Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004583.1 Hibiscus syriacus cultivar Beakdansim tig00010233_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67921
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Found at i:4369 original size:14 final size:14
Alignment explanation
Indices: 4350--4401 Score: 104
Period size: 14 Copynumber: 3.7 Consensus size: 14
4340 GGGTCGAATT
4350 GAGTCAACTCGATC
1 GAGTCAACTCGATC
4364 GAGTCAACTCGATC
1 GAGTCAACTCGATC
4378 GAGTCAACTCGATC
1 GAGTCAACTCGATC
4392 GAGTCAACTC
1 GAGTCAACTC
4402 ATTGACTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (14 bp):
GAGTCAACTCGATC
Found at i:4589 original size:2 final size:2
Alignment explanation
Indices: 4582--4610 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4572 AAACCAGAAC
4582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4611 AGCATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6608 original size:18 final size:18
Alignment explanation
Indices: 6585--6625 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
6575 AGGCATGTGA
* *
6585 TCCTCTGGTCGTGCTTGT
1 TCCTCTGGTAGAGCTTGT
6603 TCCTCTGGTAGAGCTTGT
1 TCCTCTGGTAGAGCTTGT
6621 TCCTC
1 TCCTC
6626 GTGCTGTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.29, G:0.24, T:0.41
Consensus pattern (18 bp):
TCCTCTGGTAGAGCTTGT
Found at i:13257 original size:10 final size:10
Alignment explanation
Indices: 13226--13250 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13216 CTTTGATTCT
13226 TTGTTGATTG
1 TTGTTGATTG
13236 TTGTTGATTG
1 TTGTTGATTG
13246 TTGTT
1 TTGTT
13251 TCTTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.28, T:0.64
Consensus pattern (10 bp):
TTGTTGATTG
Found at i:21347 original size:15 final size:13
Alignment explanation
Indices: 21323--21371 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
21313 TAAAATGCAA
21323 AAATTAAATGACTG
1 AAATTAAATG-CTG
21337 AAATGTAAATGCTG
1 AAAT-TAAATGCTG
* *
21351 AATTTCAAAGGCTG
1 AAATT-AAATGCTG
21365 AAATTAA
1 AAATTAA
21372 CATAATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 3 0.10
14 21 0.70
15 6 0.20
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (13 bp):
AAATTAAATGCTG
Found at i:25648 original size:518 final size:520
Alignment explanation
Indices: 24900--25925 Score: 1283
Period size: 520 Copynumber: 2.0 Consensus size: 520
24890 AGGACTTGTG
* * * *
24900 AAAAAATGAGAAAGCGAATTTTAAAGTTTATGATTTTATCTTTTCCGAAAATGAAATTTTTGAAA
1 AAAAAATAAGAAAGCGAATTTTAAAGTTTATCATTTAATCTTTTCCGAAAATGAAACTTTTGAAA
* ** * *
24965 AGTAAGAAAGTTATTTTCAAAGTTTCTTACTTAATAGATTATTTCCAAAATTAGTAAGTCCACCG
66 AGTAAAAAAGCGATTTCCAAAGTTTCTTACCTAATAGATTATTTCCAAAATTAGTAAGTCCACCG
* * * *
25030 GGTCATTAATAAGTCTTCTAATCATGATGATTAAATCATTTGGGTCATCTGTAAGTCTTTAGAGC
131 GGTCATTAATAAGTCTTCTAAGCATGATGATTAAATCATTTGAGTAATCTGGAAGTCTTTAGAGC
* * *
25095 AAGTTGAAAAGTCCTCCAGGCCATCTATAAGACCTTCGGGCATGATGTTTTCAT-ATCATTTGAA
196 AAGATGAAAAGTCATCCAGGCCATCTATAAGACCTTCGGGCAAGATGTTTTCATAAT-ATTTGAA
* *
25159 AAAAATAAGAAATTGATTTTCAAAGTTTATCATTTAATCA-TTTCTGAAAATGAA-ATTTTTGAA
260 AAAAATAAGAAAGTGATTTTCAAAGTTTATCATTTAA-CATTTTCAGAAAAT-AATATTTTTGAA
* * * **
25222 AAATAAGAAAGTGATTTCCAAACTTTCTTACATAGTATACTATTTTCAAAATTAGTAAGTCCTCC
323 AAATAAGAAAGCGATTTCCAAACTTTCTTACATAGTAAACTATTTTCAAAACTAACAAGTCCTCC
* *
25287 AAGCCATCAGTAACTCTTTCGAGCATGATGATTAAATTCTT-AGTCATCTA-TAAGT-TTTTCGA
388 AAGCCAGCAGTAACTCTTTCGAGCATGATGATTAAATCCTTCAGTCA-CTAGTAAGTCTTTT-GA
* *
25349 GCAAGATGA-AAAGTCC-TCTGGGCCATCTATAAGAC-CTTCGATCAGGATG-TTTTCATATGAT
451 GCAAGATGACAAAGTCCTTC-GGGCCATCGATAAGACTC-TCGAGCAGGATGCTTTTCATATGAT
25410 TTGAAAA
514 TTGAAAA
* * *
25417 AAAAAATAAGAAAGCG-ATTTTCAAATTTTCTCATTTAATCTTTTTCGAAAATGAAACTTTTGAA
1 AAAAAATAAGAAAGCGAATTTT-AAAGTTTATCATTTAATCTTTTCCGAAAATGAAACTTTTGAA
* *
25481 AAGTAAAAAAAGCGATTTCCAAAGTTTCTTACCTAGTAG-TCTATTTCCAAAATTATTAAGTCCT
65 AAGT-AAAAAAGCGATTTCCAAAGTTTCTTACCTAATAGAT-TATTTCCAAAATTAGTAAGTCC-
* * * * *
25545 TCGGGTCGTCATTAATTA-T-TTC-AAGCATGATGATTAAATCATTTGAGTAATTTGGCAGTCTT
127 ACCGG--GTCATTAATAAGTCTTCTAAGCATGATGATTAAATCATTTGAGTAATCTGGAAGTCTT
* * * *
25607 TCGAGCAAGATGATAAA-TCATTCGGGCCATCTATAAGACCTTTGGGCAAGATGTTTTCATAAGA
190 TAGAGCAAGATGA-AAAGTCATCCAGGCCATCTATAAGACCTTCGGGCAAGATGTTTTCAT-A-A
** * * * *
25671 TATTTGTGAAAAATGAGAAAGTGATTTTCAAAGTTTTTCATTTAAGATTTTCAGAAAATAATTTT
252 TATTTGAAAAAAATAAGAAAGTGATTTTCAAAGTTTATCATTTAACATTTTCAGAAAATAATATT
* *
25736 TTTGAAAAATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTTCAAAACTAACAAG
317 TTTGAAAAATAAGAAAGCGATTTCCAAACTTTCTTACATAGTAAACTATTTTCAAAACTAACAAG
* * *
25801 TCCTTCAGGCCAGCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCACTAGTAAGTCT
382 TCCTCCAAGCCAGCAGTAACTCTTTCGAGCATGATGATTAAATCCTTC-AGTCACTAGTAAGTCT
* * * *
25866 TTTGCGCAAGGTGACCAAGTCCTTCGGTCCATCGATAAGACTCTCGAGCAGGATGCTTTT
446 TTTGAGCAAGATGACAAAGTCCTTCGGGCCATCGATAAGACTCTCGAGCAGGATGCTTTT
25926 AATTATATCT
Statistics
Matches: 433, Mismatches: 56, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
516 5 0.01
517 56 0.13
518 132 0.30
519 12 0.03
520 152 0.35
521 15 0.03
522 19 0.04
523 35 0.08
524 7 0.02
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (520 bp):
AAAAAATAAGAAAGCGAATTTTAAAGTTTATCATTTAATCTTTTCCGAAAATGAAACTTTTGAAA
AGTAAAAAAGCGATTTCCAAAGTTTCTTACCTAATAGATTATTTCCAAAATTAGTAAGTCCACCG
GGTCATTAATAAGTCTTCTAAGCATGATGATTAAATCATTTGAGTAATCTGGAAGTCTTTAGAGC
AAGATGAAAAGTCATCCAGGCCATCTATAAGACCTTCGGGCAAGATGTTTTCATAATATTTGAAA
AAAATAAGAAAGTGATTTTCAAAGTTTATCATTTAACATTTTCAGAAAATAATATTTTTGAAAAA
TAAGAAAGCGATTTCCAAACTTTCTTACATAGTAAACTATTTTCAAAACTAACAAGTCCTCCAAG
CCAGCAGTAACTCTTTCGAGCATGATGATTAAATCCTTCAGTCACTAGTAAGTCTTTTGAGCAAG
ATGACAAAGTCCTTCGGGCCATCGATAAGACTCTCGAGCAGGATGCTTTTCATATGATTTGAAAA
Found at i:25755 original size:260 final size:258
Alignment explanation
Indices: 24900--25906 Score: 947
Period size: 260 Copynumber: 3.9 Consensus size: 258
24890 AGGACTTGTG
* * *
24900 AAAAAATGAGAAAGCGAATTTT-AAAGTTTATGATTTTATC-TTTTCCGAAAATGAAATTTTTGA
1 AAAAAATAAGAAAGCG-ATTTTCAAAGTTTATCATTTAATCATTTT-CGAAAATGAAATTTTTGA
* ** * * *
24963 AAAGTAAGAAAGTTATTTTCAAAGTTTCTTACTTAATAGAT-TATTTCCAAAATTAGTAAGTCC-
64 AAAATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAG-TCTATTTCCAAAATTAGTAAGTCCT
* * * * * *
25026 ACCGG--GTCATTAATAAGTCTTCTAATCATGATGATTAAATCATTTGGGTCATCTGTAAGTCTT
128 TCAGGCCGTCAGTAATTA-T-TTC-AAGCATGATGATTAAATCATTTGAGTCATCTGTAAGTCTT
* * * * *
25089 TAGAGCAAGTTGAAAAGTCCTCCAGGCCATCTATAAGACCTTCGGGCATGATGTTTTCAT--ATC
190 TCGAGCAAGATGAAAAGT-CTTCGGGCCATCTATAAGACCTTCGGGCAAGATGTTTTCATAGAT-
25152 ATTTGA
253 ATTTGA
**
25158 AAAAAATAAGAAATTGATTTTCAAAGTTTATCATTTAATCA-TTTCTGAAAATGAAATTTTTGAA
1 AAAAAATAAGAAAGCGATTTTCAAAGTTTATCATTTAATCATTTTC-GAAAATGAAATTTTTGAA
* * * * *
25222 AAATAAGAAAGTGATTTCCAAACTTTCTTACATAGTA-TACTATTTTCAAAATTAGTAAGTCCTC
65 AAATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAGT-CTATTTCCAAAATTAGTAAGTCCTT
* * * * * * *
25286 CAAGCCATCAGTAACTCTTTCGAGCATGATGATTAAAT--TCTT-AGTCATCTATAAGTTTTTCG
129 CAGGCCGTCAGTAATTATTTCAAGCATGATGATTAAATCAT-TTGAGTCATCTGTAAGTCTTTCG
* ** *
25348 AGCAAGATGAAAAGTCCTCTGGGCCATCTATAAGACCTTCGATCAGGATGTTTTCAT--ATGATT
193 AGCAAGATGAAAAGTCTTC-GGGCCATCTATAAGACCTTCGGGCAAGATGTTTTCATAGAT-ATT
25411 TGAAAA
256 TG---A
* * * *
25417 AAAAAATAAGAAAGCGATTTTCAAATTTTCTCATTTAATCTTTTTCGAAAATGAAACTTTTGAAA
1 AAAAAATAAGAAAGCGATTTTCAAAGTTTATCATTTAATCATTTTCGAAAATGAAATTTTTGAAA
* * *
25482 AGTAAAAAAAGCGATTTCCAAAGTTTCTTACCTAGTAGTCTATTTCCAAAATTATTAAGTCCTTC
66 AAT-AAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAGTCTATTTCCAAAATTAGTAAGTCCTTC
* * * * * **
25547 GGGTCGTCATTAATTATTTCAAGCATGATGATTAAATCATTTGAGTAATTTGGCAGTCTTTCGAG
130 AGGCCGTCAGTAATTATTTCAAGCATGATGATTAAATCATTTGAGTCATCTGTAAGTCTTTCGAG
*
25612 CAAGATGATAAA-TCATTCGGGCCATCTATAAGACCTTTGGGCAAGATGTTTTCATAAGATATTT
195 CAAGATGA-AAAGTC-TTCGGGCCATCTATAAGACCTTCGGGCAAGATGTTTTCAT-AGATATTT
*
25676 GT
257 GA
* * * * * *
25678 GAAAAATGAGAAAGTGATTTTCAAAGTTTTTCATTTAA-GATTTTCAGAAAAT-AATTTTTTTGA
1 AAAAAATAAGAAAGCGATTTTCAAAGTTTATCATTTAATCATTTTC-GAAAATGAA-ATTTTTGA
** * * **
25741 AAAATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTTCAAAACTAACAAGTCCTT
64 AAAATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAGTCTATTTCCAAAATTAGTAAGTCCTT
* * * * * *
25806 CAGGCCAG-CAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGAGTCA-CTAGTAAGTCTTTT
129 CAGGCC-GTCAGTAATTATTTCAAGCATGATGATTAAATCATTTGAGTCATCT-GTAAGTCTTTC
* * * * *
25869 GCGCAAGGTGACCAAGTCCTTCGGTCCATCGATAAGAC
192 GAGCAAGATGA-AAAGT-CTTCGGGCCATCTATAAGAC
25907 TCTCGAGCAG
Statistics
Matches: 615, Mismatches: 104, Indels: 57
0.79 0.13 0.07
Matches are distributed among these distances:
255 2 0.00
256 72 0.12
257 8 0.01
258 117 0.19
259 63 0.10
260 203 0.33
261 77 0.13
262 61 0.10
263 5 0.01
264 5 0.01
265 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (258 bp):
AAAAAATAAGAAAGCGATTTTCAAAGTTTATCATTTAATCATTTTCGAAAATGAAATTTTTGAAA
AATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAGTCTATTTCCAAAATTAGTAAGTCCTTCA
GGCCGTCAGTAATTATTTCAAGCATGATGATTAAATCATTTGAGTCATCTGTAAGTCTTTCGAGC
AAGATGAAAAGTCTTCGGGCCATCTATAAGACCTTCGGGCAAGATGTTTTCATAGATATTTGA
Found at i:26331 original size:44 final size:44
Alignment explanation
Indices: 26283--26395 Score: 190
Period size: 44 Copynumber: 2.6 Consensus size: 44
26273 GCTATATTTC
* * *
26283 ATCACATAAGGAGTTGGATTAGCATCACCCTTTTGCTCGATTCT
1 ATCACAAAAGGAGGTAGATTAGCATCACCCTTTTGCTCGATTCT
*
26327 ATCACAAAATGAGGTAGATTAGCATCACCCTTTTGCTCGATTCT
1 ATCACAAAAGGAGGTAGATTAGCATCACCCTTTTGCTCGATTCT
26371 ATCACAAAAGGAGGTAGATTAGCAT
1 ATCACAAAAGGAGGTAGATTAGCAT
26396 TGACATTTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCACAAAAGGAGGTAGATTAGCATCACCCTTTTGCTCGATTCT
Found at i:26405 original size:44 final size:44
Alignment explanation
Indices: 26313--26471 Score: 158
Period size: 44 Copynumber: 3.6 Consensus size: 44
26303 AGCATCACCC
* * *
26313 TTTTGCTCGATTCTATCACAAAATGAGGTAGATTAGCA-TCACCC
1 TTTTGCTCGATTCTATCACAAAAGGAGGTAGATTAGCATTGA-CA
26357 TTTTGCTCGATTCTATCACAAAAGGAGGTAGATTAGCATTGACA
1 TTTTGCTCGATTCTATCACAAAAGGAGGTAGATTAGCATTGACA
* * * * * * * * **
26401 TTTTGTTTGATTCCATCACATAAGGATGTGGATCAACATTGTTA
1 TTTTGCTCGATTCTATCACAAAAGGAGGTAGATTAGCATTGACA
** *
26445 TTTCACTCGATTCTATCACAGAAGGAG
1 TTTTGCTCGATTCTATCACAAAAGGAG
26472 TTGGATTCGT
Statistics
Matches: 94, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
44 92 0.98
45 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (44 bp):
TTTTGCTCGATTCTATCACAAAAGGAGGTAGATTAGCATTGACA
Found at i:26844 original size:6 final size:6
Alignment explanation
Indices: 26833--26952 Score: 63
Period size: 6 Copynumber: 20.0 Consensus size: 6
26823 AAAATAATGG
* * * **
26833 GAAAAA GAAAAA AAAAAA GGAAAAA TAAAAAA TGAAAAA GAAAAA -AGAGG
1 GAAAAA GAAAAA GAAAAA -GAAAAA -GAAAAA -GAAAAA GAAAAA GAAAAA
* * * *
26883 GAAAAT GATAAAA -ATAAA G-AAAA -ATAAA GAAAAGA GAAAATT G-AAAA
1 GAAAAA GA-AAAA GAAAAA GAAAAA GAAAAA GAAAA-A GAAAA-A GAAAAA
26930 -AAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA
26953 ATAGAATAAA
Statistics
Matches: 86, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
5 15 0.17
6 45 0.52
7 26 0.30
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (6 bp):
GAAAAA
Found at i:26845 original size:19 final size:19
Alignment explanation
Indices: 26832--26877 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
26822 TAAAATAATG
*
26832 GGAAAAAGAAAAAAAAAAA
1 GGAAAAAGAAAAAATAAAA
*
26851 GGAAAAATAAAAAATGAAAA
1 GGAAAAAGAAAAAAT-AAAA
*
26871 AGAAAAA
1 GGAAAAA
26878 AGAGGGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (19 bp):
GGAAAAAGAAAAAATAAAA
Found at i:26879 original size:7 final size:7
Alignment explanation
Indices: 26834--26953 Score: 54
Period size: 7 Copynumber: 16.7 Consensus size: 7
26824 AAATAATGGG
26834 AAAAAGA
1 AAAAAGA
26841 AAAAA-A
1 AAAAAGA
*
26847 AAAAGGA
1 AAAAAGA
26854 AAAATA-A
1 AAAA-AGA
*
26861 AAAATG-
1 AAAAAGA
26867 AAAAAGA
1 AAAAAGA
26874 AAAAAGA
1 AAAAAGA
*
26881 GGGAAAATGA
1 ---AAAAAGA
*
26891 TAAAAATA
1 -AAAAAGA
26899 AAGAAA-A
1 AA-AAAGA
*
26906 ATAAAGA
1 AAAAAGA
*
26913 AAAGAGA
1 AAAAAGA
*
26920 AAATTGAAAA
1 AAA---AAGA
26930 AAAAAG-
1 AAAAAGA
26936 AAAAAG-
1 AAAAAGA
26942 AAAAAGA
1 AAAAAGA
26949 AAAAA
1 AAAAA
26954 TAGAATAAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
6 25 0.29
7 42 0.49
8 8 0.09
10 11 0.13
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (7 bp):
AAAAAGA
Found at i:26888 original size:30 final size:30
Alignment explanation
Indices: 26840--26965 Score: 88
Period size: 30 Copynumber: 4.3 Consensus size: 30
26830 TGGGAAAAAG
26840 AAAAAAAAAAAGGAAAAAT-A-AAAAATGA
1 AAAAAAAAAAAGGAAAAATGATAAAAATGA
*
26868 AAAAGAAAAAAGAGGGAAAATGATAAAAAT-A
1 AAAA-AAAAAA-AGGAAAAATGATAAAAATGA
* * *
26899 AAGAAAAATAAA-G-AAAA-GAGAAAATTGAA
1 AA-AAAAAAAAAGGAAAAATGATAAAAATG-A
*
26928 AAAAAAAGAAAAAGAAAAA-GA-AAAAATAGA
1 AAAAAAA-AAAAGGAAAAATGATAAAAAT-GA
*
26958 ATAAAAAA
1 AAAAAAAA
26966 GAGAGGAAGA
Statistics
Matches: 80, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
27 7 0.09
28 13 0.16
29 14 0.17
30 22 0.28
31 16 0.20
32 8 0.10
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (30 bp):
AAAAAAAAAAAGGAAAAATGATAAAAATGA
Found at i:26963 original size:24 final size:23
Alignment explanation
Indices: 26898--26964 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
26888 TGATAAAAAT
26898 AAAG-AAAAATAAAGAAAAGAGAA
1 AAAGAAAAAATAAAGAAAA-AGAA
*
26921 AATTGAAAAAA-AAAGAAAAAGAA
1 AA-AGAAAAAATAAAGAAAAAGAA
*
26944 AAAGAAAAAATAGAATAAAAA
1 AAAGAAAAAATA-AAGAAAAA
26965 AGAGAGGAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.19
23 9 0.24
24 16 0.43
25 5 0.14
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.07
Consensus pattern (23 bp):
AAAGAAAAAATAAAGAAAAAGAA
Found at i:26964 original size:31 final size:31
Alignment explanation
Indices: 26895--26985 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
26885 AAATGATAAA
* *
26895 AATAAAGAAA-AATAAAG-AAAAGAGAAAATTG
1 AATAAA-AAAGAA-AAAGAAAAAGAAAAAATAG
*
26926 AAAAAAAAAGAAAAAGAAAAAGAAAAAATAG
1 AATAAAAAAGAAAAAGAAAAAGAAAAAATAG
* * *
26957 AATAAAAAAG-AGAGGAAGAAGAAAAAATA
1 AATAAAAAAGAAAAAGAAAAAGAAAAAATA
26986 ATAGAAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
30 23 0.45
31 28 0.55
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (31 bp):
AATAAAAAAGAAAAAGAAAAAGAAAAAATAG
Found at i:26976 original size:33 final size:32
Alignment explanation
Indices: 26833--26996 Score: 86
Period size: 33 Copynumber: 4.9 Consensus size: 32
26823 AAAATAATGG
* * *
26833 GAAAAAGAAAAA-AAAAAAGGAAAAATAAAAAAT
1 GAAAAAGAAAAAGAAAAAA--TAGAATAAAAAAA
*
26866 GAAAAAGAAAAAAGAGGGAAAAT-G-ATAAAAATAAA
1 GAAAAAG-AAAAAGA--AAAAATAGAAT-AAAA-AAA
* * *
26901 GAAAAATAAAGAAAAGAGAAAATTGAA-AAAAAAA
1 G-AAAA-AGA-AAAAGAAAAAATAGAATAAAAAAA
26935 GAAAAAGAAAAAGAAAAAATAGAATAAAAAAGA
1 GAAAAAGAAAAAGAAAAAATAGAATAAAAAA-A
** *
26968 GAGGAAGAAGAAA-AAATAATAGAAATAAA
1 GAAAAAGAA-AAAGAAAAAATAG-AATAAA
26997 CCCTTAGACG
Statistics
Matches: 105, Mismatches: 11, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
31 14 0.13
32 8 0.08
33 29 0.28
34 22 0.21
35 14 0.13
36 6 0.06
37 12 0.11
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (32 bp):
GAAAAAGAAAAAGAAAAAATAGAATAAAAAAA
Found at i:28569 original size:27 final size:27
Alignment explanation
Indices: 28536--28599 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
28526 GATAACGGCT
28536 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
* *
28563 CTGAATCATTCAGAATGTATTTGTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
28590 CTGAATCATT
1 CTGAATCATT
28600 TATCACTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTGTG
Found at i:29310 original size:14 final size:14
Alignment explanation
Indices: 29291--29337 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
29281 ATGTGTTTTT
*
29291 AATTTCAGCCTTTA
1 AATTTCAGTCTTTA
*
29305 AATTTCAGTATTTA
1 AATTTCAGTCTTTA
*
29319 TATTTCAGTTCTTTA
1 AATTTCAG-TCTTTA
29334 AATT
1 AATT
29338 CCAGGTCTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (14 bp):
AATTTCAGTCTTTA
Found at i:29346 original size:15 final size:15
Alignment explanation
Indices: 29291--29346 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 15
29281 ATGTGTTTTT
*
29291 AATTTCA-GCCTTTA
1 AATTTCAGGTCTTTA
*
29305 AATTTCA-GTATTTA
1 AATTTCAGGTCTTTA
* *
29319 TATTTCAGTTCTTTA
1 AATTTCAGGTCTTTA
*
29334 AATTCCAGGTCTT
1 AATTTCAGGTCTT
29347 AATTTTTGCA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
14 18 0.55
15 15 0.45
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (15 bp):
AATTTCAGGTCTTTA
Found at i:29351 original size:28 final size:27
Alignment explanation
Indices: 29289--29351 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
29279 TTATGTGTTT
* *
29289 TTAATTTCAGCCTTTAAATTTCAGTAT
1 TTAATTTCAGCCTTTAAATTCCAGTAC
*
29316 TTATATTTCAGTTCTTTAAATTCCAGGT-C
1 TTA-ATTTCAG-CCTTTAAATTCCA-GTAC
29345 TTAATTT
1 TTAATTT
29352 TTGCACTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 11 0.37
29 14 0.47
30 2 0.07
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (27 bp):
TTAATTTCAGCCTTTAAATTCCAGTAC
Found at i:30037 original size:138 final size:138
Alignment explanation
Indices: 29680--30525 Score: 979
Period size: 138 Copynumber: 6.1 Consensus size: 138
29670 GATGAATATC
* * * * * * *
29680 CAATAATTTATTAAAGTTGACTAGGTTAATAGTTAGAGGCTCCAGTTCAGGCTTAATTTCGTACT
1 CAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCATACT
* * * * * * *
29745 CAGTCCTTTAATTTTGGGAAATTTTTAATTTGATCTTCACTTCTGCTCGAAGTTCCATTTTAATT
66 TAGTCCTTTAATTTAGGGAAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATT
29810 ATTCG-AT
131 ATTCGAAT
*
29817 CCAATAATTGATT-AAATTGACTAGGTTAATAATTAGAGCCTCCACTCTAGGCTTAATTTCATAC
1 -CAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCATAC
* * * *
29881 TTAGTCATTTAATTTAGGGAAATTTTTAATTTAGTCCTCGCTTTTGTTTGAGGTTCCATTTTAAT
65 TTAGTCCTTTAATTTAGGGAAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAAT
29946 TATTCGAAT
130 TATTCGAAT
* * * *
29955 CAATAATTGATTAAAATTGACCATGTTAATAATTAGGGCCTCCACTTTAGGCTTAATTTCATAGT
1 CAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCATACT
* * * * * *
30020 TAGACCTTTAATATAGGGGAATTTTTAATTTGGTCATCGCTTATGCTCGAGGTTCCATTTTAACT
66 TAGTCCTTTAATTTAGGGAAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATT
*
30085 ATTCGATT
131 ATTCGAAT
* * * *
30093 TAATAAATTGGTTAAAATTGAATAGGTTAATAATTAG-GGCTCCACTTTAGGCTTAATTTCATAC
1 CAAT-AATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCATAC
** * *
30157 TTAGTCCTTTAATTTAAGGG-AATTTTTAATTTGGTCCTCTTTTTTGCTCGAGGATCCATATTAA
65 TTAGTCCTTTAATTT-AGGGAAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAA
30221 TTATTCGAAT
129 TTATTCGAAT
** * * * ** *
30231 TGATAATTTG-TTAAAA-TGAACAAGGTTAATAATTAGAGCCTCCAATATATACCTAATTTCATA
1 CAATAA-TTGATTAAAATTG-ACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCATA
* * * *
30294 CTTAGTCCTTTAATGTA-GGAGAATTTTTAATTTGGTCCTCACTTATGCTCGAGGTTCTATTTTA
64 CTTAGTCCTTTAATTTAGGGA-AATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTA
*
30358 ATTATTCGATT
128 ATTATTCGAAT
* * * *
30369 CAATAAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCATTTTAGGCTTAATTTCATAT
1 CAAT-AATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCATAC
* * * * **
30434 TTAGACCTTTAATTTA-GGATAATTTTTGATTTGGTCCTCGTTTTTATACTCGAGGTTCTGTTTT
65 TTAGTCCTTTAATTTAGGGA-AATTTTTAATTTGGTCCTCG-CTTT-TGCTCGAGGTTCCATTTT
*
30498 AATTATTCGACT
127 AATTATTCGAAT
*
30510 CAATAATTTATTAAAA
1 CAATAATTGATTAAAA
30526 ATAATTTGGA
Statistics
Matches: 603, Mismatches: 91, Indels: 26
0.84 0.13 0.04
Matches are distributed among these distances:
136 4 0.01
137 140 0.23
138 302 0.50
139 112 0.19
140 14 0.02
141 31 0.05
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (138 bp):
CAATAATTGATTAAAATTGACTAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAATTTCATACT
TAGTCCTTTAATTTAGGGAAATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATT
ATTCGAAT
Found at i:30247 original size:276 final size:276
Alignment explanation
Indices: 29680--30525 Score: 1081
Period size: 276 Copynumber: 3.1 Consensus size: 276
29670 GATGAATATC
* * * * * *
29680 CAATAATTTATTAAAGTTGACTAGGTTAATAGTTAGAGG-CTCCAGTTCAGGCTTAATTTCGTAC
1 CAATAATTTATTAAAATTGACAAGGTTAATAATTAG-GGCCTCCAATTTAGGCTTAATTTCATAC
* * * * * * * *
29744 TCAGTCCTTTAATTTTGGGAAATTTTTAATTTGATCTTCACTTCTGCTCGAAGTTCCATTTTAAT
65 TTAGTCCTTTAATATAGGGGAATTTTTAATTTGGTCATCACTTATGCTCGAGGTTCCATTTTAAT
* * * *
29809 TATTCGATCCAAT-AATTGATT-AAATTGACTAGGTTAATAATTAGAGCCTCCACTCTAGGCTTA
130 TATTCGATTCAATAAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCACTTTAGGCTTA
* * ** * *
29872 ATTTCATACTTAGTCATTTAATTTAGGGAAATTTTTAATTTAGTCCTCGCTTTTGTTTGAGGTTC
195 ATTTCATACTTAGTCCTTTAATTTAGGG-AATTTTTAATTTGGTCCTCTTTTTTGCTCGAGGTTC
29937 CATTTTAATTATTCGAAT
259 CATTTTAATTATTCGAAT
* * * * *
29955 CAATAATTGATTAAAATTGACCATGTTAATAATTAGGGCCTCCACTTTAGGCTTAATTTCATAGT
1 CAATAATTTATTAAAATTGACAAGGTTAATAATTAGGGCCTCCAATTTAGGCTTAATTTCATACT
* * *
30020 TAGACCTTTAATATAGGGGAATTTTTAATTTGGTCATCGCTTATGCTCGAGGTTCCATTTTAACT
66 TAGTCCTTTAATATAGGGGAATTTTTAATTTGGTCATCACTTATGCTCGAGGTTCCATTTTAATT
* *
30085 ATTCGATTTAATAAATTGGTTAAAATTGAATAGGTTAATAATTAG-GGCTCCACTTTAGGCTTAA
131 ATTCGATTCAATAAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAA
*
30149 TTTCATACTTAGTCCTTTAATTTAAGGGAATTTTTAATTTGGTCCTCTTTTTTGCTCGAGGATCC
196 TTTCATACTTAGTCCTTTAATTT-AGGGAATTTTTAATTTGGTCCTCTTTTTTGCTCGAGGTTCC
*
30214 ATATTAATTATTCGAAT
260 ATTTTAATTATTCGAAT
** * * * ** *
30231 TGATAATTTGTTAAAA-TGAACAAGGTTAATAATTAGAGCCTCCAATATATACCTAATTTCATAC
1 CAATAATTTATTAAAATTG-ACAAGGTTAATAATTAGGGCCTCCAATTTAGGCTTAATTTCATAC
* * * *
30295 TTAGTCCTTTAATGTAGGAGAATTTTTAATTTGGTCCTCACTTATGCTCGAGGTTCTATTTTAAT
65 TTAGTCCTTTAATATAGGGGAATTTTTAATTTGGTCATCACTTATGCTCGAGGTTCCATTTTAAT
*
30360 TATTCGATTCAATAAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCATTTTAGGCTTA
130 TATTCGATTCAATAAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCACTTTAGGCTTA
* * * * *
30425 ATTTCATATTTAGACCTTTAATTTAGGATAATTTTTGATTTGGTCCTCGTTTTTATACTCGAGGT
195 ATTTCATACTTAGTCCTTTAATTTAGG-GAATTTTTAATTTGGTCCTC-TTTTT-TGCTCGAGGT
** *
30490 TCTGTTTTAATTATTCGACT
257 TCCATTTTAATTATTCGAAT
30510 CAATAATTTATTAAAA
1 CAATAATTTATTAAAA
30526 ATAATTTGGA
Statistics
Matches: 492, Mismatches: 70, Indels: 14
0.85 0.12 0.02
Matches are distributed among these distances:
274 2 0.00
275 119 0.24
276 247 0.50
277 82 0.17
278 5 0.01
279 37 0.08
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (276 bp):
CAATAATTTATTAAAATTGACAAGGTTAATAATTAGGGCCTCCAATTTAGGCTTAATTTCATACT
TAGTCCTTTAATATAGGGGAATTTTTAATTTGGTCATCACTTATGCTCGAGGTTCCATTTTAATT
ATTCGATTCAATAAATTGGTTAAAATTGAATAGGTTAATAATTAGAGCCTCCACTTTAGGCTTAA
TTTCATACTTAGTCCTTTAATTTAGGGAATTTTTAATTTGGTCCTCTTTTTTGCTCGAGGTTCCA
TTTTAATTATTCGAAT
Found at i:31838 original size:44 final size:45
Alignment explanation
Indices: 31725--31843 Score: 141
Period size: 48 Copynumber: 2.6 Consensus size: 45
31715 CCCTTACTAT
* * **
31725 TTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTATCGT
1 TTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTAGCCA
* *
31770 TTAAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATACTT-GCCA
1 TT---ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTAGCCA
*
31817 TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTATTCCATAAGCTCGTAAGCTTATTT
31844 GTGTGCTTAC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 24 0.38
45 2 0.03
47 3 0.05
48 35 0.55
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (45 bp):
TTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATACTTAGCCA
Found at i:32044 original size:59 final size:59
Alignment explanation
Indices: 31952--32080 Score: 204
Period size: 59 Copynumber: 2.2 Consensus size: 59
31942 CGTAGTGCTA
* *
31952 TCCCGAATATGACACATAAGGTCGTGCCCACCATCTATACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
32011 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
32070 TCCCGAATATG
1 TCCCGAATATG
32081 CAGACTGCTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 64 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:35468 original size:183 final size:183
Alignment explanation
Indices: 34943--35435 Score: 862
Period size: 183 Copynumber: 2.7 Consensus size: 183
34933 TTAAAATTAC
* *
34943 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATTAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* * * *
35008 ATTAGAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATACTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
35073 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
35126 CGACACTTTTTTAAATCGTATCGACACATTTTTTTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
*
35191 ATTAAAAAGTGTCGATATAGGTTGTAGACCGATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
35256 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
* *
35309 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
35373 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
35436 ATAGCATTGC
Statistics
Matches: 295, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
183 292 0.99
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:35855 original size:23 final size:23
Alignment explanation
Indices: 35826--35888 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
35816 ATATAACCAC
35826 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
35849 TATCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
35872 TACCTATTACATCATAT
1 TACCTATTACATTATAT
35889 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:37487 original size:3 final size:3
Alignment explanation
Indices: 37479--37562 Score: 78
Period size: 3 Copynumber: 28.0 Consensus size: 3
37469 ACTTGTTTGG
* * * *
37479 ATC ATC ATC TTT ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * * *
37527 GTC AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
37563 GTCAGCTTCA
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:37538 original size:36 final size:36
Alignment explanation
Indices: 37498--37574 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
37488 TTTATCATCA
*
37498 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
37534 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
37570 TCATC
1 TCATC
37575 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.09, T:0.36
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:37563 original size:12 final size:12
Alignment explanation
Indices: 37492--37574 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
37482 ATCATCTTTA
* *
37492 TCATCATCATCA
1 TCATCTTCATCG
* * *
37504 TCATCATCGTCA
1 TCATCTTCATCG
37516 TCATCTTCATCG
1 TCATCTTCATCG
*
37528 TCAGCTTCATCG
1 TCATCTTCATCG
*
37540 TCATCATCATCG
1 TCATCTTCATCG
37552 TCATCTTCATCG
1 TCATCTTCATCG
*
37564 TCAGCTTCATC
1 TCATCTTCATC
37575 TTCTGCGACC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 62 1.00
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:39526 original size:178 final size:178
Alignment explanation
Indices: 39193--39560 Score: 641
Period size: 178 Copynumber: 2.1 Consensus size: 178
39183 TTTTATATAT
*
39193 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAACTATCGACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
* *
39258 TAAAA-CGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATATCGGTTA
66 TAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTTA
39322 TATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTG
131 TATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTG
*
39370 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCAACACAAAC
1 GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
* *
39435 TAAAATAGTGTCGGA-ATATTATTTAGACATATTCTCTCATAAAACCGGTATATTTGTACCGGTT
66 TAAAATAGTGTC-GACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
* *
39499 AGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTA
130 ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTG
39548 GGATCGACACTTT
1 GGATCGACACTTT
39561 TTATATATCG
Statistics
Matches: 181, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
177 68 0.38
178 111 0.61
179 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (178 bp):
GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAAC
TAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTTA
TATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTG
Found at i:39723 original size:200 final size:200
Alignment explanation
Indices: 39370--40567 Score: 2226
Period size: 200 Copynumber: 6.0 Consensus size: 200
39360 GATGTTTTTG
*
39370 GGATCGACAC-TTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCAACACAAA
1 GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
* * *
39434 CTAAAATAGTGTCGGA-ATATTATTTAGACATATTCTCTCATAAAACCGGTATATTTGTACCGGT
66 CTATAATAGTGTC-GACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGT
*
39498 TAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTT
130 TATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTT
39563 ATATAT
195 ATATAT
*
39569 CGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
1 GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
39634 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
66 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
* *
39699 ATATTGAAAAATTACATATTACATTATACTTTTGAGTTCGATGTTTTTGGGATCGACACTTTTTA
131 ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
39764 TATAT
196 TATAT
39769 GGATCGACAC-TTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
1 GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
*
39833 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACTGGTT
66 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
39898 ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
131 ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
39963 TATAT
196 TATAT
*
39968 GGATCGACACTTTTATGGTTGCACCCTGTTTTCTATTCATTCTGGAACAAAAATATCGACACAAA
1 GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
40033 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
66 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
40098 ATATTGAAAAATTAC--ATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
131 ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
40161 TATAT
196 TATAT
*
40166 GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACATAAA
1 GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
*
40231 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTGTACCGGTT
66 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
*
40296 AGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
131 ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
40361 TATAT
196 TATAT
*
40366 GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACATAAA
1 GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
40431 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
66 CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
40496 ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
131 ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
40561 TATAT
196 TATAT
40566 GG
1 GG
40568 TTGCACCCTG
Statistics
Matches: 974, Mismatches: 20, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
198 194 0.20
199 207 0.21
200 573 0.59
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (200 bp):
GGATCGACACTTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAAAATATCGACACAAA
CTATAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATATTTATACCGGTT
ATATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTAGGATCGACACTTTTTA
TATAT
Found at i:40729 original size:19 final size:19
Alignment explanation
Indices: 40702--40746 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
40692 ATTAACATAA
*
40702 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
40721 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
40740 AAAATTA
1 AAAATTA
40747 ACCCTACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:42495 original size:33 final size:33
Alignment explanation
Indices: 42458--42523 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
42448 CATCTTAATA
*
42458 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
42491 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
42524 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:42582 original size:21 final size:21
Alignment explanation
Indices: 42557--42600 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
42547 CCCCTTATGC
42557 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
42578 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
42599 CT
1 CT
42601 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:44837 original size:17 final size:18
Alignment explanation
Indices: 44815--44857 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
44805 ATATATCTGG
44815 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
44832 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
44852 TATCAT
1 TATCAT
44858 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:44875 original size:20 final size:19
Alignment explanation
Indices: 44820--44866 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
44810 TCTGGTATCA
44820 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
44839 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
44860 TTTTACC
1 TTTTACC
44867 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:45026 original size:20 final size:20
Alignment explanation
Indices: 44999--45045 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
44989 TCCGGTAACG
44999 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
45018 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
45039 TTTTACC
1 TTTTACC
45046 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:45492 original size:228 final size:229
Alignment explanation
Indices: 45094--46035 Score: 1717
Period size: 231 Copynumber: 4.1 Consensus size: 229
45084 ACTTTTATAC
*
45094 GTATGGACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
45159 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
45224 TTATTTGATCT-TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
131 TTATTTGAT-TATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
45288 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
195 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
45323 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
45387 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
45452 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
45517 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
45551 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTTTAAAGTTATGTAATTTATGTTTCAAT
1 GTATGGACACTTTTATAAAAATGATATATAC--TTTTTTTAAAGTTATGTAATTTATGTTTCAAT
45616 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAA
64 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAA
45681 AATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
129 AATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
45746 AAGATAATAATAAATATGTTTTCCACAGTGAAATAA
194 AAGATAATAATAAATATGTTTTCCACAGTGAAATAA
*
45782 GTATGGACACTTTTATAAAAATGATATATATTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
45847 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAC--AA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
45910 --A----ATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
45969 GATAATAATAAATATATTTT-CACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
* * *
46002 GTATGTACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
46036 ACAATATAAC
Statistics
Matches: 701, Mismatches: 8, Indels: 17
0.97 0.01 0.02
Matches are distributed among these distances:
220 43 0.06
221 77 0.11
225 1 0.00
227 3 0.00
228 194 0.28
229 156 0.22
230 31 0.04
231 196 0.28
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (229 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:46529 original size:27 final size:27
Alignment explanation
Indices: 46472--46531 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
46462 ATTTTATTTT
** *
46472 ATTTT-TTCTTTTCTTTTATTCACTAT
1 ATTTTATTCTTTTAATTTATTCACTAA
*
46498 TTTTTATTCTTTTAATTTATTCACTAA
1 ATTTTATTCTTTTAATTTATTCACTAA
46525 ATTTTAT
1 ATTTTAT
46532 ATATTAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.67
Consensus pattern (27 bp):
ATTTTATTCTTTTAATTTATTCACTAA
Found at i:47738 original size:16 final size:17
Alignment explanation
Indices: 47717--47749 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47707 CGGATATTCG
47717 ATCCGA-ATTTTCGGAT
1 ATCCGATATTTTCGGAT
*
47733 ATCCGATTTTTTCGGAT
1 ATCCGATATTTTCGGAT
47750 CAAATATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (17 bp):
ATCCGATATTTTCGGAT
Found at i:51860 original size:429 final size:426
Alignment explanation
Indices: 51124--52410 Score: 2058
Period size: 416 Copynumber: 3.0 Consensus size: 426
51114 ATACTATTTT
* * *
51124 TCTAAAAAAATTAATATATATTATATTTTATATAGAATAATCACCAAAATATTAATCGCCGGCAA
1 TCTAAAAAAATTAATATATATTAAATTTTATATAGAATAATCACCAAAATATTAATTGCCGTCAA
*
51189 TAGGTAACGCCATATGTTAAATAAAATAAAATAAAATATAATATAATAACTATTAGTTGATCTAA
66 TAGGTAACGCCATATG-T---T-AAATAAAAT---A-A-AATATAATAACTATTAGTTGGTCTAA
* * *
51254 TAAGATGAGACACTATATTTTTTAAGTAAGATCAAGAGTTCAAATCCTGACGTTTGCGAATGTAG
121 TAGGATGAGACACTATATTTTTTAAGTAAGATCAAGAGTTCGAATCCTGACGTTTGCGAATGGAG
* * * *
51319 CAAATTGAGTTGGGATGGTTGTCCTCGCCTTTGCAGTACTCGATTTGGAGTAACCGATCAATAGA
186 CAAACTGTGTTGGGATGGTTG-CCTCGCCTTTGCAGTACTCGATTTGGAGTAGCCGGTCAATAGA
* * *
51384 TCGGATACCGATAATTAATTCAAAAAAATTAAAAAAATATATATCTTATTTGACCTATCAATTAT
250 TCGGATACAGGTAATTAATTCAAAAAAATTTAAAAAATATATATCTTATTTGACCTATCAATTAT
51449 AATTAAATTAATAGAAAACTTAATGATTAAAAGAACAATTATTTTTTAGAGGTTCTGAGTTTAAG
315 AATTAAATTAATAGAAAACTTAA-GATTAAAAGAACAATTATTTTTTAGAGGTT-TGAGTTTAAG
* *
51514 TATCTCGTCTACAGGGATGTTTAATCTTTCATAATCAAATGGTTAAGAG
378 TACCTCGTCTACAGGGATGTTTAATCTTTCATAATCAAATGGTTGAGAG
*
51563 TCTAAAAAAATTAATATATATTAAATTTTATATAAAATAATCACCAAAATATTAATTGCCGTCAA
1 TCTAAAAAAATTAATATATATTAAATTTTATATAGAATAATCACCAAAATATTAATTGCCGTCAA
*
51628 TAGGTAACGTCATATGTTAAATAAAATAAAATATAATAACTATTAGTTGGTCTAATAGGATGAGA
66 TAGGTAACGCCATATGTTAAATAAAATAAAATATAATAACTATTAGTTGGTCTAATAGGATGAGA
*
51693 TACTATATTTTTTAAGTAAGATCAAGAGTTCGAATCCTGACGTTTGCGAATGGAGCAAACTGTGT
131 CACTATATTTTTTAAGTAAGATCAAGAGTTCGAATCCTGACGTTTGCGAATGGAGCAAACTGTGT
*
51758 TGGGATGGTTGCCATCGCCTTTGCAGTACTCGATTTGGAGTAGCCGGTCAATAGATCGAATACAG
196 TGGGATGGTTGCC-TCGCCTTTGCAGTACTCGATTTGGAGTAGCCGGTCAATAGATCGGATACAG
*
51823 GTAATTAATTCAAAAAAATTTAAAAAATATATATCTTATTTGGCCTATCAATTATAATTAAA-T-
260 GTAATTAATTCAAAAAAATTTAAAAAATATATATCTTATTTGACCTATCAATTATAATTAAATTA
* *
51886 -T----AA--T-AGA--AAAAGAACGATTATTTTTTAGAGGTTTTGAGTTTAAGTACCTCGCCTA
325 ATAGAAAACTTAAGATTAAAAGAACAATTATTTTTTAGAGG-TTTGAGTTTAAGTACCTCGTCTA
51941 CAGGGATGTTTAATCTTTCATAATCAAATGGTTGAGAG
389 CAGGGATGTTTAATCTTTCATAATCAAATGGTTGAGAG
51979 TCTAAAAAAATTAATATATATTAAATTTTATATAGAATAATCACCAAAATATTAATTGCCGTCAA
1 TCTAAAAAAATTAATATATATTAAATTTTATATAGAATAATCACCAAAATATTAATTGCCGTCAA
52044 TAGGTAACGCCATATGTTAAATAAAATAAAATATAATAACTATTAGTTGGTCTAATAGGATGAGA
66 TAGGTAACGCCATATGTTAAATAAAATAAAATATAATAACTATTAGTTGGTCTAATAGGATGAGA
* *
52109 CACTATATTTTTTAAGTAAGATCAAGAGTTCGAATCATGACGTTTGCGAATGGAGCGAACTGTGT
131 CACTATATTTTTTAAGTAAGATCAAGAGTTCGAATCCTGACGTTTGCGAATGGAGCAAACTGTGT
* *
52174 TGGGATGGTTGCCCTCGCCTTTTCAGTACTCGATTTGGAGTAGTCGGTCAATAGATCGGATACAG
196 TGGGATGGTTG-CCTCGCCTTTGCAGTACTCGATTTGGAGTAGCCGGTCAATAGATCGGATACAG
*
52239 GTGATTAATTCAAAAAAATTTAAAAAATATATATCTTATTTGACCTATCAATTATAATTAAATTA
260 GTAATTAATTCAAAAAAATTTAAAAAATATATATCTTATTTGACCTATCAATTATAATTAAATTA
* *
52304 ATAGAAAACTTAAGGATTAAAAGAATAATTATTTCTTAGAGGCTTTGAGTTTAAGTACCTCGTCT
325 ATAGAAAACTTAA-GATTAAAAGAACAATTATTTTTTAGAGG-TTTGAGTTTAAGTACCTCGTCT
52369 ACAGGGATGTTTAATCTTTCATAATCAAATGGTTGAGAG
388 ACAGGGATGTTTAATCTTTCATAATCAAATGGTTGAGAG
52408 TCT
1 TCT
52411 TTCGGACATG
Statistics
Matches: 794, Mismatches: 38, Indels: 42
0.91 0.04 0.05
Matches are distributed among these distances:
416 388 0.49
417 5 0.01
418 2 0.00
419 2 0.00
420 1 0.00
422 2 0.00
423 2 0.00
425 1 0.00
426 2 0.00
427 2 0.00
428 3 0.00
429 295 0.37
430 1 0.00
431 1 0.00
434 9 0.01
435 1 0.00
438 1 0.00
439 76 0.10
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (426 bp):
TCTAAAAAAATTAATATATATTAAATTTTATATAGAATAATCACCAAAATATTAATTGCCGTCAA
TAGGTAACGCCATATGTTAAATAAAATAAAATATAATAACTATTAGTTGGTCTAATAGGATGAGA
CACTATATTTTTTAAGTAAGATCAAGAGTTCGAATCCTGACGTTTGCGAATGGAGCAAACTGTGT
TGGGATGGTTGCCTCGCCTTTGCAGTACTCGATTTGGAGTAGCCGGTCAATAGATCGGATACAGG
TAATTAATTCAAAAAAATTTAAAAAATATATATCTTATTTGACCTATCAATTATAATTAAATTAA
TAGAAAACTTAAGATTAAAAGAACAATTATTTTTTAGAGGTTTGAGTTTAAGTACCTCGTCTACA
GGGATGTTTAATCTTTCATAATCAAATGGTTGAGAG
Found at i:52832 original size:2 final size:2
Alignment explanation
Indices: 52794--52822 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52784 GAACTCGTTG
52794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52823 ATTTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:63648 original size:24 final size:24
Alignment explanation
Indices: 63616--63669 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
63606 TGTTTCTCTT
* *
63616 TGTTTCTTAAGCCTTTATGGCTTG
1 TGTTGCTTAAGCCTTTATGACTTG
63640 TGTTGCTTAAGCCTTTATGACTTG
1 TGTTGCTTAAGCCTTTATGACTTG
63664 TGTTGC
1 TGTTGC
63670 CAATCGTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (24 bp):
TGTTGCTTAAGCCTTTATGACTTG
Found at i:65794 original size:2 final size:2
Alignment explanation
Indices: 65737--65783 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
65727 TACATTGATT
65737 TA TA TA TA TA TA TA TA T- TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65777 TA TA TA T
1 TA TA TA T
65784 GTTTGTATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:67569 original size:35 final size:35
Alignment explanation
Indices: 67506--67572 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
67496 CTAAGGTTCG
*
67506 TAAGGAATTACCAGCTCGATCGGTTTGAACCTATA
1 TAAGGAATTACCAGCTCGACCGGTTTGAACCTATA
* *
67541 TAAGGAATTACCAGTTTGACCGAG-TTGAACCT
1 TAAGGAATTACCAGCTCGACCG-GTTTGAACCT
67573 GCATACTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (35 bp):
TAAGGAATTACCAGCTCGACCGGTTTGAACCTATA
Done.