Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 167 of 185
Found at i:51030218 original size:14 final size:14
Alignment explanation
Indices: 51030192--51030235 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
51030182 TAAGGTTTGG
51030192 TTAATTAAATTTTAA
1 TTAATT-AATTTTAA
*
51030207 TTAATTAATTTTGA
1 TTAATTAATTTTAA
*
51030221 TTAATTAAGTTTAA
1 TTAATTAATTTTAA
51030235 T
1 T
51030236 CCAAGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 20 0.77
15 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
TTAATTAATTTTAA
Found at i:51031967 original size:41 final size:42
Alignment explanation
Indices: 51031922--51032096 Score: 121
Period size: 41 Copynumber: 4.3 Consensus size: 42
51031912 GATTCACTGG
**
51031922 CACTTTA-CCTGATAGGCTTATAGTTTAATTCAGTTCACCGA
1 CACTTTAGCCTGATAGGCTTATAGCCTAATTCAGTTCACCGA
* * * *
51031963 CAC-TTAGCCTGTTAGGCTTGTAGCCTGATTCAGTTCACCGG
1 CACTTTAGCCTGATAGGCTTATAGCCTAATTCAGTTCACCGA
* * * * * *
51032004 CAC-TTAGCCTGCTAGACGTATAGTCC-GATTCAATTCACCGG
1 CACTTTAGCCTGATAGGCTTATAG-CCTAATTCAGTTCACCGA
* * * * * *
51032045 CA-TTTAGCCTGCTAGACGTATAGTCC-GATTCAATTCACCGG
1 CACTTTAGCCTGATAGGCTTATAG-CCTAATTCAGTTCACCGA
51032086 CAC-TTAGCCTG
1 CACTTTAGCCTG
51032097 CTAGACGTAT
Statistics
Matches: 119, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
40 3 0.03
41 114 0.96
42 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (42 bp):
CACTTTAGCCTGATAGGCTTATAGCCTAATTCAGTTCACCGA
Found at i:51032123 original size:41 final size:41
Alignment explanation
Indices: 51031949--51032110 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
51031939 TTATAGTTTA
* * * * * *
51031949 ATTCAGTTCACCGACACTTAGCCTGTTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
*
51031990 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
51032031 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
51032072 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
51032111 TGAATAATTT
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
41 110 0.98
42 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:51054076 original size:13 final size:13
Alignment explanation
Indices: 51054041--51054080 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
51054031 CGGAGCATAG
51054041 ATTAAAAGAAAATT
1 ATTAAAA-AAAATT
*
51054055 -TTGAAAAAAATT
1 ATTAAAAAAAATT
51054067 ATTAAAAAAAATT
1 ATTAAAAAAAATT
51054080 A
1 A
51054081 AATCATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (13 bp):
ATTAAAAAAAATT
Found at i:51065619 original size:13 final size:13
Alignment explanation
Indices: 51065576--51065625 Score: 66
Period size: 14 Copynumber: 3.8 Consensus size: 13
51065566 CGCTGAGGTC
*
51065576 TTTTCAAATTCTG
1 TTTTCAATTTCTG
51065589 TTTT-AATTTCTG
1 TTTTCAATTTCTG
51065601 CTTTTCAATTTCTG
1 -TTTTCAATTTCTG
51065615 TTTTCCAATTT
1 TTTT-CAATTT
51065626 ATATTTTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 7 0.21
13 12 0.36
14 14 0.42
ACGTcount: A:0.18, C:0.16, G:0.06, T:0.60
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:51065633 original size:28 final size:26
Alignment explanation
Indices: 51065575--51065638 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
51065565 ACGCTGAGGT
* *
51065575 CTTTTCAAATTCTGTTTTAATTTCTG
1 CTTTTCAAATTCTGTTTTAATTTATA
*
51065601 CTTTTCAATTTCTGTTTTCCAATTTATA
1 CTTTTCAAATTCTGTTTT--AATTTATA
*
51065629 TTTTTCAAAT
1 CTTTTCAAAT
51065639 CACTCATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 17 0.55
28 14 0.45
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.58
Consensus pattern (26 bp):
CTTTTCAAATTCTGTTTTAATTTATA
Found at i:51066500 original size:29 final size:29
Alignment explanation
Indices: 51066458--51066579 Score: 147
Period size: 29 Copynumber: 4.0 Consensus size: 29
51066448 ATCTTAGCTT
51066458 TTTCCACCACCAACTCCACTAGCCACACC
1 TTTCCACCACCAACTCCACTAGCCACACC
*
51066487 TTTCCACCACCAACTCCACTAGCCA-TCC
1 TTTCCACCACCAACTCCACTAGCCACACC
51066515 TTTCCACACACTCCCACCAAACTCCACTAGCCACACC
1 TTT---C-CA---CCACC-AACTCCACTAGCCACACC
*
51066552 TTTCCACCACCAAATCCACTAGCCACAC
1 TTTCCACCACCAACTCCACTAGCCACAC
51066580 TTGCTCCATT
Statistics
Matches: 81, Mismatches: 3, Indels: 18
0.79 0.03 0.18
Matches are distributed among these distances:
28 5 0.06
29 41 0.51
30 5 0.06
31 1 0.01
32 2 0.02
33 2 0.02
34 1 0.01
35 5 0.06
36 14 0.17
37 5 0.06
ACGTcount: A:0.29, C:0.50, G:0.03, T:0.18
Consensus pattern (29 bp):
TTTCCACCACCAACTCCACTAGCCACACC
Found at i:51067175 original size:22 final size:21
Alignment explanation
Indices: 51067128--51067250 Score: 54
Period size: 22 Copynumber: 5.7 Consensus size: 21
51067118 ATTCTTTTAA
* * *
51067128 TATATTAGGTATATTTTAATTC
1 TATATTACGTATATTAT-ATTT
51067150 TATATTACGTATATATATATTT
1 TATATTACGTATAT-TATATTT
* * *
51067172 TATACTA-TTTTATTATATTT
1 TATATTACGTATATTATATTT
* **
51067192 TTTATTATTTATTTATATATATTT
1 TATATTACGTA--TAT-TATATTT
* *
51067216 TCTGTTATC-T-TATTATATTT
1 TATATTA-CGTATATTATATTT
*
51067236 ATATATTATGTATAT
1 -TATATTACGTATAT
51067251 ATTTTAACAT
Statistics
Matches: 77, Mismatches: 15, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
20 19 0.25
21 15 0.19
22 25 0.32
23 5 0.06
24 13 0.17
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
TATATTACGTATATTATATTT
Found at i:51067182 original size:10 final size:9
Alignment explanation
Indices: 51067163--51067256 Score: 54
Period size: 10 Copynumber: 10.2 Consensus size: 9
51067153 ATTACGTATA
51067163 TATATATTT
1 TATATATTT
51067172 TATACTATTT
1 TATA-TATTT
51067182 TATTATATTT
1 TA-TATATTT
51067192 T-T-TATTAT
1 TATATATT-T
*
51067200 T-TAT-TTA
1 TATATATTT
51067207 TATATATTT
1 TATATATTT
* * *
51067216 TCTGTTATCT
1 TAT-ATATTT
51067226 TAT-TATATT
1 TATATAT-TT
51067235 TATATATTAT
1 TATATATT-T
51067245 GTATATATTT
1 -TATATATTT
51067255 TA
1 TA
51067257 ACATATTATG
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
7 5 0.07
8 12 0.18
9 16 0.24
10 24 0.36
11 10 0.15
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TATATATTT
Found at i:51067196 original size:12 final size:12
Alignment explanation
Indices: 51067179--51067216 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51067169 TTTTATACTA
51067179 TTTTATTATATT
1 TTTTATTATATT
51067191 TTTTATTAT-TT
1 TTTTATTATATT
*
51067202 ATTTATATATATT
1 TTTTAT-TATATT
51067215 TT
1 TT
51067217 CTGTTATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 7 0.32
12 12 0.55
13 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTATTATATT
Found at i:51067200 original size:20 final size:20
Alignment explanation
Indices: 51067165--51067256 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
51067155 TACGTATATA
*
51067165 TATATTTTATACTATTTTAT
1 TATATTTTATATTATTTTAT
*
51067185 TATATTTTTTATTATTTATTTAT
1 TATATTTTATATTA--T-TTTAT
* * *
51067208 ATATATTTTCTGTTATCTTAT
1 -TATATTTTATATTATTTTAT
*
51067229 TATATTTATATATTA-TGTA-
1 TATATTT-TATATTATTTTAT
51067248 TATATTTTA
1 TATATTTTA
51067257 ACATATTATG
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
18 2 0.03
19 7 0.12
20 21 0.36
21 9 0.16
22 2 0.03
23 5 0.09
24 12 0.21
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (20 bp):
TATATTTTATATTATTTTAT
Found at i:51067223 original size:24 final size:24
Alignment explanation
Indices: 51067180--51067239 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
51067170 TTTATACTAT
*
51067180 TTTATTATATTTTTTATTAT-TTA
1 TTTATTATATTTTCTATTATCTTA
*
51067203 TTTATATATATTTTCTGTTATCTTA
1 TTTAT-TATATTTTCTATTATCTTA
51067228 TTATATTTATAT
1 TT-TA-TTATAT
51067240 ATTATGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 13 0.42
25 5 0.16
26 7 0.23
27 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTATTATATTTTCTATTATCTTA
Found at i:51067262 original size:21 final size:21
Alignment explanation
Indices: 51067238--51067278 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
51067228 TTATATTTAT
*
51067238 ATATTATGTATATATTTTAAC
1 ATATTATGTACATATTTTAAC
51067259 ATATTATGTACATATTTTAA
1 ATATTATGTACATATTTTAA
51067279 TATTATACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (21 bp):
ATATTATGTACATATTTTAAC
Found at i:51067313 original size:22 final size:21
Alignment explanation
Indices: 51067271--51067313 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51067261 ATTATGTACA
*
51067271 TATTTTAATATTATACGTATT
1 TATTTTAATATTATACATATT
* *
51067292 TATTTTTATATATGTACATATT
1 TATTTTAATAT-TATACATATT
51067314 GATGTAGTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TATTTTAATATTATACATATT
Found at i:51067414 original size:16 final size:16
Alignment explanation
Indices: 51067395--51067454 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
51067385 ATTTCTATTT
51067395 TATTTTTATTTTTCAA
1 TATTTTTATTTTTCAA
* *
51067411 TATTATTATTATTCTAA
1 TATTTTTATTTTTC-AA
*
51067428 TATTTTGATATTTT-AA
1 TATTTTTAT-TTTTCAA
*
51067444 TATTTATATTT
1 TATTTTTATTT
51067455 ATATTTTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 2 0.06
16 21 0.60
17 9 0.26
18 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTTTTATTTTTCAA
Found at i:51069770 original size:20 final size:22
Alignment explanation
Indices: 51069745--51069787 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
51069735 CGAGACTTGA
51069745 GAACTTT-TT-TCTCGAGACAT
1 GAACTTTATTGTCTCGAGACAT
*
51069765 GAACTTTATTGTCTTGAGACAT
1 GAACTTTATTGTCTCGAGACAT
51069787 G
1 G
51069788 TAGACATCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (22 bp):
GAACTTTATTGTCTCGAGACAT
Found at i:51070724 original size:23 final size:23
Alignment explanation
Indices: 51070698--51070744 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
51070688 ATCTAGATAG
*
51070698 AAAAACAACTAATTGATATATTT
1 AAAAACAACTAATCGATATATTT
51070721 AAAAACAACTAATCGATATATTT
1 AAAAACAACTAATCGATATATTT
51070744 A
1 A
51070745 GTAAGCCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (23 bp):
AAAAACAACTAATCGATATATTT
Found at i:51078364 original size:19 final size:19
Alignment explanation
Indices: 51078340--51078377 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
51078330 AATTCTTCAG
51078340 CTATTCTAAATTCTAACAA
1 CTATTCTAAATTCTAACAA
51078359 CTATTCTAAATTCTAACAA
1 CTATTCTAAATTCTAACAA
51078378 GACAAAAAGA
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:0.21, G:0.00, T:0.37
Consensus pattern (19 bp):
CTATTCTAAATTCTAACAA
Found at i:51079513 original size:19 final size:19
Alignment explanation
Indices: 51079461--51079504 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
51079451 TAGTTATGCG
51079461 AAAAA-TTCATAAAATTTT
1 AAAAAGTTCATAAAATTTT
*
51079479 AAAATGTTCATAAAATTTT
1 AAAAAGTTCATAAAATTTT
51079498 AAAAAGT
1 AAAAAGT
51079505 ATTAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAAAGTTCATAAAATTTT
Found at i:51081967 original size:90 final size:91
Alignment explanation
Indices: 51081819--51081991 Score: 226
Period size: 90 Copynumber: 1.9 Consensus size: 91
51081809 TGCTGCCTGA
* * *
51081819 TGGTTCTGAATACACAACCTTTTTTGCATATAAAAATTATCAGGTAATATGTGGATGAACCACCA
1 TGGTTCTGAATACACAACCATTTTTGCAGATAAAAATTATCAGATAATATGTGGATGAACCACCA
51081884 AATTTACATG-TTTATAGTCTGCCAGG
66 AATTTACA-GATTTATAGTCTGCCAGG
* * * *
51081910 TGGTTGTGAATACACAA-CATTTTTGTAGATAAAAGTT-GCTAGATAATATGTGGATGAACCACC
1 TGGTTCTGAATACACAACCATTTTTGCAGATAAAAATTATC-AGATAATATGTGGATGAACCACC
* *
51081973 AGATTTGCAGATTTATAGT
65 AAATTTACAGATTTATAGT
51081992 TTGCGAGAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
89 2 0.03
90 53 0.75
91 16 0.23
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (91 bp):
TGGTTCTGAATACACAACCATTTTTGCAGATAAAAATTATCAGATAATATGTGGATGAACCACCA
AATTTACAGATTTATAGTCTGCCAGG
Found at i:51083792 original size:26 final size:26
Alignment explanation
Indices: 51083763--51083819 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
51083753 CAATTAAATT
*
51083763 AATT-TCTAAAATTTAAAAATTCAAAA
1 AATTATCTAAAAATT-AAAATTCAAAA
* *
51083789 AATTATTTAAAAATTAAATTTC-AAA
1 AATTATCTAAAAATTAAAATTCAAAA
51083814 AATTAT
1 AATTAT
51083820 AAAAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.33
26 10 0.37
27 8 0.30
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (26 bp):
AATTATCTAAAAATTAAAATTCAAAA
Found at i:51084595 original size:4 final size:4
Alignment explanation
Indices: 51084586--51084615 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
51084576 TTGGTACACA
51084586 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
51084616 CTGTAGTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:51095399 original size:27 final size:25
Alignment explanation
Indices: 51095352--51095410 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
51095342 GGTATAAATT
*** *
51095352 TTTTTTTTGAAAAAGTGTTAACTAAA
1 TTTTTTTTGAAAAAAAATTAA-GAAA
51095378 TTTTTTTTGAAAATAAAATTAAGAAA
1 TTTTTTTTGAAAA-AAAATTAAGAAA
51095404 TTTTTTT
1 TTTTTTT
51095411 CATAAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (25 bp):
TTTTTTTTGAAAAAAAATTAAGAAA
Found at i:51095700 original size:21 final size:21
Alignment explanation
Indices: 51095667--51095737 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
51095657 ATTAATTTTT
*
51095667 AAAA-AATTCAAAAATTTATA
1 AAAATAATTTAAAAATTTATA
*
51095687 AAAATAATTTAAAAA-ATATAA
1 AAAATAATTTAAAAATTTAT-A
* * *
51095708 AAAATATTTTTAAAATTTTTA
1 AAAATAATTTAAAAATTTATA
*
51095729 AAATTAATT
1 AAAATAATT
51095738 AATTGCTAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
20 7 0.17
21 31 0.77
22 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATAATTTAAAAATTTATA
Found at i:51099698 original size:215 final size:215
Alignment explanation
Indices: 51099325--51099756 Score: 756
Period size: 215 Copynumber: 2.0 Consensus size: 215
51099315 CATGGAGTTG
*
51099325 ATCGAAACTATAGTTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACT
1 ATCGAAACTATAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACT
* *
51099390 CGAAGATATGAATAGCTTGGTTGAACCTAAAAGAGCTTTTCATACGGTGAGATGTTGCCTAAGGG
66 CGAAGAGATGAATAGCTTGGTTGAACCTAAAAGAGCTTTTCATACGGTGAGATGTTGCCTAAAGG
* *
51099455 AAAATAAGGCAAACTGTTTATCAAGTATACTGCACTACTGAAGGTATCATTCCAGTAGGTTAAGG
131 AAAATAAGGCAAACTGTTTATCAAGTATACTGCACTACTAAAGGCATCATTCCAGTAGGTTAAGG
51099520 GCATAGATGCATGAGCCAGT
196 GCATAGATGCATGAGCCAGT
*
51099540 ATCGAAACTGTAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACT
1 ATCGAAACTATAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACT
* * *
51099605 CGAAGAGATGAATAGCTTGGTTGAAGCTGAAAGAGTTTTTCATACGGTGAGATGTTGCCTAAAGG
66 CGAAGAGATGAATAGCTTGGTTGAACCTAAAAGAGCTTTTCATACGGTGAGATGTTGCCTAAAGG
* * *
51099670 AAAATAAGGTAACCTGTTTATGAAGTATACTGCACTACTAAAGGCATCATTCCAGTAGGTTAAGG
131 AAAATAAGGCAAACTGTTTATCAAGTATACTGCACTACTAAAGGCATCATTCCAGTAGGTTAAGG
51099735 GCATAGATGCATGAGCCAGT
196 GCATAGATGCATGAGCCAGT
51099755 AT
1 AT
51099757 GGAAGGACCA
Statistics
Matches: 205, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
215 205 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (215 bp):
ATCGAAACTATAGCTTATGGGTGTTGTAGGGTCTAAGATTGGGAAAGCACAAGTAGCCAAAAACT
CGAAGAGATGAATAGCTTGGTTGAACCTAAAAGAGCTTTTCATACGGTGAGATGTTGCCTAAAGG
AAAATAAGGCAAACTGTTTATCAAGTATACTGCACTACTAAAGGCATCATTCCAGTAGGTTAAGG
GCATAGATGCATGAGCCAGT
Found at i:51101821 original size:42 final size:42
Alignment explanation
Indices: 51101723--51101881 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
51101713 AATGTGATAT
*
51101723 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTT--GA-TTA
* * * *
51101767 CGTGTAATACCATGTCTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTA
* * * *
51101809 CGTGTAAGACCATGTCTGGGATAGTGACATCGTTATTTGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-TATTTGATTA
* * **
51101852 CATGTAAGACCACATCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
51101882 TGTACGAGCC
Statistics
Matches: 96, Mismatches: 17, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
42 30 0.31
43 35 0.36
44 28 0.29
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTA
Found at i:51101859 original size:43 final size:42
Alignment explanation
Indices: 51101764--51101873 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
51101754 GATTTGAGAT
* * * * *
51101764 TTACGTGTAATACCATGTCTGGGACATTGGCGTCGTATATGA
1 TTACGTGTAAGACCATGTCTGGGATAGTGACATCGTATATGA
*
51101806 TTACGTGTAAGACCATGTCTGGGATAGTGACATCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGGATAGTGACATCG-TATATGA
* **
51101849 TTACATGTAAGACCACATCTGGGAT
1 TTACGTGTAAGACCATGTCTGGGAT
51101874 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGATAGTGACATCGTATATGA
Found at i:51104864 original size:23 final size:22
Alignment explanation
Indices: 51104821--51104878 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
51104811 AAAGGGTATC
* *
51104821 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
51104842 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
51104865 TGCATATCATATCT
1 TACAAATCATATCT
51104879 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:51106425 original size:73 final size:73
Alignment explanation
Indices: 51106343--51106508 Score: 167
Period size: 73 Copynumber: 2.3 Consensus size: 73
51106333 GGATGTATAA
* **
51106343 CAGGAAGCTCATAAGAGCCATAT-TCAGGAAGCTT-ATGCAAGCCA-ATAACGGGTAGCTCCGAA
1 CAGGAAGCTCATAAGAGCCATATATCAGGAAG-TTCAAGCAAGCCACAT--CGGAAAGCTCCGAA
51106405 GAGCCATTAAT
63 GAGCCATTAAT
* *** * * * *
51106416 TAGGAAGCTCCGGATAGCCATATATCGGGAAGTTCAAGCGAGCCACATTGGAAAGCTCCGAAGAG
1 CAGGAAGCTCATAAGAGCCATATATCAGGAAGTTCAAGCAAGCCACATCGGAAAGCTCCGAAGAG
51106481 CCATTAAT
66 CCATTAAT
*
51106489 CAAGAAGCTCATAAAGAGCC
1 CAGGAAGCTCAT-AAGAGCC
51106509 TTCAATCGGG
Statistics
Matches: 72, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
73 50 0.69
74 20 0.28
75 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (73 bp):
CAGGAAGCTCATAAGAGCCATATATCAGGAAGTTCAAGCAAGCCACATCGGAAAGCTCCGAAGAG
CCATTAAT
Found at i:51113139 original size:21 final size:21
Alignment explanation
Indices: 51113097--51113139 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
51113087 TCTTAATTCT
*
51113097 AAAAAATTCAAAGAATATATA
1 AAAAAATTCAAAAAATATATA
51113118 AAAAAATTCAAACAAATA-ATA
1 AAAAAATTCAAA-AAATATATA
51113139 A
1 A
51113140 TAAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAAATTCAAAAAATATATA
Found at i:51113572 original size:17 final size:17
Alignment explanation
Indices: 51113533--51113571 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
51113523 ATATTTTTGT
*
51113533 ATTTTTATATATTTTTA
1 ATTTTTATATATTATTA
*
51113550 AATTTTATATATTATT-
1 ATTTTTATATATTATTA
51113566 ATTTTT
1 ATTTTT
51113572 TGTCAACCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTATATATTATTA
Found at i:51117685 original size:18 final size:19
Alignment explanation
Indices: 51117655--51117691 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
51117645 TCAATAAATA
51117655 TTTTATATAAT-AATTTAG
1 TTTTATATAATAAATTTAG
51117673 TTTTA-ATAGATAAATTTAG
1 TTTTATATA-ATAAATTTAG
51117692 AGTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 7 0.41
19 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TTTTATATAATAAATTTAG
Found at i:51118382 original size:16 final size:16
Alignment explanation
Indices: 51118358--51118395 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
51118348 TTTGGTTCGC
* *
51118358 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
51118374 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
51118390 TGTAAT
1 TGTAAT
51118396 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:51118425 original size:45 final size:43
Alignment explanation
Indices: 51118374--51118468 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 43
51118364 GGATTAGAGG
*
51118374 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTG-TTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC--CTGATTTGGTTGAA
*
51118419 TGTAATGGAATAGAGGCGTAATAGTAATCCTGTATTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCCTG-ATTTGGTTGAA
51118463 TGTAAT
1 TGTAAT
51118469 AGAGGTGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
42 3 0.07
44 20 0.43
45 23 0.50
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCCTGATTTGGTTGAA
Found at i:51118651 original size:18 final size:17
Alignment explanation
Indices: 51118630--51118664 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51118620 TTATTATTAA
*
51118630 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
51118648 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
51118665 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:51118735 original size:155 final size:157
Alignment explanation
Indices: 51118517--51118831 Score: 562
Period size: 155 Copynumber: 2.0 Consensus size: 157
51118507 TAGAATACCC
*
51118517 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
51118582 TTATCAATAATAAATAATTTAATTATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
51118647 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
51118674 TTAGCAGAAATTTGTTTTGGTAAATTA-T-TTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
51118737 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAT
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
51118802 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
51118829 TTA
1 TTA
51118832 ATATTCTTAC
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
155 126 0.83
156 1 0.01
157 25 0.16
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:51118798 original size:15 final size:15
Alignment explanation
Indices: 51118774--51118815 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
51118764 TTTAAACATA
*
51118774 ATTATTATTAAATAT
1 ATTATAATTAAATAT
51118789 ATTATAATTAAAT-T
1 ATTATAATTAAATAT
*
51118803 A-TATAATTTAATA
1 ATTATAATTAAATA
51118816 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:51118902 original size:120 final size:121
Alignment explanation
Indices: 51118763--51119060 Score: 469
Period size: 120 Copynumber: 2.5 Consensus size: 121
51118753 ATTTAATCAT
* *
51118763 ATTTAAACATAATTATTATTAAATATATTATAATTAAATTATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
51118828 ATTAATATTCTTACATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTACATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
51118885 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
51118948 ATTATTATTCTTATATGAATTTATTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTACATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
51119004 ATTTGAA-ATAATTAATATTAAATATATT-TAAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTAT-AATTAAAATATATAATTTAATAAAATT
51119061 TAAAATAATT
Statistics
Matches: 165, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
119 4 0.02
120 156 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTACATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:51118933 original size:14 final size:15
Alignment explanation
Indices: 51118884--51118935 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
51118874 GTAAAATATA
51118884 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
51118899 TATTAAATATATTAT
1 AATTAAATATATTAT
51118914 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
51118927 AATTTAATA
1 AATTAAATA
51118936 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:51119071 original size:54 final size:54
Alignment explanation
Indices: 51118753--51119072 Score: 164
Period size: 59 Copynumber: 5.5 Consensus size: 54
51118743 ATAATAAATA
* * * *
51118753 ATTTAATCATATTTAAACATAATTATTATTAAATATA-TTATAATTAAATTATATA
1 ATTTAATAAAATTTAAA-ATAATTATTATTAAATATATTTA-AATTAAAATATATG
* * * *
51118808 ATTTAATAAAATTCTTAATAATTAA-TATTCTTACATGA-ATTTACTCAAATCATAATATATG
1 ATTTAATAAAA-T-TTAA-AA-TAATTATTATTAAAT-ATA-TT--T-AAATTAAAATATATG
* *
51118869 ATACTGTAAAATATAAA-TTAACATAATTATTATTAAATATA-TTATAATTAAAATATATA
1 AT--T-T--AATA-AAATTTAAAATAATTATTATTAAATATATTTA-AATTAAAATATATG
* * * * * *
51118928 ATTTAATAAAATTCTTAATAATTATTATTCTTATATGAATTTATTCAAATCATAATATATG
1 ATTTAATAAAA-T-TTAA-AA-TA--ATTATTAT-TAAATATATTTAAATTAAAATATATG
* * *
51118989 ATACTATAAAAGAAAATTTGAAATAATTAATATTAAATATATTTAAATTAAAATATATG
1 AT--T-T--AATAAAATTTAAAATAATTATTATTAAATATATTTAAATTAAAATATATG
51119048 ATTTAATAAAATTTAAAATAATTAT
1 ATTTAATAAAATTTAAAATAATTAT
51119073 AACTAATAAA
Statistics
Matches: 198, Mismatches: 34, Indels: 67
0.66 0.11 0.22
Matches are distributed among these distances:
53 3 0.02
54 22 0.11
55 9 0.05
56 7 0.04
57 18 0.09
58 8 0.04
59 38 0.19
60 13 0.07
61 33 0.17
62 9 0.05
63 15 0.08
64 9 0.05
65 1 0.01
66 10 0.05
67 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (54 bp):
ATTTAATAAAATTTAAAATAATTATTATTAAATATATTTAAATTAAAATATATG
Found at i:51119159 original size:47 final size:46
Alignment explanation
Indices: 51119108--51119251 Score: 120
Period size: 47 Copynumber: 3.1 Consensus size: 46
51119098 TTGTATAATT
*
51119108 TAAAATAATAAATATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTAATATTA-ATATAATTTAATAATAATATATAATTTCA
* * ** * *
51119155 TAAAACT-CTTAATAATAA-AT--TTTCTTATATGAATTTATACAATT--
1 TAAAA-TAATTAATATTAATATAATTTAATA-AT-AATATATA-ATTTCA
*
51119199 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTAATATT-AATATAATTTAATAATAATATATAATTTCA
51119246 TAAAAT
1 TAAAAT
51119252 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
43 6 0.08
44 14 0.19
45 14 0.19
46 12 0.17
47 20 0.28
48 6 0.08
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.42
Consensus pattern (46 bp):
TAAAATAATTAATATTAATATAATTTAATAATAATATATAATTTCA
Found at i:51119171 original size:91 final size:91
Alignment explanation
Indices: 51119076--51119283 Score: 301
Period size: 91 Copynumber: 2.3 Consensus size: 91
51119066 TAATTATAAC
* * * *
51119076 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAATAAATATTACATATAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAAT
51119141 AATATATAATTTCATAAAACTCTTAA
66 AATATATAATTTCATAAAACTCTTAA
* * *
51119167 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAAT
* *
51119232 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAACTCTTAA
*
51119258 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
51119284 CTAAAATCAA
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
91 86 0.81
92 19 0.18
93 1 0.01
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATAAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAACTCTTAA
Found at i:51119243 original size:44 final size:43
Alignment explanation
Indices: 51119057--51119243 Score: 121
Period size: 44 Copynumber: 4.1 Consensus size: 43
51119047 GATTTAATAA
* * * *
51119057 AATTTAAAATAATTATAACTAATAAAT-TATATTTTATGAATTTGTAT
1 AATTTAAAATAA-T-TAA-TATTAAATATA-ATTTAAT-AATATATAT
* *
51119104 AATTTAAAATAATAAATATTACATATAATTTAATAATAATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
* * * * *
51119148 AATTTCATAAA-ACTCTTAATAATAAAT-T-TTCTTATATGAATTTATAC
1 AATTT-A-AAATA--ATTAATATTAAATATAAT-TTA-AT-AATATATAT
51119195 AATTTAAAATAATTAATATTAAATATAATTTAATAATGATATAT
1 AATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATATAT
51119239 AATTT
1 AATTT
51119244 CATAAAATTC
Statistics
Matches: 109, Mismatches: 18, Indels: 29
0.70 0.12 0.19
Matches are distributed among these distances:
43 6 0.06
44 43 0.39
45 14 0.13
46 11 0.10
47 32 0.29
48 3 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (43 bp):
AATTTAAAATAATTAATATTAAATATAATTTAATAATATATAT
Found at i:51119258 original size:47 final size:47
Alignment explanation
Indices: 51119126--51119264 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
51119116 TAAATATTAC
* *
51119126 ATATAATTTAATAATAATATATAATTTCATAAAACTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
51119173 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
51119217 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
51119264 A
1 A
51119265 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:51128405 original size:100 final size:98
Alignment explanation
Indices: 51128261--51128459 Score: 337
Period size: 100 Copynumber: 2.0 Consensus size: 98
51128251 AAAAGGAATA
* *
51128261 ATAAAATAACACAAAAAAAATAAAAAAAATAATGAGATAATAATGATAATATAACAAAATGTACA
1 ATAAAATAACACAAAAAAAATAAAAAAAATAATGAGATAATAATGACAATAGAACAAAATGTACA
51128326 AATATGAAAAATATAAATTTTAAAATAAAAAGC
66 AATATGAAAAATATAAATTTTAAAATAAAAAGC
51128359 ATAAAATAACACAAAAAATAA-AAATAAATAATAATGAGATAATAATGACAATAGAACAAAATGT
1 ATAAAATAACACAAAAAA-AATAAA-AAA-AATAATGAGATAATAATGACAATAGAACAAAATGT
*
51128423 ACAAATATGAACAATATAAATTTTAAAATAAAAAGC
63 ACAAATATGAAAAATATAAATTTTAAAATAAAAAGC
51128459 A
1 A
51128460 AGGGAATAAT
Statistics
Matches: 95, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
98 21 0.22
99 5 0.05
100 69 0.73
ACGTcount: A:0.65, C:0.06, G:0.07, T:0.22
Consensus pattern (98 bp):
ATAAAATAACACAAAAAAAATAAAAAAAATAATGAGATAATAATGACAATAGAACAAAATGTACA
AATATGAAAAATATAAATTTTAAAATAAAAAGC
Found at i:51129193 original size:18 final size:19
Alignment explanation
Indices: 51129157--51129202 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
51129147 CTTTTTGTAA
*
51129157 TTGGACTTGTAACTTTTAT
1 TTGGGCTTGTAACTTTTAT
51129176 TTGGGCTTGTAA-TTTTAT
1 TTGGGCTTGTAACTTTTAT
51129194 TTGGG-TTGT
1 TTGGGCTTGT
51129203 TTGTAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 11 0.42
19 11 0.42
ACGTcount: A:0.15, C:0.07, G:0.24, T:0.54
Consensus pattern (19 bp):
TTGGGCTTGTAACTTTTAT
Found at i:51145294 original size:29 final size:29
Alignment explanation
Indices: 51145262--51145328 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
51145252 ACCAAAAAAA
51145262 GCCGTTTTTTTCAAAATTTACCGAAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
* * ** *
51145291 GCCGATTTTTTGATTATTTACCGGAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
*
51145320 GCCATTTTT
1 GCCGTTTTT
51145329 CGGAAAATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.42
Consensus pattern (29 bp):
GCCGTTTTTTTCAAAATTTACCGAAATGG
Found at i:51146290 original size:28 final size:29
Alignment explanation
Indices: 51146233--51146297 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
51146223 GATTTCCCGG
*
51146233 AAAAT-GGCCCATTCCGGTAAATAATCAA
1 AAAATCGGCCCATTCCGGTAAATAATAAA
* *
51146261 AAAATCGGCCCATTTCGGTAAAT-TTAAA
1 AAAATCGGCCCATTCCGGTAAATAATAAA
*
51146289 AAAAACGGC
1 AAAATCGGC
51146298 TTTTTTTGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (29 bp):
AAAATCGGCCCATTCCGGTAAATAATAAA
Found at i:51148487 original size:21 final size:22
Alignment explanation
Indices: 51148453--51148496 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
51148443 AAAGTACATT
*
51148453 TATATTATATATAAAT-TAAATA
1 TATACTATATAT-AATCTAAATA
51148475 TATACTAT-TATAATCTAAATA
1 TATACTATATATAATCTAAATA
51148496 T
1 T
51148497 TAAAATACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 10 0.50
22 7 0.35
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TATACTATATATAATCTAAATA
Found at i:51152764 original size:16 final size:16
Alignment explanation
Indices: 51152739--51152770 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51152729 TATAATTAAG
*
51152739 AAATTTTTTAAAAAAT
1 AAATTATTTAAAAAAT
51152755 AAATTATTTAAAAAAT
1 AAATTATTTAAAAAAT
51152771 TCAACATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTATTTAAAAAAT
Found at i:51157091 original size:5 final size:5
Alignment explanation
Indices: 51157081--51157107 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
51157071 AGCACTGCCT
51157081 AACCC AACCC AACCC AACCC AACCC AA
1 AACCC AACCC AACCC AACCC AACCC AA
51157108 AGTTAGGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (5 bp):
AACCC
Found at i:51161251 original size:27 final size:26
Alignment explanation
Indices: 51161208--51161258 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
51161198 AGAAAAACAA
51161208 AGAGAAGAAGAAGAAAAGAGAATTTG
1 AGAGAAGAAGAAGAAAAGAGAATTTG
51161234 AGAGAGAGAAG-AGAAAAAGAGAATT
1 AGAGA-AGAAGAAG-AAAAGAGAATT
51161259 CTAAAAAATA
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:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (26 bp):
AGAGAAGAAGAAGAAAAGAGAATTTG
Found at i:51163656 original size:35 final size:36
Alignment explanation
Indices: 51163594--51163672 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
51163584 TATATAAAAT
* * *
51163594 TATAAAATATAAATATATATAAGTATGTACATAT-A
1 TATAAAAAATAAATATATAAAAATATGTACATATAA
*
51163629 TATAAATAAATAAAT-TATAAAAATATGTACGTATAA
1 TATAAA-AAATAAATATATAAAAATATGTACATATAA
51163665 TATAAAAA
1 TATAAAAA
51163673 TGCACGCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 24 0.63
36 14 0.37
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (36 bp):
TATAAAAAATAAATATATAAAAATATGTACATATAA
Found at i:51163749 original size:3 final size:3
Alignment explanation
Indices: 51163741--51163765 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51163731 TATATGAGGA
51163741 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
51163766 GATTTATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:51164400 original size:14 final size:14
Alignment explanation
Indices: 51164381--51164416 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
51164371 TAAGGTTTGG
51164381 TTAATTAAATTTAA
1 TTAATTAAATTTAA
* *
51164395 TTAATTAATTTTGA
1 TTAATTAAATTTAA
51164409 TTAATTAA
1 TTAATTAA
51164417 GTTAATCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TTAATTAAATTTAA
Found at i:51166100 original size:41 final size:42
Alignment explanation
Indices: 51166055--51166229 Score: 121
Period size: 41 Copynumber: 4.3 Consensus size: 42
51166045 GATTCACTGG
**
51166055 CACTTTA-CCTGATAGGCTTATAGTTTAATTCAGTTCACCGA
1 CACTTTAGCCTGATAGGCTTATAGCCTAATTCAGTTCACCGA
* * * *
51166096 CAC-TTAGCCTGTTAGGCTTGTAGCCTGATTCAGTTCACCGG
1 CACTTTAGCCTGATAGGCTTATAGCCTAATTCAGTTCACCGA
* * * * * *
51166137 CAC-TTAGCCTGCTAGACGTATAGTCC-GATTCAATTCACCGG
1 CACTTTAGCCTGATAGGCTTATAG-CCTAATTCAGTTCACCGA
* * * * * *
51166178 CA-TTTAGCCTGCTAGACGTATAGTCC-GATTCAATTCACCGG
1 CACTTTAGCCTGATAGGCTTATAG-CCTAATTCAGTTCACCGA
51166219 CAC-TTAGCCTG
1 CACTTTAGCCTG
51166230 CTAGACGTAT
Statistics
Matches: 119, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
40 3 0.03
41 114 0.96
42 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (42 bp):
CACTTTAGCCTGATAGGCTTATAGCCTAATTCAGTTCACCGA
Found at i:51166256 original size:41 final size:41
Alignment explanation
Indices: 51166082--51166243 Score: 236
Period size: 41 Copynumber: 4.0 Consensus size: 41
51166072 TTATAGTTTA
* * * * * *
51166082 ATTCAGTTCACCGACACTTAGCCTGTTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
*
51166123 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
51166164 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
51166205 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
51166244 TGAATAATTT
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
41 110 0.98
42 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:51178953 original size:29 final size:29
Alignment explanation
Indices: 51178921--51178983 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
51178911 ATAATGTATA
*
51178921 ATAAACATTAAATAAA-AAATTAAAAATTT
1 ATAAACA-TAAATAAATAAACTAAAAATTT
* * *
51178950 ATAAACATATATAAATGAACTAAAATTTT
1 ATAAACATAAATAAATAAACTAAAAATTT
51178979 ATAAA
1 ATAAA
51178984 GTTGTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 7 0.24
29 22 0.76
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (29 bp):
ATAAACATAAATAAATAAACTAAAAATTT
Found at i:51183424 original size:81 final size:81
Alignment explanation
Indices: 51183315--51183739 Score: 554
Period size: 81 Copynumber: 5.2 Consensus size: 81
51183305 CTTCGACATA
* * ** * * *
51183315 TATTCATTCAAGGATTAAAAGAAGCATTACAAACTAGTATCATACAAGACGGGATTGTTAATGTT
1 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGTT
51183380 TTTGACATATAACTAG
66 TTTGACATATAACTAG
* * * * *
51183396 CATTCATCCGAGGGTTAAAAGATCCATTACGAGCTAGTATCATACAGGTCAGGATTCTTAATGTT
1 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGTT
*
51183461 TTTCGACATATAACTTG
66 TTT-GACATATAACTAG
*
51183478 TATTCATCCAAGGGTTAAAAGATCCATTACAAAATAGTATCATACAGGTA-AGGATTCTTAATG-
1 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGG-ACAGGATTCTTAATGT
* * *
51183541 ATTTCATCGTATAACTCA-
65 TTTTGA-CATATAACT-AG
*
51183559 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACATGATTCTTAATGTT
1 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGTT
** *
51183624 TTCAACGTATAACTCA-
66 TTTGACATATAACT-AG
* *
51183640 TATTCATCGAA-GGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGCT
1 TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGTT
*
51183704 TTTGACATATAACTCG
66 TTTGACATATAACTAG
51183720 TATTCATCCAAGGGTTAAAA
1 TATTCATCCAAGGGTTAAAA
51183740 AAGTTACCTT
Statistics
Matches: 300, Mismatches: 36, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
80 74 0.25
81 155 0.52
82 71 0.24
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (81 bp):
TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGTT
TTTGACATATAACTAG
Found at i:51183556 original size:163 final size:162
Alignment explanation
Indices: 51183314--51183739 Score: 572
Period size: 163 Copynumber: 2.6 Consensus size: 162
51183304 TCTTCGACAT
* * ** * * * *
51183314 ATATTCATTCAAGGATTAAAAGAAGCATTACAAACTAGTATCATACAAGACGGGATTGTTAATGT
1 ATATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGC
* * * *
51183379 TTTTGACATATAACTAGCATTCATCCGAGGGTTAAAAGATCCATTACGAGCTAGTATCATACAGG
66 TTTTGACATATAACTAGTATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGG
* * *
51183444 TCAGGATTCTTAATGTTTTTCGACATATAACTT
131 ACAGGATTCTTAATG-TTTTCAACATATAACTC
* *
51183477 GTATTCATCCAAGGGTTAAAAGATCCATTACAAAATAGTATCATACAGGTA-AGGATTCTTAATG
1 ATATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGG-ACAGGATTCTTAATG
* * *
51183541 -ATTTCATCGTATAACTCA-TATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATAC
65 CTTTTGA-CATATAACT-AGTATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATAC
* *
51183604 AGGACATGATTCTTAATGTTTTCAACGTATAACTC
128 AGGACAGGATTCTTAATGTTTTCAACATATAACTC
*
51183639 ATATTCATCGAA-GGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGC
1 ATATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGC
*
51183703 TTTTGACATATAACTCGTATTCATCCAAGGGTTAAAA
66 TTTTGACATATAACTAGTATTCATCCAAGGGTTAAAA
51183740 AAGTTACCTT
Statistics
Matches: 229, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
160 1 0.00
161 76 0.33
162 32 0.14
163 118 0.52
164 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (162 bp):
ATATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGGACAGGATTCTTAATGC
TTTTGACATATAACTAGTATTCATCCAAGGGTTAAAAGATCCATTACAAACTAGTATCATACAGG
ACAGGATTCTTAATGTTTTCAACATATAACTC
Found at i:51192285 original size:4 final size:4
Alignment explanation
Indices: 51192276--51192304 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
51192266 CTTATAATTT
51192276 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
51192305 ATTTAGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:51193452 original size:6 final size:6
Alignment explanation
Indices: 51193441--51193465 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
51193431 TGAAATTAAC
51193441 CATGCT CATGCT CATGCT CATGCT C
1 CATGCT CATGCT CATGCT CATGCT C
51193466 CTGAACCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (6 bp):
CATGCT
Found at i:51197873 original size:4 final size:4
Alignment explanation
Indices: 51197864--51197896 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
51197854 GATTTACAGG
51197864 TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA T
51197897 TTTGTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:51198547 original size:47 final size:46
Alignment explanation
Indices: 51198485--51198585 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 46
51198475 TCAAATAATA
*
51198485 TAAATAAATGTTTATATTTATGTAAAACA-CA-ACTTTAAACAATAAAT
1 TAAATAAATATTTATATTTATGTAAAACATCATA-TTTAAA-AA-AAAT
* *
51198532 TAAATAAATATTTATATTTATTTAAAACATCATATTTAAAAACAAT
1 TAAATAAATATTTATATTTATGTAAAACATCATATTTAAAAAAAAT
51198578 TAAATAAA
1 TAAATAAA
51198586 CAACTTTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
46 11 0.22
47 29 0.59
48 8 0.16
49 1 0.02
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (46 bp):
TAAATAAATATTTATATTTATGTAAAACATCATATTTAAAAAAAAT
Found at i:51203710 original size:12 final size:12
Alignment explanation
Indices: 51203695--51203745 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
51203685 ATTAGTTTAA
*
51203695 TATTTTAATTAT
1 TATTTTCATTAT
*
51203707 TATTATCATTAT
1 TATTTTCATTAT
* *
51203719 TATTGTT-ACTAC
1 TATT-TTCATTAT
51203731 TATTTTCATTAT
1 TATTTTCATTAT
51203743 TAT
1 TAT
51203746 CAATATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
11 2 0.07
12 27 0.90
13 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (12 bp):
TATTTTCATTAT
Found at i:51203765 original size:33 final size:32
Alignment explanation
Indices: 51203704--51203775 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
51203694 ATATTTTAAT
* ** *
51203704 TATTATTATCATTATTATTGTTACTACTATTT
1 TATTATTATCAATATTATTACTACTACTATTA
* *
51203736 TCATTATTATCAATATTTTTACTATTACTATTA
1 T-ATTATTATCAATATTATTACTACTACTATTA
51203769 TATTATT
1 TATTATT
51203776 CGTTTGTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.31, C:0.10, G:0.01, T:0.58
Consensus pattern (32 bp):
TATTATTATCAATATTATTACTACTACTATTA
Found at i:51212604 original size:56 final size:56
Alignment explanation
Indices: 51212521--51212634 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
51212511 GCTTGATTAA
51212521 AAACATAAAAATAACTTGAATTTCAACTCAAATTTTACAAATACCATATTCAAATT
1 AAACATAAAAATAACTTGAATTTCAACTCAAATTTTACAAATACCATATTCAAATT
51212577 AAACATAAAAATAACTTGAATTTCAACTCAAATTTTACAAATACCATATTCAAATT
1 AAACATAAAAATAACTTGAATTTCAACTCAAATTTTACAAATACCATATTCAAATT
51212633 AA
1 AA
51212635 GTCCTTACGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.32
Consensus pattern (56 bp):
AAACATAAAAATAACTTGAATTTCAACTCAAATTTTACAAATACCATATTCAAATT
Found at i:51215070 original size:45 final size:45
Alignment explanation
Indices: 51214998--51215083 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
51214988 CTTGGTAGAT
* * *
51214998 TCAGTACATAGTAACCACCTTATTAATCAATGATGTCCGGTGGAA
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
* *
51215043 TCAGCACATAGCAACTACCTTACTAATCAATGATGTTCGGT
1 TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGT
51215084 TCACATAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (45 bp):
TCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGGTGGAA
Found at i:51215144 original size:51 final size:50
Alignment explanation
Indices: 51215080--51215275 Score: 187
Period size: 51 Copynumber: 3.9 Consensus size: 50
51215070 CAATGATGTT
* * *
51215080 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * ** * *
51215131 CGATACACGTAGTATCCTGCACATAGTACTATACACGTGATTGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* ** * * ** *
51215182 CGGTACGCAAAGTAGCCTACACATAGTACTACACATGCAACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
*
51215232 CGGTACACGTAGTAGCCTGCACATAGCACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
51215276 CATTTTCACT
Statistics
Matches: 109, Mismatches: 33, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
49 2 0.02
50 36 0.33
51 70 0.64
52 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:51218048 original size:14 final size:15
Alignment explanation
Indices: 51218026--51218063 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
51218016 CAATCAAACA
51218026 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
51218040 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
51218055 ACAGAAAAT
1 CCAGAAAAT
51218064 TAAAACATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:51220839 original size:34 final size:36
Alignment explanation
Indices: 51220800--51220872 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
51220790 TTATTCTAAA
51220800 TTTTTTATAACATTTAA-AA-TTTGTCTATACTTTT
1 TTTTTTATAACATTTAATAATTTTGTCTATACTTTT
** * *
51220834 TTTTTTATAATTTTTAATAATTTTTTCTATAGTTTT
1 TTTTTTATAACATTTAATAATTTTGTCTATACTTTT
51220870 TTT
1 TTT
51220873 ATAAATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 15 0.45
35 2 0.06
36 16 0.48
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (36 bp):
TTTTTTATAACATTTAATAATTTTGTCTATACTTTT
Found at i:51220859 original size:12 final size:11
Alignment explanation
Indices: 51220833--51220881 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
51220823 TCTATACTTT
51220833 TTTTTTTATAA
1 TTTTTTTATAA
*
51220844 -TTTTTAATAA
1 TTTTTTTATAA
*
51220854 TTTTTTCTATAG
1 TTTTTT-TATAA
51220866 TTTTTTTATAAA
1 TTTTTTTAT-AA
51220878 TTTT
1 TTTT
51220882 GTAATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 9 0.29
11 8 0.26
12 14 0.45
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTTTTTATAA
Found at i:51220968 original size:9 final size:9
Alignment explanation
Indices: 51220917--51220975 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
51220907 ACATTTAAAT
51220917 ATTTTCTATA
1 ATTTT-TATA
51220927 ATTTTTTATA
1 A-TTTTTATA
51220937 ATTATTTATA
1 ATT-TTTATA
* *
51220947 A-ATTTCT-
1 ATTTTTATA
*
51220954 ATTTTTATG
1 ATTTTTATA
51220963 ATTTTTATA
1 ATTTTTATA
51220972 ATTT
1 ATTT
51220976 ATATTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
7 1 0.03
8 8 0.20
9 14 0.35
10 13 0.32
11 4 0.10
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:51220980 original size:24 final size:26
Alignment explanation
Indices: 51220929--51220990 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 26
51220919 TTTCTATAAT
*
51220929 TTTTTATAATTATTTATAAATTTCTA
1 TTTTTATAATTATTTATAAATTTATA
*
51220955 TTTTTATGATT-TTTAT-AATTTATA
1 TTTTTATAATTATTTATAAATTTATA
*
51220979 TTTTTAAAATTA
1 TTTTTATAATTA
51220991 GATTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 16 0.52
25 5 0.16
26 10 0.32
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTATAATTATTTATAAATTTATA
Found at i:51220981 original size:15 final size:16
Alignment explanation
Indices: 51220957--51220997 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
51220947 AATTTCTATT
*
51220957 TTTATGATTTTTATAA
1 TTTATGATTTTTAAAA
51220973 TTTAT-ATTTTTAAAA
1 TTTATGATTTTTAAAA
51220988 -TTA-GATTTTT
1 TTTATGATTTTT
51220998 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 9 0.39
16 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTATGATTTTTAAAA
Found at i:51222733 original size:21 final size:21
Alignment explanation
Indices: 51222707--51222898 Score: 102
Period size: 21 Copynumber: 9.1 Consensus size: 21
51222697 CCGAAGGCTG
*
51222707 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * *
51222728 AACAGAAACCCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* *
51222749 AACAGGAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * *
51222770 AAC-GAAAACTCATATGAGTTGA
1 AACAG-AAGCTCATAAGAGCT-A
*
51222792 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
** * * * *
51222813 AATGGAAACTCATAATAGTTG
1 AACAGAAGCTCATAAGAGCTA
*
51222834 AACAGAAGCTCA-ATAGAGCTG
1 AACAGAAGCTCATA-AGAGCTA
* * *
51222855 AACAAAAACTCATATGAG-TCA
1 AACAGAAGCTCATAAGAGCT-A
* * *
51222876 AATAGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
51222897 AA
1 AA
51222899 TGGAAAGTAA
Statistics
Matches: 122, Mismatches: 42, Indels: 14
0.69 0.24 0.08
Matches are distributed among these distances:
20 3 0.02
21 100 0.82
22 18 0.15
23 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:51222753 original size:42 final size:42
Alignment explanation
Indices: 51222705--51222898 Score: 185
Period size: 42 Copynumber: 4.6 Consensus size: 42
51222695 GCCCGAAGGC
* * *
51222705 TGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGT
* * *
51222747 TGAACAGGAGCTCGTAAGAGCTAAAC-GAAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACAG-AAACTCATAAGAGT
* ** *
51222789 TGAAACAGAAGCTCATAAGAGCTGAATGGAAACTCATAATAGT
1 TG-AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGT
* * *
51222832 TGAACAGAAGCTCA-ATAGAGCTGAACAAAAACTCATATGAGT
1 TGAACAGAAGCTCATA-AGAGCTAAACAGAAACTCATAAGAGT
** * * *
51222874 CAAATAGAAGCTCGTGAGAGCTAAA
1 TGAACAGAAGCTCATAAGAGCTAAA
51222899 TGGAAAGTAA
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 87 0.70
43 34 0.27
44 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.18
Consensus pattern (42 bp):
TGAACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGT
Found at i:51222852 original size:85 final size:84
Alignment explanation
Indices: 51222707--51222904 Score: 245
Period size: 85 Copynumber: 2.3 Consensus size: 84
51222697 CCGAAGGCTG
** * * *
51222707 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTGAACAGGAGCTCGTAAGAGCTAAA
1 AACAGAAGCTCATGAGAGCTAAATGGAAACCCATAAGAGTTGAACAGAAGCTCATAAGAGCTAAA
* *
51222772 CGAAAACTCATATGAGTTGA
66 CAAAAACTCATATGAG-TCA
* * * * *
51222792 AACAGAAGCTCATAAGAGCTGAATGGAAACTCATAATAGTTGAACAGAAGCTCA-ATAGAGCTGA
1 AACAGAAGCTCATGAGAGCTAAATGGAAACCCATAAGAGTTGAACAGAAGCTCATA-AGAGCTAA
51222856 ACAAAAACTCATATGAGTCA
65 ACAAAAACTCATATGAGTCA
* *
51222876 AATAGAAGCTCGTGAGAGCTAAATGGAAA
1 AACAGAAGCTCATGAGAGCTAAATGGAAA
51222905 GTAAACACGA
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 28 0.29
85 68 0.71
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (84 bp):
AACAGAAGCTCATGAGAGCTAAATGGAAACCCATAAGAGTTGAACAGAAGCTCATAAGAGCTAAA
CAAAAACTCATATGAGTCA
Found at i:51226831 original size:17 final size:16
Alignment explanation
Indices: 51226805--51226856 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
51226795 ACTTTTTTTT
*
51226805 AAACACGAATTTTTAA
1 AAACAAGAATTTTTAA
*
51226821 AATACAAGAA-TTTTAG
1 AA-ACAAGAATTTTTAA
*
51226837 AAACATGAATTTTTTAA
1 AAACAAGAA-TTTTTAA
51226854 AAA
1 AAA
51226857 AATATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.21
16 9 0.31
17 14 0.48
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (16 bp):
AAACAAGAATTTTTAA
Found at i:51226911 original size:17 final size:16
Alignment explanation
Indices: 51226862--51226914 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 16
51226852 AAAAAAATAT
51226862 GAAAATTTTGAAACAC
1 GAAAATTTTGAAACAC
**
51226878 GAGATTTTTTTTGAAACAC
1 GA-A--AATTTTGAAACAC
51226897 GAAAATTTATGAAACAC
1 GAAAATTT-TGAAACAC
51226914 G
1 G
51226915 GTTTTCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 5 0.17
17 10 0.34
18 1 0.03
19 13 0.45
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (16 bp):
GAAAATTTTGAAACAC
Found at i:51227401 original size:14 final size:14
Alignment explanation
Indices: 51227382--51227456 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
51227372 GAATTGAACC
*
51227382 TCTTTTTTCTTTTT
1 TCTTTTCTCTTTTT
51227396 TCTTTTCTCTTTTT
1 TCTTTTCTCTTTTT
**
51227410 T-TCCTC-CTTTTT
1 TCTTTTCTCTTTTT
*
51227422 TC-CTTCTCTTTTTCT
1 TCTTTTCTC-TTTT-T
51227437 TCTTTT-TCTTTTT
1 TCTTTTCTCTTTTT
51227450 T-TTTTCT
1 TCTTTTCT
51227457 GCTGGGCTGG
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
12 14 0.28
13 7 0.14
14 22 0.44
15 5 0.10
16 2 0.04
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTCTCTTTTT
Found at i:51227595 original size:10 final size:10
Alignment explanation
Indices: 51227577--51227635 Score: 73
Period size: 11 Copynumber: 5.6 Consensus size: 10
51227567 GGCTTGCTTC
*
51227577 TTTTCTGTTT
1 TTTTTTGTTT
51227587 TTTTTTGTTT
1 TTTTTTGTTT
51227597 TTGTTTTGTTT
1 TT-TTTTGTTT
*
51227608 TGTTTTGTTT
1 TTTTTTGTTT
51227618 TGTTTTTGTTT
1 T-TTTTTGTTT
51227629 TTGTTTT
1 TT-TTTT
51227636 TTGGGCTGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
10 21 0.49
11 22 0.51
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:51227599 original size:6 final size:6
Alignment explanation
Indices: 51227584--51227636 Score: 71
Period size: 5 Copynumber: 9.7 Consensus size: 6
51227574 TTCTTTTCTG
51227584 TTTT-T TTTTGT TTTTG- TTTTG- TTTTG- TTTTG- TTTTGT TTTTGT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
51227627 TTTTGT TTTT
1 TTTTGT TTTT
51227637 TGGGCTGCTG
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.52
6 22 0.48
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:51227727 original size:22 final size:22
Alignment explanation
Indices: 51227700--51227743 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51227690 TGTTATAATA
*
51227700 TTTTTTATTATTTCTTTTTCTT
1 TTTTTTATTATTTCTTCTTCTT
* *
51227722 TTTTTTCTTTTTTCTTCTTCTT
1 TTTTTTATTATTTCTTCTTCTT
51227744 CTTCTTCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTATTATTTCTTCTTCTT
Found at i:51227739 original size:3 final size:3
Alignment explanation
Indices: 51227711--51227762 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
51227701 TTTTTATTAT
* * *
51227711 TTC TTT TTC TTT TTT TTC TT- TT- TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
51227757 TTC TTC
1 TTC TTC
51227763 AAAACCCTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (3 bp):
TTC
Found at i:51228196 original size:28 final size:29
Alignment explanation
Indices: 51228126--51228229 Score: 113
Period size: 29 Copynumber: 3.6 Consensus size: 29
51228116 TTTGAGAAAA
* *
51228126 TTTA-GGGTAAAAATGTATTTTCAAAAAGG
1 TTTATGGGTCAAAATGTAATTTC-AAAAGG
*
51228155 -TTGTGGGTCAAAATGTAATTTCAAAAGG
1 TTTATGGGTCAAAATGTAATTTCAAAAGG
* * *
51228183 TTTATGGGTCAAATTATAATTTCAAAAAG
1 TTTATGGGTCAAAATGTAATTTCAAAAGG
* *
51228212 TTCAGGGGTCAAAATGTA
1 TTTATGGGTCAAAATGTA
51228230 TTTTTTGATT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 8 0.13
29 54 0.87
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (29 bp):
TTTATGGGTCAAAATGTAATTTCAAAAGG
Found at i:51228722 original size:81 final size:81
Alignment explanation
Indices: 51228408--51229406 Score: 1556
Period size: 81 Copynumber: 12.3 Consensus size: 81
51228398 AAAATTTTCT
* * * * *
51228408 TTTTATTTGAAAAACAGAAA-TT--GA-AAATACCTCGGCGTGTGGCCCGAGGCTCAACTCACCT
1 TTTT-TTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
**
51228469 CTAACAATATGAGTTGA
65 CTCGCAATATGAGTTGA
*
51228486 --TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTT
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
*
51228549 TTGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
* *
51228565 TTTTTTTTTGAAAAGACAGAAATTTAAAAGAAATACCTCAACGTGAGACCCGAAGGCTCAACTCA
1 --TTTTTTTGAAAA-ACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCG-AGGCTCAACTCA
51228630 CTTCTCGCAATATGAGTTGA
62 CTTCTCGCAATATGAGTTGA
51228650 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
51228715 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
* *
51228731 TTTTTTTTTCGAAAAACAGAGATTTAAAAGAAATACCTCA--GTGTGACCCGAGGCTCAACTCA-
1 --TTTTTTT-GAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
*
51228793 TCTCTCGCATTATGAGTTGA
63 T-TCTCGCAATATGAGTTGA
*
51228813 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCATTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
51228878 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
*
51228894 TTTTTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCATGCGACCCGAGGCTCAACTCAC
1 ---TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
51228959 TTCTCGCAATATGAGTTGA
63 TTCTCGCAATATGAGTTGA
* *
51228978 TTTTTTTCGAAAAACAGAGATTTAAAAGAAATACCTCAGCGT--GACCCGAGGCTCAACTCATTT
1 TTTTTTT-GAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
*
51229041 CTCGCATTATGAGTTGA
65 CTCGCAATATGAGTTGA
51229058 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
51229123 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
* *
51229139 TTTTCTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCATCTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
51229204 TCGCAATATGAGTTGA
66 TCGCAATATGAGTTGA
51229220 -TTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
*
51229284 TCGCAAAATGAGTTGA
66 TCGCAATATGAGTTGA
51229300 TTTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
1 -TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
51229365 CTCGCAATATGAGTTGA
65 CTCGCAATATGAGTTGA
* * *
51229382 -TTTATTGAAAAATAGAAATTGAAAA
1 TTTTTTTGAAAAACAGAAATTTAAAA
51229407 ATATTTCTTA
Statistics
Matches: 858, Mismatches: 38, Indels: 48
0.91 0.04 0.05
Matches are distributed among these distances:
75 15 0.02
76 4 0.00
78 1 0.00
79 109 0.13
80 149 0.17
81 193 0.22
82 185 0.22
83 29 0.03
84 143 0.17
85 30 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (81 bp):
TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
TCGCAATATGAGTTGA
Found at i:51228862 original size:245 final size:242
Alignment explanation
Indices: 51228408--51229406 Score: 1536
Period size: 245 Copynumber: 4.1 Consensus size: 242
51228398 AAAATTTTCT
* * * * *
51228408 TTTTATTTGAAAAACAGAAA-TT--GA-AAATACCTCGGCGTGTGGCCCGAGGCTCAACTCACCT
1 TTTT-TTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTT
**
51228469 CTAACAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCG
65 CTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCA-CGTGCGACCCG
* *
51228533 AGGCTCAACTCACTTTTTGCAATATGAGTTGATTTTTTTTTGAAAAGACAGAAATTTAAAAGAAA
129 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTTTGAAAA-ACAGAAATTTAAAAGAAA
* *
51228598 TACCTCAACGTGAGACCCGAAGGCTCAACTCACTTCTCGCAATATGAGTTGA
192 TACCTCAGCGTGCGACCCG-AGGCTCAACTCACTTCTCGCAATATGAGTTGA
51228650 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
* *
51228715 TCGCAATATGAGTTGATTTTTTTTTCGAAAAACAGAGATTTAAAAGAAATACCTCA-GTGTGACC
66 TCGCAATATGAGTTGA---TTTTTT-GAAAAACAGAAATTTAAAAGAAATACCTCACGTGCGACC
*
51228779 CGAGGCTCAACTCA-TCTCTCGCATTATGAGTTGA-TTTTTTTGAAAAACAGAAATTTAAAAGAA
127 CGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAAAGAA
*
51228842 ATACCTCAGCGTGCGACCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
191 ATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
*
51228894 TTTTTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCATGCGACCCGAGGCTCAACTCAC
1 ---TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCAC
*
51228959 TTCTCGCAATATGAGTTGATTTTTTTCGAAAAACAGAGATTTAAAAGAAATACCTCAGCGT--GA
63 TTCTCGCAATATGAGTTGA-TTTTTT-GAAAAACAGAAATTTAAAAGAAATACCTCA-CGTGCGA
* *
51229022 CCCGAGGCTCAACTCATTTCTCGCATTATGAGTTGA-TTTTTTTGAAAAACAGAAATTTAAAAGA
125 CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAAAGA
51229086 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
190 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
* *
51229139 TTTTCTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCATCTCACTTC
1 TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
51229204 TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGA
66 TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCA-CGTGCGACCCGA
*
51229269 GGCTCAACTCACTTCTCGCAAAATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAAAGAAATAC
130 GGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAAAGAAATAC
51229334 CTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
195 CTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
* * *
51229382 -TTTATTGAAAAATAGAAATTGAAAA
1 TTTTTTTGAAAAACAGAAATTTAAAA
51229407 ATATTTCTTA
Statistics
Matches: 711, Mismatches: 27, Indels: 38
0.92 0.03 0.05
Matches are distributed among these distances:
240 33 0.05
241 21 0.03
242 141 0.20
243 81 0.11
244 32 0.05
245 237 0.33
246 13 0.02
247 83 0.12
248 36 0.05
249 5 0.01
250 29 0.04
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (242 bp):
TTTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTC
TCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAGAAATACCTCACGTGCGACCCGAG
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAAAGAAATACC
TCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
Found at i:51236442 original size:17 final size:16
Alignment explanation
Indices: 51236416--51236467 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
51236406 AACTTTTTTT
*
51236416 AAACACGAATTTTTAA
1 AAACAAGAATTTTTAA
*
51236432 AATACAAGAA-TTTTAG
1 AA-ACAAGAATTTTTAA
*
51236448 AAACATGAATTTTTTAA
1 AAACAAGAA-TTTTTAA
51236465 AAA
1 AAA
51236468 ATATGAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 6 0.21
16 9 0.31
17 14 0.48
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (16 bp):
AAACAAGAATTTTTAA
Found at i:51236521 original size:17 final size:16
Alignment explanation
Indices: 51236472--51236524 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 16
51236462 TAAAAAATAT
51236472 GAAAATTTTGAAACAC
1 GAAAATTTTGAAACAC
**
51236488 GAGATTTTTTTTGAAACAC
1 GA-A--AATTTTGAAACAC
51236507 GAAAATTTATGAAACAC
1 GAAAATTT-TGAAACAC
51236524 G
1 G
51236525 GTTTTCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
16 5 0.17
17 10 0.34
18 1 0.03
19 13 0.45
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (16 bp):
GAAAATTTTGAAACAC
Found at i:51237015 original size:14 final size:14
Alignment explanation
Indices: 51236990--51237056 Score: 56
Period size: 14 Copynumber: 5.1 Consensus size: 14
51236980 GAATTGAACC
51236990 TCTTTT-TCTTTTT
1 TCTTTTCTCTTTTT
51237003 TCTTTTCTCTTTTT
1 TCTTTTCTCTTTTT
*
51237017 TC--CTC-CTTTTT
1 TCTTTTCTCTTTTT
*
51237028 TC-CTTCTCTTTTTCT
1 TCTTTTCTC-TTTT-T
51237043 TCTTTTCT-TTTTT
1 TCTTTTCTCTTTTT
51237056 T
1 T
51237057 TTCTGCTGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
11 8 0.18
12 4 0.09
13 9 0.20
14 17 0.38
15 3 0.07
16 4 0.09
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TCTTTTCTCTTTTT
Found at i:51237060 original size:15 final size:16
Alignment explanation
Indices: 51236989--51237060 Score: 57
Period size: 15 Copynumber: 4.8 Consensus size: 16
51236979 CGAATTGAAC
51236989 CTCTTTTTCTT-TTTT
1 CTCTTTTTCTTCTTTT
*
51237004 CT-TTTCTCTT-TTTT
1 CTCTTTTTCTTCTTTT
* *
51237018 CCTCCTTTT-TTC-CTT
1 -CTCTTTTTCTTCTTTT
51237033 CTCTTTTTCTTCTTTT
1 CTCTTTTTCTTCTTTT
*
51237049 CT-TTTTTTTTCT
1 CTCTTTTTCTTCT
51237061 GCTGGGCTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 18 0.40
15 20 0.44
16 7 0.16
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
CTCTTTTTCTTCTTTT
Found at i:51237202 original size:17 final size:17
Alignment explanation
Indices: 51237182--51237224 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
51237172 GGCTTGCTTC
51237182 TTTTCTGTTT-TTTTTGT
1 TTTTCT-TTTGTTTTTGT
*
51237199 TTTTGTTTTGTTTTTGT
1 TTTTCTTTTGTTTTTGT
*
51237216 TTTTGTTTT
1 TTTTCTTTT
51237225 TTGGGCTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (17 bp):
TTTTCTTTTGTTTTTGT
Found at i:51237203 original size:6 final size:6
Alignment explanation
Indices: 51237192--51237225 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
51237182 TTTTCTGTTT
51237192 TTTTTG TTTTTG -TTTTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
51237226 TGGGCTACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:51237207 original size:11 final size:11
Alignment explanation
Indices: 51237189--51237225 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
51237179 TTCTTTTCTG
51237189 TTTT-TTTTGT
1 TTTTGTTTTGT
51237199 TTTTGTTTTGT
1 TTTTGTTTTGT
51237210 TTTTGTTTTTGT
1 TTTTG-TTTTGT
51237222 TTTT
1 TTTT
51237226 TGGGCTACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.16
11 11 0.44
12 10 0.40
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTGTTTTGT
Found at i:51237306 original size:6 final size:6
Alignment explanation
Indices: 51237297--51237351 Score: 51
Period size: 6 Copynumber: 9.3 Consensus size: 6
51237287 TATTTTTTAT
* * *
51237297 TTTTTC TTTTTC -TTTT- TTTTTC TTTTTTC TTCTTC TTCTTC TTCTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC
*
51237344 TTCTTC TT
1 TTTTTC TT
51237352 CTTCAAAACC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
5 8 0.18
6 31 0.69
7 6 0.13
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:51237317 original size:23 final size:23
Alignment explanation
Indices: 51237289--51237333 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
51237279 TGTTATAATA
*
51237289 TTTTTTATTTTTTCTTTTTCTTT
1 TTTTTTATTTTTTCTTCTTCTTT
*
51237312 TTTTTTCTTTTTTCTTCTTCTT
1 TTTTTTATTTTTTCTTCTTCTT
51237334 CTTCTTCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTATTTTTTCTTCTTCTTT
Found at i:51237318 original size:10 final size:10
Alignment explanation
Indices: 51237289--51237330 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
51237279 TGTTATAATA
51237289 TTTTTTATTT-
1 TTTTTT-TTTC
*
51237299 TTTCTTTTTC
1 TTTTTTTTTC
51237309 TTTTTTTTTC
1 TTTTTTTTTC
*
51237319 TTTTTTCTTC
1 TTTTTTTTTC
51237329 TT
1 TT
51237331 CTTCTTCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 3 0.11
10 25 0.89
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:51237329 original size:3 final size:3
Alignment explanation
Indices: 51237323--51237355 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
51237313 TTTTTCTTTT
51237323 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
51237356 AAAACCCTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:51237761 original size:29 final size:28
Alignment explanation
Indices: 51237729--51237823 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 28
51237719 ATTTAGGGTA
51237729 AAAATGTAATTTCAAAAAGGTTGTAGGTC
1 AAAATGTAATTTCAAAAA-GTTGTAGGTC
*
51237758 AAAATGTAATTT-AAAAAGTTTTAGGGGTC
1 AAAATGTAATTTCAAAAAGTTGTA--GGTC
*
51237787 AAAATATAATTTCAAAAAGTTCAG-AGGTC
1 AAAATGTAATTTCAAAAAGTT--GTAGGTC
51237816 AAAATGTA
1 AAAATGTA
51237824 TTTTTTGATT
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.09
28 5 0.09
29 38 0.67
30 8 0.14
31 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (28 bp):
AAAATGTAATTTCAAAAAGTTGTAGGTC
Found at i:51237764 original size:58 final size:57
Alignment explanation
Indices: 51237700--51237828 Score: 149
Period size: 58 Copynumber: 2.2 Consensus size: 57
51237690 TTTTGGGGCT
*
51237700 AAAATGTAATTTTGAGAAAA-TTTA-GGGTAAAAATGTAATTTCAAAAAGGTT-GTAGGTC
1 AAAATGTAATTTT-A-AAAAGTTTAGGGGTAAAAATATAATTTCAAAAA-GTTAG-AGGTC
*
51237758 AAAATGTAA-TTTAAAAAGTTTTAGGGGTCAAAATATAATTTCAAAAAGTTCAGAGGTC
1 AAAATGTAATTTTAAAAAG-TTTAGGGGTAAAAATATAATTTCAAAAAGTT-AGAGGTC
*
51237816 AAAATGTATTTTT
1 AAAATGTAATTTT
51237829 TGATTTTTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
55 4 0.06
56 1 0.02
57 10 0.16
58 43 0.69
59 4 0.06
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (57 bp):
AAAATGTAATTTTAAAAAGTTTAGGGGTAAAAATATAATTTCAAAAAGTTAGAGGTC
Found at i:51238300 original size:6 final size:6
Alignment explanation
Indices: 51238289--51238314 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
51238279 TTATAGAATA
51238289 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
51238315 TTTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:51238395 original size:17 final size:18
Alignment explanation
Indices: 51238319--51238395 Score: 52
Period size: 18 Copynumber: 4.2 Consensus size: 18
51238309 ATTTTTTTTA
51238319 TTAAATAAATTTATA-TATT
1 TTAAAT-AATTTATAGT-TT
* *
51238338 TT-TATAATTTTATGATTTT
1 TTAAATAA-TTTAT-AGTTT
* * *
51238357 TTTAATAATTTTTAGTTC
1 TTAAATAATTTATAGTTT
51238375 TTAAATAATTTATA-TTT
1 TTAAATAATTTATAGTTT
51238392 TTAA
1 TTAA
51238396 TTTAAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 8 0.17
18 22 0.48
19 11 0.24
20 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (18 bp):
TTAAATAATTTATAGTTT
Found at i:51242658 original size:20 final size:19
Alignment explanation
Indices: 51242616--51242655 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
51242606 TTATTAAAAT
51242616 ATAAATTATATAAATTATTA
1 ATAAATTATAT-AATTATTA
51242636 ATAAATTATCAT-ATTATTA
1 ATAAATTAT-ATAATTATTA
51242655 A
1 A
51242656 ATATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 9 0.47
21 2 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAAATTATATAATTATTA
Found at i:51242671 original size:22 final size:22
Alignment explanation
Indices: 51242606--51242671 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
51242596 GCTAAATAAC
*
51242606 TTATTAAAATATAAATTATATAAA
1 TTATT-AAATATAAATTAT-TATA
*
51242630 TTATT--A-ATAAATTATCATA
1 TTATTAAATATAAATTATTATA
*
51242649 TTATTAAATATAAATAATTATA
1 TTATTAAATATAAATTATTATA
51242671 T
1 T
51242672 AAGTATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.20
20 9 0.26
21 2 0.06
22 12 0.34
24 5 0.14
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTATTAAATATAAATTATTATA
Found at i:51253768 original size:22 final size:20
Alignment explanation
Indices: 51253735--51253794 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
51253725 AAAATTCTAA
51253735 AAAATTTA-TAAAAATGTATT
1 AAAATTTATTAAAAAT-TATT
* *
51253755 AAAATTCTATTAAAAAATCATG
1 AAAATT-TATT-AAAAATTATT
51253777 AAAATTTTATTAAAAATT
1 AAAA-TTTATTAAAAATT
51253795 TTATTAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 6 0.18
21 8 0.24
22 11 0.33
23 8 0.24
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATTTATTAAAAATTATT
Found at i:51253794 original size:12 final size:12
Alignment explanation
Indices: 51253732--51253803 Score: 55
Period size: 12 Copynumber: 6.4 Consensus size: 12
51253722 TAAAAAATTC
*
51253732 TAAAAAATTTA-
1 TAAAAATTTTAT
*
51253743 TAAAAA-TGTAT
1 TAAAAATTTTAT
*
51253754 T-AAAATTCTAT
1 TAAAAATTTTAT
* *
51253765 TAAAAA-ATCA-
1 TAAAAATTTTAT
*
51253775 TGAAAATTTTAT
1 TAAAAATTTTAT
51253787 TAAAAATTTTAT
1 TAAAAATTTTAT
51253799 TAAAA
1 TAAAA
51253804 CTATTGACAT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
10 12 0.26
11 15 0.32
12 20 0.43
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (12 bp):
TAAAAATTTTAT
Found at i:51253803 original size:11 final size:11
Alignment explanation
Indices: 51253751--51253803 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
51253741 TATAAAAATG
*
51253751 TATTAAAATTC
1 TATTAAAATTT
**
51253762 TATTAAAAAAT
1 TATTAAAATTT
* *
51253773 CATGAAAATTT
1 TATTAAAATTT
51253784 TATTAAAAATTT
1 TATT-AAAATTT
51253796 TATTAAAA
1 TATTAAAA
51253804 CTATTGACAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (11 bp):
TATTAAAATTT
Found at i:51254268 original size:20 final size:19
Alignment explanation
Indices: 51254243--51254313 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
51254233 CCAGTTCAAG
51254243 TTTTTATGATTTATTTATAA
1 TTTTTAT-ATTTATTTATAA
*
51254263 TTTTTATAAATTTATAT-TAA
1 TTTTTAT--ATTTATTTATAA
* *
51254283 TTTTAATATTTA-TTACAA
1 TTTTTATATTTATTTATAA
51254301 TTTTT-TA-TTATTT
1 TTTTTATATTTATTT
51254314 TTTAAAGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
16 3 0.07
17 5 0.12
18 11 0.26
20 16 0.38
21 7 0.17
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTTATATTTATTTATAA
Found at i:51260547 original size:29 final size:29
Alignment explanation
Indices: 51260514--51260570 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
51260504 AAATAAATAA
* *
51260514 ATAAA-AAGAAAGAAAGATAGAAATGAAAC
1 ATAAAGAA-AAAGAAAGAAAGAAAAGAAAC
51260543 ATAAAGAAAAAGAAAGAAAGAAAAGAAA
1 ATAAAGAAAAAGAAAGAAAGAAAAGAAA
51260571 AGAAAGGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.07
Consensus pattern (29 bp):
ATAAAGAAAAAGAAAGAAAGAAAAGAAAC
Found at i:51261036 original size:5 final size:5
Alignment explanation
Indices: 51261026--51261059 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
51261016 GCAATATAAA
*
51261026 ATTGT ATTGT ATTGT ATTGT ATTTT ATTGT ATTG
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTG
51261060 ATGAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.62
Consensus pattern (5 bp):
ATTGT
Found at i:51261292 original size:24 final size:24
Alignment explanation
Indices: 51261265--51261311 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
51261255 ATTGAAATGG
51261265 ATTG-ATTTAATATGTGA-TGAATTT
1 ATTGAATTT-ATAT-TGATTGAATTT
51261289 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
51261312 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 14 0.67
25 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:51263998 original size:27 final size:27
Alignment explanation
Indices: 51263946--51263998 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
51263936 TATTCAATTT
**
51263946 ATAATTATTAATTAAAATATTTTTATG
1 ATAATTATTAATTAAAATATAGTTATG
*
51263973 ATAATTATATATTTAAAA-ATAGTTAT
1 ATAATTAT-TAATTAAAATATAGTTAT
51263999 AATTATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
ATAATTATTAATTAAAATATAGTTATG
Found at i:51267943 original size:22 final size:23
Alignment explanation
Indices: 51267896--51267943 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
51267886 CCCATTGGGC
*
51267896 AAAAAATAATTAAATAAGCAATT
1 AAAAAATAATTAAATAAGCAAGT
*
51267919 AAAAAA-ATTTAAA-AAGCCAAGT
1 AAAAAATAATTAAATAAG-CAAGT
51267941 AAA
1 AAA
51267944 CTTGGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 3 0.14
22 13 0.59
23 6 0.27
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (23 bp):
AAAAAATAATTAAATAAGCAAGT
Found at i:51269647 original size:72 final size:72
Alignment explanation
Indices: 51269530--51269663 Score: 205
Period size: 72 Copynumber: 1.9 Consensus size: 72
51269520 CGTTGAATAT
*
51269530 TTCCAGAAATGTAAGATTTGTGAATTCTGGACATAGTTCACCAAAGAGCTTGTCATGGGAGACAT
1 TTCCAGAAATGTAAGATTTGTGAATTCTGGACACAGTTCACCAAAGAGCTTGTCATGGGAGACAT
51269595 CCAACAC
66 CCAACAC
** * * * *
51269602 TTCCAGATCTGTAAGTTTTGTTAATTCTGGAGACAGTTCACCAAAGAGCTTGTTATGGGAGA
1 TTCCAGAAATGTAAGATTTGTGAATTCTGGACACAGTTCACCAAAGAGCTTGTCATGGGAGA
51269664 GATTCAACGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (72 bp):
TTCCAGAAATGTAAGATTTGTGAATTCTGGACACAGTTCACCAAAGAGCTTGTCATGGGAGACAT
CCAACAC
Found at i:51288903 original size:23 final size:24
Alignment explanation
Indices: 51288877--51288927 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
51288867 TAATTTTTAA
*
51288877 ATTTTA-AATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAATGATAAT
*
51288900 A-TTTAGGATTATTTAATGATAAT
1 ATTTTAGAATTATTTAATGATAAT
51288923 ATTTT
1 ATTTT
51288928 TAAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 17 0.71
24 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (24 bp):
ATTTTAGAATTATTTAATGATAAT
Found at i:51288904 original size:13 final size:13
Alignment explanation
Indices: 51288886--51288926 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
51288876 AATTTTAAAT
51288886 TATTTAGTGATAA
1 TATTTAGTGATAA
51288899 TATTTAG-GAT--
1 TATTTAGTGATAA
*
51288909 TATTTAATGATAA
1 TATTTAGTGATAA
51288922 TATTT
1 TATTT
51288927 TTAAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:51298353 original size:21 final size:21
Alignment explanation
Indices: 51298315--51298371 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
51298305 TTTTAAAATT
*
51298315 TAAAAATTATTTAAAAAA-TCA
1 TAAAAATTA-TAAAAAAATTCA
*
51298336 TAAAAATTATAAACAAAATTTA
1 TAAAAATTATAAA-AAAATTCA
*
51298358 TAAAAATTTTAAAA
1 TAAAAATTATAAAA
51298372 TTATAAAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 14 0.45
22 14 0.45
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAATTATAAAAAAATTCA
Found at i:51298353 original size:22 final size:21
Alignment explanation
Indices: 51298315--51298371 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
51298305 TTTTAAAATT
**
51298315 TAAAAATTATTTAAAAAATCA
1 TAAAAATTATAAAAAAAATCA
* *
51298336 TAAAAATTATAAACAAAATTTA
1 TAAAAATTATAAA-AAAAATCA
*
51298358 TAAAAATTTTAAAA
1 TAAAAATTATAAAA
51298372 TTATAAAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAAAATTATAAAAAAAATCA
Found at i:51298372 original size:30 final size:29
Alignment explanation
Indices: 51298305--51298378 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
51298295 AAGTAAGCCC
*
51298305 TTTTAAAATT-TAAAAATTATTTAAAAAA
1 TTTTAAAATTATAAAAATAATTTAAAAAA
* *
51298333 TCATAAAAATTATAAACAA-AATTTATAAAAA
1 T-TTTAAAATTATAAA-AATAATTTA-AAAAA
51298364 TTTTAAAATTATAAA
1 TTTTAAAATTATAAA
51298379 GTTTTCATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 7 0.19
30 21 0.57
31 8 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (29 bp):
TTTTAAAATTATAAAAATAATTTAAAAAA
Done.