Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 38
Found at i:5944692 original size:17 final size:18
Alignment explanation
Indices: 5944667--5944714 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
5944657 TTTTTATGTG
5944667 ATTGT-TTTTTTCTTTTC
1 ATTGTATTTTTTCTTTTC
*
5944684 ATT-TATTTTTTATTTTC
1 ATTGTATTTTTTCTTTTC
*
5944701 TTTGTATTTTTTCT
1 ATTGTATTTTTTCT
5944715 CATTATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 16 0.62
18 9 0.35
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.77
Consensus pattern (18 bp):
ATTGTATTTTTTCTTTTC
Found at i:5946963 original size:4 final size:4
Alignment explanation
Indices: 5946923--5947001 Score: 67
Period size: 4 Copynumber: 19.5 Consensus size: 4
5946913 ATAAAGATAT
*
5946923 TAAA TAAA -ATAA TAAA TCAAA GGAAA -AAA TAAAA TAAA TAAA TAAA
1 TAAA TAAA TA-AA TAAA T-AAA -TAAA TAAA T-AAA TAAA TAAA TAAA
*
5946969 TATAA TAAA TAAA TAAA T-AA CAAA TAAA -AAA TA
1 TA-AA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
5947002 CTGAAACTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
3 9 0.14
4 39 0.62
5 15 0.24
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:5946969 original size:17 final size:17
Alignment explanation
Indices: 5946949--5947001 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
5946939 TCAAAGGAAA
5946949 AAATAAAATAAATAAAT
1 AAATAAAATAAATAAAT
*
5946966 AAATATAATAAATAAAT
1 AAATAAAATAAATAAAT
5946983 AAATAACAAATAAA-AAAT
1 AAAT-A-AAATAAATAAAT
5947001 A
1 A
5947002 CTGAAACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 20 0.62
18 6 0.19
19 6 0.19
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAAATAAATAAAT
Found at i:5948985 original size:34 final size:34
Alignment explanation
Indices: 5948924--5949012 Score: 97
Period size: 34 Copynumber: 2.6 Consensus size: 34
5948914 TAACGTTTTT
* *
5948924 AATATGTTTACGAACGTTACACGAACGCTAAACA
1 AATATGTTTACGAACGTTAAACAAACGCTAAACA
* * **
5948958 AATATGTTTGCGAATGTTAAACAAACGCTAAATG
1 AATATGTTTACGAACGTTAAACAAACGCTAAACA
* * *
5948992 AACATGTTCACGAACATTAAA
1 AATATGTTTACGAACGTTAAA
5949013 TGAATGCTAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (34 bp):
AATATGTTTACGAACGTTAAACAAACGCTAAACA
Found at i:5949029 original size:22 final size:22
Alignment explanation
Indices: 5949001--5949051 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
5948991 GAACATGTTC
5949001 ACGAACATTAAATGAATGCTAA
1 ACGAACATTAAATGAATGCTAA
5949023 ACGAACATTAAATGAATGCTAA
1 ACGAACATTAAATGAATGCTAA
5949045 ACGAACA
1 ACGAACA
5949052 CGTTCGCGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.20
Consensus pattern (22 bp):
ACGAACATTAAATGAATGCTAA
Found at i:5950166 original size:20 final size:20
Alignment explanation
Indices: 5950137--5950227 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
5950127 CGCGATCTCG
5950137 AATTCGCAACAC-AGTTTCCA
1 AATTCGCAACACGA-TTTCCA
* *
5950157 AATTCTCAACGCGATTTCCA
1 AATTCGCAACACGATTTCCA
*
5950177 AATTCGTAACACTGAATTT-CA
1 AATTCGCAACAC-G-ATTTCCA
* * **
5950198 AATTTGCAACTCGATTTCTG
1 AATTCGCAACACGATTTCCA
5950218 AATTCGCAAC
1 AATTCGCAAC
5950228 GTGAATTTTG
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
19 4 0.07
20 35 0.62
21 13 0.23
22 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (20 bp):
AATTCGCAACACGATTTCCA
Found at i:5950222 original size:41 final size:39
Alignment explanation
Indices: 5950116--5950227 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 39
5950106 AAATGACCAA
* * *
5950116 CAAATTTGTAACGCGATCTCGAATTCGCAACACAGTTTC
1 CAAATTTGCAACGCGATTTCGAATTCGCAACACAATTTC
* *
5950155 CAAATTCT-CAACGCGATTTCCAAATTCGTAACACTGAATTT-
1 CAAATT-TGCAACGCGATTT-CGAATTCGCAACAC--AATTTC
*
5950196 CAAATTTGCAACTCGATTTCTGAATTCGCAAC
1 CAAATTTGCAACGCGATTTC-GAATTCGCAAC
5950228 GTGAATTTTG
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
39 15 0.25
40 15 0.25
41 25 0.42
42 4 0.07
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.30
Consensus pattern (39 bp):
CAAATTTGCAACGCGATTTCGAATTCGCAACACAATTTC
Found at i:5950244 original size:40 final size:40
Alignment explanation
Indices: 5950200--5950276 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
5950190 GAATTTCAAA
* **
5950200 TTTGCAACTCGA-TTTCTGAATTCGCAACGTGAATTTTGTT
1 TTTGCAACTCAATTTTC-GAATTCGCAACACGAATTTTGTT
*
5950240 TTTGCAACTCAATTTTCGAATTTGCAACACGAATTTT
1 TTTGCAACTCAATTTTCGAATTCGCAACACGAATTTT
5950277 AATTTCGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (40 bp):
TTTGCAACTCAATTTTCGAATTCGCAACACGAATTTTGTT
Found at i:5950263 original size:20 final size:20
Alignment explanation
Indices: 5950193--5950267 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
5950183 TAACACTGAA
* *
5950193 TTTCAAATTTGCAACTCGA-
1 TTTCGAATTTGCAACTCAAT
* *
5950212 TTTCTGAATTCGCAACGTGAAT
1 TTTC-GAATTTGCAAC-TCAAT
**
5950234 TTT-GTTTTTGCAACTCAAT
1 TTTCGAATTTGCAACTCAAT
5950253 TTTCGAATTTGCAAC
1 TTTCGAATTTGCAAC
5950268 ACGAATTTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
19 11 0.26
20 26 0.62
21 2 0.05
22 3 0.07
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (20 bp):
TTTCGAATTTGCAACTCAAT
Found at i:5950287 original size:40 final size:39
Alignment explanation
Indices: 5950177--5950287 Score: 98
Period size: 40 Copynumber: 2.7 Consensus size: 39
5950167 GCGATTTCCA
* * *
5950177 AATTCGTAACACTGAATTTCAAATTTGCAACTCGATTTCTG
1 AATTCGCAACAC-GAATTT-TAATTTGCAACTCAATTTCTG
** **
5950218 AATTCGCAACGTGAATTTTGTTTTTGCAACTCAATTT-TCG
1 AATTCGCAACACGAATTTT-AATTTGCAACTCAATTTCT-G
*
5950258 AATTTGCAACACGAATTTTAATTTCGCAAC
1 AATTCGCAACACGAATTTTAATTT-GCAAC
5950288 AGGTTTTATT
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
39 4 0.07
40 42 0.76
41 9 0.16
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (39 bp):
AATTCGCAACACGAATTTTAATTTGCAACTCAATTTCTG
Found at i:5951094 original size:12 final size:12
Alignment explanation
Indices: 5951073--5951106 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5951063 ACCACATTTC
*
5951073 CAATACCAAACA
1 CAATATCAAACA
5951085 CAATATCAAACA
1 CAATATCAAACA
*
5951097 CAATCTCAAA
1 CAATATCAAA
5951107 ACCCATAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:5951976 original size:19 final size:19
Alignment explanation
Indices: 5951952--5951990 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5951942 GACATGAATG
5951952 CCCGGTTCAAGATTAGTAT
1 CCCGGTTCAAGATTAGTAT
5951971 CCCGGTTCAAGATTAGTAT
1 CCCGGTTCAAGATTAGTAT
5951990 C
1 C
5951991 TCATATTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (19 bp):
CCCGGTTCAAGATTAGTAT
Found at i:5953929 original size:49 final size:49
Alignment explanation
Indices: 5953842--5953936 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
5953832 GCGATTTTTT
* ** *
5953842 GTTGCGATTGTTGCAAAAGTCAAATTCGTAACGCGAAAGTCAAATTCGC
1 GTTGCAATTGTTGCAAAAGTCAAATTCAAAACGCGAAAGTAAAATTCGC
** * *
5953891 GTTGCAATTGTTGTGAAAGTCAAATTTAAAACGTGAAAGTAAAATT
1 GTTGCAATTGTTGCAAAAGTCAAATTCAAAACGCGAAAGTAAAATT
5953937 TGCAACAATC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (49 bp):
GTTGCAATTGTTGCAAAAGTCAAATTCAAAACGCGAAAGTAAAATTCGC
Found at i:5955513 original size:21 final size:21
Alignment explanation
Indices: 5955487--5955599 Score: 145
Period size: 21 Copynumber: 5.4 Consensus size: 21
5955477 GTGAATCGAG
* *
5955487 CTCTTGAACGGTGGGAGGGAC
1 CTCTTGAACGGTGGCAGGGGC
* *
5955508 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGCAGGGGC
*
5955529 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGCAGGGGC
* * *
5955550 CCCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGCAGGGGC
*
5955571 CTCTTGAACGGTGGTAGGGGC
1 CTCTTGAACGGTGGCAGGGGC
5955592 CTCTTGAA
1 CTCTTGAA
5955600 TCGGGCTTCT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.20
Consensus pattern (21 bp):
CTCTTGAACGGTGGCAGGGGC
Found at i:5955546 original size:42 final size:42
Alignment explanation
Indices: 5955487--5955599 Score: 199
Period size: 42 Copynumber: 2.7 Consensus size: 42
5955477 GTGAATCGAG
*
5955487 CTCTTGAACGGTGGGAGGGACCTCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
*
5955529 CTCTTGAACGGTGGGAGGGGCCCCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
*
5955571 CTCTTGAACGGTGGTAGGGGCCTCTTGAA
1 CTCTTGAACGGTGGGAGGGGCCTCTTGAA
5955600 TCGGGCTTCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGACAGGGGC
Found at i:5956029 original size:21 final size:21
Alignment explanation
Indices: 5955999--5956045 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5955989 ACCATTGTCG
* *
5955999 TCACGTAAAGTACCGACCTCA
1 TCACGCAAAGCACCGACCTCA
*
5956020 TCACGCAAAGCACTGACCTCA
1 TCACGCAAAGCACCGACCTCA
5956041 TCACG
1 TCACG
5956046 TAACTCCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.36, G:0.15, T:0.17
Consensus pattern (21 bp):
TCACGCAAAGCACCGACCTCA
Found at i:5957647 original size:19 final size:20
Alignment explanation
Indices: 5957604--5957650 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
5957594 TCGCAACGTG
*
5957604 AAAATCGCAACGCGAAAATT
1 AAAATCGCAACGCGAAAACT
5957624 AAAATCGCAACGCG-AAACT
1 AAAATCGCAACGCGAAAACT
5957643 AAAATCGC
1 AAAATCGC
5957651 GTTGTGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.49, C:0.23, G:0.15, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAACT
Found at i:5957682 original size:20 final size:20
Alignment explanation
Indices: 5957657--5957695 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
5957647 TCGCGTTGTG
5957657 ATTTTCGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
5957677 ATTTTCGTGTTGCGAATTT
1 ATTTTCGTGTTGCGAATTT
5957696 AAGTTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.51
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:5957702 original size:20 final size:20
Alignment explanation
Indices: 5957659--5957702 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
5957649 GCGTTGTGAT
* *
5957659 TTTCGTGTTGCGAATTTCAT
1 TTTCGTGTTGCGAATTTAAG
5957679 TTTCGTGTTGCGAATTTAAG
1 TTTCGTGTTGCGAATTTAAG
5957699 TTTC
1 TTTC
5957703 AAATTTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGTGTTGCGAATTTAAG
Found at i:5958062 original size:22 final size:22
Alignment explanation
Indices: 5958036--5958090 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
5958026 TGAGATAGAT
5958036 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCGCCGGAGATGGGGAC
*
5958058 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGCCGGAGATGGGGAC
*
5958080 GGATGTCGCCG
1 GGATTTCGCCG
5958091 TAGAGAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.16, C:0.18, G:0.45, T:0.20
Consensus pattern (22 bp):
GGATTTCGCCGGAGATGGGGAC
Found at i:5958534 original size:24 final size:25
Alignment explanation
Indices: 5958494--5958540 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
5958484 TATACGTTGT
*
5958494 GGGAGCGAATTTAT-AAATTTTAAA
1 GGGAACGAATTTATAAAATTTTAAA
5958518 GGGAACGAATTCT-TAAAATTTTA
1 GGGAACGAATT-TATAAAATTTTA
5958541 TGTGTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.34
Consensus pattern (25 bp):
GGGAACGAATTTATAAAATTTTAAA
Found at i:5959073 original size:2 final size:2
Alignment explanation
Indices: 5959066--5959094 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5959056 ATTTTCGTCT
5959066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5959095 TGTATAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5959138 original size:37 final size:38
Alignment explanation
Indices: 5959086--5959379 Score: 209
Period size: 37 Copynumber: 8.2 Consensus size: 38
5959076 TATATATATA
* * *
5959086 TATATATATTGTATAG-TTTGAAAACATTTTTTTAAAC
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
* * * *
5959123 TATATATAATATATAGTTTTGAAAACATGTTTGAAAAC
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
* *
5959161 ATTTATATATTATATAGTTTTTAAAACA--TTTTAAAAA
1 -TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
* * * *
5959198 TAAATATAATATATAGTTTTTAAAGCA-TTTTTGAAA-
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
*
5959234 -ATATATATTATATAGTTTTTAAAACA--TTTT--GA-
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
*
5959266 -A-A-ATA-TATATAGTTTTTAAAGCA-TTTTTAAAAC
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
* *
5959299 ACATATATATTATATAG-TTTT--GACATTATTTTGAAAAC
1 -TATATATATTATATAGTTTTTAAAACATT-TTTT-AAAAC
* *
5959337 T-TATATGA-TATATA-ATTTTAAGAACATTTTTAAAAAC
1 TATATAT-ATTATATAGTTTTTAA-AACATTTTTTAAAAC
5959374 TATATA
1 TATATA
5959380 ATTTTGAAAA
Statistics
Matches: 210, Mismatches: 26, Indels: 41
0.76 0.09 0.15
Matches are distributed among these distances:
29 17 0.08
30 7 0.03
31 1 0.00
32 3 0.01
34 4 0.02
35 26 0.12
36 40 0.19
37 46 0.22
38 37 0.18
39 29 0.14
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (38 bp):
TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
Found at i:5959304 original size:29 final size:29
Alignment explanation
Indices: 5959243--5959305 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
5959233 AATATATATT
* *
5959243 ATATAGTTTTTAAAACATTTTGAAAATAT
1 ATATAGTTTTTAAAACATTTTGAAAACAC
* *
5959272 ATATAGTTTTTAAAGCATTTTTAAAACAC
1 ATATAGTTTTTAAAACATTTTGAAAACAC
5959301 ATATA
1 ATATA
5959306 TATTATATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (29 bp):
ATATAGTTTTTAAAACATTTTGAAAACAC
Found at i:5959342 original size:67 final size:64
Alignment explanation
Indices: 5959206--5959335 Score: 188
Period size: 67 Copynumber: 2.0 Consensus size: 64
5959196 AATAAATATA
* *
5959206 ATATATAGTTTTTAAAGCATTTTTGAAAATATATATTATATAGTTTTTAAAACATTTTGAAAAT
1 ATATATAGTTTTTAAAGCATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTTGAAAAT
* **
5959270 ATATATAGTTTTTAAAGCATTTTTAAAACACATATATATTATATAGTTTTGACATTATTTTGAAA
1 ATATATAGTTTTTAAAGCATTTTT-AAA-A-ATATATATTATATAGTTTTGAAAACATTTTGAAA
5959335 A
63 A
5959336 CTTATATGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
64 24 0.41
65 2 0.03
66 1 0.02
67 31 0.53
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.46
Consensus pattern (64 bp):
ATATATAGTTTTTAAAGCATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTTGAAAAT
Found at i:5961929 original size:17 final size:17
Alignment explanation
Indices: 5961909--5961941 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5961899 CTCACTAACC
*
5961909 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
5961926 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
5961942 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:5962596 original size:19 final size:19
Alignment explanation
Indices: 5962562--5962606 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
5962552 ATTTAGACAT
5962562 TTTGCA-TTTCTTATTTTC
1 TTTGCATTTTCTTATTTTC
*
5962580 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTCTTATTTTC
5962599 TTTGCATT
1 TTTGCATT
5962607 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.11, C:0.13, G:0.09, T:0.67
Consensus pattern (19 bp):
TTTGCATTTTCTTATTTTC
Found at i:5966240 original size:84 final size:82
Alignment explanation
Indices: 5965989--5966583 Score: 578
Period size: 84 Copynumber: 7.2 Consensus size: 82
5965979 GCTCAAGGCC
* * *
5965989 AGAAGGGCTACCTGCCAC-CAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGCAACACAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATTT
* **
5966053 GCAGAATAGTTTAAGTCG
65 GCAGCATAACTTAAGTCG
* * * * * *
5966071 AGAAGGGCTATCTGC--CA-AAGACCCTT-AAGTTCGATTACACTCAGCTTCAAGGGCATAACAT
1 AGAAGGGTTATCTGCAACACAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCAA-GGCACATCAT
* * * *
5966132 TTACAGCATAACTCAAGGCT
63 TTGCAGCATAACTTAAGTCG
* *
5966152 AGAAGGGTTATCTGTCAACACAAGACCGTCGAGTTCGACTACGCTCAGCTCAACGGCAAATCATT
1 AGAAGGGTTATCTG-CAACACAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATT
5966217 TGCAGCATAACTTAAGTCG
64 TGCAGCATAACTTAAGTCG
* *
5966236 AGAAGGGTTATCTGCCAAC-CAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCATATCAT
1 AGAAGGGTTATCTG-CAACAC-AAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCAT
* *
5966300 TTGCAGCACAACTTAAGTCT
63 TTGCAGCATAACTTAAGTCG
* * * * *
5966320 AGAAGGGTTGTCTGCCAAAAAAAGACCTTTGAGTTCGACTAAGCTCAGCTCAACGGCACATCATT
1 AGAAGGGTTATCTG-CAACACAAGACCTTCGAGTTCGACTACGCTCAGCTCAA-GGCACATCATT
* * *
5966385 TCCAGTATAGCTTAAGTCG
64 TGCAGCATAACTTAAGTCG
* ** * * *
5966404 AGAAGGGCTATCTGC--CA-AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
1 AGAAGGGTTATCTGCAACACAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCACATCATT
* * * *
5966466 TACAGCATAACTCAAGGCT
64 TGCAGCATAACTTAAGTCG
* * * *
5966485 AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATT
1 AGAAGGGTTATCTG-CAACACAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCACATCATT
*
5966550 TGCAGCATAGCTTAAGTCG
64 TGCAGCATAACTTAAGTCG
*
5966569 AGAAGGGCTATCTGC
1 AGAAGGGTTATCTGC
5966584 CAAAGACCCC
Statistics
Matches: 420, Mismatches: 73, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
80 46 0.11
81 79 0.19
82 16 0.04
83 5 0.01
84 227 0.54
85 47 0.11
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (82 bp):
AGAAGGGTTATCTGCAACACAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTG
CAGCATAACTTAAGTCG
Found at i:5966250 original size:165 final size:165
Alignment explanation
Indices: 5966008--5966672 Score: 868
Period size: 165 Copynumber: 4.0 Consensus size: 165
5965998 ACCTGCCACC
* *
5966008 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGAATAGTTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
*** *
5966073 AAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
*
5966138 CATAACTCAAGGCTAGAAGGGTTATCTGTCAACAC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTCAACAA
* * *
5966173 AAGACCGTCGAGTTCGACTACGCTCAGCT-CAACGGCAAATCATTTGCAGCATAACTTAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGA
* ** * ** *
5966237 GAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAA-GGCATATCATT
65 GAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATT
* * * * * * *
5966301 TGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAAAAA
126 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAA
* * * *
5966341 AAGACCTTTGAGTTCGACTAAGCTCAGCT-CAACGGCACATCATTTCCAGTATAGCTTAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGA
* *
5966405 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
65 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACA
* *
5966470 GCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
130 GCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAA
*
5966506 AAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * * * * *
5966571 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGTCATATCGTCTACAA
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
* * * *
5966636 CATAGCTCAAGGCAAGAAGGGTTATTTGTCAATAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTCAACAA
5966671 AA
1 AA
5966673 TTGTCGAGTT
Statistics
Matches: 429, Mismatches: 64, Indels: 14
0.85 0.13 0.03
Matches are distributed among these distances:
164 32 0.07
165 254 0.59
166 3 0.01
168 111 0.26
169 29 0.07
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (165 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCAAGGGCATATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTCAACAA
Found at i:5967274 original size:37 final size:38
Alignment explanation
Indices: 5967222--5967515 Score: 209
Period size: 37 Copynumber: 8.2 Consensus size: 38
5967212 TATACATATA
* * *
5967222 TATATATATTGTATAG-TTTGAAAACATTTTTTTAAAC
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
* * * *
5967259 TATATATAATATATAGTTTTGAAAACATGTTTGAAAAC
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
* *
5967297 ATTTATATATTATATAGTTTTTAAAACA--TTTTAAAAA
1 -TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
* * * *
5967334 TAAATATAATATATAGTTTTTAAAGCA-TTTTTGAAA-
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
*
5967370 -ATATATATTATATAGTTTTTAAAACA--TTTT--GA-
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
*
5967402 -A-A-ATA-TATATAGTTTTTAAAGCA-TTTTTAAAAC
1 TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
* *
5967435 ACATATATATTATATAG-TTTT--GACATTATTTTGAAAAC
1 -TATATATATTATATAGTTTTTAAAACATT-TTTT-AAAAC
* *
5967473 T-TATATGA-TATATA-ATTTTAAGAACATTTTTAAAAAC
1 TATATAT-ATTATATAGTTTTTAA-AACATTTTTTAAAAC
5967510 TATATA
1 TATATA
5967516 ATTTTGAAAA
Statistics
Matches: 210, Mismatches: 26, Indels: 41
0.76 0.09 0.15
Matches are distributed among these distances:
29 17 0.08
30 7 0.03
31 1 0.00
32 3 0.01
34 4 0.02
35 26 0.12
36 40 0.19
37 46 0.22
38 37 0.18
39 29 0.14
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (38 bp):
TATATATATTATATAGTTTTTAAAACATTTTTTAAAAC
Found at i:5967440 original size:29 final size:29
Alignment explanation
Indices: 5967379--5967441 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
5967369 AATATATATT
* *
5967379 ATATAGTTTTTAAAACATTTTGAAAATAT
1 ATATAGTTTTTAAAACATTTTGAAAACAC
* *
5967408 ATATAGTTTTTAAAGCATTTTTAAAACAC
1 ATATAGTTTTTAAAACATTTTGAAAACAC
5967437 ATATA
1 ATATA
5967442 TATTATATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (29 bp):
ATATAGTTTTTAAAACATTTTGAAAACAC
Found at i:5967478 original size:67 final size:64
Alignment explanation
Indices: 5967342--5967471 Score: 188
Period size: 67 Copynumber: 2.0 Consensus size: 64
5967332 AATAAATATA
* *
5967342 ATATATAGTTTTTAAAGCATTTTTGAAAATATATATTATATAGTTTTTAAAACATTTTGAAAAT
1 ATATATAGTTTTTAAAGCATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTTGAAAAT
* **
5967406 ATATATAGTTTTTAAAGCATTTTTAAAACACATATATATTATATAGTTTTGACATTATTTTGAAA
1 ATATATAGTTTTTAAAGCATTTTT-AAA-A-ATATATATTATATAGTTTTGAAAACATTTTGAAA
5967471 A
63 A
5967472 CTTATATGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
64 24 0.41
65 2 0.03
66 1 0.02
67 31 0.53
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.46
Consensus pattern (64 bp):
ATATATAGTTTTTAAAGCATTTTTAAAAATATATATTATATAGTTTTGAAAACATTTTGAAAAT
Found at i:5968559 original size:19 final size:19
Alignment explanation
Indices: 5968535--5968574 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
5968525 CGGCCGCCGG
5968535 TTATGGCGGCCGAAGCGAT
1 TTATGGCGGCCGAAGCGAT
5968554 TTATGGCGGCCGAAGCGAT
1 TTATGGCGGCCGAAGCGAT
5968573 TT
1 TT
5968575 CCGGCGACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (19 bp):
TTATGGCGGCCGAAGCGAT
Found at i:5968580 original size:19 final size:19
Alignment explanation
Indices: 5968539--5968580 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
5968529 CGCCGGTTAT
*
5968539 GGCGGCCGAAGCGATTTAT
1 GGCGGCCGAAGCGATTTAC
*
5968558 GGCGGCCGAAGCGATTTCC
1 GGCGGCCGAAGCGATTTAC
5968577 GGCG
1 GGCG
5968581 ACGGCTGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.26, G:0.40, T:0.17
Consensus pattern (19 bp):
GGCGGCCGAAGCGATTTAC
Found at i:5984025 original size:2 final size:2
Alignment explanation
Indices: 5984018--5984070 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
5984008 TCTGCGCCTT
5984018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5984060 TA TA TA TA TA T
1 TA TA TA TA TA T
5984071 TTGTATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5984284 original size:23 final size:23
Alignment explanation
Indices: 5984241--5984285 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5984231 TGATTTTAAA
*
5984241 AAATTAAAAATTTAAATACTAAC
1 AAATTAAAAATTTAAACACTAAC
* *
5984264 AAATTAATAATTTAGACACTAA
1 AAATTAAAAATTTAAACACTAA
5984286 ACGCTTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (23 bp):
AAATTAAAAATTTAAACACTAAC
Found at i:5988606 original size:16 final size:16
Alignment explanation
Indices: 5988585--5988615 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5988575 TCACCTAATT
5988585 ATTCATTATGTTTCAA
1 ATTCATTATGTTTCAA
*
5988601 ATTCATTATTTTTCA
1 ATTCATTATGTTTCA
5988616 TTAAAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTCATTATGTTTCAA
Found at i:5997950 original size:10 final size:10
Alignment explanation
Indices: 5997930--5997964 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
5997920 AATCCGGTTC
5997930 AACCGCGATTG
1 AACC-CGATTG
5997941 AACCCGATTG
1 AACCCGATTG
*
5997951 AACCCGGTTG
1 AACCCGATTG
5997961 AACC
1 AACC
5997965 AGTGAACCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (10 bp):
AACCCGATTG
Found at i:5998593 original size:20 final size:20
Alignment explanation
Indices: 5998568--5998620 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
5998558 AATATTTCTG
*
5998568 AAAAATACATAAAACTATTT
1 AAAAATAAATAAAACTATTT
5998588 AAAAATAAATAAAACTATTT
1 AAAAATAAATAAAACTATTT
5998608 AAAAATAAATAAA
1 AAAAATAAATAAA
5998621 TTCAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAATAAATAAAACTATTT
Found at i:6001313 original size:12 final size:12
Alignment explanation
Indices: 6001296--6001331 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
6001286 TTCTATTAAT
6001296 CTAAGAACAGTC
1 CTAAGAACAGTC
6001308 CTAAGAACAGTC
1 CTAAGAACAGTC
6001320 CTAAGAACAGTC
1 CTAAGAACAGTC
6001332 AATAGATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (12 bp):
CTAAGAACAGTC
Found at i:6005363 original size:19 final size:22
Alignment explanation
Indices: 6005339--6005397 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
6005329 TTAAAGATAG
*
6005339 ATATATTATTTAATATT-TGAA
1 ATATATTATTTAATATTATTAA
6005360 ATAT-TT-TTT-ATATTATTAA
1 ATATATTATTTAATATTATTAA
6005379 ATATATTATTTAATTATTA
1 ATATATTATTTAA-TATTA
6005398 AAAGTATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.16
19 10 0.31
20 4 0.12
21 7 0.22
22 1 0.03
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATTATTTAATATTATTAA
Found at i:6005376 original size:21 final size:21
Alignment explanation
Indices: 6005339--6005470 Score: 75
Period size: 21 Copynumber: 6.4 Consensus size: 21
6005329 TTAAAGATAG
6005339 ATATATTATTTAA-TATTTGAA
1 ATATATTATTTAATTATTT-AA
6005360 ATAT-TT-TTTATATTA-TTAA
1 ATATATTATTTA-ATTATTTAA
*
6005379 ATATATTATTTAATTATTAAA
1 ATATATTATTTAATTATTTAA
** *
6005400 AGTATAAAAGTT-ATTA--TAA
1 A-TATATTATTTAATTATTTAA
* *
6005419 ATATATTATTTTAACTGTTTAA
1 ATATATTA-TTTAATTATTTAA
**
6005441 A-ATA-TAAATAATTATTATAA
1 ATATATTATTTAATTATT-TAA
6005461 ATATAATTAT
1 ATAT-ATTAT
6005471 AAACGAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
18 5 0.06
19 21 0.26
20 19 0.23
21 23 0.28
22 12 0.15
23 2 0.02
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (21 bp):
ATATATTATTTAATTATTTAA
Found at i:6005456 original size:42 final size:41
Alignment explanation
Indices: 6005370--6005470 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 41
6005360 ATATTTTTTA
*
6005370 TATTATTAAATATATTA-TTTAATTATTAAAAGTATAAAAGT
1 TATTA-TAAATATATTATTTTAATTATTAAAAGTATAAAAAT
6005411 TATTATAAATATATTATTTTAACTGT-TTAAAA-TATAAATAAT
1 TATTATAAATATATTATTTTAA-T-TATTAAAAGTATAAA-AAT
6005453 TATTATAAATATAATTAT
1 TATTATAAATAT-ATTAT
6005471 AAACGAATAT
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
40 11 0.20
41 16 0.30
42 21 0.39
43 6 0.11
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (41 bp):
TATTATAAATATATTATTTTAATTATTAAAAGTATAAAAAT
Found at i:6005622 original size:16 final size:16
Alignment explanation
Indices: 6005601--6005634 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6005591 TAATAAATAA
*
6005601 ACGAACTTAAACGAAC
1 ACGAACATAAACGAAC
6005617 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6005633 AC
1 AC
6005635 ATTTTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.26, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:6005713 original size:10 final size:10
Alignment explanation
Indices: 6005698--6005740 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
6005688 CATTTAACAA
6005698 ATAAACGAAC
1 ATAAACGAAC
6005708 ATAAACGAAC
1 ATAAACGAAC
6005718 ----ACGAAC
1 ATAAACGAAC
6005724 ATAAACGAAC
1 ATAAACGAAC
6005734 ATAAACG
1 ATAAACG
6005741 TTGGAGACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 6 0.21
10 23 0.79
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:6005723 original size:16 final size:16
Alignment explanation
Indices: 6005702--6005734 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6005692 TAACAAATAA
6005702 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6005718 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6005734 A
1 A
6005735 TAAACGTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:6006861 original size:14 final size:14
Alignment explanation
Indices: 6006842--6006873 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6006832 AACGAACATA
6006842 AACGAACATAACCG
1 AACGAACATAACCG
6006856 AACGAACATAACCG
1 AACGAACATAACCG
6006870 AACG
1 AACG
6006874 TTCACGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:6006872 original size:10 final size:10
Alignment explanation
Indices: 6006825--6006858 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
6006815 ATAAATGAAT
6006825 GAACATAAAC
1 GAACATAAAC
6006835 GAACATAAAC
1 GAACATAAAC
*
6006845 GAACATAACC
1 GAACATAAAC
6006855 GAAC
1 GAAC
6006859 GAACATAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.56, C:0.24, G:0.12, T:0.09
Consensus pattern (10 bp):
GAACATAAAC
Found at i:6015006 original size:9 final size:8
Alignment explanation
Indices: 6014977--6015005 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
6014967 AGGTTTAATT
6014977 TTTTTAAA
1 TTTTTAAA
6014985 TTTTTAAA
1 TTTTTAAA
6014993 TTTTTAAA
1 TTTTTAAA
6015001 TTTTT
1 TTTTT
6015006 TGAAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTTAAA
Found at i:6015193 original size:28 final size:28
Alignment explanation
Indices: 6015150--6015225 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
6015140 TTTTATTCGA
*
6015150 ATTTCTAAAATTTTTAGGGGAGA-ATTAT
1 ATTTTTAAAA-TTTTAGGGGAGACATTAT
* ***
6015178 ATTTTTGAAAATTTTAAGGTCTACATTAT
1 ATTTTT-AAAATTTTAGGGGAGACATTAT
*
6015207 ATTTTTAAAATTTTGGGGG
1 ATTTTTAAAATTTTAGGGG
6015226 GTCATGGCCC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (28 bp):
ATTTTTAAAATTTTAGGGGAGACATTAT
Found at i:6015627 original size:31 final size:31
Alignment explanation
Indices: 6015592--6015668 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
6015582 TCAAAATATA
*
6015592 TAAGATATGGCCACTTACGTTTTTATTTAAT
1 TAAGATATGGTCACTTACGTTTTTATTTAAT
* * *
6015623 TAAGACATGGTTACTTTCGTTTTTATTTAAT
1 TAAGATATGGTCACTTACGTTTTTATTTAAT
*
6015654 TAAGATGTGGTCACT
1 TAAGATATGGTCACT
6015669 CTGAGTTAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (31 bp):
TAAGATATGGTCACTTACGTTTTTATTTAAT
Found at i:6016720 original size:65 final size:63
Alignment explanation
Indices: 6016670--6016825 Score: 235
Period size: 65 Copynumber: 2.4 Consensus size: 63
6016660 TGCACTAAGG
6016670 GTGCATCGATGCATAAAATGCATTCGATGTTT-CA-AACAAGCCTGGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAA-AAGCCT-GAGTGCATCGATGCATGG-
6016733 C
63 C
**
6016734 TGTGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAATTCTGAGTGCATCGATGCATGGC
1 -GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAAGCCTGAGTGCATCGATGCATGGC
6016798 AGTGCATCGATGCATAAAATGCATTCGA
1 -GTGCATCGATGCATAAAATGCATTCGA
6016826 AATGGGGTGT
Statistics
Matches: 86, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
64 28 0.33
65 50 0.58
66 6 0.07
67 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAAGCCTGAGTGCATCGATGCATGGC
Found at i:6019532 original size:23 final size:23
Alignment explanation
Indices: 6019456--6019534 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 23
6019446 CACTGCTGAG
*
6019456 TGCATCGATGCACATTCA-AGGA
1 TGCATCGATACACATTCATAGGA
* * *
6019478 GTGCATCGGTGCACCTTCAT-GG-
1 -TGCATCGATACACATTCATAGGA
*
6019500 TGTATCGATACACATTCATAGGA
1 TGCATCGATACACATTCATAGGA
6019523 TGCATCGATACA
1 TGCATCGATACA
6019535 TTGGATAGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 29 0.63
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (23 bp):
TGCATCGATACACATTCATAGGA
Found at i:6022609 original size:18 final size:18
Alignment explanation
Indices: 6022586--6022621 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6022576 ACAGTTTTAT
6022586 GCCCATGCTCCACTACAC
1 GCCCATGCTCCACTACAC
*
6022604 GCCCATGCTTCACTACAC
1 GCCCATGCTCCACTACAC
6022622 TCTTTTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.47, G:0.11, T:0.19
Consensus pattern (18 bp):
GCCCATGCTCCACTACAC
Found at i:6026658 original size:65 final size:64
Alignment explanation
Indices: 6026587--6026742 Score: 235
Period size: 65 Copynumber: 2.4 Consensus size: 64
6026577 GTGCACTAAG
6026587 GTGCATCGATGCATAAAATGCATTCGATGTTT-CA-AACAAGCCTGGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAA-AAGCCT-GAGTGCATCGATGCATGG-
*
6026650 CT
63 CA
* **
6026652 GTGCATCGATGAATAAAATGCATTCGATGTTTCCATAAAATTCTGAGTGCATCGATGCATGGCA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAAGCCTGAGTGCATCGATGCATGGCA
6026716 GTGCATCGATGCATAAAATGCATTCGA
1 GTGCATCGATGCATAAAATGCATTCGA
6026743 AATGGGGTGT
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
64 27 0.32
65 49 0.58
66 6 0.07
67 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCCATAAAAGCCTGAGTGCATCGATGCATGGCA
Found at i:6027307 original size:31 final size:31
Alignment explanation
Indices: 6027272--6027348 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
6027262 TCAAAATACA
6027272 TAAGTTATGGTCACTTACGTTTTTATTTAAT
1 TAAGTTATGGTCACTTACGTTTTTATTTAAT
* *
6027303 TAAGTTA-GTGTCATTTTCGTTTTTATTTAAT
1 TAAGTTATG-GTCACTTACGTTTTTATTTAAT
*
6027334 TAAGATATGGTCACT
1 TAAGTTATGGTCACT
6027349 CTGAGTTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 38 0.95
32 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (31 bp):
TAAGTTATGGTCACTTACGTTTTTATTTAAT
Found at i:6027772 original size:39 final size:39
Alignment explanation
Indices: 6027729--6027821 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
6027719 ATTCATAATC
*
6027729 CTTAAATTATTTCATTC-TAACATTCTAAAATCCTAATTT
1 CTTAAATTATTTCA-CCATAACATTCTAAAATCCTAATTT
* * *
6027768 CTTAAATT-TTGACACCATAACATTCTAAATTCTTAATTT
1 CTTAAATTATT-TCACCATAACATTCTAAAATCCTAATTT
6027807 CTTAAAATTATTTCA
1 CTT-AAATTATTTCA
6027822 GATTAAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
38 3 0.07
39 33 0.73
40 7 0.16
41 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.01, T:0.45
Consensus pattern (39 bp):
CTTAAATTATTTCACCATAACATTCTAAAATCCTAATTT
Found at i:6027916 original size:25 final size:26
Alignment explanation
Indices: 6027871--6027921 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
6027861 ACTTCAAAAC
*
6027871 ATTTCAAATTTAATTATA-TTTATTT
1 ATTTCAAATTTAATTAAATTTTATTT
*
6027896 ATTTTAAATTTTAA-TAAATTTTATTT
1 ATTTCAAA-TTTAATTAAATTTTATTT
6027922 CAATTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTCAAATTTAATTAAATTTTATTT
Found at i:6028140 original size:25 final size:26
Alignment explanation
Indices: 6028111--6028177 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
6028101 ATATATATTA
*
6028111 AATTAAAAATATTTTTATATTAACTT
1 AATTAAAAATATTTTGATATTAACTT
* *
6028137 -ATTAAATATATTTTGCTATTAACTT
1 AATTAAAAATATTTTGATATTAACTT
*
6028162 AATTTAGAAATATTTT
1 AA-TTAAAAATATTTT
6028178 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 22 0.65
26 1 0.03
27 11 0.32
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (26 bp):
AATTAAAAATATTTTGATATTAACTT
Found at i:6031222 original size:19 final size:20
Alignment explanation
Indices: 6031189--6031227 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
6031179 ATATGAAAGG
6031189 AATCATATGAATTATAATGA
1 AATCATATGAATTATAATGA
6031209 AATCATAT-AATTATAATGA
1 AATCATATGAATTATAATGA
6031228 TATGCTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (20 bp):
AATCATATGAATTATAATGA
Found at i:6031345 original size:19 final size:19
Alignment explanation
Indices: 6031321--6031360 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
6031311 CTCTTATAAT
*
6031321 TTTACAA-TTATTTAAGTAA
1 TTTACAACTT-TTAAAGTAA
6031340 TTTACAACTTTTAAAGTAA
1 TTTACAACTTTTAAAGTAA
6031359 TT
1 TT
6031361 CAACAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (19 bp):
TTTACAACTTTTAAAGTAA
Found at i:6035817 original size:30 final size:30
Alignment explanation
Indices: 6035751--6035829 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
6035741 TTCATGTATG
* *
6035751 GTTCGTGTTCGTTTATTTATTTTTTAAGGT
1 GTTCGTGTTCGTTCATTTATTTTTAAAGGT
** * *
6035781 ACTCGTGTTTGTTCATTTATTTTTAAAGTT
1 GTTCGTGTTCGTTCATTTATTTTTAAAGGT
*
6035811 GTTCGTGTTCATTCATTTA
1 GTTCGTGTTCGTTCATTTA
6035830 GCATTCAAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.16, C:0.10, G:0.16, T:0.57
Consensus pattern (30 bp):
GTTCGTGTTCGTTCATTTATTTTTAAAGGT
Found at i:6038053 original size:23 final size:21
Alignment explanation
Indices: 6038013--6038054 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
6038003 GATTTCTCTT
*
6038013 CTTCTTCTTTTTTTCTCTTCC
1 CTTCTTCTTTTTTACTCTTCC
6038034 CTTCTTTCTATTTTTACTCTT
1 CTTC-TTCT-TTTTTACTCTT
6038055 TTTTCAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTCTTCTTTTTTACTCTTCC
Found at i:6041535 original size:31 final size:31
Alignment explanation
Indices: 6041480--6041589 Score: 134
Period size: 31 Copynumber: 3.6 Consensus size: 31
6041470 ATAATAAAGG
*
6041480 TCATTAAATTT-TCAAA-AGTTATAAAATGA
1 TCATTAAATTTATCAAACTGTTATAAAATGA
** * *
6041509 TCATTAAATTTATTGAAGTGTTATAAAATTA
1 TCATTAAATTTATCAAACTGTTATAAAATGA
* * *
6041540 TCATTGAATTTATCAAACTATTGTAAAATGA
1 TCATTAAATTTATCAAACTGTTATAAAATGA
6041571 TCATTAAATTTATCAAACT
1 TCATTAAATTTATCAAACT
6041590 TTTACGAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 11 0.16
30 3 0.04
31 53 0.79
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (31 bp):
TCATTAAATTTATCAAACTGTTATAAAATGA
Found at i:6041691 original size:20 final size:21
Alignment explanation
Indices: 6041659--6041700 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
6041649 TATTTTGCAA
*
6041659 TATTTTGATAACTTTAATGAC
1 TATTTTGATAACTTTAAAGAC
6041680 TATTTT-ATAACTTTAAAGAC
1 TATTTTGATAACTTTAAAGAC
6041700 T
1 T
6041701 TTAATGACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (21 bp):
TATTTTGATAACTTTAAAGAC
Found at i:6044308 original size:11 final size:11
Alignment explanation
Indices: 6044292--6044321 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6044282 GATTGGAAGT
*
6044292 TAGGGTTTATG
1 TAGGGTTTATA
6044303 TAGGGTTTATA
1 TAGGGTTTATA
6044314 TAGGGTTT
1 TAGGGTTT
6044322 TGTGGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (11 bp):
TAGGGTTTATA
Found at i:6053299 original size:16 final size:16
Alignment explanation
Indices: 6053278--6053310 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6053268 TAATAAATAA
6053278 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6053294 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6053310 A
1 A
6053311 ATTTTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:6053408 original size:24 final size:23
Alignment explanation
Indices: 6053372--6053443 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
6053362 TCATTTAAAT
6053372 AATAAACGAACATAAACGAACAC
1 AATAAACGAACATAAACGAACAC
*
6053395 GAATGAACGAACATAAACGAACAC
1 -AATAAACGAACATAAACGAACAC
* *
6053419 AATAAATGAATATAAACGAACAC
1 AATAAACGAACATAAACGAACAC
6053442 AA
1 AA
6053444 ACACAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 22 0.50
24 22 0.50
ACGTcount: A:0.60, C:0.18, G:0.11, T:0.11
Consensus pattern (23 bp):
AATAAACGAACATAAACGAACAC
Found at i:6053717 original size:14 final size:14
Alignment explanation
Indices: 6053698--6053726 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6053688 GCTCTCTGTT
6053698 CGAACATAAATGAA
1 CGAACATAAATGAA
6053712 CGAACATAAATGAA
1 CGAACATAAATGAA
6053726 C
1 C
6053727 ATATAATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.17, G:0.14, T:0.14
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:6057705 original size:20 final size:20
Alignment explanation
Indices: 6057676--6057713 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6057666 CCCCTTCAAA
*
6057676 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
6057696 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
6057714 TACACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:6076311 original size:42 final size:42
Alignment explanation
Indices: 6076252--6076337 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
6076242 GCCTGGGGTA
6076252 TCCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTT
1 TCCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTT
*
6076294 TCCCAGGCAATCCCTCAAAATTGTAACTTAGTGTTAATTTTT
1 TCCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTT
6076336 TC
1 TC
6076338 TATTTTTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (42 bp):
TCCCAGGCAACCCCTCAAAATTGTAACTTAGTGTTAATTTTT
Found at i:6080259 original size:60 final size:60
Alignment explanation
Indices: 6080146--6080268 Score: 147
Period size: 60 Copynumber: 2.0 Consensus size: 60
6080136 AACATAATGA
* * * * * *
6080146 ATAGTTGAGTGATCATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGCAACACTCT
1 ATAGTCGAATGATCATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAGCAACACCCT
* * * * *
6080206 ATAGTCGAATGATCATTTTATAACTTTTAATAGTCGAGAGTCTTAATAGAGCAATACCCT
1 ATAGTCGAATGATCATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAGCAACACCCT
6080266 ATA
1 ATA
6080269 ATTGATGGAC
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (60 bp):
ATAGTCGAATGATCATTTTATAACTTTTAATAGTCGAGAGACTCAACAAAGCAACACCCT
Found at i:6082011 original size:21 final size:22
Alignment explanation
Indices: 6081975--6082015 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6081965 TTAAAAATTA
6081975 TAAAGGAAGTACCGATACTCAT
1 TAAAGGAAGTACCGATACTCAT
*
6081997 TAAAGG-AGTATCGATACTC
1 TAAAGGAAGTACCGATACTC
6082016 CCTGTCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (22 bp):
TAAAGGAAGTACCGATACTCAT
Found at i:6092736 original size:14 final size:14
Alignment explanation
Indices: 6092717--6092743 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6092707 TTTGTTAGAC
6092717 TATATATGAACCCG
1 TATATATGAACCCG
6092731 TATATATGAACCC
1 TATATATGAACCC
6092744 CAAACATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (14 bp):
TATATATGAACCCG
Found at i:6098107 original size:18 final size:18
Alignment explanation
Indices: 6098086--6098144 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
6098076 CCTCCTCTTT
6098086 CTCTTTGTCTTCCTCCTC
1 CTCTTTGTCTTCCTCCTC
* *
6098104 CTCTTCGTCGTCCTCCTC
1 CTCTTTGTCTTCCTCCTC
*
6098122 TTCTTCT-TCTTCCTCCTC
1 CTCTT-TGTCTTCCTCCTC
6098140 CTCTT
1 CTCTT
6098145 CTTGAACCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.00, C:0.46, G:0.05, T:0.49
Consensus pattern (18 bp):
CTCTTTGTCTTCCTCCTC
Found at i:6098145 original size:18 final size:18
Alignment explanation
Indices: 6098093--6098196 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
6098083 TTTCTCTTTG
*
6098093 TCTTCCTCCTCCTCTTCG
1 TCTTCCTCCTCCTCTTCT
* *
6098111 TCGTCCTCCTCTTCTTCT
1 TCTTCCTCCTCCTCTTCT
6098129 TCTTCCTCCTCCTCTTCT
1 TCTTCCTCCTCCTCTTCT
***
6098147 TGAACCTCCTCCTC--CT
1 TCTTCCTCCTCCTCTTCT
*
6098163 T-TTCGTCCTCCTCTTCT
1 TCTTCCTCCTCCTCTTCT
**
6098180 TGATCCTCCTCCTCTTC
1 TCTTCCTCCTCCTCTTC
6098197 ATCCTCATTC
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
15 9 0.13
16 3 0.04
17 3 0.04
18 55 0.79
ACGTcount: A:0.03, C:0.47, G:0.05, T:0.45
Consensus pattern (18 bp):
TCTTCCTCCTCCTCTTCT
Found at i:6098156 original size:21 final size:21
Alignment explanation
Indices: 6098114--6098162 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6098104 CTCTTCGTCG
** *
6098114 TCCTCCTCTTCTTCTTCTTCC
1 TCCTCCTCTTCTTCAACCTCC
*
6098135 TCCTCCTCTTCTTGAACCTCC
1 TCCTCCTCTTCTTCAACCTCC
6098156 TCCTCCT
1 TCCTCCT
6098163 TTTCGTCCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.49, G:0.02, T:0.45
Consensus pattern (21 bp):
TCCTCCTCTTCTTCAACCTCC
Found at i:6098171 original size:15 final size:15
Alignment explanation
Indices: 6098153--6098202 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
6098143 TTCTTGAACC
6098153 TCCTCCTCCTTTTCG
1 TCCTCCTCCTTTTCG
6098168 TCCTCCT-CTTCTT-G
1 TCCTCCTCCTT-TTCG
* *
6098182 ATCCTCCTCCTCTTCA
1 -TCCTCCTCCTTTTCG
6098198 TCCTC
1 TCCTC
6098203 ATTCTCACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.14
15 23 0.79
16 2 0.07
ACGTcount: A:0.04, C:0.48, G:0.04, T:0.44
Consensus pattern (15 bp):
TCCTCCTCCTTTTCG
Found at i:6110033 original size:47 final size:45
Alignment explanation
Indices: 6109939--6110064 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
6109929 GTAACCATGC
* * * *
6109939 AAATAAGCTTATGAGCTTACGAAAT-AATGGCAAGTATATTGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
* *
6109983 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGGAA
*
6110030 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
6110065 AGATTTTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 21 0.29
45 11 0.15
46 1 0.01
47 39 0.54
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGAA
Found at i:6111356 original size:3 final size:3
Alignment explanation
Indices: 6111343--6111416 Score: 121
Period size: 3 Copynumber: 24.3 Consensus size: 3
6111333 GTAATTATTT
* *
6111343 ATA ATTA ATA ATA AGA ATA AGA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6111389 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6111417 AATTAGAACA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6111844 original size:47 final size:47
Alignment explanation
Indices: 6111721--6112136 Score: 423
Period size: 47 Copynumber: 9.0 Consensus size: 47
6111711 TAAAATCTCC
* * * **
6111721 TTTGAAAACATCCTACATTGA-AGGTCTTATGGATGGCCTAAAGGAC--
1 TTTGAAAACATCCTGCACT-ATAGGTCTTATGGATGACCCGAAGG-CTT
* * *
6111767 TTTAAAAACATCTTGCACTGA-AGGTTTTATGGATGACCCGAAGGCTT
1 TTTGAAAACATCCTGCACT-ATAGGTCTTATGGATGACCCGAAGGCTT
*
6111814 TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGCCTT
1 TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGGCTT
* * *
6111861 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCTGAAGGACTT
1 TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGG-CTT
* * *
6111909 TTTGAAAATATCTTGCACTGTAGGTCTTATGGATGACCCGAAGGCTT
1 TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGGCTT
* * *
6111956 TTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCGAAGGAC--
1 TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGG-CTT
*
6112002 TTT---AACATCTTGCACTGA-AGGTCTTATGGATGACCCGAAGGC--
1 TTTGAAAACATCCTGCACT-ATAGGTCTTATGGATGACCCGAAGGCTT
* ** *
6112044 TTT---AACATCTTGCACTGA-AGGTCTTACAGATGACCCGAAGGTTT
1 TTTGAAAACATCCTGCACT-ATAGGTCTTATGGATGACCCGAAGGCTT
* *
6112088 TTTGAAAACATCCTGCACTGTAAGTCTTATGGATGACCCGAAGGACTT
1 TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGG-CTT
6112136 T
1 T
6112137 AACATCTTGC
Statistics
Matches: 322, Mismatches: 35, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
42 40 0.12
43 34 0.11
44 3 0.01
45 1 0.00
46 40 0.12
47 157 0.49
48 47 0.15
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGGCTT
Found at i:6111940 original size:95 final size:94
Alignment explanation
Indices: 6111721--6112174 Score: 510
Period size: 95 Copynumber: 5.0 Consensus size: 94
6111711 TAAAATCTCC
* * * * ** *
6111721 TTTGAAAACATCCTACATTGAAGGTCTTATGGATGGCCTAAAGGAC--TTTAAAAACATCTTGCA
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGG-CTTTTTGAAAACATCTTGCA
*
6111784 CTGAAGGTTTTATGGATGACCCGAAGGCTT
65 CTGAAGGTCTTATGGATGACCCGAAGGCTT
* * *
6111814 TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGCCTTTTTGAAAACATCCTGCAC
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCTTGCAC
* * *
6111879 TGTAGGTCTTATGGATGGCCTGAAGGACTT
66 TGAAGGTCTTATGGATGACCCGAAGG-CTT
* * *
6111909 TTTGAAAATATCTTGCACTGTAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCATGCAC
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCTTGCAC
* *
6111974 TGTAGGTCTTATGGATGGCCCGAAGGAC--
66 TGAAGGTCTTATGGATGACCCGAAGG-CTT
* *
6112002 TTT---AACATCTTGCACTGAAGGTCTTATGGATGACCCGAAGGC--TTT---AACATCTTGCAC
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCTTGCAC
** *
6112059 TGAAGGTCTTACAGATGACCCGAAGGTTT
66 TGAAGGTCTTATGGATGACCCGAAGGCTT
*
6112088 TTTGAAAACATCCTGCACTGTAAGTCTTATGGATGACCCGAAGGAC--TTT---AACATCTTGCA
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGG-CTTTTTGAAAACATCTTGCA
**
6112148 CTGAAGGTCTTACAGATGACCCGAAGG
65 CTGAAGGTCTTATGGATGACCCGAAGG
6112175 ATTTAAGTAT
Statistics
Matches: 321, Mismatches: 31, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
85 33 0.10
86 3 0.01
88 3 0.01
89 35 0.11
90 79 0.25
92 1 0.00
93 39 0.12
94 38 0.12
95 90 0.28
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (94 bp):
TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCTTGCAC
TGAAGGTCTTATGGATGACCCGAAGGCTT
Found at i:6112115 original size:132 final size:134
Alignment explanation
Indices: 6111739--6112180 Score: 577
Period size: 132 Copynumber: 3.2 Consensus size: 134
6111729 CATCCTACAT
* ** *
6111739 TGAAGGTCTTATGGATGGCCTAAAGGACTTTAAAAACATCTTGCACTGAAGGTTTTATGGATGAC
1 TGAAGGTCTTATGGATGACCCGAAGGACTTT--AAACATCTTGCACTGAAGGTCTTATGGATGAC
* *
6111804 CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAA-GCCTTTTTGAAA
64 CCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGAC--TTT---A
*
6111868 ACATCCTGCAC
124 ACATCTTGCAC
* * * * *
6111879 TGTAGGTCTTATGGATGGCCTGAAGGACTTTTTGAAAATATCTTGCACTGTAGGTCTTATGGATG
1 TGAAGGTCTTATGGATGACCCGAAGGAC--TTT--AAACATCTTGCACTGAAGGTCTTATGGATG
* *
6111944 ACCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCGAAGGACTTTAACA
62 ACCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGACTTTAACA
6112009 TCTTGCAC
127 TCTTGCAC
**
6112017 TGAAGGTCTTATGGATGACCCGAAGG-CTTT-AACATCTTGCACTGAAGGTCTTACAGATGACCC
1 TGAAGGTCTTATGGATGACCCGAAGGACTTTAAACATCTTGCACTGAAGGTCTTATGGATGACCC
* *
6112080 GAAGGTTTTTTGAAAACATCCTGCACTGTAAGTCTTATGGATGACCCGAAGGACTTTAACATCTT
66 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGACTTTAACATCTT
6112145 GCAC
131 GCAC
**
6112149 TGAAGGTCTTACAGATGACCCGAAGGA-TTTAA
1 TGAAGGTCTTATGGATGACCCGAAGGACTTTAA
6112181 GTATCATGCT
Statistics
Matches: 273, Mismatches: 24, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
132 121 0.44
133 1 0.00
135 3 0.01
137 1 0.00
138 34 0.12
140 26 0.10
141 3 0.01
142 82 0.30
143 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (134 bp):
TGAAGGTCTTATGGATGACCCGAAGGACTTTAAACATCTTGCACTGAAGGTCTTATGGATGACCC
GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGACTTTAACATCTT
GCAC
Found at i:6113373 original size:54 final size:54
Alignment explanation
Indices: 6113266--6113373 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
6113256 ATAATTACTG
* *
6113266 GTTCGTAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGTACAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCACAGAT
*
6113320 GTTCATAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTCTGCCCAGAT
1 GTTCATAAAACATTTGACAACACATTCATCCTTTTC-TGTGGTTTCTGCACAGAT
6113374 TTCTGGTCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 4 0.08
54 46 0.92
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (54 bp):
GTTCATAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCACAGAT
Found at i:6113775 original size:75 final size:75
Alignment explanation
Indices: 6113634--6113881 Score: 293
Period size: 75 Copynumber: 3.3 Consensus size: 75
6113624 GATATAGGCC
* * * * * ***
6113634 TTCAGCATGTCCCAACATTTGCT-AATTCAGACGTTCAAAATGCGCCAACATTTTTGA-TTCTGA
1 TTCAGCATGCCCCAACATTTGCTGAA-ACAAACATTCAAAATGCGCCAATA-TTCCAATTTCTGA
6113697 TTGAAATGGGCT
64 TTGAAATGGGCT
* * * * *
6113709 TTCAGCATGCCCCAGCATTTGTTGAAACAAACGTTCAAAATGTGCCAATATTCCAATTTCTTATT
1 TTCAGCATGCCCCAACATTTGCTGAAACAAACATTCAAAATGCGCCAATATTCCAATTTCTGATT
**
6113774 GAAATGAACT
66 GAAATGGGCT
* * *
6113784 TTCAGCATGCCCCAACATTTGCTGATACAAACATTCAAAATGCGTCAATATTCCAATTTCTGACT
1 TTCAGCATGCCCCAACATTTGCTGAAACAAACATTCAAAATGCGCCAATATTCCAATTTCTGATT
6113849 GAAATGGGCT
66 GAAATGGGCT
*
6113859 TTCAGCATGCCCTAACATTTGCT
1 TTCAGCATGCCCCAACATTTGCT
6113882 TCTTGCTAAT
Statistics
Matches: 147, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
74 3 0.02
75 142 0.97
76 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (75 bp):
TTCAGCATGCCCCAACATTTGCTGAAACAAACATTCAAAATGCGCCAATATTCCAATTTCTGATT
GAAATGGGCT
Found at i:6114147 original size:194 final size:193
Alignment explanation
Indices: 6113782--6114158 Score: 540
Period size: 193 Copynumber: 1.9 Consensus size: 193
6113772 TTGAAATGAA
* *
6113782 CTTTCAGCATGCCCCAACATTTGCTGATACAAACATTCAAAATGCGTCAATATTCCAATTTCTGA
1 CTTTCAGCATGCCCAAACATTTGCTGATACAAACATTCAAAATGCGTCAACATTCCAATTTCTGA
** *
6113847 CTGAAATGGGCTTTCAGCATGCCCTAACATTTGCTTCTTGCTAATATGAGTTTTCAAAGATGCCA
66 CTGAAATGGGCTTTCAAAATGCCCTAACATTTGCTTCTTGCTAATATGAGTCTTCAAAGATGCCA
* * *
6113912 AAATATTCATACTGATGTGGGCCTTCAAAATTCCACACATGGATTATTTCTGTCGAAAATGGG
131 AAATATTCATACTGATGTGAGCCTTCAAAATGCCACACATGGATCATTTCTGTCGAAAATGGG
* ** * * * *
6113975 CTTTCATCATGCCCAAACATTTGCTGATATGAACGTTCAAAATGTGTCAACATTCCTATTTCTTA
1 CTTTCAGCATGCCCAAACATTTGCTGATACAAACATTCAAAATGCGTCAACATTCCAATTTCTGA
* * *
6114040 TTGAAATGGGCTTTCAAAATGCCCTAACGTTTTGCTTCTTGCTAATATGAG-CTTCTAAGAATGC
66 CTGAAATGGGCTTTCAAAATGCCCTAAC-ATTTGCTTCTTGCTAATATGAGTCTTCAAAG-ATGC
* * *
6114104 CCAAATATTCATATTGATGTGAGCCTTCAAAATGCCCCACATGGATCATTTCTGT
129 CAAAATATTCATACTGATGTGAGCCTTCAAAATGCCACACATGGATCATTTCTGT
6114159 TTGAATTAGG
Statistics
Matches: 161, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
193 87 0.54
194 74 0.46
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (193 bp):
CTTTCAGCATGCCCAAACATTTGCTGATACAAACATTCAAAATGCGTCAACATTCCAATTTCTGA
CTGAAATGGGCTTTCAAAATGCCCTAACATTTGCTTCTTGCTAATATGAGTCTTCAAAGATGCCA
AAATATTCATACTGATGTGAGCCTTCAAAATGCCACACATGGATCATTTCTGTCGAAAATGGG
Found at i:6114212 original size:41 final size:41
Alignment explanation
Indices: 6114129--6114229 Score: 107
Period size: 41 Copynumber: 2.4 Consensus size: 41
6114119 GATGTGAGCC
* *
6114129 TTCAAAATGCCCCACATGGATCATTTCTGTTTGAATTAGGCA
1 TTCAAAATGCCCCACAT-GATCATTTCTATTTGAAATAGGCA
*
6114171 TTCAAAATGCCCCA-AT-ATTCTATTTCTATTTGAAATGGGCA
1 TTCAAAATGCCCCACATGA-TC-ATTTCTATTTGAAATAGGCA
* * *
6114212 TTCGAGATGTCCCACATG
1 TTCAAAATGCCCCACATG
6114230 GATCTGTCTG
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.02
40 2 0.04
41 30 0.61
42 16 0.33
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (41 bp):
TTCAAAATGCCCCACATGATCATTTCTATTTGAAATAGGCA
Found at i:6114729 original size:21 final size:21
Alignment explanation
Indices: 6114703--6114758 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
6114693 TCTTTGGGGG
6114703 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGGAAAGC
6114724 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGGAAAGC
*
6114745 TTATACAAGCTTAA
1 TTATATAAGCTTAA
6114759 AACATCAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (21 bp):
TTATATAAGCTTAAGGAAAGC
Found at i:6115617 original size:9 final size:10
Alignment explanation
Indices: 6115601--6115632 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
6115591 GTTTGTCATA
6115601 ATTATATGTG
1 ATTATATGTG
6115611 A-TATATGTG
1 ATTATATGTG
6115620 ATTATATGT-
1 ATTATATGTG
6115629 ATTA
1 ATTA
6115633 CATTAATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (10 bp):
ATTATATGTG
Found at i:6115810 original size:2 final size:2
Alignment explanation
Indices: 6115803--6115834 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6115793 TGAATCATTG
6115803 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6115835 GAACATAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6118915 original size:3 final size:3
Alignment explanation
Indices: 6118907--6118964 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
6118897 TATTTGTAAT
* *
6118907 TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6118955 TAA TAA TAA T
1 TAA TAA TAA T
6118965 TGGAACAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:6122502 original size:14 final size:14
Alignment explanation
Indices: 6122483--6122523 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
6122473 GATTGAGCTA
6122483 AATATAAATGAACG
1 AATATAAATGAACG
*
6122497 AATATAAATGAATG
1 AATATAAATGAACG
*
6122511 AATATAAACGAAC
1 AATATAAATGAAC
6122524 AGATTATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (14 bp):
AATATAAATGAACG
Found at i:6124772 original size:23 final size:24
Alignment explanation
Indices: 6124732--6124785 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 24
6124722 CAATGATTAA
6124732 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
6124756 ATGTAAATT-ATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
6124779 ATGTAAA
1 ATGTAAA
6124786 GAAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 21 0.70
24 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAGTTTAATTT
Found at i:6124909 original size:10 final size:11
Alignment explanation
Indices: 6124894--6124923 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6124884 TAGTTCACTA
6124894 GTTCAACCG-G
1 GTTCAACCGCG
6124904 GTTCAACCGCG
1 GTTCAACCGCG
6124915 GTTCAACCG
1 GTTCAACCG
6124924 AATTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (11 bp):
GTTCAACCGCG
Found at i:6126000 original size:12 final size:12
Alignment explanation
Indices: 6125978--6126019 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
6125968 TAACAATTAT
6125978 AACAT-ATATAA
1 AACATAATATAA
6125989 AACATAATATAA
1 AACATAATATAA
6126001 AACATAATATAA
1 AACATAATATAA
*
6126013 AAGATAA
1 AACATAA
6126020 ATTTAACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 5 0.17
12 24 0.83
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (12 bp):
AACATAATATAA
Found at i:6127471 original size:21 final size:21
Alignment explanation
Indices: 6127446--6127562 Score: 62
Period size: 21 Copynumber: 5.4 Consensus size: 21
6127436 GACTAATCTA
6127446 ATATAGTATAGTTTATAAACT
1 ATATAGTATAGTTTATAAACT
*
6127467 ATATACTATA-TTAATATAAA-T
1 ATATAGTATAGTT--TATAAACT
* * *
6127488 -TATAGT-TAAGATAATTAACATT
1 ATATAGTAT-AGTTTA-TAA-ACT
* *
6127510 AATATAAACTATAGTTTATAAATT
1 -ATAT--AGTATAGTTTATAAACT
* *
6127534 ATATATTATAGGTTATAAACT
1 ATATAGTATAGTTTATAAACT
6127555 ATATAGTA
1 ATATAGTA
6127563 CACTAATATA
Statistics
Matches: 73, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
19 2 0.03
20 11 0.15
21 33 0.45
22 7 0.10
23 4 0.05
24 6 0.08
25 3 0.04
26 6 0.08
27 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (21 bp):
ATATAGTATAGTTTATAAACT
Found at i:6127491 original size:15 final size:15
Alignment explanation
Indices: 6127473--6127537 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
6127463 AACTATATAC
6127473 TATATTAATATAAAT
1 TATATTAATATAAAT
*
6127488 TATAGTTAAGAT-AAT
1 TATA-TTAATATAAAT
* *
6127503 TAACATTAATATAAAC
1 T-ATATTAATATAAAT
6127519 TATAGTT--TATAAAT
1 TATA-TTAATATAAAT
6127533 TATAT
1 TATAT
6127538 ATTATAGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 1 0.03
14 10 0.25
15 16 0.40
16 13 0.32
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:6127635 original size:24 final size:22
Alignment explanation
Indices: 6127584--6127674 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 22
6127574 ACTAGGTTAC
6127584 ATATATAGTT-TATATA-ACAT
1 ATATATAGTTGTATATATACAT
*
6127604 ATAAATAGATTGTATATATACAT
1 ATATATAG-TTGTATATATACAT
*
6127627 ATACTATAG-T-T-TAGAT--AT
1 ATA-TATAGTTGTATATATACAT
6127645 ATATATAGTT-TATATATAC-T
1 ATATATAGTTGTATATATACAT
6127665 ATATATAGTT
1 ATATATAGTT
6127675 CATACATACA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.08
18 7 0.12
19 4 0.07
20 22 0.37
21 3 0.05
22 7 0.12
23 7 0.12
24 4 0.07
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (22 bp):
ATATATAGTTGTATATATACAT
Found at i:6127649 original size:59 final size:58
Alignment explanation
Indices: 6127584--6127706 Score: 135
Period size: 61 Copynumber: 2.1 Consensus size: 58
6127574 ACTAGGTTAC
* * *
6127584 ATATATAGTTTATATA-ACATATAAATAGATTGTATATATACATATACTAT-AGTTTAGATAT
1 ATATATAGTTTATATATAC-TATAAATAG-TT-CATACATACATATACTATAAG-TTACA-AT
* *
6127645 ATATATAGTTTATATATACTATATATAGTTCATACATACATGTACTATAAGTTAC-AT
1 ATATATAGTTTATATATACTATAAATAGTTCATACATACATATACTATAAGTTACAAT
6127702 ATATA
1 ATATA
6127707 GTTTACATGT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
57 7 0.13
59 18 0.33
60 4 0.07
61 24 0.44
62 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (58 bp):
ATATATAGTTTATATATACTATAAATAGTTCATACATACATATACTATAAGTTACAAT
Found at i:6127653 original size:17 final size:17
Alignment explanation
Indices: 6127625--6127669 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
6127615 GTATATATAC
6127625 ATATACTATAGTTTAGAT
1 ATATA-TATAGTTTAGAT
*
6127643 ATATATATAGTTTATAT
1 ATATATATAGTTTAGAT
6127660 ATACTATATA
1 ATA-TATATA
6127670 TAGTTCATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (17 bp):
ATATATATAGTTTAGAT
Found at i:6127683 original size:20 final size:20
Alignment explanation
Indices: 6127644--6127683 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6127634 AGTTTAGATA
* *
6127644 TATATATAGTTTATATATAC
1 TATATATAGTTCATACATAC
6127664 TATATATAGTTCATACATAC
1 TATATATAGTTCATACATAC
6127684 ATGTACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
TATATATAGTTCATACATAC
Found at i:6127966 original size:13 final size:13
Alignment explanation
Indices: 6127963--6127996 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
6127953 AGTTTATATA
6127963 TATATATATAGGT
1 TATATATATAGGT
*
6127976 TATATATATAGTT
1 TATATATATAGGT
6127989 TATATATA
1 TATATATA
6127997 CTATACATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TATATATATAGGT
Found at i:6127972 original size:19 final size:19
Alignment explanation
Indices: 6127948--6127985 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6127938 TAATTTACTT
*
6127948 TATATAGTTTATATATATA
1 TATATAGGTTATATATATA
6127967 TATATAGGTTATATATATA
1 TATATAGGTTATATATATA
6127986 GTTTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
TATATAGGTTATATATATA
Found at i:6128001 original size:20 final size:20
Alignment explanation
Indices: 6127978--6128017 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6127968 ATATAGGTTA
* *
6127978 TATATATAGTTTATATATAC
1 TATACATAGTTTATACATAC
6127998 TATACATAGTTTATACATAC
1 TATACATAGTTTATACATAC
6128018 ATGTACTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (20 bp):
TATACATAGTTTATACATAC
Found at i:6128131 original size:334 final size:335
Alignment explanation
Indices: 6127642--6128270 Score: 1093
Period size: 334 Copynumber: 1.9 Consensus size: 335
6127632 ATAGTTTAGA
*
6127642 TATATATATAGTTTATATATACTATATATAGTTCATACATACATGTACTATAAGTTACATATATA
1 TATATATATAGTTTATATATACTATACATAGTTCATACATACATGTACTATAAGTTACATATATA
*
6127707 GTTTACATGTATACATAAACTATAGATTACATATATTAACTATTTTTTATAGACTATAGGTTAAT
66 GTTTACATGTATACATAAACTATAGATTACATATATTAACTATTATTTATAGACTATAGGTTAAT
* *
6127772 GTTACATATATAATTTATATAAACTATTGTTTACATAAAGTATATATGAATGATCAATTGTGTCT
131 GTTACATATATAATTTATATAAACTATTGTTTACATAAACTATATATGAATGATCAAATGTGTCT
*
6127837 ATACATATATAGTTTATATAGTTTAGGGTTTAGGGTTTCTATAAACTATATACTTTATTACTTTA
196 ATACATATATAGTTTATAAAGTTTAGGGTTTAGGGTTTCTATAAACTATATACTTTATTACTTTA
6127902 TATAGTTTA-GCATAGTGTTTCTATAA-ACTATATAAGTAATTTACTTTATATAGTTTATATATA
261 TATAGTTTATGCATAGTGTTTCTATAATA-TATATAAGTAATTTACTTTATATAGTTTATATATA
6127965 TATATATAGGT
325 TATATATAGGT
*
6127976 TATATATATAGTTTATATATACTATACATAGTTTATACATACATGTACTATAAGTTACATATATA
1 TATATATATAGTTTATATATACTATACATAGTTCATACATACATGTACTATAAGTTACATATATA
* *
6128041 GTTTACATGTATACATATAA-TATAGGTTACATATATTTACTATTATTTATAGACTATAGGTTAA
66 GTTTACATGTATACATA-AACTATAGATTACATATATTAACTATTATTTATAGACTATAGGTTAA
* * *
6128105 TGTTACATATATAATTTATGTAAACTATTGTTTATATAAACTATATATGAATTATCAAATGTGTC
130 TGTTACATATATAATTTATATAAACTATTGTTTACATAAACTATATATGAATGATCAAATGTGTC
* * *
6128170 TATAGATATATAGTTTATAAAGTTTAGGGTTTAGGGTTTTTATAAACTATATATTTTATTACTTT
195 TATACATATATAGTTTATAAAGTTTAGGGTTTAGGGTTTCTATAAACTATATACTTTATTACTTT
6128235 ATATAGTTTATGCATAGTGTTTCTATAATATATATA
260 ATATAGTTTATGCATAGTGTTTCTATAATATATATA
6128271 TATAATCTAT
Statistics
Matches: 278, Mismatches: 14, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
334 252 0.91
335 25 0.09
336 1 0.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.45
Consensus pattern (335 bp):
TATATATATAGTTTATATATACTATACATAGTTCATACATACATGTACTATAAGTTACATATATA
GTTTACATGTATACATAAACTATAGATTACATATATTAACTATTATTTATAGACTATAGGTTAAT
GTTACATATATAATTTATATAAACTATTGTTTACATAAACTATATATGAATGATCAAATGTGTCT
ATACATATATAGTTTATAAAGTTTAGGGTTTAGGGTTTCTATAAACTATATACTTTATTACTTTA
TATAGTTTATGCATAGTGTTTCTATAATATATATAAGTAATTTACTTTATATAGTTTATATATAT
ATATATAGGT
Found at i:6128269 original size:2 final size:2
Alignment explanation
Indices: 6128258--6128603 Score: 123
Period size: 2 Copynumber: 177.0 Consensus size: 2
6128248 ATAGTGTTTC
* *
6128258 TA TA -A TA TA TA TA TA TA -A TC TA TA GA T- TA CT- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
6128296 GT- TA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA
1 -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
6128336 AA T- TA TA -A TT TA TA AA CTA TA TA CTT TA TA TA GTC TA TA CA
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA
6128377 TA TA TA GT- TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
6128418 TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA GTT TA TA AA CTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
* * * * * * *
6128458 TA TA CTT TT TA TA GTT TA TA CA TA TA TA GTT TA TA TA CA TA GTT
1 TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* *
6128502 TA TA TA TA TA GT- TCA TA TA AA AA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6128544 TA TA -A CT- TA TA -A TA -A T- TA TA TT TA TA TA TA -A TA TA -A
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6128580 T- TA TA TA TA TA TA GTT TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA
6128604 AACTTATATT
Statistics
Matches: 254, Mismatches: 46, Indels: 88
0.65 0.12 0.23
Matches are distributed among these distances:
1 26 0.10
2 209 0.82
3 19 0.07
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6128429 original size:110 final size:112
Alignment explanation
Indices: 6128289--6128569 Score: 307
Period size: 103 Copynumber: 2.5 Consensus size: 112
6128279 ATAGATTACT
* *
6128289 TATAT-TAGTTATACATACATATATATACTATATTAATATAAATTATAAATTATAATTTATAAAC
1 TATATATAG-TATATATAAATATATATACTATATTAATATAAATTATAAATTATAATTTATAAAC
6128353 TATATACTTTATATAGTCTATACATATATAGTTAATAT--ATA-TATA
65 TATATACTTTATATAGTCTATACATATATAGTTAATATACATAGTATA
* * *
6128398 TATATATA-TATATAT--ATATATATA-TATACT-ATATTAA-TATAAATTATAGTTTATAAACT
1 TATATATAGTATATATAAATATATATACTATATTAATATAAATTATAAATTATAATTTATAAACT
* * * *
6128457 ATATACTTTTTATAGTTTATACATATATAGTTTATATACATAGTTTA
66 ATATACTTTATATAGTCTATACATATATAGTTAATATACATAGTATA
* *
6128504 TATATATAGTTCATATAAAAATAATATATA-TATATATATATATAACTTATAATAATTAT-ATTT
1 TATATATAG-T-ATATATAAAT-ATATATACTATAT-TA-ATATAAATTAT-A-AATTATAATTT
6128567 ATA
59 ATA
6128570 TATAATATAA
Statistics
Matches: 143, Mismatches: 13, Indels: 24
0.79 0.07 0.13
Matches are distributed among these distances:
103 55 0.38
104 6 0.04
105 8 0.06
106 20 0.14
108 7 0.05
109 10 0.07
110 2 0.01
111 2 0.01
112 11 0.08
113 1 0.01
115 5 0.03
116 3 0.02
117 7 0.05
118 6 0.04
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.47
Consensus pattern (112 bp):
TATATATAGTATATATAAATATATATACTATATTAATATAAATTATAAATTATAATTTATAAACT
ATATACTTTATATAGTCTATACATATATAGTTAATATACATAGTATA
Found at i:6128471 original size:103 final size:107
Alignment explanation
Indices: 6128298--6128511 Score: 310
Period size: 103 Copynumber: 2.0 Consensus size: 107
6128288 TTATATTAGT
*
6128298 TATACATACATATATATACTATATTAATATAAATTATAAATTATAATTTATAAACTATATACTTT
1 TATACATACATATATATACTATACTAATATAAATTATAAATTATAATTTATAAACTATATACTTT
*
6128363 ATATAGTCTATACATATATAGTTAATATATATA-TATATATA
66 ATATAGTCTATACATATATAGTTAATATACATAGTATATATA
* * * *
6128404 TATATATATATATATATA-TATACT-ATATTAA-TATAAATTATAGTTTATAAACTATATACTTT
1 TATACATACATATATATACTATACTAATATAAATTATAAATTATAATTTATAAACTATATACTTT
* * * *
6128466 TTATAGTTTATACATATATAGTTTATATACATAGTTTATATA
66 ATATAGTCTATACATATATAGTTAATATACATAGTATATATA
6128508 TATA
1 TATA
6128512 GTTCATATAA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
103 59 0.61
104 17 0.18
105 5 0.05
106 16 0.16
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.47
Consensus pattern (107 bp):
TATACATACATATATATACTATACTAATATAAATTATAAATTATAATTTATAAACTATATACTTT
ATATAGTCTATACATATATAGTTAATATACATAGTATATATA
Found at i:6128487 original size:15 final size:13
Alignment explanation
Indices: 6128467--6128603 Score: 91
Period size: 13 Copynumber: 10.2 Consensus size: 13
6128457 ATATACTTTT
6128467 TATAGTTTATACATA
1 TATAGTTTAT--ATA
6128482 TATAGTTTATATA
1 TATAGTTTATATA
*
6128495 CATAGTTTATATA
1 TATAGTTTATATA
*
6128508 TATAGTTCATATA
1 TATAGTTTATATA
** *
6128521 -A-AAATAATATA
1 TATAGTTTATATA
*
6128532 TATA-TATATATA
1 TATAGTTTATATA
**
6128544 TATAACTTATAATAA
1 TATAGTTTAT-AT-A
*
6128559 TTATATTTATATATAA
1 -TATAGTT-TATAT-A
*
6128575 TATAATTATATATA
1 TATAGTT-TATATA
6128589 TATAGTTTATATA
1 TATAGTTTATATA
6128602 TA
1 TA
6128604 AACTTATATT
Statistics
Matches: 100, Mismatches: 15, Indels: 16
0.76 0.11 0.12
Matches are distributed among these distances:
11 7 0.07
12 11 0.11
13 38 0.38
14 9 0.09
15 23 0.23
16 9 0.09
17 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:6128564 original size:30 final size:30
Alignment explanation
Indices: 6128523--6128660 Score: 107
Period size: 28 Copynumber: 4.8 Consensus size: 30
6128513 TTCATATAAA
6128523 AATAATATATATATATATATATATAACTTAT
1 AATAAT-TATATATATATATATATAACTTAT
*
6128554 AATAATTATATTTATATATAATATAA-TTAT
1 AATAATTATATATATATAT-ATATAACTTAT
*
6128584 -AT-A-TATATAGTTTATATATA-AACTTAT
1 AATAATTATATA-TATATATATATAACTTAT
* *
6128611 ATTATATTA-ATATAAAT-TATAT-ACTT-T
1 AATA-ATTATATATATATATATATAACTTAT
* *
6128638 AATACTT-TATATAGTTTATATAT
1 AATAATTATATATA-TATATATAT
6128661 TGTTTACACA
Statistics
Matches: 86, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
26 9 0.10
27 17 0.20
28 21 0.24
29 5 0.06
30 20 0.23
31 14 0.16
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (30 bp):
AATAATTATATATATATATATATAACTTAT
Found at i:6128616 original size:26 final size:26
Alignment explanation
Indices: 6128480--6128617 Score: 88
Period size: 26 Copynumber: 5.2 Consensus size: 26
6128470 AGTTTATACA
* * *
6128480 TATATAGTTTATATACATAGTT-TAT
1 TATATAGTTTATATATAAAATTATAT
* *
6128505 ATATATAGTTCATATA-AAAATAATA-
1 -TATATAGTTTATATATAAAATTATAT
* *
6128530 TATATA-TATATATATATAACTTATAAT
1 TATATAGTTTATATATA-AAATTAT-AT
*
6128557 AATTATA-TTTATATATAATATAATTATAT
1 TA-TATAGTTTATATAT-A-A-AATTATAT
*
6128586 ATATATAGTTTATATATAAACTTATAT
1 -TATATAGTTTATATATAAAATTATAT
6128613 TATAT
1 TATAT
6128618 TAATATAAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
23 6 0.07
24 7 0.08
25 8 0.09
26 22 0.25
27 8 0.09
28 13 0.15
29 10 0.11
30 15 0.17
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (26 bp):
TATATAGTTTATATATAAAATTATAT
Found at i:6128641 original size:19 final size:19
Alignment explanation
Indices: 6128587--6128641 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
6128577 TAATTATATA
6128587 TATATAGTTTATATATAAACT
1 TATATA-TTTA-ATATAAACT
6128608 TATATTATATTAATATAAA-T
1 TATA-TAT-TTAATATAAACT
6128628 TATATACTTTAATA
1 TATATA-TTTAATA
6128642 CTTTATATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 8 0.26
20 6 0.19
21 12 0.39
22 5 0.16
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
TATATATTTAATATAAACT
Found at i:6128657 original size:9 final size:9
Alignment explanation
Indices: 6128627--6128659 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6128617 TTAATATAAA
6128627 TTATATACT
1 TTATATACT
6128636 TTA-ATACT
1 TTATATACT
*
6128644 TTATATAGT
1 TTATATACT
6128653 TTATATA
1 TTATATA
6128660 TTGTTTACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (9 bp):
TTATATACT
Found at i:6128774 original size:13 final size:13
Alignment explanation
Indices: 6128758--6128814 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
6128748 TACTTAATAT
6128758 ACTATATATATAA
1 ACTATATATATAA
*
6128771 ACTATATAAATAA
1 ACTATATATATAA
6128784 ATCTTATATATTATATA
1 A-C-TATATA-TATA-A
**
6128801 TTTATATATATAA
1 ACTATATATATAA
6128814 A
1 A
6128815 TTACATAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
13 14 0.40
14 5 0.14
15 12 0.34
16 3 0.09
17 1 0.03
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (13 bp):
ACTATATATATAA
Found at i:6128865 original size:2 final size:2
Alignment explanation
Indices: 6128858--6128913 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
6128848 ACATATAAAC
* * * *
6128858 TA TA TA TA T- TA TA TA TT TG TC TT TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6128899 TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA
6128914 ATTTTATTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:6130990 original size:31 final size:31
Alignment explanation
Indices: 6130954--6131013 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
6130944 AACTTAAAAG
*
6130954 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
6130985 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
6131014 CATACAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:6136003 original size:20 final size:19
Alignment explanation
Indices: 6135978--6136018 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
6135968 CGGTTCCAAC
*
6135978 CCGACCCGTTTACCCGTTGA
1 CCGACCCGTTGA-CCGTTGA
6135998 CCGACCCGTTGACCGTTGA
1 CCGACCCGTTGACCGTTGA
6136017 CC
1 CC
6136019 AGTGGTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.15, C:0.41, G:0.22, T:0.22
Consensus pattern (19 bp):
CCGACCCGTTGACCGTTGA
Found at i:6138524 original size:24 final size:24
Alignment explanation
Indices: 6138497--6138584 Score: 122
Period size: 24 Copynumber: 3.7 Consensus size: 24
6138487 ATTTTCGACT
* *
6138497 TGAATTCTGTTCTGATACATGACC
1 TGAATTCTGTTCTGATATATGATC
*
6138521 TGAATTCTGTTCTGATTTATGATC
1 TGAATTCTGTTCTGATATATGATC
* *
6138545 TGGATTCTGTTCTGATATATGTTC
1 TGAATTCTGTTCTGATATATGATC
*
6138569 TGAATTCTGTTTTGAT
1 TGAATTCTGTTCTGAT
6138585 TTCTGATATC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATATGATC
Found at i:6138535 original size:12 final size:12
Alignment explanation
Indices: 6138497--6138589 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 12
6138487 ATTTTCGACT
6138497 TGAATTCTGTTC
1 TGAATTCTGTTC
* **
6138509 TG-ATACATGACC
1 TGAATTC-TGTTC
6138521 TGAATTCTGTTC
1 TGAATTCTGTTC
* * *
6138533 TGATTTATGATC
1 TGAATTCTGTTC
*
6138545 TGGATTCTGTTC
1 TGAATTCTGTTC
*
6138557 TG-ATATATGTTC
1 TGAAT-TCTGTTC
*
6138569 TGAATTCTGTTT
1 TGAATTCTGTTC
*
6138581 TGATTTCTG
1 TGAATTCTG
6138590 ATATCTCCGT
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
11 5 0.08
12 50 0.83
13 5 0.08
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.48
Consensus pattern (12 bp):
TGAATTCTGTTC
Found at i:6138552 original size:48 final size:48
Alignment explanation
Indices: 6138500--6138591 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
6138490 TTCGACTTGA
6138500 ATTCTGTTCTGATACATGACCTGAATTCTGTTCTGATTTATGATCTGG
1 ATTCTGTTCTGATACATGACCTGAATTCTGTTCTGATTTATGATCTGG
* ** * *
6138548 ATTCTGTTCTGATATATGTTCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTCTGATACATGACCTGAATTCTGTTCTGATTTATGAT
6138592 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.20, C:0.14, G:0.17, T:0.49
Consensus pattern (48 bp):
ATTCTGTTCTGATACATGACCTGAATTCTGTTCTGATTTATGATCTGG
Done.