Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 97 of 126
Found at i:18946283 original size:11 final size:12
Alignment explanation
Indices: 18946253--18946282 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18946243 AAATTAAAGT
*
18946253 AAAAATATGAAA
1 AAAAAAATGAAA
18946265 AAAAAAATGAAA
1 AAAAAAATGAAA
18946277 AAAAAA
1 AAAAAA
18946283 TCAACAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (12 bp):
AAAAAAATGAAA
Found at i:18958943 original size:2 final size:2
Alignment explanation
Indices: 18958936--18958960 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18958926 TCTAGATTAT
18958936 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18958961 TGTTAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18959987 original size:12 final size:12
Alignment explanation
Indices: 18959972--18960013 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
18959962 TTTAAAATAT
18959972 AATAAAAAATTA
1 AATAAAAAATTA
*
18959984 AAT-AAATATATA
1 AATAAAAAAT-TA
*
18959996 AATATAAAATTA
1 AATAAAAAATTA
18960008 AATAAA
1 AATAAA
18960014 TAATAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 5 0.21
12 15 0.62
13 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAAAAAATTA
Found at i:18959999 original size:24 final size:24
Alignment explanation
Indices: 18959964--18960020 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
18959954 ATATTATTTT
18959964 TAAA-ATAT-AATAAAAAATTAAA
1 TAAATATATAAATAAAAAATTAAA
*
18959986 TAAATATATAAATATAAAATTAAA
1 TAAATATATAAATAAAAAATTAAA
18960010 TAAATA-ATAAA
1 TAAATATATAAA
18960021 AATATTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 4 0.12
23 9 0.28
24 19 0.59
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAATATATAAATAAAAAATTAAA
Found at i:18962327 original size:2 final size:2
Alignment explanation
Indices: 18962320--18962361 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
18962310 CTCTTCAATT
*
18962320 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18962362 CTTATCTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:18964623 original size:2 final size:2
Alignment explanation
Indices: 18964616--18964657 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
18964606 TATTATTCTC
* *
18964616 AT AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18964658 TTTCCCATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18968094 original size:16 final size:17
Alignment explanation
Indices: 18968066--18968113 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
18968056 AGATATTAAA
*
18968066 ATTAAAATTTTATATTT
1 ATTAAAATATTATATTT
18968083 ATT-AAATATTAT-TTT
1 ATTAAAATATTATATTT
*
18968098 TTTAAAATAATTATAT
1 ATTAAAAT-ATTATAT
18968114 AATCTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 5 0.19
16 12 0.46
17 8 0.31
18 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTAAAATATTATATTT
Found at i:18968256 original size:1 final size:1
Alignment explanation
Indices: 18968250--18968277 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
18968240 CCTCAAAAGG
18968250 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
18968278 GGAGAATGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18969123 original size:21 final size:21
Alignment explanation
Indices: 18969098--18969137 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
18969088 TTTTTTTTTT
18969098 AATTTTAGA-AATTAAATTAAA
1 AATTTTA-ATAATTAAATTAAA
18969119 AATTTTAATAATTAAATTA
1 AATTTTAATAATTAAATTA
18969138 CTATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AATTTTAATAATTAAATTAAA
Found at i:18972526 original size:27 final size:28
Alignment explanation
Indices: 18972474--18972530 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
18972464 ATTTTATCAA
* *
18972474 TTTATTAATTTATTTTTTTATTAAAATT
1 TTTATTAATTTATTTTTTAATAAAAATT
*
18972502 TTTATTTATTTA-TTTTTAATAAAAATT
1 TTTATTAATTTATTTTTTAATAAAAATT
18972529 TT
1 TT
18972531 CACAATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 15 0.58
28 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTATTAATTTATTTTTTAATAAAAATT
Found at i:18973720 original size:15 final size:16
Alignment explanation
Indices: 18973692--18973731 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
18973682 ATATTTGGAT
18973692 TAAA-GAAAGAGAAAGA
1 TAAAGGAAAGAGAAA-A
18973708 -AAAGGAAAG-GAAAA
1 TAAAGGAAAGAGAAAA
18973722 TAAAGGAAAG
1 TAAAGGAAAG
18973732 TAATAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 16 0.73
16 5 0.23
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.05
Consensus pattern (16 bp):
TAAAGGAAAGAGAAAA
Found at i:18990325 original size:22 final size:21
Alignment explanation
Indices: 18990300--18990341 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
18990290 TATTTAATTT
18990300 ATTATAAAATATAATAATTTTA
1 ATTATAAAATATAA-AATTTTA
* *
18990322 ATTATTAATTATAAAATTTT
1 ATTATAAAATATAAAATTTT
18990342 TTATTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTATAAAATATAAAATTTTA
Found at i:18990407 original size:16 final size:16
Alignment explanation
Indices: 18990386--18990440 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 16
18990376 TCATGCGTTT
18990386 TATTTATTTTAAAAAA
1 TATTTATTTTAAAAAA
**
18990402 TATTTATAGT--AAAA
1 TATTTATTTTAAAAAA
18990416 TATTTATATTTAAAAAA
1 TATTTAT-TTTAAAAAA
18990433 TTATTTAT
1 -TATTTAT
18990441 ATGATAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 11 0.35
15 1 0.03
16 8 0.26
17 4 0.13
18 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATTTATTTTAAAAAA
Found at i:18991485 original size:2 final size:2
Alignment explanation
Indices: 18991478--18991503 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18991468 AAAGATAGCA
18991478 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
18991504 GCAAACATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18991717 original size:28 final size:26
Alignment explanation
Indices: 18991670--18991729 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
18991660 AAATTCCTTA
* *
18991670 ATATATATTTTTTTATAAATCACAAC
1 ATATATATTTTTTAACAAATCACAAC
18991696 ATATATATTTTTTAAACCAAATCACAAC
1 ATATATATTTTTT-AA-CAAATCACAAC
*
18991724 GTATAT
1 ATATAT
18991730 TTAAATCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.45
27 1 0.03
28 15 0.52
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.42
Consensus pattern (26 bp):
ATATATATTTTTTAACAAATCACAAC
Found at i:18996708 original size:22 final size:21
Alignment explanation
Indices: 18996667--18996708 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
18996657 CATGTTTGAT
*
18996667 ATATTAAATTATGATAAAATA
1 ATATTAAAATATGATAAAATA
*
18996688 ATATTATAAATATGATTAAAT
1 ATATTA-AAATATGATAAAAT
18996709 TAAATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATATTAAAATATGATAAAATA
Found at i:19000846 original size:18 final size:18
Alignment explanation
Indices: 19000823--19000859 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19000813 CGGCAGCATT
19000823 TTCAGATTTAGCATCATC
1 TTCAGATTTAGCATCATC
19000841 TTCAGATTTAGCATCATC
1 TTCAGATTTAGCATCATC
19000859 T
1 T
19000860 GTGACTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (18 bp):
TTCAGATTTAGCATCATC
Found at i:19002546 original size:12 final size:12
Alignment explanation
Indices: 19002529--19002554 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19002519 ATGAACTTCA
19002529 AAAGCATTTTAG
1 AAAGCATTTTAG
19002541 AAAGCATTTTAG
1 AAAGCATTTTAG
19002553 AA
1 AA
19002555 TGCTAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (12 bp):
AAAGCATTTTAG
Found at i:19003260 original size:20 final size:20
Alignment explanation
Indices: 19003224--19003261 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19003214 AGGTATATAG
*
19003224 CATATGACTGTTAGCAAAGA
1 CATATGACTGGTAGCAAAGA
19003244 CATATGACTTGGT-GCAAA
1 CATATGAC-TGGTAGCAAA
19003262 TATACAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
CATATGACTGGTAGCAAAGA
Found at i:19006570 original size:16 final size:15
Alignment explanation
Indices: 19006511--19006579 Score: 54
Period size: 16 Copynumber: 4.7 Consensus size: 15
19006501 AAAAAATATG
*
19006511 AAAA-ATAATTTTAA
1 AAAATATAAATTTAA
* *
19006525 AATATA-AAAGTTAA
1 AAAATATAAATTTAA
* *
19006539 AAACTTTAAATATTAA
1 AAAATATAAAT-TTAA
19006555 AAAATATATAATTTAA
1 AAAATATA-AATTTAA
19006571 AAAA-ATAAA
1 AAAATATAAA
19006580 AAAAGAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
14 14 0.33
15 7 0.17
16 18 0.43
17 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (15 bp):
AAAATATAAATTTAA
Found at i:19007661 original size:17 final size:19
Alignment explanation
Indices: 19007634--19007677 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
19007624 TTTTTTTTTT
19007634 TTTTATTTG-TTCCATTTG
1 TTTTATTTGTTTCCATTTG
*
19007652 TTTT-TTTGTTTCTATTTG
1 TTTTATTTGTTTCCATTTG
19007670 TTTTATTT
1 TTTTATTT
19007678 CTCTTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 16 0.70
19 3 0.13
ACGTcount: A:0.09, C:0.07, G:0.09, T:0.75
Consensus pattern (19 bp):
TTTTATTTGTTTCCATTTG
Found at i:19008089 original size:155 final size:153
Alignment explanation
Indices: 19007890--19008198 Score: 546
Period size: 155 Copynumber: 2.0 Consensus size: 153
19007880 TTAATTTTTA
19007890 GTTTACATTTTAATGAAGTAATTTATAATTTTTACGTGCAAATGTATATCTATGTATATGATATG
1 GTTTACATTTTAATGAAGTAATTTATAATTTTTACGTGCAAATGTATATCTATGTATATGATATG
* *
19007955 TGATTAGTATTGAATACAAAGTTTTACTAACTTTTCTAATATTAGTAACAAATTGTTGCTAAAAA
66 TGATTAATATTGAATACAAAATTTTACTAACTTTT-TAA-ATTAGTAACAAATTGTTGCTAAAAA
19008020 TATATCCGGTCTCAAATACCACAAG
129 TATATCCGGTCTCAAATACCACAAG
* *
19008045 GTTTACATTTTAATGAAGTAATTTATAATTTTTACGTGCAAATGTATATCTGTGTTTATGATATG
1 GTTTACATTTTAATGAAGTAATTTATAATTTTTACGTGCAAATGTATATCTATGTATATGATATG
*
19008110 TGATTAATATTGAATACAAAATTTTACTAACTTTTTTAATTAGTAACAAATTGTTGCTAAAAATA
66 TGATTAATATTGAATACAAAATTTTACTAACTTTTTAAATTAGTAACAAATTGTTGCTAAAAATA
*
19008175 TATCCGGTCTCAAATACCATAAG
131 TATCCGGTCTCAAATACCACAAG
19008198 G
1 G
19008199 AAGGATCATT
Statistics
Matches: 148, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
153 50 0.34
154 2 0.01
155 96 0.65
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (153 bp):
GTTTACATTTTAATGAAGTAATTTATAATTTTTACGTGCAAATGTATATCTATGTATATGATATG
TGATTAATATTGAATACAAAATTTTACTAACTTTTTAAATTAGTAACAAATTGTTGCTAAAAATA
TATCCGGTCTCAAATACCACAAG
Found at i:19011855 original size:17 final size:18
Alignment explanation
Indices: 19011815--19011855 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19011805 AGAATATGAG
*
19011815 AATTTATTTGTTGGTCAA
1 AATTTATTTGTTCGTCAA
*
19011833 AA-TTATTT-TTCTTCAA
1 AATTTATTTGTTCGTCAA
19011849 AATTTAT
1 AATTTAT
19011856 ATAATTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 10 0.50
18 2 0.10
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (18 bp):
AATTTATTTGTTCGTCAA
Found at i:19015003 original size:2 final size:2
Alignment explanation
Indices: 19014996--19015034 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19014986 TTCATTCTTG
19014996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19015035 AATGCACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19018447 original size:13 final size:13
Alignment explanation
Indices: 19018429--19018467 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
19018419 TTTGAATCAA
19018429 ATTAAATTTAAAT
1 ATTAAATTTAAAT
* *
19018442 ATTAAATGTATAT
1 ATTAAATTTAAAT
*
19018455 ATTAGATTTAAAT
1 ATTAAATTTAAAT
19018468 CAGATTTTAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:19018690 original size:25 final size:24
Alignment explanation
Indices: 19018643--19018702 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
19018633 TTAAAAATCG
19018643 ATTAATTTAATCAAATTGATAAAA
1 ATTAATTTAATCAAATTGATAAAA
* *
19018667 TTTAATTTTATCAAATT-ATCTAAAA
1 ATTAATTTAATCAAATTGA--TAAAA
19018692 ATTAGATTTAA
1 ATTA-ATTTAA
19018703 ATTTAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 15 0.52
25 8 0.28
26 5 0.17
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (24 bp):
ATTAATTTAATCAAATTGATAAAA
Found at i:19021078 original size:11 final size:11
Alignment explanation
Indices: 19021042--19021079 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
19021032 CTCCTTGATA
19021042 TTTTATACTTG
1 TTTTATACTTG
*
19021053 TTTCATACTTG
1 TTTTATACTTG
19021064 TTTTATACTTG
1 TTTTATACTTG
19021075 TTTTA
1 TTTTA
19021080 CCAGGTAGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.18, C:0.11, G:0.08, T:0.63
Consensus pattern (11 bp):
TTTTATACTTG
Found at i:19027484 original size:16 final size:15
Alignment explanation
Indices: 19027457--19027486 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19027447 ATCGTATCAT
19027457 ATTTAAAATTATTAA
1 ATTTAAAATTATTAA
19027472 ATTTAATAATTATTA
1 ATTTAA-AATTATTA
19027487 TACTTTGTTC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTAAAATTATTAA
Found at i:19031486 original size:132 final size:132
Alignment explanation
Indices: 19031265--19031643 Score: 589
Period size: 132 Copynumber: 2.9 Consensus size: 132
19031255 TCCAACTCTT
* *
19031265 CAGACAGCTCTAGATCCTCCTGCACTGTTCTCTCCTCTGCTGAATTTTCCTTAGTTCCAATCCGT
1 CAGACAGCTCTAGATCCTCCTGCACTGCTCTCTCCTCTGCTGGATTTTCCTTAGTTCCAATCCGT
* * *
19031330 TCCAACTGTTGTTCATTGCCTGAAATCTGAGTCATAGTTGAAAAGGACTGCGGTTTTTCAAAAGT
66 TCCAACTGTAGTTCATTGCCTGAAATCTGAGTCATACTTGAAGAGGACTGCGGTTTTTCAAAAGT
19031395 TC
131 TC
*
19031397 CAGACAGCTCTAGATCCTCCTGCACTGCTCTCT-CTCCTGCTGGATTTTCCTTGGTTCCAATCCG
1 CAGACAGCTCTAGATCCTCCTGCACTGCTCTCTCCT-CTGCTGGATTTTCCTTAGTTCCAATCCG
* **
19031461 TTCCAACTGTAGTTCATTGCCTGAAATCTGAGTCATACTTGAAGAGGACTGTGGTTTTTCAAACT
65 TTCCAACTGTAGTTCATTGCCTGAAATCTGAGTCATACTTGAAGAGGACTGCGGTTTTTCAAAAG
19031526 TTC
130 TTC
* * * * * *
19031529 CAGACAGCTCTTGATCCTCCGGCTCTGCTTTCTCCTCTGCTGGAGTTTCCATAGTTCCAATCCGT
1 CAGACAGCTCTAGATCCTCCTGCACTGCTCTCTCCTCTGCTGGATTTTCCTTAGTTCCAATCCGT
* *
19031594 TCCAACTGTATTTCATTGCCTGGAATCTGAGTCATACTTGAAGAGGACTG
66 TCCAACTGTAGTTCATTGCCTGAAATCTGAGTCATACTTGAAGAGGACTG
19031644 TGATGCAACT
Statistics
Matches: 227, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
131 2 0.01
132 223 0.98
133 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.34
Consensus pattern (132 bp):
CAGACAGCTCTAGATCCTCCTGCACTGCTCTCTCCTCTGCTGGATTTTCCTTAGTTCCAATCCGT
TCCAACTGTAGTTCATTGCCTGAAATCTGAGTCATACTTGAAGAGGACTGCGGTTTTTCAAAAGT
TC
Found at i:19035036 original size:18 final size:20
Alignment explanation
Indices: 19034992--19035036 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
19034982 ATAATAATTT
19034992 TTAATTAAAATAATAAAAATA
1 TTAA-TAAAATAATAAAAATA
19035013 TATAATAAAAT-ATAAAAA-A
1 T-TAATAAAATAATAAAAATA
19035032 TTAAT
1 TTAAT
19035037 TAGCGTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 2 0.09
20 7 0.30
21 7 0.30
22 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TTAATAAAATAATAAAAATA
Found at i:19045089 original size:21 final size:24
Alignment explanation
Indices: 19045039--19045089 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
19045029 TATGGACAAC
*
19045039 TTTTTTAAATGATACATAGAATAG
1 TTTTTTAAATGATACATAGAATAA
*
19045063 TTTTTTAAATGA-ATA-AG-ATAA
1 TTTTTTAAATGATACATAGAATAA
19045084 TTTTTT
1 TTTTTT
19045090 TAATTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.36
22 2 0.08
23 2 0.08
24 12 0.48
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (24 bp):
TTTTTTAAATGATACATAGAATAA
Found at i:19045233 original size:20 final size:20
Alignment explanation
Indices: 19045208--19045257 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
19045198 TGAAATATGG
*
19045208 ATTTTATTTTTTAATAAATA
1 ATTTTATTTTTTAACAAATA
* *
19045228 ATTTTAGTTGTTTACCAAATA
1 ATTTTA-TTTTTTAACAAATA
*
19045249 ACTTTATTT
1 ATTTTATTT
19045258 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (20 bp):
ATTTTATTTTTTAACAAATA
Found at i:19045388 original size:13 final size:14
Alignment explanation
Indices: 19045351--19045378 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19045341 TTTTATCATG
19045351 ATTTAAAATTTTTT
1 ATTTAAAATTTTTT
19045365 ATTTAAAATTTTTT
1 ATTTAAAATTTTTT
19045379 TTTTTAATTT
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:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTAAAATTTTTT
Found at i:19047038 original size:20 final size:21
Alignment explanation
Indices: 19046995--19047036 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
19046985 TAAAAAATTG
*
19046995 AATATAATATATTTTAAAATA
1 AATATAATAAATTTTAAAATA
19047016 AATA-AATAAATTTT-AAATA
1 AATATAATAAATTTTAAAATA
19047035 AA
1 AA
19047037 ATTTAAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 9 0.45
21 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATAATAAATTTTAAAATA
Found at i:19048099 original size:72 final size:72
Alignment explanation
Indices: 19047976--19048145 Score: 184
Period size: 72 Copynumber: 2.3 Consensus size: 72
19047966 AATATTATTA
* *
19047976 TTTTAATAAAAATTACATTTTTTATCTTAAGAACGTTGTTTTTATTAAATTTTAAAAAATATTTT
1 TTTTAATAAAAATTACATTTTTTATATTAAGAACGTTGTTTGTATTAAATTTTAAAAAATATTTT
19048041 TTCATAT
66 TTCATAT
* *
19048048 TTTTAATAAAAATTAC-TTTTTTATATT-AGAA-GTATCGTCTTGTGTTGAATTTTGAAAAATAT
1 TTTTAATAAAAATTACATTTTTTATATTAAGAACGT-T-GT-TTGTATTAAATTTT-AAAAA-AT
*
19048110 TTTCTTTTCATAT
61 ATT-TTTTCATAT
** * *
19048123 TTGCAACAAAAACTACATTTTTT
1 TTTTAATAAAAATTACATTTTTT
19048146 TTTATTTTAG
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
69 2 0.02
70 5 0.06
71 12 0.15
72 27 0.33
73 5 0.06
74 4 0.05
75 21 0.26
76 6 0.07
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (72 bp):
TTTTAATAAAAATTACATTTTTTATATTAAGAACGTTGTTTGTATTAAATTTTAAAAAATATTTT
TTCATAT
Found at i:19048291 original size:47 final size:47
Alignment explanation
Indices: 19048240--19048386 Score: 122
Period size: 47 Copynumber: 3.1 Consensus size: 47
19048230 AGACTATTTT
*
19048240 TTATAATCAATTACATTTTATATGTTAAAAACGTAATGCTTATGAAA
1 TTATAATCAATTACATTATATATGTTAAAAACGTAATGCTTATGAAA
** * * * * * ***
19048287 TTATAAAAAAATTCAAAATTCATATTTTTTAACAA-TTAAT--TTAT-TTT
1 TTAT-AATCAATT--ACATT-ATATATGTTAAAAACGTAATGCTTATGAAA
*
19048334 TTATAATCAATTACATTATATATGTTAAAAACGTAATGCTTCTGAAA
1 TTATAATCAATTACATTATATATGTTAAAAACGTAATGCTTATGAAA
19048381 TTATAA
1 TTATAA
19048387 AAAATTTCAA
Statistics
Matches: 70, Mismatches: 22, Indels: 16
0.65 0.20 0.15
Matches are distributed among these distances:
43 11 0.16
44 8 0.11
46 9 0.13
47 14 0.20
48 10 0.14
50 8 0.11
51 10 0.14
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (47 bp):
TTATAATCAATTACATTATATATGTTAAAAACGTAATGCTTATGAAA
Found at i:19048332 original size:94 final size:96
Alignment explanation
Indices: 19048234--19048437 Score: 349
Period size: 94 Copynumber: 2.1 Consensus size: 96
19048224 TGAAAAAGAC
*
19048234 TATTTTTTATAATCAATTACATTTTATATGTTAAAAACGTAATGCTTATGAAATTATAAAAAAAT
1 TATTTTTTATAATCAATTACATTATATATGTTAAAAACGTAATGCTTATGAAATTATAAAAAAAT
19048299 TCAAAATTCATA-TTTTTTAACAATTAATT-
66 TCAAAATTCATATTTTTTTAACAATTAATTA
* *
19048328 TATTTTTTATAATCAATTACATTATATATGTTAAAAACGTAATGCTTCTGAAATTATAAAAAATT
1 TATTTTTTATAATCAATTACATTATATATGTTAAAAACGTAATGCTTATGAAATTATAAAAAAAT
19048393 TCAAAATTCATATTTTTTTAACAATTAATTA
66 TCAAAATTCATATTTTTTTAACAATTAATTA
*
19048424 TGTTTTTTTATAAT
1 T-ATTTTTTATAAT
19048438 TTTTTTATTA
Statistics
Matches: 103, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
94 74 0.72
95 17 0.17
96 1 0.01
97 11 0.11
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (96 bp):
TATTTTTTATAATCAATTACATTATATATGTTAAAAACGTAATGCTTATGAAATTATAAAAAAAT
TCAAAATTCATATTTTTTTAACAATTAATTA
Found at i:19050677 original size:15 final size:16
Alignment explanation
Indices: 19050651--19050683 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19050641 TTGTCCTTGA
19050651 AAAGTCAATATTATAT
1 AAAGTCAATATTATAT
*
19050667 AAAGT-AATATTTTAT
1 AAAGTCAATATTATAT
19050682 AA
1 AA
19050684 TATTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
AAAGTCAATATTATAT
Found at i:19053201 original size:21 final size:22
Alignment explanation
Indices: 19053145--19053202 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
19053135 TTTTCATCTT
*
19053145 TATGTTTCATTTTTAAAAATAA
1 TATGTTTTATTTTTAAAAATAA
* *
19053167 TATGTTTTA-ATTTATAAATAA
1 TATGTTTTATTTTTAAAAATAA
*
19053188 TGT-TTTTATTTTTAA
1 TATGTTTTATTTTTAA
19053203 GTAAATTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 5 0.17
21 16 0.55
22 8 0.28
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
TATGTTTTATTTTTAAAAATAA
Found at i:19053881 original size:24 final size:25
Alignment explanation
Indices: 19053836--19053882 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
19053826 TTTTTTTGGG
* *
19053836 TTTGAATTTTTTTAGATTTTGATCT
1 TTTGAATTTTTTCAGATCTTGATCT
*
19053861 TTTGACTTTTTTCA-ATCTTGAT
1 TTTGAATTTTTTCAGATCTTGAT
19053883 TGGTTTGGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.19, C:0.09, G:0.11, T:0.62
Consensus pattern (25 bp):
TTTGAATTTTTTCAGATCTTGATCT
Found at i:19055230 original size:12 final size:12
Alignment explanation
Indices: 19055213--19055255 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
19055203 AAGGTTAAAA
19055213 AGAAGAAAAGAG
1 AGAAGAAAAGAG
*
19055225 AGAAG-AAAGAA
1 AGAAGAAAAGAG
*
19055236 AGAAGGAAAGAGG
1 AGAAGAAAAGA-G
19055249 AGAAGAA
1 AGAAGAA
19055256 GAAAGAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 10 0.38
12 10 0.38
13 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
AGAAGAAAAGAG
Found at i:19055245 original size:23 final size:23
Alignment explanation
Indices: 19055211--19055270 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
19055201 GAAAGGTTAA
*
19055211 AAAGAAGAAAAGA-GAGAAGAAAG
1 AAAGAAGGAAAGAGGAGAAG-AAG
19055234 AAAGAAGGAAAGAGGAGAAGAAG
1 AAAGAAGGAAAGAGGAGAAGAAG
19055257 AAAGAAGTGAAAGA
1 AAAGAAG-GAAAGA
19055271 TAATAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 22 0.65
24 12 0.35
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (23 bp):
AAAGAAGGAAAGAGGAGAAGAAG
Found at i:19055528 original size:16 final size:15
Alignment explanation
Indices: 19055507--19055557 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
19055497 TGAATTCGAC
*
19055507 TTTAGATTTTTTCAGA
1 TTTAGATTTTTT-AAA
19055523 TTTAGATATTTTTAAA
1 TTTAGAT-TTTTTAAA
*
19055539 TTTAAATTTTTTTAAA
1 TTTAGA-TTTTTTAAA
19055555 TTT
1 TTT
19055558 TAAACTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 25 0.81
17 6 0.19
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTAGATTTTTTAAA
Found at i:19055559 original size:17 final size:17
Alignment explanation
Indices: 19055531--19055566 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
19055521 GATTTAGATA
19055531 TTTTTAAATTTAAA-TT
1 TTTTTAAATTTAAACTT
19055547 TTTTTAAATTTTAAACTT
1 TTTTTAAA-TTTAAACTT
19055565 TT
1 TT
19055567 GATTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTAAATTTAAACTT
Found at i:19056252 original size:21 final size:22
Alignment explanation
Indices: 19056228--19056268 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19056218 TGTCATCTGC
19056228 AAAATAATAT-ATAAATAATAA
1 AAAATAATATGATAAATAATAA
* *
19056249 AAAATGATATGATAATTAAT
1 AAAATAATATGATAAATAAT
19056269 GAATGAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAATAATATGATAAATAATAA
Found at i:19057135 original size:2 final size:2
Alignment explanation
Indices: 19057128--19057160 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19057118 AGAGAATCTA
19057128 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19057161 ATCCAATGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19059186 original size:22 final size:20
Alignment explanation
Indices: 19059134--19059187 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
19059124 TTTTATAAAA
*
19059134 GAAAATAAAATTGTATATCT
1 GAAAATAAAATTATATATCT
*
19059154 AAAAATTTAAAATTATATATACAT
1 GAAAA--TAAAATTATATAT-C-T
19059178 GAAAATAAAA
1 GAAAATAAAA
19059188 CTCAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 4 0.15
22 17 0.63
23 1 0.04
24 5 0.19
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (20 bp):
GAAAATAAAATTATATATCT
Found at i:19059581 original size:12 final size:12
Alignment explanation
Indices: 19059564--19059588 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19059554 TTTCTTTCTT
19059564 TTCCTTCCGAAA
1 TTCCTTCCGAAA
19059576 TTCCTTCCGAAA
1 TTCCTTCCGAAA
19059588 T
1 T
19059589 CCCCTATCTC
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:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TTCCTTCCGAAA
Found at i:19071776 original size:16 final size:16
Alignment explanation
Indices: 19071757--19071801 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
19071747 TATTATTTTT
*
19071757 AAATATAAATATTTAA
1 AAATATAAATATATAA
*
19071773 AAATATAATTATATAA
1 AAATATAAATATATAA
19071789 ATATATATAAATA
1 A-A-ATATAAATA
19071802 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 15 0.62
17 1 0.04
18 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:19077797 original size:19 final size:19
Alignment explanation
Indices: 19077770--19077811 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19077760 CGATTGCATG
*
19077770 TTTTCTTTTTTCATTTTCA
1 TTTTATTTTTTCATTTTCA
* *
19077789 TTTTATTTTTTGATTTTGA
1 TTTTATTTTTTCATTTTCA
19077808 TTTT
1 TTTT
19077812 TACCATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTTATTTTTTCATTTTCA
Found at i:19077835 original size:15 final size:13
Alignment explanation
Indices: 19077783--19077854 Score: 58
Period size: 13 Copynumber: 5.2 Consensus size: 13
19077773 TCTTTTTTCA
*
19077783 TTTTCATTTTATT
1 TTTTAATTTTATT
*
19077796 TTTTGATTTTGA-T
1 TTTTAATTTT-ATT
19077809 TTTTACCATTTTGATT
1 TTTTA--ATTTT-ATT
19077825 TTTTAAGTTTTATT
1 TTTTAA-TTTTATT
19077839 ATTTT-ATTTTATT
1 -TTTTAATTTTATT
19077852 TTT
1 TTT
19077855 ATTTTCAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
12 3 0.06
13 21 0.41
14 6 0.12
15 15 0.29
16 6 0.12
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTATT
Found at i:19081704 original size:20 final size:21
Alignment explanation
Indices: 19081681--19081732 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
19081671 AATTCATCCC
*
19081681 AAACCCAGAAAAA-CCCAAAA
1 AAACCCAAAAAAATCCCAAAA
*
19081701 AAACCCAAAAAAATTCC-AAA
1 AAACCCAAAAAAATCCCAAAA
*
19081721 AAATCCAAAAAA
1 AAACCCAAAAAA
19081733 TTTGAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.67, C:0.25, G:0.02, T:0.06
Consensus pattern (21 bp):
AAACCCAAAAAAATCCCAAAA
Found at i:19081710 original size:9 final size:9
Alignment explanation
Indices: 19081681--19081732 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
19081671 AATTCATCCC
19081681 AAACCCAGAA
1 AAACCCA-AA
19081691 AAACCCAAAA
1 AAACCC-AAA
19081701 AAACCCAAAA
1 AAACCC-AAA
*
19081711 AAATTCCAAA
1 AAA-CCCAAA
*
19081721 AAATCCAAA
1 AAACCCAAA
19081730 AAA
1 AAA
19081733 TTTGAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
9 9 0.23
10 27 0.69
11 3 0.08
ACGTcount: A:0.67, C:0.25, G:0.02, T:0.06
Consensus pattern (9 bp):
AAACCCAAA
Found at i:19082179 original size:17 final size:17
Alignment explanation
Indices: 19082147--19082180 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19082137 TCAAAATGGG
* *
19082147 AAAGAAAATAAGGAAAA
1 AAAGAAAAAAAAGAAAA
19082164 AAAGAAAAAAAAGAAAA
1 AAAGAAAAAAAAGAAAA
19082181 TATAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (17 bp):
AAAGAAAAAAAAGAAAA
Found at i:19082345 original size:192 final size:196
Alignment explanation
Indices: 19082004--19082391 Score: 640
Period size: 192 Copynumber: 2.0 Consensus size: 196
19081994 AATCAATCCT
*
19082004 AGGCTTAAATCCTAGGATTGCATTCTACCTAACATGATTTTTTATCCAAAAGTTTTGCAATCTCC
1 AGGCTTAAATCCTAGGATTGCATTCTACCTAACATGATTTTTGATCCAAAAGTTTTGCAATCTCC
* * * *
19082069 TGCTGATACGATTTGTTATTGAAAGTTTGACTCAGCAGGATTTTGATTTTGATTTTATTACGTGT
66 TGCTGATACGATTTGGTATTGAAAGTTTAACTCAACAGGATTTAGATTTTGATTTTATTACGTGT
*
19082134 GAATCAAAATGGGAAAGAAAATAAGGAAA-AAAA-GA-AAAAAAAGAAAATATAATAAT-ATAAT
131 GAATCAAAATGGGAAAGAAAATAAGGAAAGAAAATGAGAAAAAAAGAAAAAATAATAATAATAAT
19082195 G
196 G
* * *
19082196 AGGCTTGAATCCTGGGATTGCATTCTGCCTAACATGATTTTTGATCCAAAAGTTTTGCAATCTCC
1 AGGCTTAAATCCTAGGATTGCATTCTACCTAACATGATTTTTGATCCAAAAGTTTTGCAATCTCC
19082261 TGCTGATACGATTTGGTATTGAAAGTTTAACTCAACAGGATTTAGATTTTGATTTTATTACGTGT
66 TGCTGATACGATTTGGTATTGAAAGTTTAACTCAACAGGATTTAGATTTTGATTTTATTACGTGT
* *
19082326 GAATCAAAATGGGAAAGAAAATGAGGAAAGAAAATGAGGAAAGAAAGAAAAAATAATAATAATAA
131 GAATCAAAATGGGAAAGAAAATAAGGAAAGAAAATGA-GAAAAAAAGAAAAAATAATAATAATAA
19082391 T
195 T
19082392 AATAATAATA
Statistics
Matches: 180, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
192 150 0.83
193 4 0.02
194 2 0.01
196 19 0.11
197 5 0.03
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (196 bp):
AGGCTTAAATCCTAGGATTGCATTCTACCTAACATGATTTTTGATCCAAAAGTTTTGCAATCTCC
TGCTGATACGATTTGGTATTGAAAGTTTAACTCAACAGGATTTAGATTTTGATTTTATTACGTGT
GAATCAAAATGGGAAAGAAAATAAGGAAAGAAAATGAGAAAAAAAGAAAAAATAATAATAATAAT
G
Found at i:19082355 original size:13 final size:13
Alignment explanation
Indices: 19082331--19082371 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
19082321 CGTGTGAATC
19082331 AAAATG-GGAAAG
1 AAAATGAGGAAAG
19082343 AAAATGAGGAAAG
1 AAAATGAGGAAAG
19082356 AAAATGAGGAAAG
1 AAAATGAGGAAAG
19082369 AAA
1 AAA
19082372 GAAAAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 6 0.21
13 22 0.79
ACGTcount: A:0.63, C:0.00, G:0.29, T:0.07
Consensus pattern (13 bp):
AAAATGAGGAAAG
Found at i:19082385 original size:3 final size:3
Alignment explanation
Indices: 19082377--19082406 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
19082367 AGAAAGAAAA
19082377 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
19082407 TGATATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19082629 original size:26 final size:24
Alignment explanation
Indices: 19082548--19082630 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 24
19082538 AGCCTAACAA
*
19082548 AAAATGGGCCTAGTTGGGCTCCGACC
1 AAAATGGGCCTAATT-GG-TCCGACC
** * *
19082574 AAAATAAGCCTAATTGGGCCTAGACT
1 AAAATGGGCCTAATTGGTCC--GACC
19082600 AAAATGGGCCTAATTAGGTCCGGACC
1 AAAATGGGCCTAATT-GGTCC-GACC
19082626 AAAAT
1 AAAAT
19082631 AGGTGTCTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 2 0.05
25 2 0.05
26 36 0.82
27 4 0.09
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (24 bp):
AAAATGGGCCTAATTGGTCCGACC
Found at i:19082945 original size:89 final size:90
Alignment explanation
Indices: 19082782--19083014 Score: 256
Period size: 89 Copynumber: 2.6 Consensus size: 90
19082772 TGAAGCGATC
* * * * * *
19082782 AAAATCGAGTCAAGGTCAAAAATGAATGATCGAAATGAAATCATGAATCATGTAACCGAGATGAA
1 AAAATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCATGAATCATGTGACCGAGACGAA
* * **
19082847 ATCATGAGTCGAAATAAAGTGACC-
66 ACCACGAGTCGAAATAAAACGACCA
** * *
19082871 AGGATCGAGTCGAGGTTAAAAATAAATGATCGAGATGAAACCATGAATCATGTGACTG-GAACGA
1 AAAATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCATGAATCATGTGACCGAG-ACGA
19082935 AACCACGAGTCGAAATAAAACGACCA
65 AACCACGAGTCGAAATAAAACGACCA
** * * * *
19082961 AAAAT-GAGTCGAAATCGAAAATAAATGATCAAGATGAAACCATAAATGATGTGA
1 AAAATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCATGAATCATGTGA
19083015 TAATAAATAA
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
88 1 0.01
89 115 0.97
90 3 0.03
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.19
Consensus pattern (90 bp):
AAAATCGAGTCGAGGTCAAAAATAAATGATCGAGATGAAACCATGAATCATGTGACCGAGACGAA
ACCACGAGTCGAAATAAAACGACCA
Found at i:19083033 original size:36 final size:36
Alignment explanation
Indices: 19082980--19083051 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
19082970 CGAAATCGAA
* *
19082980 AATAAATGATCAAGATGAAACCATAAATGATGTGAT
1 AATAAATAATCAAGATGAAACCATAAATCATGTGAT
*
19083016 AATAAATAATCAGGATGAAACCATAAATCATGTGAT
1 AATAAATAATCAAGATGAAACCATAAATCATGTGAT
19083052 CGAGACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (36 bp):
AATAAATAATCAAGATGAAACCATAAATCATGTGAT
Found at i:19083045 original size:125 final size:125
Alignment explanation
Indices: 19082891--19083128 Score: 293
Period size: 125 Copynumber: 1.9 Consensus size: 125
19082881 CGAGGTTAAA
* * * * * *
19082891 AATAAATGATCGAGATGAAACCATGAATCATGTGACTGGA-ACGAAACCACGAGTCGAAATAAAA
1 AATAAATAATCGAGATGAAACCATAAATCATGTGA-TCGAGACAAAACCACAAGTCAAAATAAAA
*
19082955 CGACCAAAAAT-GAGTCGAAATCGAAAATAAATGATCAAGATGAAACCATAAATGATGTGAT
65 CGACC-AAAATCGAGTCGAAATCAAAAATAAATGATCAAGATGAAACCATAAATGATGTGAT
*
19083016 AATAAATAATC-AGGATGAAACCATAAATCATGTGATCGAGACAAAATCACAAGTCAAAATAAAA
1 AATAAATAATCGA-GATGAAACCATAAATCATGTGATCGAGACAAAACCACAAGTCAAAATAAAA
* * ** ** *
19083080 GGATCAGGATCGAGTCGAGGTCAAAAATAAATGATCAGGATGAAACCAT
65 CGACCAAAATCGAGTCGAAATCAAAAATAAATGATCAAGATGAAACCAT
19083129 GAATCATGAA
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
124 7 0.07
125 88 0.93
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.18
Consensus pattern (125 bp):
AATAAATAATCGAGATGAAACCATAAATCATGTGATCGAGACAAAACCACAAGTCAAAATAAAAC
GACCAAAATCGAGTCGAAATCAAAAATAAATGATCAAGATGAAACCATAAATGATGTGAT
Found at i:19083440 original size:34 final size:34
Alignment explanation
Indices: 19083397--19083476 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 34
19083387 AAAAATCATC
19083397 TTTCATTAGCCTAAAGTCATGCAAAGAAACCATT
1 TTTCATTAGCCTAAAGTCATGCAAAGAAACCATT
* ** * * **
19083431 TTTCATTAGCTTAGGGTCATGTAAGGAATTCATT
1 TTTCATTAGCCTAAAGTCATGCAAAGAAACCATT
*
19083465 TTTCATCAGCCT
1 TTTCATTAGCCT
19083477 GGCTGTTGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (34 bp):
TTTCATTAGCCTAAAGTCATGCAAAGAAACCATT
Found at i:19104329 original size:3 final size:3
Alignment explanation
Indices: 19104323--19104484 Score: 112
Period size: 3 Copynumber: 57.7 Consensus size: 3
19104313 GTTGTTGTTG
* * * * *
19104323 TTA TTA TTA ATA TTA TAA CTA TTA TT- GTA TTA TTA -TA GTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
19104368 -TA TTA -TA TTA -TA TTA -TA TT- GTA TTA -TA TTA -TA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
19104409 TTG TTG TTG TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
19104457 TTA CTG TTA TTA TT- TTT TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19104485 CTTGATCTAT
Statistics
Matches: 131, Mismatches: 17, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
2 20 0.15
3 111 0.85
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:19104364 original size:5 final size:5
Alignment explanation
Indices: 19104353--19104403 Score: 84
Period size: 5 Copynumber: 10.2 Consensus size: 5
19104343 ATTATTGTAT
* *
19104353 TATTA TAGTA TATTA TATTA TATTA TATTA TATTG TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
19104403 T
1 T
19104404 TATTGTTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:19105186 original size:13 final size:13
Alignment explanation
Indices: 19105169--19105218 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
19105159 CAATCGTAAG
*
19105169 TTTTTGTTTTTTG
1 TTTTTGTTTTTTA
*
19105182 TTTTT-TCATTTTA
1 TTTTTGT-TTTTTA
19105195 TTTTTGTTTTTTA
1 TTTTTGTTTTTTA
*
19105208 TTTTTATTTTT
1 TTTTTGTTTTT
19105219 ACCATTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 1 0.03
13 29 0.94
14 1 0.03
ACGTcount: A:0.08, C:0.02, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTTTGTTTTTTA
Found at i:19105200 original size:19 final size:19
Alignment explanation
Indices: 19105176--19105218 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
19105166 AAGTTTTTGT
19105176 TTTTTGTTTTTTCA-TTTTA
1 TTTTTGTTTTTT-ATTTTTA
19105195 TTTTTGTTTTTTATTTTTA
1 TTTTTGTTTTTTATTTTTA
19105214 TTTTT
1 TTTTT
19105219 ACCATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 1 0.04
19 22 0.96
ACGTcount: A:0.09, C:0.02, G:0.05, T:0.84
Consensus pattern (19 bp):
TTTTTGTTTTTTATTTTTA
Found at i:19105488 original size:21 final size:19
Alignment explanation
Indices: 19105450--19105495 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
19105440 TTTTTCATGA
*
19105450 ATTAAATTTTATGAATTTT
1 ATTAAATTTTAAGAATTTT
19105469 ATTAAATTATTGAAGAATTTT
1 ATTAAATT-TT-AAGAATTTT
19105490 A-TAAAT
1 ATTAAAT
19105496 CAATTTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 7 0.29
21 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
ATTAAATTTTAAGAATTTT
Found at i:19105561 original size:122 final size:122
Alignment explanation
Indices: 19105421--19105804 Score: 375
Period size: 122 Copynumber: 3.2 Consensus size: 122
19105411 TTCATTAATC
*
19105421 CTACCAAACTATTAGAGGATTTTTCATGAATTAAATTTTATGAATTTTATTAAATTATTGAAGAA
1 CTACCAAACTATTGGAGGATTTTTCATGAATTAAATTTTATGAATTTTATTAAATTATTGAAGAA
19105486 TTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTATT
66 TTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTATT
* * * *** * **
19105543 CTACCAAACTATTGGAGGATTGCATTTGATAAAATAACA-AAAAT--ATATTATTCTATCT-TTG
1 CTACCAAACTATTGGAGGATT---TTTCATGAATTAA-ATTTTATGAATTTTATTAAAT-TATT-
* * *** * *
19105604 GAA-AA--TAACAAA--AATATAAAAAAATGAAAAACT--TTCTTTTCAAAT-AA--ATTCA-TT
60 GAAGAATTTTATAAATCAAT-TTTCAAAA-GAAAAA-TAATTC-TTT--AATGAAGTTTTTATTT
* *
19105658 AATC
119 TATT
*
19105662 CTACCAAACTATTGGAGGATTTTTCATGAATTAAATTTTATGAATTTTATCAAATTATTGAAGAA
1 CTACCAAACTATTGGAGGATTTTTCATGAATTAAATTTTATGAATTTTATTAAATTATTGAAGAA
19105727 TTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTATT
66 TTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTATT
19105784 CTACCAAACTATTGGAGGATT
1 CTACCAAACTATTGGAGGATT
19105805 GCATTTTAAG
Statistics
Matches: 197, Mismatches: 38, Indels: 54
0.68 0.13 0.19
Matches are distributed among these distances:
115 1 0.01
116 12 0.06
117 4 0.02
118 15 0.08
119 31 0.16
120 25 0.13
121 25 0.13
122 51 0.26
123 16 0.08
124 4 0.02
125 12 0.06
126 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (122 bp):
CTACCAAACTATTGGAGGATTTTTCATGAATTAAATTTTATGAATTTTATTAAATTATTGAAGAA
TTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTATT
Found at i:19105770 original size:241 final size:241
Alignment explanation
Indices: 19105347--19105810 Score: 910
Period size: 241 Copynumber: 1.9 Consensus size: 241
19105337 AATCCCAGTT
19105347 TATTATTCTATCTTTGGAAAATAACAAAAATATAAAAAAATGAAAAACTTTCTTTTCAAATAAAT
1 TATTATTCTATCTTTGGAAAATAACAAAAATATAAAAAAATGAAAAACTTTCTTTTCAAATAAAT
*
19105412 TCATTAATCCTACCAAACTATTAGAGGATTTTTCATGAATTAAATTTTATGAATTTTATTAAATT
66 TCATTAATCCTACCAAACTATTAGAGGATTTTTCATGAATTAAATTTTATGAATTTTATCAAATT
19105477 ATTGAAGAATTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTAT
131 ATTGAAGAATTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTAT
19105542 TCTACCAAACTATTGGAGGATTGCATTTGATAAAATAACAAAAATA
196 TCTACCAAACTATTGGAGGATTGCATTTGATAAAATAACAAAAATA
19105588 TATTATTCTATCTTTGGAAAATAACAAAAATATAAAAAAATGAAAAACTTTCTTTTCAAATAAAT
1 TATTATTCTATCTTTGGAAAATAACAAAAATATAAAAAAATGAAAAACTTTCTTTTCAAATAAAT
*
19105653 TCATTAATCCTACCAAACTATTGGAGGATTTTTCATGAATTAAATTTTATGAATTTTATCAAATT
66 TCATTAATCCTACCAAACTATTAGAGGATTTTTCATGAATTAAATTTTATGAATTTTATCAAATT
19105718 ATTGAAGAATTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTAT
131 ATTGAAGAATTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTAT
19105783 TCTACCAAACTATTGGAGGATTGCATTT
196 TCTACCAAACTATTGGAGGATTGCATTT
19105811 TAAGTTAAAT
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 221 1.00
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (241 bp):
TATTATTCTATCTTTGGAAAATAACAAAAATATAAAAAAATGAAAAACTTTCTTTTCAAATAAAT
TCATTAATCCTACCAAACTATTAGAGGATTTTTCATGAATTAAATTTTATGAATTTTATCAAATT
ATTGAAGAATTTTATAAATCAATTTTCAAAAGAAAAATAATTCTTTAATGAAGTTTTTATTTTAT
TCTACCAAACTATTGGAGGATTGCATTTGATAAAATAACAAAAATA
Found at i:19106469 original size:2 final size:2
Alignment explanation
Indices: 19106462--19106503 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
19106452 TATGGTCTTG
19106462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19106504 CCATCTCTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19109077 original size:30 final size:30
Alignment explanation
Indices: 19109026--19109087 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
19109016 CTATCTAACG
* *
19109026 AAAAGTTTAATTAAGTGAAAATAAATATTT
1 AAAAATTTAATTAAGTAAAAATAAATATTT
* *
19109056 AAAAATTTAATT-AGATAAAAATAGATGTTT
1 AAAAATTTAATTAAG-TAAAAATAAATATTT
19109086 AA
1 AA
19109088 GTTTTGATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (30 bp):
AAAAATTTAATTAAGTAAAAATAAATATTT
Found at i:19110017 original size:10 final size:10
Alignment explanation
Indices: 19109992--19110035 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
19109982 CTTTTTATTT
19109992 TATA-AAAAA
1 TATATAAAAA
19110001 T-TA-AAAAA
1 TATATAAAAA
19110009 TATATAAAAA
1 TATATAAAAA
19110019 T-TAATAAAAA
1 TAT-ATAAAAA
19110029 TATATAA
1 TATATAA
19110036 TTCGATTCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.26
9 4 0.13
10 18 0.58
11 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TATATAAAAA
Found at i:19110019 original size:18 final size:20
Alignment explanation
Indices: 19109992--19110035 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
19109982 CTTTTTATTT
19109992 TATA-AAAAATT-A-AAAAA
1 TATATAAAAATTAATAAAAA
19110009 TATATAAAAATTAATAAAAA
1 TATATAAAAATTAATAAAAA
19110029 TATATAA
1 TATATAA
19110036 TTCGATTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
19 1 0.04
20 12 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TATATAAAAATTAATAAAAA
Found at i:19110135 original size:14 final size:15
Alignment explanation
Indices: 19110116--19110152 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
19110106 AATTCAATCC
19110116 AAATTAAATTAAA-A
1 AAATTAAATTAAATA
*
19110130 AAATTAAATTAAATC
1 AAATTAAATTAAATA
19110145 AAATTAAA
1 AAATTAAA
19110153 CATTACGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTAAATTAAATA
Found at i:19114051 original size:13 final size:12
Alignment explanation
Indices: 19114033--19114081 Score: 57
Period size: 11 Copynumber: 4.1 Consensus size: 12
19114023 TTTATCCGTT
19114033 ATATATATTTTA
1 ATATATATTTTA
19114045 A-ATATATTTTA
1 ATATATATTTTA
19114056 CAGTA-ATATTTTA
1 -A-TATATATTTTA
*
19114069 ATATATTTTTTA
1 ATATATATTTTA
19114081 A
1 A
19114082 ATTTAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 12 0.38
12 11 0.34
13 8 0.25
14 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (12 bp):
ATATATATTTTA
Found at i:19114993 original size:18 final size:18
Alignment explanation
Indices: 19114956--19114993 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19114946 AATGCTTTCT
*
19114956 AAGCAACTCAACCAATTC
1 AAGCAACTCAACAAATTC
19114974 AAGCAACTCAA-AAATATC
1 AAGCAACTCAACAAAT-TC
19114992 AA
1 AA
19114994 TCTGAAACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.53, C:0.26, G:0.05, T:0.16
Consensus pattern (18 bp):
AAGCAACTCAACAAATTC
Found at i:19120253 original size:17 final size:17
Alignment explanation
Indices: 19120233--19120266 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19120223 ATGTTTAAAA
*
19120233 TTTTCTAATTTTGATAT
1 TTTTCTAATTTTAATAT
*
19120250 TTTTTTAATTTTAATAT
1 TTTTCTAATTTTAATAT
19120267 ATAATATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTCTAATTTTAATAT
Found at i:19120301 original size:26 final size:26
Alignment explanation
Indices: 19120250--19120302 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
19120240 ATTTTGATAT
* * *
19120250 TTTTTTAATTTTAATATATAATATAA
1 TTTTTTAAATTTAAAATATAAAATAA
*
19120276 TTTTTTAAATTTAAAATTTAAAATAA
1 TTTTTTAAATTTAAAATATAAAATAA
19120302 T
1 T
19120303 GTCATCATCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTTTTAAATTTAAAATATAAAATAA
Found at i:19124957 original size:2 final size:2
Alignment explanation
Indices: 19124950--19125004 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
19124940 ATTAATCCTT
* *
19124950 TA TA TA TA TA TA TA TA TA TA TA TC TT TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19124992 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
19125005 TAGTTGAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:19128055 original size:1 final size:1
Alignment explanation
Indices: 19128051--19128077 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
19128041 AAAATTAGAG
19128051 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
19128078 ATAAAATAGA
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:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:19129045 original size:31 final size:31
Alignment explanation
Indices: 19129003--19129066 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
19128993 ATCCTAAATC
* * *
19129003 CACAGAATAATTTGTACTAT-ATAATTAATTA
1 CACAAAATAATTTATA-TATAATAAATAATTA
19129034 CACAAAATAATTTATATATAATAAATAATTA
1 CACAAAATAATTTATATATAATAAATAATTA
19129065 CA
1 CA
19129067 ATATTACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (31 bp):
CACAAAATAATTTATATATAATAAATAATTA
Found at i:19130245 original size:16 final size:16
Alignment explanation
Indices: 19130218--19130251 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
19130208 ATTTCATCTT
19130218 TTTAATTTATTAAATAA
1 TTTAATTTATTAAA-AA
19130235 TTTAA-TTATTAAAAA
1 TTTAATTTATTAAAAA
19130250 TT
1 TT
19130252 GATCTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 8 0.47
17 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAATTTATTAAAAA
Found at i:19130817 original size:15 final size:15
Alignment explanation
Indices: 19130797--19130849 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
19130787 TTTTAAAAAA
19130797 AAAATTAAAATAAAC
1 AAAATTAAAATAAAC
*
19130812 AAAATTTAAATCAAAC
1 AAAATTAAAAT-AAAC
19130828 -AAATT-AAATAAA-
1 AAAATTAAAATAAAC
*
19130840 AAAAATAAAA
1 AAAATTAAAA
19130850 AAATTTTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 7 0.21
14 7 0.21
15 15 0.45
16 4 0.12
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATTAAAATAAAC
Found at i:19133115 original size:18 final size:18
Alignment explanation
Indices: 19133078--19133115 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
19133068 TATGCTTTCT
*
19133078 AAACAACTCAATAGATTC
1 AAACAACTCAATAAATTC
19133096 AAACAACTCAA-AAATATC
1 AAACAACTCAATAAAT-TC
19133114 AA
1 AA
19133116 TCTGAAACCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.58, C:0.21, G:0.03, T:0.18
Consensus pattern (18 bp):
AAACAACTCAATAAATTC
Found at i:19146684 original size:29 final size:28
Alignment explanation
Indices: 19146647--19146713 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
19146637 GGGAAAAAAC
* *
19146647 AAAATTTTTAATGGATACAAAA-AATATA
1 AAAAATTTT-ATGAATACAAAAGAATATA
*
19146675 TAAAAATTTTATGAATATAAAAGAATATA
1 -AAAAATTTTATGAATACAAAAGAATATA
19146704 AAAATATTTT
1 AAAA-ATTTT
19146714 TTATTGCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 14 0.42
29 19 0.58
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (28 bp):
AAAAATTTTATGAATACAAAAGAATATA
Found at i:19157767 original size:20 final size:21
Alignment explanation
Indices: 19157732--19157771 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
19157722 TTTAGATTCA
19157732 TTTATATTAAAATATTTTAAAT
1 TTTATATT-AAATATTTTAAAT
19157754 TTTATATT-AATATTTTAA
1 TTTATATTAAATATTTTAA
19157772 GTACATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATATTAAATATTTTAAAT
Found at i:19158280 original size:28 final size:28
Alignment explanation
Indices: 19158240--19158296 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
19158230 CTAGTACCAT
19158240 ATTTGGCAGGATAGACTGAAAGAAAGCA
1 ATTTGGCAGGATAGACTGAAAGAAAGCA
19158268 ATTTGGCAGGATAGACTGAAAGAAAGCA
1 ATTTGGCAGGATAGACTGAAAGAAAGCA
19158296 A
1 A
19158297 CTTGCCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.18
Consensus pattern (28 bp):
ATTTGGCAGGATAGACTGAAAGAAAGCA
Found at i:19159603 original size:33 final size:33
Alignment explanation
Indices: 19159566--19159632 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
19159556 AACTTCATAA
19159566 TTAACTAAATGGGATTACAAAACTGGACACCTC
1 TTAACTAAATGGGATTACAAAACTGGACACCTC
19159599 TTAACTAAATGGGATTACAAAACTGGACACCTC
1 TTAACTAAATGGGATTACAAAACTGGACACCTC
19159632 T
1 T
19159633 GAAGGCCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (33 bp):
TTAACTAAATGGGATTACAAAACTGGACACCTC
Found at i:19162835 original size:24 final size:24
Alignment explanation
Indices: 19162786--19162836 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
19162776 AATATAAATT
19162786 CAATTTTACTCTTACTTTTTCACA
1 CAATTTTACTCTTACTTTTTCACA
* *
19162810 CAATTTTATTTCTTAGTTTTTC-CA
1 CAATTTTA-CTCTTACTTTTTCACA
19162834 CAA
1 CAA
19162837 ATACTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.25, C:0.22, G:0.02, T:0.51
Consensus pattern (24 bp):
CAATTTTACTCTTACTTTTTCACA
Found at i:19163813 original size:43 final size:43
Alignment explanation
Indices: 19163752--19163839 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
19163742 TTGACACTTA
*
19163752 CTGTATTTTTCAAGATCAGACTTTGAGAAGATGATTGATCTTG
1 CTGTATTTTTCAAGATCAGACTTCGAGAAGATGATTGATCTTG
19163795 CTGTATTTTTCAAGATCAGACTTCGAGAAGATGATTGATCTTG
1 CTGTATTTTTCAAGATCAGACTTCGAGAAGATGATTGATCTTG
19163838 CT
1 CT
19163840 ATGGAAAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (43 bp):
CTGTATTTTTCAAGATCAGACTTCGAGAAGATGATTGATCTTG
Found at i:19166680 original size:15 final size:15
Alignment explanation
Indices: 19166660--19166713 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
19166650 AAATAATATT
19166660 ATAATATATTAATAA
1 ATAATATATTAATAA
* *
19166675 ATAATATACTATTAA
1 ATAATATATTAATAA
19166690 TATAATATATTAATAA
1 -ATAATATATTAATAA
19166706 ATAATATA
1 ATAATATA
19166714 AAGAATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 21 0.62
16 13 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATATATTAATAA
Found at i:19166771 original size:19 final size:18
Alignment explanation
Indices: 19166744--19166831 Score: 67
Period size: 19 Copynumber: 4.9 Consensus size: 18
19166734 TTTTAAGTAT
*
19166744 TTTTTATATTAACATAATA
1 TTTTAATATTAA-ATAATA
*
19166763 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
* * *
19166781 TTATTAAAATATAATTAGT-
1 TT-TTAATAT-TAAATAATA
19166800 TTTTAATATT-AAT-A-A
1 TTTTAATATTAAATAATA
*
19166815 TTTTAATAATAAATAAT
1 TTTTAATATTAAATAAT
19166832 TTCAATATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
15 9 0.17
16 5 0.09
17 2 0.04
18 13 0.24
19 19 0.35
20 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:19166820 original size:15 final size:15
Alignment explanation
Indices: 19166800--19166840 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
19166790 TATAATTAGT
*
19166800 TTTTAATATTAATAA
1 TTTTAATATAAATAA
19166815 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
19166831 TTTCAATATA
1 TTTTAATATA
19166841 CTTTAATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:19166838 original size:25 final size:26
Alignment explanation
Indices: 19166810--19166873 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
19166800 TTTTAATATT
19166810 AATAATTTTAATAATAAATAA-TTTC
1 AATAATTTTAATAATAAATAATTTTC
* * *
19166835 AATATACTTTAATACTAAATAATTTTT
1 AATA-ATTTTAATAATAAATAATTTTC
19166862 AAT-ATTTTAATA
1 AATAATTTTAATA
19166874 GTTACATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.36
26 15 0.45
27 6 0.18
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAATTTTC
Found at i:19167025 original size:13 final size:14
Alignment explanation
Indices: 19166992--19167028 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
19166982 AAAATATAAA
19166992 CATTTTTCAGAAAT
1 CATTTTTCAGAAAT
*
19167006 CATTTTTCAGAAGT
1 CATTTTTCAGAAAT
19167020 CATTTTTCA
1 CATTTTTCA
19167029 CAAAACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (14 bp):
CATTTTTCAGAAAT
Found at i:19178612 original size:26 final size:26
Alignment explanation
Indices: 19178573--19178624 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
19178563 ATGCATAAGG
*
19178573 ATTAACACCGTCTAGATACAGTTCAA
1 ATTAACACCATCTAGATACAGTTCAA
19178599 ATTAACACCATCTAGATACAGTTCAA
1 ATTAACACCATCTAGATACAGTTCAA
19178625 CTCAAGTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (26 bp):
ATTAACACCATCTAGATACAGTTCAA
Found at i:19184834 original size:20 final size:22
Alignment explanation
Indices: 19184811--19184861 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
19184801 TTTTAGGTTA
*
19184811 ATTAAAATTA-AT-ATATTTTT
1 ATTAAAATTATATAATATGTTT
19184831 ATTAAAATATATATAATATGTTT
1 ATTAAAAT-TATATAATATGTTT
19184854 A-TAAAATT
1 ATTAAAATT
19184862 TAACTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.30
21 3 0.11
22 8 0.30
23 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTAAAATTATATAATATGTTT
Found at i:19189020 original size:10 final size:10
Alignment explanation
Indices: 19189007--19189031 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19188997 ATTTATAATA
19189007 TTATCTTATT
1 TTATCTTATT
19189017 TTATCTTATT
1 TTATCTTATT
19189027 TTATC
1 TTATC
19189032 ATAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATCTTATT
Found at i:19189536 original size:6 final size:6
Alignment explanation
Indices: 19189522--19189590 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
19189512 TGATATGATA
* * * *
19189522 TTAAAT TTAAGT TTAAAT TTAACT TTAAAT TTGAAGT TTGAAAT TT-GAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TT-AAAT TTAAAT
* *
19189571 TTAAGT TT-AAT TAAAAT TTA
1 TTAAAT TTAAAT TTAAAT TTA
19189591 TTTTTTTAAC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
5 7 0.15
6 30 0.62
7 11 0.23
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:19189539 original size:12 final size:11
Alignment explanation
Indices: 19189522--19189590 Score: 66
Period size: 12 Copynumber: 5.8 Consensus size: 11
19189512 TGATATGATA
19189522 TTAAATTTAAGT
1 TTAAATTTAA-T
19189534 TTAAATTTAACT
1 TTAAATTTAA-T
19189546 TTAAATTTGAAGT
1 TTAAATTT-AA-T
*
19189559 TTGAAATTTGAT
1 TT-AAATTTAAT
*
19189571 TTAAGTTTAAT
1 TTAAATTTAAT
*
19189582 TAAAATTTA
1 TTAAATTTA
19189591 TTTTTTTAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
11 14 0.29
12 22 0.46
13 6 0.12
14 6 0.12
ACGTcount: A:0.41, C:0.01, G:0.09, T:0.49
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:19192440 original size:2 final size:2
Alignment explanation
Indices: 19192433--19192465 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19192423 AATGATTGTA
19192433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19192466 AACATACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19194058 original size:74 final size:74
Alignment explanation
Indices: 19193906--19194059 Score: 195
Period size: 74 Copynumber: 2.1 Consensus size: 74
19193896 TTTTTTTTTT
* *
19193906 TTTTTTTTGGATTCAAATGGGTTTTTGAGTTTGTATTGAAGGCGGATTTTCTGGGTTTTCTTGGT
1 TTTTCTTTGGATTCAAATGGGTTTTTGAGTTTGCATTGAAGGCGGATTTTCTGGGTTTTCTTGGT
* **
19193971 TGTATTTTT
66 TGGATTTGG
* * **
19193980 TTTTCTTTGGATTCAAATGGGTTTTTGAGTTTGCATTGAAGGTGGGTTTTCTTTGTTTT-TT-GT
1 TTTTCTTTGGATTCAAATGGGTTTTTGAGTTTGCATTGAAGGCGGATTTTCTGGGTTTTCTTGGT
19194043 TGGGAGTTTGG
66 T-GGA-TTTGG
19194054 TTTTCT
1 TTTTCT
19194060 GGTTTTTCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
72 3 0.04
73 4 0.06
74 62 0.90
ACGTcount: A:0.12, C:0.06, G:0.27, T:0.55
Consensus pattern (74 bp):
TTTTCTTTGGATTCAAATGGGTTTTTGAGTTTGCATTGAAGGCGGATTTTCTGGGTTTTCTTGGT
TGGATTTGG
Found at i:19200205 original size:32 final size:33
Alignment explanation
Indices: 19200144--19200205 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
19200134 GATATCTTTC
** *
19200144 TTAAGTAAACTTAATAATTTTGTTTAAATTTGT
1 TTAAGTAAACTTAATAATTTTACTAAAATTTGT
*
19200177 TTAA-TAAATTTAATAATTTTACTAAAATT
1 TTAAGTAAACTTAATAATTTTACTAAAATT
19200206 CTCTCAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (33 bp):
TTAAGTAAACTTAATAATTTTACTAAAATTTGT
Found at i:19204090 original size:18 final size:19
Alignment explanation
Indices: 19204067--19204112 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
19204057 AAATCTATAC
*
19204067 ATGAAGGGTCCGATG-GGG
1 ATGAAGGGTCCAATGAGGG
*
19204085 ATGAAGTGTCCAATGAGGG
1 ATGAAGGGTCCAATGAGGG
19204104 -TGAAGGGTC
1 ATGAAGGGTC
19204113 TAAGCCTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.88
19 3 0.12
ACGTcount: A:0.26, C:0.11, G:0.43, T:0.20
Consensus pattern (19 bp):
ATGAAGGGTCCAATGAGGG
Found at i:19205004 original size:22 final size:20
Alignment explanation
Indices: 19204979--19205035 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
19204969 TTTGAAATTA
19204979 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTT--AAT
19205001 ATAAAATATTATTTTTTAAT
1 ATAAAATATTATTTTTTAAT
*
19205021 GTAAAATATTATTTT
1 ATAAAATATTATTTT
19205036 AATGCAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 17 0.50
22 17 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAAATATTATTTTTTAAT
Found at i:19205046 original size:17 final size:19
Alignment explanation
Indices: 19204980--19205039 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 19
19204970 TTGAAATTAA
*
19204980 TAAAATATTATTTTTTAAAATA
1 TAAAATATTA-TTTTT--AATG
19205002 TAAAATATTATTTTTTAATG
1 TAAAATATTA-TTTTTAATG
19205022 TAAAATATTA-TTTTAATG
1 TAAAATATTATTTTTAATG
19205040 CAAATATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 8 0.22
20 13 0.35
22 16 0.43
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
TAAAATATTATTTTTAATG
Found at i:19207005 original size:148 final size:147
Alignment explanation
Indices: 19206736--19207033 Score: 501
Period size: 148 Copynumber: 2.0 Consensus size: 147
19206726 AGAATATTTG
* * *
19206736 AGGCAATTCTGAAGCAATGCAGAAAAACAGAATGAGCACATATATGCTGATGCTTGTACGCAAAC
1 AGGCAATTCTGAAGCAATGCAGAAAAACAGAATGAACACATATATGCTGAGGCTTGTACGAAAAC
* *
19206801 ATAGTTTGGTTTAGTCATAAGCCTAATTAAGAACATTCTACTAATCATATCTATGCCCAATGATG
66 ATAATTCGGTTTAGTCATAAGCCTAATTAAGAACATTCTACTAATCATATCTATGCCCAATGATG
19206866 CATTTTAAAAGCAAAAA
131 CATTTTAAAAGCAAAAA
*
19206883 AGGCAATTCTGAAGCAATGCAGAAGAACCAGAATGAACACATATATGCTGAGGCTTGTA-GAAAA
1 AGGCAATTCTGAAGCAATGCAGAA-AAACAGAATGAACACATATATGCTGAGGCTTGTACG-AAA
19206947 ACATAATTCGGTTTAGTCATAAGCCTAATTAAGAACATTCTACTAATCATATGC-ATGCCCAATG
64 ACATAATTCGGTTTAGTCATAAGCCTAATTAAGAACATTCTACTAATCATAT-CTATGCCCAATG
19207011 ATGCATTTTAAAAGCAAAAA
128 ATGCATTTTAAAAGCAAAAA
19207031 AGG
1 AGG
19207034 ATCTTCATAT
Statistics
Matches: 142, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
147 25 0.18
148 116 0.82
149 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (147 bp):
AGGCAATTCTGAAGCAATGCAGAAAAACAGAATGAACACATATATGCTGAGGCTTGTACGAAAAC
ATAATTCGGTTTAGTCATAAGCCTAATTAAGAACATTCTACTAATCATATCTATGCCCAATGATG
CATTTTAAAAGCAAAAA
Found at i:19207865 original size:2 final size:2
Alignment explanation
Indices: 19207858--19207908 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
19207848 ATTTTACCTT
19207858 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19207900 TA TA TA TA T
1 TA TA TA TA T
19207909 GAATTCAAGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19209072 original size:17 final size:18
Alignment explanation
Indices: 19209046--19209113 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
19209036 TTTAAAATTC
19209046 TATATCATTTATTTTTTTA
1 TATAT-ATTTATTTTTTTA
* *
19209065 T-TGTATTTATATTTTTA
1 TATATATTTATTTTTTTA
* *
19209082 TATATATTTATTTTATAA
1 TATATATTTATTTTTTTA
19209100 TA-AT-TTTATTTTTT
1 TATATATTTATTTTTT
19209114 CTATTAACCC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
16 9 0.22
17 15 0.37
18 16 0.39
19 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (18 bp):
TATATATTTATTTTTTTA
Found at i:19209093 original size:16 final size:18
Alignment explanation
Indices: 19209069--19209112 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 18
19209059 TTTTTATTGT
19209069 ATTTATATTTTTATATAT-
1 ATTT-TATTTTTATATATA
19209087 A-TTTA-TTTTATA-ATA
1 ATTTTATTTTTATATATA
19209102 ATTTTATTTTT
1 ATTTTATTTTT
19209113 TCTATTAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.09
15 8 0.35
16 6 0.26
17 6 0.26
18 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTATTTTTATATATA
Found at i:19217113 original size:22 final size:22
Alignment explanation
Indices: 19217088--19217132 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19217078 TTACAATGAA
19217088 AGTGGAAAATAGATAAGAATAC
1 AGTGGAAAATAGATAAGAATAC
19217110 AGTGGAAAATAGATAAGAATAC
1 AGTGGAAAATAGATAAGAATAC
19217132 A
1 A
19217133 CAACAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.22, T:0.18
Consensus pattern (22 bp):
AGTGGAAAATAGATAAGAATAC
Found at i:19217140 original size:22 final size:22
Alignment explanation
Indices: 19217093--19217141 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
19217083 ATGAAAGTGG
****
19217093 AAAATAGATAAGAATACAGTGG
1 AAAATAGATAAGAATACACAAC
19217115 AAAATAGATAAGAATACACAAC
1 AAAATAGATAAGAATACACAAC
19217137 AAAAT
1 AAAAT
19217142 CATATGTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (22 bp):
AAAATAGATAAGAATACACAAC
Found at i:19220937 original size:3 final size:3
Alignment explanation
Indices: 19220929--19220958 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
19220919 TTAAAAATAG
19220929 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
19220959 ATGGAACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19222983 original size:20 final size:20
Alignment explanation
Indices: 19222955--19222993 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
19222945 TTGTTTAAAT
19222955 TAAAATATTATT-ATATTTTA
1 TAAAATATT-TTAATATTTTA
*
19222975 TAAATTATTTTAATATTTT
1 TAAAATATTTTAATATTTT
19222994 TTACAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TAAAATATTTTAATATTTTA
Found at i:19231292 original size:18 final size:17
Alignment explanation
Indices: 19231267--19231300 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
19231257 GAATATCAGA
19231267 AAACAAAATAAAGAAAG
1 AAACAAAATAAAGAAAG
19231284 AAACAAAAATAAAGAAA
1 AAAC-AAAATAAAGAAA
19231301 TAAATCACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (17 bp):
AAACAAAATAAAGAAAG
Found at i:19238955 original size:17 final size:16
Alignment explanation
Indices: 19238935--19238968 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19238925 GAATATGAGA
*
19238935 AAATAAAACATATAAAG
1 AAATAAAA-ATAAAAAG
19238952 AAATAAAAATAAAAAG
1 AAATAAAAATAAAAAG
19238968 A
1 A
19238969 CAAATCACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (16 bp):
AAATAAAAATAAAAAG
Found at i:19240104 original size:15 final size:16
Alignment explanation
Indices: 19240086--19240118 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19240076 AATCGAGAAA
19240086 AATA-AAAAGAAAAAC
1 AATACAAAAGAAAAAC
*
19240101 AATACAAGAGAAAAAC
1 AATACAAAAGAAAAAC
19240117 AA
1 AA
19240119 AAAGATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.76, C:0.09, G:0.09, T:0.06
Consensus pattern (16 bp):
AATACAAAAGAAAAAC
Found at i:19240111 original size:28 final size:28
Alignment explanation
Indices: 19240080--19240145 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
19240070 ATATAAAATC
19240080 GAGAAAAATAAAAAGA-AAAACAATACAA
1 GAGAAAAATAAAAAGATAAAACAATA-AA
* * * *
19240108 GAGAAAAACAAAAAGATTAAAGATTAAA
1 GAGAAAAATAAAAAGATAAAACAATAAA
19240136 GAGAAAAATA
1 GAGAAAAATA
19240146 GAATATATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 26 0.81
29 6 0.19
ACGTcount: A:0.71, C:0.05, G:0.14, T:0.11
Consensus pattern (28 bp):
GAGAAAAATAAAAAGATAAAACAATAAA
Found at i:19240457 original size:24 final size:26
Alignment explanation
Indices: 19240410--19240457 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
19240400 TTAATTTTCT
* *
19240410 TATTTTTTATTAAAATGATCTAATAA
1 TATTTTTTATAAAAATAATCTAATAA
19240436 TATTTTTT-TAAAAATAAT-TAAT
1 TATTTTTTATAAAAATAATCTAAT
19240458 CTAATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 8 0.40
26 8 0.40
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTTTTTATAAAAATAATCTAATAA
Found at i:19242188 original size:25 final size:24
Alignment explanation
Indices: 19242142--19242188 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
19242132 ATAATTTTTT
** *
19242142 ATTTTTATATATTATTTTAATAAG
1 ATTTTTATATATTAAATAAATAAG
19242166 ATTTTTAATATATTAAATAAATA
1 ATTTTT-ATATATTAAATAAATA
19242189 TATATAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTTTATATATTAAATAAATAAG
Done.