Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 96 of 125
Found at i:18700143 original size:8 final size:8
Alignment explanation
Indices: 18700126--18700155 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
18700116 TTTTCAAATG
18700126 AAAATAAAA
1 AAAAT-AAA
18700135 AAAATAAA
1 AAAATAAA
18700143 AAAATAAA
1 AAAATAAA
18700151 AAAAT
1 AAAAT
18700156 CTTTTTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAATAAA
Found at i:18705624 original size:2 final size:2
Alignment explanation
Indices: 18705617--18705653 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
18705607 CACAACCTAG
18705617 TA TA TA TA TA TA TA TA TA TA TA T- TA TA T- TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18705654 CAAAGTTACA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18707348 original size:19 final size:18
Alignment explanation
Indices: 18707304--18707348 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
18707294 ATATATTAGT
18707304 ATTAAAATATTATTTAAA
1 ATTAAAATATTATTTAAA
* *
18707322 ATTTAAATATTATTTTAA
1 ATTAAAATATTATTTAAA
18707340 ATATAAAAT
1 AT-TAAAAT
18707349 TCGTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAAATATTATTTAAA
Found at i:18712416 original size:9 final size:9
Alignment explanation
Indices: 18712398--18712446 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
18712388 GAAATAGTGG
18712398 AAAA-AGAA
1 AAAAGAGAA
*
18712406 AAAAGACAA
1 AAAAGAGAA
*
18712415 AAGAGAGAA
1 AAAAGAGAA
18712424 AAAAGAGAA
1 AAAAGAGAA
18712433 AAAAGAGAGA
1 AAAAGAGA-A
18712443 AAAA
1 AAAA
18712447 AAAAGTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
8 4 0.11
9 26 0.74
10 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAGAA
Found at i:18712429 original size:11 final size:11
Alignment explanation
Indices: 18712413--18712447 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
18712403 GAAAAAAGAC
18712413 AAAAGAGAG-A
1 AAAAGAGAGAA
18712423 AAAA-AGAGAA
1 AAAAGAGAGAA
18712433 AAAAGAGAGAA
1 AAAAGAGAGAA
18712444 AAAA
1 AAAA
18712448 AAAGTTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.17
10 9 0.39
11 10 0.43
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAGAGAGAA
Found at i:18712436 original size:20 final size:19
Alignment explanation
Indices: 18712404--18712448 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
18712394 GTGGAAAAAG
*
18712404 AAAAAAGACAAAAGAGAGA
1 AAAAAAGAAAAAAGAGAGA
18712423 AAAAAGAGAAAAAAGAGAGA
1 AAAAA-AGAAAAAAGAGAGA
18712443 AAAAAA
1 AAAAAA
18712449 AAGTTTTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAAGAGAGA
Found at i:18713009 original size:25 final size:25
Alignment explanation
Indices: 18712974--18713021 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
18712964 AAAAGAGTTT
*
18712974 ATTCCATATGATCTTTTTCTTGTTC
1 ATTCCACATGATCTTTTTCTTGTTC
18712999 ATTCCACATGATCTTTTTCTTGT
1 ATTCCACATGATCTTTTTCTTGT
18713022 AATAACTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.17, C:0.21, G:0.08, T:0.54
Consensus pattern (25 bp):
ATTCCACATGATCTTTTTCTTGTTC
Found at i:18713692 original size:11 final size:11
Alignment explanation
Indices: 18713615--18713688 Score: 78
Period size: 11 Copynumber: 6.8 Consensus size: 11
18713605 AAGAATGCAA
*
18713615 AAAAAAAAAAT
1 AAAAGAAAAAT
18713626 AAAAGAAAAAT
1 AAAAGAAAAAT
18713637 AAAAGAAAAAT
1 AAAAGAAAAAT
* **
18713648 AAAAGGAAAGG
1 AAAAGAAAAAT
* *
18713659 AAAGGAAGAAT
1 AAAAGAAAAAT
*
18713670 AAAAGAAAGA-
1 AAAAGAAAAAT
18713680 AAAAGAAAA
1 AAAAGAAAA
18713689 GAAATGAATG
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 8 0.16
11 42 0.84
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (11 bp):
AAAAGAAAAAT
Found at i:18714080 original size:20 final size:21
Alignment explanation
Indices: 18714036--18714091 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
18714026 ATGGTGTAAT
*
18714036 AATAAAAAAAGTAAAATAAGCA
1 AATAAAAAAAG-AAAAAAAGCA
18714058 AATAAAAAAAGAAAAAAAG-A
1 AATAAAAAAAGAAAAAAAGCA
* *
18714078 AATAGAAATAGAAA
1 AATAAAAAAAGAAA
18714092 TAGAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 13 0.42
21 7 0.23
22 11 0.35
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (21 bp):
AATAAAAAAAGAAAAAAAGCA
Found at i:18714104 original size:12 final size:12
Alignment explanation
Indices: 18714071--18714104 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18714061 AAAAAAAGAA
18714071 AAAAAGAAATAG
1 AAAAAGAAATAG
*
18714083 AAATAGAAATAG
1 AAAAAGAAATAG
*
18714095 AAAAATAAAT
1 AAAAAGAAAT
18714105 GTAACTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (12 bp):
AAAAAGAAATAG
Found at i:18714883 original size:22 final size:21
Alignment explanation
Indices: 18714825--18714883 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 21
18714815 TTAACCAACT
18714825 CATAAGCCCAATTTAATTGGCA
1 CATAAGCCCAA-TTAATTGGCA
18714847 CATAAGCCCAGATTAATTGGCA
1 CATAAGCCCA-ATTAATTGGCA
18714869 CATAAGCCCGAATTA
1 CATAAGCCC-AATTA
18714884 GTTGAAAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
22 33 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
CATAAGCCCAATTAATTGGCA
Found at i:18715252 original size:32 final size:33
Alignment explanation
Indices: 18715209--18715298 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 33
18715199 GTTGGCACCC
*
18715209 AAATTTT-AGTCCAGTTTATTTAGCAAC-AATG
1 AAATTTTAAGTCCAGTTTAGTTAGCAACTAATG
* * * *
18715240 AAGTTTTAAGTCCAGTATAGTTGGCACCTAATG
1 AAATTTTAAGTCCAGTTTAGTTAGCAACTAATG
* * *
18715273 AAAATTTAAGCCCAGTTTAGCTAGCA
1 AAATTTTAAGTCCAGTTTAGTTAGCA
18715299 CTCAAGTTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
31 6 0.13
32 16 0.35
33 24 0.52
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (33 bp):
AAATTTTAAGTCCAGTTTAGTTAGCAACTAATG
Found at i:18715575 original size:35 final size:35
Alignment explanation
Indices: 18715494--18715610 Score: 112
Period size: 35 Copynumber: 3.3 Consensus size: 35
18715484 TTCAATCTTG
*
18715494 ATCATCATTTATT-TCTCGACTTGCTA-TTCAATCCTA
1 ATCATC-TTTATTCTCT-GACTTGC-AGTTCAGTCCTA
* * * * *
18715530 GTCATATTTATTCTCTGACTTGCGGTTCAGTTCTG
1 ATCATCTTTATTCTCTGACTTGCAGTTCAGTCCTA
* * *
18715565 ATTATCTTTATTCTTTTACTTGCAGTTCAGTCCTA
1 ATCATCTTTATTCTCTGACTTGCAGTTCAGTCCTA
18715600 ATCATCTTTAT
1 ATCATCTTTAT
18715611 CTTTCAACTT
Statistics
Matches: 64, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
35 57 0.89
36 7 0.11
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (35 bp):
ATCATCTTTATTCTCTGACTTGCAGTTCAGTCCTA
Found at i:18715843 original size:1 final size:1
Alignment explanation
Indices: 18715839--18715903 Score: 76
Period size: 1 Copynumber: 65.0 Consensus size: 1
18715829 TTTTTTTTCC
* * ** **
18715839 AAAAAAAAAAAAAAAAAAAAAAACAAAAAAAAAAAAACAAAAGCAAAAAAAAAAAGTAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18715904 TTGAAGAATC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.91, C:0.05, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:18715899 original size:19 final size:20
Alignment explanation
Indices: 18715839--18715903 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
18715829 TTTTTTTTCC
18715839 AAAA-AAAAAAAAAAAAAAA
1 AAAACAAAAAAAAAAAAAAA
*
18715858 AAAACAAAAAAAAAAAAACA
1 AAAACAAAAAAAAAAAAAAA
*
18715878 AAAGCAAAAAAAAAAAGTAAAA
1 AAAACAAAAAAAAAAA--AAAA
18715900 AAAA
1 AAAA
18715904 TTGAAGAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 4 0.10
20 29 0.74
22 6 0.15
ACGTcount: A:0.91, C:0.05, G:0.03, T:0.02
Consensus pattern (20 bp):
AAAACAAAAAAAAAAAAAAA
Found at i:18716084 original size:3 final size:3
Alignment explanation
Indices: 18716076--18716103 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18716066 TTAATAAGTA
18716076 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18716104 TATGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18717032 original size:22 final size:22
Alignment explanation
Indices: 18717007--18717189 Score: 140
Period size: 22 Copynumber: 8.1 Consensus size: 22
18716997 ATTATTTTTA
* *
18717007 ATTTATTACTAAGTTATTAGTG
1 ATTTATTACTAAATTATTAATG
*
18717029 ATTTACTACTAAGCAATTAATTCAATG
1 ATTTATTACT-A--AATT-ATT-AATG
* * *
18717056 ATTTAGTATTAAATTATCAATG
1 ATTTATTACTAAATTATTAATG
**
18717078 ATTTATTACT-AATTATTGTTG
1 ATTTATTACTAAATTATTAATG
* *
18717099 ATTTATTATTAAATTATTAATA
1 ATTTATTACTAAATTATTAATG
18717121 ATTTATTA-TAAAATTA-TAATTG
1 ATTTATTACT-AAATTATTAA-TG
* *
18717143 ATTTATTACTAATTTATCAATG
1 ATTTATTACTAAATTATTAATG
* *
18717165 ATTTAATA-TAGAGTTATTAATG
1 ATTTATTACTA-AATTATTAATG
18717187 ATT
1 ATT
18717190 AACTAATTTA
Statistics
Matches: 129, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
21 23 0.18
22 78 0.60
23 6 0.05
24 4 0.03
25 3 0.02
26 4 0.03
27 11 0.09
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.49
Consensus pattern (22 bp):
ATTTATTACTAAATTATTAATG
Found at i:18717146 original size:65 final size:69
Alignment explanation
Indices: 18717007--18717156 Score: 177
Period size: 65 Copynumber: 2.2 Consensus size: 69
18716997 ATTATTTTTA
* *
18717007 ATTTATTACTAAGTTATTAGTGATTTACTACTAAGCAATTAATTCAATGATTTAGTATTAAATTA
1 ATTTATTACTAA-TTATTAGTGATTTACTACTAA-CAATTAATTCAATAATTTAGTATAAAATTA
18717072 TCAATG
64 TCAATG
* * *
18717078 ATTTATTACTAATTATT-GTTGATTTATTA-TTA-AATT-ATT-AATAATTTATTATAAAATTAT
1 ATTTATTACTAATTATTAG-TGATTTACTACTAACAATTAATTCAATAATTTAGTATAAAATTAT
18717138 -AATTG
65 CAA-TG
18717143 ATTTATTACTAATT
1 ATTTATTACTAATT
18717157 TATCAATGAT
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
64 2 0.03
65 34 0.47
66 3 0.04
67 4 0.06
69 3 0.04
70 14 0.19
71 12 0.17
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (69 bp):
ATTTATTACTAATTATTAGTGATTTACTACTAACAATTAATTCAATAATTTAGTATAAAATTATC
AATG
Found at i:18717157 original size:11 final size:11
Alignment explanation
Indices: 18717078--18717223 Score: 52
Period size: 11 Copynumber: 13.5 Consensus size: 11
18717068 ATTATCAATG
18717078 ATTTATTACTA
1 ATTTATTACTA
** *
18717089 A-TTATTGTTG
1 ATTTATTACTA
*
18717099 ATTTATTATTA
1 ATTTATTACTA
* *
18717110 AATTATTAATA
1 ATTTATTACTA
18717121 ATTTATTA-TAA
1 ATTTATTACT-A
* * * *
18717132 AATTATAATTG
1 ATTTATTACTA
18717143 ATTTATTACTA
1 ATTTATTACTA
* * *
18717154 ATTTATCAATG
1 ATTTATTACTA
*
18717165 ATTTAATA-TA
1 ATTTATTACTA
* * *
18717175 GAGTTATTAATG
1 -ATTTATTACTA
18717187 A-TTA--ACTA
1 ATTTATTACTA
18717195 ATTTATTACTAA
1 ATTTATTACT-A
* *
18717207 ATTAATCACTA
1 ATTTATTACTA
18717218 ATTTAT
1 ATTTAT
18717224 AATAATGTTT
Statistics
Matches: 97, Mismatches: 29, Indels: 18
0.67 0.20 0.12
Matches are distributed among these distances:
8 3 0.03
9 3 0.03
10 12 0.12
11 68 0.70
12 11 0.11
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (11 bp):
ATTTATTACTA
Found at i:18717309 original size:22 final size:21
Alignment explanation
Indices: 18717259--18717310 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
18717249 TAAATTACCA
18717259 ATAATTTATTATTATGTTATC
1 ATAATTTATTATTATGTTATC
*
18717280 ATATATTTATTATTATGTTGTC
1 ATA-ATTTATTATTATGTTATC
18717302 ATTAATTTA
1 A-TAATTTA
18717311 CCACTTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.11
22 23 0.82
23 2 0.07
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (21 bp):
ATAATTTATTATTATGTTATC
Found at i:18717530 original size:22 final size:22
Alignment explanation
Indices: 18717491--18717532 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18717481 ATTAACTATG
*
18717491 AAATTATTATTGATTTATTACT
1 AAATTATTATTGACTTATTACT
18717513 AAATTATT-TATGACTTATTA
1 AAATTATTAT-TGACTTATTA
18717533 AGTTTCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (22 bp):
AAATTATTATTGACTTATTACT
Found at i:18718064 original size:22 final size:22
Alignment explanation
Indices: 18718039--18718143 Score: 106
Period size: 22 Copynumber: 4.8 Consensus size: 22
18718029 AAAATTATCA
* *
18718039 ATTTACTACTAATTTATGAATG
1 ATTTACTATTAAGTTATGAATG
* *
18718061 ATTTATTATTAAGTTATGGATG
1 ATTTACTATTAAGTTATGAATG
*
18718083 ATTTA-TCATTAAGTTATGAATA
1 ATTTACT-ATTAAGTTATGAATG
* * *
18718105 ATTTACTATTAAATTGTTAA-G
1 ATTTACTATTAAGTTATGAATG
18718126 AATTTACTATTAAGTTAT
1 -ATTTACTATTAAGTTAT
18718144 TGTTGATTTA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.01
22 66 0.97
23 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAGTTATGAATG
Found at i:18718220 original size:22 final size:22
Alignment explanation
Indices: 18718187--18718231 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
18718177 AACTTGATTC
*
18718187 TTAGTATCTTACTATTATATTA
1 TTAGTATCTTACTATTAAATTA
18718209 TTAGTGAT-TTACTATTAAATTA
1 TTAGT-ATCTTACTATTAAATTA
18718231 T
1 T
18718232 CAATTTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (22 bp):
TTAGTATCTTACTATTAAATTA
Found at i:18718465 original size:44 final size:43
Alignment explanation
Indices: 18718409--18718525 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 43
18718399 TTTTCTTTTT
* *
18718409 AATT-TTTGATTATTTACTGTAAAATTATTATCAATTTATTAGTA
1 AATTATTT-ATTATTTACTATAAAATTATCATCAATTTA-TAGTA
* * * ** *
18718453 AATTATTTATTATTCACCATCAGGTTATCATCAATTTATATTA
1 AATTATTTATTATTTACTATAAAATTATCATCAATTTATAGTA
* * *
18718496 AATTATTTATAATTTACTATTAAGTTATCA
1 AATTATTTATTATTTACTATAAAATTATCA
18718526 ATAATTAACT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
43 29 0.49
44 27 0.46
45 3 0.05
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.50
Consensus pattern (43 bp):
AATTATTTATTATTTACTATAAAATTATCATCAATTTATAGTA
Found at i:18718523 original size:22 final size:22
Alignment explanation
Indices: 18718477--18718540 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
18718467 CACCATCAGG
18718477 TTATC-ATCAATTTA-TATTAAA
1 TTATCAAT-AATTTACTATTAAA
** *
18718498 TTATTTATAATTTACTATTAAG
1 TTATCAATAATTTACTATTAAA
*
18718520 TTATCAATAATTAACTATTAA
1 TTATCAATAATTTACTATTAA
18718541 CTATTAAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (22 bp):
TTATCAATAATTTACTATTAAA
Found at i:18718523 original size:43 final size:44
Alignment explanation
Indices: 18718433--18718525 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 44
18718423 TACTGTAAAA
* * *
18718433 TTATTATCAATTTATTAGTAAATTATTTATTATTCACCATCAGG
1 TTATCATCAATTTATTAGTAAATTATTTATAATTCACCATCAAG
* * * *
18718477 TTATCATCAATTTA-TATTAAATTATTTATAATTTACTATTAAG
1 TTATCATCAATTTATTAGTAAATTATTTATAATTCACCATCAAG
18718520 TTATCA
1 TTATCA
18718526 ATAATTAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 29 0.69
44 13 0.31
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (44 bp):
TTATCATCAATTTATTAGTAAATTATTTATAATTCACCATCAAG
Found at i:18718623 original size:22 final size:22
Alignment explanation
Indices: 18718597--18718943 Score: 87
Period size: 22 Copynumber: 16.0 Consensus size: 22
18718587 TTAAATTTCC
*
18718597 AATTATCAATTATTTACTATTA
1 AATTATTAATTATTTACTATTA
* *
18718619 AATTATTATTTATTTACCATTA
1 AATTATTAATTATTTACTATTA
** * * *
18718641 GGTTATTTATAATTTACTACTA
1 AATTATTAATTATTTACTATTA
* *
18718663 TAA--ATTAATTACTATTA-AATCA
1 -AATTATTAATTA-T-TTACTATTA
*
18718685 AA--ATTGA-T-TT-ACTATTA
1 AATTATTAATTATTTACTATTA
* * *
18718702 AACTATTGATAATTTACTATTA
1 AATTATTAATTATTTACTATTA
* * *
18718724 AATCATT-ATTGATTTATTACTA
1 AATTATTAATT-ATTTACTATTA
* * * *
18718746 AGTTATTAATGATTAACTATTG
1 AATTATTAATTATTTACTATTA
* * * ** *
18718768 AGTTATCACTTATTTTTTAGTA
1 AATTATTAATTATTTACTATTA
** * *
18718790 AGCTATT-TTTGATTTACTACTA
1 AATTATTAATT-ATTTACTATTA
* * ***
18718812 TATTGTTACGCATTTA-TAGTTA
1 AATTATTAATTATTTACTA-TTA
* *
18718834 TATTA-TAATTTATTTACTA-CA
1 AATTATTAA-TTATTTACTATTA
18718855 AAGTTATT-ATGTATTTACTATTA
1 AA-TTATTAAT-TATTTACTATTA
** * *
18718878 TGTTATT-ATTGATTTATTACTA
1 AATTATTAATT-ATTTACTATTA
* *
18718900 AGTTATTAATTATTTACTACTA
1 AATTATTAATTATTTACTATTA
18718922 AATTATT-ATTCATTTACTATTA
1 AATTATTAATT-ATTTACTATTA
18718944 GGTTATCACT
Statistics
Matches: 232, Mismatches: 70, Indels: 46
0.67 0.20 0.13
Matches are distributed among these distances:
16 1 0.00
17 6 0.03
18 1 0.00
19 5 0.02
20 1 0.00
21 29 0.12
22 177 0.76
23 12 0.05
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (22 bp):
AATTATTAATTATTTACTATTA
Found at i:18718695 original size:61 final size:61
Alignment explanation
Indices: 18718604--18718720 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
18718594 TCCAATTATC
* * ** * *** *
18718604 AATTATTTACTATTAAATTATTATTTATTTACCATTAGGTTATTTATAATTTACTACTATA
1 AATTAATTACTATTAAATCAAAATTGATTTACCATTAAACTATTGATAATTTACTACTATA
*
18718665 AATTAATTACTATTAAATCAAAATTGATTTACTATTAAACTATTGATAATTTACTA
1 AATTAATTACTATTAAATCAAAATTGATTTACCATTAAACTATTGATAATTTACTA
18718721 TTAAATCATT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (61 bp):
AATTAATTACTATTAAATCAAAATTGATTTACCATTAAACTATTGATAATTTACTACTATA
Found at i:18718765 original size:44 final size:44
Alignment explanation
Indices: 18718659--18718766 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 44
18718649 ATAATTTACT
* *
18718659 ACTATAAATTAATT-ACTATTAAATCAAAATTGATTTACTATTAA
1 ACTATTAA-TAATTAACTATTAAATCAAAATTGATTTACTACTAA
* * ** *
18718703 ACTATTGATAATTTACTATTAAATCATTATTGATTTATTACTAA
1 ACTATTAATAATTAACTATTAAATCAAAATTGATTTACTACTAA
** *
18718747 GTTATTAATGATTAACTATT
1 ACTATTAATAATTAACTATT
18718767 GAGTTATCAC
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 5 0.10
44 47 0.90
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (44 bp):
ACTATTAATAATTAACTATTAAATCAAAATTGATTTACTACTAA
Found at i:18718871 original size:44 final size:44
Alignment explanation
Indices: 18718823--18718940 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 44
18718813 ATTGTTACGC
*
18718823 ATTTA-TAGTTATATTATAATTTATTTACTACAAAGTTATT-ATGT
1 ATTTACTA-TTATATTATAATTGATTTACTACAAAGTTATTAAT-T
* * * *
18718867 ATTTACTATTATGTTATTATTGATTTATTACTAAGTTATTAATT
1 ATTTACTATTATATTATAATTGATTTACTACAAAGTTATTAATT
* * * *
18718911 ATTTACTACTAAATTATTATTCATTTACTA
1 ATTTACTATTATATTATAATTGATTTACTA
18718941 TTAGGTTATC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 58 0.94
45 4 0.06
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (44 bp):
ATTTACTATTATATTATAATTGATTTACTACAAAGTTATTAATT
Found at i:18718893 original size:66 final size:66
Alignment explanation
Indices: 18718843--18718992 Score: 180
Period size: 66 Copynumber: 2.3 Consensus size: 66
18718833 ATATTATAAT
*
18718843 TTATTTACTAC-AAAGTTATTATGT-ATTTACTATTATGTTATTATTGATTTATTACTAAGTTAT
1 TTATTTACTACTAAA-TTATTAT-TCATTTACTATTAGGTTATTATTGATTTATTACTAAGTTAT
18718906 TAA
64 TAA
* * * * * *
18718909 TTATTTACTACTAAATTATTATTCATTTACTATTAGGTTATCACTGATTAACTACTAATTTATTG
1 TTATTTACTACTAAATTATTATTCATTTACTATTAGGTTATTATTGATTTATTACTAAGTTATTA
18718974 A
66 A
* *
18718975 -TAATTACTACTTAATTAT
1 TTATTTACTACTAAATTAT
18718993 ACTAATTACT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
65 17 0.23
66 53 0.73
67 3 0.04
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (66 bp):
TTATTTACTACTAAATTATTATTCATTTACTATTAGGTTATTATTGATTTATTACTAAGTTATTA
A
Found at i:18718949 original size:22 final size:21
Alignment explanation
Indices: 18718843--18718985 Score: 117
Period size: 22 Copynumber: 6.6 Consensus size: 21
18718833 ATATTATAAT
*
18718843 TTATTTACTACAAAGTTATTA
1 TTATTTACTACTAAGTTATTA
* *
18718864 TGTATTTACTATTATGTTATTA
1 T-TATTTACTACTAAGTTATTA
*
18718886 TTGATTTATTACTAAGTTATTAA
1 TT-ATTTACTACTAAGTTATT-A
*
18718909 TTATTTACTACTAAATTATTA
1 TTATTTACTACTAAGTTATTA
* * *
18718930 TTCATTTACTATTAGGTTATCA
1 TT-ATTTACTACTAAGTTATTA
* * *
18718952 CTGATTAACTACTAATTTATTGA
1 -TTATTTACTACTAAGTTATT-A
*
18718975 -TAATTACTACT
1 TTATTTACTACT
18718986 TAATTATACT
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
21 13 0.14
22 77 0.81
23 5 0.05
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (21 bp):
TTATTTACTACTAAGTTATTA
Found at i:18722063 original size:17 final size:17
Alignment explanation
Indices: 18722006--18722063 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
18721996 AATTGAAAAT
*
18722006 TGAAAATTTCTT-TTATT
1 TGAAAATTT-TTATTATA
*
18722023 TGAAAAATTTTATTATA
1 TGAAAATTTTTATTATA
18722040 T-ATAAATTTTTATTATA
1 TGA-AAATTTTTATTATA
18722057 TGAAAAT
1 TGAAAAT
18722064 ATTAAAATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 3 0.09
17 31 0.89
18 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (17 bp):
TGAAAATTTTTATTATA
Found at i:18726023 original size:60 final size:60
Alignment explanation
Indices: 18725923--18726058 Score: 175
Period size: 60 Copynumber: 2.2 Consensus size: 60
18725913 TAAATCACCA
* * *
18725923 CCACCACCACCATTGCATCCCAAGCCCTACAAAGCCCCACCTCCTCATTACATCTACAAGTCG
1 CCACCACCACCA---CATCCCAAGCCCTACAAAGCCCCACCTCCCCATTACATCTACAAATCC
* *
18725986 CCACCACCACCACATCCCCAGCCCTACAAA-CCGCCACCTCCCCATTACGTCTACAAATCC
1 CCACCACCACCACATCCCAAGCCCTACAAAGCC-CCACCTCCCCATTACATCTACAAATCC
*
18726046 CCACCACCGCCAC
1 CCACCACCACCAC
18726059 CACCGCCACC
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
59 2 0.03
60 52 0.79
63 12 0.18
ACGTcount: A:0.28, C:0.51, G:0.07, T:0.14
Consensus pattern (60 bp):
CCACCACCACCACATCCCAAGCCCTACAAAGCCCCACCTCCCCATTACATCTACAAATCC
Found at i:18726060 original size:66 final size:64
Alignment explanation
Indices: 18725897--18726062 Score: 171
Period size: 60 Copynumber: 2.6 Consensus size: 64
18725887 CATTCACCAA
* ***
18725897 CTCCTCATTACGTCTATAAATCACCACCACCACCACCATTGCATCCCAAGCCCTACAAAGCCCCA
1 CTCCTCATTACGTCTACAAATC-CCACCACC-CCACCACCACATCCCAAGCCCTACAAAGCCCCA
18725962 C
64 C
* * * *
18725963 CTCCTCATTACATCTACAAGT--CGCCA--CCACCACCACATCCCCAGCCCTACAAA-CCGCCAC
1 CTCCTCATTACGTCTACAAATCCCACCACCCCACCACCACATCCCAAGCCCTACAAAGCC-CCAC
*
18726023 CTCCCCATTACGTCTACAAATCCCCACCACCGCCACCACC
1 CTCCTCATTACGTCTACAAAT-CCCACCACC-CCACCACC
18726063 GCCACCAGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
59 2 0.02
60 45 0.56
63 8 0.10
66 26 0.32
ACGTcount: A:0.28, C:0.49, G:0.06, T:0.16
Consensus pattern (64 bp):
CTCCTCATTACGTCTACAAATCCCACCACCCCACCACCACATCCCAAGCCCTACAAAGCCCCAC
Found at i:18730221 original size:12 final size:13
Alignment explanation
Indices: 18730189--18730229 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
18730179 AAAAAGAAGG
18730189 AATGGGAAAAAGA
1 AATGGGAAAAAGA
*
18730202 CATGGGAAAAAGA
1 AATGGGAAAAAGA
*
18730215 AAT-GGAAAAAAA
1 AATGGGAAAAAGA
18730227 AAT
1 AAT
18730230 TATATTATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.63, C:0.02, G:0.24, T:0.10
Consensus pattern (13 bp):
AATGGGAAAAAGA
Found at i:18735840 original size:13 final size:13
Alignment explanation
Indices: 18735822--18735854 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18735812 GCTAAGGTCT
18735822 GGTTTTAGGGTTA
1 GGTTTTAGGGTTA
*
18735835 GGTTTTAGGTTTA
1 GGTTTTAGGGTTA
18735848 GGTTTTA
1 GGTTTTA
18735855 AGATGCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (13 bp):
GGTTTTAGGGTTA
Found at i:18737160 original size:26 final size:25
Alignment explanation
Indices: 18737126--18737186 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 25
18737116 GTTTGTTTAT
* *
18737126 TGTTAATGAATGTGTTCATTTATATA
1 TGTTTATGAATGTATTCATTTA-ATA
**
18737152 TGTTTATGAACATATTCATTTAATA
1 TGTTTATGAATGTATTCATTTAATA
18737177 --TTTATGAATG
1 TGTTTATGAATG
18737187 AACTTGTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 8 0.28
25 3 0.10
26 18 0.62
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (25 bp):
TGTTTATGAATGTATTCATTTAATA
Found at i:18740464 original size:11 final size:11
Alignment explanation
Indices: 18740450--18740477 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18740440 TTTTCCATCC
18740450 TTTTTTTCTAA
1 TTTTTTTCTAA
18740461 TTTTTTTCTAA
1 TTTTTTTCTAA
18740472 TTTTTT
1 TTTTTT
18740478 ATTTCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTAA
Found at i:18743250 original size:39 final size:39
Alignment explanation
Indices: 18743201--18743317 Score: 225
Period size: 39 Copynumber: 3.0 Consensus size: 39
18743191 TTCACAAGGT
*
18743201 TTTAACACTTGAATTTTATATAGTTGGAAAGCTCTTTGA
1 TTTAATACTTGAATTTTATATAGTTGGAAAGCTCTTTGA
18743240 TTTAATACTTGAATTTTATATAGTTGGAAAGCTCTTTGA
1 TTTAATACTTGAATTTTATATAGTTGGAAAGCTCTTTGA
18743279 TTTAATACTTGAATTTTATATAGTTGGAAAGCTCTTTGA
1 TTTAATACTTGAATTTTATATAGTTGGAAAGCTCTTTGA
18743318 GTCTACTTTC
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (39 bp):
TTTAATACTTGAATTTTATATAGTTGGAAAGCTCTTTGA
Found at i:18750997 original size:20 final size:20
Alignment explanation
Indices: 18750961--18750999 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18750951 TAAATTTATA
*
18750961 TATTTAATAAATTAATTTTT
1 TATTTAATAAATGAATTTTT
18750981 TATTTAAT-AATAGAATTTT
1 TATTTAATAAAT-GAATTTT
18751000 AATTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TATTTAATAAATGAATTTTT
Found at i:18752413 original size:17 final size:17
Alignment explanation
Indices: 18752370--18752444 Score: 64
Period size: 17 Copynumber: 4.3 Consensus size: 17
18752360 TATATCAAAC
18752370 ATGATAATTTAAAATCACT
1 ATGATAA-TT-AAATCACT
*
18752389 A-CAGTAATTAAATCACT
1 ATGA-TAATTAAATCACT
* *
18752406 TTGATAATCT-TATCACT
1 ATGATAAT-TAAATCACT
*
18752423 ATGATAATTAAATTACT
1 ATGATAATTAAATCACT
18752440 ATGAT
1 ATGAT
18752445 GATCTAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
16 1 0.02
17 35 0.78
18 5 0.11
19 4 0.09
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (17 bp):
ATGATAATTAAATCACT
Found at i:18752423 original size:34 final size:34
Alignment explanation
Indices: 18752383--18752449 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
18752373 ATAATTTAAA
*
18752383 ATCACTACAG-TAATTAAATCACTTTGATAATCTT
1 ATCACTA-AGATAATTAAATCACTATGATAATCTT
* * *
18752417 ATCACTATGATAATTAAATTACTATGATGATCT
1 ATCACTAAGATAATTAAATCACTATGATAATCT
18752450 AAAAATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (34 bp):
ATCACTAAGATAATTAAATCACTATGATAATCTT
Found at i:18752634 original size:14 final size:13
Alignment explanation
Indices: 18752595--18752701 Score: 74
Period size: 12 Copynumber: 8.7 Consensus size: 13
18752585 ATAAATTTTG
18752595 TAAATAATAATA-
1 TAAATAATAATAT
18752607 T-AA-AATAATA-
1 TAAATAATAATAT
18752617 TAAATAATAATAT
1 TAAATAATAATAT
*
18752630 CT-AA-AA-AATAA
1 -TAAATAATAATAT
18752641 TAAAT-ATAATAT
1 TAAATAATAATAT
*
18752653 TATA-AATAAT-T
1 TAAATAATAATAT
18752664 TATAATTAATAATATT
1 TA-AA-TAATAATA-T
18752680 TAAATAATAATA-
1 TAAATAATAATAT
18752692 TATAATAATA
1 TA-AATAATA
18752702 GATAGTGGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 27
0.71 0.04 0.25
Matches are distributed among these distances:
10 9 0.12
11 14 0.18
12 25 0.32
13 9 0.12
14 15 0.19
15 2 0.03
16 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATAATAATAT
Found at i:18752675 original size:35 final size:34
Alignment explanation
Indices: 18752570--18752700 Score: 92
Period size: 35 Copynumber: 3.8 Consensus size: 34
18752560 CTTAAATATA
*
18752570 AATAATAAAA-AAT-TTATAAAT--TTTGTAAAT
1 AATAATAAAATAATATTATAAATAATTTATAAAT
* * * *
18752600 AATAATATAAAATAATA-TAAATAATAATATCTAAAA
1 AAT-A-ATAAAATAATATTATA-AATAATTTATAAAT
*
18752636 AATAATAAATATAATATTATAAATAATTTATAATT
1 AATAATAAA-ATAATATTATAAATAATTTATAAAT
*
18752671 AATAATATTTAAATAATAATATATAATAAT
1 AATAATA---AAATAATATTATA-AATAAT
18752701 AGATAGTGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
30 3 0.04
31 1 0.01
32 6 0.08
33 6 0.08
34 8 0.10
35 24 0.31
36 12 0.15
37 10 0.13
38 8 0.10
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (34 bp):
AATAATAAAATAATATTATAAATAATTTATAAAT
Found at i:18752696 original size:10 final size:10
Alignment explanation
Indices: 18752598--18752701 Score: 71
Period size: 10 Copynumber: 10.9 Consensus size: 10
18752588 AATTTTGTAA
18752598 ATAATAATAT
1 ATAATAATAT
*
18752608 AAAATAATAT
1 ATAATAATAT
18752618 AAATAATAATAT
1 --ATAATAATAT
*
18752630 CTAA-AA-A-
1 ATAATAATAT
18752637 ATAATAA-AT
1 ATAATAATAT
*
18752646 ATAATATTAT
1 ATAATAATAT
*
18752656 A-AATAATTT
1 ATAATAATAT
18752665 ATAAT--TA-
1 ATAATAATAT
* *
18752672 ATAATATTTAA
1 ATAATA-ATAT
18752683 ATAATAATAT
1 ATAATAATAT
18752693 ATAATAATA
1 ATAATAATA
18752702 GATAGTGGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
7 8 0.11
8 5 0.07
9 15 0.20
10 31 0.42
11 6 0.08
12 9 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATAATAT
Found at i:18753065 original size:2 final size:2
Alignment explanation
Indices: 18753058--18753087 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18753048 GGCATATTAA
18753058 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
18753088 TAGGTTTGAA
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):
AT
Found at i:18754404 original size:21 final size:21
Alignment explanation
Indices: 18754378--18754420 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18754368 CTTCTACATG
18754378 TCACCACCTCCACCTCCACCA
1 TCACCACCTCCACCTCCACCA
* **
18754399 TCACCATCTCCTTCTCCACCA
1 TCACCACCTCCACCTCCACCA
18754420 T
1 T
18754421 ATATTTACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.56, G:0.00, T:0.23
Consensus pattern (21 bp):
TCACCACCTCCACCTCCACCA
Found at i:18754438 original size:42 final size:43
Alignment explanation
Indices: 18754391--18754535 Score: 143
Period size: 42 Copynumber: 3.4 Consensus size: 43
18754381 CCACCTCCAC
*
18754391 CTCCACCAT-CACCATCTCCT-TCTCCACCATATATTTACAAGT
1 CTCCACC-TCCACCATCTCCTACCTCCACCATATATTTACAAGT
* * * * * *
18754433 CTCCACCTCCACCAT-TGCTACCTCCTCCTTATGTCTATAAGT
1 CTCCACCTCCACCATCTCCTACCTCCACCATATATTTACAAGT
* * * *
18754475 CCCCACCTCCACCATCACCATCGCCTCCATCATATATTTACAAGT
1 CTCCACCTCCACCATCTCC-T-ACCTCCACCATATATTTACAAGT
18754520 CTCCACCTCCACCATC
1 CTCCACCTCCACCATC
18754536 ATCATCGTCA
Statistics
Matches: 80, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
41 4 0.05
42 43 0.54
43 1 0.01
44 1 0.01
45 31 0.39
ACGTcount: A:0.23, C:0.44, G:0.04, T:0.28
Consensus pattern (43 bp):
CTCCACCTCCACCATCTCCTACCTCCACCATATATTTACAAGT
Found at i:18754526 original size:45 final size:45
Alignment explanation
Indices: 18754385--18754542 Score: 160
Period size: 45 Copynumber: 3.5 Consensus size: 45
18754375 ATGTCACCAC
* *
18754385 CTCCACCTCCACCATCACCATCTCCTTCTCCACCATATATTTACAAGT
1 CTCCACCTCCACCATCACCATC-GC--CTCCATCATATATTTACAAGT
** * * * * * *
18754433 CTCCACCTCCACCATTGCTACCTCCTCC-T--TATGTCTATAAGT
1 CTCCACCTCCACCATCACCATCGCCTCCATCATATATTTACAAGT
*
18754475 CCCCACCTCCACCATCACCATCGCCTCCATCATATATTTACAAGT
1 CTCCACCTCCACCATCACCATCGCCTCCATCATATATTTACAAGT
*
18754520 CTCCACCTCCACCATCATCATCG
1 CTCCACCTCCACCATCACCATCG
18754543 TCACCTCCTC
Statistics
Matches: 87, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 32 0.37
43 1 0.01
45 35 0.40
47 1 0.01
48 18 0.21
ACGTcount: A:0.23, C:0.44, G:0.04, T:0.28
Consensus pattern (45 bp):
CTCCACCTCCACCATCACCATCGCCTCCATCATATATTTACAAGT
Found at i:18754575 original size:87 final size:85
Alignment explanation
Indices: 18754390--18754570 Score: 204
Period size: 87 Copynumber: 2.0 Consensus size: 85
18754380 ACCACCTCCA
18754390 CCTCCACCATCACCATCTCCTTCTCCACCATATATTTACAAGTCTCCACCTCCACCATTGCTACC
1 CCTCCACCATCACCATCTCC-TCTCCACCATATATTTACAAGTCTCCACCTCCACCATTGCTACC
**
18754455 TCCTCCTTATGTCTATAAGTCCCC
65 TCCTCCTTATACCTATAAGT---C
* * *
18754479 ACCTCCACCATCACCATC-GC-CTCCATCATATATTTACAAGTCTCCACCTCCACCATCATCATC
1 -CCTCCACCATCACCATCTCCTCTCCACCATATATTTACAAGTCTCCACCTCCACCAT--T--GC
18754542 GTCACCTCCTCCTTATACCTATAAGTC
61 -T-ACCTCCTCCTTATACCTATAAGTC
18754569 CC
1 CC
18754571 CACCACCTCC
Statistics
Matches: 80, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
87 35 0.44
89 4 0.05
90 18 0.22
91 1 0.01
92 1 0.01
93 21 0.26
ACGTcount: A:0.23, C:0.44, G:0.04, T:0.29
Consensus pattern (85 bp):
CCTCCACCATCACCATCTCCTCTCCACCATATATTTACAAGTCTCCACCTCCACCATTGCTACCT
CCTCCTTATACCTATAAGTC
Found at i:18754577 original size:45 final size:45
Alignment explanation
Indices: 18754452--18754577 Score: 119
Period size: 45 Copynumber: 2.7 Consensus size: 45
18754442 CACCATTGCT
* *
18754452 ACCTCCTCCTTATGTCTATAAGTCCCCACCTCCACCATCACCATC
1 ACCTCCTCCTTATATCTATAAGTCCCCACCACCACCATCACCATC
* * * * * * *
18754497 GCCTCCAT-CATATATTTACAAGTCTCCACCTCCACCATCATCATCGTC
1 ACCTCC-TCCTTATATCTATAAGTCCCCACCACCACCATCA-C--CATC
*
18754545 ACCTCCTCCTTATACCTATAAGTCCCCACCACC
1 ACCTCCTCCTTATATCTATAAGTCCCCACCACC
18754578 TCCTCCTTCT
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
45 32 0.52
46 2 0.03
47 1 0.02
48 27 0.44
ACGTcount: A:0.24, C:0.44, G:0.05, T:0.27
Consensus pattern (45 bp):
ACCTCCTCCTTATATCTATAAGTCCCCACCACCACCATCACCATC
Found at i:18754625 original size:30 final size:30
Alignment explanation
Indices: 18754589--18754652 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
18754579 CCTCCTTCTT
18754589 CACCACCCCCACCATATGTCTATAAATCTC
1 CACCACCCCCACCATATGTCTATAAATCTC
* * * * *
18754619 CACCACCCTCTCCCTTTGTCTATAATTCTC
1 CACCACCCCCACCATATGTCTATAAATCTC
18754649 CACC
1 CACC
18754653 TCCACCATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.45, G:0.03, T:0.28
Consensus pattern (30 bp):
CACCACCCCCACCATATGTCTATAAATCTC
Found at i:18754838 original size:48 final size:48
Alignment explanation
Indices: 18754766--18754951 Score: 176
Period size: 48 Copynumber: 3.9 Consensus size: 48
18754756 TTGCCATCCT
* * * * *
18754766 CACCACCTCCTTACTACTATAAGTCACCACCACCTCCTTCACCATCAC
1 CACCACCTCCATATTATTATAAGTCACCTCCACCTCCATCACCATCAC
* * * * * *
18754814 CTCCCCCTCCATATTATTACAAGTCTCCTCCACCAT-CATCACCCTCTC
1 CACCACCTCCATATTATTATAAGTCACCTCCACC-TCCATCACCATCAC
* * * * **
18754862 CACCACCTCCATATTACTATAAATCACCTCCTCCTCCCTCTGCATCAC
1 CACCACCTCCATATTATTATAAGTCACCTCCACCTCCATCACCATCAC
** *
18754910 CACCACCTCCATATTATTATGTGTCACCTCCACCACCATCAC
1 CACCACCTCCATATTATTATAAGTCACCTCCACCTCCATCAC
18754952 TATTACCTCC
Statistics
Matches: 104, Mismatches: 32, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
47 1 0.01
48 102 0.98
49 1 0.01
ACGTcount: A:0.25, C:0.46, G:0.03, T:0.26
Consensus pattern (48 bp):
CACCACCTCCATATTATTATAAGTCACCTCCACCTCCATCACCATCAC
Found at i:18754847 original size:96 final size:94
Alignment explanation
Indices: 18754712--18754951 Score: 230
Period size: 96 Copynumber: 2.5 Consensus size: 94
18754702 CCCCCATCGT
* * * * **
18754712 CATCACCTCCCCCTCCTTATGTCTATAAATTCCCGCCACCACCATTGCCATC-CTCACCACCTCC
1 CATCACCTCCCCCTCCATAT-TAT-TAAAGTCCCTCCACCACCATCACCATCTC-CACCACCTCC
* * *
18754776 TTACTACTATAAGTCACCACCACCTCCTTCAC
63 ATACTACTATAAATCACCACCACCTCCCTCAC
* *
18754808 CATCACCTCCCCCTCCATATTATTACAAGTCTCCTCCACCATCATCACCCTCTCCACCACCTCCA
1 CATCACCTCCCCCTCCATATTATTA-AAGTC-CCTCCACCACCATCACCATCTCCACCACCTCCA
* * * **
18754873 TATTACTATAAATCACCTCCTCCTCCCTCTG
64 TACTACTATAAATCACCACCACCTCCCTCAC
* * **
18754904 CATCACCACCACCTCCATATTATTATGTGTCACCTCCACCACCATCAC
1 CATCACCTCCCCCTCCATATTATTA-AAGTC-CCTCCACCACCATCAC
18754952 TATTACCTCC
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
94 2 0.02
95 6 0.05
96 109 0.92
97 1 0.01
ACGTcount: A:0.24, C:0.46, G:0.03, T:0.27
Consensus pattern (94 bp):
CATCACCTCCCCCTCCATATTATTAAAGTCCCTCCACCACCATCACCATCTCCACCACCTCCATA
CTACTATAAATCACCACCACCTCCCTCAC
Found at i:18756348 original size:41 final size:43
Alignment explanation
Indices: 18756274--18756359 Score: 140
Period size: 41 Copynumber: 2.0 Consensus size: 43
18756264 AAATTAGCTG
* *
18756274 TATACAAAGGTTTTTTTAGACTTCAAAGTACATGAAAATATCT
1 TATACAAAGGTTCTTTTAGACATCAAAGTACATGAAAATATCT
18756317 TATACAAA-GTTCTTTTAGACATC-AAGTACATGAAAATATCT
1 TATACAAAGGTTCTTTTAGACATCAAAGTACATGAAAATATCT
18756358 TA
1 TA
18756360 GCATGTCTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 20 0.49
42 13 0.32
43 8 0.20
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (43 bp):
TATACAAAGGTTCTTTTAGACATCAAAGTACATGAAAATATCT
Found at i:18758713 original size:19 final size:19
Alignment explanation
Indices: 18758661--18758713 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
18758651 GGTCTAATTG
*
18758661 TTAAAGCCCAAATTCAATA
1 TTAAAGCCCAAATTTAATA
* **
18758680 TTGAAGCCCAAATTTTGTA
1 TTAAAGCCCAAATTTAATA
18758699 TTAAAGCCCAAATTT
1 TTAAAGCCCAAATTT
18758714 GGTTTTGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (19 bp):
TTAAAGCCCAAATTTAATA
Found at i:18761190 original size:23 final size:23
Alignment explanation
Indices: 18761164--18761210 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18761154 AACGAGTAAA
*
18761164 ATAAAATAAGTAATAAA-AAATAT
1 ATAAAATAAGGAA-AAATAAATAT
*
18761187 ATAATATAAGGAAAAATAAATAT
1 ATAAAATAAGGAAAAATAAATAT
18761210 A
1 A
18761211 ATGACTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (23 bp):
ATAAAATAAGGAAAAATAAATAT
Found at i:18762634 original size:5 final size:5
Alignment explanation
Indices: 18762624--18762649 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18762614 CAACTTGGCT
18762624 AAGCC AAGCC AAGCC AAGCC AAGCC A
1 AAGCC AAGCC AAGCC AAGCC AAGCC A
18762650 TTTGAGTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.38, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGCC
Found at i:18762800 original size:12 final size:12
Alignment explanation
Indices: 18762785--18762830 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
18762775 TTTATATATT
18762785 TTATTATTTTTA
1 TTATTATTTTTA
*
18762797 TTATTGTTTTT-
1 TTATTATTTTTA
*
18762808 TTATGATTTTTCA
1 TTATTATTTTT-A
18762821 TT-TTATTTTT
1 TTATTATTTTT
18762831 GAGTGACCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 9 0.32
12 17 0.61
13 2 0.07
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (12 bp):
TTATTATTTTTA
Found at i:18762829 original size:23 final size:22
Alignment explanation
Indices: 18762774--18762830 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
18762764 AAGCTTCTTT
* *
18762774 TTTTATATATTTTATTATTTTTA
1 TTTTAT-TTTTTTATGATTTTTA
*
18762797 TTATTGTTTTTTTATGATTTTTCA
1 TT-TTATTTTTTTATGATTTTT-A
18762821 TTTTATTTTT
1 TTTTATTTTT
18762831 GAGTGACCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (22 bp):
TTTTATTTTTTTATGATTTTTA
Found at i:18765989 original size:39 final size:40
Alignment explanation
Indices: 18765945--18766503 Score: 395
Period size: 39 Copynumber: 14.2 Consensus size: 40
18765935 CTCAGATCTT
* * *
18765945 TAATTTAAACTTTGTTGCCTCTGGTAAGTGGAGCCTTTGA
1 TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
* * *
18765985 -AATTTAAAGTTTGTTGCCTTTAGTTAA-AGGAG-TTTTTA
1 TAATTTAAAGTTTGTTGCCTCT-GGTAAGAGGAGCCTTTTA
* * * *
18766023 TCATTTAAAGTTTGTTGCATCTGGTGAGAGAAGCCTTTTA
1 TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
* * *
18766063 TCATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTA
1 TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
* * * * *
18766103 -ACATTTAGAGTTTGTTACCTTTAGTTAA-AAGAG-CTTCTT-
1 TA-ATTTAAAGTTTGTTGCCTCT-GGTAAGAGGAGCCTT-TTA
*** *
18766142 TAATTTAAAGTTTGTTGCCTCTAACAATAGGAG-CTTTTA
1 TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
* * * *
18766181 TCATTTAAAGTTTGTTACCTCTAGTGAGAGGAGCCTTTTA
1 TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
* *
18766221 -ACATTTAAAGTTTGTTGCCTTTGGTTAA-ATGAG-CTTTTA
1 TA-ATTTAAAGTTTGTTGCCTCTGG-TAAGAGGAGCCTTTTA
* * * *
18766260 TAATTTAAAGTTTGTTGCCTTTGATGAGATGAGCCTTTTA
1 TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
* * * *
18766300 TCATATAAAGTTTGTTGCCTTTAGTTAA-AGGAG-CTTCTT-
1 TAATTTAAAGTTTGTTGCCTCT-GGTAAGAGGAGCCTT-TTA
* * *
18766339 TAATTTAAAGTTTGTTGCCTTTAGTTAA-AAGAG-CTTTT-
1 TAATTTAAAGTTTGTTGCCTCT-GGTAAGAGGAGCCTTTTA
* * * ** *
18766377 TGAATTTAAAATTTGTTGCCTCTAGTGAGAAAAGCC-TTTG
1 T-AATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
* * *
18766417 GAATTTAAAGTTTGCTGCCTTTGGTTAA-AGGAG-CTTTTA
1 TAATTTAAAGTTTGTTGCCTCTGG-TAAGAGGAGCCTTTTA
* * * * *
18766456 TCATTTAAAGTTTGTTACCTCTGGTGAGATGAG-CTTTTT
1 TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
18766495 TAATTTAAA
1 TAATTTAAA
18766504 ATTTCATAGA
Statistics
Matches: 419, Mismatches: 75, Indels: 51
0.77 0.14 0.09
Matches are distributed among these distances:
38 21 0.05
39 254 0.61
40 136 0.32
41 8 0.02
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (40 bp):
TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTTA
Found at i:18766148 original size:79 final size:76
Alignment explanation
Indices: 18765985--18766503 Score: 373
Period size: 79 Copynumber: 6.6 Consensus size: 76
18765975 GAGCCTTTGA
* * * * * * * *
18765985 AATTTAAAGTTTGTTGCCTTTAGTTA-AAGGAGTTTTTATCATTTAAAGTTTGTTGCATCTGGTG
1 AATTTAAAGTTTGTTGCCTCTAGTGAGAA-GAGCTTTTA-AATTTAAAGTTTGTTGCCTTTAGTT
*
18766049 AGAGAAG-CCTTTTAT
64 A-A-AAGAGCTTTT-T
* * * *
18766064 CATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTAACATTTAGAGTTTGTTACCTTTAGTT
1 AATTTAAAGTTTGTTGCCTCTAGTGAGAAGAG-CTTTTAA-ATTTAAAGTTTGTTGCCTTTAGTT
18766129 AAAAGAGCTTCTTT
64 AAAAGAGCTT-TTT
*** * * * * * *
18766143 AATTTAAAGTTTGTTGCCTCTAACAATAGGAGCTTTTATCATTTAAAGTTTGTTACCTCTAGTGA
1 AATTTAAAGTTTGTTGCCTCTAGTGAGAAGAGCTTTTA-AATTTAAAGTTTGTTGCCTTTAGTTA
* * *
18766208 GAGGAGCCTTTTA
65 AAAGAG-CTTTTT
* * *
18766221 ACATTTAAAGTTTGTTGCCTTTGGTTA-AATGAGCTTTTATAATTTAAAGTTTGTTGCCTTT-GA
1 A-ATTTAAAGTTTGTTGCCTCTAGTGAGAA-GAGCTTTTA-AATTTAAAGTTTGTTGCCTTTAG-
* * *
18766284 TGAGATGAGCCTTTTAT
62 TTAAAAGAG-CTTTT-T
* * * * *
18766301 CATATAAAGTTTGTTGCCTTTAGTTA-AAGGAGCTTCTTTAATTTAAAGTTTGTTGCCTTTAGTT
1 AATTTAAAGTTTGTTGCCTCTAGTGAGAA-GAGCTT-TTAAATTTAAAGTTTGTTGCCTTTAGTT
18766365 AAAAGAGCTTTTT
64 AAAAGAGCTTTTT
* * ** * *
18766378 GAATTTAAAATTTGTTGCCTCTAGTGAGAAAAGCCTTTGGAATTTAAAGTTTGCTGCCTTTGGTT
1 -AATTTAAAGTTTGTTGCCTCTAGTGAGAAGAG-CTTTTAAATTTAAAGTTTGTTGCCTTTAGTT
*
18766443 AAAGGAGCTTTTAT
64 AAAAGAGCTTTT-T
* * * * *
18766457 CATTTAAAGTTTGTTACCTCTGGTGAGATGAGCTTTTTTAATTTAAA
1 AATTTAAAGTTTGTTGCCTCTAGTGAGAAGAGC-TTTTAAATTTAAA
18766504 ATTTCATAGA
Statistics
Matches: 357, Mismatches: 65, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
77 2 0.01
78 140 0.39
79 184 0.52
80 31 0.09
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (76 bp):
AATTTAAAGTTTGTTGCCTCTAGTGAGAAGAGCTTTTAAATTTAAAGTTTGTTGCCTTTAGTTAA
AAGAGCTTTTT
Found at i:18766185 original size:118 final size:117
Alignment explanation
Indices: 18765947--18766503 Score: 545
Period size: 118 Copynumber: 4.7 Consensus size: 117
18765937 CAGATCTTTA
* * * ** *
18765947 ATTTAAACTTTGTTGCCTCTGGTAAGTGGAGCCTTTGAAATTTAAAGTTTGTTGCCTTTAGTTAA
1 ATTTAAAGTTTGTTGCCTCTAGTGAGAAGAGCCTTTTAAATTTAAAGTTTGTTGCCTTTAGTTAA
* * ** *
18766012 AGGAG-TTTTTATCATTTAAAGTTTGTTGCATCTGGTGAGAGAAGCCTTTTATC
66 AAGAGCTTTTTA--ATTTAAAGTTTGTTGCCTCTAATGAGAGGAGCCTTTTATC
* * *
18766065 ATTTAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTAACATTTAGAGTTTGTTACCTTTAGTTA
1 ATTTAAAGTTTGTTGCCTCTAGTGAGAAGAGCCTTTTAA-ATTTAAAGTTTGTTGCCTTTAGTTA
** *
18766130 AAAGAGCTTCTTTAATTTAAAGTTTGTTGCCTCTAACAATAGGAG-CTTTTATC
65 AAAGAGCTT-TTTAATTTAAAGTTTGTTGCCTCTAATGAGAGGAGCCTTTTATC
* * *
18766183 ATTTAAAGTTTGTTACCTCTAGTGAGAGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTA
1 ATTTAAAGTTTGTTGCCTCTAGTGAGAAGAGCCTTTTAA-ATTTAAAGTTTGTTGCCTTTAGTTA
* * * *
18766248 AATGAGCTTTTATAATTTAAAGTTTGTTGCCTTTGATGAGATGAGCCTTTTATC
65 AAAGAGCTTTT-TAATTTAAAGTTTGTTGCCTCTAATGAGAGGAGCCTTTTATC
* * * *
18766302 ATATAAAGTTTGTTGCCTTTAGTTA-AAGGAG-CTTCTTTAATTTAAAGTTTGTTGCCTTTAGTT
1 ATTTAAAGTTTGTTGCCTCTAGTGAGAA-GAGCCTT-TTAAATTTAAAGTTTGTTGCCTTTAGTT
* * ** *
18766365 AAAAGAGCTTTTTGAATTTAAAATTTGTTGCCTCTAGTGAGAAAAGCCTTTGGA--
64 AAAAGAGCTTTTT-AATTTAAAGTTTGTTGCCTCTAATGAGAGGAGCCTTT-TATC
* * * * * * * * *
18766419 ATTTAAAGTTTGCTGCCTTTGGTTA-AAGGAG-CTTTTATCATTTAAAGTTTGTTACCTCTGGTG
1 ATTTAAAGTTTGTTGCCTCTAGTGAGAA-GAGCCTTTTA-AATTTAAAGTTTGTTGCCTTTAGTT
* *
18766482 AGATGAGCTTTTTTAATTTAAA
64 AAAAGAGC-TTTTTAATTTAAA
18766504 ATTTCATAGA
Statistics
Matches: 374, Mismatches: 54, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
116 2 0.01
117 68 0.18
118 210 0.56
119 88 0.24
120 2 0.01
121 4 0.01
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (117 bp):
ATTTAAAGTTTGTTGCCTCTAGTGAGAAGAGCCTTTTAAATTTAAAGTTTGTTGCCTTTAGTTAA
AAGAGCTTTTTAATTTAAAGTTTGTTGCCTCTAATGAGAGGAGCCTTTTATC
Found at i:18766276 original size:197 final size:196
Alignment explanation
Indices: 18765941--18766494 Score: 670
Period size: 197 Copynumber: 2.8 Consensus size: 196
18765931 TCATCTCAGA
* ** *
18765941 TCTTTAATTTAAACTTTGTTGCCTCTGGTAAGT-GGAGCCTTTGA-AATTTAAAGTTTGTTGCCT
1 TCTTTAATTTAAAGTTTGTTGCCTCTAATAA-TAGGAG-CTTTTATAATTTAAAGTTTGTTGCCT
* * * * * * * * *
18766004 TTAGTTAAAGGAG-TTTTTATCATTTAAAGTTTGTTGCATCTGGTGAGAGAAGCCTTTTATCATT
64 CTAGTGAGAGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAG-AG-CTTTTATCATT
* * *
18766068 TAAAGTTTGTTGCCTCTGGTGAGAAGAGCCTTTTAACATTTAGAGTTTGTTACCTTTAGTTAAAA
127 TAAAGTTTGTTGCCTCTGGTGAGATGAGCCTTTTAACATATAAAGTTTGTTACCTTTAGTTAAAA
18766133 GAGCT
192 GAGCT
* * *
18766138 TCTTTAATTTAAAGTTTGTTGCCTCTAACAATAGGAGCTTTTATCATTTAAAGTTTGTTACCTCT
1 TCTTTAATTTAAAGTTTGTTGCCTCTAATAATAGGAGCTTTTATAATTTAAAGTTTGTTGCCTCT
*
18766203 AGTGAGAGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCTTTTATAATTTAA
66 AGTGAGAGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAA-GAGCTTTTATCATTTAA
* * * * *
18766268 AGTTTGTTGCCTTTGATGAGATGAGCCTTTTATCATATAAAGTTTGTTGCCTTTAGTTAAAGGAG
130 AGTTTGTTGCCTCTGGTGAGATGAGCCTTTTAACATATAAAGTTTGTTACCTTTAGTTAAAAGAG
18766333 CT
195 CT
* * * *
18766335 TCTTTAATTTAAAGTTTGTTGCCTTTAGTTAA-AAGAGCTTTT-TGAATTTAAAATTTGTTGCCT
1 TCTTTAATTTAAAGTTTGTTGCCTCTA-ATAATAGGAGCTTTTAT-AATTTAAAGTTTGTTGCCT
** ** *
18766398 CTAGTGAGAAAAGCCTTTGGA-ATTTAAAGTTTGCTGCCTTTGGTTAAAGGAGCTTTTATCATTT
64 CTAGTGAGAGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAA-GAGCTTTTATCATTT
* *
18766462 AAAGTTTGTTACCTCTGGTGAGATGAGCTTTTT
128 AAAGTTTGTTGCCTCTGGTGAGATGAGCCTTTT
18766495 TAATTTAAAA
Statistics
Matches: 308, Mismatches: 43, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
196 76 0.25
197 198 0.64
198 33 0.11
199 1 0.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (196 bp):
TCTTTAATTTAAAGTTTGTTGCCTCTAATAATAGGAGCTTTTATAATTTAAAGTTTGTTGCCTCT
AGTGAGAGGAGCCTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAGAGCTTTTATCATTTAAA
GTTTGTTGCCTCTGGTGAGATGAGCCTTTTAACATATAAAGTTTGTTACCTTTAGTTAAAAGAGC
T
Found at i:18766705 original size:3 final size:3
Alignment explanation
Indices: 18766681--18766722 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
18766671 CAATTTTGAC
* *
18766681 TAT TAT T-T T-T TAT TAA TGT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18766723 AATAATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:18767006 original size:21 final size:21
Alignment explanation
Indices: 18766972--18767018 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18766962 CAGAGAGAAC
* *
18766972 AAAAAAGACGAACACACAATAA
1 AAAAAAGACAAACAAACAA-AA
18766994 AAAAAAG-CAAACAAACAAAA
1 AAAAAAGACAAACAAACAAAA
18767014 AAAAA
1 AAAAA
18767019 TTTTCAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 9 0.39
22 7 0.30
ACGTcount: A:0.77, C:0.15, G:0.06, T:0.02
Consensus pattern (21 bp):
AAAAAAGACAAACAAACAAAA
Found at i:18767252 original size:52 final size:51
Alignment explanation
Indices: 18767142--18767252 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
18767132 TTTAAGTCAG
***
18767142 CCGAAA-CTGGAAAAGTTTGAATTTTTTGACGATGGTTGAATTTTTTGGCA
1 CCGAAATCTGGAAAAGTTTGAATTTTTTGACGATGGTTGAATTTTTAACCA
*
18767192 CCGAAATCTGGAAAAGTTTGAATTTTTT-AGTGACT-GTTGAATTTTTCAACCA
1 CCGAAATCTGGAAAAGTTTGAATTTTTTGA-CGA-TGGTTGAATTTTT-AACCA
18767244 CCGAAATCT
1 CCGAAATCT
18767253 AGGGATCTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
50 7 0.13
51 34 0.64
52 12 0.23
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (51 bp):
CCGAAATCTGGAAAAGTTTGAATTTTTTGACGATGGTTGAATTTTTAACCA
Found at i:18767592 original size:3 final size:3
Alignment explanation
Indices: 18767586--18767618 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
18767576 TTTTATGATG
18767586 TTA TTA TTA TTA TTA TTA TTA TT- TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18767619 GGTGGTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:18770672 original size:29 final size:29
Alignment explanation
Indices: 18770617--18770672 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
18770607 TAAATTATAG
* * *
18770617 TAAAATATTTAATATGGTATTTGAATTTT
1 TAAAATATTTAATATAGTACTTAAATTTT
* *
18770646 TAAAATTTTTAATTTAGTACTTAAATT
1 TAAAATATTTAATATAGTACTTAAATT
18770673 ATGAATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (29 bp):
TAAAATATTTAATATAGTACTTAAATTTT
Found at i:18771949 original size:61 final size:61
Alignment explanation
Indices: 18771852--18771968 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
18771842 TAATGGACCA
* *
18771852 AGATCCTTCATCTCAAACATTTTGCTAAAATGATTTTTTATATTCTAAATACCAAGATGAG
1 AGATCATTCATCTCAAACATTTTGCTAAAATAATTTTTTATATTCTAAATACCAAGATGAG
** * *
18771913 AGATCATTCATCTCAAAGGTTTTGCTAAGATAATTTTTTATATTCTAAATATCAAG
1 AGATCATTCATCTCAAACATTTTGCTAAAATAATTTTTTATATTCTAAATACCAAG
18771969 GTTATCATCT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (61 bp):
AGATCATTCATCTCAAACATTTTGCTAAAATAATTTTTTATATTCTAAATACCAAGATGAG
Found at i:18775900 original size:30 final size:30
Alignment explanation
Indices: 18775325--18775896 Score: 658
Period size: 30 Copynumber: 19.1 Consensus size: 30
18775315 GTAATGTGGG
* * *
18775325 GGAGGTGGTGGCGACTTGTAAACATATGGC
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * * **
18775355 GGAGGTGGAGGAGATTTGTATATGTATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* *
18775385 GGAGGTGGTGGTGACTTATAAACATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
*
18775415 GGAGGTGGAGGTGACTTGTAGACATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775445 GGAGGTGGTGGTGACTTGTACATATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775475 GGGGGTGGTGGTGACTTGTAGACATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775505 GGAGGTGGTGGTGACTTGTACATATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775535 GGGGGTGGTGGTGACTTGTATACATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* *
18775565 GGAGGTGGAGGTGACTTATAAACGTATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775595 GGAGGTGGGGGTGATTTGTACACATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* *
18775625 GGAGGTGGAGGTGACTTGTAAATATAAGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* *
18775655 GGAGGTGGAGGTGACTTATAAACGTATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775685 GGAGGTGGGGGTGATTTGTACACATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* *
18775715 GGAGGTGGAGGTGGCTTGTACACATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * * *
18775745 GGAGGTGGTGGTGATTTATAAATATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* ** *
18775775 GGAGGTGGAGGTGACTTGTATATGTAAGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775805 GGAGGTGGTGGTGGCTTATAAACATATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775835 GGAGGTGGAGGTGACTTGTACACGTACGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
* * *
18775865 GGTGGTGGAGGTGACTTGTATACGTATGGA
1 GGAGGTGGAGGTGACTTGTAAACATATGGA
18775895 GG
1 GG
18775897 TGGTACATAG
Statistics
Matches: 458, Mismatches: 84, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 458 1.00
ACGTcount: A:0.25, C:0.06, G:0.42, T:0.26
Consensus pattern (30 bp):
GGAGGTGGAGGTGACTTGTAAACATATGGA
Found at i:18777639 original size:18 final size:19
Alignment explanation
Indices: 18777593--18777653 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
18777583 AAGATCGCTC
*
18777593 AAAT-TTAATTTTTTAAAT
1 AAATATTAATTTTATAAAT
* *
18777611 AAAAATAAATTTTAT-AAT
1 AAATATTAATTTTATAAAT
* *
18777629 AAATATTAATTATCAAAAAT
1 AAATATTAATT-TTATAAAT
18777649 AAATA
1 AAATA
18777654 ATCAACAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 15 0.45
19 10 0.30
20 8 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATTAATTTTATAAAT
Found at i:18785775 original size:60 final size:60
Alignment explanation
Indices: 18785616--18785781 Score: 163
Period size: 60 Copynumber: 2.8 Consensus size: 60
18785606 AAATGCCTTC
* * * * * *
18785616 ATTTACCAAAAGTACTATAATGCCTTTTCTACCATATTTACGAAAATTCTATCATATTATA
1 ATTTGCCAAAACTACTATAATACCTTTT-AACCATAGTTACGAAAATTCCATCATATTATA
* * * * * *
18785677 ATTTGCCAAAACTACTATAAAACCCTCTAACTAGAGTTACGAAAATATCCCTCATATTATA
1 ATTTGCCAAAACTACTATAATACCTTTTAACCATAGTTACGAAAAT-TCCATCATATTATA
* * * *
18785738 A-TTGCTAAAATTACTCTAATACCTTTTAACCATAGTTACAAAAA
1 ATTTGCCAAAACTACTATAATACCTTTTAACCATAGTTACGAAAA
18785782 AAAAAAAAAA
Statistics
Matches: 83, Mismatches: 21, Indels: 3
0.78 0.20 0.03
Matches are distributed among these distances:
60 48 0.58
61 35 0.42
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.34
Consensus pattern (60 bp):
ATTTGCCAAAACTACTATAATACCTTTTAACCATAGTTACGAAAATTCCATCATATTATA
Found at i:18787137 original size:20 final size:22
Alignment explanation
Indices: 18787102--18787141 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
18787092 GTATATTATA
18787102 TAAATTTATATATTTAATAAAT
1 TAAATTTATATATTTAATAAAT
18787124 TAAATTT-T-TATTTAATAA
1 TAAATTTATATATTTAATAA
18787142 TAGAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TAAATTTATATATTTAATAAAT
Found at i:18787155 original size:19 final size:20
Alignment explanation
Indices: 18787102--18787155 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 20
18787092 GTATATTATA
18787102 TAAATTTATATATTTAATAAAT
1 TAAATTT-TA-ATTTAATAAAT
*
18787124 TAAATTTTTATTTAAT-AA-
1 TAAATTTTAATTTAATAAAT
18787142 TAGAATTTTAATTT
1 TA-AATTTTAATTT
18787156 TAAATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 2 0.07
19 12 0.41
20 7 0.24
21 1 0.03
22 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TAAATTTTAATTTAATAAAT
Found at i:18788555 original size:17 final size:17
Alignment explanation
Indices: 18788512--18788586 Score: 73
Period size: 17 Copynumber: 4.3 Consensus size: 17
18788502 TATATCAAAC
18788512 ATGATAATTTAAAATCACT
1 ATGATAA-TT-AAATCACT
18788531 AT-AGTAATTAAATCACT
1 ATGA-TAATTAAATCACT
* *
18788548 TTGATAATCT-TATCACT
1 ATGATAAT-TAAATCACT
*
18788565 ATGATAATTAAATTACT
1 ATGATAATTAAATCACT
18788582 ATGAT
1 ATGAT
18788587 GATCTAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
16 1 0.02
17 36 0.77
18 5 0.11
19 5 0.11
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.40
Consensus pattern (17 bp):
ATGATAATTAAATCACT
Found at i:18788565 original size:34 final size:34
Alignment explanation
Indices: 18788525--18788591 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
18788515 ATAATTTAAA
*
18788525 ATCACTAT-AGTAATTAAATCACTTTGATAATCTT
1 ATCACTATGA-TAATTAAATCACTATGATAATCTT
* *
18788559 ATCACTATGATAATTAAATTACTATGATGATCT
1 ATCACTATGATAATTAAATCACTATGATAATCT
18788592 AAAAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.40
Consensus pattern (34 bp):
ATCACTATGATAATTAAATCACTATGATAATCTT
Found at i:18788786 original size:14 final size:13
Alignment explanation
Indices: 18788747--18788853 Score: 74
Period size: 12 Copynumber: 8.7 Consensus size: 13
18788737 ATAAATTTTG
18788747 TAAATAATAATA-
1 TAAATAATAATAT
18788759 T-AA-AATAATA-
1 TAAATAATAATAT
18788769 TAAATAATAATAT
1 TAAATAATAATAT
*
18788782 CT-AA-AA-AATAA
1 -TAAATAATAATAT
18788793 TAAAT-ATAATAT
1 TAAATAATAATAT
*
18788805 TATA-AATAAT-T
1 TAAATAATAATAT
18788816 TATAAGTAATAATATT
1 TA-AA-TAATAATA-T
18788832 TAAATAATAATA-
1 TAAATAATAATAT
18788844 TATAATAATA
1 TA-AATAATA
18788854 GATAGTGGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 27
0.71 0.04 0.25
Matches are distributed among these distances:
10 9 0.12
11 14 0.18
12 25 0.32
13 9 0.12
14 15 0.19
15 2 0.03
16 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (13 bp):
TAAATAATAATAT
Found at i:18788827 original size:35 final size:34
Alignment explanation
Indices: 18788722--18788852 Score: 92
Period size: 35 Copynumber: 3.8 Consensus size: 34
18788712 ATTAAATATA
*
18788722 AATAATAAAA-AAT-TTATAAAT--TTTGTAAAT
1 AATAATAAAATAATATTATAAATAATTTATAAAT
* * * *
18788752 AATAATATAAAATAATA-TAAATAATAATATCTAAAA
1 AAT-A-ATAAAATAATATTATA-AATAATTTATAAAT
*
18788788 AATAATAAATATAATATTATAAATAATTTATAAGT
1 AATAATAAA-ATAATATTATAAATAATTTATAAAT
*
18788823 AATAATATTTAAATAATAATATATAATAAT
1 AATAATA---AAATAATATTATA-AATAAT
18788853 AGATAGTGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
30 3 0.04
31 1 0.01
32 6 0.08
33 6 0.08
34 8 0.10
35 24 0.31
36 12 0.15
37 10 0.13
38 8 0.10
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (34 bp):
AATAATAAAATAATATTATAAATAATTTATAAAT
Found at i:18788850 original size:10 final size:10
Alignment explanation
Indices: 18788750--18788853 Score: 71
Period size: 10 Copynumber: 10.9 Consensus size: 10
18788740 AATTTTGTAA
18788750 ATAATAATAT
1 ATAATAATAT
*
18788760 AAAATAATAT
1 ATAATAATAT
18788770 AAATAATAATAT
1 --ATAATAATAT
*
18788782 CTAA-AA-A-
1 ATAATAATAT
18788789 ATAATAA-AT
1 ATAATAATAT
*
18788798 ATAATATTAT
1 ATAATAATAT
*
18788808 A-AATAATTT
1 ATAATAATAT
18788817 ATAAGTAATA-
1 ATAA-TAATAT
* *
18788827 AT-AT-TTAA
1 ATAATAATAT
18788835 ATAATAATAT
1 ATAATAATAT
18788845 ATAATAATA
1 ATAATAATA
18788854 GATAGTGGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
7 5 0.07
8 7 0.10
9 18 0.25
10 30 0.41
11 4 0.05
12 9 0.12
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.37
Consensus pattern (10 bp):
ATAATAATAT
Found at i:18789027 original size:14 final size:15
Alignment explanation
Indices: 18789008--18789037 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
18788998 GATAAGGATG
18789008 AGAAAAAAA-AAAAA
1 AGAAAAAAACAAAAA
18789022 AGAAAAAAACAAAAA
1 AGAAAAAAACAAAAA
18789037 A
1 A
18789038 TTGATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.90, C:0.03, G:0.07, T:0.00
Consensus pattern (15 bp):
AGAAAAAAACAAAAA
Found at i:18789228 original size:2 final size:2
Alignment explanation
Indices: 18789221--18789249 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18789211 GGCATATTAA
18789221 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18789250 TAGGTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18789236 original size:13 final size:13
Alignment explanation
Indices: 18789220--18789246 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18789210 AGGCATATTA
18789220 AATATATATATAT
1 AATATATATATAT
18789233 AATATATATATAT
1 AATATATATATAT
18789246 A
1 A
18789247 TATTAGGTTT
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):
AATATATATATAT
Found at i:18790564 original size:21 final size:21
Alignment explanation
Indices: 18790538--18790580 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18790528 CTTCTACATG
18790538 TCACCACCTCCACCTCCACCA
1 TCACCACCTCCACCTCCACCA
* *
18790559 TCACCATCTCCTCCTCCACCA
1 TCACCACCTCCACCTCCACCA
18790580 T
1 T
18790581 ATATTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.58, G:0.00, T:0.21
Consensus pattern (21 bp):
TCACCACCTCCACCTCCACCA
Found at i:18790617 original size:42 final size:45
Alignment explanation
Indices: 18790545--18790701 Score: 158
Period size: 45 Copynumber: 3.5 Consensus size: 45
18790535 ATGTCACCAC
*
18790545 CTCCACCTCCACCATCACCATCTCCTCCTCCACCATATATTTACAAGT
1 CTCCACCTCCACCATCACCA--T-CACCTCCACCATATATTTACAAGT
** * * * * *
18790593 CTCCACCTCCACCAT-TGC-T-ACCTCCTCCTTATGTCTATAAGT
1 CTCCACCTCCACCATCACCATCACCTCCACCATATATTTACAAGT
* * *
18790635 CCCCACCTCCACCATCACCATCGCCTCCATCATATATTTACAAGT
1 CTCCACCTCCACCATCACCATCACCTCCACCATATATTTACAAGT
*
18790680 CTCCACCTCCACCATCATCATC
1 CTCCACCTCCACCATCACCATC
18790702 GTCACCTCCT
Statistics
Matches: 86, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 31 0.36
43 1 0.01
44 2 0.02
45 36 0.42
47 1 0.01
48 15 0.17
ACGTcount: A:0.24, C:0.45, G:0.04, T:0.27
Consensus pattern (45 bp):
CTCCACCTCCACCATCACCATCACCTCCACCATATATTTACAAGT
Found at i:18790728 original size:48 final size:46
Alignment explanation
Indices: 18790545--18790734 Score: 153
Period size: 45 Copynumber: 4.2 Consensus size: 46
18790535 ATGTCACCAC
*
18790545 CTCCACCTCCACCATCACCATCT-CCTCCTCCACCATATATTTACAAGT
1 CTCCACCTCCACCATCACCATCTACCTCCT---CCATATATCTACAAGT
* * *
18790593 CTCCACCTCCACCAT-----TGCTACCTCCTCCTTATGTCTATAAGT
1 CTCCACCTCCACCATCACCAT-CTACCTCCTCCATATATCTACAAGT
* * *
18790635 CCCCACCTCCACCATCACCATC-GCCTCCAT-CATATATTTACAAGT
1 CTCCACCTCCACCATCACCATCTACCTCC-TCCATATATCTACAAGT
* * * *
18790680 CTCCACCTCCACCATCATCATCGTCACCTCCTCCTTATACCTATAAGT
1 CTCCACCTCCACCATCACCATC-T-ACCTCCTCCATATATCTACAAGT
*
18790728 CCCCACC
1 CTCCACC
18790735 ACCTCCTCCT
Statistics
Matches: 112, Mismatches: 18, Indels: 24
0.73 0.12 0.16
Matches are distributed among these distances:
42 26 0.23
43 1 0.01
44 2 0.02
45 42 0.38
46 2 0.02
47 2 0.02
48 37 0.33
ACGTcount: A:0.23, C:0.45, G:0.04, T:0.27
Consensus pattern (46 bp):
CTCCACCTCCACCATCACCATCTACCTCCTCCATATATCTACAAGT
Found at i:18790735 original size:87 final size:85
Alignment explanation
Indices: 18790550--18790730 Score: 204
Period size: 87 Copynumber: 2.0 Consensus size: 85
18790540 ACCACCTCCA
*
18790550 CCTCCACCATCACCATCTCCTCCTCCACCATATATTTACAAGTCTCCACCTCCACCATTGCTACC
1 CCTCCACCATCACCA-CTCCGCCTCCACCATATATTTACAAGTCTCCACCTCCACCATTGCTACC
**
18790615 TCCTCCTTATGTCTATAAGTCCCC
65 TCCTCCTTATACCTATAAGT---C
* *
18790639 ACCTCCACCATCACCA-T-CGCCTCCATCATATATTTACAAGTCTCCACCTCCACCATCATCATC
1 -CCTCCACCATCACCACTCCGCCTCCACCATATATTTACAAGTCTCCACCTCCACCAT--T--GC
18790702 GTCACCTCCTCCTTATACCTATAAGTC
61 -T-ACCTCCTCCTTATACCTATAAGTC
18790729 CC
1 CC
18790731 CACCACCTCC
Statistics
Matches: 80, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
87 37 0.46
88 1 0.01
89 3 0.04
90 16 0.20
91 1 0.01
92 1 0.01
93 21 0.26
ACGTcount: A:0.23, C:0.44, G:0.04, T:0.28
Consensus pattern (85 bp):
CCTCCACCATCACCACTCCGCCTCCACCATATATTTACAAGTCTCCACCTCCACCATTGCTACCT
CCTCCTTATACCTATAAGTC
Found at i:18790737 original size:45 final size:45
Alignment explanation
Indices: 18790547--18790737 Score: 120
Period size: 48 Copynumber: 4.2 Consensus size: 45
18790537 GTCACCACCT
* * * * * *
18790547 CCACCTCCACCATCACCATCTCCTCCTCCACCATATATTTACAAGTCT
1 CCACCACCACCATCACCATCACCTCCT---CCTTATATCTATAAGTCC
* ** *
18790595 CCACCTCCACCAT-TGC-T-ACCTCCTCCTTATGTCTATAAGTCC
1 CCACCACCACCATCACCATCACCTCCTCCTTATATCTATAAGTCC
* * * * * *
18790637 CCACCTCCACCATCACCATCGCCTCCAT-CATATATTTACAAGTCT
1 CCACCACCACCATCACCATCACCTCC-TCCTTATATCTATAAGTCC
* * *
18790682 CCACCTCCACCATCATCATCGTCACCTCCTCCTTATACCTATAAGTCC
1 CCACCACCACCATCA-C--CATCACCTCCTCCTTATATCTATAAGTCC
18790730 CCACCACC
1 CCACCACC
18790738 TCCTCCTTCT
Statistics
Matches: 111, Mismatches: 24, Indels: 16
0.74 0.16 0.11
Matches are distributed among these distances:
42 26 0.23
43 1 0.01
44 1 0.01
45 38 0.34
46 3 0.03
47 2 0.02
48 40 0.36
ACGTcount: A:0.24, C:0.46, G:0.04, T:0.27
Consensus pattern (45 bp):
CCACCACCACCATCACCATCACCTCCTCCTTATATCTATAAGTCC
Found at i:18790785 original size:30 final size:30
Alignment explanation
Indices: 18790749--18790812 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
18790739 CCTCCTTCTT
18790749 CACCACCCCCACCATATGTCTATAAATCTC
1 CACCACCCCCACCATATGTCTATAAATCTC
* * * * *
18790779 CACCACCCTCTCCCTTTGTCTATAATTCTC
1 CACCACCCCCACCATATGTCTATAAATCTC
18790809 CACC
1 CACC
18790813 TCCACCATCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.23, C:0.45, G:0.03, T:0.28
Consensus pattern (30 bp):
CACCACCCCCACCATATGTCTATAAATCTC
Found at i:18790983 original size:48 final size:48
Alignment explanation
Indices: 18790872--18790983 Score: 108
Period size: 48 Copynumber: 2.3 Consensus size: 48
18790862 CCGCCATCGT
* * *
18790872 CATCACCTCCCCCTCCTTATGTCTATAAATTCCCGCCACCACCATTAC
1 CATCACCTCCCCCTCCTTATGACTATAAAGTCCCACCACCACCATTAC
*
18790920 CAT--CCTCACCACCTCCTTACT-ACTAT-AAGTCACCACCACCTCC-TTCAC
1 CATCACCTC-CC-CCTCCTTA-TGACTATAAAGTC-CCACCACCACCATT-AC
18790968 CATCACCTCCCCCTCC
1 CATCACCTCCCCCTCC
18790984 ATATTATTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
46 4 0.08
47 8 0.15
48 34 0.64
49 3 0.06
50 4 0.08
ACGTcount: A:0.22, C:0.50, G:0.03, T:0.25
Consensus pattern (48 bp):
CATCACCTCCCCCTCCTTATGACTATAAAGTCCCACCACCACCATTAC
Found at i:18790998 original size:48 final size:48
Alignment explanation
Indices: 18790907--18791111 Score: 171
Period size: 48 Copynumber: 4.3 Consensus size: 48
18790897 TAAATTCCCG
* * * * * *
18790907 CCACCACCATTACCATC-CTCACCACCTCCTTACTACTATAAGTCACCA
1 CCACCTCCATCACCATCAC-CACCACCTCCATATTATTATAAGTCACCT
* * * * *
18790955 CCACCTCCTTCACCATCACCTCCCCCTCCATATTATTACAAGTCTCCT
1 CCACCTCCATCACCATCACCACCACCTCCATATTATTATAAGTCACCT
* * * * *
18791003 CCACCAT-CATCACCCTCTCCACCACCTCCGTATTACTATAAATCACCT
1 CCACC-TCCATCACCATCACCACCACCTCCATATTATTATAAGTCACCT
* * ** **
18791051 CCTCCTCCCTCTGCATCACCACCACCTCCATATTATTATGTGTCACCT
1 CCACCTCCATCACCATCACCACCACCTCCATATTATTATAAGTCACCT
*
18791099 CCACCACCATCAC
1 CCACCTCCATCAC
18791112 TATTACCTCC
Statistics
Matches: 117, Mismatches: 37, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
47 1 0.01
48 114 0.97
49 2 0.02
ACGTcount: A:0.24, C:0.47, G:0.03, T:0.26
Consensus pattern (48 bp):
CCACCTCCATCACCATCACCACCACCTCCATATTATTATAAGTCACCT
Found at i:18791007 original size:96 final size:94
Alignment explanation
Indices: 18790872--18791111 Score: 239
Period size: 96 Copynumber: 2.5 Consensus size: 94
18790862 CCGCCATCGT
* * * * *
18790872 CATCACCTCCCCCTCCTTATGTCTATAAATTCCCGCCACCACCATTACCATC-CTCACCACCTCC
1 CATCACCTCCCCCTCCATAT-TAT-TAAAGTCCCTCCACCACCATCACCATCTC-CACCACCTCC
* * *
18790936 TTACTACTATAAGTCACCACCACCTCCTTCAC
63 GTACTACTATAAATCACCACCACCTCCCTCAC
* *
18790968 CATCACCTCCCCCTCCATATTATTACAAGTCTCCTCCACCATCATCACCCTCTCCACCACCTCCG
1 CATCACCTCCCCCTCCATATTATTA-AAGTC-CCTCCACCACCATCACCATCTCCACCACCTCCG
* * * **
18791033 TATTACTATAAATCACCTCCTCCTCCCTCTG
64 TACTACTATAAATCACCACCACCTCCCTCAC
* * **
18791064 CATCACCACCACCTCCATATTATTATGTGTCACCTCCACCACCATCAC
1 CATCACCTCCCCCTCCATATTATTA-AAGTC-CCTCCACCACCATCAC
18791112 TATTACCTCC
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
94 2 0.02
95 6 0.05
96 110 0.92
97 1 0.01
ACGTcount: A:0.24, C:0.46, G:0.03, T:0.27
Consensus pattern (94 bp):
CATCACCTCCCCCTCCATATTATTAAAGTCCCTCCACCACCATCACCATCTCCACCACCTCCGTA
CTACTATAAATCACCACCACCTCCCTCAC
Found at i:18796573 original size:14 final size:14
Alignment explanation
Indices: 18796527--18796574 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 14
18796517 ATGTATAACA
18796527 AAAAAAATAAAACAT
1 AAAAAAATAAAA-AT
*
18796542 AAAACATAAAAAATAAT
1 AAAA-A-AATAAA-AAT
18796559 AAAAAAATAAAAAT
1 AAAAAAATAAAAAT
18796573 AA
1 AA
18796575 CTGATGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 5 0.18
15 9 0.32
16 2 0.07
17 11 0.39
18 1 0.04
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAAAT
Found at i:18796574 original size:24 final size:23
Alignment explanation
Indices: 18796526--18796574 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
18796516 TATGTATAAC
*
18796526 AAAAAAAATAAAACATAAAACAT
1 AAAAAAAATAAAAAATAAAACAT
18796549 AAAAAATAATAAAAAAATAAAA-AT
1 AAAAAA-AAT-AAAAAATAAAACAT
18796573 AA
1 AA
18796575 CTGATGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 7 0.30
25 10 0.43
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (23 bp):
AAAAAAAATAAAAAATAAAACAT
Found at i:18796984 original size:3 final size:3
Alignment explanation
Indices: 18796978--18797012 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18796968 AAAATAATAA
18796978 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
18797013 CTACTACTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:18797017 original size:3 final size:3
Alignment explanation
Indices: 18797011--18797108 Score: 196
Period size: 3 Copynumber: 32.7 Consensus size: 3
18797001 GTAGTAGTAG
18797011 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
18797059 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
18797107 TA
1 TA
18797109 ATAATAATCA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.34, C:0.33, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:18797404 original size:19 final size:18
Alignment explanation
Indices: 18797380--18797429 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
18797370 TTAAACGAGT
*
18797380 AAAATAAAATAAGTAATAA
1 AAAATAAAATAAGGAA-AA
18797399 AAAATATAATATAAGGAAAA
1 AAAATA-AA-ATAAGGAAAA
18797419 ATAAATAAAAT
1 A-AAATAAAAT
18797430 GACTAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.30
20 7 0.26
21 12 0.44
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (18 bp):
AAAATAAAATAAGGAAAA
Found at i:18799074 original size:23 final size:23
Alignment explanation
Indices: 18799047--18799098 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
18799037 AATGAACAAG
*
18799047 AATAAACAAAAGTAA-AAAATAAT
1 AATAAACAAAA-TAATAAAATAAA
* *
18799070 AATAAATAAAATAATGAAATAAA
1 AATAAACAAAATAATAAAATAAA
18799093 AATAAA
1 AATAAA
18799099 ATCACAAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (23 bp):
AATAAACAAAATAATAAAATAAA
Found at i:18802079 original size:40 final size:40
Alignment explanation
Indices: 18802029--18802126 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
18802019 GTTAAAGGAG
18802029 CTTTTATCATTTAAAGTTTACTGCATCTGGTGAGATGAGC
1 CTTTTATCATTTAAAGTTTACTGCATCTGGTGAGATGAGC
** *
18802069 CTTTTATCATTTAAAGTTTGTTGCCTCTGGTGAGATGAGC
1 CTTTTATCATTTAAAGTTTACTGCATCTGGTGAGATGAGC
*
18802109 C-TTTAACATTTAAAGTTT
1 CTTTTATCATTTAAAGTTT
18802127 GTTGCCTTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 16 0.30
40 38 0.70
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (40 bp):
CTTTTATCATTTAAAGTTTACTGCATCTGGTGAGATGAGC
Found at i:18802187 original size:118 final size:117
Alignment explanation
Indices: 18801959--18802514 Score: 611
Period size: 118 Copynumber: 4.7 Consensus size: 117
18801949 CAGATCTTTA
*
18801959 ATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTGAA-ATTTAAAGTTTGTTGCCTTTAGTTA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCCTTT-AACATTTAAAGTTTGTTGCCTTTAGTTA
* ** * **
18802023 AAGGAGCTTTTATCATTTAAAGTTTACTGCATCTGGTGAGATGAGCCTTTTATC
65 AAGGAGCTTTT-TAATTTAAAGTTTGTTGCCTCTAATGAGATGAGCCTTTTATC
*
18802077 ATTTAAAGTTTGTTGCCTCTGGTGAGATGAGCCTTTAACATTTAAAGTTTGTTGCCTTTAGTTAA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCCTTTAACATTTAAAGTTTGTTGCCTTTAGTTAA
* * * *
18802142 AAGAGCTTCTTTAATTTAAAGTTTGTTGCCTCTAACGAGAGGAGCC-TTTACC
66 AGGAGCTT-TTTAATTTAAAGTTTGTTGCCTCTAATGAGATGAGCCTTTTATC
* * * * *
18802194 ATTTAAAGTTTGTTACCTCTAGCGAGAGGAGCCTTCTAACATTTAAAGTTTGTTGCCATTCGTTA
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCCTT-TAACATTTAAAGTTTGTTGCCTTTAGTTA
* *
18802259 AAGGAGCTTTTATAATTTCAAGTTTGTTGCCTCTGATGAGATGAGCCTTTTATC
65 AAGGAGCTTTT-TAATTTAAAGTTTGTTGCCTCTAATGAGATGAGCCTTTTATC
* * * * * *
18802313 ATATAAAGTTTGTTGGCTTTAGTTAAAGGAGCTTCTTT-A-ATTTAAAGTTTGTTGCCTTTAGTT
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGC--CTTTAACATTTAAAGTTTGTTGCCTTTAGTT
* * ** * * *
18802376 AAATGAGCTTTTTGAATTTAAAATTTGTTTTCTCTAGTGAGAAGAGCCTTTGGA--
64 AAAGGAGCTTTTT-AATTTAAAGTTTGTTGCCTCTAATGAGATGAGCCTTT-TATC
* * * * * * * *
18802430 ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTATCATTTAAAGTTTGTTGCCTCTAGTGAG
1 ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCCTTTAACATTTAAAGTTTGTTGCCTTTAGTTAA
*
18802495 ATGAGCTTTTTTAATTTAAA
66 AGGAGC-TTTTTAATTTAAA
18802515 ATTTCATAGA
Statistics
Matches: 376, Mismatches: 50, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
115 3 0.01
117 107 0.28
118 228 0.61
119 34 0.09
120 1 0.00
121 3 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.42
Consensus pattern (117 bp):
ATTTAAAGTTTGTTGCCTCTGGTGAGAGGAGCCTTTAACATTTAAAGTTTGTTGCCTTTAGTTAA
AGGAGCTTTTTAATTTAAAGTTTGTTGCCTCTAATGAGATGAGCCTTTTATC
Found at i:18802287 original size:196 final size:195
Alignment explanation
Indices: 18801953--18802505 Score: 673
Period size: 196 Copynumber: 2.8 Consensus size: 195
18801943 TCCTCTCAGA
* * *
18801953 TCTTTAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTGAAATTTAAAGTTTGTTGCCTTT
1 TCTTTAATTTAAAGTTTGTTGCCTCTAGTAAGAGGAGCCTTT-AAATTTAAAGTTTGTTACCTCT
* * * * ** * * *
18802018 AGTTAAAGGAGCTTTTATCATTTAAAGTTTACTG-CATCTGGTGAGATGAGCCTTTTATCATTTA
65 AGTGAGAGGAGCCTTTAACATTTAAAGTTTGTTGCCAT-TGGTTAAAGGAG-CTTTTATCATTTA
*
18802082 AAGTTTGTTGCCTCTGGTGAGATGAGCC-TTTAACATTTAAAGTTTGTTGCCTTTAGTTAAAAGA
128 AAGTTTGTTGCCTCTGGTGAGATGAGCCTTTTAACATATAAAGTTTGTTGCCTTTAGTTAAAAGA
18802146 GCT
193 GCT
*** *
18802149 TCTTTAATTTAAAGTTTGTTGCCTCTAACGAGAGGAGCCTTTACCATTTAAAGTTTGTTACCTCT
1 TCTTTAATTTAAAGTTTGTTGCCTCTAGTAAGAGGAGCCTTTA-AATTTAAAGTTTGTTACCTCT
* * * *
18802214 AGCGAGAGGAGCCTTCTAACATTTAAAGTTTGTTGCCATTCGTTAAAGGAGCTTTTATAATTTCA
65 AGTGAGAGGAGCCTT-TAACATTTAAAGTTTGTTGCCATTGGTTAAAGGAGCTTTTATCATTTAA
* * * *
18802279 AGTTTGTTGCCTCTGATGAGATGAGCCTTTTATCATATAAAGTTTGTTGGCTTTAGTTAAAGGAG
129 AGTTTGTTGCCTCTGGTGAGATGAGCCTTTTAACATATAAAGTTTGTTGCCTTTAGTTAAAAGAG
18802344 CT
194 CT
* * * * * **
18802346 TCTTTAATTTAAAGTTTGTTGCCTTTAGTTAA-ATGAGCTTTTTGAATTTAAAATTTGTTTTCTC
1 TCTTTAATTTAAAGTTTGTTGCCTCTAG-TAAGAGGAGC-CTTTAAATTTAAAGTTTGTTACCTC
* * *
18802410 TAGTGAGAAGAGCCTTTGGA-ATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTATCATTTA
64 TAGTGAGAGGAGCCTTT-AACATTTAAAGTTTGTTGCCATTGGTTAAAGGAGCTTTTATCATTTA
* *
18802474 AAGTTTGTTGCCTCTAGTGAGATGAGCTTTTT
128 AAGTTTGTTGCCTCTGGTGAGATGAGCCTTTT
18802506 TAATTTAAAA
Statistics
Matches: 304, Mismatches: 46, Indels: 14
0.84 0.13 0.04
Matches are distributed among these distances:
195 1 0.00
196 175 0.58
197 121 0.40
198 7 0.02
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (195 bp):
TCTTTAATTTAAAGTTTGTTGCCTCTAGTAAGAGGAGCCTTTAAATTTAAAGTTTGTTACCTCTA
GTGAGAGGAGCCTTTAACATTTAAAGTTTGTTGCCATTGGTTAAAGGAGCTTTTATCATTTAAAG
TTTGTTGCCTCTGGTGAGATGAGCCTTTTAACATATAAAGTTTGTTGCCTTTAGTTAAAAGAGCT
Found at i:18802371 original size:236 final size:235
Alignment explanation
Indices: 18801958--18802514 Score: 685
Period size: 236 Copynumber: 2.4 Consensus size: 235
18801948 TCAGATCTTT
*
18801958 AATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTGAA-ATTTAAAGTTTGTTGCCTTTAGTT
1 AATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTT-AACATTTAAAGTTTGTTGCCATTAGTT
* * *
18802022 AAAGGAGCTTTTATCATTTAAAGTTTACTGCATCTGGTGAGATGAGCCTTTTATCATTTAAAGTT
65 AAAGGAGCTTTTATAATTTAAAGTTTACTGCATCTGATGAGATGAGCCTTTTATCATATAAAGTT
* * *
18802087 TGTTGCCTCTGGTGAGATGAGCCTTTAACATTTAAAGTTTGTTGCCTTTAGTTAAAAGAGCTTCT
130 TGTTGCCTCTAGTGAAAGGAGCCTTTAACATTTAAAGTTTGTTGCCTTTAGTTAAAAGAGCTT-T
* *
18802152 TT-AATTTAAAGTTTGTTGCCTCTAACGAGAGGAGCCTTTAC
194 TTGAATTTAAAATTTGTTGCCTCTAACGAGAAGAGCCTTTAC
* * * ** *
18802193 CATTTAAAGTTTGTTACCTCTAGCGAGAGGAGCCTTCTAACATTTAAAGTTTGTTGCCATTCGTT
1 AATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTT-TAACATTTAAAGTTTGTTGCCATTAGTT
* ** *
18802258 AAAGGAGCTTTTATAATTTCAAGTTTGTTGCCTCTGATGAGATGAGCCTTTTATCATATAAAGTT
65 AAAGGAGCTTTTATAATTTAAAGTTTACTGCATCTGATGAGATGAGCCTTTTATCATATAAAGTT
* * * *
18802323 TGTTGGCTTTAGTTAAAGGAGCTTCTTT-A-ATTTAAAGTTTGTTGCCTTTAGTTAAATGAGCTT
130 TGTTGCCTCTAGTGAAAGGAGC--CTTTAACATTTAAAGTTTGTTGCCTTTAGTTAAAAGAGCTT
** ** **
18802386 TTTGAATTTAAAATTTGTTTTCTCTAGTGAGAAGAGCCTTTGG
193 TTTGAATTTAAAATTTGTTGCCTCTAACGAGAAGAGCCTTTAC
* * *
18802429 AATTTAAAGTTTGTTGCCTTTGGTTAA-AGGAGCTTTTATCATTTAAAGTTTGTTGCC-TCTAGT
1 AATTTAAAGTTTGTTGCCTCTGG-TAAGAGGAGCCTTTAACATTTAAAGTTTGTTGCCAT-TAGT
* * * *
18802492 GAGATGAGCTTTTTTAATTTAAA
64 TAAAGGAGCTTTTATAATTTAAA
18802515 ATTTCATAGA
Statistics
Matches: 272, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
234 1 0.00
235 77 0.28
236 188 0.69
237 2 0.01
238 4 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.42
Consensus pattern (235 bp):
AATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTAACATTTAAAGTTTGTTGCCATTAGTTA
AAGGAGCTTTTATAATTTAAAGTTTACTGCATCTGATGAGATGAGCCTTTTATCATATAAAGTTT
GTTGCCTCTAGTGAAAGGAGCCTTTAACATTTAAAGTTTGTTGCCTTTAGTTAAAAGAGCTTTTT
GAATTTAAAATTTGTTGCCTCTAACGAGAAGAGCCTTTAC
Found at i:18802501 original size:39 final size:39
Alignment explanation
Indices: 18801957--18802514 Score: 448
Period size: 39 Copynumber: 14.2 Consensus size: 39
18801947 CTCAGATCTT
* * *
18801957 TAATTTAAAGTTTGTTGCCTCTGGTAAGAGGAGCCTTTGA
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAG-CTTTTA
* * *
18801997 -AATTTAAAGTTTGTTGCCTTTAGTTAAAGGAGCTTTTA
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTA
* ** * * *
18802035 TCATTTAAAGTTTACTGCATCTGGTGAGATGAGCCTTTTA
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAG-CTTTTA
* * * *
18802075 TCATTTAAAGTTTGTTGCCTCTGGTGAGATGAGCCTTTA
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTA
* * * *
18802114 -ACATTTAAAGTTTGTTGCCTTTAGTTAAAAGAGCTTCTT-
1 TA-ATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTT-TTA
** *
18802153 TAATTTAAAGTTTGTTGCCTCTAACGAGAGGAGCCTTTA
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTA
** * * *
18802192 CCATTTAAAGTTTGTTACCTCTAGCGAGAGGAGCCTTCTA
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAG-CTTTTA
* * *
18802232 -ACATTTAAAGTTTGTTGCCAT-TCGTTAAAGGAGCTTTTA
1 TA-ATTTAAAGTTTGTTGCC-TCTAGTGAGAGGAGCTTTTA
* *
18802271 TAATTTCAAGTTTGTTGCCTCT-GATGAGATGAGCCTTTTA
1 TAATTTAAAGTTTGTTGCCTCTAG-TGAGAGGAG-CTTTTA
* * * * * *
18802311 TCATATAAAGTTTGTTGGCTTTAGTTAAAGGAGCTTCTT-
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTT-TTA
* * * *
18802350 TAATTTAAAGTTTGTTGCCTTTAGTTAAATGAGCTTTT-
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTA
* ** * * *
18802388 TGAATTTAAAATTTGTTTTCTCTAGTGAGAAGAGCCTTTG
1 T-AATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTA
* * * * *
18802428 GAATTTAAAGTTTGTTGCCTTTGGTTAAAGGAGCTTTTA
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTA
* * *
18802467 TCATTTAAAGTTTGTTGCCTCTAGTGAGATGAGCTTTTT
1 TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTA
18802506 TAATTTAAA
1 TAATTTAAA
18802515 ATTTCATAGA
Statistics
Matches: 412, Mismatches: 89, Indels: 35
0.77 0.17 0.07
Matches are distributed among these distances:
38 12 0.03
39 299 0.73
40 99 0.24
41 2 0.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.42
Consensus pattern (39 bp):
TAATTTAAAGTTTGTTGCCTCTAGTGAGAGGAGCTTTTA
Found at i:18802716 original size:6 final size:6
Alignment explanation
Indices: 18802705--18802734 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
18802695 TTATTTTTTT
*
18802705 TATTAA TATTAA TATTAA TATTAT TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA
18802735 ATAATTACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TATTAA
Found at i:18803008 original size:25 final size:24
Alignment explanation
Indices: 18802980--18803029 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
18802970 CAGAGAGAAC
* *
18802980 AAAAAAGGCAAACACACAATAAAAA
1 AAAAAAAGCAAACAAACAA-AAAAA
18803005 AAAAAAAGCAAACAAACAAAAAAA
1 AAAAAAAGCAAACAAACAAAAAAA
18803029 A
1 A
18803030 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.78, C:0.14, G:0.06, T:0.02
Consensus pattern (24 bp):
AAAAAAAGCAAACAAACAAAAAAA
Found at i:18806694 original size:29 final size:29
Alignment explanation
Indices: 18806639--18806694 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
18806629 TAAATTATAG
* * *
18806639 TAAAATATTTAATATGGTATTTGAATTTT
1 TAAAATATTTAATATAGTACTTAAATTTT
* *
18806668 TAAAATTTTTAATTTAGTACTTAAATT
1 TAAAATATTTAATATAGTACTTAAATT
18806695 ATGAATTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (29 bp):
TAAAATATTTAATATAGTACTTAAATTTT
Found at i:18810527 original size:2 final size:2
Alignment explanation
Indices: 18810520--18810571 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
18810510 TTCCAAGCAC
* * * * *
18810520 AT AT AT AT A- AT AT AT AT AT AT GT GT GT GT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18810561 AT AT AT AT AT A
1 AT AT AT AT AT A
18810572 AACTGACTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18811435 original size:90 final size:90
Alignment explanation
Indices: 18811334--18812085 Score: 825
Period size: 90 Copynumber: 8.4 Consensus size: 90
18811324 GTTACTTGTA
* * * * * * * **
18811334 ATATGGGGGAGGTGGTGGTGACTTGTAAACATATGGCGGAGGTGGAGGAGACTTGTATATGTATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* *
18811399 GAGGAGGTGGTGGTGACTTATAAAC
66 GAGGAGGTGGTGGTGATTTATAAAT
* *
18811424 ATATGGAGGAGGTGGAGGTGACTTGTAGACATATGGAGGAGGTGGTGGTGACTTGTACATATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* * * *
18811489 GAGGGGGTGGTGGTGACTTGTACAT
66 GAGGAGGTGGTGGTGATTTATAAAT
* * * * * *
18811514 ATATGGAGGGGGTGGTGGTGACTTGTACATATATGGAGGGGGTGGTGGTGACTTGTATACATACG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
*
18811579 GAGGTGGTGGTGGTGATTTATAAAT
66 GAGGAGGTGGTGGTGATTTATAAAT
* * * *
18811604 GTATGGAGAAGGTGGAGGTGATTTGTACACATATGGAGGAGGTGGAGGTGACTTGTACACATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
18811669 GAGGAGGTGGTGGTGATTTATAAAT
66 GAGGAGGTGGTGGTGATTTATAAAT
* * ** * * * * *
18811694 ATAT---GGAGGTGGAGGTGACATGTATATGTAAGGAGGAGGTAGTGGTGGCTTATAAACATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* * * * *
18811756 GAGGAGGTGGAGGTGACTTGTAGAC
66 GAGGAGGTGGTGGTGATTTATAAAT
* * * * *
18811781 ATATGGAGGAGGTGGTGGTGACTTGTACATATATGGAGGGGGTGGTGGTGACTTGTATACATACG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
*
18811846 GAGGTGGTGGTGGTGATTTATAAAT
66 GAGGAGGTGGTGGTGATTTATAAAT
* * * *
18811871 GTATGGAGAAGGTGGAGGTGATTTGTACACATATGGAGGAGGTGGAGGTGACTTGTACACATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
18811936 GAGGAGGTGGTGGTGATTTATAAAT
66 GAGGAGGTGGTGGTGATTTATAAAT
* ** * * * * *
18811961 ATAT---GGAGGTGGAGGTGACTTGTATATGTAAGGAGGAGGTAGTGGTGGCTTATAAACATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* * * * *
18812023 GAGGAGGTGGAGGTGACTTGTACAC
66 GAGGAGGTGGTGGTGATTTATAAAT
* * * * *
18812048 GTA-CGAGGTGGTGGAGGTGACTTGTATACGTATGGAGG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGG
18812086 TGGTACATAG
Statistics
Matches: 555, Mismatches: 101, Indels: 13
0.83 0.15 0.02
Matches are distributed among these distances:
87 139 0.25
89 29 0.05
90 387 0.70
ACGTcount: A:0.26, C:0.06, G:0.40, T:0.28
Consensus pattern (90 bp):
ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
GAGGAGGTGGTGGTGATTTATAAAT
Found at i:18812089 original size:30 final size:30
Alignment explanation
Indices: 18811334--18812085 Score: 739
Period size: 30 Copynumber: 25.3 Consensus size: 30
18811324 GTTACTTGTA
* *
18811334 ATATGGGGGAGGTGGTGGTGACTTGTAAAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * * *
18811364 ATATGGCGGAGGTGGAGGAGACTTGTATAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * *
18811394 GTATGGAGGAGGTGGTGGTGACTTATAAAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18811424 ATATGGAGGAGGTGGAGGTGACTTGTAGAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18811454 ATATGGAGGAGGTGGTGGTGACTTGTACAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18811484 ATATGGAGGGGGTGGTGGTGACTTGTACAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18811514 ATATGGAGGGGGTGGTGGTGACTTGTACAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18811544 ATATGGAGGGGGTGGTGGTGACTTGTATAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * * * *
18811574 ATACGGAGGTGGTGGTGGTGATTTATAAAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * *
18811604 GTATGGAGAAGGTGGAGGTGATTTGTACAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18811634 ATATGGAGGAGGTGGAGGTGACTTGTACAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18811664 ATATGGAGGAGGTGGTGGTGA-TT-TATAA
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * *
18811692 ATAT--ATGGAGGTGGAGGTGACATGTATAT
1 ATATGGA-GGAGGTGGTGGTGACTTGTACAC
* * * * * *
18811721 GTAAGGAGGAGGTAGTGGTGGCTTATAAAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18811751 ATATGGAGGAGGTGGAGGTGACTTGTAGAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18811781 ATATGGAGGAGGTGGTGGTGACTTGTACAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18811811 ATATGGAGGGGGTGGTGGTGACTTGTATAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * * * *
18811841 ATACGGAGGTGGTGGTGGTGATTTATAAAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * *
18811871 GTATGGAGAAGGTGGAGGTGATTTGTACAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18811901 ATATGGAGGAGGTGGAGGTGACTTGTACAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18811931 ATATGGAGGAGGTGGTGGTGA-TT-TATAA
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * *
18811959 ATAT--ATGGAGGTGGAGGTGACTTGTATAT
1 ATATGGA-GGAGGTGGTGGTGACTTGTACAC
* * * * * *
18811988 GTAAGGAGGAGGTAGTGGTGGCTTATAAAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18812018 ATATGGAGGAGGTGGAGGTGACTTGTACAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * * *
18812048 GTA-CGAGGTGGTGGAGGTGACTTGTATAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18812077 GTATGGAGG
1 ATATGGAGG
18812086 TGGTACATAG
Statistics
Matches: 602, Mismatches: 109, Indels: 22
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.00
27 26 0.04
28 17 0.03
29 42 0.07
30 513 0.85
31 2 0.00
ACGTcount: A:0.26, C:0.06, G:0.40, T:0.28
Consensus pattern (30 bp):
ATATGGAGGAGGTGGTGGTGACTTGTACAC
Found at i:18815202 original size:10 final size:10
Alignment explanation
Indices: 18815187--18815228 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
18815177 TAATTATTTT
18815187 ATTTATTTAA
1 ATTTATTTAA
18815197 ATTTATTTAA
1 ATTTATTTAA
* *
18815207 ATATATTAAA
1 ATTTATTTAA
18815217 ATTTATATTAA
1 ATTTAT-TTAA
18815228 A
1 A
18815229 ATATAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
10 23 0.85
11 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTATTTAA
Found at i:18815218 original size:20 final size:20
Alignment explanation
Indices: 18815190--18815236 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
18815180 TTATTTTATT
*
18815190 TATTTAAATTTAT-TTAAATA
1 TATTAAAATTTATATTAAA-A
18815210 TATTAAAATTTATATTAAAA
1 TATTAAAATTTATATTAAAA
18815230 TA-TAAAA
1 TATTAAAA
18815237 AAATGTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 5 0.20
20 15 0.60
21 5 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTAAAATTTATATTAAAA
Found at i:18815239 original size:22 final size:20
Alignment explanation
Indices: 18815195--18815240 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
18815185 TTATTTATTT
**
18815195 AAATTTATTTAAATATATTA
1 AAATTTATTTAAATATAAAA
18815215 AAATTTATATTAAAATATAAAA
1 AAATTTAT-TT-AAATATAAAA
18815237 AAAT
1 AAAT
18815241 GTAAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 2 0.09
22 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATTTATTTAAATATAAAA
Found at i:18817350 original size:3 final size:3
Alignment explanation
Indices: 18817344--18817378 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
18817334 AGAACAGAAA
* *
18817344 ATT ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18817379 AGTTATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:18817361 original size:12 final size:12
Alignment explanation
Indices: 18817343--18817384 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
18817333 AAGAACAGAA
18817343 AATTATTATTAT
1 AATTATTATTAT
*
18817355 TATTATTATTAT
1 AATTATTATTAT
*
18817367 AAATATTATTAT
1 AATTATTATTAT
*
18817379 AGTTAT
1 AATTAT
18817385 ATATAATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
AATTATTATTAT
Found at i:18817499 original size:27 final size:28
Alignment explanation
Indices: 18817468--18817531 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
18817458 AATTTTAGTC
*
18817468 AAATTATTTATTATTGTATTAAA-TAAT-
1 AAATTATTTA-TATTATATTAAATTAATA
*
18817495 AAATTATATATATTATATTAAATTAATA
1 AAATTATTTATATTATATTAAATTAATA
18817523 AAATTATTT
1 AAATTATTT
18817532 CATAATTCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.34
27 13 0.41
28 8 0.25
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
AAATTATTTATATTATATTAAATTAATA
Found at i:18821459 original size:29 final size:30
Alignment explanation
Indices: 18821403--18821459 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
18821393 TAAATTATAG
* * *
18821403 TAAAATATTTTAATATGGTATTTGAATTTT
1 TAAAATATTTTAATATAGTACTTAAATTTT
*
18821433 TAAAAT-TTTTAATTTAGTACTTAAATT
1 TAAAATATTTTAATATAGTACTTAAATT
18821460 ATGAATTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.53
Consensus pattern (30 bp):
TAAAATATTTTAATATAGTACTTAAATTTT
Found at i:18825305 original size:2 final size:2
Alignment explanation
Indices: 18825300--18825339 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
18825290 CATATATGTG
* *
18825300 TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18825340 AACTGACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:18826222 original size:90 final size:90
Alignment explanation
Indices: 18826121--18826874 Score: 811
Period size: 90 Copynumber: 8.4 Consensus size: 90
18826111 GTTACTTGTA
* * * * * * * **
18826121 ATATGGGGGAGGTGGTGGTGACTTGTAAACATATGGCGGAGGTGGAGGAGACTTGTATATGTATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
*
18826186 GAGGAGGTGGTGGTGACTTATAAAC
66 GAGGAGGTGGTGGTGACTTATAAAT
* *
18826211 ATATGGAGGAGGTGGAGGTGACTTGTAGACATATGGAGGAGGTGGTGGTGACTTGTACATATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* * *
18826276 GAGGGGGTGGTGGTGACTTGTACAT
66 GAGGAGGTGGTGGTGACTTATAAAT
* * * * * *
18826301 ATATGGAGGGGGTGGTGGTGACTTGTACATATATGGAGGGGGTGGTGGTGACTTGTATACATACG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* *
18826366 GAGGTGGTGGTGGTGATTTATAAAAT
66 GAGGAGGTGGTGGTGACTTAT-AAAT
* * * *
18826392 GTATGGAGAAGGTGGAGGTGATTTGTACACATATGGAGGGAGGTGG-AGTGACTTGTACACATAT
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGA-GGAGGTGGTGGTGACTTGTACACATAT
*
18826456 GGAGGAGGTGGTGGTGATTTATAAAT
65 GGAGGAGGTGGTGGTGACTTATAAAT
* * ** * * * * *
18826482 ATAT---GGAGGTGGAGGTGACATGTATATGTAAGGAGGAGGTAGTGGTGGCTTATAAACATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* * * *
18826544 GAGGAGGTGGAGGTGACTTGTAGAC
66 GAGGAGGTGGTGGTGACTTATAAAT
* * * * *
18826569 ATATGGAGGAGGTGGTGGTGACTTGTACATATATGGAGGGGGTGGTGGTGACTTGTATACATACG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* *
18826634 GAGGTGGTGGTGGTGATTTATAAAT
66 GAGGAGGTGGTGGTGACTTATAAAT
* * * *
18826659 GTATGGAGAAGGTGGAGGTGATTTGTACACATATGGAGGAGGTGGAGGTGACTTGTACACATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
*
18826724 GAGGAGGTGGTGGTGATTTATAAAT
66 GAGGAGGTGGTGGTGACTTATAAAT
* ** * * * * *
18826749 ATAT---GGAGGTGGAGGTGACTTGTATATGTAAGGAGGAGGTAGTGGTGGCTTATAAACATATG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
* * * *
18826811 GAGGAGGTGGAGGTGACTTGTACAC
66 GAGGAGGTGGTGGTGACTTATAAAT
* * * * *
18826836 GTACGGAGGTGGTGGAGGTGACTTGTATACGTATGGAGG
1 ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGG
18826875 TGGTACATAG
Statistics
Matches: 553, Mismatches: 102, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
86 7 0.01
87 131 0.24
90 338 0.61
91 70 0.13
92 7 0.01
ACGTcount: A:0.26, C:0.06, G:0.40, T:0.28
Consensus pattern (90 bp):
ATATGGAGGAGGTGGAGGTGACTTGTACACATATGGAGGAGGTGGTGGTGACTTGTACACATATG
GAGGAGGTGGTGGTGACTTATAAAT
Found at i:18826878 original size:30 final size:30
Alignment explanation
Indices: 18826121--18826874 Score: 727
Period size: 30 Copynumber: 25.3 Consensus size: 30
18826111 GTTACTTGTA
* *
18826121 ATATGGGGGAGGTGGTGGTGACTTGTAAAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * * *
18826151 ATATGGCGGAGGTGGAGGAGACTTGTATAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * *
18826181 GTATGGAGGAGGTGGTGGTGACTTATAAAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18826211 ATATGGAGGAGGTGGAGGTGACTTGTAGAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18826241 ATATGGAGGAGGTGGTGGTGACTTGTACAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18826271 ATATGGAGGGGGTGGTGGTGACTTGTACAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18826301 ATATGGAGGGGGTGGTGGTGACTTGTACAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18826331 ATATGGAGGGGGTGGTGGTGACTTGTATAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * * *
18826361 ATACGGAGGTGGTGGTGGTGATTTATA-AA
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * *
18826390 ATGTATGGAGAAGGTGGAGGTGATTTGTACAC
1 A--TATGGAGGAGGTGGTGGTGACTTGTACAC
*
18826422 ATATGGAGGGAGGTGG-AGTGACTTGTACAC
1 ATATGGA-GGAGGTGGTGGTGACTTGTACAC
* *
18826452 ATATGGAGGAGGTGGTGGTGA-TT-TATAA
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * *
18826480 ATAT--ATGGAGGTGGAGGTGACATGTATAT
1 ATATGGA-GGAGGTGGTGGTGACTTGTACAC
* * * * * *
18826509 GTAAGGAGGAGGTAGTGGTGGCTTATAAAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18826539 ATATGGAGGAGGTGGAGGTGACTTGTAGAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18826569 ATATGGAGGAGGTGGTGGTGACTTGTACAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18826599 ATATGGAGGGGGTGGTGGTGACTTGTATAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * * * *
18826629 ATACGGAGGTGGTGGTGGTGATTTATAAAT
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * *
18826659 GTATGGAGAAGGTGGAGGTGATTTGTACAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18826689 ATATGGAGGAGGTGGAGGTGACTTGTACAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* *
18826719 ATATGGAGGAGGTGGTGGTGA-TT-TATAA
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * *
18826747 ATAT--ATGGAGGTGGAGGTGACTTGTATAT
1 ATATGGA-GGAGGTGGTGGTGACTTGTACAC
* * * * * *
18826776 GTAAGGAGGAGGTAGTGGTGGCTTATAAAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18826806 ATATGGAGGAGGTGGAGGTGACTTGTACAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
* * * * *
18826836 GTACGGAGGTGGTGGAGGTGACTTGTATAC
1 ATATGGAGGAGGTGGTGGTGACTTGTACAC
*
18826866 GTATGGAGG
1 ATATGGAGG
18826875 TGGTACATAG
Statistics
Matches: 603, Mismatches: 106, Indels: 30
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.00
27 26 0.04
28 17 0.03
29 26 0.04
30 500 0.83
31 30 0.05
32 2 0.00
ACGTcount: A:0.26, C:0.06, G:0.40, T:0.28
Consensus pattern (30 bp):
ATATGGAGGAGGTGGTGGTGACTTGTACAC
Done.