Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 29
Found at i:4878662 original size:22 final size:22
Alignment explanation
Indices: 4878637--4878679 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4878627 TATCCAATGT
*
4878637 TTTATACAGTCACTCACTTACC
1 TTTATACAGTCACTCAATTACC
*
4878659 TTTATACATTCACTCAATTAC
1 TTTATACAGTCACTCAATTAC
4878680 ATTATCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTATACAGTCACTCAATTACC
Found at i:4880231 original size:23 final size:22
Alignment explanation
Indices: 4880205--4880259 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
4880195 TTCTTTTATT
*
4880205 TAATTATATATTATATTTTAAAA
1 TAATTATATATTA-ATATTAAAA
*
4880228 TAATTA-ACATTAATATTAAAA
1 TAATTATATATTAATATTAAAA
*
4880249 T-ATTATTTATT
1 TAATTATATATT
4880260 TATAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
21 12 0.44
22 5 0.19
23 6 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATTATATATTAATATTAAAA
Found at i:4884408 original size:6 final size:6
Alignment explanation
Indices: 4884390--4884419 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
4884380 AAATTATTAA
4884390 TACAAT ATACAAT TACAAT TACAAT TACAA
1 TACAAT -TACAAT TACAAT TACAAT TACAA
4884420 AGTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (6 bp):
TACAAT
Found at i:4884792 original size:104 final size:104
Alignment explanation
Indices: 4884608--4884795 Score: 261
Period size: 104 Copynumber: 1.8 Consensus size: 104
4884598 ATTTCGGGGA
* * * * * * ** *
4884608 AATAATAGTGTCGTTTCTTTTAAAAATGTCGCAATAGGTCCATCTATAGTGGTGTTTATTGGAAA
1 AATAATAGTGGCGTTTCTTTAAAAAACGACACAATAAGTCCATCTATAGTGACGTTTATTGAAAA
*
4884673 AACGCCACTATATATATATGGCATTTTTTGGGCTTGCAC
66 AACGCCACTACATATATATGGCATTTTTTGGGCTTGCAC
*
4884712 AATAATAGTGGCGTTT-TTTGAAAAAACGACACAATAAGTCTATCTATAGTGACGTTTATTGAAA
1 AATAATAGTGGCGTTTCTTT-AAAAAACGACACAATAAGTCCATCTATAGTGACGTTTATTGAAA
4884776 AAACGCCACTACATATATAT
65 AAACGCCACTACATATATAT
4884796 TTTTTTGGGA
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
103 3 0.04
104 69 0.96
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (104 bp):
AATAATAGTGGCGTTTCTTTAAAAAACGACACAATAAGTCCATCTATAGTGACGTTTATTGAAAA
AACGCCACTACATATATATGGCATTTTTTGGGCTTGCAC
Found at i:4884816 original size:15 final size:16
Alignment explanation
Indices: 4884796--4884825 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4884786 ACATATATAT
4884796 TTTTTTGGG-ACCCTA
1 TTTTTTGGGAACCCTA
4884811 TTTTTTGGGAACCCT
1 TTTTTTGGGAACCCT
4884826 GTGCGGTCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (16 bp):
TTTTTTGGGAACCCTA
Found at i:4887525 original size:2 final size:2
Alignment explanation
Indices: 4887520--4887559 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4887510 AATAAAAATG
4887520 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
4887560 TTAGGTCGCA
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:4890075 original size:18 final size:18
Alignment explanation
Indices: 4890032--4890076 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
4890022 TTATATTCTA
*
4890032 GTAATCTTATTCCTAAAG
1 GTAATCTTATTCCAAAAG
4890050 GT-ATCTTATTCCAAAAG
1 GTAATCTTATTCCAAAAG
4890067 GTAATCTTAT
1 GTAATCTTAT
4890077 ATTCCGTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCCAAAAG
Found at i:4890107 original size:27 final size:27
Alignment explanation
Indices: 4890066--4890120 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4890056 TATTCCAAAA
* * *
4890066 GGTAATCTTATATTCCGTGAACTAAAC
1 GGTAATATTACATTCAGTGAACTAAAC
4890093 GGTAATATTACATTCAGTGAACTAAAC
1 GGTAATATTACATTCAGTGAACTAAAC
4890120 G
1 G
4890121 TCCCCTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (27 bp):
GGTAATATTACATTCAGTGAACTAAAC
Found at i:4890494 original size:2 final size:2
Alignment explanation
Indices: 4890487--4890519 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4890477 TGAAAAGTGA
4890487 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4890520 GGCATGACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4895280 original size:23 final size:20
Alignment explanation
Indices: 4895237--4895277 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4895227 CTTTTAAAGT
4895237 TGAGTACAATATTCTTCTTC
1 TGAGTACAATATTCTTCTTC
4895257 TGAGTACAATATTCTTCTTC
1 TGAGTACAATATTCTTCTTC
4895277 T
1 T
4895278 TCTTTTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (20 bp):
TGAGTACAATATTCTTCTTC
Found at i:4905234 original size:15 final size:15
Alignment explanation
Indices: 4905210--4905245 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4905200 ACATCATTAA
*
4905210 ATTAATTTATAAAAC
1 ATTAAATTATAAAAC
*
4905225 ATTAAATTATAAAAT
1 ATTAAATTATAAAAC
4905240 ATTAAA
1 ATTAAA
4905246 CGTATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTAAATTATAAAAC
Found at i:4905671 original size:23 final size:23
Alignment explanation
Indices: 4905622--4905673 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
4905612 AATATTATAT
* **
4905622 TTTAATTAAATTATATTTAGATT
1 TTTAATTAAATTATAATTAGACG
* *
4905645 TTTAATTAATTTATAATTATACG
1 TTTAATTAAATTATAATTAGACG
4905668 TTTAAT
1 TTTAAT
4905674 AAGTGTGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTAATTAAATTATAATTAGACG
Found at i:4910920 original size:31 final size:31
Alignment explanation
Indices: 4910883--4910944 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
4910873 TGGATCATAT
4910883 TGTGAAGATTTCAAAGTATTACGGGTAAATA
1 TGTGAAGATTTCAAAGTATTACGGGTAAATA
4910914 TGTGAAGATTTCAAAGTATTACGGGTAAATA
1 TGTGAAGATTTCAAAGTATTACGGGTAAATA
4910945 AGTAATTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (31 bp):
TGTGAAGATTTCAAAGTATTACGGGTAAATA
Found at i:4913640 original size:24 final size:24
Alignment explanation
Indices: 4913595--4913641 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4913585 ACCACCACCA
*
4913595 CCACCACCACCAAACCCCCCATAG
1 CCACCACCACCAAACCCACCATAG
*
4913619 CCACCTCCACCATAA-CCACCATA
1 CCACCACCACCA-AACCCACCATA
4913642 ATCTCCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.34, C:0.55, G:0.02, T:0.09
Consensus pattern (24 bp):
CCACCACCACCAAACCCACCATAG
Found at i:4913708 original size:9 final size:9
Alignment explanation
Indices: 4913690--4913744 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
4913680 AAGGAGGAGG
4913690 ACCATAACC
1 ACCATAACC
*
4913699 ACCATCACC
1 ACCATAACC
* *
4913708 ACTAAAACC
1 ACCATAACC
*
4913717 ACCATAATC
1 ACCATAACC
4913726 ACCA-AACCC
1 ACCATAA-CC
4913735 ACCATAACC
1 ACCATAACC
4913744 A
1 A
4913745 TCATTGTATG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
8 2 0.06
9 32 0.89
10 2 0.06
ACGTcount: A:0.45, C:0.44, G:0.00, T:0.11
Consensus pattern (9 bp):
ACCATAACC
Found at i:4913718 original size:18 final size:18
Alignment explanation
Indices: 4913690--4913744 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
4913680 AAGGAGGAGG
* *
4913690 ACCATAACCACCATCACC
1 ACCAAAACCACCATAACC
* *
4913708 ACTAAAACCACCATAATC
1 ACCAAAACCACCATAACC
*
4913726 ACCAAACCCACCATAACC
1 ACCAAAACCACCATAACC
4913744 A
1 A
4913745 TCATTGTATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.45, C:0.44, G:0.00, T:0.11
Consensus pattern (18 bp):
ACCAAAACCACCATAACC
Found at i:4921919 original size:21 final size:20
Alignment explanation
Indices: 4921833--4921990 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
4921823 AAATGACCAA
**
4921833 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
4921852 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
4921872 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
4921892 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
4921913 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
4921934 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
4921954 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
4921975 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
4921991 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:4922006 original size:40 final size:40
Alignment explanation
Indices: 4921957--4922111 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
4921947 CGATTTTCCA
* ** *
4921957 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
4921997 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
4922037 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
4922077 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
4922112 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:4922019 original size:20 final size:20
Alignment explanation
Indices: 4921957--4922110 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
4921947 CGATTTTCCA
* ** *
4921957 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
4921977 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
4921997 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4922017 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4922037 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
4922057 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
4922077 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
4922098 AAATCGCAACGCG
1 AAATCGCAACGCG
4922111 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:4922552 original size:31 final size:33
Alignment explanation
Indices: 4922487--4922555 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
4922477 TTCACTTAGA
*
4922487 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTGCCGTTGCGAT
* *
4922520 TTTCATTTCGCGTTGCTATTCT-CCG-TGCGAT
1 TTTCATTTCGCGTTACGATTCTGCCGTTGCGAT
4922551 TTTCA
1 TTTCA
4922556 AGTTAGTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 11 0.33
32 2 0.06
33 20 0.61
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTGCCGTTGCGAT
Found at i:4922666 original size:19 final size:19
Alignment explanation
Indices: 4922644--4922741 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
4922634 GAAACCAAAA
*
4922644 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4922663 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
4922677 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4922696 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
4922710 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4922729 TCGCGTTGCGATT
1 TCGCGTTGCGATT
4922742 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
16 6 0.10
17 6 0.10
19 31 0.50
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4922685 original size:14 final size:14
Alignment explanation
Indices: 4922666--4922755 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
4922656 TTTCATTTCG
4922666 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4922680 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4922699 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
4922713 AGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4922732 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4922746 CGTTGCGATT
1 CGTTGCGATT
4922756 TTATATCTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
16 6 0.10
17 6 0.10
19 19 0.32
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4922691 original size:33 final size:33
Alignment explanation
Indices: 4922649--4922757 Score: 209
Period size: 33 Copynumber: 3.3 Consensus size: 33
4922639 CAAAATCGCA
4922649 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
4922682 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
4922715 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
4922748 TTGCGATTTT
1 TTGCGATTTT
4922758 ATATCTAACT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:4924741 original size:92 final size:93
Alignment explanation
Indices: 4924333--4924879 Score: 999
Period size: 92 Copynumber: 6.0 Consensus size: 93
4924323 TAGATTGCTT
*
4924333 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAG--
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4924396 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924424 AGTAAATTTGTTCGG-TGCTGCCAATTCTGCTAAACTGTGTATTC-TTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4924486 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924514 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAA-ACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4924578 TTTGTC-TTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924605 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT-ACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4924669 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924697 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
4924762 TTTATCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924789 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4924854 TTTGTC-TTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924880 GTATGCAATC
Statistics
Matches: 444, Mismatches: 3, Indels: 18
0.95 0.01 0.04
Matches are distributed among these distances:
88 5 0.01
89 11 0.02
90 73 0.16
91 151 0.34
92 179 0.40
93 25 0.06
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:4924866 original size:184 final size:186
Alignment explanation
Indices: 4924333--4924879 Score: 999
Period size: 183 Copynumber: 3.0 Consensus size: 186
4924323 TAGATTGCTT
*
4924333 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAG--
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4924396 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGG-TGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4924460 GTGTATTC-TTAACACTGTG-AATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924514 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAA-ACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4924578 TTTGTC-TTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4924642 GTGTATTCTTT-ACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924697 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
4924762 TTTATCTTTG-TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4924826 GTGTATTCTTTAACACTGTGAAATAGTATTTGTC-TTGTTTTGTC-TTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
4924880 GTATGCAATC
Statistics
Matches: 356, Mismatches: 2, Indels: 14
0.96 0.01 0.04
Matches are distributed among these distances:
180 12 0.03
181 85 0.24
182 43 0.12
183 97 0.27
184 94 0.26
185 25 0.07
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:4924954 original size:21 final size:20
Alignment explanation
Indices: 4924930--4925058 Score: 85
Period size: 19 Copynumber: 7.2 Consensus size: 20
4924920 TAGTTTACTT
* *
4924930 TCGCAACACGAAACTTTAAAA
1 TCGCAACGCGAAAC-TCAAAA
4924951 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
4924970 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
*
4924989 TCGCAA--CG--A--CAGAA
1 TCGCAACGCGAAACTCAAAA
4925003 TCGCAAC-CGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
4925021 TCGCAA--CG--A--CAAGA
1 TCGCAACGCGAAACTCAAAA
4925035 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
4925054 TCGCA
1 TCGCA
4925059 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
14 19 0.21
15 4 0.04
16 2 0.02
17 5 0.06
18 11 0.12
19 36 0.40
21 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.16, T:0.09
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:4924971 original size:19 final size:18
Alignment explanation
Indices: 4924947--4925058 Score: 105
Period size: 19 Copynumber: 6.5 Consensus size: 18
4924937 ACGAAACTTT
4924947 AAAATCGCAACGCGAAACC
1 AAAATCGCAAC-CGAAACC
**
4924966 AAAATCGCAACGCGAAATG
1 AAAATCGCAAC-CGAAACC
4924985 AAAATCGCAA-CG--A-C
1 AAAATCGCAACCGAAACC
*
4924999 AGAATCGCAACCGAAACC
1 AAAATCGCAACCGAAACC
4925017 AAAATCGCAA-CG--A-C
1 AAAATCGCAACCGAAACC
*
4925031 AAGATCGCAACGCGAAACC
1 AAAATCGCAAC-CGAAACC
4925050 AAAATCGCA
1 AAAATCGCA
4925059 TTGCGATTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
14 19 0.25
15 4 0.05
16 2 0.03
17 5 0.06
18 11 0.14
19 36 0.47
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAATCGCAACCGAAACC
Found at i:4925006 original size:14 final size:13
Alignment explanation
Indices: 4924986--4925042 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 13
4924976 CGCGAAATGA
4924986 AAATCGCAACGAC
1 AAATCGCAACGAC
4924999 AGAATCGCAACCGAAACC
1 A-AATCGCAA-CG--A-C
4925017 AAAATCGCAACGAC
1 -AAATCGCAACGAC
4925031 AAGATCGCAACG
1 AA-ATCGCAACG
4925043 CGAAACCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.08
14 18 0.49
15 3 0.08
17 3 0.08
18 9 0.24
19 1 0.03
ACGTcount: A:0.46, C:0.30, G:0.18, T:0.07
Consensus pattern (13 bp):
AAATCGCAACGAC
Found at i:4925052 original size:33 final size:33
Alignment explanation
Indices: 4924968--4925058 Score: 141
Period size: 32 Copynumber: 2.8 Consensus size: 33
4924958 GCGAAACCAA
**
4924968 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAACCAAAATCGCAACGACAG
4925001 AATCGCAAC-CGAAACCAAAATCGCAACGACA-
1 AATCGCAACGCGAAACCAAAATCGCAACGACAG
4925032 AGATCGCAACGCGAAACCAAAATCGCA
1 A-ATCGCAACGCGAAACCAAAATCGCA
4925059 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
31 1 0.02
32 28 0.52
33 25 0.46
ACGTcount: A:0.46, C:0.29, G:0.18, T:0.08
Consensus pattern (33 bp):
AATCGCAACGCGAAACCAAAATCGCAACGACAG
Found at i:4925076 original size:19 final size:19
Alignment explanation
Indices: 4925054--4925188 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
4925044 GAAACCAAAA
*
4925054 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4925073 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
4925089 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
4925106 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
4925122 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
4925139 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
4925158 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
4925178 TCGTGTTGCGA
1 TCGCGTTGCGA
4925189 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4925095 original size:14 final size:14
Alignment explanation
Indices: 4925076--4925132 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4925066 TTTCATTTCG
4925076 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
4925090 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
4925107 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
4925123 CGTTGCGATT
1 CGTTGCGATT
4925133 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:4925101 original size:33 final size:33
Alignment explanation
Indices: 4925059--4925151 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4925049 CAAAATCGCA
*
4925059 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
4925092 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
4925125 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
4925152 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:4927102 original size:14 final size:14
Alignment explanation
Indices: 4927083--4927118 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4927073 ATTGTTTAAT
4927083 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
4927097 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
4927111 TGATTTGT
1 TGATTTGT
4927119 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4927248 original size:19 final size:19
Alignment explanation
Indices: 4927224--4927320 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
4927214 AAAATTGACT
4927224 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4927243 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4927262 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4927276 ATCGCAATGCG-AATGAAA
1 ATCGCAATGCGAAATGAAA
4927294 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4927314 ATCGCAA
1 ATCGCAA
4927321 CGGGAGAATC
Statistics
Matches: 70, Mismatches: 2, Indels: 11
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 3 0.04
18 13 0.19
19 27 0.39
20 14 0.20
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4927350 original size:51 final size:52
Alignment explanation
Indices: 4927224--4927337 Score: 203
Period size: 52 Copynumber: 2.2 Consensus size: 52
4927214 AAAATTGACT
4927224 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCG-AATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
4927276 ATCGCAATGCGAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
4927328 ATCGCAATGC
1 ATCGCAATGC
4927338 TTTTAATTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 17 0.28
52 43 0.72
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:4927370 original size:14 final size:14
Alignment explanation
Indices: 4927351--4927405 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
4927341 TAATTTCGCA
4927351 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
4927365 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
4927382 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
4927398 TTGCGATT
1 TTGCGATT
4927406 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:4927380 original size:33 final size:33
Alignment explanation
Indices: 4927338--4927509 Score: 231
Period size: 33 Copynumber: 5.1 Consensus size: 33
4927328 ATCGCAATGC
*
4927338 TTTTAATTTCGCATTGCGATTCTCTCGTTGCGA
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
4927371 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
*
4927404 TTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGA
* *
4927442 TTTTCATTTCCGCATTGCGATT-T-TCATGTGGGA
1 TTTTCATTT-CGCATTGCGATTCTCTCGT-TGCGA
4927475 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
1 TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
4927508 TT
1 TT
4927510 GTAATTTCCG
Statistics
Matches: 124, Mismatches: 6, Indels: 18
0.84 0.04 0.12
Matches are distributed among these distances:
32 13 0.10
33 71 0.57
34 5 0.04
35 4 0.03
36 4 0.03
37 2 0.02
38 15 0.12
39 10 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (33 bp):
TTTTCATTTCGCATTGCGATTCTCTCGTTGCGA
Found at i:4927389 original size:19 final size:19
Alignment explanation
Indices: 4927338--4927495 Score: 159
Period size: 19 Copynumber: 9.1 Consensus size: 19
4927328 ATCGCAATGC
*
4927338 TTTTAATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
*
4927357 --TTC-TCTCG--TTGCGA
1 TTTTCATTTCGCATTGCGA
4927371 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
*
4927390 --TTC-TCTCG--TTGCGA
1 TTTTCATTTCGCATTGCGA
4927404 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
4927423 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
4927442 TTTTCATTTCCGCATTGCGA
1 TTTTCATTT-CGCATTGCGA
*
4927462 TTTTCA--T-G---TGGGA
1 TTTTCATTTCGCATTGCGA
4927475 TTTTCATTTCGCATTGCGA
1 TTTTCATTTCGCATTGCGA
4927494 TT
1 TT
4927496 CTCTCGTTGC
Statistics
Matches: 115, Mismatches: 7, Indels: 34
0.74 0.04 0.22
Matches are distributed among these distances:
13 10 0.09
14 12 0.10
15 1 0.01
16 16 0.14
17 13 0.11
18 1 0.01
19 46 0.40
20 16 0.14
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTTTCATTTCGCATTGCGA
Found at i:4927424 original size:52 final size:52
Alignment explanation
Indices: 4927365--4927509 Score: 181
Period size: 52 Copynumber: 2.8 Consensus size: 52
4927355 GATTCTCTCG
*
4927365 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTC-ATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTGCGATTT-GCA
* * *
4927417 TTGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCCGCA-TTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCG-ATTTGCGATTTGCA
*
4927468 TGTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 T-TGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
4927510 GTAATTTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
50 2 0.03
51 11 0.14
52 58 0.73
53 6 0.08
54 2 0.03
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTGCGATTTGCA
Found at i:4929955 original size:24 final size:24
Alignment explanation
Indices: 4929921--4929967 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4929911 CTGAAACATC
4929921 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
4929945 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
4929968 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:4930677 original size:20 final size:20
Alignment explanation
Indices: 4930649--4930898 Score: 277
Period size: 20 Copynumber: 12.5 Consensus size: 20
4930639 AAATTTCAGT
* *
4930649 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
4930669 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
4930689 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
4930709 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
4930729 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
4930749 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* * *
4930769 GTTGTGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
4930789 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
4930809 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
4930829 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
4930849 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* *
4930869 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
4930889 GTTGCGATTT
1 GTTGCGATTT
4930899 TGGAAAATCG
Statistics
Matches: 203, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
20 202 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:4930915 original size:21 final size:21
Alignment explanation
Indices: 4930885--4930967 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
4930875 ATTTATGTGT
*
4930885 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
4930906 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
4930927 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
4930948 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
4930968 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:4931640 original size:228 final size:227
Alignment explanation
Indices: 4931335--4931782 Score: 772
Period size: 228 Copynumber: 2.0 Consensus size: 227
4931325 GTAAATTATC
* * *
4931335 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
4931400 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
4931465 TATGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
131 TATGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
4931530 AAACATAAATTACATAACTTTCAAAAAAATATA
196 AAACATAAATTACATAACTTT-AAAAAAATATA
*
4931563 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
4931628 TTAATA-TGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* * * *
4931692 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTATGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
4931757 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
4931783 GCAGTTTTAA
Statistics
Matches: 208, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
227 4 0.02
228 174 0.84
229 30 0.14
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TATGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAATATA
Found at i:4931885 original size:19 final size:20
Alignment explanation
Indices: 4931846--4931890 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
4931836 ACATATACCA
4931846 GGTAAAAATATGATAAAACC
1 GGTAAAAATATGATAAAACC
4931866 GGTAACAAA-ATGAT-AAACC
1 GGTAA-AAATATGATAAAACC
4931885 GGTAAA
1 GGTAAA
4931891 TTTAAATGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 10 0.42
20 10 0.42
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (20 bp):
GGTAAAAATATGATAAAACC
Found at i:4932032 original size:20 final size:19
Alignment explanation
Indices: 4932009--4932054 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4931999 CGATATAACA
4932009 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
4932029 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
4932049 -GTAAAA
1 GGTAAAA
4932055 TGATACCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 3 0.13
20 15 0.65
21 3 0.13
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:4934390 original size:33 final size:33
Alignment explanation
Indices: 4934348--4934413 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4934338 AAATAGATGG
*
4934348 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
4934381 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
4934414 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:4936215 original size:19 final size:19
Alignment explanation
Indices: 4936191--4936239 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
4936181 AATGTAGGGT
4936191 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
4936210 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
4936229 TATTTTTGTAT
1 TAATTTTGTAT
4936240 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:4938105 original size:6 final size:6
Alignment explanation
Indices: 4938091--4938176 Score: 73
Period size: 6 Copynumber: 14.3 Consensus size: 6
4938081 AGCGGTCGTA
* * * * *
4938091 GAAGAT GAAGCT GAAGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * *
4938139 GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
4938177 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:4938126 original size:3 final size:3
Alignment explanation
Indices: 4938106--4938180 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
4938096 TGAAGCTGAA
* * * * * ** *
4938106 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
4938154 GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
4938181 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:4938134 original size:36 final size:36
Alignment explanation
Indices: 4938094--4938172 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
4938084 GGTCGTAGAA
*
4938094 GATGAAGCTGAAGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGAAGATGAAGATGACGACGATGATGAC
** * *
4938130 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGAAGATGAAGATGACGACGATGATGAC
4938166 GATGAAG
1 GATGAAG
4938173 ATGATGATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGAAGATGAAGATGACGACGATGATGAC
Found at i:4938180 original size:12 final size:12
Alignment explanation
Indices: 4938094--4938176 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 12
4938084 GGTCGTAGAA
* *
4938094 GATGAAGCTGAA
1 GATGAAGATGAC
4938106 GATGAAGATGAC
1 GATGAAGATGAC
*
4938118 GATGATGATGAC
1 GATGAAGATGAC
* *
4938130 GATGAAGCTGGC
1 GATGAAGATGAC
*
4938142 GATGAAGATGAT
1 GATGAAGATGAC
* * *
4938154 GACGATGATGAT
1 GATGAAGATGAC
4938166 GATGAAGATGA
1 GATGAAGATGA
4938177 TGATCCAAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:4939320 original size:19 final size:19
Alignment explanation
Indices: 4939296--4939332 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4939286 TAATATATTG
*
4939296 TAAAGTATCTATCCTTTTA
1 TAAAGTATCTATACTTTTA
*
4939315 TAAAGTGTCTATACTTTT
1 TAAAGTATCTATACTTTT
4939333 TCCACTGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.49
Consensus pattern (19 bp):
TAAAGTATCTATACTTTTA
Found at i:4940194 original size:183 final size:183
Alignment explanation
Indices: 4939628--4940469 Score: 1564
Period size: 183 Copynumber: 4.6 Consensus size: 183
4939618 CTTTCAACAT
** * *
4939628 ATTATAATAAAATAGGTAA-TTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCAAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
4939692 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
4939757 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
4939810 ATTATAATGTAATAGATAATTTTGTAATATAACC-GTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
4939874 GGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
4939938 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
4939991 ATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
* *
4940056 GGTCTATAACCTATATCAACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
4940121 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* * *
4940174 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTGTATGTGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
4940239 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTACATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
4940304 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
4940357 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
4940422 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTAT
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTAT
4940470 ATCTAAAATG
Statistics
Matches: 640, Mismatches: 17, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
181 128 0.20
182 117 0.18
183 395 0.62
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:4943061 original size:22 final size:23
Alignment explanation
Indices: 4943013--4943061 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
4943003 AAATTACATA
4943013 ACTTTTAAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAAGTATCGATC
* * *
4943036 -CTTTTTATAAAAAGTATGGA-C
1 ACTTTTAAAAAAAAGTATCGATC
4943057 ACTTT
1 ACTTT
4943062 CAATATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (23 bp):
ACTTTTAAAAAAAAGTATCGATC
Found at i:4943131 original size:43 final size:43
Alignment explanation
Indices: 4943084--4943171 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
4943074 TAAACATATG
*
4943084 ATGTAATAGGTAGTGCTTATATAATGTAATAGGTATCGTTTAT
1 ATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
4943127 ATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
1 ATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
4943170 AT
1 AT
4943172 ATTGTAAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (43 bp):
ATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
Found at i:4943132 original size:20 final size:23
Alignment explanation
Indices: 4943079--4943178 Score: 127
Period size: 23 Copynumber: 4.5 Consensus size: 23
4943069 ATAGGTAAAC
*
4943079 ATATGATGTAATAGGTAGT-GCTT
1 ATATAATGTAATAGGTA-TCGCTT
4943102 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTATCGCTT
*
4943124 -TAT-ATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCGCTT
*
4943145 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
*
4943168 ATATATTGTAA
1 ATATAATGTAA
4943179 GTATCTATCC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
20 14 0.21
21 5 0.07
22 6 0.09
23 43 0.63
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:4943615 original size:24 final size:25
Alignment explanation
Indices: 4943588--4943636 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
4943578 TTTCATATGT
4943588 AATTGGAGTTTGAATT-TAAATTTC
1 AATTGGAGTTTGAATTATAAATTTC
* *
4943612 AATTTGAGTTTGAATTATATATTTC
1 AATTGGAGTTTGAATTATAAATTTC
4943637 GGCTCCACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (25 bp):
AATTGGAGTTTGAATTATAAATTTC
Found at i:4943924 original size:38 final size:39
Alignment explanation
Indices: 4943882--4943967 Score: 138
Period size: 38 Copynumber: 2.2 Consensus size: 39
4943872 TTCCGATCTC
*
4943882 ATCAAAATCCAAAGCTCATATGGTGCCAAGC-AAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
4943920 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
4943959 ATCAAAATC
1 ATCAAAATC
4943968 TACAACTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 28 0.65
39 15 0.35
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.19
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:4944454 original size:21 final size:22
Alignment explanation
Indices: 4944386--4944448 Score: 92
Period size: 21 Copynumber: 2.9 Consensus size: 22
4944376 ATAGGTAAAA
* *
4944386 ATATGATGTAATAGGTAGCGCT
1 ATATAATGTAATAGGTAGTGCT
*
4944408 ATATAATGTAATAGGTAGT-TT
1 ATATAATGTAATAGGTAGTGCT
4944429 ATATAATGTAATAGGTAGTG
1 ATATAATGTAATAGGTAGTG
4944449 GTTATATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 20 0.54
22 17 0.46
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGTGCT
Found at i:4944459 original size:21 final size:20
Alignment explanation
Indices: 4944392--4944460 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 20
4944382 AAAAATATGA
* *
4944392 TGTAATAGGTAGCGCTATATAA
1 TGTAATAGGTAGTG-T-TATAT
4944414 TGTAATAGGTAGT-TTATAT
1 TGTAATAGGTAGTGTTATAT
4944433 AATGTAATAGGTAGTGGTTATAT
1 --TGTAATAGGTAGT-GTTATAT
4944456 TGTAA
1 TGTAA
4944461 AGTGTCTATC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 4 0.10
20 1 0.02
21 18 0.44
22 12 0.29
23 6 0.15
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (20 bp):
TGTAATAGGTAGTGTTATAT
Found at i:4944836 original size:23 final size:23
Alignment explanation
Indices: 4944805--4944876 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
4944795 ATAGGTAAAA
*
4944805 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
4944828 ATATAATGTAATA-GTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
4944850 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
4944873 ATAT
1 ATAT
4944877 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 20 0.48
23 22 0.52
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:4944854 original size:22 final size:22
Alignment explanation
Indices: 4944805--4944863 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
4944795 ATAGGTAAAA
*
4944805 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATA-GTAGCGCTT
* *
4944828 ATATAATGTAATAGTATCGTTT
1 ATATAATGTAATAGTAGCGCTT
4944850 ATATAATGTAATAG
1 ATATAATGTAATAG
4944864 GTAGTGGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 21 0.64
23 12 0.36
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGTAGCGCTT
Found at i:4945006 original size:422 final size:424
Alignment explanation
Indices: 4944185--4945219 Score: 1891
Period size: 422 Copynumber: 2.5 Consensus size: 424
4944175 GTTAATGTTG
4944185 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTAT-AAATATCAAATAATCAAATAATTTTTTGTGCAAA
4944250 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAA
65 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
4944314 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
130 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
4944379 GGTAAAAATATGATGTAATAGGTAGCGCTATATAATGTAATAGGTAGTTTATATAATGTAATAGG
195 GGTAAAAATATGATGTAATAGGTAGCGCTATATAATGTAATAGGTAGTTTATATAATGTAATAGG
4944444 TAGTGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
260 TAGTGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
4944509 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCGTCTA
325 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCGTCTA
4944574 ATGATTTATTTTTTACGTTACGATATATATTATTA
390 ATGATTTATTTTTTACGTTACGATATATATTATTA
4944609 TTAAATTAAAAATTCTAAATAATATTTTAT-AA-ATC-AATAATC-AATAATTTTTTGTGCAAAT
1 TTAAATTAAAAATTCTAAATAATATTTTATAAATATCAAATAATCAAATAATTTTTTGTGCAAAT
*
4944670 GAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAAATTGAAACATAA
66 GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAA
4944735 ATTACATAACTTTAAAAGAAGTA-CGATCCTTTTTATAAAAAGTATGGACACTTTC-ATATAATA
130 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
4944798 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA-GTATCGTTTATATAATGTAAT
195 GGTAAAAATATGATGTAATAGGTAGCGC-TATATAATGTAATAGGTA--GTTTATATAATGTAAT
*
4944862 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGTG
257 AGGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTGTG
4944927 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCG
321 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCG
4944992 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
386 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
4945031 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTAT-AAATATCAAATAATCAAATAATTTTTTGTGCAAA
4945096 TGAAATTATT-AATTAATA-TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC--AA
65 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
4945157 ATTACATAAC-TTAAAAGAAGTATCGATCCTTTTTAT-AAAAGTATGGACACTTTCAATATAATA
130 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
4945220 TAATGTAATA
Statistics
Matches: 595, Mismatches: 3, Indels: 28
0.95 0.00 0.04
Matches are distributed among these distances:
419 103 0.17
420 53 0.09
421 120 0.20
422 201 0.34
424 46 0.08
425 29 0.05
426 15 0.03
427 28 0.05
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (424 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAATATCAAATAATCAAATAATTTTTTGTGCAAAT
GAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAA
TTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAG
GTAAAAATATGATGTAATAGGTAGCGCTATATAATGTAATAGGTAGTTTATATAATGTAATAGGT
AGTGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAA
CATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCGTCTAA
TGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:4947168 original size:64 final size:65
Alignment explanation
Indices: 4947095--4947256 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 65
4947085 ATTGTTTGAA
* *** *
4947095 GGTGTATCGATGCACAAGTAGTGCATCGATGCACT-CTTTTAATCTAA-AAACATCGAATGCAAT
1 GGTGCATCGATGCACAAGTAGTGCATCGATGCACTCCCAGTAAT-AAACAAACATCGAATGCAAT
4947158 T
65 T
* * * *
4947159 GGTGCATCGATGCATAAGGCA-TGCATCGATGCA-TCCCAGTAATAAACAAACATCGAATGTATT
1 GGTGCATCGATGCACAA-GTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCAAT
4947222 T
65 T
** * *
4947223 TATGCATCGATGCACATGTAGTACATCGATGCAC
1 GGTGCATCGATGCACAAGTAGTGCATCGATGCAC
4947257 CGATAGGGAA
Statistics
Matches: 78, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
63 5 0.06
64 71 0.91
65 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (65 bp):
GGTGCATCGATGCACAAGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCAATT
Found at i:4948194 original size:31 final size:31
Alignment explanation
Indices: 4948156--4948220 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
4948146 AGAGTCGAGG
*
4948156 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
4948187 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
4948218 GTT
1 GTT
4948221 ATCGAGGATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:4948246 original size:30 final size:30
Alignment explanation
Indices: 4948179--4948284 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 30
4948169 TTTCGAGACA
* * ***
4948179 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
*
4948210 TATGGACAGTTATCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
4948240 TTTGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
4948270 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
4948285 GGGTATTTGT
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
30 56 0.86
31 9 0.14
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:4948301 original size:29 final size:30
Alignment explanation
Indices: 4948206--4948307 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
4948196 GGTTCTTCGG
* * * *
4948206 GACCTATGGACAGTTATCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATATTTAT
* * *
4948236 GACCTTTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATATTTAT
* *
4948266 GACCTCTGGATAGTTACCG-GGGTATTTGT
1 GACCTCTGGATAGTTACCGAGGATATTTAT
4948295 GACCTCTGGATAG
1 GACCTCTGGATAG
4948308 GTCTTTCGGG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
29 20 0.31
30 45 0.69
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATATTTAT
Found at i:4948988 original size:2 final size:2
Alignment explanation
Indices: 4948981--4949022 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
4948971 GGGATGGTAG
4948981 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
4949023 GAAAGGTGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4961762 original size:167 final size:167
Alignment explanation
Indices: 4961486--4961816 Score: 662
Period size: 167 Copynumber: 2.0 Consensus size: 167
4961476 AACCACTATG
4961486 ATATATTTATAGTTGTATAGTTTAAATTTAAATGTTAAAATAACTTTTTAAAAATCAAATAAGTC
1 ATATATTTATAGTTGTATAGTTTAAATTTAAATGTTAAAATAACTTTTTAAAAATCAAATAAGTC
4961551 TTTGGTTTTTTTTTTAAAAAAATATTAATTTGACCATCAAATTCGACAAAAAAAAATAATTTAAC
66 TTTGGTTTTTTTTTTAAAAAAATATTAATTTGACCATCAAATTCGACAAAAAAAAATAATTTAAC
4961616 ATATTTATTACATCTGTCACATCCCCAACTACTAACT
131 ATATTTATTACATCTGTCACATCCCCAACTACTAACT
4961653 ATATATTTATAGTTGTATAGTTTAAATTTAAATGTTAAAATAACTTTTTAAAAATCAAATAAGTC
1 ATATATTTATAGTTGTATAGTTTAAATTTAAATGTTAAAATAACTTTTTAAAAATCAAATAAGTC
4961718 TTTGGTTTTTTTTTTAAAAAAATATTAATTTGACCATCAAATTCGACAAAAAAAAATAATTTAAC
66 TTTGGTTTTTTTTTTAAAAAAATATTAATTTGACCATCAAATTCGACAAAAAAAAATAATTTAAC
4961783 ATATTTATTACATCTGTCACATCCCCAACTACTA
131 ATATTTATTACATCTGTCACATCCCCAACTACTA
4961817 TGGATCATTA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 164 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (167 bp):
ATATATTTATAGTTGTATAGTTTAAATTTAAATGTTAAAATAACTTTTTAAAAATCAAATAAGTC
TTTGGTTTTTTTTTTAAAAAAATATTAATTTGACCATCAAATTCGACAAAAAAAAATAATTTAAC
ATATTTATTACATCTGTCACATCCCCAACTACTAACT
Found at i:4963567 original size:2 final size:2
Alignment explanation
Indices: 4963560--4963592 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4963550 CTGTGTTGCC
4963560 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4963593 CATTTTGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4965351 original size:2 final size:2
Alignment explanation
Indices: 4965346--4965372 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4965336 TGTGTGTGAA
4965346 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4965373 CATTTGAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4969751 original size:28 final size:29
Alignment explanation
Indices: 4969686--4969751 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
4969676 AATTTTTTCC
*
4969686 AAATACTTATTTTAGGTATCAATTTGAAT
1 AAATACTTATTTTAGGTATCAATATGAAT
* *
4969715 AAA-ATTTATTTTATGTATCTAATAT-AA-
1 AAATACTTATTTTAGGTATC-AATATGAAT
4969742 AAATACTTAT
1 AAATACTTAT
4969752 CAAATTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 3 0.10
28 21 0.68
29 7 0.23
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (29 bp):
AAATACTTATTTTAGGTATCAATATGAAT
Found at i:4970489 original size:23 final size:23
Alignment explanation
Indices: 4970459--4970504 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4970449 TATCTCGGCC
* *
4970459 AATAGATTAATGTCCAACTCAAA
1 AATAGATTAATGACAAACTCAAA
4970482 AATAGATTAATGACAAACTCAAA
1 AATAGATTAATGACAAACTCAAA
4970505 CGATTGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (23 bp):
AATAGATTAATGACAAACTCAAA
Found at i:4970989 original size:17 final size:17
Alignment explanation
Indices: 4970967--4971001 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4970957 AAGACAAATA
4970967 GTATGAATTAGCATACC
1 GTATGAATTAGCATACC
4970984 GTATGAATTAGCATACC
1 GTATGAATTAGCATACC
4971001 G
1 G
4971002 AAAGCTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (17 bp):
GTATGAATTAGCATACC
Found at i:4975523 original size:2 final size:2
Alignment explanation
Indices: 4975516--4975557 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
4975506 TATGGAGTTA
*
4975516 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT -T AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4975556 AT
1 AT
4975558 GATAAACGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:4989094 original size:17 final size:18
Alignment explanation
Indices: 4989066--4989099 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
4989056 AAATATAAGG
4989066 ATTTATTTAAAACTAATC
1 ATTTATTTAAAACTAATC
*
4989084 ATTTA-TTAAAATTAAT
1 ATTTATTTAAAACTAAT
4989100 TATAATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTATTTAAAACTAATC
Found at i:4991743 original size:20 final size:20
Alignment explanation
Indices: 4991695--4991744 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
4991685 TAAATTTAAA
4991695 ATAAATATAAAATAATTTATGT
1 ATAAATAT--AATAATTTATGT
*
4991717 TTAAATATAATAATTTAT-T
1 ATAAATATAATAATTTATGT
4991736 ATATAATAT
1 ATA-AATAT
4991745 TAACATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 3 0.12
20 15 0.60
22 7 0.28
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATAAATATAATAATTTATGT
Found at i:4992865 original size:29 final size:29
Alignment explanation
Indices: 4992823--4992887 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
4992813 TGAAAATGAA
*
4992823 TTAAAAGTTCAGTAATTGTATTGTAAGTT
1 TTAAAAGATCAGTAATTGTATTGTAAGTT
4992852 TTAAAAGATCAGTAATTGTATTGTAAGTT
1 TTAAAAGATCAGTAATTGTATTGTAAGTT
4992881 TTAAAAG
1 TTAAAAG
4992888 TTTAGTGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (29 bp):
TTAAAAGATCAGTAATTGTATTGTAAGTT
Found at i:4995181 original size:200 final size:200
Alignment explanation
Indices: 4994838--4995215 Score: 756
Period size: 200 Copynumber: 1.9 Consensus size: 200
4994828 GCTGGATTTA
4994838 ATATTTCCATCTCAATTTAATATTTCTTTATGAATGTCATTGACATATTTACATCAAAATTAACT
1 ATATTTCCATCTCAATTTAATATTTCTTTATGAATGTCATTGACATATTTACATCAAAATTAACT
4994903 GCAATGATTTGTATTAATTTGTGCTTATATATTTGTTAAGATTAGATTTATCCCAAAAGCTAATC
66 GCAATGATTTGTATTAATTTGTGCTTATATATTTGTTAAGATTAGATTTATCCCAAAAGCTAATC
4994968 GAATTTGGTATGGTTGCAGCAAGTGGGTGATGATGAACCATGACACGAAGGTTAAGAACCTTGTC
131 GAATTTGGTATGGTTGCAGCAAGTGGGTGATGATGAACCATGACACGAAGGTTAAGAACCTTGTC
4995033 CTAAC
196 CTAAC
4995038 ATATTTCCATCTCAATTTAATATTTCTTTATGAATGTCATTGACATATTTACATCAAAATTAACT
1 ATATTTCCATCTCAATTTAATATTTCTTTATGAATGTCATTGACATATTTACATCAAAATTAACT
4995103 GCAATGATTTGTATTAATTTGTGCTTATATATTTGTTAAGATTAGATTTATCCCAAAAGCTAATC
66 GCAATGATTTGTATTAATTTGTGCTTATATATTTGTTAAGATTAGATTTATCCCAAAAGCTAATC
4995168 GAATTTGGTATGGTTGCAGCAAGTGGGTGATGATGAACCATGACACGA
131 GAATTTGGTATGGTTGCAGCAAGTGGGTGATGATGAACCATGACACGA
4995216 GGCGGCTGCA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 178 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (200 bp):
ATATTTCCATCTCAATTTAATATTTCTTTATGAATGTCATTGACATATTTACATCAAAATTAACT
GCAATGATTTGTATTAATTTGTGCTTATATATTTGTTAAGATTAGATTTATCCCAAAAGCTAATC
GAATTTGGTATGGTTGCAGCAAGTGGGTGATGATGAACCATGACACGAAGGTTAAGAACCTTGTC
CTAAC
Found at i:4998661 original size:12 final size:12
Alignment explanation
Indices: 4998634--4998671 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
4998624 TTCATTAAAA
*
4998634 ATTATTCTTAATT
1 ATTATT-TTTATT
4998647 ATTATTTTTATT
1 ATTATTTTTATT
4998659 ATTA-TTTTATT
1 ATTATTTTTATT
4998670 AT
1 AT
4998672 AAATAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 9 0.38
12 9 0.38
13 6 0.25
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTATTTTTATT
Found at i:5000541 original size:15 final size:15
Alignment explanation
Indices: 5000511--5000550 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5000501 CACATTGGTC
*
5000511 ATATCTCATA-GCAT
1 ATATCACATATGCAT
5000525 ATATCACATATGCAT
1 ATATCACATATGCAT
*
5000540 ATATCATATAT
1 ATATCACATAT
5000551 ATCATATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATCACATATGCAT
Found at i:5001078 original size:16 final size:16
Alignment explanation
Indices: 5001057--5001089 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5001047 TTCTTTACTT
5001057 AATTCTTCTATTTTAA
1 AATTCTTCTATTTTAA
5001073 AATTCTTCTATTTTAA
1 AATTCTTCTATTTTAA
5001089 A
1 A
5001090 CCCCTATCAT
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:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTCTTCTATTTTAA
Found at i:5001920 original size:18 final size:19
Alignment explanation
Indices: 5001887--5001922 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5001877 AACTATACTA
5001887 ATTTATTTTATTAATATTT
1 ATTTATTTTATTAATATTT
5001906 ATTTATTTT-TTAATATT
1 ATTTATTTTATTAATATT
5001923 AAGAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTATTTTATTAATATTT
Found at i:5002701 original size:37 final size:37
Alignment explanation
Indices: 5002651--5002726 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
5002641 TTAACAAAAA
5002651 ACACATTAGATAACAAATCTCACATAACCCAAACCCG
1 ACACATTAGATAACAAATCTCACATAACCCAAACCCG
5002688 ACACATTAGATAACAAATCTCACATAACCCAAACCCG
1 ACACATTAGATAACAAATCTCACATAACCCAAACCCG
5002725 AC
1 AC
5002727 CATGGAGATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.46, C:0.33, G:0.05, T:0.16
Consensus pattern (37 bp):
ACACATTAGATAACAAATCTCACATAACCCAAACCCG
Found at i:5004751 original size:21 final size:21
Alignment explanation
Indices: 5004725--5004779 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
5004715 CAGTTTCCAG
5004725 ATTCGCAACGCGATTTCCCAA
1 ATTCGCAACGCGATTTCCCAA
*** * *
5004746 ATTCGCGTTGCGATTTTCCTA
1 ATTCGCAACGCGATTTCCCAA
*
5004767 ATTCACAACGCGA
1 ATTCGCAACGCGA
5004780 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (21 bp):
ATTCGCAACGCGATTTCCCAA
Found at i:5004797 original size:20 final size:20
Alignment explanation
Indices: 5004772--5004921 Score: 228
Period size: 20 Copynumber: 7.5 Consensus size: 20
5004762 TCCTAATTCA
5004772 CAACGCGAATACGTAAATCG
1 CAACGCGAATACGTAAATCG
*
5004792 CAACGCGAAAACGTAAATCG
1 CAACGCGAATACGTAAATCG
* *
5004812 CAACGCGAAAACGTAAATCA
1 CAACGCGAATACGTAAATCG
*
5004832 CAACGCGATTACGTAAATCG
1 CAACGCGAATACGTAAATCG
5004852 CAACGCGAATACGTAAATCG
1 CAACGCGAATACGTAAATCG
*
5004872 CAACGCGATTACGTAAATCG
1 CAACGCGAATACGTAAATCG
*
5004892 CAAAGCGAATACGTAAATCG
1 CAACGCGAATACGTAAATCG
* *
5004912 TAATGCGAAT
1 CAACGCGAAT
5004922 CTGACTATCG
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 119 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.16
Consensus pattern (20 bp):
CAACGCGAATACGTAAATCG
Found at i:5005140 original size:22 final size:22
Alignment explanation
Indices: 5005115--5005176 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
5005105 GGCGACAACC
5005115 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
5005137 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
*
5005155 GTCTCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
5005177 TTCACGGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
18 14 0.42
19 2 0.06
21 2 0.06
22 15 0.45
ACGTcount: A:0.29, C:0.39, G:0.15, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:5005521 original size:34 final size:34
Alignment explanation
Indices: 5005478--5005544 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
5005468 TGAAACCGAG
* *
5005478 AATGACTATCGCAACGAGTGAATCGCAATGCGAA
1 AATGACTATCGCAACGAGAGAATCACAATGCGAA
5005512 AATGACTATCGCAACGAGAGAATCACAATGCGA
1 AATGACTATCGCAACGAGAGAATCACAATGCGA
5005545 TTTTCATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.16
Consensus pattern (34 bp):
AATGACTATCGCAACGAGAGAATCACAATGCGAA
Found at i:5005609 original size:20 final size:20
Alignment explanation
Indices: 5005569--5005618 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
5005559 TGCGATTCTT
*
5005569 GCGTTGTGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
5005589 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
5005609 GTGTTGCGAT
1 GCGTTGCGAT
5005619 TTAAAGTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.38
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:5006083 original size:20 final size:20
Alignment explanation
Indices: 5006058--5006104 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
5006048 ATTTTACGCA
*
5006058 TTGCGATAGTCAT-TTCCGTG
1 TTGCGATAGTCATATT-CGCG
5006078 TTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATATTCGCG
5006098 TTGCGAT
1 TTGCGAT
5006105 TTCCGCGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATATTCGCG
Found at i:5007124 original size:23 final size:23
Alignment explanation
Indices: 5007098--5007142 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5007088 CACCACAGCT
*
5007098 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
5007121 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
5007143 ATAATATGTC
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:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:5007406 original size:30 final size:30
Alignment explanation
Indices: 5007361--5007419 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
5007351 ATCGCGTAGT
* *
5007361 CATATTATTTCCATACCTTTATCACATAGG
1 CATATCATTTACATACCTTTATCACATAGG
5007391 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
5007420 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGG
Found at i:5007520 original size:34 final size:29
Alignment explanation
Indices: 5007441--5007512 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
5007431 TTTTCTGCAT
* *
5007441 ATTCATGTCATGCAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
5007470 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
5007499 ATTCATGTCATGTA
1 ATTCATGTCATGTA
5007513 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:5013977 original size:23 final size:23
Alignment explanation
Indices: 5013951--5013995 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5013941 CACCACAGCT
*
5013951 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
5013974 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
5013996 ATATAATAAT
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:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:5014262 original size:30 final size:30
Alignment explanation
Indices: 5014217--5014275 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
5014207 ATCGCGTAGT
* *
5014217 CATATTATTTTCATACCTTTATCACATAGG
1 CATATCATTTACATACCTTTATCACATAGG
5014247 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
5014276 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGG
Found at i:5014376 original size:34 final size:29
Alignment explanation
Indices: 5014297--5014368 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
5014287 TTTTTTGCAT
* *
5014297 ATTCATGTCATGCAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATATAA
*
5014326 ATTCATGTCATGTAATACATTTAATATAA
1 ATTCATGTCATGTAATACATATAATATAA
5014355 ATTCATGTCATGTA
1 ATTCATGTCATGTA
5014369 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATATAA
Found at i:5017535 original size:24 final size:24
Alignment explanation
Indices: 5017501--5017554 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5017491 CTAAAAAATC
*
5017501 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* *
5017525 ATCAAAGTCCGGGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
5017549 ATCAAA
1 ATCAAA
5017555 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:5018429 original size:20 final size:20
Alignment explanation
Indices: 5018406--5018461 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
5018396 TTGCGATAGT
* *
5018406 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
5018426 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
5018446 C-GTATTCGCATTGCGA
1 CAG-AATCGCATTGCGA
5018462 ATCTGGAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:5018708 original size:31 final size:31
Alignment explanation
Indices: 5018664--5018735 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
5018654 GTTTAAGGAA
* * * * *
5018664 ATTTCATAGTAATTTGACAATTTTAATAATT
1 ATTTTATAATAATTTAACAAATTTAATAATC
* *
5018695 ATTTTATAATAATTTAATAAATTTAATGATC
1 ATTTTATAATAATTTAACAAATTTAATAATC
5018726 ATTTTATAAT
1 ATTTTATAAT
5018736 TTTTAAAACC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (31 bp):
ATTTTATAATAATTTAACAAATTTAATAATC
Found at i:5019439 original size:14 final size:14
Alignment explanation
Indices: 5019420--5019468 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
5019410 TATTTTATTA
*
5019420 TAAATATAATAATT
1 TAAATATTATAATT
5019434 TAAATATTA-AATGT
1 TAAATATTATAAT-T
5019448 TCATAATATTATAATT
1 T-A-AATATTATAATT
5019464 TAAAT
1 TAAAT
5019469 CTGGTATACG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 3 0.10
14 13 0.43
15 2 0.07
16 9 0.30
17 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (14 bp):
TAAATATTATAATT
Found at i:5028907 original size:18 final size:20
Alignment explanation
Indices: 5028871--5028910 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 20
5028861 CGCACAATCT
5028871 AATTATTAAAATTACTTAAAA
1 AATTATTAAAATTA-TTAAAA
5028892 AATTA-TAAAATT-TTAAAA
1 AATTATTAAAATTATTAAAA
5028910 A
1 A
5028911 TAACTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTATTAAAATTATTAAAA
Found at i:5032274 original size:30 final size:30
Alignment explanation
Indices: 5032229--5032296 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
5032219 TTTTCATATC
* *
5032229 CAATTGAATCCTCAAA-TAGGATAATTAAAT
1 CAATTAAATCCTCAAACTAAGA-AATTAAAT
* *
5032259 CAATTAAATCTTCAAACTAAGAAATTGAAT
1 CAATTAAATCCTCAAACTAAGAAATTAAAT
*
5032289 TAATTAAA
1 CAATTAAA
5032297 ATTTTAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (30 bp):
CAATTAAATCCTCAAACTAAGAAATTAAAT
Found at i:5038556 original size:54 final size:54
Alignment explanation
Indices: 5038474--5038594 Score: 224
Period size: 54 Copynumber: 2.2 Consensus size: 54
5038464 TGGCCTCGAG
* *
5038474 ACATGATTTTGTGGTATGCAGCTCCCAGAGGCTTGAACTGGAGTTGGTCTAGAA
1 ACATGATTTTGTGGTATGCAGCTCCCAGAAGCTTGAACTGGAGATGGTCTAGAA
5038528 ACATGATTTTGTGGTATGCAGCTCCCAGAAGCTTGAACTGGAGATGGTCTAGAA
1 ACATGATTTTGTGGTATGCAGCTCCCAGAAGCTTGAACTGGAGATGGTCTAGAA
5038582 ACATGATTTTGTG
1 ACATGATTTTGTG
5038595 ATGCCAATAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (54 bp):
ACATGATTTTGTGGTATGCAGCTCCCAGAAGCTTGAACTGGAGATGGTCTAGAA
Found at i:5039180 original size:166 final size:168
Alignment explanation
Indices: 5038906--5039239 Score: 654
Period size: 166 Copynumber: 2.0 Consensus size: 168
5038896 ATGGCACTAC
5038906 AATTTAAAAAAGAACATTCATAGCTCACGTTTAAAATGGATGCTAAATTCAAGGGCACCACAAAC
1 AATTTAAAAAAGAACATTCATAGCTCACGTTTAAAATGGATGCTAAATTCAAGGGCACCACAAAC
5038971 TCAGAAAGAGAGCAATAATCATGAATCTCAAAATTAAAAAGTTGCAAAAGTA-TACCAGTTCACA
66 TCAGAAAGAGAGCAATAATCATGAATCTCAAAATTAAAAAGTTGCAAAAGTATTACCAGTTCACA
5039035 ATGTTGTTC-TGTGAGTTTGAACTGAAAGGAAATTTAG
131 ATGTTGTTCATGTGAGTTTGAACTGAAAGGAAATTTAG
5039072 AATTTAAAAAAGAACATTCATAGCTCACGTTTAAAATGGATGCTAAATTCAAGGGCACCACAAAC
1 AATTTAAAAAAGAACATTCATAGCTCACGTTTAAAATGGATGCTAAATTCAAGGGCACCACAAAC
5039137 TCAGAAAGAGAGCAATAATCATGAATCTCAAAATTAAAAAGTTGCAAAAGTATTACCAGTTCACA
66 TCAGAAAGAGAGCAATAATCATGAATCTCAAAATTAAAAAGTTGCAAAAGTATTACCAGTTCACA
5039202 ATGTTGTTCATGTGAGTTTGAACTGAAAGGAAATTTAG
131 ATGTTGTTCATGTGAGTTTGAACTGAAAGGAAATTTAG
5039240 CACAATCATG
Statistics
Matches: 166, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
166 117 0.70
167 21 0.13
168 28 0.17
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (168 bp):
AATTTAAAAAAGAACATTCATAGCTCACGTTTAAAATGGATGCTAAATTCAAGGGCACCACAAAC
TCAGAAAGAGAGCAATAATCATGAATCTCAAAATTAAAAAGTTGCAAAAGTATTACCAGTTCACA
ATGTTGTTCATGTGAGTTTGAACTGAAAGGAAATTTAG
Found at i:5041540 original size:12 final size:12
Alignment explanation
Indices: 5041523--5041550 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5041513 TTTTTAAAGA
5041523 AAACAAATTTAC
1 AAACAAATTTAC
5041535 AAACAAATTTAC
1 AAACAAATTTAC
5041547 AAAC
1 AAAC
5041551 TTAACTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (12 bp):
AAACAAATTTAC
Found at i:5041814 original size:12 final size:12
Alignment explanation
Indices: 5041796--5041826 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5041786 AATTATATGT
5041796 ATGAACAATACC
1 ATGAACAATACC
*
5041808 GTGAACAATACC
1 ATGAACAATACC
5041820 ATGAACA
1 ATGAACA
5041827 GTGAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.23, G:0.13, T:0.16
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:5044417 original size:18 final size:18
Alignment explanation
Indices: 5044394--5044467 Score: 76
Period size: 18 Copynumber: 3.9 Consensus size: 18
5044384 CGAGGGTTAC
5044394 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
5044412 AGTGGTCCTTCGGGACATAT
1 AGTGGTCCTTCGGGAC--AT
*
5044432 CCAGTGGTCATTCGGGACAT
1 --AGTGGTCCTTCGGGACAT
* * *
5044452 AATAGTCTTTCGGGAC
1 AGTGGTCCTTCGGGAC
5044468 GAATACTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 29 0.60
20 4 0.08
22 15 0.31
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:5044440 original size:22 final size:21
Alignment explanation
Indices: 5044393--5044452 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 21
5044383 TCGAGGGTTA
5044393 CAGTGGTCCTTCGGGAC--AT
1 CAGTGGTCCTTCGGGACATAT
5044412 -AGTGGTCCTTCGGGACATAT
1 CAGTGGTCCTTCGGGACATAT
*
5044432 CCAGTGGTCATTCGGGACATA
1 -CAGTGGTCCTTCGGGACATA
5044453 ATAGTCTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 16 0.44
20 2 0.06
22 18 0.50
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (21 bp):
CAGTGGTCCTTCGGGACATAT
Found at i:5048314 original size:21 final size:21
Alignment explanation
Indices: 5048288--5048332 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5048278 GATTTCTGGG
* *
5048288 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
5048309 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
5048330 CAA
1 CAA
5048333 ACGATAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:5048888 original size:2 final size:2
Alignment explanation
Indices: 5048881--5048920 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
5048871 CATGAGTTCG
5048881 AT AT AT AT AT AT AT AT AT AT A- AT -T AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5048920 A
1 A
5048921 GGAATTGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5048926 original size:22 final size:22
Alignment explanation
Indices: 5048882--5048931 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
5048872 ATGAGTTCGA
*
5048882 TATATATATATATATATATAAT
1 TATATATATATATATATAGAAT
5048904 TATATATATAT-TATATAGGAAT
1 TATATATATATATATATA-GAAT
*
5048926 TGTATA
1 TATATA
5048932 ACCAACTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
TATATATATATATATATAGAAT
Found at i:5049473 original size:30 final size:29
Alignment explanation
Indices: 5049414--5049507 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 29
5049404 AGAGTCGAGG
* *
5049414 GTTTACCTATGTCTTTCGAGACATATGGACA
1 GTTTACCTAGGTC-TTCG-GACCTATGGACA
5049445 GTTTACCTAGGTTCTTCGGACCTATGGACA
1 GTTTACCTAGG-TCTTCGGACCTATGGACA
* ** *
5049475 GTTTACCGAGGATCTTATGACCTCTGGACA
1 GTTTACCTAGG-TCTTCGGACCTATGGACA
5049505 GTT
1 GTT
5049508 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
30 39 0.71
31 14 0.25
32 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (29 bp):
GTTTACCTAGGTCTTCGGACCTATGGACA
Found at i:5049519 original size:29 final size:31
Alignment explanation
Indices: 5049439--5049560 Score: 139
Period size: 30 Copynumber: 4.1 Consensus size: 31
5049429 TCGAGACATA
* * ** *
5049439 TGGACAGTTTACCTAGGTTC-TTCGGACCTA
1 TGGACAGTTTACCGAGGATCTTTATGACCTC
5049469 TGGACAGTTTACCGAGGATC-TTATGACCTC
1 TGGACAGTTTACCGAGGATCTTTATGACCTC
5049499 TGGACAG-TTACCGAGGATCTTTATGACCTC
1 TGGACAGTTTACCGAGGATCTTTATGACCTC
* *
5049529 TGGATAG-TTACCG-GG-TCTTTGTGACCTC
1 TGGACAGTTTACCGAGGATCTTTATGACCTC
5049557 TGGA
1 TGGA
5049561 TATGTCCTTC
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
28 16 0.19
29 14 0.17
30 54 0.64
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.32
Consensus pattern (31 bp):
TGGACAGTTTACCGAGGATCTTTATGACCTC
Found at i:5052634 original size:21 final size:21
Alignment explanation
Indices: 5052597--5052641 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5052587 GATTTCTGGG
*
5052597 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGATACCCATT
*
5052618 CAAGGGGAA-CTGATACCCCTT
1 CAAGGGGAATC-GATACCCATT
5052639 CAA
1 CAA
5052642 ACGATAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGATACCCATT
Found at i:5053746 original size:31 final size:31
Alignment explanation
Indices: 5053708--5053785 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
5053698 AGAGTCAAGG
*
5053708 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
5053739 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
* *
5053770 GTTTACCGAGGATCTT
1 GTTTACCTAGGTTCTT
5053786 TATAACCTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
31 39 0.95
32 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:5053860 original size:29 final size:30
Alignment explanation
Indices: 5053758--5053857 Score: 139
Period size: 30 Copynumber: 3.3 Consensus size: 30
5053748 GGTTCTTCGG
*
5053758 GACCTATGGACAGTTTACCGAGGATCTTTAT
1 GACCTCTGGACAG-TTACCGAGGATCTTTAT
*
5053789 AACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * *
5053819 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
5053848 GACCTCTGGA
1 GACCTCTGGA
5053858 TAGGTCATTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 18 0.29
30 34 0.54
31 11 0.17
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:5060590 original size:708 final size:710
Alignment explanation
Indices: 5059133--5060773 Score: 2853
Period size: 708 Copynumber: 2.3 Consensus size: 710
5059123 AAAACACTGG
*
5059133 ATAAACGTTCCATAATGAGAATGGATCTCCCTGTCTGAGTCTTTGTTCCGGTTTGAAGCTCTTTG
1 ATAAACGTTCCATAATGAGAATGGATCTCCCTGTTTGAGTCTTTGTTCCGGTTTGAAGCTCTTTG
* *
5059198 TTCTCTCTCCGTTCCACAATGGTTCAATGGTATTGTTTTTGATGCAGAACATAATTAGACTATCA
66 TTCTCTCTCCGTTCCACAATGGTTCAATGGTACTGTTTTTGATGCAGAACATAATTAGACAATCA
** *
5059263 TCTTCTCATGCAAATTGAAATCTATTAAAGTCT-ACTTTAGGAATTGCCAGTTTAGGCTTGCTGT
131 TCTTCTCGGGCAAATTGAAATCTATTAAAGTCTCA-TTTAGGAATTGCCAGTTTAGGCTTACTGT
* * * *
5059327 AGGTCAATCTTCATTATTATGGCGCCTTTCCTTCCTTGTAAGTTTGAAAATGTTTAGACTGCTTC
195 AGGTCAATCTTCATTATCACGGCGCCTTTCCCTCCTTGTAAGTTTGAAAATATTTAGACTGCTTC
* *
5059392 CTGCACAACGAAAATATTATCAGAGGCATTTCTTCCTGGTTAGAAATTGTTTTGATAAGGCTTAC
260 CTGCACAACGAAAATACTATCAGAGGCATTTCTTCCTGGTAAGAAATTGTTTTGATAAGGCTTAC
*
5059457 CCTTCCACCCAACCATTTTTCTCACAAATTTTTCTACAAGAGGCGCATAAGTGCTGGTGATTCTC
325 CCTTCCACCCAACCATTTTTCTCACAAATTTTTCTACAAGAGGCACATAAGTGCTGGTGATTCTC
* * *
5059522 GTCTTATGCAGAATCGGAACTCCAAGATACACCCCCAAATTTCCAGTTCTTGTAATTTCACTGAG
390 CTCTTATGCAGAATCGAAACTCCAAGATACACCCCCAAATTTACAGTTCTTGTAATTTCACTGAG
* * *
5059587 TTGACTCAGCTGATCAGCATTTTTGTTGTTTACGTTTGTTGATATAAACATTTTTAACTTTTGAA
455 TTGACTCAGCCGATCAGCATTCTCGTTGTTTACGTTTGTTGATATAAACATTTTTAACTTTTGAA
*
5059652 GATTTATTTCAAGCCCTAAAACTTTGCTGAAAGTCTTTAAGCAATTCTTTACTTCAATGATTTGA
520 GATTTATTTCAAGCCCCAAAACTTTGCTGAAAGTCTTTAAGCAATTCTTTACTTCAATGATTTGA
5059717 TCCCTTGTAGCTTCGAAGAATAAAAGTAAGTCATCTGCAAAAAATAGATGACTAATATTAGTACC
585 TCCCTTGTAGCTTCGAAGAATAAAAGTAAGTCATCTGCAAAAAATAGATGACTAATATTAGTACC
5059782 CCTCTAGACAATTTAATAGGTTTCCATTGTTTCCTTTCTATTTTTTCTAATATTATATGTA
650 CCTCTAGACAATTTAATAGGTTTCCATTGTTTCCTTTCTATTTTTTCTAATATTATATGTA
5059843 ATAAACGTTCCATAATGAGAATGGATCTCCCTGTTTGAGTCTTTGTTCCGGTTTGAAGCTCTTTG
1 ATAAACGTTCCATAATGAGAATGGATCTCCCTGTTTGAGTCTTTGTTCCGGTTTGAAGCTCTTTG
*
5059908 TTCTCTCTCCGTTCCACAATGGTTCAATGGTACTATTTTTGATGCAGAACATAATTAGACAATCA
66 TTCTCTCTCCGTTCCACAATGGTTCAATGGTACTGTTTTTGATGCAGAACATAATTAGACAATCA
* *
5059973 TCTTCTTGGGCAAATTTAAATCTATTAAAGTCTCATTTAGGAATTGCCAGTTTAGGCTTACTGTA
131 TCTTCTCGGGCAAATTGAAATCTATTAAAGTCTCATTTAGGAATTGCCAGTTTAGGCTTACTGTA
*
5060038 GGTCAATCTTCATCATCACGGCGCCTTTCCCTCCTTGTAAGTTTGAAAATATTTAGACTGCTTCC
196 GGTCAATCTTCATTATCACGGCGCCTTTCCCTCCTTGTAAGTTTGAAAATATTTAGACTGCTTCC
5060103 TGCACAACGAAAATACTATCAGAGGCATTTCTTCCTGGTAAGAAATTGTTTTGATAAGGCTTACC
261 TGCACAACGAAAATACTATCAGAGGCATTTCTTCCTGGTAAGAAATTGTTTTGATAAGGCTTACC
* * *
5060168 CTTCCACCCGACCATTTTTCTCACAACTTTTTCTACAA-AGGCACATAAGTGCTGGTTATTCTCC
326 CTTCCACCCAACCATTTTTCTCACAAATTTTTCTACAAGAGGCACATAAGTGCTGGTGATTCTCC
5060232 TCTTATGCAGAATCGAAACTCCAAGATACA-CCCCAAATTTACAGTTCTTGTAA-TTCTACTGAG
391 TCTTATGCAGAATCGAAACTCCAAGATACACCCCCAAATTTACAGTTCTTGTAATTTC-ACTGAG
*
5060295 TTTACTCAGCCGATCAGCATTCTCGTTGTTTACGTTTGTTGATATAAACATTTTTAACTTTTGAA
455 TTGACTCAGCCGATCAGCATTCTCGTTGTTTACGTTTGTTGATATAAACATTTTTAACTTTTGAA
* *
5060360 GATTTATTTCAAGCCCCGAAGCTTTGCTGAAAGTCTTTAAGCAATTCTTTACTTCAATGATTTGA
520 GATTTATTTCAAGCCCCAAAACTTTGCTGAAAGTCTTTAAGCAATTCTTTACTTCAATGATTTGA
*
5060425 TCCCTTGTAGCTTCGAAGAATAAAAGTAAGTCATCTGCAAAAAATAGATGACTAATATTAGTATC
585 TCCCTTGTAGCTTCGAAGAATAAAAGTAAGTCATCTGCAAAAAATAGATGACTAATATTAGTACC
* *
5060490 CCTCTAGATAATTTAATAGGTTTCCATTGTTTCCTTTCTATTTTTTCTAATATTATATGTT
650 CCTCTAGACAATTTAATAGGTTTCCATTGTTTCCTTTCTATTTTTTCTAATATTATATGTA
* * *
5060551 ATAATCGTTCCATAATGAGAATGGATCTCCCTATTTGAGTCTTTGTTCCCGTTTGAAGCTCTTTG
1 ATAAACGTTCCATAATGAGAATGGATCTCCCTGTTTGAGTCTTTGTTCCGGTTTGAAGCTCTTTG
* *
5060616 TTCTCTCTCCGTTCCACAATGGTTCAATGGAACTGTTTTTGATGCAGAACATAATTAGACAAGCA
66 TTCTCTCTCCGTTCCACAATGGTTCAATGGTACTGTTTTTGATGCAGAACATAATTAGACAATCA
* *
5060681 TCTTCTCGGGCAAATTGAAATCTATT--AGTGTCCTTTAGGAATTGCCAGTTTAGGCTTACTGTA
131 TCTTCTCGGGCAAATTGAAATCTATTAAAGTCTCATTTAGGAATTGCCAGTTTAGGCTTACTGTA
*
5060744 GGTCAATCTTCATTATCACGGCGTCTTTCC
196 GGTCAATCTTCATTATCACGGCGCCTTTCC
5060774 TTCCAGTTTA
Statistics
Matches: 884, Mismatches: 45, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
706 63 0.07
707 3 0.00
708 422 0.48
709 52 0.06
710 343 0.39
711 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (710 bp):
ATAAACGTTCCATAATGAGAATGGATCTCCCTGTTTGAGTCTTTGTTCCGGTTTGAAGCTCTTTG
TTCTCTCTCCGTTCCACAATGGTTCAATGGTACTGTTTTTGATGCAGAACATAATTAGACAATCA
TCTTCTCGGGCAAATTGAAATCTATTAAAGTCTCATTTAGGAATTGCCAGTTTAGGCTTACTGTA
GGTCAATCTTCATTATCACGGCGCCTTTCCCTCCTTGTAAGTTTGAAAATATTTAGACTGCTTCC
TGCACAACGAAAATACTATCAGAGGCATTTCTTCCTGGTAAGAAATTGTTTTGATAAGGCTTACC
CTTCCACCCAACCATTTTTCTCACAAATTTTTCTACAAGAGGCACATAAGTGCTGGTGATTCTCC
TCTTATGCAGAATCGAAACTCCAAGATACACCCCCAAATTTACAGTTCTTGTAATTTCACTGAGT
TGACTCAGCCGATCAGCATTCTCGTTGTTTACGTTTGTTGATATAAACATTTTTAACTTTTGAAG
ATTTATTTCAAGCCCCAAAACTTTGCTGAAAGTCTTTAAGCAATTCTTTACTTCAATGATTTGAT
CCCTTGTAGCTTCGAAGAATAAAAGTAAGTCATCTGCAAAAAATAGATGACTAATATTAGTACCC
CTCTAGACAATTTAATAGGTTTCCATTGTTTCCTTTCTATTTTTTCTAATATTATATGTA
Found at i:5060785 original size:51 final size:51
Alignment explanation
Indices: 5060725--5060828 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
5060715 TTAGGAATTG
5060725 CCAGTTTAGGCTTACTGTAGGTCAATCTTCATTATCACGGCGTCTTTCCTT
1 CCAGTTTAGGCTTACTGTAGGTCAATCTTCATTATCACGGCGTCTTTCCTT
5060776 CCAGTTTAGGCTTACTGTAGGTCAATCTTCATTATCACGGCGTCTTTCCTT
1 CCAGTTTAGGCTTACTGTAGGTCAATCTTCATTATCACGGCGTCTTTCCTT
5060827 CC
1 CC
5060829 TTGTAAGTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.38
Consensus pattern (51 bp):
CCAGTTTAGGCTTACTGTAGGTCAATCTTCATTATCACGGCGTCTTTCCTT
Found at i:5062256 original size:75 final size:75
Alignment explanation
Indices: 5062133--5062280 Score: 233
Period size: 75 Copynumber: 2.0 Consensus size: 75
5062123 TTCAAGAGCT
* * * * *
5062133 CCTAATACTAAAGACTGTGTTCCAGAAACTCAACATGAATCTATATCTAAAAATGAGTTGTTTAT
1 CCTAATACTAAAGAATGTATTCAAGAAACTCAACATGAATCTATATCTAAAAATAAGTTGTTTAG
5062198 CTAGATAACC
66 CTAGATAACC
* *
5062208 CCTAATACTGAAGAATGTATTCAAGAGACTCAACATGAATCTATATCTAAAAATAAGTTGTTTAG
1 CCTAATACTAAAGAATGTATTCAAGAAACTCAACATGAATCTATATCTAAAAATAAGTTGTTTAG
5062273 CTAGATAA
66 CTAGATAA
5062281 TTTACCTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (75 bp):
CCTAATACTAAAGAATGTATTCAAGAAACTCAACATGAATCTATATCTAAAAATAAGTTGTTTAG
CTAGATAACC
Found at i:5063332 original size:33 final size:33
Alignment explanation
Indices: 5063289--5063368 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
5063279 AATACAAACC
*
5063289 GAGGGCTTTTTTAATTGATCTTTCAAATACTTT
1 GAGGGCTTTTTTAATTGATCTTTCAAATACTTG
* * * *
5063322 GAGGTCTTTTTTAATTGTTTTTTTAAATACTTG
1 GAGGGCTTTTTTAATTGATCTTTCAAATACTTG
5063355 GAGGGCTTTTTTAA
1 GAGGGCTTTTTTAA
5063369 CCCTAAATCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (33 bp):
GAGGGCTTTTTTAATTGATCTTTCAAATACTTG
Done.