Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 27 of 100
Found at i:5032541 original size:18 final size:18
Alignment explanation
Indices: 5032448--5032544 Score: 74
Period size: 18 Copynumber: 5.4 Consensus size: 18
5032438 AAAATAAAAC
* * *
5032448 TATTTATTATTTTTATAT
1 TATTTATTAATATAATAT
* *
5032466 TATTTATGAATATATTAT
1 TATTTATTAATATAATAT
* *
5032484 AATATTATTTAT-TAATA-
1 TAT-TTATTAATATAATAT
5032501 TATTATATTAATAGT-ATAT
1 TATT-TATTAATA-TAATAT
*
5032520 TATTTATTTATATAATAT
1 TATTTATTAATATAATAT
5032538 TATTTAT
1 TATTTAT
5032545 AAGTAAAATT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
16 1 0.02
17 9 0.15
18 40 0.66
19 11 0.18
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTTATTAATATAATAT
Found at i:5032590 original size:16 final size:16
Alignment explanation
Indices: 5032566--5032598 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5032556 TGCTAAAAAA
*
5032566 TATTGATAAATAATTT
1 TATTCATAAATAATTT
5032582 TATTCATAAATAATTT
1 TATTCATAAATAATTT
5032598 T
1 T
5032599 TTTTTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (16 bp):
TATTCATAAATAATTT
Found at i:5045649 original size:2 final size:2
Alignment explanation
Indices: 5045642--5045673 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5045632 GTAACACAGC
5045642 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
5045674 CAATTCATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5047079 original size:20 final size:20
Alignment explanation
Indices: 5047054--5047100 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
5047044 CAATTTCTCC
5047054 TTCTTTTTCTTTTCT-TTCCT
1 TTCTTTTTCTTTTCTCTT-CT
*
5047074 TTCTTTCTCTTTTCTCTTCT
1 TTCTTTTTCTTTTCTCTTCT
5047094 TTCTTTT
1 TTCTTTT
5047101 CCTCTCTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
TTCTTTTTCTTTTCTCTTCT
Found at i:5047108 original size:10 final size:10
Alignment explanation
Indices: 5047095--5047172 Score: 52
Period size: 10 Copynumber: 7.2 Consensus size: 10
5047085 TTCTCTTCTT
5047095 TCTTTTCCTC
1 TCTTTTCCTC
*
5047105 TCTTCGTCTCTC
1 TCTT-TTC-CTC
5047117 TCCTTTTCCT-
1 T-CTTTTCCTC
*
5047127 TCCTTCTCCTC
1 T-CTTTTCCTC
5047138 TTCTTTTCCT-
1 -TCTTTTCCTC
5047148 TCTCTTTCCTCC
1 TCT-TTTCCT-C
5047160 TCCTTTTCCTC
1 T-CTTTTCCTC
5047171 TC
1 TC
5047173 CCTTTCCTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
9 3 0.05
10 20 0.36
11 13 0.24
12 14 0.25
13 5 0.09
ACGTcount: A:0.00, C:0.44, G:0.01, T:0.55
Consensus pattern (10 bp):
TCTTTTCCTC
Found at i:5047129 original size:27 final size:25
Alignment explanation
Indices: 5047099--5047181 Score: 76
Period size: 21 Copynumber: 3.6 Consensus size: 25
5047089 CTTCTTTCTT
5047099 TTCCTCTCTTCGTCTCTCTCCTTTTCC
1 TTCCTCTCTTC--CTCTCTCCTTTTCC
5047126 TTCCT-TC-TCCTCT-T-CTTTTCC
1 TTCCTCTCTTCCTCTCTCCTTTTCC
5047147 TT-CTCT-TTCCTC-CTCCTTTTCC
1 TTCCTCTCTTCCTCTCTCCTTTTCC
5047169 TCTCC-CT-TTCCTC
1 T-TCCTCTCTTCCTC
5047182 CCTCTCTCTC
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
20 2 0.04
21 16 0.32
22 9 0.18
23 13 0.26
24 1 0.02
25 2 0.04
26 2 0.04
27 5 0.10
ACGTcount: A:0.00, C:0.46, G:0.01, T:0.53
Consensus pattern (25 bp):
TTCCTCTCTTCCTCTCTCCTTTTCC
Found at i:5047169 original size:43 final size:44
Alignment explanation
Indices: 5047085--5047169 Score: 113
Period size: 44 Copynumber: 1.9 Consensus size: 44
5047075 TCTTTCTCTT
*
5047085 TTCTCTTCTTTCTTTTCCTCTCTTCGTCTCTCTCCTTTTCCTTCC
1 TTCTCCTCTTTCTTTTCCTCTCTTCG-CTCTCTCCTTTTCCTTCC
5047130 TTCTCCTC-TTCTTTTCCTTCTCTTTC-CTC-CTCCTTTTCCT
1 TTCTCCTCTTTCTTTTCC-TCTC-TTCGCTCTCTCCTTTTCCT
5047170 CTCCCTTTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
43 11 0.30
44 12 0.32
45 11 0.30
46 3 0.08
ACGTcount: A:0.00, C:0.41, G:0.01, T:0.58
Consensus pattern (44 bp):
TTCTCCTCTTTCTTTTCCTCTCTTCGCTCTCTCCTTTTCCTTCC
Found at i:5047172 original size:21 final size:22
Alignment explanation
Indices: 5047116--5047211 Score: 83
Period size: 21 Copynumber: 4.2 Consensus size: 22
5047106 CTTCGTCTCT
5047116 CTCCTTTTCCT-TCCTTCTCCT-
1 CTCCTTTTCCTCTCCTT-TCCTC
*
5047137 CTTCTTTTCCT-TCTCTTTCCTC
1 CTCCTTTTCCTCTC-CTTTCCTC
5047159 CTCCTTTTCCTCTCCCTTTCCTC
1 CTCCTTTTCCTCT-CCTTTCCTC
*
5047182 C-CTCTCTCTCCTCTTCCTCTTCCTC
1 CTC-CT-TTTCCTC-TCCT-TTCCTC
5047207 CTCCT
1 CTCCT
5047212 CCTCTCCTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
21 16 0.25
22 14 0.22
23 12 0.19
24 10 0.16
25 10 0.16
26 1 0.02
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (22 bp):
CTCCTTTTCCTCTCCTTTCCTC
Found at i:5060551 original size:2 final size:2
Alignment explanation
Indices: 5060544--5060581 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
5060534 TTGGACTCTA
* *
5060544 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5060582 TTTGGGCCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5067462 original size:23 final size:23
Alignment explanation
Indices: 5067436--5067479 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
5067426 TATAGGAAAA
5067436 TTGAAATAAAAATTATAAATTCT
1 TTGAAATAAAAATTATAAATTCT
** *
5067459 TTGAAATTTAAATTCTAAATT
1 TTGAAATAAAAATTATAAATT
5067480 TAATAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (23 bp):
TTGAAATAAAAATTATAAATTCT
Found at i:5072878 original size:2 final size:2
Alignment explanation
Indices: 5072871--5072898 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5072861 TTGGATTAAG
5072871 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
5072899 TTAATCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5075317 original size:7 final size:7
Alignment explanation
Indices: 5075307--5075332 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5075297 TTGTTTTATT
5075307 TTTTTTA
1 TTTTTTA
5075314 TTTTTTA
1 TTTTTTA
5075321 TTTTTTA
1 TTTTTTA
5075328 TTTTT
1 TTTTT
5075333 CAAAGCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:5075897 original size:2 final size:2
Alignment explanation
Indices: 5075890--5075920 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5075880 GTTTGTACTA
5075890 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 A
5075921 AATTTGTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5076982 original size:7 final size:7
Alignment explanation
Indices: 5076970--5077000 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
5076960 TTTGATAACC
5076970 AAAATTA
1 AAAATTA
5076977 AAAATTA
1 AAAATTA
5076984 AAAATTA
1 AAAATTA
5076991 AAAATTA
1 AAAATTA
5076998 AAA
1 AAA
5077001 CACTCTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:5080832 original size:7 final size:7
Alignment explanation
Indices: 5080813--5080842 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5080803 TAGTTAAAAA
5080813 AAATAAT
1 AAATAAT
5080820 -AATAAT
1 AAATAAT
5080826 AAATAAT
1 AAATAAT
5080833 AAATAAT
1 AAATAAT
5080840 AAA
1 AAA
5080843 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:5080860 original size:17 final size:16
Alignment explanation
Indices: 5080803--5080861 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
5080793 TCTATGAATC
*
5080803 TAGTTAAAAAAAATAA
1 TAGTAAAAAAAAATAA
* * *
5080819 TAATAATAAATAATAA
1 TAGTAAAAAAAAATAA
5080835 -A-TAATAAAAAAATATA
1 TAGTAA-AAAAAAATA-A
5080851 TAGTAAAAAAA
1 TAGTAAAAAAA
5080862 GTATCAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
14 3 0.09
15 8 0.24
16 13 0.39
17 6 0.18
18 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
TAGTAAAAAAAAATAA
Found at i:5081363 original size:16 final size:15
Alignment explanation
Indices: 5081324--5081376 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
5081314 CAAACATAAT
5081324 TAAAAAATATT-AAAA
1 TAAAAAAT-TTAAAAA
* *
5081339 TAGATAATTTAATAAA
1 TAAAAAATTTAA-AAA
*
5081355 TAAAAAATTTAAAAC
1 TAAAAAATTTAAAAA
5081370 TAAAAAA
1 TAAAAAA
5081377 AATAGGAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 2 0.06
15 16 0.52
16 13 0.42
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
TAAAAAATTTAAAAA
Found at i:5082943 original size:15 final size:15
Alignment explanation
Indices: 5082919--5082963 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
5082909 TTTTGTTGGT
5082919 AATT-TATTAAATAA
1 AATTATATTAAATAA
5082933 AATTATATTAAATAA
1 AATTATATTAAATAA
*
5082948 ATTTATTTATTAAATA
1 AATTA--TATTAAATA
5082964 TTTAAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
17 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTATATTAAATAA
Found at i:5086711 original size:43 final size:43
Alignment explanation
Indices: 5086649--5086734 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
5086639 ACAGATACTG
*
5086649 CAGTGATGAAATTTAAATTTTAAATCTATTGGATTAAAAGTTA
1 CAGTGATGAAAATTAAATTTTAAATCTATTGGATTAAAAGTTA
*
5086692 CAGTGAT-AAAATTAGAATTTTAAATTTATTGGATTAAAAGTTA
1 CAGTGATGAAAATTA-AATTTTAAATCTATTGGATTAAAAGTTA
5086735 ATCTTTGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 6 0.15
43 34 0.85
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (43 bp):
CAGTGATGAAAATTAAATTTTAAATCTATTGGATTAAAAGTTA
Found at i:5089790 original size:13 final size:13
Alignment explanation
Indices: 5089772--5089818 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
5089762 TTTATATAAA
5089772 TTTTATTTTTAAT
1 TTTTATTTTTAAT
* *
5089785 TTTTATACATATAAT
1 TTTTAT--TTTTAAT
5089800 TTTTATTTTTAAT
1 TTTTATTTTTAAT
5089813 TTTTAT
1 TTTTAT
5089819 ATATATGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.61
15 11 0.39
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:5089796 original size:28 final size:28
Alignment explanation
Indices: 5089765--5089824 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
5089755 ATTTACTTTT
5089765 ATATAAATTTTATTTTTAATTTTTATAC
1 ATATAAATTTTATTTTTAATTTTTATAC
* *
5089793 ATATAATTTTTATTTTTAATTTTTATAT
1 ATATAAATTTTATTTTTAATTTTTATAC
5089821 ATAT
1 ATAT
5089825 GTGAATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
ATATAAATTTTATTTTTAATTTTTATAC
Found at i:5091608 original size:16 final size:17
Alignment explanation
Indices: 5091587--5091623 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
5091577 TCCGTAAAAA
5091587 TATTTTATCTTT-TTT-T
1 TATTTTAT-TTTATTTAT
5091603 TATTTTATTTTATTTAT
1 TATTTTATTTTATTTAT
5091620 TATT
1 TATT
5091624 ATTGTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 11 0.58
17 5 0.26
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (17 bp):
TATTTTATTTTATTTAT
Found at i:5091853 original size:28 final size:28
Alignment explanation
Indices: 5091766--5091854 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
5091756 TATTTTATTT
* *
5091766 TATTTCTAAAATTTTCACCATTTGGGTC
1 TATTTCTAAAATTTTCACTATTTAGGTC
* * * * *
5091794 TATTT-AAAAATTTTC-TTTTTATAAGTTT
1 TATTTCTAAAATTTTCACTATT-T-AGGTC
5091822 TATTTCTAAAATTTTCACTATTTAGGTC
1 TATTTCTAAAATTTTCACTATTTAGGTC
5091850 TATTT
1 TATTT
5091855 AGAAAAAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
26 2 0.04
27 10 0.22
28 20 0.44
29 10 0.22
30 3 0.07
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (28 bp):
TATTTCTAAAATTTTCACTATTTAGGTC
Found at i:5093475 original size:44 final size:43
Alignment explanation
Indices: 5093427--5093802 Score: 196
Period size: 44 Copynumber: 9.0 Consensus size: 43
5093417 ACATTAAAAA
*
5093427 CTCCTCTAAACAAAGGCTTTACAACTTTTGAGAAATAAATAAAG
1 CTCCTCTAAACAAAGGCTTAACAACTTTTGA-AAATAAATAAAG
* * * * * *
5093471 CTCCTATAAACAGAGGCTCAACCACTTCTGAAACATAAATAAGG
1 CTCCTCTAAACAAAGGCTTAACAACTTTTGAAA-ATAAATAAAG
* * *
5093515 CTCATCTAAATAGAGG-TTCAACAAC-TTTGAAAAATAAAT-AAG
1 CTCCTCTAAACAAAGGCTT-AACAACTTTTG-AAAATAAATAAAG
* * *
5093557 -GCCTCT------A-TC-T-ACAAC-TTTGAAAAATAAATAAGG
1 CTCCTCTAAACAAAGGCTTAACAACTTTTG-AAAATAAATAAAG
* * * ** **
5093590 CTCATTTAAACAAAGTCTT-ATGAC-TTTGAGAAATAAATATGG
1 CTCCTCTAAACAAAGGCTTAACAACTTTTGA-AAATAAATAAAG
* * ** *
5093632 CTCCTCTAAACAAAGACTCAATGACTTTTGAAAAGTAAATAAGG
1 CTCCTCTAAACAAAGGCTTAACAACTTTTGAAAA-TAAATAAAG
* * *
5093676 CTCATCTAAACAGAGGCTTAATAA-TTTTGAAAAGTAAAT-AAG
1 CTCCTCTAAACAAAGGCTTAACAACTTTTGAAAA-TAAATAAAG
* * * * * ** *
5093718 GTCCTCTAAACAGATGCTCAACTACCTTTAAAAAATAAATAAAA
1 CTCCTCTAAACAAAGGCTTAAC-AACTTTTGAAAATAAATAAAG
*
5093762 CTCCTCTAAACAAAGGCTTAACAAC-TTTAAAAAGTAAATAA
1 CTCCTCTAAACAAAGGCTTAACAACTTTTGAAAA-TAAATAA
5093803 GGCTGCTCGA
Statistics
Matches: 260, Mismatches: 50, Indels: 45
0.73 0.14 0.13
Matches are distributed among these distances:
32 19 0.07
33 2 0.01
34 4 0.02
35 1 0.00
40 1 0.00
41 7 0.03
42 62 0.24
43 50 0.19
44 114 0.44
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (43 bp):
CTCCTCTAAACAAAGGCTTAACAACTTTTGAAAATAAATAAAG
Found at i:5093718 original size:43 final size:43
Alignment explanation
Indices: 5093569--5093806 Score: 230
Period size: 43 Copynumber: 5.5 Consensus size: 43
5093559 CTCTATCTAC
* * * *
5093569 AACTTTGAAAAATAAATAAGGCTCATTTAAACAAAGTCTT-AT
1 AACTTTGAAAAGTAAATAAGGCTCCTCTAAACAAAGGCTTAAT
* * * *
5093611 GACTTTGAGAAA-TAAATATGGCTCCTCTAAACAAAGACTCAAT
1 AACTTTGA-AAAGTAAATAAGGCTCCTCTAAACAAAGGCTTAAT
* * *
5093654 GACTTTTGAAAAGTAAATAAGGCTCATCTAAACAGAGGCTTAAT
1 AAC-TTTGAAAAGTAAATAAGGCTCCTCTAAACAAAGGCTTAAT
* * * *
5093698 AATTTTGAAAAGTAAATAAGG-TCCTCTAAACAGATGCTCAACT
1 AACTTTGAAAAGTAAATAAGGCTCCTCTAAACAAAGGCTTAA-T
* * * ** *
5093741 ACCTTTAAAAAATAAATAAAACTCCTCTAAACAAAGGCTTAAC
1 AACTTTGAAAAGTAAATAAGGCTCCTCTAAACAAAGGCTTAAT
*
5093784 AACTTTAAAAAGTAAATAAGGCT
1 AACTTTGAAAAGTAAATAAGGCT
5093807 GCTCGACAAT
Statistics
Matches: 160, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
42 47 0.29
43 64 0.40
44 49 0.31
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (43 bp):
AACTTTGAAAAGTAAATAAGGCTCCTCTAAACAAAGGCTTAAT
Found at i:5093723 original size:86 final size:87
Alignment explanation
Indices: 5093571--5093806 Score: 275
Period size: 86 Copynumber: 2.7 Consensus size: 87
5093561 CTATCTACAA
* * * *
5093571 CTTTGAAAAATAAATAAGGCTCATTTAAACAAAGTCTT-ATGACTTTGAGAAA-TAAATATGGCT
1 CTTTGAAAAATAAATAAGGCTCATCTAAACAAAGGCTTAATAACTTTGA-AAAGTAAATAAGGCT
5093634 CCTCTAAACA-AAGACTCAA-TGAC
65 CCTCTAAACAGAAG-CTCAACT-AC
* * * *
5093657 TTTTGAAAAGTAAATAAGGCTCATCTAAACAGAGGCTTAATAATTTTGAAAAGTAAATAAGG-TC
1 CTTTGAAAAATAAATAAGGCTCATCTAAACAAAGGCTTAATAACTTTGAAAAGTAAATAAGGCTC
*
5093721 CTCTAAACAGATGCTCAACTAC
66 CTCTAAACAGAAGCTCAACTAC
* ** * * *
5093743 CTTTAAAAAATAAATAAAACTCCTCTAAACAAAGGCTTAACAACTTTAAAAAGTAAATAAGGCT
1 CTTTGAAAAATAAATAAGGCTCATCTAAACAAAGGCTTAATAACTTTGAAAAGTAAATAAGGCT
5093807 GCTCGACAAT
Statistics
Matches: 126, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
86 106 0.84
87 20 0.16
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (87 bp):
CTTTGAAAAATAAATAAGGCTCATCTAAACAAAGGCTTAATAACTTTGAAAAGTAAATAAGGCTC
CTCTAAACAGAAGCTCAACTAC
Found at i:5098104 original size:43 final size:43
Alignment explanation
Indices: 5098056--5098141 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
5098046 ACAGATACTG
*
5098056 CAGTGATGAAATTTA-AATTTTAAATCTATTGGATTAAAAGTTA
1 CAGTGAT-AAAATTAGAATTTTAAATCTATTGGATTAAAAGTTA
*
5098099 CAGTGATAAAATTAGAATTTTAAATTTATTGGATTAAAAGTTA
1 CAGTGATAAAATTAGAATTTTAAATCTATTGGATTAAAAGTTA
5098142 ATCTTTGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 6 0.15
43 34 0.85
ACGTcount: A:0.43, C:0.03, G:0.14, T:0.40
Consensus pattern (43 bp):
CAGTGATAAAATTAGAATTTTAAATCTATTGGATTAAAAGTTA
Found at i:5099913 original size:23 final size:23
Alignment explanation
Indices: 5099883--5099928 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
5099873 ATATAAAGAA
*
5099883 TTACTTTTATATTTTAATTGCAT
1 TTACTTTTATATTTTAATCGCAT
5099906 TTACTTTTATATTTTAATCGCAT
1 TTACTTTTATATTTTAATCGCAT
5099929 CTCTTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (23 bp):
TTACTTTTATATTTTAATCGCAT
Found at i:5101193 original size:13 final size:13
Alignment explanation
Indices: 5101175--5101221 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
5101165 TTTATATAAA
5101175 TTTTATTTTTAAT
1 TTTTATTTTTAAT
* *
5101188 TTTTATACATATAAT
1 TTTTAT--TTTTAAT
5101203 TTTTATTTTTAAT
1 TTTTATTTTTAAT
5101216 TTTTAT
1 TTTTAT
5101222 ATATATGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.61
15 11 0.39
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATTTTTAAT
Found at i:5101199 original size:28 final size:28
Alignment explanation
Indices: 5101168--5101227 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
5101158 ATTTACTTTT
5101168 ATATAAATTTTATTTTTAATTTTTATAC
1 ATATAAATTTTATTTTTAATTTTTATAC
* *
5101196 ATATAATTTTTATTTTTAATTTTTATAT
1 ATATAAATTTTATTTTTAATTTTTATAC
5101224 ATAT
1 ATAT
5101228 GTGAATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
ATATAAATTTTATTTTTAATTTTTATAC
Found at i:5102999 original size:15 final size:14
Alignment explanation
Indices: 5102979--5103017 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
5102969 TCCGTAAAAA
*
5102979 TATTTTATCTTTTTT
1 TATTTTAT-TTTGTT
5102994 TATTTTATTTTGTT
1 TATTTTATTTTGTT
5103008 TATTATTATT
1 TATT-TTATT
5103018 GTTGAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
TATTTTATTTTGTT
Found at i:5103244 original size:28 final size:28
Alignment explanation
Indices: 5103157--5103245 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
5103147 TATTTTATTT
* *
5103157 TATTTCTAAAATTTTCACCATTTGGGTC
1 TATTTCTAAAATTTTCACTATTTAGGTC
* * * * *
5103185 TATTT-AAAAATTTTC-TTTTTATAAGTTT
1 TATTTCTAAAATTTTCACTATT-T-AGGTC
5103213 TATTTCTAAAATTTTCACTATTTAGGTC
1 TATTTCTAAAATTTTCACTATTTAGGTC
5103241 TATTT
1 TATTT
5103246 AGAAAAAAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
26 2 0.04
27 10 0.22
28 20 0.44
29 10 0.22
30 3 0.07
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (28 bp):
TATTTCTAAAATTTTCACTATTTAGGTC
Found at i:5104859 original size:44 final size:42
Alignment explanation
Indices: 5104811--5105188 Score: 198
Period size: 44 Copynumber: 9.0 Consensus size: 42
5104801 ACATTAAAAA
5104811 CTCCTCTAAACAAAGGCTTCACAACTTTTGAGAAATAAATAAAG
1 CTCCTCTAAACAAAGGCTTCACAAC-TTTGA-AAATAAATAAAG
* * * * *
5104855 CTCCTATAAGCAGAGGC-TCAACCACTTCTGAAATATAAATAAGG
1 CTCCTCTAAACAAAGGCTTC-ACAACTT-TGAAA-ATAAATAAAG
* * *
5104899 CTCATCTAAATAGAGG-TTCAACAACTTTGAAAAATAAAT-AAG
1 CTCCTCTAAACAAAGGCTTC-ACAACTTTG-AAAATAAATAAAG
* * *
5104941 -GCCTCT------A-TC-T-ACAACTTTGAAAAATAAATAAGG
1 CTCCTCTAAACAAAGGCTTCACAACTTTG-AAAATAAATAAAG
* * * * **
5104974 CTCATTTAAGCAAAGGCTT-ACGACTTTGAGAAATAAATATGG
1 CTCCTCTAAACAAAGGCTTCACAACTTTGA-AAATAAATAAAG
* **
5105016 CTCCTCTAAACAAAGAC-TCATTGACTTTTGAAAAGTAAAT-AAG
1 CTCCTCTAAACAAAGGCTTCA-CAAC-TTTGAAAA-TAAATAAAG
* * *
5105059 ACTCCTCTAAACAAAGGCTTAATAATTTTGAAAAGTAAAT-AAG
1 -CTCCTCTAAACAAAGGCTTCACAACTTTGAAAA-TAAATAAAG
* * * * * *
5105102 GTCCTTTAAACAGATGC-TCAACTACCTTTGAAAAATAAATAAAA
1 CTCCTCTAAACAAAGGCTTC-AC-AACTTTG-AAAATAAATAAAG
*
5105146 CTCCTCTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAAAG
1 CTCCTCTAAACAAAGGCTTCACAACTTTGAAAA-TAAATAAAG
5105189 TTGCTCGACA
Statistics
Matches: 257, Mismatches: 48, Indels: 59
0.71 0.13 0.16
Matches are distributed among these distances:
32 19 0.07
33 2 0.01
34 4 0.02
35 1 0.00
40 1 0.00
41 8 0.03
42 54 0.21
43 62 0.24
44 103 0.40
45 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (42 bp):
CTCCTCTAAACAAAGGCTTCACAACTTTGAAAATAAATAAAG
Found at i:5105112 original size:86 final size:87
Alignment explanation
Indices: 5104955--5105186 Score: 276
Period size: 86 Copynumber: 2.7 Consensus size: 87
5104945 CTATCTACAA
* * * * * *
5104955 CTTTGAAAAATAAATAAGGCTCATTTAAGCAAAGGCTT-ACGACTTTGAGAAA-TAAATATGGCT
1 CTTTGAAAAATAAATAAGACTCCTCTAAACAAAGGCTTAACAACTTTGA-AAAGTAAATAAGGCT
*
5105018 CCTCTAAACA-AAGACTC-ATTGAC
65 CCTCTAAACAGAAG-CTCAACT-AC
* * * *
5105041 TTTTGAAAAGTAAATAAGACTCCTCTAAACAAAGGCTTAATAATTTTGAAAAGTAAATAAGG-TC
1 CTTTGAAAAATAAATAAGACTCCTCTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAAGGCTC
* *
5105105 CTTTAAACAGATGCTCAACTAC
66 CTCTAAACAGAAGCTCAACTAC
*
5105127 CTTTGAAAAATAAATAAAACTCCTCTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAA
1 CTTTGAAAAATAAATAAGACTCCTCTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAA
5105187 AGTTGCTCGA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
86 105 0.85
87 19 0.15
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.27
Consensus pattern (87 bp):
CTTTGAAAAATAAATAAGACTCCTCTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAAGGCTC
CTCTAAACAGAAGCTCAACTAC
Found at i:5105187 original size:43 final size:43
Alignment explanation
Indices: 5104951--5105188 Score: 205
Period size: 43 Copynumber: 5.5 Consensus size: 43
5104941 GCCTCTATCT
* * * * *
5104951 ACAACTTTGAAAAATAAATAAGGCTCATTTAAGCAAAGGCTT-
1 ACAACTTTGAAAAGTAAATAAAGCTCCTCTAAACAAAGGCTTA
* ** * *
5104993 ACGACTTTGAGAAA-TAAATATGGCTCCTCTAAACAAAGACTCA
1 ACAACTTTGA-AAAGTAAATAAAGCTCCTCTAAACAAAGGCTTA
***
5105036 TTGACTTTTGAAAAGTAAAT-AAGACTCCTCTAAACAAAGGCTTA
1 ACAAC-TTTGAAAAGTAAATAAAG-CTCCTCTAAACAAAGGCTTA
* * * * * * *
5105080 ATAATTTTGAAAAGTAAAT-AAGGTCCTTTAAACAGATGCTCA
1 ACAACTTTGAAAAGTAAATAAAGCTCCTCTAAACAAAGGCTTA
* * *
5105122 ACTACCTTTGAAAAATAAATAAAACTCCTCTAAACAAAGGCTTA
1 AC-AACTTTGAAAAGTAAATAAAGCTCCTCTAAACAAAGGCTTA
5105166 ACAACTTTGAAAAGTAAATAAAG
1 ACAACTTTGAAAAGTAAATAAAG
5105189 TTGCTCGACA
Statistics
Matches: 155, Mismatches: 34, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
42 47 0.30
43 59 0.38
44 49 0.32
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (43 bp):
ACAACTTTGAAAAGTAAATAAAGCTCCTCTAAACAAAGGCTTA
Found at i:5107894 original size:23 final size:22
Alignment explanation
Indices: 5107868--5107912 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
5107858 AAAAAATGGT
5107868 TAAT-TTAGTATTTTCAAATAAAA
1 TAATATTAG-ATTTTC-AATAAAA
*
5107891 TAATATTTGATTTTCAATAAAA
1 TAATATTAGATTTTCAATAAAA
5107913 CCAAAACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 10 0.50
24 3 0.15
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
TAATATTAGATTTTCAATAAAA
Found at i:5108088 original size:20 final size:20
Alignment explanation
Indices: 5108063--5108102 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
5108053 TGTAGACACC
5108063 CAATTGGGTCC-GGCCCAAAT
1 CAATTGGG-CCTGGCCCAAAT
5108083 CAATTGGGCCTGGCCCAAAT
1 CAATTGGGCCTGGCCCAAAT
5108103 GGGTAAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (20 bp):
CAATTGGGCCTGGCCCAAAT
Found at i:5108234 original size:35 final size:35
Alignment explanation
Indices: 5108171--5108258 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 35
5108161 TTTTATGTAT
5108171 TGTAT-TATTTATTA-TTATTATGTATTAATA-TA
1 TGTATATATTTATTATTTATTATGTATTAATATTA
* * *
5108203 TGTATATATTTATTTATTTATTTTTTGTTAATATTTA
1 TGTATATATTTA-TTATTTATTATGTATTAATA-TTA
*
5108240 TGTGTAT-TTTATTATTTAT
1 TGTATATATTTATTATTTAT
5108259 GTATATATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 5 0.11
33 6 0.13
34 3 0.06
35 21 0.45
36 4 0.09
37 8 0.17
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (35 bp):
TGTATATATTTATTATTTATTATGTATTAATATTA
Found at i:5108715 original size:26 final size:24
Alignment explanation
Indices: 5108673--5108726 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
5108663 CTGGGAGTGA
*
5108673 GAAAAATTTTTTAGAAATTTTTGG
1 GAAAAATTTTTTAGAAATTTCTGG
* *
5108697 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAAATTTTT-TAGAAATTTCTGG
5108723 GAAA
1 GAAA
5108727 TTTCCAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.41
Consensus pattern (24 bp):
GAAAAATTTTTTAGAAATTTCTGG
Found at i:5108902 original size:20 final size:20
Alignment explanation
Indices: 5108879--5108926 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
5108869 TTTCCAGATT
5108879 CCGGCGAAGAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
*
5108899 CCGGCGAATAATCCCAGAAA
1 CCGGCGAAGAATCCCAGAAA
5108919 CCGGCGAA
1 CCGGCGAA
5108927 CTTCCGGCGA
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:0.38, C:0.31, G:0.25, T:0.06
Consensus pattern (20 bp):
CCGGCGAAGAATCCCAGAAA
Found at i:5109436 original size:9 final size:9
Alignment explanation
Indices: 5109422--5109456 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
5109412 TTTACTTTTC
5109422 TTTTTTATT
1 TTTTTTATT
5109431 TTTTTTATT
1 TTTTTTATT
*
5109440 TTTTCTATT
1 TTTTTTATT
5109449 TTTCTTTA
1 TTT-TTTA
5109457 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 20 0.87
10 3 0.13
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTATT
Found at i:5109443 original size:23 final size:25
Alignment explanation
Indices: 5109397--5109451 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
5109387 ATCTTTATTT
5109397 TATTTTTAGTTTTGTTTTACTTTTC
1 TATTTTTAGTTTTGTTTTACTTTTC
*
5109422 T-TTTTTA-TTTT-TTTTATTTTTTC
1 TATTTTTAGTTTTGTTTTA-CTTTTC
5109445 TATTTTT
1 TATTTTT
5109452 CTTTAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.19
23 10 0.37
24 11 0.41
25 1 0.04
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.80
Consensus pattern (25 bp):
TATTTTTAGTTTTGTTTTACTTTTC
Found at i:5109752 original size:59 final size:59
Alignment explanation
Indices: 5109481--5109947 Score: 608
Period size: 59 Copynumber: 7.7 Consensus size: 59
5109471 AAAGTTCCAA
* *
5109481 AAAAAAAATACTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
5109545 AAAATAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
5109605 --AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAGTAAATTT-C
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
5109661 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
5109720 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
* *
5109784 AAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 --AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
** *
5109845 AAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTACCAATTTTCCTT-GAAAATCAAAATTTCC
1 AAAAAAAA-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
*
5109907 --GAAAAATATTTTT-GGGAAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTCC
5109948 CTAAAAAAAA
Statistics
Matches: 368, Mismatches: 18, Indels: 39
0.87 0.04 0.09
Matches are distributed among these distances:
56 1 0.00
57 50 0.14
58 56 0.15
59 85 0.23
60 53 0.14
61 11 0.03
62 11 0.03
63 2 0.01
64 16 0.04
65 39 0.11
66 44 0.12
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (59 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:5111980 original size:24 final size:24
Alignment explanation
Indices: 5111933--5112013 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 24
5111923 ATTATATATA
* *
5111933 TTTTAT-TAAACTTAATTTTT-AT
1 TTTTATATAAAATTTATTTTTAAT
5111955 TTTTATATAAAATTTATTTTTAAT
1 TTTTATATAAAATTTATTTTTAAT
**
5111979 TTATATATATAACTTTTATTTTTAAT
1 TT-T-TATATAAAATTTATTTTTAAT
5112005 TTTTATATA
1 TTTTATATA
5112014 TATGTGAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
22 6 0.12
23 12 0.24
24 10 0.20
25 2 0.04
26 21 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTATATAAAATTTATTTTTAAT
Found at i:5113534 original size:52 final size:52
Alignment explanation
Indices: 5113393--5113538 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
5113383 AAACTTGTCC
* * * * * * *
5113393 ATTAAGAATCCCTCTCCTCTTAGAATCCCTCTCTTGTAAGTCAAACTTGCCT
1 ATTAAGAATCTCTTTCTTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
*
5113445 ATTAAGAATCTCTTTCTTTTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
1 ATTAAGAATCTCTTTCTTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
* * *
5113497 ATTAAGAATCCTCTTTC-TCTTATAATTTTTCTTTTGCAAGTC
1 ATTAAGAAT-CTCTTTCTTCTTAGAATTCTTCTCTTGCAAGTC
5113539 TTTTTGTCCA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 74 0.91
53 7 0.09
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.42
Consensus pattern (52 bp):
ATTAAGAATCTCTTTCTTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
Found at i:5113896 original size:24 final size:25
Alignment explanation
Indices: 5113852--5113910 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
5113842 CATCTTAAAC
5113852 CTTT-AGCTCTTCCCACATCTCGAA
1 CTTTCAGCTCTTCCCACATCTCGAA
* *
5113876 CTTTCAGCTCTT-TCACGTCTCGAA
1 CTTTCAGCTCTTCCCACATCTCGAA
*
5113900 CCTTCAGCTCT
1 CTTTCAGCTCT
5113911 GATACCACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 24 0.77
25 7 0.23
ACGTcount: A:0.17, C:0.37, G:0.10, T:0.36
Consensus pattern (25 bp):
CTTTCAGCTCTTCCCACATCTCGAA
Found at i:5114602 original size:52 final size:52
Alignment explanation
Indices: 5114446--5114602 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
5114436 TATAACCATA
* * * * * *
5114446 CAAACTTGCCCATTAAAAATTCTT-TTTCTCTTAAAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAA-TCTTCTTTCTCTTAGAATTCTTCTCTTGAAAGT
* *
5114498 CAAACTTACCTATTAAGAATC-TCTTTTTTTTTAGAATTCTTCTCTTGAAAGT
1 CAAACTTACCTATTAAGAATCTTC-TTTCTCTTAGAATTCTTCTCTTGAAAGT
* *
5114550 CAAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTCTTGAAAGT
5114602 C
1 C
5114603 TTCTTATCCA
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 85 0.94
53 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTTCTTTCTCTTAGAATTCTTCTCTTGAAAGT
Found at i:5118296 original size:23 final size:23
Alignment explanation
Indices: 5118266--5118311 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
5118256 ATATAAAGAA
*
5118266 TTACTTTTATATTTTAATTGCAT
1 TTACTTTTATATTTTAATCGCAT
5118289 TTACTTTTATATTTTAATCGCAT
1 TTACTTTTATATTTTAATCGCAT
5118312 CTCTTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (23 bp):
TTACTTTTATATTTTAATCGCAT
Found at i:5120608 original size:27 final size:28
Alignment explanation
Indices: 5120570--5120628 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
5120560 TGTTACTTTT
5120570 ATATAAATTTTATTTTTAATTTTTATAC
1 ATATAAATTTTATTTTTAATTTTTATAC
*
5120598 ATAT-AATTTTATTTTTAATTTTTATAT
1 ATATAAATTTTATTTTTAATTTTTATAC
5120625 ATAT
1 ATAT
5120629 GTGAATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (28 bp):
ATATAAATTTTATTTTTAATTTTTATAC
Found at i:5124353 original size:43 final size:43
Alignment explanation
Indices: 5124222--5124605 Score: 235
Period size: 44 Copynumber: 9.1 Consensus size: 43
5124212 ACATTAAAAA
* *
5124222 CTCCTCTAAACAAAGGCTTC-ACAACTTTTGAGAAATAAATAAAG
1 CTCCTCTAAACAAAGG-TTCAACAAC-TTTGAAAAATAAATAAGG
* * * * * *
5124266 CTCCTATAAGCAGAGGCTCAACCACTTTTGAAACATAAATAAGG
1 CTCCTCTAAACAAAGGTTCAACAAC-TTTGAAAAATAAATAAGG
* *
5124310 CTCCTCTAAATAGAGGTTCAACAACTTTGAAAAATAAATAAGG
1 CTCCTCTAAACAAAGGTTCAACAACTTTGAAAAATAAATAAGG
* *
5124353 --CCTCT------A--TT-TACAACTTTAAAAAATAAATAAGG
1 CTCCTCTAAACAAAGGTTCAACAACTTTGAAAAATAAATAAGG
* * *
5124385 CTCATTTAAACAAAGGCTT--ACGACTTTGAAAAATAAATAAGG
1 CTCCTCTAAACAAAGG-TTCAACAACTTTGAAAAATAAATAAGG
* * ** ** *
5124427 CTCTTTTAAACAAAGACTCAATGACTTTTGAAAAGTAAATAAGG
1 CTCCTCTAAACAAAGGTTCAACAAC-TTTGAAAAATAAATAAGG
* * * * * *
5124471 CTCCTTTAAATAGAGGCTT-AATAATTTTGAAAAGTAAATAAGG
1 CTCCTCTAAACAAAGG-TTCAACAACTTTGAAAAATAAATAAGG
** * * * * * *
5124514 -TTTTTTAAACAGATGCTCAACTACCTTTGAAAAATAAATAAAG
1 CTCCTCTAAACAAAGGTTCAAC-AACTTTGAAAAATAAATAAGG
* *
5124557 CTCTTCTAAACAAAGGCTT-AACAACTTTGAAAAGTAAATAAGG
1 CTCCTCTAAACAAAGG-TTCAACAACTTTGAAAAATAAATAAGG
5124600 CTCCTC
1 CTCCTC
5124606 GACAATCATA
Statistics
Matches: 269, Mismatches: 51, Indels: 41
0.75 0.14 0.11
Matches are distributed among these distances:
32 22 0.08
33 2 0.01
34 3 0.01
35 1 0.00
40 1 0.00
41 7 0.03
42 48 0.18
43 83 0.31
44 100 0.37
45 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (43 bp):
CTCCTCTAAACAAAGGTTCAACAACTTTGAAAAATAAATAAGG
Found at i:5124367 original size:32 final size:30
Alignment explanation
Indices: 5124330--5124392 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 30
5124320 TAGAGGTTCA
*
5124330 ACAACTTTGAAAAATAAATAAGGCCTCTATTT
1 ACAACTTTAAAAAATAAATAAGG-CTC-ATTT
5124362 ACAACTTTAAAAAATAAATAAGGCTCATTT
1 ACAACTTTAAAAAATAAATAAGGCTCATTT
5124392 A
1 A
5124393 AACAAAGGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 3 0.10
32 22 0.73
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (30 bp):
ACAACTTTAAAAAATAAATAAGGCTCATTT
Found at i:5124424 original size:42 final size:42
Alignment explanation
Indices: 5124360--5124602 Score: 229
Period size: 43 Copynumber: 5.7 Consensus size: 42
5124350 AGGCCTCTAT
* *
5124360 TTACAACTTTAAAAAATAAATAAGGCTCATTTAAACAAAGGC
1 TTACAACTTTGAAAAATAAATAAGGCTCTTTTAAACAAAGGC
* *
5124402 TTACGACTTTGAAAAATAAATAAGGCTCTTTTAAACAAAGAC
1 TTACAACTTTGAAAAATAAATAAGGCTCTTTTAAACAAAGGC
* * * * *
5124444 TCA-ATGACTTTTGAAAAGTAAATAAGGCTCCTTTAAATAGAGGC
1 TTACA--AC-TTTGAAAAATAAATAAGGCTCTTTTAAACAAAGGC
* * * * * *
5124488 TTAATAATTTTGAAAAGTAAATAAGG-TTTTTTAAACAGATGC
1 TT-ACAACTTTGAAAAATAAATAAGGCTCTTTTAAACAAAGGC
* * * *
5124530 TCAACTACCTTTGAAAAATAAATAAAGCTCTTCTAAACAAAGGC
1 T-TAC-AACTTTGAAAAATAAATAAGGCTCTTTTAAACAAAGGC
*
5124574 TTAACAACTTTGAAAAGTAAATAAGGCTC
1 TT-ACAACTTTGAAAAATAAATAAGGCTC
5124603 CTCGACAATC
Statistics
Matches: 161, Mismatches: 31, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
42 54 0.34
43 58 0.36
44 47 0.29
45 1 0.01
46 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (42 bp):
TTACAACTTTGAAAAATAAATAAGGCTCTTTTAAACAAAGGC
Found at i:5124479 original size:86 final size:87
Alignment explanation
Indices: 5124366--5124602 Score: 295
Period size: 86 Copynumber: 2.7 Consensus size: 87
5124356 CTATTTACAA
* * * *
5124366 CTTTAAAAAATAAATAAGGCTCATTTAAACAAAGGCTT-ACGACTTTGAAAAATAAATAAGGCTC
1 CTTTGAAAAATAAATAAGGCTCCTTTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAAGGCTC
5124430 TTTTAAACA-AAGACTCAA-TGAC
66 TTTTAAACAGAAG-CTCAACT-AC
* * * * * * *
5124452 TTTTGAAAAGTAAATAAGGCTCCTTTAAATAGAGGCTTAATAATTTTGAAAAGTAAATAAGG-TT
1 CTTTGAAAAATAAATAAGGCTCCTTTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAAGGCTC
*
5124516 TTTTAAACAGATGCTCAACTAC
66 TTTTAAACAGAAGCTCAACTAC
*
5124538 CTTTGAAAAATAAATAAAGCT-CTTCTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAAGGCT
1 CTTTGAAAAATAAATAAGGCTCCTT-TAAACAAAGGCTTAACAACTTTGAAAAGTAAATAAGGCT
5124602 C
65 C
5124603 CTCGACAATC
Statistics
Matches: 126, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
85 3 0.02
86 100 0.79
87 23 0.18
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (87 bp):
CTTTGAAAAATAAATAAGGCTCCTTTAAACAAAGGCTTAACAACTTTGAAAAGTAAATAAGGCTC
TTTTAAACAGAAGCTCAACTAC
Found at i:5127293 original size:57 final size:56
Alignment explanation
Indices: 5127231--5127507 Score: 254
Period size: 58 Copynumber: 4.7 Consensus size: 56
5127221 CTTTTGTACA
*
5127231 AAGAAAATTGATACTTTCAACTTTTCCCCAAAATGTTTTTCT-G-AAACTTTAATTTC
1 AAGAAAATTGATACTTTCAACTTTTCCCCAAAATGTTTTT-TAGAAAAC-TTATTTTC
* ** ***
5127287 GAAGAAAATTGATACTTTCAATTTTTCCTAAAAAAAAAAAACCCTTTTTAGAAAA-TTATTTTC
1 -AAGAAAATTGATACTTTCAACTTTTCC-------CCAAAATGTTTTTTAGAAAACTTATTTTC
* * *
5127350 AAAGAAAATTAACACTTTCAATTTTTCCCCAAAATGTTTTTTAGAAAACTTATTTTC
1 -AAGAAAATTGATACTTTCAACTTTTCCCCAAAATGTTTTTTAGAAAACTTATTTTC
* * * *
5127407 AAGGACAATTAATACTTTCAACTTTTCCTCAGAAATATTTTTTAGAAAACTTATTTTC
1 AA-GAAAATTGATACTTTCAACTTTTCCCCA-AAATGTTTTTTAGAAAACTTATTTTC
* *
5127465 AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 AAG-AAAATTGATACTTTCAACTTTTCC-CCAAAATGTTTTTT
5127508 TTGGAATTTT
Statistics
Matches: 182, Mismatches: 24, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
56 17 0.09
57 59 0.32
58 60 0.33
59 1 0.01
63 33 0.18
64 9 0.05
65 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (56 bp):
AAGAAAATTGATACTTTCAACTTTTCCCCAAAATGTTTTTTAGAAAACTTATTTTC
Found at i:5127541 original size:6 final size:6
Alignment explanation
Indices: 5127526--5127609 Score: 70
Period size: 6 Copynumber: 14.0 Consensus size: 6
5127516 TTATTTAAAG
5127526 AAAATCA AAAAT- AAAATA AAACA-A AATAA-A AAAATA AAAATA AAAATA
1 AAAAT-A AAAATA AAAATA AAA-ATA AA-AATA AAAATA AAAATA AAAATA
**
5127574 AAGGTA AAAATA AAAA-A TAAAAT- AAAATA AAGAATA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AA-AATA
5127610 CTAAATAATT
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
5 13 0.20
6 41 0.63
7 11 0.17
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:5127543 original size:5 final size:5
Alignment explanation
Indices: 5127533--5127604 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
5127523 AAGAAAATCA
* *
5127533 AAAAT AAAAT AAAAC AAAAT -AAA- AAAAT AAAAAT AAAAAT AAAGGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAA-AT
*
5127579 AAAA- ATAA- AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
5127605 GAATACTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
4 12 0.21
5 29 0.52
6 15 0.27
ACGTcount: A:0.81, C:0.01, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:5127565 original size:24 final size:23
Alignment explanation
Indices: 5127532--5127604 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 23
5127522 AAAGAAAATC
5127532 AAAAAT-AAAATAAAACAAAATAA
1 AAAAATAAAAATAAAA-AAAATAA
5127555 AAAAATAAAAATAAAAATAAAGGTAA
1 AAAAATAAAAATAAAAA-AAA--TAA
*
5127581 AAATA-AAAAATAAAATAAAATAA
1 AAAAATAAAAATAAAA-AAAATAA
5127604 A
1 A
5127605 GAATACTAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
23 11 0.25
24 12 0.27
25 13 0.30
26 8 0.18
ACGTcount: A:0.81, C:0.01, G:0.03, T:0.15
Consensus pattern (23 bp):
AAAAATAAAAATAAAAAAAATAA
Found at i:5127609 original size:24 final size:24
Alignment explanation
Indices: 5127526--5127614 Score: 85
Period size: 24 Copynumber: 3.7 Consensus size: 24
5127516 TTATTTAAAG
* *
5127526 AAAATCAAAA-AT-AAAATAAAAC
1 AAAATAAAAATATAAAAATAAAAT
*
5127548 AAAATAAAAAAATAAAAATAAAAAT
1 AAAATAAAAATATAAAAAT-AAAAT
*
5127573 AAAGGTAAAAATA-AAAAATAAAAT
1 AAA-ATAAAAATATAAAAATAAAAT
5127597 AAAATAAAGAATACTAAA
1 AAAATAAA-AATA-TAAA
5127615 TAATTCTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 9 0.16
23 6 0.11
24 17 0.31
25 13 0.24
26 10 0.18
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (24 bp):
AAAATAAAAATATAAAAATAAAAT
Found at i:5127643 original size:3 final size:3
Alignment explanation
Indices: 5127635--5127660 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5127625 CTAATCAATA
5127635 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
5127661 ATAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5128166 original size:21 final size:21
Alignment explanation
Indices: 5128129--5128173 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
5128119 AATTTTCCAG
5128129 AAAAAAACTTCAAAAATT-CT
1 AAAAAAACTTCAAAAATTCCT
* *
5128149 AAAAAAATTCTCACAAATTCCT
1 AAAAAAACT-TCAAAAATTCCT
5128171 AAA
1 AAA
5128174 GCTGTATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 8 0.38
22 5 0.24
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAAACTTCAAAAATTCCT
Found at i:5128484 original size:48 final size:47
Alignment explanation
Indices: 5128418--5128533 Score: 148
Period size: 48 Copynumber: 2.4 Consensus size: 47
5128408 AATAGATAAA
5128418 TAATAAATAAAAA-ATATATAT-ACTAATAGATAAATAATAGATA-ATAGT
1 TAAT-AATAAAAATATATAT-TCACTAATAGATAAATAATA-ATATATA-T
* *
5128466 TAATAATAAAAATTTATATTCATTAATAGATAAATAATAATATATAT
1 TAATAATAAAAATATATATTCACTAATAGATAAATAATAATATATAT
5128513 TAATAGATAAAAATATATATT
1 TAATA-ATAAAAATATATATT
5128534 AATAAATAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
47 18 0.30
48 43 0.70
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (47 bp):
TAATAATAAAAATATATATTCACTAATAGATAAATAATAATATATAT
Found at i:5128498 original size:24 final size:23
Alignment explanation
Indices: 5128418--5128534 Score: 87
Period size: 24 Copynumber: 5.0 Consensus size: 23
5128408 AATAGATAAA
* * *
5128418 TAATAAATAAAAA-ATATATATAC
1 TAATAGATAAAAATTTATAT-TAT
** *
5128441 TAATAGATAAATAATAGATAATAGT
1 TAATAGATAAA-AATTTATATTA-T
5128466 TAATA-ATAAAAATTTATATTCAT
1 TAATAGATAAAAATTTATATT-AT
*
5128489 TAATAGATAAATAA-TAATATATAT
1 TAATAGATAAA-AATTTATAT-TAT
*
5128513 TAATAGATAAAAATATATATTA
1 TAATAGATAAAAATTTATATTA
5128535 ATAAATAATA
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
23 27 0.36
24 37 0.49
25 12 0.16
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
TAATAGATAAAAATTTATATTAT
Found at i:5128527 original size:20 final size:20
Alignment explanation
Indices: 5128427--5128547 Score: 82
Period size: 20 Copynumber: 5.3 Consensus size: 20
5128417 ATAATAAATA
5128427 AAAAATATATATACTAATAGAT
1 AAAAATATATAT--TAATAGAT
5128449 AAATAATAGATAATAGTTAATA-AT
1 AAA-AAT--AT-ATA-TTAATAGAT
5128473 AAAAATTTATATTCATTAATAGAT
1 AAAAA--TATA-T-ATTAATAGAT
5128497 AAATAATAATATATATTAATAGAT
1 --A-AA-AATATATATTAATAGAT
*
5128521 AAAAATATATATTAATAAAT
1 AAAAATATATATTAATAGAT
*
5128541 AATAATA
1 AAAAATA
5128548 ATAGCAATAA
Statistics
Matches: 83, Mismatches: 2, Indels: 30
0.72 0.02 0.26
Matches are distributed among these distances:
20 22 0.27
21 2 0.02
22 5 0.06
23 14 0.17
24 18 0.22
25 9 0.11
26 8 0.10
27 3 0.04
28 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAAATATATATTAATAGAT
Found at i:5128535 original size:44 final size:43
Alignment explanation
Indices: 5128423--5128550 Score: 145
Period size: 48 Copynumber: 2.9 Consensus size: 43
5128413 ATAAATAATA
*
5128423 AATAA-AAAATATATATACTAATAGATAAATAATAGATAATAGTT
1 AATAATAAAA-ATATATATTAATAGATAAATAATA-ATAATAGTT
5128467 AATAATAAAAATTTATATTCATTAATAGATAAATAATAATATATA-TT
1 AATAATAAAAA--TATA-T-ATTAATAGATAAATAATAATA-ATAGTT
*
5128514 AATAGATAAAAATATATATTAATAAAT-AATAATAATA
1 AATA-ATAAAAATATATATTAATAGATAAATAATAATA
5128551 GCAATAAATA
Statistics
Matches: 75, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
43 10 0.13
44 15 0.20
45 5 0.07
46 8 0.11
47 10 0.13
48 27 0.36
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (43 bp):
AATAATAAAAATATATATTAATAGATAAATAATAATAATAGTT
Found at i:5128537 original size:10 final size:10
Alignment explanation
Indices: 5128489--5128547 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
5128479 TTATATTCAT
*
5128489 TAATAGATAAA
1 TAATA-ATATA
5128500 TAATAATATA
1 TAATAATATA
* *
5128510 TATTAATAGA
1 TAATAATATA
*
5128520 TAAAAATATA
1 TAATAATATA
* *
5128530 TATTAATAAA
1 TAATAATATA
5128540 TAATAATA
1 TAATAATA
5128548 ATAGCAATAA
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 33 0.87
11 5 0.13
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
TAATAATATA
Found at i:5128565 original size:20 final size:20
Alignment explanation
Indices: 5128495--5128561 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
5128485 TCATTAATAG
5128495 ATAAATAATAATATATATTA
1 ATAAATAATAATATATATTA
* *
5128515 ATAGATAAAAATATATATTA
1 ATAAATAATAATATATATTA
**
5128535 ATAAATAATAATA-ATAGCA
1 ATAAATAATAATATATATTA
5128554 ATAAATAA
1 ATAAATAA
5128562 ATAAATAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 12 0.29
20 29 0.71
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAAATAATAATATATATTA
Found at i:5132951 original size:33 final size:33
Alignment explanation
Indices: 5132890--5132960 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
5132880 TAATGACATT
* *** * *
5132890 TGCATAGCATGCATTGCATTTCTGAATGTTTAG
1 TGCATAGCATGCATTACATTTAAAAATGTCTAA
5132923 TGCATAGCATGCATTACATTTAAAAATGTCTAA
1 TGCATAGCATGCATTACATTTAAAAATGTCTAA
5132956 TGCAT
1 TGCAT
5132961 GAAGTAGGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (33 bp):
TGCATAGCATGCATTACATTTAAAAATGTCTAA
Found at i:5133241 original size:41 final size:41
Alignment explanation
Indices: 5133180--5133413 Score: 229
Period size: 42 Copynumber: 5.6 Consensus size: 41
5133170 ATTGTCGAGC
5133180 AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGA
1 AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGA
* * * * * *
5133221 AGCTTTATTTATTTTTCAAAGGTAGTTGAGCATCTGTTTAGA
1 AGCCTTATTTACTTTTCAAA-GTTGTTAAGCCTTTGTTTAGA
* * * *
5133263 AGACCTTATTTACTTTTCAAAATTATTAAGCCTCTATTTAGA
1 AG-CCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGA
** ** * *
5133305 AGGTTTATTTACTTTTCAAAAGTCATTGAGTCTTTGTTTAGAA
1 AGCCTTATTTACTTTTC-AAAGTTGTTAAGCCTTTGTTTAG-A
* *
5133348 GAGCCTTATTTA-TTTTCAAAGTCG-TAAGCCTTTGTTTAAA
1 -AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGA
*
5133388 GAGCCTTATTTATTTTTCAAAGTTGT
1 -AGCCTTATTTACTTTTCAAAGTTGT
5133414 AATAGAGGCC
Statistics
Matches: 157, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
40 13 0.08
41 54 0.34
42 59 0.38
43 22 0.14
44 9 0.06
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (41 bp):
AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGA
Found at i:5133397 original size:84 final size:85
Alignment explanation
Indices: 5133180--5133408 Score: 265
Period size: 84 Copynumber: 2.7 Consensus size: 85
5133170 ATTGTCGAGC
* * *
5133180 AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGA-AGCTTTATTTATTTTTCAAAGGT
1 AGCCTTATTTACTTTTCAAAGTAG-TAAGCCTTTGTTTAAAGAGCTTTATTTATTTTTCAAAAGT
5133244 AGTTGAGCATCTGTTTAGAAG
65 AGTTGAGCATCTGTTTAGAAG
* * * * *
5133265 A-CCTTATTTACTTTTCAAAATTATTAAGCCTCTATTTAGAAG-G-TTTATTTACTTTTCAAAAG
1 AGCCTTATTTACTTTTC-AAAGTAGTAAGCCTTTGTTTA-AAGAGCTTTATTTATTTTTCAAAAG
*
5133327 TCA-TTGAGTC-TTTGTTTAGAAG
64 T-AGTTGAG-CATCTGTTTAGAAG
* *
5133349 AGCCTTATTTA-TTTTCAAAGTCGTAAGCCTTTGTTTAAAGAGCCTTATTTATTTTTCAAA
1 AGCCTTATTTACTTTTCAAAGTAGTAAGCCTTTGTTTAAAGAGCTTTATTTATTTTTCAAA
5133409 GTTGTAATAG
Statistics
Matches: 120, Mismatches: 16, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
82 3 0.03
83 17 0.14
84 82 0.68
85 18 0.15
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (85 bp):
AGCCTTATTTACTTTTCAAAGTAGTAAGCCTTTGTTTAAAGAGCTTTATTTATTTTTCAAAAGTA
GTTGAGCATCTGTTTAGAAG
Found at i:5133498 original size:44 final size:41
Alignment explanation
Indices: 5133416--5133500 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 41
5133406 AAAGTTGTAA
* *
5133416 TAGAGGCCTTATTTATTTTTCAAAGTTGTTGAACCTCTATT
1 TAGAGGCCTTATTTATGTTTCAAAGTGGTTGAACCTCTATT
*
5133457 TAGAGAGCCTTATTTATGTTTCAGAAAGTGGTTGAGCCTCTATT
1 TAGAG-GCCTTATTTATGTTTC--AAAGTGGTTGAACCTCTATT
5133501 AGCAGTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 5 0.13
42 15 0.39
44 18 0.47
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (41 bp):
TAGAGGCCTTATTTATGTTTCAAAGTGGTTGAACCTCTATT
Found at i:5134195 original size:15 final size:16
Alignment explanation
Indices: 5134175--5134204 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5134165 GTTCTATAAC
5134175 AAGAGAG-AAGAGAAG
1 AAGAGAGAAAGAGAAG
5134190 AAGAGAGAAAGAGAA
1 AAGAGAGAAAGAGAA
5134205 AAAGGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (16 bp):
AAGAGAGAAAGAGAAG
Found at i:5135372 original size:14 final size:14
Alignment explanation
Indices: 5135353--5135382 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5135343 CAACATTAAT
*
5135353 AATAAATAAAATAA
1 AATAAAAAAAATAA
5135367 AATAAAAAAAATAA
1 AATAAAAAAAATAA
5135381 AA
1 AA
5135383 ATTTTTGCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAAAAAAATAA
Found at i:5137155 original size:13 final size:13
Alignment explanation
Indices: 5137139--5137185 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
5137129 TCACATATAT
5137139 ATAAAAATTAAAA
1 ATAAAAATTAAAA
**
5137152 ATAAAAATTATATGT
1 ATAAAAATTA-A-AA
5137167 ATAAAAATTAAAA
1 ATAAAAATTAAAA
5137180 ATAAAA
1 ATAAAA
5137186 TTTATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 16 0.57
14 2 0.07
15 10 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
ATAAAAATTAAAA
Found at i:5137164 original size:28 final size:28
Alignment explanation
Indices: 5137133--5137193 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
5137123 TTCAATTCAC
5137133 ATATATATAAAAATTAAAAATAAAAATT
1 ATATATATAAAAATTAAAAATAAAAATT
* *
5137161 ATATGTATAAAAATTAAAAATAAAATTT
1 ATATATATAAAAATTAAAAATAAAAATT
5137189 ATATA
1 ATATA
5137194 AAAGTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
ATATATATAAAAATTAAAAATAAAAATT
Found at i:5137191 original size:22 final size:21
Alignment explanation
Indices: 5137147--5137202 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
5137137 ATATAAAAAT
* *
5137147 TAAAAATAAAAATTATATGTA
1 TAAAAATAAAAATAAAATGTA
*
5137168 TAAAAATTAAAAATAAAATTTA
1 TAAAAA-TAAAAATAAAATGTA
5137190 TATAAAAGTAAAA
1 TA-AAAA-TAAAA
5137203 TTTGAGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.21
22 14 0.48
23 9 0.31
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (21 bp):
TAAAAATAAAAATAAAATGTA
Found at i:5139415 original size:23 final size:23
Alignment explanation
Indices: 5139384--5139429 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
5139374 TAAAGAAGAG
*
5139384 ATGCGATTAAAATATAAAAGTAA
1 ATGCAATTAAAATATAAAAGTAA
5139407 ATGCAATTAAAATATAAAAGTAA
1 ATGCAATTAAAATATAAAAGTAA
5139430 TTCTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.26
Consensus pattern (23 bp):
ATGCAATTAAAATATAAAAGTAA
Found at i:5143203 original size:52 final size:51
Alignment explanation
Indices: 5143114--5143270 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 51
5143104 TGGATAAAAA
*
5143114 GACTTACAAAAGAAGAATTCTAAGAGAAAGAGAATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGAAAGAG-ATTCTTAATAGGTAAGTTT
* *
5143166 GACTTGCAAGAGAAGAATTCTGAA-ACGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCT-AAGA-GAAAGAGATTCTTAATAGGTAAGTTT
* *
5143218 GACTTAC-AGAAGAAGAATTCTAAGAGGAGAAGA-ATTTTTAATGGGTAAGTTT
1 GACTTACAAG-AGAAGAATTCTAAGA-GA-AAGAGATTCTTAATAGGTAAGTTT
5143270 G
1 G
5143271 TATGGTTATA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
51 4 0.04
52 75 0.82
53 13 0.14
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (51 bp):
GACTTACAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGTAAGTTT
Found at i:5143822 original size:25 final size:25
Alignment explanation
Indices: 5143788--5143900 Score: 86
Period size: 25 Copynumber: 4.6 Consensus size: 25
5143778 AAGTGGTATC
5143788 AGAGCTGAAGGTTTGAAACGTGAGA
1 AGAGCTGAAGGTTTGAAACGTGAGA
* * * * *
5143813 AGAGTTGAA-GATTCAAGATGTGAAA
1 AGAGCTGAAGGTTTGAA-ACGTGAGA
* *
5143838 AGAGCTGAAGGTTCGAGACGT-AGA
1 AGAGCTGAAGGTTTGAAACGTGAGA
* * * *
5143862 AGAGCTGAAAGTTTGAGATGTGGGA
1 AGAGCTGAAGGTTTGAAACGTGAGA
* *
5143887 AGAACTAAAGGTTT
1 AGAGCTGAAGGTTT
5143901 AAGATGTGGG
Statistics
Matches: 66, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
24 25 0.38
25 38 0.58
26 3 0.05
ACGTcount: A:0.37, C:0.07, G:0.34, T:0.22
Consensus pattern (25 bp):
AGAGCTGAAGGTTTGAAACGTGAGA
Found at i:5144173 original size:11 final size:11
Alignment explanation
Indices: 5144157--5144196 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
5144147 TCCCATACGA
5144157 GATTTGTTTGG
1 GATTTGTTTGG
* * *
5144168 GATTTGCTAGA
1 GATTTGTTTGG
5144179 GATTTGTTTGG
1 GATTTGTTTGG
5144190 GATTTGT
1 GATTTGT
5144197 CAAACATTGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.15, C:0.03, G:0.33, T:0.50
Consensus pattern (11 bp):
GATTTGTTTGG
Found at i:5144309 original size:52 final size:52
Alignment explanation
Indices: 5144221--5144329 Score: 148
Period size: 52 Copynumber: 2.1 Consensus size: 52
5144211 TGGACAAGAA
* * *
5144221 GACTTGCAAAAGAAGAATTATAAGAAAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAAAATTATAAAAAAAAGAGGATTCTTAATAGGCAAGTTT
* *
5144273 GACTTGCAAGAGAAAAATTCTAAAAAGAAAGA-GATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAAAATTATAAAAA-AAAGAGGATTCTTAATAGGCAAGTTT
*
5144325 AACTT
1 GACTT
5144330 ACAGAAGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 45 0.90
53 5 0.10
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (52 bp):
GACTTGCAAAAGAAAAATTATAAAAAAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:5148048 original size:26 final size:28
Alignment explanation
Indices: 5148014--5148072 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 28
5148004 TTCAATTCAC
*
5148014 ATATATATAAAAATTTAAAA-AAAA-TT
1 ATATATATAAAAATTAAAAATAAAATTT
*
5148040 ATATGTATAAAAATTAAAAATAAAATTT
1 ATATATATAAAAATTAAAAATAAAATTT
5148068 ATATA
1 ATATA
5148073 AAAGTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 18 0.64
27 4 0.14
28 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (28 bp):
ATATATATAAAAATTAAAAATAAAATTT
Found at i:5151098 original size:19 final size:19
Alignment explanation
Indices: 5151070--5151108 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
5151060 AGATAACATT
*
5151070 TTGTGTTAGTAATATTTTA
1 TTGTGATAGTAATATTTTA
5151089 TTGTGATAGTAATATTTTA
1 TTGTGATAGTAATATTTTA
5151108 T
1 T
5151109 ACACAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (19 bp):
TTGTGATAGTAATATTTTA
Found at i:5152277 original size:57 final size:57
Alignment explanation
Indices: 5152159--5152682 Score: 636
Period size: 57 Copynumber: 8.8 Consensus size: 57
5152149 TCTTGTGTAG
* *
5152159 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAAATATTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC--CAAAAATATTTTTTTGAAATTTATTTCTAA
5152218 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
* * *
5152275 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAGCTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAA-ATTT-ATTTCTAA
* *
5152336 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTGAAA-TTT-ATTTCTAA
* *
5152397 GGAAAATTGATACTTTCAAC-TTTCCCTCAAAAATCTTTTTTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCC-CAAAAA------TATTTTTTTG-AAATTTATTTCTAA
5152461 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTATTTCTAA
** * * *
5152519 AAAAAATGGATATTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAA-TTT-ATTTCTAA
* * **** *
5152579 GGAAAATTGATACTATCAACTTTTCCTCAAAAACCGCTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
*
5152636 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATGTTTTTTGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTGAAA
5152683 ATTTTGATTT
Statistics
Matches: 411, Mismatches: 36, Indels: 37
0.85 0.07 0.08
Matches are distributed among these distances:
57 98 0.24
58 69 0.17
59 57 0.14
60 42 0.10
61 92 0.22
64 32 0.08
65 17 0.04
66 3 0.01
67 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
Found at i:5152418 original size:32 final size:32
Alignment explanation
Indices: 5152323--5152419 Score: 80
Period size: 32 Copynumber: 3.1 Consensus size: 32
5152313 TTTTTTGAAG
5152323 CTTTGATTTCCAAGGAAAATTGATACTTTCAA
1 CTTTGATTTCCAAGGAAAATTGATACTTTCAA
* * ** *
5152355 C-TT--TTCCTCAA--AAATATT-TTTTTTTGAAA
1 CTTTGATTTC-CAAGGAAA-ATTGATACTTT-CAA
5152384 CTTTGATTTCCAAGGAAAATTGATACTTTCAA
1 CTTTGATTTCCAAGGAAAATTGATACTTTCAA
5152416 CTTT
1 CTTT
5152420 CCCTCAAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 18
0.62 0.14 0.24
Matches are distributed among these distances:
28 7 0.15
29 9 0.20
30 5 0.11
31 5 0.11
32 13 0.28
33 7 0.15
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (32 bp):
CTTTGATTTCCAAGGAAAATTGATACTTTCAA
Found at i:5152582 original size:243 final size:236
Alignment explanation
Indices: 5152159--5152678 Score: 769
Period size: 243 Copynumber: 2.2 Consensus size: 236
5152149 TCTTGTGTAG
** *
5152159 GGAAAATTGATACTTTCAACTTTTCCCTAAAAA--AATATTTTTTTGAAATTTATTTTTAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTTTTTGAAATTTATTTTTAAGGAA
** *
5152222 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAAGGAAAATTGATA
66 AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAAAAAAAATGGATA
* * *
5152287 CTTTCAACTTTTCCTCAAAAATATTTTTTTTTGAAGCTTTGATTTCCAAGGAAAATTGATACTTT
131 CTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGATACTAT
****
5152352 CAACTTTTCCTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
196 CAACTTTTCCTC-AAAA-ACCGCTTTTTGAAA-TTT-ATTTCCAA
5152397 GGAAAATTGATACTTTCAAC-TTTCCCTCAAAAATCTTTTTTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA--TTTTTTTTTTTTTG-AAATTTATTTTTAA
5152461 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTCTAAAAAAAAT
62 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAATTTATTTCTAAAAAAAAT
*
5152526 GGATATTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGAT
126 GGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGAT
**
5152590 ACTATCAACTTTTCCTCAAAAACCGCTTTTTGAAATTTATTTTTAA
191 ACTATCAACTTTTCCTCAAAAACCGCTTTTTGAAATTTATTTCCAA
* *
5152636 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATGTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTT
5152679 GAAAATTTTG
Statistics
Matches: 256, Mismatches: 18, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
237 15 0.06
238 25 0.10
239 31 0.12
240 10 0.04
241 10 0.04
242 13 0.05
243 100 0.39
244 52 0.20
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (236 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATTTTTTTTTTTTTGAAATTTATTTTTAAGGAA
AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAAAAAAAATGGATA
CTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAACTTTGATTTCCAAGGAAAATTGATACTAT
CAACTTTTCCTCAAAAACCGCTTTTTGAAATTTATTTCCAA
Found at i:5152750 original size:6 final size:6
Alignment explanation
Indices: 5152741--5152785 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
5152731 AAGTGAAAAT
* *
5152741 AAATAA AAATAA AAAAACA AAATAA AAAT-A AAATAA AGATAA AAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAA
5152786 GAATATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (6 bp):
AAATAA
Found at i:5152752 original size:30 final size:29
Alignment explanation
Indices: 5152702--5152785 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 29
5152692 TTTATTTAAA
* *
5152702 GAAAATAGAATAATAAAATAAAAAAATGAAAGT
1 GAAAATA-AAT-A-AAAATAAAAAAA-CAAAAT
5152735 GAAAATAAATAAAAATAAAAAAACAAAAT
1 GAAAATAAATAAAAATAAAAAAACAAAAT
* *
5152764 AAAAATAAAATAAAGATAAAAA
1 GAAAAT-AAATAAAAATAAAAA
5152786 GAATATTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 9 0.20
30 26 0.57
31 1 0.02
32 3 0.07
33 7 0.15
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.15
Consensus pattern (29 bp):
GAAAATAAATAAAAATAAAAAAACAAAAT
Found at i:5153621 original size:21 final size:22
Alignment explanation
Indices: 5153597--5153641 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
5153587 AAAACTAGAT
5153597 AATTA-GAAAAGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
* * *
5153618 AATTATTATAGGATAAATAAAA
1 AATTATGAAAAGATAAATAAAA
5153640 AA
1 AA
5153642 GAAATAACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (22 bp):
AATTATGAAAAGATAAATAAAA
Found at i:5153693 original size:17 final size:17
Alignment explanation
Indices: 5153664--5153722 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
5153654 ATATAATTAG
*
5153664 ATAAATAAAAATACAAAA
1 ATAAAT-AAAATATAAAA
5153682 ATAAATAAAATATAAAA
1 ATAAATAAAATATAAAA
*
5153699 AT-AATAATAATATAATA
1 ATAAATAA-AATATAAAA
5153716 ATAAATA
1 ATAAATA
5153723 TATAACTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.14
17 22 0.59
18 10 0.27
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
ATAAATAAAATATAAAA
Found at i:5153713 original size:8 final size:8
Alignment explanation
Indices: 5153681--5153743 Score: 55
Period size: 8 Copynumber: 8.1 Consensus size: 8
5153671 AAAATACAAA
5153681 AATAA-AT
1 AATAATAT
5153688 AA-AATAT
1 AATAATAT
*
5153695 AAAAATAAT
1 AATAAT-AT
5153704 AATAATAT
1 AATAATAT
5153712 AATAATA-
1 AATAATAT
5153719 AAT-ATAT
1 AATAATAT
5153726 AACT-ATAT
1 AA-TAATAT
5153734 AAATAATAT
1 -AATAATAT
5153743 A
1 A
5153744 CATATAAATC
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
6 5 0.10
7 11 0.23
8 19 0.40
9 13 0.27
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (8 bp):
AATAATAT
Found at i:5153720 original size:48 final size:49
Alignment explanation
Indices: 5153667--5153834 Score: 141
Period size: 48 Copynumber: 3.4 Consensus size: 49
5153657 TAATTAGATA
* *
5153667 AATAAAAATACAA-AAATAAATAAAATATAAAAATAATAATAATATAAT
1 AATAAAAATACAATAAATAAATAAAATATACATATAATAATAATATAAT
* * * * * *
5153715 AATAAATATATAACTATATAAAT--AATATACATATAA-ATCTATTCTAAAT
1 AATAAAAATACAA-TAAATAAATAAAATATACATATAATA-ATAATAT-AAT
*
5153764 AATAAAAAATA-AATAAATAAATACAAATATACATATATTAATACATAATAAT
1 AAT-AAAAATACAATAAATAAATA-AAATATACATATAATAATA-AT-ATAAT
5153816 AATAATAAATAC-ATAAATA
1 AATAA-AAATACAATAAATA
5153835 CAAAAGAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
47 1 0.01
48 34 0.37
49 8 0.09
50 13 0.14
51 16 0.17
52 20 0.22
53 1 0.01
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (49 bp):
AATAAAAATACAATAAATAAATAAAATATACATATAATAATAATATAAT
Found at i:5153750 original size:15 final size:15
Alignment explanation
Indices: 5153704--5153752 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
5153694 TAAAAATAAT
5153704 AATAATATA-ATAATA
1 AATAATATACAT-ATA
5153719 AAT-ATATAACTATATA
1 AATAATAT-AC-ATATA
5153735 AATAATATACATATA
1 AATAATATACATATA
5153750 AAT
1 AAT
5153753 CTATTCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 8 0.27
17 6 0.20
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATACATATA
Found at i:5153822 original size:9 final size:10
Alignment explanation
Indices: 5153783--5153831 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
5153773 TAAATAAATA
5153783 AATACA-AAT
1 AATACATAAT
5153792 -ATACATATATT
1 AATACATA-A-T
5153803 AATACATAAT
1 AATACATAAT
5153813 AATA-ATAAT
1 AATACATAAT
5153822 AAATACATAA
1 -AATACATAA
5153832 ATACAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
8 5 0.15
9 6 0.18
10 10 0.29
11 6 0.18
12 7 0.21
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
AATACATAAT
Found at i:5153826 original size:20 final size:20
Alignment explanation
Indices: 5153779--5153836 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
5153769 AAAATAAATA
5153779 AATAAATACA-AATATACAT
1 AATAAATACATAATATACAT
*
5153798 ATATTAATACATAATAATA-AT
1 A-ATAAATACATAAT-ATACAT
5153819 AATAAATACATAA-ATACA
1 AATAAATACATAATATACA
5153837 AAAGAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 19 0.58
21 6 0.18
22 3 0.09
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAATACATAATATACAT
Found at i:5159073 original size:20 final size:20
Alignment explanation
Indices: 5159054--5159120 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
5159044 TCTTATTTAT
**
5159054 TTATTTATTGCTAT-TATTA
1 TTATTTATTAATATATATTA
*
5159073 TTATTTATTAATATATATTT
1 TTATTTATTAATATATATTA
*
5159093 TTATCTATTAATATATATTA
1 TTATTTATTAATATATATTA
5159113 TTATTTAT
1 TTATTTAT
5159121 CTATTAATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 12 0.29
20 29 0.71
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (20 bp):
TTATTTATTAATATATATTA
Found at i:5159110 original size:24 final size:25
Alignment explanation
Indices: 5159083--5159198 Score: 136
Period size: 24 Copynumber: 4.8 Consensus size: 25
5159073 TTATTTATTA
5159083 ATATATATT-TTTATCTATTAATAT
1 ATATATATTATTTATCTATTAATAT
*
5159107 ATAT-TATTATTTATCTATTAATGT
1 ATATATATTATTTATCTATTAATAT
*
5159131 ATATAAATT-TTTAT-TATTAACTAT
1 ATATATATTATTTATCTATTAA-TAT
* *
5159155 -TATCTATTATTTATCTATTAGTAT
1 ATATATATTATTTATCTATTAATAT
*
5159179 ATATAT-TTATTTATTTATTA
1 ATATATATTATTTATCTATTA
5159199 TTTATCTATT
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
23 16 0.21
24 50 0.64
25 12 0.15
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
ATATATATTATTTATCTATTAATAT
Found at i:5159144 original size:28 final size:24
Alignment explanation
Indices: 5159065--5159198 Score: 124
Period size: 24 Copynumber: 5.8 Consensus size: 24
5159055 TATTTATTGC
*
5159065 TATTATTA-TTATTTATT-A-ATA
1 TATTATTATTTATCTATTAATATA
5159086 TA-TATT-TTTATCTATTAATATA
1 TATTATTATTTATCTATTAATATA
*
5159108 TATTATTATTTATCTATTAATGTA
1 TATTATTATTTATCTATTAATATA
*
5159132 TATAAATT-TTTAT-TATTAACTAT-
1 TAT-TATTATTTATCTATTAA-TATA
*
5159155 TATCTATTATTTATCTATTAGTATA
1 TAT-TATTATTTATCTATTAATATA
*
5159180 TA-TATTTATTTATTTATTA
1 TATTA-TTATTTATCTATTA
5159199 TTTATCTATT
Statistics
Matches: 94, Mismatches: 8, Indels: 19
0.78 0.07 0.16
Matches are distributed among these distances:
20 12 0.13
21 3 0.03
22 5 0.05
23 18 0.19
24 46 0.49
25 10 0.11
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (24 bp):
TATTATTATTTATCTATTAATATA
Found at i:5159144 original size:48 final size:45
Alignment explanation
Indices: 5159065--5159186 Score: 146
Period size: 48 Copynumber: 2.7 Consensus size: 45
5159055 TATTTATTGC
*
5159065 TATTATTA-TTATTTATTAA-TATAT-ATTTTTATCTATTAA-TAT
1 TATTATTATTTATCTATTAAGTATATAATTTTTAT-TATTAACTAT
5159107 ATATTATTATTTATCTATTAATGTATATAAATTTTTATTATTAACTAT
1 -TATTATTATTTATCTATTAA-GTATAT-AATTTTTATTATTAACTAT
5159155 TATCTATTATTTATCTATT-AGTATATATATTT
1 TAT-TATTATTTATCTATTAAGTATATA-ATTT
5159187 ATTTATTTAT
Statistics
Matches: 70, Mismatches: 1, Indels: 13
0.83 0.01 0.15
Matches are distributed among these distances:
43 8 0.11
44 10 0.14
45 1 0.01
46 15 0.21
47 10 0.14
48 26 0.37
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (45 bp):
TATTATTATTTATCTATTAAGTATATAATTTTTATTATTAACTAT
Found at i:5159476 original size:21 final size:21
Alignment explanation
Indices: 5159446--5159490 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5159436 TAGATACAGC
5159446 TTTAGGAATTTGTGAGAATTTT
1 TTTAGGAATTTGTGA-AATTTT
* *
5159468 TTTA-GAATTTTTGAAGTTTT
1 TTTAGGAATTTGTGAAATTTT
5159488 TTT
1 TTT
5159491 CTGGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 9 0.43
22 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (21 bp):
TTTAGGAATTTGTGAAATTTT
Found at i:5159961 original size:3 final size:3
Alignment explanation
Indices: 5159955--5159995 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
5159945 TTTTTTTTTC
5159955 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5159996 TATTGATTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5160046 original size:6 final size:6
Alignment explanation
Indices: 5160021--5160104 Score: 84
Period size: 6 Copynumber: 13.8 Consensus size: 6
5160011 AATTATTTAG
* *
5160021 TATTCTT TA-TTT TA-TTT TATTTT TATTTT TACTTT TATTTT GATTTT
1 TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
*
5160068 TATTTT TATTTT GTTTTCTT TATTTT TGA-TTT TATTT
1 TATTTT TATTTT -TATT-TT TATTTT T-ATTTT TATTT
5160105 AAATAAAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
5 10 0.15
6 45 0.68
7 9 0.14
8 2 0.03
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:5160157 original size:57 final size:59
Alignment explanation
Indices: 5160096--5160216 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 59
5160086 TTTATTTTTG
*
5160096 ATTTTATTTAAATAA-AATTCCAAAAAAAATATTT-TTGAGGAAAAGTTGAAAGTATCA
1 ATTTTATTGAAATAAGAATTCCAAAAAAAATATTTATTGAGGAAAAGTTGAAAGTATCA
* ** ** * *
5160153 ATTTTCTTGAAATAAGTTTTCTTAAAAAACTATTTATTGAGGAAAAGTTGAAAGTATTA
1 ATTTTATTGAAATAAGAATTCCAAAAAAAATATTTATTGAGGAAAAGTTGAAAGTATCA
5160212 ATTTT
1 ATTTT
5160217 CCTTGAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
57 13 0.24
58 14 0.26
59 27 0.50
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (59 bp):
ATTTTATTGAAATAAGAATTCCAAAAAAAATATTTATTGAGGAAAAGTTGAAAGTATCA
Found at i:5160270 original size:57 final size:58
Alignment explanation
Indices: 5160119--5160296 Score: 240
Period size: 57 Copynumber: 3.1 Consensus size: 58
5160109 AAAATTCCAA
*
5160119 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTG-AAATAAGTTTTCTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGTTTTC-T
5160176 AAAAAACTATTTATTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGTTTTCT
1 AAAAAA-TATTT-TTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGTTTTCT
* * *
5160236 AAAAAATA-TTTTGGGGAAAAAG-TGAAAGTGTTAATTTTCTTTTGAAAATAA-TTTTCT
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATTAATTTTC-CTTGAAAATAAGTTTTCT
5160293 AAAA
1 AAAA
5160297 GGGTTTTTTT
Statistics
Matches: 111, Mismatches: 4, Indels: 12
0.87 0.03 0.09
Matches are distributed among these distances:
57 37 0.33
58 22 0.20
59 29 0.26
60 11 0.10
61 12 0.11
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.39
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAGTTTTCT
Found at i:5163196 original size:51 final size:52
Alignment explanation
Indices: 5163109--5163234 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 52
5163099 TGGATAAGAA
* * *
5163109 GACTTGCAAAAGAAAAATTCT-AAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTT-CAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGTAAGTTT
5163161 GACTTCAAGAGAAGAATTCTAAAAAGAAAGA-GATTCTTAATAGGTAAGTTT
1 GACTTCAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGTAAGTTT
5163212 GACTT-ACAGAAGAAGAATTCTAA
1 GACTTCA-AG-AGAAGAATTCTAA
5163235 GAGGAAAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
50 1 0.01
51 40 0.59
52 27 0.40
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (52 bp):
GACTTCAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGTAAGTTT
Found at i:5163253 original size:52 final size:49
Alignment explanation
Indices: 5163117--5163264 Score: 172
Period size: 51 Copynumber: 2.9 Consensus size: 49
5163107 AAGACTTGCA
* *
5163117 AAAGAAAAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTTTGACTTC
1 AAAGAAGAATTCTAAGAGAAA-AGAATTCTTAATAGGTAAGTTTGACTTC
*
5163167 AAGAGAAGAATTCTAA-AAAGAAAGAGATTCTTAATAGGTAAGTTTGACTTAC
1 AA-AGAAGAATTCTAAGAGA-AAAGA-ATTCTTAATAGGTAAGTTTGACTT-C
* * *
5163219 AGAAGAAGAATTCTAAGAGGAAAAGAATTTTTAATGGGCAAGTTTG
1 A-AAGAAGAATTCTAAGA-GAAAAGAATTCTTAATAGGTAAGTTTG
5163265 TATGGTTATA
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
50 6 0.07
51 38 0.45
52 32 0.38
53 7 0.08
54 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.27
Consensus pattern (49 bp):
AAAGAAGAATTCTAAGAGAAAAGAATTCTTAATAGGTAAGTTTGACTTC
Found at i:5164138 original size:11 final size:11
Alignment explanation
Indices: 5164110--5164152 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
5164100 AAATCCCATA
*
5164110 AGAGATTTATT
1 AGAGATTTGTT
* *
5164121 TGTGATTTGTT
1 AGAGATTTGTT
5164132 AGAGATTTGTT
1 AGAGATTTGTT
*
5164143 TGAGATTTGT
1 AGAGATTTGT
5164153 CAGATATTGC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:5164138 original size:22 final size:22
Alignment explanation
Indices: 5164110--5164152 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5164100 AAATCCCATA
*
5164110 AGAGATTTATTTGTGATTTGTT
1 AGAGATTTATTTGAGATTTGTT
*
5164132 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTATTTGAGATTTGT
5164153 CAGATATTGC
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:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:5164265 original size:52 final size:52
Alignment explanation
Indices: 5164177--5164285 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 52
5164167 CGGACAAGAA
* *
5164177 GACTTGCAAAAGAAGAATTATAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTATAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
* *
5164229 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGA-GATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAGAATTAT-AAAAGAAAGAGGATTCTTAATAGGCAAGTTT
5164281 GACTT
1 GACTT
5164286 ACAGGAGAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 43 0.83
53 9 0.17
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTATAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:5164301 original size:52 final size:53
Alignment explanation
Indices: 5164177--5164332 Score: 158
Period size: 52 Copynumber: 3.0 Consensus size: 53
5164167 CGGACAAGAA
* * * * *
5164177 GACTTGCAAAAGAAGAATTAT-AAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
*
5164229 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGA-GATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
* * * ** * *
5164281 GACTTACAGGAGAGGGATTCTACGAGGAGAG-GGATTCTTAAT-GGACAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGG-CAAGTTT
5164333 ATATGGTTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
51 2 0.02
52 78 0.88
53 9 0.10
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (53 bp):
GACTTACAAGAGAAGAATTCTAAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:5165757 original size:24 final size:24
Alignment explanation
Indices: 5165697--5165777 Score: 94
Period size: 26 Copynumber: 3.4 Consensus size: 24
5165687 AATTCACATA
*
5165697 TATATAAAAATTAAAAATAAAAGTTA
1 TATATAAAAATTAAAAAT-AAA-TTT
*
5165723 TATATATAAATTAAAAATAAATTT
1 TATATAAAAATTAAAAATAAATTT
* *
5165747 TATATAAAAA-TAAAAATTAAGTT
1 TATATAAAAATTAAAAATAAATTT
5165770 TA-ATAAAA
1 TATATAAAA
5165778 TATATATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
22 6 0.12
23 13 0.26
24 11 0.22
25 3 0.06
26 17 0.34
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TATATAAAAATTAAAAATAAATTT
Found at i:5170221 original size:43 final size:43
Alignment explanation
Indices: 5170156--5170395 Score: 259
Period size: 43 Copynumber: 5.6 Consensus size: 43
5170146 ATTGTCGAGC
5170156 AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGAGG
1 AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGAGG
* * * * * *
5170199 AGCTTTATTTATTTTTCAAAGTTAGTTGAGCATCTGTTTAAAGG
1 AGCCTTATTTACTTTTCAAAGTT-GTTAAGCCTTTGTTTAGAGG
* * * *
5170243 A-CCTTATTTACTTTTCAAAATTATTAAGCCTCTATTTAGAGG
1 AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGAGG
** * * *
5170285 AGCCTTATTTACTTTTCAAAAGTCATTGAGTCTTTGTTTAGAAG
1 AGCCTTATTTACTTTTC-AAAGTTGTTAAGCCTTTGTTTAGAGG
* * * *
5170329 AGCCTTATTTATTTTTCAAAGTCG-TAAGCCTTTGTTTAAATG
1 AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGAGG
* *
5170371 AGCCTTATTTATTTTTAAAAGTTGT
1 AGCCTTATTTACTTTTCAAAGTTGT
5170396 AAATAGAGGC
Statistics
Matches: 164, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 52 0.32
43 60 0.37
44 52 0.32
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (43 bp):
AGCCTTATTTACTTTTCAAAGTTGTTAAGCCTTTGTTTAGAGG
Found at i:5170408 original size:32 final size:30
Alignment explanation
Indices: 5170365--5170427 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 30
5170355 AGCCTTTGTT
5170365 TAAATGAGCCTTATTTATTTTTAAAAGTTG
1 TAAATGAGCCTTATTTATTTTTAAAAGTTG
*
5170395 TAAATAGAGGCCTTATTTATTTTTCAAAGTTG
1 TAAAT-GA-GCCTTATTTATTTTTAAAAGTTG
5170427 T
1 T
5170428 TGAACCTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 2 0.07
32 23 0.77
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (30 bp):
TAAATGAGCCTTATTTATTTTTAAAAGTTG
Found at i:5170522 original size:44 final size:44
Alignment explanation
Indices: 5170404--5170522 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 44
5170394 GTAAATAGAG
*
5170404 GCCTTATTTATTTTTC-AAAGTTGTTGAA-CCTCTATTTAGATGA
1 GCCTTATTTA-TTTTCAAAAGTTGTTGAAGCCTCTACTTAGATGA
* * * *
5170447 GCCTTATTTATGTTTCAGAAGTGGTTG-AGCCTCTGCTTATATGA
1 GCCTTATTTAT-TTTCAAAAGTTGTTGAAGCCTCTACTTAGATGA
*
5170491 GCTTTATTTATTTCTCAAAAGTTG-TGAAGCCT
1 GCCTTATTTATTT-TCAAAAGTTGTTGAAGCCT
5170523 TTGTTTAGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
42 1 0.02
43 19 0.30
44 43 0.68
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (44 bp):
GCCTTATTTATTTTCAAAAGTTGTTGAAGCCTCTACTTAGATGA
Found at i:5172134 original size:28 final size:28
Alignment explanation
Indices: 5172103--5172191 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
5172093 TTTTTTTTCT
*
5172103 AAATAGACCTAAATAGTTAAAATTTTAG
1 AAATAGACCTAAATAGTAAAAATTTTAG
* * *
5172131 AAATAAAACTTATAAAAAG-AAAAATTTT--
1 AAAT-AGAC--CTAAATAGTAAAAATTTTAG
* * *
5172159 AAATAGACCCAAATGGTGAAAATTTTAG
1 AAATAGACCTAAATAGTAAAAATTTTAG
5172187 AAATA
1 AAATA
5172192 AAATAAAATA
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
25 4 0.09
26 8 0.18
27 3 0.07
28 13 0.29
29 3 0.07
30 8 0.18
31 6 0.13
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (28 bp):
AAATAGACCTAAATAGTAAAAATTTTAG
Found at i:5174148 original size:13 final size:13
Alignment explanation
Indices: 5174132--5174178 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
5174122 TCACATATAT
5174132 ATAAAAATTAAAA
1 ATAAAAATTAAAA
**
5174145 ATAAAAATTATATGT
1 ATAAAAATTA-A-AA
5174160 ATAAAAATTAAAA
1 ATAAAAATTAAAA
5174173 ATAAAA
1 ATAAAA
5174179 TTTATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 16 0.57
14 2 0.07
15 10 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
ATAAAAATTAAAA
Found at i:5174157 original size:28 final size:28
Alignment explanation
Indices: 5174126--5174186 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
5174116 TTCAATTCAC
5174126 ATATATATAAAAATTAAAAATAAAAATT
1 ATATATATAAAAATTAAAAATAAAAATT
* *
5174154 ATATGTATAAAAATTAAAAATAAAATTT
1 ATATATATAAAAATTAAAAATAAAAATT
5174182 ATATA
1 ATATA
5174187 AAAGTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
ATATATATAAAAATTAAAAATAAAAATT
Found at i:5174184 original size:22 final size:21
Alignment explanation
Indices: 5174140--5174195 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
5174130 ATATAAAAAT
* *
5174140 TAAAAATAAAAATTATATGTA
1 TAAAAATAAAAATAAAATGTA
*
5174161 TAAAAATTAAAAATAAAATTTA
1 TAAAAA-TAAAAATAAAATGTA
5174183 TATAAAAGTAAAA
1 TA-AAAA-TAAAA
5174196 TTTGAGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.21
22 14 0.48
23 9 0.31
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (21 bp):
TAAAAATAAAAATAAAATGTA
Found at i:5178216 original size:43 final size:43
Alignment explanation
Indices: 5178155--5178236 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
5178145 CAAATATTGA
5178155 TTTTAGTCCAACAAATTTAAAATTCAAATATT-ATCACTATAAC
1 TTTTAGTCCAACAAATTTAAAATTCAAAT-TTCATCACTATAAC
* * *
5178198 TTTTAGTCGAATAAATTTAAAATTTAAATTTCATCACTA
1 TTTTAGTCCAACAAATTTAAAATTCAAATTTCATCACTA
5178237 CAGTATCTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (43 bp):
TTTTAGTCCAACAAATTTAAAATTCAAATTTCATCACTATAAC
Found at i:5179550 original size:2 final size:2
Alignment explanation
Indices: 5179543--5179593 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
5179533 TTAAACAAAA
5179543 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5179585 AG AG AG AG A
1 AG AG AG AG A
5179594 AAGCATGTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5183928 original size:14 final size:14
Alignment explanation
Indices: 5183909--5183935 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5183899 ATAAAATGTA
5183909 AATAAATAATAAAT
1 AATAAATAATAAAT
5183923 AATAAATAATAAA
1 AATAAATAATAAA
5183936 AAAAATGCAA
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):
AATAAATAATAAAT
Done.