Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 88 of 91
Found at i:14984056 original size:25 final size:26
Alignment explanation
Indices: 14984028--14984077 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
14984018 CATATATTTA
14984028 TATTAT-ATCTTATA-TAAAATTTATG
1 TATTATAAT-TTATATTAAAATTTATG
*
14984053 TATTGTAATTTATATTAAAATTTAT
1 TATTATAATTTATATTAAAATTTAT
14984078 ATCAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTATAATTTATATTAAAATTTATG
Found at i:14987509 original size:24 final size:24
Alignment explanation
Indices: 14987482--14987527 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14987472 TTATTATTAA
*
14987482 AATTTTAAATTATTTTTATATTTT
1 AATTTTAAATTATATTTATATTTT
**
14987506 AATTTTGTATTATATTTATATT
1 AATTTTAAATTATATTTATATT
14987528 ATGTTGTCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
AATTTTAAATTATATTTATATTTT
Found at i:14987518 original size:18 final size:19
Alignment explanation
Indices: 14987499--14987577 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 19
14987489 AATTATTTTT
*
14987499 ATATTTTAATT-TTGTATT
1 ATATTTTAATTATTGTATC
14987517 ATA-TTTATATTATGTTGTCGTATC
1 ATATTTTA-ATTA--TTGT---ATC
14987541 ATA-TTTAATTATTGTATC
1 ATATTTTAATTATTGTATC
14987559 ATATTTTAAATTATTGTAT
1 ATATTTT-AATTATTGTAT
14987578 GTAAAGTAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
17 4 0.08
18 12 0.24
19 3 0.06
20 11 0.22
21 8 0.16
23 4 0.08
24 9 0.18
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (19 bp):
ATATTTTAATTATTGTATC
Found at i:14987572 original size:20 final size:18
Alignment explanation
Indices: 14987536--14987577 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
14987526 TTATGTTGTC
14987536 GTATCATATTTAATTATT
1 GTATCATATTTAATTATT
14987554 GTATCATATTTTAAATTATT
1 GTATCATA-TTT-AATTATT
14987574 GTAT
1 GTAT
14987578 GTAAAGTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 11 0.50
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (18 bp):
GTATCATATTTAATTATT
Found at i:14989310 original size:22 final size:22
Alignment explanation
Indices: 14989256--14989311 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
14989246 TTTAAAATTA
*
14989256 TTATTAAAATTTTATAATATGT
1 TTATTAAATTTTTATAATATGT
* * *
14989278 TTTTTATATTTTTATTTATAT-T
1 TTATTAAATTTTTA-TAATATGT
14989300 TTATTAAATTTT
1 TTATTAAATTTT
14989312 AAATTTCTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTATTAAATTTTTATAATATGT
Found at i:14989570 original size:16 final size:16
Alignment explanation
Indices: 14989551--14989585 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14989541 TAATTACTTC
* *
14989551 AAATTATTTTGAGTTT
1 AAATTATTATGAATTT
14989567 AAATTATTATGAATTT
1 AAATTATTATGAATTT
14989583 AAA
1 AAA
14989586 AAAATTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (16 bp):
AAATTATTATGAATTT
Found at i:14989636 original size:38 final size:39
Alignment explanation
Indices: 14989561--14989637 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
14989551 AAATTATTTT
14989561 GAGTTTAAATTATTATGAATTTAAAAAAATTCAACACAA
1 GAGTTTAAATTATTATGAATTTAAAAAAATTCAACACAA
*
14989600 GAGTTTAAATT-TT-T-AATTTTAAATATAATTCAACACAA
1 GAGTTTAAATTATTATGAA-TTTAAA-AAAATTCAACACAA
14989638 ATCTATTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
36 2 0.06
37 7 0.20
38 15 0.43
39 11 0.31
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (39 bp):
GAGTTTAAATTATTATGAATTTAAAAAAATTCAACACAA
Found at i:14990044 original size:46 final size:45
Alignment explanation
Indices: 14989972--14990064 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 45
14989962 CAATTTTTTT
* *
14989972 AAAAAAAAGTGAAAAATATAACATG-AAAAATGTTTTGATTGAAAA
1 AAAAAAAAATGAAAAATATAACATGAAAAAAAG-TTTGATTGAAAA
*** *
14990017 AAAAAAAACATGAAAAATATGGTATGAAAAAAAGTTTGGTTGAAAA
1 AAAAAAAA-ATGAAAAATATAACATGAAAAAAAGTTTGATTGAAAA
14990063 AA
1 AA
14990065 TGAAAAGGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
45 8 0.20
46 26 0.65
47 6 0.15
ACGTcount: A:0.60, C:0.02, G:0.15, T:0.23
Consensus pattern (45 bp):
AAAAAAAAATGAAAAATATAACATGAAAAAAAGTTTGATTGAAAA
Found at i:14990261 original size:76 final size:75
Alignment explanation
Indices: 14990136--14990285 Score: 273
Period size: 76 Copynumber: 2.0 Consensus size: 75
14990126 TATATATGTT
14990136 AAATTTAAAACTACATGATTGTGAAATTAAGAATAGCAATGAAAGGGATATCCTTTACTTTTGAA
1 AAATTTAAAACTACATGATTGTGAAATTAAGAATAGCAATGAAAGGGATATCCTTTACTTTTGAA
14990201 ATATCCATAA
66 ATATCCATAA
* *
14990211 AAATTTAAAATTACATGATTGTGAAAATTAAGAATAGCAATGAAAGGGATATTCTTTACTTTTGA
1 AAATTTAAAACTACATGATTGTG-AAATTAAGAATAGCAATGAAAGGGATATCCTTTACTTTTGA
14990276 AATATCCATA
65 AATATCCATA
14990286 TACAAACTCA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 22 0.31
76 50 0.69
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (75 bp):
AAATTTAAAACTACATGATTGTGAAATTAAGAATAGCAATGAAAGGGATATCCTTTACTTTTGAA
ATATCCATAA
Found at i:14993495 original size:16 final size:16
Alignment explanation
Indices: 14993474--14993504 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14993464 TCAACAAACC
14993474 AAATTGATTCAAATCT
1 AAATTGATTCAAATCT
14993490 AAATTGATTCAAATC
1 AAATTGATTCAAATC
14993505 GAGACTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (16 bp):
AAATTGATTCAAATCT
Found at i:14993565 original size:21 final size:19
Alignment explanation
Indices: 14993513--14993590 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 19
14993503 TCGAGACTTG
14993513 TTAATATTATTAAA-TAATTA
1 TTAATA-TATTAAATTAA-TA
*
14993533 TTAATATCATTAAATTAGTA
1 TTAATAT-ATTAAATTAATA
14993553 TCTAATAATATTAAATTAATA
1 T-TAAT-ATATTAAATTAATA
14993574 TTGAATATATTAAATTA
1 TT-AATATATTAAATTA
14993591 TTAATAATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.02
20 27 0.53
21 21 0.41
22 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TTAATATATTAAATTAATA
Found at i:14996754 original size:32 final size:33
Alignment explanation
Indices: 14996695--14996756 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
14996685 TATTTCAACC
*
14996695 TTTTCTTAAAAATTTTCAAAAATTTTATTCATT
1 TTTTCCTAAAAATTTTCAAAAATTTTATTCATT
*
14996728 TTTTCCTAAAAATTTT-TAAAATTTTATTC
1 TTTTCCTAAAAATTTTCAAAAATTTTATTC
14996757 TAAGAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (33 bp):
TTTTCCTAAAAATTTTCAAAAATTTTATTCATT
Found at i:14996759 original size:23 final size:25
Alignment explanation
Indices: 14996725--14996777 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
14996715 AATTTTATTC
*
14996725 ATTTT-TTCCTAA-AAATTTTTAAA
1 ATTTTATTCCTAAGAAAATTTTAAA
* *
14996748 ATTTTATT-CTAAGAAAATTTTGAT
1 ATTTTATTCCTAAGAAAATTTTAAA
14996772 ATTTTA
1 ATTTTA
14996778 ACTTTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (25 bp):
ATTTTATTCCTAAGAAAATTTTAAA
Found at i:14998396 original size:33 final size:32
Alignment explanation
Indices: 14998345--14998409 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
14998335 TGATATTTCA
** *
14998345 ACTTTTTCCTAAGTATTTTCAAAAATTTTATTC
1 ACTTTTTCCTAAAAATTTT-AAAAACTTTATTC
* *
14998378 ACTTTTTTCTAAAAATTTTGAAAACTTTATTC
1 ACTTTTTCCTAAAAATTTTAAAAACTTTATTC
14998410 TAAGAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (32 bp):
ACTTTTTCCTAAAAATTTTAAAAACTTTATTC
Found at i:14998777 original size:20 final size:21
Alignment explanation
Indices: 14998752--14998790 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14998742 AAAGTTCACT
14998752 CAAAAATA-AAATAAAAATCA
1 CAAAAATATAAATAAAAATCA
14998772 CAAAAATATAAATAAAAAT
1 CAAAAATATAAATAAAAAT
14998791 AACTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (21 bp):
CAAAAATATAAATAAAAATCA
Found at i:15000042 original size:11 final size:11
Alignment explanation
Indices: 15000012--15000047 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
15000002 ATTTTTTCTT
15000012 AATAAGAATAAA
1 AATAA-AATAAA
15000024 AGATAAAATAAA
1 A-ATAAAATAAA
15000036 AATAAAATAAA
1 AATAAAATAAA
15000047 A
1 A
15000048 TCAATTAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 8 0.35
13 4 0.17
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:15001062 original size:23 final size:23
Alignment explanation
Indices: 15001036--15001085 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
15001026 AGATTTGACC
15001036 TAAAATTAATAAAATATTA-TTTT
1 TAAAATT-ATAAAATATTATTTTT
15001059 T-AAA-TATAAAATATTATTTTT
1 TAAAATTATAAAATATTATTTTT
15001080 TAAAAT
1 TAAAAT
15001086 ATAGATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 11 0.46
21 6 0.25
22 6 0.25
23 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAATTATAAAATATTATTTTT
Found at i:15003100 original size:16 final size:16
Alignment explanation
Indices: 15003081--15003160 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
15003071 TTATTACTAA
15003081 AATTTTAAATTATATT
1 AATTTTAAATTATATT
* *
15003097 AATTTTATATTATTTT
1 AATTTTAAATTATATT
* * * *
15003113 TATATTATATTTATATC
1 AATTTTA-AATTATATT
* *
15003130 ATATCATTATATTATATT
1 A-AT-TTTAAATTATATT
15003148 ATATTTTAAATTA
1 A-ATTTTAAATTA
15003161 ACAAACAAAC
Statistics
Matches: 47, Mismatches: 14, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
16 19 0.40
17 12 0.26
18 12 0.26
19 4 0.09
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTAAATTATATT
Found at i:15003109 original size:5 final size:5
Alignment explanation
Indices: 15003089--15003152 Score: 56
Period size: 5 Copynumber: 11.6 Consensus size: 5
15003079 AAAATTTTAA
* *
15003089 ATTAT ATTAAT TTTAT ATTATT TTTAT ATTAT ATTTAT ATCATAT CATTAT
1 ATTAT ATT-AT ATTAT ATTA-T ATTAT ATTAT A-TTAT AT--TAT -ATTAT
15003140 ATTAT ATTAT ATT
1 ATTAT ATTAT ATT
15003153 TTAAATTAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
5 28 0.57
6 16 0.33
7 3 0.06
8 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:15003133 original size:11 final size:11
Alignment explanation
Indices: 15003090--15003152 Score: 67
Period size: 11 Copynumber: 5.6 Consensus size: 11
15003080 AAATTTTAAA
15003090 TTATATTA-ATT
1 TTATATTATA-T
*
15003101 TTATATTATTT
1 TTATATTATAT
15003112 TTATATTATAT
1 TTATATTATAT
*
15003123 TTATATCATAT
1 TTATATTATAT
15003134 CATTATATTATA-
1 --TTATATTATAT
15003146 TTATATT
1 TTATATT
15003153 TTAAATTAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
10 7 0.16
11 29 0.64
13 9 0.20
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATATTATAT
Found at i:15003839 original size:83 final size:83
Alignment explanation
Indices: 15003694--15003859 Score: 251
Period size: 83 Copynumber: 2.0 Consensus size: 83
15003684 CTTTCAAGCA
* *
15003694 CATTATTGATGGTTCTCTCTATATGAATGCATATTCATAGATATGGGTTTTAATATGCAAAGCAT
1 CATTATTGATGGATCTCTCTATATGAATGCATATTCATAGATATGGGTTTTAATATACAAAGCAT
* *
15003759 AAGGCCAAGCATGATTGG
66 AAGACCAAGCAAGATTGG
* * * * *
15003777 CATTATTGCTGGATCTTTGTATTTGAATGCATATTCATAGATATGGGTTTTAATATATAAAGCAT
1 CATTATTGATGGATCTCTCTATATGAATGCATATTCATAGATATGGGTTTTAATATACAAAGCAT
15003842 AAGACCAAGCAAGATTGG
66 AAGACCAAGCAAGATTGG
15003860 GGATTGATGT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 74 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (83 bp):
CATTATTGATGGATCTCTCTATATGAATGCATATTCATAGATATGGGTTTTAATATACAAAGCAT
AAGACCAAGCAAGATTGG
Found at i:15004694 original size:18 final size:18
Alignment explanation
Indices: 15004668--15004703 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15004658 TTAGATCTGT
15004668 TGTTGTTAATGTCAATTG
1 TGTTGTTAATGTCAATTG
*
15004686 TGTTTTTAATGTCAATTG
1 TGTTGTTAATGTCAATTG
15004704 AGTCATAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.06, G:0.19, T:0.53
Consensus pattern (18 bp):
TGTTGTTAATGTCAATTG
Found at i:15004939 original size:35 final size:35
Alignment explanation
Indices: 15004898--15005037 Score: 190
Period size: 35 Copynumber: 4.3 Consensus size: 35
15004888 CATGCTTGGA
15004898 CCCTTGGATCCTTTACTAAGTTAACAGACTTACAT
1 CCCTTGGATCCTTTACTAAGTTAACAGACTTACAT
15004933 CCCTTGGATCCTTTACTAAGTTAACAG------A-
1 CCCTTGGATCCTTTACTAAGTTAACAGACTTACAT
* *
15004961 --CTTGCATCCTTTACTAAGTTAACAGATTTACAT
1 CCCTTGGATCCTTTACTAAGTTAACAGACTTACAT
*
15004994 CCCTTGGATCCTTTATTAAGTTAACAGACTTACAT
1 CCCTTGGATCCTTTACTAAGTTAACAGACTTACAT
15005029 CCCTTGGAT
1 CCCTTGGAT
15005038 TTATTGTTCA
Statistics
Matches: 92, Mismatches: 4, Indels: 18
0.81 0.04 0.16
Matches are distributed among these distances:
26 24 0.26
29 1 0.01
32 1 0.01
35 66 0.72
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (35 bp):
CCCTTGGATCCTTTACTAAGTTAACAGACTTACAT
Found at i:15004971 original size:26 final size:26
Alignment explanation
Indices: 15004935--15004995 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
15004925 ACTTACATCC
*
15004935 CTTGGATCCTTTACTAAGTTAACAGA
1 CTTGCATCCTTTACTAAGTTAACAGA
15004961 CTTGCATCCTTTACTAAGTTAACAGA
1 CTTGCATCCTTTACTAAGTTAACAGA
* *
15004987 TTTACATCC
1 CTTGCATCC
15004996 CTTGGATCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (26 bp):
CTTGCATCCTTTACTAAGTTAACAGA
Found at i:15005000 original size:61 final size:61
Alignment explanation
Indices: 15004900--15005030 Score: 226
Period size: 61 Copynumber: 2.1 Consensus size: 61
15004890 TGCTTGGACC
*
15004900 CTTGGATCCTTTACTAAGTTAACAGACTTACATCCCTTGGATCCTTTACTAAGTTAACAGA
1 CTTGCATCCTTTACTAAGTTAACAGACTTACATCCCTTGGATCCTTTACTAAGTTAACAGA
* *
15004961 CTTGCATCCTTTACTAAGTTAACAGATTTACATCCCTTGGATCCTTTATTAAGTTAACAGA
1 CTTGCATCCTTTACTAAGTTAACAGACTTACATCCCTTGGATCCTTTACTAAGTTAACAGA
*
15005022 CTTACATCC
1 CTTGCATCC
15005031 CTTGGATTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (61 bp):
CTTGCATCCTTTACTAAGTTAACAGACTTACATCCCTTGGATCCTTTACTAAGTTAACAGA
Found at i:15007200 original size:25 final size:25
Alignment explanation
Indices: 15007166--15007216 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
15007156 AAATTAGTGA
*
15007166 GGAGCAGTAGAGAAAGTAGAGCAAT
1 GGAGCAGTAGAGAAAGAAGAGCAAT
*
15007191 GGAGTAGTAGAGAAAGAAGAGCAAT
1 GGAGCAGTAGAGAAAGAAGAGCAAT
15007216 G
1 G
15007217 CAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.06, G:0.37, T:0.12
Consensus pattern (25 bp):
GGAGCAGTAGAGAAAGAAGAGCAAT
Found at i:15008535 original size:145 final size:145
Alignment explanation
Indices: 15008304--15008577 Score: 320
Period size: 145 Copynumber: 1.9 Consensus size: 145
15008294 CCTAAATTGA
* * * * *
15008304 TTTTGTTTATTTCATTTCATTTTTATTTTTAAAAAATTTAGAAAAATTTGGTATTTCAACTTTTT
1 TTTTATTTATTTAATTTCATTTTTATTCTGAAAAAATTTAGAAAAATTTGATATTTCAACTTTTT
** * * * *
15008369 TGTAAAAATTTTAAAAATTTTATTCTAAGGAAAATTTGATATTTTAACTTTTTCGTTAGCATTTC
66 TGTAAAAATTCCAAAAATTTTATTCTAAGAAAAAATTAATATTTCAACTTTTTCGTTAGCATTTC
15008434 AAGTTTTAATTTATT
131 AAGTTTTAATTTATT
*
15008449 TTTTATTTATCTTAATTT-ATTTTTATTCTGAAAGAATTTAGGAAAAA-TTGATATTTCAA-TTT
1 TTTTATTTAT-TTAATTTCATTTTTATTCTGAAAAAATTTA-GAAAAATTTGATATTTCAACTTT
* * * * * * * *
15008511 TTTCTTAAATATTCCCAAATTTTTATTTTAAGAAAAAATTAATATTTCAAGTTTTTCTTTAGTAT
64 TTT-GTAAAAATTCCAAAAATTTTATTCTAAGAAAAAATTAATATTTCAACTTTTTCGTTAGCAT
15008576 TT
128 TT
15008578 TTTAAAAACC
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
144 6 0.06
145 88 0.83
146 12 0.11
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (145 bp):
TTTTATTTATTTAATTTCATTTTTATTCTGAAAAAATTTAGAAAAATTTGATATTTCAACTTTTT
TGTAAAAATTCCAAAAATTTTATTCTAAGAAAAAATTAATATTTCAACTTTTTCGTTAGCATTTC
AAGTTTTAATTTATT
Found at i:15010305 original size:21 final size:21
Alignment explanation
Indices: 15010275--15010328 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
15010265 AAATTTCACT
*
15010275 CAAAAAATAAAATA-AAATCA
1 CAAAAAATAAAATACAAATAA
15010295 C-AAAAATATAAATACAAATAA
1 CAAAAAATA-AAATACAAATAA
*
15010316 TAAAAAGATAAAA
1 CAAAAA-ATAAAA
15010329 GATAAAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 7 0.25
20 6 0.21
21 5 0.18
22 7 0.25
23 3 0.11
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (21 bp):
CAAAAAATAAAATACAAATAA
Found at i:15021922 original size:83 final size:83
Alignment explanation
Indices: 15021783--15021940 Score: 217
Period size: 83 Copynumber: 1.9 Consensus size: 83
15021773 CTTTGAAGCA
* * * *
15021783 CATTATTGATGGTTCTCTGTATATGAATGCGTATTCGTATATATGGGTTTTAATATACAAAGCAT
1 CATTATTGATGGATCTCTGTATATGAATGCATATTCATAGATATGGGTTTTAATATACAAAGCAT
*
15021848 AAGGCCAAGCGTGACTGG
66 AAGACCAAGCGTGACTGG
* * * * **
15021866 CATTATTGCTGGATCTTTGTATTTGAATGCATATTCATAGGTATGGGTTTTAATATATGAAGCAT
1 CATTATTGATGGATCTCTGTATATGAATGCATATTCATAGATATGGGTTTTAATATACAAAGCAT
15021931 AAGACCAAGC
66 AAGACCAAGC
15021941 AAGATTGGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 64 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.36
Consensus pattern (83 bp):
CATTATTGATGGATCTCTGTATATGAATGCATATTCATAGATATGGGTTTTAATATACAAAGCAT
AAGACCAAGCGTGACTGG
Found at i:15022941 original size:24 final size:24
Alignment explanation
Indices: 15022914--15022962 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
15022904 ATTTTGTGAT
15022914 GAAAATTTCCAGATAAAGTAAAGG
1 GAAAATTTCCAGATAAAGTAAAGG
*
15022938 GAAATTTTCCAGATAAAGTAAAGG
1 GAAAATTTCCAGATAAAGTAAAGG
15022962 G
1 G
15022963 GTTCATAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.22
Consensus pattern (24 bp):
GAAAATTTCCAGATAAAGTAAAGG
Found at i:15023556 original size:21 final size:21
Alignment explanation
Indices: 15023530--15023580 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
15023520 ATTTCTTCTC
15023530 TATATGTTCTTGGCATCTGCT
1 TATATGTTCTTGGCATCTGCT
15023551 TATATGTTCTTGGCATCTGCT
1 TATATGTTCTTGGCATCTGCT
15023572 TATATGTTC
1 TATATGTTC
15023581 AATTGTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (21 bp):
TATATGTTCTTGGCATCTGCT
Found at i:15025783 original size:37 final size:36
Alignment explanation
Indices: 15025731--15025801 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 36
15025721 AGTTAAAAAC
* *
15025731 GAAATGATCTATATATTTTAAATTGAATTTTTGTAA
1 GAAATGACCTATATATCTTAAATTGAATTTTTGTAA
15025767 GAAATGACCGTATATATCTTAAATTGAATTTTTGT
1 GAAATGACC-TATATATCTTAAATTGAATTTTTGT
15025802 TTGCAAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 8 0.25
37 24 0.75
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.45
Consensus pattern (36 bp):
GAAATGACCTATATATCTTAAATTGAATTTTTGTAA
Found at i:15030950 original size:29 final size:29
Alignment explanation
Indices: 15030882--15030950 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
15030872 TATTTAATTT
* * * *
15030882 TTAAATAATTTTTTTATTTAAATACTAAT
1 TTAAATCATATTTTTATTTAAATAATAAA
*
15030911 TTAAATGATATTTTTATTTAAATAAATAAA
1 TTAAATCATATTTTTATTTAAAT-AATAAA
15030941 TT-AATCATAT
1 TTAAATCATAT
15030951 CTAATCGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (29 bp):
TTAAATCATATTTTTATTTAAATAATAAA
Found at i:15040653 original size:13 final size:13
Alignment explanation
Indices: 15040637--15040662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15040627 CAATTAATAA
15040637 TTTTATTTTTTAT
1 TTTTATTTTTTAT
15040650 TTTTATTTTTTAT
1 TTTTATTTTTTAT
15040663 AAAGTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:15042375 original size:10 final size:10
Alignment explanation
Indices: 15042360--15042441 Score: 50
Period size: 10 Copynumber: 8.4 Consensus size: 10
15042350 AAATTTTTTT
15042360 AAAAATTCAA
1 AAAAATTCAA
15042370 AAAAATT-AA
1 AAAAATTCAA
**
15042379 AAACAATTTTCTG
1 AAA-AA--TTCAA
15042392 AAAAATT-AA
1 AAAAATTCAA
*
15042401 AAAAA-TC-T
1 AAAAATTCAA
*
15042409 AAAAATCTC-C
1 AAAAAT-TCAA
15042419 AAAAATTCAA
1 AAAAATTCAA
15042429 AAAAATT-AA
1 AAAAATTCAA
15042438 AAAA
1 AAAA
15042442 TTCCCAAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
8 6 0.11
9 18 0.32
10 26 0.46
12 4 0.07
13 3 0.05
ACGTcount: A:0.66, C:0.10, G:0.01, T:0.23
Consensus pattern (10 bp):
AAAAATTCAA
Found at i:15042387 original size:32 final size:32
Alignment explanation
Indices: 15042351--15042413 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
15042341 AACATCTGAA
* *
15042351 AATTTTTTTAAAAATTCAAAAAAAT-TAAAAAC
1 AATTTTCTGAAAAATT-AAAAAAATCTAAAAAC
15042383 AATTTTCTGAAAAATTAAAAAAATCTAAAAA
1 AATTTTCTGAAAAATTAAAAAAATCTAAAAA
15042414 TCTCCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (32 bp):
AATTTTCTGAAAAATTAAAAAAATCTAAAAAC
Found at i:15042569 original size:18 final size:17
Alignment explanation
Indices: 15042545--15042601 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
15042535 AATAAAGAAT
**
15042545 TTAAAAAAACTGTAAAA
1 TTAAAAAAACTAAAAAA
*
15042562 TTAGAAAATACTAAAAAA
1 TTA-AAAAAACTAAAAAA
* *
15042580 TTAAAAAATCCAAAAAA
1 TTAAAAAAACTAAAAAA
15042597 -TAAAA
1 TTAAAA
15042602 TAAAATATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 5 0.15
17 14 0.42
18 14 0.42
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (17 bp):
TTAAAAAAACTAAAAAA
Found at i:15042594 original size:17 final size:18
Alignment explanation
Indices: 15042558--15042601 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
15042548 AAAAAACTGT
* *
15042558 AAAATTAGAAAATACTAA
1 AAAATTAAAAAATACCAA
15042576 AAAATTAAAAAAT-CCAA
1 AAAATTAAAAAATACCAA
15042593 AAAA-TAAAA
1 AAAATTAAAA
15042602 TAAAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.21
17 7 0.29
18 12 0.50
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAATTAAAAAATACCAA
Found at i:15043397 original size:7 final size:7
Alignment explanation
Indices: 15043385--15043411 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
15043375 AATTCTGTCG
15043385 TTAATAA
1 TTAATAA
15043392 TTAATAA
1 TTAATAA
15043399 TTAATAA
1 TTAATAA
15043406 TTAATA
1 TTAATA
15043412 TTTCTATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAATAA
Found at i:15043907 original size:2 final size:2
Alignment explanation
Indices: 15043900--15043933 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
15043890 ATCTTATCCC
*
15043900 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15043934 TAACTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15046265 original size:25 final size:24
Alignment explanation
Indices: 15046217--15046267 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
15046207 ATATAATAAA
*
15046217 AAATTTAAAAAATATGATTGAATT
1 AAATTTAAAAAATATGATTCAATT
15046241 AAATTTAATAAAATTAT-ATTCAATT
1 AAATTTAA-AAAA-TATGATTCAATT
15046266 AA
1 AA
15046268 CATATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 13 0.54
26 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (24 bp):
AAATTTAAAAAATATGATTCAATT
Found at i:15046291 original size:13 final size:13
Alignment explanation
Indices: 15046275--15046319 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
15046265 TAACATATAT
15046275 ATAAAAATTAAAA
1 ATAAAAATTAAAA
* *
15046288 ATAAAAATTATAT
1 ATAAAAATTAAAA
15046301 ATAATAAA-TAAAA
1 ATAA-AAATTAAAA
15046314 ATAAAA
1 ATAAAA
15046320 TTTTAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 2 0.07
13 22 0.81
14 3 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
ATAAAAATTAAAA
Found at i:15046334 original size:26 final size:26
Alignment explanation
Indices: 15046270--15046319 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
15046260 TCAATTAACA
15046270 TATATATAA-AAATTAAAAATAAAAAT
1 TATATATAATAAA-TAAAAATAAAAAT
15046296 TATATATAATAAATAAAAATAAAA
1 TATATATAATAAATAAAAATAAAA
15046320 TTTTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (26 bp):
TATATATAATAAATAAAAATAAAAAT
Found at i:15048396 original size:26 final size:26
Alignment explanation
Indices: 15048367--15048448 Score: 89
Period size: 25 Copynumber: 3.2 Consensus size: 26
15048357 ATTTTAAGTA
*
15048367 TTTTGTCAT-ATTTTTTATTTTTTAT
1 TTTTGTCATAATTTTTTATTATTTAT
* * *
15048392 TTTT-TGCTTAATTTTTTAATATATAT
1 TTTTGT-CATAATTTTTTATTATTTAT
*
15048418 TTTTAT-ATAATTTTTTATTATTTAT
1 TTTTGTCATAATTTTTTATTATTTAT
15048443 TTTTGT
1 TTTTGT
15048449 GGTATTTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
24 1 0.02
25 27 0.59
26 17 0.37
27 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTGTCATAATTTTTTATTATTTAT
Found at i:15048455 original size:25 final size:26
Alignment explanation
Indices: 15048367--15048474 Score: 88
Period size: 25 Copynumber: 4.4 Consensus size: 26
15048357 ATTTTAAGTA
* *
15048367 TTTTGTCAT-ATTTTTTATTTTTTAT
1 TTTTGTGATAATTTTTTATTATTTAT
* * *
15048392 TTTT-TGCTTAATTTTTTAATATATAT
1 TTTTGTG-ATAATTTTTTATTATTTAT
*
15048418 TTTTAT-ATAATTTTTTATTATTTAT
1 TTTTGTGATAATTTTTTATTATTTAT
*
15048443 TTTTGTGGT-A-TTTTTA-T-TTTAT
1 TTTTGTGATAATTTTTTATTATTTAT
15048465 TTTTGT-ATAA
1 TTTTGTGATAA
15048475 ACTTTTGATA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.01
22 12 0.18
23 1 0.01
24 7 0.10
25 27 0.40
26 18 0.27
27 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (26 bp):
TTTTGTGATAATTTTTTATTATTTAT
Found at i:15048625 original size:14 final size:12
Alignment explanation
Indices: 15048592--15048631 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
15048582 ATTTTCTCTT
*
15048592 AAATAATATAAA
1 AAATAAAATAAA
15048604 AAATAAAATAAA
1 AAATAAAATAAA
15048616 ATAATGAAAATAAA
1 A-AAT-AAAATAAA
15048630 AA
1 AA
15048632 TTTTAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 12 0.48
13 4 0.16
14 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:15048668 original size:22 final size:21
Alignment explanation
Indices: 15048643--15048703 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
15048633 TTTAATGAAC
15048643 AAGAATAAAGAAAAATATAA-AA
1 AAGAATAAA-AAAAATA-AATAA
* *
15048665 AAGATTAAATAAAATAAATAA
1 AAGAATAAAAAAAATAAATAA
* *
15048686 AATAATAAAAACAATAAA
1 AAGAATAAAAAAAATAAA
15048704 GTCAAAAGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.06
21 22 0.69
22 8 0.25
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (21 bp):
AAGAATAAAAAAAATAAATAA
Found at i:15048987 original size:117 final size:115
Alignment explanation
Indices: 15048693--15049038 Score: 360
Period size: 117 Copynumber: 2.9 Consensus size: 115
15048683 TAAAATAATA
* * *
15048693 AAAACAATAAAGTCAAAAGTGGTGATTTTATTAAAAAATATT-TATACAAATTTTTTTAAAAAAT
1 AAAACAATAAAGTCAAAA-TGGTGATTTTATT-AAAAATATTATATAAAAAATTTTCT--AAAAT
* * * * *
15048757 ATTCTAAAAGTATTAGAAGTATCTTAGAATTTTTCAAACATAGAAAAATTGTTATT
62 ATTTTAAAAGTATTAGAAATATTTTAGAAATTTTCAAACA-A-AAAAATTATTATT
* * * * * *
15048813 AATAACTATAAAATTATAGATGGTGATTTTATTGAAAATATT-TACACAAACAGATTTTCTAAAA
1 AA-AACAATAAAGTCA-AAATGGTGATTTTATTAAAAATATTATATA-AAA-A-ATTTTCTAAAA
*
15048877 TATTTTAAAAGTATTAAAAATATTTTAGAAATTTTGCAAACAAAAAAA-TATTATT
61 TATTTTAAAAGTATTAGAAATATTTTAGAAATTTT-CAAACAAAAAAATTATTATT
*
15048932 AAAA-AATAACGTCACAAATGGTGATTTTATTAAAAATATGTATATAAAGAAATTTTCTAAAATA
1 AAAACAATAAAGTCA-AAATGGTGATTTTATTAAAAATAT-TATATAAA-AAATTTTCTAAAATA
* *
15048996 TTTTAAAAGTACTAGAAATATTTTA-AAATTTTCAAATAAAAAA
63 TTTTAAAAGTATTAGAAATATTTTAGAAATTTTCAAACAAAAAA
15049039 TTAAAAAATT
Statistics
Matches: 191, Mismatches: 26, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
115 10 0.05
116 7 0.04
117 64 0.34
118 6 0.03
119 12 0.06
120 18 0.09
121 60 0.31
122 9 0.05
123 5 0.03
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (115 bp):
AAAACAATAAAGTCAAAATGGTGATTTTATTAAAAATATTATATAAAAAATTTTCTAAAATATTT
TAAAAGTATTAGAAATATTTTAGAAATTTTCAAACAAAAAAATTATTATT
Found at i:15052033 original size:2 final size:2
Alignment explanation
Indices: 15052026--15052053 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15052016 GAAGGGGCAC
15052026 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
15052054 CCATTAATTG
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:15063216 original size:30 final size:30
Alignment explanation
Indices: 15063182--15063246 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
15063172 TATTTTGAAT
*
15063182 CAATTGAACCCCTAAACATTTATTTTCACC
1 CAATTGAACCCCTAAACATCTATTTTCACC
** * * *
15063212 CAATTGAATTCTTATACATCTATTTTCACT
1 CAATTGAACCCCTAAACATCTATTTTCACC
15063242 CAATT
1 CAATT
15063247 AAATCCTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.40
Consensus pattern (30 bp):
CAATTGAACCCCTAAACATCTATTTTCACC
Found at i:15073196 original size:3 final size:3
Alignment explanation
Indices: 15073190--15073222 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
15073180 AGGCAAGAAG
15073190 ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15073223 CATGATGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15083312 original size:16 final size:16
Alignment explanation
Indices: 15083273--15083314 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15083263 TTTAATTTTT
*
15083273 TATTTATA-TTTTATA
1 TATTTATATTTTTAAA
* *
15083288 TAATGATATTTTTAAA
1 TATTTATATTTTTAAA
15083304 TATTTATATTT
1 TATTTATATTT
15083315 AAAAAATAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTTATATTTTTAAA
Found at i:15083332 original size:21 final size:21
Alignment explanation
Indices: 15083302--15083352 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
15083292 GATATTTTTA
15083302 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
15083322 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
15083343 AATATTTTAT
1 AATATTTTAT
15083353 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:15083336 original size:27 final size:28
Alignment explanation
Indices: 15083267--15083336 Score: 70
Period size: 30 Copynumber: 2.4 Consensus size: 28
15083257 TAATTATTTA
* * * *
15083267 ATTTTTTATTTATATTTTATATAATGAT
1 ATTTTATATTTATATTTTAAAAAATAAT
15083295 ATTTTTAAATATTTATA-TTTAAAAAATAAT
1 A-TTTT--ATATTTATATTTTAAAAAATAAT
15083325 ATTTTATATTTA
1 ATTTTATATTTA
15083337 AAAAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 7 0.20
28 1 0.03
29 8 0.23
30 11 0.31
31 8 0.23
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
ATTTTATATTTATATTTTAAAAAATAAT
Found at i:15090828 original size:6 final size:7
Alignment explanation
Indices: 15090811--15090835 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15090801 TCAATCGATT
15090811 TTTTTTC
1 TTTTTTC
15090818 TTTTTTC
1 TTTTTTC
15090825 TTTTTTC
1 TTTTTTC
15090832 TTTT
1 TTTT
15090836 GGCAAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:15091458 original size:25 final size:27
Alignment explanation
Indices: 15091411--15091462 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
15091401 AATTCTACAT
15091411 TATATATATTATCATATAAATAACTTATA
1 TATATATATTATCA-AT-AATAACTTATA
15091440 TATATATATTATC-AT-ATAACTTA
1 TATATATATTATCAATAATAACTTA
15091463 GAAATGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.35
27 2 0.09
29 13 0.57
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (27 bp):
TATATATATTATCAATAATAACTTATA
Found at i:15093747 original size:12 final size:13
Alignment explanation
Indices: 15093723--15093752 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
15093713 TGAAAAGAAT
15093723 GAAAAGAAAAAGA
1 GAAAAGAAAAAGA
15093736 GAAAAGAAAAGAGA
1 GAAAAGAAAA-AGA
15093750 GAA
1 GAA
15093753 CAAAGAAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAAAGA
Found at i:15093750 original size:14 final size:14
Alignment explanation
Indices: 15093714--15093752 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
15093704 CCATAACCAT
15093714 GAAAAGA-ATGAAAA
1 GAAAAGAGA-GAAAA
15093728 GAAAA-AGAGAAAA
1 GAAAAGAGAGAAAA
15093741 GAAAAGAGAGAA
1 GAAAAGAGAGAA
15093753 CAAAGAAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (14 bp):
GAAAAGAGAGAAAA
Found at i:15094883 original size:21 final size:21
Alignment explanation
Indices: 15094865--15094922 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
15094855 TTTGATAAGG
15094865 TTAAAAATAATAATAATAAAA
1 TTAAAAATAATAATAATAAAA
* *
15094886 TTAAATATTATAATAATAAAA
1 TTAAAAATAATAATAATAAAA
* *
15094907 TTAAAATTAATGATAA
1 TTAAAAATAATAATAA
15094923 AATATATGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAAAATAATAATAATAAAA
Found at i:15096006 original size:28 final size:29
Alignment explanation
Indices: 15095952--15096015 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
15095942 AATTTAATCG
15095952 ATATTTATTTAATAATAAAAATTATATCA
1 ATATTTATTTAATAATAAAAATTATATCA
* *
15095981 ATATTT-TTTTATAA-AAATATCTATAT-A
1 ATATTTATTTAATAATAAAAAT-TATATCA
*
15096008 AAATTTAT
1 ATATTTAT
15096016 ATAAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 11 0.37
28 13 0.43
29 6 0.20
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATTTATTTAATAATAAAAATTATATCA
Found at i:15096032 original size:12 final size:12
Alignment explanation
Indices: 15095990--15096032 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
15095980 AATATTTTTT
*
15095990 TATAAAAATATC
1 TATAAAAATTTC
*
15096002 TATATAAAATTTA
1 TATA-AAAATTTC
15096015 TATAAAAATTTC
1 TATAAAAATTTC
*
15096027 TTTAAA
1 TATAAA
15096033 TTTTTGACAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAAAATTTC
Found at i:15102134 original size:19 final size:18
Alignment explanation
Indices: 15102097--15102136 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15102087 TATTTTATTT
* *
15102097 TAAAAAATTTAAAATATA
1 TAAAAAACTAAAAATATA
15102115 TAAAAAACTAAAATATATA
1 TAAAAAACTAAAA-ATATA
15102134 TAA
1 TAA
15102137 TTCGATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAAACTAAAAATATA
Found at i:15107682 original size:16 final size:15
Alignment explanation
Indices: 15107661--15107690 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15107651 AAAGCTGAGA
15107661 GAGAGAAAGAGAAGAG
1 GAGAGAAA-AGAAGAG
15107677 GAGAGAAAAGAAGA
1 GAGAGAAAAGAAGA
15107691 AGAAGAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (15 bp):
GAGAGAAAAGAAGAG
Found at i:15107682 original size:18 final size:18
Alignment explanation
Indices: 15107659--15107693 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15107649 AAAAAGCTGA
15107659 GAGAGAGAAAG-AGAAGAG
1 GAGAGA-AAAGAAGAAGAG
15107677 GAGAGAAAAGAAGAAGA
1 GAGAGAAAAGAAGAAGA
15107694 AGAAGAAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (18 bp):
GAGAGAAAAGAAGAAGAG
Found at i:15109110 original size:15 final size:16
Alignment explanation
Indices: 15109087--15109119 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15109077 CGATGCATAC
*
15109087 ATAATTAAT-TAAAAA
1 ATAAATAATATAAAAA
15109102 ATAAATAATATAAAAA
1 ATAAATAATATAAAAA
15109118 AT
1 AT
15109120 TAAAACAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAATAATATAAAAA
Found at i:15112032 original size:18 final size:18
Alignment explanation
Indices: 15112009--15112045 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
15111999 CATGATGATA
*
15112009 TAATTTTTATTTTTTAAT
1 TAATTTTTAATTTTTAAT
15112027 TAATTTTTAATTTTTAAT
1 TAATTTTTAATTTTTAAT
15112045 T
1 T
15112046 TTTAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TAATTTTTAATTTTTAAT
Found at i:15112036 original size:7 final size:7
Alignment explanation
Indices: 15112009--15112050 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
15111999 CATGATGATA
15112009 TAATTTT
1 TAATTTT
*
15112016 TATTTTT
1 TAATTTT
15112023 TAA---T
1 TAATTTT
15112027 TAATTTT
1 TAATTTT
15112034 TAATTTT
1 TAATTTT
15112041 TAATTTT
1 TAATTTT
15112048 TAA
1 TAA
15112051 ATATATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
4 4 0.13
7 26 0.87
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TAATTTT
Found at i:15112037 original size:25 final size:26
Alignment explanation
Indices: 15112009--15112059 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
15111999 CATGATGATA
* *
15112009 TAATTTTTATTTTTTAATTA-ATTTT
1 TAATTTTTAATTTTTAAATATATTTT
15112034 TAATTTTTAATTTTTAAATATATTTT
1 TAATTTTTAATTTTTAAATATATTTT
15112060 AAAATATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TAATTTTTAATTTTTAAATATATTTT
Found at i:15114051 original size:23 final size:20
Alignment explanation
Indices: 15114012--15114054 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
15114002 ATCGTATTGT
15114012 TTTTTTTTATCGTATCATCA
1 TTTTTTTTATCGTATCATCA
15114032 TTTTTTTTATCGTATCATCA
1 TTTTTTTTATCGTATCATCA
15114052 TTT
1 TTT
15114055 CGTATGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTTTTTATCGTATCATCA
Found at i:15115005 original size:58 final size:57
Alignment explanation
Indices: 15114833--15115360 Score: 408
Period size: 58 Copynumber: 9.1 Consensus size: 57
15114823 GCTTTTGCAC
* * * **
15114833 AAGAAAATTTGATACTTTCAACTTTTTCTTAAAGCA-A--TTGAGAGTTTTTATTTT--
1 AAGAAAA-TTGATACTTTCAACTTTTTCTCAAA-AATATTTTTAGAAATTTTATTTTCA
* * * * *
15114887 AAGAAAAATTGATATTTTCAACTTTTCCT-TAAAATATTTTT----TTTTGTATTTTTA
1 AAG-AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAGAAATTT-TATTTTCA
* * * * *
15114941 AGGAAAATTGGTACTTCCAACATTTTTCTC-AAAATGTTTTTTACAAATTTTATTTTCA
1 AAGAAAATTGATACTTTCAAC-TTTTTCTCAAAAAT-ATTTTTAGAAATTTTATTTTCA
* *
15114999 AAGAAAATTGATACTTTTAA-TTTTTCCTCAAAAATATTTTTAGAAATTTTTATTTTTTA
1 AAGAAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTAGAAA-TTTTA-TTTTCA
* ** *
15115058 GAA-AAAATTAATACTTTCAACTTTTTCTCAAAAATATTCTTTTTTTTTTAAAATTTATTTTCA
1 -AAGAAAATTGATACTTTCAACTTTTTCTCAAAAATA------TTTTTAGAAATTTTATTTTCA
* * *
15115121 AGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAAATTTTATTTTTTA
1 AAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAG-AAATTTTA-TTTTCA
* ** *
15115180 TA-AAAATTGATACTTTCAACTTTTTCTCAAAAATATTCTTTTTTTTAAATTTTATTTT-T
1 AAGAAAATTGATACTTTCAACTTTTTCTCAAAAATA----TTTTTAGAAATTTTATTTTCA
15115239 AAGAAAAATTGATACTTTCAACTTTTT-TCCAAAAATATTTTTAGAAATTTTTATTTTC-
1 AAG-AAAATTGATACTTTCAACTTTTTCT-CAAAAATATTTTTAGAAA-TTTTATTTTCA
*
15115297 AAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATATTTTAAAAAATTTTTATTTT-A
1 AAG-AAAATTGATACTTTCAACTTTTTCTCAAAAATAT-TTTT-AGAAA-TTTTATTTTCA
15115357 AAGA
1 AAGA
15115361 GATCATAAAA
Statistics
Matches: 389, Mismatches: 43, Indels: 79
0.76 0.08 0.15
Matches are distributed among these distances:
51 4 0.01
52 7 0.02
53 18 0.05
54 35 0.09
55 11 0.03
56 5 0.01
57 25 0.06
58 117 0.30
59 45 0.12
60 29 0.07
61 39 0.10
62 6 0.02
63 36 0.09
64 4 0.01
65 8 0.02
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.48
Consensus pattern (57 bp):
AAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAGAAATTTTATTTTCA
Found at i:15115273 original size:119 final size:119
Alignment explanation
Indices: 15114878--15115334 Score: 580
Period size: 119 Copynumber: 3.9 Consensus size: 119
15114868 AATTGAGAGT
* **
15114878 TTTTATTTT-AAGAAAAATTGATATTTTCAAC-TTTTCCTTAAAATATTTTT-----TTTTGTAT
1 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAATTTT-TAT
* * * * **
15114936 TTTTAAGGAAAATTGGTACTTCCAACATTTTTCTC--AAA-A-TGTTTTTTACAAA
65 TTTTAAGAAAAATTGATACTTTCAAC-TTTTTCTCAAAAATATTCTTTTTTTTAAA
*
15114988 TTTTATTTTCAA-AGAAAATTGATACTTTTAA-TTTTTCCTCAAAAATATTTTTAGAAATTTTTA
1 TTTTATTTTCAAGA-AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTAGAAATTTTTA
* *
15115051 TTTTTTAGAAAAAATTAATACTTTCAACTTTTTCTCAAAAATATTCTTTTTTTTTTAAA
64 TTTTTAAG-AAAAATTGATACTTTCAACTTTTTCTCAAAAATATTC--TTTTTTTTAAA
* * *
15115110 ATTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAAATTTTATT
1 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAATTTTTATT
* *
15115175 TTTTATAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTCTTTTTTTTAAA
66 TTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTCTTTTTTTTAAA
* *
15115229 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTCCAAAAATATTTTTAGAAATTTTTATT
1 TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAATTTTTATT
*
15115294 TTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT
66 TTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATAT
15115335 ATTTTAAAAA
Statistics
Matches: 303, Mismatches: 26, Indels: 27
0.85 0.07 0.08
Matches are distributed among these distances:
110 10 0.03
111 23 0.08
112 11 0.04
116 17 0.06
117 19 0.06
118 3 0.01
119 110 0.36
120 1 0.00
121 36 0.12
122 66 0.22
123 7 0.02
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (119 bp):
TTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTAGAAATTTTTATT
TTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTCTTTTTTTTAAA
Found at i:15116161 original size:20 final size:19
Alignment explanation
Indices: 15116102--15116161 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
15116092 TTTTTTACTC
15116102 TTTT-TTTTTTGTTTT-TG
1 TTTTCTTTTTTGTTTTGTG
*
15116119 ATTTTCTCTTTCTGTTTTCGTG
1 -TTTTCT-TTTTTGTTTT-GTG
15116141 TTTCTCTTTTTTGTTTTGTG
1 TTT-TCTTTTTTGTTTTGTG
15116161 T
1 T
15116162 GTCTTTCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 4 0.11
19 1 0.03
20 13 0.37
21 12 0.34
22 5 0.14
ACGTcount: A:0.02, C:0.10, G:0.13, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTTTGTTTTGTG
Found at i:15116483 original size:12 final size:11
Alignment explanation
Indices: 15116463--15116572 Score: 55
Period size: 12 Copynumber: 9.5 Consensus size: 11
15116453 CTTTTGTATT
*
15116463 TTATGTATTGTA
1 TTATTTATT-TA
15116475 TTATTTA-TTA
1 TTATTTATTTA
15116485 TTA-TTA-TTA
1 TTATTTATTTA
* *
15116494 TTATGTATTAA
1 TTATTTATTTA
*
15116505 TGTATATATTTA
1 T-TATTTATTTA
15116517 TTTATTTATTTA
1 -TTATTTATTTA
* *
15116529 TTTTTTGTTAATA
1 TTATTTATT--TA
15116542 TTTATGTGTATTTTA
1 -TTAT-T-TA-TTTA
*
15116557 TTATTTATGTA
1 TTATTTATTTA
15116568 TTATT
1 TTATT
15116573 ACTAATATGT
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
9 9 0.12
10 7 0.09
11 19 0.25
12 25 0.32
13 4 0.05
14 7 0.09
15 3 0.04
16 1 0.01
17 2 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.65
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:15116633 original size:77 final size:82
Alignment explanation
Indices: 15116468--15116638 Score: 185
Period size: 81 Copynumber: 2.1 Consensus size: 82
15116458 GTATTTTATG
* * * * *
15116468 TATTGTATTATTTATTATTATTATTATTATGTATTAATGTATATATTTATTTATTTATTTATTTT
1 TATTTTATTATTTATTATTATTACTAATATGTATTAATATATATATTTATTTATTTATTTATATT
* *
15116533 TTGTTAATATTTATGTG
66 TTATTAATATTTATGTA
*
15116550 TATTTTATTATTTATGTATTATTACTAATATGTA-T-ATATATATATTTTTTTATCTT-TTT-TA
1 TATTTTATTATTTAT-TATTATTACTAATATGTATTAATATATATATTTATTTAT-TTATTTATA
*
15116611 TTTTATTCAT-TTT-TGTA
64 TTTTATTAATATTTATGTA
15116628 T-TTTTACTTAT
1 TATTTTA-TTAT
15116639 CTAATTATAT
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
77 5 0.06
78 8 0.10
79 3 0.04
80 9 0.12
81 19 0.25
82 17 0.22
83 16 0.21
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (82 bp):
TATTTTATTATTTATTATTATTACTAATATGTATTAATATATATATTTATTTATTTATTTATATT
TTATTAATATTTATGTA
Found at i:15117126 original size:31 final size:30
Alignment explanation
Indices: 15117068--15117133 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
15117058 AATTTCCAGA
* * ** *
15117068 TTCCGGCGAAATTCCGGCGAAGTTTGAATT
1 TTCCGACGAAATTCCGGCCAACCTTGAAGT
15117098 TTCCGACGAAAATTCCGGCCAACCTTGAAGT
1 TTCCGACG-AAATTCCGGCCAACCTTGAAGT
15117129 TTCCG
1 TTCCG
15117134 GCGACCAGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (30 bp):
TTCCGACGAAATTCCGGCCAACCTTGAAGT
Found at i:15118028 original size:60 final size:57
Alignment explanation
Indices: 15117696--15118211 Score: 626
Period size: 57 Copynumber: 8.7 Consensus size: 57
15117686 AATTCCAAAA
* * *
15117696 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTAGAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTAC
* *
15117753 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT-AC
* *
15117811 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATCAATTTTCCTTA-AGAATAAATTTTC
1 AAAAA-ATATTTTTAGGGAAAAGTTGAAAG--T--ATCAATTTTCCTCAGA-AATAAATTTAC
* *
15117873 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-T--CAG--AAATAAATTTAC
* *
15117935 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT--AC
* *
15117994 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTAC
* *
15118052 AAAAAATATTTTT-GGAGAAAAGTTGAAAGTATCAATTTTCC-CTGAAAATCAAAATTTCAA
1 AAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AAATTT-AC
* * *
15118112 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCGAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AAATTTAC
*
15118171 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
15118212 CTAAAAAAAA
Statistics
Matches: 410, Mismatches: 26, Indels: 44
0.85 0.05 0.09
Matches are distributed among these distances:
56 3 0.01
57 110 0.27
58 11 0.03
59 78 0.19
60 101 0.25
61 28 0.07
62 56 0.14
63 23 0.06
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTAC
Found at i:15121255 original size:159 final size:159
Alignment explanation
Indices: 15120887--15121346 Score: 741
Period size: 159 Copynumber: 2.9 Consensus size: 159
15120877 GTTAGTTGTT
*
15120887 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCA-CTCAAG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
15120951 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAG----AA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTC-GATTAATTAAAGAAAAAA
*
15121012 AAATCAAGAATCAACAAATTAATTAATTATC
130 AAATCAA-AATCAACAAAGTAATTAATTATC
15121043 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
15121108 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGATTAATTAAAGAAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGATTAATTAAAGAAAAAAA
* *
15121173 AATCAAAATCAGCCAAGTAATTAATTATC
131 AATCAAAATCAACAAAGTAATTAATTATC
*
15121202 GAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* * *
15121267 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGTATTGATTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG-ATTAATTAAAGAAAAA
**
15121332 GAAAAAAAAAATCAA
129 -AAAATCAAAATCAA
15121347 GATCAAAATC
Statistics
Matches: 284, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
156 69 0.24
157 51 0.18
159 105 0.37
160 33 0.12
161 15 0.05
162 11 0.04
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (159 bp):
GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGATTAATTAAAGAAAAAAA
AATCAAAATCAACAAAGTAATTAATTATC
Found at i:15121381 original size:1 final size:1
Alignment explanation
Indices: 15121377--15121401 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
15121367 AAAAAAATTC
15121377 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
15121402 CCTGGAGCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15121765 original size:20 final size:20
Alignment explanation
Indices: 15121736--15121781 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15121726 GGATGATTCA
*
15121736 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
15121756 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
15121776 CCGGAA
1 CCGGAA
15121782 GTTGGCCGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:15121824 original size:20 final size:20
Alignment explanation
Indices: 15121799--15121841 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
15121789 GAAAATTTGA
15121799 CGGTTTCTGGGATTCTTCGC
1 CGGTTTCTGGGATTCTTCGC
15121819 CGGTTTCTGGGATTCTTCGC
1 CGGTTTCTGGGATTCTTCGC
15121839 CGG
1 CGG
15121842 AAACTGGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.05, C:0.26, G:0.33, T:0.37
Consensus pattern (20 bp):
CGGTTTCTGGGATTCTTCGC
Found at i:15121848 original size:20 final size:20
Alignment explanation
Indices: 15121805--15121849 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15121795 TTGACGGTTT
***
15121805 CTGGGATTCTTCGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
15121825 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
15121845 CTGGG
1 CTGGG
15121850 CAAGTGCCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.31
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:15121879 original size:19 final size:19
Alignment explanation
Indices: 15121855--15121918 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 19
15121845 CTGGGCAAGT
15121855 GCCGGAAACTTCAATGTTG
1 GCCGGAAACTTCAATGTTG
15121874 GCCGG-AA--T---T-TTG
1 GCCGGAAACTTCAATGTTG
15121886 GCCGGAAACTTCAA-GATTG
1 GCCGGAAACTTCAATG-TTG
*
15121905 GCCGGAAAATTCAA
1 GCCGGAAACTTCAA
15121919 CCGGAAACTG
Statistics
Matches: 36, Mismatches: 1, Indels: 16
0.68 0.02 0.30
Matches are distributed among these distances:
12 8 0.22
13 3 0.08
15 1 0.03
16 1 0.03
18 2 0.06
19 21 0.58
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (19 bp):
GCCGGAAACTTCAATGTTG
Found at i:15122515 original size:40 final size:41
Alignment explanation
Indices: 15122414--15122515 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
15122404 CAAAAAAAAA
* *
15122414 AATAATAATAATAATAAATATATAACTATATACATATAAATCT
1 AATAATAATAA-AATAAATAAATAAATATATACATATAAA-CT
*
15122457 AAT-CTAATAAAA-AAATAAATAAATATATACATA-ATAA-T
1 AATAATAATAAAATAAATAAATAAATATATACATATA-AACT
*
15122495 AATAATAATAAAATACATAAA
1 AATAATAATAAAATAAATAAA
15122516 ATACAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
38 4 0.08
39 9 0.18
40 27 0.53
41 2 0.04
42 6 0.12
43 3 0.06
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (41 bp):
AATAATAATAAAATAAATAAATAAATATATACATATAAACT
Found at i:15122719 original size:1 final size:1
Alignment explanation
Indices: 15122715--15122807 Score: 60
Period size: 1 Copynumber: 93.0 Consensus size: 1
15122705 CATTTTTTGA
** ** * * ** * * *
15122715 TTTTTTTTGATTTTTTTGATTTTTTTTTATTTTTGTTTTGATTTTTTGTTTTTTTTATTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
15122780 TTTTTGTTTTTTTATTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
15122808 GGGCCGAAGC
Statistics
Matches: 67, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (1 bp):
T
Found at i:15122731 original size:19 final size:19
Alignment explanation
Indices: 15122707--15122748 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
15122697 CAACTCAACA
15122707 TTTTTTGATTTTTTTTGAT
1 TTTTTTGATTTTTTTTGAT
*
15122726 TTTTTTGATTTTTTTTTAT
1 TTTTTTGATTTTTTTTGAT
15122745 TTTT
1 TTTT
15122749 GTTTTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (19 bp):
TTTTTTGATTTTTTTTGAT
Found at i:15122753 original size:22 final size:22
Alignment explanation
Indices: 15122727--15122807 Score: 103
Period size: 22 Copynumber: 3.6 Consensus size: 22
15122717 TTTTTTGATT
15122727 TTTTTGATTTTTTTTTATTTTT-
1 TTTTTGATTTTTTTTT-TTTTTA
*
15122749 GTTTTGATTTTTTGTTTTTTTTA
1 TTTTTGATTTTTT-TTTTTTTTA
15122772 TTTTTG-TTTTTTTGTTTTTTTA
1 TTTTTGATTTTTTT-TTTTTTTA
*
15122794 TTTTTTATTTTTTT
1 TTTTTGATTTTTTT
15122808 GGGCCGAAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
21 1 0.02
22 36 0.69
23 15 0.29
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (22 bp):
TTTTTGATTTTTTTTTTTTTTA
Found at i:15122807 original size:8 final size:8
Alignment explanation
Indices: 15122706--15122807 Score: 72
Period size: 8 Copynumber: 13.0 Consensus size: 8
15122696 TCAACTCAAC
*
15122706 ATTTTTTG
1 ATTTTTTT
15122714 ATTTTTTTT
1 A-TTTTTTT
15122723 GATTTTTTT
1 -ATTTTTTT
15122732 GATTTTTTT
1 -ATTTTTTT
*
15122741 -TTATTTT
1 ATTTTTTT
* *
15122748 -TGTTTTG
1 ATTTTTTT
15122755 ATTTTTTGT
1 ATTTTTT-T
15122764 -TTTTTTT
1 ATTTTTTT
15122771 A--TTTTT
1 ATTTTTTT
*
15122777 GTTTTTTT
1 ATTTTTTT
*
15122785 GTTTTTTT
1 ATTTTTTT
15122793 A-TTTTTT
1 ATTTTTTT
15122800 ATTTTTTT
1 ATTTTTTT
15122808 GGGCCGAAGC
Statistics
Matches: 77, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
6 5 0.06
7 18 0.23
8 31 0.40
9 22 0.29
10 1 0.01
ACGTcount: A:0.09, C:0.00, G:0.08, T:0.83
Consensus pattern (8 bp):
ATTTTTTT
Found at i:15122808 original size:23 final size:22
Alignment explanation
Indices: 15122707--15122808 Score: 73
Period size: 23 Copynumber: 4.3 Consensus size: 22
15122697 CAACTCAACA
15122707 TTTTTTGATTTTTTTTGATTTTTTT
1 TTTTTTG--TTTTTTTG-TTTTTTT
* **
15122732 GATTTTTTTTTATTTTTG-TTTTGA
1 --TTTTTTGTT-TTTTTGTTTTTTT
15122756 TTTTTTGTTTTTTT-TATTTTTGT
1 TTTTTTGTTTTTTTGT-TTTTT-T
*
15122779 TTTTTTGTTTTTTTATTTTTTAT
1 TTTTTTGTTTTTTTGTTTTTT-T
15122802 TTTTTTG
1 TTTTTTG
15122809 GGCCGAAGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
21 5 0.08
22 12 0.19
23 27 0.43
24 5 0.08
25 2 0.03
26 6 0.10
27 6 0.10
ACGTcount: A:0.08, C:0.00, G:0.09, T:0.83
Consensus pattern (22 bp):
TTTTTTGTTTTTTTGTTTTTTT
Found at i:15122894 original size:40 final size:40
Alignment explanation
Indices: 15122816--15123262 Score: 566
Period size: 40 Copynumber: 11.0 Consensus size: 40
15122806 TTGGGCCGAA
* *
15122816 GCTCCTCTAAACAGAGACTCAAC-GACTTTTGAAAGTAAATT
1 GCTCCTCTAAACAGAG--GCAACGGACTTTGGAAAGTAAATT
15122857 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
* * *
15122897 GCTCCTCTCAACAGAGGCACCAC-GACTTTGGAAAAATAAACT
1 GCTCCTCTAAACAGAGGCA--ACGGACTTTGG-AAAGTAAATT
*
15122939 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGGACTTTGG-AAAGTAAATT
* *
15122979 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
* * *
15123019 GCTCCTCTAAATAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
15123059 GCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATT
*
15123100 GCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGGACTTTGG-AAAGTAAATT
*
15123142 GCTCCTCTAAACAGAGGCACCAC-GACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGGACTTTGG-AAAGTAAATT
*
15123184 GCTCCTCTAAACAGAGGCAACGAAC-TTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACGGACTTTGG-AAAGTAAATT
* *
15123224 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAAT
15123263 ACTCCTAGAC
Statistics
Matches: 377, Mismatches: 18, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
39 4 0.01
40 192 0.51
41 81 0.21
42 100 0.27
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCAACGGACTTTGGAAAGTAAATT
Found at i:15122960 original size:82 final size:83
Alignment explanation
Indices: 15122816--15123262 Score: 668
Period size: 82 Copynumber: 5.5 Consensus size: 83
15122806 TTGGGCCGAA
* * * * *
15122816 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAACGG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
15122880 ACTTTGG-AAAGTAAATT
66 ACTTTGGAAAAGTAAATT
* * *
15122897 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
15122962 AC-TTGGAAAAGTAAATT
66 ACTTTGGAAAAGTAAATT
*
15122979 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAATTGCTCCTCTAAATAGAGGCAACG
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG
15123041 AACTTT-GAAAAGTAAATT
65 AACTTTGGAAAAGTAAATT
15123059 GCTCCTCTAAACAGAGGCACCACGACTTTGG-AAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
*
15123123 G-ACTTTGGAAAAATAAATT
64 GAACTTTGGAAAAGTAAATT
*
15123142 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
15123207 AC-TTGGAAAAGTAAATT
66 ACTTTGGAAAAGTAAATT
15123224 GCTCCTCTAAACAGAGGCA--ACGAACTTT-GAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAGTAAAT
15123263 ACTCCTAGAC
Statistics
Matches: 336, Mismatches: 17, Indels: 27
0.88 0.04 0.07
Matches are distributed among these distances:
80 81 0.24
81 75 0.22
82 105 0.31
83 47 0.14
84 28 0.08
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
ACTTTGGAAAAGTAAATT
Found at i:15123244 original size:245 final size:243
Alignment explanation
Indices: 15122816--15123262 Score: 797
Period size: 245 Copynumber: 1.8 Consensus size: 243
15122806 TTGGGCCGAA
* *
15122816 GCTCCTCTAAACAGAGACTCAACGACTTTTGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGA
1 GCTCCTCTAAACAGAGACACAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGA
* *
15122881 CTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTCCTC
66 CTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTCCTC
15122946 TAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAA
131 TAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAA
15123011 AGTAAATTGCTCCTCTAAATAGAGGCAACGAACTTTGAAAAGTAAATT
196 AGTAAATTGCTCCTCTAAATAGAGGCAACGAACTTTGAAAAGTAAATT
* *
15123059 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC-
1 GCTCCTCTAAACAGAGACACAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
*
15123123 GACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTC
64 GACTTTGG-AAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTC
15123188 CTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTG
128 CTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTG
15123253 AAAAGTAAAT
193 AAAAGTAAAT
15123263 ACTCCTAGAC
Statistics
Matches: 194, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
243 56 0.29
244 8 0.04
245 130 0.67
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (243 bp):
GCTCCTCTAAACAGAGACACAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGGA
CTTTGGAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAACTGCTCCTC
TAAACAGAGGCAACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAA
AGTAAATTGCTCCTCTAAATAGAGGCAACGAACTTTGAAAAGTAAATT
Found at i:15124394 original size:1 final size:1
Alignment explanation
Indices: 15124388--15124422 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
15124378 TTGACCTGAA
* *
15124388 TTTTTTTTTTTGTTTTTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15124423 GGGTACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.06, T:0.94
Consensus pattern (1 bp):
T
Found at i:15124507 original size:22 final size:22
Alignment explanation
Indices: 15124473--15124543 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 22
15124463 CTTTTTTTCA
*
15124473 TTTTCTCATTTTTTCCTTCTTTT
1 TTTTTTCA-TTTTTCCTTCTTTT
15124496 TTTTTTCA-TTTT--TTCATTTT
1 TTTTTTCATTTTTCCTTC-TTTT
*
15124516 TTTTTTCATTTTTCATCATCTTTT
1 TTTTTTCATTTTTC--CTTCTTTT
15124540 TTTT
1 TTTT
15124544 CGTCCATTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 3 0.08
20 12 0.30
21 8 0.20
23 7 0.17
24 8 0.20
25 2 0.05
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTTTCATTTTTCCTTCTTTT
Found at i:15124515 original size:20 final size:21
Alignment explanation
Indices: 15124492--15124544 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
15124482 TTTTTCCTTC
15124492 TTTTTTTTTTCATTTTT-TCA
1 TTTTTTTTTTCATTTTTATCA
15124512 TTTTTTTTTTCATTTTTCATCA
1 TTTTTTTTTTCATTTTT-ATCA
*
15124534 TCTTTTTTTTC
1 TTTTTTTTTTC
15124545 GTCCATTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 17 0.57
22 13 0.43
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTTTTTCATTTTTATCA
Found at i:15124523 original size:12 final size:12
Alignment explanation
Indices: 15124504--15124528 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15124494 TTTTTTTTCA
15124504 TTTTTTCATTTT
1 TTTTTTCATTTT
15124516 TTTTTTCATTTT
1 TTTTTTCATTTT
15124528 T
1 T
15124529 CATCATCTTT
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTCATTTT
Found at i:15124528 original size:8 final size:8
Alignment explanation
Indices: 15124465--15124517 Score: 65
Period size: 8 Copynumber: 6.8 Consensus size: 8
15124455 TTGGATCTCT
15124465 TTTTTTCA
1 TTTTTTCA
*
15124473 TTTTCTCA
1 TTTTTTCA
*
15124481 TTTTTTCC
1 TTTTTTCA
15124489 TTCTTTT--
1 TT-TTTTCA
15124496 TTTTTTCA
1 TTTTTTCA
15124504 TTTTTTCA
1 TTTTTTCA
15124512 TTTTTT
1 TTTTTT
15124518 TTTTCATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
6 4 0.10
7 2 0.05
8 29 0.74
9 4 0.10
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:15124528 original size:31 final size:31
Alignment explanation
Indices: 15124464--15124528 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
15124454 TTTGGATCTC
*
15124464 TTTTTTTCATTTTCTCATTTTTTCCTTCTTT
1 TTTTTTTCATTTTCTCATTTTTTCCTTCATT
* **
15124495 TTTTTTTCATTTTTTCATTTTTTTTTTCATT
1 TTTTTTTCATTTTCTCATTTTTTCCTTCATT
15124526 TTT
1 TTT
15124529 CATCATCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (31 bp):
TTTTTTTCATTTTCTCATTTTTTCCTTCATT
Found at i:15124920 original size:1 final size:1
Alignment explanation
Indices: 15124914--15124947 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
15124904 TTTTGTGGTG
*
15124914 TTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15124948 CAAAATTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:15128626 original size:160 final size:160
Alignment explanation
Indices: 15128252--15128858 Score: 1069
Period size: 160 Copynumber: 3.8 Consensus size: 160
15128242 GTTAGTTGTT
* *
15128252 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAAG
1 GAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
*
15128317 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTATTTAAAG----AA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
* * *
15128378 AAATCAAGATCAACCAATTAATTAATTATC
131 AAATCAAAATCAGCCAAGTAATTAATTATC
*
15128408 GAAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
15128473 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
15128538 AAATCAAAATCAGCCAAGTAATTAATTATC
131 AAATCAAAATCAGCCAAGTAATTAATTATC
15128568 GAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
1 GAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
15128633 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
66 AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
15128698 AAATCAAAATCAGCCAAGTAATTAATTATC
131 AAATCAAAATCAGCCAAGTAATTAATTATC
*
15128728 GAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCTCTCACCTCAGG
1 GAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
* * * *
15128793 AGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCGTATTGATTAAAGAAAAA
66 AGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAA
15128858 A
130 A
15128859 GAAAAAAAAA
Statistics
Matches: 435, Mismatches: 11, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
156 122 0.28
160 273 0.63
161 40 0.09
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (160 bp):
GAAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAAATTCCCTCACCTCAGG
AGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGATTAATTAAAGAAAAAA
AAATCAAAATCAGCCAAGTAATTAATTATC
Found at i:15128907 original size:1 final size:1
Alignment explanation
Indices: 15128903--15128929 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
15128893 AAAAAAATTC
15128903 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
15128930 CCTGGAGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15129292 original size:20 final size:20
Alignment explanation
Indices: 15129263--15129308 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15129253 GGATGATTCA
*
15129263 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
15129283 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
15129303 CCGGAA
1 CCGGAA
15129309 GTTGGCCGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:15129351 original size:20 final size:20
Alignment explanation
Indices: 15129326--15129364 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
15129316 GAAAATTTGA
15129326 CGGTTTCTGGGATTCTTCGC
1 CGGTTTCTGGGATTCTTCGC
15129346 CGGTTTCTGGGATTCTTCG
1 CGGTTTCTGGGATTCTTCG
15129365 TCGGAAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.23, G:0.31, T:0.41
Consensus pattern (20 bp):
CGGTTTCTGGGATTCTTCGC
Found at i:15129375 original size:20 final size:20
Alignment explanation
Indices: 15129332--15129376 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15129322 TTGACGGTTT
***
15129332 CTGGGATTCTTCGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
*
15129352 CTGGGATTCTTCGTCGGAAA
1 CTGGGATTCTTCGCCGGAAA
15129372 CTGGG
1 CTGGG
15129377 CAGGTCACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Found at i:15130044 original size:40 final size:41
Alignment explanation
Indices: 15129943--15130044 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 41
15129933 CAAAAAAAAA
* *
15129943 AATAATAATAATAATAAATATATAACTATATACATATAAATCT
1 AATAATAATAA-AATAAATAAATAAATATATACATATAAA-CT
*
15129986 AAT-CTAATAAAA-AAATAAATAAATATATACATA-ATAA-T
1 AATAATAATAAAATAAATAAATAAATATATACATATA-AACT
*
15130024 AATAATAATAAAATACATAAA
1 AATAATAATAAAATAAATAAA
15130045 ATACAAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
38 4 0.08
39 9 0.18
40 27 0.53
41 2 0.04
42 6 0.12
43 3 0.06
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (41 bp):
AATAATAATAAAATAAATAAATAAATATATACATATAAACT
Found at i:15138264 original size:37 final size:37
Alignment explanation
Indices: 15138221--15138332 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 37
15138211 ATGCTTGAAA
15138221 AAAAATGAAAAATGAAAAAATAAAAAAATGAAAAATG
1 AAAAATGAAAAATGAAAAAATAAAAAAATGAAAAATG
*
15138258 AAAAATGAAAAATG-AAAAAT-GAAAAATGAAAAAATG
1 AAAAATGAAAAATGAAAAAATAAAAAAATG-AAAAATG
*
15138294 AAAAAATG-AAAA--AAAAAATGAAAAAAAAGAAAAAGTG
1 -AAAAATGAAAAATGAAAAAAT-AAAAAAATGAAAAA-TG
15138331 AA
1 AA
15138333 TAAGGAGGAC
Statistics
Matches: 66, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
35 13 0.20
36 24 0.36
37 29 0.44
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (37 bp):
AAAAATGAAAAATGAAAAAATAAAAAAATGAAAAATG
Found at i:15138319 original size:8 final size:7
Alignment explanation
Indices: 15138221--15138318 Score: 137
Period size: 7 Copynumber: 13.7 Consensus size: 7
15138211 ATGCTTGAAA
15138221 AAAAATG
1 AAAAATG
15138228 AAAAATG
1 AAAAATG
*
15138235 AAAAAATAA
1 -AAAAAT-G
15138244 AAAAATG
1 AAAAATG
15138251 AAAAATG
1 AAAAATG
15138258 AAAAATG
1 AAAAATG
15138265 AAAAATG
1 AAAAATG
15138272 AAAAATG
1 AAAAATG
15138279 AAAAATG
1 AAAAATG
15138286 AAAAAATG
1 -AAAAATG
15138294 AAAAAATG
1 -AAAAATG
15138302 AAAAA--
1 AAAAATG
15138307 AAAAATG
1 AAAAATG
15138314 AAAAA
1 AAAAA
15138319 AAAGAAAAAG
Statistics
Matches: 84, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
5 5 0.06
7 52 0.62
8 27 0.32
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:15138319 original size:14 final size:14
Alignment explanation
Indices: 15138218--15138326 Score: 98
Period size: 14 Copynumber: 7.6 Consensus size: 14
15138208 ACTATGCTTG
15138218 AAAAAAAATGAAAA
1 AAAAAAAATGAAAA
*
15138232 ATGAAAAAAT-AAAA
1 A-AAAAAAATGAAAA
15138246 AAATGAAAAATGAAAA
1 AAA--AAAAATGAAAA
**
15138262 ATGAAAAATGAAAA
1 AAAAAAAATGAAAA
**
15138276 ATGAAAAATGAAAA
1 AAAAAAAATGAAAA
15138290 AATGAAAAAATG--AA
1 AA--AAAAAATGAAAA
15138304 AAAAAAAATGAAAA
1 AAAAAAAATGAAAA
15138318 AAAAGAAAA
1 AAAA-AAAA
15138327 AGTGAATAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
12 8 0.10
13 1 0.01
14 42 0.52
15 17 0.21
16 12 0.15
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (14 bp):
AAAAAAAATGAAAA
Found at i:15139490 original size:42 final size:41
Alignment explanation
Indices: 15139341--15139872 Score: 719
Period size: 42 Copynumber: 13.0 Consensus size: 41
15139331 GTCTAGGAGT
*
15139341 ATTTACTTTTCAAAGTTCGT--TGCTTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
15139381 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* *
15139421 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGATGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
15139462 ATTTACTTTTTCAAAGTCGTGGTACCTCTATTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
15139504 ATTTACTTTTCAAAGTTCGT--TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
15139544 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
15139586 ATTTACTTTTCAAAGTTCGT--TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
15139626 ATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
15139668 ATTTACTTTCCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
15139709 ATTTAC-TTTC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
15139747 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
15139789 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* * * *
15139831 ATTTATGTTTCTCAAAGTCGTTGAGCCTCTATTTAGAGGAGC
1 ATTTA-CTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
15139873 TTTGGTAAAA
Statistics
Matches: 445, Mismatches: 27, Indels: 37
0.87 0.05 0.07
Matches are distributed among these distances:
38 25 0.06
39 10 0.02
40 122 0.27
41 103 0.23
42 155 0.35
43 29 0.07
44 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:15139545 original size:82 final size:80
Alignment explanation
Indices: 15139341--15139872 Score: 707
Period size: 82 Copynumber: 6.5 Consensus size: 80
15139331 GTCTAGGAGT
* *
15139341 ATTTACTTTTCAAAGTTCGTTGCTTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TGC
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTAC
15139404 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
* *
15139421 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGATGAGCAATTTACTTTTTCAAAGTCGTGGTA
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTA
*
15139486 CCTCTATTTAGAGGAGCA
63 CCTCTGTTTAGAGGAGCA
*
15139504 ATTTACTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTAC
15139569 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
*
15139586 ATTTACTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTAC
1 ATTTACTTTTCAAAG-TCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTGGTAC
15139651 CTCTGTTTAGAGGAGCA
64 CTCTGTTTAGAGGAGCA
* * *
15139668 ATTTACTTTCCAAAGTCGTGGTGCCTTTGTTTAGAGGAGCAATTTAC-TTTC-AAGTTCGT--TG
1 ATTTACTTTTCAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTA
15139729 CCTCTGTTTAGAGGAGCA
63 CCTCTGTTTAGAGGAGCA
* *
15139747 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCGTGGT
1 ATTTACTTTT-CAAAGTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGT
*
15139812 GCCTCTGTTTAGAGGAGCA
62 ACCTCTGTTTAGAGGAGCA
* *
15139831 ATTTATGTTTCTCAAAGTCGTTGAGCCTCTATTTAGAGGAGC
1 ATTTA-CTTT-TCAAAGTCGTT--GCCTCTGTTTAGAGGAGC
15139873 TTTGGTAAAA
Statistics
Matches: 413, Mismatches: 20, Indels: 33
0.89 0.04 0.07
Matches are distributed among these distances:
79 32 0.08
80 52 0.13
81 43 0.10
82 168 0.41
83 60 0.15
84 29 0.07
85 28 0.07
86 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (80 bp):
ATTTACTTTTCAAAGTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCT
CTGTTTAGAGGAGCA
Found at i:15139902 original size:17 final size:17
Alignment explanation
Indices: 15139880--15139967 Score: 103
Period size: 17 Copynumber: 5.4 Consensus size: 17
15139870 AGCTTTGGTA
15139880 AAAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAAC
*
15139897 -AAAAAAACAAAAAAAC
1 AAAAAAAAAAAAAAAAC
*
15139913 AAAAAAAACAAAAAAAC
1 AAAAAAAAAAAAAAAAC
*
15139930 ---AAAAAAAAAACAAC
1 AAAAAAAAAAAAAAAAC
*
15139944 AAAAAAAAACAAAAAAC
1 AAAAAAAAAAAAAAAAC
*
15139961 CAAAAAA
1 AAAAAAA
15139968 TGTTGAGTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
14 12 0.20
16 15 0.25
17 34 0.56
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAC
Found at i:15139964 original size:8 final size:8
Alignment explanation
Indices: 15139881--15139967 Score: 115
Period size: 8 Copynumber: 10.8 Consensus size: 8
15139871 GCTTTGGTAA
*
15139881 AAAAAAAA
1 AAAAAAAC
15139889 AAAAAAAC
1 AAAAAAAC
15139897 AAAAAAAC
1 AAAAAAAC
15139905 AAAAAAAC
1 AAAAAAAC
15139913 AAAAAAAAC
1 -AAAAAAAC
15139922 AAAAAAAC
1 AAAAAAAC
15139930 AAAAAAA-
1 AAAAAAAC
15139937 AAACAACAA-
1 AAA-AA-AAC
15139946 AAAAAAAC
1 AAAAAAAC
*
15139954 AAAAAACC
1 AAAAAAAC
15139962 AAAAAA
1 AAAAAA
15139968 TGTTGAGTTG
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
7 5 0.07
8 55 0.75
9 13 0.18
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:15139967 original size:1 final size:1
Alignment explanation
Indices: 15139879--15139959 Score: 90
Period size: 1 Copynumber: 81.0 Consensus size: 1
15139869 GAGCTTTGGT
* * * * * * *
15139879 AAAAAAAAAAAAAAAAACAAAAAAACAAAAAAACAAAAAAAACAAAAAAACAAAAAAAAAACAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
15139944 AAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAA
15139960 CCAAAAAATG
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15140182 original size:39 final size:39
Alignment explanation
Indices: 15140139--15140261 Score: 110
Period size: 39 Copynumber: 3.1 Consensus size: 39
15140129 TTCTTTCTCT
*
15140139 TGTATTTATGTATTGTATTATTTATTATTATTATTATTA
1 TGTATTTATGTATTATATTATTTATTATTATTATTATTA
* *
15140178 TGTATTAATGTA-TATATTTATTTATTTATT-TT-TTGTTA
1 TGTATTTATGTATTATA-TTATTTA-TTATTATTATTATTA
* * * *
15140216 -ATATTTATGTGTATTTTATTATTTATGTATTATTACTAATA
1 TGTATTTA--TGTATTATATTATTTAT-TATTATTATTATTA
15140257 TGTAT
1 TGTAT
15140262 ATATATATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
37 5 0.08
38 9 0.14
39 35 0.54
40 10 0.15
41 3 0.05
42 3 0.05
ACGTcount: A:0.28, C:0.01, G:0.08, T:0.63
Consensus pattern (39 bp):
TGTATTTATGTATTATATTATTTATTATTATTATTATTA
Found at i:15140718 original size:26 final size:25
Alignment explanation
Indices: 15140687--15140741 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
15140677 CTGGGAGTGA
* * *
15140687 GAAAATTTTTTTTTGAAATTTTTGG
1 GAAAATTTTTTCTGGAAATTTCTGG
15140712 CGAAAATTTTTTCTGGAAATTTCTGG
1 -GAAAATTTTTTCTGGAAATTTCTGG
15140738 GAAA
1 GAAA
15140742 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.31, C:0.05, G:0.18, T:0.45
Consensus pattern (25 bp):
GAAAATTTTTTCTGGAAATTTCTGG
Found at i:15140971 original size:18 final size:18
Alignment explanation
Indices: 15140948--15140982 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15140938 AGAGAGAAGG
15140948 GAGAGAAAAAGGGAAGAA
1 GAGAGAAAAAGGGAAGAA
* *
15140966 GAGAGAGAGAGGGAAGA
1 GAGAGAAAAAGGGAAGA
15140983 GCGTTCTGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (18 bp):
GAGAGAAAAAGGGAAGAA
Found at i:15141244 original size:20 final size:20
Alignment explanation
Indices: 15141207--15141244 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15141197 CCGCTCCAGG
* *
15141207 TTTTTTTTTTTTTTTTTGAA
1 TTTTTTTTTATTTCTTTGAA
15141227 TTTTTTTTTATTTCTTTG
1 TTTTTTTTTATTTCTTTG
15141245 TTTATTTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.03, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTATTTCTTTGAA
Found at i:15141248 original size:12 final size:11
Alignment explanation
Indices: 15141226--15141274 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
15141216 TTTTTTTTGA
15141226 ATTTTTT-TTT
1 ATTTTTTATTT
*
15141236 ATTTCTTTGTTT
1 ATTT-TTTATTT
15141248 ATTTGTTTATTTT
1 ATTT-TTTA-TTT
15141261 ATTTTTTATTT
1 ATTTTTTATTT
15141272 ATT
1 ATT
15141275 AGATTAGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 4 0.12
11 9 0.26
12 14 0.41
13 7 0.21
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:15141424 original size:57 final size:57
Alignment explanation
Indices: 15141335--15141796 Score: 685
Period size: 57 Copynumber: 7.9 Consensus size: 57
15141325 TCTTTAAATA
*
15141335 AAATAAAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAATAAATTTCC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
* * *
15141394 AAATAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAT
1 AAATAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
* *
15141451 AAATAAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCGTTA-
1 AAATAAATTTC-CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
15141508 AGAATAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAG
1 A-AATAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG
* *
15141569 AAAAATAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG
1 --AAATAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
*
15141628 AAATAAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAATAAATTTC--CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
*
15141687 AAATAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-G
1 AAATAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
*
15141743 AAAATCGAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 -AAAT--AAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
15141797 TCCTAAAAAA
Statistics
Matches: 373, Mismatches: 17, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
56 1 0.00
57 153 0.41
58 51 0.14
59 114 0.31
60 1 0.00
62 52 0.14
63 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
AAATAAATTTCCAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
Found at i:15141559 original size:27 final size:27
Alignment explanation
Indices: 15141471--15141559 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
15141461 CAAAAAAAAT
15141471 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
15141498 ATTTTCGTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
15141528 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
15141555 ATTTT
1 ATTTT
15141560 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:15142461 original size:41 final size:43
Alignment explanation
Indices: 15142386--15142609 Score: 208
Period size: 44 Copynumber: 5.2 Consensus size: 43
15142376 TTTTTTTTTT
* * *
15142386 TTTGAAAAAAATAACAAAGCTCCTCTAAACAGAGGCACAACAAC
1 TTTGAAAAATA-AACAAAGCTCCTCTAAATAGAGGCTCAACAAC
* * * *
15142430 TTTGAAAAATAAA-ATA-CTACTCTAAATAGAGGTTTC-ATAAC
1 TTTGAAAAATAAACAAAGCTCCTCTAAATAGAGG-CTCAACAAC
* * **
15142471 TTTGAAAAAATAAACAAAGCTCATCTAAATAGAGGTTCAATGAC
1 TTTG-AAAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACAAC
*
15142515 TTTGGAAAAATAAACAAAGCTCCTCTAAACT-GAGGCTCAACGAC
1 TTT-GAAAAATAAACAAAGCTCCTCTAAA-TAGAGGCTCAACAAC
* ** * *
15142559 TTTGAAAAAT-AA-AATGCTCCTCTAACCAGAGGCACCACAAC
1 TTTGAAAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACAAC
15142600 TTTGAAAAAT
1 TTTGAAAAAT
15142610 GTTATTTGAT
Statistics
Matches: 152, Mismatches: 20, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
41 54 0.36
42 14 0.09
43 14 0.09
44 68 0.45
45 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (43 bp):
TTTGAAAAATAAACAAAGCTCCTCTAAATAGAGGCTCAACAAC
Done.