Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 42 of 255
Found at i:11346752 original size:27 final size:26
Alignment explanation
Indices: 11346691--11346753 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11346681 ACTCCATTTT
11346691 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
11346718 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
11346746 ATTTTATT
1 ATTTTATT
11346754 TTAATTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:11347677 original size:12 final size:12
Alignment explanation
Indices: 11347660--11347692 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
11347650 CTACTTCCCC
11347660 TTTACTATTATT
1 TTTACTATTATT
11347672 TTTACTATTATT
1 TTTACTATTATT
11347684 TTTACTATT
1 TTTACTATT
11347693 TTACAGGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTACTATTATT
Found at i:11350504 original size:11 final size:11
Alignment explanation
Indices: 11350488--11350544 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
11350478 GCAACCCAAT
11350488 TTTTATTTTTA
1 TTTTATTTTTA
11350499 TTTTA-TTTTA
1 TTTTATTTTTA
11350509 -TTTATTTTT-
1 TTTTATTTTTA
*
11350518 TCTTATTATTT-
1 TTTTATT-TTTA
*
11350529 TCTTATTTATTA
1 TTTTATTT-TTA
11350541 TTTT
1 TTTT
11350545 CAGATATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 4 0.10
10 15 0.38
11 17 0.44
12 3 0.08
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:11350514 original size:14 final size:14
Alignment explanation
Indices: 11350495--11350545 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
11350485 AATTTTTATT
11350495 TTTATTTTATT-TTA
1 TTTATTTT-TTCTTA
11350509 TTTATTTTTTCTTA
1 TTTATTTTTTCTTA
11350523 -TTA--TTTTCTTA
1 TTTATTTTTTCTTA
11350534 TTTATTATTTTC
1 TTTATT-TTTTC
11350546 AGATATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 8 0.25
12 3 0.09
13 5 0.16
14 11 0.34
15 5 0.16
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTTTTCTTA
Found at i:11352050 original size:15 final size:15
Alignment explanation
Indices: 11352030--11352059 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11352020 CATTTCATTT
*
11352030 ATATTAGGATAATTA
1 ATATTAAGATAATTA
11352045 ATATTAAGATAATTA
1 ATATTAAGATAATTA
11352060 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:11352087 original size:27 final size:26
Alignment explanation
Indices: 11352026--11352088 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11352016 ACTCCATTTC
11352026 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
11352053 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
11352081 ATTTTATT
1 ATTTTATT
11352089 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:11353033 original size:12 final size:12
Alignment explanation
Indices: 11353016--11353049 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
11353006 CCTACTTCCC
11353016 CTTTACTATTAT
1 CTTTACTATTAT
11353028 CTTTACTATTAT
1 CTTTACTATTAT
*
11353040 TTTTACTATT
1 CTTTACTATT
11353050 TTACAGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTTACTATTAT
Found at i:11354239 original size:29 final size:30
Alignment explanation
Indices: 11354192--11354259 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
11354182 TGGCTCAAGA
* * *
11354192 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
11354222 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
11354252 GCAAATAT
1 GTAAATAT
11354260 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:11361515 original size:17 final size:17
Alignment explanation
Indices: 11361495--11361532 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
11361485 GGAAGATTTT
*
11361495 TATCAA-TGGCGGATAAG
1 TATCAACTGGCAGAT-AG
11361512 TATCAACTGGCAGATAG
1 TATCAACTGGCAGATAG
11361529 TATC
1 TATC
11361533 CCCCAGTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (17 bp):
TATCAACTGGCAGATAG
Found at i:11363252 original size:5 final size:5
Alignment explanation
Indices: 11363242--11363312 Score: 54
Period size: 5 Copynumber: 14.2 Consensus size: 5
11363232 GTAGGATGTA
* * * * * *
11363242 ATATG ATATG ATATG TTATG CA-ATG CTTTG CTACG ATATG ACATG ATATG
1 ATATG ATATG ATATG ATATG -ATATG ATATG ATATG ATATG ATATG ATATG
**
11363292 ATGCG ATATG ATATG ATATG A
1 ATATG ATATG ATATG ATATG A
11363313 CCTAATATGG
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (5 bp):
ATATG
Found at i:11363298 original size:20 final size:20
Alignment explanation
Indices: 11363275--11363312 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11363265 TGCTTTGCTA
11363275 CGATATGACATGATATGATG
1 CGATATGACATGATATGATG
*
11363295 CGATATGATATGATATGA
1 CGATATGACATGATATGA
11363313 CCTAATATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (20 bp):
CGATATGACATGATATGATG
Found at i:11367180 original size:52 final size:50
Alignment explanation
Indices: 11367102--11367290 Score: 162
Period size: 50 Copynumber: 3.7 Consensus size: 50
11367092 GTTGTGAGAA
* **
11367102 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGG--TTAGGT
** * * *
11367154 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGT
* * ** *** * * *
11367204 CACATGTGTAGTACTAAGTGTAAGCTACTATGCATACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAAT-GGTTAGGT
* * *
11367255 CACATGTGTGGTACTAAGTGCAGGCCAATATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
11367291 AGAGATAGTT
Statistics
Matches: 110, Mismatches: 26, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 40 0.36
51 34 0.31
52 36 0.33
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAAATGGTTAGGT
Found at i:11367205 original size:50 final size:51
Alignment explanation
Indices: 11367102--11367233 Score: 158
Period size: 52 Copynumber: 2.6 Consensus size: 51
11367092 GTTGTGAGAA
* * **
11367102 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGG-TTTAGGT
** * *
11367154 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
* *
11367204 CACATGTGTAGTACTAAGTGTAAGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
11367234 TGCATACCCG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 32 0.47
52 36 0.53
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAAATGGTTTAGGT
Found at i:11376684 original size:30 final size:31
Alignment explanation
Indices: 11376629--11376694 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
11376619 TATAGTCTAT
11376629 ATTTTTATAAATTTTAAAGGATT-AAATAAA
1 ATTTTTATAAATTTTAAAGGATTAAAATAAA
*
11376659 ATTTTTAT-AATTTTAAGAAGG-TTAAAATATA
1 ATTTTTATAAATTTT-A-AAGGATTAAAATAAA
11376690 ATTTT
1 ATTTT
11376695 ATTTTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 6 0.19
30 11 0.34
31 15 0.47
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (31 bp):
ATTTTTATAAATTTTAAAGGATTAAAATAAA
Found at i:11380439 original size:62 final size:62
Alignment explanation
Indices: 11380314--11380441 Score: 143
Period size: 62 Copynumber: 2.1 Consensus size: 62
11380304 GTGCAGGGTT
* * * *
11380314 CACATGGCCAAAGACAAGGGCATGTGCCCAGGCAGTGTAGCTCATTGTTTGTACTTAAGAAC
1 CACACGGCCAAAGACAAGGGCATGTGCCCAGGCAGTATAACTCACTGTTTGTACTTAAGAAC
* * * * *
11380376 CACACGGCCAAGGACACGGGCGTGTGCCTAGGTC-GTATAACTCACTGTTTGTGCTTGAA-AAC
1 CACACGGCCAAAGACAAGGGCATGTGCCCAGG-CAGTATAACTCACTGTTTGTACTT-AAGAAC
11380438 CACA
1 CACA
11380442 GACCTTGTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 52 0.95
63 3 0.05
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (62 bp):
CACACGGCCAAAGACAAGGGCATGTGCCCAGGCAGTATAACTCACTGTTTGTACTTAAGAAC
Found at i:11382236 original size:5 final size:5
Alignment explanation
Indices: 11382222--11382252 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
11382212 TTTTATTTAG
11382222 ATTAT A-TAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
11382253 AATTGATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:11382273 original size:3 final size:3
Alignment explanation
Indices: 11382230--11382311 Score: 59
Period size: 3 Copynumber: 28.7 Consensus size: 3
11382220 AGATTATATA
* *
11382230 TAT TA- TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* **
11382272 TAAT TGT TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TA
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11382312 AATAAATTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
2 12 0.19
3 44 0.71
4 6 0.10
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:11382600 original size:32 final size:31
Alignment explanation
Indices: 11382560--11382621 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
11382550 ACAATTATAA
*
11382560 TATTTTATT-TAAATT-AGTAGGTATTTATTAT
1 TATTTTATTAT-AATTCAG-AGATATTTATTAT
11382591 TATTATTATTATAATTCAGAGATATTTATTA
1 TATT-TTATTATAATTCAGAGATATTTATTA
11382622 ATTAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 4 0.15
32 20 0.74
33 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (31 bp):
TATTTTATTATAATTCAGAGATATTTATTAT
Found at i:11382769 original size:15 final size:16
Alignment explanation
Indices: 11382742--11382784 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
11382732 TATAATTGCT
11382742 ATTAAATATATATTTATTA
1 ATTAAATATA-A--TATTA
*
11382761 ATTAAATATAATATAA
1 ATTAAATATAATATTA
11382777 ATTAAATA
1 ATTAAATA
11382785 AAGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 12 0.52
18 1 0.04
19 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTAAATATAATATTA
Found at i:11382780 original size:20 final size:19
Alignment explanation
Indices: 11382742--11382786 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
11382732 TATAATTGCT
**
11382742 ATTAAATATATATTTATTA
1 ATTAAATATATATAAATTA
11382761 ATTAAATATAATATAAATTA
1 ATTAAATAT-ATATAAATTA
*
11382781 AATAAA
1 ATTAAA
11382787 GTAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAAATATATATAAATTA
Found at i:11383967 original size:45 final size:45
Alignment explanation
Indices: 11383903--11383995 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
11383893 ACTACCATTG
*
11383903 CTGTTACCGATTCGACACTTTGTGTGTCGAATACTGTTACCGTTA
1 CTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCGTTA
*
11383948 CTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACCGTTA
1 CTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGTTACCGTTA
11383993 CTG
1 CTG
11383996 CTACTGCTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (45 bp):
CTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCGTTA
Found at i:11384006 original size:18 final size:18
Alignment explanation
Indices: 11383979--11384013 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11383969 GTGTGTTGAA
*
11383979 TACTGTTACCGTTACTGC
1 TACTGCTACCGTTACTGC
11383997 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
11384014 ATTACTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:11386857 original size:25 final size:25
Alignment explanation
Indices: 11386829--11386892 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
11386819 TATATATTCG
*
11386829 CACACATAGTGCCATAAAATTTCCA
1 CACACTTAGTGCCATAAAATTTCCA
* *
11386854 CACACTTAGTGCCATACAATTTCCG
1 CACACTTAGTGCCATAAAATTTCCA
11386879 CACACTTAGTGCCA
1 CACACTTAGTGCCA
11386893 AGTCATCTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.33, C:0.31, G:0.11, T:0.25
Consensus pattern (25 bp):
CACACTTAGTGCCATAAAATTTCCA
Found at i:11391167 original size:40 final size:40
Alignment explanation
Indices: 11391122--11391385 Score: 465
Period size: 40 Copynumber: 6.6 Consensus size: 40
11391112 AACACATTTT
* *
11391122 CCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
*
11391162 CCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
*
11391202 CCTTCGGGTCATAGCCCGGATATATCAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
11391242 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
*
11391282 CCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
* *
11391322 CCTTCGGGCCATAGCCCGGATATATCAACTCGCATAATTG
1 CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
11391362 CCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGTCTTAGCCCGGATATA
11391386 ATCCAATGCT
Statistics
Matches: 212, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 212 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTG
Found at i:11398177 original size:25 final size:25
Alignment explanation
Indices: 11398051--11398168 Score: 184
Period size: 25 Copynumber: 4.8 Consensus size: 25
11398041 GCCATATATA
* * *
11398051 TTCC-CACACATAGTGCTATAAAAT
1 TTCCGCACACTTAGTGCCATACAAT
11398075 TTCCGCACACTTAGTGCCATACAAT
1 TTCCGCACACTTAGTGCCATACAAT
*
11398100 TTCCGCACACTTAGCGCCATACAAT
1 TTCCGCACACTTAGTGCCATACAAT
*
11398125 TTCCGCACACTTAGTGCCATATAAT
1 TTCCGCACACTTAGTGCCATACAAT
11398150 TTCCGCACACTTAGTGCCA
1 TTCCGCACACTTAGTGCCA
11398169 AGTCATTTCG
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 4 0.05
25 83 0.95
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (25 bp):
TTCCGCACACTTAGTGCCATACAAT
Found at i:11403885 original size:3 final size:3
Alignment explanation
Indices: 11403847--11403923 Score: 56
Period size: 3 Copynumber: 26.7 Consensus size: 3
11403837 AGATTATATA
* * *
11403847 TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT
**
11403891 TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11403924 AATAAATTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
2 10 0.17
3 42 0.72
4 6 0.10
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:11404146 original size:28 final size:28
Alignment explanation
Indices: 11404114--11404171 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
11404104 ATAAAGTATG
11404114 ATTATGACAAGTGTAAGGTGATAAAAAT
1 ATTATGACAAGTGTAAGGTGATAAAAAT
*
11404142 ATTATGACAAGTGTGAGGTGATAAAAAT
1 ATTATGACAAGTGTAAGGTGATAAAAAT
11404170 AT
1 AT
11404172 ACATATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.29
Consensus pattern (28 bp):
ATTATGACAAGTGTAAGGTGATAAAAAT
Found at i:11404237 original size:3 final size:3
Alignment explanation
Indices: 11404229--11404261 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11404219 TAGTAGATAT
*
11404229 TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11404262 AGAGATATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11405610 original size:45 final size:45
Alignment explanation
Indices: 11405543--11405638 Score: 158
Period size: 45 Copynumber: 2.1 Consensus size: 45
11405533 CCGACTATCA
*
11405543 TTACTGTTACCGATTCGACACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCG
*
11405588 TTACTGTTACAGATTC-AGCACTTTGTGTGTTGAATACTGTTACCG
1 TTACTGTTACAGATTCGA-CACTTTGTGTGTCGAATACTGTTACCG
11405633 TTACTG
1 TTACTG
11405639 CTACTGCTAC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (45 bp):
TTACTGTTACAGATTCGACACTTTGTGTGTCGAATACTGTTACCG
Found at i:11405649 original size:18 final size:18
Alignment explanation
Indices: 11405622--11405656 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11405612 GTGTGTTGAA
*
11405622 TACTGTTACCGTTACTGC
1 TACTGCTACCGTTACTGC
11405640 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
11405657 ATTACTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:11408782 original size:40 final size:40
Alignment explanation
Indices: 11408529--11408774 Score: 447
Period size: 40 Copynumber: 6.2 Consensus size: 40
11408519 TAATTTGATG
*
11408529 TGGAATTGTATCCAGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
11408569 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
11408609 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
11408649 TGGAATTGTATCCGGGCTTAAAGACCCGCAAGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
11408689 TGGAATTGTATCCAGGCTTAAAGACCCGCAGACTTCGTGA
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
11408729 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
11408769 TGGAAT
1 TGGAAT
11408775 GACATCCGTG
Statistics
Matches: 197, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 197 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:11420417 original size:32 final size:34
Alignment explanation
Indices: 11420352--11420417 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 34
11420342 TTGGAACCTA
* * * *
11420352 AATTTTTTTTTGGCTCAATTTGGTACTTGAACTT
1 AATTTTTTTTTGCCTCAATTGGGTACCTAAACTT
11420386 AATTTTTTTTT-CCT-AATTGGGTACCTAAACTT
1 AATTTTTTTTTGCCTCAATTGGGTACCTAAACTT
11420418 TTTTTTGGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 15 0.54
33 2 0.07
34 11 0.39
ACGTcount: A:0.23, C:0.14, G:0.12, T:0.52
Consensus pattern (34 bp):
AATTTTTTTTTGCCTCAATTGGGTACCTAAACTT
Found at i:11420439 original size:30 final size:30
Alignment explanation
Indices: 11420339--11420444 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
11420329 AATTTTTCCT
* *
11420339 AATTTGGAACCTAAA-TTTTTTTTTGGCTC
1 AATTTGGTACCTAAACTTTTTTTTTGGCCC
* * ** *
11420368 AATTTGGTACTTGAACTTAATTTTTTTTTCCT
1 AATTTGGTACCTAAACTT--TTTTTTTGGCCC
* *
11420400 AATTGGGTACCTAAACTTTTTTTTGGGCCC
1 AATTTGGTACCTAAACTTTTTTTTTGGCCC
11420430 AATTTGGTACCTAAA
1 AATTTGGTACCTAAA
11420445 TTTATTAAAC
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
29 12 0.20
30 24 0.41
32 23 0.39
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (30 bp):
AATTTGGTACCTAAACTTTTTTTTTGGCCC
Found at i:11420908 original size:57 final size:57
Alignment explanation
Indices: 11420805--11420912 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 57
11420795 GAATCAAACA
* * *
11420805 AAAAAATTAGGTACCAAATTAGGAAAAAGAGTCAAGTTCAGGTACCAAATTGGCCCT
1 AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATTGGCCCT
* * * * *
11420862 AAAAGATTAAGTACCAACTTAAGAAAAAGTGTTAAGTTTAGATACCAAATT
1 AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATT
11420913 AGAAAAAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 43 1.00
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (57 bp):
AAAAAATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTCAGATACCAAATTGGCCCT
Found at i:11422736 original size:42 final size:42
Alignment explanation
Indices: 11422677--11422758 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
11422667 GCCAATATAT
*
11422677 ATATATAGCCGAAGCTATCTCGATCTCGCACACTAAGTGCAA
1 ATATATAGCCAAAGCTATCTCGATCTCGCACACTAAGTGCAA
* * * * *
11422719 ATATATAGCTAAAGCTATCTTGATTTTGCACATTAAGTGC
1 ATATATAGCCAAAGCTATCTCGATCTCGCACACTAAGTGC
11422759 CCATAATTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (42 bp):
ATATATAGCCAAAGCTATCTCGATCTCGCACACTAAGTGCAA
Found at i:11426760 original size:3 final size:3
Alignment explanation
Indices: 11426752--11426786 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11426742 TTTTGCCCAA
11426752 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11426787 CTAAAACCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11427385 original size:39 final size:40
Alignment explanation
Indices: 11427317--11427395 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
11427307 GAAATGAGGG
11427317 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
1 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
*
11427357 AAAAGGAAATAAC-AAAATTGAATACATTATCAATATACA
1 AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
11427396 TGTTTAGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.61, C:0.10, G:0.06, T:0.23
Consensus pattern (40 bp):
AAAAGGAAATAACAAAAATTAAATACATTATCAATATACA
Found at i:11428303 original size:38 final size:38
Alignment explanation
Indices: 11428252--11428326 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
11428242 ATATATGGAC
11428252 TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAAG
1 TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAAG
11428290 TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAA
1 TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAA
11428327 CTTGGATTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (38 bp):
TCGATCAATGGAAATTGCTCTTCTTGCCAAAAACAAAG
Found at i:11430197 original size:21 final size:21
Alignment explanation
Indices: 11430173--11430215 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
11430163 ATTTAGGGAG
11430173 AATGTGTACTAATAGCTTGCT
1 AATGTGTACTAATAGCTTGCT
11430194 AATGTGTACTAATAGCTTGCT
1 AATGTGTACTAATAGCTTGCT
11430215 A
1 A
11430216 CATTATCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTGTACTAATAGCTTGCT
Found at i:11433055 original size:31 final size:31
Alignment explanation
Indices: 11432990--11433056 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
11432980 TTAATCTATA
* * * *
11432990 AAATTTGACTCTTTTTGAATAGTTGATGATC
1 AAATTTGACTCTTTTTGAAAAATTAATGACC
11433021 AAATTTGACTCTTTTT-ATAAAATTAATGACC
1 AAATTTGACTCTTTTTGA-AAAATTAATGACC
11433052 AAATT
1 AAATT
11433057 AACAAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.43
Consensus pattern (31 bp):
AAATTTGACTCTTTTTGAAAAATTAATGACC
Found at i:11437244 original size:35 final size:35
Alignment explanation
Indices: 11437188--11437306 Score: 107
Period size: 35 Copynumber: 3.4 Consensus size: 35
11437178 AGGTGATTTA
* *
11437188 AAAAGGTT-AGGATAGATCCGTCTAAGACAACTTTT
1 AAAAGGTTGA-GATAGACCCGTCTAAGACAACCTTT
* *
11437223 AAAAGGTTGAGATATACCCGTCTAAGGCAACCTTT
1 AAAAGGTTGAGATAGACCCGTCTAAGACAACCTTT
* * ** * *
11437258 AAAAGGTTGGGATAAACATGCCTAAGGCAACC-TT
1 AAAAGGTTGAGATAGACCCGTCTAAGACAACCTTT
*
11437292 ATATAGGTTGAGATA
1 A-AAAGGTTGAGATA
11437307 AATAGGTCTA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
34 3 0.04
35 67 0.94
36 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (35 bp):
AAAAGGTTGAGATAGACCCGTCTAAGACAACCTTT
Found at i:11437283 original size:70 final size:71
Alignment explanation
Indices: 11437209--11437342 Score: 155
Period size: 70 Copynumber: 1.9 Consensus size: 71
11437199 ATAGATCCGT
* * *
11437209 CTAAGACAA-CTTTTAAAAGGTTGAGATATACCCGTCTAAGGCAACCTT-TAAAAGGTTGGGATA
1 CTAAGACAACCTTAT-AAAGGTTGAGATAAACACGTCTAAGGCAACCTTATAAAAGGTTGGGATA
11437272 AACATGC
65 AACATGC
* * * * * * *
11437279 CTAAGGCAACCTTATATAGGTTGAGATAAATAGGTCTAAGTCATCCTTATAAAATGTTGGGATA
1 CTAAGACAACCTTATAAAGGTTGAGATAAACACGTCTAAGGCAACCTTATAAAAGGTTGGGATA
11437343 GACACATCTA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
70 34 0.65
71 18 0.35
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (71 bp):
CTAAGACAACCTTATAAAGGTTGAGATAAACACGTCTAAGGCAACCTTATAAAAGGTTGGGATAA
ACATGC
Found at i:11437307 original size:35 final size:35
Alignment explanation
Indices: 11437209--11437308 Score: 112
Period size: 35 Copynumber: 2.9 Consensus size: 35
11437199 ATAGATCCGT
* * * * *
11437209 CTAAGACAACTTTTAAAAGGTTGAGATATACCCGT
1 CTAAGGCAACCTTTAAAAGGTTGAGATAAACACGC
* *
11437244 CTAAGGCAACCTTTAAAAGGTTGGGATAAACATGC
1 CTAAGGCAACCTTTAAAAGGTTGAGATAAACACGC
*
11437279 CTAAGGCAACC-TTATATAGGTTGAGATAAA
1 CTAAGGCAACCTTTA-AAAGGTTGAGATAAA
11437309 TAGGTCTAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 3 0.05
35 52 0.95
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (35 bp):
CTAAGGCAACCTTTAAAAGGTTGAGATAAACACGC
Found at i:11437318 original size:35 final size:35
Alignment explanation
Indices: 11437207--11437331 Score: 110
Period size: 35 Copynumber: 3.6 Consensus size: 35
11437197 GGATAGATCC
* * * **
11437207 GTCTAAGACAA-CTTTTAAAAGGTTGAGATATACCC
1 GTCTAAGGCAACCTTAT-AAAGGTTGAGATAAACAG
* *
11437242 GTCTAAGGCAACCTT-TAAAAGGTTGGGATAAACAT
1 GTCTAAGGCAACCTTAT-AAAGGTTGAGATAAACAG
* * *
11437277 GCCTAAGGCAACCTTATATAGGTTGAGATAAATAG
1 GTCTAAGGCAACCTTATAAAGGTTGAGATAAACAG
* *
11437312 GTCTAAGTCATCCTTATAAA
1 GTCTAAGGCAACCTTATAAA
11437332 ATGTTGGGAT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
35 70 0.95
36 4 0.05
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (35 bp):
GTCTAAGGCAACCTTATAAAGGTTGAGATAAACAG
Found at i:11437471 original size:6 final size:6
Alignment explanation
Indices: 11437453--11437489 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
11437443 ACTAAAAAGA
11437453 TAAAAT ATAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
1 TAAAAT -TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
11437490 AAAGGTTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
TAAAAT
Found at i:11446488 original size:5 final size:5
Alignment explanation
Indices: 11446471--11446526 Score: 53
Period size: 5 Copynumber: 11.4 Consensus size: 5
11446461 TAAAAAAATT
* * * *
11446471 ATAAA ATATA ATACA ATAAA AT-AA A-AAC ATAAA CTAATA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA-A ATAAA ATAAA
11446520 ATAAA AT
1 ATAAA AT
11446527 TGGGCCCCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
4 5 0.12
5 32 0.78
6 4 0.10
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:11447297 original size:24 final size:25
Alignment explanation
Indices: 11447242--11447297 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
11447232 CCCAATTGAT
*
11447242 GTGGAC-ATGTTATTTAATTGGCAT
1 GTGGACAATGTTATTTAATTGGCAC
* *
11447266 GTGGACAAT-TTATTTTATTGTCAC
1 GTGGACAATGTTATTTAATTGGCAC
11447290 GTGGACAA
1 GTGGACAA
11447298 CTCTGTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (25 bp):
GTGGACAATGTTATTTAATTGGCAC
Found at i:11447997 original size:21 final size:21
Alignment explanation
Indices: 11447971--11448023 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
11447961 AATAGGGCTC
11447971 ACACGCCCGTGTGACCCTAGG
1 ACACGCCCGTGTGACCCTAGG
* *
11447992 ACACGCCCGTGTGACCTTGGG
1 ACACGCCCGTGTGACCCTAGG
11448013 ACACGCCCGTG
1 ACACGCCCGTG
11448024 CTTCAGACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.38, G:0.30, T:0.15
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCTAGG
Found at i:11451866 original size:46 final size:46
Alignment explanation
Indices: 11451813--11451988 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
11451803 TTGTTGAGCA
*
11451813 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
11451859 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
11451906 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
11451952 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11451989 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 36 0.34
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:11451969 original size:93 final size:93
Alignment explanation
Indices: 11451810--11451981 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
11451800 GGATTGTTGA
* * *
11451810 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
11451875 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
11451903 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
11451968 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11451982 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:11454944 original size:15 final size:15
Alignment explanation
Indices: 11454922--11454990 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
11454912 GTATATTGGG
11454922 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
11454937 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
11454952 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
11454967 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
11454982 TTTCTTTAT
1 TTTCTTTAT
11454991 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:11454991 original size:30 final size:30
Alignment explanation
Indices: 11454917--11455009 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
11454907 GTATCGTATA
* * * *
11454917 TTGGGTTTCTTTATCCTGGATCTCTTTAT-
1 TTGGATTTCTTTATTCTGGATTTCTCTATC
*
11454946 TCTGGATTTCTTTATTCTGGGTTTCTCTATC
1 T-TGGATTTCTTTATTCTGGATTTCTCTATC
*
11454977 TTGGATTTCTTTATTC-GGTTTTCTTCTTATC
1 TTGGATTTCTTTATTCTGGATTTC-TC-TATC
11455008 TT
1 TT
11455010 TGCTCCATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.13
30 40 0.74
31 7 0.13
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGGATTTCTTTATTCTGGATTTCTCTATC
Found at i:11470211 original size:7 final size:7
Alignment explanation
Indices: 11470199--11470223 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11470189 ATATGACAAC
11470199 CATACAT
1 CATACAT
11470206 CATACAT
1 CATACAT
11470213 CATACAT
1 CATACAT
11470220 CATA
1 CATA
11470224 AGGCTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
CATACAT
Found at i:11470895 original size:25 final size:25
Alignment explanation
Indices: 11470867--11470957 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
11470857 AGTTAATAGA
* *
11470867 TAAGCTCATCTGAGCTAAATTTCGG
1 TAAGCTCATCCGAGCTAAATATCGG
* * *
11470892 TAAGCTCTTCCGAGCTGAGTATCGG
1 TAAGCTCATCCGAGCTAAATATCGG
*
11470917 TAAGCTC-TCACGAGCTACAA-ATCAG
1 TAAGCTCATC-CGAGCTA-AATATCGG
* *
11470942 TAATCTCATACGAGCT
1 TAAGCTCATCCGAGCT
11470958 GTGGTGAGTC
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.04
25 49 0.92
26 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
TAAGCTCATCCGAGCTAAATATCGG
Found at i:11473310 original size:51 final size:51
Alignment explanation
Indices: 11473234--11473353 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
11473224 CTCAAACTTA
* * * *
11473234 CTTCATACTTCATTCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGCTGCTCTAACTTCAACAAGAG
* * *
11473285 CTTCATATTTCATCCGGAATAATTACTTTGCTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGCTGCTCTAACTTCAACAAGAG
*
11473336 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
11473354 TAACTTAGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGCTGCTCTAACTTCAACAAGAG
Found at i:11478747 original size:27 final size:26
Alignment explanation
Indices: 11478702--11478752 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
11478692 TAAGGTTGAG
11478702 TTGATATTAAGTTATGAAATGTCATT
1 TTGATATTAAGTTATGAAATGTCATT
11478728 TTGATATTTAAGTT-TGGAAATGTCA
1 TTGATA-TTAAGTTAT-GAAATGTCA
11478753 CACTTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (26 bp):
TTGATATTAAGTTATGAAATGTCATT
Found at i:11479218 original size:49 final size:49
Alignment explanation
Indices: 11479146--11479242 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
11479136 AAGATAGTTC
*
11479146 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACATAAGAATTTATGATT
1 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAATTTATGATT
*
11479195 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAGTTTATGAT
1 TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAATTTATGAT
11479243 GGTTCTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (49 bp):
TTCAGAAGTTGAACCCTAGCCTGAAGAAAATACACAAGAATTTATGATT
Found at i:11481581 original size:7 final size:7
Alignment explanation
Indices: 11481567--11481683 Score: 100
Period size: 7 Copynumber: 17.4 Consensus size: 7
11481557 TTCAAAGTTC
11481567 AAGGTTT
1 AAGGTTT
*
11481574 AAGATTT
1 AAGGTTT
*
11481581 ATGGTTT
1 AAGGTTT
*
11481588 GA-GTTT
1 AAGGTTT
11481594 AA-GTTT
1 AAGGTTT
11481600 AA-GTTT
1 AAGGTTT
11481606 AAGGTTT
1 AAGGTTT
11481613 AAGGTTT
1 AAGGTTT
11481620 AAGGTTT
1 AAGGTTT
*
11481627 AAGATTT
1 AAGGTTT
*
11481634 AAGGTGT
1 AAGGTTT
* *
11481641 GAGGTTC
1 AAGGTTT
**
11481648 GTGGTTT
1 AAGGTTT
11481655 AAGGTTT
1 AAGGTTT
*
11481662 -AGGGTT
1 AAGGTTT
*
11481668 CAGGTTT
1 AAGGTTT
11481675 -AGGTTT
1 AAGGTTT
11481681 AAG
1 AAG
11481684 TAGGTTTGGG
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
6 28 0.31
7 61 0.69
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.43
Consensus pattern (7 bp):
AAGGTTT
Found at i:11481610 original size:39 final size:40
Alignment explanation
Indices: 11481561--11481636 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
11481551 TTGGGGTTCA
* *
11481561 AAGTTCAAGGTTTAAGATTTATGGTTTGAG-TTTAAGTTT
1 AAGTTCAAGGTTTAAGATTTAAGGTTTAAGATTTAAGTTT
* *
11481600 AAGTTTAAGGTTTAAGGTTTAAGGTTTAAGATTTAAG
1 AAGTTCAAGGTTTAAGATTTAAGGTTTAAGATTTAAG
11481637 GTGTGAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 26 0.81
40 6 0.19
ACGTcount: A:0.32, C:0.01, G:0.24, T:0.43
Consensus pattern (40 bp):
AAGTTCAAGGTTTAAGATTTAAGGTTTAAGATTTAAGTTT
Found at i:11484183 original size:46 final size:45
Alignment explanation
Indices: 11484111--11484234 Score: 158
Period size: 45 Copynumber: 2.7 Consensus size: 45
11484101 ATTGTCAAAG
* * * **
11484111 GATGCCATAACGTCTTTCAGATATGGTCTTAGTCCCTATTTACCAT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCACT-TCCACCAT
* * *
11484157 GATGCCATAAAGTCTTTCAGCCATGGTCTTACTCACTTCCATCAT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACTCACTTCCACCAT
*
11484202 GATGCCATAGCGTCTTTCAGCTATGGTCTTACT
1 GATGCCATAACGTCTTTCAGCTATGGTCTTACT
11484235 AATTTTATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 35 0.52
46 32 0.48
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (45 bp):
GATGCCATAACGTCTTTCAGCTATGGTCTTACTCACTTCCACCAT
Found at i:11484218 original size:45 final size:45
Alignment explanation
Indices: 11484111--11484323 Score: 214
Period size: 44 Copynumber: 4.8 Consensus size: 45
11484101 ATTGTCAAAG
* * * * *
11484111 GATGCCATAACGTCTTTCAGATATGGTCTTAGTCCCTATTTACCAT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACT-TTTATCAT
** * **
11484157 GATGCCATAAAGTCTTTCAGCCATGGTCTTACTCACTTCCATCAT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACTTTTATCAT
* *
11484202 GATGCCATAGCGTCTTTCAGCTATGGTCTTACT-AATTTTATCCT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACTTTTATCAT
* * * * *
11484246 GATGTCATAGCATTTTTCAGCTATGGACTTACTCA-TTTTATCTT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACTTTTATCAT
* * **
11484290 GATTCCATAGCATCTTTCAAATATGGTCTTACTC
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTC
11484324 GTTTGAATCA
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
44 72 0.51
45 36 0.26
46 32 0.23
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (45 bp):
GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCACTTTTATCAT
Found at i:11487189 original size:24 final size:23
Alignment explanation
Indices: 11487150--11487196 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
11487140 AAAAAAGAAG
*
11487150 AAGAAAGAAGTAACTTGGACAAA
1 AAGAAAGAAGTAACTTAGACAAA
*
11487173 AAGAAACGAAGTGACTTAGACAAA
1 AAGAAA-GAAGTAACTTAGACAAA
11487197 TCTTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.55, C:0.11, G:0.21, T:0.13
Consensus pattern (23 bp):
AAGAAAGAAGTAACTTAGACAAA
Found at i:11488130 original size:39 final size:39
Alignment explanation
Indices: 11488076--11488155 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
11488066 GAAGATAATT
11488076 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
1 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
* *
11488115 TTTCGAAGGGTTTCATAAGTTGTTTTTATTTAAACTTTG
1 TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
11488154 TT
1 TT
11488156 CTTAAAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.51
Consensus pattern (39 bp):
TTTCGAAGGGTTTCATAAGTTATTTTTATTGAAACTTTG
Found at i:11505943 original size:76 final size:76
Alignment explanation
Indices: 11505807--11505960 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 76
11505797 TTCTCAGAAC
* * * *
11505807 CAGGATCTTCGTTGAACCTAAATTAACATAATCCATATTAAAGGTAACTACTAAATCTGCTAGTA
1 CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAAATACTAAACCTGCTAATA
11505872 GGTAAATTACA
66 GGTAAATTACA
* * *
11505883 CAGGCTCTTCATTGAACCTTAATTAACATAATCCATATTAAAGG-AATATATTAAACCTGCTAAT
1 CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAA-ATACTAAACCTGCTAAT
11505947 AGGTAAATTACA
65 AGGTAAATTACA
11505959 CA
1 CA
11505961 CCCAAAAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 2 0.03
76 68 0.97
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.31
Consensus pattern (76 bp):
CAGGATCTTCATTGAACCTAAATTAACATAATCCATATTAAAGGTAAATACTAAACCTGCTAATA
GGTAAATTACA
Found at i:11507769 original size:18 final size:18
Alignment explanation
Indices: 11507759--11507803 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11507749 CTATCTTTTC
11507759 CCTTCTCTCTATCTCTAT
1 CCTTCTCTCTATCTCTAT
* *
11507777 CCTTCTCTCCT-TCCCTCT
1 CCTTCTCT-CTATCTCTAT
11507795 CCTTCTCTC
1 CCTTCTCTC
11507804 GATCCTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.88
19 2 0.08
ACGTcount: A:0.04, C:0.49, G:0.00, T:0.47
Consensus pattern (18 bp):
CCTTCTCTCTATCTCTAT
Found at i:11507869 original size:18 final size:18
Alignment explanation
Indices: 11507824--11507870 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11507814 TTTGTCTCTC
*
11507824 TCCTTTTCCCTTTCCTTG
1 TCCTTTTCTCTTTCCTTG
* * *
11507842 GCCTTGTCTCTTTCCTTT
1 TCCTTTTCTCTTTCCTTG
11507860 TCCTTTTCTCT
1 TCCTTTTCTCT
11507871 GTCCCTATCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.36, G:0.06, T:0.57
Consensus pattern (18 bp):
TCCTTTTCTCTTTCCTTG
Found at i:11509854 original size:15 final size:16
Alignment explanation
Indices: 11509826--11509877 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
11509816 ATATATAAAA
11509826 TCTAAAACAATTATATT
1 TCTAAAA-AATTATATT
11509843 TCT-AAAAATTATAAATT
1 TCTAAAAAATTAT--ATT
*
11509860 TATAAAAAATTATATT
1 TCTAAAAAATTATATT
11509876 TC
1 TC
11509878 ACATCAAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 6 0.20
16 7 0.23
17 8 0.27
18 9 0.30
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
TCTAAAAAATTATATT
Found at i:11509857 original size:33 final size:34
Alignment explanation
Indices: 11509812--11509877 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
11509802 TTTTAAATTG
*
11509812 AAAAATATATAAAATCTA-AAACAATTATATTTCT
1 AAAAATATAT-AAATCTATAAAAAATTATATTTCT
*
11509846 AAAAAT-TATAAATTTATAAAAAATTATATTTC
1 AAAAATATATAAATCTATAAAAAATTATATTTC
11509878 ACATCAAGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.21
33 17 0.59
34 6 0.21
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (34 bp):
AAAAATATATAAATCTATAAAAAATTATATTTCT
Found at i:11510040 original size:21 final size:21
Alignment explanation
Indices: 11510014--11510053 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11510004 TATTTTGAAA
11510014 TTAAAAAATATATAATTTTTT
1 TTAAAAAATATATAATTTTTT
* *
11510035 TTAAAATATATATCATTTT
1 TTAAAAAATATATAATTTT
11510054 AAGTTTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAAAATATATAATTTTTT
Found at i:11528834 original size:49 final size:49
Alignment explanation
Indices: 11528594--11528903 Score: 225
Period size: 48 Copynumber: 6.5 Consensus size: 49
11528584 TTTGTGTGCT
* * *
11528594 AGTGTAAGACATGTCTGGGACAT-GCATCGACCACAAT--ATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * * * * * ** *
11528640 AGTGTAAGACATGTATGGGACATGTG--TCGGCCTCGAGATATTTAAGCT
1 AGTGTAAGACCTGTCTGGGACATG-GCATCGACCTCAATAGATGAAAGCC
* * ** * *
11528688 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCACGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGA-AAGCC
* * ** * * *
11528736 AGTGTAAGACCTATCTGGGA-ATGGCATC-AGCT-TGT-TATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
11528779 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * *
11528828 AGTGTAAGACCTGTCTAGGACATGGCATCTACCTCACTATATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
11528877 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
11528904 GTTGGCATTT
Statistics
Matches: 211, Mismatches: 35, Indels: 32
0.76 0.13 0.12
Matches are distributed among these distances:
43 20 0.09
44 8 0.04
45 4 0.02
46 32 0.15
47 7 0.03
48 70 0.33
49 56 0.27
50 14 0.07
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:11535194 original size:27 final size:28
Alignment explanation
Indices: 11535163--11535221 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
11535153 TCAATTTCCA
11535163 AAAATA-GTA-AAGAATTTTCCTCAACAG
1 AAAATATGTAGAA-AATTTTCCTCAACAG
* *
11535190 AAAATATTTAGAAAATTTTCCTCAACCG
1 AAAATATGTAGAAAATTTTCCTCAACAG
11535218 AAAA
1 AAAA
11535222 ATATTCTAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 20 0.71
29 2 0.07
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.27
Consensus pattern (28 bp):
AAAATATGTAGAAAATTTTCCTCAACAG
Found at i:11535206 original size:28 final size:30
Alignment explanation
Indices: 11535175--11535232 Score: 93
Period size: 28 Copynumber: 2.0 Consensus size: 30
11535165 AATAGTAAAG
11535175 AATTTTCCTCAACAG-AAAATATT-TAGAA
1 AATTTTCCTCAACAGAAAAATATTCTAGAA
*
11535203 AATTTTCCTCAACCGAAAAATATTCTAGAA
1 AATTTTCCTCAACAGAAAAATATTCTAGAA
11535233 CAGAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 14 0.52
29 8 0.30
30 5 0.19
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (30 bp):
AATTTTCCTCAACAGAAAAATATTCTAGAA
Found at i:11549428 original size:17 final size:17
Alignment explanation
Indices: 11549406--11549439 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11549396 TTCGGGTAGG
11549406 GCCCTGGCAAAAGAAGT
1 GCCCTGGCAAAAGAAGT
11549423 GCCCTGGCAAAAGAAGT
1 GCCCTGGCAAAAGAAGT
11549440 CTTACCCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCTGGCAAAAGAAGT
Found at i:11549559 original size:44 final size:45
Alignment explanation
Indices: 11549498--11549586 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 45
11549488 CAAGTCTATT
11549498 TTTTGAACCTATATTTTTGTCCAAACCTTCCCA-CCCCATAGATA
1 TTTTGAACCTATATTTTTGTCCAAACCTTCCCACCCCCATAGATA
11549542 TTTTGAACCTATATTTTTGTCCAAACCTTCCCACCCCCATAGATA
1 TTTTGAACCTATATTTTTGTCCAAACCTTCCCACCCCCATAGATA
11549587 GTTCTAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 33 0.75
45 11 0.25
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.36
Consensus pattern (45 bp):
TTTTGAACCTATATTTTTGTCCAAACCTTCCCACCCCCATAGATA
Found at i:11549699 original size:19 final size:20
Alignment explanation
Indices: 11549655--11549720 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 20
11549645 TACATATCTC
* *
11549655 ATTATATATA-TTTAATAAT
1 ATTATTTATATTTTAACAAT
*
11549674 ATAATTTATATTTTAACAA-
1 ATTATTTATATTTTAACAAT
*
11549693 ATTATTTA-ATATTAA-AAT
1 ATTATTTATATTTTAACAAT
11549711 -TTATTT-TATT
1 ATTATTTATATT
11549721 AAATAAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
17 10 0.26
18 6 0.16
19 15 0.39
20 7 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTATTTATATTTTAACAAT
Found at i:11551958 original size:27 final size:26
Alignment explanation
Indices: 11551884--11551977 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 26
11551874 TATGTAATTC
* * * *
11551884 TTTAATTTGCTTTGTGTATTATTGAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
11551910 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
11551936 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
11551963 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
11551978 TGTTTACTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 35 0.62
27 21 0.38
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.60
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:11557162 original size:18 final size:17
Alignment explanation
Indices: 11557139--11557180 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
11557129 AATGAACAGT
*
11557139 AAAAAATGTTGAAAAAGA
1 AAAAAAAGTTG-AAAAGA
11557157 AAAAAAAGTTGAAAAGA
1 AAAAAAAGTTGAAAAGA
11557174 AAAAAAA
1 AAAAAAA
11557181 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (17 bp):
AAAAAAAGTTGAAAAGA
Found at i:11557188 original size:17 final size:17
Alignment explanation
Indices: 11557150--11557187 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11557140 AAAAATGTTG
*
11557150 AAAAAGAAAAAAAAGTT
1 AAAAAGAAAAAAAAGTA
*
11557167 GAAAAGAAAAAAAA-TA
1 AAAAAGAAAAAAAAGTA
11557183 AAAAA
1 AAAAA
11557188 ATAGGTGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.08
Consensus pattern (17 bp):
AAAAAGAAAAAAAAGTA
Found at i:11557369 original size:22 final size:25
Alignment explanation
Indices: 11557325--11557385 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 25
11557315 GAAGCAGAGC
*
11557325 AAGGAGAAGAAAATAGAGGGAAAGA
1 AAGGAGAAGAAAATAGAGAGAAAGA
* *
11557350 AAGGAGAAGAAAAAAAGAAAGAAAAGA
1 AAGGAGAAG-AAAATAGAGAG-AAAGA
*
11557377 AAAGAGAAG
1 AAGGAGAAG
11557386 GTATGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 9 0.30
26 8 0.27
27 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (25 bp):
AAGGAGAAGAAAATAGAGAGAAAGA
Found at i:11557378 original size:17 final size:18
Alignment explanation
Indices: 11557345--11557379 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11557335 AAATAGAGGG
*
11557345 AAAGAAAGGAGAAGAAAA
1 AAAGAAAGGAAAAGAAAA
11557363 AAAGAAA-GAAAAGAAAA
1 AAAGAAAGGAAAAGAAAA
11557380 GAGAAGGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAGAAAGGAAAAGAAAA
Found at i:11557479 original size:20 final size:19
Alignment explanation
Indices: 11557428--11557483 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 19
11557418 TGTTATTGTG
11557428 TTTTTGTTGTTATTATTA-
1 TTTTTGTTGTTATTATTAT
* *
11557446 TTGTTGAT-TT-TTATTAT
1 TTTTTGTTGTTATTATTAT
11557463 TTTTTGTTGTTAGTTATTAT
1 TTTTTGTTGTTA-TTATTAT
11557483 T
1 T
11557484 ATTGTTAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 6 0.20
17 8 0.27
18 8 0.27
20 8 0.27
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.71
Consensus pattern (19 bp):
TTTTTGTTGTTATTATTAT
Found at i:11563652 original size:17 final size:17
Alignment explanation
Indices: 11563630--11563668 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
11563620 CGGTAATAGT
11563630 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
11563647 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
11563664 ATGTT
1 ATGTT
11563669 GTAATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:11564323 original size:72 final size:72
Alignment explanation
Indices: 11564206--11564343 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
11564196 GCCCCCTAAC
* * *
11564206 GAGCCCGATAAATAGTTATTACCCAAAAAATCCGGATGATAAGAAGTATCAGCCGAATGTGAATG
1 GAGCCCGAGAAATAGTCATTACCCAAAAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAATG
11564271 CGATGAT
66 CGATGAT
* *** *
11564278 GAGCCCGGGAAATAGTCATTACCCGCCAAATCCGAATGATAAGAAGTATCAGTCGAATGTGAATG
1 GAGCCCGAGAAATAGTCATTACCCAAAAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAATG
11564343 C
66 C
11564344 AATCGCTCAG
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (72 bp):
GAGCCCGAGAAATAGTCATTACCCAAAAAATCCGAATGATAAGAAGTATCAGCCGAATGTGAATG
CGATGAT
Found at i:11566376 original size:150 final size:149
Alignment explanation
Indices: 11566218--11566737 Score: 785
Period size: 150 Copynumber: 3.5 Consensus size: 149
11566208 ATAAGTAAAA
11566218 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGC
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTTATATTATTTTAGC
*
11566283 AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTAATTTAATAAATAACCTTGATTTT
65 AAAAAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTAATTTAATAAATAACCCTGATTTT
*
11566348 GGCACTTTCTTCGTATTTTT
130 GGCACTTTATTCGTATTTTT
*
11566368 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGT
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTATATTATTTTAGC
* * ** *
11566433 ACATAATGTTTCAAATGTATTATTTAAGTATTTTTTTATATTTTTTTTAATAAATAACCCTAATT
65 AAAAAATGTTTCAAATGTATTATTTAAGTA-TTTTTTATA-TTAATTTAATAAATAACCCTGATT
*
11566498 TTAGCACTTTATTCGTATTTTT
128 TTGGCACTTTATTCGTATTTTT
* *
11566520 TATTTTCATATATTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTATTTTAGCA
1 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
* * *
11566584 AAAAATGTTTCAAATGTATTATTTAAGT-TTTTTTATAGTAATTGAATAAATAACCCTGACTTTG
66 AAAAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTAATTTAATAAATAACCCTGATTTTG
* *
11566648 GTACTTTGTTCGTATTTTTT
131 GCACTTTATTCGTA-TTTTT
* * *
11566668 TATTTTCAG-ATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGC
1 TATTTTC-GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGC
*
11566732 AGAAAA
65 AAAAAA
11566738 CTTGTCAACA
Statistics
Matches: 336, Mismatches: 28, Indels: 13
0.89 0.07 0.03
Matches are distributed among these distances:
147 32 0.10
148 54 0.16
149 26 0.08
150 130 0.39
151 11 0.03
152 83 0.25
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.57
Consensus pattern (149 bp):
TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATTATTTTAGCA
AAAAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTAATTTAATAAATAACCCTGATTTTG
GCACTTTATTCGTATTTTT
Found at i:11567327 original size:3 final size:3
Alignment explanation
Indices: 11567321--11567380 Score: 63
Period size: 3 Copynumber: 21.0 Consensus size: 3
11567311 CCTCCTCCTC
* * *
11567321 CTT CTT CTT CTT C-T CTT CTT -TC CTT CTT CTC CTT CTT -TT CTT TTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
11567366 CTT CTT CTC CTT CTT
1 CTT CTT CTT CTT CTT
11567381 TGTTCTCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 5 0.11
3 41 0.89
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:11567719 original size:23 final size:23
Alignment explanation
Indices: 11567693--11567740 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
11567683 AAAACCCTTA
11567693 ATATCTC-ATTTGA-AAAATAAATT
1 ATATCTCAATTT-ATAAAA-AAATT
*
11567716 ATATTTCAATTTATAAAAAAATT
1 ATATCTCAATTTATAAAAAAATT
11567739 AT
1 AT
11567741 TTCTAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATCTCAATTTATAAAAAAATT
Found at i:11578961 original size:21 final size:21
Alignment explanation
Indices: 11578935--11578974 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11578925 NNNGGAAAGA
11578935 TGAATTGAGCCTCGGGACAGG
1 TGAATTGAGCCTCGGGACAGG
11578956 TGAATTGAGCCTCGGGACA
1 TGAATTGAGCCTCGGGACA
11578975 CGCTGAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (21 bp):
TGAATTGAGCCTCGGGACAGG
Found at i:11579203 original size:74 final size:74
Alignment explanation
Indices: 11578953--11580541 Score: 1446
Period size: 74 Copynumber: 21.4 Consensus size: 74
11578943 GCCTCGGGAC
* *
11578953 AGGTGAATTGAGCCTCGGGACACGCTGAGGT-ATTTTAATTTCTATTTTAAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579017 TATTGCGAG
66 TATTGCGAG
* * *
11579026 AGATGAATTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTATA-TTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579090 TATTGCGAG
66 TATTGCGAG
*
11579099 AGGTGAG-TGAGCCTCGGGACACGCTAAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579163 TATTGCGAG
66 TATTGCGAG
11579172 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579237 TATTGCGAG
66 TATTGCGAG
* *
11579246 AGATGAATTGAGCCTCGGGACACGCTGAGGTAA-TTTAATTTCTATTTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579310 TATTGCGAG
66 TATTGCGAG
11579319 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTC-AAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579383 TATTGCGAG
66 TATTGCGAG
11579392 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAA-TTTAATTTCTA-TTTC-AAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579454 TATTGCGAG
66 TATTGCGAG
*
11579463 AGGTGAGTTGAGCCTCGGGACACGTTGAGGTAA-TTTAATTTCTATTTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579527 TATTGCGAG
66 TATTGCGAG
* * *** *** * ** **** *** * **
11579536 AGATGAATTGAGCCTCATAACATAATCATATAGGCATAAAGGC-A-TTT-AAGACAAA-CATGTG
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAA-AAAAATCAACT-
**
11579597 CATATCATGATA-
64 CATAT--TGCGAG
* * * * * * * * ** **** ** ** ** ** **
11579609 ACGTCATGCATGA-CATATAC-AGATACTCAGTAGAGCGAGAGGAGGTGATGATAGCTGTACTAA
1 AGGTGA-G-TTGAGC--CT-CGGGACACGCTG-AG-GTAATTTTAATTTCT-AT-TTTCAAAAAA
** ** *
11579672 ATCCAA-GGA-A--AAGAC
57 AT-CAACTCATATTGCGAG
** * * * * * * ** * *
11579687 ACCTGAGTTCCA-CC-AGACGATAGGTTTTGGT-ATTTTGATGCTGTTACTTCCGTTTTC--AAA
1 AGGTGAGTT-GAGCCTCG-GGACACGCTGAGGTAATTTT-A--AT-TT-C-T--ATTTTCAAAAA
* *
11579747 ATTCAACTTATATTGCGAG
56 AATCAACTCATATTGCGAG
** * *
11579766 AAATGGGTTGAGCCTCGGGACACGCTAAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579831 TATTGCGAG
66 TATTGCGAG
*
11579840 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTATATTTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11579905 TATTGCGAG
66 TATTGCGAG
*
11579914 AGGTGAGGTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
*
11579979 TATTGCAAG
66 TATTGCGAG
* * * * *
11579988 AGATGAATTGAGCCTCGAGACACGCTGAGGTAATTTTAAGTTCTATTTTAAAAAAAAAATCAACT
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTT--CAAAAAAATCAACT
11580053 CATATTGCGAG
64 CATATTGCGAG
* * *
11580064 AGATGAATTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTTAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11580129 TATTGCGAG
66 TATTGCGAG
* * * * * *
11580138 AGATGAATTGAGCCTTGGGACATGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
11580203 TATTGCGAG
66 TATTGCGAG
** ** *
11580212 AAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCTATTTTC--AAAAATCAACTC
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTT-AATTTCTATTTTCAAAAAAATCAACTC
11580274 ATATTGCGAG
65 ATATTGCGAG
* * * * * **
11580284 AGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTCAATTTGTGTTGTGAAAAAAAATCAAC
1 AGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTTAATTTCTATT-TTCAAAAAAATCAAC
*
11580349 TCGTATTGCGAG
63 TCATATTGCGAG
* ** ** * *
11580361 AGGCGAGTTGAGCCTCAAGACATACTGAGGT-ATTGTCAATTTTTTGTATGTTTC--AAAAATCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT-TTAA---TTTCTAT-TTTCAAAAAAATCA
*
11580423 ACTCATATTACGAG
61 ACTCATATTGCGAG
*** * * *
11580437 AGGTGAGTTGAGCCTCAACACATGCTGAGGT-ATTGTCAATTTTTTGTATGTTTC--AAAAATCA
1 AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT-TTAA---TTTCTAT-TTTCAAAAAAATCA
11580499 ACTCATATTGCGAG
61 ACTCATATTGCGAG
* * *
11580513 AGGTGAATTGAGCCTCAGGACACGTTGAG
1 AGGTGAGTTGAGCCTCGGGACACGCTGAG
11580542 TGAGTTGAGC
Statistics
Matches: 1272, Mismatches: 185, Indels: 115
0.81 0.12 0.07
Matches are distributed among these distances:
71 75 0.06
72 104 0.08
73 278 0.22
74 488 0.38
75 31 0.02
76 197 0.15
77 45 0.04
78 17 0.01
79 21 0.02
80 7 0.01
81 1 0.00
82 5 0.00
83 1 0.00
84 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (74 bp):
AGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTCTATTTTCAAAAAAATCAACTCA
TATTGCGAG
Found at i:11582066 original size:3 final size:3
Alignment explanation
Indices: 11582051--11582100 Score: 66
Period size: 3 Copynumber: 16.3 Consensus size: 3
11582041 GTTATTTTCA
*
11582051 TAT TAT TAA TAT TAT TAT TATT TAT TAT TAT TAT TAT TA- TAGT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT
11582097 TAT T
1 TAT T
11582101 GTACATTAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 35 0.83
4 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11582077 original size:19 final size:19
Alignment explanation
Indices: 11582053--11582090 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11582043 TATTTTCATA
11582053 TTATTAATATTATTATTAT
1 TTATTAATATTATTATTAT
*
11582072 TTATTATTATTATTATTAT
1 TTATTAATATTATTATTAT
11582091 AGTTATTATT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTAATATTATTATTAT
Found at i:11582207 original size:3 final size:3
Alignment explanation
Indices: 11582199--11582225 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
11582189 TGTGTTTCAA
11582199 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
11582226 ATATCCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11587884 original size:15 final size:15
Alignment explanation
Indices: 11587864--11587903 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
11587854 AAGCCATCAA
11587864 ACGCCCGTGTCTATC
1 ACGCCCGTGTCTATC
11587879 ACGCCCGTGTCTATC
1 ACGCCCGTGTCTATC
*
11587894 GCGCCCGTGT
1 ACGCCCGTGT
11587904 GGCACGCGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.10, C:0.40, G:0.25, T:0.25
Consensus pattern (15 bp):
ACGCCCGTGTCTATC
Found at i:11597918 original size:16 final size:17
Alignment explanation
Indices: 11597897--11597929 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11597887 TGTAATTGAT
*
11597897 ATATAGGCA-AACAATA
1 ATATAGACATAACAATA
11597913 ATATAGACATAACAATA
1 ATATAGACATAACAATA
11597930 GTTGCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (17 bp):
ATATAGACATAACAATA
Found at i:11600410 original size:61 final size:61
Alignment explanation
Indices: 11600341--11600464 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
11600331 TAGAAAATAA
11600341 TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
1 TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
11600402 TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
1 TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
11600463 TA
1 TA
11600465 CTGGTTTGTA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (61 bp):
TATAAATGATTGAAGGAAATATAATTTATAAAAGAATGAAATTGGGAGAATTAACTTAGAT
Found at i:11600440 original size:30 final size:30
Alignment explanation
Indices: 11600345--11600440 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
11600335 AAATAATATA
11600345 AATGATTGAAGGAAATATAATTTATAAAAG
1 AATGATTGAAGGAAATATAATTTATAAAAG
* * *
11600375 AATGAAATTG--GGAGAAT-TAACTTAGATTATA-
1 AATG--ATTGAAGGA-AATATAA-TT-TATAAAAG
11600406 AATGATTGAAGGAAATATAATTTATAAAAG
1 AATGATTGAAGGAAATATAATTTATAAAAG
11600436 AATGA
1 AATGA
11600441 AATTGGGAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
29 8 0.16
30 20 0.39
31 15 0.29
32 8 0.16
ACGTcount: A:0.51, C:0.01, G:0.18, T:0.30
Consensus pattern (30 bp):
AATGATTGAAGGAAATATAATTTATAAAAG
Found at i:11602777 original size:17 final size:16
Alignment explanation
Indices: 11602747--11602781 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
11602737 TTAAAAAATT
*
11602747 TAAAAAAATTTAAAAA
1 TAAAAAAATATAAAAA
11602763 TAAAAAAACTATAAAAA
1 TAAAAAAA-TATAAAAA
11602780 TA
1 TA
11602782 CTTTCAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAAAAATATAAAAA
Found at i:11603446 original size:3 final size:3
Alignment explanation
Indices: 11603438--11603471 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11603428 AATTGCAAAC
11603438 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
11603472 TAACAGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11613268 original size:22 final size:24
Alignment explanation
Indices: 11613240--11613286 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11613230 ATTATTAAAA
*
11613240 TTAT-AAAAT-TATATTTTAATTT
1 TTATAAAAATATATAGTTTAATTT
11613262 TTATAAAAATATATAGTTTAATTT
1 TTATAAAAATATATAGTTTAATTT
11613286 T
1 T
11613287 ACTTTTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 5 0.23
24 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTATAAAAATATATAGTTTAATTT
Found at i:11615336 original size:11 final size:11
Alignment explanation
Indices: 11615320--11615344 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11615310 ATATTTTTGT
11615320 AAAAAAAAAGA
1 AAAAAAAAAGA
11615331 AAAAAAAAAGA
1 AAAAAAAAAGA
11615342 AAA
1 AAA
11615345 CTAGAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:11629940 original size:43 final size:43
Alignment explanation
Indices: 11629893--11629978 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
11629883 ATCAGTGCAA
* *
11629893 CAATTAAAGGAATGATATTTTAGGATCTTTAGCTATATTAGTG
1 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
11629936 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
1 CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
11629979 GATGTATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (43 bp):
CAATTAAAAGAATGATATTCTAGGATCTTTAGCTATATTAGTG
Found at i:11634509 original size:28 final size:28
Alignment explanation
Indices: 11634461--11634515 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
11634451 TATGACATTT
11634461 TTTTATTTTATATGTTCAATTACTTTTAG
1 TTTTATTTTATATGTTCAATTA-TTTTAG
*
11634490 TTTTATTTATTTAT-TT-AATTATTTTA
1 TTTTATTT-TATATGTTCAATTATTTTA
11634516 TTAATTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 5 0.21
29 10 0.42
30 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTTATTTTATATGTTCAATTATTTTAG
Found at i:11634867 original size:27 final size:27
Alignment explanation
Indices: 11634826--11634877 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11634816 AAGTGTCAAT
* * *
11634826 TTTAAGTATCGAATTAGGAAAAAAATA
1 TTTAAGTACCAAATTAAGAAAAAAATA
11634853 TTTAAGTACCAAATTAAGAAAAAAA
1 TTTAAGTACCAAATTAAGAAAAAAA
11634878 AATCAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.27
Consensus pattern (27 bp):
TTTAAGTACCAAATTAAGAAAAAAATA
Found at i:11635629 original size:9 final size:9
Alignment explanation
Indices: 11635604--11635664 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
11635594 TTTTCATTTT
11635604 TTAAA-TAA
1 TTAAATTAA
* *
11635612 TTTATTTAA
1 TTAAATTAA
11635621 TTAAATTAA
1 TTAAATTAA
**
11635630 AAAAATTAA
1 TTAAATTAA
*
11635639 TTAAACTAA
1 TTAAATTAA
11635648 TTAAATTAA
1 TTAAATTAA
11635657 --AAATTAA
1 TTAAATTAA
11635664 T
1 T
11635665 GATCTAACTA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
7 7 0.17
8 3 0.07
9 31 0.76
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
TTAAATTAA
Found at i:11639191 original size:92 final size:91
Alignment explanation
Indices: 11639073--11639287 Score: 279
Period size: 92 Copynumber: 2.3 Consensus size: 91
11639063 CCTTTTTGCA
* * *
11639073 TATATTTATTTGATCTAGTAGTTAAGCTGCAAATTACCGGTATAGCGGTTTACCGCATCGCATTG
1 TATA-TTATCTGATCTGGCAGTTAAGCTGCAAATTACCGGTATAGCGGTTTACCGCATCGCATTG
*
11639138 TACCGTATGTACGTTAGCTAGGCTACG
65 TACCGCATGTACGTTAGCTAGGCTACG
* * * * *
11639165 TATCATTATCTGATCTGGCAGTTAAGCTACAAATTATCGGTATAGCGGTTTACTGTATTGCATTG
1 TAT-ATTATCTGATCTGGCAGTTAAGCTGCAAATTACCGGTATAGCGGTTTACCGCATCGCATTG
*
11639230 TACCGCATGTACGTTAGCTATGCTACG
65 TACCGCATGTACGTTAGCTAGGCTACG
* *
11639257 TATGTATATCTGATTTGGCAGTTCAA-CTGCA
1 TATAT-TATCTGATCTGGCAGTT-AAGCTGCA
11639288 TGTTGATAAG
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
91 1 0.01
92 103 0.96
93 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (91 bp):
TATATTATCTGATCTGGCAGTTAAGCTGCAAATTACCGGTATAGCGGTTTACCGCATCGCATTGT
ACCGCATGTACGTTAGCTAGGCTACG
Found at i:11640730 original size:14 final size:14
Alignment explanation
Indices: 11640711--11640744 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11640701 TTGTTTCACT
11640711 GAAAATGACTTCTA
1 GAAAATGACTTCTA
* *
11640725 GAAAATGATTTCTG
1 GAAAATGACTTCTA
11640739 GAAAAT
1 GAAAAT
11640745 AATTTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (14 bp):
GAAAATGACTTCTA
Found at i:11641263 original size:15 final size:15
Alignment explanation
Indices: 11641208--11641264 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
11641198 TTTATGCTAC
*
11641208 AAAACATTTATTATT
1 AAAATATTTATTATT
* *
11641223 AATATATTTATAATTGT
1 AAAATATTTATTA-T-T
11641240 AACAAATATTTATTATT
1 -A-AAATATTTATTATT
11641257 AAAATATT
1 AAAATATT
11641265 AATATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:11641385 original size:22 final size:22
Alignment explanation
Indices: 11641345--11641400 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
11641335 AATAAAATTG
*
11641345 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
11641365 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
11641387 TATTAATAATTTAT
1 AAATAATAAATTAT
11641401 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:11645117 original size:40 final size:40
Alignment explanation
Indices: 11645062--11645283 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
11645052 TATTCGGATG
*
11645062 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
11645102 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
11645142 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
11645182 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11645222 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
11645262 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
11645284 TACTTGGGTT
Statistics
Matches: 174, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
39 14 0.08
40 158 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:11646870 original size:18 final size:18
Alignment explanation
Indices: 11646829--11646873 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
11646819 TCTTTATTGT
* *
11646829 TCAGTATTAGTCAGTCAA
1 TCAGTAATAATCAGTCAA
*
11646847 -CAGTAATAATCAGTTAA
1 TCAGTAATAATCAGTCAA
11646864 TCAGTAATAA
1 TCAGTAATAA
11646874 CCATTTATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (18 bp):
TCAGTAATAATCAGTCAA
Found at i:11646885 original size:18 final size:18
Alignment explanation
Indices: 11646847--11646886 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11646837 AGTCAGTCAA
*
11646847 CAGTAATAATCAGTTAAT
1 CAGTAATAACCAGTTAAT
* *
11646865 CAGTAATAACCATTTATT
1 CAGTAATAACCAGTTAAT
11646883 CAGT
1 CAGT
11646887 TACAGTCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
CAGTAATAACCAGTTAAT
Found at i:11646896 original size:18 final size:18
Alignment explanation
Indices: 11646875--11646923 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
11646865 CAGTAATAAC
*
11646875 CATTTATTCAGT-TACAGT
1 CATTTATTCAATAT-CAGT
11646893 CATTTATTCAATATCAGT
1 CATTTATTCAATATCAGT
*
11646911 CAATTATTCAATA
1 CATTTATTCAATA
11646924 GTAGGCAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (18 bp):
CATTTATTCAATATCAGT
Found at i:11646935 original size:18 final size:18
Alignment explanation
Indices: 11646896--11646938 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11646886 TTACAGTCAT
*
11646896 TTATTCAATATCAGTCAA
1 TTATTCAATATCAGGCAA
*
11646914 TTATTCAATAGT-AGGCAG
1 TTATTCAATA-TCAGGCAA
11646932 TTATTCA
1 TTATTCA
11646939 GTACCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (18 bp):
TTATTCAATATCAGGCAA
Found at i:11647070 original size:6 final size:6
Alignment explanation
Indices: 11647053--11647083 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11647043 TACACCGTGT
*
11647053 CAGTAA CGGTAA CAGTAA CAGTAA CAGTAA C
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA C
11647084 GGTACATAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (6 bp):
CAGTAA
Found at i:11647070 original size:12 final size:12
Alignment explanation
Indices: 11647053--11647087 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
11647043 TACACCGTGT
11647053 CAGTAACGGTAA
1 CAGTAACGGTAA
*
11647065 CAGTAACAGTAA
1 CAGTAACGGTAA
11647077 CAGTAACGGTA
1 CAGTAACGGTA
11647088 CATAGGGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (12 bp):
CAGTAACGGTAA
Found at i:11647169 original size:51 final size:53
Alignment explanation
Indices: 11647063--11647181 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
11647053 CAGTAACGGT
* *
11647063 AACAGTAACAGTAACAGTAACGGTACATAGGGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAACAATAACGGTA-ATAGGGTACCTCATCAGAACAAATCCGG
* **
11647117 AACAGTAACAGTAACAATAA-GGT-AT-GGAGTACCTCTTCAGAATGAATCCGG
1 AACAGTAACAGTAACAATAACGGTAATAGG-GTACCTCATCAGAACAAATCCGG
11647168 AACAGTAACAGTAA
1 AACAGTAACAGTAA
11647182 GGCGACACTT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 2 0.03
51 35 0.59
53 3 0.05
54 19 0.32
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAATAACGGTAATAGGGTACCTCATCAGAACAAATCCGG
Found at i:11653553 original size:24 final size:24
Alignment explanation
Indices: 11653526--11653571 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
11653516 AGGTATCGTG
11653526 ACCTTAATTTTATAAATTGAGTAT
1 ACCTTAATTTTATAAATTGAGTAT
*
11653550 ACCTTGATTTTATAAATTGAGT
1 ACCTTAATTTTATAAATTGAGT
11653572 CATAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (24 bp):
ACCTTAATTTTATAAATTGAGTAT
Found at i:11654835 original size:42 final size:41
Alignment explanation
Indices: 11654770--11654890 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 41
11654760 AGCTTCTGTT
* * ** *
11654770 AACTCATATGAGTTTCCGTTTAACCCTAATGGGTTTCAGTTC
1 AACTCATACGAGCTTCTATTTAACCCTTATGGGTTTCA-TTC
* ** *
11654812 AACTCTTTTGAGCTT-TAATTTAACCTTTATGGGTTTTCATTC
1 AACTCATACGAGCTTCT-ATTTAACCCTTATGGG-TTTCATTC
* *
11654854 ATCTCATACGAGCTTCTATTCAACCCTTATGGGTTTC
1 AACTCATACGAGCTTCTATTTAACCCTTATGGGTTTC
11654891 TGTTTAGCAG
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
41 4 0.06
42 53 0.84
43 6 0.10
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (41 bp):
AACTCATACGAGCTTCTATTTAACCCTTATGGGTTTCATTC
Found at i:11655498 original size:12 final size:12
Alignment explanation
Indices: 11655467--11655500 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11655457 CCCTGTTTTC
*
11655467 ACACGGCTTGTG
1 ACACGGGTTGTG
11655479 ACACGGGTTGTG
1 ACACGGGTTGTG
*
11655491 ACATGGGTTG
1 ACACGGGTTG
11655501 AGTTGGTACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (12 bp):
ACACGGGTTGTG
Found at i:11659428 original size:37 final size:37
Alignment explanation
Indices: 11659369--11659440 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
11659359 AGCTCAGACG
*
11659369 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
11659406 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
11659441 ATATATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:11659644 original size:50 final size:48
Alignment explanation
Indices: 11659586--11659770 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
11659576 GCACATCGCC
*
11659586 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
11659636 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
11659684 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
11659732 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
11659771 TGCATGTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
48 80 0.65
49 2 0.02
50 41 0.33
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Done.