Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3887810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 15
Found at i:20167 original size:21 final size:21
Alignment explanation
Indices: 20111--20168 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
20101 ATTTACCGTG
*
20111 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGACGCT
* ** *
20132 ATTACGGCCACCGCGGATGCT
1 ATTGCGGCCGTCGCGGACGCT
20153 ATTGCGGCCGTCGCGG
1 ATTGCGGCCGTCGCGG
20169 GTAACTCGGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.10, C:0.33, G:0.38, T:0.19
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:29635 original size:18 final size:18
Alignment explanation
Indices: 29612--29654 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
29602 TTTTAGTTAA
29612 GAAAATATAGCAAAATAT
1 GAAAATATAGCAAAATAT
29630 GAAAATATAGCAAAATAT
1 GAAAATATAGCAAAATAT
29648 GAAAATA
1 GAAAATA
29655 AAAAAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.63, C:0.05, G:0.12, T:0.21
Consensus pattern (18 bp):
GAAAATATAGCAAAATAT
Found at i:29636 original size:8 final size:9
Alignment explanation
Indices: 29611--29654 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
29601 ATTTTAGTTA
29611 AGAAAATAT
1 AGAAAATAT
29620 AGCAAAATAT
1 AG-AAAATAT
29630 -GAAAATAT
1 AGAAAATAT
29638 AGCAAAATAT
1 AG-AAAATAT
29648 -GAAAATA
1 AGAAAATA
29655 AAAAAATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 13 0.41
9 5 0.16
10 14 0.44
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (9 bp):
AGAAAATAT
Found at i:30605 original size:33 final size:33
Alignment explanation
Indices: 30560--30622 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
30550 AAATAATGGG
*
30560 TATTTGAGTCCAACCCAACAGAACATTTTTGGA
1 TATTTGAATCCAACCCAACAGAACATTTTTGGA
30593 TATTTGAATCCAACCCAACAGAACATTTTT
1 TATTTGAATCCAACCCAACAGAACATTTTT
30623 ATTTTAAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (33 bp):
TATTTGAATCCAACCCAACAGAACATTTTTGGA
Found at i:34387 original size:15 final size:16
Alignment explanation
Indices: 34349--34389 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
34339 ACAGAGTTTA
34349 TGAATCATTCAACATT
1 TGAATCATTCAACATT
34365 TGAATCATTCAAC-TCT
1 TGAATCATTCAACAT-T
34381 T-AATCATTC
1 TGAATCATTC
34390 TGAGATAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (16 bp):
TGAATCATTCAACATT
Found at i:41057 original size:16 final size:16
Alignment explanation
Indices: 41032--41070 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
41022 GACGAAGCTA
* *
41032 CACCCCATCACACCTC
1 CACCCGATCACACCCC
41048 CACCCGATCACACCCC
1 CACCCGATCACACCCC
41064 CACCCGA
1 CACCCGA
41071 CGATCGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.62, G:0.05, T:0.08
Consensus pattern (16 bp):
CACCCGATCACACCCC
Found at i:41344 original size:19 final size:20
Alignment explanation
Indices: 41308--41350 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
41298 AGAAATTAGG
* *
41308 TTTTTTTAATAAATATAATA
1 TTTTTTTAATAAAAATAAAA
41328 TTTTTTTAA-AAAAATAAAA
1 TTTTTTTAATAAAAATAAAA
41347 TTTT
1 TTTT
41351 CAAAAACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTTTAATAAAAATAAAA
Found at i:42579 original size:14 final size:14
Alignment explanation
Indices: 42560--42588 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42550 GAAGCTTGAA
42560 CCACATGTGTAAGT
1 CCACATGTGTAAGT
42574 CCACATGTGTAAGT
1 CCACATGTGTAAGT
42588 C
1 C
42589 ATGCTAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (14 bp):
CCACATGTGTAAGT
Found at i:44332 original size:30 final size:30
Alignment explanation
Indices: 44272--44361 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
44262 GGAAAAGTTG
* * * *
44272 AATTGAACTTTAAAGTCAACTTCAATTACCT
1 AATTGAAC-TTGAAGTGAAGTTCAAGTACCT
44303 AATTGAACTTGAAGTGAAGTTCAAGTACCT
1 AATTGAACTTGAAGTGAAGTTCAAGTACCT
44333 AATTGAACTTGAAGTGAAGTTCAAGTACC
1 AATTGAACTTGAAGTGAAGTTCAAGTACC
44362 AATACATATA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
30 47 0.85
31 8 0.15
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (30 bp):
AATTGAACTTGAAGTGAAGTTCAAGTACCT
Found at i:45203 original size:13 final size:14
Alignment explanation
Indices: 45172--45206 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
45162 TATTTTATAC
45172 CCTAAACCCTAAAT
1 CCTAAACCCTAAAT
*
45186 TCTAAACCC-AAAT
1 CCTAAACCCTAAAT
45199 CCTAAACC
1 CCTAAACC
45207 ATAACCCTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (14 bp):
CCTAAACCCTAAAT
Found at i:45566 original size:254 final size:254
Alignment explanation
Indices: 45112--45619 Score: 823
Period size: 254 Copynumber: 2.0 Consensus size: 254
45102 TTGTCATTTT
45112 TGCTTCTATCGTATTTTCACATCAATTTAACCTTAAAAATTTAATTATATTATTTTATACCCTAA
1 TGCTTCTATCGTATTTTCACATCAATTTAACCTTAAAAATTTAATTATATTATTTTATACCCTAA
45177 ACCCTAAATTCTAAACCCAAATCCTAAACCATAACCCTTGACCTCTAAACTACAAATCTTAAACC
66 ACCCTAAATTCTAAACCCAAATCCTAAACCATAACCCTTGACCTCTAAACTACAAATCTTAAACC
* * * **
45242 CTAACTTATAACTCTGAACAACAATAATATTTAAACATTGGTGTAATTGAGTAACTTCGAATGTT
131 CTAACTTACAACTCTAAACAACAATAATATTTAAACATTGGTGCAATTGAACAACTTCGAATGTT
*
45307 TAAATTAATATGATATACGATATTGACGAAAATGATAAATTCAGTCTATTACAG-GACAA
196 TAAATTAATATGATATACGATATTGACGAAAATGATAAATTCA-TCTAATACAGAGACAA
*
45366 TGCTTCTATCGTATTTTCACATCAATTTAGTCC-TAAAATTATTTAATTATATTATTTTATA-CC
1 TGCTTCTATCGTATTTTCACATCAATTTA-ACCTTAAAA--ATTTAATTATATTATTTTATACCC
* *
45429 TAAA-CCTAAATTCTAAACCCAAATCCTAAACTATAACCCTTGATCT-TAAACTACAAATCTTAA
63 TAAACCCTAAATTCTAAACCCAAATCCTAAACCATAACCCTTGACCTCTAAACTACAAATCTTAA
45492 ACCCTAACTTACAACTCTAAACAA-AATAAATATTTTAAACATTGGTTGCAATTGAACAACTTCG
128 ACCCTAACTTACAACTCTAAACAACAAT-AATA-TTTAAACATTGG-TGCAATTGAACAACTTCG
45556 AATG-TTAAATTAATATGATATACGATATTGACGAAAATGATAAATTCATCTAATACAGAGACAA
190 AATGTTTAAATTAATATGATATACGATATTGACGAAAATGATAAATTCATCTAATACAGAGACAA
45620 GAAAATGACC
Statistics
Matches: 238, Mismatches: 9, Indels: 14
0.91 0.03 0.05
Matches are distributed among these distances:
252 3 0.01
253 52 0.22
254 135 0.57
255 27 0.11
256 21 0.09
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (254 bp):
TGCTTCTATCGTATTTTCACATCAATTTAACCTTAAAAATTTAATTATATTATTTTATACCCTAA
ACCCTAAATTCTAAACCCAAATCCTAAACCATAACCCTTGACCTCTAAACTACAAATCTTAAACC
CTAACTTACAACTCTAAACAACAATAATATTTAAACATTGGTGCAATTGAACAACTTCGAATGTT
TAAATTAATATGATATACGATATTGACGAAAATGATAAATTCATCTAATACAGAGACAA
Found at i:46872 original size:27 final size:26
Alignment explanation
Indices: 46842--46904 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
46832 ATTATTGGAA
*
46842 TGTATATTTGACTAAATTGT-ATATATT
1 TGTATATTT-AC-AAATTGTAAAATATT
46869 TGTATAATATTACAAATTGTAAAATATT
1 TGTAT-AT-TTACAAATTGTAAAATATT
*
46897 TATATATT
1 TGTATATT
46905 CTTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 1 0.03
27 14 0.45
28 14 0.45
29 2 0.06
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (26 bp):
TGTATATTTACAAATTGTAAAATATT
Found at i:52012 original size:17 final size:17
Alignment explanation
Indices: 51990--52024 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
51980 AATCAATGCA
51990 AAAGGAGTAGTGGTCCT
1 AAAGGAGTAGTGGTCCT
52007 AAAGGAGTAGTGGTCCT
1 AAAGGAGTAGTGGTCCT
52024 A
1 A
52025 GAATTGCTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.34, T:0.23
Consensus pattern (17 bp):
AAAGGAGTAGTGGTCCT
Found at i:52188 original size:21 final size:22
Alignment explanation
Indices: 52144--52188 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
52134 AATGAGAAGC
52144 TGGAACATGTCCTAAACGGGCA
1 TGGAACATGTCCTAAACGGGCA
52166 TGGAACATGTCCTAAAC-GGCA
1 TGGAACATGTCCTAAACGGGCA
52187 TG
1 TG
52189 CCAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (22 bp):
TGGAACATGTCCTAAACGGGCA
Found at i:54084 original size:22 final size:22
Alignment explanation
Indices: 54057--54098 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
54047 TAAACGAACG
* *
54057 AACATAAATGAATGGATTACTA
1 AACATAAACGAATAGATTACTA
54079 AACATAAACGAATAGATTAC
1 AACATAAACGAATAGATTAC
54099 CGAATGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (22 bp):
AACATAAACGAATAGATTACTA
Found at i:55393 original size:188 final size:188
Alignment explanation
Indices: 55023--55396 Score: 689
Period size: 189 Copynumber: 2.0 Consensus size: 188
55013 GATATCGAAT
55023 GCCTAACTAACAGTAAGTTGCTGATTTGTGGGTACAAACTTACATGCTTCCTTTTCTTCGATCAA
1 GCCTAACTAACAGTAAGTTGCTGATTTGTGGGTACAAACTTACATGCTTCCTTTTCTTCGATCAA
*
55088 TTCCACTATTCCTCATATCATTTTTCACAAGAGCAGATCCAGATGGAAGGCCATAAGGCATTGGA
66 TTCCACTATTCCTCATATCATTTTTCACAAGAGCAGATCCAGATGGAAGGCCAAAAGGCATTGGA
55153 GAAGGCGCTGAAGCAGGAGCTGGAGGAGCAGTTGTCATGGCGATATTGCTAGCTGAAC
131 GAAGGCGCTGAAGCAGGAGCTGGAGGAGCAGTTGTCATGGCGATATTGCTAGCTGAAC
*
55211 GCCTGACTAACAGTAAGTTGCTGATTTTGTGGGTACAAACTTACATGCTTCCTTTTTCTTCGATC
1 GCCTAACTAACAGTAAGTTGCTGA-TTTGTGGGTACAAACTTACATGCTTCC-TTTTCTTCGATC
*
55276 AATTCCACTA-TCCTCATATCATTTTTCACAAGAGCGGATCCAGATGGAAGGCCAAAAGGCATTG
64 AATTCCACTATTCCTCATATCATTTTTCACAAGAGCAGATCCAGATGGAAGGCCAAAAGGCATTG
55340 GAGAAGGCGCTGAAGCAGGAGCT-GAGGAGCAGTTGTCATGGCGATATTGCTAGCTGA
129 GAGAAGGCGCTGAAGCAGGAGCTGGAGGAGCAGTTGTCATGGCGATATTGCTAGCTGA
55397 CAAGGCAGCT
Statistics
Matches: 181, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
188 57 0.31
189 102 0.56
190 22 0.12
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (188 bp):
GCCTAACTAACAGTAAGTTGCTGATTTGTGGGTACAAACTTACATGCTTCCTTTTCTTCGATCAA
TTCCACTATTCCTCATATCATTTTTCACAAGAGCAGATCCAGATGGAAGGCCAAAAGGCATTGGA
GAAGGCGCTGAAGCAGGAGCTGGAGGAGCAGTTGTCATGGCGATATTGCTAGCTGAAC
Found at i:60071 original size:31 final size:30
Alignment explanation
Indices: 60027--60086 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
60017 AAACTACGTA
60027 TTTAATATCTAAATTATTAATTTTATTTTAT
1 TTTAATATCTAAATTATTAATTTT-TTTTAT
* * *
60058 TTTAGTATTTAAATTTTTAATTTTTTTTA
1 TTTAATATCTAAATTATTAATTTTTTTTA
60087 AAATCATACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTAATATCTAAATTATTAATTTTTTTTAT
Found at i:60567 original size:21 final size:20
Alignment explanation
Indices: 60481--60638 Score: 88
Period size: 21 Copynumber: 7.8 Consensus size: 20
60471 AAATGACCAA
**
60481 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
60500 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
60520 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
60540 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
60561 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
60582 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
*
60602 CCAAAATCGCAACGCGAATATT
1 -CAAAATCGCAACGCG-ATTTT
60624 -AAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
60639 ACACATAAAT
Statistics
Matches: 105, Mismatches: 27, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
19 17 0.16
20 40 0.38
21 44 0.42
22 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:60629 original size:20 final size:20
Alignment explanation
Indices: 60541--60657 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
60531 ATCAGTTTCC
* *
60541 AAAATCGCAACGCGATTCTT
1 AAAATCGCAACGCGAATATT
* *
60561 GAAAATCGCAATGCG-ATAGT
1 -AAAATCGCAACGCGAATATT
** *
60581 ACAAATTCGCATTGCG-ATTTT
1 A-AAA-TCGCAACGCGAATATT
60602 CCAAAATCGCAACGCGAATATT
1 --AAAATCGCAACGCGAATATT
* *
60624 AAAATCGCAACGCGAACA-C
1 AAAATCGCAACGCGAATATT
60643 ATAAATCGCAACGCG
1 A-AAATCGCAACGCG
60658 TATCCGTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 13
0.76 0.12 0.13
Matches are distributed among these distances:
19 2 0.03
20 35 0.45
21 33 0.42
22 7 0.09
23 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGAATATT
Found at i:60667 original size:20 final size:20
Alignment explanation
Indices: 60625--60854 Score: 234
Period size: 20 Copynumber: 11.5 Consensus size: 20
60615 GCGAATATTA
* *
60625 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
60645 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
60665 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
60685 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
60705 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
60725 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
60745 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
60765 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
60785 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
60805 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
60825 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
60845 AAATCACAAC
1 AAATCGCAAC
60855 ACTGAAATTT
Statistics
Matches: 178, Mismatches: 25, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 175 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:60836 original size:40 final size:40
Alignment explanation
Indices: 60644--60854 Score: 282
Period size: 40 Copynumber: 5.3 Consensus size: 40
60634 CGCGAACACA
* * * *
60644 TAAATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTG
* ** * * * *
60684 TAAATCGCAACGCGT-ATGGGTAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTG
60724 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
60764 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
60804 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
*
60844 TAAATCACAAC
1 TAAATCGCAAC
60855 ACTGAAATTT
Statistics
Matches: 159, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 158 0.99
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (40 bp):
TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
Found at i:64138 original size:53 final size:52
Alignment explanation
Indices: 64075--64190 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
64065 AACGAGAGAA
*
64075 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATTT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCA-TT
** ** **
64128 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
64180 TCGCATTGCGA
1 TCGCATTGCGA
64191 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 13 0.23
53 43 0.77
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:64150 original size:19 final size:19
Alignment explanation
Indices: 64113--64210 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
64103 GATTCTCTCG
64113 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
64133 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
64152 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
64166 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
64185 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
64204 TTGCGAT
1 TTGCGAT
64211 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 39 0.55
20 12 0.17
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:64204 original size:52 final size:53
Alignment explanation
Indices: 64094--64210 Score: 227
Period size: 52 Copynumber: 2.2 Consensus size: 53
64084 GAAATGAAAA
64094 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
64147 TCGCATTGCGATTCTCTCGTTGCGATTTTCA-TTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
64199 TCGCATTGCGAT
1 TCGCATTGCGAT
64211 AGTCAATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 33 0.52
53 31 0.48
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTCGCATTGCGATTTTCATT
Found at i:64321 original size:33 final size:33
Alignment explanation
Indices: 64269--64417 Score: 142
Period size: 33 Copynumber: 4.3 Consensus size: 33
64259 CCATTACATT
64269 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
64303 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
64335 T-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
64374 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
64407 TCGCAATGCGA
1 TCGCAATGCGA
64418 TTTTCATTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
31 7 0.08
32 7 0.08
33 42 0.45
34 10 0.11
35 1 0.01
36 2 0.02
38 10 0.11
39 7 0.08
40 7 0.08
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:64325 original size:19 final size:19
Alignment explanation
Indices: 64269--64398 Score: 163
Period size: 19 Copynumber: 7.3 Consensus size: 19
64259 CCATTACATT
64269 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
64289 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
64303 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
64322 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
64341 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
64355 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
64374 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
64393 TCGCAA
1 TCGCAA
64399 CGAGAGAATC
Statistics
Matches: 96, Mismatches: 4, Indels: 21
0.79 0.03 0.17
Matches are distributed among these distances:
14 20 0.21
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 58 0.60
20 6 0.06
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:64435 original size:19 final size:19
Alignment explanation
Indices: 64407--64542 Score: 166
Period size: 19 Copynumber: 7.6 Consensus size: 19
64397 AACGAGAGAA
*
64407 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
64426 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
*
64440 TCCCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
64459 TCCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT
*
64479 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
64495 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
64512 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
64531 TCGCATTGCGAT
1 TCGCATTGCGAT
64543 AGTCAATTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 22
0.79 0.04 0.17
Matches are distributed among these distances:
14 16 0.16
16 10 0.10
17 10 0.10
19 47 0.47
20 18 0.18
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:64436 original size:52 final size:52
Alignment explanation
Indices: 64269--64417 Score: 289
Period size: 52 Copynumber: 2.8 Consensus size: 52
64259 CCATTACATT
64269 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
64322 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
64374 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
64418 TTTTCATTTC
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 87 0.91
53 9 0.09
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.13
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:64450 original size:33 final size:33
Alignment explanation
Indices: 64407--64542 Score: 125
Period size: 33 Copynumber: 3.9 Consensus size: 33
64397 AACGAGAGAA
*
64407 TCGCAATGCGATTTTCATTTCGCATTGCGATTC
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTC
*
64440 TCCCATTGCGATTTTCATTTCCGCATTGCGATTTTC
1 TCGCATTGCGATTTTCATTT-CGCATTGCGA--TTC
* * *
64476 ATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-
1 ---TCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTC
64512 TCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCGCATTGCGAT
64543 AGTCAATTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
31 9 0.11
32 4 0.05
33 31 0.37
34 10 0.12
36 3 0.04
37 2 0.02
39 14 0.17
40 6 0.07
41 4 0.05
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (33 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTC
Found at i:64475 original size:53 final size:52
Alignment explanation
Indices: 64407--64542 Score: 236
Period size: 53 Copynumber: 2.6 Consensus size: 52
64397 AACGAGAGAA
*
64407 TCGCAATGCGATTTTCATTTCGCATTGCGATTCTCCCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCCCATTGCGATTTTCATT
* *
64459 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATTTCGCATTGCGATTCTCCCATTGCGATTTTCATT
64512 TCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTTTCATTTCGCATTGCGAT
64543 AGTCAATTTT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
52 31 0.39
53 49 0.61
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCCCATTGCGATTTTCATT
Found at i:64668 original size:14 final size:14
Alignment explanation
Indices: 64649--64685 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
64639 CATCAATTAC
64649 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
64663 ACAAATCATCTTTT
1 ACAAATCAACTTTT
64677 ACAAATCAA
1 ACAAATCAA
64686 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:66685 original size:14 final size:14
Alignment explanation
Indices: 66666--66722 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
66656 GCGAAATGAA
*
66666 AATCGCAACGACAG
1 AATCGCAACGAAAG
66680 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
66697 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
66713 AATCGCAACG
1 AATCGCAACG
66723 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:66693 original size:33 final size:33
Alignment explanation
Indices: 66647--66739 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
66637 GCGAAACCAA
*
66647 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
66680 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
66713 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
66740 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:66704 original size:19 final size:19
Alignment explanation
Indices: 66610--66744 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
66600 TAGTTTACTT
* *
66610 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
66630 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
66649 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
66668 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
66682 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
66701 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
66715 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
66734 TCGCAATGCGA
1 TCGCAACGCGA
66745 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:66762 original size:19 final size:19
Alignment explanation
Indices: 66740--66868 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
66730 AAAATCGCAA
66740 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
66759 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
66773 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
66792 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
66806 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
66825 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
66844 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
66864 TGCGA
1 TGCGA
66869 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:66782 original size:33 final size:33
Alignment explanation
Indices: 66740--66831 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
66730 AAAATCGCAA
66740 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
66773 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
66806 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
66832 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:67071 original size:93 final size:93
Alignment explanation
Indices: 66912--67385 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
66902 TTGAATGGAT
66912 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
66977 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
67005 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
67070 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
67098 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
67163 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
67191 AAATTTACTTTCAACCAAAAGACAAAACAAAGATAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
67256 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
67284 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
67349 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
67377 AAATTTACT
1 AAATTTACT
67386 AAGCAATCTA
Statistics
Matches: 376, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 376 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:69110 original size:14 final size:14
Alignment explanation
Indices: 69091--69180 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
69081 TTGAAATGAA
69091 AATCGCAACGAGAG
1 AATCGCAACGAGAG
69105 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
69122 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
69138 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
69157 AATCGCAACGAGAG
1 AATCGCAACGAGAG
69171 AATCGCAACG
1 AATCGCAACG
69181 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:69128 original size:33 final size:33
Alignment explanation
Indices: 69083--69197 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
69073 TCTTTTGGTT
69083 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
69116 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
69149 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
69182 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
69198 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:69129 original size:19 final size:18
Alignment explanation
Indices: 69090--69202 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
69080 GTTGAAATGA
69090 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
69105 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
69122 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
69138 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
69155 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
69171 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
69188 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
69203 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:69233 original size:14 final size:14
Alignment explanation
Indices: 69214--69270 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
69204 TTTGGTTTCG
69214 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
69228 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
69247 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
69261 CGTTGCGATT
1 CGTTGCGATT
69271 GTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:69246 original size:33 final size:33
Alignment explanation
Indices: 69198--69278 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
69188 AAAATCGCAA
**
69198 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
69231 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
69264 TGCGATTGTCATTTC
1 TGCGATTTTCATTTC
69279 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.22, G:0.23, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:69281 original size:21 final size:21
Alignment explanation
Indices: 69255--69330 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
69245 CGCGTTGCGA
69255 TTCTCTCGTTGCGATTGTCAT
1 TTCTCTCGTTGCGATTGTCAT
**
69276 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTGTCAT
*
69296 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTGTCAT
*
69317 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
69331 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTGTCAT
Found at i:69311 original size:41 final size:41
Alignment explanation
Indices: 69254--69331 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
69244 TCGCGTTGCG
*
69254 ATTCTCTCGTTGCGATTGTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGACAGTC
*
69295 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGAC
69332 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.44
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTGTCATTTATCTCGTTGCGACAGTC
Found at i:69457 original size:33 final size:33
Alignment explanation
Indices: 69410--69480 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
69400 AATACTAACT
* *
69410 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
69443 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
69476 TGAAA
1 TGAAA
69481 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:69714 original size:22 final size:22
Alignment explanation
Indices: 69662--69716 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
69652 TGGTTGTGAG
**
69662 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
69684 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
69706 GGATTTCTTCG
1 GGATTTCTTCG
69717 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:69887 original size:20 final size:20
Alignment explanation
Indices: 69862--70055 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
69852 CTTTAAATAT
69862 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
69882 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
69904 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
69923 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* * **
69943 CACATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
69963 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
69983 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
70003 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
70023 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
70043 CGCGTTGCGATTT
1 CGCGTTGCGATTT
70056 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:70049 original size:60 final size:60
Alignment explanation
Indices: 69862--70055 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
69852 CTTTAAATAT
**
69862 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * * *** *
69923 CGCGTTGCGATATACGGATACACATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
69983 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
70043 CGCGTTGCGATTT
1 CGCGTTGCGATTT
70056 TGGAAAATCG
Statistics
Matches: 110, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 83 0.75
61 27 0.25
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:70072 original size:21 final size:21
Alignment explanation
Indices: 70042--70124 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
70032 ATTTTCATAT
*
70042 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
70063 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
70084 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
70105 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
70125 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:70115 original size:42 final size:43
Alignment explanation
Indices: 70022--70120 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
70012 ATTTATGTGT
* *
70022 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
70063 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
70105 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
70121 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:70319 original size:22 final size:22
Alignment explanation
Indices: 70295--70336 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
70285 TTTTTAACCT
* *
70295 TTTTTATTTAATA-TATTTTTA
1 TTTTAATTTAACATTATTTTTA
70316 TTTTAATTTAACATTATTTTT
1 TTTTAATTTAACATTATTTTT
70337 GACTTTGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTAATTTAACATTATTTTTA
Found at i:79011 original size:124 final size:116
Alignment explanation
Indices: 78735--79018 Score: 275
Period size: 124 Copynumber: 2.4 Consensus size: 116
78725 TTAAATTTTT
* * *
78735 AAAAAAATAAAAGTTTAGGTACT-AAACAAACTAAAACTTATAGTTTAGGTACTAAACACGTTAA
1 AAAAAAATTAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACACGTTAA
* * * * *
78799 GTTTTTAATGATAGACACAAAAATGAAAACTAAACGATAGACATGATTTTG
66 GTTTTTAATGATAGAAAAAAAAATAAAAACTAAACGATAGACATAACTTTG
* * * *** * *
78850 AAAAAAATTGAAAGCTTAGATAATAAAATGGATCAAAACTGATAGTTTAGGTACTAAACATGTTA
1 AAAAAAATT-AAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACACGTTA
* **
78915 AGTTTTTTAATGGTGCATACTAAAAATAAAATAAAAACTAAAC-ATTAGGTATAACTTTG
65 AG-TTTTTAA---TG-ATA-GAAAAA-AAAATAAAAACTAAACGA-TAGACATAACTTTG
* *
78974 AAAAAAATTATAAGTTTAGGTACTAAAACATACCAAAATTGATAG
1 AAAAAAATTA-AAGTTTAGGTACTAAAACAAACCAAAACTGATAG
79019 ACTAAGTATT
Statistics
Matches: 131, Mismatches: 27, Indels: 13
0.77 0.16 0.08
Matches are distributed among these distances:
115 8 0.06
116 11 0.08
117 35 0.27
118 7 0.05
121 2 0.02
122 3 0.02
123 5 0.04
124 60 0.46
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (116 bp):
AAAAAAATTAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAACACGTTAA
GTTTTTAATGATAGAAAAAAAAATAAAAACTAAACGATAGACATAACTTTG
Found at i:81947 original size:10 final size:10
Alignment explanation
Indices: 81932--81956 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
81922 TGAAGTTTTC
81932 ATTACCTTTA
1 ATTACCTTTA
81942 ATTACCTTTA
1 ATTACCTTTA
81952 ATTAC
1 ATTAC
81957 TTGGACGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTACCTTTA
Found at i:88731 original size:23 final size:23
Alignment explanation
Indices: 88684--88731 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
88674 CGATTATATA
* *
88684 TTATTTAAATTATTATAATTTAT
1 TTATTTAAATTATTATAAATAAT
88707 TTATTTAAATTTATT-TAAATAAT
1 TTATTTAAA-TTATTATAAATAAT
88730 TT
1 TT
88732 TGAAATAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATTTAAATTATTATAAATAAT
Found at i:96993 original size:187 final size:186
Alignment explanation
Indices: 96638--97182 Score: 741
Period size: 187 Copynumber: 2.9 Consensus size: 186
96628 TCAAGTTTCT
** * * ** * *
96638 TATGTTATTTGGATTTAGATGTGAGTTCCGGATATAGGTATGTGCTCGACAAGTGTATATTTCTT
1 TATGTTACATGGACTTAGATGCGAGTTTGGGATATAGGTATGTGTTCGACGAGTGTATATTTCTT
* *
96703 TTATCTCTGTTTTTTTCCAATACTTCAAGCAAAAAATGTAGTCAGAATTATGTGTAATGAAACTA
66 TTATCTATGTTTTTTTCCAATACTTCAAGC--AAAATGTAGTCAGAATCATGTGTAATGAAACTA
*
96768 TGGATACATATAACCAAGAAGTTGACTATCTAATATGTTCCTTGGAGTGATTGCAGTC
129 TGGATACATATAACCAAGAAGTTGACTATATAATATGTTCCTTGGAGTGATTGCAGTC
96826 TATGTTACATGGACTTAGATGCGAGTGTT-GGATATAGGTATGTGTTCGACGAGTGTATATTTCT
1 TATGTTACATGGACTTAGATGCGAGT-TTGGGATATAGGTATGTGTTCGACGAGTGTATATTTCT
96890 TTTATCTATGTTTTTTTCCCAATACTTCAAGCAAAATGTAGTCAGAATCATGTGTAATGAAACTA
65 TTTATCTATGTTTTTTT-CCAATACTTCAAGCAAAATGTAGTCAGAATCATGTGTAATGAAACTA
* * *
96955 TGGATGCATATAACCAAGAAGTTGATTATATGATATGTTCCTTGGAGTGATTGCAGTC
129 TGGATACATATAACCAAGAAGTTGACTATATAATATGTTCCTTGGAGTGATTGCAGTC
* * * * *
97013 TATGTTACATGGACTTAGATGTGAGTTTGGGACATAGGTATGTGTTCGGCGAGTGTAT-GTGCAT
1 TATGTTACATGGACTTAGATGCGAGTTTGGGATATAGGTATGTGTTCGACGAGTGTATATTTC-T
* *
97077 TTTATCTATG-TTTTTTCCAGTACTTCAAGCAAAATGTTGTCAG-A--A--TG--ATGAAACTAT
65 TTTATCTATGTTTTTTTCCAATACTTCAAGCAAAATGTAGTCAGAATCATGTGTAATGAAACTAT
* * *
97134 CGATACATATATAACCAAGAAGTCGACTATATAATATGTTCCTTAGAGT
130 GGATAC--ATATAACCAAGAAGTTGACTATATAATATGTTCCTTGGAGT
97183 AATTACATCT
Statistics
Matches: 325, Mismatches: 26, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
178 14 0.04
180 39 0.12
182 1 0.00
184 1 0.00
185 25 0.08
186 10 0.03
187 149 0.46
188 71 0.22
189 15 0.05
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (186 bp):
TATGTTACATGGACTTAGATGCGAGTTTGGGATATAGGTATGTGTTCGACGAGTGTATATTTCTT
TTATCTATGTTTTTTTCCAATACTTCAAGCAAAATGTAGTCAGAATCATGTGTAATGAAACTATG
GATACATATAACCAAGAAGTTGACTATATAATATGTTCCTTGGAGTGATTGCAGTC
Found at i:106398 original size:6 final size:6
Alignment explanation
Indices: 106387--106438 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
106377 CAAGCAAATA
* * *
106387 TATACG TATACG TATACG TATACA TATACG TATACG TATATG TATACA
1 TATACG TATACG TATACG TATACG TATACG TATACG TATACG TATACG
106435 TATA
1 TATA
106439 TGAAAACAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (6 bp):
TATACG
Found at i:106413 original size:24 final size:24
Alignment explanation
Indices: 106386--106438 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
106376 TCAAGCAAAT
106386 ATATACGTATACGTATACGTATAC
1 ATATACGTATACGTATACGTATAC
*
106410 ATATACGTATACGTATATGTATAC
1 ATATACGTATACGTATACGTATAC
106434 ATATA
1 ATATA
106439 TGAAAACAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (24 bp):
ATATACGTATACGTATACGTATAC
Found at i:107076 original size:14 final size:14
Alignment explanation
Indices: 107057--107083 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
107047 GTCACATCAA
107057 TTTTTTTTTTGCTT
1 TTTTTTTTTTGCTT
107071 TTTTTTTTTTGCT
1 TTTTTTTTTTGCT
107084 ATAAAGAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (14 bp):
TTTTTTTTTTGCTT
Found at i:107850 original size:18 final size:17
Alignment explanation
Indices: 107827--107866 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
107817 AATCAATAAA
107827 AAAATATAAAATAAAATT
1 AAAATATAAAA-AAAATT
* *
107845 AAAATATAAGAAAATTT
1 AAAATATAAAAAAAATT
107862 AAAAT
1 AAAAT
107867 TCCAAGGCAC
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:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAATATAAAAAAAATT
Found at i:108318 original size:91 final size:91
Alignment explanation
Indices: 108163--108344 Score: 312
Period size: 91 Copynumber: 2.0 Consensus size: 91
108153 AAAATCTTAA
* *
108163 AACAACTTTTAAAATATCAACAACTAGTTGGTGTAGTCGAATGAGGCACTAAATCTCTTAAGTAA
1 AACAACTTTTAAAATATCAACAACTAGTTGGTCTAGTCGAATGAGACACTAAATCTCTTAAGTAA
108228 GGTTAATGGTTTGAATCCTGATGATT
66 GGTTAATGGTTTGAATCCTGATGATT
* *
108254 AACAACTTTTAAAATATCAACAACTAGTTGGTCTAGTCGATTGAGACACTAGATC-CATTAAGTA
1 AACAACTTTTAAAATATCAACAACTAGTTGGTCTAGTCGAATGAGACACTAAATCTC-TTAAGTA
108318 AGGTTAATGGTTTGAATCCTGATGATT
65 AGGTTAATGGTTTGAATCCTGATGATT
108345 GTGTGAATGG
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
90 1 0.01
91 85 0.99
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (91 bp):
AACAACTTTTAAAATATCAACAACTAGTTGGTCTAGTCGAATGAGACACTAAATCTCTTAAGTAA
GGTTAATGGTTTGAATCCTGATGATT
Found at i:108533 original size:28 final size:28
Alignment explanation
Indices: 108447--108542 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 28
108437 AAAAATTGGG
108447 TTCGAGTCGGGATTTTTTTAAAAGGTGATA
1 TTCGAGTC-GGATTTTTTT-AAAGGTGATA
* * * * *
108477 CTCAAGTCGGGTTTTTTAAAAAGTGATA
1 TTCGAGTCGGATTTTTTTAAAGGTGATA
* *
108505 TTCGGGTCGGATTTTTTTAAAGGTAATA
1 TTCGAGTCGGATTTTTTTAAAGGTGATA
*
108533 TTCGGGTCGG
1 TTCGAGTCGG
108543 GTCGAATTCG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 40 0.74
29 8 0.15
30 6 0.11
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.39
Consensus pattern (28 bp):
TTCGAGTCGGATTTTTTTAAAGGTGATA
Found at i:120896 original size:21 final size:21
Alignment explanation
Indices: 120870--120914 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
120860 AAGTTTTGAA
*
120870 AAAATTGAAATTTTAGGTACT
1 AAAATTGAAAGTTTAGGTACT
*
120891 AAAATTGATAGTTTAGGTACT
1 AAAATTGAAAGTTTAGGTACT
120912 AAA
1 AAA
120915 TATGTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (21 bp):
AAAATTGAAAGTTTAGGTACT
Found at i:133483 original size:12 final size:12
Alignment explanation
Indices: 133466--133491 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
133456 GTTTATCCTA
133466 AATTAATAAATG
1 AATTAATAAATG
133478 AATTAATAAATG
1 AATTAATAAATG
133490 AA
1 AA
133492 AGAGAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATTAATAAATG
Found at i:134182 original size:23 final size:23
Alignment explanation
Indices: 134154--134199 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
134144 ATTAATTTAA
*
134154 ATTAAAT-ATTATATACATTTATT
1 ATTAAATAATTAT-TAAATTTATT
134177 ATTAAATAATTATTAAATTTATT
1 ATTAAATAATTATTAAATTTATT
134200 TTATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTAAATAATTATTAAATTTATT
Found at i:138309 original size:30 final size:30
Alignment explanation
Indices: 138238--138297 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
138228 ACAATTTAAG
138238 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
138268 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
138298 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:138404 original size:21 final size:21
Alignment explanation
Indices: 138378--138434 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
138368 AGGGTGTCAA
138378 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
*
138399 AGTGCATTCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
138420 AGTGCATCCATGCAT
1 AGTGCATCCATGCAT
138435 ATGCACTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.26
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:139848 original size:19 final size:20
Alignment explanation
Indices: 139824--139871 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
139814 AATGATTTTC
*
139824 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
139843 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
139863 TTTTGAAAA
1 TTTTGAAAA
139872 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:141214 original size:30 final size:30
Alignment explanation
Indices: 141143--141202 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
141133 ACAATTTAAG
141143 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
141173 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
141203 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:141309 original size:21 final size:21
Alignment explanation
Indices: 141283--141340 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
141273 AGGGTGTCAA
141283 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
141304 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
141325 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
141341 TGCACTAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:141447 original size:16 final size:16
Alignment explanation
Indices: 141426--141460 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
141416 CCTTGCCATG
141426 CATCGATGCATCCTGC
1 CATCGATGCATCCTGC
141442 CATCGATGCATCCTGC
1 CATCGATGCATCCTGC
141458 CAT
1 CAT
141461 GCATCCATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.37, G:0.17, T:0.26
Consensus pattern (16 bp):
CATCGATGCATCCTGC
Found at i:141613 original size:21 final size:21
Alignment explanation
Indices: 141584--141623 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
141574 TTTGAGTAGA
141584 AAAATCATCTCCAAACGACTCC
1 AAAATCATC-CCAAACGACTCC
*
141606 AAAA-CATCCCCAACGACT
1 AAAATCATCCCAAACGACT
141624 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.42, C:0.38, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCAAACGACTCC
Found at i:142759 original size:34 final size:34
Alignment explanation
Indices: 142706--142792 Score: 133
Period size: 34 Copynumber: 2.6 Consensus size: 34
142696 GGGTTTTTGG
*
142706 TCCACCC--GACCCGACCCGAGAATAAGGGAACC
1 TCCACCCGAGACCCGACCCGAGAACAAGGGAACC
*
142738 TCCACCCGAGACTCGACCCGAGAACAAGGGAACC
1 TCCACCCGAGACCCGACCCGAGAACAAGGGAACC
*
142772 TCTACCCGAGACCCGACCCGA
1 TCCACCCGAGACCCGACCCGA
142793 CCAAAAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 7 0.14
34 42 0.86
ACGTcount: A:0.30, C:0.41, G:0.22, T:0.07
Consensus pattern (34 bp):
TCCACCCGAGACCCGACCCGAGAACAAGGGAACC
Found at i:143080 original size:34 final size:33
Alignment explanation
Indices: 143020--143099 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
143010 CTAAACCCAA
*
143020 ACCCGACCAGAATATCACACTTAAAAAAACCCG
1 ACCCGACCCGAATATCACACTTAAAAAAACCCG
*
143053 ATCCGACCCGAATATCACACTTAAAAAAACCCG
1 ACCCGACCCGAATATCACACTTAAAAAAACCCG
143086 ACCCGAACCCGAAT
1 ACCCG-ACCCGAAT
143100 TTTTTTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
33 35 0.81
34 8 0.19
ACGTcount: A:0.42, C:0.35, G:0.10, T:0.12
Consensus pattern (33 bp):
ACCCGACCCGAATATCACACTTAAAAAAACCCG
Found at i:145959 original size:20 final size:20
Alignment explanation
Indices: 145936--145977 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
145926 TTTATTTTAA
*
145936 TTCTATTCAATTTAGTCGTG
1 TTCTATTCAATTTAGTCCTG
145956 TTCTATTCAATTTAGTCCTG
1 TTCTATTCAATTTAGTCCTG
145976 TT
1 TT
145978 GCGGCTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (20 bp):
TTCTATTCAATTTAGTCCTG
Found at i:149707 original size:32 final size:31
Alignment explanation
Indices: 149651--149733 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 31
149641 GGTGTTAACG
** * **
149651 AGTTAAGGGCCAAATTATAGATCAAAGTCAA
1 AGTTAAGGGCCAAATTGCATATCAAAACCAA
149682 AGTTAAAGGGCCAAATTGCATATCAAAACCAA
1 AGTT-AAGGGCCAAATTGCATATCAAAACCAA
* *
149714 AGTTAGGGGCCATATTGCAT
1 AGTTAAGGGCCAAATTGCAT
149734 CTACTAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 18 0.41
32 26 0.59
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (31 bp):
AGTTAAGGGCCAAATTGCATATCAAAACCAA
Found at i:160510 original size:75 final size:75
Alignment explanation
Indices: 160425--160582 Score: 239
Period size: 75 Copynumber: 2.1 Consensus size: 75
160415 CGTTTTAGTT
* **
160425 TTGGG-TTTTTGTTTAAAGA-CCTCGTTTCTTCTTGAAATCTGAATTAGGGTTTTGGTTCCGTGG
1 TTGGGATTTTTGTTTAAAGAGACT-GTTTCTTCTTGAAATCTGAATTAGGGTTTTGGTTCCAAGG
160488 CTTGTTGGATG
65 CTTGTTGGATG
*
160499 TTGGGATTTTTGTTTAAAGAGACTGTTTCTTCTTGAAATCTGAATTAGGGTTTTGGTTTCAAGGC
1 TTGGGATTTTTGTTTAAAGAGACTGTTTCTTCTTGAAATCTGAATTAGGGTTTTGGTTCCAAGGC
*
160564 TTGTTGGTTG
66 TTGTTGGATG
*
160574 TTTGGATTT
1 TTGGGATTT
160583 AATGGATTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
74 5 0.07
75 69 0.91
76 2 0.03
ACGTcount: A:0.16, C:0.09, G:0.27, T:0.47
Consensus pattern (75 bp):
TTGGGATTTTTGTTTAAAGAGACTGTTTCTTCTTGAAATCTGAATTAGGGTTTTGGTTCCAAGGC
TTGTTGGATG
Found at i:165456 original size:28 final size:28
Alignment explanation
Indices: 165424--165505 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
165414 TAAATAAAAT
*
165424 TCGAGTTTGAGGTTTTGTATATGCGGTC
1 TCGAGTTTGAGGTCTTGTATATGCGGTC
* **
165452 TCGAGTTTGAGGTCTTGTATACGTAGTC
1 TCGAGTTTGAGGTCTTGTATATGCGGTC
165480 TCGAGTTTGAGGTCTTGTATATGCGG
1 TCGAGTTTGAGGTCTTGTATATGCGG
165506 AACATTCTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.16, C:0.12, G:0.32, T:0.40
Consensus pattern (28 bp):
TCGAGTTTGAGGTCTTGTATATGCGGTC
Found at i:165782 original size:2 final size:2
Alignment explanation
Indices: 165775--165845 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
165765 ATAACCATAG
165775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
165817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
165846 GTGATATACA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:179425 original size:6 final size:6
Alignment explanation
Indices: 179414--179443 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
179404 CCATTGTAAA
179414 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
179444 TAGGATCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CCTCTC
Found at i:182425 original size:22 final size:22
Alignment explanation
Indices: 182397--182448 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
182387 TTTATATAGT
182397 ACGAATTTGTCACATTGAGATG
1 ACGAATTTGTCACATTGAGATG
*
182419 ACGAATTTGTCACATTGAGGTG
1 ACGAATTTGTCACATTGAGATG
*
182441 ACAAATTT
1 ACGAATTT
182449 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (22 bp):
ACGAATTTGTCACATTGAGATG
Found at i:185261 original size:30 final size:30
Alignment explanation
Indices: 185208--185266 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
185198 AGAGAACCAG
* * ** *
185208 CGGTTCACACTGGTTTTGTCGGTTTTCAGT
1 CGGTTCACACCGATTTTACCGGTTCTCAGT
185238 CGGTTCACACCGATTTTACCGGTTCTCAG
1 CGGTTCACACCGATTTTACCGGTTCTCAG
185267 CTGGTTCTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (30 bp):
CGGTTCACACCGATTTTACCGGTTCTCAGT
Found at i:185273 original size:30 final size:30
Alignment explanation
Indices: 185205--185273 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
185195 AAAAGAGAAC
* * ** *
185205 CAGC-GGTTCACACTGGTTTTGTCGGTTTT
1 CAGCTGGTTCACACCGATTTTACCGGTTCT
185234 CAG-TCGGTTCACACCGATTTTACCGGTTCT
1 CAGCT-GGTTCACACCGATTTTACCGGTTCT
185264 CAGCTGGTTC
1 CAGCTGGTTC
185274 TACTGGTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 3 0.09
30 28 0.88
31 1 0.03
ACGTcount: A:0.13, C:0.26, G:0.25, T:0.36
Consensus pattern (30 bp):
CAGCTGGTTCACACCGATTTTACCGGTTCT
Found at i:190589 original size:4 final size:4
Alignment explanation
Indices: 190552--190582 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
190542 TATGTATATA
190552 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
190583 ATGTATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:194074 original size:22 final size:18
Alignment explanation
Indices: 194027--194073 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
194017 TGCACACACA
194027 CATACATACATGCATGCT
1 CATACATACATGCATGCT
194045 CATACATACATGCATGCT
1 CATACATACATGCATGCT
*
194063 CATGCATACAT
1 CATACATACAT
194074 ATAACTAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.28
Consensus pattern (18 bp):
CATACATACATGCATGCT
Found at i:194747 original size:4 final size:4
Alignment explanation
Indices: 194730--195002 Score: 226
Period size: 4 Copynumber: 68.8 Consensus size: 4
194720 TTATTAAAAT
* * * *
194730 GTAC GTAT GTAC GTAC GTAC GTAC GTAC GTAT GTAT GTAC GTAC ATAC
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC
* * * * * *
194778 GTAC GTAC GTAC GTA- -TAT GTAT GTAT GTAT GTAC GTAT GTAC GTAT
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC
* * * * * * *
194824 GTAC GTAC GTAT GTAT GTAC GTAT GTAT GTAT GTAC GTAC GTAT GTAT
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC
* * * * * *
194872 GTAT GTAC GTAC GTAT GTAT GTAT GTAC GTAC GTAT GTAT GTAC GTAC
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC
* * * * * * *
194920 GTAT GTAT GTAT GTAC GTAC GTAT GTAT GTAC GTAC GTAT GTAC GTAT
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC
* * * *
194968 GTAC GTAT GTAC GTAG GTAT GTAT GTAC GTAC GTA
1 GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTAC GTA
195003 TGTATGTATG
Statistics
Matches: 233, Mismatches: 34, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
2 2 0.01
4 231 0.99
ACGTcount: A:0.26, C:0.12, G:0.25, T:0.37
Consensus pattern (4 bp):
GTAC
Found at i:194751 original size:16 final size:16
Alignment explanation
Indices: 194728--195235 Score: 678
Period size: 16 Copynumber: 31.9 Consensus size: 16
194718 AATTATTAAA
* *
194728 ATGTACGTATGTACGT
1 ATGTATGTATGTATGT
* * * *
194744 ACGTACGTACGTACGT
1 ATGTATGTATGTATGT
* **
194760 ATGTATGTACGTACAT
1 ATGTATGTATGTATGT
* * * *
194776 ACGTACGTACGTACGT
1 ATGTATGTATGTATGT
194792 AT--ATGTATGTATGT
1 ATGTATGTATGTATGT
* *
194806 ATGTACGTATGTACGT
1 ATGTATGTATGTATGT
* *
194822 ATGTACGTACGTATGT
1 ATGTATGTATGTATGT
*
194838 ATGTACGTATGTATGT
1 ATGTATGTATGTATGT
* *
194854 ATGTACGTACGTATGT
1 ATGTATGTATGTATGT
* *
194870 ATGTATGTACGTACGT
1 ATGTATGTATGTATGT
*
194886 ATGTATGTATGTACGT
1 ATGTATGTATGTATGT
* *
194902 ACGTATGTATGTACGT
1 ATGTATGTATGTATGT
*
194918 ACGTATGTATGTATGT
1 ATGTATGTATGTATGT
* *
194934 ACGTACGTATGTATGT
1 ATGTATGTATGTATGT
* * *
194950 ACGTACGTATGTACGT
1 ATGTATGTATGTATGT
* *
194966 ATGTACGTATGTACGT
1 ATGTATGTATGTATGT
* *
194982 AGGTATGTATGTACGT
1 ATGTATGTATGTATGT
*
194998 ACGTATGTATGTATGT
1 ATGTATGTATGTATGT
195014 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195030 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195046 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195062 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195078 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195094 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195110 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195126 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195142 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195158 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195174 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195190 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195206 ATGTATGTATGTATGT
1 ATGTATGTATGTATGT
195222 ATGTATGTATGTAT
1 ATGTATGTATGTAT
195236 TTGTATTAAC
Statistics
Matches: 459, Mismatches: 31, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
14 11 0.02
16 448 0.98
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (16 bp):
ATGTATGTATGTATGT
Found at i:194755 original size:20 final size:20
Alignment explanation
Indices: 194728--195235 Score: 678
Period size: 20 Copynumber: 25.5 Consensus size: 20
194718 AATTATTAAA
* * *
194728 ATGTACGTATGTACGTACGT
1 ATGTATGTATGTATGTATGT
* * *
194748 ACGTACGTACGTATGTATGT
1 ATGTATGTATGTATGTATGT
* ** * * *
194768 ACGTACATACGTACGTACGT
1 ATGTATGTATGTATGTATGT
*
194788 ACGTAT--ATGTATGTATGT
1 ATGTATGTATGTATGTATGT
* *
194806 ATGTACGTATGTACGTATGT
1 ATGTATGTATGTATGTATGT
* * *
194826 ACGTACGTATGTATGTACGT
1 ATGTATGTATGTATGTATGT
* *
194846 ATGTATGTATGTACGTACGT
1 ATGTATGTATGTATGTATGT
* *
194866 ATGTATGTATGTACGTACGT
1 ATGTATGTATGTATGTATGT
* *
194886 ATGTATGTATGTACGTACGT
1 ATGTATGTATGTATGTATGT
* *
194906 ATGTATGTACGTACGTATGT
1 ATGTATGTATGTATGTATGT
* *
194926 ATGTATGTACGTACGTATGT
1 ATGTATGTATGTATGTATGT
* * *
194946 ATGTACGTACGTATGTACGT
1 ATGTATGTATGTATGTATGT
* * *
194966 ATGTACGTATGTACGTAGGT
1 ATGTATGTATGTATGTATGT
* *
194986 ATGTATGTACGTACGTATGT
1 ATGTATGTATGTATGTATGT
195006 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195026 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195046 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195066 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195086 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195106 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195126 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195146 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195166 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195186 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195206 ATGTATGTATGTATGTATGT
1 ATGTATGTATGTATGTATGT
195226 ATGTATGTAT
1 ATGTATGTAT
195236 TTGTATTAAC
Statistics
Matches: 453, Mismatches: 33, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
18 13 0.03
20 440 0.97
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (20 bp):
ATGTATGTATGTATGTATGT
Found at i:195007 original size:4 final size:4
Alignment explanation
Indices: 194793--195235 Score: 679
Period size: 4 Copynumber: 110.8 Consensus size: 4
194783 TACGTACGTA
* * * *
194793 TATG TATG TATG TATG TACG TATG TACG TATG TACG TACG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
194841 TACG TATG TATG TATG TACG TACG TATG TATG TATG TACG TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
194889 TATG TATG TACG TACG TATG TATG TACG TACG TATG TATG TATG TACG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
194937 TACG TATG TATG TACG TACG TATG TACG TATG TACG TATG TACG TAGG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
194985 TATG TATG TACG TACG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
195033 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
195081 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
195129 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
195177 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
195225 TATG TATG TAT
1 TATG TATG TAT
195236 TTGTATTAAC
Statistics
Matches: 410, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 410 1.00
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (4 bp):
TATG
Found at i:197908 original size:16 final size:16
Alignment explanation
Indices: 197887--197922 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
197877 AATTAGATTT
*
197887 AATTCAAAATTAAATG
1 AATTCAAAAGTAAATG
197903 AATTCAAAAGTAAATG
1 AATTCAAAAGTAAATG
197919 AATT
1 AATT
197923 AACTAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (16 bp):
AATTCAAAAGTAAATG
Found at i:198053 original size:42 final size:43
Alignment explanation
Indices: 198006--198105 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
197996 TAAATGTAGA
* * * *
198006 AATTGAGATTGAAAA-AAATATGGGCCTCACTTATAAAGGTAT
1 AATTGAGATCGAAAATAAATAGGGGCCTCAATTACAAAGGTAT
***
198048 AATTGAGATCGAAAATTCTTAGGGGCCTCAATTACAAAGGTAT
1 AATTGAGATCGAAAATAAATAGGGGCCTCAATTACAAAGGTAT
*
198091 AATTGAGATCAAAAA
1 AATTGAGATCGAAAA
198106 CTCTCTGACG
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 14 0.29
43 35 0.71
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (43 bp):
AATTGAGATCGAAAATAAATAGGGGCCTCAATTACAAAGGTAT
Found at i:205883 original size:2 final size:2
Alignment explanation
Indices: 205876--205906 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
205866 ATTGACAATC
205876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
205907 AAATTAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:205954 original size:57 final size:57
Alignment explanation
Indices: 205893--206000 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 57
205883 TATATATATA
*
205893 TATATATATATATAAAATTAGTTGACCCTATTACCATATGTAATAGGATAAAGGGAG
1 TATATATATATATAAAATTAGCTGACCCTATTACCATATGTAATAGGATAAAGGGAG
* * *
205950 TATATATATATATATAATTAGCTGACCCTATTCCCATATGTAATGGGATAA
1 TATATATATATATAAAATTAGCTGACCCTATTACCATATGTAATAGGATAA
206001 GAGGAGGTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (57 bp):
TATATATATATATAAAATTAGCTGACCCTATTACCATATGTAATAGGATAAAGGGAG
Found at i:206357 original size:25 final size:25
Alignment explanation
Indices: 206321--206369 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
206311 TTTGTGAATA
206321 ATATATTATCTTTTATCACTTTAAC
1 ATATATTATCTTTTATCACTTTAAC
206346 ATATA-TATTCTTTTATCACTTTAA
1 ATATATTA-TCTTTTATCACTTTAA
206370 TTTATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATATTATCTTTTATCACTTTAAC
Found at i:213186 original size:7 final size:7
Alignment explanation
Indices: 213176--213208 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
213166 TAATAAACTT
213176 TAAACCC
1 TAAACCC
*
213183 TAAATCC
1 TAAACCC
213190 TAAACCC
1 TAAACCC
213197 TAAACCC
1 TAAACCC
213204 TAAAC
1 TAAAC
213209 TGAGAATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:220669 original size:24 final size:24
Alignment explanation
Indices: 220632--220695 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 24
220622 CTCCACCTCT
220632 TTCAGTTCCTCTTCCTT-TCCTTCCTC
1 TTCA-TTCC-CTTCCTTCTCCTT-CTC
220658 TTC-TTCCACTTCCTTCTCCTTCTC
1 TTCATTCC-CTTCCTTCTCCTTCTC
220682 TTCATTCCCTTCCT
1 TTCATTCCCTTCCT
220696 CTTTCCCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
24 23 0.66
25 9 0.26
26 3 0.09
ACGTcount: A:0.05, C:0.44, G:0.02, T:0.50
Consensus pattern (24 bp):
TTCATTCCCTTCCTTCTCCTTCTC
Found at i:222429 original size:70 final size:66
Alignment explanation
Indices: 222315--222460 Score: 172
Period size: 70 Copynumber: 2.1 Consensus size: 66
222305 TATATTAGAA
*
222315 TATAATTTACAACATTTTTATATTTTAGTTTTTAATGGGAAAATAATTCTT-AATTTTAATTTAT
1 TATAATTTACAACATTTTTATATTTTAGTTTTTAAT-GGAAAATAATT-TTGAATTGT-ATTTAT
222379 TAAC
63 TAAC
*
222383 TATAATTTACAATATTTTTTTATATTTTAATGTTTATTAAT-G-AAATAATTTTGAATTGTATTT
1 TATAATTTACAACA--TTTTTATATTTT-A-GTTT-TTAATGGAAAATAATTTTGAATTGTATTT
*
222446 ATTAAT
61 ATTAAC
222452 TATAATTTA
1 TATAATTTA
222461 ATATTTATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
68 13 0.19
69 20 0.29
70 25 0.36
71 2 0.03
72 4 0.06
73 5 0.07
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.54
Consensus pattern (66 bp):
TATAATTTACAACATTTTTATATTTTAGTTTTTAATGGAAAATAATTTTGAATTGTATTTATTAA
C
Found at i:223470 original size:77 final size:77
Alignment explanation
Indices: 223327--223481 Score: 204
Period size: 77 Copynumber: 2.0 Consensus size: 77
223317 TACCATACTG
* * * * *
223327 TCGGATAGTATCTGAAAATTTAAAAATTAAAGAGTAAACTAAAAAAAACATTGTACTCCTTACGG
1 TCGGAAAGTATATGAAAAATTAAAAATTAAAGAGTAAACTAAAAAAAACAGTGTACTCCATACGG
223392 TGTATAAAACAT
66 TGTATAAAACAT
* ** * *
223404 TCGGAAAGTATATGAAAAATTAAAAATTAAAGAGTGAGA-TAAAAAACTCAGTGTGCTCCATGCG
1 TCGGAAAGTATATGAAAAATTAAAAATTAAAGAGT-AAACTAAAAAAAACAGTGTACTCCATACG
223468 GTGTATAAAACAT
65 GTGTATAAAACAT
223481 T
1 T
223482 TAGATAAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
77 65 0.97
78 2 0.03
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (77 bp):
TCGGAAAGTATATGAAAAATTAAAAATTAAAGAGTAAACTAAAAAAAACAGTGTACTCCATACGG
TGTATAAAACAT
Found at i:226628 original size:15 final size:17
Alignment explanation
Indices: 226594--226632 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
226584 TCAAAGTGGC
226594 GAAAATCGGAATAATTTA
1 GAAAATCGGAAT-ATTTA
226612 GAAAATC-GAAT-TTTA
1 GAAAATCGGAATATTTA
226627 GAAAAT
1 GAAAAT
226633 ATTTGAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.28
Consensus pattern (17 bp):
GAAAATCGGAATATTTA
Found at i:227443 original size:20 final size:20
Alignment explanation
Indices: 227415--227454 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
227405 TAAAGCACCC
* *
227415 AAAATCTAAGGATTAATTAA
1 AAAACCTAAGGACTAATTAA
227435 AAAACCTAAGGACTAATTAA
1 AAAACCTAAGGACTAATTAA
227455 TATTAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
AAAACCTAAGGACTAATTAA
Found at i:229340 original size:13 final size:13
Alignment explanation
Indices: 229322--229346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
229312 ACGGTCAACG
229322 GTCAACGGGTCGA
1 GTCAACGGGTCGA
229335 GTCAACGGGTCG
1 GTCAACGGGTCG
229347 GGTCGGGTCA
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:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:229350 original size:18 final size:18
Alignment explanation
Indices: 229327--229367 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
229317 CAACGGTCAA
229327 CGGGTCGAGTCAACGGGT
1 CGGGTCGAGTCAACGGGT
*
229345 CGGGTCGGGTCAACGGGT
1 CGGGTCGAGTCAACGGGT
229363 CGGGT
1 CGGGT
229368 AAACGGGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.22, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGAGTCAACGGGT
Found at i:229361 original size:13 final size:13
Alignment explanation
Indices: 229345--229375 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
229335 GTCAACGGGT
*
229345 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
229358 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
229371 CGGGT
1 CGGGT
229376 AAACGGTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:229401 original size:9 final size:10
Alignment explanation
Indices: 229387--229441 Score: 60
Period size: 9 Copynumber: 5.6 Consensus size: 10
229377 AACGGTCGTG
229387 ACCGGTC-AA
1 ACCGGTCAAA
229396 ACCGGTCAAA
1 ACCGGTCAAA
*
229406 ACTGGTTCAAA
1 ACCGG-TCAAA
*
229417 ACCGGT-TAA
1 ACCGGTCAAA
*
229426 ACCAGTCAAA
1 ACCGGTCAAA
229436 ACCGGT
1 ACCGGT
229442 TTCCAGCGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
9 14 0.38
10 14 0.38
11 9 0.24
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.16
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:229417 original size:11 final size:11
Alignment explanation
Indices: 229394--229442 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
229384 GTGACCGGTC
229394 AAACCGG-TCA
1 AAACCGGTTCA
*
229404 AAACTGGTTCA
1 AAACCGGTTCA
229415 AAACCGGTT--
1 AAACCGGTTCA
*
229424 AAACCAG-TCA
1 AAACCGGTTCA
229434 AAACCGGTT
1 AAACCGGTT
229443 TCCAGCGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
8 1 0.03
9 6 0.19
10 12 0.39
11 12 0.39
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (11 bp):
AAACCGGTTCA
Found at i:236532 original size:18 final size:18
Alignment explanation
Indices: 236509--236549 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
236499 CAACGGTCAA
236509 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
236527 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
236545 CGGGT
1 CGGGT
236550 AAACGGGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.10, C:0.22, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:236549 original size:13 final size:13
Alignment explanation
Indices: 236503--236532 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
236493 CACGGTCAAC
236503 GGTCAACGGGTCG
1 GGTCAACGGGTCG
236516 GGTCAACGGGTCG
1 GGTCAACGGGTCG
236529 GGTC
1 GGTC
236533 GGGTCAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:236554 original size:13 final size:13
Alignment explanation
Indices: 236527--236559 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
236517 GTCAACGGGT
*
236527 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
236540 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
236553 CGGGTCG
1 CGGGTCG
236560 TGACCGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.15
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:236569 original size:31 final size:31
Alignment explanation
Indices: 236502--236570 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
236492 GCACGGTCAA
* *
236502 CGGTCAACGGGTCGGGTCAACGGGTCGGGTC
1 CGGTCAACGGGTCGGGTAAACGGGTCGGGAC
* *
236533 GGGTCAACGGGTCGGGTAAACGGGTCGTGAC
1 CGGTCAACGGGTCGGGTAAACGGGTCGGGAC
236564 CGGTCAA
1 CGGTCAA
236571 ACCGGTCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.16
Consensus pattern (31 bp):
CGGTCAACGGGTCGGGTAAACGGGTCGGGAC
Found at i:236582 original size:10 final size:9
Alignment explanation
Indices: 236562--236615 Score: 72
Period size: 10 Copynumber: 5.7 Consensus size: 9
236552 ACGGGTCGTG
236562 ACCGGTCAA
1 ACCGGTCAA
236571 ACCGGTCAAA
1 ACCGGTC-AA
236581 ACCGGTTCAA
1 ACCGG-TCAA
*
236591 ACCGGTTAA
1 ACCGGTCAA
236600 ACCGGTCAAA
1 ACCGGTC-AA
236610 ACCGGT
1 ACCGGT
236616 TTTCCAACGT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
9 16 0.40
10 22 0.55
11 2 0.05
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:236616 original size:19 final size:18
Alignment explanation
Indices: 236562--236616 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
236552 ACGGGTCGTG
*
236562 ACCGGTCAAACCGGTCAAA
1 ACCGGTCAAACCGGT-TAA
236581 ACCGGTTCAAACCGGTTAA
1 ACCGG-TCAAACCGGTTAA
236600 ACCGGTCAAAACCGGTT
1 ACCGGTC-AAACCGGTT
236617 TTCCAACGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 2 0.06
19 21 0.64
20 10 0.30
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (18 bp):
ACCGGTCAAACCGGTTAA
Found at i:239673 original size:10 final size:10
Alignment explanation
Indices: 239620--239679 Score: 57
Period size: 10 Copynumber: 5.6 Consensus size: 10
239610 CACTTTTTTT
239620 AAAATAAATAAA
1 AAAATAAAT--A
*
239632 AAAATGCAATA
1 AAAAT-AAATA
239643 AAAATAAATTA
1 AAAATAAA-TA
239654 AAAATAAATA
1 AAAATAAATA
* *
239664 AAATTCAATA
1 AAAATAAATA
239674 AAAATA
1 AAAATA
239680 TAATGTAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
10 16 0.40
11 16 0.40
12 5 0.12
13 3 0.08
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.22
Consensus pattern (10 bp):
AAAATAAATA
Found at i:239673 original size:31 final size:32
Alignment explanation
Indices: 239625--239697 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
239615 TTTTTAAAAT
239625 AAATAAAAAAATGCAATAAAAATA-AAT-TAA
1 AAATAAAAAAATGCAATAAAAATATAATGTAA
*
239655 AAATAAATAAAATTCAATAAAAATATAATGTAA
1 AAATAAA-AAAATGCAATAAAAATATAATGTAA
**
239688 AGCTAAAAAA
1 AAATAAAAAA
239698 TATCACATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 7 0.19
31 16 0.43
32 6 0.16
33 8 0.22
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (32 bp):
AAATAAAAAAATGCAATAAAAATATAATGTAA
Found at i:240191 original size:211 final size:211
Alignment explanation
Indices: 239822--240242 Score: 682
Period size: 211 Copynumber: 2.0 Consensus size: 211
239812 ATAATTAGTG
* *
239822 AATAATAATTTATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTAGTCAAGTTTATGATTATT
1 AATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTACTCAAGTTTATGATTATT
* * *
239887 AAACACTCGTAGGTGTGGAAAGCTACAGGAATCGAATGAAAATTTGATCGTACAAAGTCAATAAC
66 AAACACTCGTAGGTGTGAAAAGCTACAGAAATCGAATGAAAATTCGATCGTACAAAGTCAATAAC
** * *
239952 TTAAAATTGTCTAACTGTTGTCTAAATATCAACTCAATTGTACCACGAATAAACTTCCGATCAAA
131 TTAAAATTGTCTAACTACTGTCTAAATATCAACTCAATTATACCACGAATAAACATCCGATCAAA
* *
240017 GAGTTTATCTTTTCTA
196 GAGTTGATATTTTCTA
*
240033 AATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTACTCAAAG-TTATGATTGT
1 AATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTACTC-AAGTTTATGATTAT
* *
240097 TAAACAGTCGTAGGTGTGAAAAGTTACAGAAATCGAATGAAAATTCGATCGTACAAAGTCAATAA
65 TAAACACTCGTAGGTGTGAAAAGCTACAGAAATCGAATGAAAATTCGATCGTACAAAGTCAATAA
* *
240162 CTTAAAATTGTCTAACTACTGTGTAAATATCAACTCAATTATACCACGAATAAACATCCGATCAT
130 CTTAAAATTGTCTAACTACTGTCTAAATATCAACTCAATTATACCACGAATAAACATCCGATCAA
240227 AGAGTTGATATTTTCT
195 AGAGTTGATATTTTCT
240243 GCTCAATCTT
Statistics
Matches: 193, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
211 190 0.98
212 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (211 bp):
AATAATAATTCATTTGATCCCTCAATTGTAATTAAAAGTTTATTTTACTCAAGTTTATGATTATT
AAACACTCGTAGGTGTGAAAAGCTACAGAAATCGAATGAAAATTCGATCGTACAAAGTCAATAAC
TTAAAATTGTCTAACTACTGTCTAAATATCAACTCAATTATACCACGAATAAACATCCGATCAAA
GAGTTGATATTTTCTA
Found at i:240467 original size:10 final size:10
Alignment explanation
Indices: 240419--240467 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
240409 CTTTACATTA
240419 TATTTTT-AT
1 TATTTTTAAT
*
240428 TGAATTTT-AT
1 T-ATTTTTAAT
240438 TCATTTTTAAT
1 T-ATTTTTAAT
240449 TATTTTTAAT
1 TATTTTTAAT
240459 TATTTTTAA
1 TATTTTTAA
240468 AAAATGAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
9 1 0.03
10 31 0.89
11 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TATTTTTAAT
Found at i:242416 original size:20 final size:20
Alignment explanation
Indices: 242391--242459 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
242381 AAGTCATTAA
242391 TATCGATACCCATAAGTTAG
1 TATCGATACCCATAAGTTAG
242411 TATCGATACCCATAAGTTAG
1 TATCGATACCCATAAGTTAG
* *
242431 TATCGATACCCAGAAGTCAG
1 TATCGATACCCATAAGTTAG
242451 TATCGATAC
1 TATCGATAC
242460 TGAGGGGCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (20 bp):
TATCGATACCCATAAGTTAG
Found at i:250319 original size:70 final size:69
Alignment explanation
Indices: 250238--250423 Score: 222
Period size: 70 Copynumber: 2.7 Consensus size: 69
250228 TATATATGTA
* * *
250238 ATTCAAATTTAAATAGATAATAAATATCTTTTAATCTAAAATATTGAAAAG-ATATATTTAACTT
1 ATTCAAATTTAAA-AGATAATAAATAT-TTTTAATTTAAAATATTTAAAAGAATATAATT-A-TT
250302 -T-TTAAT
62 CTATTAAT
*
250308 ATTCAAATTTAAAAAGATAATAAATATATTTTAATTTGAAATATTTAAAAGAATATAATTATTCT
1 ATTCAAATTT-AAAAGATAATAAATAT-TTTTAATTTAAAATATTTAAAAGAATATAATTATTCT
250373 ATTAAT
64 ATTAAT
* *
250379 ATT-AAAATTAAAA-A-CATAAATATTTTTAATTTAAAATATTTAAAA
1 ATTCAAATTTAAAAGATAATAAATATTTTTAATTTAAAATATTTAAAA
250424 ATTATATGAA
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
66 21 0.20
67 8 0.08
68 1 0.01
69 6 0.06
70 50 0.48
71 18 0.17
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (69 bp):
ATTCAAATTTAAAAGATAATAAATATTTTTAATTTAAAATATTTAAAAGAATATAATTATTCTAT
TAAT
Found at i:250340 original size:35 final size:35
Alignment explanation
Indices: 250238--250397 Score: 100
Period size: 35 Copynumber: 4.6 Consensus size: 35
250228 TATATATGTA
* *
250238 ATTCAAATTTAAATAGATAATAAATATCTTTTAAT
1 ATTCAAATTTAAAAAGATAATAAATATATTTTAAT
* * * **
250273 -CTAAAATATTGAAAAGAT-ATATTTA-ACTTTTTAAT
1 ATTCAAAT-TTAAAAAGATAATAAATATA--TTTTAAT
250308 ATTCAAATTTAAAAAGATAATAAATATATTTTAAT
1 ATTCAAATTTAAAAAGATAATAAATATATTTTAAT
* * *
250343 -TTGAAATATTTAAAAGA-ATATAATTAT-TCTATTAAT
1 ATTCAAAT-TTAAAAAGATA-ATAAATATAT-T-TTAAT
* *
250379 ATT-AAAATTAAAAACATAA
1 ATTCAAATTTAAAAAGATAA
250398 ATATTTTTAA
Statistics
Matches: 95, Mismatches: 18, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
34 18 0.19
35 55 0.58
36 19 0.20
37 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (35 bp):
ATTCAAATTTAAAAAGATAATAAATATATTTTAAT
Found at i:250413 original size:29 final size:29
Alignment explanation
Indices: 250326--250415 Score: 83
Period size: 34 Copynumber: 2.8 Consensus size: 29
250316 TTAAAAAGAT
250326 AATAAATATATTTTAATTTGAAATATTTAAAAG
1 AATAAATAT-TTTTAATTT-AAA-A-TTAAAAG
250359 AATATAATTATTCTATTAATATTAAAATTAAAA-
1 AATA-AA-TATT-T-TTAAT-TTAAAATTAAAAG
250392 ACATAAATATTTTTAATTTAAAAT
1 A-ATAAATATTTTTAATTTAAAAT
250416 ATTTAAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
29 7 0.14
30 5 0.10
31 1 0.02
32 4 0.08
33 7 0.14
34 12 0.24
35 5 0.10
36 8 0.16
37 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
AATAAATATTTTTAATTTAAAATTAAAAG
Found at i:255199 original size:90 final size:90
Alignment explanation
Indices: 255046--255225 Score: 342
Period size: 90 Copynumber: 2.0 Consensus size: 90
255036 CAGTTATTAT
255046 TGACAAACTGTTCAAAATCACCATGAAGAGACCAACTAGAAAGATACTTGAAGATTTTAGCTTTT
1 TGACAAACTGTTCAAAATCACCATGAAGAGACCAACTAGAAAGATACTTGAAGATTTTAGCTTTT
255111 CACTTGGTAGATGTTACGGAAAGGG
66 CACTTGGTAGATGTTACGGAAAGGG
* *
255136 TGACAAACTGTTCAAAATCACCATGAAGAGACCAATTAGAAAGATTCTTGAAGATTTTAGCTTTT
1 TGACAAACTGTTCAAAATCACCATGAAGAGACCAACTAGAAAGATACTTGAAGATTTTAGCTTTT
255201 CACTTGGTAGATGTTACGGAAAGGG
66 CACTTGGTAGATGTTACGGAAAGGG
255226 GTAAAAGAAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (90 bp):
TGACAAACTGTTCAAAATCACCATGAAGAGACCAACTAGAAAGATACTTGAAGATTTTAGCTTTT
CACTTGGTAGATGTTACGGAAAGGG
Found at i:256891 original size:54 final size:54
Alignment explanation
Indices: 256826--257407 Score: 675
Period size: 54 Copynumber: 10.9 Consensus size: 54
256816 TAATGCGTAT
* * * *** **
256826 ACGGTCATTCATAAAC-TCATTATGAATTATGTGGGTTGCACACAGAGTGCCGAA
1 ACGGTTATTCATAAACAT-ATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
*
256880 ACGGTTATTCATCAACATATGATGAATT-TCGTACTTTGCACACTTAGTGCCGAA
1 ACGGTTATTCATAAACATATGATGAATTCT-GTACTTTGCACACTTAGTGCCGAA
*
256934 ACGGTTATTCATCAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
1 ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
* *
256988 ACGGTTATTCATCAA-ATATGATGAATTCCGTACTTTGCACACTTAGTGCCGAA
1 ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
* * *
257041 ACGGTTATTCATCAACATATGATGAATTCCGTACTTTGCACACTTAGTGCCAAA
1 ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
* * * * *
257095 ATGGTTATTCATCAACATATGATGAATTCCGTTCTTTGCACACTTAGTGCCAAA
1 ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
* * * *
257149 ACGGTTATTCATCAACATACGATGAATTCCGTACTTTGCACACTTAGTTCCGAA
1 ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
* **
257203 ACGGTTATTCATCAACATATGACAAATT-TCGTACTTTGCACACTTAGTGCCGAA
1 ACGGTTATTCATAAACATATGATGAATTCT-GTACTTTGCACACTTAGTGCCGAA
* * * * *
257257 ATGGTTATTCATCAACATATGATGAATTCCGTACTTTGCACACTTAATGTCGAA
1 ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
* * ** * *
257311 ATGGTTATTCAT-AATATATGAT-AATTCCATATTTTG------TAGTGCCAAA
1 ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
* * * *
257357 ACGGTTATTCATCACCATATGATGAATTCCGTACTTTACACACTTAGTGCC
1 ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCC
257408 TATTTGGTAA
Statistics
Matches: 474, Mismatches: 40, Indels: 28
0.87 0.07 0.05
Matches are distributed among these distances:
46 18 0.04
47 8 0.02
48 11 0.02
52 12 0.03
53 62 0.13
54 361 0.76
55 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (54 bp):
ACGGTTATTCATAAACATATGATGAATTCTGTACTTTGCACACTTAGTGCCGAA
Done.