Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004407.1 Hibiscus syriacus cultivar Beakdansim tig00009661_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: 72929
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:688 original size:196 final size:198
Alignment explanation
Indices: 1--1613 Score: 2691
Period size: 196 Copynumber: 8.3 Consensus size: 198
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
66 CTGGGAAAAAATATCGACACAAACTATATTA--GTCGACACATTATTTAGACATATTCTCTCATA
66 CTGGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATA
129 AAACCGGTATAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGAT
131 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGAT
193 GAT
196 GAT
*
196 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
*
261 CT-GGAAAAAATATCGACACAAACTATATTA-TGTCGACACATTATTTAGACATATCCTCTCAT-
66 CTGGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATA
* *
323 AAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGA
131 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGA
388 TGAT
195 TGAT
*
392 TTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACC-T-TTTT-AATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
*
452 CTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-TCTCTCAT
66 CTGG-GAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
516 AAAACC-GTATAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGA
130 AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
579 TGAT
195 TGAT
583 TTTGGGATCGACCACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTCCATTCAT
1 TTTGGGATCGA-CACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCAT
647 TCTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCA
65 TCTGGG-AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCA
712 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TCG
129 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
776 ATGAT
194 ATGAT
*
781 TTT-GGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
*
844 CT-GGAAAAAATATCGACAC-AACTATATTAGTGTCGACACATTATTTAGAC--ATCCTCTCATA
66 CTGGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATA
* *
905 AAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTA-ACTTTTGGTTTTCGA
131 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGA
969 TGAT
195 TGAT
**
973 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTTAATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
*
1037 CTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
66 CTGG-GAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
1102 AAAACCGGTAT-ATTGTACC-GTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGA
130 AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
1164 TGAT
195 TGAT
**
1168 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
* *
1233 CTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACACATTCTCTCAT
66 CTGG-GAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
*
1298 AAAACCGGTATAATTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
130 AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
1363 TGAT
195 TGAT
1367 TTTGGGATCGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACC-TG-TTTCCATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
* *
1429 CT-GGAAAAAATATCGACACAAACTATATTAGTGTCGACACATGATTTAGACATATCCTCTCAT-
66 CTGGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATA
*
1492 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGA
131 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGA
*
1557 TGTT
195 TGAT
* *
1561 TTTGGGATTGACACTTTTTTATATAT-GATCGACACTTTAT-GGTGCACCCTGTT
1 TTTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
1614 GGCCATATTG
Statistics
Matches: 1347, Mismatches: 34, Indels: 73
0.93 0.02 0.05
Matches are distributed among these distances:
190 8 0.01
191 87 0.06
192 47 0.03
193 189 0.14
194 260 0.19
195 264 0.20
196 276 0.20
197 38 0.03
198 92 0.07
199 86 0.06
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (198 bp):
TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
CTGGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATA
AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGAT
GAT
Found at i:879 original size:389 final size:394
Alignment explanation
Indices: 1--1613 Score: 2685
Period size: 389 Copynumber: 4.1 Consensus size: 394
* *
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATT
*
66 CTGGGAAAAAATATCGACACAAACTATATTA--GTCGACACATTATTTAGACATATTCTCTCATA
66 CTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATA
129 AAACCGGTATAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGAT
131 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGAT
*
193 GATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTC
196 GATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTC
258 ATTCTGGAAAAAATATCGACACAAACTATATTA-TGTCGACACATTATTTAGACATATCCTCTCA
261 ATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCA
* *
322 TAAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCG
326 TAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-TGTCG
387 ATGAT
390 ATGAT
392 TTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCA-CCT-TTTT-AATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATT
452 CTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-TCTCTCAT
66 CTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
516 AAAACC-GTATAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGA
130 AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
579 TGATTTTGGGATCGACCACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTCCAT
195 TGATTTTGGGATCGA-CACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCAT
*
643 TCATTCTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCT
259 TCATTCT-GG-AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCT
708 CTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-
322 CTCAT-AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGT
772 GTCGATGAT
386 GTCGATGAT
*
781 TTT-GGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATT
*
844 CTGG-AAAAAATATCGACAC-AACTATATTAGTGTCGACACATTATTTAGAC--ATCCTCTCATA
66 CTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATA
* *
905 AAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTA-ACTTTTGGTTTTCGA
131 AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGA
**
969 TGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTTAATT
195 TGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATT
*
1033 CATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTC
260 CATTCTGG--AAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTC
1098 TCATAAAACCGGTAT-ATTGTACC-GTTAGATTG-AAAATTACATATTACATTATACTTTTGG-G
323 TCAT-AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTG
1159 TTCGATGAT
387 -TCGATGAT
* *
1168 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATT
*
1233 CTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACACATTCTCTCAT
66 CTGG-AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
*
1298 AAAACCGGTATAATTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
130 AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
1363 TGATTTTGGGATCGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACC-TG-TTTCCATT
195 TGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATT
*
1425 CATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATGATTTAGACATATCCTCTC
260 CATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTC
*
1490 ATAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
325 ATAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-TGTC
*
1555 GATGTT
389 GATGAT
*
1561 TTTGGGATTGACACTTTTTTATATAT-GATCGACACTTTAT-GGTGCACCCTGTT
1 TTTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1614 GGCCATATTG
Statistics
Matches: 1161, Mismatches: 28, Indels: 65
0.93 0.02 0.05
Matches are distributed among these distances:
386 40 0.03
387 148 0.13
388 94 0.08
389 359 0.31
390 157 0.14
391 99 0.09
392 96 0.08
393 56 0.05
394 104 0.09
395 8 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (394 bp):
TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCAATTCATT
CTGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATA
AAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGAT
GATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTC
ATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCA
TAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTGTCGA
TGAT
Found at i:1146 original size:585 final size:588
Alignment explanation
Indices: 1--1613 Score: 2897
Period size: 585 Copynumber: 2.8 Consensus size: 588
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
66 CTGGG-AAAAAATATCGACACAAACTATATTA--GTCGACACATTATTTAGACATATTCTCTCAT
66 CTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
128 AAAACCGGTATAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGA
131 AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
192 TGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATT
196 TGATTTTGGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATT
257 CATTCTGGAAAAAATATCGACACAAACTATATTA-TGTCGACACATTATTTAGACATATCCTCTC
260 CATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACA-ATCCTCTC
321 ATAAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
324 ATAAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
386 GATGATTTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACC--TTTTTAAT
389 GATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTGTTTTTAAT
447 TCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCTC
453 TCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCTC
512 TCATAAAACCGTATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTC
518 TCATAAAACCGTATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTC
577 GATGAT
583 GATGAT
583 TTTGGGATCGACCACTTTTTATATATGGATCGACACTTTAT-GGTGCACCTTGTTTTCCATTCAT
1 TTTGGGATCGA-CACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCAT
647 TCTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCA
65 TCTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCA
712 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TCG
130 TAAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCG
776 ATGATTTT-GGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATT
195 ATGATTTTGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATT
840 CATTCTGGAAAAAATATCGACAC-AACTATATTAGTGTCGACACATTATTTAGAC-ATCCTCTCA
260 CATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACAATCCTCTCA
903 TAAAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTA-ACTTTTGGTTTTC
325 T-AAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTC
967 GATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCTTGTTTTTAAT
389 GATGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACC-TGTTTTTAAT
1032 TCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCT
453 TCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATA-TCT
1097 CTCATAAAACCGGTAT-ATTGTACC-GTTAGATTGAAAATTACATATTACATTATACTTTTGGGT
517 CTCATAAAACC-GTATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGT
1160 TCGATGAT
581 TCGATGAT
**
1168 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATT
1 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
* *
1233 CTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACACATTCTCTCAT
66 CTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
*
1298 AAAACCGGTATAATTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
131 AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
*
1363 TGATTTTGGGATCGACACTTTTTTATATGGATCGACACTTTATGGGTGCA-CCTG-TTTCCATTC
196 TGATTTTGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTC
*
1426 ATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATGATTTAGACATATCCTCTCA
261 ATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACA-ATCCTCTCA
*
1491 TAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCG
325 TAAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCG
* *
1556 ATGTTTTTGGGATTGACACTTTTTTATATAT-GATCGACACTTTATGGTGCACCCTGTT
390 ATGATTTTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATGGTGCA-CCTGTT
1614 GGCCATATTG
Statistics
Matches: 998, Mismatches: 10, Indels: 40
0.95 0.01 0.04
Matches are distributed among these distances:
581 43 0.04
582 111 0.11
583 164 0.16
584 39 0.04
585 374 0.37
586 96 0.10
587 93 0.09
588 65 0.07
589 13 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (588 bp):
TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATT
CTGGGAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCAT
AAAACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGA
TGATTTTGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTC
ATTCTGGAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACAATCCTCTCAT
AAACCGGTATAATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGA
TGATTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCTGTTTTTAATTCA
TTCTGGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCTCTCA
TAAAACCGTATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGAT
GAT
Found at i:5904 original size:17 final size:18
Alignment explanation
Indices: 5882--5924 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
5872 ATATATCCGG
5882 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
5899 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
5919 TATCAT
1 TATCAT
5925 ATTTTACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:6080 original size:20 final size:20
Alignment explanation
Indices: 6054--6099 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
6044 CACTTTTAAA
6054 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
6073 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
6094 TTTACC
1 TTTACC
6100 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:8009 original size:37 final size:36
Alignment explanation
Indices: 7968--8086 Score: 152
Period size: 35 Copynumber: 3.3 Consensus size: 36
7958 TTACAATCAA
* *
7968 CTTTGAAAAAATGGTTTTTAAATTTTAGTAAATGTTT
1 CTTTG-AAAAATGGTTTTTAAAGTTTGGTAAATGTTT
*
8005 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTTAAAGTTTGGTAAATGTTT
* *
8040 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGGTTTTT-AAAGTTTGGTAAATGTTT
*
8077 -GTTGAAAAAT
1 CTTTGAAAAAT
8087 TGTAATGGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
35 32 0.44
36 19 0.26
37 22 0.30
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTTAAAGTTTGGTAAATGTTT
Found at i:8082 original size:36 final size:36
Alignment explanation
Indices: 7968--8086 Score: 145
Period size: 37 Copynumber: 3.3 Consensus size: 36
7958 TTACAATCAA
* *
7968 CTTTGAAAAAATGGTTTTT-AAATTTTAGTAAATGTTT
1 CTTTG-AAAAAT-GTTTTTCAAAGTTTGGTAAATGTTT
*
8005 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
8040 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GTTTTTCAAAGTTTGGTAAATGTTT
*
8077 -GTTGAAAAAT
1 CTTTGAAAAAT
8087 TGTAATGGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
34 5 0.07
35 26 0.36
36 14 0.19
37 28 0.38
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:9433 original size:20 final size:20
Alignment explanation
Indices: 9408--9447 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9398 GACCGTTAAA
9408 TAGGGGGAATCGGTACCCTC
1 TAGGGGGAATCGGTACCCTC
*
9428 TAGGGGGAATCGGTTCCCTC
1 TAGGGGGAATCGGTACCCTC
9448 CGAGCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.23
Consensus pattern (20 bp):
TAGGGGGAATCGGTACCCTC
Found at i:13668 original size:36 final size:35
Alignment explanation
Indices: 13621--13688 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
13611 GAAAAAATGG
*
13621 TTTTCAAAGTTTGGTAAATGTTTCTTTGAAAATAGT
1 TTTTCAAAGTTTGGTAAATGTTT-GTTGAAAATAGT
*
13657 TTTTCAAAGTTTGGTAGATGTTTGTTGAAAAT
1 TTTTCAAAGTTTGGTAAATGTTTGTTGAAAAT
13689 TTGTAATGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.47
Consensus pattern (35 bp):
TTTTCAAAGTTTGGTAAATGTTTGTTGAAAATAGT
Found at i:14986 original size:37 final size:37
Alignment explanation
Indices: 14944--15018 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
14934 ATTGTATCTC
14944 TCATAACTCATATACGTCTCAAAATACGAATTAAATA
1 TCATAACTCATATACGTCTCAAAATACGAATTAAATA
*
14981 TCATAACTCATATACGTCTCAAAATACGAGTTAAATA
1 TCATAACTCATATACGTCTCAAAATACGAATTAAATA
15018 T
1 T
15019 GTCACGTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (37 bp):
TCATAACTCATATACGTCTCAAAATACGAATTAAATA
Found at i:16828 original size:20 final size:20
Alignment explanation
Indices: 16803--16841 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16793 TTCAAAATAG
*
16803 TCAAATTTCACATTCTAACA
1 TCAAATTTAACATTCTAACA
*
16823 TCAAATTTAATATTCTAAC
1 TCAAATTTAACATTCTAAC
16842 TTTCAATTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
TCAAATTTAACATTCTAACA
Found at i:22416 original size:2 final size:2
Alignment explanation
Indices: 22409--22435 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22399 TTTTACAAGG
22409 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 A
22436 AAGTTCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24059 original size:21 final size:21
Alignment explanation
Indices: 24023--24142 Score: 98
Period size: 21 Copynumber: 5.6 Consensus size: 21
24013 GTCTTTCGGG
**
24023 ACATATATGTAATCCTTTAGA
1 ACATATATGTGGTCCTTTAGA
** *
24044 ACATATATGTGGTCCTTCGGG
1 ACATATATGTGGTCCTTTAGA
* * * *
24065 ACACATATTTGGTCATTTGGA
1 ACATATATGTGGTCCTTTAGA
24086 ACATATATGTGGTCCTTATAG-
1 ACATATATGTGGTCCTT-TAGA
* * *
24107 ACAATTCTATGTGGTCATTTAGG
1 AC-A-TATATGTGGTCCTTTAGA
24130 ACATATATGTGGT
1 ACATATATGTGGT
24143 TCTTCAGGAT
Statistics
Matches: 78, Mismatches: 17, Indels: 8
0.76 0.17 0.08
Matches are distributed among these distances:
21 57 0.73
22 7 0.09
23 14 0.18
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (21 bp):
ACATATATGTGGTCCTTTAGA
Found at i:24064 original size:42 final size:42
Alignment explanation
Indices: 24012--24102 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
24002 GGTTCTACGC
* * *
24012 GGTCTTTCGGGACATATATGTAATCCTTTAGAACATATATGT
1 GGTCCTTCGGGACACATATGTAATCATTTAGAACATATATGT
* ** *
24054 GGTCCTTCGGGACACATATTTGGTCATTTGGAACATATATGT
1 GGTCCTTCGGGACACATATGTAATCATTTAGAACATATATGT
24096 GGTCCTT
1 GGTCCTT
24103 ATAGACAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.37
Consensus pattern (42 bp):
GGTCCTTCGGGACACATATGTAATCATTTAGAACATATATGT
Found at i:24176 original size:44 final size:44
Alignment explanation
Indices: 24075--24176 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
24065 ACACATATTT
* * *
24075 GGTCATTTGGAACATATATGTGGTCCTTATAGACAATTCTATGT
1 GGTCATTTGGGACATATATGTGGTCCTTATAGACAATTCTACGA
* * * *
24119 GGTCATTTAGGACATATATGTGGTTCTTCA-GGATAATTCTACGA
1 GGTCATTTGGGACATATATGTGGTCCTT-ATAGACAATTCTACGA
*
24163 GGTCCTTTGGGACA
1 GGTCATTTGGGACA
24177 ATGTTATATG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (44 bp):
GGTCATTTGGGACATATATGTGGTCCTTATAGACAATTCTACGA
Found at i:25928 original size:21 final size:21
Alignment explanation
Indices: 25902--25954 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
25892 GTAAAATACG
25902 GTATGAACAGTGAACAGTATC
1 GTATGAACAGTGAACAGTATC
*
25923 GTATGAACAATGAACAGTATC
1 GTATGAACAGTGAACAGTATC
25944 GTATGAACAGT
1 GTATGAACAGT
25955 AGTGAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.25
Consensus pattern (21 bp):
GTATGAACAGTGAACAGTATC
Found at i:26815 original size:24 final size:24
Alignment explanation
Indices: 26788--26853 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
26778 AGCTCGTATA
26788 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGTAGTGCCACGTAG
* *
26812 AATTTGCACCGAAGTGCCGCGTAG
1 AATTTGCACCGTAGTGCCACGTAG
*
26836 AA-ATGCACCGTAGTGCCA
1 AATTTGCACCGTAGTGCCA
26854 TATAAGATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 13 0.35
24 24 0.65
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (24 bp):
AATTTGCACCGTAGTGCCACGTAG
Found at i:29726 original size:29 final size:29
Alignment explanation
Indices: 29686--29752 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
29676 TACAGAAGTT
*
29686 AAAGATTCAGTTACAAGAATTATTGGATA
1 AAAGATTTAGTTACAAGAATTATTGGATA
*
29715 AAAGATTTAGTTACAAGAATTGTTGGATA
1 AAAGATTTAGTTACAAGAATTATTGGATA
29744 AAAGATTTA
1 AAAGATTTA
29753 TAAGACTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (29 bp):
AAAGATTTAGTTACAAGAATTATTGGATA
Found at i:34711 original size:39 final size:38
Alignment explanation
Indices: 34652--34759 Score: 126
Period size: 38 Copynumber: 2.8 Consensus size: 38
34642 AGATTCTCAA
* ** * *
34652 GAAAATAAATTCAATGATTTATTTTCTTTTACAAGATAG
1 GAAAATAAATTAAACAATTTATTTCCTTTTACAA-ACAG
* * *
34691 GAAAATAAATTTAACAATTTATTCCCTTTTACAAACAT
1 GAAAATAAATTAAACAATTTATTTCCTTTTACAAACAG
*
34729 GAAAATAAATCAAACAATTTATTTCCTTTTA
1 GAAAATAAATTAAACAATTTATTTCCTTTTA
34760 AAATATAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
38 30 0.51
39 29 0.49
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.39
Consensus pattern (38 bp):
GAAAATAAATTAAACAATTTATTTCCTTTTACAAACAG
Found at i:35071 original size:114 final size:115
Alignment explanation
Indices: 34880--35168 Score: 341
Period size: 114 Copynumber: 2.5 Consensus size: 115
34870 AATATAATGA
* * * * ** * *
34880 AAATAAATTTAACAATTTATTTTTTTA-GATGATAGAATCATCCACGATTCTCAAT-AACATAAA
1 AAATAAATTCAACAATTTATTTTTTTACAAAGTTAGAATCATTAAAGATTCTCAATGAA-ACAAA
* * *
34943 TTCGATAATTTATTTTCCTGACAAAATTAAAATCATTCAAGATTC-CAAAG
65 TTCAACAATCTATTTTCCTGACAAAATTAAAATCATTCAAGATTCACAAAG
* *
34993 AAATAAATTCAACAATTTATTTTTTTACAAAGTTATAATCATTTAAGATTCTCAATGAAACAAAT
1 AAATAAATTCAACAATTTATTTTTTTACAAAGTTAGAATCATTAAAGATTCTCAATGAAACAAAT
* * * * * *
35058 TCAACAATCTATTTTCCTTATAAAGTTATAATCATTTAAGATTCACAAGG
66 TCAACAATCTATTTTCCTGACAAAATTAAAATCATTCAAGATTCACAAAG
** *
35108 AAATAAATTCAACAACCTATTTTCCTTACAAAGTTAGAATCATTAAAGATTCTCAATGAAA
1 AAATAAATTCAACAATTTATTTT-TTTACAAAGTTAGAATCATTAAAGATTCTCAATGAAA
35169 TCAATTTAAC
Statistics
Matches: 149, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
113 26 0.17
114 62 0.42
115 27 0.18
116 34 0.23
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (115 bp):
AAATAAATTCAACAATTTATTTTTTTACAAAGTTAGAATCATTAAAGATTCTCAATGAAACAAAT
TCAACAATCTATTTTCCTGACAAAATTAAAATCATTCAAGATTCACAAAG
Found at i:35096 original size:58 final size:58
Alignment explanation
Indices: 34823--35208 Score: 354
Period size: 58 Copynumber: 6.7 Consensus size: 58
34813 ATTTCCGAGA
* ** * ** * *
34823 AAATAAATTTAACAATTTATTAACTTTACAAA-AAAGAATCATTTAAGAATAT-AATG
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAATG
* * * * * ** *
34879 AAAATAAATTTAACAATTTATTTT-TTTA-GATGATAGAATCATCCACGATTCTCAAT-
1 -AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAATG
* * * * * * *
34935 AACATAAATTCGATAATTTATTTTCCTGACAAAATTAAAATCATTCAAGATTC-CAAAG
1 AA-ATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAATG
* *
34993 AAATAAATTCAACAATTTATTTT-TTTACAAAGTTATAATCATTTAAGATTCTCAATG
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAATG
* * * * * *
35050 AAACAAATTCAACAATCTATTTTCCTTATAAAGTTATAATCATTTAAGATTCACAAGG
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAATG
** *
35108 AAATAAATTCAACAACCTATTTTCCTTACAAAGTTAGAATCATTAAAGATTCTCAATG
1 AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAATG
* * * *
35166 AAATCAATTTAACTATTTATTTTTCCTTACGAAGTTAGAATCA
1 AAATAAATTCAACAATTTA-TTTTCCTTACAAAGTTAGAATCA
35209 ACACAAGATT
Statistics
Matches: 270, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
55 3 0.01
56 59 0.22
57 73 0.27
58 113 0.42
59 22 0.08
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (58 bp):
AAATAAATTCAACAATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAATG
Found at i:35163 original size:116 final size:114
Alignment explanation
Indices: 34925--35208 Score: 338
Period size: 114 Copynumber: 2.5 Consensus size: 114
34915 AATCATCCAC
* * * * *
34925 GATTCTCAAT-AACATAAATTCGATAATTTATTTTCCTGACAAAATTAAAATCATTCAAGATTCC
1 GATTCTCAATGAA-ACAAATTCAACAATTTATTTTCCTTACAAAGTTAAAATCATTCAAGATTCC
** * * *
34989 AAAGAAATAAATTCAACAATTTATTTTTTTACAAAGTTATAATCATTTAA
65 AAAGAAATAAATTCAACAACCTATTTTCTTACAAAGTTAGAATCATTAAA
* * * *
35039 GATTCTCAATGAAACAAATTCAACAATCTATTTTCCTTATAAAGTTATAATCATTTAAGATTCAC
1 GATTCTCAATGAAACAAATTCAACAATTTATTTTCCTTACAAAGTTAAAATCATTCAAGATTC-C
*
35104 AAGGAAATAAATTCAACAACCTATTTTCCTTACAAAGTTAGAATCATTAAA
65 AAAGAAATAAATTCAACAACCTATTTT-CTTACAAAGTTAGAATCATTAAA
* * * *
35155 GATTCTCAATGAAATC-AATTTAACTATTTATTTTTCCTTACGAAGTTAGAATCA
1 GATTCTCAATGAAA-CAAATTCAACAATTTA-TTTTCCTTACAAAGTTAAAATCA
35209 ACACAAGATT
Statistics
Matches: 144, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
114 51 0.35
115 27 0.19
116 45 0.31
117 21 0.15
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (114 bp):
GATTCTCAATGAAACAAATTCAACAATTTATTTTCCTTACAAAGTTAAAATCATTCAAGATTCCA
AAGAAATAAATTCAACAACCTATTTTCTTACAAAGTTAGAATCATTAAA
Found at i:35295 original size:2 final size:2
Alignment explanation
Indices: 35288--35322 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
35278 AAACCCAAAG
35288 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35323 GTCACAACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35422 original size:39 final size:40
Alignment explanation
Indices: 35360--35469 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 40
35350 AACAAAAATT
* *
35360 AAAAGGAATTAATCCTTTAATTTTAC-CAACCCAATAATC
1 AAAAGGAACTAATCCTTTGATTTTACACAACCCAATAATC
* **
35399 AAAAGGAACTAATCATTTGATTTTAATTTTCACAATTCAATAATC
1 AAAAGGAACTAATCCTTTGATTTT-A----CACAACCCAATAATC
*
35444 GAAAGGAACTAATCCTTTGATTTTAC
1 AAAAGGAACTAATCCTTTGATTTTAC
35470 TTTTGACAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
39 21 0.36
40 2 0.03
44 2 0.03
45 33 0.57
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (40 bp):
AAAAGGAACTAATCCTTTGATTTTACACAACCCAATAATC
Found at i:35426 original size:45 final size:45
Alignment explanation
Indices: 35375--35492 Score: 150
Period size: 45 Copynumber: 2.6 Consensus size: 45
35365 GAATTAATCC
*
35375 TTTAATTTTACCAACCCAATAATCAAAAGGAACTAATCATTTGAT
1 TTTAATTTTACCAATCCAATAATCAAAAGGAACTAATCATTTGAT
* * *
35420 TTTAATTTT-CACAATTCAATAATCGAAAGGAACTAATCCTTTGAT
1 TTTAATTTTAC-CAATCCAATAATCAAAAGGAACTAATCATTTGAT
* *
35465 TTTACTTTTGA-CAATCTAATAATCAAAA
1 TTTAATTTT-ACCAATCCAATAATCAAAA
35493 ACTTTGGATC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
44 1 0.02
45 61 0.98
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (45 bp):
TTTAATTTTACCAATCCAATAATCAAAAGGAACTAATCATTTGAT
Found at i:39931 original size:52 final size:52
Alignment explanation
Indices: 39853--39956 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
39843 ATAGGTTAAG
39853 GTGATTATAAATGGTTGAATTCTTTTAATTTA-AGAGGAGAATCGTAATTGAT
1 GTGATTATAAATGGTTGAATTCTTTTAATTTAGA-AGGAGAATCGTAATTGAT
* *
39905 GTGATTATAAATGGTTGGATTCTTTTAATTTGGAAGGAGAATCGTAATTGAT
1 GTGATTATAAATGGTTGAATTCTTTTAATTTAGAAGGAGAATCGTAATTGAT
39957 AAAAATGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 48 0.98
53 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (52 bp):
GTGATTATAAATGGTTGAATTCTTTTAATTTAGAAGGAGAATCGTAATTGAT
Found at i:43162 original size:20 final size:21
Alignment explanation
Indices: 43137--43175 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43127 GGCTGCTGGA
43137 AACCGGCT-TGACCGGTTTTC
1 AACCGGCTCTGACCGGTTTTC
*
43157 AACCGGTTCTGACCGGTTT
1 AACCGGCTCTGACCGGTTT
43176 GACCGGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.31
Consensus pattern (21 bp):
AACCGGCTCTGACCGGTTTTC
Found at i:43180 original size:9 final size:9
Alignment explanation
Indices: 43138--43236 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
43128 GCTGCTGGAA
*
43138 ACCGGCTTG
1 ACCGGTTTG
*
43147 ACCGGTTTTCA
1 ACCGG-TTT-G
43158 ACCGGTTCTG
1 ACCGGTT-TG
43168 ACCGGTTTG
1 ACCGGTTTG
*
43177 ACCGGTTTCA
1 ACCGGTTT-G
*
43187 ACCGGTTCG
1 ACCGGTTTG
43196 AACCGGTTTG
1 -ACCGGTTTG
*
43206 ACCGGTCTG
1 ACCGGTTTG
*
43215 AATCGGTTTG
1 -ACCGGTTTG
*
43225 ACCGGTCTG
1 ACCGGTTTG
43234 ACC
1 ACC
43237 CGACCCGACC
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
9 33 0.46
10 33 0.46
11 6 0.08
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.28
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:43182 original size:19 final size:19
Alignment explanation
Indices: 43139--43236 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 19
43129 CTGCTGGAAA
* * *
43139 CCGGCTTGACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
43159 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
43178 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
43198 CCGGTTTGACCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
*
43217 TCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
43235 CC
1 CC
43237 CGACCCGACC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.58
20 14 0.21
21 9 0.13
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:43200 original size:29 final size:30
Alignment explanation
Indices: 43137--43236 Score: 118
Period size: 29 Copynumber: 3.4 Consensus size: 30
43127 GGCTGCTGGA
*
43137 AACCGGCTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
43168 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
43196 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
43225 -ACCGGTCTGACC
1 AACCGGTTTGACC
43237 CGACCCGACC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.60
30 13 0.21
ACGTcount: A:0.16, C:0.28, G:0.28, T:0.28
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:43258 original size:17 final size:17
Alignment explanation
Indices: 43232--43270 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
43222 TTGACCGGTC
43232 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
*
43249 TGACCTGACCCGACCGT
1 TGACCCGACCCGACCGT
43266 TGACC
1 TGACC
43271 GTTGACTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:44220 original size:63 final size:63
Alignment explanation
Indices: 44152--44275 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
44142 CTAATGTGAC
* ** * *
44152 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
44215 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
44276 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 50 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:45417 original size:29 final size:29
Alignment explanation
Indices: 45384--45473 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
45374 TAAATTTTGG
* *
45384 TTAGTGACTAAAATATAAGTTTTAAAAGT
1 TTAGTGACTAAAATATAAATTTGAAAAGT
** * *
45413 TTAGTGGTTAAAATAAAAACTTTGAAACGT
1 TTAGTGACTAAAATATAAA-TTTGAAAAGT
45443 TTA-TGGACTAAAATTATAAATTTGAAAAGT
1 TTAGT-GACTAAAA-TATAAATTTGAAAAGT
45473 T
1 T
45474 ATATATATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
29 16 0.33
30 27 0.56
31 5 0.10
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.37
Consensus pattern (29 bp):
TTAGTGACTAAAATATAAATTTGAAAAGT
Found at i:50452 original size:11 final size:11
Alignment explanation
Indices: 50421--50459 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
50411 CTTTTTTTTT
*
50421 TATATATATATA
1 TATATAT-TACA
*
50433 TACATATTACA
1 TATATATTACA
50444 TATATATTACA
1 TATATATTACA
50455 TATAT
1 TATAT
50460 GTTATTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (11 bp):
TATATATTACA
Found at i:52026 original size:142 final size:145
Alignment explanation
Indices: 51837--52107 Score: 440
Period size: 144 Copynumber: 1.9 Consensus size: 145
51827 TTTTTTTTAT
* *
51837 TATTATTATATACATATTTTTTTTCCTCCCTCTCATATTTAGCTA-T-TATATATATATGGTGTT
1 TATTATTATATACATATATTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTATT
* *
51900 AATATTATTATATGTTTTTACTAACTTTATTTATTTTACTTTATACGCTATTATTTTACATTTTA
66 AATATTATTATATGTTCTTACTAACTTTATTTATTCTACTTTATACGCTATTATTTTACATTTTA
51965 TTTTTATAATTTTTC
131 TTTTTATAATTTTTC
*
51980 TATTATTAT-TATATATATTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTATT
1 TATTATTATATACATATATTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTATT
* * * *
52044 GATATTCTTATATGTTCTTATTAATTTTATTTATTCTACTTTATACGCTATTATTTTACATTTT
66 AATATTATTATATGTTCTTACTAACTTTATTTATTCTACTTTATACGCTATTATTTTACATTTT
52108 TTATATATGT
Statistics
Matches: 117, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
142 33 0.28
143 10 0.09
144 74 0.63
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (145 bp):
TATTATTATATACATATATTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTATT
AATATTATTATATGTTCTTACTAACTTTATTTATTCTACTTTATACGCTATTATTTTACATTTTA
TTTTTATAATTTTTC
Found at i:54985 original size:2 final size:2
Alignment explanation
Indices: 54978--55016 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
54968 AAAATACGAA
*
54978 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
55017 GTTATTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:62689 original size:43 final size:43
Alignment explanation
Indices: 62633--62809 Score: 219
Period size: 43 Copynumber: 4.1 Consensus size: 43
62623 ACGAAAGGGT
* * *
62633 CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACG
1 CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* **
62676 CATCTGCGATTTCAACTCCACGATAGAGGATATCGTACCCACA
1 CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * * *
62719 CATCCACAATTTCAACTCCATGACGGAGGATATCGTACCAACG
1 CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * *
62762 GATCCGTGATTTCAACTCCACGACGGAGGATATTGTGCCCACA
1 CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
62805 CATCC
1 CATCC
62810 ATGGTTTCAA
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 110 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (43 bp):
CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:62745 original size:86 final size:86
Alignment explanation
Indices: 62633--62842 Score: 269
Period size: 86 Copynumber: 2.4 Consensus size: 86
62623 ACGAAAGGGT
** * *
62633 CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACGCATCTGCGATTTCAACTCCACG
1 CATCCACGATTTCAACTCCATGACGGAGGATATCGTACCAACGCATCCGCGATTTCAACTCCACG
*
62698 ATAGAGGATATCGTACCCACA
66 ACAGAGGATATCGTACCCACA
* * *
62719 CATCCACAATTTCAACTCCATGACGGAGGATATCGTACCAACGGATCCGTGATTTCAACTCCACG
1 CATCCACGATTTCAACTCCATGACGGAGGATATCGTACCAACGCATCCGCGATTTCAACTCCACG
* * *
62784 ACGGAGGATATTGTGCCCACA
66 ACAGAGGATATCGTACCCACA
* * * *
62805 CATCCATGGTTTCAACTTCATGACGAAGGGA-ATCGTAC
1 CATCCACGATTTCAACTCCATGACGGA-GGATATCGTAC
62843 ACACAAGCAA
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
86 104 0.97
87 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (86 bp):
CATCCACGATTTCAACTCCATGACGGAGGATATCGTACCAACGCATCCGCGATTTCAACTCCACG
ACAGAGGATATCGTACCCACA
Found at i:62818 original size:43 final size:43
Alignment explanation
Indices: 62633--62847 Score: 216
Period size: 43 Copynumber: 5.0 Consensus size: 43
62623 ACGAAAGGGT
* * *
62633 CATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACG
1 CATCCATGATTTCAACTCCACGACGGAGGATATCGTACCCACA
*** **
62676 CATCTGCGATTTCAACTCCACGATAGAGGATATCGTACCCACA
1 CATCCATGATTTCAACTCCACGACGGAGGATATCGTACCCACA
** * * *
62719 CATCCACAATTTCAACTCCATGACGGAGGATATCGTACCAACG
1 CATCCATGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * *
62762 GATCCGTGATTTCAACTCCACGACGGAGGATATTGTGCCCACA
1 CATCCATGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * * *
62805 CATCCATGGTTTCAACTTCATGACGAAGGGA-ATCGTACACACA
1 CATCCATGATTTCAACTCCACGACGGA-GGATATCGTACCCACA
62848 AGCAACATAC
Statistics
Matches: 139, Mismatches: 32, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
43 136 0.98
44 3 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
CATCCATGATTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:63278 original size:66 final size:66
Alignment explanation
Indices: 63195--63431 Score: 210
Period size: 66 Copynumber: 3.5 Consensus size: 66
63185 TCCACGATTT
*
63195 CAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACA-TAAACTTTGAAAACATTTCCCTTGAA
1 CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATTAAACTTTGAAAACATTTCCCTTGAA
63259 A
66 A
* * * * *
63260 CAAAATTTTGTCTCCCTTGAGACAGTTTTTCTTAAAACCAGATTTTATCTCGCTT-AAGACAATT
1 C-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAA-C--A-TTAAACT---TTGAAAAC-ATT
63324 TCCCTTGAAA
57 TCCCTTGAAA
* * ** * * * *
63334 CTAATTTTGTCTCCCTCGAGACAGTTTCT-TATGAAACACCAAACTTTGAGATCGTTTCCCTTAA
1 CAAATTTTGTCTCCCTTGAGACAGTTTCTCT-TGAAACATTAAACTTTGAAAACATTTCCCTTGA
63398 AA
65 AA
** *
63400 CAAATTTTGTCTCTTTTGAAACAGTTTCTCTT
1 CAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
63432 AAAGCATCAT
Statistics
Matches: 135, Mismatches: 24, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
65 1 0.01
66 70 0.52
67 4 0.03
69 4 0.03
70 1 0.01
71 4 0.03
72 2 0.01
73 33 0.24
74 16 0.12
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (66 bp):
CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATTAAACTTTGAAAACATTTCCCTTGAA
A
Found at i:63356 original size:36 final size:36
Alignment explanation
Indices: 63247--63361 Score: 113
Period size: 37 Copynumber: 3.1 Consensus size: 36
63237 CTTTGAAAAC
63247 ATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
1 ATTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACA
* ** * * * * *
63284 GTTTTTCTTAAAACCAGATTTTATCTCGCTTAAGACA
1 ATTTCCCTTGAAA-CAAATTTTGTCTCCCTTGAGACA
* *
63321 ATTTCCCTTGAAACTAATTTTGTCTCCCTCGAGACA
1 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
*
63357 GTTTC
1 ATTTC
63362 TTATGAAACA
Statistics
Matches: 58, Mismatches: 19, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
36 21 0.36
37 36 0.62
38 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.38
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:63369 original size:36 final size:36
Alignment explanation
Indices: 63263--63370 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 36
63253 CTTGAAACAA
63263 AATTTTGTCTCCCTTGAGACAGTTTTTCTTA--AAACC
1 AATTTTGTCTCCCTTGAGACAG--TTTCTTATGAAACC
* * * * * *
63299 AGATTTTATCTCGCTTAAGACAATTTCCCT-TGAAACT
1 A-ATTTTGTCTCCCTTGAGACAGTTT-CTTATGAAACC
*
63336 AATTTTGTCTCCCTCGAGACAGTTTCTTATGAAAC
1 AATTTTGTCTCCCTTGAGACAGTTTCTTATGAAAC
63371 ACCAAACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
35 5 0.09
36 28 0.51
37 22 0.40
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (36 bp):
AATTTTGTCTCCCTTGAGACAGTTTCTTATGAAACC
Found at i:63668 original size:40 final size:39
Alignment explanation
Indices: 63622--63753 Score: 122
Period size: 40 Copynumber: 3.2 Consensus size: 39
63612 TGGTCTATCG
*
63622 TCCTCATCACGTAGGAACCGTATCATCCTTCGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCTT-GACCAGATC
* *
63662 TCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAG-TC
1 TCCTCATCACGTAGGAACCGTGTCATCCTT-G---ACCAGATC
* * * * *
63704 GACCTCAACACGTAGGAATCGTGTTATCCCTTGACTAGATC
1 -TCCTCATCACGTAGGAACCGTGTCAT-CCTTGACCAGATC
63745 TCCTCATCA
1 TCCTCATCA
63754 AGTAAGAGTC
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
40 39 0.53
41 2 0.03
42 2 0.03
43 26 0.36
44 4 0.05
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (39 bp):
TCCTCATCACGTAGGAACCGTGTCATCCTTGACCAGATC
Found at i:63731 original size:131 final size:131
Alignment explanation
Indices: 63470--63723 Score: 373
Period size: 131 Copynumber: 1.9 Consensus size: 131
63460 TGAAACCATT
* * *
63470 ATCCCTAATGATGGTCTGCCATCCTCATCATGTAGGAACCGTGTCATCCCTAGACCAGATCTCCT
1 ATCCCTAATGATGGTCTACCATCCTCATCACGTAGGAACCGTATCATCCCTAGACCAGATCTCCT
* * * * * *
63535 TATTACGTATGAGCCGTGTCAACCTTAGATAATCAGTCGTCCTCATCACATAGGAATCACGTTAT
66 CATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGTCGACCTCAACACATAGGAATCACGTTAT
63600 C
131 C
* * * *
63601 ATCCCTAATGATGGTCTATCGTCCTCATCACGTAGGAACCGTATCATCCTTCGACCAGATCTCCT
1 ATCCCTAATGATGGTCTACCATCCTCATCACGTAGGAACCGTATCATCCCTAGACCAGATCTCCT
* *
63666 CATCACGTAGGAGCCGTGTCAACCTTGGATAACCAGTCGACCTCAACACGTAGGAATC
66 CATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGTCGACCTCAACACATAGGAATC
63724 GTGTTATCCC
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
131 108 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (131 bp):
ATCCCTAATGATGGTCTACCATCCTCATCACGTAGGAACCGTATCATCCCTAGACCAGATCTCCT
CATCACGTAGGAGCCGTGTCAACCTTAGATAACCAGTCGACCTCAACACATAGGAATCACGTTAT
C
Found at i:63811 original size:83 final size:84
Alignment explanation
Indices: 63620--63814 Score: 250
Period size: 83 Copynumber: 2.3 Consensus size: 84
63610 GATGGTCTAT
* * * * *
63620 CGTCCTCATCACGTAGGAACCGTATCAT-CCTTCGACCAGATCTCCTCATCACGTAGGAGCCGTG
1 CGTCCTCATCACGTAGGAATCGTGTTATCCCTTCGACCAGATCTCCTCATCAAGTAAGAGCCGTG
* *
63684 TCAACCTTGGATAACCAGT
66 TCAACCTTAGATAACCAGC
* * * *
63703 CGACCTCAACACGTAGGAATCGTGTTATCCCTT-GACTAGATCTCCTCATCAAGTAAGAGTCGTG
1 CGTCCTCATCACGTAGGAATCGTGTTATCCCTTCGACCAGATCTCCTCATCAAGTAAGAGCCGTG
*
63767 TCAACTTTAGATAACCAGC
66 TCAACCTTAGATAACCAGC
* *
63786 CGTCCTCATCACGTAGGAGTTGTGTTATC
1 CGTCCTCATCACGTAGGAATCGTGTTATC
63815 GTCCTTAGAC
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
83 91 0.96
84 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (84 bp):
CGTCCTCATCACGTAGGAATCGTGTTATCCCTTCGACCAGATCTCCTCATCAAGTAAGAGCCGTG
TCAACCTTAGATAACCAGC
Found at i:68799 original size:24 final size:24
Alignment explanation
Indices: 68740--68808 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
68730 CTTATATTTT
* *
68740 TTTA-TTTTT-TAGATTATTAATA
1 TTTATTTTTTATACATTTTTAATA
68762 TTT-TTTTTTAATACATTTTTAATA
1 TTTATTTTTT-ATACATTTTTAATA
*
68786 TTTATTTTTTATAC-TTTTGAATA
1 TTTATTTTTTATACATTTTTAATA
68809 ATTTTGTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 18 0.45
25 6 0.15
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (24 bp):
TTTATTTTTTATACATTTTTAATA
Done.