Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004431.1 Hibiscus syriacus cultivar Beakdansim tig00009713_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: 71358
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:138 original size:36 final size:35
Alignment explanation
Indices: 82--149 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
72 CCCATTACAA
82 ATTTTCAACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTCAACAAACATCTACCAAACTTTGAAAAACT
* *
117 ATTTTCAAAGAAACATTTACCAAACTTTGAAAA
1 ATTTTC-AACAAACATCTACCAAACTTTGAAAA
150 CCATTTTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.29
Consensus pattern (35 bp):
ATTTTCAACAAACATCTACCAAACTTTGAAAAACT
Found at i:5700 original size:33 final size:34
Alignment explanation
Indices: 5644--5709 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
5634 AACAAACATC
*
5644 TACCAAACTTTGAAAAACTATTTTCAAAGAAAAT
1 TACCAAACTTTGAAAAACCATTTTCAAAGAAAAT
5678 TACCAAACTTTG-AAAACCATTTTCAAAGAAAA
1 TACCAAACTTTGAAAAACCATTTTCAAAGAAAA
5710 ACATTTACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 19 0.61
34 12 0.39
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.27
Consensus pattern (34 bp):
TACCAAACTTTGAAAAACCATTTTCAAAGAAAAT
Found at i:7631 original size:20 final size:19
Alignment explanation
Indices: 7608--7653 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
7598 CGATATACCA
7608 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
7628 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
7648 GGTAAA
1 GGTAAA
7654 TTTAAAAGTG
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:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:7803 original size:21 final size:19
Alignment explanation
Indices: 7783--7824 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
7773 ATGTAAAAAT
7783 ATGATAAAACCGGTATCAA
1 ATGATAAAACCGGTATCAA
7802 ATGATAAAACCGGTA--AA
1 ATGATAAAACCGGTATCAA
7819 ATGATA
1 ATGATA
7825 CCGATATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.35
19 15 0.65
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGTATCAA
Found at i:12003 original size:18 final size:19
Alignment explanation
Indices: 11959--12006 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
11949 AATGTCGAGT
11959 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
11978 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
11997 T-ATTTTGTAT
1 TAATTTTGTAT
12007 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:12538 original size:198 final size:198
Alignment explanation
Indices: 12125--14679 Score: 4674
Period size: 198 Copynumber: 12.9 Consensus size: 198
12115 CAATATGGCC
* * *
12125 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
12190 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
* *
12255 AGGATATGTCTAAATCATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
12320 TGGAA
194 TGGAA
*
12325 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
12390 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTATAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
12454 AATGTGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
**
12519 TAAA
195 GGAA
12523 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12588 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12653 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
**
12718 TAAA
195 GGAA
*
12722 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
12787 CCAAAAGTATAATGTAATATGTAATTTTTCAATCGAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
12852 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
12917 GGAA
195 GGAA
*
12921 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12984 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
13048 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
13113 GAA
196 GAA
13116 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
13181 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
13246 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
*
13311 -TAA
195 GGAA
*
13314 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
13379 CCAAAAGTATAATGTAATATGTAATTTTTCAATCGAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
13444 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
13509 GGAA
195 GGAA
*
13513 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
13578 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
13643 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
13708 GAA
196 GAA
13711 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
13776 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
13841 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
**
13906 TAAA
195 GGAA
*
13910 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
13975 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGG
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
14040 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
14105 GGAA
195 GGAA
*
14109 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
14174 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
**
14239 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTCCCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
14304 GAA
196 GAA
14307 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
14372 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
14436 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
14501 GGAA
195 GGAA
14505 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
14569 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
14634 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
14680 CTAATTTAAA
Statistics
Matches: 2288, Mismatches: 54, Indels: 28
0.97 0.02 0.01
Matches are distributed among these distances:
195 134 0.06
196 26 0.01
197 297 0.13
198 980 0.43
199 592 0.26
200 259 0.11
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (198 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:13553 original size:397 final size:396
Alignment explanation
Indices: 12125--14679 Score: 4674
Period size: 397 Copynumber: 6.4 Consensus size: 396
12115 CAATATGGCC
* * *
12125 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
12190 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
* *
12255 AGGATATGTCTAAATCATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
*
12320 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
194 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
*
12385 GAACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTATAATTATACCGGTTTTAT
259 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
*
12449 GAGAGAATGTGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAA
**
12514 TGAATTAAA
388 TGAATGGAA
12523 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12588 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12653 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
**
12718 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
* *
12783 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCGAACCGGTACAATTATACCGGTTTTAT
260 -AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
*
12848 GAGAGGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
12913 GAATGGAA
389 GAATGGAA
*
12921 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12984 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
13048 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
13113 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
13178 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
13243 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATG
*
13308 AAT-TAA
390 AATGGAA
*
13314 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
13379 CCAAAAGTATAATGTAATATGTAATTTTTCAATCGAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
13444 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
*
13509 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
13574 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
13639 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATG
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATG
13704 AATGGAA
390 AATGGAA
13711 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
13776 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
13841 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
**
13906 TAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
13971 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
260 -AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
* *
14036 GAGGGGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
14101 GAATGGAA
389 GAATGGAA
*
14109 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
14174 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
**
14239 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTCCCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
14304 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
*
14369 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACTGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
14433 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATG
14498 AATGGAA
390 AATGGAA
14505 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
14569 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
14634 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
14680 CTAATTTAAA
Statistics
Matches: 2093, Mismatches: 52, Indels: 27
0.96 0.02 0.01
Matches are distributed among these distances:
393 142 0.07
394 98 0.05
395 317 0.15
396 430 0.21
397 607 0.29
398 416 0.20
399 83 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (396 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
ATGGAA
Found at i:14211 original size:596 final size:595
Alignment explanation
Indices: 12125--14679 Score: 4861
Period size: 596 Copynumber: 4.3 Consensus size: 595
12115 CAATATGGCC
* * *
12125 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAA
12190 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
65 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
*
12255 AGGATATGTCTAAATCATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
130 AGGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
12320 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
*
12385 GAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTATAATTATACCGGTTTTATG
260 GAACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
* *
12450 AGAGAATGTGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAAT
**
12515 GAATTAAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
389 GAATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
12580 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
454 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
12645 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCA
519 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCA
12710 GAATGAATTAAA
584 GAATGAATTAAA
12722 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
*
12787 CCAAAAGTATAATGTAATATGTAATTTTTCAATCGAACCGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
12852 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
131 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
12917 GGAAAACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
12980 AACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 AACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
13045 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGA
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGA
13110 ATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
391 ATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
13175 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
456 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
13240 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
521 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
13305 ATGAATT-AA
586 ATGAATTAAA
13314 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
*
13379 CCAAAAGTATAATGTAATATGTAATTTTTCAATCGAACCGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
13444 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
131 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
13509 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
13574 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
13639 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATG
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATG
13704 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
390 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
13769 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
455 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
13834 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAG
520 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAG
13899 AATGAATTAAA
585 AATGAATTAAA
13910 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
*
13975 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGG
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
14040 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
131 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
14105 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
14170 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
14235 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTCCCCAGAATG
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATG
14300 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
390 AATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
*
14365 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACTGGTTTT
455 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
*
14429 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAG
520 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAG
**
14494 AATGAATGGAA
585 AATGAATTAAA
*
14505 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCG-AAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
14568 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
14633 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
14680 CTAATTTAAA
Statistics
Matches: 1934, Mismatches: 20, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
592 230 0.12
593 327 0.17
594 208 0.11
595 447 0.23
596 688 0.36
597 34 0.02
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (595 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
GGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGA
ATGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGA
ATGAATTAAA
Found at i:16153 original size:18 final size:18
Alignment explanation
Indices: 16132--16193 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
16122 AGCGGTCGCA
16132 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
16150 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
16168 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
16186 GAAGATGA
1 GAAGATGA
16194 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:16156 original size:6 final size:6
Alignment explanation
Indices: 16132--16223 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
16122 AGCGGTCGCA
* * * * * *
16132 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
16180 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
16224 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:16167 original size:3 final size:3
Alignment explanation
Indices: 16147--16227 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
16137 TGAAGCTGAC
* * * * * ** *
16147 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
16195 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
16228 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:16186 original size:36 final size:36
Alignment explanation
Indices: 16135--16211 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
16125 GGTCGCAGAA
*
16135 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
16171 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
16207 GATGA
1 GATGA
16212 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:16227 original size:12 final size:12
Alignment explanation
Indices: 16135--16223 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
16125 GGTCGCAGAA
*
16135 GATGAAGCTGAC
1 GATGAAGATGAC
16147 GATGAAGATGAC
1 GATGAAGATGAC
*
16159 GATGATGATGAC
1 GATGAAGATGAC
* *
16171 GATGAAGCTGGC
1 GATGAAGATGAC
*
16183 GATGAAGATGAT
1 GATGAAGATGAC
* * *
16195 GACGATGATGAT
1 GATGAAGATGAC
* *
16207 GATGATGATGAA
1 GATGAAGATGAC
16219 GATGA
1 GATGA
16224 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:16227 original size:18 final size:18
Alignment explanation
Indices: 16132--16223 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
16122 AGCGGTCGCA
*
16132 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
16150 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
16168 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
16186 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
16204 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
16222 GA
1 GA
16224 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:17995 original size:184 final size:184
Alignment explanation
Indices: 17686--18029 Score: 589
Period size: 184 Copynumber: 1.9 Consensus size: 184
17676 CTTTCAACAT
* *
17686 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
* *
17751 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
*
17816 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
** * * *
17870 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
17935 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
18000 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACCATTTAAAAAAGTGTCG
18030 GTAATTTGAA
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (184 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:19952 original size:23 final size:23
Alignment explanation
Indices: 19921--19984 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
19911 ATAGGTAAAC
*
19921 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
19944 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
19967 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
19985 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:19991 original size:23 final size:23
Alignment explanation
Indices: 19921--19993 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
19911 ATAGGTAAAC
* **
19921 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
19944 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
19967 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
19990 ATAT
1 ATAT
19994 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:20383 original size:23 final size:23
Alignment explanation
Indices: 20352--20415 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
20342 ATAGGTAAAC
*
20352 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
20375 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
20398 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
20416 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:20422 original size:23 final size:23
Alignment explanation
Indices: 20352--20424 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
20342 ATAGGTAAAC
* **
20352 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
20375 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
20398 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
20421 ATAT
1 ATAT
20425 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:20727 original size:25 final size:25
Alignment explanation
Indices: 20693--20743 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
20683 ACAACAAATC
*
20693 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
20718 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
20743 A
1 A
20744 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:21013 original size:18 final size:18
Alignment explanation
Indices: 20992--21028 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20982 GTAATTGGAG
20992 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
21010 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
21028 T
1 T
21029 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:21036 original size:24 final size:24
Alignment explanation
Indices: 20984--21030 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20974 TTTCATATGT
* *
20984 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
21008 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
21031 ATATTTCGGC
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:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:21330 original size:39 final size:39
Alignment explanation
Indices: 21287--21373 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
21277 TCCGATGCTC
*
21287 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
21326 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
21365 ATCAAAATC
1 ATCAAAATC
21374 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:21805 original size:23 final size:23
Alignment explanation
Indices: 21774--21837 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
21764 ATAGGTAAAC
*
21774 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
21797 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
21820 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
21838 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:21844 original size:23 final size:23
Alignment explanation
Indices: 21774--21846 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
21764 ATAGGTAAAC
* **
21774 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
21797 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
21820 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
21843 ATAT
1 ATAT
21847 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:22630 original size:5 final size:5
Alignment explanation
Indices: 22620--22650 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
22610 TTAAGAGAGA
22620 GAGGG GAGGG GAGGG GAGGG GAGGG GAGGG G
1 GAGGG GAGGG GAGGG GAGGG GAGGG GAGGG G
22651 GGGCTTTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.81, T:0.00
Consensus pattern (5 bp):
GAGGG
Found at i:31693 original size:44 final size:44
Alignment explanation
Indices: 31644--31734 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
31634 AAATAATTAC
* **
31644 TAATATTATTAAATTGTTATAAAATGATCATTGCATCATTATAA
1 TAATATTATAAAATTGTTATAAAATGATCATTAAATCATTATAA
*
31688 TAATATTATAAAATTGTTATAGAATGATCATTAAATCATTATAA
1 TAATATTATAAAATTGTTATAAAATGATCATTAAATCATTATAA
31732 TAA
1 TAA
31735 GTATAAAGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (44 bp):
TAATATTATAAAATTGTTATAAAATGATCATTAAATCATTATAA
Found at i:31723 original size:22 final size:22
Alignment explanation
Indices: 31651--31723 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
31641 TACTAATATT
31651 ATTAAATTGTTATAAAATGATC
1 ATTAAATTGTTATAAAATGATC
** ** *
31673 ATTGCATCATTATAATAAT-ATT
1 ATTAAATTGTTATAA-AATGATC
* *
31695 ATAAAATTGTTATAGAATGATC
1 ATTAAATTGTTATAAAATGATC
31717 ATTAAAT
1 ATTAAAT
31724 CATTATAATA
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
21 3 0.08
22 30 0.83
23 3 0.08
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.41
Consensus pattern (22 bp):
ATTAAATTGTTATAAAATGATC
Found at i:31816 original size:31 final size:32
Alignment explanation
Indices: 31751--31816 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
31741 AGGTTCAATT
*
31751 AATTTAATTATAATTTTATAATACATATATAA
1 AATTTAATTATAATTTTATAATACATATAAAA
* * *
31783 AATTTAATTATTATTTTGTATTA-ATATAAAA
1 AATTTAATTATAATTTTATAATACATATAAAA
31814 AAT
1 AAT
31817 ATATTGTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (32 bp):
AATTTAATTATAATTTTATAATACATATAAAA
Found at i:32360 original size:29 final size:30
Alignment explanation
Indices: 32294--32359 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
32284 TTGAAATAAA
* * * *
32294 CCTAAAACTTTAAAAACTTTTATTTCAATC
1 CCTAAAACTTAAAAAACATTCATTTCAACC
32324 CCTAAAACTTAAAAAACATTCATTTCAACC
1 CCTAAAACTTAAAAAACATTCATTTCAACC
32354 CCTAAA
1 CCTAAA
32360 CCTATGTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (30 bp):
CCTAAAACTTAAAAAACATTCATTTCAACC
Found at i:33018 original size:2 final size:2
Alignment explanation
Indices: 33011--33057 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
33001 ACATACATAC
33011 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
33053 AT AT A
1 AT AT A
33058 CGTTAAGATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:49773 original size:16 final size:16
Alignment explanation
Indices: 49749--49830 Score: 128
Period size: 16 Copynumber: 5.1 Consensus size: 16
49739 GTATTACCCA
49749 ACCTGTTTTCAACCTG
1 ACCTGTTTTCAACCTG
*
49765 ACATGTTTTCAACCTG
1 ACCTGTTTTCAACCTG
* *
49781 ACTTGTTTTTAACCTG
1 ACCTGTTTTCAACCTG
49797 ACCTGTTTTCAACCTG
1 ACCTGTTTTCAACCTG
*
49813 ACCTGTTTTTAACCTG
1 ACCTGTTTTCAACCTG
49829 AC
1 AC
49831 TTGTAAATGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 60 1.00
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (16 bp):
ACCTGTTTTCAACCTG
Found at i:50125 original size:14 final size:14
Alignment explanation
Indices: 50103--50149 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
50093 TGCAAAGGAA
*
50103 AATTAATATAGTTT
1 AATTTATATAGTTT
50117 AATTTATATA----
1 AATTTATATAGTTT
50127 AA-TTATATAGTTT
1 AATTTATATAGTTT
50140 AATTTATATA
1 AATTTATATA
50150 AAAGACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:50136 original size:23 final size:24
Alignment explanation
Indices: 50102--50151 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
50092 ATGCAAAGGA
50102 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
50126 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
50149 AAA
1 AAA
50152 AGACAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:50465 original size:15 final size:15
Alignment explanation
Indices: 50445--50481 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
50435 TAATTTACTT
50445 TATATAGTTTATATA
1 TATATAGTTTATATA
50460 TATATAGTTTATATA
1 TATATAGTTTATATA
50475 TACTATA
1 TA-TATA
50482 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:50515 original size:13 final size:13
Alignment explanation
Indices: 50505--50531 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50495 TACATATTAT
50505 ATAAAATTATTTA
1 ATAAAATTATTTA
50518 ATAAAATTATTTA
1 ATAAAATTATTTA
50531 A
1 A
50532 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:50541 original size:15 final size:14
Alignment explanation
Indices: 50505--50547 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
50495 TACATATTAT
50505 ATAAAATTATTT-A
1 ATAAAATTATTTAA
50518 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
50532 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
50547 A
1 A
50548 ACACGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:50853 original size:14 final size:14
Alignment explanation
Indices: 50831--50900 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
50821 TCCATTTAAA
50831 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
50845 TTAGTGTTTATGGT
1 TTAGGGTTTATGGT
*** **
50859 TTAAATTTTA-GAA
1 TTAGGGTTTATGGT
*
50872 TTAGGGTTTAGGGT
1 TTAGGGTTTATGGT
*
50886 TTA-GGTTTAGGGT
1 TTAGGGTTTATGGT
50899 TT
1 TT
50901 CTATAAACTA
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
13 20 0.45
14 24 0.55
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:50882 original size:7 final size:7
Alignment explanation
Indices: 50872--50900 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
50862 AATTTTAGAA
50872 TTAGGGT
1 TTAGGGT
50879 TTAGGGT
1 TTAGGGT
50886 TTA-GGT
1 TTAGGGT
50892 TTAGGGT
1 TTAGGGT
50899 TT
1 TT
50901 CTATAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:50888 original size:20 final size:20
Alignment explanation
Indices: 50825--50900 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
50815 TACTAGTCCA
*
50825 TTTA-AATTAGGGTTTATGG
1 TTTAGAATTAGGGTTTAAGG
** * **
50844 TTTAGTGTTTATGGTTTAAAT
1 TTTAG-AATTAGGGTTTAAGG
*
50865 TTTAGAATTAGGGTTTAGGG
1 TTTAGAATTAGGGTTTAAGG
**
50885 TTTAGGTTTAGGGTTT
1 TTTAGAATTAGGGTTT
50901 CTATAAACTA
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
19 4 0.10
20 23 0.56
21 14 0.34
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (20 bp):
TTTAGAATTAGGGTTTAAGG
Found at i:50892 original size:13 final size:13
Alignment explanation
Indices: 50876--50900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50866 TTAGAATTAG
50876 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
50889 GGTTTAGGGTTT
1 GGTTTAGGGTTT
50901 CTATAAACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.48
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:51006 original size:530 final size:532
Alignment explanation
Indices: 50237--51476 Score: 1791
Period size: 530 Copynumber: 2.3 Consensus size: 532
50227 TTTTGGCAAT
* * * *
50237 ACATTAGTTTACAAAGG-TCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTG
1 ACATTAGTTTACATAGGCCCAATGC--AAGCCCACTCTTTTATTACAAATATATATGCATTAGTA
* * *
50301 CTAGTCCATTTAAATTAGGGTTTATAGTTTAGTATTTATGGTTTAAAGTTTAG-A--A--TTA-G
64 CTAGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAATTTTAGAATTAGTTTAGG
* *
50360 ----GGTTTA-GGTTTCTATAAATTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTTC
129 TTTAGGTTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTATTTC
*
50420 TATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTTATATATACTATACAT
194 TATAAACTATATAAGTAATTTACTTTATATAATTTATATATATATAGTTTATATATACTATACAT
50485 GGTTTATACATACATATTATATAAA-A-TT-AT-TTAATAAAATTATTTAAATGTAAATTATATA
259 GGTTTATACATACATATTATATAAATATTTAATATTAATAAAATTATTTAAATGTAAATTATATA
50546 AAACACGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATA
324 AAACACGATTAATTAGGTGTTAAATAATTAGTATGTCACATT-C-TA-TATATGGTTCATAAATA
*
50611 GTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATCTTAGGTTAATTCA
386 GTAGTACATGTCATATTAATTTAAATTGCATAATTAGTATTTTAGTTGCATCTTAGGTTAATTCA
* *
50676 CATTAAT-GACTCATTTATTTTGTTGTTATGAATAAGTAATAACAAAA-CC-CA-AA-AATTTGC
451 CATTAATAG-CCCATTTATTTTGTTGTTATGAATAAGTAATAACAAAATCCAAATAACAATTTGC
*
50736 AATGGTGCTAGTCCATTA
515 AATAGTGCTAGTCCATTA
*
50754 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTGGTACT
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTACT
50819 AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAATTTTAGAATTAGGGTTTAGG
66 AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAATTTTAGAATTA--GTTTA-G
50884 GTTTAGGTTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTATTT
128 GTTTAGGTTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTATTT
*
50949 CTATAAACTATATAAGTAATTTACTTTATATAATTTTTATATATATAGTTTATATATACTATACA
193 CTATAAACTATATAAGTAATTTACTTTATATAATTTATATATATATAGTTTATATATACTATACA
51014 TGGTTTATACATACATATTATATAAATTTATTTAATAAAATTAATAAAATTATTTAAATGTAAAT
258 TGGTTTATACATACATATTATATAAA--TATTTAAT---ATTAATAAAATTATTTAAATGTAAAT
*
51079 TATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTCTATATATGGTTCATAA
318 TATATAAAACACGATTAATTAGGTGTTAAATAATTAGTATGTCACATTCTATATATGGTTCATAA
* * *
51144 ATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTAGGTTAAT
383 ATAGTAGTACATGTCATATTAATTTAAATTGCATAATTAGTATTTTAGTTGCATCTTAGGTTAAT
*
51209 TCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAATCCAAAAATAAGTCA
448 TCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAACAAAATCC--AAATAA--CA
51274 ATTTGCAATAGTGCTAGTCCATTA
509 ATTTGCAATAGTGCTAGTCCATTA
* *
51298 ACATTAATTTAGATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGA-
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGT-AC
* ** * *
51362 TAGTCTATTTATTTTAGGGTTTATGATTTAGTGTTTA--G--T--ATTTGT-GATTTAAAGTTTA
65 TAGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAATTT-TAGAATT--AGTTTA
* *
51420 TGGTTTATGATTTAGGATTTCTATAAACTATATATTTTATTACTTTATATAGTTTAT
127 -GGTTTA-GGTTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTAT
51477 ATATATATAT
Statistics
Matches: 653, Mismatches: 32, Indels: 54
0.88 0.04 0.07
Matches are distributed among these distances:
516 86 0.13
517 17 0.03
518 5 0.01
519 1 0.00
523 3 0.00
525 1 0.00
529 6 0.01
530 140 0.21
533 1 0.00
534 2 0.00
535 2 0.00
536 121 0.19
537 5 0.01
538 20 0.03
539 120 0.18
540 3 0.00
541 2 0.00
542 1 0.00
544 116 0.18
545 1 0.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (532 bp):
ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTACT
AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAATTTTAGAATTAGTTTAGGTT
TAGGTTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTATTTCTA
TAAACTATATAAGTAATTTACTTTATATAATTTATATATATATAGTTTATATATACTATACATGG
TTTATACATACATATTATATAAATATTTAATATTAATAAAATTATTTAAATGTAAATTATATAAA
ACACGATTAATTAGGTGTTAAATAATTAGTATGTCACATTCTATATATGGTTCATAAATAGTAGT
ACATGTCATATTAATTTAAATTGCATAATTAGTATTTTAGTTGCATCTTAGGTTAATTCACATTA
ATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAACAAAATCCAAATAACAATTTGCAATAGT
GCTAGTCCATTA
Found at i:51056 original size:23 final size:25
Alignment explanation
Indices: 51030--51087 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 25
51020 ATACATACAT
*
51030 ATTATATAAATTTATTT-AAT-AAA
1 ATTATATAAAATTATTTAAATGAAA
*
51053 ATTA-ATAAAATTATTTAAATGTAA
1 ATTATATAAAATTATTTAAATGAAA
51077 ATTATATAAAA
1 ATTATATAAAA
51088 CATGATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 11 0.37
23 7 0.23
24 6 0.20
25 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
ATTATATAAAATTATTTAAATGAAA
Found at i:51399 original size:21 final size:21
Alignment explanation
Indices: 51374--51434 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
51364 GTCTATTTAT
*
51374 TTTAGGGTTTATGATTTAGTG
1 TTTAGGGTTTATGATTTAGAG
** * *
51395 TTTAGTATTTGTGATTTAAAG
1 TTTAGGGTTTATGATTTAGAG
*
51416 TTTATGGTTTATGATTTAG
1 TTTAGGGTTTATGATTTAG
51435 GATTTCTATA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (21 bp):
TTTAGGGTTTATGATTTAGAG
Found at i:51479 original size:2 final size:2
Alignment explanation
Indices: 51474--51503 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51464 TTATATAGTT
51474 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
51504 GTTTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51963 original size:40 final size:45
Alignment explanation
Indices: 51873--51970 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 45
51863 AAACACTATG
51873 CATATTATACATATCATACATGCATTAATAAATTATACATATATGCATA
1 CATATTATACATATCATACATGCATTAATAAA-TAT--ATATAT-CATA
*
51922 CATATTATACATA-CATGCATGCATTAATAAAT-TATATATACATA
1 CATATTATACATATCATACATGCATTAATAAATATATATAT-CATA
51966 TCATA
1 -CATA
51971 CATTCGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
44 10 0.22
45 4 0.09
46 1 0.02
47 1 0.02
48 17 0.37
49 13 0.28
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (45 bp):
CATATTATACATATCATACATGCATTAATAAATATATATATCATA
Found at i:53160 original size:22 final size:22
Alignment explanation
Indices: 53118--53160 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
53108 AAATAAAAAA
* *
53118 AATATCAGAAGTGTAAGAGTTT
1 AATATCAAAAGTGTAAAAGTTT
53140 AATATCAAAAGAT-TAAAAGTT
1 AATATCAAAAG-TGTAAAAGTT
53161 ATATTTAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (22 bp):
AATATCAAAAGTGTAAAAGTTT
Found at i:55232 original size:32 final size:32
Alignment explanation
Indices: 55187--55275 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
55177 TCAGCTCAGG
* * * *
55187 TCAATACCTGATCGGTTGATTTTTGGGTCGGG
1 TCAATACCAGATCGGTTGATTTTCGGATCGGA
* * *
55219 TTAATACCAGATCGGTTAAATTTCGGATCGGA
1 TCAATACCAGATCGGTTGATTTTCGGATCGGA
* *
55251 TCAATATCAAATCGGTTGATTTTCG
1 TCAATACCAGATCGGTTGATTTTCG
55276 ATTTAGGTCA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (32 bp):
TCAATACCAGATCGGTTGATTTTCGGATCGGA
Found at i:55986 original size:31 final size:31
Alignment explanation
Indices: 55932--55998 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
55922 TTTTACCAAT
* *
55932 TTAAATATGTTCGGGTTGCTTTCGGGTCGG-
1 TTAAATATGTTCAGGTTGCTTTCGGATCGGA
* *
55962 TTAAATTTGGTTCAGGTTTCTTTCGGATCGGA
1 TTAAATAT-GTTCAGGTTGCTTTCGGATCGGA
55994 TTAAA
1 TTAAA
55999 ATTCAGTTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 7 0.23
31 19 0.61
32 5 0.16
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.42
Consensus pattern (31 bp):
TTAAATATGTTCAGGTTGCTTTCGGATCGGA
Found at i:60723 original size:35 final size:33
Alignment explanation
Indices: 60684--60768 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
60674 TGTATTTAGT
60684 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
60719 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
60754 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
60769 TAAAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 2 0.05
38 13 0.30
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:64422 original size:49 final size:51
Alignment explanation
Indices: 64344--64472 Score: 147
Period size: 49 Copynumber: 2.5 Consensus size: 51
64334 ATAATTATAC
** *
64344 AAGGCGCGGTACCTGCACCGCGCCT-TATATAATTATATC-AG-TTAAAGGT
1 AAGGCGCGGCCCCTGCCCCGCG-CTATATATAATTATATCAAGATTAAAGGT
*
64393 AAGGCGCGGCCCCTGCCCCGCGCTATATATAATTATGTCAGAGAATTAAAGGT
1 AAGGCGCGGCCCCTGCCCCGCGCTATATATAATTATATCA-AG-ATTAAAGGT
* * *
64446 AATGCGCGACCCCTGACCCGCGCTATA
1 AAGGCGCGGCCCCTGCCCCGCGCTATA
64473 CCTTACGTGG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 2 0.03
49 32 0.47
51 2 0.03
53 32 0.47
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (51 bp):
AAGGCGCGGCCCCTGCCCCGCGCTATATATAATTATATCAAGATTAAAGGT
Found at i:64867 original size:17 final size:17
Alignment explanation
Indices: 64839--64881 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
64829 TTCTGCATAA
* *
64839 ATTTTATT-ATTTTCAT
1 ATTTTATTAAATTTAAT
64855 ATTTT-TTAAATTTAAT
1 ATTTTATTAAATTTAAT
64871 ATTTTATTAAA
1 ATTTTATTAAA
64882 ACTTTATCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 16 0.70
17 5 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTATTAAATTTAAT
Found at i:69010 original size:15 final size:15
Alignment explanation
Indices: 68990--69019 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68980 AAGTACCGAA
68990 GCATGAAGATGATCT
1 GCATGAAGATGATCT
*
69005 GCATGAAGGTGATCT
1 GCATGAAGATGATCT
69020 CTCTTGCTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (15 bp):
GCATGAAGATGATCT
Found at i:71121 original size:3 final size:3
Alignment explanation
Indices: 71109--71139 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
71099 AAAAAGCAAA
71109 AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
71140 ATAACATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Done.