAAATCAT
1 TTTATAAAATCAT
13366368 TTTATAAAATCA
1 TTTATAAAATCA
13366380 CAATTTTTAC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13373124 original size:20 final size:20
Alignment explanation
Indices: 13373099--13373144 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
13373089 TTTTGACCCG
13373099 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
13373119 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
13373139 ATTTGA
1 ATTTGA
13373145 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:13373222 original size:28 final size:28
Alignment explanation
Indices: 13373191--13373247 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
13373181 TGGAGTAAAA
13373191 GGGTAAAGA-GGTAATTTTGCCACC-CCAG
1 GGGTAAA-ATGGTAATTTT-CCACCACCAG
*
13373219 GGGTAAAATTGTAATTTTCCACCACCAG
1 GGGTAAAATGGTAATTTTCCACCACCAG
13373247 G
1 G
13373248 ATATTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (28 bp):
GGGTAAAATGGTAATTTTCCACCACCAG
Found at i:13381353 original size:20 final size:20
Alignment explanation
Indices: 13381328--13381373 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
13381318 TTTTGACCCC
13381328 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
13381348 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
13381368 ATTTGA
1 ATTTGA
13381374 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:13388290 original size:21 final size:20
Alignment explanation
Indices: 13388266--13388312 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
13388256 TCTTACCCTT
*
13388266 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
13388287 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
13388308 TTTTT
1 TTTTT
13388313 TCACCTAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.21, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:13388312 original size:22 final size:22
Alignment explanation
Indices: 13388271--13388311 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13388261 CCCTTTTTTT
*
13388271 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
13388293 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
13388312 TTCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:13388591 original size:28 final size:28
Alignment explanation
Indices: 13388532--13388591 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
13388522 AATATTGGGT
* * * *
13388532 AAAATTACAATTTTGCCCTTAAGGTGGC
1 AAAATGACAATTTTGCCCTTAAGCTCGA
* *
13388560 AAAATGACTATTTTGCCCTTACGCTCGA
1 AAAATGACAATTTTGCCCTTAAGCTCGA
13388588 AAAA
1 AAAA
13388592 ATACCGGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (28 bp):
AAAATGACAATTTTGCCCTTAAGCTCGA
Found at i:13388971 original size:40 final size:40
Alignment explanation
Indices: 13388913--13388991 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
13388903 ATATGAAAAA
* *
13388913 CACCAATCGTGGCGAGGTTGAAAACTCCACTAAGGTGAAT
1 CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAAT
* *
13388953 CACCAATCTTGGCAAGGTTGAAAACCCCATTAAGGTGAA
1 CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAA
13388992 AAATAGCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (40 bp):
CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:13394610 original size:40 final size:40
Alignment explanation
Indices: 13394552--13394630 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
13394542 TTATGAAAAA
* *
13394552 CACCAATCGTGGCGAGGTTGAAAACCCCATTAAGGTGAAT
1 CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAAT
*
13394592 CACCAATCTTGGCAAGGTTGAAAACCCCACTAAGGTGAA
1 CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAA
13394631 AAATAGCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (40 bp):
CACCAATCGTGGCAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:13394974 original size:29 final size:30
Alignment explanation
Indices: 13394936--13394992 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
13394926 TTAAAAGTAT
13394936 TAAACTAAAA-ATAAGAAAAGAATCATAATC
1 TAAACTAAAATA-AAGAAAAGAATCATAATC
*
13394966 TAAA-TAAAATAAAGAAAATAATCATAA
1 TAAACTAAAATAAAGAAAAGAATCATAA
13394993 ATCAACTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (30 bp):
TAAACTAAAATAAAGAAAAGAATCATAATC
Found at i:13395002 original size:29 final size:29
Alignment explanation
Indices: 13394938--13395002 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
13394928 AAAAGTATTA
13394938 AACTAAAAATAAGAAAAGAATCATAATCT
1 AACTAAAAATAAGAAAAGAATCATAATCT
* *
13394967 AAAT-AAAATAAAGAAAATAATCATAAATC-
1 AACTAAAAAT-AAGAAAAGAATCAT-AATCT
13394996 AACTAAA
1 AACTAAA
13395003 TTAGCAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.17
29 19 0.63
30 6 0.20
ACGTcount: A:0.66, C:0.09, G:0.05, T:0.20
Consensus pattern (29 bp):
AACTAAAAATAAGAAAAGAATCATAATCT
Found at i:13401432 original size:21 final size:20
Alignment explanation
Indices: 13401408--13401455 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
13401398 TCTTACCCTT
*
13401408 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
13401429 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
*
13401450 TATTTC
1 TTTTTC
13401456 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.17, C:0.23, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:13401438 original size:22 final size:22
Alignment explanation
Indices: 13401413--13401455 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
13401403 CCCTTTTTTT
*
13401413 CACTTGTTTCCTTGAAT-TTTCA
1 CACTT-TTCCCTTGAATATTTCA
13401435 CACTTTTCCCTTGAATATTTC
1 CACTTTTCCCTTGAATATTTC
13401456 CACCTAGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.19, C:0.26, G:0.07, T:0.49
Consensus pattern (22 bp):
CACTTTTCCCTTGAATATTTCA
Found at i:13409900 original size:4 final size:4
Alignment explanation
Indices: 13409893--13409955 Score: 51
Period size: 4 Copynumber: 16.2 Consensus size: 4
13409883 GAATCAGCTT
* * * *
13409893 GAAA GAAA GAAAA AAAA GAAA GAAA GAAA GGAA GACA -AAA GGAA G-AA
1 GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
13409940 GAAA G-GA GAAA GAAA G
1 GAAA GAAA GAAA GAAA G
13409956 GTTCGACCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
3 7 0.15
4 36 0.78
5 3 0.07
ACGTcount: A:0.70, C:0.02, G:0.29, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:13409944 original size:11 final size:11
Alignment explanation
Indices: 13409895--13409956 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
13409885 ATCAGCTTGA
13409895 AAGAAA-GAA-
1 AAGAAAGGAAG
* *
13409904 AAAAAAGAAAG
1 AAGAAAGGAAG
13409915 AAAGAAAGGAAG
1 -AAGAAAGGAAG
13409927 ACA-AAAGGAAG
1 A-AGAAAGGAAG
13409938 AAGAAAGG-AG
1 AAGAAAGGAAG
13409948 AAAGAAAGG
1 -AAGAAAGG
13409957 TTCGACCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 5 0.12
10 5 0.12
11 23 0.53
12 10 0.23
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (11 bp):
AAGAAAGGAAG
Found at i:13425192 original size:43 final size:43
Alignment explanation
Indices: 13425061--13425192 Score: 137
Period size: 43 Copynumber: 3.1 Consensus size: 43
13425051 ATAATGCAAT
* *
13425061 ATCATCA--TCATGTGCACTCCC-TACTCGCACATAGC-CGAGTC
1 ATCATCAGCTCATGTGCACTCCCACACT-GCACATAGCTGGA-TC
* ** * * *
13425102 ATCATCAGCTCATGTGCACTCTCACACCACACATAGTTGGGTT
1 ATCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGGATC
*
13425145 ATCATCAGCTCATGTGCACTCCCACACTGTACATAGCTGGATC
1 ATCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGGATC
13425188 ATCAT
1 ATCAT
13425193 TATCACACAA
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
41 7 0.10
43 62 0.86
44 3 0.04
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (43 bp):
ATCATCAGCTCATGTGCACTCCCACACTGCACATAGCTGGATC
Found at i:13438462 original size:7 final size:7
Alignment explanation
Indices: 13438450--13438497 Score: 73
Period size: 7 Copynumber: 7.0 Consensus size: 7
13438440 AATAGGAGAG
13438450 AGAAGAA
1 AGAAGAA
13438457 AGAAGAA
1 AGAAGAA
13438464 AGAAGAA
1 AGAAGAA
13438471 AGAAGAA
1 AGAAGAA
13438478 AG-AGAA
1 AGAAGAA
13438484 A-AAGAA
1 AGAAGAA
13438490 AGAGAGAA
1 AGA-AGAA
13438498 GGGGAGCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 10 0.26
7 24 0.63
8 4 0.11
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
AGAAGAA
Found at i:13438589 original size:7 final size:7
Alignment explanation
Indices: 13438579--13438612 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
13438569 AAGAGGAGAG
13438579 AGAAGAA
1 AGAAGAA
13438586 AGAAGAA
1 AGAAGAA
13438593 AGAAGAA
1 AGAAGAA
13438600 AGAAGAA
1 AGAAGAA
13438607 A-AAGAA
1 AGAAGAA
13438613 GTAGAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AGAAGAA
Found at i:13438610 original size:23 final size:23
Alignment explanation
Indices: 13438561--13438613 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
13438551 CGGTGGTGCC
* * *
13438561 AAAGGAGAAAGAGGAGAGAGAAG
1 AAAGAAGAAAGAAGAAAGAGAAG
13438584 AAAGAAGAAAGAAGAAAGAAGAA-
1 AAAGAAGAAAGAAGAAAG-AGAAG
13438607 AAAGAAG
1 AAAGAAG
13438614 TAGAAAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (23 bp):
AAAGAAGAAAGAAGAAAGAGAAG
Found at i:13439400 original size:60 final size:60
Alignment explanation
Indices: 13439307--13439488 Score: 258
Period size: 60 Copynumber: 3.0 Consensus size: 60
13439297 ATATTTGATT
* * * * *
13439307 GTAAAAGGGGACCTAAAGCCCCGATTCATATTGGGTGGCATAGGTAGTTCCCACGAGTAG
1 GTAAAGGGGGACCTGAAGCCCCGATTTATATTGGGTGGCGTGGGTAGTTCCCACGAGTAG
* *
13439367 GTAAAGGGGGACTTGAAGCCCCGATTTATATTGGGTGGCGTGGGTAGTTCCCATGAGTAG
1 GTAAAGGGGGACCTGAAGCCCCGATTTATATTGGGTGGCGTGGGTAGTTCCCACGAGTAG
* * *
13439427 GTAAAGGGTGACCTGAAGCCCCGATTTATATAT-GATGGCGTGGGCAGTTCCCACGAGTAG
1 GTAAAGGGGGACCTGAAGCCCCGATTTATAT-TGGGTGGCGTGGGTAGTTCCCACGAGTAG
13439487 GT
1 GT
13439489 GATGATGTTT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
60 108 0.99
61 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (60 bp):
GTAAAGGGGGACCTGAAGCCCCGATTTATATTGGGTGGCGTGGGTAGTTCCCACGAGTAG
Found at i:13441085 original size:28 final size:29
Alignment explanation
Indices: 13441044--13441103 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
13441034 GTCTATGGGC
*
13441044 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
13441072 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
13441102 AA
1 AA
13441104 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:13451330 original size:28 final size:28
Alignment explanation
Indices: 13451286--13451378 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
13451276 TAACTTACCA
* * *
13451286 TTGGGCCTTTTTAATTTCTTTCTAACCT
1 TTGGGCCTTTTTCATTTCTTTATGACCT
13451314 TTGGGCCTTTTTCATTTCTTTATGACCT
1 TTGGGCCTTTTTCATTTCTTTATGACCT
* *
13451342 TTGGGCCTTTTTCATTTCTTTGTGACTT
1 TTGGGCCTTTTTCATTTCTTTATGACCT
13451370 TTGGGCCTT
1 TTGGGCCTT
13451379 CTCCATGGGC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.10, C:0.20, G:0.16, T:0.54
Consensus pattern (28 bp):
TTGGGCCTTTTTCATTTCTTTATGACCT
Found at i:13451457 original size:25 final size:25
Alignment explanation
Indices: 13451425--13451488 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
13451415 GCCCATTTAT
*
13451425 TTTAATTTCTTATTGAGCCATGCCCA
1 TTTATTTTC-TATTGAGCCATGCCCA
* *
13451451 TTTATTTTCTATTGGGTCATGCCCA
1 TTTATTTTCTATTGAGCCATGCCCA
13451476 TTTATTTTCTATT
1 TTTATTTTCTATT
13451489 TCTTTTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 27 0.77
26 8 0.23
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.52
Consensus pattern (25 bp):
TTTATTTTCTATTGAGCCATGCCCA
Found at i:13451787 original size:34 final size:34
Alignment explanation
Indices: 13451749--13451829 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
13451739 TACTAGCAAC
* *
13451749 CAGCTCCAATTTTTTTGCACAAATTGGCAACAAA
1 CAGCTCAAATTTTTCTGCACAAATTGGCAACAAA
*
13451783 CAGCTCAAATTTTTCTGCACAAATTGGCAGCAAA
1 CAGCTCAAATTTTTCTGCACAAATTGGCAACAAA
*
13451817 CAGCTTAAATTTT
1 CAGCTCAAATTTT
13451830 CAGTAGCCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (34 bp):
CAGCTCAAATTTTTCTGCACAAATTGGCAACAAA
Found at i:13458840 original size:25 final size:25
Alignment explanation
Indices: 13458812--13458873 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
13458802 CCATTTATTT
*
13458812 TTATTTCCTATTAGGCCATGCCCAC
1 TTATTTTCTATTAGGCCATGCCCAC
* * * *
13458837 TTATTTTCTGTTGGGTCATGCCCAT
1 TTATTTTCTATTAGGCCATGCCCAC
13458862 TTATTTTCTATT
1 TTATTTTCTATT
13458874 TCTTTTTCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.16, C:0.23, G:0.13, T:0.48
Consensus pattern (25 bp):
TTATTTTCTATTAGGCCATGCCCAC
Found at i:13458881 original size:6 final size:6
Alignment explanation
Indices: 13458865--13458934 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
13458855 TGCCCATTTA
* * * *
13458865 TTTTCT ATTTCT TTTTCT TTTTCT TTTTCT TTCTT-T TTTTCT CTTCCAC
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TT-TTCT TTTTCT TTTTC-T
*
13458914 GTTTCT TTTTC- TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTT
13458935 TTTCTTTCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
5 7 0.14
6 39 0.76
7 5 0.10
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTCT
Found at i:13458882 original size:12 final size:11
Alignment explanation
Indices: 13458865--13458934 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 11
13458855 TGCCCATTTA
13458865 TTTTCTATTTCT
1 TTTTCT-TTTCT
13458877 TTTTCTTTTTCT
1 TTTTC-TTTTCT
13458889 TTTTC-TTTCT
1 TTTTCTTTTCT
*
13458899 TTTT-TTCTCT
1 TTTTCTTTTCT
*** *
13458909 TCCACGTTTCT
1 TTTTCTTTTCT
13458920 TTTTCTTTTCT
1 TTTTCTTTTCT
13458931 TTTT
1 TTTT
13458935 TTTCTTTCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
10 14 0.31
11 15 0.33
12 15 0.33
13 1 0.02
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:13459163 original size:34 final size:34
Alignment explanation
Indices: 13459142--13459247 Score: 169
Period size: 34 Copynumber: 3.1 Consensus size: 34
13459132 TAGCTCCAAT
*
13459142 TTTTCTGTACAAATTGGCAGCAAACAGCTCAAACT
1 TTTTCTGCACAAATTGGCAGCAAACAGCTCAAA-T
*
13459177 CTTT-TGCACAAATTGGCAGCAAACAGCTCAAAT
1 TTTTCTGCACAAATTGGCAGCAAACAGCTCAAAT
*
13459210 TTTTCTGCACCAATTGGCAGCAAACAGCTCAAAT
1 TTTTCTGCACAAATTGGCAGCAAACAGCTCAAAT
13459244 TTTT
1 TTTT
13459248 AGCAGCCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
33 4 0.06
34 59 0.89
35 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (34 bp):
TTTTCTGCACAAATTGGCAGCAAACAGCTCAAAT
Found at i:13459188 original size:68 final size:68
Alignment explanation
Indices: 13459113--13459242 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
13459103 CCAATTTTCC
* *
13459113 TGCACAAACTACCAGC-AACTAGCTCCAATTTTTCTGTACAAATTGGCAGCAAACAGCTCAAACT
1 TGCACAAACTACCAGCAAAC-AGCTCAAATTTTTCTGCACAAATTGGCAGCAAACAGCTCAAACT
13459177 CTTT
65 CTTT
* ** *
13459181 TGCACAAATTGGCAGCAAACAGCTCAAATTTTTCTGCACCAATTGGCAGCAAACAGCTCAAA
1 TGCACAAACTACCAGCAAACAGCTCAAATTTTTCTGCACAAATTGGCAGCAAACAGCTCAAA
13459243 TTTTTAGCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 52 0.95
69 3 0.05
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (68 bp):
TGCACAAACTACCAGCAAACAGCTCAAATTTTTCTGCACAAATTGGCAGCAAACAGCTCAAACTC
TTT
Found at i:13459450 original size:25 final size:25
Alignment explanation
Indices: 13459403--13459450 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
13459393 AAAAATCAGC
* *
13459403 TTTCTTACCTCAAAATTTTTAGCTT
1 TTTCTTACCTCAAAAATTGTAGCTT
13459428 TTTCTT-CCTCTAAAAATTGTAGC
1 TTTCTTACCTC-AAAAATTGTAGC
13459451 AAAAAGCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.48
Consensus pattern (25 bp):
TTTCTTACCTCAAAAATTGTAGCTT
Found at i:13460270 original size:20 final size:20
Alignment explanation
Indices: 13460229--13460271 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13460219 TTAATATTTT
*
13460229 AATATTATTCTATTGAATAA
1 AATATTATTCTATTCAATAA
*
13460249 AATATTATTTTATTTCAA-AA
1 AATATTATTCTA-TTCAATAA
13460269 AAT
1 AAT
13460272 TTCACTTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (20 bp):
AATATTATTCTATTCAATAA
Found at i:13466848 original size:55 final size:55
Alignment explanation
Indices: 13466752--13466937 Score: 178
Period size: 55 Copynumber: 3.4 Consensus size: 55
13466742 TTAAGAGTTA
* * * * * *
13466752 TTTTAGCATGTCACAG-CTGTTCCTGGTGTGTTGTGGGTTAACTAGCTTTTTAGGT
1 TTTTAGCGTGTCA-AGACTATTCCTGGCGTGTCGTGGGTTAACTAGATTTTTGGGT
* * * * * * *
13466807 TGTTAGCGTGTCAAGGCTATTCTTGGGGTGTGGTGGATTAACT-GAATTTATGGGT
1 TTTTAGCGTGTCAAGACTATTCCTGGCGTGTCGTGGGTTAACTAG-ATTTTTGGGT
* * * *
13466862 TTTTGGCGTGTCACGACTGTTCCTGGCGTGTCGTGGGTTAACTAGTTTTTTGGGT
1 TTTTAGCGTGTCAAGACTATTCCTGGCGTGTCGTGGGTTAACTAGATTTTTGGGT
*
13466917 TTTTAGCGTGTCACGACTATT
1 TTTTAGCGTGTCAAGACTATT
13466938 GGTGTAACCA
Statistics
Matches: 105, Mismatches: 23, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
54 3 0.03
55 101 0.96
56 1 0.01
ACGTcount: A:0.15, C:0.14, G:0.30, T:0.41
Consensus pattern (55 bp):
TTTTAGCGTGTCAAGACTATTCCTGGCGTGTCGTGGGTTAACTAGATTTTTGGGT
Found at i:13467022 original size:23 final size:23
Alignment explanation
Indices: 13466966--13467052 Score: 102
Period size: 23 Copynumber: 3.7 Consensus size: 23
13466956 TTATAGTGAT
*
13466966 TGGCATGTCACGACAGTGATACAGCA
1 TGGCGTGTCACGACAGTGAT---GCA
*
13466992 TGGCGTGTCACGACAGTGATGCG
1 TGGCGTGTCACGACAGTGATGCA
* * *
13467015 TGGCGTGTAACGATACTGATGCA
1 TGGCGTGTCACGACAGTGATGCA
13467038 TGGCGTGTCACGACA
1 TGGCGTGTCACGACA
13467053 TTTGACTTGA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 34 0.64
26 19 0.36
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (23 bp):
TGGCGTGTCACGACAGTGATGCA
Found at i:13467068 original size:31 final size:31
Alignment explanation
Indices: 13467033--13467114 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 31
13467023 AACGATACTG
*
13467033 ATGCATGGCGTGTCACGACATTTGAC-TTGAT
1 ATGCATGGCGTGTCACAACATTTGACGTT-AT
* *
13467064 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTCACAACATTTGACGTTAT
*
13467095 ATGCATGGCGTGTAACAACA
1 ATGCATGGCGTGTCACAACA
13467115 CGACTGACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 44 0.96
32 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTGACGTTAT
Found at i:13470655 original size:19 final size:19
Alignment explanation
Indices: 13470631--13470668 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13470621 ACTTCTAAAC
13470631 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13470650 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13470669 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13472722 original size:15 final size:15
Alignment explanation
Indices: 13472702--13472746 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
13472692 TTTTAAAACC
13472702 ACTTTAAAACCAAAA
1 ACTTTAAAACCAAAA
13472717 ACTTTAAAATCC-AAA
1 ACTTTAAAA-CCAAAA
*
13472732 GCTTTAAAACCAAAA
1 ACTTTAAAACCAAAA
13472747 TCTCTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22
Consensus pattern (15 bp):
ACTTTAAAACCAAAA
Found at i:13475418 original size:20 final size:19
Alignment explanation
Indices: 13475373--13475418 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
13475363 ACTTCTAAAC
*
13475373 CTCAAATCATACTCCATTA
1 CTCAAATCATACTCCATAA
13475392 CTCAAATCATACTCCAATAA
1 CTCAAATCATACTCC-ATAA
*
13475412 GTCAAAT
1 CTCAAAT
13475419 GGGGCCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.28
Consensus pattern (19 bp):
CTCAAATCATACTCCATAA
Found at i:13478836 original size:13 final size:13
Alignment explanation
Indices: 13478818--13478842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13478808 TTTCAAAAAA
13478818 TTTATAAAATCAT
1 TTTATAAAATCAT
13478831 TTTATAAAATCA
1 TTTATAAAATCA
13478843 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13480237 original size:19 final size:19
Alignment explanation
Indices: 13480213--13480250 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13480203 CTGCCAAACC
*
13480213 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
13480232 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13480251 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Done.