Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_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: 8279816
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 37
Found at i:6884170 original size:21 final size:21
Alignment explanation
Indices: 6884146--6884195 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
6884136 ACCATTGTCT
* *
6884146 TCACGTAAAGTACCGACCTCC
1 TCACGTAAAGCACCGACCTCA
* **
6884167 TCACGCAAAGCATTGACCTCA
1 TCACGTAAAGCACCGACCTCA
6884188 TCACGTAA
1 TCACGTAA
6884196 CTCCCCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.34, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACCGACCTCA
Found at i:6885801 original size:40 final size:38
Alignment explanation
Indices: 6885756--6885842 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 38
6885746 TTCTGAAACT
6885756 TAAAATCGCAACGCGAAAATAAAAATCGCAACGCGAAAA
1 TAAAATCGCAACGCG-AAATAAAAATCGCAACGCGAAAA
* * *
6885795 TGAAAATCGCAACGCGAAATGAAAATCGCAACGTGAAAC
1 T-AAAATCGCAACGCGAAATAAAAATCGCAACGCGAAAA
6885834 TAAAATCGC
1 TAAAATCGC
6885843 GTTGCGATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 8 0.18
39 22 0.50
40 14 0.32
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (38 bp):
TAAAATCGCAACGCGAAATAAAAATCGCAACGCGAAAA
Found at i:6885816 original size:19 final size:20
Alignment explanation
Indices: 6885757--6885842 Score: 131
Period size: 20 Copynumber: 4.4 Consensus size: 20
6885747 TCTGAAACTT
*
6885757 AAAATCGCAACGCGAAAATA
1 AAAATCGCAACGCGAAAATG
6885777 AAAATCGCAACGCGAAAATG
1 AAAATCGCAACGCGAAAATG
6885797 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
* *
6885816 AAAATCGCAACGTGAAACT-
1 AAAATCGCAACGCGAAAATG
6885835 AAAATCGC
1 AAAATCGC
6885843 GTTGCGATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
19 26 0.42
20 36 0.58
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:6886203 original size:19 final size:20
Alignment explanation
Indices: 6886181--6886218 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6886171 AATATTGTGT
6886181 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
*
6886200 TTCGCATTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
6886219 CGCTCTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:6886253 original size:20 final size:20
Alignment explanation
Indices: 6886228--6886275 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
6886218 ACGCTCTTTG
*
6886228 CGAATTTGACTTCTGTGTTA
1 CGAATTTGACTTATGTGTTA
6886248 CGAATTTGACTTATGTGTTA
1 CGAATTTGACTTATGTGTTA
6886268 CGAATTTG
1 CGAATTTG
6886276 GTAAATCGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (20 bp):
CGAATTTGACTTATGTGTTA
Found at i:6886336 original size:21 final size:21
Alignment explanation
Indices: 6886268--6886333 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
6886258 TTATGTGTTA
** **
6886268 CGAATTTGGTAAATCGAAATG
1 CGAATTTGAAAAATCGAGTTG
*
6886289 CGAATTTGAAAAATCGCGTTG
1 CGAATTTGAAAAATCGAGTTG
*
6886310 CGAATTTGAAAACTC-AGTTG
1 CGAATTTGAAAAATCGAGTTG
6886330 CGAA
1 CGAA
6886334 ATTGGAGTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 8 0.21
21 30 0.79
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (21 bp):
CGAATTTGAAAAATCGAGTTG
Found at i:6887896 original size:29 final size:31
Alignment explanation
Indices: 6887828--6887903 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 31
6887818 GAGGGCTGGA
6887828 AACCGGTTTGACCGGTTTTCAAAACGGTTCTG
1 AACCGGTTTGACCGG-TTTCAAAACGGTTCTG
* * * *
6887860 -ACCAGTTTGACTGG-TTCGAATCGG-TCTG
1 AACCGGTTTGACCGGTTTCAAAACGGTTCTG
6887888 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
6887904 CCGACCCGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
28 4 0.11
29 20 0.56
31 12 0.33
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (31 bp):
AACCGGTTTGACCGGTTTCAAAACGGTTCTG
Found at i:6895054 original size:20 final size:20
Alignment explanation
Indices: 6895029--6895095 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
6895019 GAGGGCTGGA
6895029 AACCGGTTTGACCGATTTTC
1 AACCGGTTTGACCGATTTTC
6895049 AACCGGTTTGACCGATTTTC
1 AACCGGTTTGACCGATTTTC
*
6895069 AACCGGTTTGACCG-GTTTC
1 AACCGGTTTGACCGATTTTC
*
6895088 GACCGGTT
1 AACCGGTT
6895096 CGAAACGGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 11 0.24
20 34 0.76
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (20 bp):
AACCGGTTTGACCGATTTTC
Found at i:6895084 original size:9 final size:9
Alignment explanation
Indices: 6895030--6895138 Score: 74
Period size: 9 Copynumber: 11.3 Consensus size: 9
6895020 AGGGCTGGAA
6895030 ACCGGTTTG
1 ACCGGTTTG
* *
6895039 ACCGATTTTCA
1 ACCG-GTTT-G
6895050 ACCGGTTTG
1 ACCGGTTTG
* *
6895059 ACCGATTTTCA
1 ACCG-GTTT-G
6895070 ACCGGTTTG
1 ACCGGTTTG
6895079 ACCGGTTTCG
1 ACCGGTTT-G
*
6895089 ACCGGTTCG
1 ACCGGTTTG
*
6895098 AAACGGTTTG
1 -ACCGGTTTG
** *
6895108 ACTAGTCTG
1 ACCGGTTTG
6895117 AACCGGTTTG
1 -ACCGGTTTG
6895127 ACCGGTTTG
1 ACCGGTTTG
6895136 ACC
1 ACC
6895139 CGACCCGACT
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
9 34 0.45
10 33 0.44
11 8 0.11
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:6895145 original size:5 final size:5
Alignment explanation
Indices: 6895135--6895167 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
6895125 TGACCGGTTT
*
6895135 GACCC GACCC GA-CT GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC
6895168 GTTGACTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.21, C:0.55, G:0.21, T:0.03
Consensus pattern (5 bp):
GACCC
Found at i:6895151 original size:14 final size:14
Alignment explanation
Indices: 6895134--6895161 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6895124 TTGACCGGTT
6895134 TGACCCGACCCGAC
1 TGACCCGACCCGAC
6895148 TGACCCGACCCGAC
1 TGACCCGACCCGAC
6895162 CCGACCGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.07
Consensus pattern (14 bp):
TGACCCGACCCGAC
Found at i:6910207 original size:12 final size:12
Alignment explanation
Indices: 6910190--6910234 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
6910180 TACATCATAC
6910190 ATATATATACTT
1 ATATATATACTT
*
6910202 ATATATATAATT
1 ATATATATACTT
*
6910214 ATGTATATACTT
1 ATATATATACTT
*
6910226 TTATATATA
1 ATATATATA
6910235 TACACACACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (12 bp):
ATATATATACTT
Found at i:6910283 original size:2 final size:2
Alignment explanation
Indices: 6910276--6910560 Score: 198
Period size: 2 Copynumber: 141.5 Consensus size: 2
6910266 CGTACGTAAT
6910276 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
* * * *
6910318 TA TA TA TA TA TA TA TG CA TA TG TA TA TA TA CA TA TA TA CTA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
6910360 TG TA TA TA CT- TA TA TA TA CTT TA TA -A TT TA TA TA CTT TA TA
1 TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* *
6910401 TA TA TA TA TA TA TA TA TA TA T- TA TA TA GTT TA TA GTT 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
* * * *
6910444 TT TA TA CTA TA TA -A TT TA TA TA TT TA TA CTT TA TA CTA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* *
6910486 TA CA CT- TA TA T- TA TA TA TA TA GTA TA -A GTA TA -A TG TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* *
6910525 CT- TA TA T- TA TA TA CT- TA TA TA AA TA TA TA TT TA TA T
1 -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T
6910561 TGTATGTATA
Statistics
Matches: 221, Mismatches: 36, Indels: 52
0.72 0.12 0.17
Matches are distributed among these distances:
1 12 0.05
2 192 0.87
3 17 0.08
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6910454 original size:29 final size:29
Alignment explanation
Indices: 6910401--6910485 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
6910391 ATACTTTATA
* * *
6910401 TATATATATATATATATATATTATATAGTT
1 TATATAT-TATATATTTATACTATATAATT
6910431 TATAGT-TTATATATTTATACTATATAATT
1 TATA-TATTATATATTTATACTATATAATT
6910460 TATATATT-TATACTTTATACTATATA
1 TATATATTATATA-TTTATACTATATA
6910486 TACACTTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
28 5 0.10
29 38 0.78
30 5 0.10
31 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (29 bp):
TATATATTATATATTTATACTATATAATT
Found at i:6910480 original size:7 final size:7
Alignment explanation
Indices: 6910374--6910478 Score: 57
Period size: 7 Copynumber: 13.6 Consensus size: 7
6910364 TATACTTATA
*
6910374 TATACTT
1 TATAATT
6910381 TATAATT
1 TATAATT
6910388 TATATACTT
1 TATA-A-TT
6910397 TATATATAT
1 TATA-AT-T
*
6910406 ATATATATA
1 -TATA-ATT
6910415 TATATATT
1 TATA-ATT
*
6910423 ATATAGTT
1 -TATAATT
*
6910431 TATAGTT
1 TATAATT
6910438 TATATATT
1 TATA-ATT
* *
6910446 TATACTA
1 TATAATT
6910453 TATAATT
1 TATAATT
6910460 TATATATT
1 TATA-ATT
*
6910468 TATACTT
1 TATAATT
6910475 TATA
1 TATA
6910479 CTATATATAC
Statistics
Matches: 81, Mismatches: 10, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
7 37 0.46
8 24 0.30
9 13 0.16
10 7 0.09
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (7 bp):
TATAATT
Found at i:6910530 original size:13 final size:13
Alignment explanation
Indices: 6910371--6910543 Score: 58
Period size: 13 Copynumber: 13.0 Consensus size: 13
6910361 GTATATACTT
6910371 ATATATACTTTATA
1 ATATATAC-TTATA
6910385 ATTTATATACTT-TA
1 A--TATATACTTATA
6910399 TATATATA-TATATA
1 -ATATATACT-TATA
6910413 TATATATA-TTATA
1 -ATATATACTTATA
* *
6910426 TAGTTTATAGTTTATA
1 -A-TATATA-CTTATA
*
6910442 TATTTATACTATATA
1 -ATATATACT-TATA
*
6910457 ATTTATATATTTATA
1 A--TATATACTTATA
* *
6910472 CTTTATAC-TAT-
1 ATATATACTTATA
*
6910483 ATATACACTTATA
1 ATATATACTTATA
*
6910496 TTATATA--TATA
1 ATATATACTTATA
* *
6910507 GTATA-A-GTATA
1 ATATATACTTATA
*
6910518 ATGTATACTTATA
1 ATATATACTTATA
*
6910531 TTATATACTTATA
1 ATATATACTTATA
6910544 TAAATATATA
Statistics
Matches: 125, Mismatches: 18, Indels: 33
0.71 0.10 0.19
Matches are distributed among these distances:
10 1 0.01
11 20 0.16
12 8 0.06
13 38 0.30
14 21 0.17
15 17 0.14
16 20 0.16
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.51
Consensus pattern (13 bp):
ATATATACTTATA
Found at i:6910538 original size:59 final size:59
Alignment explanation
Indices: 6910462--6910580 Score: 138
Period size: 59 Copynumber: 2.0 Consensus size: 59
6910452 ATATAATTTA
* * *
6910462 TATATTTATACTTTATACTATATATACACT-TATA-TTATA-TATATAGTATAAGTATAATG
1 TATACTTATACTTTATACT-TATATA-AATATATATTTATATTATAT-GTATAAATATAATG
*
6910521 TATACTTATA-TTATATACTTATATAAATATATATTTATATTGTATGTATAAATATAATG
1 TATACTTATACTT-TATACTTATATAAATATATATTTATATTATATGTATAAATATAATG
6910580 T
1 T
6910581 GCATTATGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
57 2 0.04
58 12 0.23
59 34 0.65
60 4 0.08
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (59 bp):
TATACTTATACTTTATACTTATATAAATATATATTTATATTATATGTATAAATATAATG
Found at i:6914945 original size:46 final size:46
Alignment explanation
Indices: 6914880--6914968 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
6914870 CATTAAAAAA
6914880 ATTGAACGTTTTAACTTCATCCATAAACAATGAATATATATTAATC
1 ATTGAACGTTTTAACTTCATCCATAAACAATGAATATATATTAATC
* * * * *
6914926 ATTGAACGTTTTGATTTCATTCATAAACTATGGATATATATTA
1 ATTGAACGTTTTAACTTCATCCATAAACAATGAATATATATTA
6914969 GTTAATGTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (46 bp):
ATTGAACGTTTTAACTTCATCCATAAACAATGAATATATATTAATC
Found at i:6916810 original size:31 final size:31
Alignment explanation
Indices: 6916772--6916879 Score: 180
Period size: 31 Copynumber: 3.5 Consensus size: 31
6916762 GGTCGAGGGA
*
6916772 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGATTGT
6916803 TTACCTATGTTCTTCGGGACATATGGATTGT
1 TTACCTATGTTCTTCGGGACATATGGATTGT
* *
6916834 TTACCTATGTTCTTCGAGACATATGGATTGA
1 TTACCTATGTTCTTCGGGACATATGGATTGT
*
6916865 TTACCTAGGTTCTTC
1 TTACCTATGTTCTTC
6916880 AGAATCTATG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGATTGT
Found at i:6920421 original size:21 final size:21
Alignment explanation
Indices: 6920397--6920497 Score: 123
Period size: 21 Copynumber: 4.8 Consensus size: 21
6920387 CCATAACCCC
6920397 AGGGGGTATCGATTCCCCTAA
1 AGGGGGTATCGATTCCCCTAA
*
6920418 AGGGGGTATCGATTCCCCTAC
1 AGGGGGTATCGATTCCCCTAA
*
6920439 AGGAGGTATCGATTCCCCTAA
1 AGGGGGTATCGATTCCCCTAA
* * * *
6920460 AAGGGGAATCGGTTCCCCTTCA
1 AGGGGGTATCGATTCCCC-TAA
*
6920482 A-GGGTTATCGATTCCC
1 AGGGGGTATCGATTCCC
6920498 TCTGCACCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
21 65 0.96
22 3 0.04
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.25
Consensus pattern (21 bp):
AGGGGGTATCGATTCCCCTAA
Found at i:6924627 original size:20 final size:20
Alignment explanation
Indices: 6924602--6924640 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6924592 TTCCCCTTTA
*
6924602 AAGGGGGAATCGGTTCCCTC
1 AAGGGGGAATCGATTCCCTC
*
6924622 AAGGGGGGATCGATTCCCT
1 AAGGGGGAATCGATTCCCT
6924641 TTGCACCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.23, G:0.36, T:0.21
Consensus pattern (20 bp):
AAGGGGGAATCGATTCCCTC
Found at i:6928483 original size:22 final size:21
Alignment explanation
Indices: 6928441--6928480 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6928431 GAGTTTGTTT
*
6928441 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
6928462 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
6928481 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:6931535 original size:12 final size:12
Alignment explanation
Indices: 6931503--6931542 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
6931493 TGCGGGAAAA
6931503 TTAAAATC-A-T
1 TTAAAATCTATT
6931513 TT-AAATCTATT
1 TTAAAATCTATT
*
6931524 TTAAAATTTATT
1 TTAAAATCTATT
6931536 TTAAAAT
1 TTAAAAT
6931543 ATAGATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 5 0.19
10 3 0.12
11 3 0.12
12 15 0.58
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAAATCTATT
Found at i:6931554 original size:22 final size:22
Alignment explanation
Indices: 6931529--6931694 Score: 262
Period size: 22 Copynumber: 7.6 Consensus size: 22
6931519 CTATTTTAAA
*
6931529 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
*
6931551 ATTTATTTTAAAACATGGATTG
1 ATTTATTTTAAAATATGGATTG
6931573 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
**
6931595 ATTTATTTTAAAATATGGA-AA
1 ATTTATTTTAAAATATGGATTG
*
6931616 AATTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
6931638 ATTTATTTTAAAATATGGAGTG
1 ATTTATTTTAAAATATGGATTG
*
6931660 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATGGATTG
6931682 ATTTATTTTAAAA
1 ATTTATTTTAAAA
6931695 AATTTATTAT
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
21 18 0.14
22 113 0.86
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:6931622 original size:87 final size:87
Alignment explanation
Indices: 6931526--6931694 Score: 293
Period size: 87 Copynumber: 1.9 Consensus size: 87
6931516 AATCTATTTT
* * *
6931526 AAAATTTATTTTAAAATATAGATTGATTTATTTTAAAACATGGATTGATTTATTTTAAAATATGG
1 AAAAATTATTTTAAAATATAGATTGATTTATTTTAAAACATGGAGTGATTTATTTTAAAATATGA
6931591 ATTGATTTATTTTAAAATATGG
66 ATTGATTTATTTTAAAATATGG
* *
6931613 AAAAATTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAGTGATTTATTTTAAAATATGA
1 AAAAATTATTTTAAAATATAGATTGATTTATTTTAAAACATGGAGTGATTTATTTTAAAATATGA
6931678 ATTGATTTATTTTAAAA
66 ATTGATTTATTTTAAAA
6931695 AATTTATTAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 77 1.00
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (87 bp):
AAAAATTATTTTAAAATATAGATTGATTTATTTTAAAACATGGAGTGATTTATTTTAAAATATGA
ATTGATTTATTTTAAAATATGG
Found at i:6931634 original size:65 final size:66
Alignment explanation
Indices: 6931529--6931694 Score: 235
Period size: 65 Copynumber: 2.5 Consensus size: 66
6931519 CTATTTTAAA
* ** * *
6931529 ATTTATTTTAAAATATAGATTGATTTATTTTAAAACATGGATTGATTTATTTTAAAATATGGATT
1 ATTTATTTTAAAATATGGATAAAATTATTTTAAAACATGGATTGATTTATTTTAAAATATGGAGT
6931594 G
66 G
*
6931595 ATTTATTTTAAAATATGGA-AAAATTATTTTAAAATATGGATTGATTTATTTTAAAATATGGAGT
1 ATTTATTTTAAAATATGGATAAAATTATTTTAAAACATGGATTGATTTATTTTAAAATATGGAGT
6931659 G
66 G
* ** *
6931660 ATTTATTTTAAAATATGAATTGATTTATTTTAAAA
1 ATTTATTTTAAAATATGGATAAAATTATTTTAAAA
6931695 AATTTATTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 59 0.66
66 30 0.34
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (66 bp):
ATTTATTTTAAAATATGGATAAAATTATTTTAAAACATGGATTGATTTATTTTAAAATATGGAGT
G
Found at i:6931775 original size:31 final size:31
Alignment explanation
Indices: 6931718--6931776 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
6931708 AGTTATATGG
* *
6931718 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAATATTACAAAACTAAA
*
6931749 ATTATTTAAATTTCAATATTCCAAAACT
1 ATTATTTAAATTTCAATATTACAAAACT
6931777 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAATATTACAAAACTAAA
Found at i:6933979 original size:22 final size:21
Alignment explanation
Indices: 6933937--6933976 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6933927 GAGTTTATTT
*
6933937 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
6933958 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
6933977 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:6939711 original size:11 final size:11
Alignment explanation
Indices: 6939695--6939719 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6939685 TATGACTTAA
6939695 AAATTTAATTG
1 AAATTTAATTG
6939706 AAATTTAATTG
1 AAATTTAATTG
6939717 AAA
1 AAA
6939720 ATTATGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATTTAATTG
Found at i:6941646 original size:27 final size:27
Alignment explanation
Indices: 6941627--6941727 Score: 143
Period size: 27 Copynumber: 3.7 Consensus size: 27
6941617 AACAGGCCCT
*
6941627 TGCTGCGGTCCGTCGGCAACAGGTGTC
1 TGCTGCGGTCCGTCGGCAACAGGCGTC
6941654 TGCTGCGGTCCGTCGGCAACAGGCGTC
1 TGCTGCGGTCCGTCGGCAACAGGCGTC
* *
6941681 TGCTGCGGTCCCTCGACAACAGGCAGT-
1 TGCTGCGGTCCGTCGGCAACAGGC-GTC
6941708 TGCTGCGGTGCC-TCGGCAAC
1 TGCTGCGGT-CCGTCGGCAAC
6941728 CGAGGAACGA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 64 0.94
28 4 0.06
ACGTcount: A:0.13, C:0.33, G:0.35, T:0.20
Consensus pattern (27 bp):
TGCTGCGGTCCGTCGGCAACAGGCGTC
Found at i:6944317 original size:29 final size:29
Alignment explanation
Indices: 6944274--6944395 Score: 190
Period size: 29 Copynumber: 4.2 Consensus size: 29
6944264 ACAGTGATAA
* *
6944274 AAGGAGGTCGACATGCACTCCGGGTGACC
1 AAGGAGGTCGCCATGCACTCCGGGCGACC
*
6944303 AAGGAGGTCGCCATGCACTCCGGGCAACC
1 AAGGAGGTCGCCATGCACTCCGGGCGACC
*
6944332 AAGGAGGTCGCCATGCACTCTGGGCGACC
1 AAGGAGGTCGCCATGCACTCCGGGCGACC
* *
6944361 AAGGAGGTCGCCATACAATCCGGGCGACC
1 AAGGAGGTCGCCATGCACTCCGGGCGACC
6944390 AAGGAG
1 AAGGAG
6944396 TGATGCATGT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.25, C:0.30, G:0.34, T:0.11
Consensus pattern (29 bp):
AAGGAGGTCGCCATGCACTCCGGGCGACC
Found at i:6944424 original size:31 final size:31
Alignment explanation
Indices: 6944386--6944449 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
6944376 CAATCCGGGC
6944386 GACCAAGGAGTGATGCATGTGGGAGCTGTGG
1 GACCAAGGAGTGATGCATGTGGGAGCTGTGG
*
6944417 GACCAAGGAGTGATGCATGTGGGAGTTGTGG
1 GACCAAGGAGTGATGCATGTGGGAGCTGTGG
6944448 GA
1 GA
6944450 TGCATGTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.11, G:0.45, T:0.20
Consensus pattern (31 bp):
GACCAAGGAGTGATGCATGTGGGAGCTGTGG
Found at i:6944453 original size:20 final size:20
Alignment explanation
Indices: 6944428--6944466 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6944418 ACCAAGGAGT
*
6944428 GATGCATGTGGGAGTTGTGG
1 GATGCATGTGGGAGCTGTGG
6944448 GATGCATGTGGGAGCTGTG
1 GATGCATGTGGGAGCTGTG
6944467 CATGGGCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.08, G:0.49, T:0.28
Consensus pattern (20 bp):
GATGCATGTGGGAGCTGTGG
Found at i:6944516 original size:52 final size:52
Alignment explanation
Indices: 6944446--6944550 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
6944436 TGGGAGTTGT
*
6944446 GGGATGCATGTGGGAGCTGTGCATGGGCCATACACGTCGAATGGTGTAGGTC
1 GGGATGCATGTGGGAGCTGTGCATGGGCCATACACCTCGAATGGTGTAGGTC
*
6944498 GGGATGCATGTGGGAGCTGTGCATGGGCCATGCACCTCGAATGGTGTAGGTC
1 GGGATGCATGTGGGAGCTGTGCATGGGCCATACACCTCGAATGGTGTAGGTC
6944550 G
1 G
6944551 CCATGGAGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.18, C:0.18, G:0.41, T:0.23
Consensus pattern (52 bp):
GGGATGCATGTGGGAGCTGTGCATGGGCCATACACCTCGAATGGTGTAGGTC
Found at i:6944733 original size:44 final size:44
Alignment explanation
Indices: 6944676--6944781 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
6944666 TAGCCTCATG
* *
6944676 CATGCGTTTCATCCATAGCTGGGAGATTCATGCATACGTAGCTA
1 CATGCGTTGCATCCATAGCTGGGAGATTCATACATACGTAGCTA
* *
6944720 CATGCGTTGCATCCATAGCTGGGAGATTCCTACATCCGTAGCTA
1 CATGCGTTGCATCCATAGCTGGGAGATTCATACATACGTAGCTA
6944764 CATGCGTTGCATCCATAG
1 CATGCGTTGCATCCATAG
6944782 ATGCATTATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (44 bp):
CATGCGTTGCATCCATAGCTGGGAGATTCATACATACGTAGCTA
Found at i:6951351 original size:21 final size:21
Alignment explanation
Indices: 6951325--6951364 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6951315 CCCCCTTTGA
*
6951325 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
6951346 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
6951365 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:6951751 original size:23 final size:25
Alignment explanation
Indices: 6951725--6951771 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
6951715 AAAACACAAG
6951725 AATTTTC-AAA-AAAAAAAAATTAA
1 AATTTTCGAAATAAAAAAAAATTAA
6951748 AATTTTCGAAATTAAAAAAAAATT
1 AATTTTCGAAA-TAAAAAAAAATT
6951772 TGTTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
26 11 0.52
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (25 bp):
AATTTTCGAAATAAAAAAAAATTAA
Found at i:6951814 original size:19 final size:17
Alignment explanation
Indices: 6951767--6951815 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
6951757 AATTAAAAAA
6951767 AAATT-TGTTGTTTTTC
1 AAATTATGTTGTTTTTC
*
6951783 AAATTATTGTTGTTTTGATT
1 AAATTA-TGTTGTTTT--TC
6951803 AAATTATGTTGTT
1 AAATTATGTTGTT
6951816 GTTATGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.18
18 9 0.32
19 7 0.25
20 7 0.25
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.59
Consensus pattern (17 bp):
AAATTATGTTGTTTTTC
Found at i:6954824 original size:28 final size:30
Alignment explanation
Indices: 6954788--6954849 Score: 101
Period size: 28 Copynumber: 2.1 Consensus size: 30
6954778 TAACTCAACA
*
6954788 ATTAGTTTGTTAGTTTAAG-T-TATATTAT
1 ATTAATTTGTTAGTTTAAGTTATATATTAT
6954816 ATTAATTTGTTAGTTTAAGTTATATATTAT
1 ATTAATTTGTTAGTTTAAGTTATATATTAT
6954846 ATTA
1 ATTA
6954850 TAAAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 18 0.58
29 1 0.03
30 12 0.39
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.56
Consensus pattern (30 bp):
ATTAATTTGTTAGTTTAAGTTATATATTAT
Found at i:6954922 original size:43 final size:47
Alignment explanation
Indices: 6954809--6954922 Score: 146
Period size: 50 Copynumber: 2.4 Consensus size: 47
6954799 AGTTTAAGTT
6954809 ATATTATATTAATTTGTTAGTTTAAGTTATATATTATATTATAAAAAAA
1 ATATTA-ATTAATTTGTTAGTTTAAGTTATATA-TATATTATAAAAAAA
* *
6954858 ATTAGTTAATTAGTTTCTTAGTTTAAGTTAT-TA-A-A-TATAAAAAAA
1 A-TA-TTAATTAATTTGTTAGTTTAAGTTATATATATATTATAAAAAAA
6954903 ATATTAATTAATTTGTTAGT
1 ATATTAATTAATTTGTTAGT
6954923 GTCTTTAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
43 15 0.25
44 2 0.03
45 11 0.19
46 1 0.02
47 1 0.02
49 3 0.05
50 23 0.39
51 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.48
Consensus pattern (47 bp):
ATATTAATTAATTTGTTAGTTTAAGTTATATATATATTATAAAAAAA
Found at i:6955404 original size:23 final size:24
Alignment explanation
Indices: 6955360--6955404 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
6955350 TATTGTGTTT
**
6955360 AAAAATATTTAGTGTTGTTTTAAA
1 AAAAATATTTAGTGTTAATTTAAA
*
6955384 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
6955405 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (24 bp):
AAAAATATTTAGTGTTAATTTAAA
Found at i:6956772 original size:15 final size:16
Alignment explanation
Indices: 6956752--6956785 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
6956742 CAAAAAAAAT
6956752 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
6956767 TAATATAATAAACTTA
1 TAATATAATAAACTTA
6956783 TAA
1 TAA
6956786 AGTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:6956899 original size:35 final size:36
Alignment explanation
Indices: 6956860--6956928 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
6956850 CTTTTATATA
* *
6956860 ACTAAAACTATTAAATTATTTTTT-TATAATATACT
1 ACTAAAACTACTAAATAATTTTTTATATAATATACT
* * *
6956895 ACTAATATTACTAACTAATTTTTTATATAATATA
1 ACTAAAACTACTAAATAATTTTTTATATAATATA
6956929 AATTCAACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 19 0.68
36 9 0.32
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (36 bp):
ACTAAAACTACTAAATAATTTTTTATATAATATACT
Found at i:6957019 original size:45 final size:47
Alignment explanation
Indices: 6956943--6957032 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 47
6956933 CAACAAACTA
* *
6956943 ATATAACTTAACTAATTAACTAACACAAACTAATTAAATAATTTTTTT
1 ATATAACTTAACGAATTAACTAAAACAAACTAATT-AATAATTTTTTT
*
6956991 ATATAAC-TAACGAA-TAA-TAAAACAAACTAATTAATTATTTTT
1 ATATAACTTAACGAATTAACTAAAACAAACTAATTAATAATTTTT
6957033 AACTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 9 0.23
45 14 0.36
46 3 0.08
47 6 0.15
48 7 0.18
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (47 bp):
ATATAACTTAACGAATTAACTAAAACAAACTAATTAATAATTTTTTT
Found at i:6960520 original size:39 final size:40
Alignment explanation
Indices: 6960449--6960524 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
6960439 TAATCTTGTA
6960449 CTTCCTATTTTACCGAATAAGAAGGTTGTTTATTTGTGTG
1 CTTCCTATTTTACCGAATAAGAAGGTTGTTTATTTGTGTG
** *
6960489 CTTCCTATTTTATTGGATAA-AAGGTTGTTTATTTGT
1 CTTCCTATTTTACCGAATAAGAAGGTTGTTTATTTGT
6960525 ATTTTAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.48
40 17 0.52
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.49
Consensus pattern (40 bp):
CTTCCTATTTTACCGAATAAGAAGGTTGTTTATTTGTGTG
Found at i:6968752 original size:27 final size:26
Alignment explanation
Indices: 6968714--6968769 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 26
6968704 TGTGGTTTTT
6968714 AGATTTTATGATTTATTCTTTTAAATA
1 AGATTTTATGATTTATTCTTTTAAA-A
6968741 AGATTTTATGATTTATTCTTTTAAAA
1 AGATTTTATGATTTATTCTTTTAAAA
6968767 AGA
1 AGA
6968770 ATATAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.52
Consensus pattern (26 bp):
AGATTTTATGATTTATTCTTTTAAAA
Found at i:6971622 original size:21 final size:21
Alignment explanation
Indices: 6971594--6971651 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
6971584 AGAGTGTCAA
6971594 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
6971615 ATTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
6971636 AGTGCATCCATGCACC
1 AGTGCATCCATGCACC
6971652 TGCACTAGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.41, G:0.17, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:6971737 original size:20 final size:20
Alignment explanation
Indices: 6971712--6971784 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
6971702 AATGCACTTA
6971712 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
* *
6971732 GTGCATTGATGCATCCTGCT
1 GTGCATCGATGCATCCTGAT
* *
6971752 GTGCATCAATGCATCCTGTT
1 GTGCATCGATGCATCCTGAT
* *
6971772 GTGTATCCATGCA
1 GTGCATCGATGCA
6971785 CGAAGGCTGC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGAT
Found at i:6972178 original size:34 final size:32
Alignment explanation
Indices: 6972140--6972209 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
6972130 TTTTTTAAAG
* * *
6972140 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGATTCTAGCTTAACCCG-G-AAAAACTA
*
6972174 GGGAAAGATTCTAGTTTAACCCGGAAAAACTA
1 GGGAAAGATTCTAGCTTAACCCGGAAAAACTA
6972206 GGGA
1 GGGA
6972210 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (32 bp):
GGGAAAGATTCTAGCTTAACCCGGAAAAACTA
Found at i:6974250 original size:21 final size:21
Alignment explanation
Indices: 6974224--6974263 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6974214 AAACAATTGG
6974224 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
6974245 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
6974264 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:6974512 original size:21 final size:20
Alignment explanation
Indices: 6974486--6974563 Score: 95
Period size: 21 Copynumber: 3.8 Consensus size: 20
6974476 AGGGTGTCAA
6974486 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCCTGC
6974507 AGTGCATCCATGCA-CCTGCAC
1 AGTGCATCCATGCACCCTG--C
* *
6974528 TAGTTCATCCATGCACCATGC
1 -AGTGCATCCATGCACCCTGC
6974549 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
6974564 TCCATTTCGA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
19 4 0.08
20 14 0.28
21 16 0.32
22 13 0.26
23 3 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (20 bp):
AGTGCATCCATGCACCCTGC
Found at i:6974608 original size:20 final size:20
Alignment explanation
Indices: 6974583--6974635 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
6974573 AATGCACTTA
*
6974583 GTGCATCGATGCATCTTGAT
1 GTGCATCGATGCATCCTGAT
*
6974603 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGAT
*
6974623 GTGCATCCATGCA
1 GTGCATCGATGCA
6974636 CAAAGGCTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.32
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGAT
Found at i:6975031 original size:34 final size:32
Alignment explanation
Indices: 6974992--6975061 Score: 77
Period size: 34 Copynumber: 2.1 Consensus size: 32
6974982 TTTTGTAAAG
* * *
6974992 GGGAAATGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAACCCG-G-AAAAACTA
* *
6975026 GGGAAAGGTTTTAGTTTAACCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAACCCGGAAAAACTA
6975058 GGGA
1 GGGA
6975062 GTTGTAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 11 0.35
33 1 0.03
34 19 0.61
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAACCCGGAAAAACTA
Found at i:6975663 original size:15 final size:15
Alignment explanation
Indices: 6975645--6975720 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
6975635 GTGAAATTCT
6975645 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
6975660 AATTATTTATATAAA
1 AATTATTTAAATAAA
**
6975675 AATTCA--TCGAT-AA
1 AATT-ATTTAAATAAA
*
6975688 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
*
6975702 AATTATTTATATAAA
1 AATTATTTAAATAAA
6975717 AATT
1 AATT
6975721 CATCGATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 6 0.12
14 6 0.12
15 33 0.69
16 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:6975699 original size:42 final size:42
Alignment explanation
Indices: 6975644--6975735 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
6975634 TGTGAAATTC
6975644 TAAT-TATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
6975685 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
6975727 TAATATATT
1 TAATATATT
6975736 ATTTAAATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 4 0.08
42 46 0.92
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
Found at i:6981322 original size:17 final size:17
Alignment explanation
Indices: 6981289--6981323 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6981279 CTACATGTCG
*
6981289 AATTCAAAACTCAAATA
1 AATTCAAAACCCAAATA
*
6981306 AATTCAAAACCCTAATA
1 AATTCAAAACCCAAATA
6981323 A
1 A
6981324 CTTTACCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.23
Consensus pattern (17 bp):
AATTCAAAACCCAAATA
Found at i:6986526 original size:7 final size:7
Alignment explanation
Indices: 6986514--6986551 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
6986504 TAAAGGGAAA
*
6986514 GGAGGAG
1 GGAGGAC
*
6986521 GGAGGAG
1 GGAGGAC
6986528 GGAGGAC
1 GGAGGAC
6986535 GGAGGAC
1 GGAGGAC
6986542 GGAGGAC
1 GGAGGAC
6986549 GGA
1 GGA
6986552 AAAGGGAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.63, T:0.00
Consensus pattern (7 bp):
GGAGGAC
Found at i:6986786 original size:20 final size:18
Alignment explanation
Indices: 6986739--6986790 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
6986729 AAATTATAAA
6986739 ATAAATTATCAAATTTATC
1 ATAAATTAT-AAATTTATC
*
6986758 AAAATATTATAAATGTTCATC
1 ATAA-ATTATAAAT-TT-ATC
6986779 ATAAATTATAAA
1 ATAAATTATAAA
6986791 ATATTGATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 7 0.25
20 15 0.54
21 6 0.21
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAAATTATAAATTTATC
Found at i:6992177 original size:21 final size:20
Alignment explanation
Indices: 6992153--6992233 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
6992143 GCAAATTCGC
6992153 GTTGCATTTCGCGTTGCGAT
1 GTTGCATTTCGCGTTGCGAT
* **
6992173 AGTTGAAAATCGCGTTGCGAT
1 -GTTGCATTTCGCGTTGCGAT
* * * * *
6992194 TTTTCGTTTCGTGTTACGAT
1 GTTGCATTTCGCGTTGCGAT
* *
6992214 TTTTCATTTCGCGTTGCGAT
1 GTTGCATTTCGCGTTGCGAT
6992234 AGTCTACAGT
Statistics
Matches: 46, Mismatches: 14, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.43
Consensus pattern (20 bp):
GTTGCATTTCGCGTTGCGAT
Found at i:6992233 original size:20 final size:20
Alignment explanation
Indices: 6992182--6992233 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
6992172 TAGTTGAAAA
*
6992182 TCGCGTTGCGATTTTTCGTT
1 TCGCGTTGCGATTTTTCATT
* *
6992202 TCGTGTTACGATTTTTCATT
1 TCGCGTTGCGATTTTTCATT
6992222 TCGCGTTGCGAT
1 TCGCGTTGCGAT
6992234 AGTCTACAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (20 bp):
TCGCGTTGCGATTTTTCATT
Found at i:6992271 original size:61 final size:60
Alignment explanation
Indices: 6992157--6992300 Score: 152
Period size: 61 Copynumber: 2.4 Consensus size: 60
6992147 ATTCGCGTTG
* ** *
6992157 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTTCGTTTCGTGTTACGATTTTT
1 CATTTCGCGTTGCGATAGTCT-ACAATCGCGTTGCGATTTTTCAATTCG-GTTACAATTTTT
* *
6992218 CATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTTCAAATTC-GTTACAATTTTT
1 CATTTCGCGTTGCGATAGTCTACAATCG-CGTTGCGATTTTTC-AATTCGGTTACAATTTTT
*
6992279 CAAATT--CGTTGCGATAGTCTAC
1 C-ATTTCGCGTTGCGATAGTCTAC
6992301 TCGTTGTGAT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
60 16 0.22
61 35 0.49
62 18 0.25
63 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (60 bp):
CATTTCGCGTTGCGATAGTCTACAATCGCGTTGCGATTTTTCAATTCGGTTACAATTTTT
Found at i:6992399 original size:6 final size:6
Alignment explanation
Indices: 6992388--6992412 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6992378 GACACGTATT
6992388 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
6992413 GACGAGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:6992921 original size:12 final size:12
Alignment explanation
Indices: 6992894--6992926 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
6992884 CCGCCGTCTC
6992894 GGGTCG-GGTCG
1 GGGTCGTGGTCG
6992905 GGGTCGTGGTCG
1 GGGTCGTGGTCG
*
6992917 TGGTCGTGGT
1 GGGTCGTGGT
6992927 AATACGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.00, C:0.15, G:0.58, T:0.27
Consensus pattern (12 bp):
GGGTCGTGGTCG
Found at i:6993058 original size:41 final size:41
Alignment explanation
Indices: 6993013--6993102 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
6993003 CAACGAATTT
*
6993013 TCGCAACGAATTTGAAAAATCGCAACGGCAACTGTAGACTA
1 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
**
6993054 TCGCAACGAATTTGGGAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
6993095 TCGCAACG
1 TCGCAACG
6993103 CGATTTTCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
Found at i:6993059 original size:22 final size:22
Alignment explanation
Indices: 6993031--6993102 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
6993021 AATTTGAAAA
6993031 ATCGCAACGGCAACTGTAGACT
1 ATCGCAACGGCAACTGTAGACT
* * *
6993053 ATCGCAAC-G-AA-TTTGGGA-A
1 ATCGCAACGGCAACTGT-AGACT
*
6993072 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGGCAACTGTAGACT
6993094 ATCGCAACG
1 ATCGCAACG
6993103 CGATTTTCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
19 10 0.26
20 4 0.11
21 5 0.13
22 19 0.50
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (22 bp):
ATCGCAACGGCAACTGTAGACT
Found at i:6993148 original size:20 final size:20
Alignment explanation
Indices: 6993123--6993237 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 20
6993113 CTATCGCGTT
* *
6993123 ACGCGAAATGGAAAAGCGCA
1 ACGCGAAATGCAAAATCGCA
** * *
6993143 ACGCGATTTTCAACTATCGCA
1 ACGCGAAATGCAA-AATCGCA
*
6993164 ACGCGAAATGGAAAATCGCA
1 ACGCGAAATGCAAAATCGCA
** * *
6993184 ACGCGATTTTCAACTATCGCA
1 ACGCGAAATGCAA-AATCGCA
*
6993205 ACGCGAAATGAAAAATCGCA
1 ACGCGAAATGCAAAATCGCA
6993225 ACGCGAAATGCAA
1 ACGCGAAATGCAA
6993238 CGCGAATTTG
Statistics
Matches: 71, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
20 42 0.59
21 29 0.41
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (20 bp):
ACGCGAAATGCAAAATCGCA
Found at i:6993184 original size:41 final size:41
Alignment explanation
Indices: 6993094--6993230 Score: 229
Period size: 41 Copynumber: 3.3 Consensus size: 41
6993084 ACTGTAGACT
*
6993094 ATCGCAACGCGATTTTCAACTATCGCGTTACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGC--AACGCGAAATGGAAA
*
6993137 AGCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
*
6993178 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
6993219 ATCGCAACGCGA
1 ATCGCAACGCGA
6993231 AATGCAACGC
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
41 65 0.72
43 25 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
Found at i:6993732 original size:22 final size:23
Alignment explanation
Indices: 6993706--6993749 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
6993696 AGTGTTATAT
6993706 TATATTTTAAAAAT-TTTATTAG
1 TATATTTTAAAAATCTTTATTAG
*
6993728 TATATTTTAAATATCTTTATTA
1 TATATTTTAAAAATCTTTATTA
6993750 AAATATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATTTTAAAAATCTTTATTAG
Found at i:6993755 original size:23 final size:22
Alignment explanation
Indices: 6993707--6993756 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
6993697 GTGTTATATT
**
6993707 ATATTTTAAAAATTTTATTAGT
1 ATATTTTAAAAATTTTATTAAA
*
6993729 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAAT-TTTATTAAA
6993752 ATATT
1 ATATT
6993757 ATTATATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATATTTTAAAAATTTTATTAAA
Found at i:6993834 original size:15 final size:16
Alignment explanation
Indices: 6993814--6993843 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6993804 ATTAATAATT
6993814 TAATAATA-AAATTTC
1 TAATAATATAAATTTC
6993829 TAATAATATAAATTT
1 TAATAATATAAATTT
6993844 TATTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAATATAAATTTC
Found at i:6993850 original size:15 final size:14
Alignment explanation
Indices: 6993812--6993850 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
6993802 TTATTAATAA
6993812 TTTAATAATAAAAT
1 TTTAATAATAAAAT
6993826 TTCTAATAATATAAAT
1 TT-TAATAATA-AAAT
*
6993842 TTTATTAAT
1 TTTAATAAT
6993851 TATTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 14 0.64
16 6 0.27
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTAATAATAAAAT
Found at i:6993902 original size:28 final size:27
Alignment explanation
Indices: 6993855--6993972 Score: 73
Period size: 28 Copynumber: 4.2 Consensus size: 27
6993845 ATTAATTATT
* *
6993855 TATTATATATTATTAAAATAAAAATATA
1 TATT-TATATTAATATAATAAAAATATA
* *
6993883 TATCTTATATTAATATAATATAATTGAT-
1 TAT-TTATATTAATATAATAAAAAT-ATA
*
6993911 TATTT-TATT-ATAATATTAAAAATATAA
1 TATTTATATTAAT-ATAATAAAAATAT-A
* *
6993938 TATTATATTATTAAAATATTAATAAATATA
1 TATT-TA-TATTAATATAATAA-AAATATA
6993968 T-TTTA
1 TATTTA
6993973 AATATTTTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
25 4 0.06
26 12 0.17
27 6 0.08
28 25 0.35
29 5 0.07
30 13 0.18
31 7 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (27 bp):
TATTTATATTAATATAATAAAAATATA
Found at i:6993944 original size:22 final size:22
Alignment explanation
Indices: 6993916--6993961 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6993906 TTGATTATTT
6993916 TATTATAATATTAAAA-ATATAA
1 TATTATAATATTAAAATAT-TAA
*
6993938 TATTATATTATTAAAATATTAA
1 TATTATAATATTAAAATATTAA
6993960 TA
1 TA
6993962 AATATATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATTATAATATTAAAATATTAA
Found at i:6993949 original size:30 final size:33
Alignment explanation
Indices: 6993889--6993967 Score: 110
Period size: 30 Copynumber: 2.5 Consensus size: 33
6993879 TATATATCTT
* *
6993889 ATATTAATATAATATAATTGATTATTTTATTATA
1 ATATTAATA-AATATAATTGATTATATTATTAAA
6993923 ATATTAA-AAATATAA-T-ATTATATTATTAAA
1 ATATTAATAAATATAATTGATTATATTATTAAA
6993953 ATATTAATAAATATA
1 ATATTAATAAATATA
6993968 TTTTAAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 19 0.45
31 8 0.19
32 7 0.17
33 1 0.02
34 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (33 bp):
ATATTAATAAATATAATTGATTATATTATTAAA
Found at i:6993974 original size:11 final size:12
Alignment explanation
Indices: 6993941--6993977 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
6993931 AATATAATAT
6993941 TATATTATTAAA
1 TATATTATTAAA
*
6993953 -ATATTAATAAA
1 TATATTATTAAA
6993964 TATATT-TTAAA
1 TATATTATTAAA
6993975 TAT
1 TAT
6993978 TTTAATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TATATTATTAAA
Found at i:6993982 original size:23 final size:22
Alignment explanation
Indices: 6993929--6993995 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
6993919 TATAATATTA
*
6993929 AAAATA-TAAT-ATTATATTATT
1 AAAATATTAATAAATATATT-TT
6993950 AAAATATTAATAAATATATTTT
1 AAAATATTAATAAATATATTTT
* *
6993972 AAATATTTTAATAATTAATATTTT
1 AAA-ATATTAATAAAT-ATATTTT
6993996 GATTAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.15
22 9 0.23
23 17 0.44
24 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATATTAATAAATATATTTT
Found at i:6994848 original size:2 final size:2
Alignment explanation
Indices: 6994841--6994880 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6994831 TTAAAGTTAG
6994841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6994881 GAAGTTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6997427 original size:2 final size:2
Alignment explanation
Indices: 6997420--6997505 Score: 163
Period size: 2 Copynumber: 43.0 Consensus size: 2
6997410 CTAAACAATC
6997420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
6997462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT 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
6997504 AT
1 AT
6997506 CAGCATTCCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6997734 original size:35 final size:35
Alignment explanation
Indices: 6997687--6997756 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
6997677 TGTTTCAAAA
6997687 ATTGGTACCGATACTGA-CCTT-ATGGTATCGATACC
1 ATTGGTACCGATACT-ACCCTTCA-GGTATCGATACC
*
6997722 ATTGGTATCGATACTACCCTTCAGGTATCGATACC
1 ATTGGTACCGATACTACCCTTCAGGTATCGATACC
6997757 CCATGAATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 1 0.03
35 30 0.94
36 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (35 bp):
ATTGGTACCGATACTACCCTTCAGGTATCGATACC
Found at i:7000676 original size:21 final size:21
Alignment explanation
Indices: 7000635--7000677 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
7000625 AGATTGTAGT
* *
7000635 CTTGTTGATTTATGTTGATGA
1 CTTGTTGATTTATGGTAATGA
7000656 CTTGTTGA-TTACTGGTAATGA
1 CTTGTTGATTTA-TGGTAATGA
7000677 C
1 C
7000678 AGTGTTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (21 bp):
CTTGTTGATTTATGGTAATGA
Found at i:7002125 original size:59 final size:59
Alignment explanation
Indices: 7002002--7002113 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
7001992 TAATATATGA
* * * *
7002002 ATAGTCCGATGATCATTCTGGAACTTCTAATAGTCGAGAGTTTAACAAAACAACATCCT
1 ATAGTCAGATGATCATTCTAGAACTTCTAATAATCGAGAGTTCAACAAAACAACATCCT
* * *
7002061 ATAGTCAGATGATCATTTTATAACTTTTAATAATCGATGA-TTCAACAAAACAA
1 ATAGTCAGATGATCATTCTAGAACTTCTAATAATCGA-GAGTTCAACAAAACAA
7002114 TACCTTATAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
59 43 0.96
60 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (59 bp):
ATAGTCAGATGATCATTCTAGAACTTCTAATAATCGAGAGTTCAACAAAACAACATCCT
Found at i:7002389 original size:14 final size:14
Alignment explanation
Indices: 7002370--7002396 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7002360 TTAAATTATA
7002370 AAAAAATTAAAATT
1 AAAAAATTAAAATT
7002384 AAAAAATTAAAAT
1 AAAAAATTAAAAT
7002397 CAATTTTAAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAAATTAAAATT
Found at i:7004773 original size:61 final size:61
Alignment explanation
Indices: 7004678--7004802 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
7004668 CTTTAAAAAA
7004678 TTATCAACTCAATTATAATTTTTTAATAGTATGAGGTAAGTACAAGTATACATTTATAATC
1 TTATCAACTCAATTATAATTTTTTAATAGTATGAGGTAAGTACAAGTATACATTTATAATC
*
7004739 TTATCAATTCAATTATAATTTTTTAATAGTATGAGGTAAGTACAAGTATACATTTATAATC
1 TTATCAACTCAATTATAATTTTTTAATAGTATGAGGTAAGTACAAGTATACATTTATAATC
7004800 TTA
1 TTA
7004803 CTTAATCATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (61 bp):
TTATCAACTCAATTATAATTTTTTAATAGTATGAGGTAAGTACAAGTATACATTTATAATC
Found at i:7009620 original size:36 final size:36
Alignment explanation
Indices: 7009573--7009644 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
7009563 AACTGGTGAA
7009573 AGCAGTCACAATGGATTGTGGTGATCACCTTCCAGT
1 AGCAGTCACAATGGATTGTGGTGATCACCTTCCAGT
7009609 AGCAGTCACAATGGATTGTGGTGATCACCTTCCAGT
1 AGCAGTCACAATGGATTGTGGTGATCACCTTCCAGT
7009645 TGTACATTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (36 bp):
AGCAGTCACAATGGATTGTGGTGATCACCTTCCAGT
Found at i:7017554 original size:35 final size:35
Alignment explanation
Indices: 7017386--7017535 Score: 176
Period size: 35 Copynumber: 4.3 Consensus size: 35
7017376 GAAGTCTCTG
*
7017386 TAGGTTCAGCTCGATCAAACTGGCAATTCCTTATA
1 TAGGTTCAGCTCGATCAAACTGGTAATTCCTTATA
*
7017421 TAGGTTCAGCTCGATCAAACTGGTATTTCCTTATA
1 TAGGTTCAGCTCGATCAAACTGGTAATTCCTTATA
* * ** *
7017456 TAGGTTCAGAC-CGATCGAATTAATAATTCCTTACGA
1 TAGGTTCAG-CTCGATCAAACTGGTAATTCCTTA-TA
* * * *
7017492 CAAGTTCAGCTAGGTCAAACTGGTAATTCCTTATA
1 TAGGTTCAGCTCGATCAAACTGGTAATTCCTTATA
7017527 TAGGTTCAG
1 TAGGTTCAG
7017536 ACCGATCGAA
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
35 68 0.73
36 25 0.27
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (35 bp):
TAGGTTCAGCTCGATCAAACTGGTAATTCCTTATA
Found at i:7017554 original size:71 final size:71
Alignment explanation
Indices: 7017424--7017562 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 71
7017414 CCTTATATAG
* * **
7017424 GTTCAGCTCGATCAAACTGGTATTTCCTTATATAGGTTCAGACCGATCGAATTAATAATTCCTTA
1 GTTCAGCTAGATCAAACTGGTAATTCCTTATATAGGTTCAGACCGATCGAACGAATAATTCCTTA
7017489 CGACAA
66 CGACAA
* * *
7017495 GTTCAGCTAGGTCAAACTGGTAATTCCTTATATAGGTTCAGACCGATCGAACGAGTAATTTCTTA
1 GTTCAGCTAGATCAAACTGGTAATTCCTTATATAGGTTCAGACCGATCGAACGAATAATTCCTTA
7017560 CGA
66 CGA
7017563 ATCTAAGGTG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (71 bp):
GTTCAGCTAGATCAAACTGGTAATTCCTTATATAGGTTCAGACCGATCGAACGAATAATTCCTTA
CGACAA
Found at i:7017805 original size:13 final size:13
Alignment explanation
Indices: 7017786--7017819 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
7017776 TTTTACCATG
7017786 ATTTTAAAAATAC
1 ATTTTAAAAATAC
*
7017799 GTTTTAAAAATAC
1 ATTTTAAAAATAC
7017812 ATTTTAAA
1 ATTTTAAA
7017820 CTACTACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (13 bp):
ATTTTAAAAATAC
Found at i:7018530 original size:16 final size:16
Alignment explanation
Indices: 7018495--7018535 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
7018485 TTTTACTTCA
*
7018495 GAATGATT-AAACGTT
1 GAATGATTCAAACGCT
*
7018510 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
7018526 GAATGATTCA
1 GAATGATTCA
7018536 GAGACTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:7018626 original size:27 final size:27
Alignment explanation
Indices: 7018587--7018653 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
7018577 GATAATGACT
7018587 CTGAATCATTCAGAATGTACTTATGTA
1 CTGAATCATTCAGAATGTACTTATGTA
* * *
7018614 TTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTATGTA
7018641 CTGAATCATTCAG
1 CTGAATCATTCAG
7018654 CAAAACTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTATGTA
Found at i:7020541 original size:21 final size:21
Alignment explanation
Indices: 7020515--7020634 Score: 136
Period size: 21 Copynumber: 5.6 Consensus size: 21
7020505 GACTATCGCA
7020515 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
7020536 TTCGCGTTGCAATTTATTCAAAG
1 TTCGCGTTGCGA--TAGTCGAAG
7020559 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* *
7020580 TTCGCGTTGCGATTTATTCTAAG
1 TTCGCGTTGCGA--TAGTCGAAG
*
7020603 TTCGC--TGTGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
7020622 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
7020635 TTATTCCAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
19 12 0.15
21 39 0.48
23 30 0.37
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:7020563 original size:23 final size:23
Alignment explanation
Indices: 7020515--7020655 Score: 115
Period size: 21 Copynumber: 6.6 Consensus size: 23
7020505 GACTATCGCA
* *
7020515 TTCGCGTTGCGA--TAGTCGAAG
1 TTCGCGTTGCGATTTATTCAAAG
*
7020536 TTCGCGTTGCAATTTATTCAAAG
1 TTCGCGTTGCGATTTATTCAAAG
* *
7020559 TTCGCGTTGCGA--TAGTCGAAG
1 TTCGCGTTGCGATTTATTCAAAG
*
7020580 TTCGCGTTGCGATTTATTCTAAG
1 TTCGCGTTGCGATTTATTCAAAG
* * *
7020603 TTCGC--TGTGA--TAGTCGAAG
1 TTCGCGTTGCGATTTATTCAAAG
7020622 TTCGCGTTGCGATTTATTCCAAA-
1 TTCGCGTTGCGATTTATT-CAAAG
7020645 TT--CGTTGCGAT
1 TTCGCGTTGCGAT
7020656 AGTCCAAAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
19 12 0.12
21 47 0.48
23 35 0.36
24 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (23 bp):
TTCGCGTTGCGATTTATTCAAAG
Found at i:7020565 original size:44 final size:44
Alignment explanation
Indices: 7020515--7020659 Score: 219
Period size: 44 Copynumber: 3.4 Consensus size: 44
7020505 GACTATCGCA
*
7020515 TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCAAAG
1 TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAG
*
7020559 TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCTAAG
1 TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAG
*
7020603 TTCGC--TGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA-
1 TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATT-CAAAG
7020645 TT--CGTTGCGATAGTC
1 TTCGCGTTGCGATAGTC
7020660 CAAAATCGCA
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
40 1 0.01
42 42 0.45
43 3 0.03
44 47 0.51
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (44 bp):
TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAG
Found at i:7020628 original size:42 final size:42
Alignment explanation
Indices: 7020522--7020659 Score: 206
Period size: 42 Copynumber: 3.2 Consensus size: 42
7020512 GCATTCGCGT
*
7020522 TGCGATAGTCGAAGTTCGCGTTGCAATTTATTCAAAGTTCGC
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAGTTCGC
*
7020564 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCTAAGTTCGC
1 --TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAGTTCGC
* *
7020608 TGTGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAA-TTCGT
1 TGCGATAGTCGAAGTTCGCGTTGCGATTTATT-CAAAGTTCGC
7020650 TGCGATAGTC
1 TGCGATAGTC
7020660 CAAAATCGCA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
42 44 0.51
43 3 0.03
44 40 0.46
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (42 bp):
TGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAGTTCGC
Found at i:7021400 original size:21 final size:21
Alignment explanation
Indices: 7021374--7021552 Score: 118
Period size: 21 Copynumber: 8.6 Consensus size: 21
7021364 TTTGGAATAA
7021374 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* *
7021395 ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGACT
* *
7021414 AAATCGTAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTGGACT
* *
7021437 ATCGCAA--CGAATTTGGAATAT
1 ATCGCAACGCGAACTTGG-A-CT
* * *
7021458 ATCGTAACGCGAACTTCGATT
1 ATCGCAACGCGAACTTGGACT
* * **
7021479 ATCGCAA--CGAATTTGAAAA
1 ATCGCAACGCGAACTTGGACT
* *
7021498 ATCGTAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* *
7021519 ATCGCAACGTGAACTTAGACT
1 ATCGCAACGCGAACTTGGACT
*
7021540 ATCGCAATGCGAA
1 ATCGCAACGCGAA
7021553 TATGTAAATC
Statistics
Matches: 117, Mismatches: 31, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
19 30 0.26
20 1 0.01
21 69 0.59
22 1 0.01
23 16 0.14
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:7021418 original size:42 final size:42
Alignment explanation
Indices: 7021359--7021527 Score: 288
Period size: 42 Copynumber: 4.1 Consensus size: 42
7021349 ACCGGTCGTT
* *
7021359 ACGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCA
1 ACGAATTTGGAATAAATCGTAACGCGAACTTCGACTATCGCA
7021401 ACGAATTTGGAATAAATCGTAACGCGAACTTCGACTATCGCA
1 ACGAATTTGGAATAAATCGTAACGCGAACTTCGACTATCGCA
* *
7021443 ACGAATTTGGAATATATCGTAACGCGAACTTCGATTATCGCA
1 ACGAATTTGGAATAAATCGTAACGCGAACTTCGACTATCGCA
7021485 ACGAATTT-GAA-AAATCGTAACGCGAACTTCGACTATCGCA
1 ACGAATTTGGAATAAATCGTAACGCGAACTTCGACTATCGCA
7021525 ACG
1 ACG
7021528 TGAACTTAGA
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
40 30 0.25
41 3 0.02
42 88 0.73
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (42 bp):
ACGAATTTGGAATAAATCGTAACGCGAACTTCGACTATCGCA
Found at i:7021590 original size:21 final size:21
Alignment explanation
Indices: 7021561--7021634 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
7021551 AATATGTAAA
* *
7021561 TCGCATTGCGATAGTCTAAGT
1 TCGCGTTGCGATAGTCAAAGT
*
7021582 TCGCGTTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCAAAGT
7021603 TCGCGTTGCGATAGTCAAAGT
1 TCGCGTTGCGATAGTCAAAGT
7021624 TCGCGTTGCGA
1 TCGCGTTGCGA
7021635 ATCTGGAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCAAAGT
Found at i:7022890 original size:57 final size:56
Alignment explanation
Indices: 7022802--7022915 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 56
7022792 CACAATTTCT
* * * *
7022802 AAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTG
1 AAAATCGCATTGCAATAGTACTGTTTACCTATATCGGTAATTA-AGTTGCGAAATTG
*
7022859 AAAATCGCATTGCAATAGTACTGTTTACCTATGTCGGTAATTAAGTTGCGAAATTG
1 AAAATCGCATTGCAATAGTACTGTTTACCTATATCGGTAATTAAGTTGCGAAATTG
7022915 A
1 A
7022916 CGAATTCGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
56 12 0.23
57 40 0.77
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (56 bp):
AAAATCGCATTGCAATAGTACTGTTTACCTATATCGGTAATTAAGTTGCGAAATTG
Found at i:7023063 original size:20 final size:20
Alignment explanation
Indices: 7023038--7023079 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
7023028 TTAGCATTGT
*
7023038 GAATTTGAAAATCTCGTTGC
1 GAATTTGAAAATCGCGTTGC
7023058 GAATTTGAAAATCGCGTTGC
1 GAATTTGAAAATCGCGTTGC
7023078 GA
1 GA
7023080 TAGTACTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (20 bp):
GAATTTGAAAATCGCGTTGC
Found at i:7023113 original size:77 final size:77
Alignment explanation
Indices: 7022981--7023136 Score: 249
Period size: 77 Copynumber: 2.0 Consensus size: 77
7022971 TTAGCATTGT
* * *
7022981 GAATTTAAAAATCGCATTGCGATAGTACTATTTACCTATATCGGTAATTAGCATTGTGAATTTGA
1 GAATTTAAAAATCGCATTGCGATAGTACTATTTACCTATATCGATAATTAACATTGCGAATTTGA
*
7023046 AAATCTCGTTGC
66 AAATCGCGTTGC
* * *
7023058 GAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAACATTGCGAATTTGA
1 GAATTTAAAAATCGCATTGCGATAGTACTATTTACCTATATCGATAATTAACATTGCGAATTTGA
7023123 AAATCGCGTTGC
66 AAATCGCGTTGC
7023135 GA
1 GA
7023137 TAGTATTATT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.35
Consensus pattern (77 bp):
GAATTTAAAAATCGCATTGCGATAGTACTATTTACCTATATCGATAATTAACATTGCGAATTTGA
AAATCGCGTTGC
Found at i:7023119 original size:134 final size:133
Alignment explanation
Indices: 7022795--7023193 Score: 472
Period size: 134 Copynumber: 3.0 Consensus size: 133
7022785 ATCGCAACAC
* * *
7022795 AATTTCTAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA
1 AATTTCGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAGCATTGCGAATTTGA
* * * * *
7022860 AAATCGCATTGCAATAGTACTGTTTACCTATGTCGGTAATTA--AGTTGCGAAATTGACGAA---
66 AAATCGCATTGCGATAGTACTATTTACCTATATCGGTAATTAGCA-TTGCGAATTTGA-AAATCC
7022920 TT-CG
129 TTGCG
* * ** * * * *
7022924 -ATTTGCGAAATTCGCGTTACGATAGTTGTGTTTACTTATATCGTTAATTAGCATTGTGAATTTA
1 AATTT-CGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAGCATTGCGAATTTG
*
7022988 AAAATCGCATTGCGATAGTACTATTTACCTATATCGGTAATTAGCATTGTGAATTTGAAAATCTC
65 AAAATCGCATTGCGATAGTACTATTTACCTATATCGGTAATTAGCATTGCGAATTTGAAAATC-C
7023053 GTTGCG
129 -TTGCG
*
7023059 AATTT-GAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAACATTGCGAATTTGA
1 AATTTCGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAGCATTGCGAATTTGA
* * * * *
7023123 AAATCGCGTTGCGATAGTATTATTTATCTATATTGGTAATTAGCGTTGCGAATTTGAAAATCGCT
66 AAATCGCATTGCGATAGTACTATTTACCTATATCGGTAATTAGCATTGCGAATTTGAAAATC-C-
7023188 TTGCG
129 TTGCG
7023193 A
1 A
7023194 TAGTACTGTT
Statistics
Matches: 227, Mismatches: 33, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
128 4 0.02
129 91 0.40
130 10 0.04
131 1 0.00
134 115 0.51
135 2 0.01
136 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (133 bp):
AATTTCGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAGCATTGCGAATTTGA
AAATCGCATTGCGATAGTACTATTTACCTATATCGGTAATTAGCATTGCGAATTTGAAAATCCTT
GCG
Found at i:7023222 original size:57 final size:56
Alignment explanation
Indices: 7023052--7023227 Score: 262
Period size: 57 Copynumber: 3.1 Consensus size: 56
7023042 TTGAAAATCT
*
7023052 CGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGATAATTAA
1 CGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCG-TAATTAG
* * * * *
7023109 CATTGCGAATTTGAAAATCGCGTTGCGATAGTATTATTTATCTATATTGGTAATTAG
1 CGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATA-TCGTAATTAG
*
7023166 CGTTGCGAATTTGAAAATCGCTTTGCGATAGTACTGTTTACCTATATCAGTAATTAG
1 CGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATC-GTAATTAG
7023223 CGTTG
1 CGTTG
7023228 TGATTTTGGA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
56 1 0.01
57 102 0.97
58 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (56 bp):
CGTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACCTATATCGTAATTAG
Found at i:7027201 original size:2 final size:2
Alignment explanation
Indices: 7027194--7027220 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7027184 TCTAAATAAG
7027194 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 T
7027221 TGTTAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7029889 original size:22 final size:22
Alignment explanation
Indices: 7029854--7029895 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7029844 GAATCTTGAG
* *
7029854 GGGGTTTCTTTGATTATTTTCT
1 GGGGTTGCTGTGATTATTTTCT
*
7029876 GGGGTTGCTGTGATTTTTTT
1 GGGGTTGCTGTGATTATTTT
7029896 TCCTTTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.29, T:0.57
Consensus pattern (22 bp):
GGGGTTGCTGTGATTATTTTCT
Found at i:7047319 original size:3 final size:3
Alignment explanation
Indices: 7047311--7047339 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7047301 GCAGTGTTAA
7047311 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7047340 GAAATAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7050989 original size:34 final size:30
Alignment explanation
Indices: 7050951--7051019 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
7050941 TTGATATAAC
7050951 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
7050985 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
7051014 AATTTA
1 AATTTA
7051020 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:7051030 original size:29 final size:30
Alignment explanation
Indices: 7050960--7051019 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
7050950 CAATTTAAGG
7050960 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
7050991 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
7051020 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:7051253 original size:41 final size:41
Alignment explanation
Indices: 7051206--7051285 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
7051196 ATGCAATTAG
* ** *
7051206 TGCATCGATGCATCCTTCTGTGCATCGATACATCAAGGCCA
1 TGCATCGATGCATCCTGCCATGCATCCATACATCAAGGCCA
* *
7051247 TGCATCGATGCGTCCTGCCATGCATCCATGCATCAAGGC
1 TGCATCGATGCATCCTGCCATGCATCCATACATCAAGGC
7051286 TGCAACGGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (41 bp):
TGCATCGATGCATCCTGCCATGCATCCATACATCAAGGCCA
Found at i:7051419 original size:21 final size:21
Alignment explanation
Indices: 7051390--7051429 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
7051380 TTTGAGTAGA
7051390 AAAAGCATCTCCAAACGGCTCC
1 AAAAGCATC-CCAAACGGCTCC
*
7051412 AAAA-CATCCCCAACGGCT
1 AAAAGCATCCCAAACGGCT
7051430 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 4 0.24
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (21 bp):
AAAAGCATCCCAAACGGCTCC
Found at i:7056852 original size:17 final size:17
Alignment explanation
Indices: 7056803--7056852 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
7056793 TTGTTCATGT
7056803 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
*
7056820 TTTGAGTGTC----AATG
1 TTTG-GTTTCTATGAATG
7056834 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
7056851 TT
1 TT
7056853 AGAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 8 0.31
17 10 0.38
18 4 0.15
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.52
Consensus pattern (17 bp):
TTTGGTTTCTATGAATG
Found at i:7057967 original size:24 final size:23
Alignment explanation
Indices: 7057902--7057967 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
7057892 TATTTTAATA
*
7057902 TTTTAACATTTAAAAAT-ATTTAG
1 TTTTAA-ATATAAAAATAATTTAG
*
7057925 TTTTAAATATAAACTATAATTTA-
1 TTTTAAATATAAA-AATAATTTAG
7057948 TATTTAAATAGTAAAAATAA
1 T-TTTAAATA-TAAAAATAA
7057968 GAAACTTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 6 0.17
23 9 0.25
24 17 0.47
25 4 0.11
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (23 bp):
TTTTAAATATAAAAATAATTTAG
Found at i:7059093 original size:35 final size:35
Alignment explanation
Indices: 7059047--7059121 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
7059037 CGTCACGAAC
* *
7059047 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
*
7059082 AGTAAGGCCCTGAGCACACAGCCAAGGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
7059117 AGTAA
1 AGTAA
7059122 TCTTCTTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
Found at i:7059231 original size:24 final size:24
Alignment explanation
Indices: 7059189--7059279 Score: 78
Period size: 24 Copynumber: 3.9 Consensus size: 24
7059179 AAAATCAAAA
*
7059189 CATAATTCAAGTCAAGTATCATAT
1 CATAATTCAAGTCAAGTATCAGAT
* * *
7059213 CATAATTCAGGTTATGTATCAGAT
1 CATAATTCAAGTCAAGTATCAGAT
* * *
7059237 CAGAATCCATGTCAA-TATCAGAT
1 CATAATTCAAGTCAAGTATCAGAT
* * *
7059260 CAGAATCCAGGTCAA-TATCA
1 CATAATTCAAGTCAAGTATCA
7059280 TAACAGAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
23 27 0.47
24 30 0.53
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (24 bp):
CATAATTCAAGTCAAGTATCAGAT
Found at i:7059257 original size:23 final size:23
Alignment explanation
Indices: 7059229--7059288 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
7059219 TCAGGTTATG
*
7059229 TATCAGATCAGAATCCATGTCAA
1 TATCAGATCAGAATCCAGGTCAA
7059252 TATCAGATCAGAATCCAGGTCAA
1 TATCAGATCAGAATCCAGGTCAA
* *
7059275 TATCATAACAGAAT
1 TATCAGATCAGAAT
7059289 TCAAATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (23 bp):
TATCAGATCAGAATCCAGGTCAA
Found at i:7071877 original size:40 final size:40
Alignment explanation
Indices: 7071825--7071900 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
7071815 TAAATGGTTA
7071825 TTAAAAATTTATTAAAAT-TTATCAAAATATTATAAAATAG
1 TTAAAAATTTATTAAAATCTTA-CAAAATATTATAAAATAG
**
7071865 TTAATAAA-TTATTAAAATCTTACAATTTATTATAAA
1 TTAA-AAATTTATTAAAATCTTACAAAATATTATAAA
7071901 TAAATTGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
40 26 0.81
41 6 0.19
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (40 bp):
TTAAAAATTTATTAAAATCTTACAAAATATTATAAAATAG
Found at i:7071912 original size:40 final size:40
Alignment explanation
Indices: 7071824--7071914 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
7071814 TTAAATGGTT
7071824 ATTAA-AAATTTATTAAAATTTATCAAAATATTATAAAATA
1 ATTAATAAA-TTATTAAAATTTATCAAAATATTATAAAATA
* **
7071864 GTTAATAAATTATTAAAATCTTA-CAATTTATTAT-AAATAA
1 ATTAATAAATTATTAAAAT-TTATCAAAATATTATAAAAT-A
*
7071904 ATTGATAAATT
1 ATTAATAAATT
7071915 TAATGATGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
39 4 0.09
40 33 0.77
41 6 0.14
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (40 bp):
ATTAATAAATTATTAAAATTTATCAAAATATTATAAAATA
Found at i:7073403 original size:2 final size:2
Alignment explanation
Indices: 7073396--7073420 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7073386 AAAGGGCACG
7073396 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 T
7073421 TTGTTACTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7076988 original size:181 final size:181
Alignment explanation
Indices: 7076684--7077026 Score: 580
Period size: 181 Copynumber: 1.9 Consensus size: 181
7076674 TAATTTTCAG
*
7076684 TATATGTGTAAAGAAATATCTATCAAAACATATCGAGATTAAATAGTTATTTTAAACTCGTCATA
1 TATATGTGTAAAGAAATATCTATCAAAACATATCGAGATTAAATAGTTATTTTAAACTCATCATA
* * * *
7076749 AACTTTTAATTAGTTTAATAAAATAAATCGTTTGATTCTTTAAATAAAGTTTAGAGTTTGAATTC
66 AACTTTTAATTAGTTTAATAAAATAAATCATTTGAATCTTTAAATAAAGATTAGAGTTTGAATTA
7076814 TTATATTATGAATG-CAATAAATTAAACTGAGATTAAATATTTATTTTTATT
131 TTATATTATGAATGAC-ATAAATTAAACTGAGATTAAATATTTATTTTTATT
* *
7076865 TATATGTGTAAAGAAATATCTATCAGAACATATCGAGATTAAATAGTTATTTTGAACTCATCATA
1 TATATGTGTAAAGAAATATCTATCAAAACATATCGAGATTAAATAGTTATTTTAAACTCATCATA
*
7076930 AATTTTTAATTAGTTTAATAAAATAAATCATTTGAATCTTTAAATAAAGATTAGAGTTTGAATTA
66 AACTTTTAATTAGTTTAATAAAATAAATCATTTGAATCTTTAAATAAAGATTAGAGTTTGAATTA
* *
7076995 TTGTATTATGAATGACATAAATTAAATTGAGA
131 TTATATTATGAATGACATAAATTAAACTGAGA
7077027 GATTTGCGTA
Statistics
Matches: 151, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
181 150 0.99
182 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.41
Consensus pattern (181 bp):
TATATGTGTAAAGAAATATCTATCAAAACATATCGAGATTAAATAGTTATTTTAAACTCATCATA
AACTTTTAATTAGTTTAATAAAATAAATCATTTGAATCTTTAAATAAAGATTAGAGTTTGAATTA
TTATATTATGAATGACATAAATTAAACTGAGATTAAATATTTATTTTTATT
Found at i:7077557 original size:20 final size:20
Alignment explanation
Indices: 7077532--7077604 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
7077522 GTATTGGAGC
7077532 ATGCATGGGGGAGTTGTGGG
1 ATGCATGGGGGAGTTGTGGG
**
7077552 ATGCATGCTGTGCATGG-GACGTGGG
1 ATGCATG--G-G---GGAGTTGTGGG
7077577 AATGCATGGGGGAGTTGTGGG
1 -ATGCATGGGGGAGTTGTGGG
7077598 ATGCATG
1 ATGCATG
7077605 CTGTGCTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
20 16 0.39
21 6 0.15
22 1 0.02
23 2 0.05
24 1 0.02
25 6 0.15
26 9 0.22
ACGTcount: A:0.18, C:0.10, G:0.48, T:0.25
Consensus pattern (20 bp):
ATGCATGGGGGAGTTGTGGG
Found at i:7077582 original size:46 final size:46
Alignment explanation
Indices: 7077532--7077624 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
7077522 GTATTGGAGC
7077532 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
1 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
*
7077578 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCTTGGGACGTGGGA
1 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
7077624 A
1 A
7077625 CTGTGCATGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.17, C:0.11, G:0.47, T:0.25
Consensus pattern (46 bp):
ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
Found at i:7078193 original size:21 final size:21
Alignment explanation
Indices: 7078168--7078211 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7078158 AATCTAGTTA
7078168 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
7078189 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
7078210 AT
1 AT
7078212 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Done.