Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 19 of 147
Found at i:4109250 original size:27 final size:28
Alignment explanation
Indices: 4109207--4109263 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
4109197 CTTAAAATGT
4109207 TAATTTTTTAAGTTAAAAAATTA-AAAAA
1 TAATTTTTTAAG-TAAAAAATTAGAAAAA
*
4109235 TAATTTTATTAA-TAAAAATTTAGAAAAA
1 TAATTTT-TTAAGTAAAAAATTAGAAAAA
4109263 T
1 T
4109264 TATAAAAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 9 0.35
28 13 0.50
29 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (28 bp):
TAATTTTTTAAGTAAAAAATTAGAAAAA
Found at i:4110091 original size:16 final size:16
Alignment explanation
Indices: 4110070--4110109 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4110060 AAATTTATAT
* *
4110070 AATGGATGTATTGATG
1 AATGGATGAATAGATG
4110086 AATGGATGAATAGATG
1 AATGGATGAATAGATG
*
4110102 GATGGATG
1 AATGGATG
4110110 GATGAATTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (16 bp):
AATGGATGAATAGATG
Found at i:4110110 original size:20 final size:21
Alignment explanation
Indices: 4110082--4110121 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4110072 TGGATGTATT
4110082 GATGAATGGATGAA-TAGATG
1 GATGAATGGATGAATTAGATG
*
4110102 GATGGATGGATGAATTAGAT
1 GATGAATGGATGAATTAGAT
4110122 AACATCCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.28
Consensus pattern (21 bp):
GATGAATGGATGAATTAGATG
Found at i:4110198 original size:29 final size:30
Alignment explanation
Indices: 4110130--4110210 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 30
4110120 ATAACATCCT
*
4110130 AATT-ATATATAAATATAATATTTTTATTA
1 AATTAATATATAAATATAATAATTTTATTA
* *
4110159 AATTAAGATATTAA-ATAATAATTTTATTGA
1 AATTAATATATAAATATAATAATTTTATT-A
*
4110189 TATAATATATATATAAATATAA
1 -A-ATTA-ATATATAAATATAA
4110211 AATAGATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
29 17 0.43
30 8 0.20
31 1 0.03
32 3 0.08
33 7 0.17
34 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
AATTAATATATAAATATAATAATTTTATTA
Found at i:4110208 original size:17 final size:17
Alignment explanation
Indices: 4110188--4110226 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4110178 AATTTTATTG
* * *
4110188 ATATAATATATATATAA
1 ATATAAAATAGATAAAA
4110205 ATATAAAATAGATAAAA
1 ATATAAAATAGATAAAA
4110222 ATATA
1 ATATA
4110227 TTTATTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATAAAATAGATAAAA
Found at i:4113939 original size:14 final size:15
Alignment explanation
Indices: 4113920--4113952 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
4113910 TGGTGACGTG
4113920 AAACAAA-AAAAAAA
1 AAACAAAGAAAAAAA
4113934 AAACAAATGAAAAAAA
1 AAACAAA-GAAAAAAA
4113950 AAA
1 AAA
4113953 TTCCTACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.88, C:0.06, G:0.03, T:0.03
Consensus pattern (15 bp):
AAACAAAGAAAAAAA
Found at i:4114572 original size:20 final size:20
Alignment explanation
Indices: 4114547--4114585 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4114537 ATAATCAAGC
*
4114547 AAAATTAAATCAAGTAAGTT
1 AAAATTAAATCAAATAAGTT
*
4114567 AAAATTTAATCAAATAAGT
1 AAAATTAAATCAAATAAGT
4114586 ACATGATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (20 bp):
AAAATTAAATCAAATAAGTT
Found at i:4119617 original size:2 final size:2
Alignment explanation
Indices: 4119610--4119642 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4119600 TTTTGAGCTT
4119610 TA TA TA TA 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 TA TA TA TA T
4119643 GGGGGAAGAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4124757 original size:103 final size:103
Alignment explanation
Indices: 4124609--4124802 Score: 343
Period size: 103 Copynumber: 1.9 Consensus size: 103
4124599 AGTTACCTAA
*
4124609 GCTCATCAAAGATCAAAATTTTTAACAGCCCTTAAAGCTCTCAACCCATGATTACCCCAATTCTG
1 GCTCATCAAAGATCAAAATTTTTAACAGCCCTTAAAGCTCTCAACCCATGACTACCCCAATTCTG
*
4124674 GTAGCATTGAGAATCCAATGCAGTTCTCATTATTACAG
66 GAAGCATTGAGAATCCAATGCAGTTCTCATTATTACAG
* * *
4124712 GCTCATCAAAGATCAAATTTTTTTACAGCCCTTAAAGCTCTCAACCCGTGACTACCCCAATTCTG
1 GCTCATCAAAGATCAAAATTTTTAACAGCCCTTAAAGCTCTCAACCCATGACTACCCCAATTCTG
4124777 GAAGCATTGAGAATCCAATGCAGTTC
66 GAAGCATTGAGAATCCAATGCAGTTC
4124803 CACACTAACT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 86 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (103 bp):
GCTCATCAAAGATCAAAATTTTTAACAGCCCTTAAAGCTCTCAACCCATGACTACCCCAATTCTG
GAAGCATTGAGAATCCAATGCAGTTCTCATTATTACAG
Found at i:4125562 original size:12 final size:13
Alignment explanation
Indices: 4125533--4125570 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
4125523 GCTTTTTGCA
*
4125533 TCCA-ATTTGGCT
1 TCCACATTTAGCT
4125545 TCCACATTTAGCT
1 TCCACATTTAGCT
4125558 T-CACATTTAGCT
1 TCCACATTTAGCT
4125570 T
1 T
4125571 TTTAATTCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (13 bp):
TCCACATTTAGCT
Found at i:4131035 original size:9 final size:10
Alignment explanation
Indices: 4131013--4131059 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
4131003 GACATTTCAG
4131013 AAATAAATAA
1 AAATAAATAA
4131023 ATAATAAA-AA
1 A-AATAAATAA
4131033 TAAATAAATAA
1 -AAATAAATAA
*
4131044 AAATGAAAAAA
1 AAAT-AAATAA
4131055 AAATA
1 AAATA
4131060 CCAAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (10 bp):
AAATAAATAA
Found at i:4131037 original size:21 final size:21
Alignment explanation
Indices: 4131013--4131059 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
4131003 GACATTTCAG
*
4131013 AAATAAATAAATAAT-AAAAAT
1 AAATAAATAAA-AATGAAAAAA
4131034 AAATAAATAAAAATGAAAAAA
1 AAATAAATAAAAATGAAAAAA
4131055 AAATA
1 AAATA
4131060 CCAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (21 bp):
AAATAAATAAAAATGAAAAAA
Found at i:4132097 original size:17 final size:16
Alignment explanation
Indices: 4132049--4132099 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
4132039 ACATACATAC
4132049 AAAGTAAAAAGATAATA
1 AAAGTAAAAA-ATAATA
* *
4132066 AAAAT-ATAAAT-ATA
1 AAAGTAAAAAATAATA
4132080 AAAGTAAAATAATAATA
1 AAAGTAAAA-AATAATA
4132097 AAA
1 AAA
4132100 AAAAAACTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 7 0.26
15 4 0.15
16 6 0.22
17 10 0.37
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
AAAGTAAAAAATAATA
Found at i:4133544 original size:17 final size:17
Alignment explanation
Indices: 4133522--4133556 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4133512 AAGTACGAGG
*
4133522 CATTGAGGTTTTTCAAC
1 CATTGAGGTTTTCCAAC
4133539 CATTGAGGTTTTCCAAC
1 CATTGAGGTTTTCCAAC
4133556 C
1 C
4133557 CTTCATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (17 bp):
CATTGAGGTTTTCCAAC
Found at i:4138035 original size:26 final size:27
Alignment explanation
Indices: 4137977--4138035 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
4137967 TTAAAAATTT
4137977 TTAAAAATATGAAATATTTTT-AAAAA
1 TTAAAAATATGAAATATTTTTAAAAAA
* *
4138003 CTAAAAACAATGAAATA-TTTTAAAAAA
1 TTAAAAA-TATGAAATATTTTTAAAAAA
4138030 TTAAAA
1 TTAAAA
4138036 TGAAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
TTAAAAATATGAAATATTTTTAAAAAA
Found at i:4138954 original size:25 final size:25
Alignment explanation
Indices: 4138924--4138983 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
4138914 AAAAATTATA
4138924 TGTCATATTTCATGTCTCATGTATG
1 TGTCATATTTCATGTCTCATGTATG
*
4138949 TGTCATGTTTCATGTCTCATGTATG
1 TGTCATATTTCATGTCTCATGTATG
4138974 T-TACATATTT
1 TGT-CATATTT
4138984 AAAACACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (25 bp):
TGTCATATTTCATGTCTCATGTATG
Found at i:4150433 original size:17 final size:17
Alignment explanation
Indices: 4150411--4150457 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
4150401 AAGATTATTG
*
4150411 ATGATTAAATCACCTTA
1 ATGATTAAATCACCATA
**
4150428 ATGATTTTATCACCATA
1 ATGATTAAATCACCATA
*
4150445 ATAATTAAATCAC
1 ATGATTAAATCAC
4150458 TGTAAAAATC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (17 bp):
ATGATTAAATCACCATA
Found at i:4161450 original size:124 final size:122
Alignment explanation
Indices: 4161309--4161530 Score: 365
Period size: 124 Copynumber: 1.8 Consensus size: 122
4161299 AAAATGGATT
* *
4161309 AATCGATTTTATTATAGAAAGA-TTTCAAATTCAAAATTTATAAAAATAATTCGATTCATATAAA
1 AATCGATTTTATTATAGAAAGATTTTAAAATT-AAAATTTATAAAAATAAATCGATTCATATAAA
*
4161373 AATGGATTGATTTTTTTTTTTAAATTAGATCGATCCATTAATAAAAAAAAATAAAGATC
65 AATGGATTGA-TTATTTTTTTAAATTAGATCGATCCATTAATAAAAAAAAATAAAGATC
*
4161432 AATCGATTTTTATTATAGAAAGATTTTAAAATTAAAATTTATAAAAATAAATCGATTCATATGAA
1 AATCGA-TTTTATTATAGAAAGATTTTAAAATTAAAATTTATAAAAATAAATCGATTCATATAAA
*
4161497 AATGGATTGATTATTTTTTTAAATTAGATTGATC
65 AATGGATTGATTATTTTTTTAAATTAGATCGATC
4161531 AATTGGTAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
123 28 0.30
124 56 0.61
125 8 0.09
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (122 bp):
AATCGATTTTATTATAGAAAGATTTTAAAATTAAAATTTATAAAAATAAATCGATTCATATAAAA
ATGGATTGATTATTTTTTTAAATTAGATCGATCCATTAATAAAAAAAAATAAAGATC
Found at i:4172940 original size:34 final size:34
Alignment explanation
Indices: 4172856--4172940 Score: 89
Period size: 34 Copynumber: 2.5 Consensus size: 34
4172846 TGAGATATCG
* *
4172856 CTAATTTAGTGATATTTTTATCAAAAAAATACCA
1 CTAATTTAGTGACATTTATATCAAAAAAATACCA
* * * * * **
4172890 TTACTTTGGTGGCATTTATATTAAAAAAATGTCA
1 CTAATTTAGTGACATTTATATCAAAAAAATACCA
4172924 CTAATTTAGTGACATTT
1 CTAATTTAGTGACATTT
4172941 TTTAGTAAGA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (34 bp):
CTAATTTAGTGACATTTATATCAAAAAAATACCA
Found at i:4178061 original size:21 final size:21
Alignment explanation
Indices: 4178037--4178080 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4178027 CTTCATTACT
4178037 TTGAACATCAAGATCACCAAC
1 TTGAACATCAAGATCACCAAC
** *
4178058 TTGAGTATCAATATCACCAAC
1 TTGAACATCAAGATCACCAAC
4178079 TT
1 TT
4178081 CCATAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (21 bp):
TTGAACATCAAGATCACCAAC
Found at i:4181093 original size:124 final size:124
Alignment explanation
Indices: 4180832--4181097 Score: 306
Period size: 124 Copynumber: 2.1 Consensus size: 124
4180822 CGCCTTCTAG
** * * *
4180832 TGAAAAATGTCTTCAATGTTTCACTACTCAAATTTTAAGATGGTTAGTGAAGATATTTATTCCAG
1 TGAAAAATACCTTCAATATTTCACTACTCAAATTTTAAGACGGTTAGTGAAGACATTTATTCCAG
* *** * *
4180897 AAAAATACCTTTAATAATTTTTTAAAATTTTTTTTTGGATTATTAAATGCATCTTTTAA
66 AAAAATACCTTCAATAATTTTTTAAAATTTTTACATGAATTATTAAAGGCATCTTTTAA
* * *
4180956 TGAAAAATGCCTTCAATATTTCACTACTCAAATTTTAAGACGGTTAGTGAAGACGTTTATTCTAG
1 TGAAAAATACCTTCAATATTTCACTACTCAAATTTTAAGACGGTTAGTGAAGACATTTATTCCAG
* * * *
4181021 AAAAATATCTTCACTAATTTCTTT-TAATTTATGTACAT-AATTATTAAAGGCAT-TTTTTA
66 AAAAATACCTTCAATAATTT-TTTAAAATTT-T-TACATGAATTATTAAAGGCATCTTTTAA
4181080 -GAACAAATACCTTCAATA
1 TGAA-AAATACCTTCAATA
4181098 ATTTTTTTTA
Statistics
Matches: 121, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
123 3 0.02
124 99 0.82
125 17 0.14
126 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (124 bp):
TGAAAAATACCTTCAATATTTCACTACTCAAATTTTAAGACGGTTAGTGAAGACATTTATTCCAG
AAAAATACCTTCAATAATTTTTTAAAATTTTTACATGAATTATTAAAGGCATCTTTTAA
Found at i:4181342 original size:149 final size:146
Alignment explanation
Indices: 4181065--4181349 Score: 365
Period size: 149 Copynumber: 1.9 Consensus size: 146
4181055 ACATAATTAT
* * *
4181065 TAAAGGCATTTTTTAGAACAAATACCTTCAATAATTTTTTTTAAAATTTTTTGAGATTATTAAAG
1 TAAAGGCATTTTTCAGAACAAATACCTTCAATAATTTCTTTTAAAAATTTTTGAGATTATTAAAG
** * * * *
4181130 ATGTCTTCTAGTGAAAATGCTTTCAATATACCAGTACTCAAATTTTAAGACGATTAGTAAAGGCA
66 ACATCTTCTAATGAAAATGCCTTCAATATACCACTACTCAAATTTTAAGACGATCAGTAAAGGCA
4181195 TTTATTCAACGGTTAG
131 TTTATTCAACGGTTAG
* *
4181211 TAAAGGCATTTATTCCAGAA-AAATATCTTTAATAAATTTCTTTTAAAAATTTTTGAGATTATTA
1 TAAAGGCATTT-TT-CAGAACAAATACCTTCAAT-AATTTCTTTTAAAAATTTTTGAGATTATTA
* ** * * *
4181275 AAGGCATCTTCTAATGAAAAATGCCTTCAATATTTCACTACTCAAATTTTAAGATGCTCAGTGAA
63 AAGACATCTTCTAATG-AAAATGCCTTCAATATACCACTACTCAAATTTTAAGACGATCAGTAAA
*
4181340 GGCGTTTATT
127 GGCATTTATT
4181350 ATAGAAAAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
146 11 0.09
147 13 0.11
148 44 0.38
149 49 0.42
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (146 bp):
TAAAGGCATTTTTCAGAACAAATACCTTCAATAATTTCTTTTAAAAATTTTTGAGATTATTAAAG
ACATCTTCTAATGAAAATGCCTTCAATATACCACTACTCAAATTTTAAGACGATCAGTAAAGGCA
TTTATTCAACGGTTAG
Found at i:4181563 original size:186 final size:186
Alignment explanation
Indices: 4181227--4181678 Score: 520
Period size: 186 Copynumber: 2.4 Consensus size: 186
4181217 CATTTATTCC
* * *
4181227 AGAAAAATATCTTTAATAAATTTCTTTTAAAAATTTTTGAGATTATTAAAGGCATCTTCTAATGA
1 AGAAAAACATCTTTAATAAATTTCTTTTAAAAATTTTTGAGATTATTAAAGACATCTTCTAATAA
** *
4181292 AAAATGCCTTCAATATTTCACTACTCAAATTTTAAGATGCTCAGTGAAGGCGTTTATTATAGAAA
66 AAAACACCTTCAATATTTCACTACTCAAATTTTAAGATGATCAGTGAAGGCGTTTATTATAGAAA
* * * *
4181357 AATACCTCCACTAATTTTTTTTA-ATTTATGTACATAATTTTTGAAGGTGTTTTTTG
131 AACACCTCCACTAATTTTTTTTAGATTT-TATACATAATTATTGAAGGTATTTTTTG
* * *
4181413 AGAATAAACATCTTTAATAATTTTCTTTT-AAAATTTTTGAGATTATTAAAGACATTTTCTAGTA
1 AGAA-AAACATCTTTAATAAATTTCTTTTAAAAATTTTTGAGATTATTAAAGACATCTTCTAATA
* * * * * *
4181477 AAAAACATCTTCATTA-TTCGACTACTTAAATTTTATGATGATTAGTGAAGGCGTTTATTTTAGA
65 AAAAACACCTTCAATATTTC-ACTACTCAAATTTTAAGATGATCAGTGAAGGCGTTTATTATAGA
** * *
4181541 AAAACACCTTTACTAGTTTTTTTTAGCTTTTATACATAATTATTGAAGGTATTTTTTG
129 AAAACACCTCCACTAATTTTTTTTAGATTTTATACATAATTATTGAAGGTATTTTTTG
* * * * * * *
4181599 AGAACAA-ATGCTTTTAAT-ACTTTCTTTTTAAAAATTTTTGGGATT-CTAAAGACGTCTTTTAG
1 AGAAAAACAT-C-TTTAATAAATTTC-TTTTAAAAATTTTTGAGATTATTAAAGACATCTTCTAA
* *
4181661 TATAAAACGCCTTCAATA
63 TAAAAAACACCTTCAATA
4181679 ATTTTAAAGA
Statistics
Matches: 225, Mismatches: 34, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
184 2 0.01
185 11 0.05
186 173 0.77
187 39 0.17
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (186 bp):
AGAAAAACATCTTTAATAAATTTCTTTTAAAAATTTTTGAGATTATTAAAGACATCTTCTAATAA
AAAACACCTTCAATATTTCACTACTCAAATTTTAAGATGATCAGTGAAGGCGTTTATTATAGAAA
AACACCTCCACTAATTTTTTTTAGATTTTATACATAATTATTGAAGGTATTTTTTG
Found at i:4181601 original size:333 final size:327
Alignment explanation
Indices: 4180927--4181546 Score: 764
Period size: 333 Copynumber: 1.9 Consensus size: 327
4180917 TTTAAAATTT
* *
4180927 TTTTTTG-GATTATTAAATGCATCTTTTAATGAAAAATGCCTTCAATATTTCACTACTCAAATTT
1 TTTTTTGAGATTATTAAAGGCATCTTCTAATGAAAAATGCCTTCAATATTTCACTACTCAAATTT
* * * * *
4180991 TAAGACGGTTAGTGAAGACGTTTATTCTAGAAAAATATCTTCACTAATTTCTTTTAATTTATGTA
66 TAAGACGCTCAGTGAAGACGTTTATTATAGAAAAATACCTCCACTAATTTCTTTTAATTTATGTA
*
4181056 CATAATTATTAAAGGCATTTTTTAGAACAAATACCTTCAATAATTTTTTTTAAAATTTTTTGAGA
131 CATAATTATTAAAGGCATTTTTTAGAACAAACACCTTCAATAATTTTTTTTAAAATTTTTTGAGA
** ** *
4181121 TTATTAAAGATGTCTTCTAGTGAAAATGCTTTCAATATACCAGTACTCAAATTTTAAGACGATTA
196 TTATTAAAGACATCTTCTAGTGAAAAAACTTTCAATATACCACTACTCAAATTTTAAGACGATTA
** * *
4181186 GTAAAGGCATTTATTCAACGGTTAGTAAAGGCATTTATTCCAGAAAAATATCTTTAATAAATTTC
261 GTAAAGGCATTTATT--A---TTAGTAAAAACATTTA-TCCAGAAAAATAGCTTTAATAAAATTC
* *
4181251 TTTTAAAA
320 ATTGAAAA
*
4181259 ATTTTTGAGATTATTAAAGGCATCTTCTAATGAAAAATGCCTTCAATATTTCACTACTCAAATTT
1 TTTTTTGAGATTATTAAAGGCATCTTCTAATGAAAAATGCCTTCAATATTTCACTACTCAAATTT
* * *
4181324 TAAGATGCTCAGTGAAGGCGTTTATTATAGAAAAATACCTCCACTAATTTTTTTTAATTTATGTA
66 TAAGACGCTCAGTGAAGACGTTTATTATAGAAAAATACCTCCACTAATTTCTTTTAATTTATGTA
* * ** * * *
4181389 CATAATTTTTGAAGGTGTTTTTTGAGAATAAACATCTTTAATAATTTTCTTTTAAAA-TTTTTGA
131 CATAATTATTAAAGGCATTTTTT-AGAACAAACACCTTCAATAATTTT-TTTTAAAATTTTTTGA
* * * * * * *
4181453 GATTATTAAAGACATTTTCTAGT-AAAAAACATCTTCATTATTCGACTACTTAAATTTTATGATG
194 GATTATTAAAGACATCTTCTAGTGAAAAAAC-T-TTCAATATACCACTACTCAAATTTTAAGACG
* *
4181517 ATTAGTGAAGGCGTTTATT-TTAG-AAAAACA
257 ATTAGTAAAGGCATTTATTATTAGTAAAAACA
4181547 CCTTTACTAG
Statistics
Matches: 248, Mismatches: 35, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
328 5 0.02
329 4 0.02
332 6 0.02
333 136 0.55
334 48 0.19
335 49 0.20
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (327 bp):
TTTTTTGAGATTATTAAAGGCATCTTCTAATGAAAAATGCCTTCAATATTTCACTACTCAAATTT
TAAGACGCTCAGTGAAGACGTTTATTATAGAAAAATACCTCCACTAATTTCTTTTAATTTATGTA
CATAATTATTAAAGGCATTTTTTAGAACAAACACCTTCAATAATTTTTTTTAAAATTTTTTGAGA
TTATTAAAGACATCTTCTAGTGAAAAAACTTTCAATATACCACTACTCAAATTTTAAGACGATTA
GTAAAGGCATTTATTATTAGTAAAAACATTTATCCAGAAAAATAGCTTTAATAAAATTCATTGAA
AA
Found at i:4184087 original size:38 final size:38
Alignment explanation
Indices: 4184040--4184117 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
4184030 TAATTAATGC
* * *
4184040 ATGACAAAACTCCCTCTCAATTTGTGCATCCTAATCCA
1 ATGAAAAAACTCCCCCTCAATTTATGCATCCTAATCCA
*
4184078 ATGAAAAAACTCCCCCTCATTTTATGCATCCTAATCCA
1 ATGAAAAAACTCCCCCTCAATTTATGCATCCTAATCCA
4184116 AT
1 AT
4184118 ACAACTTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.29
Consensus pattern (38 bp):
ATGAAAAAACTCCCCCTCAATTTATGCATCCTAATCCA
Found at i:4184173 original size:23 final size:25
Alignment explanation
Indices: 4184141--4184193 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
4184131 CATATGCTAG
*
4184141 TCAAATATATGAAT-T-AAGCACAA
1 TCAAACATATGAATGTCAAGCACAA
*
4184164 TCAAACATATGCATGTCAAGCACAA
1 TCAAACATATGAATGTCAAGCACAA
*
4184189 GCAAA
1 TCAAA
4184194 TTTGTCTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.48
24 1 0.04
25 12 0.48
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (25 bp):
TCAAACATATGAATGTCAAGCACAA
Found at i:4184755 original size:16 final size:16
Alignment explanation
Indices: 4184721--4184782 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
4184711 ATACAAGCTT
**
4184721 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
4184737 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
* * *
4184753 ATATGCTA-TGATAAAG
1 ATA-CCAATTGTTAAAG
4184769 CATACCAATTGTTA
1 -ATACCAATTGTTA
4184783 TCACAAAACA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
16 26 0.74
17 9 0.26
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:4189751 original size:28 final size:25
Alignment explanation
Indices: 4189686--4189807 Score: 104
Period size: 28 Copynumber: 4.7 Consensus size: 25
4189676 TTTAAATATT
* *
4189686 ATGGTTTGCTAAATGGTATTATGTGA
1 ATGGTTTGCTGAATGGTATTGT-TGA
*
4189712 TATTGTTTTGCTGAATGGTATTGTATGA
1 -A-TGGTTTGCTGAATGGTATTGT-TGA
* **
4189740 TATTGGTATGCTGAATCATA-TGTTGA
1 -A-TGGTTTGCTGAATGGTATTGTTGA
*
4189766 ATGGTTTGCTGAATGGTGTT-TCTGA
1 ATGGTTTGCTGAATGGTATTGT-TGA
4189791 ATGGTTTGCTGAATGGT
1 ATGGTTTGCTGAATGGT
4189808 GTTTCTGAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
24 14 0.17
25 22 0.28
26 3 0.04
27 4 0.05
28 37 0.46
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (25 bp):
ATGGTTTGCTGAATGGTATTGTTGA
Found at i:4189792 original size:13 final size:12
Alignment explanation
Indices: 4189763--4189807 Score: 72
Period size: 12 Copynumber: 3.7 Consensus size: 12
4189753 AATCATATGT
4189763 TGAATGGTTTGC
1 TGAATGGTTTGC
*
4189775 TGAATGGTGTTTC
1 TGAATGGT-TTGC
4189788 TGAATGGTTTGC
1 TGAATGGTTTGC
4189800 TGAATGGT
1 TGAATGGT
4189808 GTTTCTGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.18, C:0.07, G:0.33, T:0.42
Consensus pattern (12 bp):
TGAATGGTTTGC
Found at i:4189795 original size:25 final size:25
Alignment explanation
Indices: 4189763--4189816 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
4189753 AATCATATGT
4189763 TGAATGGTTTGCTGAATGGTGTTTC
1 TGAATGGTTTGCTGAATGGTGTTTC
4189788 TGAATGGTTTGCTGAATGGTGTTTC
1 TGAATGGTTTGCTGAATGGTGTTTC
4189813 TGAA
1 TGAA
4189817 CATATTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.19, C:0.07, G:0.31, T:0.43
Consensus pattern (25 bp):
TGAATGGTTTGCTGAATGGTGTTTC
Found at i:4193702 original size:305 final size:302
Alignment explanation
Indices: 4193126--4194036 Score: 1001
Period size: 305 Copynumber: 3.0 Consensus size: 302
4193116 TGAAAGTATT
* * * *
4193126 TTTAGCAAGAAAACGCCTTGAATCATCCCTAACAAAATGTTATTGAAGGCATTTTTAACCAAAAC
1 TTTAGCAAGAAAATGCCTTGAATAATCCTTAACAAAATGTTATTGAAGGCATTTTT-ACCAAAAT
* * * * * ** *
4193191 CACCTTCAATAATCCCA-TCTAAAAATATATTGTGTGGAATACTAAAGGCGCTTTGGGACAAAAA
65 CGCCTTCAATAATCTCACTATAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGGGCCAAAAA
* ** * * * * * * *
4193255 CGCTTTTAAGAATCCATTCCAAATATTGTGTATGGATTATTAAAAGCAATTTTGACAAAAATCAT
130 CGCTTTCAAGAATCTGTTCCAACTTTTGTGTATGGATTATTGAAGGCATTTTTTAAAAAAATCA-
* * ** * * *
4193320 CTTGAATAATCTCTG-TTAAAAATTTATTGATTGGATTATTGAAGGTGCTTTCACGAAAACACGC
194 CTTTAATAATCTC-GACTAAAAATTTATTGATTGGATTATTGAAGGCACTTTGAC-AAAAAATGC
* *
4193384 CTTTAAGAATCCATTCCATATTTTTCTTATGGATTATTAAGGGCATA
257 CTTCAAAAATCCATTCCATATTTTT-TTATGGATTATTAAGGGCATA
* *
4193431 TTTAGCAAGAAAATGCCTTAAATAATCCTTAACAAAATGTTATTAAAGGCATTTGTTACCAAAAT
1 TTTAGCAAGAAAATGCCTTGAATAATCCTTAACAAAATGTTATTGAAGGCATTT-TTACCAAAAT
4193496 CGCCTTCAATAATCTCACT-TAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGGGCCAAAAA
65 CGCCTTCAATAATCTCACTATAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGGGCCAAAAA
* * *
4193560 TGCTTTCAAGAATTTGTTCCAACTTTTTTGTATGGATTATTGAAGGCATTTTTTAAAAAAATCAC
130 CGCTTTCAAGAATCTGTTCCAACTTTTGTGTATGGATTATTGAAGGCATTTTTTAAAAAAATCAC
* * * * *
4193625 TTTCAATAATAC-CGACTAAAAATTAATTAAATGGATTATTGAAGGCACTTTTGGCTAAAAATGC
195 TTT-AATAAT-CTCGACTAAAAATTTATTGATTGGATTATTGAAGGCAC-TTTGACAAAAAATGC
* * * *
4193689 CTTCAATAATCCATTCCATATTTTTTTTATGGATTATTAAAGGCGTT
257 CTTCAAAAATCCATTCCATA-TTTTTTTATGGATTATTAAGGGCATA
* * * *
4193736 TTTCTGTC-AG-AAATGCCTTGAATAATCCTTAACAAAATGTTATTGAAGGTATTTTGACAAAAA
1 TTT-AG-CAAGAAAATGCCTTGAATAATCCTTAACAAAATGTTATTGAAGGCATTTTTACCAAAA
* * ** * *
4193799 TCGTCTTCAATAATCTGACTATTCAAATTTATTGTGTGAAATATTAAAGGCATTTTGAGCCAAAA
64 TCGCCTTCAATAATCTCACTATAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGGGCCAAAA
* * *
4193864 ACACCTACAAGAATCTGTTCCAACTTTTGTGTATGGATTATTGAAGG--TGTTTTTAACAAAAAT
129 ACGCTTTCAAGAATCTGTTCCAACTTTTGTGTATGGATTATTGAAGGCAT-TTTTTAA-AAAAAT
* ** * *
4193927 CGCCTTTAATAATCTAAACTAAAAATTTATTGATTGGATTATTGAAAGCGAGTTTGACAAAAAAT
192 C-ACTTTAATAATCTCGACTAAAAATTTATTGATTGGATTATTGAAGGC-ACTTTGACAAAAAAT
* ** ** *
4193992 GCTTTCAAAAATTGATTTTATATTTTTTTATGGGTTATTAAGGGC
255 GCCTTCAAAAATCCATTCCATATTTTTTTATGGATTATTAAGGGC
4194037 GTTTTTATGC
Statistics
Matches: 512, Mismatches: 79, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
303 1 0.00
304 58 0.11
305 431 0.84
306 21 0.04
307 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (302 bp):
TTTAGCAAGAAAATGCCTTGAATAATCCTTAACAAAATGTTATTGAAGGCATTTTTACCAAAATC
GCCTTCAATAATCTCACTATAAAAATTTATTGTGTGGAATATTAAAGGCATTTTGGGCCAAAAAC
GCTTTCAAGAATCTGTTCCAACTTTTGTGTATGGATTATTGAAGGCATTTTTTAAAAAAATCACT
TTAATAATCTCGACTAAAAATTTATTGATTGGATTATTGAAGGCACTTTGACAAAAAATGCCTTC
AAAAATCCATTCCATATTTTTTTATGGATTATTAAGGGCATA
Found at i:4196559 original size:24 final size:24
Alignment explanation
Indices: 4196512--4196559 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4196502 CCAACTTCAG
* * *
4196512 TATTTTTTTATTTTATTTTATATT
1 TATTTATTTATTTGATTATATATT
*
4196536 TATTTATTTATTTGATTATCTATT
1 TATTTATTTATTTGATTATATATT
4196560 ATTCTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (24 bp):
TATTTATTTATTTGATTATATATT
Found at i:4199003 original size:83 final size:83
Alignment explanation
Indices: 4198910--4199169 Score: 269
Period size: 83 Copynumber: 3.1 Consensus size: 83
4198900 ACCTCTGGGT
* *
4198910 GTAATCTCTAAGTCTTTTGGGCAAGATTCGTAAGTTTTTCGAGCTAAATCTATTTTAAAGTTTG-
1 GTAATTTCTAAGTCTTTTAGGCAAGATTCGTAAGTTTTT-GAGCTAAATCTATTTTAAAG-TTGA
*
4198974 G-TTTGTAAAACCTTCGTGC
64 GATTTGTAAAACCTTCGGGC
* * * * * *
4198993 GTTATTTCTAAGTCTTCTAGGCAATATTCGTAAGTCTTTTGAGCTGAATTTATTTTACAGTTGAG
1 GTAATTTCTAAGTCTTTTAGGCAAGATTCGTAAGT-TTTTGAGCTAAATCTATTTTAAAGTTGAG
*
4199058 ATTTGTAAGACCTTCGGGC
65 ATTTGTAAAACCTTCGGGC
* * * * * *
4199077 GTAATTT-TAAGTCTTTCAAGCAAGATTCGTAAGTTTTTTGAGC-GAAT-TGGTTTTAGAGTCGA
1 GTAATTTCTAAGTCTTTTAGGCAAGATTCGTAAG-TTTTTGAGCTAAATCT-ATTTTAAAGTTGA
*
4199139 GATTTGTAAAACCTTTGGGC
64 GATTTGTAAAACCTTCGGGC
* *
4199159 ATAATCTCTAA
1 GTAATTTCTAA
4199170 TACTTCCAAG
Statistics
Matches: 149, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
81 1 0.01
82 40 0.27
83 81 0.54
84 27 0.18
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.40
Consensus pattern (83 bp):
GTAATTTCTAAGTCTTTTAGGCAAGATTCGTAAGTTTTTGAGCTAAATCTATTTTAAAGTTGAGA
TTTGTAAAACCTTCGGGC
Found at i:4200271 original size:25 final size:23
Alignment explanation
Indices: 4200221--4200272 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
4200211 TATTTTATTT
*
4200221 TATTTTATTTTTATTTATTTAAC
1 TATTTTATTTTTATTTACTTAAC
* *
4200244 TATTTTATTTATTTATTTGCTTATC
1 TATTTTA-TT-TTTATTTACTTAAC
4200269 TATT
1 TATT
4200273 ATTCTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.29
24 2 0.08
25 15 0.62
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTTATTTTTATTTACTTAAC
Found at i:4200311 original size:16 final size:16
Alignment explanation
Indices: 4200280--4200313 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4200270 ATTATTCTTT
**
4200280 AAATATATTTTTATAA
1 AAATATATTTAAATAA
4200296 AAATATATTTAAATAA
1 AAATATATTTAAATAA
4200312 AA
1 AA
4200314 GCCTTACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATATTTAAATAA
Found at i:4206720 original size:23 final size:21
Alignment explanation
Indices: 4206694--4206744 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
4206684 CTATACAAAA
*
4206694 TACACAACAAACAATTAAATTAG
1 TACACAACAAA-AATTAAA-TAC
**
4206717 TACACATGAAAAATTAAATAC
1 TACACAACAAAAATTAAATAC
4206738 TACACAA
1 TACACAA
4206745 AAATACAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 8 0.33
22 7 0.29
23 9 0.38
ACGTcount: A:0.57, C:0.18, G:0.04, T:0.22
Consensus pattern (21 bp):
TACACAACAAAAATTAAATAC
Found at i:4207417 original size:24 final size:23
Alignment explanation
Indices: 4207390--4207520 Score: 90
Period size: 24 Copynumber: 5.7 Consensus size: 23
4207380 AAAGTGTCAT
4207390 AAAATATCATAAAAATATCATGCA
1 AAAATATCATAAAAA-ATCATGCA
* *
4207414 AAAATATTATAAAAAAATCATGTA
1 AAAATATCAT-AAAAAATCATGCA
* *
4207438 TTAAA-ATCAT---AAATCATCCA
1 -AAAATATCATAAAAAATCATGCA
* * *
4207458 ATAATACCATAATAAATCATGCA
1 AAAATATCATAAAAAATCATGCA
* * *
4207481 AAAGTGTACAAATAAAAATCATGCA
1 AAAATAT-CATA-AAAAATCATGCA
*
4207506 ATAATATCATAAAAA
1 AAAATATCATAAAAA
4207521 TATAAAATAT
Statistics
Matches: 79, Mismatches: 20, Indels: 17
0.68 0.17 0.15
Matches are distributed among these distances:
19 2 0.03
20 12 0.15
23 16 0.20
24 26 0.33
25 23 0.29
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.26
Consensus pattern (23 bp):
AAAATATCATAAAAAATCATGCA
Found at i:4207418 original size:13 final size:11
Alignment explanation
Indices: 4207386--4207434 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
4207376 TGTCAAAGTG
4207386 TCAT-AAAATA
1 TCATAAAAATA
4207396 TCATAAAAATA
1 TCATAAAAATA
4207407 TCATGCAAAAATA
1 TCAT--AAAAATA
* *
4207420 TTATAAAAAAA
1 TCATAAAAATA
4207431 TCAT
1 TCAT
4207435 GTATTAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 4 0.12
11 19 0.58
13 10 0.30
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (11 bp):
TCATAAAAATA
Found at i:4207649 original size:17 final size:18
Alignment explanation
Indices: 4207629--4207674 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
4207619 AAAAATATTT
4207629 TAAAAAATAAAA-TAAAA
1 TAAAAAATAAAATTAAAA
4207646 TAAAATAA-AAAATTAAAA
1 TAAAA-AATAAAATTAAAA
*
4207664 -AAAAAGTAAAA
1 TAAAAAATAAAA
4207675 CTTTACGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 17 0.68
18 7 0.28
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (18 bp):
TAAAAAATAAAATTAAAA
Found at i:4207668 original size:18 final size:18
Alignment explanation
Indices: 4207637--4207674 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4207627 TTTAAAAAAT
*
4207637 AAAATAAAATAAAA-TAA
1 AAAATAAAAAAAAAGTAA
4207654 AAAATTAAAAAAAAAGTAA
1 AAAA-TAAAAAAAAAGTAA
4207673 AA
1 AA
4207675 CTTTACGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAATAAAAAAAAAGTAA
Found at i:4208583 original size:22 final size:23
Alignment explanation
Indices: 4208558--4208603 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4208548 TTTTTTGACT
4208558 AAATAACAAAAATAAAA-AATAA
1 AAATAACAAAAATAAAATAATAA
** *
4208580 AAATATTAGAAATAAAATAATAA
1 AAATAACAAAAATAAAATAATAA
4208603 A
1 A
4208604 TGAATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (23 bp):
AAATAACAAAAATAAAATAATAA
Found at i:4209605 original size:18 final size:20
Alignment explanation
Indices: 4209582--4209627 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4209572 CAAAATTACA
4209582 ATTTTTATA-TTTTA-TTTC
1 ATTTTTATATTTTTATTTTC
* *
4209600 ATTTTTTTATTTTTATTTTT
1 ATTTTTATATTTTTATTTTC
4209620 ATTTTTAT
1 ATTTTTAT
4209628 CTTCACAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 5 0.22
20 10 0.43
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (20 bp):
ATTTTTATATTTTTATTTTC
Found at i:4209614 original size:6 final size:6
Alignment explanation
Indices: 4209582--4209627 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
4209572 CAAAATTACA
4209582 ATTTTT ATATTTT ATTTCATT -TTTTT ATTTTT ATTTTT ATTTTT AT
1 ATTTTT AT-TTTT ATTT--TT ATTTTT ATTTTT ATTTTT ATTTTT AT
4209628 CTTCACAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 2 0.06
6 23 0.64
7 9 0.25
8 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:4209717 original size:6 final size:6
Alignment explanation
Indices: 4209702--4209731 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4209692 TTGTTTTTTT
*
4209702 ATTTCG ATTTCA ATTTCA ATTTCA ATTTCA
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA
4209732 TCTTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTTCA
Found at i:4210134 original size:15 final size:15
Alignment explanation
Indices: 4210111--4210145 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4210101 ATCAATTTTT
* *
4210111 TTTTATTTTTGGAAA
1 TTTTCTTTTTGAAAA
4210126 TTTTCTTTTTGAAAA
1 TTTTCTTTTTGAAAA
4210141 TTTTC
1 TTTTC
4210146 CAAAATCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.63
Consensus pattern (15 bp):
TTTTCTTTTTGAAAA
Found at i:4211327 original size:44 final size:44
Alignment explanation
Indices: 4211265--4211354 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
4211255 AATAATTATA
4211265 TATATATATATATATATAGCCTTACCTACACATCCTTAGATACT
1 TATATATATATATATATAGCCTTACCTACACATCCTTAGATACT
4211309 TATATATATATATATATAGCCTTACCTACACATCCTTAGATACT
1 TATATATATATATATATAGCCTTACCTACACATCCTTAGATACT
4211353 TA
1 TA
4211355 AGAAGAGCCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (44 bp):
TATATATATATATATATAGCCTTACCTACACATCCTTAGATACT
Found at i:4220382 original size:7 final size:6
Alignment explanation
Indices: 4220360--4220443 Score: 71
Period size: 6 Copynumber: 13.3 Consensus size: 6
4220350 AAGAGACCAG
* * *
4220360 AAAATA AAAATA AAAATA CAAAATA AATACA AAAATAA AAAATA ATAATAA
1 AAAATA AAAATA AAAATA -AAAATA AAAATA AAAAT-A AAAATA AAAAT-A
* *
4220411 AAAATA AAAA-A TAGAATAA AAAATA AAATTA AA
1 AAAATA AAAATA -AAAAT-A AAAATA AAAATA AA
4220444 TTAAAACTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
5 1 0.02
6 40 0.63
7 21 0.33
8 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:4220384 original size:19 final size:19
Alignment explanation
Indices: 4220360--4220438 Score: 88
Period size: 19 Copynumber: 4.1 Consensus size: 19
4220350 AAGAGACCAG
*
4220360 AAAATAAAAATAAAAATAC
1 AAAATAAAAATAAAAATAA
* *
4220379 AAAATAAATACAAAAATAA
1 AAAATAAAAATAAAAATAA
*
4220398 AAAATAATAATAAAAAATAA
1 AAAATAAAAAT-AAAAATAA
*
4220418 AAAAT-AGAATAAAAAATAA
1 AAAATAAAAAT-AAAAATAA
4220437 AA
1 AA
4220439 TTAAATTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
19 39 0.75
20 13 0.25
ACGTcount: A:0.80, C:0.03, G:0.01, T:0.16
Consensus pattern (19 bp):
AAAATAAAAATAAAAATAA
Found at i:4220415 original size:32 final size:30
Alignment explanation
Indices: 4220360--4220443 Score: 98
Period size: 32 Copynumber: 2.7 Consensus size: 30
4220350 AAGAGACCAG
*
4220360 AAAAT-AAAAATAAAAATACAAAATAAATACA
1 AAAATAAAAAATAAAAATAAAAAATAAA-A-A
*
4220391 AAAATAAAAAATAATAATAAAAAATAAAAA
1 AAAATAAAAAATAAAAATAAAAAATAAAAA
*
4220421 ATAGAATAAAAAATAAAATTAAA
1 A-A-AATAAAAAATAAAAATAAA
4220444 TTAAAACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 2 0.04
31 7 0.15
32 37 0.80
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.18
Consensus pattern (30 bp):
AAAATAAAAAATAAAAATAAAAAATAAAAA
Found at i:4220653 original size:1 final size:1
Alignment explanation
Indices: 4220647--4220690 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
4220637 ACTCAACACC
* * * *
4220647 TTTTTTTTTGTTTTTTTTCTTTTTTTGTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4220691 GAAAAGAAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:4220671 original size:17 final size:18
Alignment explanation
Indices: 4220649--4220691 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
4220639 TCAACACCTT
4220649 TTTTTTTGTTTT-TTTTC
1 TTTTTTTGTTTTGTTTTC
*
4220666 TTTTTTTGTTTTGTTTTT
1 TTTTTTTGTTTTGTTTTC
4220684 TTTTTTTG
1 TTTTTTTG
4220692 AAAAGAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.88
Consensus pattern (18 bp):
TTTTTTTGTTTTGTTTTC
Found at i:4220677 original size:22 final size:20
Alignment explanation
Indices: 4220647--4220690 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 20
4220637 ACTCAACACC
4220647 TTTTTTTTTGTTTTTTTTCTT
1 TTTTTTTTTGTTTTTTTT-TT
4220668 TTTTTGTTTTGTTTTTTTTTT
1 TTTTT-TTTTGTTTTTTTTTT
4220689 TT
1 TT
4220691 GAAAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (20 bp):
TTTTTTTTTGTTTTTTTTTT
Found at i:4220847 original size:42 final size:42
Alignment explanation
Indices: 4220723--4221291 Score: 718
Period size: 42 Copynumber: 13.6 Consensus size: 42
4220713 CTCTAAACAA
* *
4220723 AGGCAACAGAAC-TTTGGGAAAATGAATGGCTCCTCTGAATAG
1 AGGCAAC-GAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * *
4220765 AGGCAACGAACTTTT-AAAAAATAAATGGCTCTTCTAAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * *
4220806 AGGCAACGGACTTTTGAGAAAATAAATAGCTCATCTGAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* *
4220848 AGGCAACGAACTTCT-AAAAAATAAATGGCTCCTCTGAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * * *
4220889 AGGCAATGAACTTTTGAAAAAATAAATGGCTCATTTGAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * *
4220931 AGGTAACGAACTTCT-AGAAAATAAATGGCTCATCTGAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * *
4220972 AGGCAATGAACTTTTGAGAAAATAAACGGCTCCTCTGAATAA
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * *
4221014 AGGTAACGAACTTTTAAGAAAATAAATGGCTCCTTTGAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * ** *
4221056 AGGCAACAAACTTCT-AGAAAATAAATGGCTTTTCTAAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
4221097 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * *
4221139 AGGCAACGAACTTTTAAAAAAAATAAATGGCTCCTCTAAATAG
1 AGGCAACGAACTTTT-GAGAAAATAAATGGCTCCTCTGAATAG
*
4221182 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAA
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* * * ** *
4221224 AGACAATGAACTTTTAAGAAAATAAATTACTCTTCTGAATAG
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
* *
4221266 AGGCAATGAACTTTT-AAAAAATAAAT
1 AGGCAACGAACTTTTGAGAAAATAAAT
4221292 AAAGGCAATA
Statistics
Matches: 457, Mismatches: 64, Indels: 13
0.86 0.12 0.02
Matches are distributed among these distances:
41 156 0.34
42 262 0.57
43 39 0.09
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (42 bp):
AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAG
Found at i:4220853 original size:83 final size:83
Alignment explanation
Indices: 4220723--4221291 Score: 728
Period size: 83 Copynumber: 6.8 Consensus size: 83
4220713 CTCTAAACAA
* *
4220723 AGGCAACAGAAC-TTTGGGAAAATGAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAAT
1 AGGCAAC-GAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAAT
* *
4220787 AAATGGCTCTTCTAAATAG
65 AAATGGCTCCTCTGAATAG
* * * *
4220806 AGGCAACGGACTTTTGAGAAAATAAATAGCTCATCTGAATAGAGGCAACGAACTTCTAAAAAATA
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAATA
4220871 AATGGCTCCTCTGAATAG
66 AATGGCTCCTCTGAATAG
* * * * * * *
4220889 AGGCAATGAACTTTTGAAAAAATAAATGGCTCATTTGAATAGAGGTAACGAACTTCTAGAAAATA
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAATA
*
4220954 AATGGCTCATCTGAATAG
66 AATGGCTCCTCTGAATAG
* * * *
4220972 AGGCAATGAACTTTTGAGAAAATAAACGGCTCCTCTGAATAAAGGTAACGAACTTTTAAGAAAAT
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAA-AAAAT
*
4221037 AAATGGCTCCTTTGAATAG
65 AAATGGCTCCTCTGAATAG
* * ** * *
4221056 AGGCAACAAACTTCT-AGAAAATAAATGGCTTTTCTAAATAGAGGCAACGAACTTTTGAGAAAAT
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTT-AAAAAAT
4221120 AAATGGCTCCTCTGAATAG
65 AAATGGCTCCTCTGAATAG
* * * *
4221139 AGGCAACGAACTTTTAAAAAAAATAAATGGCTCCTCTAAATAGAGGCAACGAACTTTTGAGAAAA
1 AGGCAACGAACTTTT-GAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTT-AAAAAA
*
4221204 TAAATGGCTCCTCTGAATAA
64 TAAATGGCTCCTCTGAATAG
* * * ** * *
4221224 AGACAATGAACTTTTAAGAAAATAAATTACTCTTCTGAATAGAGGCAATGAACTTTTAAAAAATA
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAATA
4221289 AAT
66 AAT
4221292 AAAGGCAATA
Statistics
Matches: 430, Mismatches: 51, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
82 3 0.01
83 279 0.65
84 71 0.17
85 77 0.18
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (83 bp):
AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAATA
AATGGCTCCTCTGAATAG
Found at i:4221025 original size:125 final size:125
Alignment explanation
Indices: 4220723--4221291 Score: 770
Period size: 125 Copynumber: 4.5 Consensus size: 125
4220713 CTCTAAACAA
* *
4220723 AGGCAACAGAAC-TTTGGGAAAATGAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAAT
1 AGGCAAC-GAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAAT
* * *
4220787 AAATGGCT-CTTCTAAATAGAGGCAACGGACTTTTGAGAAAATAAATAGCTCATCTGAATAG
65 AAATGGCTCCTT-TAAATAGAGGCAACGAACTTCTGAGAAAATAAATGGCTCATCTGAATAG
* * *
4220848 AGGCAACGAACTTCT-AAAAAATAAATGGCTCCTCTGAATAGAGGCAATGAACTTTTGAAAAAAT
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTT-AAAAAAT
* * *
4220912 AAATGGCTCATTTGAATAGAGGTAACGAACTTCT-AGAAAATAAATGGCTCATCTGAATAG
65 AAATGGCTCCTTTAAATAGAGGCAACGAACTTCTGAGAAAATAAATGGCTCATCTGAATAG
* * * *
4220972 AGGCAATGAACTTTTGAGAAAATAAACGGCTCCTCTGAATAAAGGTAACGAACTTTTAAGAAAAT
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAA-AAAAT
* * ** *
4221037 AAATGGCTCCTTTGAATAGAGGCAACAAACTTCT-AGAAAATAAATGGCTTTTCTAAATAG
65 AAATGGCTCCTTTAAATAGAGGCAACGAACTTCTGAGAAAATAAATGGCTCATCTGAATAG
4221097 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAAAA
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTT--AAAAAA
* * * *
4221162 TAAATGGCTCCTCTAAATAGAGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAA
64 TAAATGGCTCCTTTAAATAGAGGCAACGAACTTCTGAGAAAATAAATGGCTCATCTGAATAG
* * * ** * *
4221224 AGACAATGAACTTTTAAGAAAATAAATTACTCTTCTGAATAGAGGCAATGAACTTTTAAAAAATA
1 AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAATA
4221289 AAT
66 AAT
4221292 AAAGGCAATA
Statistics
Matches: 393, Mismatches: 43, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
124 81 0.21
125 201 0.51
126 37 0.09
127 74 0.19
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (125 bp):
AGGCAACGAACTTTTGAGAAAATAAATGGCTCCTCTGAATAGAGGCAACGAACTTTTAAAAAATA
AATGGCTCCTTTAAATAGAGGCAACGAACTTCTGAGAAAATAAATGGCTCATCTGAATAG
Found at i:4221305 original size:28 final size:28
Alignment explanation
Indices: 4221261--4221319 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
4221251 TACTCTTCTG
* * *
4221261 AATAGAGGCAATGAACTTTTAAAAAATA
1 AATAAAGGCAATAAACTTTGAAAAAATA
*
4221289 AATAAAGGCAATAAACTTTGAGAAAATA
1 AATAAAGGCAATAAACTTTGAAAAAATA
4221317 AAT
1 AAT
4221320 GGCTCCTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.24
Consensus pattern (28 bp):
AATAAAGGCAATAAACTTTGAAAAAATA
Found at i:4221334 original size:69 final size:70
Alignment explanation
Indices: 4221219--4221353 Score: 191
Period size: 69 Copynumber: 1.9 Consensus size: 70
4221209 GGCTCCTCTG
* * * *
4221219 AATAAAGACAATGAACTTTTAAGAAAATAAATTACTCTTCTGAATAGAGGCAATGAACTTTTAAA
1 AATAAAGACAATAAACTTTTAAGAAAATAAATGACTCCTCTGAATAGAGGCAATGAACTTTGAAA
4221284 AAATA
66 AAATA
* * * *
4221289 AATAAAGGCAATAAAC-TTTGAGAAAATAAATGGCTCCTCTTAATAGAGGCAATGAACTTTGAAA
1 AATAAAGACAATAAACTTTTAAGAAAATAAATGACTCCTCTGAATAGAGGCAATGAACTTTGAAA
4221353 A
66 A
4221354 TAAATGGCTC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
69 43 0.75
70 14 0.25
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (70 bp):
AATAAAGACAATAAACTTTTAAGAAAATAAATGACTCCTCTGAATAGAGGCAATGAACTTTGAAA
AAATA
Found at i:4233170 original size:9 final size:8
Alignment explanation
Indices: 4233150--4233193 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 8
4233140 TTCAAATTTT
*
4233150 TTTTTATA
1 TTTTTATG
4233158 TTTTTATG
1 TTTTTATG
4233166 CTTTTTATG
1 -TTTTTATG
4233175 TTTTTAATG
1 TTTTT-ATG
4233184 TTTTT-TG
1 TTTTTATG
4233191 TTT
1 TTT
4233194 GAAAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
7 5 0.15
8 12 0.36
9 16 0.48
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (8 bp):
TTTTTATG
Found at i:4233187 original size:17 final size:17
Alignment explanation
Indices: 4233150--4233193 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4233140 TTCAAATTTT
*
4233150 TTTTTATATTTTTATGC
1 TTTTTATGTTTTTATGC
4233167 TTTTTATGTTTTTAATG-
1 TTTTTATGTTTTT-ATGC
4233184 TTTTT-TGTTT
1 TTTTTATGTTT
4233194 GAAAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 17 0.68
18 3 0.12
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (17 bp):
TTTTTATGTTTTTATGC
Found at i:4233732 original size:15 final size:14
Alignment explanation
Indices: 4233701--4233739 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
4233691 AAATGCGCCT
4233701 TCTTCCTTCTTTCC
1 TCTTCCTTCTTTCC
* *
4233715 TCTCTCCTTTTTTTC
1 TCT-TCCTTCTTTCC
4233730 TCTTCCTTCT
1 TCTTCCTTCT
4233740 CTCTATCTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (14 bp):
TCTTCCTTCTTTCC
Found at i:4234133 original size:19 final size:19
Alignment explanation
Indices: 4234109--4234166 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
4234099 TGGGATTCAA
*
4234109 TTGAATCCTAATTCAATCC
1 TTGAATCCCAATTCAATCC
4234128 TTGAATCCCAATTCAATCC
1 TTGAATCCCAATTCAATCC
4234147 TTGAATCCCAATTCAATCC
1 TTGAATCCCAATTCAATCC
4234166 T
1 T
4234167 ATCACTCCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.34
Consensus pattern (19 bp):
TTGAATCCCAATTCAATCC
Found at i:4234260 original size:20 final size:20
Alignment explanation
Indices: 4234237--4234310 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 20
4234227 AAAAAATAAA
4234237 AATAAATAAATAAATACGAA-
1 AATAAATAAATAAATA-GAAT
* *
4234257 AATAAA-AAATTAATAATAAT
1 AATAAATAAATAAAT-AGAAT
*
4234277 AATAAATCAA-AAATAGAAT
1 AATAAATAAATAAATAGAAT
*
4234296 AAAAAATAAAATAAA
1 AATAAAT-AAATAAA
4234311 ATTAAAACTA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 19 0.45
20 18 0.43
21 5 0.12
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.22
Consensus pattern (20 bp):
AATAAATAAATAAATAGAAT
Found at i:4234283 original size:40 final size:34
Alignment explanation
Indices: 4234229--4234316 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 34
4234219 AAGAGATCAA
4234229 AAAATAAAAATAAATAAATAAATACGAAAATAAAAAATT
1 AAAATAAAAATAAATAAA-AAATA-G--AATAAAAAA-T
* *
4234268 AATAATAATAATAAATCAAAAATAGAATAAAAAAT
1 AA-AATAAAAATAAATAAAAAATAGAATAAAAAAT
*
4234303 AAAATAAAATTAAA
1 AAAATAAAAATAAA
4234317 ACTAAAATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
34 10 0.23
35 3 0.07
36 9 0.20
38 1 0.02
39 7 0.16
40 14 0.32
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (34 bp):
AAAATAAAAATAAATAAAAAATAGAATAAAAAAT
Found at i:4234302 original size:12 final size:11
Alignment explanation
Indices: 4234227--4234311 Score: 66
Period size: 12 Copynumber: 7.4 Consensus size: 11
4234217 TCAAGAGATC
4234227 AAAAAATAAA-
1 AAAAAATAAAT
*
4234237 AATAAATAAAT
1 AAAAAATAAAT
*
4234248 AAATACGA-AAAT
1 AAA-A-AATAAAT
*
4234260 AAAAAATTAAT
1 AAAAAATAAAT
4234271 AATAATAATAAAT
1 AA-AA-AATAAAT
*
4234284 CAAAAATAGAAT
1 AAAAAATA-AAT
4234296 AAAAAATAAAAT
1 AAAAAAT-AAAT
4234308 AAAA
1 AAAA
4234312 TTAAAACTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
10 10 0.17
11 12 0.20
12 28 0.47
13 9 0.15
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:4234307 original size:17 final size:16
Alignment explanation
Indices: 4234227--4234324 Score: 65
Period size: 17 Copynumber: 5.8 Consensus size: 16
4234217 TCAAGAGATC
4234227 AAAAAATAAAAATAAAT
1 AAAAAAT-AAAATAAAT
**
4234244 AAATAAATACGA-AAAT
1 AAA-AAATAAAATAAAT
4234260 AAAAAATTAATAAT-AAT
1 AAAAAA-TAA-AATAAAT
*
4234277 AATAAATCAAAAATAGAAT
1 AAAAAAT--AAAATA-AAT
4234296 AAAAAATAAAATAAAAT
1 AAAAAATAAAAT-AAAT
* *
4234313 TAAAACTAAAAT
1 AAAAAATAAAAT
4234325 TGAGCCCTTT
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
15 3 0.05
16 10 0.16
17 35 0.55
18 7 0.11
19 9 0.14
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.21
Consensus pattern (16 bp):
AAAAAATAAAATAAAT
Found at i:4235839 original size:2 final size:2
Alignment explanation
Indices: 4235832--4235862 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4235822 AAGTGGTGCC
4235832 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4235863 AGAAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4239704 original size:16 final size:16
Alignment explanation
Indices: 4239680--4239724 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
4239670 ATAATTTTTT
4239680 TATAA-AATGTTACTG
1 TATAATAATGTTACTG
* *
4239695 TATAATAATGATAATG
1 TATAATAATGTTACTG
*
4239711 TATAATAATTTTAC
1 TATAATAATGTTAC
4239725 ATTAACAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (16 bp):
TATAATAATGTTACTG
Found at i:4240365 original size:15 final size:15
Alignment explanation
Indices: 4240345--4240383 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
4240335 ATCAAACCTC
4240345 AATAAAAAAATAAGG
1 AATAAAAAAATAAGG
*
4240360 AATAAAAAAATAAGT
1 AATAAAAAAATAAGG
4240375 AA-AAAAAAA
1 AATAAAAAAA
4240384 AAACTAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (15 bp):
AATAAAAAAATAAGG
Found at i:4241273 original size:22 final size:20
Alignment explanation
Indices: 4241231--4241283 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
4241221 ACTTCATAAC
* *
4241231 TTGAAATTCAAAGGTTTACAA
1 TTGAAATT-TAAGGTTCACAA
4241252 TTTGAAATTTAAGGATTCACAA
1 -TTGAAATTTAAGG-TTCACAA
4241274 TT-AAATTTAA
1 TTGAAATTTAA
4241284 AGGCTAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.29
21 6 0.21
22 14 0.50
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (20 bp):
TTGAAATTTAAGGTTCACAA
Found at i:4241504 original size:18 final size:18
Alignment explanation
Indices: 4241359--4241603 Score: 110
Period size: 18 Copynumber: 13.4 Consensus size: 18
4241349 AAAAATTCGC
4241359 AAGATTTCAATAATTTGCAA
1 AAGA-TTCAA-AATTTGCAA
4241379 GAAG--TCAAAAGTTTGC-A
1 -AAGATTCAAAA-TTTGCAA
* * *
4241396 AA-ATTTAAGATTCGCAA
1 AAGATTCAAAATTTGCAA
* * **
4241413 AAGATTGAAAGGTTCACAA
1 AAGATTCAAA-ATTTGCAA
* *
4241432 AAGATTCAAGGATTTGTAA
1 AAGATTCAA-AATTTGCAA
* * **
4241451 AAAATTCAAGATTTATAA
1 AAGATTCAAAATTTGCAA
* ** *
4241469 AAAATTCATGATTCGCAA
1 AAGATTCAAAATTTGCAA
4241487 AA-ATTCAAAAGTTTGCAA
1 AAGATTCAAAA-TTTGCAA
* * *
4241505 AAGATTCAAGACTTGTAA
1 AAGATTCAAAATTTGCAA
*
4241523 AAGATTCAAAGACTTGCAA
1 AAGATTCAAA-ATTTGCAA
*
4241542 AA-ACTTCAAAATTTTGAAA
1 AAGA-TTCAAAA-TTTGCAA
**
4241561 AAGATTCAAAATTCACAA
1 AAGATTCAAAATTTGCAA
*
4241579 AA-ATTCAAAAATT-CTAA
1 AAGATTCAAAATTTGC-AA
4241596 AAGATTCA
1 AAGATTCA
4241604 TAAAAATTCA
Statistics
Matches: 175, Mismatches: 34, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
16 7 0.04
17 29 0.17
18 73 0.42
19 62 0.35
20 1 0.01
21 3 0.02
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (18 bp):
AAGATTCAAAATTTGCAA
Found at i:4241571 original size:10 final size:9
Alignment explanation
Indices: 4241568--4241615 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
4241558 AAAAAGATTC
4241568 AAAATTCACA
1 AAAATTCA-A
4241578 AAAATTC-A
1 AAAATTCAA
4241586 AAAATTCTAA
1 AAAATTC-AA
*
4241596 AAGATTCATA
1 AAAATTCA-A
4241606 AAAATTCAA
1 AAAATTCAA
4241615 A
1 A
4241616 TATTCACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 8 0.24
9 3 0.09
10 22 0.67
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.25
Consensus pattern (9 bp):
AAAATTCAA
Found at i:4241589 original size:8 final size:8
Alignment explanation
Indices: 4241576--4241638 Score: 54
Period size: 8 Copynumber: 7.2 Consensus size: 8
4241566 TCAAAATTCA
4241576 CAAAAATT
1 CAAAAATT
4241584 CAAAAATT
1 CAAAAATT
4241592 CTAAAAGATT
1 C-AAAA-ATT
4241602 CATAAAAATT
1 C--AAAAATT
*
4241612 CAAATATT
1 CAAAAATT
*
4241620 CACAAATTT
1 CA-AAAATT
*
4241629 CAAAGATT
1 CAAAAATT
4241637 CA
1 CA
4241639 CATTTAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
8 23 0.50
9 10 0.22
10 8 0.17
11 5 0.11
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (8 bp):
CAAAAATT
Found at i:4241621 original size:18 final size:19
Alignment explanation
Indices: 4241568--4241615 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
4241558 AAAAAGATTC
*
4241568 AAAATTCACAAAAATTC--A
1 AAAATTCA-AAAGATTCATA
4241586 AAAATTCTAAAAGATTCATA
1 AAAATTC-AAAAGATTCATA
4241606 AAAATTCAAA
1 AAAATTCAAA
4241616 TATTCACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 14 0.54
19 4 0.15
20 8 0.31
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATTCAAAAGATTCATA
Found at i:4241676 original size:44 final size:43
Alignment explanation
Indices: 4241622--4241798 Score: 151
Period size: 44 Copynumber: 4.0 Consensus size: 43
4241612 CAAATATTCA
*
4241622 CAAATTTCAAAGATTCACATTTAAAAATTTTAGAGATTTACATC
1 CAAA-TTCAAAGATTCACATTTAAAAATTTTAGAGATTCACATC
** * * *
4241666 CAAGATTCAAATG-TTTGCATTTGAAAATCTTAGAGATTCATATC
1 CAA-ATTCAAA-GATTCACATTTAAAAATTTTAGAGATTCACATC
* * * *
4241710 AAAAAATTCAAAAATT-ACATTCAAAAAATTTTAGAGACTCACATC
1 --CAAATTCAAAGATTCACATT-TAAAAATTTTAGAGATTCACATC
* * * *
4241755 CAAATTTCAATGATTCTCATTTTAAAATTTTAGAGATTTACATC
1 CAAA-TTCAAAGATTCACATTTAAAAATTTTAGAGATTCACATC
4241799 AAACATTTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
43 3 0.03
44 65 0.63
45 33 0.32
46 2 0.02
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (43 bp):
CAAATTCAAAGATTCACATTTAAAAATTTTAGAGATTCACATC
Found at i:4241737 original size:89 final size:89
Alignment explanation
Indices: 4241627--4241801 Score: 214
Period size: 89 Copynumber: 2.0 Consensus size: 89
4241617 ATTCACAAAT
* * * *
4241627 TTCAAAGATTCACATTTAAAAATTTTAGAGATTTACATCCAAGA-TTCAAATG-TT-TGCATTTG
1 TTCAAAAATTCACATTAAAAAATTTTAGAGACTCACATCCAA-ATTTC-AATGATTCT-CATTTG
*
4241689 AAAATCTTAGAGATTCATATCAAAAAA
63 AAAATCTTAGAGATTCACATCAAAAAA
*
4241716 TTCAAAAATT-ACATTCAAAAAATTTTAGAGACTCACATCCAAATTTCAATGATTCTCATTTTAA
1 TTCAAAAATTCACATT-AAAAAATTTTAGAGACTCACATCCAAATTTCAATGATTCTCATTTGAA
* *
4241780 AATTTTAGAGATTTACATCAAA
65 AATCTTAGAGATTCACATCAAA
4241802 CATTTAAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
88 10 0.14
89 63 0.85
90 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (89 bp):
TTCAAAAATTCACATTAAAAAATTTTAGAGACTCACATCCAAATTTCAATGATTCTCATTTGAAA
ATCTTAGAGATTCACATCAAAAAA
Found at i:4241986 original size:22 final size:22
Alignment explanation
Indices: 4241895--4241992 Score: 67
Period size: 23 Copynumber: 4.5 Consensus size: 22
4241885 TTGAAAAAAC
* * *
4241895 AAATTT-AAAGATTCACATCCA
1 AAATTTCAAAAATTTACATCTA
* *
4241916 AAATTTCAAAAATTTACGTTCAA
1 AAATTTCAAAAATTTAC-ATCTA
* * *
4241939 AAAGTTCAAAGACTTT-CATTTGA
1 AAATTTCAAA-AATTTACATCT-A
*
4241962 AAATTTTAAAAATTTACATCTA
1 AAATTTCAAAAATTTACATCTA
4241984 AAA-TTCAAA
1 AAATTTCAAA
4241993 TTTTCAAATT
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
21 11 0.19
22 17 0.29
23 26 0.45
24 4 0.07
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATTTCAAAAATTTACATCTA
Found at i:4242071 original size:23 final size:22
Alignment explanation
Indices: 4242046--4242094 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
4242036 ATAAATTCAC
4242046 ATTCACAAAGTTCAAAATTTCTC
1 ATTCACAAAGTTCAAAA-TTCTC
*
4242069 ATTTGA-AAAGTTCAAAGATTCTC
1 A-TTCACAAAGTTCAAA-ATTCTC
4242092 ATT
1 ATT
4242095 TGAAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
22 2 0.09
23 17 0.74
24 4 0.17
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (22 bp):
ATTCACAAAGTTCAAAATTCTC
Found at i:4242095 original size:23 final size:23
Alignment explanation
Indices: 4242052--4242100 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 23
4242042 TCACATTCAC
4242052 AAAGTTCAAAATTTCTCATTTGA
1 AAAGTTCAAAATTTCTCATTTGA
4242075 AAAGTTCAAAGA-TTCTCATTTGA
1 AAAGTTCAAA-ATTTCTCATTTGA
4242098 AAA
1 AAA
4242101 AATTTAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (23 bp):
AAAGTTCAAAATTTCTCATTTGA
Found at i:4242152 original size:44 final size:44
Alignment explanation
Indices: 4242074--4242189 Score: 153
Period size: 44 Copynumber: 2.6 Consensus size: 44
4242064 TTCTCATTTG
* *
4242074 AAAAGTTCAAAGATTCTCATTTGAAAAAATTTAGAGATT-TACATCC
1 AAAA-TTCAAATATTCTTATTT-AAAAAATTTAGAGATTCT-CATCC
*
4242120 AAAATTCAAATATTCTTATTTAAAAATTTTAGAGATTCTCATCC
1 AAAATTCAAATATTCTTATTTAAAAAATTTAGAGATTCTCATCC
* *
4242164 AAAATTCAAATATTCATATTCAAAAA
1 AAAATTCAAATATTCTTATTTAAAAA
4242190 GTTCATATCT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 44 0.69
45 16 0.25
46 4 0.06
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (44 bp):
AAAATTCAAATATTCTTATTTAAAAAATTTAGAGATTCTCATCC
Found at i:4243592 original size:16 final size:16
Alignment explanation
Indices: 4243551--4243641 Score: 53
Period size: 16 Copynumber: 5.4 Consensus size: 16
4243541 CTGAAAGACA
* * *
4243551 TTTTCCTTTCTATATT
1 TTTTCATTTCTTTCTT
4243567 TTTTCA--TCTTTCTT
1 TTTTCATTTCTTTCTT
4243581 TTTTCATTTCTTTCATTTCGT
1 TTTTCATTTCTTTC---T--T
*
4243602 TTTTCATTTTTTTCTCT
1 TTTTCATTTCTTTCT-T
*
4243619 TTTTCTTTTCTTT-TT
1 TTTTCATTTCTTTCTT
4243634 TCTTTCAT
1 T-TTTCAT
4243642 GTTTCCATTC
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
14 12 0.20
15 2 0.03
16 17 0.29
17 12 0.20
18 1 0.02
19 1 0.02
21 14 0.24
ACGTcount: A:0.08, C:0.19, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTTCATTTCTTTCTT
Found at i:4243598 original size:45 final size:44
Alignment explanation
Indices: 4243549--4243653 Score: 99
Period size: 44 Copynumber: 2.3 Consensus size: 44
4243539 TTCTGAAAGA
4243549 CATTTTCCTTTCTATATTTTTTCATCTTTCTT-TTTTC-ATTTCTTT
1 CATTTTCCTTTCTAT-TTTTTTC-TCTTT-TTCTTTTCTATTTCTTT
* * *
4243594 CA-TTTCGTTTTTCATTTTTTTCTCTTTTTCTTTTCTTTTTTCTTT
1 CATTTTCCTTTCT-ATTTTTTTCTCTTTTTCTTTTC-TATTTCTTT
*
4243639 CATGTTTCCATTCTA
1 CAT-TTTCCTTTCTA
4243654 ACAAATTAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
42 2 0.04
43 10 0.21
44 15 0.31
45 13 0.27
46 1 0.02
47 7 0.15
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.69
Consensus pattern (44 bp):
CATTTTCCTTTCTATTTTTTTCTCTTTTTCTTTTCTATTTCTTT
Found at i:4243604 original size:21 final size:21
Alignment explanation
Indices: 4243575--4243615 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4243565 TTTTTTCATC
*
4243575 TTTCTTTTTTCATTTCTTTCA
1 TTTCGTTTTTCATTTCTTTCA
*
4243596 TTTCGTTTTTCATTTTTTTC
1 TTTCGTTTTTCATTTCTTTC
4243616 TCTTTTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTCGTTTTTCATTTCTTTCA
Found at i:4243635 original size:12 final size:12
Alignment explanation
Indices: 4243565--4243638 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 12
4243555 CCTTTCTATA
4243565 TTTTTTCATCTTTC
1 TTTTTTC-T-TTTC
*
4243579 TTTTTTCATTTC
1 TTTTTTCTTTTC
4243591 TTTCATTTCGTTTT-
1 TTT--TTTC-TTTTC
**
4243605 TCATTT-TTTTC
1 TTTTTTCTTTTC
4243616 TCTTTTTCTTTTC
1 T-TTTTTCTTTTC
4243629 TTTTTTCTTT
1 TTTTTTCTTT
4243639 CATGTTTCCA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
10 4 0.08
11 1 0.02
12 22 0.46
13 6 0.12
14 12 0.25
15 3 0.06
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:4244985 original size:139 final size:138
Alignment explanation
Indices: 4244662--4245299 Score: 651
Period size: 139 Copynumber: 4.8 Consensus size: 138
4244652 AAACTATAAC
* ** * *
4244662 AAATAATGTACATAAAAAAATGCTAACATGGATAAAAAATGTATATGCAAATACATGTATGCAAT
1 AAATAATGTACATACAAAAATATTTACATGGAT-AAAAATGTATAT-TAAATACATGTATGCAAT
* * * * **
4244727 ACATAGTAAAAACAAGAATTCACATTCACAATTATGTACAATACT-AAAAAGGGAAAGATTCTCC
64 ACATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAACTAAAAAAGACAAAGATTCTCC
*
4244791 CAAATAAATG
129 CAAACAAATG
* * * *
4244801 AAATGATGTACATACAAAAATGTTTACATTGATAAAAATTGTATATGTAAATACATATATGCAAT
1 AAATAATGTACATACAAAAATATTTACATGGATAAAAA-TGTATAT-TAAATACATGTATGCAAT
* * * *
4244866 ACATAGTAACAACAACAATTCATATTCACAACTATGTACAAAACTAAAAAAGACAAAAACTATCC
64 ACATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAACTAAAAAAGACAAAGATTCTCC
4244931 CAAACAAATG
129 CAAACAAATG
* * * * * *
4244941 AAATAATGTACATACAAAAATATTTACATGGATACAAA--TATA-TATATGCA--AATAC-ATAT
1 AAATAATGTACATACAAAAATATTTACATGGATAAAAATGTATATTAAATACATGTATGCAATAC
* * ** * *
4245000 AT-GCAA-AACAAGAATTCATATTCACAACTATGTATAAAA-TTGAGAAGCCAAAGATTCTCCCA
66 ATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAACTAAAAAAGACAAAGATTCTCCCA
4245062 AACAAATG
131 AACAAATG
* * *
4245070 AAATAATGTACATACAAAAAT-GTT---T-G-----CAT-TA-A-TAAA-A-ATGTATACAATAC
1 AAATAATGTACATACAAAAATATTTACATGGATAAAAATGTATATTAAATACATGTATGCAATAC
* * **
4245120 ATAGTAACAACAAGAATTTATATTCACAATTATGTACAAAACTAAAATGGACAAAGATTCTCCCA
66 ATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAACTAAAAAAGACAAAGATTCTCCCA
4245185 AACAAATG
131 AACAAATG
* * * *
4245193 AAATAATATACATATAAAAATATTTACATGGATAAAAATGTATATACAAATACATGTATGCTATA
1 AAATAATGTACATACAAAAATATTTACATGGATAAAAATGTATAT-TAAATACATGTATGCAATA
* *
4245258 TATAGTAACAACAAGAATTCATATTCACAACTATATACAAAA
65 CATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAA
4245300 TTGAAAAGGT
Statistics
Matches: 410, Mismatches: 64, Indels: 50
0.78 0.12 0.10
Matches are distributed among these distances:
117 1 0.00
119 9 0.02
120 7 0.02
121 3 0.01
122 30 0.07
123 44 0.11
124 3 0.01
125 1 0.00
127 1 0.00
128 3 0.01
129 45 0.11
130 31 0.08
131 3 0.01
132 5 0.01
133 5 0.01
134 2 0.00
135 7 0.02
137 7 0.02
138 6 0.01
139 140 0.34
140 57 0.14
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (138 bp):
AAATAATGTACATACAAAAATATTTACATGGATAAAAATGTATATTAAATACATGTATGCAATAC
ATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAACTAAAAAAGACAAAGATTCTCCCA
AACAAATG
Found at i:4244994 original size:14 final size:14
Alignment explanation
Indices: 4244975--4245006 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4244965 TACATGGATA
*
4244975 CAAATATATATATG
1 CAAATACATATATG
4244989 CAAATACATATATG
1 CAAATACATATATG
4245003 CAAA
1 CAAA
4245007 ACAAGAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (14 bp):
CAAATACATATATG
Found at i:4245205 original size:123 final size:122
Alignment explanation
Indices: 4244856--4245236 Score: 469
Period size: 123 Copynumber: 3.0 Consensus size: 122
4244846 TGTAAATACA
*
4244856 TATATGCAATACATAGTAACAACAACAATTCATATTCACAACTATGTACAAAACTAAAAAAGACA
1 TATA-GCAATACATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAACT--AAAAGACA
* * * *
4244921 AAAACTATCCCAAACAAATGAAATAATGTACATACAAAAATATTTACATGGATACAAATATA
63 AAGATTCTCCCAAACAAATGAAATAATGTACATACAAAAATATTTACATGGATA-AAA-ATG
* * * *
4244983 TATATGCAAATACATA-TATGCAAAACAAGAATTCATATTCACAACTATGTATAAAATTGAGAAG
1 TATA-GC-AATACATAGTA---ACAACAAGAATTCATATTCACAACTATGTACAAAACT-AAAAG
* * * **
4245047 CCAAAGATTCTCCCAAACAAATGAAATAATGTACATACAAAAATGTTTGCATTAATAAAAATG
60 ACAAAGATTCTCCCAAACAAATGAAATAATGTACATACAAAAATATTTACATGGATAAAAATG
* *
4245110 TATA-CAATACATAGTAACAACAAGAATTTATATTCACAATTATGTACAAAACTAAAATGGACAA
1 TATAGCAATACATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAACTAAAA--GACAA
* *
4245174 AGATTCTCCCAAACAAATGAAATAATATACATATAAAAATATTTACATGGATAAAAATG
64 AGATTCTCCCAAACAAATGAAATAATGTACATACAAAAATATTTACATGGATAAAAATG
4245233 TATA
1 TATA
4245237 TACAAATACA
Statistics
Matches: 219, Mismatches: 28, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
121 3 0.01
122 32 0.15
123 61 0.28
124 8 0.04
125 3 0.01
127 15 0.07
128 11 0.05
129 53 0.24
130 33 0.15
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.26
Consensus pattern (122 bp):
TATAGCAATACATAGTAACAACAAGAATTCATATTCACAACTATGTACAAAACTAAAAGACAAAG
ATTCTCCCAAACAAATGAAATAATGTACATACAAAAATATTTACATGGATAAAAATG
Found at i:4246064 original size:45 final size:44
Alignment explanation
Indices: 4245972--4246095 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 44
4245962 ATACCAACTC
* *
4245972 AAATAACCAAATAAGTTAGTACACATATAAAATCAAAATCTACA
1 AAATAAACAAATAAGTTAGTACACATAAAAAATCAAAATCTACA
* * *
4246016 AAATAATCAAATATA-TTAGTACATATAAAAAAATCATAAGT-TACA
1 AAATAAACAAATA-AGTTAGTACACAT-AAAAAATCA-AAATCTACA
* * *
4246061 AAATAAACAAATAGGTTAGTATACATGAAAAATCA
1 AAATAAACAAATAAGTTAGTACACATAAAAAATCA
4246096 TAAAAATGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
44 30 0.45
45 34 0.51
46 3 0.04
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.25
Consensus pattern (44 bp):
AAATAAACAAATAAGTTAGTACACATAAAAAATCAAAATCTACA
Found at i:4247195 original size:17 final size:16
Alignment explanation
Indices: 4247174--4247214 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
4247164 TTTAAATTCC
4247174 AAATTTAAATAAAATCA
1 AAATTTAAA-AAAATCA
*
4247191 TAATTTTAAAAAAATCA
1 -AAATTTAAAAAAATCA
4247208 AAATTTA
1 AAATTTA
4247215 TGTGTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
18 8 0.38
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATTTAAAAAAATCA
Found at i:4247198 original size:18 final size:17
Alignment explanation
Indices: 4247177--4247213 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
4247167 AAATTCCAAA
*
4247177 TTTAAATAAAATCATAAT
1 TTTAAA-AAAATCAAAAT
4247195 TTTAAAAAAATCAAAAT
1 TTTAAAAAAATCAAAAT
4247212 TT
1 TT
4247214 ATGTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTAAAAAAATCAAAAT
Found at i:4261452 original size:21 final size:20
Alignment explanation
Indices: 4261426--4261465 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4261416 AATATTTATA
*
4261426 AACTTGAATATTTATTTTTTT
1 AACTTGAATAATT-TTTTTTT
4261447 AACTTGAATAATTTTTTTT
1 AACTTGAATAATTTTTTTT
4261466 AAAAAAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
AACTTGAATAATTTTTTTTT
Found at i:4266259 original size:18 final size:18
Alignment explanation
Indices: 4266236--4266278 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
4266226 GAGGTTGAAG
4266236 AAGTGGGCAGATCAAAAT
1 AAGTGGGCAGATCAAAAT
*
4266254 AAGTGGGCAGATCAGAAT
1 AAGTGGGCAGATCAAAAT
4266272 AAGTGGG
1 AAGTGGG
4266279 ACGTGCAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.35, T:0.16
Consensus pattern (18 bp):
AAGTGGGCAGATCAAAAT
Found at i:4267922 original size:22 final size:22
Alignment explanation
Indices: 4267894--4267960 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
4267884 AGATTAGACC
4267894 CAAGCCTAGATTAGTTGGCACT
1 CAAGCCTAGATTAGTTGGCACT
* * *
4267916 CAAGCCTAAATTAGCTGACACTT
1 CAAGCCTAGATTAGTTGGCAC-T
* **
4267939 TAAGCCTAGATTTCTTGGCACT
1 CAAGCCTAGATTAGTTGGCACT
4267961 TAAACTCAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (22 bp):
CAAGCCTAGATTAGTTGGCACT
Found at i:4268106 original size:32 final size:32
Alignment explanation
Indices: 4268060--4268120 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
4268050 GCTTATGCTA
**
4268060 AGATCAAACCAAGCCTAGTTTAGCTAGCACCC
1 AGATCAAACCAAGCCTAGTCAAGCTAGCACCC
* *
4268092 AGATTAAACTAAGCCTAGTCAAGCTAGCA
1 AGATCAAACCAAGCCTAGTCAAGCTAGCA
4268121 TCTAAGATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (32 bp):
AGATCAAACCAAGCCTAGTCAAGCTAGCACCC
Found at i:4268344 original size:118 final size:118
Alignment explanation
Indices: 4268127--4268378 Score: 305
Period size: 118 Copynumber: 2.1 Consensus size: 118
4268117 AGCATCTAAG
*
4268127 ATAATTCTTAAGACCTCTAGGTAAAACATTTTAAATTTTCAAAGTTTCAAGGCCTCTAATACGAA
1 ATAATTCTTAAGACCTCTAGGTAAAACATTTTAAATTTTCAAAGTTTCAAGGCCTCCAATACGAA
* * *
4268192 GAGTATTCAAAGATTTGTAAGACCTCTAGGCATAATCTCTAAGACCTTC-AAGC
66 GAGCATTCAAAGATTTGTAAGACCTCGAGACATAATCTCTAAGACCTTCGAA-C
* * * ** ** *
4268245 ATAATT-TTCAAGACCTC-CGGATAAAATATTTTAAATTTTCAAAGTTTCAATGTTTCCGTTATG
1 ATAATTCTT-AAGACCTCTAGG-TAAAACATTTTAAATTTTCAAAGTTTCAAGGCCTCCAATACG
* *
4268308 AAGAGCATTCAAAGATTTGTAAGACCTCCGA-ACATAATCTTTAAGATCTTCGAAC
64 AAGAGCATTCAAAGATTTGTAAGACCT-CGAGACATAATCTCTAAGACCTTCGAAC
*
4268363 ATAATCCTTAAGACCT
1 ATAATTCTTAAGACCT
4268379 TTAGACATAG
Statistics
Matches: 114, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
117 4 0.04
118 104 0.91
119 6 0.05
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (118 bp):
ATAATTCTTAAGACCTCTAGGTAAAACATTTTAAATTTTCAAAGTTTCAAGGCCTCCAATACGAA
GAGCATTCAAAGATTTGTAAGACCTCGAGACATAATCTCTAAGACCTTCGAAC
Found at i:4268361 original size:22 final size:22
Alignment explanation
Indices: 4268327--4268378 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
4268317 CAAAGATTTG
*
4268327 TAAGACCTCCGAACATAATCTT
1 TAAGACCTCCGAACATAATCCT
* *
4268349 TAAGATCTTCGAACATAATCCT
1 TAAGACCTCCGAACATAATCCT
4268371 TAAGACCT
1 TAAGACCT
4268379 TTAGACATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.29
Consensus pattern (22 bp):
TAAGACCTCCGAACATAATCCT
Found at i:4268386 original size:22 final size:22
Alignment explanation
Indices: 4268327--4268387 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
4268317 CAAAGATTTG
** *
4268327 TAAGACCTCCGAACATAATCTT
1 TAAGACCTTAGAACATAATCCT
* *
4268349 TAAGATCTTCGAACATAATCCT
1 TAAGACCTTAGAACATAATCCT
4268371 TAAGACCTTTAG-ACATA
1 TAAGACC-TTAGAACATA
4268388 GTATTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (22 bp):
TAAGACCTTAGAACATAATCCT
Found at i:4268426 original size:118 final size:118
Alignment explanation
Indices: 4268127--4268444 Score: 299
Period size: 118 Copynumber: 2.7 Consensus size: 118
4268117 AGCATCTAAG
* ** * * ** * *
4268127 ATAATTCTT-AAGACCTCTAGGTAAAACATTTTAAATTTTCAAAGTTTCAAGGCCTCTAATACGA
1 ATAA-TCTTCAAGACCTCCAGACAAAATATTTTAAATTTTCAAAGTTTCAACGTTTCTAGTATGA
* * *
4268191 AGAGTATTCAAAGATTTGTAAGACCTCTAGGCATAATCTCTAAGACCTTCAAGC
65 AGAGCATTCAAAGATTTGTAAGACCTCGAGACATAATCTCTAAGACCTTCAAGC
* * * * *
4268245 ATAATTTTCAAGACCTCCGGATAAAATATTTTAAATTTTCAAAGTTTCAATGTTTC-CGTTATGA
1 ATAATCTTCAAGACCTCCAGACAAAATATTTTAAATTTTCAAAGTTTCAACGTTTCTAG-TATGA
* *
4268309 AGAGCATTCAAAGATTTGTAAGACCTCCGA-ACATAATCTTTAAGATCTTCGAA-C
65 AGAGCATTCAAAGATTTGTAAGACCT-CGAGACATAATCTCTAAGACCTTC-AAGC
** * * *
4268363 ATAATCCTT-AAGACCTTTAGACATAGTATTTTAAAATTTT-AAAGTTTCAACATTTCTAGTATG
1 ATAAT-CTTCAAGACCTCCAGACAAAATATTTT-AAATTTTCAAAGTTTCAACGTTTCTAGTATG
*
4268426 -AGAAGCATTCAAAGTTTTG
64 AAG-AGCATTCAAAGATTTG
4268445 AGTTTTGTAA
Statistics
Matches: 165, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
117 5 0.03
118 146 0.88
119 14 0.08
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (118 bp):
ATAATCTTCAAGACCTCCAGACAAAATATTTTAAATTTTCAAAGTTTCAACGTTTCTAGTATGAA
GAGCATTCAAAGATTTGTAAGACCTCGAGACATAATCTCTAAGACCTTCAAGC
Found at i:4268861 original size:18 final size:16
Alignment explanation
Indices: 4268821--4268862 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 16
4268811 CTAATTTTAC
4268821 TTTTATTGTTTTATTT
1 TTTTATTGTTTTATTT
4268837 TTGTTATTGTTCTTATTT
1 TT-TTATTGTT-TTATTT
4268855 TCTTTATT
1 T-TTTATT
4268863 TATTGAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 8 0.35
18 12 0.52
19 1 0.04
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (16 bp):
TTTTATTGTTTTATTT
Found at i:4270735 original size:3 final size:3
Alignment explanation
Indices: 4270727--4270761 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4270717 ATATTCTTAA
4270727 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4270762 AATTATCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4275785 original size:51 final size:51
Alignment explanation
Indices: 4275685--4275787 Score: 129
Period size: 50 Copynumber: 2.0 Consensus size: 51
4275675 TGGACAAGAA
* * *
4275685 GACTTGCAGAAGAAAAATTCTAAGAGAAAATAGATTTTAATAAGTAAGTTT
1 GACTTACAGAAGAAAAATTCTAAGAGAAAAGAGATTTTAATAAGCAAGTTT
* *
4275736 GACTTACAGAA-AAAAATTTTAAGAGGAAAGAGATTATTAAT-AGACAAGTTT
1 GACTTACAGAAGAAAAATTCTAAGAGAAAAGAGATT-TTAATAAG-CAAGTTT
4275787 G
1 G
4275788 TGTACTTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
50 23 0.51
51 22 0.49
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.28
Consensus pattern (51 bp):
GACTTACAGAAGAAAAATTCTAAGAGAAAAGAGATTTTAATAAGCAAGTTT
Found at i:4276926 original size:20 final size:21
Alignment explanation
Indices: 4276888--4276927 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4276878 TTTTTATATT
* *
4276888 TTAATAAATATATTTTTTTAA
1 TTAAAAAATATATTATTTTAA
4276909 TTAAAAAAT-TATTATTTTA
1 TTAAAAAATATATTATTTTA
4276928 CTATTATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAAAAATATATTATTTTAA
Found at i:4279289 original size:18 final size:16
Alignment explanation
Indices: 4279257--4279302 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 16
4279247 AAAAATTAAA
4279257 AATAAAAATTAAGTTT
1 AATAAAAATTAAGTTT
4279273 AATAAAATATATAAGTTT
1 AATAAAA-AT-TAAGTTT
4279291 AATAAAAATTAA
1 AATAAAAATTAA
4279303 AAATTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.36
17 4 0.14
18 14 0.50
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
AATAAAAATTAAGTTT
Found at i:4280117 original size:156 final size:155
Alignment explanation
Indices: 4279819--4280116 Score: 399
Period size: 155 Copynumber: 1.9 Consensus size: 155
4279809 TCTATCATTC
* * * *
4279819 AACATTCTAATTGAACATTTAATGAACCAATGTATACGATTAGATCTAATGTAATTATACTAATA
1 AACATTCTAATTGAACATTTAATCAACCAATGTATACAATTAAATCCAATGTAATTATACTAATA
*
4279884 TTAATTTATGTCTAAACCAAAAACTAAAATAAAATAAATAAAGAAAAAATTTTAAAAATTCAAAA
66 TTAATTTATGTCTAAACCAAAAAC-AAAACAAAATAAATAAAGAAAAAATTTTAAAAATTCAAAA
4279949 TACTTGTTAAAAAATTATAATATAAT
130 TACTTGTTAAAAAATTATAATATAAT
* ** *
4279975 AACATTCTAATTGAACA-TTAATCAACTC-ATGTGTACAATTAAATCCAATGTAATTATGTTGAT
1 AACATTCTAATTGAACATTTAATCAAC-CAATGTATACAATTAAATCCAATGTAATTATACTAAT
* * * *
4280038 ATTTAATTTATGTCCT-AA-CAAAAA-AAAACAAAATAAATGTAGGAAAAATTTTTAAAAATTTA
65 A-TTAATTTATGT-CTAAACCAAAAACAAAACAAAATAAAT-AAAGAAAAAATTTTAAAAATTCA
4280100 AAATACTTGTTAAAAAA
127 AAATACTTGTTAAAAAA
4280117 ATTACAATTT
Statistics
Matches: 125, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
153 13 0.10
154 36 0.29
155 43 0.34
156 31 0.25
157 2 0.02
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (155 bp):
AACATTCTAATTGAACATTTAATCAACCAATGTATACAATTAAATCCAATGTAATTATACTAATA
TTAATTTATGTCTAAACCAAAAACAAAACAAAATAAATAAAGAAAAAATTTTAAAAATTCAAAAT
ACTTGTTAAAAAATTATAATATAAT
Found at i:4280401 original size:62 final size:62
Alignment explanation
Indices: 4280304--4280424 Score: 242
Period size: 62 Copynumber: 2.0 Consensus size: 62
4280294 ATGCGTGGTT
4280304 ATGATTTTTTATTTTTATTCAATACATCAAAGATGCATGAATCCTTTCATTCCTTGATAGTA
1 ATGATTTTTTATTTTTATTCAATACATCAAAGATGCATGAATCCTTTCATTCCTTGATAGTA
4280366 ATGATTTTTTATTTTTATTCAATACATCAAAGATGCATGAATCCTTTCATTCCTTGATA
1 ATGATTTTTTATTTTTATTCAATACATCAAAGATGCATGAATCCTTTCATTCCTTGATA
4280425 TTATTACTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (62 bp):
ATGATTTTTTATTTTTATTCAATACATCAAAGATGCATGAATCCTTTCATTCCTTGATAGTA
Found at i:4281245 original size:27 final size:28
Alignment explanation
Indices: 4281215--4281273 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
4281205 TATTAATTGA
*
4281215 ATTTAAATATTAA-TTTTAATT-AAATTT
1 ATTTAAA-ATAAATTTTTAATTAAAATTT
*
4281242 ATTTAAAATAAATTTTTTATTAAAATTT
1 ATTTAAAATAAATTTTTAATTAAAATTT
4281270 ATTT
1 ATTT
4281274 TAATGGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 14 0.50
28 10 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTTAAAATAAATTTTTAATTAAAATTT
Found at i:4281251 original size:28 final size:27
Alignment explanation
Indices: 4281215--4281273 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
4281205 TATTAATTGA
4281215 ATTTAAATATTAA-TTTTAATT-AAATTT
1 ATTTAAATA--AATTTTTAATTAAAATTT
*
4281242 ATTTAAAATAAATTTTTTATTAAAATTT
1 ATTT-AAATAAATTTTTAATTAAAATTT
4281270 ATTT
1 ATTT
4281274 TAATGGTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 2 0.07
27 11 0.39
28 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTAAATAAATTTTTAATTAAAATTT
Found at i:4281847 original size:10 final size:10
Alignment explanation
Indices: 4281832--4281856 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4281822 AAAGGTGATT
4281832 TTTCAAAATC
1 TTTCAAAATC
4281842 TTTCAAAATC
1 TTTCAAAATC
4281852 TTTCA
1 TTTCA
4281857 TCGCTTTAGT
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:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTCAAAATC
Found at i:4283175 original size:31 final size:31
Alignment explanation
Indices: 4283137--4283196 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4283127 TAATTTACTC
4283137 ATTAATGAATTATTATCATTAGATTCACTTT
1 ATTAATGAATTATTATCATTAGATTCACTTT
* **
4283168 ATTAATGAGTTATTATCATTTTATTCACT
1 ATTAATGAATTATTATCATTAGATTCACT
4283197 AACAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (31 bp):
ATTAATGAATTATTATCATTAGATTCACTTT
Found at i:4283601 original size:13 final size:13
Alignment explanation
Indices: 4283592--4283616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4283582 TATAAATATG
4283592 ATATAAAAATAAA
1 ATATAAAAATAAA
4283605 ATATAAAAATAA
1 ATATAAAAATAA
4283617 TATAAATTAA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:4283745 original size:32 final size:31
Alignment explanation
Indices: 4283679--4283768 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 31
4283669 ATATTTTTAT
*
4283679 ATTTTTATATTAATATA-AAT-TATAATATATA
1 ATTTTTAT-TTAATATATAATATA-AATACATA
*
4283710 ATTTTTATTTAAAATATAATATAAATACATAA
1 ATTTTTATTTAATATATAATATAAATACAT-A
4283742 ATTTTAATATTT--TATATAATATAAATA
1 ATTTT--TATTTAATATATAATATAAATA
4283769 TACAAATCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
30 7 0.14
31 17 0.33
32 22 0.43
34 5 0.10
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTTTTATTTAATATATAATATAAATACATA
Found at i:4284151 original size:19 final size:19
Alignment explanation
Indices: 4284127--4284174 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
4284117 ATACATATAA
*
4284127 TATAATTAAAATATCAAA-T
1 TATAATTAAAAT-TAAAATT
4284146 TATAA-TAAAATTAAAATT
1 TATAATTAAAATTAAAATT
*
4284164 TTTAATTAAAA
1 TATAATTAAAA
4284175 ATTTGATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TATAATTAAAATTAAAATT
Found at i:4284352 original size:115 final size:114
Alignment explanation
Indices: 4284225--4284448 Score: 385
Period size: 115 Copynumber: 2.0 Consensus size: 114
4284215 AAAAAAATTA
* *
4284225 AAAAGATATTATAAATAATATTATTAAATACACCACCAAAATATTAAAATAAAAACTAAAAATTT
1 AAAAGATATTATAAATAATATTATTAAATACACCAACAAAATATTAAAATAAAAACTAAAAACTT
4284290 TATCACTTTAAATTAAATTCTTTTAATTTGTAGCATTTTCATCTTTATTC
66 TATCACTTTAAATT-AATTCTTTTAATTTGTAGCATTTTCATCTTTATTC
* *
4284340 AAAAGATATTATAAATAATATTATTAAGTACACCAACAAAATATTAAAATAAAAATTAAAAACTT
1 AAAAGATATTATAAATAATATTATTAAATACACCAACAAAATATTAAAATAAAAACTAAAAACTT
* *
4284405 TATCACTTTAAATTAATTTTTTTAATTTGTATCATTTTCATCTT
66 TATCACTTTAAATTAATTCTTTTAATTTGTAGCATTTTCATCTT
4284449 ATGTAATTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
114 28 0.27
115 75 0.73
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (114 bp):
AAAAGATATTATAAATAATATTATTAAATACACCAACAAAATATTAAAATAAAAACTAAAAACTT
TATCACTTTAAATTAATTCTTTTAATTTGTAGCATTTTCATCTTTATTC
Found at i:4285259 original size:15 final size:15
Alignment explanation
Indices: 4285239--4285268 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4285229 TTTTAGTTGC
4285239 TAATAAACGAACCAA
1 TAATAAACGAACCAA
*
4285254 TAATAAATGAACCAA
1 TAATAAACGAACCAA
4285269 CGTGATGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (15 bp):
TAATAAACGAACCAA
Found at i:4285877 original size:15 final size:17
Alignment explanation
Indices: 4285839--4285880 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
4285829 GAAGCAATTT
4285839 TAAATTTTATGTATACAA
1 TAAATTTTATG-ATACAA
4285857 -AAATTTTATG-T-CAA
1 TAAATTTTATGATACAA
4285871 TAAATTTTAT
1 TAAATTTTAT
4285881 TTATTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
17 10 0.43
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (17 bp):
TAAATTTTATGATACAA
Found at i:4285916 original size:2 final size:2
Alignment explanation
Indices: 4285909--4285946 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
4285899 GTAGTATAAG
4285909 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
4285947 GATTGGAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4286215 original size:149 final size:149
Alignment explanation
Indices: 4285932--4286230 Score: 537
Period size: 149 Copynumber: 2.0 Consensus size: 149
4285922 TATATATATA
* *
4285932 TATATATATATATATGATTGGAAACCGTGTTGTTCGGCTAGAAAAAGGGATTTCTAAAAGCTTTG
1 TATATATATATATATGAGTGGAAACCGTGTTGTTCGGCTAGAAAAAGGGATTTCTAAAAGCTTTA
4285997 GACATGGCATATATCTTTTCAATTATAAAAACCAGGAAATCTGTTGAGGGAAAAGACAATCTTCC
66 GACATGGCATATATCTTTTCAATTATAAAAACCAGGAAATCTGTTGAGGGAAAAGACAATCTTCC
4286062 TTGAACGGACACTTTTGTT
131 TTGAACGGACACTTTTGTT
4286081 TATATATATATATATGAGTGGAAACCGTGTTGTTCGGCTAGAAAAAGGGATTTCTAAAAGCTTTA
1 TATATATATATATATGAGTGGAAACCGTGTTGTTCGGCTAGAAAAAGGGATTTCTAAAAGCTTTA
* *
4286146 GACATGGCATATATCTTTTCAATTATTAAAACCAGGAAATCTGTTGAGGGAAAATACAAAT-TTC
66 GACATGGCATATATCTTTTCAATTATAAAAACCAGGAAATCTGTTGAGGGAAAAGAC-AATCTTC
*
4286210 GTTGAACGGACACTTTTGTT
130 CTTGAACGGACACTTTTGTT
4286230 T
1 T
4286231 TTGCGAATCT
Statistics
Matches: 144, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
149 141 0.98
150 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (149 bp):
TATATATATATATATGAGTGGAAACCGTGTTGTTCGGCTAGAAAAAGGGATTTCTAAAAGCTTTA
GACATGGCATATATCTTTTCAATTATAAAAACCAGGAAATCTGTTGAGGGAAAAGACAATCTTCC
TTGAACGGACACTTTTGTT
Found at i:4286579 original size:16 final size:16
Alignment explanation
Indices: 4286560--4286646 Score: 59
Period size: 16 Copynumber: 5.5 Consensus size: 16
4286550 TAAAATTGAT
*
4286560 TTGATTTAAATACAAA
1 TTGATTTAAATTCAAA
* * *
4286576 TTGATCTCAATTC-GA
1 TTGATTTAAATTCAAA
* * *
4286591 TTTATCTAAATTTAAA
1 TTGATTTAAATTCAAA
* *
4286607 TTGATATGAATTCAAA
1 TTGATTTAAATTCAAA
**
4286623 TTGATTTAAACACAAA
1 TTGATTTAAATTCAAA
*
4286639 TTAATTTA
1 TTGATTTA
4286647 TACTTGAAAT
Statistics
Matches: 53, Mismatches: 17, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
15 11 0.21
16 42 0.79
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (16 bp):
TTGATTTAAATTCAAA
Found at i:4286806 original size:26 final size:26
Alignment explanation
Indices: 4286770--4286819 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4286760 AAAAGTGATC
*
4286770 AATTAAGTAAATTTTACATATCAATT
1 AATTAAGTAAAATTTACATATCAATT
* *
4286796 AATTAATTAAAATTTATATATCAA
1 AATTAAGTAAAATTTACATATCAA
4286820 GTTTTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (26 bp):
AATTAAGTAAAATTTACATATCAATT
Found at i:4288043 original size:2 final size:2
Alignment explanation
Indices: 4288036--4288105 Score: 82
Period size: 2 Copynumber: 38.5 Consensus size: 2
4288026 CAAAAATCTA
*
4288036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4288077 -T AT AT -T AT AT -T AT AT -T AT AT -T AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4288106 ACATATAAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
1 7 0.12
2 52 0.88
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:4288061 original size:20 final size:20
Alignment explanation
Indices: 4288036--4288105 Score: 82
Period size: 17 Copynumber: 3.9 Consensus size: 20
4288026 CAAAAATCTA
4288036 ATATATATATATATATATAT
1 ATATATATATATATATATAT
*
4288056 ATATATATCTATATAT-TAT
1 ATATATATATATATATATAT
4288075 AT-TATAT-TATAT-TATAT
1 ATATATATATATATATATAT
4288092 -TATAT-TATAT-TATA
1 ATATATATATATATATA
4288106 ACATATAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
16 4 0.09
17 16 0.36
18 5 0.11
19 5 0.11
20 15 0.33
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATATATATATATATATAT
Done.