Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01021109.1 Corchorus olitorius cultivar O-4 contig21142, 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: 85148
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:10 original size:5 final size:5
Alignment explanation
Indices: 1--148 Score: 271
Period size: 5 Copynumber: 29.6 Consensus size: 5
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
51 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
*
101 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GTGTTT -TTGT GTTTT GTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT GT-TTT GTTTT GTTTT GTT
149 AATTTTGCAG
Statistics
Matches: 139, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
4 2 0.01
5 134 0.96
6 3 0.02
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (5 bp):
GTTTT
Found at i:5348 original size:27 final size:27
Alignment explanation
Indices: 5317--5434 Score: 82
Period size: 27 Copynumber: 4.5 Consensus size: 27
5307 ACTTTTGGTA
** *
5317 CGGGTGGCAATTCAGGCTTTGGCAGAC
1 CGGGTGGCAATTCAACCTTGGGCAGAC
*
5344 CGGGTGGCAGTTCAACCTTGGGC--A-
1 CGGGTGGCAATTCAACCTTGGGCAGAC
** * * * *
5368 TTGGAGGCAATTCAGGCATT-GGCAGGC
1 CGGGTGGCAATTCA-ACCTTGGGCAGAC
* **
5395 CTGGTGGCAGCTCAACCTTGGGCAGAC
1 CGGGTGGCAATTCAACCTTGGGCAGAC
5422 CGGGTGGCAATTC
1 CGGGTGGCAATTC
5435 GGGCAATGCT
Statistics
Matches: 65, Mismatches: 21, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
24 13 0.20
25 4 0.06
26 3 0.05
27 45 0.69
ACGTcount: A:0.19, C:0.24, G:0.36, T:0.21
Consensus pattern (27 bp):
CGGGTGGCAATTCAACCTTGGGCAGAC
Found at i:5382 original size:51 final size:51
Alignment explanation
Indices: 5322--5418 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
5312 TGGTACGGGT
* *
5322 GGCAATTCAGGCTTTGGCAGACCGGGTGGCAGTTCAACCTTGGGCATTGGA
1 GGCAATTCAGGCATTGGCAGACCGGGTGGCAGCTCAACCTTGGGCATTGGA
* *
5373 GGCAATTCAGGCATTGGCAGGCCTGGTGGCAGCTCAACCTTGGGCA
1 GGCAATTCAGGCATTGGCAGACCGGGTGGCAGCTCAACCTTGGGCA
5419 GACCGGGTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.22
Consensus pattern (51 bp):
GGCAATTCAGGCATTGGCAGACCGGGTGGCAGCTCAACCTTGGGCATTGGA
Found at i:10427 original size:36 final size:35
Alignment explanation
Indices: 10387--10484 Score: 134
Period size: 30 Copynumber: 2.9 Consensus size: 35
10377 CTTCTTTGGC
* *
10387 TCCTCTTTCTCCTCATGCTTCTCATGTTCCTTATG
1 TCCTCTTTCTCCTCGTGCTTCTCATGTTCCTCATG
10422 T--TC---CTCCTCGTGCTTCTCATGTTCCTCATG
1 TCCTCTTTCTCCTCGTGCTTCTCATGTTCCTCATG
10452 CTCCTCTTTCTCCTCGTGCTTCTCATGTTCCTC
1 -TCCTCTTTCTCCTCGTGCTTCTCATGTTCCTC
10485 GTGCTCTTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
30 25 0.45
31 1 0.02
33 4 0.07
35 1 0.02
36 24 0.44
ACGTcount: A:0.06, C:0.38, G:0.10, T:0.46
Consensus pattern (35 bp):
TCCTCTTTCTCCTCGTGCTTCTCATGTTCCTCATG
Found at i:10436 original size:30 final size:33
Alignment explanation
Indices: 10389--10491 Score: 122
Period size: 36 Copynumber: 3.1 Consensus size: 33
10379 TCTTTGGCTC
* * *
10389 CTCTTTCTCCTCATGCTTCTCATGTTCCTTATG
1 CTCTCTCTCCTCGTGCTTCTCATGTTCCTCATG
10422 -T-TC-CTCCTCGTGCTTCTCATGTTCCTCATG
1 CTCTCTCTCCTCGTGCTTCTCATGTTCCTCATG
*
10452 CTCCTCTTTCTCCTCGTGCTTCTCATGTTCCTCGTG
1 CT-CTC--TCTCCTCGTGCTTCTCATGTTCCTCATG
10488 CTCT
1 CTCT
10492 TCTTCATGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
30 25 0.42
31 2 0.03
32 1 0.02
33 2 0.03
35 2 0.03
36 28 0.47
ACGTcount: A:0.06, C:0.37, G:0.12, T:0.46
Consensus pattern (33 bp):
CTCTCTCTCCTCGTGCTTCTCATGTTCCTCATG
Found at i:10453 original size:18 final size:18
Alignment explanation
Indices: 10396--10489 Score: 76
Period size: 18 Copynumber: 5.6 Consensus size: 18
10386 CTCCTCTTTC
10396 TCCTCATGCTTCTCATGT
1 TCCTCATGCTTCTCATGT
*
10414 TCCTTATG-TTC-C----
1 TCCTCATGCTTCTCATGT
*
10426 TCCTCGTGCTTCTCATGT
1 TCCTCATGCTTCTCATGT
* *
10444 TCCTCATGCTCCTC-TTT
1 TCCTCATGCTTCTCATGT
*
10461 CTCCTCGTGCTTCTCATGT
1 -TCCTCATGCTTCTCATGT
*
10480 TCCTCGTGCT
1 TCCTCATGCT
10490 CTTCTTCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
12 6 0.10
13 3 0.05
14 1 0.02
16 1 0.02
17 5 0.08
18 41 0.69
19 2 0.03
ACGTcount: A:0.06, C:0.36, G:0.13, T:0.45
Consensus pattern (18 bp):
TCCTCATGCTTCTCATGT
Found at i:10490 original size:36 final size:36
Alignment explanation
Indices: 10425--10495 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
10415 CCTTATGTTC
10425 CTCCTCGTGCTTCTCATGTTCCTCATGCTCCTCTTT
1 CTCCTCGTGCTTCTCATGTTCCTCATGCTCCTCTTT
* *
10461 CTCCTCGTGCTTCTCATGTTCCTCGTGCTCTTCTT
1 CTCCTCGTGCTTCTCATGTTCCTCATGCTCCTCTT
10496 CATGCTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.04, C:0.38, G:0.13, T:0.45
Consensus pattern (36 bp):
CTCCTCGTGCTTCTCATGTTCCTCATGCTCCTCTTT
Found at i:12426 original size:22 final size:23
Alignment explanation
Indices: 12390--12435 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12380 ATTGTTACAA
12390 TTTTATTGGTAAAAACCATGAAT
1 TTTTATTGGTAAAAACCATGAAT
12413 TTTTATTGGTAAAAACCATGAAT
1 TTTTATTGGTAAAAACCATGAAT
12436 GACGTGGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (23 bp):
TTTTATTGGTAAAAACCATGAAT
Found at i:12942 original size:20 final size:19
Alignment explanation
Indices: 12910--12958 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
12900 TTTACTTCTA
*
12910 ATAATTA-TT-TTTATATT
1 ATAATTATTTATTTATAAT
12927 ATAATATATTTATTTATAAT
1 ATAAT-TATTTATTTATAAT
*
12947 ATTATTATTTAT
1 ATAATTATTTAT
12959 AGTCATGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 2 0.07
19 9 0.33
20 11 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATAATTATTTATTTATAAT
Found at i:12945 original size:15 final size:14
Alignment explanation
Indices: 12918--12959 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
12908 TAATAATTAT
12918 TTTTATATTATAATA
1 TTTTAT-TTATAATA
12933 TATTTATTTATAATA
1 T-TTTATTTATAATA
12948 TTATTATTTATA
1 TT-TTATTTATA
12960 GTCATGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.04
15 19 0.76
16 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTATTTATAATA
Found at i:12947 original size:35 final size:34
Alignment explanation
Indices: 12894--12959 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
12884 TAATTGTAAT
*
12894 TAATAATTTACTTCTAATAATTATT-TTTATATTA
1 TAATAATTTACTTATAAT-ATTATTATTTATATTA
*
12928 TAATATATTTATTTATAATATTATTATTTATA
1 TAATA-ATTTACTTATAATATTATTATTTATA
12960 GTCATGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (34 bp):
TAATAATTTACTTATAATATTATTATTTATATTA
Found at i:14002 original size:331 final size:331
Alignment explanation
Indices: 13475--14092 Score: 804
Period size: 331 Copynumber: 1.9 Consensus size: 331
13465 ATATTTTTCT
* * * **
13475 GAGTATTTTAGCCAAAAATTGAGGAGAAATCTTTCGTGTCAATTTTTGTAAAATTTTAGTCGAAA
1 GAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTATAAAATTTTAACCGAAA
** *
13540 TCGTGTACTAACTAACCATCACGGTTTTTGGTTAAAAACGTGTTATGGGGACCCGCCTCAATTTT
66 TCGTGTA-TAACTAACCATCACGGTTTTTGACTAAAAACATGTTATGGGGACCCGCCTCAATTTT
* * * * * *
13605 GCATGATTTTTGACTCCGAGACTACTTGAAATATCTATATTTATCTAATCAAATCTCAGGCACAT
130 GCATGATTTTTGA-TACAAGACTACTTGAAATATCAATATTCATCTAACCAAATCTCAGCCACAT
* * * * * *
13670 TGGATTTAAGGATTTGTTTTTACGAGCATTTAAATCTTGTTTCGATTTAATTAGAAATTAATTCG
194 TGGATTTAAGAATTTGATTTTACGAGCATCTAAATCTTGTTCCAATTTAATTAGAAATTAATTCA
13735 GAAAAAATAGGAAAAACGATATTAGAAAGGTCAAAAATTTAGAAAATTGAGAATATCTTGTTGAA
259 GAAAAAA-AGGAAAAACGATATTA-AAAGGTCAAAAATTTAGAAAATTGAGAATATCTTGTTGAA
13800 ATTTTCTTAG
322 ATTTTCTTAG
*
13810 GAGTATTTTAGCC-AAAATTGA-GAAAATATCTTTTGGGTCAATTTTTATAAAATTTTAACCGAA
1 GAGTATTTTAGCCAAAAATTGAGGAAAA-ATCTTTCGGGTCAATTTTTATAAAATTTTAACCGAA
* *
13873 ATCGTGT-T-A-TAACCATCACTGTTTTTGACTAAAAA-ATAAGTT-TCGGGG-CTCCGGCTCAA
65 ATCGTGTATAACTAACCATCACGGTTTTTGACTAAAAACAT--GTTAT-GGGGAC-CCGCCTCAA
* *
13932 TTTTGCATGATTTTTTG-TGACAAGACTCCTTGAGATATCAATATTCATCTAACCAAATCTCAGC
126 TTTTGCATGA-TTTTTGAT-ACAAGACTACTTGAAATATCAATATTCATCTAACCAAATCTCAGC
* * *
13996 CACATTGGATTTAAGAATTTGATTTTATGAGCCTCTGAATCTTGTTCCAATTTAATTAGAAATTA
189 CACATTGGATTTAAGAATTTGATTTTACGAGCATCTAAATCTTGTTCCAATTTAATTAGAAATTA
* *
14061 ATTCAGAAAAAAATGAAAAATGATATTAAAAG
254 ATTCAGAAAAAAAGGAAAAACGATATTAAAAG
14093 CGTGAAAAGT
Statistics
Matches: 246, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
329 5 0.02
330 40 0.16
331 131 0.53
332 7 0.03
333 4 0.02
334 46 0.19
335 13 0.05
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (331 bp):
GAGTATTTTAGCCAAAAATTGAGGAAAAATCTTTCGGGTCAATTTTTATAAAATTTTAACCGAAA
TCGTGTATAACTAACCATCACGGTTTTTGACTAAAAACATGTTATGGGGACCCGCCTCAATTTTG
CATGATTTTTGATACAAGACTACTTGAAATATCAATATTCATCTAACCAAATCTCAGCCACATTG
GATTTAAGAATTTGATTTTACGAGCATCTAAATCTTGTTCCAATTTAATTAGAAATTAATTCAGA
AAAAAAGGAAAAACGATATTAAAAGGTCAAAAATTTAGAAAATTGAGAATATCTTGTTGAAATTT
TCTTAG
Found at i:14131 original size:2 final size:2
Alignment explanation
Indices: 14126--14157 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14116 TGTGTCCAAT
14126 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14158 TATGAGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14796 original size:314 final size:315
Alignment explanation
Indices: 14384--15240 Score: 861
Period size: 330 Copynumber: 2.7 Consensus size: 315
14374 AAAAGATATT
* * *
14384 AAAAGTTTTAGCGTTGAATTATATATTCTTTATGAGTATTGTGGCTAATAATTGA-GAAAATATC
1 AAAATTTTTAGCGTTGAATTATATATT-TTTATGAGTATTTTGGCTAA-AATTGAGGAAAA-ATA
* *
14448 TTTCGAGTCAATTTTTGTAAAATTTTAACTGAAATCGTGTAATAATCATCACGGTTTTTGGCTAA
63 TTTCGGGTCAATTTTTGCAAAATTTTAACTGAAATCGTGTAATAATCATCACGGTTTTTGGCTAA
* * * * **
14513 AAAAGCGTTCCGGGGCCCGATTCATTTTTGCATGATTTTTGGCGCTGAGACTCCTTGAAATATCT
128 AAACGCGTTCCGGGGCCCGAGTCAGTTTTGCATGATTTTTGGCTCCAAGACTCCTTGAAATATCT
* * *
14578 ATATTCATCTAAACAAATCACA-ACCT-TTGTTTTTACAAGCATCTTAATCATGTTTCAATTTAA
193 ATATTCATCTAAACAAATCAAATAACTATTGTTTTTACAAGCATC-TAATCATGTCTCAATTTAA
* *
14641 TTA-AAATTAATTCAGAAAAAAA-TAGGAAAAATGATATTAGAA-TCGTGAAAAACCCTTC
257 TTAGAAATTAATTC-GAAAAAAAGTAGGAAAAACGATATTAGAAGT-GTAAAAAACCCTTC
** * *
14699 AATCTTTTTAGCGTTGAATTATATACTTTTATGACTATTTTGGCTGAAAATTGAGGAAAAATATT
1 AAAATTTTTAGCGTTGAATTATATATTTTTATGAGTATTTTGGCT-AAAATTGAGGAAAAATATT
* * ** *****
14764 TCGGGTCAATTTTTGCAACATGTTGGCTGAAATCGTGTACAT--TCATGGTTTTTTTTGGGCTAA
65 TCGGGTCAATTTTTGCAAAATTTTAACTGAAATCGTGTA-ATAATCATCACGGTTTTT-GGCTAA
* * * * *
14827 AAACGAGTTCCAGGGCCCCAGGTCGGTTTTGCAT-ATTTTTGGCTCCAAGACTCCATGAAATATC
128 AAACGCGTTCCGGGGCCCGA-GTCAGTTTTGCATGATTTTTGGCTCCAAGACTCCTTGAAATATC
* * *
14891 TATATTCATCTAATCGAATCTCAGCCACATTAAATTTAATTAATTGTTTTTACGAGCATCTAATC
192 TATATTCATCT-A---AA---CA---A-ATCAAA--TAACT-ATTGTTTTTACAAGCATCTAATC
* *
14956 TTGTCTCGATTTAATTAGAAATTAATTCGAAAAAAAGTAGGAAAAACGATATTAGAAGTGTAAAA
243 ATGTCTCAATTTAATTAGAAATTAATTCGAAAAAAAGTAGGAAAAACGATATTAGAAGTGTAAAA
15021 AACCCTTC
308 AACCCTTC
* * * * * * * *
15029 AAAATTTTTGGCGTTAAATCATATTTTTTTATCAGTATTTAAGACAAAAATTGAGG-AAAATATT
1 AAAATTTTTAGCGTTGAATTATATATTTTTATGAGTATTT-TGGCTAAAATTGAGGAAAAATATT
* * * * **
15093 TCGGGTCAATTTTTACAAAATTTTAACCGAAATCGTGTACTAATCGTCACGGTTTTTTACTAAAA
65 TCGGGTCAATTTTTGCAAAATTTTAACTGAAATCGTGTAATAATCATCACGGTTTTTGGCTAAAA
** * * * * *
15158 ACGCGTTCCAGGACCCCGGGTCAGTTTTGCATGATTATTGGCTCCAAGACTCGTTGAGATATCCA
130 ACGCGTTCC-GGGGCCCGAGTCAGTTTTGCATGATTTTTGGCTCCAAGACTCCTTGAAATATCTA
*
15223 TATTCATCTAATCAAATC
194 TATTCATCTAAACAAATC
15241 CCAGCCGCAT
Statistics
Matches: 433, Mismatches: 80, Indels: 54
0.76 0.14 0.10
Matches are distributed among these distances:
313 9 0.02
314 118 0.27
315 43 0.10
318 2 0.00
319 2 0.00
320 1 0.00
321 2 0.00
323 2 0.00
324 1 0.00
325 4 0.01
326 1 0.00
328 3 0.01
329 95 0.22
330 147 0.34
331 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (315 bp):
AAAATTTTTAGCGTTGAATTATATATTTTTATGAGTATTTTGGCTAAAATTGAGGAAAAATATTT
CGGGTCAATTTTTGCAAAATTTTAACTGAAATCGTGTAATAATCATCACGGTTTTTGGCTAAAAA
CGCGTTCCGGGGCCCGAGTCAGTTTTGCATGATTTTTGGCTCCAAGACTCCTTGAAATATCTATA
TTCATCTAAACAAATCAAATAACTATTGTTTTTACAAGCATCTAATCATGTCTCAATTTAATTAG
AAATTAATTCGAAAAAAAGTAGGAAAAACGATATTAGAAGTGTAAAAAACCCTTC
Found at i:15205 original size:330 final size:327
Alignment explanation
Indices: 14603--15474 Score: 969
Period size: 330 Copynumber: 2.6 Consensus size: 327
14593 AATCACAACC
* * *
14603 TTTGTTTTTACAAGCATCTTAATCATGTTTCAATTTAATTA-AAATTAATTCAGAAAAAAATAGG
1 TTTGTTTTTACGAGCATC-TAATCTTGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAATAGG
* * *
14667 AAAAATGATATTAGAA-TCGTGAAAAACCCTTCAATCTTTTTAGCGTTGAATTATA-TACTTTTA
64 AAAAATGATATTAGAAGT-GTGAAAAACCCTTCAATATTTTTGGCGTTAAATTATATTA-TTTTA
* * * * * * * *
14730 TGACTATTTTGGCTGAAAATTGAGGAAAAATATTTCGGGTCAATTTTTGCAACATGTTGGCTGAA
127 TGAATATTTAGAC-AAAAATTGAGG-AAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAA
* * * *
14795 ATCGTGTAC--AT-TCATGGTTTTTTTTGGGCTAAAAACGAGTTCCAGGGCCCCAGGTCGGTTTT
190 ATCGTGTACTAATCTCACGG--TTTTTT-GACTAAAAACGAGTTCCAGGACCCCAGGTCAGTTTT
* * * *
14857 GCATATTTTTGGCTCCAAGACTCCATGAAATATCTATATTCATCTAATCGAATCTCAGCCACATT
252 GCATATTATTGGCTCCAAGACTCCATGAAATATCCATATTCATCTAATCAAATCCCAGCCACATT
*
14922 AAATTTAATTAA
317 AAATTT-ATGAA
*
14934 -TTGTTTTTACGAGCATCTAATCTTGTCTCGATTTAATTAGAAATTAATTCGAAAAAAAGTAGGA
1 TTTGTTTTTACGAGCATCTAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAA-TAGGA
* * * * * *
14998 AAAACGATATTAGAAGTGTAAAAAACCCTTCAAAATTTTTGGCGTTAAATCATATTTTTTTATCA
65 AAAATGATATTAGAAGTGTGAAAAACCCTTCAATATTTTTGGCGTTAAATTATATTATTTTATGA
* * *
15063 GTATTTAAGACAAAAATTGAGGAAAATATTTCGGGTCAATTTTTACAAAATTTTAACCGAAATCG
130 ATATTT-AGACAAAAATTGAGGAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCG
* *
15128 TGTACTAATCGTCACGGTTTTTT-ACTAAAAACGCGTTCCAGGACCCCGGGTCAGTTTTGCATGA
194 TGTACTAATC-TCACGGTTTTTTGACTAAAAACGAGTTCCAGGACCCCAGGTCAGTTTTGCAT-A
** * * **
15192 TTATTGGCTCCAAGACTCGTTGAGATATCCATATTCATCTAATCAAATCCCAGCCGCATTGGATT
257 TTATTGGCTCCAAGACTCCATGAAATATCCATATTCATCTAATCAAATCCCAGCCACATTAAATT
15257 TATGAA
322 TATGAA
*
15263 TTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC--AAAAAATATGA
1 TTTGTTTTTACGAGCATCT-AATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATAGGA
* * ** * * ** * *
15326 AAAATGAT-TGAAAAGCT-TGAAAAGTCCTCCAATTTTTTTGGTATTCAATTATATTATTATATG
65 AAAATGATATTAGAAG-TGTGAAAAACCCTTCAATATTTTTGGCGTTAAATTATATTATTTTATG
** *
15389 AATATTTTATCCAAAAATTGAGGAAAA-ACTTTTCGGGTCATTTTTTGCAAAATTTTAGCCGAAA
129 AATA-TTTAGACAAAAATTGAGGAAAATA--TTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAA
*
15453 TCGTGTACTAACCATCACGGTT
191 TCGTGTACTAATC-TCACGGTT
15475 CGAAGCCCCG
Statistics
Matches: 459, Mismatches: 66, Indels: 35
0.82 0.12 0.06
Matches are distributed among these distances:
326 1 0.00
327 58 0.13
328 66 0.14
329 113 0.25
330 173 0.38
331 43 0.09
333 5 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (327 bp):
TTTGTTTTTACGAGCATCTAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATAGGAA
AAATGATATTAGAAGTGTGAAAAACCCTTCAATATTTTTGGCGTTAAATTATATTATTTTATGAA
TATTTAGACAAAAATTGAGGAAAATATTTCGGGTCAATTTTTGCAAAATTTTAGCCGAAATCGTG
TACTAATCTCACGGTTTTTTGACTAAAAACGAGTTCCAGGACCCCAGGTCAGTTTTGCATATTAT
TGGCTCCAAGACTCCATGAAATATCCATATTCATCTAATCAAATCCCAGCCACATTAAATTTATG
AA
Found at i:17950 original size:33 final size:32
Alignment explanation
Indices: 17912--18003 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 32
17902 GGCAACTCAT
* *
17912 GTTTTGCAGATTCTGGAATCTTTGGT-TCTTCTG
1 GTTTTGCA-ACTCTGGAACCTTTGGTAT-TTCTG
*
17945 GTTTTGGTAACTCTGGAACCTTTGGTATTTCTG
1 GTTTT-GCAACTCTGGAACCTTTGGTATTTCTG
* **
17978 GTTTTGGTAACTCAAGAACCTTTGGT
1 GTTTT-GCAACTCTGGAACCTTTGGT
18004 TCTTTAGATT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
33 49 0.94
34 3 0.06
ACGTcount: A:0.16, C:0.15, G:0.24, T:0.45
Consensus pattern (32 bp):
GTTTTGCAACTCTGGAACCTTTGGTATTTCTG
Found at i:18017 original size:33 final size:33
Alignment explanation
Indices: 17931--18007 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 33
17921 ATTCTGGAAT
**
17931 CTTTGGTTCTTCTGGTTTTGGTAACTCTGGAAC
1 CTTTGGTTCTTCTGGTTTTGGTAACTCAAGAAC
17964 CTTTGGTAT-TTCTGGTTTTGGTAACTCAAGAAC
1 CTTTGGT-TCTTCTGGTTTTGGTAACTCAAGAAC
17997 CTTTGGTTCTT
1 CTTTGGTTCTT
18008 TAGATTTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 1 0.03
33 38 0.95
34 1 0.03
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (33 bp):
CTTTGGTTCTTCTGGTTTTGGTAACTCAAGAAC
Found at i:18175 original size:33 final size:34
Alignment explanation
Indices: 18112--18175 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
18102 TAATTCGGGC
*
18112 TTTGACAACTCCGAAACTTTTGTTGATTCAGACT
1 TTTGACAACTCCGAAACTTTTCTTGATTCAGACT
* *
18146 TTTG-CAACTCGGGAACTTTTTCTTG-TTCAG
1 TTTGACAACTCCGAAAC-TTTTCTTGATTCAG
18176 GTATTGGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
33 15 0.58
34 11 0.42
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (34 bp):
TTTGACAACTCCGAAACTTTTCTTGATTCAGACT
Found at i:18467 original size:212 final size:211
Alignment explanation
Indices: 18088--18736 Score: 777
Period size: 212 Copynumber: 3.1 Consensus size: 211
18078 CTTGGATAAT
* * * * ***
18088 TCAGAAACTTTCGGTAA-TTCGGGCTTTGACAACTCCGAAACTTTTGTTGATTCAGACTTTTG-C
1 TCAGAAACTTTAGG-AACTTCAGGCTTCGACAACTCCGAAACTTTCGACAATTCAGA-TTTTGAC
* * * * * *
18151 AACTCGGGAACTTTTTCTTGTTCAGGTATTGGCAACTCATGATTTGGT-ACTTCCGGCTTAGGCA
64 AACTC-AGAAATTTTTGTTGTTCAAGTTTTGGCAACTC-TGCTTTGGTAAC-TCCGGCTTAGGCA
* * * *
18215 ACACAGGCTGGTTGGGTATGTTTGGCTTGGGAATATTTGGGCCCTCTGGTTTTGAGAGTTCATTC
126 ACTCAGGCTGGTTGGGTATGTTTGGCTTTGGAACATTTGGGCGCTCTGGTTTTGAGAGTTCATTC
18280 GGAACTTTCGACTTTTGTAGC
191 GGAACTTTCGACTTTTGTAGC
*
18301 TCAGAAACTTTAGGAACTTCAGGCTTCAACAACTCCGAAACTTTCGACAATTCAGATTTTGACAA
1 TCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCCGAAACTTTCGACAATTCAGATTTTGACAA
*
18366 CTCAGAAATTTTTGTTGATCAAGTTTTGGCAACTCTGCCTTTGGTAACTCCGGCTTAGGCAACTC
66 CTCAGAAATTTTTGTTGTTCAAGTTTTGGCAACTCTG-CTTTGGTAACTCCGGCTTAGGCAACTC
* * * * *
18431 AGGCTGGTTGGGTATGTTTTGCTTTGGAACATTTGGGTGTTGTGGTTTTGAGAGTTCATCCGGAA
130 AGGCTGGTTGGGTATGTTTGGCTTTGGAACATTTGGGCGCTCTGGTTTTGAGAGTTCATTCGGAA
* *
18496 CTTTCGAGTTTGGTAGC
195 CTTTCGACTTTTGTAGC
** ** * *
18513 TCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCTAAAACTTTCGACAATTCAGGCTTTGATAG
1 TCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCCGAAACTTTCGACAATTCAGATTTTGACAA
* * * ** *
18578 CTCAGAAACTTTTTGTTGTTC-AGATTTTGGCAACTCAGGCTCTGCTAACTTTGGCTTAGGCAAT
66 CTCAGAAA-TTTTTGTTGTTCAAG-TTTTGGCAACTC-TGCTTTGGTAACTCCGGCTTAGGCAAC
* ** * *
18642 TGAGATTGGTTGGGTATGTTTGGCTTTGGAACATTTGGGCGCTCGGGTTGTGAGAGTTCA-TCTG
128 TCAGGCTGGTTGGGTATGTTTGGCTTTGGAACATTTGGGCGCTCTGGTTTTGAGAGTTCATTC-G
*
18706 GAACTTTCAACTTTTGTAGC
192 GAACTTTCGACTTTTGTAGC
18726 TCAGAAACTTT
1 TCAGAAACTTT
18737 TTGTTGTTCA
Statistics
Matches: 375, Mismatches: 53, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
211 2 0.01
212 196 0.52
213 176 0.47
214 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (211 bp):
TCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCCGAAACTTTCGACAATTCAGATTTTGACAA
CTCAGAAATTTTTGTTGTTCAAGTTTTGGCAACTCTGCTTTGGTAACTCCGGCTTAGGCAACTCA
GGCTGGTTGGGTATGTTTGGCTTTGGAACATTTGGGCGCTCTGGTTTTGAGAGTTCATTCGGAAC
TTTCGACTTTTGTAGC
Found at i:18587 original size:33 final size:33
Alignment explanation
Indices: 18504--18589 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 33
18494 AACTTTCGAG
* * *
18504 TTTGGTAGCTCAGAAACTTTAGGAACTTCAGGC
1 TTTGATAGCTCAGAAACTTTACGAAATTCAGGC
* * *
18537 TTCGACAACTCTA-AAACTTT-CGACAATTCAGGC
1 TTTGATAGCTC-AGAAACTTTACGA-AATTCAGGC
18570 TTTGATAGCTCAGAAACTTT
1 TTTGATAGCTCAGAAACTTT
18590 TTGTTGTTCA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
32 3 0.07
33 37 0.90
34 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (33 bp):
TTTGATAGCTCAGAAACTTTACGAAATTCAGGC
Found at i:18843 original size:147 final size:147
Alignment explanation
Indices: 18570--18883 Score: 423
Period size: 147 Copynumber: 2.1 Consensus size: 147
18560 CAATTCAGGC
* * **
18570 TTTGATAGCTCAGAAACTTTTTGTTGTTCAGATTTTGGCAACTCAGGCTCTGCTAACTTTGGCTT
1 TTTG-TAGCTCAGAAACTTTTTGTTGTTCAAATATTGGCAACTCAGGCTCTGCTAACTCCGGCTT
* ** ** * *
18635 AGGCAATTGAGATTGGTTGGGTATGTTTGGCTTTGGAACATTTGGGCGCTCGGGTTGTGAGAGTT
65 AGACAATCAAGACCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGCGCTCGGGTTGTGAGAGTT
* *
18700 CATCTGGAACTTTCAACT
130 CATCCGAAACTTTCAACT
* *
18718 TTTGTAGCTCAGAAACTTTTTGTTGTTCAAATATTGGCAACTCAGGCTTTGGTAACTCCGGCTTA
1 TTTGTAGCTCAGAAACTTTTTGTTGTTCAAATATTGGCAACTCAGGCTCTGCTAACTCCGGCTTA
* * *
18783 GACAACTCAAG-CCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGTGCTCTGGTTTTGAGAGTT
66 GACAA-TCAAGACCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGCGCTCGGGTTGTGAGAGTT
*
18847 CATCCGAAACTTTCGACT
130 CATCCGAAACTTTCAACT
*
18865 TTTGTAGCTCAGAGACTTT
1 TTTGTAGCTCAGAAACTTT
18884 AGAAGCTTCA
Statistics
Matches: 145, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
147 138 0.95
148 7 0.05
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (147 bp):
TTTGTAGCTCAGAAACTTTTTGTTGTTCAAATATTGGCAACTCAGGCTCTGCTAACTCCGGCTTA
GACAATCAAGACCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGCGCTCGGGTTGTGAGAGTTC
ATCCGAAACTTTCAACT
Found at i:19035 original size:360 final size:360
Alignment explanation
Indices: 18357--19096 Score: 993
Period size: 360 Copynumber: 2.1 Consensus size: 360
18347 ACAATTCAGA
* * *
18357 TTTTGACAACTCAGAAA-TTTTTGTTGATCAAGTTTTGGCAACTCTGCCTTTGGTAACTCCGGCT
1 TTTTG-CAACTCAGAAACTTTTTGTTGATCAAATATTGGCAACTCAGCCTTTGGTAACTCCGGCT
* * * * * * * *
18421 TAGGCAACTCAGGCTGGTTGGGTATGTTTTGCTTTGGAACATTTGGGTGTTGTGGTTTTGAGAGT
65 TAGACAACTCAAGCCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGTGCTCTGGTTTTGAGAGT
* * *
18486 TCATCCGGAACTTTCGAGTTTGGTAGCTCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCTAA
130 TCATCCGAAACTTTCGACTTTGGTAGCTCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCCAA
** * * *
18551 AACTTTCGACAATTCAGGCTTTGATAGCTCAGAAACTTTTTGTTGTTCAGATTTTGGCAACTCAG
195 AACTTTCGACAATTCAAACTTTGACAGCTCAGAAACTTTTTCTTGTTCAGATTTTGGCAACTCAA
** * ** *
18616 GCTCTGCTAACTTTGGCTTAGGCAATTGAGATTGGTTGGGTATGTTTGGCTTTGGAACATTT-GG
260 GCTCTGCTAACTCAGGCTTAAGCAATCAAGACTGGTTGGGTATGTTTGGCTTTGGAACATTTCGG
*
18680 GCGCTCGGGTTGTGAGAGTTCATCTGGAACTTTCAAC
325 G-GCTCGGGTTGTGAGAGTTCATCCGGAACTTTCAAC
* * * *
18717 TTTTGTAGCTCAGAAACTTTTTGTTGTTCAAATATTGGCAACTCAGGCTTTGGTAACTCCGGCTT
1 TTTTGCAACTCAGAAACTTTTTGTTGATCAAATATTGGCAACTCAGCCTTTGGTAACTCCGGCTT
18782 AGACAACTCAAGCCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGTGCTCTGGTTTTGAGAGTT
66 AGACAACTCAAGCCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGTGCTCTGGTTTTGAGAGTT
* * **
18847 CATCCGAAACTTTCGACTTTTGTAGCTCAGAGACTTTA-GAAGCTTCAGGCTTCGACAACTCCGG
131 CATCCGAAACTTTCGACTTTGGTAGCTCAGAAACTTTAGGAA-CTTCAGGCTTCGACAACTCCAA
* * ** ** *
18911 ACCTTTCGACAATTCAAATTTTGACATTTCAGAGTCTTTTTCTTGTTCAGGTTTTGGCAACTCAA
195 AACTTTCGACAATTCAAACTTTGACAGCTCAGAAACTTTTTCTTGTTCAGATTTTGGCAACTCAA
* *
18976 GCTTTGCTAACTCAGGCTTAAGCAACTCAAG-CTGGTTGGGTATGTTTGGCTTTGGAACATTTCT
260 GCTCTGCTAACTCAGGCTTAAGCAA-TCAAGACTGGTTGGGTATGTTTGGCTTTGGAACATTTCG
* * * *
19040 GGGCTCTGGTTTTGAGAGTTCATCCGGAATTTTCGAC
324 GGGCTCGGGTTGTGAGAGTTCATCCGGAACTTTCAAC
19077 TTTTGCAACTCAGAAACTTT
1 TTTTGCAACTCAGAAACTTT
19097 AGGAATTGCA
Statistics
Matches: 327, Mismatches: 49, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
359 12 0.04
360 310 0.95
361 5 0.02
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (360 bp):
TTTTGCAACTCAGAAACTTTTTGTTGATCAAATATTGGCAACTCAGCCTTTGGTAACTCCGGCTT
AGACAACTCAAGCCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGTGCTCTGGTTTTGAGAGTT
CATCCGAAACTTTCGACTTTGGTAGCTCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCCAAA
ACTTTCGACAATTCAAACTTTGACAGCTCAGAAACTTTTTCTTGTTCAGATTTTGGCAACTCAAG
CTCTGCTAACTCAGGCTTAAGCAATCAAGACTGGTTGGGTATGTTTGGCTTTGGAACATTTCGGG
GCTCGGGTTGTGAGAGTTCATCCGGAACTTTCAAC
Found at i:19202 original size:15 final size:15
Alignment explanation
Indices: 19181--19220 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
19171 TCGGTTTTGA
19181 CAACTCAGGCTTAGG
1 CAACTCAGGCTTAGG
* *
19196 TAACTCAGGTTTAGG
1 CAACTCAGGCTTAGG
19211 CAACTCAGGC
1 CAACTCAGGC
19221 CGGTTGGGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (15 bp):
CAACTCAGGCTTAGG
Found at i:19231 original size:573 final size:572
Alignment explanation
Indices: 18141--19309 Score: 1539
Period size: 573 Copynumber: 2.0 Consensus size: 572
18131 TTGTTGATTC
* * * * ** *
18141 AGACTTTTGCAACTCGGGAACTTTTTCTTGTTCAGGTATTGGCAACTCATGATTTGGTACTTCCG
1 AGACTTTTGTAGCTCAGAAACTTTTTCTTGTTCAAATATTGGCAACTCAGGATTTGGTACTTCCG
* * * * * *
18206 GCTTAGGCAACACAGGCTGGTTGGGTATGTTTGGCTTGGGAATATTTGGGCCCTCTGGTTTTGAG
66 GCTTAGACAACACAAGCCGGTTGGGTATGTTTGGCTTGGAAACATTAGGGCCCTCTGGTTTTGAG
* *
18271 AGTTCATTCGGAACTTTCGACTTTTGTAGCTCAGAAACTTTAGGAACTTCAGGCTTCAACAACTC
131 AGTTCATCCGAAACTTTCGACTTTTGTAGCTCAGAAACTTTAGGAACTTCAGGCTTCAACAACTC
* *
18336 CGAAACTTTCGACAATTCAGATTTTGACAACTCAGAAATTTTTGTTGATCAAGTTTTGGCAACTC
196 CGAAACTTTCGACAATTCAAATTTTGACAACTCAGAAATTTTTCTTGATCAAGTTTTGGCAACTC
* * * * * *
18401 TGCCTTTGGTAACTCCGGCTTAGGCAACTCAGGCTGGTTGGGTATGTTTTGCTTTGGAACATTTG
261 AGCCTTTGCTAACTCAGGCTTAAGCAACTCAAGCTGGTTGGGTATGTTTGGCTTTGGAACATTTG
* * * * *
18466 GGTGTTGTGGTTTTGAGAGTTCATCCGGAACTTTCGAGTTTGGTAGCTCAGAAACTTTAGGAACT
326 GGTGCTCTGGTTTTGAGAGTTCATCCGGAACTTTCGACTTTGGCAACTCAGAAACTTTAGGAACT
* * *
18531 TCAGGCTTCGACAACTCTAAAACTTTCGACAATTCAGGCTTTGATAGCTCAGAAACTTTTTGTTG
391 TCAGGCTTCGACAACTCCAAAACTTTCGACAATTCAGGCTTTGATAACTCAGAAACATTTTGTTG
* ** * * **
18596 TTCAGATTTTGGCAACTCAGGCTCTGCTAACTTTGGCTTAGGCAATTGAGATTGGTTGGGTATGT
456 TTCAGATTTTGACAACTCAGGCTCTGCTAACTCAGGCTTAGGCAACTCAGACCGGTTGGGTATGT
* *
18661 TTGGCTTTGGAACATTTGGGCGCTCGGGTTGTGAGAGTTCATCTGGAACTTT
521 TCGGCTTTGGAACATTTGGGCGCTCGGGTTGTGAGAGTTCATCCGGAACTTT
* *
18713 CA-ACTTTTGTAGCTCAGAAACTTTTTGTTGTTCAAATATTGGCAACTCAGGCTTTGGTAAC-TC
1 -AGACTTTTGTAGCTCAGAAACTTTTTCTTGTTCAAATATTGGCAACTCAGGATTTGGT-ACTTC
* * **
18776 CGGCTTAGACAACTCAAGCCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGTGCTCTGGTTTTG
64 CGGCTTAGACAACACAAGCCGGTTGGGTATGTTTGGCTTGGAAACATTAGGGCCCTCTGGTTTTG
* *
18841 AGAGTTCATCCGAAACTTTCGACTTTTGTAGCTCAGAGACTTTA-GAAGCTTCAGGCTTCGACAA
129 AGAGTTCATCCGAAACTTTCGACTTTTGTAGCTCAGAAACTTTAGGAA-CTTCAGGCTTCAACAA
* * ** ** * *
18905 CTCCGGACCTTTCGACAATTCAAATTTTGACATTTCAGAGTCTTTTTCTTGTTCAGGTTTTGGCA
193 CTCCGAAACTTTCGACAATTCAAATTTTGACAACTCAGA-AATTTTTCTTGATCAAGTTTTGGCA
18970 ACTCAAG-CTTTGCTAACTCAGGCTTAAGCAACTCAAGCTGGTTGGGTATGTTTGGCTTTGGAAC
257 ACTC-AGCCTTTGCTAACTCAGGCTTAAGCAACTCAAGCTGGTTGGGTATGTTTGGCTTTGGAAC
* * *
19034 ATTTCTGG-GCTCTGGTTTTGAGAGTTCATCCGGAATTTTCGACTTTTGCAACTCAGAAACTTTA
321 ATTT-GGGTGCTCTGGTTTTGAGAGTTCATCCGGAACTTTCGACTTTGGCAACTCAGAAACTTTA
** * *
19098 GGAA-TTGCAGGCTTCGACAACTCCGGAACTTTCGACAATTCAGGTTTTG-TCAACTCATAAACA
385 GGAACTT-CAGGCTTCGACAACTCCAAAACTTTCGACAATTCAGGCTTTGAT-AACTCAGAAACA
* * * *
19161 TTTTGTTGTTTC-GGTTTTGACAACTCAGGCT-TAGGTAACTCAGGTTTAGGCAACTCAGGCCGG
448 TTTTGTTG-TTCAGATTTTGACAACTCAGGCTCT-GCTAACTCAGGCTTAGGCAACTCAGACCGG
** * *
19224 TTGGGTATGTTCGGCTTTGGAACATTTGGTTGCTCTGGTTTTGAGAGTTCATCCGGAACTTT
511 TTGGGTATGTTCGGCTTTGGAACATTTGGGCGCTCGGGTTGTGAGAGTTCATCCGGAACTTT
19286 AGACTTTTGTAGCTCAGAAA-TTTT
1 AGACTTTTGTAGCTCAGAAACTTTT
19310 AGGAACTTCA
Statistics
Matches: 515, Mismatches: 71, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
571 3 0.01
572 203 0.39
573 303 0.59
574 6 0.01
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (572 bp):
AGACTTTTGTAGCTCAGAAACTTTTTCTTGTTCAAATATTGGCAACTCAGGATTTGGTACTTCCG
GCTTAGACAACACAAGCCGGTTGGGTATGTTTGGCTTGGAAACATTAGGGCCCTCTGGTTTTGAG
AGTTCATCCGAAACTTTCGACTTTTGTAGCTCAGAAACTTTAGGAACTTCAGGCTTCAACAACTC
CGAAACTTTCGACAATTCAAATTTTGACAACTCAGAAATTTTTCTTGATCAAGTTTTGGCAACTC
AGCCTTTGCTAACTCAGGCTTAAGCAACTCAAGCTGGTTGGGTATGTTTGGCTTTGGAACATTTG
GGTGCTCTGGTTTTGAGAGTTCATCCGGAACTTTCGACTTTGGCAACTCAGAAACTTTAGGAACT
TCAGGCTTCGACAACTCCAAAACTTTCGACAATTCAGGCTTTGATAACTCAGAAACATTTTGTTG
TTCAGATTTTGACAACTCAGGCTCTGCTAACTCAGGCTTAGGCAACTCAGACCGGTTGGGTATGT
TCGGCTTTGGAACATTTGGGCGCTCGGGTTGTGAGAGTTCATCCGGAACTTT
Found at i:19372 original size:33 final size:33
Alignment explanation
Indices: 19296--19375 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
19286 AGACTTTTGT
* *
19296 AGCTCAGAAATTTTAGGAACTTCAGTCTTCGAC
1 AGCTCAGAAACTTTAGGAAATTCAGTCTTCGAC
* * *
19329 AACTCCGAAACTTT-GGACAATTCAGGT-TTTGAC
1 AGCTCAGAAACTTTAGGA-AATTCA-GTCTTCGAC
19362 AGCTCAGAAACTTT
1 AGCTCAGAAACTTT
19376 TTGTTGTTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 3 0.08
33 33 0.87
34 2 0.05
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (33 bp):
AGCTCAGAAACTTTAGGAAATTCAGTCTTCGAC
Found at i:19428 original size:15 final size:15
Alignment explanation
Indices: 19410--19449 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
19400 GGGCTTTGAT
*
19410 AACTCCGGCTTAGGC
1 AACTCAGGCTTAGGC
19425 AACTCAGGCTTAGGC
1 AACTCAGGCTTAGGC
19440 AACTCAGGCT
1 AACTCAGGCT
19450 GGTTGAGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (15 bp):
AACTCAGGCTTAGGC
Found at i:19433 original size:213 final size:212
Alignment explanation
Indices: 18723--19430 Score: 938
Period size: 213 Copynumber: 3.3 Consensus size: 212
18713 CAACTTTTGT
** * * *
18723 AGCTCAGAAACTTTTTGTTGTTCAAATATTGGCAACTCAGGCTTTGGTAACTCCGGCTTAGACAA
1 AGCTCAGAAACTTTTTGTTGTTCAGGTTTTGGCAACTCAGGCTTTGGTAACTCAGGCTTAGGCAA
* *
18788 CTCAAGCCGGTTGGGTATGTTTGGCTTTGAAACATTAGGGTGCTCTGGTTTTGAGAGTTCATCCG
66 CTCAAGCCGGTTGGGTATGTTTGGCTTTGGAACATT-TGGTGCTCTGGTTTTGAGAGTTCATCCG
* * *
18853 AAACTTTCGACTTTTGTAGCTCAGAGACTTTA-GAAGCTTCAGGCTTCGACAACTCCGGACCTTT
130 GAACTTTCGACTTTTGTAGCTCAGAAACTTTAGGAA-CTTCAGGCTTCGACAACTCCGGAACTTT
**
18917 CGACAATTCAAATTTTGAC
194 CGACAATTCAGGTTTTGAC
** ** * * * *
18936 ATTTCAGAGTCTTTTTCTTGTTCAGGTTTTGGCAACTCAAGCTTTGCTAACTCAGGCTTAAGCAA
1 AGCTCAGAAACTTTTTGTTGTTCAGGTTTTGGCAACTCAGGCTTTGGTAACTCAGGCTTAGGCAA
*
19001 CTCAAGCTGGTTGGGTATGTTTGGCTTTGGAACATTTCTGG-GCTCTGGTTTTGAGAGTTCATCC
66 CTCAAGCCGGTTGGGTATGTTTGGCTTTGGAACA-TT-TGGTGCTCTGGTTTTGAGAGTTCATCC
* * *
19065 GGAATTTTCGACTTTTGCAACTCAGAAACTTTAGGAA-TTGCAGGCTTCGACAACTCCGGAACTT
129 GGAACTTTCGACTTTTGTAGCTCAGAAACTTTAGGAACTT-CAGGCTTCGACAACTCCGGAACTT
*
19129 TCGACAATTCAGGTTTTGTC
193 TCGACAATTCAGGTTTTGAC
* * * * * *
19149 AACTCATAAACATTTTGTTGTTTC-GGTTTTGACAACTCAGGCTTAGGTAACTCAGGTTTAGGCA
1 AGCTCAGAAACTTTTTGTTG-TTCAGGTTTTGGCAACTCAGGCTTTGGTAACTCAGGCTTAGGCA
* *
19213 ACTCAGGCCGGTTGGGTATGTTCGGCTTTGGAACATTTGGTTGCTCTGGTTTTGAGAGTTCATCC
65 ACTCAAGCCGGTTGGGTATGTTTGGCTTTGGAACATTTGG-TGCTCTGGTTTTGAGAGTTCATCC
* * * *
19278 GGAACTTTAGACTTTTGTAGCTCAGAAATTTTAGGAACTTCAGTCTTCGACAACTCCGAAACTTT
129 GGAACTTTCGACTTTTGTAGCTCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCCGGAACTTT
*
19343 GGACAATTCAGGTTTTGAC
194 CGACAATTCAGGTTTTGAC
* * * * *
19362 AGCTCAGAAACTTTTTGTTGTTCAGGTTTTCGCGACTCGGGCTTTGATAACTCCGGCTTAGGCAA
1 AGCTCAGAAACTTTTTGTTGTTCAGGTTTTGGCAACTCAGGCTTTGGTAACTCAGGCTTAGGCAA
19427 CTCA
66 CTCA
19431 GGCTTAGGCA
Statistics
Matches: 425, Mismatches: 62, Indels: 16
0.84 0.12 0.03
Matches are distributed among these distances:
211 3 0.01
212 7 0.02
213 403 0.95
214 12 0.03
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (212 bp):
AGCTCAGAAACTTTTTGTTGTTCAGGTTTTGGCAACTCAGGCTTTGGTAACTCAGGCTTAGGCAA
CTCAAGCCGGTTGGGTATGTTTGGCTTTGGAACATTTGGTGCTCTGGTTTTGAGAGTTCATCCGG
AACTTTCGACTTTTGTAGCTCAGAAACTTTAGGAACTTCAGGCTTCGACAACTCCGGAACTTTCG
ACAATTCAGGTTTTGAC
Found at i:22045 original size:30 final size:30
Alignment explanation
Indices: 22009--22086 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
21999 CGTCTGAAAA
22009 GGGCTTATTTGGCCTTTTTAA-AGAGTTCAG
1 GGGCTTATTTGGCC-TTTTAATAGAGTTCAG
**
22039 GGGCTTATTTGG--TTGCAATTAGAGTTCAG
1 GGGCTTATTTGGCCTTTTAA-TAGAGTTCAG
22068 GGGCTTATTTGGCCGTTTT
1 GGGCTTATTTGGCC-TTTT
22087 GTGTAAGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 4 0.10
29 21 0.54
30 12 0.31
32 2 0.05
ACGTcount: A:0.17, C:0.13, G:0.29, T:0.41
Consensus pattern (30 bp):
GGGCTTATTTGGCCTTTTAATAGAGTTCAG
Found at i:28369 original size:18 final size:18
Alignment explanation
Indices: 28346--28510 Score: 132
Period size: 18 Copynumber: 9.7 Consensus size: 18
28336 GTAATTCAGG
*
28346 TTTTGGTAACTCGGGAAC
1 TTTTGGTAATTCGGGAAC
*
28364 TTTTGGTAATTCAGG--C
1 TTTTGGTAATTCGGGAAC
*
28380 -TTTGGTAACTCGGGAAC
1 TTTTGGTAATTCGGGAAC
* * *
28397 TTTTGGCAATTCCGGACC
1 TTTTGGTAATTCGGGAAC
*
28415 TTTTGGTAATTCAGG--C
1 TTTTGGTAATTCGGGAAC
* *
28431 -TTTGGCAACTCGGGAAC
1 TTTTGGTAATTCGGGAAC
* *
28448 TTTTGGCAATTCCGGAAC
1 TTTTGGTAATTCGGGAAC
*
28466 TTTTGGTAATTCAGG--C
1 TTTTGGTAATTCGGGAAC
* *
28482 -TTTGGCAACTCGGGAAC
1 TTTTGGTAATTCGGGAAC
*
28499 TTTTGGCAATTC
1 TTTTGGTAATTC
28511 AAGTTTGGGC
Statistics
Matches: 117, Mismatches: 21, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
15 34 0.29
16 3 0.03
17 3 0.03
18 77 0.66
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (18 bp):
TTTTGGTAATTCGGGAAC
Found at i:28374 original size:33 final size:33
Alignment explanation
Indices: 28338--28566 Score: 194
Period size: 33 Copynumber: 6.8 Consensus size: 33
28328 TGGTTTGGGT
* *
28338 AATTCAGGTTTTGGTAACTCGGGAACTTTTGGT
1 AATTCAGGTTTTGGCAACTCGGGAACTTTTGGC
* *
28371 AATTCAGGCTTTGGTAACTCGGGAACTTTTGGC
1 AATTCAGGTTTTGGCAACTCGGGAACTTTTGGC
* * * *
28404 AATTCCGGACCTTTTGGTAATTCAGG--C-TTTGGC
1 AATTCAGG---TTTTGGCAACTCGGGAACTTTTGGC
* * * * *
28437 AACTCGGGAACTTTTGGCAATTCCGGAACTTTTGGT
1 AATTCAGG---TTTTGGCAACTCGGGAACTTTTGGC
*
28473 AATTCAGGCTTTGGCAACTCGGGAACTTTTGGC
1 AATTCAGGTTTTGGCAACTCGGGAACTTTTGGC
* * * * **
28506 AATTCAAGTTTGGGCAATTCAGGAACTTCAGGC
1 AATTCAGGTTTTGGCAACTCGGGAACTTTTGGC
*
28539 AATTCAGGTTTTGGCAACTCTGGAACTT
1 AATTCAGGTTTTGGCAACTCGGGAACTT
28567 GGGCTTCTAA
Statistics
Matches: 161, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
33 136 0.84
34 1 0.01
35 1 0.01
36 23 0.14
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (33 bp):
AATTCAGGTTTTGGCAACTCGGGAACTTTTGGC
Found at i:28402 original size:51 final size:51
Alignment explanation
Indices: 28359--28510 Score: 286
Period size: 51 Copynumber: 3.0 Consensus size: 51
28349 TGGTAACTCG
*
28359 GGAACTTTTGGTAATTCAGGCTTTGGTAACTCGGGAACTTTTGGCAATTCC
1 GGAACTTTTGGTAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTCC
*
28410 GGACCTTTTGGTAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTCC
1 GGAACTTTTGGTAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTCC
28461 GGAACTTTTGGTAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTC
1 GGAACTTTTGGTAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTC
28511 AAGTTTGGGC
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 98 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (51 bp):
GGAACTTTTGGTAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTCC
Found at i:28486 original size:84 final size:82
Alignment explanation
Indices: 28335--28558 Score: 227
Period size: 84 Copynumber: 2.7 Consensus size: 82
28325 TTCTGGTTTG
* * *
28335 GGTAATTCAGGTTTTGGTAACTCGGGAACTTTTGGTAATTCAGGCTTTGGTAACTCGGGAACTTT
1 GGTAATTCAGG-TTTGGCAACTCGGGAACTTTTGGCAATTCAGGCTTTGGTAACTCAGG-ACTTT
* *
28400 TGGCAATTCCGGACCTTTT
64 TGGCAACTCCGGAACTTTT
* *
28419 GGTAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTCCGGAACTTTTGGTAATTCAGG-C-
1 GGTAATTCAGG-TTTGGCAACTCGGGAACTTTTGGCAATTCAGG--C-TTTGGTAACTCAGGACT
*
28482 TTTGGCAACTCGGGAACTTTT
62 TTTGGCAACTCCGGAACTTTT
* * * * ** * *
28503 GGCAATTCAAGTTTGGGCAATTCAGGAACTTCAGGCAATTCAGGTTTTGGCAACTC
1 GGTAATTCAGGTTT-GGCAACTCGGGAACTTTTGGCAATTCAGGCTTTGGTAACTC
28559 TGGAACTTGG
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
81 9 0.08
83 3 0.03
84 91 0.78
85 1 0.01
86 1 0.01
87 12 0.10
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (82 bp):
GGTAATTCAGGTTTGGCAACTCGGGAACTTTTGGCAATTCAGGCTTTGGTAACTCAGGACTTTTG
GCAACTCCGGAACTTTT
Found at i:28703 original size:99 final size:99
Alignment explanation
Indices: 28577--28801 Score: 261
Period size: 99 Copynumber: 2.3 Consensus size: 99
28567 GGGCTTCTAA
* * * * * *
28577 TTTAGGCAACTCCGGCTTTGGAAACTCAGAAACTTTGGGTAATTCTGGCTTAGGAAACTCTGGAG
1 TTTAGGCAATTCCGGTTTTGGCAACTCAGAAACTTTGGGCAATTCAGGCTTAGGAAACTCTGGAA
*
28642 TTTTTGGCAATTCAGGCTTAGACAACTCAGGAAC
66 TTTTCGGCAATTCAGGCTTAGACAACTCAGGAAC
* * * * * * *
28676 TTTAGGCAATTCAGGTTTTGGCAACTCAGAAATTTTTGGCAATTCAGGTTTGGGCAATTCTGGAA
1 TTTAGGCAATTCCGGTTTTGGCAACTCAGAAACTTTGGGCAATTCAGGCTTAGGAAACTCTGGAA
* * * * *
28741 TTTTCGGTAATTCGGGCTTTGGCAACTCTGGAAC
66 TTTTCGGCAATTCAGGCTTAGACAACTCAGGAAC
* *
28775 TTTCGGTAATTCCGGTTTTGGCAACTC
1 TTTAGGCAATTCCGGTTTTGGCAACTC
28802 TAGAGCTTTG
Statistics
Matches: 104, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
99 104 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (99 bp):
TTTAGGCAATTCCGGTTTTGGCAACTCAGAAACTTTGGGCAATTCAGGCTTAGGAAACTCTGGAA
TTTTCGGCAATTCAGGCTTAGACAACTCAGGAAC
Found at i:28704 original size:15 final size:15
Alignment explanation
Indices: 28643--28735 Score: 60
Period size: 15 Copynumber: 5.8 Consensus size: 15
28633 ACTCTGGAGT
28643 TTTTGGCAATTCAGG
1 TTTTGGCAATTCAGG
* * * *
28658 CTTAGACAACTCAGG
1 TTTTGGCAATTCAGG
*
28673 AACTTTAGGCAATTCAGG
1 ---TTTTGGCAATTCAGG
* *
28691 TTTTGGCAACTCAGAAAT
1 TTTTGGCAATTCAG---G
28709 TTTTGGCAATTCAGG
1 TTTTGGCAATTCAGG
*
28724 TTTGGGCAATTC
1 TTTTGGCAATTC
28736 TGGAATTTTC
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
15 34 0.58
18 25 0.42
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (15 bp):
TTTTGGCAATTCAGG
Found at i:28786 original size:66 final size:66
Alignment explanation
Indices: 28599--28801 Score: 199
Period size: 66 Copynumber: 3.1 Consensus size: 66
28589 CGGCTTTGGA
* * * * * * * *
28599 AACTCAGAAACTTTGGGTAATTCTGGCTTAGGAAACTCTGGAGTTTTTGGCAATTCAGGCTTAGA
1 AACTCAGGAACTTTAGGTAATTCAGGCTTTGGCAACTCTGGAATTTTTGGCAATTCAGGTTTAGG
28664 C
66 C
* * * * *
28665 AACTCAGGAACTTTAGGCAATTCAGGTTTTGGCAACTCAGAAATTTTTGGCAATTCAGGTTTGGG
1 AACTCAGGAACTTTAGGTAATTCAGGCTTTGGCAACTCTGGAATTTTTGGCAATTCAGGTTTAGG
28730 C
66 C
* * * * * * * * * *
28731 AATTCTGGAATTTTCGGTAATTCGGGCTTTGGCAACTCTGGAACTTTCGGTAATTCCGGTTTTGG
1 AACTCAGGAACTTTAGGTAATTCAGGCTTTGGCAACTCTGGAATTTTTGGCAATTCAGGTTTAGG
28796 C
66 C
28797 AACTC
1 AACTC
28802 TAGAGCTTTG
Statistics
Matches: 109, Mismatches: 28, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
66 109 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (66 bp):
AACTCAGGAACTTTAGGTAATTCAGGCTTTGGCAACTCTGGAATTTTTGGCAATTCAGGTTTAGG
C
Found at i:28802 original size:33 final size:33
Alignment explanation
Indices: 28581--28802 Score: 167
Period size: 33 Copynumber: 6.7 Consensus size: 33
28571 TTCTAATTTA
* * * * * *
28581 GGCAACTCCGGCTTTGGAAACTCAGAAACTTTG
1 GGCAATTCAGGCTTTGGCAACTCTGGAACTTTC
* * * * ** *
28614 GGTAATTCTGGCTTAGGAAACTCTGGAGTTTTT
1 GGCAATTCAGGCTTTGGCAACTCTGGAACTTTC
* * * *
28647 GGCAATTCAGGCTTAGACAACTCAGGAACTTTA
1 GGCAATTCAGGCTTTGGCAACTCTGGAACTTTC
* * * * *
28680 GGCAATTCAGGTTTTGGCAACTCAGAAATTTTT
1 GGCAATTCAGGCTTTGGCAACTCTGGAACTTTC
* *
28713 GGCAATTCAGG-TTTGGGCAATTCTGGAATTTTC
1 GGCAATTCAGGCTTT-GGCAACTCTGGAACTTTC
* *
28746 GGTAATTCGGGCTTTGGCAACTCTGGAACTTTC
1 GGCAATTCAGGCTTTGGCAACTCTGGAACTTTC
* * *
28779 GGTAATTCCGGTTTTGGCAACTCT
1 GGCAATTCAGGCTTTGGCAACTCT
28803 AGAGCTTTGG
Statistics
Matches: 154, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
32 3 0.02
33 148 0.96
34 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (33 bp):
GGCAATTCAGGCTTTGGCAACTCTGGAACTTTC
Found at i:28840 original size:243 final size:243
Alignment explanation
Indices: 28448--28999 Score: 617
Period size: 243 Copynumber: 2.3 Consensus size: 243
28438 ACTCGGGAAC
* *
28448 TTTTGGCAATTCCGGAACTTTTGGTAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTCAA
1 TTTTGGCAACTCCGGAACTTTTGGCAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTCAA
* * * *
28513 GTTTGGGCAATTCAGGAACTTCAGGCAATTCAGGTTTTGGCAACTCTGGAACTTGGGCTTCTAAT
66 GTTTGGGCAACTCAGGAACTTCAGGCAATTCAGGTTTTGGCAACTCTAGAACTTGGGCATCCAAT
** * * * * **
28578 TTAGGCAACTCCGGCTTTGGAAACTCAGAAACTTTGGGTAATTCTGGCTTAGGAAACTCTGGAGT
131 TTAGAAAACTCCGGCTTTGGAAACTCAGAAACTTTGGGAAATTCAGGCTTAGCAAACTCAGGAAC
28643 TTTTGGCAATTCAGGCTTAGACAACTCAGGAACTTTAGGCAATTCAGG
196 TTTTGGCAATTCAGGCTTAGACAACTCAGGAACTTTAGGCAATTCAGG
* * * * * *
28691 TTTTGGCAACTCAGAAATTTTTGGCAATTCAGG-TTTGGGCAATTCTGGAA-TTTTCGGTAATTC
1 TTTTGGCAACTCCGGAACTTTTGGCAATTCAGGCTTT-GGCAACTCGGGAACTTTT-GGCAATTC
** * * * * *
28754 GGGCTTT-GGCAACTCTGGAACTTTC-GGTAATTCCGGTTTTGGCAACTCTAGAGCTTTGGCATC
64 AAG-TTTGGGCAACTCAGGAAC-TTCAGGCAATTCAGGTTTTGGCAACTCTAGAACTTGGGCATC
* * * * * *
28817 CAATTTAGAAAACTCTGGCTTTGGTAACTCTGGAACTTTGGGAAATTCAGGCTTTGCCAACTCAG
127 CAATTTAGAAAACTCCGGCTTTGGAAACTCAGAAACTTTGGGAAATTCAGGCTTAGCAAACTCAG
* * * **
28882 GAACTTTTGGCAATTCAGGCTTTGGCAATTCAGGAGTTTTAGGCAATTCAGG
192 GAACTTTTGGCAATTCAGGCTTAGACAACTCAGGAACTTTAGGCAATTCAGG
* * * * **
28934 TTTTGACAACTCCGGAACTTTGGGCAATTCTGGCACTTTTGGCAACTCAGGAGTTTTTGGCAATT
1 TTTTGGCAACTCCGGAACTTTTGGCAATTCAGG--C-TTTGGCAACTCGGGAACTTTTGGCAATT
28999 C
63 C
29000 TGGCTTAGGA
Statistics
Matches: 252, Mismatches: 48, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
242 7 0.03
243 215 0.85
244 6 0.02
246 17 0.07
247 7 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (243 bp):
TTTTGGCAACTCCGGAACTTTTGGCAATTCAGGCTTTGGCAACTCGGGAACTTTTGGCAATTCAA
GTTTGGGCAACTCAGGAACTTCAGGCAATTCAGGTTTTGGCAACTCTAGAACTTGGGCATCCAAT
TTAGAAAACTCCGGCTTTGGAAACTCAGAAACTTTGGGAAATTCAGGCTTAGCAAACTCAGGAAC
TTTTGGCAATTCAGGCTTAGACAACTCAGGAACTTTAGGCAATTCAGG
Found at i:28879 original size:33 final size:33
Alignment explanation
Indices: 28833--29014 Score: 166
Period size: 33 Copynumber: 5.4 Consensus size: 33
28823 AGAAAACTCT
* * *
28833 GGCTTTGGTAACTCTGGAACTTTGGGAAATTCA
1 GGCTTTGGCAACTCAGGAACTTTGGGCAATTCA
* *
28866 GGCTTTGCCAACTCAGGAACTTTTGGCAATTCA
1 GGCTTTGGCAACTCAGGAACTTTGGGCAATTCA
* ** *
28899 GGCTTTGGCAATTCAGGAGTTTTAGGCAATTCA
1 GGCTTTGGCAACTCAGGAACTTTGGGCAATTCA
* * * *
28932 GGTTTTGACAACTCCGGAACTTTGGGCAATTCT
1 GGCTTTGGCAACTCAGGAACTTTGGGCAATTCA
** * *
28965 GGCACTTTTGGCAACTCAGGAGTTTTTGGCAATTCT
1 GG--C-TTTGGCAACTCAGGAACTTTGGGCAATTCA
* *
29001 GGCTTAGGAAACTC
1 GGCTTTGGCAACTC
29015 GGGCTGTTTG
Statistics
Matches: 120, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
33 92 0.77
34 1 0.01
36 27 0.22
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (33 bp):
GGCTTTGGCAACTCAGGAACTTTGGGCAATTCA
Found at i:28899 original size:18 final size:17
Alignment explanation
Indices: 28860--28999 Score: 103
Period size: 18 Copynumber: 8.3 Consensus size: 17
28850 AACTTTGGGA
*
28860 AATTCAGG-C-TTTGCC
1 AATTCAGGACTTTTGGC
*
28875 AACTCAGGAACTTTTGGC
1 AATTCAGG-ACTTTTGGC
28893 AATTCAGG-C-TTTGGC
1 AATTCAGGACTTTTGGC
*
28908 AATTCAGGAGTTTTAGGC
1 AATTCAGGACTTTT-GGC
*
28926 AATTCAGG--TTTTGAC
1 AATTCAGGACTTTTGGC
* * *
28941 AACTCCGGAACTTTGGGC
1 AATTCAGG-ACTTTTGGC
*
28959 AATTCTGGCACTTTTGGC
1 AATTCAGG-ACTTTTGGC
* *
28977 AACTCAGGAGTTTTTGGC
1 AATTCAGGA-CTTTTGGC
28995 AATTC
1 AATTC
29000 TGGCTTAGGA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
15 29 0.30
16 5 0.05
17 5 0.05
18 59 0.60
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (17 bp):
AATTCAGGACTTTTGGC
Found at i:28945 original size:66 final size:68
Alignment explanation
Indices: 28860--29005 Score: 197
Period size: 66 Copynumber: 2.2 Consensus size: 68
28850 AACTTTGGGA
* * *
28860 AATTCAGGCTTTGCCAACTCAGGAACTTTTGGCAATTCAGG-C-TTTGGCAATTCAGGAGTTTTA
1 AATTCAGGCTTTGACAACTCAGGAACTTTGGGCAATTCAGGACTTTTGGCAACTCAGGAGTTTTA
28923 GGC
66 GGC
* * *
28926 AATTCAGGTTTTGACAACTCCGGAACTTTGGGCAATTCTGGCACTTTTGGCAACTCAGGAGTTTT
1 AATTCAGGCTTTGACAACTCAGGAACTTTGGGCAATTCAGG-ACTTTTGGCAACTCAGGAGTTTT
*
28991 TGGC
65 AGGC
*
28995 AATTCTGGCTT
1 AATTCAGGCTT
29006 AGGAAACTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
66 36 0.53
68 1 0.01
69 31 0.46
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (68 bp):
AATTCAGGCTTTGACAACTCAGGAACTTTGGGCAATTCAGGACTTTTGGCAACTCAGGAGTTTTA
GGC
Found at i:29014 original size:69 final size:66
Alignment explanation
Indices: 28874--29014 Score: 167
Period size: 69 Copynumber: 2.1 Consensus size: 66
28864 CAGGCTTTGC
* * **
28874 CAACTCAGGAACTTTTGGCAATTCAGGCTTTGGCAATTCAGGAGTTTTAGGCAATTCAGGTTTTG
1 CAACTCAGGAACTTTGGGCAATTCAGGCTTTGGCAACTCAGGAGTTTTAGGCAATTCAGGTTAGG
28939 A
66 A
* * * *
28940 CAACTCCGGAACTTTGGGCAATTCTGGCACTTTTGGCAACTCAGGAGTTTTTGGCAATTCTGGCT
1 CAACTCAGGAACTTTGGGCAATTCAGG--C-TTTGGCAACTCAGGAGTTTTAGGCAATTCAGG-T
29005 TAGGA
62 TAGGA
29010 -AACTC
1 CAACTC
29015 GGGCTGTTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
66 24 0.38
68 1 0.02
69 34 0.54
70 4 0.06
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (66 bp):
CAACTCAGGAACTTTGGGCAATTCAGGCTTTGGCAACTCAGGAGTTTTAGGCAATTCAGGTTAGG
A
Found at i:30777 original size:124 final size:127
Alignment explanation
Indices: 30636--30891 Score: 403
Period size: 124 Copynumber: 2.0 Consensus size: 127
30626 CATTGTTTAA
*
30636 ACTTTTATAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATAT-C-AT-TA-
1 ACTTTTACAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTATCTAT
* *
30697 TAATTTTTACCATTTTACTATTTTAATTAAAAAAATTTTTATATATTAGAATTTTTTAAATAT
66 TAATTTTTACCATTTTACTATTTTAATT-AAAAAACTTATATATATTAGAATTTTTTAAATAT
30760 ACTTTTACAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTTATACC
1 ACTTTTACAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCC-TAT--C
*
30825 TATTTTATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATA
63 TA-TTAATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATA
30890 T
127 T
30891 A
1 A
30892 TTTCTTAAAT
Statistics
Matches: 120, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
124 55 0.46
125 1 0.01
127 2 0.02
130 2 0.02
131 33 0.28
132 27 0.22
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (127 bp):
ACTTTTACAGTTTTACTCAACTAAAAACTCTATTTTTATTTAATTAAATCTAATATCCTATCTAT
TAATTTTTACCATTTTACTATTTTAATTAAAAAACTTATATATATTAGAATTTTTTAAATAT
Found at i:32514 original size:30 final size:29
Alignment explanation
Indices: 32478--32548 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
32468 CATCAGAAAA
***
32478 GGGCTTATTTGGCCTTTTATAAGAATTCAG
1 GGGCTTATTTGG-CTACAATAAGAATTCAG
* *
32508 GGGCTTATTTGGCTACAATTAGAGTTCAG
1 GGGCTTATTTGGCTACAATAAGAATTCAG
32537 GGGCTTATTTGG
1 GGGCTTATTTGG
32549 TCGTTTTGTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 24 0.67
30 12 0.33
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (29 bp):
GGGCTTATTTGGCTACAATAAGAATTCAG
Found at i:33664 original size:33 final size:33
Alignment explanation
Indices: 33615--33829 Score: 178
Period size: 33 Copynumber: 6.5 Consensus size: 33
33605 TTCAGCCTTT
* * * * *
33615 GGAACTTTTGGTAATTCTGCCTTGGGTAACTCG
1 GGAACTTTAGGCAATTCAGGCTTGGGCAACTCG
* * * *
33648 GGAACTTTAGGCAATTCAGGTTTTGGTAACTCT
1 GGAACTTTAGGCAATTCAGGCTTGGGCAACTCG
* * * * *
33681 GGAACTTTTGGTAATTCAGGCTCGGGTAGCTCG
1 GGAACTTTAGGCAATTCAGGCTTGGGCAACTCG
* * * *
33714 GGAATTTTAGGCAAATCAGGCTTTGGCAACTCA
1 GGAACTTTAGGCAATTCAGGCTTGGGCAACTCG
* * * *
33747 GGAACTTTTGGGAATTCAGGCTTGGGCAATTCC
1 GGAACTTTAGGCAATTCAGGCTTGGGCAACTCG
* * * * * *
33780 GAAATTTTCGGCACTTCAGGCTTTGGCAACTCT
1 GGAACTTTAGGCAATTCAGGCTTGGGCAACTCG
33813 GGAACTTTAGGCAATTC
1 GGAACTTTAGGCAATTC
33830 TGGAACTTTG
Statistics
Matches: 140, Mismatches: 42, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
33 140 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (33 bp):
GGAACTTTAGGCAATTCAGGCTTGGGCAACTCG
Found at i:33694 original size:66 final size:66
Alignment explanation
Indices: 33614--33829 Score: 270
Period size: 66 Copynumber: 3.3 Consensus size: 66
33604 ATTCAGCCTT
* * * * *
33614 TGGAACTTTTGGTAATTCTGCCTTGGGTAACTCGGGAACTTTAGGCAATTCAGGTTTTGGTAACT
1 TGGAACTTTTGGTAATTCAGGCTTGGGTAACTCGGGAATTTTAGGCAATTCAGGCTTTGGCAACT
33679 C
66 C
* * *
33680 TGGAACTTTTGGTAATTCAGGCTCGGGTAGCTCGGGAATTTTAGGCAAATCAGGCTTTGGCAACT
1 TGGAACTTTTGGTAATTCAGGCTTGGGTAACTCGGGAATTTTAGGCAATTCAGGCTTTGGCAACT
33745 C
66 C
* * * * * * * *
33746 AGGAACTTTTGGGAATTCAGGCTTGGGCAATTCCGAAATTTTCGGCACTTCAGGCTTTGGCAACT
1 TGGAACTTTTGGTAATTCAGGCTTGGGTAACTCGGGAATTTTAGGCAATTCAGGCTTTGGCAACT
33811 C
66 C
* *
33812 TGGAACTTTAGGCAATTC
1 TGGAACTTTTGGTAATTC
33830 TGGAACTTTG
Statistics
Matches: 128, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 128 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (66 bp):
TGGAACTTTTGGTAATTCAGGCTTGGGTAACTCGGGAATTTTAGGCAATTCAGGCTTTGGCAACT
C
Found at i:33831 original size:18 final size:17
Alignment explanation
Indices: 33800--33841 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
33790 GCACTTCAGG
33800 CTTTGGCAACTCTGGAA
1 CTTTGGCAACTCTGGAA
*
33817 CTTTAGGCAATTCTGGAA
1 CTTT-GGCAACTCTGGAA
33835 CTTTGGC
1 CTTTGGC
33842 TTCTAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (17 bp):
CTTTGGCAACTCTGGAA
Found at i:33974 original size:33 final size:34
Alignment explanation
Indices: 33926--34066 Score: 146
Period size: 33 Copynumber: 4.3 Consensus size: 34
33916 TTGGCAACTT
*
33926 TGGAACTTCAGGCAATTCAGG-TTTGGGAAATTC
1 TGGAACTTTAGGCAATTCAGGCTTTGGGAAATTC
* * * * *
33959 CGGAATTTTGGGCAATTCAGGCTTT-GGCAACTC
1 TGGAACTTTAGGCAATTCAGGCTTTGGGAAATTC
* * *
33992 TGGAACTTTCGGCAATTCTGGC-TTGGGTAATTC
1 TGGAACTTTAGGCAATTCAGGCTTTGGGAAATTC
* * *
34025 TGGAACTTTAGGCAACTCAGGCTTT-GGCAACTC
1 TGGAACTTTAGGCAATTCAGGCTTTGGGAAATTC
34058 TGGAACTTT
1 TGGAACTTT
34067 GCCTTCTAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
32 2 0.02
33 81 0.92
34 5 0.06
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (34 bp):
TGGAACTTTAGGCAATTCAGGCTTTGGGAAATTC
Found at i:33985 original size:66 final size:65
Alignment explanation
Indices: 33882--34065 Score: 212
Period size: 66 Copynumber: 2.8 Consensus size: 65
33872 CTCGGGAACA
* * *
33882 TTGGGAAATTCAGG--C-TTAGGCAACTCCGGCATTTTTGGCAACTTTGGAACTTCAGGCAATTC
1 TTGGGAAATTCCGGAACTTTAGGCAACTCAGGC---TTTGGCAACTCTGGAACTTC-GGCAATTC
*
33944 AGGT
62 AGGC
* * * *
33948 TTGGGAAATTCCGGAATTTTGGGCAATTCAGGCTTTGGCAACTCTGGAACTTTCGGCAATTCTGG
1 TTGGGAAATTCCGGAACTTTAGGCAACTCAGGCTTTGGCAACTCTGGAAC-TTCGGCAATTCAGG
34013 C
65 C
* *
34014 TTGGGTAATTCTGGAACTTTAGGCAACTCAGGCTTTGGCAACTCTGGAACTT
1 TTGGGAAATTCCGGAACTTTAGGCAACTCAGGCTTTGGCAACTCTGGAACTT
34066 TGCCTTCTAA
Statistics
Matches: 101, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
65 2 0.02
66 84 0.83
67 3 0.03
69 12 0.12
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (65 bp):
TTGGGAAATTCCGGAACTTTAGGCAACTCAGGCTTTGGCAACTCTGGAACTTCGGCAATTCAGGC
Found at i:34055 original size:15 final size:15
Alignment explanation
Indices: 33978--34060 Score: 67
Period size: 15 Copynumber: 5.1 Consensus size: 15
33968 GGGCAATTCA
33978 GGCTTTGGCAACTCT
1 GGCTTTGGCAACTCT
*
33993 GGAACTTTCGGCAATTCT
1 GG--CTTT-GGCAACTCT
* * *
34011 GGCTTGGGTAATTCT
1 GGCTTTGGCAACTCT
*
34026 GGAACTTTAGGCAACTCA
1 GG--CTTT-GGCAACTCT
34044 GGCTTTGGCAACTCT
1 GGCTTTGGCAACTCT
34059 GG
1 GG
34061 AACTTTGCCT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
15 22 0.41
16 7 0.13
17 7 0.13
18 18 0.33
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (15 bp):
GGCTTTGGCAACTCT
Found at i:34091 original size:180 final size:179
Alignment explanation
Indices: 33735--34063 Score: 435
Period size: 180 Copynumber: 1.8 Consensus size: 179
33725 CAAATCAGGC
** * * *
33735 TTTGGCAACTCAGGAACTTTTGGGAATTCAGGCTTGGGCAATTCCGAAATTTTCGGCACTTCAGG
1 TTTGGCAACTCAGGAACTTCAGGCAATTCAGGCTTGGGAAATTCCGAAATTTTCGGCAATTCAGG
* * *
33800 CTTTGGCAACTCTGGAACTTTAGGCAATTCTGGAACTTTGGCTTCTAATCTAGGCAACTCCGGCT
66 CTTTGGCAACTCTGGAACTTTAGGCAATTCTGG-ACTTGGGATTCTAATCTAGGCAACTCAGGCT
* *
33865 TTGGTAACTCGGGAACATTGGGAAATTCAGGCTTAGGCAACTCCGGCATT
130 TTGGCAACTCGGGAACATTGGGAAATTCAGACTTAGGCAACTCCGGCATT
** * * *
33915 TTTGGCAACTTTGGAACTTCAGGCAATTCAGGTTTGGGAAATTCCGGAATTTTGGGCAATTCAGG
1 TTTGGCAACTCAGGAACTTCAGGCAATTCAGGCTTGGGAAATTCCGAAATTTTCGGCAATTCAGG
* *
33980 CTTTGGCAACTCTGGAACTTTCGGCAATTCTGG-CTTGGGTAATTCTGGAACTTTAGGCAACTCA
66 CTTTGGCAACTCTGGAACTTTAGGCAATTCTGGACTTGGG--ATTCT--AA-TCTAGGCAACTCA
*
34044 GGCTTTGGCAACTCTGGAAC
126 GGCTTTGGCAACTCGGGAAC
34064 TTTGCCTTCT
Statistics
Matches: 127, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
178 5 0.04
180 91 0.72
182 2 0.02
183 29 0.23
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (179 bp):
TTTGGCAACTCAGGAACTTCAGGCAATTCAGGCTTGGGAAATTCCGAAATTTTCGGCAATTCAGG
CTTTGGCAACTCTGGAACTTTAGGCAATTCTGGACTTGGGATTCTAATCTAGGCAACTCAGGCTT
TGGCAACTCGGGAACATTGGGAAATTCAGACTTAGGCAACTCCGGCATT
Found at i:34176 original size:18 final size:18
Alignment explanation
Indices: 34155--34255 Score: 72
Period size: 18 Copynumber: 5.9 Consensus size: 18
34145 TGGCAACTTT
34155 GGAAC-TTCAGGCAATTCC
1 GGAACTTTC-GGCAATTCC
*
34173 GGAACTTTCGGCAATTCA
1 GGAACTTTCGGCAATTCC
* *
34191 GG--CTTT-GGCAACTCT
1 GGAACTTTCGGCAATTCC
*
34206 GGAACTTTCGACAATT-C
1 GGAACTTTCGGCAATTCC
* * *
34223 GG-GC-TTGGGCAATTCT
1 GGAACTTTCGGCAATTCC
*
34239 GGAACTTTAGGCAATTC
1 GGAACTTTCGGCAATTC
34256 AGGCTTTGGC
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
15 17 0.27
16 7 0.11
17 7 0.11
18 30 0.47
19 3 0.05
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (18 bp):
GGAACTTTCGGCAATTCC
Found at i:34191 original size:213 final size:215
Alignment explanation
Indices: 33800--34333 Score: 752
Period size: 213 Copynumber: 2.4 Consensus size: 215
33790 GCACTTCAGG
* * * *
33800 CTTT-GGCAACTCTGGAACTTTAGGCAATTCTGGAACTTTGGCTTCTAATCTAGGCAACTCCGGC
1 CTTTAGGCAACTCAGG--CTTT-GGCAACTCTGGAACTTTGCCTTCTAATTTAGGCAACTCCGGC
* *
33864 TTTGGTAACTCGGGAACATTGGGAAATTCAGGCTTAGGCAACTCCGGCATTTTTGGCAACTTTGG
63 TTGGGTAACTCGGGAACATTGGGAAATTCAGGCTTACGCAACTCCGGCATTTTTGGCAACTTTGG
* *
33929 AACTTCAGGCAATTCAGGTTTGGGAAATTCCGGAATTTTGGGCAATTCAGGCTTTGGCAACTCTG
128 AACTTCAGG--A--C--------G-AATTCCGGAACTTTCGGCAATTCAGGCTTTGGCAACTCTG
* * *
33994 GAACTTTCGGCAATTCTGGCTTGGGTAATTCTGGAA
180 GAACTTTCGACAATTCGGGCTTGGGCAATTCTGGAA
34030 CTTTAGGCAACTCAGGCTTTGGCAACTCTGGAACTTTGCCTTCTAATTTAGGCAACTCCGGCTTG
1 CTTTAGGCAACTCAGGCTTTGGCAACTCTGGAACTTTGCCTTCTAATTTAGGCAACTCCGGCTTG
34095 GGTAACTCGGGAACATTGGGAAATTCAGGCTTACGCAACTCCGGCATTTTTGGCAACTTTGGAAC
66 GGTAACTCGGGAACATTGGGAAATTCAGGCTTACGCAACTCCGGCATTTTTGGCAACTTTGGAAC
34160 TTCAGG-C-AATTCCGGAACTTTCGGCAATTCAGGCTTTGGCAACTCTGGAACTTTCGACAATTC
131 TTCAGGACGAATTCCGGAACTTTCGGCAATTCAGGCTTTGGCAACTCTGGAACTTTCGACAATTC
34223 GGGCTTGGGCAATTCTGGAA
196 GGGCTTGGGCAATTCTGGAA
* *
34243 CTTTAGGCAATTCAGGCTTTGGCAACTCTGTAACTTTAGCC-TCTAATTTAGGCAACTCCGGCTT
1 CTTTAGGCAACTCAGGCTTTGGCAACTCTGGAACTTT-GCCTTCTAATTTAGGCAACTCCGGCTT
* *
34307 GGGTAACTCGGGAACTTTGGGCAATTC
65 GGGTAACTCGGGAACATTGGGAAATTC
34334 TGTCACTTTT
Statistics
Matches: 287, Mismatches: 15, Indels: 21
0.89 0.05 0.07
Matches are distributed among these distances:
213 154 0.54
214 3 0.01
223 1 0.00
228 111 0.39
229 4 0.01
230 4 0.01
231 10 0.03
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (215 bp):
CTTTAGGCAACTCAGGCTTTGGCAACTCTGGAACTTTGCCTTCTAATTTAGGCAACTCCGGCTTG
GGTAACTCGGGAACATTGGGAAATTCAGGCTTACGCAACTCCGGCATTTTTGGCAACTTTGGAAC
TTCAGGACGAATTCCGGAACTTTCGGCAATTCAGGCTTTGGCAACTCTGGAACTTTCGACAATTC
GGGCTTGGGCAATTCTGGAA
Found at i:34210 original size:33 final size:33
Alignment explanation
Indices: 34164--34279 Score: 160
Period size: 33 Copynumber: 3.5 Consensus size: 33
34154 TGGAACTTCA
* *
34164 GGCAATTCCGGAACTTTCGGCAATTCAGGCTTT
1 GGCAACTCTGGAACTTTCGGCAATTCAGGCTTT
* * *
34197 GGCAACTCTGGAACTTTCGACAATTCGGGCTTG
1 GGCAACTCTGGAACTTTCGGCAATTCAGGCTTT
* *
34230 GGCAATTCTGGAACTTTAGGCAATTCAGGCTTT
1 GGCAACTCTGGAACTTTCGGCAATTCAGGCTTT
*
34263 GGCAACTCTGTAACTTT
1 GGCAACTCTGGAACTTT
34280 AGCCTCTAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (33 bp):
GGCAACTCTGGAACTTTCGGCAATTCAGGCTTT
Found at i:39400 original size:36 final size:36
Alignment explanation
Indices: 39353--39422 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
39343 TTCAATAACC
* *
39353 TTACATCTTTTGTGATTTTGGTTATCATATTTCTTA
1 TTACATCTTTTGTAATTTTGATTATCATATTTCTTA
*
39389 TTACATTTTTTGTAATTTTGATTATCATATTTCT
1 TTACATCTTTTGTAATTTTGATTATCATATTTCT
39423 CCAAAATCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.21, C:0.10, G:0.09, T:0.60
Consensus pattern (36 bp):
TTACATCTTTTGTAATTTTGATTATCATATTTCTTA
Found at i:40324 original size:204 final size:201
Alignment explanation
Indices: 39939--40348 Score: 766
Period size: 204 Copynumber: 2.0 Consensus size: 201
39929 GCTTAATAAC
39939 TTTATCAATGATGAATGTTATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATAA
1 TTTATCAATGATGAATGTTATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATAA
* *
40004 GATACAACGCATTATTATTATATATAAAACTATACAAAAAAAATTAGTTGAACATTAGTGGTTGA
66 GATACAACACATTACTATTATATATAAAACTATACAAAAAAAATTAGTTGAACATTAGTGGTTGA
40069 TTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTAAAGATCC
131 TTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTAAAGATCC
40134 GATTTA
196 GATTTA
*
40140 TTTATCAATGGTGAATGTTATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATAA
1 TTTATCAATGATGAATGTTATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATAA
40205 GATACAACACATTACTATTATATATATAGAACTATACCAAAAAAAATTAGTTGAACATTAGTGGT
66 GATACAACACATTACTATTATATATA-A-AACTATA-CAAAAAAAATTAGTTGAACATTAGTGGT
40270 TGATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTAAAGA
128 TGATTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTAAAGA
40335 TCCGATTTA
193 TCCGATTTA
40344 TTTAT
1 TTTAT
40349 TATTAAGGAA
Statistics
Matches: 203, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
201 88 0.43
202 1 0.00
203 7 0.03
204 107 0.53
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (201 bp):
TTTATCAATGATGAATGTTATTAATTTTTTAAGTCTAAGATTACTAACAAAGTTGTAGTGAATAA
GATACAACACATTACTATTATATATAAAACTATACAAAAAAAATTAGTTGAACATTAGTGGTTGA
TTTATTAAATTAAATTAGATCAATGTCAAACAAAATTTCAAAATTATAAAAGATATTAAAGATCC
GATTTA
Found at i:40511 original size:39 final size:40
Alignment explanation
Indices: 40457--40537 Score: 119
Period size: 39 Copynumber: 2.0 Consensus size: 40
40447 CTACCTAAGA
* *
40457 ATTTAATTAATGTAAGTATTTCAGTTATTATA-GTATTAC
1 ATTTAATTAATGTAAGCATTTCAGTTATTATATATATTAC
* *
40496 ATTTAATTGATGTAAGCATTTTAGTTATTATATATATTAC
1 ATTTAATTAATGTAAGCATTTCAGTTATTATATATATTAC
40536 AT
1 AT
40538 AGGAATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 29 0.78
40 8 0.22
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (40 bp):
ATTTAATTAATGTAAGCATTTCAGTTATTATATATATTAC
Found at i:40707 original size:103 final size:103
Alignment explanation
Indices: 40596--40803 Score: 380
Period size: 103 Copynumber: 2.0 Consensus size: 103
40586 ATTTTAATAT
*
40596 AATAATATATTTAATTTAATTGATAAATGAAATTACATATTAAACCTTAAAAATTTTATTTGATA
1 AATAATATATTTAATTTAATTGATAAATGAAATTACATATTAAACCTTAAAAATTTAATTTGATA
*
40661 AATACATGTTTACCCTTTAAATGAATAGTAAACTTTTA
66 AATACATGTTTACCCTTTAAATGAATACTAAACTTTTA
* *
40699 AATAATATATTTAATTTAATTGATAAATGAAATTACATATTGAACCTTAAAAGTTTAATTTGATA
1 AATAATATATTTAATTTAATTGATAAATGAAATTACATATTAAACCTTAAAAATTTAATTTGATA
40764 AATACATGTTTACCCTTTAAATGAATACTAAACTTTTA
66 AATACATGTTTACCCTTTAAATGAATACTAAACTTTTA
40802 AA
1 AA
40804 ATTAAAAAGA
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (103 bp):
AATAATATATTTAATTTAATTGATAAATGAAATTACATATTAAACCTTAAAAATTTAATTTGATA
AATACATGTTTACCCTTTAAATGAATACTAAACTTTTA
Found at i:44221 original size:22 final size:22
Alignment explanation
Indices: 44194--44877 Score: 266
Period size: 22 Copynumber: 30.7 Consensus size: 22
44184 TCTTAATTAC
44194 TATGAAATTTTGGTAACCTCCA
1 TATGAAATTTTGGTAACCTCCA
*
44216 TATGAAATTTTGGTAACCT-GA
1 TATGAAATTTTGGTAACCTCCA
*
44237 TTATGAAATTTTGGTGACCT-CA
1 -TATGAAATTTTGGTAACCTCCA
* **
44259 CTATGAAATTTCGGTAA-CTTGA
1 -TATGAAATTTTGGTAACCTCCA
44281 CTATGAAATTTTGGTAACCTTCC-
1 -TATGAAATTTTGGTAACC-TCCA
*
44304 CATGAAATTTTGGTAA-CTCCA
1 TATGAAATTTTGGTAACCTCCA
* *
44325 CTATGAAACTTTTGGCAACCTCCC
1 -TATGAAA-TTTTGGTAACCTCCA
* *
44349 TATGAAATTTTTGTAA-CTCCC
1 TATGAAATTTTGGTAACCTCCA
* *
44370 GATGAAATTTTGTTAACC-CCA
1 TATGAAATTTTGGTAACCTCCA
* * *
44391 CTATTAAATTTCGGTTACCT-CA
1 -TATGAAATTTTGGTAACCTCCA
*
44413 CTATGAAATTTCGGTAACCTCCCA
1 -TATGAAATTTTGGTAACCT-CCA
* *
44437 -ATAAAATTTTGGTAAGCTTCC-
1 TATGAAATTTTGGTAA-CCTCCA
*
44458 TATGAAATTTTGGTAACCTCAA
1 TATGAAATTTTGGTAACCTCCA
* *
44480 TGTGAAATTTTGATAA--TCACA
1 TATGAAATTTTGGTAACCTC-CA
* **
44501 -ATAAAAAATTGGTAA--TCGCA
1 TATGAAATTTTGGTAACCTC-CA
*
44521 CTATGAAAATTTTGATAACCTCC-
1 -TATG-AAATTTTGGTAACCTCCA
* * *
44544 TCATAAAATTTTGATAACCATAC-
1 T-ATGAAATTTTGGTAACC-TCCA
* * * *
44567 TATGAAATCTCGCTAACTTCCCTA
1 TATGAAATTTTGGTAACCT-CC-A
* * * * *
44591 TGGGAATGAAACTGTGATATCCTCTA
1 T----ATGAAATTTTGGTAACCTCCA
* * *
44617 TATGTAATTTTGATAACCTCTCCG
1 TATGAAATTTTGGTAA-C-CTCCA
* ** *
44641 TA--ACATTTTCATAACCTCCC
1 TATGAAATTTTGGTAACCTCCA
*
44661 TATGAAATTTTGTTAACCTTCC-
1 TATGAAATTTTGGTAACC-TCCA
* * *
44683 TAGGAAATTTTGATAACCTCCCTCCC
1 TATGAAATTTTGGTAA----CCTCCA
* * *
44709 TATGAAATTTTGTTAACGTTC-
1 TATGAAATTTTGGTAACCTCCA
* *
44730 TAAT-TAATTTTGATAA--TCACA
1 T-ATGAAATTTTGGTAACCTC-CA
* *** * *
44751 CTATAAAATTTCAATAACCTTCG
1 -TATGAAATTTTGGTAACCTCCA
* * ***
44774 TATGAAATTTTGATAACATTTT
1 TATGAAATTTTGGTAACCTCCA
*
44796 TATGAAATTTTGGTAACCTCTA
1 TATGAAATTTTGGTAACCTCCA
* *
44818 TATGAAATTTTGATAA-CTACA
1 TATGAAATTTTGGTAACCTCCA
* *
44839 TTATGAAGTTTTGATAACCTCCA
1 -TATGAAATTTTGGTAACCTCCA
*
44862 TATGAAGTTTTGGTAA
1 TATGAAATTTTGGTAA
44878 TTACGGTATG
Statistics
Matches: 507, Mismatches: 105, Indels: 100
0.71 0.15 0.14
Matches are distributed among these distances:
19 1 0.00
20 26 0.05
21 46 0.09
22 343 0.68
23 41 0.08
24 15 0.03
25 5 0.01
26 18 0.04
27 1 0.00
28 11 0.02
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (22 bp):
TATGAAATTTTGGTAACCTCCA
Found at i:44243 original size:44 final size:44
Alignment explanation
Indices: 44192--44491 Score: 299
Period size: 44 Copynumber: 6.8 Consensus size: 44
44182 TTTCTTAATT
*
44192 ACTATGAAATTTTGGTAACCTCCATATGAAATTTTGGTAACCTG
1 ACTATGAAATTTTGGTAACCTCCATATGAAATTTTGGTAACCTC
* * * * *
44236 ATTATGAAATTTTGGTGACCT-CACTATGAAATTTCGGTAACTTG
1 ACTATGAAATTTTGGTAACCTCCA-TATGAAATTTTGGTAACCTC
*
44280 ACTATGAAATTTTGGTAACCTTCC-CATGAAATTTTGGTAA-CTCC
1 ACTATGAAATTTTGGTAACC-TCCATATGAAATTTTGGTAACCT-C
* * *
44324 ACTATGAAACTTTTGGCAACCTCCCTATGAAATTTTTGTAA-CTC
1 ACTATGAAA-TTTTGGTAACCTCCATATGAAATTTTGGTAACCTC
* * * * * *
44368 CCGATGAAATTTTGTTAACC-CCACTATTAAATTTCGGTTACCTC
1 ACTATGAAATTTTGGTAACCTCCA-TATGAAATTTTGGTAACCTC
* * *
44412 ACTATGAAATTTCGGTAACCTCCCA-ATAAAATTTTGGTAAGCTTC
1 ACTATGAAATTTTGGTAACCT-CCATATGAAATTTTGGTAA-CCTC
* *
44457 -CTATGAAATTTTGGTAACCTCAATGTGAAATTTTG
1 ACTATGAAATTTTGGTAACCTCCATATGAAATTTTG
44492 ATAATCACAA
Statistics
Matches: 210, Mismatches: 34, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.01
43 26 0.12
44 148 0.70
45 30 0.14
46 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (44 bp):
ACTATGAAATTTTGGTAACCTCCATATGAAATTTTGGTAACCTC
Found at i:44888 original size:44 final size:44
Alignment explanation
Indices: 44735--44916 Score: 136
Period size: 44 Copynumber: 4.1 Consensus size: 44
44725 CGTTCTAATT
* * ** * *
44735 AATTTTGATAA-TCACACTATAAAATTTCAATAACCTTCGTATGA
1 AATTTTGATAACT-ACAGTATGAAATTTTGATAACCTCCATATGA
*** * *
44779 AATTTTGATAAC-ATTTTTATGAAATTTTGGTAACCTCTATATGA
1 AATTTTGATAACTA-CAGTATGAAATTTTGATAACCTCCATATGA
* *
44823 AATTTTGATAACTACATTATGAAGTTTTGATAACCTCCATATGA
1 AATTTTGATAACTACAGTATGAAATTTTGATAACCTCCATATGA
* * * * * * *
44867 AGTTTTGGTAATTACGGTATGAAAATTTAATAACCATCC-TATGT
1 AATTTTGATAACTACAGTATGAAATTTTGATAACC-TCCATATGA
44911 AATTTT
1 AATTTT
44917 TGTTTGATTG
Statistics
Matches: 109, Mismatches: 25, Indels: 8
0.77 0.18 0.06
Matches are distributed among these distances:
43 1 0.01
44 104 0.95
45 4 0.04
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (44 bp):
AATTTTGATAACTACAGTATGAAATTTTGATAACCTCCATATGA
Found at i:47571 original size:19 final size:21
Alignment explanation
Indices: 47536--47574 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
47526 AATTTTTACG
47536 TAAAACAAAATAGTAAATAAA
1 TAAAACAAAATAGTAAATAAA
47557 TAAAA-AAAATA-TAAATAA
1 TAAAACAAAATAGTAAATAA
47575 CAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (21 bp):
TAAAACAAAATAGTAAATAAA
Found at i:48983 original size:27 final size:27
Alignment explanation
Indices: 48892--48993 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
48882 TTCATCCCCA
48892 TATTGGGCAGTTTGGACCTGGACAAAT
1 TATTGGGCAGTTTGGACCTGGACAAAT
* * *
48919 TATTGGGCA-TCTTGGACCTGGGCACAC
1 TATTGGGCAGT-TTGGACCTGGACAAAT
** ** *
48946 CCTTGAACAGTATGGACCTGGACAAAT
1 TATTGGGCAGTTTGGACCTGGACAAAT
*
48973 TATTTGGCAGTTTGGACCTGG
1 TATTGGGCAGTTTGGACCTGG
48994 GCAATGTGGT
Statistics
Matches: 56, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (27 bp):
TATTGGGCAGTTTGGACCTGGACAAAT
Found at i:51423 original size:2 final size:2
Alignment explanation
Indices: 51416--51468 Score: 88
Period size: 2 Copynumber: 25.5 Consensus size: 2
51406 TTATATGTAG
51416 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTA 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
51459 TA CTA TA TA T
1 TA -TA TA TA T
51469 TATTTTAAAC
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 45 0.92
3 4 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:52060 original size:30 final size:29
Alignment explanation
Indices: 52002--52077 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
51992 ATGTTCAAAT
52002 AGAATGATTATAGTCTTTGTAGCAAAAAA
1 AGAATGATTATAGTCTTTGTAGCAAAAAA
**
52031 AGAATGATTATAGTCTAATT-TTTCAAAAAA
1 AGAATGATTATAGTCT--TTGTAGCAAAAAA
*
52061 AAAATGATTATAGTCTT
1 AGAATGATTATAGTCTT
52078 ATAAATTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.02
29 16 0.38
30 23 0.55
31 2 0.05
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.36
Consensus pattern (29 bp):
AGAATGATTATAGTCTTTGTAGCAAAAAA
Found at i:53193 original size:15 final size:14
Alignment explanation
Indices: 53175--53208 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
53165 GAAGAAGAAG
53175 AAAAAGAAAGAAAAA
1 AAAAAGAAA-AAAAA
53190 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
53204 AAAAA
1 AAAAA
53209 CAGGGTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAA
Found at i:53195 original size:11 final size:11
Alignment explanation
Indices: 53169--53205 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
53159 GAAGAAGAAG
53169 AAGAAGAAAAAGA
1 AAGAA-AAAAA-A
53182 AAGAAAAAAAA
1 AAGAAAAAAAA
53193 AAGAAAAAAAA
1 AAGAAAAAAAA
53204 AA
1 AA
53206 AAACAGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 14 0.58
12 5 0.21
13 5 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:54194 original size:32 final size:32
Alignment explanation
Indices: 54153--54232 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
54143 TTCAGGGGAC
54153 AAATAGAACATAATTACATGTGTGATGAGGAA
1 AAATAGAACATAATTACATGTGTGATGAGGAA
54185 AAATAGAACATAATTACATGTGTGATGAGGAA
1 AAATAGAACATAATTACATGTGTGATGAGGAA
54217 AAATAGAACATAATTA
1 AAATAGAACATAATTA
54233 GGGACATAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (32 bp):
AAATAGAACATAATTACATGTGTGATGAGGAA
Found at i:54912 original size:18 final size:18
Alignment explanation
Indices: 54889--55008 Score: 56
Period size: 18 Copynumber: 6.7 Consensus size: 18
54879 GTAGTTCTGG
54889 TTTGGGTAATTCTGGAAT
1 TTTGGGTAATTCTGGAAT
*
54907 TTTGGGTAAGTCAGCTTTTGGAAT
1 TTTGGGT-A---A--TTCTGGAAT
*
54931 TTTTGGTAATTCTGG---
1 TTTGGGTAATTCTGGAAT
* * * *
54946 CTTGGGTAACTCAGGAAC
1 TTTGGGTAATTCTGGAAT
* *
54964 TTTAGGTAATTC--AAAT
1 TTTGGGTAATTCTGGAAT
54980 TTT-GGTAATTCTGGAACT
1 TTTGGGTAATTCTGGAA-T
54998 TTT-GGTAATTC
1 TTTGGGTAATTC
55009 AGGTTTGGGC
Statistics
Matches: 77, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
15 19 0.25
16 5 0.06
17 2 0.03
18 33 0.43
19 1 0.01
20 1 0.01
22 1 0.01
23 1 0.01
24 14 0.18
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.42
Consensus pattern (18 bp):
TTTGGGTAATTCTGGAAT
Found at i:54983 original size:57 final size:58
Alignment explanation
Indices: 54878--54989 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 58
54868 TGGTAACTTA
* * * * * * **
54878 GGTAGTTCTGGTTTGGGTAATTCTGGAATTTTGGGTAAGTCAGCTTTTGG-AATTTTT
1 GGTAATTCTGGCTTGGGTAACTCAGGAACTTTAGGTAAGTCAAATTTTGGTAATTTTT
*
54935 GGTAATTCTGGCTTGGGTAACTCAGGAACTTTAGGTAATTCAAATTTTGGTAATT
1 GGTAATTCTGGCTTGGGTAACTCAGGAACTTTAGGTAAGTCAAATTTTGGTAATT
54990 CTGGAACTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 41 0.91
58 4 0.09
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (58 bp):
GGTAATTCTGGCTTGGGTAACTCAGGAACTTTAGGTAAGTCAAATTTTGGTAATTTTT
Found at i:54987 original size:33 final size:33
Alignment explanation
Indices: 54947--55035 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
54937 TAATTCTGGC
54947 TTGGGTAACTCAGGAACTTTAGGTAATTCAAAT
1 TTGGGTAACTCAGGAACTTTAGGTAATTCAAAT
* * * * **
54980 TTTGGTAATTCTGGAACTTTTGGTAATTCAGGT
1 TTGGGTAACTCAGGAACTTTAGGTAATTCAAAT
* *
55013 TTGGGCAACTCGGGAACTTTAGG
1 TTGGGTAACTCAGGAACTTTAGG
55036 CAAATCAGTC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (33 bp):
TTGGGTAACTCAGGAACTTTAGGTAATTCAAAT
Found at i:55050 original size:66 final size:66
Alignment explanation
Indices: 54925--55065 Score: 176
Period size: 66 Copynumber: 2.1 Consensus size: 66
54915 AGTCAGCTTT
* * * * * * *
54925 TGGAATTTTTGGTAATTCTGGCTTGGGTAACTCAGGAACTTTAGGTAATTCAAATTTTGGTAATT
1 TGGAACTTTTGGTAATTCAGGCTTGGGCAACTCAGGAACTTTAGGCAAATCAAATTTTGGAAACT
54990 C
66 C
* * *
54991 TGGAACTTTTGGTAATTCAGGTTTGGGCAACTCGGGAACTTTAGGCAAATC-AGTCTTTGGAAAC
1 TGGAACTTTTGGTAATTCAGGCTTGGGCAACTCAGGAACTTTAGGCAAATCAAAT-TTTGGAAAC
55055 TC
65 TC
55057 TGGAACTTT
1 TGGAACTTT
55066 GGCTTCTAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 2 0.03
66 62 0.97
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (66 bp):
TGGAACTTTTGGTAATTCAGGCTTGGGCAACTCAGGAACTTTAGGCAAATCAAATTTTGGAAACT
C
Found at i:55134 original size:33 final size:33
Alignment explanation
Indices: 55090--55275 Score: 183
Period size: 33 Copynumber: 5.6 Consensus size: 33
55080 GCAACTCCAA
* * * * *
55090 CTTTGGTAACTCAGGAACCTTGGGAAATTCAGT
1 CTTTGGCAACTCAGGAACTTTAGGCAATTCAGG
* * * *
55123 CTTTGGCAACTCTGGAGCTTTCGACAATTCAGG
1 CTTTGGCAACTCAGGAACTTTAGGCAATTCAGG
* *
55156 CTTGGGCAACTCAGGAACTTTTGGCAATTCAGG
1 CTTTGGCAACTCAGGAACTTTAGGCAATTCAGG
* * *
55189 CTTGGGCCACTCAGGAACTTTAGGCAATTCAGA
1 CTTTGGCAACTCAGGAACTTTAGGCAATTCAGG
* * * * *
55222 TTTTGCCAACTCCGGAACTTTAGGCAATTGAGA
1 CTTTGGCAACTCAGGAACTTTAGGCAATTCAGG
* *
55255 CTTTGGCGACTCTGGAACTTT
1 CTTTGGCAACTCAGGAACTTT
55276 GGCTTCTAAT
Statistics
Matches: 127, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 127 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (33 bp):
CTTTGGCAACTCAGGAACTTTAGGCAATTCAGG
Found at i:55302 original size:144 final size:144
Alignment explanation
Indices: 55154--55419 Score: 352
Period size: 144 Copynumber: 1.8 Consensus size: 144
55144 CGACAATTCA
* *
55154 GGCTTGGGCAACTCAGGAACTTTTGGCAATTCAGGCTTGGGCCACTCAGGAACTTTAGGCAATTC
1 GGCTTGGGCAACTCAGGAACTTTTGGCAATTCAGACTTGGGCAACTCAGGAACTTTAGGCAATTC
* * * * * *
55219 AGATTTTGCCAACTCCGGAACTTTAGGCAATTGAGACTTTGGCGACTCTGGAACTTTGGCTTCTA
66 AGACTTCGCCAACTCAGGAACTTTAGGCAATTCAGACTTTGGCAACTCAGGAACTTTGGCTTCTA
55284 ATTTAGGCAACTCC
131 ATTTAGGCAACTCC
* * * * * * *
55298 GGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGACTTTGGTAACTCGGGAACTTTTGGTAATTC
1 GGCTTGGGCAACTCAGGAACTTTTGGCAATTCAGACTTGGGCAACTCAGGAACTTTAGGCAATTC
* * * * *
55363 AGGCTTCGGCAACTCAGGAACTTTTGGTAATTCAGGCTTTGGCAACTCAGGAACTTT
66 AGACTTCGCCAACTCAGGAACTTTAGGCAATTCAGACTTTGGCAACTCAGGAACTTT
55420 TGAAAATTCA
Statistics
Matches: 102, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
144 102 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (144 bp):
GGCTTGGGCAACTCAGGAACTTTTGGCAATTCAGACTTGGGCAACTCAGGAACTTTAGGCAATTC
AGACTTCGCCAACTCAGGAACTTTAGGCAATTCAGACTTTGGCAACTCAGGAACTTTGGCTTCTA
ATTTAGGCAACTCC
Found at i:55337 original size:33 final size:33
Alignment explanation
Indices: 55289--55650 Score: 400
Period size: 33 Copynumber: 11.0 Consensus size: 33
55279 TTCTAATTTA
* * *
55289 GGCAACTCCGGCTTTGGTAACTCAGGAACTTTT
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
* * *
55322 GGCAATTCAGACTTTGGTAACTCGGGAACTTTT
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
* *
55355 GGTAATTCAGGCTTCGGCAACTCAGGAACTTTT
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
*
55388 GGTAATTCAGGCTTTGGCAACTCAGGAACTTTT
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
** * * * *
55421 GAAAATTCAGGCTTGGGAAACTCGGGAACTTTA
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
* * ***
55454 GGCAATTCGGGCTTTGGCAACTCCGGGGTTTTT
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
* * * *
55487 GGCAATTTAGGCTTGGGCAGCTCAGGAACTTTA
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
* * *
55520 GGCAATTCAGGTTTTGGCAACTCCGGAATTTTT
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
* * * * *
55553 GGTAATTCAGGCTTGGGCAATTCTGGAACTTTC
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
* * *
55586 AGCAATTCAGGCTTTGGCAACTCTGGAACTTTA
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
*
55619 GGCAATTCAGGCTTTGGCAACTCTGGAACTTT
1 GGCAATTCAGGCTTTGGCAACTCAGGAACTTT
55651 GACTTCTAAT
Statistics
Matches: 274, Mismatches: 55, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 274 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (33 bp):
GGCAATTCAGGCTTTGGCAACTCAGGAACTTTT
Found at i:55451 original size:177 final size:177
Alignment explanation
Indices: 55123--55452 Score: 417
Period size: 177 Copynumber: 1.9 Consensus size: 177
55113 GAAATTCAGT
* * *
55123 CTTTGGCAACTCTGGAGCTTTCGACAATTCAGGCTTGGGCAACTCAGGAACTTTTGGCAATTCAG
1 CTTTGGCAACTCAGGAACTTTCGACAATTCAGACTTGGGCAACTCAGGAACTTTTGGCAATTCAG
* * * * ** *
55188 GCTTGGGCCACTCAGGAACTTTAGGCAATTCAGATTTTGCCAACTCCGGAACTTTAGGCAATTGA
66 GCTTCGGCAACTCAGGAACTTTAGGCAATTCAGACTTTGCCAACTCAGGAACTTTAGAAAATTCA
* ** *
55253 GACTTTGGCGACTCTGGAACTTTGGCTTCTAATTTAGGCAACTCCGG
131 GACTTGGGAAACTCGGGAACTTTGGCTTCTAATTTAGGCAACTCCGG
* * * * * * *
55300 CTTTGGTAACTCAGGAACTTTTGGCAATTCAGACTTTGGTAACTCGGGAACTTTTGGTAATTCAG
1 CTTTGGCAACTCAGGAACTTTCGACAATTCAGACTTGGGCAACTCAGGAACTTTTGGCAATTCAG
* * * * *
55365 GCTTCGGCAACTCAGGAACTTTTGGTAATTCAGGCTTTGGCAACTCAGGAACTTTTGAAAATTCA
66 GCTTCGGCAACTCAGGAACTTTAGGCAATTCAGACTTTGCCAACTCAGGAACTTTAGAAAATTCA
*
55430 GGCTTGGGAAACTCGGGAACTTT
131 GACTTGGGAAACTCGGGAACTTT
55453 AGGCAATTCG
Statistics
Matches: 126, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
177 126 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (177 bp):
CTTTGGCAACTCAGGAACTTTCGACAATTCAGACTTGGGCAACTCAGGAACTTTTGGCAATTCAG
GCTTCGGCAACTCAGGAACTTTAGGCAATTCAGACTTTGCCAACTCAGGAACTTTAGAAAATTCA
GACTTGGGAAACTCGGGAACTTTGGCTTCTAATTTAGGCAACTCCGG
Found at i:55659 original size:375 final size:375
Alignment explanation
Indices: 55147--55854 Score: 1013
Period size: 375 Copynumber: 1.9 Consensus size: 375
55137 GAGCTTTCGA
*
55147 CAATTCAGGCTTGGGCAACTCAGGAACTTTTGGCAATTCAGGCTTGGGCCACTCAGGAACTTTAG
1 CAATTCAGGCTTGGGCAACTCAGGAACTTTTGGCAATTCAGGCTTGGGCAACTCAGGAACTTTAG
* * *
55212 GCAATTCAGATTTTGCCAACTCCGGAACTTTAGGCAATTGAGACTTTGGCGACTCTGGAACTTTG
66 GCAATTCAGACTTTGCCAACTCCGGAACTTTAGGCAATTCAGACTTTGGCAACTCTGGAACTTTG
* * * * *
55277 GCTTCTAATTTAGGCAACTCCGGCTTTGGTAACTCAGGAACTTTTGGCAATTCAGACTTTGGTAA
131 ACTTCTAATTTAGGCAACTCCGACTTTGGTAACTCAGGAACTTTGGGAAATTCAGACTTTGGCAA
* * *
55342 CTCGGGAACTTTTGGTAATTCAGGCTTCGGCAACTCAGGAACTTTTGGTAATTCAGGCTTTGGCA
196 CTCCGGAACTTTTGGCAATTCAGGCTTCGGCAACTCAGGAACTTTCGGTAATTCAGGCTTTGGCA
* * * * *
55407 ACTCAGGAACTTTTGAAAATTCAGGCTTGGGAAACTCGGGAACTTTAGGCAATTCGGGCTTTGGC
261 ACTCAGGAACTTTCGAAAATTCAGGCTTGGGAAACTCCGAAACTTTAGGCAATTCAGGCTTTGAC
55472 AACTCCGGGGTTTTTGGCAATTTAGGCTTGGGCAGCTCAGGAACTTTAGG
326 AACTCCGGGGTTTTTGGCAATTTAGGCTTGGGCAGCTCAGGAACTTTAGG
* * * * * * *
55522 CAATTCAGGTTTTGGCAACTCCGGAATTTTTGGTAATTCAGGCTTGGGCAATTCTGGAACTTTCA
1 CAATTCAGGCTTGGGCAACTCAGGAACTTTTGGCAATTCAGGCTTGGGCAACTCAGGAACTTT-A
* * * *
55587 -GCAATTCAGGCTTTGGCAACTCTGGAACTTTAGGCAATTCAGGCTTTGGCAACTCTGGAACTTT
65 GGCAATTCAGACTTTGCCAACTCCGGAACTTTAGGCAATTCAGACTTTGGCAACTCTGGAACTTT
* *
55651 GACTTCTAATTTAGGCAATTCCGACTTTGGTAACTCAGGAACTTTGGGAAATTCAGGCTTTGGCA
130 GACTTCTAATTTAGGCAACTCCGACTTTGGTAACTCAGGAACTTTGGGAAATTCAGACTTTGGCA
*** * * * * *
55716 ACTCCGGCGTTTTTGGCATTTCAGGTTTGGGCAATTCTGGAACTTTCGGTAATTCAGGCTTTGGC
195 ACTCCGGAACTTTTGGCAATTCAGGCTTCGGCAACTCAGGAACTTTCGGTAATTCAGGCTTTGGC
* ** * *
55781 AACTCTGGAACTTTCGGCAATTCAGGCTTGGGCAATTCCGAAACTTTAGGCAATTCAGGCTTTGA
260 AACTCAGGAACTTTCGAAAATTCAGGCTTGGGAAACTCCGAAACTTTAGGCAATTCAGGCTTTGA
55846 CAACTCCGG
325 CAACTCCGG
55855 AACTTTGGGC
Statistics
Matches: 289, Mismatches: 43, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
375 288 1.00
376 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (375 bp):
CAATTCAGGCTTGGGCAACTCAGGAACTTTTGGCAATTCAGGCTTGGGCAACTCAGGAACTTTAG
GCAATTCAGACTTTGCCAACTCCGGAACTTTAGGCAATTCAGACTTTGGCAACTCTGGAACTTTG
ACTTCTAATTTAGGCAACTCCGACTTTGGTAACTCAGGAACTTTGGGAAATTCAGACTTTGGCAA
CTCCGGAACTTTTGGCAATTCAGGCTTCGGCAACTCAGGAACTTTCGGTAATTCAGGCTTTGGCA
ACTCAGGAACTTTCGAAAATTCAGGCTTGGGAAACTCCGAAACTTTAGGCAATTCAGGCTTTGAC
AACTCCGGGGTTTTTGGCAATTTAGGCTTGGGCAGCTCAGGAACTTTAGG
Found at i:55705 original size:144 final size:144
Alignment explanation
Indices: 55516--55794 Score: 362
Period size: 144 Copynumber: 1.9 Consensus size: 144
55506 GCTCAGGAAC
** * * * * * *
55516 TTTAGGCAATTCAGGTTTTGGCAACTCCGGAATTTTTGGTAATTCAGGCTTGGGCAATTCTGGAA
1 TTTAGGCAATTCAGACTTTGGCAACTCAGGAACTTTGGGAAATTCAGGCTTGGGCAACTCCGGAA
55581 CTTTCAGCAATTCAGGCTTT-GGCAACTCTGGAACTTTAGGCAATTCAGGCTTTGGCAACTCTGG
66 CTTTCAGCAATTCAGG-TTTGGGCAACTCTGGAACTTTAGGCAATTCAGGCTTTGGCAACTCTGG
55645 AACTTTGACTTCTAA
130 AACTTTGACTTCTAA
* * * **
55660 TTTAGGCAATTCCGACTTTGGTAACTCAGGAACTTTGGGAAATTCAGGCTTTGGCAACTCCGGCG
1 TTTAGGCAATTCAGACTTTGGCAACTCAGGAACTTTGGGAAATTCAGGCTTGGGCAACTCCGGAA
* ** * * * *
55725 TTTTTGGCATTTCAGGTTTGGGCAATTCTGGAACTTTCGGTAATTCAGGCTTTGGCAACTCTGGA
66 CTTTCAGCAATTCAGGTTTGGGCAACTCTGGAACTTTAGGCAATTCAGGCTTTGGCAACTCTGGA
55790 ACTTT
131 ACTTT
55795 CGGCAATTCA
Statistics
Matches: 114, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
143 3 0.03
144 111 0.97
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (144 bp):
TTTAGGCAATTCAGACTTTGGCAACTCAGGAACTTTGGGAAATTCAGGCTTGGGCAACTCCGGAA
CTTTCAGCAATTCAGGTTTGGGCAACTCTGGAACTTTAGGCAATTCAGGCTTTGGCAACTCTGGA
ACTTTGACTTCTAA
Found at i:55712 original size:33 final size:33
Alignment explanation
Indices: 55664--55920 Score: 219
Period size: 33 Copynumber: 7.7 Consensus size: 33
55654 TTCTAATTTA
* * * * *
55664 GGCAATTCCGACTTTGGTAACTCAGGAACTTTG
1 GGCAATTCAGGCTTTGGCAACTCCGGAACTTTC
* *** *
55697 GGAAATTCAGGCTTTGGCAACTCCGGCGTTTTT
1 GGCAATTCAGGCTTTGGCAACTCCGGAACTTTC
* * *
55730 GGCATTTCAGG-TTTGGGCAATTCTGGAACTTTC
1 GGCAATTCAGGCTTT-GGCAACTCCGGAACTTTC
* *
55763 GGTAATTCAGGCTTTGGCAACTCTGGAACTTTC
1 GGCAATTCAGGCTTTGGCAACTCCGGAACTTTC
* * * *
55796 GGCAATTCAGGCTTGGGCAATTCCGAAACTTTA
1 GGCAATTCAGGCTTTGGCAACTCCGGAACTTTC
* *
55829 GGCAATTCAGGCTTTGACAACTCCGGAACTTTG
1 GGCAATTCAGGCTTTGGCAACTCCGGAACTTTC
* * **
55862 GGCAATTCTGCCACTTTTGGCAACTCCGGAGTTTTC
1 GGCAATTCAG--GC-TTTGGCAACTCCGGAACTTTC
* * *
55898 GGCAATTCTGGCTTAGGTAACTC
1 GGCAATTCAGGCTTTGGCAACTC
55921 AGGCTGTTTG
Statistics
Matches: 179, Mismatches: 40, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
32 3 0.02
33 144 0.80
34 4 0.02
35 1 0.01
36 27 0.15
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (33 bp):
GGCAATTCAGGCTTTGGCAACTCCGGAACTTTC
Found at i:59579 original size:33 final size:33
Alignment explanation
Indices: 59530--60029 Score: 274
Period size: 33 Copynumber: 15.2 Consensus size: 33
59520 TTAAGTCTTT
* * * *
59530 GGAACTTTTGGTAATTCTGGTTTGGGTAACTCG
1 GGAACTTTAGGCAATTCAGGTTTGGGCAACTCG
*
59563 GGAACTTTAGGCAATTCAGGCTTT-GGCAATTC-
1 GGAACTTTAGGCAATTCAGG-TTTGGGCAACTCG
* * * **
59595 TGATACTTTTGGTAATTCAGACTTGGGCAACTCG
1 GGA-ACTTTAGGCAATTCAGGTTTGGGCAACTCG
* * * *
59629 GGAACTTTAGGCAAATCGGGTTTTGGCAACTCA
1 GGAACTTTAGGCAATTCAGGTTTGGGCAACTCG
* * * * * * *
59662 GGAAATTTCGGGAATTCAAGCTTGGGCAATTCC
1 GGAACTTTAGGCAATTCAGGTTTGGGCAACTCG
* * *
59695 AGAACTTTCGGCAATTCAGGCTTT-GGCAACTCT
1 GGAACTTTAGGCAATTCAGG-TTTGGGCAACTCG
* * *
59728 GGAACTTTAGGCAATTCAGGCTTAGGCAACTCT
1 GGAACTTTAGGCAATTCAGGTTTGGGCAACTCG
* * *
59761 GGAACTTT-GGC--TTCTA-ATTTAGGCAACTCC
1 GGAACTTTAGGCAATTC-AGGTTTGGGCAACTCG
* * * * * *
59791 GG--CTTT-GGTAACTCGGGAACTTTGGGAAATTCA
1 GGAACTTTAGGCAATTCAGG---TTTGGGCAACTCG
** * * *
59824 GG--CTTT-GGCAGCTCCGGCATTTTTGGCAACTCA
1 GGAACTTTAGGCAATTCAGG---TTTGGGCAACTCG
* * * *
59857 GGAACTTCAGGTAATTCAGGTTTGGGCAATTCC
1 GGAACTTTAGGCAATTCAGGTTTGGGCAACTCG
* * *
59890 GAAACTTTTGGCAATTCAGGCTTT-GGCAACTCC
1 GGAACTTTAGGCAATTCAGG-TTTGGGCAACTCG
* * * * *
59923 GGAACTTTCGGTAATTCAGGCTTGGGCAATTCC
1 GGAACTTTAGGCAATTCAGGTTTGGGCAACTCG
* * *
59956 GGAACTTTAGGCAATTCAGGCTTGGGCAATTCC
1 GGAACTTTAGGCAATTCAGGTTTGGGCAACTCG
*
59989 GGAACTTTAGGCAATTCAGGCTTT-GGCAACTCT
1 GGAACTTTAGGCAATTCAGG-TTTGGGCAACTCG
60022 GGAACTTT
1 GGAACTTT
60030 GGCCTCTAAT
Statistics
Matches: 366, Mismatches: 82, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
28 6 0.02
30 18 0.05
31 1 0.00
32 11 0.03
33 308 0.84
34 12 0.03
35 3 0.01
36 7 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (33 bp):
GGAACTTTAGGCAATTCAGGTTTGGGCAACTCG
Found at i:59639 original size:66 final size:65
Alignment explanation
Indices: 59530--60029 Score: 392
Period size: 66 Copynumber: 7.6 Consensus size: 65
59520 TTAAGTCTTT
* * * * * *
59530 GGAACTTTTGGTAATTCTGGTTTGGGTAACTCGGGAACTTTAGGCAATTCAGGCTTTGGCAATTC
1 GGAACTTTAGGTAATTCAGGCTTGGGCAACTCCGGAACTTTAGGCAATTCAGGCTTTGGCAACTC
* * * * * * *
59595 TGATACTTTTGGTAATTCAGACTTGGGCAACTCGGGAACTTTAGGCAAATCGGGTTTTGGCAACT
1 GGA-ACTTTAGGTAATTCAGGCTTGGGCAACTCCGGAACTTTAGGCAATTCAGGCTTTGGCAACT
59660 C
65 C
* * * * * * *
59661 AGGAAATTTCGGGAATTCAAGCTTGGGCAATTCCAGAACTTTCGGCAATTCAGGCTTTGGCAACT
1 -GGAACTTTAGGTAATTCAGGCTTGGGCAACTCCGGAACTTTAGGCAATTCAGGCTTTGGCAACT
59726 C
65 C
* * * *
59727 TGGAACTTTAGGCAATTCAGGCTTAGGCAACTCTGGAACTTT-GGC--TTCTA--ATTTAGGCAA
1 -GGAACTTTAGGTAATTCAGGCTTGGGCAACTCCGGAACTTTAGGCAATTC-AGGCTTT-GGCAA
59787 CTCC
63 CT-C
* * * * * ** *
59791 GG--CTTT-GGTAACTCGGGAACTTTGGGAAATTCAGG--CTTT-GGCAGCTCCGGCATTTTTGG
1 GGAACTTTAGGTAATTCAGG--C-TTGGGCAACTCCGGAACTTTAGGCAATTCAGGC---TTTGG
59850 CAACTC
60 CAACTC
* * * * *
59856 AGGAACTTCAGGTAATTCAGGTTTGGGCAATTCCGAAACTTTTGGCAATTCAGGCTTTGGCAACT
1 -GGAACTTTAGGTAATTCAGGCTTGGGCAACTCCGGAACTTTAGGCAATTCAGGCTTTGGCAACT
59921 CC
65 -C
* * * *
59923 GGAACTTTCGGTAATTCAGGCTTGGGCAATTCCGGAACTTTAGGCAATTCAGGCTTGGGCAATTC
1 GGAACTTTAGGTAATTCAGGCTTGGGCAACTCCGGAACTTTAGGCAATTCAGGCTTTGGCAACT-
59988 C
65 C
* * *
59989 GGAACTTTAGGCAATTCAGGCTTTGGCAACTCTGGAACTTT
1 GGAACTTTAGGTAATTCAGGCTTGGGCAACTCCGGAACTTT
60030 GGCCTCTAAT
Statistics
Matches: 348, Mismatches: 64, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
60 8 0.02
61 11 0.03
62 4 0.01
63 24 0.07
64 2 0.01
65 6 0.02
66 262 0.75
67 6 0.02
68 7 0.02
69 18 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (65 bp):
GGAACTTTAGGTAATTCAGGCTTGGGCAACTCCGGAACTTTAGGCAATTCAGGCTTTGGCAACTC
Found at i:59732 original size:99 final size:98
Alignment explanation
Indices: 59529--60029 Score: 417
Period size: 99 Copynumber: 5.1 Consensus size: 98
59519 ATTAAGTCTT
* * * * * *
59529 TGGAACTTTTGGTAATTCTGGTTTGGGTAACTCGGGAACTTTAGGCAATTCAGGCTTTGGCAATT
1 TGGAACTTTAGGCAATTCAGGTTTGGGCAACTCAGGAACTTTAGGCAATTCAGGCTTGGGCAATT
* * * *
59594 CTGATACTTTTGGTAATTCAGACTTGGGCAACTC
66 CCGA-ACTTTTGGCAATTCAGGCTTTGGCAACTC
* * * * * * * *
59628 GGGAACTTTAGGCAAATCGGGTTTTGGCAACTCAGGAAATTTCGGGAATTCAAGCTTGGGCAATT
1 TGGAACTTTAGGCAATTCAGGTTTGGGCAACTCAGGAACTTTAGGCAATTCAGGCTTGGGCAATT
*
59693 CCAGAACTTTCGGCAATTCAGGCTTTGGCAACTC
66 CC-GAACTTTTGGCAATTCAGGCTTTGGCAACTC
* * * ** * *
59727 TGGAACTTTAGGCAATTCAGGCTTAGGCAACTCTGGAACTTT-GGC--TTCTA-ATTTAGGCAAC
1 TGGAACTTTAGGCAATTCAGGTTTGGGCAACTCAGGAACTTTAGGCAATTC-AGGCTTGGGCAAT
* * * * * *
59788 TCCG-GC-TTTGGTAACTCGGGAACTTTGGGAAATTC
65 TCCGAACTTTTGGCAATTCAGG--CTTT-GGCAACTC
* ** * * * * *
59823 AGG--CTTT-GGCAGCTCCGGCATTTTTGGCAACTCAGGAACTTCAGGTAATTCAGGTTTGGGCA
1 TGGAACTTTAGGCAATTCAGG---TTTGGGCAACTCAGGAACTTTAGGCAATTCAGGCTTGGGCA
59885 ATTCCGAAACTTTTGGCAATTCAGGCTTTGGCAACTC
63 ATTCCG-AACTTTTGGCAATTCAGGCTTTGGCAACTC
* * * * * *
59922 CGGAACTTTCGGTAATTCAGGCTTGGGCAATTCCGGAACTTTAGGCAATTCAGGCTTGGGCAATT
1 TGGAACTTTAGGCAATTCAGGTTTGGGCAACTCAGGAACTTTAGGCAATTCAGGCTTGGGCAATT
*
59987 CCGGAACTTTAGGCAATTCAGGCTTTGGCAACTC
66 CC-GAACTTTTGGCAATTCAGGCTTTGGCAACTC
60021 TGGAACTTT
1 TGGAACTTT
60030 GGCCTCTAAT
Statistics
Matches: 314, Mismatches: 69, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
93 18 0.06
94 5 0.02
95 5 0.02
96 38 0.12
97 3 0.01
98 3 0.01
99 212 0.68
100 7 0.02
101 5 0.02
102 18 0.06
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (98 bp):
TGGAACTTTAGGCAATTCAGGTTTGGGCAACTCAGGAACTTTAGGCAATTCAGGCTTGGGCAATT
CCGAACTTTTGGCAATTCAGGCTTTGGCAACTC
Found at i:59970 original size:18 final size:18
Alignment explanation
Indices: 59881--60005 Score: 97
Period size: 18 Copynumber: 7.4 Consensus size: 18
59871 TTCAGGTTTG
* *
59881 GGCAATTCCGAAACTTTT
1 GGCAATTCCGGAACTTTA
*
59899 GGCAATTCAGG--CTTT-
1 GGCAATTCCGGAACTTTA
* *
59914 GGCAACTCCGGAACTTTC
1 GGCAATTCCGGAACTTTA
* * *
59932 GGTAATTCAGG--C-TTG
1 GGCAATTCCGGAACTTTA
59947 GGCAATTCCGGAACTTTA
1 GGCAATTCCGGAACTTTA
* *
59965 GGCAATTCAGG--C-TTG
1 GGCAATTCCGGAACTTTA
59980 GGCAATTCCGGAACTTTA
1 GGCAATTCCGGAACTTTA
59998 GGCAATTC
1 GGCAATTC
60006 AGGCTTTGGC
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
15 32 0.39
16 6 0.07
17 6 0.07
18 39 0.47
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (18 bp):
GGCAATTCCGGAACTTTA
Found at i:60048 original size:261 final size:261
Alignment explanation
Indices: 59605--60094 Score: 782
Period size: 261 Copynumber: 1.9 Consensus size: 261
59595 TGATACTTTT
* * * *
59605 GGTAATTCAGACTTGGGCAACTCGGGAACTTTAGGCAAATCGGGTTTTGGCAACTCAGGAAATTT
1 GGTAATTCAGACTTGGGCAACTCCGAAACTTTAGGCAAATCAGGCTTTGGCAACTCAGGAAATTT
* * *
59670 CGGGAATTCAAGCTTGGGCAATTCCAGAACTTTCGGCAATTCAGGCTTTGGCAACTCTGGAACTT
66 CGGGAATTCAAGCTTGGGCAATTCCAGAACTTTAGGCAATTCAGGCTTGGGCAACTCCGGAACTT
* *
59735 TAGGCAATTCAGGCTTAGGCAACTCTGGAACTTTGGCTTCTAATTTAGGCAACTCCGGCTTTGGT
131 TAGGCAATTCAGGCTTAGGCAACTCTGGAACTTTGGCCTCTAATTTAGGCAACTCCGGCTTGGGT
*
59800 AACTCGGGAACTTTGGGAAATTCAGGCTTTGGCAGCTCCGGCATTTTTGGCAACTCAGGAACTTC
196 AACTCGGGAACTTTGGAAAATTCAGGCTTTGGCAGCTCCGGCATTTTTGGCAACTCAGGAACTTC
59865 A
261 A
** * * * * *
59866 GGTAATTCAGGTTTGGGCAATTCCGAAACTTTTGGCAATTCAGGCTTTGGCAACTCCGGAACTTT
1 GGTAATTCAGACTTGGGCAACTCCGAAACTTTAGGCAAATCAGGCTTTGGCAACTCAGGAAATTT
* * * *
59931 CGGTAATTCAGGCTTGGGCAATTCCGGAACTTTAGGCAATTCAGGCTTGGGCAATTCCGGAACTT
66 CGGGAATTCAAGCTTGGGCAATTCCAGAACTTTAGGCAATTCAGGCTTGGGCAACTCCGGAACTT
*
59996 TAGGCAATTCAGGCTTTGGCAACTCTGGAACTTTGGCCTCTAATTTAGGCAACTCCGGCTTGGGT
131 TAGGCAATTCAGGCTTAGGCAACTCTGGAACTTTGGCCTCTAATTTAGGCAACTCCGGCTTGGGT
60061 AACTCGGGAACTTTGGAAAATTCAGGCTTTGGCA
196 AACTCGGGAACTTTGGAAAATTCAGGCTTTGGCA
60095 ACTCAGGAGT
Statistics
Matches: 207, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
261 207 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (261 bp):
GGTAATTCAGACTTGGGCAACTCCGAAACTTTAGGCAAATCAGGCTTTGGCAACTCAGGAAATTT
CGGGAATTCAAGCTTGGGCAATTCCAGAACTTTAGGCAATTCAGGCTTGGGCAACTCCGGAACTT
TAGGCAATTCAGGCTTAGGCAACTCTGGAACTTTGGCCTCTAATTTAGGCAACTCCGGCTTGGGT
AACTCGGGAACTTTGGAAAATTCAGGCTTTGGCAGCTCCGGCATTTTTGGCAACTCAGGAACTTC
A
Found at i:60083 original size:111 final size:111
Alignment explanation
Indices: 59941--60142 Score: 253
Period size: 111 Copynumber: 1.8 Consensus size: 111
59931 CGGTAATTCA
* * * *
59941 GGCTTGGGCAATTCCGGAACTTTAGGCAATTCAGGCTTGGGCAATTCCGGAACTTTAGGCAATTC
1 GGCTTGGGCAACTCCGGAACTTTAGGAAATTCAGGCTTGGGCAACTCAGGAACTTTAGGCAATTC
*
60006 AGGCTTTGGCAACTCTGGAACTTTGGCCTCTAATTTAGGCAACTCC
66 AGGCTTTGGCAACTCCGGAACTTTGGCCTCTAATTTAGGCAACTCC
* * * ** *
60052 GGCTTGGGTAACTCGGGAACTTT-GGAAAATTCAGGCTTTGGCAACTCAGGAGTTTTAGGTAATT
1 GGCTTGGGCAACTCCGGAACTTTAGG-AAATTCAGGCTTGGGCAACTCAGGAACTTTAGGCAATT
** * *
60116 TTGGTTTTGGCAATTCCGGAACTTTGG
65 CAGGCTTTGGCAACTCCGGAACTTTGG
60143 GCAATTCTGG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
110 2 0.03
111 73 0.97
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (111 bp):
GGCTTGGGCAACTCCGGAACTTTAGGAAATTCAGGCTTGGGCAACTCAGGAACTTTAGGCAATTC
AGGCTTTGGCAACTCCGGAACTTTGGCCTCTAATTTAGGCAACTCC
Found at i:60095 original size:144 final size:146
Alignment explanation
Indices: 59899--60167 Score: 337
Period size: 144 Copynumber: 1.8 Consensus size: 146
59889 CGAAACTTTT
* * * * *
59899 GGCAATTCAGGCTTTGGCAACTCCGGAACTTTCGGTAATTCAGGCTTGGGCAATTCCGGAACTTT
1 GGCAACTCAGGCTTGGGCAACTCCGGAACTTTCGGAAATTCAGGCTTGGGCAACTCAGGAACTTT
59964 AGGCAATTCAGGCTTGGGCAATTCCGGAACTTTAGGCAATTCAGG-C-TTTGGCAACTCTGGAAC
66 AGGCAATTCAGGCTTGGGCAATTCCGGAACTTTAGGCAATTCAGGACTTTTGGCAACTCTGGAAC
60027 TTTGGCCTCTAATTTA
131 TTTGGCCTCTAATTTA
* * * * **
60043 GGCAACTCCGGCTTGGGTAACTCGGGAACTTT-GGAAAATTCAGGCTTTGGCAACTCAGGAGTTT
1 GGCAACTCAGGCTTGGGCAACTCCGGAACTTTCGG-AAATTCAGGCTTGGGCAACTCAGGAACTT
* ** * * * *
60107 TAGGTAATTTTGGTTTTGGCAATTCCGGAACTTTGGGCAATTCTGGCACTTTTGGCAACTC
65 TAGGCAATTCAGGCTTGGGCAATTCCGGAACTTTAGGCAATTCAGG-ACTTTTGGCAACTC
60168 CGGAGTTTTC
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
143 2 0.02
144 89 0.86
146 1 0.01
147 11 0.11
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (146 bp):
GGCAACTCAGGCTTGGGCAACTCCGGAACTTTCGGAAATTCAGGCTTGGGCAACTCAGGAACTTT
AGGCAATTCAGGCTTGGGCAATTCCGGAACTTTAGGCAATTCAGGACTTTTGGCAACTCTGGAAC
TTTGGCCTCTAATTTA
Found at i:60147 original size:18 final size:18
Alignment explanation
Indices: 60124--60185 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
60114 TTTTGGTTTT
*
60124 GGCAATTCCGGAACTTTG
1 GGCAATTCCGGAACTTTC
* * *
60142 GGCAATTCTGGCACTTTT
1 GGCAATTCCGGAACTTTC
* **
60160 GGCAACTCCGGAGTTTTC
1 GGCAATTCCGGAACTTTC
60178 GGCAATTC
1 GGCAATTC
60186 TGCCTTAGGC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (18 bp):
GGCAATTCCGGAACTTTC
Found at i:74669 original size:3 final size:3
Alignment explanation
Indices: 74661--74686 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
74651 TATGCTCCAC
74661 AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AG
74687 TTGCTGTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:74812 original size:33 final size:33
Alignment explanation
Indices: 74770--74842 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
74760 GTGGTTAACC
*
74770 TGGCTCGTCCGAATAGGCTCAGGCCGACTAATT
1 TGGCTCGTCCGAATAGGCTCAGGCCGACTAATA
** *
74803 TGGCTCGTCCGTGTAGGCTCAGGCCGACTGATA
1 TGGCTCGTCCGAATAGGCTCAGGCCGACTAATA
74836 TGGCTCG
1 TGGCTCG
74843 AACCAACTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (33 bp):
TGGCTCGTCCGAATAGGCTCAGGCCGACTAATA
Found at i:79626 original size:41 final size:41
Alignment explanation
Indices: 79581--79663 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
79571 CAACTTGACT
* *
79581 CTCCTAATAATTCAGGTAACAAATTAAATTCAGGTTTAGTC
1 CTCCTAATAATTAAGGTAACAAATTAAATCCAGGTTTAGTC
79622 CTCCTAATAATTAAGGTAACAAATTAAATCCAGGTTTAGTC
1 CTCCTAATAATTAAGGTAACAAATTAAATCCAGGTTTAGTC
79663 C
1 C
79664 CTAGTTATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (41 bp):
CTCCTAATAATTAAGGTAACAAATTAAATCCAGGTTTAGTC
Found at i:80502 original size:13 final size:13
Alignment explanation
Indices: 80484--80508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80474 TTGGAATTCC
80484 AAATAATATTTAT
1 AAATAATATTTAT
80497 AAATAATATTTA
1 AAATAATATTTA
80509 GAACATCGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATAATATTTAT
Found at i:81256 original size:17 final size:18
Alignment explanation
Indices: 81217--81256 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
81207 TTCCCTCTGT
*
81217 TTCTTCAATTATACTTCG
1 TTCTTCAATTATAATTCG
*
81235 TTCTTCAATT-TAATTGG
1 TTCTTCAATTATAATTCG
81252 TTCTT
1 TTCTT
81257 TTGTTACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.55
Consensus pattern (18 bp):
TTCTTCAATTATAATTCG
Found at i:82205 original size:15 final size:16
Alignment explanation
Indices: 82187--82230 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
82177 AGTAAAGTGG
82187 TAGAAAGTTTTTCTA-
1 TAGAAAGTTTTTCTAC
**
82202 TAGAAAG-TTTTGGAC
1 TAGAAAGTTTTTCTAC
82217 TAGAAAGTTTTTCT
1 TAGAAAGTTTTTCT
82231 TAATTAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 5 0.22
15 14 0.61
16 4 0.17
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (16 bp):
TAGAAAGTTTTTCTAC
Found at i:82847 original size:442 final size:446
Alignment explanation
Indices: 82149--82972 Score: 1322
Period size: 442 Copynumber: 1.9 Consensus size: 446
82139 GGTTTATCTT
* * ** *
82149 TAGAGACCGTTTGGAAGTTTCTATAGAAAGTAAAGTGGTAGAAAGTTTTTCTATAGAAAGTTTTG
1 TAGAGACCGTTTGGAAGTTTATATAGAAAATAAAAAGGTAGAAAGTTTTTCTATAGAAAGTTTAG
* *
82214 GACTAGAAAGTTTTTCTTAATTAAGAAAGTGCTTTTAACATGTTTGTTTAACCTCTAAAGTTTAA
66 GACTAGAAAGTTTTTCTT-ATTAAGAAAATACTTTTAACATGTTTGTTTAACCTCTAAAGTTTAA
*
82279 ATTAAATTCTTAAGAAAAAGTAAAGTTAAATTTAGTAAAATACCCTTTGATGAATATTTTAAATT
130 ATTAAATTCCTAAG-AAAAGTAAAGTTAAATTTAGTAAAATACCCTTTGATGAATATTTTAAATT
* * * *
82344 TAAAAATAAGGTCCTTTTAAGTAATTTTTGTCTTAAAGTCACTTTCATGAGAGAGTGAGAAAGTA
194 TAAAAATAAGGTCCTTTTAAGTAATTTTTGTCTTAAAATCACTTTCACGAGAAAATGAGAAAGTA
* * *
82409 TTTGGGTCAGTTTAACTTTCTTACCCTAAACTTTCTCTAAAAAAAATAACCAAACATGTTAAAGT
259 TTTCGGTCAGTTAAACTTTCTTACCCTAAACTTTCTCTAAAAAAAATAACCAAACATGCTAAAGT
82474 TATTT-TCTAC-CATATACTTTCTATAGAAAGTGATTAAATTACATCAAAACAAACGGGAGATGA
324 TATTTCTC-ACTC-TATACTTTCTATAGAAAGTGATTAAATTACATCAAAACAAACGGGAGATGA
82537 GGAAATGGTATGAGTAGAGGATGTAACTTCTTCGTTTACTCATTCTCTACAAATTGATTA
387 GGAAATGGTATGAGTAGAGGATGTAACTTCTTCGTTTACTCATTCTCTACAAATTGATTA
*
82597 TAGAGCCCGTTTGGAAGTTTATATAGAAAATAAAAAGGTAGAAAGTTTTTCTATAGAAAGTTTAG
1 TAGAGACCGTTTGGAAGTTTATATAGAAAATAAAAAGGTAGAAAGTTTTTCTATAGAAAGTTTAG
* *
82662 GACTAGAAAGTTTTT-TCT-TTAA-AAAATAC-TTTAGCATGTTTGTTTAATCTCTAAAGTTTAA
66 GACTAGAAAGTTTTTCT-TATTAAGAAAATACTTTTAACATGTTTGTTTAACCTCTAAAGTTTAA
* *
82723 ATTAAATTCCTAAG-AAAGTAAAGTTAAATTTATTAAAATACCCTTTGATGGATATTTTAAATTT
130 ATTAAATTCCTAAGAAAAGTAAAGTTAAATTTAGTAAAATACCCTTTGATGAATATTTTAAATTT
*
82787 AAAAATAAGGTCCTTTTAAGTAA-TTTTGTCTTAAAATTACTTTCACGAGAAAAATGAGAAAGTA
195 AAAAATAAGGTCCTTTTAAGTAATTTTTGTCTTAAAATCACTTTCACGAG-AAAATGAGAAAGTA
* *
82851 TTTCGGTCAGTTAAACTTTCTTACCCTAAATTTTCTCTTAAAAAAATAACCAAACATGCTAAAGT
259 TTTCGGTCAGTTAAACTTTCTTACCCTAAACTTTCTCTAAAAAAAATAACCAAACATGCTAAAGT
*
82916 TATTTCTCACTCTATACTTTCTATAGAAAGTGATTAAATTATATCAAAACAAACGGG
324 TATTTCTCACTCTATACTTTCTATAGAAAGTGATTAAATTACATCAAAACAAACGGG
82973 CTCATAGTCT
Statistics
Matches: 348, Mismatches: 24, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
441 23 0.07
442 194 0.56
443 3 0.01
444 43 0.12
445 5 0.01
446 4 0.01
447 1 0.00
448 75 0.22
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (446 bp):
TAGAGACCGTTTGGAAGTTTATATAGAAAATAAAAAGGTAGAAAGTTTTTCTATAGAAAGTTTAG
GACTAGAAAGTTTTTCTTATTAAGAAAATACTTTTAACATGTTTGTTTAACCTCTAAAGTTTAAA
TTAAATTCCTAAGAAAAGTAAAGTTAAATTTAGTAAAATACCCTTTGATGAATATTTTAAATTTA
AAAATAAGGTCCTTTTAAGTAATTTTTGTCTTAAAATCACTTTCACGAGAAAATGAGAAAGTATT
TCGGTCAGTTAAACTTTCTTACCCTAAACTTTCTCTAAAAAAAATAACCAAACATGCTAAAGTTA
TTTCTCACTCTATACTTTCTATAGAAAGTGATTAAATTACATCAAAACAAACGGGAGATGAGGAA
ATGGTATGAGTAGAGGATGTAACTTCTTCGTTTACTCATTCTCTACAAATTGATTA
Found at i:83586 original size:29 final size:29
Alignment explanation
Indices: 83544--83599 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
83534 CCTTGTACGG
*
83544 TGTTGAAAGCTTGTAATTGTGGTGTTGAT
1 TGTTGAAAACTTGTAATTGTGGTGTTGAT
83573 TGTTGAAAACTTGTAATTGTGGTGTTG
1 TGTTGAAAACTTGTAATTGTGGTGTTG
83600 TAAACTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.04, G:0.30, T:0.45
Consensus pattern (29 bp):
TGTTGAAAACTTGTAATTGTGGTGTTGAT
Found at i:84561 original size:18 final size:19
Alignment explanation
Indices: 84528--84563 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
84518 TAAAATTAAA
*
84528 AGTAATTAATTTGTGAAGT
1 AGTAATTAAGTTGTGAAGT
84547 AGTAA-TAAGTTGTGAAG
1 AGTAATTAAGTTGTGAAG
84564 GGAAGGGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (19 bp):
AGTAATTAAGTTGTGAAGT
Done.