Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 7 of 106
Found at i:992299 original size:44 final size:46
Alignment explanation
Indices: 992217--992313 Score: 121
Period size: 43 Copynumber: 2.2 Consensus size: 46
992207 TTTATATTAG
* * *
992217 TATTTTA-AAATATTTAAAATAGTATTACTATTCTTAAAATA-TTA
1 TATTTTATTAATATTTAAAATAGTAATACTATTATTAAAATATTTA
*
992261 T-TTTTATTAATA-TTAAAATAGTAATATTTATTATTAAAATATTTA
1 TATTTTATTAATATTTAAAATAGTAATA-CTATTATTAAAATATTTA
992306 TATTTTAT
1 TATTTTAT
992314 ATTGAAAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 18 0.40
44 17 0.38
45 4 0.09
46 6 0.13
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (46 bp):
TATTTTATTAATATTTAAAATAGTAATACTATTATTAAAATATTTA
Found at i:992316 original size:21 final size:20
Alignment explanation
Indices: 992265--992316 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
992255 ATATTATTTT
*
992265 TATTAATATTAAAATAGTAA
1 TATTTATATTAAAATAGTAA
* *
992285 TATTTATTATTAAAATATTTA
1 TATTTA-TATTAAAATAGTAA
992306 TATTTTATATT
1 TA-TTTATATT
992317 GAAAGTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 18 0.67
22 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TATTTATATTAAAATAGTAA
Found at i:992524 original size:42 final size:44
Alignment explanation
Indices: 992468--992571 Score: 117
Period size: 42 Copynumber: 2.4 Consensus size: 44
992458 TTTTAAGAAA
*
992468 ATAATATTACTATATTATTTAACATTAATTATTAAAATAATAA-
1 ATAATATTATTATATTATTTAACATTAATTATTAAAATAATAAT
** * *
992511 A-AATATTATTATA-TATGTTATTATTTATTATTAAAATGATAAT
1 ATAATATTATTATATTAT-TTAACATTAATTATTAAAATAATAAT
*
992554 ATAATACTATT-TATTATT
1 ATAATATTATTATATTATT
992572 GAAATATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
41 3 0.06
42 32 0.63
43 5 0.10
44 11 0.22
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (44 bp):
ATAATATTATTATATTATTTAACATTAATTATTAAAATAATAAT
Found at i:996428 original size:3 final size:3
Alignment explanation
Indices: 996420--996460 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
996410 CTTCACATAT
996420 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
996461 TTTAAAAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1000674 original size:12 final size:12
Alignment explanation
Indices: 1000647--1000712 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
1000637 ATTAAAAATG
1000647 ATTTAAT-AAAA
1 ATTTAATAAAAA
*
1000658 TTTTAATAAAAA
1 ATTTAATAAAAA
*
1000670 ATTTAATAAATTA
1 ATTTAATAAA-AA
1000683 A-TTAAT--AAA
1 ATTTAATAAAAA
*
1000692 ATTTAGTGAAAAA
1 ATTTAAT-AAAAA
1000705 A-TTAATAA
1 ATTTAATAA
1000713 TATATAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
9 2 0.05
10 5 0.12
11 8 0.19
12 22 0.51
13 6 0.14
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
ATTTAATAAAAA
Found at i:1000677 original size:23 final size:23
Alignment explanation
Indices: 1000647--1000692 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
1000637 ATTAAAAATG
1000647 ATTTAATAAAATT-TTAATAAAAA
1 ATTTAAT-AAATTATTAATAAAAA
1000670 ATTTAATAAATTAATTAATAAAA
1 ATTTAATAAATT-ATTAATAAAA
1000693 TTTAGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 7 0.33
24 9 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATTTAATAAATTATTAATAAAAA
Found at i:1003672 original size:24 final size:24
Alignment explanation
Indices: 1003621--1003675 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1003611 TTTATTAAAT
* *
1003621 AATTAATTAATAAAATTATAATAT
1 AATTAAATAATAAAATTATAATAC
*
1003645 AATTAAATAATTAAATTA-ACATAC
1 AATTAAATAATAAAATTATA-ATAC
1003669 AATTAAA
1 AATTAAA
1003676 CTTAAACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTAAATAATAAAATTATAATAC
Found at i:1003965 original size:13 final size:13
Alignment explanation
Indices: 1003949--1003973 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1003939 TACAACATAA
1003949 AATTAAAATATAT
1 AATTAAAATATAT
1003962 AATTAAAATATA
1 AATTAAAATATA
1003974 ATATAGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAATATAT
Found at i:1006071 original size:12 final size:13
Alignment explanation
Indices: 1006045--1006070 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1006035 CATATTTTCC
1006045 TCATTTTTTCTTT
1 TCATTTTTTCTTT
1006058 TCATTTTTTCTTT
1 TCATTTTTTCTTT
1006071 CCCTTTGATC
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:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (13 bp):
TCATTTTTTCTTT
Found at i:1006367 original size:15 final size:13
Alignment explanation
Indices: 1006322--1006377 Score: 58
Period size: 15 Copynumber: 4.0 Consensus size: 13
1006312 GCCCCATCAA
1006322 TTTCTTTCTTTTT
1 TTTCTTTCTTTTT
*
1006335 TAATTTTTTCTTTTT
1 T--TTCTTTCTTTTT
*
1006350 TTCCTTTCTTTTT
1 TTTCTTTCTTTTT
1006363 GTTTCTTTACTTTTT
1 -TTTCTTT-CTTTTT
1006378 CTTTGTTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 11 0.31
14 6 0.17
15 18 0.51
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTCTTTCTTTTT
Found at i:1006375 original size:19 final size:18
Alignment explanation
Indices: 1006338--1006399 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
1006328 TCTTTTTTAA
* * *
1006338 TTTTTTCTTTTTTTCCTT
1 TTTTTTGTTTCTTTACTT
1006356 TCTTTTTGTTTCTTTACTT
1 T-TTTTTGTTTCTTTACTT
*
1006375 TTTCTTTGTTT-TGTTTCTT
1 TTT-TTTGTTTCT-TTACTT
1006394 TTTTTT
1 TTTTTT
1006400 AATTTGCACT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 7 0.19
19 30 0.81
ACGTcount: A:0.02, C:0.13, G:0.05, T:0.81
Consensus pattern (18 bp):
TTTTTTGTTTCTTTACTT
Found at i:1006393 original size:13 final size:12
Alignment explanation
Indices: 1006341--1006398 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
1006331 TTTTTAATTT
*
1006341 TTTCTTTTTTTCC
1 TTTCTTTTTTT-G
1006354 TTTC--TTTTTG
1 TTTCTTTTTTTG
**
1006364 TTTCTTTACTT-
1 TTTCTTTTTTTG
1006375 TTTCTTTGTTTTG
1 TTTCTTT-TTTTG
1006388 TTTCTTTTTTT
1 TTTCTTTTTTT
1006399 TAATTTGCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
10 4 0.11
11 12 0.33
12 9 0.25
13 11 0.31
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTTTG
Found at i:1006496 original size:91 final size:89
Alignment explanation
Indices: 1006383--1006662 Score: 304
Period size: 91 Copynumber: 3.1 Consensus size: 89
1006373 TTTTTCTTTG
* *
1006383 TTTTGTTTCTTTTTTTTAATTTGCACTTTTTTCAAGAAAGATCTAAGCATAAAAAGGCTTTGTAC
1 TTTT-TTTTTTTTTTTTAATTTGCACTTTTTTCAAGAAAGATCTAAGCATAAAAAGGCTTTG-CC
*
1006448 TTGAAATCATTAAAGACCTTCACTTC
64 TTAAAATCATTAAAGACCTTCACTTC
* * ** * *
1006474 TTTTTTTTTTTTATTTTAATTTGCACATTTCTT-AAGAAAAATCTAAGCACGAAAGGGCTTTACC
1 TTTTTTTTTTTT-TTTTAATTTGCAC-TTTTTTCAAGAAAGATCTAAGCATAAAAAGGCTTT-GC
* *
1006538 CCTAAAATCATTAAGGA-CTT---TTAC
63 CTTAAAATCATTAAAGACCTTCACTT-C
* *
1006562 ATTTTTTTTTTTTTTAAATTTGCAC-TTTTTCTAAGAAAGATCTAAGCATAAAAAGGCTTTGCCT
1 TTTTTTTTTTTTTTTTAATTTGCACTTTTTTC-AAGAAAGATCTAAGCATAAAAAGGCTTTGCC-
* *
1006626 TTAAAATCACTAAAGACCTCCACTT-
64 TTAAAATCATTAAAGACCTTCACTTC
1006651 TTTTTTTTTTTT
1 TTTTTTTTTTTT
1006663 ATGGATAAGC
Statistics
Matches: 154, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
85 4 0.03
86 2 0.01
87 51 0.33
88 14 0.09
89 11 0.07
90 10 0.06
91 57 0.37
92 5 0.03
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (89 bp):
TTTTTTTTTTTTTTTTAATTTGCACTTTTTTCAAGAAAGATCTAAGCATAAAAAGGCTTTGCCTT
AAAATCATTAAAGACCTTCACTTC
Found at i:1009368 original size:30 final size:30
Alignment explanation
Indices: 1009332--1009393 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
1009322 GCTATCATTG
1009332 AACCTTAAATACCTTATATTAGAATTAGTA
1 AACCTTAAATACCTTATATTAGAATTAGTA
*
1009362 AACCTTAAATACCTTATCTTAGAATTAGTA
1 AACCTTAAATACCTTATATTAGAATTAGTA
1009392 AA
1 AA
1009394 GTTATATGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (30 bp):
AACCTTAAATACCTTATATTAGAATTAGTA
Found at i:1012729 original size:43 final size:43
Alignment explanation
Indices: 1012622--1012735 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
1012612 ATTTCAAGAA
* * *
1012622 AAAATTGATATTTTAACTATTTCCTTTAAAATATTTAAATAAG
1 AAAATTGATATTTCAACTTTTTCCTTAAAAATATTTAAATAAG
* *
1012665 AAAATTAATATTTCAACTTTTTCCTTAAAAATATTTAAATAGG
1 AAAATTGATATTTCAACTTTTTCCTTAAAAATATTTAAATAAG
* *
1012708 AAAATTGATATTTCAATTTTTTCTTTAA
1 AAAATTGATATTTCAACTTTTTCCTTAA
1012736 TTTTTGAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (43 bp):
AAAATTGATATTTCAACTTTTTCCTTAAAAATATTTAAATAAG
Found at i:1019992 original size:22 final size:23
Alignment explanation
Indices: 1019952--1019994 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1019942 TTATTATTAT
*
1019952 TAATAACAATTAAATATTTATCC
1 TAATAACAATTAAACATTTATCC
*
1019975 TAATAA-ATTTAAACATTTAT
1 TAATAACAATTAAACATTTAT
1019995 GCATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATAACAATTAAACATTTATCC
Found at i:1020154 original size:11 final size:11
Alignment explanation
Indices: 1020138--1020167 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1020128 CGGTTTGATT
1020138 CGGTCTGGGAG
1 CGGTCTGGGAG
1020149 CGGTCTGGGAG
1 CGGTCTGGGAG
1020160 CGGTCTGG
1 CGGTCTGG
1020168 TTGGTTCAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.07, C:0.20, G:0.53, T:0.20
Consensus pattern (11 bp):
CGGTCTGGGAG
Found at i:1021098 original size:13 final size:12
Alignment explanation
Indices: 1021053--1021129 Score: 59
Period size: 12 Copynumber: 6.2 Consensus size: 12
1021043 TTCTGTTCTC
*
1021053 TTTTTTTTGGTA
1 TTTTTTTTTGTA
*
1021065 TTTTTTATTT-TT
1 TTTTTT-TTTGTA
1021077 TATTTTTTTTGT-
1 T-TTTTTTTTGTA
*
1021089 TTTGTATTTTGTA
1 TTT-TTTTTTGTA
* *
1021102 TTATTTTTGGTA
1 TTTTTTTTTGTA
1021114 TTTTTTTTTTGTA
1 -TTTTTTTTTGTA
1021127 TTT
1 TTT
1021130 CATATTTTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
11 2 0.04
12 29 0.57
13 20 0.39
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTGTA
Found at i:1024373 original size:21 final size:21
Alignment explanation
Indices: 1024340--1024385 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1024330 CACAACAAAA
* *
1024340 GAAGTTTGGGCTAAAAACCAT
1 GAAGTCTGAGCTAAAAACCAT
* *
1024361 GAAGTCTGAGCTAGAAATCAT
1 GAAGTCTGAGCTAAAAACCAT
1024382 GAAG
1 GAAG
1024386 GAAGAAAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (21 bp):
GAAGTCTGAGCTAAAAACCAT
Found at i:1025001 original size:7 final size:7
Alignment explanation
Indices: 1024991--1025023 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
1024981 GGTTTAGGGT
1024991 TTTAGGA
1 TTTAGGA
1024998 TTTAGGA
1 TTTAGGA
1025005 TTTAGGA
1 TTTAGGA
1025012 TTTA-GA
1 TTTAGGA
1025018 TTTAGG
1 TTTAGG
1025024 GTTTTAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (7 bp):
TTTAGGA
Found at i:1025116 original size:29 final size:28
Alignment explanation
Indices: 1025083--1025146 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
1025073 TTGAAGTTAT
*
1025083 GGTTTGGATTTAGGGATTAGGGAATTTAG
1 GGTTTGGATTTAGGAATTAGGG-ATTTAG
* *
1025112 GGTTTAGGATTTAGGAATTTGGGGTTTAG
1 GGTTT-GGATTTAGGAATTAGGGATTTAG
1025141 GGTTTG
1 GGTTTG
1025147 ATGGAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 15 0.48
30 15 0.48
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (28 bp):
GGTTTGGATTTAGGAATTAGGGATTTAG
Found at i:1025125 original size:14 final size:14
Alignment explanation
Indices: 1024983--1025145 Score: 79
Period size: 14 Copynumber: 11.7 Consensus size: 14
1024973 CAAGTTAAGG
1024983 TTTAGGGTTTTAGGA
1 TTTAGGG-TTTAGGA
*
1024998 TTTAGGATTTAGGA
1 TTTAGGGTTTAGGA
* *
1025012 TTTA-GATTTAGGGT
1 TTTAGGGTTTA-GGA
*
1025026 TTTA-AGTTTAAGGA
1 TTTAGGGTTT-AGGA
**
1025040 -TTA-GGTTTACCA
1 TTTAGGGTTTAGGA
* *
1025052 -TTAGGGTTTTGGG
1 TTTAGGGTTTAGGA
* *
1025065 TTTAAGGTTT-GAA
1 TTTAGGGTTTAGGA
* *
1025078 GTTATGGTTT-GGA
1 TTTAGGGTTTAGGA
*
1025091 TTTAGGGATTAGGGAA
1 TTTAGGGTTTA-GG-A
1025107 TTTAGGGTTTAGGA
1 TTTAGGGTTTAGGA
* * *
1025121 TTTAGGAATTTGGGG
1 TTTAGG-GTTTAGGA
1025136 TTTAGGGTTT
1 TTTAGGGTTT
1025146 GATGGAAAAT
Statistics
Matches: 114, Mismatches: 26, Indels: 17
0.73 0.17 0.11
Matches are distributed among these distances:
12 5 0.04
13 36 0.32
14 40 0.35
15 22 0.19
16 11 0.10
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTAGGA
Found at i:1025143 original size:7 final size:7
Alignment explanation
Indices: 1024981--1025145 Score: 56
Period size: 7 Copynumber: 23.7 Consensus size: 7
1024971 TCCAAGTTAA
1024981 GGTTTAG
1 GGTTTAG
1024988 GGTTTTAG
1 GG-TTTAG
*
1024996 GATTTAG
1 GGTTTAG
*
1025003 GATTTAG
1 GGTTTAG
*
1025010 GATTTA-
1 GGTTTAG
*
1025016 GATTTAG
1 GGTTTAG
1025023 GGTTTTA-
1 GG-TTTAG
* *
1025030 AGTTTAA
1 GGTTTAG
*
1025037 GGATTA-
1 GGTTTAG
1025043 GGTTTA-
1 GGTTTAG
***
1025049 CCATTAG
1 GGTTTAG
*
1025056 GGTTTTG
1 GGTTTAG
*
1025063 GGTTTAA
1 GGTTTAG
1025070 GGTTT-G
1 GGTTTAG
* *
1025076 AAG-TTAT
1 -GGTTTAG
1025083 GGTTT-G
1 GGTTTAG
*
1025089 GATTTAG
1 GGTTTAG
*
1025096 GGATTAG
1 GGTTTAG
1025103 GGAATTTAG
1 GG--TTTAG
1025112 GGTTTAG
1 GGTTTAG
*
1025119 GATTTAG
1 GGTTTAG
* *
1025126 GAATTTGG
1 G-GTTTAG
1025134 GGTTTAG
1 GGTTTAG
1025141 GGTTT
1 GGTTT
1025146 GATGGAAAAT
Statistics
Matches: 118, Mismatches: 28, Indels: 24
0.69 0.16 0.14
Matches are distributed among these distances:
6 25 0.21
7 71 0.60
8 16 0.14
9 6 0.05
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:1027914 original size:12 final size:11
Alignment explanation
Indices: 1027893--1027942 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
1027883 ATTTATTTAT
1027893 TTAAA-AAAAA
1 TTAAATAAAAA
1027903 GTTAAACTAAAAA
1 -TTAAA-TAAAAA
*
1027916 TTAAAT-CAAA
1 TTAAATAAAAA
1027926 TTAAATTAAAAA
1 TTAAA-TAAAAA
1027938 TTAAA
1 TTAAA
1027943 AATTTCTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 8 0.24
11 7 0.21
12 13 0.39
13 5 0.15
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (11 bp):
TTAAATAAAAA
Found at i:1028156 original size:22 final size:22
Alignment explanation
Indices: 1028131--1028176 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1028121 ACAAATTAAA
*
1028131 AATTTGAAATCCAA-AGATTCAC
1 AATTGGAAATCCAAGAG-TTCAC
*
1028153 AATTGGAAATTCAAGAGTTCAC
1 AATTGGAAATCCAAGAGTTCAC
1028175 AA
1 AA
1028177 AATGTCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (22 bp):
AATTGGAAATCCAAGAGTTCAC
Found at i:1028284 original size:18 final size:17
Alignment explanation
Indices: 1028250--1028314 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
1028240 AAAAATTTGC
1028250 AAAGATTT-AAGATTCAT
1 AAAGATTTCAA-ATTCAT
1028267 AAAGATTTTCAAATTCAT
1 AAAGA-TTTCAAATTCAT
* *
1028285 -AAGAATTCCAATTTTCAT
1 AAAG-ATTTCAA-ATTCAT
1028303 AAAGATTTCAAA
1 AAAGATTTCAAA
1028315 AGTTTGTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
17 13 0.33
18 21 0.54
19 5 0.13
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (17 bp):
AAAGATTTCAAATTCAT
Found at i:1028570 original size:45 final size:45
Alignment explanation
Indices: 1028520--1028660 Score: 120
Period size: 45 Copynumber: 3.1 Consensus size: 45
1028510 TTTAGATTTG
*
1028520 CAAGAATTGGAAGATTTATAAAAATTCATAAAAATTTTAGGTTCA
1 CAAGAATTGGAAGATTTATAAAAATTCATAAGAATTTTAGGTTCA
* * ** * * * * * * **
1028565 TAAGAAATCAAATATTTGTAAGAAGTCATAAGAGTTTCAAATTCA
1 CAAGAATTGGAAGATTTATAAAAATTCATAAGAATTTTAGGTTCA
* * * **
1028610 CAAGAATTGGAAGATTCACAAAATTTTGTAAGAATTTTAGGTTCA
1 CAAGAATTGGAAGATTTATAAAAATTCATAAGAATTTTAGGTTCA
1028655 CAAGAA
1 CAAGAA
1028661 ATCAAAAATT
Statistics
Matches: 66, Mismatches: 30, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (45 bp):
CAAGAATTGGAAGATTTATAAAAATTCATAAGAATTTTAGGTTCA
Found at i:1028595 original size:90 final size:90
Alignment explanation
Indices: 1028462--1028666 Score: 241
Period size: 90 Copynumber: 2.3 Consensus size: 90
1028452 GGTTTGCTTG
* * *** * * **
1028462 AATTTCAGGTTCACAA-AAACTCAAAGATTCACAAGAAGTCATAAAAGTTTTAGATTTGCAAGAA
1 AATTTTAGGTTCACAAGAAA-TCAAATATTTGTAAGAAGTCATAAAAGTTTCAAATTCACAAGAA
* *
1028526 TTGGAAGATTTATAAAAATTCATAAA
65 TTGGAAGATTCACAAAAATTCATAAA
* *
1028552 AATTTTAGGTTCATAAGAAATCAAATATTTGTAAGAAGTCATAAGAGTTTCAAATTCACAAGAAT
1 AATTTTAGGTTCACAAGAAATCAAATATTTGTAAGAAGTCATAAAAGTTTCAAATTCACAAGAAT
* ** *
1028617 TGGAAGATTCACAAAATTTTGTAAG
66 TGGAAGATTCACAAAAATTCATAAA
1028642 AATTTTAGGTTCACAAGAAATCAAA
1 AATTTTAGGTTCACAAGAAATCAAA
1028667 AATTCATAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
90 93 0.97
91 3 0.03
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.30
Consensus pattern (90 bp):
AATTTTAGGTTCACAAGAAATCAAATATTTGTAAGAAGTCATAAAAGTTTCAAATTCACAAGAAT
TGGAAGATTCACAAAAATTCATAAA
Found at i:1028729 original size:17 final size:17
Alignment explanation
Indices: 1028707--1028749 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1028697 TTCAGATGGA
1028707 AGATTCATAAAAACTTT
1 AGATTCATAAAAACTTT
** *
1028724 AGATTCGCAAGAACTTT
1 AGATTCATAAAAACTTT
1028741 AGATTCATA
1 AGATTCATA
1028750 TGAGTTTCAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.33
Consensus pattern (17 bp):
AGATTCATAAAAACTTT
Found at i:1029124 original size:45 final size:45
Alignment explanation
Indices: 1029005--1029127 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 45
1028995 CTCATTTGAG
* **
1029005 AAATTTTGGGATTCACATCCAGAATTTCAAAGATTTTCATTCGAAA
1 AAATTTTGAGATTCACATCCA-AATTTCAAAGATTCACATTCGAAA
** * * *
1029051 ATTTTTTGAGTTTCATATCTAACATTTCAAAGATTCACATTC-AAA
1 AAATTTTGAGATTCACATCCAA-ATTTCAAAGATTCACATTCGAAA
1029096 AAATTTTGAGATTCACATCCAAAGTTTCAAAG
1 AAATTTTGAGATTCACATCCAAA-TTTCAAAG
1029128 GTTCTTTTTC
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
44 1 0.02
45 29 0.47
46 32 0.52
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (45 bp):
AAATTTTGAGATTCACATCCAAATTTCAAAGATTCACATTCGAAA
Found at i:1029188 original size:91 final size:90
Alignment explanation
Indices: 1029005--1029234 Score: 216
Period size: 91 Copynumber: 2.5 Consensus size: 90
1028995 CTCATTTGAG
* * * *
1029005 AAATTTTGGGATTCACATCCAGAATTTCAAAGATTTTCATTCGAAAATTTTTTGAGTTTCATATC
1 AAATTTTGAGATTCACATCCA-AATTTCAAAGATTTTCATTCGAAAACTTTATGAGTTTCATATA
* *
1029070 TAACATTTCAAAGATTCACATTCAAA
65 AAAAATTTCAAAGATTCACATTCAAA
* *
1029096 AAATTTTGAGATTCACATCCAAAGTTTCAAAGGTTCTT-TTTCGAAAACTTTAT-AGCTTT-ATA
1 AAATTTTGAGATTCACATCCAAA-TTTCAAAGATT-TTCATTCGAAAACTTTATGAG-TTTCATA
**
1029158 TAAAAAATTT-AAAGATTCTTATTCAAAA
63 TAAAAAATTTCAAAGATTCACATTC-AAA
* ** * * *
1029186 AAATTTTTGGAGTTTTGCATCCAAAATTTCAAAGAGTCTCATTCAAAAA
1 AAA-TTTT-GAGATTCACATCC-AAATTTCAAAGATTTTCATTCGAAAA
1029235 GCTCATTTAA
Statistics
Matches: 113, Mismatches: 18, Indels: 15
0.77 0.12 0.10
Matches are distributed among these distances:
89 12 0.11
90 20 0.18
91 50 0.44
92 28 0.25
93 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (90 bp):
AAATTTTGAGATTCACATCCAAATTTCAAAGATTTTCATTCGAAAACTTTATGAGTTTCATATAA
AAAATTTCAAAGATTCACATTCAAA
Found at i:1033037 original size:16 final size:16
Alignment explanation
Indices: 1032999--1033043 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1032989 ATGCATGAGA
*
1032999 ATAAATGCAAGAATGC
1 ATAAATGCAACAATGC
**
1033015 AGGAATGCAACAATGC
1 ATAAATGCAACAATGC
1033031 ATAAATGCAACAA
1 ATAAATGCAACAA
1033044 GGAGAATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.16
Consensus pattern (16 bp):
ATAAATGCAACAATGC
Found at i:1036245 original size:15 final size:16
Alignment explanation
Indices: 1036227--1036256 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1036217 TTTTTCATTC
1036227 TTTTA-ATTTTTTTTT
1 TTTTACATTTTTTTTT
1036242 TTTTACATTTTTTTT
1 TTTTACATTTTTTTT
1036257 GACTTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTACATTTTTTTTT
Found at i:1043854 original size:16 final size:17
Alignment explanation
Indices: 1043835--1043874 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
1043825 ATTTAAATAC
1043835 TTAATAAATAA-TTTAT
1 TTAATAAATAATTTTAT
1043851 TTAAT--ATAATTTTAT
1 TTAATAAATAATTTTAT
*
1043866 TTTATAAAT
1 TTAATAAAT
1043875 TATCAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
14 4 0.20
15 9 0.45
16 5 0.25
17 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATAAATAATTTTAT
Found at i:1045591 original size:24 final size:25
Alignment explanation
Indices: 1045554--1045607 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
1045544 AAACTATCCA
*
1045554 TTTAACTCTGAAGATTTGTTTAAGT
1 TTTAACTCCGAAGATTTGTTTAAGT
1045579 TTTAA-TCCGAAGATTTGTTTAAGT
1 TTTAACTCCGAAGATTTGTTTAAGT
1045603 TTTAA
1 TTTAA
1045608 GAGAATTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (25 bp):
TTTAACTCCGAAGATTTGTTTAAGT
Found at i:1049939 original size:7 final size:7
Alignment explanation
Indices: 1049929--1049970 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
1049919 TTTCTTTTTC
1049929 TTTATTT
1 TTTATTT
1049936 TTTATTT
1 TTTATTT
1049943 TTTATTT
1 TTTATTT
1049950 TTTGA-TT
1 TTT-ATTT
*
1049957 TTGATTT
1 TTTATTT
1049964 TTTATTT
1 TTTATTT
1049971 AAAGCCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 1 0.03
7 29 0.94
8 1 0.03
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (7 bp):
TTTATTT
Found at i:1050345 original size:15 final size:15
Alignment explanation
Indices: 1050311--1050347 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
1050301 ACTTAATGAC
*
1050311 TTTTTTTAAAAATAA
1 TTTTTTAAAAAATAA
1050326 -TTTTTAAAAAATAA
1 TTTTTTAAAAAATAA
1050340 TTTTTTAA
1 TTTTTTAA
1050348 TCCTACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTTTTAAAAAATAA
Found at i:1050796 original size:3 final size:3
Alignment explanation
Indices: 1050788--1050829 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1050778 TAGTATAATA
1050788 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1050830 CTTTTATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1051731 original size:19 final size:19
Alignment explanation
Indices: 1051704--1051752 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
1051694 GATCCCAAGT
*
1051704 TTTTCTTTTTTTTTTTTCA
1 TTTTATTTTTTTTTTTTCA
* *
1051723 TTTTATTTTTATTTTTTGA
1 TTTTATTTTTTTTTTTTCA
1051742 TTTTATTTTTT
1 TTTTATTTTTT
1051753 GAGTTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.10, C:0.04, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTATTTTTTTTTTTTCA
Found at i:1051744 original size:14 final size:14
Alignment explanation
Indices: 1051723--1051765 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
1051713 TTTTTTTTCA
1051723 TTTT-ATTTTTATT
1 TTTTGATTTTTATT
1051736 TTTTGA-TTTTATT
1 TTTTGATTTTTATT
1051749 TTTTGAGTTTTTATT
1 TTTTGA-TTTTTATT
1051764 TT
1 TT
1051766 ATTTGAGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 17 0.63
14 1 0.04
15 9 0.33
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTGATTTTTATT
Found at i:1051772 original size:17 final size:17
Alignment explanation
Indices: 1051742--1051786 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
1051732 TATTTTTTGA
*
1051742 TTTTA-TTT-TTTGAGT
1 TTTTATTTTATTTGAGC
1051757 TTTTATTTTATTTGAGC
1 TTTTATTTTATTTGAGC
*
1051774 TTTTATGTTATTT
1 TTTTATTTTATTT
1051787 TATATTACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 5 0.19
16 3 0.12
17 18 0.69
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.71
Consensus pattern (17 bp):
TTTTATTTTATTTGAGC
Found at i:1052717 original size:16 final size:17
Alignment explanation
Indices: 1052696--1052727 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1052686 AAATTTAAGA
1052696 CTATTT-TTTCTTTTTC
1 CTATTTATTTCTTTTTC
1052712 CTATTTATTTCTTTTT
1 CTATTTATTTCTTTTT
1052728 AATATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (17 bp):
CTATTTATTTCTTTTTC
Found at i:1064719 original size:24 final size:25
Alignment explanation
Indices: 1064671--1064741 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 25
1064661 TAAGTTTTCC
*
1064671 TTTTTTCAGTTTATTTTTATTTTTTGA
1 TTTTTT-AGTTTA-TTTTATATTTTGA
1064698 TTTTTTA-TTTATTTTATATTTTGA
1 TTTTTTAGTTTATTTTATATTTTGA
* *
1064722 GTTTTTATTTTATTTTATAT
1 TTTTTTAGTTTATTTTATAT
1064742 ATTGGTCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.44
25 16 0.39
26 1 0.02
27 6 0.15
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (25 bp):
TTTTTTAGTTTATTTTATATTTTGA
Found at i:1064752 original size:24 final size:25
Alignment explanation
Indices: 1064701--1064754 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
1064691 TTTTTGATTT
* *
1064701 TTTA-TTTATTTTATATTTTGAGTT
1 TTTATTTTATTTTATATATTGAGTC
1064725 TTTATTTTATTTTATATATTG-GTC
1 TTTATTTTATTTTATATATTGAGTC
1064749 TTTATT
1 TTTATT
1064755 ATTTATTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.70
Consensus pattern (25 bp):
TTTATTTTATTTTATATATTGAGTC
Found at i:1067247 original size:5 final size:5
Alignment explanation
Indices: 1067239--1067266 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1067229 CTTTTTCTTT
1067239 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
1 TTTGA TTTGA TTTGA TTTGA TTTGA TTT
1067267 TCATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTGA
Found at i:1067850 original size:17 final size:16
Alignment explanation
Indices: 1067828--1067859 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1067818 TTTATTTAAA
1067828 TAATAATAATAAATAAT
1 TAATAATAA-AAATAAT
1067845 TAATAATAAAAATAA
1 TAATAATAAAAATAA
1067860 AAGTGTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATAATAAAAATAAT
Found at i:1067995 original size:145 final size:149
Alignment explanation
Indices: 1067693--1067999 Score: 373
Period size: 145 Copynumber: 2.1 Consensus size: 149
1067683 TTTGTTTCAA
* *
1067693 TAAAA-AATAAAAAACAAAAGTGTTTGTTTAAATAAATCTTTTAATTATTAAAAATAAAAAATAA
1 TAAAATAAT-AAAAACAAAAGTGTTTCTTTAAATAAATCTCTTAATTATT---AATAAAAAATAA
* *
1067757 TATTTTTGGATTTCACTAAAGAATTGAGATAATCCAAAAAGTTATTCTCACTAAATAAATATTTA
62 TATTTTTGGATTTCACCAAAGAATTGAGATAATCCAAAAAGTTATTCTCACTAAATAAAGATTTA
*
1067822 TTTAAATAATAATAATAAATAAT
127 TTTAAATAATAAGAATAAATAAT
* * **
1067845 T--AATAATAAAAATAAAAGTGTTTCTTTAAATGAATCTCTTAATTATT-ATCTAAAAT-ATATT
1 TAAAATAATAAAAACAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTAATAAAAAATAATATT
* * *
1067906 TTTGGATTTCACCAAAGAGTT-AGGATAATCCAAAAA-TTATTTTTACTAAATAAAGA-TTATTT
66 TTTGGATTTCACCAAAGAATTGA-GATAATCCAAAAAGTTATTCTCACTAAATAAAGATTTATTT
1067968 AAATAATAAGGAA-AAA-AGAT
130 AAATAATAA-GAATAAATA-AT
1067988 TAAAATAATAAA
1 TAAAATAATAAA
1068000 TAGAAAATAA
Statistics
Matches: 137, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
142 1 0.01
143 21 0.15
144 20 0.15
145 46 0.34
146 7 0.05
150 38 0.28
151 3 0.02
152 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.36
Consensus pattern (149 bp):
TAAAATAATAAAAACAAAAGTGTTTCTTTAAATAAATCTCTTAATTATTAATAAAAAATAATATT
TTTGGATTTCACCAAAGAATTGAGATAATCCAAAAAGTTATTCTCACTAAATAAAGATTTATTTA
AATAATAAGAATAAATAAT
Found at i:1068412 original size:3 final size:3
Alignment explanation
Indices: 1068404--1068436 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1068394 TATAGAATAC
*
1068404 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1068437 TTCACAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1076277 original size:108 final size:108
Alignment explanation
Indices: 1076088--1076295 Score: 301
Period size: 108 Copynumber: 1.9 Consensus size: 108
1076078 ACTAAGAACC
* * * *
1076088 ATTACAATGTTTGAAATGGGGAAACTTTTTCCTAGTACATGAGATCTACCCTTCCCTGTAGCACA
1 ATTACAATATTTGAAATGGGGAAACTTTTTCCTAGTACATAAAATCTACCCTCCCCTGTAGCACA
* *
1076153 TCTATCCAATCATGGCCTTATACATTGGTGGCTCAAAAAAACT
66 TCTATCCAATCATGGCCCTATACATAGGTGGCTCAAAAAAACT
* * * *
1076196 ATTACAATATTTGAAATGGGGACACTTTTTCCTAGTACATAAAATCTACCCTCCCCTTTGGCACC
1 ATTACAATATTTGAAATGGGGAAACTTTTTCCTAGTACATAAAATCTACCCTCCCCTGTAGCACA
*
1076261 TTTA-CTCAATCATGGCCCTATACATAGGTGGCTCA
66 TCTATC-CAATCATGGCCCTATACATAGGTGGCTCA
1076296 TAACAACCTA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 1 0.01
108 87 0.99
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (108 bp):
ATTACAATATTTGAAATGGGGAAACTTTTTCCTAGTACATAAAATCTACCCTCCCCTGTAGCACA
TCTATCCAATCATGGCCCTATACATAGGTGGCTCAAAAAAACT
Found at i:1081879 original size:16 final size:16
Alignment explanation
Indices: 1081824--1081883 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
1081814 AGGTTCCAAG
*
1081824 TTCAGATCAATTCGAA
1 TTCAGATCAATTCAAA
* ***
1081840 TTCA-ATTAATTTTGA
1 TTCAGATCAATTCAAA
* *
1081855 TTTAAATCAATTCAAA
1 TTCAGATCAATTCAAA
1081871 TTCAGATCAATTC
1 TTCAGATCAATTC
1081884 GAGTACAAAA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
15 10 0.31
16 22 0.69
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (16 bp):
TTCAGATCAATTCAAA
Found at i:1089484 original size:18 final size:18
Alignment explanation
Indices: 1089461--1089495 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1089451 AAATTTTACA
1089461 AATTTTTTTTAAAATTTT
1 AATTTTTTTTAAAATTTT
*
1089479 AATTTTTTTTATAATTT
1 AATTTTTTTTAAAATTT
1089496 GTCCCCACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTTTTTTTAAAATTTT
Found at i:1097513 original size:11 final size:11
Alignment explanation
Indices: 1097497--1097534 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
1097487 ATCAATGTGC
1097497 TTTGTTAGAGA
1 TTTGTTAGAGA
1097508 TTTGTTAGAGA
1 TTTGTTAGAGA
* *
1097519 TTCGTTTGAGA
1 TTTGTTAGAGA
1097530 TTTGT
1 TTTGT
1097535 CAGATATTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.50
Consensus pattern (11 bp):
TTTGTTAGAGA
Found at i:1097652 original size:52 final size:52
Alignment explanation
Indices: 1097559--1097714 Score: 190
Period size: 51 Copynumber: 3.0 Consensus size: 52
1097549 TGAACAAGAA
* * * *
1097559 GACTTGCAAAAGAAGAATTCCAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAA-AGGATTTTTAATAGGCAAGTTT
* *
1097611 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGAATTTTTAATAGGCAA-TTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTTTTAATAGGCAAGTTT
* * * * *
1097662 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTTTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTTTTAATAGGCAAGTTT
1097714 G
1 G
1097715 TATGGTTATA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 44 0.49
52 41 0.46
53 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTTTTAATAGGCAAGTTT
Found at i:1113643 original size:19 final size:19
Alignment explanation
Indices: 1113602--1113644 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1113592 TTCTAATGAC
* *
1113602 TTTCAGTGAGATTTCTAGA
1 TTTCGGTGAGATTTCCAGA
* *
1113621 TTTCGGTGAGTTTTCCAGT
1 TTTCGGTGAGATTTCCAGA
1113640 TTTCG
1 TTTCG
1113645 ACGTCAGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTCGGTGAGATTTCCAGA
Found at i:1114111 original size:6 final size:7
Alignment explanation
Indices: 1114095--1114120 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1114085 AAATTTTAAG
1114095 AAAAATA
1 AAAAATA
1114102 AAAAATA
1 AAAAATA
1114109 AAAAATA
1 AAAAATA
1114116 AAAAA
1 AAAAA
1114121 AATATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:1114305 original size:9 final size:8
Alignment explanation
Indices: 1114290--1114314 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1114280 TTTTCAAATT
1114290 TAAAAAAA
1 TAAAAAAA
1114298 TAAAAAAA
1 TAAAAAAA
1114306 TAAAAAAA
1 TAAAAAAA
1114314 T
1 T
1114315 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:1118957 original size:18 final size:17
Alignment explanation
Indices: 1118934--1119027 Score: 108
Period size: 16 Copynumber: 5.6 Consensus size: 17
1118924 TGTGTGGGAG
1118934 ATGAAAAAAATGAGAAAA
1 ATGAAAAAAATGA-AAAA
1118952 ATGAAAAAAAAATGAAAAA
1 ATG--AAAAAAATGAAAAA
1118971 ATGAAAAAAAGTGAAAAA
1 ATGAAAAAAA-TGAAAAA
1118989 ATG--AAAAATG-AAAA
1 ATGAAAAAAATGAAAAA
*
1119003 ATGAAAAAAATG-TAAA
1 ATGAAAAAAATGAAAAA
1119019 A-GAAAAAAA
1 ATGAAAAAAA
1119028 AGGAAGACTT
Statistics
Matches: 70, Mismatches: 1, Indels: 13
0.83 0.01 0.15
Matches are distributed among these distances:
14 7 0.10
15 10 0.14
16 16 0.23
17 7 0.10
18 13 0.19
19 7 0.10
20 10 0.14
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (17 bp):
ATGAAAAAAATGAAAAA
Found at i:1119019 original size:7 final size:7
Alignment explanation
Indices: 1118947--1119010 Score: 62
Period size: 7 Copynumber: 8.9 Consensus size: 7
1118937 AAAAAAATGA
1118947 GAAAAAT
1 GAAAAAT
1118954 G-AAAA-
1 GAAAAAT
1118959 -AAAAAT
1 GAAAAAT
1118965 GAAAAAAT
1 G-AAAAAT
1118973 GAAAAAAAGT
1 G--AAAAA-T
1118983 GAAAAAAT
1 G-AAAAAT
1118991 GAAAAAT
1 GAAAAAT
1118998 GAAAAAT
1 GAAAAAT
1119005 GAAAAA
1 GAAAAA
1119011 AATGTAAAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
5 4 0.08
6 4 0.08
7 20 0.39
8 9 0.18
9 12 0.24
10 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (7 bp):
GAAAAAT
Found at i:1119027 original size:8 final size:9
Alignment explanation
Indices: 1118934--1119019 Score: 85
Period size: 9 Copynumber: 9.8 Consensus size: 9
1118924 TGTGTGGGAG
1118934 ATGAAAAAA
1 ATGAAAAAA
*
1118943 ATGAGAAAA
1 ATGAAAAAA
1118952 ATGAAAAAAAA
1 ATG--AAAAAA
1118963 ATG-AAAAA
1 ATGAAAAAA
1118971 ATGAAAAAA
1 ATGAAAAAA
1118980 AGTG-AAAAA
1 A-TGAAAAAA
1118989 ATG--AAAA
1 ATGAAAAAA
1118996 ATG--AAAA
1 ATGAAAAAA
1119003 ATGAAAAAA
1 ATGAAAAAA
1119012 ATGTAAAA
1 ATG-AAAA
1119020 GAAAAAAAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
7 14 0.21
8 10 0.15
9 30 0.44
10 6 0.09
11 8 0.12
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.13
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:1119693 original size:80 final size:80
Alignment explanation
Indices: 1119597--1119825 Score: 246
Period size: 80 Copynumber: 2.9 Consensus size: 80
1119587 GGATTGATTA
* *
1119597 ACATAACCTATGAGTTGTGATCAAGTGATGAAAATAACGT-GAATTATTAGATGAAATTTATTCA
1 ACATAACCTATGAGTTGTGATCAAGTGATGAAAATAACGTAG-ATCAGTAGATGAAATTTATTCA
*
1119661 AAAATTATGAGTATTG
65 AAAATTATGAGTACTG
* * * * * ***
1119677 ACATAACTTGTGAGTTGTGATCAAGTGATTAAAATAATGTAGATCAGTGGATGAAATTTATTTTG
1 ACATAACCTATGAGTTGTGATCAAGTGATGAAAATAACGTAGATCAGTAGATGAAATTTATTCAA
* * *
1119742 AAATTGTTAGTGCTG
66 AAATTATGAGTACTG
* * * * * * *
1119757 AGA-AACCTATGAGTTGTGATCAAGTGATGAAAATAATGTAGATCAATGGATAAAATTTGTTCTA
1 ACATAACCTATGAGTTGTGATCAAGTGATGAAAATAACGTAGATCAGTAGATGAAATTTATTCAA
1119821 AAATT
66 AAATT
1119826 GCTAGTGTTG
Statistics
Matches: 125, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 58 0.46
80 66 0.53
81 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (80 bp):
ACATAACCTATGAGTTGTGATCAAGTGATGAAAATAACGTAGATCAGTAGATGAAATTTATTCAA
AAATTATGAGTACTG
Found at i:1119791 original size:79 final size:79
Alignment explanation
Indices: 1119601--1119915 Score: 328
Period size: 79 Copynumber: 4.0 Consensus size: 79
1119591 TGATTAACAT
* * * * *
1119601 AACCTATGAGTTGTGATCAAGTGATGAAAATAACGT-GAATTATTAGATGAAATTTATTCAAAAA
1 AACCTATGAGTTGTGATCAAGTGATGAAAATAATGTAG-ATCAATGGATGAAATTTATTCTAAAA
* * * *
1119665 TTATGAGTATTGACA
65 TTGTTAGTGTTGAGA
* * * * * *
1119680 TAACTTGTGAGTTGTGATCAAGTGATTAAAATAATGTAGATCAGTGGATGAAATTTATTTTGAAA
1 -AACCTATGAGTTGTGATCAAGTGATGAAAATAATGTAGATCAATGGATGAAATTTATTCTAAAA
*
1119745 TTGTTAGTGCTGAGA
65 TTGTTAGTGTTGAGA
* *
1119760 AACCTATGAGTTGTGATCAAGTGATGAAAATAATGTAGATCAATGGATAAAATTTGTTCTAAAAT
1 AACCTATGAGTTGTGATCAAGTGATGAAAATAATGTAGATCAATGGATGAAATTTATTCTAAAAT
*
1119825 TGCTAGTGTTGAGA
66 TGTTAGTGTTGAGA
* * * * * * * *
1119839 AGCTTGTTAGTTGTGATCAAATAATGAAAATAATGTAGGTCAATTGA-GAGAATTTATTCTAAAA
1 AACCTATGAGTTGTGATCAAGTGATGAAAATAATGTAGATCAATGGATGA-AATTTATTCTAAAA
* *
1119903 TGGCTAGTGTTGA
65 TTGTTAGTGTTGA
1119916 AAAGCTAAAA
Statistics
Matches: 197, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 133 0.68
80 62 0.31
81 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (79 bp):
AACCTATGAGTTGTGATCAAGTGATGAAAATAATGTAGATCAATGGATGAAATTTATTCTAAAAT
TGTTAGTGTTGAGA
Found at i:1120315 original size:33 final size:33
Alignment explanation
Indices: 1120278--1120349 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
1120268 GCTTGACATT
** *
1120278 TGCATGACT-TGCATTGCATTTTTGAATGTTTAG
1 TGCAT-ACTATGCATTGCATTTAAGAATGTCTAG
*
1120311 TGCATAGTATGCATTGCATTTAAGAATGTCTAG
1 TGCATACTATGCATTGCATTTAAGAATGTCTAG
1120344 TGCATA
1 TGCATA
1120350 AAGCAAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (33 bp):
TGCATACTATGCATTGCATTTAAGAATGTCTAG
Found at i:1120755 original size:43 final size:43
Alignment explanation
Indices: 1120623--1120905 Score: 264
Period size: 43 Copynumber: 6.5 Consensus size: 43
1120613 ACTGTTGAAA
* * *
1120623 AGCTTTATTTAATTTTTAAAAGTCGTTGAGCCTTTGTTAAGAGG
1 AGCTTTATTT-ATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGG
* * * * * * *
1120667 AG-TCTTCTTTATTTTTAAAAAGTAGCTGAACCTTTGATTAAAGG
1 AGCT-TTATTTATTTTT-CAAAGTTGTTGAGCCTTTGTTTAGAGG
*
1120711 AGCTTTATTTACTTTTCTAAAGTTGTTGAG-CTTTGTTTAGAGG
1 AGCTTTATTTATTTTTC-AAAGTTGTTGAGCCTTTGTTTAGAGG
* * *
1120754 AGCTTTATTTATTTTTCAAAGTTGTTGAGCATCTGTTTAGATG
1 AGCTTTATTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGG
* * * * * *
1120797 AGCCTTATTTATTTTTTAAAAGTTGTTGAGTCTTAGCTTAGAAG
1 AGCTTTATTTA-TTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGG
* * * * **
1120841 ACCTTTATTTAGTTTTCAAAGTTATTGAGCCTCTACTTAGAGG
1 AGCTTTATTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGG
*
1120884 AACTTTATTTATTTTTCAAAGT
1 AGCTTTATTTATTTTTCAAAGT
1120906 CATTAAGCCT
Statistics
Matches: 194, Mismatches: 39, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
42 12 0.06
43 98 0.51
44 83 0.43
45 1 0.01
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.46
Consensus pattern (43 bp):
AGCTTTATTTATTTTTCAAAGTTGTTGAGCCTTTGTTTAGAGG
Found at i:1120857 original size:130 final size:130
Alignment explanation
Indices: 1120623--1120906 Score: 329
Period size: 130 Copynumber: 2.2 Consensus size: 130
1120613 ACTGTTGAAA
* * * * *
1120623 AGCTTTATTTAATTTTTAAAAGTCGTTGAGCCTTTGTTAAGAGGAGTCTTCTTTATTTTTAAAAA
1 AGCTTTATTT-ATTTTTCAAAGTCGTTGAGCATCTGTTAAGAGGAGCCTTATTTATTTTTAAAAA
* * * * **
1120688 GTAGCTGAACCTTTGATTAAAGGAGCTTTATTTACTTTTCTAAAGTTGTTGAG-CTTTGTTTAGA
65 GTAGCTGAACCTTAGATTAAAGGACCTTTATTTACTTTTC-AAAGTTATTGAGCCTCTACTTAGA
1120752 GG
129 GG
* * * *
1120754 AGCTTTATTTATTTTTCAAAGTTGTTGAGCATCTGTTTAGATGAGCCTTATTTATTTTTTAAAAG
1 AGCTTTATTTATTTTTCAAAGTCGTTGAGCATCTGTTAAGAGGAGCCTTATTTATTTTTAAAAAG
* * ** * *
1120819 TTGTTGAGTCTTAGCTTAGAA-GACCTTTATTTAGTTTTCAAAGTTATTGAGCCTCTACTTAGAG
66 TAGCTGAACCTTAGATTA-AAGGACCTTTATTTACTTTTCAAAGTTATTGAGCCTCTACTTAGAG
1120883 G
130 G
*
1120884 AACTTTATTTATTTTTCAAAGTC
1 AGCTTTATTTATTTTTCAAAGTC
1120907 ATTAAGCCTC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
129 11 0.09
130 105 0.82
131 12 0.09
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.45
Consensus pattern (130 bp):
AGCTTTATTTATTTTTCAAAGTCGTTGAGCATCTGTTAAGAGGAGCCTTATTTATTTTTAAAAAG
TAGCTGAACCTTAGATTAAAGGACCTTTATTTACTTTTCAAAGTTATTGAGCCTCTACTTAGAGG
Found at i:1120861 original size:87 final size:85
Alignment explanation
Indices: 1120708--1120905 Score: 243
Period size: 87 Copynumber: 2.3 Consensus size: 85
1120698 CTTTGATTAA
* * * * * *
1120708 AGGAGCTTTATTTACTTTTCTAAAGTTGTTGAGCTTTGTTTAGAGGAGCTTTATTTATTTTTCAA
1 AGGAGCTTTATTTA-TTTTTTAAAGTTGTTGAGCTTAGCTTAGAAGACCTTTATTTAGTTTTCAA
* **
1120773 AGTTGTTGAGCATCTGTTTAG
65 AGTTATTGAGCATCTACTTAG
* *
1120794 ATGAGCCTTATTTATTTTTTAAAAGTTGTTGAGTCTTAGCTTAGAAGACCTTTATTTAGTTTTCA
1 AGGAGCTTTATTTATTTTTT-AAAGTTGTTGAG-CTTAGCTTAGAAGACCTTTATTTAGTTTTCA
*
1120859 AAGTTATTGAGCCTCTACTTAG
64 AAGTTATTGAGCATCTACTTAG
* *
1120881 AGGAACTTTATTTATTTTTCAAAGT
1 AGGAGCTTTATTTATTTTTTAAAGT
1120906 CATTAAGCCT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 5 0.05
86 29 0.31
87 60 0.64
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (85 bp):
AGGAGCTTTATTTATTTTTTAAAGTTGTTGAGCTTAGCTTAGAAGACCTTTATTTAGTTTTCAAA
GTTATTGAGCATCTACTTAG
Found at i:1120915 original size:43 final size:43
Alignment explanation
Indices: 1120710--1120940 Score: 214
Period size: 43 Copynumber: 5.3 Consensus size: 43
1120700 TTGATTAAAG
* * * ** *
1120710 GAGCTTTATTTACTTTTCTAAAGTTGTTGAG-CTTTGTTTAGAG
1 GAGCTTTATTTATTTTTC-AAAGTTATTGAGCCTCTACTTAGAA
* * ** *
1120753 GAGCTTTATTTATTTTTCAAAGTTGTTGAGCATCTGTTTAGAT
1 GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTACTTAGAA
* * * *
1120796 GAGCCTTATTTATTTTTTAAAAGTTGTTGAGTCT-TAGCTTAGAA
1 GAGCTTTATTTA-TTTTTCAAAGTTATTGAGCCTCTA-CTTAGAA
* * *
1120840 GACCTTTATTTAGTTTTCAAAGTTATTGAGCCTCTACTTAGAG
1 GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTACTTAGAA
* * * *
1120883 GAACTTTATTTATTTTTCAAAGTCATTAAGCCTCTACTTATAA
1 GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTACTTAGAA
*
1120926 GAGTTTTATTTATTT
1 GAGCTTTATTTATTT
1120941 CTTAAAAGAT
Statistics
Matches: 158, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 12 0.08
43 111 0.70
44 35 0.22
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (43 bp):
GAGCTTTATTTATTTTTCAAAGTTATTGAGCCTCTACTTAGAA
Found at i:1120935 original size:130 final size:130
Alignment explanation
Indices: 1120713--1120948 Score: 303
Period size: 130 Copynumber: 1.8 Consensus size: 130
1120703 ATTAAAGGAG
* * ** * **
1120713 CTTTATTTACTTTTCTAAAGTTGTTGAGCTTTGTTTAGAGGAGCTTTATTTATTTTTCAAAGTTG
1 CTTTATTTACTTTTCTAAAGTTATTGAGCTCTACTTAGAGGAACTTTATTTATTTTTCAAAGTCA
* ** * *
1120778 TTGAGCATCTGTTTAGATGAGCCTTATTTATTTTTTAAAAGTTGTTGAGTCTTAGCTTAGAAGAC
66 TTAAGCATCTACTTAGAAGAGCCTTATTTATTTCTTAAAAGTTGTTGAGTCTTAGCTTAGAAGAC
*
1120843 CTTTATTTAGTTTTC-AAAGTTATTGAGCCTCTACTTAGAGGAACTTTATTTATTTTTCAAAGTC
1 CTTTATTTACTTTTCTAAAGTTATTGAG-CTCTACTTAGAGGAACTTTATTTATTTTTCAAAGTC
* * **
1120907 ATTAAGCCTCTACTTATAAGAGTTTTATTTATTTCTTAAAAG
65 ATTAAGCATCTACTTAGAAGAGCCTTATTTATTTCTTAAAAG
1120949 ATGTGAAATC
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
129 11 0.12
130 77 0.88
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.47
Consensus pattern (130 bp):
CTTTATTTACTTTTCTAAAGTTATTGAGCTCTACTTAGAGGAACTTTATTTATTTTTCAAAGTCA
TTAAGCATCTACTTAGAAGAGCCTTATTTATTTCTTAAAAGTTGTTGAGTCTTAGCTTAGAAGAC
Found at i:1121734 original size:23 final size:22
Alignment explanation
Indices: 1121692--1121734 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1121682 TATTTTTTAA
* *
1121692 AGAGAGAGGAAAAGATAAGAAG
1 AGAGAGAGGAAAAAAGAAGAAG
1121714 AGAGAGAAGGAAAAAAGAAGA
1 AGAGAG-AGGAAAAAAGAAGA
1121735 TCTGAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (22 bp):
AGAGAGAGGAAAAAAGAAGAAG
Found at i:1122057 original size:17 final size:18
Alignment explanation
Indices: 1122032--1122067 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1122022 TTGTATGATT
*
1122032 AAATTTAAAAAAAA-AAA
1 AAATATAAAAAAAATAAA
1122049 AAATATAAAAAAAATAAA
1 AAATATAAAAAAAATAAA
1122067 A
1 A
1122068 TATTTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATATAAAAAAAATAAA
Found at i:1122060 original size:16 final size:16
Alignment explanation
Indices: 1122039--1122070 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1122029 ATTAAATTTA
1122039 AAAAAAAAAAAAATAT
1 AAAAAAAAAAAAATAT
*
1122055 AAAAAAAATAAAATAT
1 AAAAAAAAAAAAATAT
1122071 TTTTTTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAAAAAAAAAATAT
Found at i:1123022 original size:32 final size:31
Alignment explanation
Indices: 1122942--1123037 Score: 113
Period size: 32 Copynumber: 3.0 Consensus size: 31
1122932 TCTTAAGGTG
*
1122942 TAAAATATTTTTAAGATATATTCTTTAATTA-T
1 TAAAATA-TTTTAAGATATATTCTTGAA-TACT
** *
1122974 TTGAATACTCTTAAGATATATTCTTGAATACT
1 TAAAATA-TTTTAAGATATATTCTTGAATACT
1123006 TAAAATATTTTAAAGATATATTCTTGAATACT
1 TAAAATATTTT-AAGATATATTCTTGAATACT
1123038 CTTTAGGTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
31 5 0.09
32 49 0.91
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (31 bp):
TAAAATATTTTAAGATATATTCTTGAATACT
Found at i:1123969 original size:15 final size:16
Alignment explanation
Indices: 1123949--1123978 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1123939 ATAATTATTC
1123949 ATAATAA-AAAAAATA
1 ATAATAATAAAAAATA
1123964 ATAATAATAAAAAAT
1 ATAATAATAAAAAAT
1123979 CGATTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAATAATAAAAAATA
Found at i:1124332 original size:17 final size:17
Alignment explanation
Indices: 1124312--1124345 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1124302 AAGTCATAAT
1124312 TTAAAAATAAAAAATTA
1 TTAAAAATAAAAAATTA
* *
1124329 TTAAAATTAAAATATTA
1 TTAAAAATAAAAAATTA
1124346 AATTTATTAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAATAAAAAATTA
Found at i:1124338 original size:23 final size:23
Alignment explanation
Indices: 1124315--1124359 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1124305 TCATAATTTA
1124315 AAAATA-AAAAATTATTAAAATT
1 AAAATATAAAAATTATTAAAATT
* *
1124337 AAAATATTAAATTTATTAAAATT
1 AAAATATAAAAATTATTAAAATT
1124360 CATTCTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATAAAAATTATTAAAATT
Found at i:1132378 original size:8 final size:8
Alignment explanation
Indices: 1132365--1132390 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1132355 CCAGTTTCTG
1132365 CCAGAAGA
1 CCAGAAGA
1132373 CCAGAAGA
1 CCAGAAGA
1132381 CCAGAAGA
1 CCAGAAGA
1132389 CC
1 CC
1132391 CTCAAACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.23, T:0.00
Consensus pattern (8 bp):
CCAGAAGA
Found at i:1136300 original size:52 final size:52
Alignment explanation
Indices: 1136233--1136389 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
1136223 TATAACCATA
* *
1136233 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
** * * *
1136285 CAAACTTGCCTATTAAGAATCTATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * **
1136337 CAAACTTACCTATTAAGAAT-CCTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTC-TCCTCTTAGAATTCTTCTCCTGCAAGT
1136389 C
1 C
1136390 TTCTTGTCCA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 1 0.01
52 88 0.99
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:1136432 original size:11 final size:11
Alignment explanation
Indices: 1136414--1136465 Score: 88
Period size: 11 Copynumber: 4.8 Consensus size: 11
1136404 GCAATATCTG
1136414 ACAAATCTCAA
1 ACAAATCTCAA
*
1136425 ATAAATCTCAA
1 ACAAATCTCAA
1136436 ACAAATCTCAA
1 ACAAATCTCAA
1136447 ACAAATCTCAA
1 ACAAATCTCAA
1136458 AC-AATCTC
1 ACAAATCTC
1136466 TTATGGGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
10 6 0.15
11 33 0.85
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:1138469 original size:16 final size:16
Alignment explanation
Indices: 1138448--1138478 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1138438 TGAGGTTATG
*
1138448 CTAGCTCAGTTTAAGA
1 CTAGCTCAATTTAAGA
1138464 CTAGCTCAATTTAAG
1 CTAGCTCAATTTAAG
1138479 TTCATTCTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (16 bp):
CTAGCTCAATTTAAGA
Found at i:1141063 original size:18 final size:17
Alignment explanation
Indices: 1141040--1141089 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
1141030 GGAAAAGGAA
1141040 ACCATAAGTTAGAAAGAG
1 ACCATAAG-TAGAAAGAG
*
1141058 ACCATAGGCTAGAAAGAG
1 ACCATAAG-TAGAAAGAG
*
1141076 ACCACAAGTAGAAA
1 ACCATAAGTAGAAA
1141090 AAGCTACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 6 0.21
18 22 0.79
ACGTcount: A:0.50, C:0.16, G:0.22, T:0.12
Consensus pattern (17 bp):
ACCATAAGTAGAAAGAG
Found at i:1142557 original size:54 final size:54
Alignment explanation
Indices: 1142430--1142608 Score: 180
Period size: 54 Copynumber: 3.3 Consensus size: 54
1142420 ATGAAGAATG
* * * * *
1142430 GCATATGGGGCACGTTAGGTGTGTTGGCAGAGTAGTCTTAACGCCATAAGTATGGT
1 GCATA-GGGGCACGTTAGGTGTGTTGACATAG-AGTCTTAACGCAATAAGTGTAGT
* * * * * * *
1142486 GTACAAGGGCACATTAGGTGTGTTGACATAGAGTTTTAACGCAATATGTGTTGT
1 GCATAGGGGCACGTTAGGTGTGTTGACATAGAGTCTTAACGCAATAAGTGTAGT
* * *
1142540 GCATAGGGGCACGTTAGGTGTGTT-AGTATAAAGTCTTAACACAATAAGTGTAGT
1 GCATAGGGGCACGTTAGGTGTGTTGA-CATAGAGTCTTAACGCAATAAGTGTAGT
*
1142594 GCGTAGGGGCACGTT
1 GCATAGGGGCACGTT
1142609 GGGCTTGTCG
Statistics
Matches: 100, Mismatches: 22, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
53 1 0.01
54 74 0.74
55 22 0.22
56 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.30
Consensus pattern (54 bp):
GCATAGGGGCACGTTAGGTGTGTTGACATAGAGTCTTAACGCAATAAGTGTAGT
Found at i:1148758 original size:20 final size:20
Alignment explanation
Indices: 1148729--1148766 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1148719 CCTCTCAATT
1148729 TCATTCTTC-TGGATTGCGA
1 TCATTCTTCTTGGATTGCGA
1148748 TCATCTCTTCTTGGATTGC
1 TCAT-TCTTCTTGGATTGC
1148767 ATTCTGTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (20 bp):
TCATTCTTCTTGGATTGCGA
Found at i:1156052 original size:17 final size:18
Alignment explanation
Indices: 1156009--1156052 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
1155999 AGTTTTCTTA
*
1156009 TTATATATTTACATAGTTT
1 TTATATA-TTACATAGATT
1156028 TTAT-TATTA-ATAGATT
1 TTATATATTACATAGATT
1156044 TTATATATT
1 TTATATATT
1156053 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 10 0.43
17 7 0.30
18 2 0.09
19 4 0.17
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATATATTACATAGATT
Found at i:1165361 original size:16 final size:16
Alignment explanation
Indices: 1165329--1165363 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1165319 TTCATTCATC
* *
1165329 AAATTTTTTTTTCAAA
1 AAATATTTTTTTAAAA
1165345 AAATATTTTTTTAAAA
1 AAATATTTTTTTAAAA
1165361 AAA
1 AAA
1165364 ATTCATTTCT
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:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATATTTTTTTAAAA
Found at i:1168230 original size:22 final size:21
Alignment explanation
Indices: 1168204--1168246 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1168194 GAAGATGAAA
*
1168204 AAAAAAGAAGAAAAGAAGAAAGG
1 AAAAAA-ATGAAAAGAA-AAAGG
1168227 AAAAAAATGAAAAGAAAAAG
1 AAAAAAATGAAAAGAAAAAG
1168247 TTGTTTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (21 bp):
AAAAAAATGAAAAGAAAAAGG
Found at i:1168237 original size:41 final size:41
Alignment explanation
Indices: 1168159--1168245 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 41
1168149 AGGATCAAAC
* *
1168159 AAAAAAAAAGAGAGAAAAAGAGAAGGAAAGAAGATGAAGATG
1 AAAAAAAAAGAGAGAAAAAGAGAAGGAAAGAAAATGAA-AAG
1168201 AAAAAAAAAGA-AG-AAAAGAAGAAAGGAAA-AAAATGAAAAG
1 AAAAAAAAAGAGAGAAAAAG-AG-AAGGAAAGAAAATGAAAAG
1168241 AAAAA
1 AAAAA
1168246 GTTGTTTCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
40 12 0.29
41 11 0.27
42 18 0.44
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (41 bp):
AAAAAAAAAGAGAGAAAAAGAGAAGGAAAGAAAATGAAAAG
Found at i:1168287 original size:8 final size:8
Alignment explanation
Indices: 1168271--1168310 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
1168261 GTAAGAGAGC
*
1168271 AAAAGAAG
1 AAAAAAAG
1168279 AAAAAAAG
1 AAAAAAAG
1168287 AAAAAAA-
1 AAAAAAAG
*
1168294 AAGAAAAG
1 AAAAAAAG
1168302 AAAAAAAG
1 AAAAAAAG
1168310 A
1 A
1168311 TAATAGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1168356 original size:17 final size:18
Alignment explanation
Indices: 1168334--1168379 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1168324 TGTTTGGGAC
*
1168334 ATAAGA-AAAATGAGAAA
1 ATAAGAGAAAAGGAGAAA
*
1168351 ATAAGAGGAAAGGAGAAA
1 ATAAGAGAAAAGGAGAAA
*
1168369 ATAAAAGAAAA
1 ATAAGAGAAAA
1168380 AAAAAGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.09
Consensus pattern (18 bp):
ATAAGAGAAAAGGAGAAA
Found at i:1169257 original size:123 final size:122
Alignment explanation
Indices: 1169120--1169551 Score: 641
Period size: 123 Copynumber: 3.5 Consensus size: 122
1169110 ATTTATGTGC
* * * * * *
1169120 CAAAGATTGTCCCAAATAAATGAA-ATAATATATATACAAAAATATTTACATGAATAAAAATATG
1 CAAAGATTGCCCCAAACAAAT-AATATAATACACATACAAAAATATTTACATGGATAAAAATGTG
1169184 TATGCAAATACATGTATGCAATGCATTCATATTCACAGCTATTTACAAAATTGAAAAGG
65 TATGCAAATACATGTATGCAATGCATTCATATTCACA-CTATTTACAAAATTGAAAAGG
* *
1169243 CAAAGATTGCCCCAAACAAATAATATAATACACATATAAAAATATTTATATGGATAAAAATGTGT
1 CAAAGATTGCCCCAAACAAATAATATAATACACATACAAAAATATTTACATGGATAAAAATGTGT
*
1169308 ATGCAAATACATGTATGCAATGCATTCATATTCACAATAATTTACAAAATTGAAAAGG
66 ATGCAAATACATGTATGCAATGCATTCATATTCACACT-ATTTACAAAATTGAAAAGG
* * * *
1169366 CAAAGATTGCCTCAAACAAATAATATAATACACATTCAAAAATGTTTATATGGATAAAAATGTGT
1 CAAAGATTGCCCCAAACAAATAATATAATACACATACAAAAATATTTACATGGATAAAAATGTGT
* *
1169431 ATGCAAATACATGTATACAATGAATTCATATTCACAACTATTTACAAAATTGAAAAGG
66 ATGCAAATACATGTATGCAATGCATTCATATTCAC-ACTATTTACAAAATTGAAAAGG
** * * *
1169489 CAAAGATTATCCTAAACAAATAATATAATATACATACAAAAATGTTTACATGGATAAAAATGT
1 CAAAGATTGCCCCAAACAAATAATATAATACACATACAAAAATATTTACATGGATAAAAATGT
1169552 ATATACAAGT
Statistics
Matches: 283, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
122 3 0.01
123 278 0.98
124 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.29
Consensus pattern (122 bp):
CAAAGATTGCCCCAAACAAATAATATAATACACATACAAAAATATTTACATGGATAAAAATGTGT
ATGCAAATACATGTATGCAATGCATTCATATTCACACTATTTACAAAATTGAAAAGG
Found at i:1169855 original size:138 final size:135
Alignment explanation
Indices: 1169447--1169893 Score: 427
Period size: 138 Copynumber: 3.3 Consensus size: 135
1169437 ATACATGTAT
* * * * *
1169447 ACAATGAATTCATATTCACAACTATTTACAAAATTGAAAAGGCAAAGATTATCCTAAACAAATAA
1 ACAA-GAATTCATATCCAAAACTATGTACAAAATTGAAAAAGCAAAGATTTTCC-AAACAAATAA
* *
1169512 TATAATATACATACAAAAATGTTTACATGGATAAAAATG--TAT----ATACAAGTATATAATGC
64 -ATAATATACAT--AAAAATGTTTACATGGATAAAAATGTATATGCAAATACATGTATGTAATGC
* *
1169571 ATAAT-AACA
126 ATAGTGAAAA
* * * * * *
1169580 ACAAGAATTCATATTCACAAA-TATGTACAAAACTGAAAATGCAAAGATTCTCCCAAGCCAATAA
1 ACAAGAATTCATATCCA-AAACTATGTACAAAATTGAAAAAGCAAAGATT-TTCCAAACAAAT-A
* * * * *
1169644 AATAATTTACATACAAA-----A-ATAGATAAAAATTTATATGCAAATACATGTATGCAATGCAT
63 AATAATATACATAAAAATGTTTACATGGATAAAAATGTATATGCAAATACATGTATGTAATGCAT
1169703 AGTGAAAA
128 AGTGAAAA
* * *
1169711 ATAAGAATTCATATCCAAAACTATGTGCAAAATTGAAAAAGTAAAGAATTTTCCAAACAAATGAA
1 ACAAGAATTCATATCCAAAACTATGTACAAAATTGAAAAAGCAAAG-ATTTTCCAAACAAAT-AA
* *
1169776 ATAATGTACATAAAATATGTTTACATGGATAAAAATGTATATGCAAATACATGTATGTAATACAT
64 ATAATATACATAAAA-ATGTTTACATGGATAAAAATGTATATGCAAATACATGTATGTAATGCAT
1169841 AGTGAAAA
128 AGTGAAAA
* * * * *
1169849 ACAAGAATTTATATCTATAACTATGTACAAAATTGTAAAGGCAAA
1 ACAAGAATTCATATCCAAAACTATGTACAAAATTGAAAAAGCAAA
1169894 TGAAATAATG
Statistics
Matches: 254, Mismatches: 41, Indels: 33
0.77 0.12 0.10
Matches are distributed among these distances:
124 11 0.04
125 1 0.00
126 3 0.01
130 25 0.10
131 63 0.25
132 58 0.23
133 10 0.04
137 1 0.00
138 82 0.32
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (135 bp):
ACAAGAATTCATATCCAAAACTATGTACAAAATTGAAAAAGCAAAGATTTTCCAAACAAATAAAT
AATATACATAAAAATGTTTACATGGATAAAAATGTATATGCAAATACATGTATGTAATGCATAGT
GAAAA
Found at i:1170190 original size:38 final size:40
Alignment explanation
Indices: 1170139--1170213 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 40
1170129 AAAAAAAAAA
1170139 GGTTAGTAAACATAAAATATATA-AAGAAA-AATATAAAG
1 GGTTAGTAAACATAAAATATATACAAGAAACAATATAAAG
* * *
1170177 GGTTAGTATACATATAATATGTACAAGAAACAATATA
1 GGTTAGTAAACATAAAATATATACAAGAAACAATATA
1170214 TAAATTTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 20 0.62
39 6 0.19
40 6 0.19
ACGTcount: A:0.55, C:0.05, G:0.13, T:0.27
Consensus pattern (40 bp):
GGTTAGTAAACATAAAATATATACAAGAAACAATATAAAG
Found at i:1171524 original size:24 final size:23
Alignment explanation
Indices: 1171497--1171635 Score: 103
Period size: 24 Copynumber: 6.1 Consensus size: 23
1171487 AATTAAATAT
1171497 ATAATCATATAAATAAATATATTA
1 ATAATCA-ATAAATAAATATATTA
*
1171521 ATAATCAATCAATTAAATATATTA
1 ATAATCAAT-AAATAAATATATTA
* * *
1171545 TTACATGCAATCAATTAA-ATA-TA
1 ATA-AT-CAATAAATAAATATATTA
*
1171568 ATCAT--ATAAATAAATATATTA
1 ATAATCAATAAATAAATATATTA
**
1171589 ATAATC-AT--GCAAATATATTA
1 ATAATCAATAAATAAATATATTA
*
1171609 ATAAATCACACAAATAAATATATTA
1 AT-AATCA-ATAAATAAATATATTA
1171634 AT
1 AT
1171636 CATGTAAACA
Statistics
Matches: 89, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
19 7 0.08
20 15 0.17
21 10 0.11
22 4 0.04
23 6 0.07
24 25 0.28
25 18 0.20
26 4 0.04
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (23 bp):
ATAATCAATAAATAAATATATTA
Found at i:1171622 original size:21 final size:20
Alignment explanation
Indices: 1171579--1171624 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1171569 TCATATAAAT
**
1171579 AAATATATTAATAATCATGC
1 AAATATATTAATAATCACAC
1171599 AAATATATTAATAAATCACAC
1 AAATATATTAAT-AATCACAC
1171620 AAATA
1 AAATA
1171625 AATATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATATATTAATAATCACAC
Found at i:1172333 original size:12 final size:13
Alignment explanation
Indices: 1172316--1172349 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1172306 CTAAAAAAAT
*
1172316 AAAAATTAAAC-C
1 AAAAATTAAACTA
1172328 AAAAATTAAACTA
1 AAAAATTAAACTA
1172341 AAAAATTAA
1 AAAAATTAA
1172350 TATACAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATTAAACTA
Found at i:1172612 original size:21 final size:22
Alignment explanation
Indices: 1172588--1172631 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1172578 AGGAAAAAGT
1172588 GAAAAAAAAAAAGAAAA-GAAA
1 GAAAAAAAAAAAGAAAAGGAAA
**
1172609 GAAAGGAAAAAAGAAAAGGAAA
1 GAAAAAAAAAAAGAAAAGGAAA
1172631 G
1 G
1172632 TGAAACGGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (22 bp):
GAAAAAAAAAAAGAAAAGGAAA
Found at i:1172625 original size:29 final size:30
Alignment explanation
Indices: 1172561--1172625 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
1172551 GAATATGAAG
* **
1172561 AGAAGAAAAAGAAAAGAAGGAAAAAGTGAAA
1 AGAA-AAAAAGAAAAGAAAGAAAAAGAAAAA
*
1172592 A-AAAAAAAGAAAAGAAAG-AAAGGAAAAA
1 AGAAAAAAAGAAAAGAAAGAAAAAGAAAAA
1172620 AGAAAA
1 AGAAAA
1172626 GGAAAGTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 8 0.28
29 18 0.62
30 2 0.07
31 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.02
Consensus pattern (30 bp):
AGAAAAAAAGAAAAGAAAGAAAAAGAAAAA
Found at i:1173747 original size:13 final size:13
Alignment explanation
Indices: 1173729--1173753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1173719 TTTTAATTTA
1173729 TATTTGCATCATT
1 TATTTGCATCATT
1173742 TATTTGCATCAT
1 TATTTGCATCAT
1173754 GTTACATTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (13 bp):
TATTTGCATCATT
Found at i:1176194 original size:5 final size:5
Alignment explanation
Indices: 1176189--1176218 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1176179 GCTTTGCTTT
*
1176189 TCTTT TCTTC TCTTC TCTTC TCTTC TCTTC
1 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC
1176219 CTTTAGTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (5 bp):
TCTTC
Found at i:1176207 original size:15 final size:15
Alignment explanation
Indices: 1176189--1176222 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1176179 GCTTTGCTTT
1176189 TCTTTTCTTCTCTTC
1 TCTTTTCTTCTCTTC
*
1176204 TCTTCTCTTCTCTTC
1 TCTTTTCTTCTCTTC
1176219 -CTTT
1 TCTTT
1176223 AGTGCATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TCTTTTCTTCTCTTC
Found at i:1176797 original size:25 final size:25
Alignment explanation
Indices: 1176747--1176797 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
1176737 AGAGAGAGGG
*
1176747 AAGAAAGAAAAAGGAAAAATAAAAA
1 AAGAAAGAAAAAGAAAAAATAAAAA
* *
1176772 AAGAAAGACAAAATAAAAAATGAAAA
1 AAGAAAGA-AAAAGAAAAAATAAAAA
1176798 TTTTGTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (25 bp):
AAGAAAGAAAAAGAAAAAATAAAAA
Found at i:1178908 original size:16 final size:17
Alignment explanation
Indices: 1178880--1178930 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
1178870 TTGAGTTTTG
*
1178880 ATTAATTTA-AATTAAA
1 ATTATTTTAGAATTAAA
**
1178896 ATTATTTT-GAATTTGA
1 ATTATTTTAGAATTAAA
*
1178912 ATTATTTTAGATTTAAA
1 ATTATTTTAGAATTAAA
1178929 AT
1 AT
1178931 AATTGAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTATTTTAGAATTAAA
Found at i:1178911 original size:31 final size:30
Alignment explanation
Indices: 1178876--1178944 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
1178866 CAATTTGAGT
*
1178876 TTTGATTAATTTA-AATTAAAATTATTTTGAA
1 TTTGATTAATTTAGAATTAAAA-TA-ATTGAA
* *
1178907 TTTGAATTATTTTAGATTTAAAATAATTGAA
1 TTTG-ATTAATTTAGAATTAAAATAATTGAA
1178938 TTTGATT
1 TTTGATT
1178945 TATATTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 3 0.09
31 13 0.39
32 10 0.30
33 7 0.21
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (30 bp):
TTTGATTAATTTAGAATTAAAATAATTGAA
Found at i:1180070 original size:12 final size:13
Alignment explanation
Indices: 1180047--1180079 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
1180037 GAAATTTTTT
1180047 ATCAATAAATTTC
1 ATCAATAAATTTC
*
1180060 ATCAA-AAATTTG
1 ATCAATAAATTTC
1180072 ATCAATAA
1 ATCAATAA
1180080 TCCATTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (13 bp):
ATCAATAAATTTC
Found at i:1180143 original size:11 final size:11
Alignment explanation
Indices: 1180127--1180161 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1180117 CTTTTGATAT
1180127 TCCATCAATAA
1 TCCATCAATAA
*
1180138 TCCATCATTAA
1 TCCATCAATAA
*
1180149 ACCATCAATAA
1 TCCATCAATAA
1180160 TC
1 TC
1180162 TATTGGTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (11 bp):
TCCATCAATAA
Found at i:1180171 original size:22 final size:22
Alignment explanation
Indices: 1180128--1180184 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
1180118 TTTTGATATT
*
1180128 CCATCAATAATCCATCATTAAA
1 CCATCAATAATCCATCAGTAAA
* **
1180150 CCATCAATAATCTATTGGTAAA
1 CCATCAATAATCCATCAGTAAA
* *
1180172 TCATCAGTAATCC
1 CCATCAATAATCC
1180185 GCTGATATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (22 bp):
CCATCAATAATCCATCAGTAAA
Found at i:1180767 original size:143 final size:140
Alignment explanation
Indices: 1180584--1180870 Score: 484
Period size: 143 Copynumber: 2.0 Consensus size: 140
1180574 GATGGAACCT
* * *
1180584 ATAAGGCATAATTAAAAATACATGAACGAGATTTCATTATTATTACTTATTAAAACATATTACAT
1 ATAAGGCATAATTAAAAATACATGAACAAGATTTAATTATTATTACTCATTAAAACATATTACAT
* *
1180649 ATAAGGCAAAAAAATAATACTAGGTTTGAGGGAATTGTAAGGAGAAAGGGGATATTCAAGAAAAA
66 ATAAGGC--AAAAA-AATACTAGGTTTGAGGGAATTGTAAGGAGAAAAGGGATATCCAAGAAAAA
1180714 TCAATAAGACAAA
128 TCAATAAGACAAA
1180727 ATAAGGCATAATTAAAAATACATGAACAAGATTTAATTATTATTACTCATTAAAACATATTACAT
1 ATAAGGCATAATTAAAAATACATGAACAAGATTTAATTATTATTACTCATTAAAACATATTACAT
1180792 ATAAGGCAAAAAAATACTAGGTTTGAGGGAATTGTAAGGAGAAAAGGGATATCCAAGAAAAATCA
66 ATAAGGCAAAAAAATACTAGGTTTGAGGGAATTGTAAGGAGAAAAGGGATATCCAAGAAAAATCA
* *
1180857 ATAGGACGAA
131 ATAAGACAAA
1180867 ATAA
1 ATAA
1180871 ATGTAAACAA
Statistics
Matches: 137, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
140 63 0.46
141 5 0.04
143 69 0.50
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (140 bp):
ATAAGGCATAATTAAAAATACATGAACAAGATTTAATTATTATTACTCATTAAAACATATTACAT
ATAAGGCAAAAAAATACTAGGTTTGAGGGAATTGTAAGGAGAAAAGGGATATCCAAGAAAAATCA
ATAAGACAAA
Found at i:1181190 original size:14 final size:14
Alignment explanation
Indices: 1181149--1181190 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
1181139 TAAATTGAAT
* *
1181149 TGTGTGTGTTTGTA
1 TGTGTGTGTATGTG
*
1181163 TGTGTGTGTCTGTG
1 TGTGTGTGTATGTG
1181177 TGTGTGTGTATGTG
1 TGTGTGTGTATGTG
1181191 AAAGATAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.05, C:0.02, G:0.40, T:0.52
Consensus pattern (14 bp):
TGTGTGTGTATGTG
Found at i:1184282 original size:117 final size:119
Alignment explanation
Indices: 1184142--1184382 Score: 353
Period size: 118 Copynumber: 2.0 Consensus size: 119
1184132 CCAACCTTTT
1184142 ATCAATACAATAATTTTTTATTTCAATAATTATTATTAAATTTTAAAAAATATCAAATAT-AA-A
1 ATCAATACAATAATTTTTTATTTCAATAATTATTATTAAATTTTAAAAAATATCAAATATAAACA
* * *
1184205 ATTTTCCAAAATAAATATAAATCTCAATACACATCAAACCCAAATTTAACATAAA
66 ATTTT-AAAAACAAATATAAATCTCAACACACATCAAACCCAAATTTAACATAAA
* *
1184260 ATCAATACAA-ATTTTTTTATTTCAATAATTATTATTAAATTTTAAAAAATATCATATATAAACA
1 ATCAATACAATAATTTTTTATTTCAATAATTATTATTAAATTTTAAAAAATATCAAATATAAACA
* * *** *
1184324 ATTTTAAAAACAAATATAAATCTTAACAGACATCAAAGTTAAATTTATCATAAA
66 ATTTTAAAAACAAATATAAATCTCAACACACATCAAACCCAAATTTAACATAAA
1184378 ATCAA
1 ATCAA
1184383 CATAAATCTT
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
117 47 0.43
118 57 0.52
119 6 0.05
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (119 bp):
ATCAATACAATAATTTTTTATTTCAATAATTATTATTAAATTTTAAAAAATATCAAATATAAACA
ATTTTAAAAACAAATATAAATCTCAACACACATCAAACCCAAATTTAACATAAA
Found at i:1186319 original size:28 final size:28
Alignment explanation
Indices: 1186272--1186331 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
1186262 CTACTTTAAT
*
1186272 AATAATATTAATAATAATAATATATAAA
1 AATAATATTAATAATAATAAAATATAAA
*
1186300 AATAATTATTAATTAT-ATAAAATATAAA
1 AATAA-TATTAATAATAATAAAATATAAA
1186328 AATA
1 AATA
1186332 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 20 0.69
29 9 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (28 bp):
AATAATATTAATAATAATAAAATATAAA
Found at i:1186331 original size:8 final size:8
Alignment explanation
Indices: 1186313--1186353 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
1186303 AATTATTAAT
1186313 TATATAAAA
1 TATA-AAAA
1186322 TATAAAAA
1 TATAAAAA
1186330 TATAAAAA
1 TATAAAAA
*
1186338 AATAAAAA
1 TATAAAAA
*
1186346 GATAAAAA
1 TATAAAAA
1186354 AAGACACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 26 0.87
9 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
TATAAAAA
Found at i:1186341 original size:18 final size:17
Alignment explanation
Indices: 1186318--1186355 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1186308 TTAATTATAT
1186318 AAAATATAAAA-ATATAAA
1 AAAATA-AAAAGATA-AAA
1186336 AAAATAAAAAGATAAAA
1 AAAATAAAAAGATAAAA
1186353 AAA
1 AAA
1186356 GACACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAATAAAAAGATAAAA
Found at i:1186450 original size:13 final size:12
Alignment explanation
Indices: 1186432--1186487 Score: 64
Period size: 13 Copynumber: 4.8 Consensus size: 12
1186422 CCTACAACCA
1186432 TATCTACCAGCC
1 TATCTACCAGCC
1186444 TTATCTACCAGCC
1 -TATCTACCAGCC
*
1186457 --TCGACCAGCC
1 TATCTACCAGCC
1186467 -ATCTACCAGCCC
1 TATCTACCAG-CC
1186479 TATCTACCA
1 TATCTACCA
1186488 CCCCCACACT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 9 0.24
11 7 0.18
12 2 0.05
13 20 0.53
ACGTcount: A:0.25, C:0.43, G:0.09, T:0.23
Consensus pattern (12 bp):
TATCTACCAGCC
Found at i:1186693 original size:14 final size:14
Alignment explanation
Indices: 1186676--1186710 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1186666 AATAGAAATG
1186676 CAAAAAAAGAAACA
1 CAAAAAAAGAAACA
*
1186690 CAAAAACAGAAACA
1 CAAAAAAAGAAACA
1186704 -AAAAAAA
1 CAAAAAAA
1186711 AAGTCAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.80, C:0.14, G:0.06, T:0.00
Consensus pattern (14 bp):
CAAAAAAAGAAACA
Found at i:1194170 original size:1 final size:1
Alignment explanation
Indices: 1194166--1194237 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
1194156 GATGGGGCAT
* * * * * * *
1194166 AAAAAATAAAAAAAAACAAAAAAAATAAAAAATAAAAAACAAAAAAATAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1194231 AACAAAA
1 AAAAAAA
1194238 GGGACATATT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.89, C:0.06, G:0.00, T:0.06
Consensus pattern (1 bp):
A
Found at i:1194206 original size:23 final size:22
Alignment explanation
Indices: 1194173--1194232 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
1194163 CATAAAAAAT
1194173 AAAAAAAAACAAAAAAAATAAA
1 AAAAAAAAACAAAAAAAATAAA
1194195 AAATAAAAAAC-AAAAAAATAAA
1 AAA-AAAAAACAAAAAAAATAAA
*
1194217 AAAACAAAA-AAAAAAA
1 AAAAAAAAACAAAAAAA
1194233 CAAAAGGGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 11 0.31
22 17 0.49
23 7 0.20
ACGTcount: A:0.90, C:0.05, G:0.00, T:0.05
Consensus pattern (22 bp):
AAAAAAAAACAAAAAAAATAAA
Found at i:1196003 original size:41 final size:41
Alignment explanation
Indices: 1195892--1196004 Score: 174
Period size: 41 Copynumber: 2.8 Consensus size: 41
1195882 GCATGTTTTT
* * *
1195892 AAAATTTTAAAGTCTCTGTTTAAGAGAAACCATTTTCAATC
1 AAAATTTTAAAGCCTCTGTTTAAGAGGAACCAATTTCAATC
1195933 AAAATTTTAAAGCCTCTGTTTAAGAGGAACCAATTTCAATC
1 AAAATTTTAAAGCCTCTGTTTAAGAGGAACCAATTTCAATC
*
1195974 AAGATTTTAAAGCCTCTGTTTAA-AGGGAACC
1 AAAATTTTAAAGCCTCTGTTTAAGA-GGAACC
1196005 TTTCTCAGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 1 0.01
41 66 0.99
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (41 bp):
AAAATTTTAAAGCCTCTGTTTAAGAGGAACCAATTTCAATC
Found at i:1196428 original size:87 final size:82
Alignment explanation
Indices: 1196278--1196457 Score: 261
Period size: 87 Copynumber: 2.1 Consensus size: 82
1196268 GCATGATTTC
* * *
1196278 TAAGAACTCCGGGCATAAATTTGATTCGCGGTGTTATCCCGATCAATTCTATAATTTTGACTTGT
1 TAAGACCTCCGAGCATAAATTTGATTCGCGGTGTTATCCCGATCAATTCTATAATTTTAAC---T
*
1196343 GGTGTTATCCTAGTCAATTCTG
63 --TGTTATCCCAGTCAATTCTG
* *
1196365 TAAGACCTCCGAGCATAAATTTGATTCGCGGTGTTATCCCGATCAATTTTATGATTTTAACTTGT
1 TAAGACCTCCGAGCATAAATTTGATTCGCGGTGTTATCCCGATCAATTCTATAATTTTAACTTGT
1196430 TATCCCAGTCAATTCTG
66 TATCCCAGTCAATTCTG
1196447 TAAGACCTCCG
1 TAAGACCTCCG
1196458 GACATAATGT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
82 30 0.34
84 1 0.01
87 56 0.64
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.37
Consensus pattern (82 bp):
TAAGACCTCCGAGCATAAATTTGATTCGCGGTGTTATCCCGATCAATTCTATAATTTTAACTTGT
TATCCCAGTCAATTCTG
Found at i:1196499 original size:23 final size:22
Alignment explanation
Indices: 1196445--1196529 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
1196435 CAGTCAATTC
* *
1196445 TGTAAGACCTCCGGACATAATGT
1 TGTAAGACCTCCGGGCATGAT-T
*
1196468 T-TAAGACCTCCGAGCATGATT
1 TGTAAGACCTCCGGGCATGATT
*
1196489 CTGTAAGACCTCTGGGCATGATT
1 -TGTAAGACCTCCGGGCATGATT
* *
1196512 TCTAAGACTTCCGGGCAT
1 TGTAAGACCTCCGGGCAT
1196530 AAATTTGATT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.02
22 32 0.62
23 19 0.37
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (22 bp):
TGTAAGACCTCCGGGCATGATT
Found at i:1196618 original size:23 final size:23
Alignment explanation
Indices: 1196588--1196703 Score: 198
Period size: 23 Copynumber: 5.1 Consensus size: 23
1196578 GAGGTGTTAT
1196588 TCCGGGCATGATTCTGTAAGACC
1 TCCGGGCATGATTCTGTAAGACC
1196611 TCCGGGCATGATTCTGTAAGACC
1 TCCGGGCATGATTCTGTAAGACC
*
1196634 TTCGGGCATGATTCTGTAAGACC
1 TCCGGGCATGATTCTGTAAGACC
*
1196657 TTCGGGCATGATTCTGTAAGACC
1 TCCGGGCATGATTCTGTAAGACC
*
1196680 TCCGGGCATGATT-TCTAAGACC
1 TCCGGGCATGATTCTGTAAGACC
1196702 TC
1 TC
1196704 TGAGCATAAT
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
22 10 0.11
23 80 0.89
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (23 bp):
TCCGGGCATGATTCTGTAAGACC
Found at i:1196913 original size:44 final size:45
Alignment explanation
Indices: 1196858--1196945 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
1196848 ATCCCAGTCA
*
1196858 ATTCTATAAGACCTCCAGGTATGA-TTTTAAGACCTCCGGGCATG
1 ATTCTATAAGACCTCCAGGCATGATTTTTAAGACCTCCGGGCATG
* * *
1196902 ATTCTGTAAGACCTTCGGGCATGATTTTTAAGACCTCCGGGCAT
1 ATTCTATAAGACCTCCAGGCATGATTTTTAAGACCTCCGGGCAT
1196946 AAATTTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.51
45 19 0.49
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (45 bp):
ATTCTATAAGACCTCCAGGCATGATTTTTAAGACCTCCGGGCATG
Found at i:1196915 original size:23 final size:21
Alignment explanation
Indices: 1196864--1196945 Score: 110
Period size: 21 Copynumber: 3.8 Consensus size: 21
1196854 GTCAATTCTA
* *
1196864 TAAGACCTCCAGGTATGATTT
1 TAAGACCTCCGGGCATGATTT
1196885 TAAGACCTCCGGGCATGATTCT
1 TAAGACCTCCGGGCATGATT-T
*
1196907 GTAAGACCTTCGGGCATGATTTT
1 -TAAGACCTCCGGGCATGA-TTT
1196930 TAAGACCTCCGGGCAT
1 TAAGACCTCCGGGCAT
1196946 AAATTTGATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
21 18 0.33
22 16 0.30
23 18 0.33
24 2 0.04
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (21 bp):
TAAGACCTCCGGGCATGATTT
Done.