Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008197.1 Hibiscus syriacus cultivar Beakdansim tig00110816_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: 560007
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:2290 original size:198 final size:198
Alignment explanation
Indices: 1433--2828 Score: 2426
Period size: 198 Copynumber: 7.1 Consensus size: 198
1423 TTTAAATTAG
*
1433 TATCGACAC-AA--ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT-
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1494 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT--TTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * *
1557 CGACACGTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-GAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
1621 AAA
196 AAA
* *
1624 TATCGACACAAACTATATTCGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1688 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
1753 CGACAC-TTT-TATA-GGATCGACACTTTATGGGTGCACCTTGTTTTT-ATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
1814 AAA
196 AAA
1817 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCT-T-ATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1880 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1944 CGACACTTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG-AAAA
2008 AAAA
195 AAAA
2012 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2077 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2142 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2207 AAAA
195 AAAA
2211 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2275 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
2340 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGGAA
131 CGACAC--TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
2404 AAAAA
194 AAAAA
2409 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2473 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2538 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
2603 AAA
196 AAA
2606 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2670 ATTGTACCGGTTAGATTAAAAAATTA-ATA-TACATTATAC-TTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2731 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2796 AAAA
195 AAAA
*
2800 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
2829 TGACCCTTAA
Statistics
Matches: 1167, Mismatches: 17, Indels: 39
0.95 0.01 0.03
Matches are distributed among these distances:
191 25 0.02
192 87 0.07
193 138 0.12
194 196 0.17
195 68 0.06
196 80 0.07
197 170 0.15
198 253 0.22
199 101 0.09
200 49 0.04
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
AAA
Found at i:2577 original size:395 final size:394
Alignment explanation
Indices: 1433--2828 Score: 2436
Period size: 395 Copynumber: 3.6 Consensus size: 394
1423 TTTAAATTAG
*
1433 TATCGACAC-AA--ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT-
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1494 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTAT--TTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
* * *
1557 CGACACGTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-GAAA
130 CGACACTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
* *
1621 AAATATCGACACAAACTATATTCGTGTCGACACATTATTTAGACATATTCTCTCATAAACCGGTA
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAACCGGTA
1686 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
260 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* * *
1751 ATCGACAC-TTT-TATA-GGATCGACACTTTATGGGTGCACCTTGTTTTT-ATTCATTCTGGGAA
325 ATCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
1812 AAAAA
390 AAAAA
1817 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCT-T-ATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1880 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
*
1945 GACACTTTT-TATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAAA
131 GACACTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGG-AAAAA
2009 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAACCGGT
*
2074 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
259 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
2139 GATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGA
324 GATCGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGA
2204 AAAAAAA
388 AAAAAAA
2211 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2275 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
* *
2340 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGGAA
130 CGACAC--TTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAA
2404 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAACCGG
193 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAACCGG
2469 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
258 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
2534 GGATCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGA
323 GGATCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGA
2599 AAAAAAA
388 AAAAAAA
2606 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2670 ATTGTACCGGTTAGATTAAAAAATTA-ATA-TACATTATAC-TTTGGGTTCGATGATTTGGGATC
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
*
2732 GACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 GACAC-TTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAAA
*
2797 AAATATCGACACAAACTATATTAGTATCGACA
195 AAATATCGACACAAACTATATTAGTGTCGACA
2829 TGACCCTTAA
Statistics
Matches: 970, Mismatches: 20, Indels: 37
0.94 0.02 0.04
Matches are distributed among these distances:
384 9 0.01
385 15 0.02
386 86 0.09
387 50 0.05
388 72 0.07
389 81 0.08
390 36 0.04
391 68 0.07
392 18 0.02
393 40 0.04
394 80 0.08
395 208 0.21
396 97 0.10
397 60 0.06
398 20 0.02
399 30 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (394 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTGGGATC
GACACTTTTATATATGGATCGACACTTTATGGATGCACCTTGTTTTTAATTCATTCTGGAAAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:2935 original size:19 final size:19
Alignment explanation
Indices: 2908--2952 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2898 TATTCACATA
*
2908 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
2927 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
2946 AAAATTA
1 AAAATTA
2953 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:6933 original size:24 final size:24
Alignment explanation
Indices: 6896--6948 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6886 CCGTTCTATC
6896 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
6920 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
6944 TATTT
1 TATTT
6949 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:7285 original size:20 final size:20
Alignment explanation
Indices: 7258--7304 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
7248 ACACTTTTAA
7258 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
7277 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
7298 TTTTACC
1 TTTTACC
7305 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:7770 original size:228 final size:225
Alignment explanation
Indices: 7370--7816 Score: 777
Period size: 228 Copynumber: 2.0 Consensus size: 225
7360 TTAAAACTGC
*
7370 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTAATAGTGTTTTATGTTTTCCACCTACAATAT
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTAATAGTGTTTCATGTTTTCCACCTACAATAT
**
7435 TAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATT
66 TAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
* *
7500 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAG
131 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAAG
*
7565 TATGGACACTTTTATAAAAATGATATATACT
195 TATGGACACTTTTATAAAAAGGATATATACT
*
7596 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAA-TTTATTAATAGTGTTTCATGTTTTCCACCTACAAT
*
7661 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
64 ATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
7726 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAA
129 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAA
7791 GTATGGACACTTTTATAAAAAGGATA
194 GTATGGACACTTTTATAAAAAGGATA
7817 GATAATTTAC
Statistics
Matches: 209, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
226 4 0.02
227 61 0.29
228 144 0.69
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (225 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTAATAGTGTTTCATGTTTTCCACCTACAATAT
TAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAGT
ATGGACACTTTTATAAAAAGGATATATACT
Found at i:11951 original size:2 final size:2
Alignment explanation
Indices: 11944--11995 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
11934 ACAAACAATG
11944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11986 AT AT AT AT AT
1 AT AT AT AT AT
11996 TGAATGTGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12472 original size:36 final size:38
Alignment explanation
Indices: 12412--12485 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 38
12402 ATATTTCAAC
12412 AAACATCTACCAAACTTTGAAAAACCA-TTTTTCAAAG
1 AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAG
*
12449 AAACATTTACCAAACTTTG-AAAACCATTTTTTCAAAG
1 AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAG
12486 TTGGTTGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 7 0.20
37 28 0.80
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (38 bp):
AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAG
Found at i:14065 original size:519 final size:519
Alignment explanation
Indices: 13086--14127 Score: 2003
Period size: 519 Copynumber: 2.0 Consensus size: 519
13076 ATCTCCATCT
13086 TTGAAACAAAGTGCTTTGTTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCA
1 TTGAAACAAAGTGCTTTGTTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCA
*
13151 ATGTACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGCAATATCTGGTC
66 ATGTACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGAAATATCTGGTC
* *
13216 TGGTACATACCATGGCATACATCAGATTTCCAATTGTTGAGGCATACGACACCTTTACCATGTGT
131 TGGTACATACCATGGCATACATCAGACTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGT
13281 GCACGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGT
196 GCACGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGT
13346 ACTTACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTG
261 ACTTACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTG
13411 ATAACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTGTTTTGCAGCA
326 ATAACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTGTTTTGCAGCA
* * *
13476 CCCAGATCTTTTATAGCAAATTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTC
391 CCCAGATCCTTCATAGCAAACTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTC
*
13541 TGAGCCTGCAACAAGCATGTCATCAATGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTC
456 TGAGCCTGCAACAAGCATGTCATCAACGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTC
13605 TTGAAACAAAGTGCTTTGTTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCA
1 TTGAAACAAAGTGCTTTGTTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCA
13670 ATGTACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGAAATATCTGGTC
66 ATGTACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGAAATATCTGGTC
13735 TGGTACATACCATGGCATACATCAGACTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGT
131 TGGTACATACCATGGCATACATCAGACTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGT
13800 GCACGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGT
196 GCACGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGT
13865 ACTTACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTG
261 ACTTACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTG
13930 ATAACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTGTTTTGCAGCA
326 ATAACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTGTTTTGCAGCA
*
13995 CCCATATCCTTCATAGCAAACTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTC
391 CCCAGATCCTTCATAGCAAACTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTC
*
14060 TGAGCCTGCAACGAGCATGTCATCAACGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTC
456 TGAGCCTGCAACAAGCATGTCATCAACGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTC
14124 TTGA
1 TTGA
14128 TGTAGCAACA
Statistics
Matches: 514, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
519 514 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (519 bp):
TTGAAACAAAGTGCTTTGTTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCA
ATGTACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGAAATATCTGGTC
TGGTACATACCATGGCATACATCAGACTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGT
GCACGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGT
ACTTACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTG
ATAACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTGTTTTGCAGCA
CCCAGATCCTTCATAGCAAACTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTC
TGAGCCTGCAACAAGCATGTCATCAACGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTC
Found at i:16316 original size:15 final size:15
Alignment explanation
Indices: 16296--16327 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16286 AAAATATTTC
*
16296 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
16311 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
16326 TT
1 TT
16328 CGATCTGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:17608 original size:35 final size:35
Alignment explanation
Indices: 17529--17631 Score: 152
Period size: 35 Copynumber: 2.9 Consensus size: 35
17519 ATATTTCAAC
* * *
17529 AAACATCTACCAAACTTTGAAAAATCATTTTCCAAAG
1 AAACATTTACCAAACTTTG-AAAACCATTTT-TAAAG
*
17566 AAACATTTAGCAAACTTTGAAAACCATTTTTAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTTAAAG
17601 AAACATTTACCAAACTTTGAAAACCATTTTT
1 AAACATTTACCAAACTTTGAAAACCATTTTT
17632 TTCAAAGTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 34 0.56
36 10 0.16
37 17 0.28
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTTAAAG
Found at i:25165 original size:9 final size:9
Alignment explanation
Indices: 25151--25176 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
25141 ATATGATGAT
25151 GACTGCTCA
1 GACTGCTCA
25160 GACTGCTCA
1 GACTGCTCA
25169 GACTGCTC
1 GACTGCTC
25177 TAGAAGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (9 bp):
GACTGCTCA
Found at i:26094 original size:20 final size:20
Alignment explanation
Indices: 26066--26109 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
26056 CAAATTTGTA
*
26066 TTTTCGCAATGCGAATCCTC
1 TTTTAGCAATGCGAATCCTC
* *
26086 TTTTAGCAATGTGAATTCTC
1 TTTTAGCAATGCGAATCCTC
26106 TTTT
1 TTTT
26110 CCCTTATCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (20 bp):
TTTTAGCAATGCGAATCCTC
Found at i:33256 original size:2 final size:2
Alignment explanation
Indices: 33249--33302 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
33239 AGGATAAAAC
33249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33291 AT AT AT AT AT AT
1 AT AT AT AT AT AT
33303 CCATCTTAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33775 original size:26 final size:24
Alignment explanation
Indices: 33730--33778 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
33720 TTCTGATAAT
33730 TTAAAAAATATTTAAATAAAAAAC
1 TTAAAAAATATTTAAATAAAAAAC
**
33754 TTAAAAATATAATTTATTTAAAAAA
1 TTAAAAA-AT-ATTTAAATAAAAAA
33779 ATCTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 2 0.10
26 12 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAAAAAATATTTAAATAAAAAAC
Found at i:35671 original size:7 final size:7
Alignment explanation
Indices: 35659--35695 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
35649 AAACGACCGC
35659 GTTGCAA
1 GTTGCAA
35666 GTTGCAA
1 GTTGCAA
35673 GTTGCAA
1 GTTGCAA
35680 GTTGCAA
1 GTTGCAA
35687 GTTGCAA
1 GTTGCAA
35694 GT
1 GT
35696 CGAAGATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (7 bp):
GTTGCAA
Found at i:36191 original size:27 final size:28
Alignment explanation
Indices: 36136--36191 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
36126 AATGTGTTTT
*
36136 ATTTTTTGAAATGTTAAATATATATTTA
1 ATTTTTTGAAATGTTAAATACATATTTA
*
36164 ATTTTTTTAAAT-TTAAATACATATTTA
1 ATTTTTTGAAATGTTAAATACATATTTA
36191 A
1 A
36192 AGAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (28 bp):
ATTTTTTGAAATGTTAAATACATATTTA
Found at i:39531 original size:2 final size:2
Alignment explanation
Indices: 39524--39578 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
39514 TATGATATTT
39524 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
39566 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
39579 TCATAGGACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39692 original size:24 final size:24
Alignment explanation
Indices: 39619--39692 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
39609 TAAAGTGAAA
* *
39619 TAATTAAAAGAT-TAAAATTAAAG
1 TAATTAAAAAATATAAAACTAAAG
* * * *
39642 T-ATTGAAAAATATAAAGCAAAAA
1 TAATTAAAAAATATAAAACTAAAG
*
39665 TAATTAAAAAATAAAAAACTAAAG
1 TAATTAAAAAATATAAAACTAAAG
39689 TAAT
1 TAAT
39693 GAAATTAAAT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
22 8 0.21
23 9 0.24
24 21 0.55
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.26
Consensus pattern (24 bp):
TAATTAAAAAATATAAAACTAAAG
Found at i:39709 original size:14 final size:14
Alignment explanation
Indices: 39692--39718 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39682 ACTAAAGTAA
39692 TGAAATTAAATAAC
1 TGAAATTAAATAAC
39706 TGAAATTAAATAA
1 TGAAATTAAATAA
39719 ATAAAAAGTA
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:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
TGAAATTAAATAAC
Found at i:39770 original size:25 final size:26
Alignment explanation
Indices: 39717--39776 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
39707 GAAATTAAAT
* **
39717 AAATAAAAAGTAAATGACATAAATTA
1 AAATATAAAGTAAATGACATAAAACA
39743 AAATATAAAGTAAATGAC-TAAAACA
1 AAATATAAAGTAAATGACATAAAACA
*
39768 AAAGATAAA
1 AAATATAAA
39777 AATATAAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.20
Consensus pattern (26 bp):
AAATATAAAGTAAATGACATAAAACA
Found at i:39784 original size:33 final size:33
Alignment explanation
Indices: 39742--39807 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
39732 GACATAAATT
*
39742 AAAATATAAAGTAAATG-ACTAAAACAAAAGATA
1 AAAATATAAAGT-AACGAACTAAAACAAAAGATA
*
39775 AAAATATAAAGTAACGAACTAAAATAAAAGATA
1 AAAATATAAAGTAACGAACTAAAACAAAAGATA
39808 TCAGAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.18
Consensus pattern (33 bp):
AAAATATAAAGTAACGAACTAAAACAAAAGATA
Found at i:42245 original size:12 final size:12
Alignment explanation
Indices: 42228--42256 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
42218 TTGTTGTGCT
42228 TGCTCCTCGGGC
1 TGCTCCTCGGGC
42240 TGCTCCTCGGGC
1 TGCTCCTCGGGC
42252 TGCTC
1 TGCTC
42257 AGGCTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.41, G:0.31, T:0.28
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:43514 original size:23 final size:22
Alignment explanation
Indices: 43472--43518 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 22
43462 TAAAACACAA
43472 TAATTTGAAAATTAATTTTTTT
1 TAATTTGAAAATTAATTTTTTT
43494 TAATTTCGAAAATTTAATTTTTTT
1 TAATTT-GAAAA-TTAATTTTTTT
43518 T
1 T
43519 TGGAAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.26
23 5 0.22
24 12 0.52
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (22 bp):
TAATTTGAAAATTAATTTTTTT
Found at i:43925 original size:20 final size:21
Alignment explanation
Indices: 43887--43942 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
43877 AGAACCCCGG
*
43887 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
* **
43908 GGGGGGAATCGGTT-CCCTAA
1 GGGGGGAATCGATTCCCCTGT
*
43928 AGGGGGAATCGATTC
1 GGGGGGAATCGATTC
43943 TCTCTGCACC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.18, C:0.20, G:0.39, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:45464 original size:17 final size:18
Alignment explanation
Indices: 45444--45478 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
45434 AAACATGCAA
45444 ATGCTAGTAACA-TTCTT
1 ATGCTAGTAACACTTCTT
45461 ATGCTAGTAACACTTCTT
1 ATGCTAGTAACACTTCTT
45479 CCTAGCTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (18 bp):
ATGCTAGTAACACTTCTT
Found at i:50545 original size:45 final size:45
Alignment explanation
Indices: 50434--50787 Score: 521
Period size: 45 Copynumber: 7.8 Consensus size: 45
50424 TAAAATCTCC
* * ** *
50434 TTTGAAAATATCATGCACTTAAGGTTTTACATATGACCCGAAGGCTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--T
* * *
50481 TTTGAAAACATCCTGCACTGAAGGGCTTACAGATGACCCAAAGGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* * *
50526 TTTGAAAACATCATGCACTGAGGGGCTTATAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
50571 TTTGAAAACATCATGCACTGAGGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
50616 TTTGAAAACATCATGCACTGAAGGGCTTATAGATGAGCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
50661 TTTGAAAACATCATACACT-AAGGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAA-GGGCTTACAGATGACCCGAAGGT
50706 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
50751 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
50788 GCTGAGGCTT
Statistics
Matches: 282, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
44 2 0.01
45 241 0.85
46 2 0.01
47 37 0.13
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:50999 original size:74 final size:73
Alignment explanation
Indices: 50742--51018 Score: 468
Period size: 73 Copynumber: 3.8 Consensus size: 73
50732 TTACAGATGA
*
50742 CCCGAAGG--TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACGCTGAGGCTTTAAGATC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
50805 AAAAAGCT
66 AAAAAGCT
* * *
50813 CGCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATATATGACCCTGAGGCTTTAAGATC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
50878 AAAAAGCT
66 AAAAAGCT
*
50886 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATAGATGACCCTGAGGCTTTAAGATC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
50951 AAAAAAGCT
66 -AAAAAGCT
* *
50960 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATGACCCTGGGGCTTT
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT
51019 TTGAAAACAT
Statistics
Matches: 194, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
71 7 0.04
73 123 0.63
74 64 0.33
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (73 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
AAAAAGCT
Found at i:51017 original size:147 final size:144
Alignment explanation
Indices: 50742--51018 Score: 482
Period size: 147 Copynumber: 1.9 Consensus size: 144
50732 TTACAGATGA
*
50742 CCCGAAGGTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACGCTGAGGCTTTAAGATCAA
1 CCCGAAGGTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
* *
50807 AAAGCTCGCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATATATGACCCTGAGGCTTT
66 AAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATGACCCTGAGGCTTT
50872 AAGATCAAAAAGCT
131 AAGATCAAAAAGCT
*
50886 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATAGATGACCCTGAGGCTTTAAGATC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
*
50951 AAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATGACCCTGGGGC
64 -AAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATGACCCTGAGGC
51016 TTT
128 TTT
51019 TTGAAAACAT
Statistics
Matches: 125, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
144 8 0.06
146 53 0.42
147 64 0.51
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (144 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
AAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATGACCCTGAGGCTTT
AAGATCAAAAAGCT
Found at i:51035 original size:47 final size:47
Alignment explanation
Indices: 50965--51065 Score: 184
Period size: 47 Copynumber: 2.1 Consensus size: 47
50955 AAGCTCCCGA
*
50965 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATGACCCTG
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTG
*
51012 GGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTG
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTG
51059 AGGCTTT
1 AGGCTTT
51066 AAGATCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (47 bp):
AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTG
Found at i:51042 original size:194 final size:195
Alignment explanation
Indices: 50819--51207 Score: 647
Period size: 194 Copynumber: 2.0 Consensus size: 195
50809 AGCTCGCGAA
* *
50819 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTATATATGACCCTGAGGCTTTAAGATCAAAAAG
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
* * *
50884 CTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATAGATGACCCTGAGGCTTT-AAG
66 CTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGGCTTTAAAA
* * *
50948 A-TCAAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATGACCCTG
131 ACTC-AAAAAGCTCACGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTG
51012 G
195 G
51013 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
*
51078 CTCTCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGGCTTTAAAA
66 CTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGGCTTTAAAA
* *
51143 ACTTCAAAAAGCTCATGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTG
131 AC-TCAAAAAGCTCACGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTG
51208 AGAATTTAAG
Statistics
Matches: 181, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
194 121 0.67
195 3 0.02
196 55 0.30
197 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (195 bp):
GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
CTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGGCTTTAAAA
ACTCAAAAAGCTCACGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGG
Found at i:51132 original size:73 final size:73
Alignment explanation
Indices: 51013--51506 Score: 799
Period size: 73 Copynumber: 6.7 Consensus size: 73
51003 ATGACCCTGG
51013 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
*
51078 CTCTCGAA
66 CTCCCGAA
* *
51086 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGGCTTTAAAAACTTCAAA
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAGA--TCAAA
**
51151 AAGCTCATGAA
63 AAGCTCCCGAA
* * **
51162 GGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTGAGAATTTAAGATCAAAAAG
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
* *
51227 CTCCTGGA
66 CTCCCGAA
*
51235 GGCTTTTTGAAAACATCATGCATTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
51300 CTCCCGAA
66 CTCCCGAA
* * *
51308 GGTTTTTTAAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAC
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
51373 CTCCCGAA
66 CTCCCGAA
*
51381 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAAG
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
51446 CTCCCGAA
66 CTCCCGAA
* *
51454 GGCTTTTTGAAAACATCATGCACTGTAGGTTTTACAGATAACCCTGAGGCTTT
1 GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT
51507 TTGAAAACAT
Statistics
Matches: 389, Mismatches: 29, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
73 321 0.83
74 3 0.01
75 3 0.01
76 62 0.16
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (73 bp):
GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAG
CTCCCGAA
Found at i:51486 original size:26 final size:26
Alignment explanation
Indices: 51457--51530 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 26
51447 TCCCGAAGGC
51457 TTTTTGAAAACATCATGCACTGTAGG
1 TTTTTGAAAACATCATGCACTGTAGG
* * * *
51483 -TTTT--ACAGAT-A-ACCCTG-AGG
1 TTTTTGAAAACATCATGCACTGTAGG
51503 CTTTTTGAAAACATCATGCACTGTAGG
1 -TTTTTGAAAACATCATGCACTGTAGG
51530 T
1 T
51531 CTTACATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 14
0.60 0.15 0.25
Matches are distributed among these distances:
20 3 0.09
21 4 0.12
22 5 0.15
23 4 0.12
24 4 0.12
25 5 0.15
26 5 0.15
27 3 0.09
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (26 bp):
TTTTTGAAAACATCATGCACTGTAGG
Found at i:51522 original size:47 final size:47
Alignment explanation
Indices: 51453--51600 Score: 251
Period size: 47 Copynumber: 3.1 Consensus size: 47
51443 AAGCTCCCGA
*
51453 AGGCTTTTTGAAAACATCATGCACTGTAGGTTTTACAGATAACCCTG
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
*
51500 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCTG
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
* * *
51547 AGGCTTTTTGAAAACATCATACACTGTAGGTCTTATAGATGACCCTG
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
51594 AGGCTTT
1 AGGCTTT
51601 AAAAACTTCA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 95 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (47 bp):
AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
Found at i:51712 original size:389 final size:386
Alignment explanation
Indices: 51161--51881 Score: 1228
Period size: 389 Copynumber: 1.9 Consensus size: 386
51151 AAGCTCATGA
* * *
51161 AGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTGAGAATTTAAGATCAAAAA
1 AGGCTTTTTGAAAACATCATACACTGCAGGTCTTACAGATGACCCTGAGAATTTAAAATCAAAAA
* * * *
51226 GCTCCTGGAGGCTTTTTGAAAACATCATGCATTGTAGGTCTTACAGATGACCCTGAGGCTTTAAG
66 GCTCCTGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAG
*
51291 ATCAAAAAGCTCCCGAAGGTTTTTTAAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAG
51356 GCTTTAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
196 GCTTTAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
**
51421 ACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTTT
261 ACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCT
51486 TACAGATAACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCTG
326 TACAGATAACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCTG
* * **
51547 AGGCTTTTTGAAAACATCATACACTGTAGGTCTTATAGATGACCCTGAGGCTTTAAAAACTTCAA
1 AGGCTTTTTGAAAACATCATACACTGCAGGTCTTACAGATGACCCTGAGAATTT-AAAA--TCAA
*
51612 AAAGCT-CTCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTGAGGATT
63 AAAGCTCCT-GAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATT
* *
51676 TAAGATCAAAAAGCTCCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCC
127 TAAGATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCATGCACTGTAGGTCTTACAGATGACCC
*
51741 TGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACA
192 TGAGGCTTTAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACA
*
51806 GATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAG
257 GATGACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAG
51871 GGCTTACAGAT
322 GGCTTACAGAT
51882 GTTGGAAATA
Statistics
Matches: 312, Mismatches: 19, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
386 48 0.15
387 3 0.01
388 2 0.01
389 259 0.83
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (386 bp):
AGGCTTTTTGAAAACATCATACACTGCAGGTCTTACAGATGACCCTGAGAATTTAAAATCAAAAA
GCTCCTGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAG
ATCAAAAAGCTCCCGAAGGCTTTTTAAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAG
GCTTTAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
ACCCTGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCT
TACAGATAACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCTG
Found at i:51719 original size:73 final size:73
Alignment explanation
Indices: 51547--51882 Score: 564
Period size: 73 Copynumber: 4.6 Consensus size: 73
51537 TATAACCCTG
* * *
51547 AGGCTTTTTGAAAACATCATACACTGTAGGTCTTATAGATGACCCTGAGGCTTTAAAAACTTCAA
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAGA--TCAA
*
51612 AAAGCTCTCGA
63 AAAGCTCCCGA
* * *
51623 AGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAGATCAAAAA
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAA
*
51688 GCTCCCGG
66 GCTCCCGA
51696 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAA
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAA
51761 GCTCCCGA
66 GCTCCCGA
51769 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAA
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAA
51834 GCTCCCGA
66 GCTCCCGA
*
51842 AGGCTTTTTGAAAACATCATGCACTGTAGGGCTTACAGATG
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
51883 TTGGAAATAG
Statistics
Matches: 247, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
73 195 0.79
75 3 0.01
76 49 0.20
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (73 bp):
AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAA
GCTCCCGA
Found at i:51743 original size:243 final size:240
Alignment explanation
Indices: 51311--51882 Score: 756
Period size: 243 Copynumber: 2.5 Consensus size: 240
51301 TCCCGAAGGT
* *
51311 TTTTTAAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAACCTC
1 TTTTTAAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAACCTC
* *
51376 CCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCA
66 CCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAAATCA
*
51441 AAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTTTTACAGATAACCCTGAGGCTT
131 AAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGGCTT
51506 TTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCTGAGGC
196 TTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCTGAGGC
* * *
51551 TTTTTGAAAACATCATACACTGTAGGTCTTATAGATGACCCTGAGGCTTTAAAAACTTCAAAAAG
1 TTTTTAAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAAA--TCAAAAAC
* * *
51616 CTCTCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAGA
63 CTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAAA
* *
51681 TCAAAAAGCTCCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGG
128 TCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGG
* **
51746 C--TTT---AAGATCA---A----A------A-AGCT--CCC-GAAGGC
193 CTTTTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCTG-AGGC
* * * *
51773 TTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTC
1 TTTTTAAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAACCTC
* *
51838 CCGAAGGCTTTTTGAAAACATCATGCACTGTAGGGCTTACAGATG
66 CCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATG
51883 TTGGAAATAG
Statistics
Matches: 305, Mismatches: 23, Indels: 29
0.85 0.06 0.08
Matches are distributed among these distances:
219 52 0.17
221 4 0.01
222 55 0.18
224 2 0.01
225 1 0.00
231 1 0.00
235 1 0.00
238 6 0.02
240 47 0.15
241 6 0.02
243 130 0.43
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (240 bp):
TTTTTAAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAAACCTC
CCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAAATCA
AAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGGCTT
TTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCTGAGGC
Found at i:51807 original size:316 final size:313
Alignment explanation
Indices: 51233--51822 Score: 1018
Period size: 316 Copynumber: 1.9 Consensus size: 313
51223 AAAGCTCCTG
* * *
51233 GAGGCTTTTTGAAAACATCATGCATTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
1 GAGGCTTTTTGAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAA
* * *
51298 AGCTCCCGAAGGTTTTTTAAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAA
66 AGCTCCCGAAGGCTTTTTAAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAA
51363 GATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGA
131 GATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGA
*
51428 GGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTTTTACAGAT
196 GGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGAT
51493 AACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCT
261 AACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCT
*
51546 GAGGCTTTTTGAAAACATCATACACTGTAGGTCTTATAGATGACCCTGAGGCTTTAAAAACTTCA
1 GAGGCTTTTTGAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAAA--TCA
* * *
51611 AAAAGCTCTCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTGAGGATT
63 AAAAGCTCCCGAAGGCTTTTTAAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATT
* *
51676 TAAGATCAAAAAGCTCCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCC
128 TAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCC
*
51741 TGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACA
193 TGAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACA
*
51806 GATGACCCTGAGGCTTT
258 GATAACCCTGAGGCTTT
51823 AAGATCAAAA
Statistics
Matches: 259, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
313 52 0.20
314 3 0.01
316 204 0.79
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (313 bp):
GAGGCTTTTTGAAAACATCATACACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAATCAAAA
AGCTCCCGAAGGCTTTTTAAAAACATCATGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAA
GATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGA
GGCTTTAAAATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGAT
AACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACATATAACCCT
Found at i:56447 original size:35 final size:35
Alignment explanation
Indices: 56395--56467 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
56385 TCATAACTAA
*
56395 TTATGTGATAAGGTTTAAGGTTT-AGGATTTAGAGT
1 TTATGTGATAAGGTTTAAGGTTTAAAG-TTTAGAGT
56430 TTATGTGAT-AGGATTTAAGGTTTAAAGTTTAGAGT
1 TTATGTGATAAGG-TTTAAGGTTTAAAGTTTAGAGT
56465 TTA
1 TTA
56468 GGGTTTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
34 3 0.09
35 30 0.86
36 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (35 bp):
TTATGTGATAAGGTTTAAGGTTTAAAGTTTAGAGT
Found at i:56468 original size:42 final size:42
Alignment explanation
Indices: 56403--56490 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
56393 AATTATGTGA
* *
56403 TAAGGTTTAAGGTTTAGGATTTAGAGTTTATGTGATAGGATT
1 TAAGGTTTAAAGTTTAGGATTTAGAGTTTATATGATAGGATT
* * *
56445 TAAGGTTTAAAGTTTA-GAGTTTAGGGTTTATATGTTAGGGTT
1 TAAGGTTTAAAGTTTAGGA-TTTAGAGTTTATATGATAGGATT
56487 TAAG
1 TAAG
56491 TTATGCCATG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (42 bp):
TAAGGTTTAAAGTTTAGGATTTAGAGTTTATATGATAGGATT
Found at i:56789 original size:17 final size:17
Alignment explanation
Indices: 56767--56808 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
56757 ATTTGAGTTT
*
56767 GAGTTCGAGCTTTAATC
1 GAGTTCGAGCTTGAATC
56784 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
*
56801 GAGCTCGA
1 GAGTTCGA
56809 ATCGAGCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:56802 original size:11 final size:11
Alignment explanation
Indices: 56788--56839 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
56778 TTAATCGAGT
56788 TCGAGCTTGAA
1 TCGAGCTTGAA
*
56799 TCGAGCTCGAA
1 TCGAGCTTGAA
**
56810 TCGAGCTCAAAA
1 TCGAGCT-TGAA
*
56822 TCGAGCTTCAA
1 TCGAGCTTGAA
56833 TCGAGCT
1 TCGAGCT
56840 CGAGTCTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
11 26 0.74
12 9 0.26
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:56823 original size:23 final size:23
Alignment explanation
Indices: 56797--56864 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
56787 TTCGAGCTTG
56797 AATCGAGC-TCGAATCGAGCTCAA
1 AATCGAGCTTC-AATCGAGCTCAA
*
56820 AATCGAGCTTCAATCGAGCTCGAG
1 AATCGAGCTTCAATCGAGCTC-AA
** *
56844 TCTCGAGCTTCAATCAAGCTC
1 AATCGAGCTTCAATCGAGCTC
56865 TTGAATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
23 18 0.46
24 21 0.54
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (23 bp):
AATCGAGCTTCAATCGAGCTCAA
Found at i:63451 original size:2 final size:2
Alignment explanation
Indices: 63444--63474 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
63434 AAAATTAAAC
63444 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
63475 AGCATGATAT
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:63757 original size:14 final size:14
Alignment explanation
Indices: 63740--63766 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63730 ACTAAAGTAA
63740 TGAAATTAAATAAC
1 TGAAATTAAATAAC
63754 TGAAATTAAATAA
1 TGAAATTAAATAA
63767 ATAAAAAGTA
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:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
TGAAATTAAATAAC
Found at i:65173 original size:9 final size:9
Alignment explanation
Indices: 65161--65194 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
65151 TTAAAAAAAT
65161 ATTAAATAA
1 ATTAAATAA
65170 ATTAAAT-A
1 ATTAAATAA
*
65178 TTTAAATAA
1 ATTAAATAA
65187 ATTAAATA
1 ATTAAATA
65195 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
ATTAAATAA
Found at i:65184 original size:17 final size:16
Alignment explanation
Indices: 65157--65194 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
65147 ATAATTAAAA
65157 AAATATTAAATAAATT
1 AAATATTAAATAAATT
65173 AAATATTTAAATAAATT
1 AAATA-TTAAATAAATT
65190 AAATA
1 AAATA
65195 CAAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATTAAATAAATT
Found at i:86022 original size:27 final size:27
Alignment explanation
Indices: 85955--86080 Score: 171
Period size: 27 Copynumber: 4.4 Consensus size: 27
85945 CCTAAATCCG
85955 AACCCGACCCGAATATCACACTTAAAAAA
1 AACCCGACCCGAATATCACAC-T-AAAAA
*
85984 ACCTGACCCGACTCGAATATCACACTAAAAA
1 A----ACCCGACCCGAATATCACACTAAAAA
*
86015 AACCCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGAATATCACACTAAAAA
*
86042 AACCCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGAATATCACACTAAAAA
86069 AACCCGACCCGA
1 AACCCGACCCGA
86081 CCCAAACAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
27 63 0.70
29 1 0.01
31 6 0.07
32 1 0.01
33 19 0.21
ACGTcount: A:0.44, C:0.34, G:0.09, T:0.13
Consensus pattern (27 bp):
AACCCGACCCGAATATCACACTAAAAA
Found at i:86483 original size:25 final size:25
Alignment explanation
Indices: 86455--86506 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
86445 TTTCAACTCC
86455 CTCCAACAAGAGAATTAAATTTCAT
1 CTCCAACAAGAGAATTAAATTTCAT
*
86480 CTCCAACAAGGGAATTAAATTTCAT
1 CTCCAACAAGAGAATTAAATTTCAT
86505 CT
1 CT
86507 ATTATTGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (25 bp):
CTCCAACAAGAGAATTAAATTTCAT
Found at i:86870 original size:18 final size:18
Alignment explanation
Indices: 86847--86881 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
86837 AATTTTAAAA
86847 AATATTTTTTAATAATTT
1 AATATTTTTTAATAATTT
*
86865 AATATTTTTTTATAATT
1 AATATTTTTTAATAATT
86882 ATTTAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
AATATTTTTTAATAATTT
Found at i:95624 original size:4 final size:4
Alignment explanation
Indices: 95615--95647 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
95605 CAATCAGAAG
95615 AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA A
95648 GAAAAACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:97133 original size:25 final size:25
Alignment explanation
Indices: 97100--97156 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
97090 TTTTAGATTT
97100 AAAAA-AATTAT-A-TTTTTTTAAA
1 AAAAATAATTATAATTTTTTTTAAA
*
97122 ATAATAATAATTTTAATTTTTTTTAAA
1 A-AA-AATAATTATAATTTTTTTTAAA
97149 AAAAATAA
1 AAAAATAA
97157 ATTTTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 1 0.03
23 2 0.07
24 2 0.07
25 10 0.34
26 3 0.10
27 11 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAAATAATTATAATTTTTTTTAAA
Found at i:97135 original size:19 final size:19
Alignment explanation
Indices: 97097--97135 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
97087 TTTTTTTAGA
* *
97097 TTTAAAAAAATTATATTTT
1 TTTAAAAAAATAATAATTT
*
97116 TTTAAAATAATAATAATTT
1 TTTAAAAAAATAATAATTT
97135 T
1 T
97136 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAAAAAAATAATAATTT
Found at i:102001 original size:21 final size:21
Alignment explanation
Indices: 101977--102016 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
101967 CAATGGGATT
*
101977 AGGATTAGGAATT-GGATTTTC
1 AGGAATAGG-ATTAGGATTTTC
101998 AGGAATAGGATTAGGATTT
1 AGGAATAGGATTAGGATTT
102017 GGAGGTGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (21 bp):
AGGAATAGGATTAGGATTTTC
Found at i:102740 original size:20 final size:20
Alignment explanation
Indices: 102717--102794 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 20
102707 AGAACCCCAG
*
102717 GGGGGTATCGATTCCCCT-A
1 GGGGGAATCGATTCCCCTCA
*
102736 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATTCCCC-TC--A
*
102759 TGGGGAATCGATT-CCCTCA
1 GGGGGAATCGATTCCCCTCA
*
102778 TGGGGGTATCGATTCCC
1 -GGGGGAATCGATTCCC
102795 TCTGCACCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
19 16 0.34
20 12 0.26
21 4 0.09
22 3 0.06
23 12 0.26
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTCA
Found at i:102795 original size:20 final size:20
Alignment explanation
Indices: 102717--102796 Score: 67
Period size: 20 Copynumber: 3.9 Consensus size: 20
102707 AGAACCCCAG
*
102717 GGGGGTATCGATTCCC-C-T
1 GGGGGAATCGATTCCCTCAT
*
102735 AGGGGGAATCGGTTCCCCTTCAAAT
1 -GGGGGAATCGATT-CCC-TC--AT
102760 -GGGGAATCGATTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
102779 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
102797 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
19 13 0.26
20 19 0.38
21 2 0.04
22 4 0.08
23 11 0.22
25 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.30, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:104055 original size:31 final size:31
Alignment explanation
Indices: 104020--104239 Score: 386
Period size: 31 Copynumber: 7.1 Consensus size: 31
104010 GGTCACAATA
104020 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
104051 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
104082 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
104113 TAGACTGTTTATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
104144 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
104175 TAAACTATTTATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
104206 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
104237 TAA
1 TAA
104240 CCCTCGACTC
Statistics
Matches: 178, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 178 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:104857 original size:64 final size:64
Alignment explanation
Indices: 104749--104925 Score: 225
Period size: 64 Copynumber: 2.8 Consensus size: 64
104739 TAATGAAGGT
* * * ** * *
104749 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAAGGTATTCGATGTTGT-ATTATTACTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-GATTGCATTCGATGTT-TCACTATTACTGG
104812 G
64 G
* *
104813 ATGCATCGATGCACTCCTTATGCATCGATGCACTGATTGCATTCGATGTTTCACTATTAGTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACTGATTGCATTCGATGTTTCACTATTACTGGG
104877 ATGCATCGATGCACTACTTATGCATCGATGCAC-GAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACTG-ATTGCATTCGATGT
104926 CTTTATTTTA
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
63 2 0.02
64 97 0.97
65 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTGATTGCATTCGATGTTTCACTATTACTGGG
Found at i:104948 original size:64 final size:64
Alignment explanation
Indices: 104816--104973 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 64
104806 TACTGGGATG
* ** * *
104816 CATCGATGCACTCCTTATGCATCGATGCACTGATTGCATTCGATGTTTCACTATTAGTGGGATG
1 CATCGATGCACTACTTATGCATCGATGCACTGATTGCATTCGATGTTTCACTATTAAAGAGATA
* *
104880 CATCGATGCACTACTTATGCATCGATGCAC-GAATTGCATTCGATGTCTTTA-TTTTAAA-AGAG
1 CATCGATGCACTACTTATGCATCGATGCACTG-ATTGCATTCGATGT-TTCACTATTAAAGAGA-
104942 TA
63 TA
**
104944 CATCGATGCACTACCAATGCATCGATGCAC
1 CATCGATGCACTACTTATGCATCGATGCAC
104974 ATTCATACAA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 3 0.04
64 76 0.93
65 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (64 bp):
CATCGATGCACTACTTATGCATCGATGCACTGATTGCATTCGATGTTTCACTATTAAAGAGATA
Found at i:108050 original size:31 final size:31
Alignment explanation
Indices: 108015--108296 Score: 492
Period size: 31 Copynumber: 9.1 Consensus size: 31
108005 GGTCATAATA
108015 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
108046 TAAACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
108077 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* * *
108108 TAGACTGTTTATATGTGTCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
108139 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
108170 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
108201 TAATCTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
108232 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
108263 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
108294 TAA
1 TAA
108297 CCCTCGACTC
Statistics
Matches: 238, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 238 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:108947 original size:64 final size:63
Alignment explanation
Indices: 108811--109027 Score: 190
Period size: 64 Copynumber: 3.4 Consensus size: 63
108801 GAAGGTATAC
* ** ** * * * *
108811 ATCGATGCACTACTGATGCATCGGA-GCATAAAAGGTATTCGATGTTGTATTATTACTGGATGC
1 ATCGATGCACTACTTATGCATC-GATGCACGAATTGCATTCGATGTTGTACTATTAATGGATGA
* *
108874 ATCGATGCACTCCTTATGTATCGATGCACCG-ATTGCATTCGATGTT-TCACTATTAATGGGATG
1 ATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTTGT-ACTATTAAT-GGATG
108937 A
63 A
* * ** *
108938 ATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTCTTTA-TTTTAAAAGAGTGC
1 ATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-TGTACTATTAATGGA-TGA
**
109002 ATCGATGCACTACCAATGCATCGATG
1 ATCGATGCACTACTTATGCATCGATG
109028 AACATTCATA
Statistics
Matches: 127, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
62 3 0.02
63 45 0.35
64 76 0.60
65 2 0.02
66 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (63 bp):
ATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTGTACTATTAATGGATGA
Found at i:130338 original size:21 final size:21
Alignment explanation
Indices: 130278--130335 Score: 98
Period size: 21 Copynumber: 2.7 Consensus size: 21
130268 ACTATCGCAA
130278 TGCGATTTTCCAATTTCGCGT
1 TGCGATTTTCCAATTTCGCGT
*
130299 TGCGATTTTTCAATTTCGCGT
1 TGCGATTTTCCAATTTCGCGT
130320 TGCGATTTTCCCAATT
1 TGCGATTTT-CCAATT
130336 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
TGCGATTTTCCAATTTCGCGT
Found at i:130344 original size:21 final size:21
Alignment explanation
Indices: 130272--130345 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
130262 ATTATGACTA
130272 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
** *
130293 TCGCGTTGCGATTTTTCAATT
1 TCGCAATGCGATTTTCCAATT
**
130314 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
130335 TCGCAATGCGA
1 TCGCAATGCGA
130346 ATAAGTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 43 0.93
22 3 0.07
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:130400 original size:41 final size:41
Alignment explanation
Indices: 130355--130447 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
130345 AATAAGTAAA
*
130355 TCGCAATGCGATACTGAC-TA-TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGAT--TGACGTATTCGCAATGCAATTTTCATAAT
* * ** *
130396 TCGCATTGCGATTTACGTATTCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTGACGTATTCGCAATGCAATTTTCATAAT
130437 TCGCAATGCGA
1 TCGCAATGCGA
130448 ATACGTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.07
40 2 0.05
41 38 0.88
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (41 bp):
TCGCAATGCGATTGACGTATTCGCAATGCAATTTTCATAAT
Found at i:130409 original size:21 final size:21
Alignment explanation
Indices: 130272--130447 Score: 78
Period size: 21 Copynumber: 8.5 Consensus size: 21
130262 ATTATGACTA
*
130272 TCGCAATGCGATTTTCCA-ATT
1 TCGCAATGCGATTTT-CATAAT
** *
130293 TCGCGTTGCGATTTTTCA-ATT
1 TCGCAATGCGA-TTTTCATAAT
** **
130314 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCATAAT
* * *
130335 TCGCAATGCGA--ATAAGTAAA
1 TCGCAATGCGATTTTCA-TAAT
** *
130355 TCGCAATGCGATACTGACT-A-
1 TCGCAATGCGATTTTCA-TAAT
* *
130375 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
130396 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
130416 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
130437 TCGCAATGCGA
1 TCGCAATGCGA
130448 ATACGTAAAT
Statistics
Matches: 119, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.02
20 48 0.40
21 62 0.52
22 7 0.06
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:130465 original size:102 final size:103
Alignment explanation
Indices: 130252--130490 Score: 315
Period size: 102 Copynumber: 2.3 Consensus size: 103
130242 GTTTCCAGAT
* * * * *
130252 TCGCAACGCGATTATGACTATCGCAATGCGATTTTCCAATTTCGCGTTGCGATTTTTCAATTTCG
1 TCGCAATGCGAATCTGACTATCGCAATGCGATTTTCCAATTTCGCATTGCGATTTTACAATTTCG
*
130317 CGTTGCGATTTTCCCAATTCGCAATGCGAATAAGTAAA
66 CGTTGCGATTTTCACAATTCGCAATGCGAATAAGTAAA
* *
130355 TCGCAATGCG-ATACTGACTATCGCAATGCAATTTTCCTAA-TTCGCATTGCGA-TTTAC-GTAT
1 TCGCAATGCGAAT-CTGACTATCGCAATGCGATTTTCC-AATTTCGCATTGCGATTTTACAAT-T
* *
130416 TCGCGTTGCGATTTTCATAATTCGCAATGCGAATACGTAAA
63 TCGCGTTGCGATTTTCACAATTCGCAATGCGAATAAGTAAA
* *
130457 TCGTAATGCGAATCTTACTATCGCAATGCGATTT
1 TCGCAATGCGAATCTGACTATCGCAATGCGATTT
130491 ACATAGTGCC
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
101 1 0.01
102 72 0.61
103 44 0.37
104 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (103 bp):
TCGCAATGCGAATCTGACTATCGCAATGCGATTTTCCAATTTCGCATTGCGATTTTACAATTTCG
CGTTGCGATTTTCACAATTCGCAATGCGAATAAGTAAA
Found at i:131046 original size:19 final size:19
Alignment explanation
Indices: 131008--131074 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
130998 TTCGAGAATG
131008 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
131028 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
131047 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
131066 AAAATCGCA
1 AAAATCGCA
131075 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:131121 original size:33 final size:33
Alignment explanation
Indices: 131075--131204 Score: 206
Period size: 33 Copynumber: 3.9 Consensus size: 33
131065 CAAAATCGCA
**
131075 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
* **
131108 TTGTGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
131141 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
131174 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
131205 ATTATCTCGT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 77 0.84
34 15 0.16
ACGTcount: A:0.11, C:0.24, G:0.22, T:0.43
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:131144 original size:14 final size:14
Alignment explanation
Indices: 131092--131180 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
131082 TTTCATTTCG
131092 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
131106 CGTTGTGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
131125 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
131139 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
131158 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
131172 CGTTGCGAT
1 CGTTGCGAT
131181 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 29 0.49
16 5 0.08
17 5 0.08
19 20 0.34
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:131355 original size:32 final size:28
Alignment explanation
Indices: 131284--131357 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 28
131274 AACTACTATT
131284 TATGTTTATTGTTTTTGGTATATCTTGA
1 TATGTTTATTGTTTTTGGTATATCTTGA
* *
131312 CA-GTGTA--GTTTTTGGTATATCTAACTTGA
1 TATGTTTATTGTTTTTGGTATA--T--CTTGA
131341 TATGTTTATTGTTTTTG
1 TATGTTTATTGTTTTTG
131358 TAGAAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
25 12 0.34
27 5 0.14
28 1 0.03
29 6 0.17
30 4 0.11
32 7 0.20
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.57
Consensus pattern (28 bp):
TATGTTTATTGTTTTTGGTATATCTTGA
Found at i:133398 original size:21 final size:21
Alignment explanation
Indices: 133374--133440 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
133364 TCATTCCTCG
133374 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
133395 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
133416 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
133437 AGAG
1 AGAG
133441 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:133398 original size:42 final size:42
Alignment explanation
Indices: 133322--133440 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
133312 GACTCGCCTG
* * * * * * *
133322 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
133364 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
133406 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
133441 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:134968 original size:33 final size:33
Alignment explanation
Indices: 134923--135003 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
134913 AAAATGTACT
*
134923 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCACAACGAGAGA
134956 ATCGCAACGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCACAACGAGAGA
134989 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
135004 TAAATTCGCG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCACAACGAGAGA
Found at i:134982 original size:19 final size:19
Alignment explanation
Indices: 134931--134983 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
134921 CTATCGCAAT
134931 GCGAAATGAAAATCACAA-
1 GCGAAATGAAAATCACAAC
* *
134949 -CG--A-GAGAATCGCAAC
1 GCGAAATGAAAATCACAAC
134964 GCGAAATGAAAATCACAAC
1 GCGAAATGAAAATCACAAC
134983 G
1 G
134984 AGAGAATCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 9
0.67 0.10 0.23
Matches are distributed among these distances:
14 9 0.35
15 1 0.04
16 2 0.08
17 2 0.08
18 1 0.04
19 11 0.42
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (19 bp):
GCGAAATGAAAATCACAAC
Found at i:135054 original size:33 final size:32
Alignment explanation
Indices: 135012--135138 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
135002 ATTAAATTCG
135012 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* *
135045 CGTTGCGATTTTCATTTCGCATTGCAAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTGC--GATTCCT
* *
135078 CGTTACGATTTTCATTTCGTATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
135111 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
135139 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
31 3 0.04
33 76 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:135087 original size:66 final size:66
Alignment explanation
Indices: 135005--135135 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
134995 ACGCGAAATT
*
135005 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
135070 A
66 A
* *
135071 AAATTCGCGTTACGATTTTCATTTCGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
135136 GATAGTAATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.43
Consensus pattern (66 bp):
AAATTCGCGTTACGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
A
Found at i:137447 original size:12 final size:12
Alignment explanation
Indices: 137430--137454 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
137420 TCTTCGGGGA
137430 CTTTTTCTTCTT
1 CTTTTTCTTCTT
137442 CTTTTTCTTCTT
1 CTTTTTCTTCTT
137454 C
1 C
137455 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:138261 original size:12 final size:12
Alignment explanation
Indices: 138237--138270 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
138227 TGCCGGATGG
*
138237 GGAA-GGATGTA
1 GGAACGGATATA
138248 GGAACGGATATA
1 GGAACGGATATA
138260 GGAACGGATAT
1 GGAACGGATAT
138271 CGCCGGAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.38, C:0.06, G:0.38, T:0.18
Consensus pattern (12 bp):
GGAACGGATATA
Found at i:138492 original size:20 final size:21
Alignment explanation
Indices: 138467--138518 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
138457 TTTTCCTATT
*
138467 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
138487 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
138508 TCGCAATGCGA
1 TCGCAATGCGA
138519 TACTGATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:138592 original size:20 final size:20
Alignment explanation
Indices: 138503--138594 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
138493 TGCGAATTTG
* *
138503 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
138523 GATTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
138543 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
138564 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
138584 GAAAATCGCAA
1 GAAAATCGCAA
138595 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:138834 original size:20 final size:20
Alignment explanation
Indices: 138808--138890 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 20
138798 GCAACGGGGA
138808 AATCGCAACGCGAAAATGGC
1 AATCGCAACGCGAAAATGGC
* ** **
138828 TATCGCAATTCG-AAATGAAA
1 AATCGCAACGCGAAAATG-GC
138848 AATCGCAACGCGAAAATGGC
1 AATCGCAACGCGAAAATGGC
* ** *
138868 CATCGCAACTAGAAAATCGC
1 AATCGCAACGCGAAAATGGC
138888 AAT
1 AAT
138891 GCGAAATGAA
Statistics
Matches: 46, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
19 5 0.11
20 36 0.78
21 5 0.11
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (20 bp):
AATCGCAACGCGAAAATGGC
Found at i:140649 original size:20 final size:20
Alignment explanation
Indices: 140626--140672 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
140616 GAAACTTAAA
140626 ATCGCAACACAAAAATGACT
1 ATCGCAACACAAAAATGACT
* ** *
140646 ATCGCAACGCGGAAATGGCT
1 ATCGCAACACAAAAATGACT
140666 ATCGCAA
1 ATCGCAA
140673 TGCGAAATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.15
Consensus pattern (20 bp):
ATCGCAACACAAAAATGACT
Found at i:140681 original size:19 final size:20
Alignment explanation
Indices: 140638--140681 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
140628 CGCAACACAA
140638 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
140658 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
140677 AAATG
1 AAATG
140682 CAAATCGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:140688 original size:19 final size:18
Alignment explanation
Indices: 140666--140756 Score: 81
Period size: 14 Copynumber: 5.4 Consensus size: 18
140656 GGAAATGGCT
140666 ATCGCAATGCGAAATGCAA
1 ATCGCAATGCGAAATG-AA
*
140685 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
140699 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
140718 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
*
140732 ATCCCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
140750 ATCGCAA
1 ATCGCAA
140757 CGACAAAATC
Statistics
Matches: 57, Mismatches: 6, Indels: 19
0.70 0.07 0.23
Matches are distributed among these distances:
14 17 0.30
16 8 0.14
17 8 0.14
18 8 0.14
19 16 0.28
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:140702 original size:14 final size:14
Alignment explanation
Indices: 140683--140772 Score: 72
Period size: 14 Copynumber: 5.8 Consensus size: 14
140673 TGCGAAATGC
140683 AAATCGCAACGACA
1 AAATCGCAACGACA
*
140697 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG--A-CA
140716 AAATCGCAACGACA
1 AAATCGCAACGACA
* *
140730 AAATCCCAATGCGAAA
1 AAATCGCAA--CGACA
140746 TGAAATCGCAACGACA
1 --AAATCGCAACGACA
140762 AAATCGCAACG
1 AAATCGCAACG
140773 CGAAACACAA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 29 0.48
15 1 0.02
16 10 0.16
17 2 0.03
18 9 0.15
19 10 0.16
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:140708 original size:33 final size:33
Alignment explanation
Indices: 140666--140788 Score: 194
Period size: 33 Copynumber: 3.8 Consensus size: 33
140656 GGAAATGGCT
140666 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
*
140699 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
*
140732 ATCCCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGCAAATCGCAACGACAAA
* **
140764 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATGCAAATCGCA
140789 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 28 0.34
33 55 0.66
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGCAAATCGCAACGACAAA
Found at i:140806 original size:19 final size:19
Alignment explanation
Indices: 140784--140847 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
140774 GAAACACAAA
140784 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
140803 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
140819 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
140836 TCGCATTGCGAT
1 TCGCATTGCGAT
140848 AGCCATTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 18 0.47
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:140883 original size:20 final size:20
Alignment explanation
Indices: 140832--140875 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
140822 TTGCGATTTT
* *
140832 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGAGATAGC
*
140851 CATTTCCGCGTTGAGATAGT
1 CATTTCCGCGTTGAGATAGC
140871 CATTT
1 CATTT
140876 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGAGATAGC
Found at i:141388 original size:18 final size:18
Alignment explanation
Indices: 141362--141406 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
141352 GTCGATCAGA
*
141362 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
141380 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
141398 TGATGGCTC
1 TGATGGCTC
141407 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:154981 original size:6 final size:6
Alignment explanation
Indices: 154970--155012 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
154960 ACGGCTCAGC
* * * *
154970 TCGTGG TCGTGG TCATGG TCGTAG TCGTAG TCATGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
155013 AATATGTGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.09, C:0.16, G:0.40, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:154996 original size:18 final size:18
Alignment explanation
Indices: 154970--155009 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
154960 ACGGCTCAGC
* *
154970 TCGTGGTCGTGGTCATGG
1 TCGTAGTCGTAGTCATGG
154988 TCGTAGTCGTAGTCATGG
1 TCGTAGTCGTAGTCATGG
155006 TCGT
1 TCGT
155010 GGTAATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.17, G:0.38, T:0.35
Consensus pattern (18 bp):
TCGTAGTCGTAGTCATGG
Found at i:160879 original size:6 final size:6
Alignment explanation
Indices: 160868--160892 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
160858 TCGGCTCGGC
160868 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
160893 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:164623 original size:2 final size:2
Alignment explanation
Indices: 164616--164640 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
164606 AAGGTTGTTG
164616 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 A
164641 CATTCGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:171746 original size:13 final size:13
Alignment explanation
Indices: 171728--171755 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
171718 ACTTTTGTTG
171728 GGTAACAATTGGT
1 GGTAACAATTGGT
171741 GGTAACAATTGGT
1 GGTAACAATTGGT
171754 GG
1 GG
171756 ATTGATTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (13 bp):
GGTAACAATTGGT
Found at i:176565 original size:22 final size:21
Alignment explanation
Indices: 176530--176570 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
176520 AAGTTTTTCT
*
176530 ATTACAAAGTAATTTATTAAGC
1 ATTACAAAG-AAATTATTAAGC
*
176552 ATTACAAGGAAATTATTAA
1 ATTACAAAGAAATTATTAA
176571 TGTTTTAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (21 bp):
ATTACAAAGAAATTATTAAGC
Found at i:182158 original size:20 final size:20
Alignment explanation
Indices: 182121--182159 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
182111 AGATTGAGTG
* * *
182121 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
182141 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
182160 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:182370 original size:23 final size:21
Alignment explanation
Indices: 182340--182398 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
182330 TTCCCCTGTG
182340 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
*
182363 GGGGGAATCAGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
* *
182383 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
182399 TCTGCACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 3 0.10
23 12 0.39
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:182387 original size:21 final size:23
Alignment explanation
Indices: 182339--182389 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
182329 ATTCCCCTGT
*
182339 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCAGTTCCCCTTCAA
*
182362 AGGGGGAATCAGTT-CCC-TCAA
1 GGGGGGAATCAGTTCCCCTTCAA
182383 GGGGGGA
1 GGGGGGA
182390 TCGATTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.40
22 3 0.12
23 12 0.48
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCAGTTCCCCTTCAA
Found at i:191915 original size:48 final size:48
Alignment explanation
Indices: 191844--191944 Score: 193
Period size: 48 Copynumber: 2.1 Consensus size: 48
191834 ATTAAAGAAT
191844 CAATTCAGTCTTGGTCACAAAATAGGCTCATAGAGCAATAGCATATCC
1 CAATTCAGTCTTGGTCACAAAATAGGCTCATAGAGCAATAGCATATCC
*
191892 CAATTCAGTCTTGGTCACAAAATAGGCTCATAGAGCATTAGCATATCC
1 CAATTCAGTCTTGGTCACAAAATAGGCTCATAGAGCAATAGCATATCC
191940 CAATT
1 CAATT
191945 TCATTACTAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (48 bp):
CAATTCAGTCTTGGTCACAAAATAGGCTCATAGAGCAATAGCATATCC
Found at i:201784 original size:56 final size:57
Alignment explanation
Indices: 201670--201784 Score: 223
Period size: 56 Copynumber: 2.0 Consensus size: 57
201660 AGTATGTATG
201670 TATATATATATAGGGTAAAGAGTTGAATCCCACAGAGGGCCAGCTCATTGTTGGTCT
1 TATATATATATAGGGTAAAGAGTTGAATCCCACAGAGGGCCAGCTCATTGTTGGTCT
201727 TATATATATATAGGGTAAAGAGTTGAAT-CCACAGAGGGCCAGCTCATTGTTGGTCT
1 TATATATATATAGGGTAAAGAGTTGAATCCCACAGAGGGCCAGCTCATTGTTGGTCT
201783 TA
1 TA
201785 AGTACTTATT
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 30 0.52
57 28 0.48
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (57 bp):
TATATATATATAGGGTAAAGAGTTGAATCCCACAGAGGGCCAGCTCATTGTTGGTCT
Found at i:213643 original size:3 final size:3
Alignment explanation
Indices: 213635--213716 Score: 64
Period size: 3 Copynumber: 28.0 Consensus size: 3
213625 TTTTACTTAA
** *
213635 ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT AAAT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
* * *
213680 ATT -GT ATGT ATT A-T ATT ATT ATT A-A ATA ATT ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
213717 TACAAACAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
2 6 0.10
3 52 0.83
4 5 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:213675 original size:22 final size:22
Alignment explanation
Indices: 213635--213716 Score: 88
Period size: 21 Copynumber: 4.0 Consensus size: 22
213625 TTTTACTTAA
213635 ATTATTATTAAA-ATTATTATT
1 ATTATTATTAAATATTATTATT
213656 ATTATTATTAAATATTATTATT
1 ATTATTATTAAATATTATTATT
* *
213678 A-TATT-GT--AT-GTATTA-T
1 ATTATTATTAAATATTATTATT
213694 ATTATTATTAAATAATTATTATT
1 ATTATTATTAAAT-ATTATTATT
213717 TACAAACAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
16 2 0.04
17 9 0.18
18 3 0.06
20 3 0.06
21 16 0.33
22 15 0.31
23 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTATTATTAAATATTATTATT
Found at i:213771 original size:26 final size:26
Alignment explanation
Indices: 213734--213803 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
213724 AGGCCCAATG
*
213734 AAAACTGGACCGGCCCAGTTACAAAC
1 AAAACTGAACCGGCCCAGTTACAAAC
213760 AAAACTGAACCGGCCCAGTTACAAAC
1 AAAACTGAACCGGCCCAGTTACAAAC
*
213786 AAAACTGAATCGGCCCAG
1 AAAACTGAACCGGCCCAG
213804 ACCAACCAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.40, C:0.30, G:0.19, T:0.11
Consensus pattern (26 bp):
AAAACTGAACCGGCCCAGTTACAAAC
Found at i:221154 original size:21 final size:21
Alignment explanation
Indices: 221097--221158 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
221087 TGTTGACGTG
* *
221097 ATAATGTGATAATTCACAGTA
1 ATAATGTGACAATTCACAATA
* * * *
221118 ATAATATAACAGTTCATAATA
1 ATAATGTGACAATTCACAATA
*
221139 TTAATGTGACAATTCACAAT
1 ATAATGTGACAATTCACAAT
221159 GATTGGTGAT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (21 bp):
ATAATGTGACAATTCACAATA
Found at i:222336 original size:20 final size:20
Alignment explanation
Indices: 222308--222364 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
222298 AATAACCAAT
222308 AAATTCGCAACGCGAATTCC
1 AAATTCGCAACGCGAATTCC
* **
222328 AATTTCGCAATAC-AATTTCC
1 AAATTCGCAACGCGAA-TTCC
*
222348 AAATACGCAACGCGAAT
1 AAATTCGCAACGCGAAT
222365 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (20 bp):
AAATTCGCAACGCGAATTCC
Found at i:222456 original size:20 final size:20
Alignment explanation
Indices: 222431--222479 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
222421 TCAGTAATTA
*
222431 GCGTTGTGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
222451 GCGTTGCGAATTTGAAAATC
1 GCGTTGCGAATTTGAAAATC
222471 GCGTTGCGA
1 GCGTTGCGA
222480 TAGTACTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (20 bp):
GCGTTGCGAATTTGAAAATC
Found at i:222515 original size:37 final size:37
Alignment explanation
Indices: 222473--222543 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
222463 TGAAAATCGC
222473 GTTGCGATAGTACTGTTTGCC-TATATCGGTAATTCGT
1 GTTGCGATAGTACTGTTT-CCTTATATCGGTAATTCGT
*
222510 GTTGCGATAGTACTGTTTCCTTATGTCGGTAATT
1 GTTGCGATAGTACTGTTTCCTTATATCGGTAATT
222544 AAGTTAGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 2 0.06
37 30 0.94
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.42
Consensus pattern (37 bp):
GTTGCGATAGTACTGTTTCCTTATATCGGTAATTCGT
Found at i:222668 original size:57 final size:57
Alignment explanation
Indices: 222580--222907 Score: 485
Period size: 57 Copynumber: 5.8 Consensus size: 57
222570 TGCGAAATTT
** * *
222580 GCGTTGCGATAGTTGTGTTTACCTATATCGGTAATTAACGTTGTGAATTTGAAAATC
1 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATC
* *
222637 GCGTTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTACGAATTTGAAAATC
1 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATC
* *
222694 GCGATGCGGTAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATC
1 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATC
* * * * *
222751 GAGTTGCGGTAGTATTGTTTACCTATATAGATAATTAGCGTTGCGAATTTGAAAATC
1 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATC
* ** *
222808 TCGTTGCGATAGTACTGTTTACCTATATCAATAACTAGCGTTGCGAATTTGAAAATC
1 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATC
* *
222865 TCGTTGCAATAGTACTGTTTACCTATATCGGTAATTAGCGTTG
1 GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTG
222908 TGATTTACAT
Statistics
Matches: 246, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 246 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (57 bp):
GCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATC
Found at i:224142 original size:16 final size:17
Alignment explanation
Indices: 224106--224147 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
224096 TCGTCCCTGT
*
224106 TAAAATTTTTATATTTGA
1 TAAAA-TTTTATATTTAA
224124 TAAAATTTTA-ATTTAA
1 TAAAATTTTATATTTAA
*
224140 TAATATTT
1 TAAAATTT
224148 GGTTCGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 12 0.55
17 5 0.23
18 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TAAAATTTTATATTTAA
Found at i:225095 original size:22 final size:22
Alignment explanation
Indices: 225070--225136 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
225060 AATAAGTATT
225070 TTTATTTTAATTATTAAAATCG
1 TTTATTTTAATTATTAAAATCG
*** * *
225092 TTTATAAAAATAATT---AT-T
1 TTTATTTTAATTATTAAAATCG
225110 TTTATTTTAATTATTAAAATCG
1 TTTATTTTAATTATTAAAATCG
225132 TTTAT
1 TTTAT
225137 AAAAATAAGT
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
18 11 0.35
19 2 0.06
21 2 0.06
22 16 0.52
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
TTTATTTTAATTATTAAAATCG
Found at i:225097 original size:40 final size:40
Alignment explanation
Indices: 225052--225173 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
225042 CAAAAACTTA
225052 TTTATAAAAATAAGTATTTTTATTTTAATTATTAAAATCG
1 TTTATAAAAATAAGTATTTTTATTTTAATTATTAAAATCG
*
225092 TTTATAAAAATAATTATTTTTATTTTAATTATTAAAATCG
1 TTTATAAAAATAAGTATTTTTATTTTAATTATTAAAATCG
225132 TTTATAAAAATAAGTATTTTTATTTTAATTATTAAAATCG
1 TTTATAAAAATAAGTATTTTTATTTTAATTATTAAAATCG
225172 TT
1 TT
225174 AAATGTTAAG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (40 bp):
TTTATAAAAATAAGTATTTTTATTTTAATTATTAAAATCG
Found at i:228670 original size:16 final size:16
Alignment explanation
Indices: 228649--228683 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
228639 TTGCTTTTAA
228649 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
228665 ATTTATTTATAATATT
1 ATTTATTTATAATATT
228681 ATT
1 ATT
228684 GTTTTATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:228716 original size:25 final size:25
Alignment explanation
Indices: 228670--228717 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
228660 ATATTATTTA
*
228670 TTTATAATATTATTGTTTTATTACT
1 TTTATAATATTATTGTTATATTACT
*
228695 TTTATATTATTATT-TTCATATTA
1 TTTATAATATTATTGTT-ATATTA
228718 GTCACATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTATAATATTATTGTTATATTACT
Found at i:228876 original size:33 final size:33
Alignment explanation
Indices: 228839--228907 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
228829 TTTTAAATAA
228839 TTAAA-TATTATAAA-AATAATAATTTAGTTTTAT
1 TTAAATTATT-TAAATAATAAT-ATTTAGTTTTAT
** *
228872 TTAAATTATTTAAATTTTAATATTTATTTTTAT
1 TTAAATTATTTAAATAATAATATTTAGTTTTAT
228905 TTA
1 TTA
228908 TTAATATCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 23 0.74
34 8 0.26
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (33 bp):
TTAAATTATTTAAATAATAATATTTAGTTTTAT
Found at i:229003 original size:21 final size:22
Alignment explanation
Indices: 228970--229013 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
228960 ATTTTTGAAT
228970 AAATAAATATTTTACTATATTA
1 AAATAAATATTTTACTATATTA
* *
228992 AAATAAAT-TTTTATTATCTTA
1 AAATAAATATTTTACTATATTA
229013 A
1 A
229014 GAAAATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAAATATTTTACTATATTA
Found at i:229136 original size:38 final size:38
Alignment explanation
Indices: 229085--229159 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
229075 CTAAAAGTCA
229085 TTTTCTGATATTTCTAAATAAATAAATATTTTTATAAC
1 TTTTCTGATATTTCTAAATAAATAAATATTTTTATAAC
229123 TTTTCTGATATTTCTAAATAAATAAATATTTTTATAA
1 TTTTCTGATATTTCTAAATAAATAAATATTTTTATAA
229160 ATATATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.51
Consensus pattern (38 bp):
TTTTCTGATATTTCTAAATAAATAAATATTTTTATAAC
Found at i:229941 original size:15 final size:15
Alignment explanation
Indices: 229923--229958 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
229913 AGCCTTGAGG
229923 TGGATAACCAGCTGA
1 TGGATAACCAGCTGA
*
229938 TGGATAACCAGCTGG
1 TGGATAACCAGCTGA
229953 TGGATA
1 TGGATA
229959 GCCTTGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.22
Consensus pattern (15 bp):
TGGATAACCAGCTGA
Found at i:230038 original size:18 final size:18
Alignment explanation
Indices: 230017--230061 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
230007 ATATGTTCCG
*
230017 GGAGGTGGATATCCTCCA
1 GGAGGTGGATACCCTCCA
230035 GGAGG-GAGATACCCTCCA
1 GGAGGTG-GATACCCTCCA
230053 GGAGGTGGA
1 GGAGGTGGA
230062 GCGTATGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.24, C:0.20, G:0.40, T:0.16
Consensus pattern (18 bp):
GGAGGTGGATACCCTCCA
Found at i:237938 original size:21 final size:21
Alignment explanation
Indices: 237914--237975 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
237904 TGTTGACGTG
*
237914 ATAATGTGATAATTCACAGTA
1 ATAATGTGATAATTCACAATA
* * * * *
237935 ATAATATAACAGTTCATAATA
1 ATAATGTGATAATTCACAATA
*
237956 TTAATGTGATAATTCACAAT
1 ATAATGTGATAATTCACAAT
237976 GATTGGTGAT
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (21 bp):
ATAATGTGATAATTCACAATA
Found at i:238922 original size:24 final size:24
Alignment explanation
Indices: 238877--238923 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
238867 CGGATGAAAT
*
238877 AATATTTAATAACTAGATTAAAAA
1 AATATTTAATAACTAGAATAAAAA
* *
238901 AATATTTAATAATTATAATAAAA
1 AATATTTAATAACTAGAATAAAA
238924 TCAATCTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AATATTTAATAACTAGAATAAAAA
Done.