Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 44 of 127
Found at i:8819315 original size:21 final size:21
Alignment explanation
Indices: 8819289--8819339 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
8819279 TCGGTCATAG
* *
8819289 TAAAATTAATTACTGTAATAA
1 TAAAATTAAGTACTATAATAA
* *
8819310 TAAAATTGAGTATTATAATAA
1 TAAAATTAAGTACTATAATAA
8819331 TAAAATTAA
1 TAAAATTAA
8819340 ATCAATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (21 bp):
TAAAATTAAGTACTATAATAA
Found at i:8820046 original size:16 final size:17
Alignment explanation
Indices: 8820025--8820057 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8820015 TATTTGATAC
8820025 AATA-TTATAAATCACT
1 AATATTTATAAATCACT
*
8820041 AATATTTTTAAATCACT
1 AATATTTATAAATCACT
8820058 TTTTTAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATTTATAAATCACT
Found at i:8823562 original size:16 final size:16
Alignment explanation
Indices: 8823541--8823571 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8823531 AATTACAAAG
*
8823541 AAAAGAATAAATTGTT
1 AAAAGAAAAAATTGTT
8823557 AAAAGAAAAAATTGT
1 AAAAGAAAAAATTGT
8823572 GAAATTAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (16 bp):
AAAAGAAAAAATTGTT
Found at i:8825204 original size:125 final size:125
Alignment explanation
Indices: 8824982--8825229 Score: 408
Period size: 125 Copynumber: 2.0 Consensus size: 125
8824972 TGGTGATCTA
**
8824982 TTGAAACCATTAAAAACTTGAAATACAACCTTTAGTTGATCAACACACCTTTTAGCCGATCGATA
1 TTGAAACCATTAAAAACTCAAAATACAACCTTTAGTTGATCAACACACCTTTTAGCCGATCGATA
* *
8825047 TTAGGCTACTTAAATCTCTTTTGCCTTTATTTCACCAATTATTTTCACTCGAACACTAGG
66 TTAGGCTACTTAAATCTCTTTTACCTTTATTTCACCAATTATTCTCACTCGAACACTAGG
* *
8825107 TTGAAACTATTAAAAACTCAAAATATAACCTTTAGTTGATCAACACACCTTTTAGCCGATC-AGT
1 TTGAAACCATTAAAAACTCAAAATACAACCTTTAGTTGATCAACACACCTTTTAGCCGATCGA-T
* *
8825171 ATTAGGCTACTTGAATCTCTTTTACCTTTATTTCACCAATTATTCTCACTCTAACACTA
65 ATTAGGCTACTTAAATCTCTTTTACCTTTATTTCACCAATTATTCTCACTCGAACACTA
8825230 AGCCCTTTCC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
124 1 0.01
125 113 0.99
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.36
Consensus pattern (125 bp):
TTGAAACCATTAAAAACTCAAAATACAACCTTTAGTTGATCAACACACCTTTTAGCCGATCGATA
TTAGGCTACTTAAATCTCTTTTACCTTTATTTCACCAATTATTCTCACTCGAACACTAGG
Found at i:8829126 original size:92 final size:92
Alignment explanation
Indices: 8828965--8829235 Score: 457
Period size: 92 Copynumber: 3.0 Consensus size: 92
8828955 ATGCTTCTAA
8828965 ACAACTACAACCAAATAAACCTTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
1 ACAACTACAACCAAATAAACCTTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
8829030 AAACACTTTCATATGTCTAAAGAAGCT
66 AAACACTTTCATATGTCTAAAGAAGCT
* * *
8829057 ACAACTACAACCAAATAAACATTACCTTAAAGAAAGCTCTATCTCATCTTTCAAAGAGCCCCATT
1 ACAACTACAACCAAATAAACCTTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
8829122 AAACACTTTCATATGTCT----AA---
66 AAACACTTTCATATGTCTAAAGAAGCT
8829142 ACAACTACAACCAAATAAACCTTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
1 ACAACTACAACCAAATAAACCTTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
*
8829207 AAACACTTTCGTATGTCTAAAGAAGCT
66 AAACACTTTCATATGTCTAAAGAAGCT
8829234 AC
1 AC
8829236 CACCCTCCTT
Statistics
Matches: 165, Mismatches: 7, Indels: 14
0.89 0.04 0.08
Matches are distributed among these distances:
85 79 0.48
88 2 0.01
89 2 0.01
92 82 0.50
ACGTcount: A:0.40, C:0.28, G:0.07, T:0.25
Consensus pattern (92 bp):
ACAACTACAACCAAATAAACCTTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
AAACACTTTCATATGTCTAAAGAAGCT
Found at i:8829167 original size:85 final size:85
Alignment explanation
Indices: 8829057--8829227 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
8829047 TAAAGAAGCT
* *
8829057 ACAACTACAACCAAATAAACATTACCTTAAAGAAAGCTCTATCTCATCTTTCAAAGAGCCCCATT
1 ACAACTACAACCAAATAAACATTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
8829122 AAACACTTTCATATGTCTAA
66 AAACACTTTCATATGTCTAA
*
8829142 ACAACTACAACCAAATAAACCTTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
1 ACAACTACAACCAAATAAACATTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
*
8829207 AAACACTTTCGTATGTCTAA
66 AAACACTTTCATATGTCTAA
8829227 A
1 A
8829228 GAAGCTACCA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.26
Consensus pattern (85 bp):
ACAACTACAACCAAATAAACATTACCTTAAAGAAAGCTCTATCTCATCCTTCAAAGAGCCCCATC
AAACACTTTCATATGTCTAA
Found at i:8836722 original size:16 final size:17
Alignment explanation
Indices: 8836691--8836726 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
8836681 AATCGATTAA
8836691 ATAATTAATTATTACATC
1 ATAATTAA-TATTACATC
8836709 ATAATTAA-ATTACATC
1 ATAATTAATATTACATC
8836725 AT
1 AT
8836727 TAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
18 8 0.44
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAATTAATATTACATC
Found at i:8836759 original size:39 final size:39
Alignment explanation
Indices: 8836680--8836769 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 39
8836670 TACATTTATA
* *
8836680 TAATCGATTAAATAATTAATTATTACATCATAATTAAAT
1 TAATCAATTAAATAATTAATTATCACATCATAATTAAAT
* * *
8836719 TACATC-ATTAAATAATTAATTAATCA-ATTATATTTTAAT
1 TA-ATCAATTAAATAATTAATT-ATCACATCATAATTAAAT
8836758 TAATCAATTAAA
1 TAATCAATTAAA
8836770 CTCATACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
38 3 0.07
39 35 0.80
40 6 0.14
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (39 bp):
TAATCAATTAAATAATTAATTATCACATCATAATTAAAT
Found at i:8843907 original size:12 final size:12
Alignment explanation
Indices: 8843890--8843914 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8843880 ATTAACTTTA
8843890 CATCATATTTTT
1 CATCATATTTTT
8843902 CATCATATTTTT
1 CATCATATTTTT
8843914 C
1 C
8843915 TTAGTGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (12 bp):
CATCATATTTTT
Found at i:8856453 original size:30 final size:30
Alignment explanation
Indices: 8856417--8856496 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
8856407 TTTAAAGGAT
*
8856417 TTATTTAGATACAAATTAAAAATTAATAGC
1 TTATTTAGATACAAATTAAAAATTAATAAC
8856447 TTATTTAGATA-ATAATTAAAAATTAATAAC
1 TTATTTAGATACA-AATTAAAAATTAATAAC
*
8856477 TTATTTGGATACAAATTAAA
1 TTATTTAGATACAAATTAAA
8856497 TGTGAAAGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 1 0.02
30 44 0.96
31 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (30 bp):
TTATTTAGATACAAATTAAAAATTAATAAC
Found at i:8857926 original size:15 final size:15
Alignment explanation
Indices: 8857906--8857952 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
8857896 AAAAATTTTC
*
8857906 AAGAAAGAAAAAAAA
1 AAGAAACAAAAAAAA
*
8857921 AAGAAATAAAATAAAA
1 AAGAAACAAAA-AAAA
*
8857937 TA-AAACAAAAAAAA
1 AAGAAACAAAAAAAA
8857951 AA
1 AA
8857953 TAATGATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 5 0.19
15 17 0.63
16 5 0.19
ACGTcount: A:0.85, C:0.02, G:0.06, T:0.06
Consensus pattern (15 bp):
AAGAAACAAAAAAAA
Found at i:8858191 original size:28 final size:27
Alignment explanation
Indices: 8858157--8858214 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
8858147 TAGAAATTTC
*
8858157 ATTAAAAAGAAAATTAACATAAAACAAA
1 ATTAAAAAGAAAATTAAAATAAAA-AAA
** *
8858185 ATTAAAATTAAAATTAAAATTAAAAAA
1 ATTAAAAAGAAAATTAAAATAAAAAAA
8858212 ATT
1 ATT
8858215 TTAAGGAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (27 bp):
ATTAAAAAGAAAATTAAAATAAAAAAA
Found at i:8858193 original size:6 final size:6
Alignment explanation
Indices: 8858182--8858209 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8858172 AACATAAAAC
8858182 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
8858210 AAATTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:8858275 original size:4 final size:4
Alignment explanation
Indices: 8858260--8858295 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
8858250 TAATAATAAT
*
8858260 AATA AA-A AATA AATA AATA AATA ACTA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA A
8858296 CTTAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:8858296 original size:12 final size:12
Alignment explanation
Indices: 8858257--8858304 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
8858247 TAATAATAAT
8858257 AATAA-TAAA-A
1 AATAACTAAATA
*
8858267 AATAAATAAATA
1 AATAACTAAATA
8858279 AATAACTAAATA
1 AATAACTAAATA
*
8858291 AATAACTTAATA
1 AATAACTAAATA
8858303 AA
1 AA
8858305 AATAAAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 25 0.74
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (12 bp):
AATAACTAAATA
Found at i:8858636 original size:14 final size:14
Alignment explanation
Indices: 8858597--8858641 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
8858587 CTTCAGATGC
8858597 TTTCTTT-CCCTCT
1 TTTCTTTCCCCTCT
*
8858610 GTCTCTCTTCCCCTCT
1 -TTTCT-TTCCCCTCT
8858626 TTTCTTTCCCCTCT
1 TTTCTTTCCCCTCT
8858640 TT
1 TT
8858642 CTAGCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.56
15 6 0.22
16 6 0.22
ACGTcount: A:0.00, C:0.42, G:0.02, T:0.56
Consensus pattern (14 bp):
TTTCTTTCCCCTCT
Found at i:8859092 original size:17 final size:16
Alignment explanation
Indices: 8859070--8859119 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
8859060 TCTCTTAATT
8859070 AATCAAAAAAAAGATAA
1 AATCAAAAAAAA-ATAA
*
8859087 AATCAATAAAAAATAAA
1 AATCAAAAAAAAAT-AA
*
8859104 AATAAAAATAAAAATA
1 AATCAAAA-AAAAATA
8859120 TAATAGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 2 0.07
17 20 0.71
18 6 0.21
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (16 bp):
AATCAAAAAAAAATAA
Found at i:8859106 original size:6 final size:6
Alignment explanation
Indices: 8859095--8859172 Score: 59
Period size: 6 Copynumber: 12.2 Consensus size: 6
8859085 AAAATCAATA
* *
8859095 AAAAAT AAAAAT AAAAAT AAAAAT ATAATAGT ATATAAT AAAAAT AAATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AA-AAT A-AAAAT AAAAAT AAA-AAT
* *
8859147 AAATGAAA AAAAAT AATAA- AAAAAT A
1 AAA--AAT AAAAAT AAAAAT AAAAAT A
8859173 GATACATCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
5 4 0.07
6 33 0.57
7 11 0.19
8 10 0.17
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:8859109 original size:13 final size:13
Alignment explanation
Indices: 8859091--8859167 Score: 52
Period size: 13 Copynumber: 5.7 Consensus size: 13
8859081 AGATAAAATC
8859091 AATAAAAAATAAA
1 AATAAAAAATAAA
8859104 AAT-AAAAATAAA
1 AATAAAAAATAAA
* * *
8859116 AATATAATAGTATAT
1 AATA-AAAAATA-AA
8859131 AAT-AAAAATAAA
1 AATAAAAAATAAA
8859143 TAATAAATGAAA-AAA
1 -AATAAA--AAATAAA
8859158 AATAATAAAA
1 AATAA-AAAA
8859168 AAATAGATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
12 13 0.26
13 14 0.28
14 12 0.24
15 8 0.16
16 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:8859149 original size:7 final size:7
Alignment explanation
Indices: 8859086--8859150 Score: 57
Period size: 6 Copynumber: 9.6 Consensus size: 7
8859076 AAAAAAGATA
8859086 AAATCAAT
1 AAAT-AAT
*
8859094 AAAAAAT
1 AAATAAT
8859101 AAA-AAT
1 AAATAAT
8859107 AAA-AAT
1 AAATAAT
8859113 AAA-AAT
1 AAATAAT
*
8859119 ATAATAGT
1 A-AATAAT
*
8859127 ATATAAT
1 AAATAAT
8859134 AAA-AAT
1 AAATAAT
8859140 AAATAAT
1 AAATAAT
8859147 AAAT
1 AAAT
8859151 GAAAAAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
6 22 0.45
7 21 0.43
8 6 0.12
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (7 bp):
AAATAAT
Found at i:8859781 original size:23 final size:21
Alignment explanation
Indices: 8859734--8859782 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
8859724 AAACAAATTT
** *
8859734 AATTTTAAAAATTAAATTTTG
1 AATTTTAAAAATTAAATACTA
8859755 AATTTTGAAAAATTTAAATACTA
1 AATTTT-AAAAA-TTAAATACTA
8859778 AATTT
1 AATTT
8859783 ATAATATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.26
22 5 0.22
23 12 0.52
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (21 bp):
AATTTTAAAAATTAAATACTA
Found at i:8860922 original size:23 final size:24
Alignment explanation
Indices: 8860892--8860942 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
8860882 TTAATGAAAA
*
8860892 AAAT-TATTTGTAAATAT-TAAAT
1 AAATATATTTATAAATATATAAAT
8860914 AAATATATTTATAAATATATAAAT
1 AAATATATTTATAAATATATAAAT
*
8860938 TAATA
1 AAATA
8860943 GAAATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.16
23 12 0.48
24 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATATATTTATAAATATATAAAT
Found at i:8862775 original size:22 final size:22
Alignment explanation
Indices: 8862750--8862809 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
8862740 TATAATCAGC
* * *
8862750 TAAATCAATATCTAATATTTTT
1 TAAATAAATATCAAATATTCTT
8862772 TAAATAAATATCAAATATTCTT
1 TAAATAAATATCAAATATTCTT
*
8862794 TAAATTAATATCAAAT
1 TAAATAAATATCAAAT
8862810 TAATCCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATAAATATCAAATATTCTT
Found at i:8866701 original size:63 final size:63
Alignment explanation
Indices: 8866602--8866727 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
8866592 TCAAATCACC
* * *
8866602 CAAAATATACATTAATAGAAGAAACAGTGGTGTTAGTGAACCATATAAGAATTTGATAATTCT
1 CAAAATATAAATTAATAAAAGAAACACTGGTGTTAGTGAACCATATAAGAATTTGATAATTCT
* * *
8866665 CAAAATGTAAATTAATAAAAGAAACACTGGTGTTAGTGAACCATGTAAGAATTTGATGATTCT
1 CAAAATATAAATTAATAAAAGAAACACTGGTGTTAGTGAACCATATAAGAATTTGATAATTCT
8866728 TACTTTCCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.30
Consensus pattern (63 bp):
CAAAATATAAATTAATAAAAGAAACACTGGTGTTAGTGAACCATATAAGAATTTGATAATTCT
Found at i:8878056 original size:14 final size:14
Alignment explanation
Indices: 8878037--8878064 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8878027 CGTTATCTGT
8878037 TCATTTAATTAACG
1 TCATTTAATTAACG
8878051 TCATTTAATTAACG
1 TCATTTAATTAACG
8878065 AATCCTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TCATTTAATTAACG
Found at i:8879086 original size:3 final size:3
Alignment explanation
Indices: 8879080--8879106 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8879070 AAAATTCATA
8879080 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
8879107 TTTTGACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8890052 original size:14 final size:14
Alignment explanation
Indices: 8890033--8890066 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8890023 AGTATATGAG
*
8890033 GATTTAGCCTTGGT
1 GATTTAGCCTTGAT
*
8890047 GATTTAGCTTTGAT
1 GATTTAGCCTTGAT
8890061 GATTTA
1 GATTTA
8890067 TTAGTTGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.47
Consensus pattern (14 bp):
GATTTAGCCTTGAT
Found at i:8891614 original size:10 final size:9
Alignment explanation
Indices: 8891565--8891615 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
8891555 TATTTTACTT
*
8891565 AAAAAAATA
1 AAAAAAAGA
8891574 ATAAAAAAGA
1 A-AAAAAAGA
*
8891584 GAAAAAAGA
1 AAAAAAAGA
8891593 TAAAAAAA-A
1 -AAAAAAAGA
8891602 AAAAAGAAGA
1 AAAAA-AAGA
8891612 AAAA
1 AAAA
8891616 CTCAAGGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
8 5 0.14
9 12 0.34
10 18 0.51
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:8891615 original size:16 final size:16
Alignment explanation
Indices: 8891565--8891608 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
8891555 TATTTTACTT
*
8891565 AAAAAAATA-ATAAAA
1 AAAAAAAAAGATAAAA
8891580 AAGAGAAAAAAGATAAAA
1 AA-A-AAAAAAGATAAAA
8891598 AAAAAAAAAGA
1 AAAAAAAAAGA
8891609 AGAAAAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 9 0.36
17 6 0.24
18 8 0.32
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (16 bp):
AAAAAAAAAGATAAAA
Found at i:8891765 original size:11 final size:11
Alignment explanation
Indices: 8891749--8891804 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
8891739 TTGGTTTGAT
8891749 AAAAGAGAAAA
1 AAAAGAGAAAA
*
8891760 AAAAGAGATAA
1 AAAAGAGAAAA
8891771 AAAAGA-AAAA
1 AAAAGAGAAAA
*
8891781 AAGATATAGAAAA
1 AA-A-AGAGAAAA
8891794 CAAAA-AGAAAA
1 -AAAAGAGAAAA
8891805 CTCAATGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 5 0.13
11 23 0.61
12 3 0.08
13 5 0.13
14 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAA
Found at i:8891781 original size:19 final size:19
Alignment explanation
Indices: 8891746--8891799 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
8891736 AAGTTGGTTT
*
8891746 GATAAAAGAGAAAAAAAAGA
1 GATAAAAAAG-AAAAAAAGA
8891766 GATAAAAAAGAAAAAAAGA
1 GATAAAAAAGAAAAAAAGA
* * *
8891785 TATAGAAAACAAAAA
1 GATAAAAAAGAAAAA
8891800 GAAAACTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.07
Consensus pattern (19 bp):
GATAAAAAAGAAAAAAAGA
Found at i:8891907 original size:192 final size:192
Alignment explanation
Indices: 8891565--8891943 Score: 527
Period size: 192 Copynumber: 2.0 Consensus size: 192
8891555 TATTTTACTT
*
8891565 AAAAAAATAATAAAAAAGAGAAAAAAGATAAAAAAAAAAAAAGAAGAAAAACTCAAGGTGAAAAC
1 AAAAAAAGAATAAAAAAGAGAAAAAAGATAAAAAAAAAAAAAGAAGAAAAACTCAAGGTGAAAAC
* * * * *
8891630 CTAACAAGAGTAATTTGAGTTAAAATGGGGCCTAAGTTGAAAACCTAAAAAATAGCTTAAATGTA
66 CTAACAAGAGCAATTTGAGTCAAAATAGGGCCTAAGTTGAAAACCTAAAAAACAACTTAAATGTA
* * *
8891695 AGGATAAAACAACATCATGAAAGTCTCT-CCACACAAGGGCAAAGTTGGTTTGATAAAAGAGA
131 AAGATAAAACAACATCATGAAAGTAT-TACCACACAAAGGCAAAGTTGGTTTGATAAAAGAGA
* * * *
8891757 AAAAAAAGAGATAAAAAAGA-AAAAAAGAT-ATAGAAAACAAA-AAG-AAAACTCAATGTGAAAA
1 AAAAAAAGA-ATAAAAAAGAGAAAAAAGATAAAAAAAAAAAAAGAAGAAAAACTCAAGGTGAAAA
* *
8891818 CCTAACAAG-GCCAATTTGGGTCAAAATAGGGCATCTAAGTTGAAAACCTAAAAAAACAACTTAG
65 CCTAACAAGAG-CAATTTGAGTCAAAATAGGGC--CTAAGTTGAAAACCT-AAAAAACAACTTAA
8891882 ATGTAAAGATAAAACAACATCATGAAAGTATTACCACACAAAGGCAAAGTTGGTTTGATAAA
126 ATGTAAAGATAAAACAACATCATGAAAGTATTACCACACAAAGGCAAAGTTGGTTTGATAAA
8891944 GCTCGCTATG
Statistics
Matches: 166, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
188 1 0.01
189 42 0.25
190 3 0.02
191 25 0.15
192 85 0.51
193 10 0.06
ACGTcount: A:0.55, C:0.11, G:0.16, T:0.18
Consensus pattern (192 bp):
AAAAAAAGAATAAAAAAGAGAAAAAAGATAAAAAAAAAAAAAGAAGAAAAACTCAAGGTGAAAAC
CTAACAAGAGCAATTTGAGTCAAAATAGGGCCTAAGTTGAAAACCTAAAAAACAACTTAAATGTA
AAGATAAAACAACATCATGAAAGTATTACCACACAAAGGCAAAGTTGGTTTGATAAAAGAGA
Found at i:8892944 original size:44 final size:44
Alignment explanation
Indices: 8892892--8892991 Score: 139
Period size: 44 Copynumber: 2.3 Consensus size: 44
8892882 TTATTTTTTC
8892892 AAAGTTTCAAAGCCTCAGTTATGGGAAAGCATGTTATTTTTCAA
1 AAAGTTTCAAAGCCTCAGTTATGGGAAAGCATGTTATTTTTCAA
* * * * * *
8892936 AAAGTTTCAAAGCTTTAGTTTTGGGAGAGTATTTTATTTTTCAA
1 AAAGTTTCAAAGCCTCAGTTATGGGAAAGCATGTTATTTTTCAA
8892980 AAA-TTTCAAAGC
1 AAAGTTTCAAAGC
8892992 TACAGTAGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
43 9 0.18
44 41 0.82
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (44 bp):
AAAGTTTCAAAGCCTCAGTTATGGGAAAGCATGTTATTTTTCAA
Found at i:8893013 original size:43 final size:44
Alignment explanation
Indices: 8892879--8893013 Score: 127
Period size: 44 Copynumber: 3.1 Consensus size: 44
8892869 GAATGATCTC
* *
8892879 ATTTTATTTTTTC--AAAGTTTCAAAGCCT-CAGTTA-TGGGAAAGC
1 ATTTTA-TTTTTCAAAAAGTTTCAAAG-CTACAG-TAGTGGGAGAGA
* ** ** *
8892922 ATGTTATTTTTCAAAAAGTTTCAAAGCTTTAGTTTTGGGAGAGT
1 ATTTTATTTTTCAAAAAGTTTCAAAGCTACAGTAGTGGGAGAGA
*
8892966 ATTTTATTTTTCAAAAA-TTTCAAAGCTACAGTAGTGGGGGAGA
1 ATTTTATTTTTCAAAAAGTTTCAAAGCTACAGTAGTGGGAGAGA
8893009 ATTTT
1 ATTTT
8893014 TCCCAAAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
42 6 0.08
43 33 0.43
44 37 0.49
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (44 bp):
ATTTTATTTTTCAAAAAGTTTCAAAGCTACAGTAGTGGGAGAGA
Found at i:8893336 original size:32 final size:31
Alignment explanation
Indices: 8893287--8893368 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 31
8893277 AACCTTGATG
* *
8893287 TTAATTTCTAACTTTAATTGAGACTTTAATTT
1 TTAATTT-TAATTTTAATTGAGACTTTAATTC
* * * *
8893319 TTAATTTTGATTGTTAATCGAGATTTTGATTC
1 TTAATTTTAATT-TTAATTGAGACTTTAATTC
8893351 TTAATTTTAATTTTAATT
1 TTAATTTTAATTTTAATT
8893369 TTTAAGTGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 8 0.20
32 33 0.80
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.56
Consensus pattern (31 bp):
TTAATTTTAATTTTAATTGAGACTTTAATTC
Found at i:8893363 original size:19 final size:19
Alignment explanation
Indices: 8893312--8893364 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
8893302 AATTGAGACT
*
8893312 TTAATTTTTAATTTTGATTG
1 TTAA-TTTTAATTTTGATTC
**
8893332 TTAA-TCGAGATTTTGATTC
1 TTAATTTTA-ATTTTGATTC
8893351 TTAATTTTAATTTT
1 TTAATTTTAATTTT
8893365 AATTTTTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
18 2 0.08
19 18 0.69
20 6 0.23
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.60
Consensus pattern (19 bp):
TTAATTTTAATTTTGATTC
Found at i:8893408 original size:38 final size:38
Alignment explanation
Indices: 8893308--8893408 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 38
8893298 CTTTAATTGA
*
8893308 GACTTTAATTTTTAATTTTGATTGTTAATCGAGATTTT
1 GACTTTAATTTTTAATTTTGATTTTTAATCGAGATTTT
* * *
8893346 GATTCTTAA-TTTTAATTTTAATTTTTAAGTGGA-ATTTT
1 GACT-TTAATTTTTAATTTTGATTTTTAA-TCGAGATTTT
* *
8893384 GACTTTGATTTTTAATCTTGATTTT
1 GACTTTAATTTTTAATTTTGATTTT
8893409 GTTTTTGTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
37 3 0.06
38 42 0.81
39 7 0.13
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (38 bp):
GACTTTAATTTTTAATTTTGATTTTTAATCGAGATTTT
Found at i:8893473 original size:18 final size:18
Alignment explanation
Indices: 8893445--8893486 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
8893435 AAGAAAAAGA
*
8893445 AAAAAAGGAAGTCCAAAAT
1 AAAAAAGGAAG-ACAAAAT
*
8893464 AAAAAA-GAAGACAAGAT
1 AAAAAAGGAAGACAAAAT
8893481 AAAAAA
1 AAAAAA
8893487 CGTGTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.52
18 4 0.19
19 6 0.29
ACGTcount: A:0.71, C:0.07, G:0.14, T:0.07
Consensus pattern (18 bp):
AAAAAAGGAAGACAAAAT
Found at i:8894283 original size:22 final size:23
Alignment explanation
Indices: 8894241--8894290 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
8894231 TGCTTGATTA
*
8894241 ATTTATTATTGTATGATTATA-T
1 ATTTATTATTGTATGAGTATATT
8894263 ATTTATTATTTGTATG-GTATATT
1 ATTTATTA-TTGTATGAGTATATT
8894286 ATTTA
1 ATTTA
8894291 CATGATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (23 bp):
ATTTATTATTGTATGAGTATATT
Found at i:8894284 original size:58 final size:57
Alignment explanation
Indices: 8894180--8894303 Score: 144
Period size: 58 Copynumber: 2.1 Consensus size: 57
8894170 ATGGTTGATT
* * *
8894180 TTATATGTTATTTTCGTATATTATACATATATATTTTTATGATATATTATTTGCTTGA
1 TTATAT-TTATTTTCGTATATTATACATATATATTTGTATGATATATTATTTACATGA
* * *
8894238 TTA-ATTTATTATT-GTATGATTATATATTTATTATTTGTATGGTATATTATTTACATGA
1 TTATATTTATT-TTCGTAT-ATTATACATATA-TATTTGTATGATATATTATTTACATGA
8894296 TTATATTT
1 TTATATTT
8894304 TAATATTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
56 9 0.16
57 14 0.25
58 29 0.52
59 4 0.07
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (57 bp):
TTATATTTATTTTCGTATATTATACATATATATTTGTATGATATATTATTTACATGA
Found at i:8894378 original size:19 final size:19
Alignment explanation
Indices: 8894335--8894389 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
8894325 CATGTCAATA
8894335 GTATGATTATATTATTGTT
1 GTATGATTATATTATTGTT
*
8894354 GCATGATTATATTAATT-TT
1 GTATGATTATATT-ATTGTT
* *
8894373 TTATGATAATATATATT
1 GTATGATTATAT-TATT
8894390 TATTTACATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 26 0.87
20 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.55
Consensus pattern (19 bp):
GTATGATTATATTATTGTT
Found at i:8894390 original size:19 final size:22
Alignment explanation
Indices: 8894356--8894409 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 22
8894346 TTATTGTTGC
8894356 ATGATT-ATAT-TAATTT-TTT-
1 ATGATTAATATAT-ATTTATTTA
8894375 ATGA-TAATATATATTTATTTA
1 ATGATTAATATATATTTATTTA
8894396 CATGATTAATATAT
1 -ATGATTAATATAT
8894410 TTATTTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
20 4 0.14
22 4 0.14
23 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.54
Consensus pattern (22 bp):
ATGATTAATATATATTTATTTA
Found at i:8894409 original size:21 final size:21
Alignment explanation
Indices: 8894383--8894500 Score: 87
Period size: 21 Copynumber: 5.6 Consensus size: 21
8894373 TTATGATAAT
*
8894383 ATATATTTATTTACATGATTA
1 ATATATTTATTTGCATGATTA
**
8894404 ATATATTTATTTGTGTGACTTA
1 ATATATTTATTTGCATGA-TTA
* ** *
8894426 TTA-ATAAATTTTCATGATTA
1 ATATATTTATTTGCATGATTA
* ** *
8894446 ATATATTTGTTTGTGTGATTC
1 ATATATTTATTTGCATGATTA
* *
8894467 AT-TAATATAGTTGCATGATTA
1 ATAT-ATTTATTTGCATGATTA
8894488 ATATATTTATTTG
1 ATATATTTATTTG
8894501 TGTGATTTAT
Statistics
Matches: 68, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
20 6 0.09
21 56 0.82
22 6 0.09
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (21 bp):
ATATATTTATTTGCATGATTA
Found at i:8894444 original size:42 final size:41
Alignment explanation
Indices: 8894390--8894521 Score: 192
Period size: 42 Copynumber: 3.1 Consensus size: 41
8894380 AATATATATT
8894390 TATTTACATGATTAATATATTTATTTGTGTGACTTATTAATA
1 TATTTACATGATTAATATATTTATTTGTGTGA-TTATTAATA
* * *
8894432 AATTTTCATGATTAATATATTTGTTTGTGTGATTCATTAATA
1 TATTTACATGATTAATATATTTATTTGTGTGATT-ATTAATA
* *
8894474 TAGTTGCATGATTAATATATTTATTTGTGTGATTTATTAATA
1 TATTTACATGATTAATATATTTATTTGTGTGA-TTATTAATA
8894516 TATTTA
1 TATTTA
8894522 ATTACATAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.03
42 75 0.95
43 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53
Consensus pattern (41 bp):
TATTTACATGATTAATATATTTATTTGTGTGATTATTAATA
Found at i:8894506 original size:21 final size:21
Alignment explanation
Indices: 8894374--8894557 Score: 86
Period size: 21 Copynumber: 8.4 Consensus size: 21
8894364 ATTAATTTTT
* *
8894374 TATGATAATATATATTTATTTA
1 TATGATTA-ATATATTTATTTG
*
8894396 CATGATTAATATATTTATTTG
1 TATGATTAATATATTTATTTG
* * **
8894417 TGTGACTTATTA-ATAAATTT-
1 TATGA-TTAATATATTTATTTG
*
8894437 TCATGATTAATATATTTGTTTG
1 T-ATGATTAATATATTTATTTG
* * * *
8894459 TGTGATTCAT-TAATATAGTTG
1 TATGATTAATAT-ATTTATTTG
*
8894480 CATGATTAATATATTTATTTGTG
1 TATGATTAATATATTTA-TT-TG
* **
8894503 TGATTTATTAATATATTTAATTACA
1 T-A-TGATTAATATATTT-ATT-TG
* *
8894528 TAATTATCAATATATTTATTTG
1 T-ATGATTAATATATTTATTTG
8894550 TATGATTA
1 TATGATTA
8894558 TATTTAATTT
Statistics
Matches: 117, Mismatches: 34, Indels: 23
0.67 0.20 0.13
Matches are distributed among these distances:
20 7 0.06
21 58 0.50
22 15 0.13
23 5 0.04
24 14 0.12
25 17 0.15
26 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.10, T:0.52
Consensus pattern (21 bp):
TATGATTAATATATTTATTTG
Found at i:8894557 original size:24 final size:24
Alignment explanation
Indices: 8894487--8894558 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
8894477 TTGCATGATT
* *
8894487 AATATATTTATTTGTGTGATTTATT
1 AATATATTTATTTGTATGA-TTATC
* ** *
8894512 AATATATTTAATTACATAATTATC
1 AATATATTTATTTGTATGATTATC
8894536 AATATATTTATTTGTATGATTAT
1 AATATATTTATTTGTATGATTAT
8894559 ATTTAATTTG
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 23 0.62
25 14 0.38
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (24 bp):
AATATATTTATTTGTATGATTATC
Found at i:8894632 original size:17 final size:17
Alignment explanation
Indices: 8894610--8894643 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8894600 GATTATTATC
8894610 TATTT-ATTGGCATGATT
1 TATTTAATT-GCATGATT
8894627 TATTTAATTGCATGATT
1 TATTTAATTGCATGATT
8894644 ATTAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (17 bp):
TATTTAATTGCATGATT
Found at i:8894715 original size:42 final size:41
Alignment explanation
Indices: 8894587--8894695 Score: 114
Period size: 42 Copynumber: 2.7 Consensus size: 41
8894577 ATTATTAACA
* * * **
8894587 TATTTAATTACTTGATTATT-ATCTATTTA-TTGGCATGATT
1 TATTTAATTGCATGATTATTAATATATTTAGTT-ATATGATT
8894627 TATTTAATTGCATGATTATTAATATATTTAGTTATATGATT
1 TATTTAATTGCATGATTATTAATATATTTAGTTATATGATT
** *
8894668 ATATTTTTTTGCATGATTATTGATATAT
1 -TATTTAATTGCATGATTATTAATATAT
8894696 GATTATTAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 18 0.31
41 14 0.24
42 26 0.45
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (41 bp):
TATTTAATTGCATGATTATTAATATATTTAGTTATATGATT
Found at i:8896711 original size:47 final size:48
Alignment explanation
Indices: 8896644--8896738 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 48
8896634 CAGTTTTTTT
* *
8896644 TTTTTTGGTTCTTAAGAAGACAATAAGTGCTTGGTTATCAAAGAACTC
1 TTTTTTGGTTCTTAAGAAGACAACAAGTGCTTAGTTATCAAAGAACTC
* *
8896692 TTTTTT-GTTCTTGAA-AAGACAGCAAGTGCTTAGTTATTAAAGAACTC
1 TTTTTTGGTTCTT-AAGAAGACAACAAGTGCTTAGTTATCAAAGAACTC
8896739 AAAAGGGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 34 0.81
48 8 0.19
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.38
Consensus pattern (48 bp):
TTTTTTGGTTCTTAAGAAGACAACAAGTGCTTAGTTATCAAAGAACTC
Found at i:8903963 original size:135 final size:135
Alignment explanation
Indices: 8903721--8903989 Score: 466
Period size: 135 Copynumber: 2.0 Consensus size: 135
8903711 GAAAAAGCAA
* * *
8903721 AGGATAGGATAAAACACTTATCTGAAAGGTTTAGTTAAAAGATAATCATCTCTTTCCAACACCAT
1 AGGATAGGATAAAACACTTATCTAAAAGGTTTAATTAAAAGATAACCATCTCTTTCCAACACCAT
*
8903786 AGATTCTTTCCACAACAAACCAAGCTTTTGAACCAACAATCTCTTTAATAAAACTTCATAGATTA
66 AGATTCTTTCCACAACAAACCAAGCTTTTGAACCAACAATCTCTTTAATAAAACTTCAGAGATTA
8903851 TCAAG
131 TCAAG
* *
8903856 AGGATAGGATAAAACACTTTTCTAAAAGGTTTAATTAAAAGATAACCATCTCTTTCCTACACCAT
1 AGGATAGGATAAAACACTTATCTAAAAGGTTTAATTAAAAGATAACCATCTCTTTCCAACACCAT
**
8903921 AGATTCTTTCCACAACAAACCAAGCTTTTGAACGGACAATCTCTTTAATAAAACTTCAGAGATTA
66 AGATTCTTTCCACAACAAACCAAGCTTTTGAACCAACAATCTCTTTAATAAAACTTCAGAGATTA
8903986 TCAA
131 TCAA
8903990 ATTCTACTTC
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
135 126 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (135 bp):
AGGATAGGATAAAACACTTATCTAAAAGGTTTAATTAAAAGATAACCATCTCTTTCCAACACCAT
AGATTCTTTCCACAACAAACCAAGCTTTTGAACCAACAATCTCTTTAATAAAACTTCAGAGATTA
TCAAG
Found at i:8905985 original size:35 final size:33
Alignment explanation
Indices: 8905933--8906007 Score: 96
Period size: 35 Copynumber: 2.2 Consensus size: 33
8905923 ACAGTACGCA
* * * *
8905933 TACAGAAAGAGTAAAAAATGAATTTGTTTTTGG
1 TACAAAAAAAGTAAAAAATGAAATTGTTTTTCG
8905966 TACTAAAAAAAGTACAAAAATGAAATTGTTTTTCG
1 TAC-AAAAAAAGTA-AAAAATGAAATTGTTTTTCG
8906001 TACAAAA
1 TACAAAA
8906008 TCTTTTTAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 3 0.08
34 12 0.33
35 21 0.58
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.31
Consensus pattern (33 bp):
TACAAAAAAAGTAAAAAATGAAATTGTTTTTCG
Found at i:8909600 original size:2 final size:2
Alignment explanation
Indices: 8909590--8909627 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
8909580 CTCTCTATCT
*
8909590 CA CA TA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8909628 AACTCAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:8911834 original size:256 final size:248
Alignment explanation
Indices: 8911369--8911868 Score: 612
Period size: 256 Copynumber: 2.0 Consensus size: 248
8911359 AGTGCAAGTG
* * * **
8911369 AAAAGAAGAAATTATGGCTTGTAAAACACGCTAACTACAAAATCCACAGAGAAAAGGTGTTTCAG
1 AAAAAAAGAAATTATGGCTTGTAAAACACGCCAACTACAAAATCCACAGAGAAAACGTGCCTCAG
* **
8911434 TTTCAGACATTCAATTTGCACAAGTCATAACCATATAGCATTAGCAAAAGGCAAGGTTTTTCAGA
66 TTT-AGACATTCAAATTGCACAAGTCATAACCATATAGCATTAGCAAAAGGCAAGGGCTTTCAGA
* * *
8911499 CATTCACTGTCGTATTACCATTGGTGCTAACAATAGAGCAGCATAAATAAAGTTAAGGAAAAAGG
130 CATTCACTGTCGTATTACCATTGGTGCTAACAATAAAACAGCATAAATAAAGTTAAAGAAAAAGG
* *
8911564 TCAGAGAGTTAACCAGCCAGTTTAACAAACAAATCAGGTAATGCGCAGCAGATT
195 TCAGAGAGTTAACCAGCCAGTTTAACAAACAAAGCAGGTAATGAGCAGCAGATT
* * * *
8911618 AAAAAAAGAAATTATGTCTTGTAAAACATGCCAATTATAAAATCCACAGAGAAAACGTGCCTCAG
1 AAAAAAAGAAATTATGGCTTGTAAAACACGCCAACTACAAAATCCACAGAGAAAACGTGCCTCAG
* * * * *
8911683 -TT-GTCATTCAAATTGCACAAGT-AGTAACTATGTAGCATTAGCAAAAGGTACGGGCTTTCAGA
66 TTTAGACATTCAAATTGCACAAGTCA-TAACCATATAGCATTAGCAAAAGGCAAGGGCTTTCAGA
** *
8911745 CA-TCACTCTGGTCTGTTAAGTATGTTACCATTGGTGCTAATGATAAAACAGCATAAATACAGTT
130 CATTCA--CT-GTC------GTA--TTACCATTGGTGCTAACAATAAAACAGCATAAATAAAGTT
* *
8911809 AAAGAAAAAGGTCAGAGATTTAACCAGCCAGTTTAACAAACAAAGCAGGTGATGAGCAGC
184 AAAGAAAAAGGTCAGAGAGTTAACCAGCCAGTTTAACAAACAAAGCAGGTAATGAGCAGC
8911869 TGATAAATAT
Statistics
Matches: 212, Mismatches: 27, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
245 4 0.02
246 52 0.25
247 2 0.01
248 5 0.02
249 56 0.26
254 3 0.01
256 90 0.42
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (248 bp):
AAAAAAAGAAATTATGGCTTGTAAAACACGCCAACTACAAAATCCACAGAGAAAACGTGCCTCAG
TTTAGACATTCAAATTGCACAAGTCATAACCATATAGCATTAGCAAAAGGCAAGGGCTTTCAGAC
ATTCACTGTCGTATTACCATTGGTGCTAACAATAAAACAGCATAAATAAAGTTAAAGAAAAAGGT
CAGAGAGTTAACCAGCCAGTTTAACAAACAAAGCAGGTAATGAGCAGCAGATT
Found at i:8912899 original size:21 final size:20
Alignment explanation
Indices: 8912875--8912914 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8912865 TAAATTCTAA
* *
8912875 AAAATTCAAAGCAAATAAAGC
1 AAAATCCAAAG-AAAAAAAGC
8912896 AAAATCCAAAGAAAAAAAG
1 AAAATCCAAAGAAAAAAAG
8912915 GAGAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.68, C:0.12, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAATCCAAAGAAAAAAAGC
Found at i:8913653 original size:34 final size:33
Alignment explanation
Indices: 8913615--8913692 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 33
8913605 GCTTACGCAG
*
8913615 ATTTATTTTTGAAAGCTTTTAAAAGCTTTCATAT
1 ATTTATTTTCGAAAGCTTTTAAAAG-TTTCATAT
* *
8913649 ATTTATTTTCGAAAGCTTTTAAAAGTTTCAAAAA
1 ATTTATTTTCGAAAGCTTTTAAAAGTTTC-ATAT
8913683 ATTTATTTTC
1 ATTTATTTTC
8913693 AGAAGTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 4 0.10
34 36 0.90
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.49
Consensus pattern (33 bp):
ATTTATTTTCGAAAGCTTTTAAAAGTTTCATAT
Found at i:8917204 original size:15 final size:15
Alignment explanation
Indices: 8917184--8917274 Score: 58
Period size: 15 Copynumber: 6.0 Consensus size: 15
8917174 TCAGTCCTGT
8917184 AACAATAACAACAAC
1 AACAATAACAACAAC
* * *
8917199 AACAATAAAAATAAG
1 AACAATAACAACAAC
* * *
8917214 ATCAATAACAATATC
1 AACAATAACAACAAC
* *
8917229 ATCAATATCAACAAC
1 AACAATAACAACAAC
* * *
8917244 ATA-AATAATAATATC
1 A-ACAATAACAACAAC
8917259 AACAATAACAATCAAC
1 AACAATAACAA-CAAC
8917275 CAAGGCACTC
Statistics
Matches: 55, Mismatches: 18, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
14 1 0.02
15 52 0.95
16 2 0.04
ACGTcount: A:0.62, C:0.19, G:0.01, T:0.19
Consensus pattern (15 bp):
AACAATAACAACAAC
Found at i:8917251 original size:30 final size:31
Alignment explanation
Indices: 8917187--8917274 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 31
8917177 GTCCTGTAAC
* * * * *
8917187 AATAACAACAACAACAATAAAAAT-AAGATC
1 AATAACAATATCAACAATAACAATCAACATA
* *
8917217 AATAACAATATCATCAATATCAA-CAACATA
1 AATAACAATATCAACAATAACAATCAACATA
*
8917247 AATAATAATATCAACAATAACAATCAAC
1 AATAACAATATCAACAATAACAATCAAC
8917275 CAAGGCACTC
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
30 42 0.91
31 4 0.09
ACGTcount: A:0.61, C:0.18, G:0.01, T:0.19
Consensus pattern (31 bp):
AATAACAATATCAACAATAACAATCAACATA
Found at i:8917256 original size:21 final size:21
Alignment explanation
Indices: 8917195--8917263 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
8917185 ACAATAACAA
*
8917195 CAACAACAATAAA-AATAAGAT
1 CAACAAC-ATAAATAATAATAT
* * *
8917216 CAATAACA-ATATCATCAATAT
1 CAACAACATAAATAAT-AATAT
8917237 CAACAACATAAATAATAATAT
1 CAACAACATAAATAATAATAT
8917258 CAACAA
1 CAACAA
8917264 TAACAATCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 28 0.74
22 5 0.13
ACGTcount: A:0.61, C:0.17, G:0.01, T:0.20
Consensus pattern (21 bp):
CAACAACATAAATAATAATAT
Found at i:8926780 original size:14 final size:14
Alignment explanation
Indices: 8926761--8926789 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
8926751 TTTCAATTTG
8926761 CTATCAATATAGAC
1 CTATCAATATAGAC
8926775 CTATCAATATAGAC
1 CTATCAATATAGAC
8926789 C
1 C
8926790 ATTTAGTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (14 bp):
CTATCAATATAGAC
Found at i:8929232 original size:114 final size:111
Alignment explanation
Indices: 8929114--8929354 Score: 254
Period size: 114 Copynumber: 2.1 Consensus size: 111
8929104 AAGAGATTAT
* *
8929114 TTCTAAGATAAAAATGCAATTTTTATTGAAAACATAAAAAAAAA-ATTTTTTCAAAATTCAATAA
1 TTCTAAGATAAAAATACAATTTTTATTGAAAACATAAAAAAAAATA-TTGTT-AAAATTCAATAA
* * *
8929178 AGAC-AACGTTTCTAAGATAGAAAATGTAATATTTGTTAAAAAAATGAC-A
64 AGACAAATG-TTCTAAGATA-AAAATGCAATATTTATT-AAAAAATGACTA
* * * * * * * *
8929227 CTTCTAGGATAAAAACATAATTTTTATTGAAAATATGAAGAAATATATTGTTAGAATTCAATAAA
1 -TTCTAAGATAAAAATACAATTTTTATTGAAAACATAAAAAAAAATATTGTTAAAATTCAATAAA
* * *
8929292 GACAAATGTTCTAAGATAAAAGTGCAATTTTTATTAAAAAATTACTA
65 GACAAATGTTCTAAGATAAAAATGCAATATTTATTAAAAAATGACTA
8929339 TTCTAAGATAAGAAAT
1 TTCTAAGATAA-AAAT
8929355 TCACTCTTTG
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
111 19 0.18
112 17 0.16
113 25 0.24
114 43 0.41
115 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.33
Consensus pattern (111 bp):
TTCTAAGATAAAAATACAATTTTTATTGAAAACATAAAAAAAAATATTGTTAAAATTCAATAAAG
ACAAATGTTCTAAGATAAAAATGCAATATTTATTAAAAAATGACTA
Found at i:8935476 original size:23 final size:23
Alignment explanation
Indices: 8935432--8935476 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8935422 TATTATAATA
* * **
8935432 TTATAGTATAGTTTAATGTATTG
1 TTATAGCATAGTATAACATATTG
8935455 TTATAGCATAGTATAACATATT
1 TTATAGCATAGTATAACATATT
8935477 ACATTATAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (23 bp):
TTATAGCATAGTATAACATATTG
Found at i:8935551 original size:3 final size:3
Alignment explanation
Indices: 8935545--8935577 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8935535 TTGTTGTTTC
8935545 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8935578 ATAACATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8935594 original size:111 final size:111
Alignment explanation
Indices: 8935466--8935683 Score: 436
Period size: 111 Copynumber: 2.0 Consensus size: 111
8935456 TATAGCATAG
8935466 TATAACATATTACATTATAGTATTATTATTATATTATAGTAGGGTATATTATTACTTTATTGTAG
1 TATAACATATTACATTATAGTATTATTATTATATTATAGTAGGGTATATTATTACTTTATTGTAG
8935531 TAAATTGTTGTTTCTATTATTATTATTATTATTATTATTATTATTA
66 TAAATTGTTGTTTCTATTATTATTATTATTATTATTATTATTATTA
8935577 TATAACATATTACATTATAGTATTATTATTATATTATAGTAGGGTATATTATTACTTTATTGTAG
1 TATAACATATTACATTATAGTATTATTATTATATTATAGTAGGGTATATTATTACTTTATTGTAG
8935642 TAAATTGTTGTTTCTATTATTATTATTATTATTATTATTATT
66 TAAATTGTTGTTTCTATTATTATTATTATTATTATTATTATT
8935684 TATTGTTTTT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (111 bp):
TATAACATATTACATTATAGTATTATTATTATATTATAGTAGGGTATATTATTACTTTATTGTAG
TAAATTGTTGTTTCTATTATTATTATTATTATTATTATTATTATTA
Found at i:8935662 original size:3 final size:3
Alignment explanation
Indices: 8935656--8935683 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8935646 TTGTTGTTTC
8935656 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8935684 TATTGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8936063 original size:20 final size:20
Alignment explanation
Indices: 8936040--8936078 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8936030 ATTCTATAAT
* *
8936040 TGATTTGAAGTTTCTGGGTG
1 TGATTTAAAGATTCTGGGTG
8936060 TGATTTAAAGATTCTGGGT
1 TGATTTAAAGATTCTGGGT
8936079 TTAAATTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.31, T:0.44
Consensus pattern (20 bp):
TGATTTAAAGATTCTGGGTG
Found at i:8938229 original size:5 final size:5
Alignment explanation
Indices: 8938219--8938257 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
8938209 AAATATTAAT
* * *
8938219 AAAGG AAAGG AAAGG AAAGG AAATG AATGG AAATG AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
8938258 TTTTTTAAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.08
Consensus pattern (5 bp):
AAAGG
Found at i:8938955 original size:10 final size:10
Alignment explanation
Indices: 8938940--8938977 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
8938930 GGGGGTTTTG
8938940 TTTCCTTTAC
1 TTTCCTTTAC
8938950 TTTCCTTTAC
1 TTTCCTTTAC
*
8938960 TTTACTTTAC
1 TTTCCTTTAC
8938970 TTTCCTTT
1 TTTCCTTT
8938978 CCTTCCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTCCTTTAC
Found at i:8938964 original size:15 final size:15
Alignment explanation
Indices: 8938940--8938977 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8938930 GGGGGTTTTG
*
8938940 TTTCCTTTACTTTCC
1 TTTCCTTTACTTTAC
*
8938955 TTTACTTTACTTTAC
1 TTTCCTTTACTTTAC
8938970 TTTCCTTT
1 TTTCCTTT
8938978 CCTTCCTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCCTTTACTTTAC
Found at i:8938981 original size:5 final size:5
Alignment explanation
Indices: 8938944--8938977 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
8938934 GTTTTGTTTC
* *
8938944 CTTTA CTTTC CTTTA CTTTA CTTTA CTTTC CTTT
1 CTTTA CTTTA CTTTA CTTTA CTTTA CTTTA CTTT
8938978 CCTTCCTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (5 bp):
CTTTA
Found at i:8942155 original size:30 final size:31
Alignment explanation
Indices: 8942119--8942179 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
8942109 AAATGGGGAA
*
8942119 AGAAAGAAAGA-AAGAGAAAAAGA-AAAAAAG
1 AGAAAG-AAGATAAAAGAAAAAGAGAAAAAAG
*
8942149 AGAAAGAAGATAAAAGAAAATGAGAAAAAAG
1 AGAAAGAAGATAAAAGAAAAAGAGAAAAAAG
8942180 GAAGACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 4 0.15
30 16 0.59
31 7 0.26
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (31 bp):
AGAAAGAAGATAAAAGAAAAAGAGAAAAAAG
Found at i:8942165 original size:16 final size:16
Alignment explanation
Indices: 8942071--8942163 Score: 60
Period size: 18 Copynumber: 5.3 Consensus size: 16
8942061 AAAAGGTGTC
8942071 AAAAAAAGAGAAAAAAG
1 AAAAAAAGAG-AAAAAG
* *
8942088 CCAAAAAAAAAAAAAAAG
1 --AAAAAAAGAGAAAAAG
** *
8942106 CAAAAATGGGGAAAGAAAG
1 -AAAAAAAGAG-AA-AAAG
*
8942125 AAAGAAAGAGAAAAAG
1 AAAAAAAGAGAAAAAG
8942141 AAAAAAAGAGAAAGAAG
1 AAAAAAAGAGAAA-AAG
8942158 ATAAAA
1 A-AAAA
8942164 GAAAATGAGA
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
16 16 0.28
17 12 0.21
18 18 0.31
19 12 0.21
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAAAGAGAAAAAG
Found at i:8942175 original size:22 final size:21
Alignment explanation
Indices: 8942117--8942168 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
8942107 AAAAATGGGG
*
8942117 AAAGAAAGAA-AGAAAGAGAA
1 AAAGAAAAAAGAGAAAGAGAA
8942137 AAAGAAAAAAAGAGAAAGAAGATA
1 AAAG-AAAAAAGAGAAAG-AGA-A
8942161 AAAGAAAA
1 AAAGAAAA
8942169 TGAGAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 6 0.22
23 7 0.26
24 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAAGAGAAAGAGAA
Found at i:8943118 original size:120 final size:121
Alignment explanation
Indices: 8942911--8943377 Score: 447
Period size: 121 Copynumber: 3.9 Consensus size: 121
8942901 TTCGATCTTA
* * * * * *
8942911 ACTTAGTCTAGATTATTTTTTTGACTTGTGGTTTCATCTTGATCATTCATCTTCAACCTCGACTA
1 ACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTCGATCATTCATCTTCAACCTCGACTC
* * * * *
8942976 GGTCTTGGTCACTTTATCTCTTAAACTTATGGTTTCATCCCAATCATCTGATCTCG
66 GATCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAATCATCTGATCTCG
* * * **
8943032 ACTTAGTCCAAATCA-TTTTTTGACTCGTGGTTTCATCTCGATCATTCATCTTTAACCTTAACTC
1 ACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTCGATCATTCATCTTCAACCTCGACTC
* *
8943096 GATCCTGATCACTTTATCTCTTAAACTCATGATTTTATCCCAATCAT-TCGATCTCA
66 GATCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAATCATCT-GATCTCG
* * * * * **
8943152 ACTTAGTTTAAATCATTTTTTTAACTCGTGATTTCATCTTGGTCATTCAACTTTGACCTCGACTC
1 ACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTCGATCATTCATCTTCAACCTCGACTC
* * * * * * *
8943217 -AGTCTTAATCGCTTTATCTCTTAGACTCATGATTTCATCTCGATCATCCGATCTCG
66 GA-TCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAATCATCTGATCTCG
* * * * ** * * * *
8943273 ACGTATTCTAGATCATTTTTTTTTACTTATGATTTCATC-CTGATCATTTATCTTCGATCTTGAC
1 ACTTAGTCTAAATCA-TTTTTTTGACTCGTGATTTCATCTC-GATCATTCATCTTCAACCTCGAC
** * **
8943337 TCGATCCTGATCGTTTTATCTCTTAGACTCACCATTTCATC
64 TCGATCCTGATCACTTTATCTCTTAAACTCATGATTTCATC
8943378 TTGGTTATTC
Statistics
Matches: 285, Mismatches: 54, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
119 1 0.00
120 104 0.36
121 108 0.38
122 71 0.25
123 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (121 bp):
ACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTCGATCATTCATCTTCAACCTCGACTC
GATCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAATCATCTGATCTCG
Found at i:8943245 original size:121 final size:121
Alignment explanation
Indices: 8942898--8943498 Score: 490
Period size: 120 Copynumber: 5.0 Consensus size: 121
8942888 CACTTATCAC
* * * * *
8942898 TCATTCGATCTTAACTTAGTCTAGATTATTTTTTTGACTTGTGGTTTCATCTTGATCATTCATCT
1 TCATTCGATCTCAACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTTGATCATTCATCT
* * * * * *
8942963 TCAACCTCGACTAGGTCTTGGTCACTTTATCTCTTAAACTTATGGTTTCATCCCAA
66 TCAACCTCGACTCGATCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAA
* * * *
8943019 TCA-TCTGATCTCGACTTAGTCCAAATCA-TTTTTTGACTCGTGGTTTCATCTCGATCATTCATC
1 TCATTC-GATCTCAACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTTGATCATTCATC
* ** *
8943082 TTTAACCTTAACTCGATCCTGATCACTTTATCTCTTAAACTCATGATTTTATCCCAA
65 TTCAACCTCGACTCGATCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAA
* * * *
8943139 TCATTCGATCTCAACTTAGTTTAAATCATTTTTTTAACTCGTGATTTCATCTTGGTCATTCAACT
1 TCATTCGATCTCAACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTTGATCATTCATCT
** * * * * * *
8943204 TTGACCTCGACTC-AGTCTTAATCGCTTTATCTCTTAGACTCATGATTTCATCTCGA
66 TCAACCTCGACTCGA-TCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAA
* * * * * * ** * *
8943260 TCATCCGATCTCGACGTATTCTAGATCATTTTTTTTTACTTATGATTTCATCCTGATCATTTATC
1 TCATTCGATCTCAACTTAGTCTAAATCA-TTTTTTTGACTCGTGATTTCATCTTGATCATTCATC
* * * ** * ** ****
8943325 TTCGATCTTGACTCGATCCTGATCGTTTTATCTCTTAGACTCACCATTTCATCTTGG
65 TTCAACCTCGACTCGATCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAA
* * * * * * * ** * *
8943382 TTATTCGATTTTAACTTAGTCT-GATCATTTTTCTGACTCATGGTTTTGTCTTGGTAATTCATCT
1 TCATTCGATCTCAACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTTGATCATTCATCT
** * * * * * * *
8943446 TTGACCACTACTCGATCCTGGTCACTTTATCTTTTAGACTTATGATTTTATCC
66 TCAACCTCGACTCGATCCTGATCACTTTATCTCTTAAACTCATGATTTCATCC
8943499 TGATCATCCA
Statistics
Matches: 385, Mismatches: 89, Indels: 13
0.79 0.18 0.03
Matches are distributed among these distances:
120 171 0.44
121 124 0.32
122 89 0.23
123 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (121 bp):
TCATTCGATCTCAACTTAGTCTAAATCATTTTTTTGACTCGTGATTTCATCTTGATCATTCATCT
TCAACCTCGACTCGATCCTGATCACTTTATCTCTTAAACTCATGATTTCATCCCAA
Found at i:8943875 original size:6 final size:6
Alignment explanation
Indices: 8943864--8943914 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
8943854 TAGTATATTA
*
8943864 TATTTT TATTTT TA-TTT TATTAT TATTATTT TATTTTT TATTTTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TA-T-TTT TA-TTTT TA-TTTT TATTTT
8943915 CTTTCTTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
5 5 0.12
6 16 0.40
7 13 0.32
8 6 0.15
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:8943886 original size:14 final size:14
Alignment explanation
Indices: 8943869--8943914 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
8943859 TATTATATTT
8943869 TTATTTTTATTTTA
1 TTATTTTTATTTTA
*
8943883 TTATTATTATTTTA
1 TTATTTTTATTTTA
8943897 -T-TTTTTATTTT-
1 TTATTTTTATTTTA
8943908 TTATTTT
1 TTATTTT
8943915 CTTTCTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 10 0.36
13 5 0.18
14 13 0.46
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTTTATTTTA
Found at i:8943889 original size:25 final size:25
Alignment explanation
Indices: 8943859--8943912 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
8943849 TATTGTAGTA
8943859 TATTA-TATTTT-TATTTTTATTTTAT
1 TATTATTATTTTAT-TTTTTATTTT-T
8943884 TATTATTATTTTATTTTTTATTTTT
1 TATTATTATTTTATTTTTTATTTTT
8943909 TATT
1 TATT
8943913 TTCTTTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 10 0.37
26 16 0.59
27 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (25 bp):
TATTATTATTTTATTTTTTATTTTT
Found at i:8944266 original size:20 final size:20
Alignment explanation
Indices: 8944239--8944288 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
8944229 TTTATCTTGG
*
8944239 GATTCTAGGAT-TGATTTGAA
1 GATTCTAGG-TGTGATTTAAA
*
8944259 GTTTCTAGGTGTGATTTAAA
1 GATTCTAGGTGTGATTTAAA
8944279 GATTCTAGGT
1 GATTCTAGGT
8944289 TTAGATTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (20 bp):
GATTCTAGGTGTGATTTAAA
Found at i:8944413 original size:13 final size:13
Alignment explanation
Indices: 8944397--8944421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8944387 GTGAATTTTT
8944397 AAATTTTTTAGTG
1 AAATTTTTTAGTG
8944410 AAATTTTTTAGT
1 AAATTTTTTAGT
8944422 AAAGGTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
AAATTTTTTAGTG
Found at i:8952935 original size:53 final size:54
Alignment explanation
Indices: 8952855--8952997 Score: 207
Period size: 56 Copynumber: 2.6 Consensus size: 54
8952845 TGTTTATATC
* *
8952855 AATCCCACTTTGGCTAAACAAGCCAAGAGAGGGGTGGTAAAGTC-TAAATAAGA
1 AATCCCACATTGGCTAAACAAGCCAAGAGAGGGGTGGTAAAATCATAAATAAGA
* *
8952908 AATCCCACATTGGCTAGACAAGCCAAGAGATGGGGTGGTAAAATCTATAAATAAGT
1 AATCCCACATTGGCTAAACAAGCCAAGAGA-GGGGTGGTAAAATC-ATAAATAAGA
* *
8952964 AATCCCACATTGGCTAAATAAGTCAAGAGAGGGG
1 AATCCCACATTGGCTAAACAAGCCAAGAGAGGGG
8952998 CGACAGTCTA
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 28 0.35
54 13 0.16
55 4 0.05
56 35 0.44
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (54 bp):
AATCCCACATTGGCTAAACAAGCCAAGAGAGGGGTGGTAAAATCATAAATAAGA
Found at i:8960854 original size:38 final size:38
Alignment explanation
Indices: 8960798--8960879 Score: 128
Period size: 38 Copynumber: 2.2 Consensus size: 38
8960788 TCTAAAGAAA
*
8960798 AATAAAACAGAATCCATGGCTCATCTACCATTACTCTC
1 AATAAAACAAAATCCATGGCTCATCTACCATTACTCTC
* *
8960836 AATAAAACAAAATTCATGGCTCATCTACCATTAGTCTC
1 AATAAAACAAAATCCATGGCTCATCTACCATTACTCTC
*
8960874 ATTAAA
1 AATAAA
8960880 GACGCACGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.28
Consensus pattern (38 bp):
AATAAAACAAAATCCATGGCTCATCTACCATTACTCTC
Found at i:8964620 original size:74 final size:76
Alignment explanation
Indices: 8964507--8964662 Score: 201
Period size: 74 Copynumber: 2.1 Consensus size: 76
8964497 AAAATATAGC
* ** * * * *
8964507 TTTTGATGAAAATGTGAAAACAAAATATTTTTTAGAATTCAATAAAGACAA-ATTTTTAAAATAG
1 TTTTGTTGAAAAAATGAAAACAAAATATTTTTTAAAATTCAAGAAAAACAACATTTTCAAAATAG
8964571 -AAAATACAAT
66 AAAAATACAAT
*
8964581 TTTTGTTGAAAAAATGAAAA-AAATATATTTTTTAAAATTCAAGAAAAACAACATTTTCAAGATA
1 TTTTGTTGAAAAAATGAAAACAAA-ATATTTTTTAAAATTCAAGAAAAACAACATTTTCAAAATA
8964645 GAAAAATACAAT
65 GAAAAATACAAT
*
8964657 ATTTGT
1 TTTTGT
8964663 GGGTTGGGAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 3 0.04
74 41 0.59
75 11 0.16
76 15 0.21
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (76 bp):
TTTTGTTGAAAAAATGAAAACAAAATATTTTTTAAAATTCAAGAAAAACAACATTTTCAAAATAG
AAAAATACAAT
Found at i:8966159 original size:8 final size:8
Alignment explanation
Indices: 8966148--8966257 Score: 93
Period size: 8 Copynumber: 13.9 Consensus size: 8
8966138 TCATGGTTAG
8966148 GGTTTTAA
1 GGTTTTAA
8966156 GGTTTTAA
1 GGTTTTAA
* **
8966164 GATTTTGG
1 GGTTTTAA
8966172 GGTTTTAA
1 GGTTTTAA
*
8966180 GATTTTAA
1 GGTTTTAA
8966188 GGTTTT-A
1 GGTTTTAA
8966195 GGATTTT-A
1 GG-TTTTAA
8966203 GAGTTTTAA
1 G-GTTTTAA
8966212 GGTTTT-A
1 GGTTTTAA
**
8966219 GGATTTTGG
1 GG-TTTTAA
8966228 GGTTTTAA
1 GGTTTTAA
8966236 GG-TTTAA
1 GGTTTTAA
* *
8966243 GATTTTAT
1 GGTTTTAA
8966251 GGTTTTA
1 GGTTTTA
8966258 GGATTTAAAG
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
7 12 0.15
8 65 0.79
9 5 0.06
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (8 bp):
GGTTTTAA
Found at i:8966175 original size:16 final size:16
Alignment explanation
Indices: 8966150--8966263 Score: 104
Period size: 16 Copynumber: 7.2 Consensus size: 16
8966140 ATGGTTAGGG
*
8966150 TTTTAAGGTTTTAAGA
1 TTTTAGGGTTTTAAGA
*
8966166 TTTTGGGGTTTTAAGA
1 TTTTAGGGTTTTAAGA
* *
8966182 TTTTAAGGTTTTAGGA
1 TTTTAGGGTTTTAAGA
* *
8966198 TTTTAGAGTTTTAAGG
1 TTTTAGGGTTTTAAGA
* ** *
8966214 TTTTAGGATTTTGGGG
1 TTTTAGGGTTTTAAGA
*
8966230 TTTTAAGG-TTTAAGA
1 TTTTAGGGTTTTAAGA
* *
8966245 TTTTATGGTTTTAGGA
1 TTTTAGGGTTTTAAGA
8966261 TTT
1 TTT
8966264 AAAGCTTCAG
Statistics
Matches: 77, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
15 11 0.14
16 66 0.86
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (16 bp):
TTTTAGGGTTTTAAGA
Found at i:8967283 original size:13 final size:13
Alignment explanation
Indices: 8967258--8967309 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
8967248 CTGATGCTCT
*
8967258 TTTTTTTTCTTTT
1 TTTTTTTTCTTTC
*
8967271 TTTCTTTCTTTTTTC
1 TTT-TTT-TTCTTTC
8967286 TTTTTTTTCTTTC
1 TTTTTTTTCTTTC
*
8967299 ATTTTTTTCTT
1 TTTTTTTTCTT
8967310 CATTCTTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 19 0.58
14 6 0.18
15 8 0.24
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:8967284 original size:20 final size:21
Alignment explanation
Indices: 8967259--8967335 Score: 81
Period size: 20 Copynumber: 3.7 Consensus size: 21
8967249 TGATGCTCTT
8967259 TTTTTTTCTTTTTTTCTTTC-
1 TTTTTTTCTTTTTTTCTTTCA
8967279 -TTTTTTCTTTTTTTTCTTTCA
1 TTTTTTTC-TTTTTTTCTTTCA
**
8967300 TTTTTTTC-TTCATTC-TTCA
1 TTTTTTTCTTTTTTTCTTTCA
8967319 TTTTTTTTCTATTTTTT
1 -TTTTTTTCT-TTTTTT
8967336 TGGTTTGACA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
19 11 0.23
20 25 0.53
22 11 0.23
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTCTTTCA
Found at i:8967307 original size:29 final size:28
Alignment explanation
Indices: 8967258--8967336 Score: 65
Period size: 30 Copynumber: 2.8 Consensus size: 28
8967248 CTGATGCTCT
**
8967258 TTTTTTTTCTTT--TTTTCTTTCTTTTTTC
1 TTTTTTTTCTTTCATTTT-TTT-TTCATTC
8967286 TTTTTTTTCTTTCATTTTTTTCTTCATTC
1 TTTTTTTTCTTTCATTTTTTT-TTCATTC
*
8967315 TTCATTTTT-TTTCTATTTTTTT
1 TT-TTTTTTCTTTC-ATTTTTTT
8967337 GGTTTGACAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.27
29 15 0.34
30 17 0.39
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (28 bp):
TTTTTTTTCTTTCATTTTTTTTTCATTC
Found at i:8967309 original size:33 final size:32
Alignment explanation
Indices: 8967257--8967336 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
8967247 CCTGATGCTC
* *
8967257 TTTTTT-TTTCTTTTTTTCTTTCTTTTTTC-TT
1 TTTTTTCTTTCTTTTTTTC-TTCATTCTTCATT
8967288 TTTTTTCTTTCATTTTTTTCTTCATTCTTCATT
1 TTTTTTCTTTC-TTTTTTTCTTCATTCTTCATT
*
8967321 TTTTTTCTAT-TTTTTT
1 TTTTTTCTTTCTTTTTT
8967337 GGTTTGACAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
31 12 0.28
32 12 0.28
33 19 0.44
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (32 bp):
TTTTTTCTTTCTTTTTTTCTTCATTCTTCATT
Found at i:8967313 original size:12 final size:11
Alignment explanation
Indices: 8967255--8967310 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
8967245 TGCCTGATGC
8967255 TCTTTTTTT-T
1 TCTTTTTTTCT
8967265 TCTTTTTTTCT
1 TCTTTTTTTCT
8967276 T-TCTTTTTTC-
1 TCT-TTTTTTCT
8967286 T-TTTTTTTCTT
1 TCTTTTTTTC-T
8967297 TCATTTTTTTCT
1 TC-TTTTTTTCT
8967309 TC
1 TC
8967311 ATTCTTCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
9 7 0.17
10 12 0.30
11 10 0.25
12 3 0.08
13 8 0.20
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTTTTCT
Found at i:8969433 original size:17 final size:18
Alignment explanation
Indices: 8969399--8969433 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8969389 TGTTATTAAA
*
8969399 TATTTTTACTTTTTTATG
1 TATTTTTACTTTTATATG
8969417 TATTTTTAC-TTTATATG
1 TATTTTTACTTTTATATG
8969434 AAACCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (18 bp):
TATTTTTACTTTTATATG
Found at i:8970326 original size:8 final size:8
Alignment explanation
Indices: 8970313--8970475 Score: 113
Period size: 8 Copynumber: 20.6 Consensus size: 8
8970303 TCATGGTAAG
8970313 GGTTTTAA
1 GGTTTTAA
8970321 GGTTTTAA
1 GGTTTTAA
*
8970329 GATTTT-A
1 GGTTTTAA
8970336 GTGTTTT-A
1 G-GTTTTAA
**
8970344 GGATTTTGG
1 GG-TTTTAA
*
8970353 GGTTTAAA
1 GGTTTTAA
8970361 GGTTTT-A
1 GGTTTTAA
8970368 GGATTTTAA
1 GG-TTTTAA
*
8970377 GGTTTTGA
1 GGTTTTAA
* *
8970385 GATTTTAG
1 GGTTTTAA
8970393 GGTTTT-A
1 GGTTTTAA
8970400 GGATTTTAA
1 GG-TTTTAA
8970409 GGTTTTAA
1 GGTTTTAA
*
8970417 GGTTTCAA
1 GGTTTTAA
**
8970425 AATTTTAA
1 GGTTTTAA
* *
8970433 GGTTTCAG
1 GGTTTTAA
8970441 GGTTTT-A
1 GGTTTTAA
*
8970448 GGTTTTAT
1 GGTTTTAA
8970456 GGTTTT-A
1 GGTTTTAA
*
8970463 GGATTTAA
1 GGTTTTAA
*
8970471 AGTTT
1 GGTTT
8970476 CAGAGTTTAA
Statistics
Matches: 118, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
7 19 0.16
8 91 0.77
9 8 0.07
ACGTcount: A:0.23, C:0.01, G:0.26, T:0.50
Consensus pattern (8 bp):
GGTTTTAA
Found at i:8970375 original size:32 final size:31
Alignment explanation
Indices: 8970313--8970468 Score: 129
Period size: 32 Copynumber: 4.9 Consensus size: 31
8970303 TCATGGTAAG
* *
8970313 GGTTTTAAGGTTTTAAGATTTTAGTG-TTTTA
1 GGTTTTGAGGTTTTAAGGTTTTAG-GATTTTA
* *
8970344 GGATTTTGGGGTTTAAAGGTTTTAGGATTTTAA
1 GG-TTTTGAGGTTTTAAGGTTTTAGGATTTT-A
* *
8970377 GGTTTTGAGATTTTAGGGTTTTAGGATTTTAA
1 GGTTTTGAGGTTTTAAGGTTTTAGGATTTT-A
* * ** *
8970409 GGTTTTAAGGTTTCAAAATTTTAAGG-TTTCA
1 GGTTTTGAGGTTTTAAGGTTTT-AGGATTTTA
*
8970440 GGGTTTT-AGGTTTTATGGTTTTAGGATTT
1 -GGTTTTGAGGTTTTAAGGTTTTAGGATTT
8970469 AAAGTTTCAG
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
30 3 0.03
31 18 0.18
32 73 0.73
33 6 0.06
ACGTcount: A:0.22, C:0.01, G:0.26, T:0.50
Consensus pattern (31 bp):
GGTTTTGAGGTTTTAAGGTTTTAGGATTTTA
Found at i:8970500 original size:38 final size:38
Alignment explanation
Indices: 8970428--8970500 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
8970418 GTTTCAAAAT
* * * * **
8970428 TTTAAGGTTTCAGGGTTTTAGGTTTTATGGTTTTAGGA
1 TTTAAAGTTTCAGAGTTTAAGGTTTCATCATTTTAGGA
8970466 TTTAAAGTTTCAGAGTTTAAGGTTTCATCATTTTA
1 TTTAAAGTTTCAGAGTTTAAGGTTTCATCATTTTA
8970501 ATGTTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.22, T:0.49
Consensus pattern (38 bp):
TTTAAAGTTTCAGAGTTTAAGGTTTCATCATTTTAGGA
Found at i:8973232 original size:12 final size:12
Alignment explanation
Indices: 8973215--8973296 Score: 119
Period size: 12 Copynumber: 6.5 Consensus size: 12
8973205 AAGAAAGATA
8973215 ATGTGTGTGTGT
1 ATGTGTGTGTGT
8973227 ATGTGTGTGTGTGT
1 A--TGTGTGTGTGT
8973241 ATGTGTGTGTGT
1 ATGTGTGTGTGT
8973253 ATGTGTGTGTGTGT
1 A--TGTGTGTGTGT
8973267 ATGTGTGTGTGT
1 ATGTGTGTGTGT
8973279 ATGTGTGTGTGT
1 ATGTGTGTGTGT
*
8973291 GTGTGT
1 ATGTGT
8973297 ATATATATAT
Statistics
Matches: 65, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
12 41 0.63
14 24 0.37
ACGTcount: A:0.07, C:0.00, G:0.43, T:0.50
Consensus pattern (12 bp):
ATGTGTGTGTGT
Found at i:8973233 original size:14 final size:14
Alignment explanation
Indices: 8973216--8973292 Score: 126
Period size: 14 Copynumber: 5.8 Consensus size: 14
8973206 AGAAAGATAA
8973216 TGTGTGTGTGTATG
1 TGTGTGTGTGTATG
8973230 TGTGTGTGTGTA--
1 TGTGTGTGTGTATG
8973242 TGTGTGTGTGTATG
1 TGTGTGTGTGTATG
8973256 TGTGTGTGTGTA--
1 TGTGTGTGTGTATG
8973268 TGTGTGTGTGTATG
1 TGTGTGTGTGTATG
8973282 TGTGTGTGTGT
1 TGTGTGTGTGT
8973293 GTGTATATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
12 24 0.41
14 35 0.59
ACGTcount: A:0.06, C:0.00, G:0.43, T:0.51
Consensus pattern (14 bp):
TGTGTGTGTGTATG
Found at i:8973251 original size:26 final size:26
Alignment explanation
Indices: 8973215--8973292 Score: 156
Period size: 26 Copynumber: 3.0 Consensus size: 26
8973205 AAGAAAGATA
8973215 ATGTGTGTGTGTATGTGTGTGTGTGT
1 ATGTGTGTGTGTATGTGTGTGTGTGT
8973241 ATGTGTGTGTGTATGTGTGTGTGTGT
1 ATGTGTGTGTGTATGTGTGTGTGTGT
8973267 ATGTGTGTGTGTATGTGTGTGTGTGT
1 ATGTGTGTGTGTATGTGTGTGTGTGT
8973293 GTGTATATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.08, C:0.00, G:0.42, T:0.50
Consensus pattern (26 bp):
ATGTGTGTGTGTATGTGTGTGTGTGT
Found at i:8973610 original size:34 final size:35
Alignment explanation
Indices: 8973550--8973643 Score: 95
Period size: 34 Copynumber: 2.7 Consensus size: 35
8973540 ATTCATATCC
*
8973550 AATAAATTTTATAACTTACCATAAATAGATTTCT-
1 AATAAGTTTTATAACTTACCATAAATAGATTTCTG
** *
8973584 AATAAGTTTTATAACTTATTGA-AAATAGATTTTTG
1 AATAAGTTTTATAACTTA-CCATAAATAGATTTCTG
* **
8973619 GA-AAGTTTTATAACTTTTCATAAAT
1 AATAAGTTTTATAACTTACCATAAAT
8973644 CAATTTTCGT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
33 2 0.04
34 46 0.92
35 2 0.04
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (35 bp):
AATAAGTTTTATAACTTACCATAAATAGATTTCTG
Found at i:8976226 original size:26 final size:27
Alignment explanation
Indices: 8976191--8976244 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
8976181 GCTCTAACAA
8976191 TTACCAATCAAACT-A-AACAAATTCTC
1 TTACCAATCAAA-TGAGAACAAATTCTC
*
8976217 TTACCTATCAAATGAGAACAAATTCTC
1 TTACCAATCAAATGAGAACAAATTCTC
8976244 T
1 T
8976245 ACTTGAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 1 0.04
26 12 0.48
27 12 0.48
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.30
Consensus pattern (27 bp):
TTACCAATCAAATGAGAACAAATTCTC
Found at i:8977409 original size:30 final size:31
Alignment explanation
Indices: 8977375--8977449 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
8977365 ATTTTAAATC
*
8977375 AATTAAGCCCTTAAAAATCGATTTTCA-TTT
1 AATTAAGCCCTTAAAAATCGATTTTCACTTG
* *
8977405 AATTAA-CCCATTAAATATCTATTTTCACTTG
1 AATTAAGCCC-TTAAAAATCGATTTTCACTTG
* *
8977436 AATTGAGCCTTTAA
1 AATTAAGCCCTTAA
8977450 CTAGACAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
29 3 0.08
30 21 0.57
31 11 0.30
32 2 0.05
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTAAGCCCTTAAAAATCGATTTTCACTTG
Found at i:8977648 original size:13 final size:12
Alignment explanation
Indices: 8977612--8977649 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
8977602 TAACCTATTA
8977612 AATTAAAAAA-T
1 AATTAAAAAATT
8977623 AATATAAAAAATT
1 AAT-TAAAAAATT
8977636 AATTAAAATAATT
1 AATTAAAA-AATT
8977649 A
1 A
8977650 TATTGGATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 12 0.50
13 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTAAAAAATT
Found at i:8982348 original size:19 final size:17
Alignment explanation
Indices: 8982309--8982349 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
8982299 ATGATCTAAA
8982309 TATTT-TTAAATTACTT
1 TATTTATTAAATTACTT
8982325 T-TTTATTAAATATACTGT
1 TATTTATTAAAT-TACT-T
8982343 TATTTAT
1 TATTTAT
8982350 CATCTCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.14
16 7 0.33
17 4 0.19
18 2 0.10
19 5 0.24
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (17 bp):
TATTTATTAAATTACTT
Found at i:8983071 original size:11 final size:11
Alignment explanation
Indices: 8983053--8983092 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8983043 AATCCCATAA
8983053 GAGATTTGTTT
1 GAGATTTGTTT
* *
8983064 GGGATTTGTTA
1 GAGATTTGTTT
*
8983075 AAGATTTGTTT
1 GAGATTTGTTT
8983086 GAGATTT
1 GAGATTT
8983093 ATCAGATATT
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:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:8983206 original size:52 final size:52
Alignment explanation
Indices: 8983119--8983275 Score: 235
Period size: 52 Copynumber: 3.0 Consensus size: 52
8983109 TGGACAAGAA
* *
8983119 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
8983171 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * * *
8983223 GACTTACAAGATAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
8983275 G
1 G
8983276 TATGATTATA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
52 91 0.95
53 5 0.05
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:8984213 original size:35 final size:36
Alignment explanation
Indices: 8984145--8984214 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
8984135 GATAGACAAG
*
8984145 GTAGGTGGTGACAGTCTAGAAGAAAGTGAAGGGTCA
1 GTAGGTGGTGACAGTCTAGAAGAAAGCGAAGGGTCA
* * *
8984181 GTAGTTGGTGACAGTCTA-ACGAAAGCGGAGGGTC
1 GTAGGTGGTGACAGTCTAGAAGAAAGCGAAGGGTC
8984215 TAGATTACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.30, C:0.11, G:0.39, T:0.20
Consensus pattern (36 bp):
GTAGGTGGTGACAGTCTAGAAGAAAGCGAAGGGTCA
Found at i:8986743 original size:15 final size:15
Alignment explanation
Indices: 8986703--8986746 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8986693 ACAATACCTA
*
8986703 TATAATTATTTATGT
1 TATAATTATTTTTGT
* * *
8986718 TACAATGATTTTTTT
1 TATAATTATTTTTGT
8986733 TATAATTATTTTTG
1 TATAATTATTTTTG
8986747 CTTTTCATTG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (15 bp):
TATAATTATTTTTGT
Found at i:8987198 original size:22 final size:22
Alignment explanation
Indices: 8987175--8987324 Score: 93
Period size: 20 Copynumber: 7.1 Consensus size: 22
8987165 TTTATTTTTA
* *
8987175 TTATTTTTATTTTTTAAATATAT
1 TTATTTTTATCTATT-AATATAT
*
8987198 TTATTATTTATCTACTAATATAT
1 TTATT-TTTATCTATTAATATAT
*
8987221 TTATTTTTATCTATTAACATA-
1 TTATTTTTATCTATTAATATAT
*
8987242 TT-TTTTTAT-TAAT-ATATAT
1 TTATTTTTATCTATTAATATAT
*
8987261 GTT-TTTTTAT-TA-TAATTTAT
1 -TTATTTTTATCTATTAATATAT
* * * * *
8987281 CTATTATTAT-TATTATTTTCT
1 TTATTTTTATCTATTAATATAT
**
8987302 TT-TAGTTATCTATTAATATAT
1 TTATTTTTATCTATTAATATAT
8987323 TT
1 TT
8987325 TTCTTTTCTT
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.04
19 5 0.05
20 36 0.35
21 19 0.19
22 14 0.14
23 17 0.17
24 7 0.07
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (22 bp):
TTATTTTTATCTATTAATATAT
Found at i:8987217 original size:23 final size:22
Alignment explanation
Indices: 8987191--8987248 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
8987181 TTATTTTTTA
8987191 AATATATTTATTATTTATCTACT
1 AATATATTTATT-TTTATCTACT
*
8987214 AATATATTTATTTTTATCTATT
1 AATATATTTATTTTTATCTACT
*
8987236 AACATATTT-TTTT
1 AATATATTTATTTT
8987249 ATTAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 4 0.12
22 17 0.52
23 12 0.36
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
AATATATTTATTTTTATCTACT
Found at i:8987253 original size:16 final size:18
Alignment explanation
Indices: 8987222--8987258 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
8987212 CTAATATATT
8987222 TATTTTTATCTATTAACA
1 TATTTTTATCTATTAACA
*
8987240 TATTTTT-T-TATTAATA
1 TATTTTTATCTATTAACA
8987256 TAT
1 TAT
8987259 ATGTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTTATCTATTAACA
Found at i:8987313 original size:30 final size:32
Alignment explanation
Indices: 8987277--8987336 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
8987267 TTATTATAAT
8987277 TTATCTATT-AT-TATTATTATTTTCTTTTAG
1 TTATCTATTAATATATTATTATTTTCTTTTAG
* *
8987307 TTATCTATTAATATATTTTTCTTTTCTTTT
1 TTATCTATTAATATATTATTATTTTCTTTT
8987337 TCTTCTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 9 0.35
31 2 0.08
32 15 0.58
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (32 bp):
TTATCTATTAATATATTATTATTTTCTTTTAG
Found at i:8987326 original size:27 final size:30
Alignment explanation
Indices: 8987277--8987331 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8987267 TTATTATAAT
*
8987277 TTATCTATTATTATTATTATTTTCTTTTAG
1 TTATCTATTAATATTATTATTTTCTTTTAG
8987307 TTATCTATTAATA-TA-T-TTTTCTTTT
1 TTATCTATTAATATTATTATTTTCTTTT
8987332 CTTTTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 1 0.04
29 2 0.08
30 12 0.50
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (30 bp):
TTATCTATTAATATTATTATTTTCTTTTAG
Found at i:8987769 original size:26 final size:24
Alignment explanation
Indices: 8987723--8987770 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
8987713 AGGATTGTTT
8987723 AGAAGAAGAAAGGAGGAAAGGAAG
1 AGAAGAAGAAAGGAGGAAAGGAAG
*
8987747 AGAAGAGAGAAAGAGAGGGAAGGA
1 AGAAGA-AGAAAG-GAGGAAAGGA
8987771 GCGGTTTACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 6 0.29
26 9 0.43
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (24 bp):
AGAAGAAGAAAGGAGGAAAGGAAG
Found at i:8988050 original size:16 final size:16
Alignment explanation
Indices: 8988029--8988093 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
8988019 TCCAATGCTT
*
8988029 TTTTTTTTATTTATTA
1 TTTTTATTATTTATTA
8988045 TTTTT-TTATATTATTA
1 TTTTTATTAT-TTATTA
*
8988061 TTATTATTATTTATTA
1 TTTTTATTATTTATTA
*
8988077 TTATTTATTATTGATTA
1 TT-TTTATTATTTATTA
8988094 GATTAGAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 4 0.09
16 23 0.53
17 16 0.37
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTTTATTATTTATTA
Found at i:8988059 original size:3 final size:3
Alignment explanation
Indices: 8988039--8988093 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
8988029 TTTTTTTTAT
*
8988039 TTA TTA TT- TTT TTA -TA TTA TTA TTA TTA TTA TTTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA
8988084 TTA TTGA TTA
1 TTA TT-A TTA
8988094 GATTAGAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
2 4 0.09
3 33 0.72
4 9 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8988074 original size:10 final size:10
Alignment explanation
Indices: 8988034--8988134 Score: 67
Period size: 10 Copynumber: 10.6 Consensus size: 10
8988024 TGCTTTTTTT
8988034 TTTATTTATTA
1 TTTA-TTATTA
8988045 TTT-TT-TTA
1 TTTATTATTA
8988053 --TATTATTA
1 TTTATTATTA
8988061 -TTATTATTA
1 TTTATTATTA
8988070 TTTATTATTA
1 TTTATTATTA
8988080 TTTATTATTGA
1 TTTATTATT-A
* *
8988091 TTAGATTA-GA
1 TT-TATTATTA
* *
8988101 ATTATTTAGTA
1 TTTA-TTATTA
8988112 TTTATTA-T-
1 TTTATTATTA
8988120 TTTATT-TTA
1 TTTATTATTA
8988129 TTTATT
1 TTTATT
8988135 TTCTTTAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
6 1 0.01
7 2 0.03
8 13 0.18
9 18 0.24
10 26 0.35
11 10 0.14
12 4 0.05
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (10 bp):
TTTATTATTA
Found at i:8988130 original size:13 final size:13
Alignment explanation
Indices: 8988034--8988081 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
8988024 TGCTTTTTTT
8988034 TTTATTTATTATT-
1 TTTA-TTATTATTA
8988047 TTT-TTA-TATTA
1 TTTATTATTATTA
8988058 -TTATTATTATTA
1 TTTATTATTATTA
8988070 TTTATTATTATT
1 TTTATTATTATT
8988082 TATTATTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.19
11 6 0.19
12 5 0.16
13 14 0.45
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:8988227 original size:58 final size:57
Alignment explanation
Indices: 8988155--8988490 Score: 397
Period size: 58 Copynumber: 5.8 Consensus size: 57
8988145 AAAATTTCAA
* * * *
8988155 AAAAAAAAAATTTTGAGGAGAAGTTGAAAGCATCAATTTTCCTTGAAAATAAGTTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAGTTTTC
*
8988213 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAGTTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAGTTTTC
* * * * *
8988271 TAAAAAACA-TTTTGAGGGAAAAGTTAAAAGTATCAATTTTTTTAAAAAATAAGTTTTC
1 AAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCTT-GAAAATAAGTTTTC
* *
8988329 TAAAAAATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAAATAAGTTTTC
* * * * **
8988386 TAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATATTTCTCGAAATTAAACTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAAT-TTTCTTGAAAATAAGTTTTC
* *
8988444 AAAAAAATATTTTGGAAGGAAAAAGTTAAAAGTATCAATTTTTCTTG
1 AAAAAAATATTTTTG-AGG-AAAAGTTGAAAGTATCAA-TTTTCTTG
8988491 TACAAAACCA
Statistics
Matches: 245, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
57 51 0.21
58 168 0.69
59 2 0.01
60 23 0.09
61 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (57 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAGTTTTC
Found at i:8988284 original size:115 final size:114
Alignment explanation
Indices: 8988157--8988490 Score: 436
Period size: 115 Copynumber: 2.9 Consensus size: 114
8988147 AATTTCAAAA
* *
8988157 AAAAAAAATTTTGAGGAGAAGTTGAAAGCATCAATTTTCCTTGAAAATAAGTTTTCAAAAAAATA
1 AAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAGTTTTCAAAAAAATA
* *
8988222 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGGAAATAAGTTTTCT
65 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * * * *
8988272 AAAAAACATTTTGAGGGAAAAGTTAAAAGTATCAATTTTTTTAAAAAATAAGTTTTCTAAAAAAT
1 AAAAAAAATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCTT-GAAAATAAGTTTTCAAAAAAAT
*
8988337 A-TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCT
64 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
* * * * **
8988387 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATATTTCTCGAAATTAAACTTTCAAAAAAAT
1 AAAAAA-AATTTTGAGGAAAAGTTGAAAGTATCAAT-TTTCTTGAAAATAAGTTTTCAAAAAAAT
* *
8988452 ATTTTGGAAGGAAAAAGTTAAAAGTATCAATTTTTCTTG
64 ATTTTTG-AGG-AAAAGTTGAAAGTATCAATTTTTCTTG
8988491 TACAAAACCA
Statistics
Matches: 188, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
115 104 0.55
116 56 0.30
117 3 0.02
118 25 0.13
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (114 bp):
AAAAAAAATTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAGTTTTCAAAAAAATAT
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGTTTTCT
Found at i:8988399 original size:15 final size:16
Alignment explanation
Indices: 8988362--8988399 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8988352 TGAAAGTATC
*
8988362 AATTTTTCTTAAAAAT
1 AATTTTTCTAAAAAAT
*
8988378 AAGTTTTCTAAAAAAT
1 AATTTTTCTAAAAAAT
8988394 -ATTTTT
1 AATTTTT
8988400 GAGAAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTTTCTAAAAAAT
Found at i:8989913 original size:234 final size:235
Alignment explanation
Indices: 8989129--8991639 Score: 1268
Period size: 236 Copynumber: 10.8 Consensus size: 235
8989119 ATTATTAGTG
* * * * * * *
8989129 TTACAATACTTTTTACCCATTTTACGTTAAATTATACTAATTTTACTTATCTTCTCACTTGTTTA
1 TTACAACACTTCTTACCCATTTTACATCAAATGATACTAATTTTAGTT-TATTCTCACTTGTTTA
* * * * ** * * *
8989194 CATTACC-ATTT-TTTTTTAATTTTTAACTA-TTAT-ATATATA-CAAGATAACAATAATTAATT
65 CATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATAAAATAATAATTAATT
* * * * * ** * *
8989254 AAAATTTTACATTTTC-ATCATAATTAATTATGTTATAATAATATATTTTTGCTATTATTCTTAC
130 AAAATTTTACATTATCAAT-ATAATTATTTACGTTACAATAATATATTCTTATTATTGTTCTTAA
* * * * * * * * * * *
8989318 TTTTCATCATATTTGGAATTGTTATAGCTTTTTTTTAATGTG
194 TTTTCATTACATTTAGAATTATCATAACTCTTTCTTAGTATA
* * * *
8989360 TTACAACACTTCTAACTCATTTTACTTCAAATGATACTAATTTTACG-TTACTTCTCACTTATTT
1 TTACAACACTTCTTACCCATTTTACATCAAATGATACTAATTTTA-GTTTA-TTCTCACTTGTTT
* ** * * * * *
8989424 A-GTTATTAA--T-TTTTTTAAATTTTAACTATTTTTCTTATATATTTACAGAAATAATAAATAA
64 ACATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATA-AAATAAT-AATTA
* * * * * * *
8989485 ATAAATAAATTTTACATTGTCAACATAATTA-TTATCTTTAAAATAATAT-CT-TTATAAGGTTG
127 AT-TA-AAATTTTACATTATCAATATAATTATTTA-CGTTACAATAATATATTCTTATTA--TTG
* ** ** * * ** *
8989547 TAT-TTACTTTTCATTATGTTTACG-ATTGGCACAATTCTTTCTTAACATT
187 T-TCTTAATTTTCATTACATTTA-GAATTATCATAACTCTTTCTTAGTATA
** * * * * * *
8989596 TTATGACATTTTTTACCTATTTTAC-GCTAAATGGTACTAA-TTTATGTTTATTCTCACTTATTT
1 TTACAACACTTCTTACCCATTTTACATC-AAATGATACTAATTTTA-GTTTATTCTCACTTGTTT
*
8989659 ACATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTCAAATATTTATAAAATAATAATTAAT
64 ACATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATAAAATAATAATTAAT
* *
8989724 TAAAATTTTACATTATCGATATAATTATTTACGTTA-TATGAATATATTCTTATTATTGTTCTTA
129 TAAAATTTTACATTATCAATATAATTATTTACGTTACAAT-AATATATTCTTATTATTGTTCTTA
*
8989788 ATTTTCATTACATTTAGAATTATCA-AACTCTTT-TGAGTATA
193 ATTTTCATTACATTTAGAATTATCATAACTCTTTCTTAGTATA
** * * ** *
8989829 TTATGACAATTCATACAAAATTTT-CATCAAATGATGCTAATTTTATGTTTATTCTCACTTGTTT
1 TTACAACACTTCTTAC-CCATTTTACATCAAATGATACTAATTTTA-GTTTATTCTCACTTGTTT
* * * *
8989893 A-AGTTACCAATTTGTTTTTTAATTTTTAGCTATTTTTCTTATATATTTA-CAAATAAATAAATA
64 ACA-TTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATAAAAT-AATAATTA
* * * * * * *
8989956 ATTCAAATTTTATATTAAT-AATTTAATTATTTACGTTACAATAATTTCTTTTTTTATTATTTTT
127 ATTAAAATTTTACATT-ATCAATATAATTATTTACGTTACAATAA--TATATTCTTATTATTGTT
** * * * * * * **
8990020 CTTACCTTTGATTATATTTAGGATTATCATTATTTTTTCTTAGCCTA
189 CTTAATTTTCATTACATTTAGAATTATCATAACTCTTTCTTAGTATA
* * * * * * * * *
8990067 TTACAACATTTTTTACTCATTTTACGTTAAATTATACTGATTTTA---CATT-T---TTTTTTAC
1 TTACAACACTTCTTACCCATTTTACATCAAATGATACTAATTTTAGTTTATTCTCACTTGTTTAC
* ** * *
8990125 ATTACCTATTTGCTTTTCAATTTTTAGCTATTTTTCTTATATA-TT-T-AAA-AA-AATTAATTA
66 ATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATAAAATAATAATTAATTA
* * * * * *
8990185 AAATTTT-CTATTACCAACATAATTATTTATGTTACAATAATATATTCTTATAAATATTCTTACA
131 AAATTTTAC-ATTATCAATATAATTATTTACGTTACAATAATATATTCTTATTATTGTTCTTA-A
* * *
8990249 --TTCAATTACGTTTAAAATTATCATAACAT-TTTCTTAGTATG
194 TTTTC-ATTACATTTAGAATTATCATAAC-TCTTTCTTAGTATA
** * * * *
8990290 TTACAACACTTCTTATTCATTTTACATCAAATAATACTAAATTTACATTTCTTCTCACTTGTTTA
1 TTACAACACTTCTTACCCATTTTACATCAAATGATACTAATTTTA-GTTTATTCTCACTTGTTTA
* *
8990355 CATTATCAATTTATTTTTTAATTTTTAGCTATTTTACTTTATATATATATATATATATATATACA
65 CATTACCAATTTATTTTTTAATTTTTAGCTATTTTTC-TTA-A-ATAT-T-TATA-A-A-AT---
** * * * *
8990420 AAAACAATAATTAATTAAAATTTTGTATT-GCTATCATAATTATTTATAG-TATAATAATATATT
119 -----AATAATTAATTAAAATTTTACATTATCAAT-ATAATTATTTA-CGTTACAATAATATATT
* ** * * * *
8990483 TTTA-TATTTGTTCTTGCTTTCCATT--ATGTTAGAATTATGATAGCTCTTTCTTAGTATT
177 CTTATTA-TTGTTCTTAATTTTCATTACAT-TTAGAATTATCATAACTCTTTCTTAGTATA
** * * * * * ** * *
8990541 TTATGATACTTTTTACCAATTTTATACCAAATGATACTAATTTTA--CAATTTTCACTTGTTTAT
1 TTACAACACTTCTTACCCATTTTACATCAAATGATACTAATTTTAGTTTATTCTCACTTGTTTAC
* * * *
8990604 ATTATCAATTTATTTTTTAATTTTTAGCTATTTTTCTTATATATTCATAGGAATAATAATTAATT
66 ATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATA-AAATAATAATTAATT
* * * * * *
8990669 AAAATTTTACATTATCAACATAATTATTTACTTTACAATAATATTTTCTTA-CAGTTGTTTTTAT
130 AAAATTTTACATTATCAATATAATTATTTACGTTACAATAATATATTCTTATTA-TTGTTCTTAA
* * * * * * * *
8990733 TTTTCATTACGTTTAGAACTATCATAATTTTTTTTTTAATGTG
194 TTTTCATTACATTTAGAATTATCATAA-CTCTTTCTTAGTATA
* * * * * * *
8990776 TTACAACACTTTTTACCTATTTTACATCAAATAATACTAATTTTTCGTTTGTTTTCATTTGTTTA
1 TTACAACACTTCTTACCCATTTTACATCAAATGATACTAA-TTTTAGTTTATTCTCACTTGTTTA
* * ** ** *
8990841 CTTTATCAATTTATTTTTTTAATTCCTATATGTTTTTCTTAAATATTTATAAAATAATAATTAAT
65 CATTACCAATTTA-TTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATAAAATAATAATTAAT
** * * *
8990906 TAAAATTTTACATTGCCAATATAATTATTTACGTTACAATAATATATTATTATGACTGTTC-TAA
129 TAAAATTTTACATTATCAATATAATTATTTACGTTACAATAATATATTCTTATTATTGTTCTTAA
* * *
8990970 ATTTCAATTATATTTAGAATTGTCATAA-TGCTTT-TTAGTATA
194 TTTTC-ATTACATTTAGAATTATCATAACT-CTTTCTTAGTATA
* * * * * *
8991012 TTATAACAATTCTTATCCATTTTACA-CTAAATGATATTAATTTTAGATTTCTTCTCACTTTTTT
1 TTACAACACTTCTTACCCATTTTACATC-AAATGATACTAATTTTAG-TTTATTCTCACTTGTTT
** * * * *
8991076 ATGTTACCAATATATTTTTTAATTTTTAACTA-TTTT-TT--AT-TTGTTTAAAA-ACTAATTAA
64 ACATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATT-TATAAAATAATAATTAA
* * * * * * * *
8991135 TTAAAATTTTACAGT-GCAACT-TAATTATTTACATTAGAATAATTTGTTTTTATGATTGTTCTT
128 TTAAAATTTTACATTATCAA-TATAATTATTTACGTTACAATAATATATTCTTATTATTGTTCTT
* ** * ** *
8991198 -ATCTTTAATTATGTTTAGAATTATAATTGCTCTTTTTTAGT-TA
192 AAT-TTTCATTACATTTAGAATTATCATAACTCTTTCTTAGTATA
* * * * ** *
8991241 TTA-GATACTT-TT-CCTATTTTACACCAAATGATACTCAA-TTTACATTA--CTTACTTGTTT-
1 TTACAACACTTCTTACCCATTTTACATCAAATGATACT-AATTTTAGTTTATTCTCACTTGTTTA
** * *
8991299 --TT--CAATTT-TTAGTT--TTTTTA--TA-TATT-TTAAA-A---AT--AATAATTAGTT-A-
65 CATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATAAAATAA-TAATTAAT
* ** * * *
8991345 -AAA-TTTTATATTGCCAATATAATTATTTATGTTATAATGATATATTC-TATTAGTTGTTCTTA
129 TAAAATTTTACATTATCAATATAATTATTTACGTTACAATAATATATTCTTATTA-TTGTTCTTA
* * ** * * *
8991407 CTTTTTATTATGTTTAGAATTGTCATAACTCTCTCTTAGTATT
193 ATTTTCATTACATTTAGAATTATCATAACTCTTTCTTAGTATA
** * * * * * * *
8991450 TTATGACATTTTTTACTCATTTTACTTTAAATGATACTAATTTTACTTTTATTCACACTTGTTTA
1 TTACAACACTTCTTACCCATTTTACATCAAATGATACTAATTTTA-GTTTATTCTCACTTGTTTA
** ** * *
8991515 TGTTTTCAATTTATTTTTTTAATTTATAGCTA-TTTTCTTTATATATATATATATACAAAAACAA
65 CATTACCAATTTA-TTTTTTAATTTTTAGCTATTTTTC-TTA-A-ATAT-T-TAT---AAAATAA
* * * *
8991579 TAATTAATTAAAATTTTACATTGTC-ATCATAATTATTTACATTATAATAATATATTTTTAT
121 TAATTAATTAAAATTTTACATTATCAAT-ATAATTATTTACGTTACAATAATATATTCTTAT
8991640 GTTTCTTCTT
Statistics
Matches: 1744, Mismatches: 381, Indels: 296
0.72 0.16 0.12
Matches are distributed among these distances:
207 12 0.01
208 66 0.04
209 7 0.00
210 7 0.00
211 9 0.01
212 22 0.01
213 10 0.01
215 16 0.01
217 4 0.00
218 7 0.00
220 8 0.00
222 6 0.00
223 88 0.05
224 7 0.00
225 41 0.02
226 29 0.02
227 7 0.00
228 11 0.01
229 85 0.05
230 88 0.05
231 106 0.06
232 5 0.00
233 104 0.06
234 156 0.09
235 147 0.08
236 213 0.12
237 34 0.02
238 146 0.08
239 63 0.04
240 5 0.00
241 8 0.00
242 2 0.00
243 8 0.00
244 36 0.02
245 7 0.00
247 3 0.00
248 48 0.03
250 2 0.00
251 63 0.04
252 55 0.03
253 3 0.00
ACGTcount: A:0.33, C:0.11, G:0.05, T:0.51
Consensus pattern (235 bp):
TTACAACACTTCTTACCCATTTTACATCAAATGATACTAATTTTAGTTTATTCTCACTTGTTTAC
ATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTATAAAATAATAATTAATTA
AAATTTTACATTATCAATATAATTATTTACGTTACAATAATATATTCTTATTATTGTTCTTAATT
TTCATTACATTTAGAATTATCATAACTCTTTCTTAGTATA
Found at i:8990312 original size:223 final size:227
Alignment explanation
Indices: 8989656--8990339 Score: 505
Period size: 234 Copynumber: 3.0 Consensus size: 227
8989646 TTCTCACTTA
** * * * *
8989656 TTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTCAAATATTTATAAA-ATAATAAT
1 TTTACATTACCAATTTGCTTTTCAATTTTTAGCTATTTTTCTTATATATTTACAAATA-AAT-A-
* * * * * * * *
8989720 TAATTAAAATTTTACATTATCGATATAATTATTTACGTTA-TATGAA-TATATTCTTATTATTGT
63 TAATTAAAATTTTATATTAACAACATAATTATTTACGTTACAAT-AATTATATTCTTATAAATAT
* * * ** * *
8989783 TCTTA-ATTTTC-ATTACATTTAGAATTATCA-AAC-TCTTT-TGAGTATATTATGACAATTCAT
127 TCTTACA--TTCAATTACATTTAAAATTATCATAACAT-TTTCTTAGCATATTACAACACTTCTT
** * * * * *
8989843 ACAAAATTTT-CATCAAATGATGCTAATTTTATGTTTATTCTCACTTG
189 AC-TCATTTTACATCAAATAATACTAAATTTA----CATT-T---TTT
* *
8989890 TTTA-AGTTACCAATTTGTTTTTTAATTTTTAGCTATTTTTCTTATATATTTACAAATAAATAAA
1 TTTACA-TTACCAATTTGCTTTTCAATTTTTAGCTATTTTTCTTATATATTTACAAATAAAT--A
* * ** * * * * * *
8989954 TAATTCAAATTTTATATTAATAATTTAATTATTTACGTTACAATAATTTCTTTTTTTATTATTTT
63 TAATTAAAATTTTATATTAACAACATAATTATTTACGTTACAATAA-TTATATTCTTATAAATAT
* ** * ** * ** * * *
8990019 TCTTACCTTTGATTATATTTAGGATTATCATTATTTTTTCTTAGCCTATTACAACATTTTTTACT
127 TCTTACATTCAATTACATTTAAAATTATCATAACATTTTCTTAGCATATTACAACACTTCTTACT
* * * * *
8990084 CATTTTACGTTAAATTATACTGATTTTACATTTTTT
192 CATTTTACATCAAATAATACTAAATTTACATTTTTT
*
8990120 TTTACATTACCTATTTGCTTTTCAATTTTTAGCTATTTTTCTTATATATTTA-AAA-AAAT-TAA
1 TTTACATTACCAATTTGCTTTTCAATTTTTAGCTATTTTTCTTATATATTTACAAATAAATATAA
* * *
8990182 TTAAAATTTTCTATTACCAACATAATTATTTATGTTACAATAA-TATATTCTTATAAATATTCTT
66 TTAAAATTTTATATTAACAACATAATTATTTACGTTACAATAATTATATTCTTATAAATATTCTT
* * * *
8990246 ACATTCAATTACGTTTAAAATTATCATAACATTTTCTTAGTATGTTACAACACTTCTTATTCATT
131 ACATTCAATTACATTTAAAATTATCATAACATTTTCTTAGCATATTACAACACTTCTTACTCATT
8990311 TTACATCAAATAATACTAAATTTACATTT
196 TTACATCAAATAATACTAAATTTACATTT
8990340 CTTCTCACTT
Statistics
Matches: 362, Mismatches: 75, Indels: 37
0.76 0.16 0.08
Matches are distributed among these distances:
223 88 0.24
225 39 0.11
228 4 0.01
229 3 0.01
230 49 0.14
231 1 0.00
233 2 0.01
234 92 0.25
235 7 0.02
236 35 0.10
237 9 0.02
238 33 0.09
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.51
Consensus pattern (227 bp):
TTTACATTACCAATTTGCTTTTCAATTTTTAGCTATTTTTCTTATATATTTACAAATAAATATAA
TTAAAATTTTATATTAACAACATAATTATTTACGTTACAATAATTATATTCTTATAAATATTCTT
ACATTCAATTACATTTAAAATTATCATAACATTTTCTTAGCATATTACAACACTTCTTACTCATT
TTACATCAAATAATACTAAATTTACATTTTTT
Done.