Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 41 of 77
Found at i:8097237 original size:13 final size:12
Alignment explanation
Indices: 8097200--8097264 Score: 60
Period size: 12 Copynumber: 5.3 Consensus size: 12
8097190 TTTTCAATGA
8097200 TAAAAATTTTAT
1 TAAAAATTTTAT
* *
8097212 TAATAGTTTTAT
1 TAAAAATTTTAT
8097224 TAAAAATATTTATT
1 TAAAAAT-TTTA-T
* *
8097238 TAAAAAATATAT
1 TAAAAATTTTAT
*
8097250 T-AAAATTTTTT
1 TAAAAATTTTAT
8097261 TAAA
1 TAAA
8097265 TTTTAATAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
11 8 0.20
12 19 0.46
13 7 0.17
14 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
TAAAAATTTTAT
Found at i:8100162 original size:25 final size:25
Alignment explanation
Indices: 8100113--8100161 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8100103 CAAAAAATTA
*
8100113 AAAAAAAAAATATTTGAATGCTTTT
1 AAAAAAAAAATATTTGAATACTTTT
8100138 AAAAAAAAAAT-TTTGGAA-ACTTTT
1 AAAAAAAAAATATTT-GAATACTTTT
8100162 TCATCAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (25 bp):
AAAAAAAAAATATTTGAATACTTTT
Found at i:8100720 original size:34 final size:34
Alignment explanation
Indices: 8100680--8100747 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
8100670 TTTCTAGAAC
* * *
8100680 AAAATATAATTTTTGAAAATCTTTTTCTAAAAAT
1 AAAATATAACTTTCGAAAATCTATTTCTAAAAAT
8100714 AAAATATAACTTTCGAAAATCTATTTCTAAAAAT
1 AAAATATAACTTTCGAAAATCTATTTCTAAAAAT
8100748 TATAATGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (34 bp):
AAAATATAACTTTCGAAAATCTATTTCTAAAAAT
Found at i:8106928 original size:49 final size:49
Alignment explanation
Indices: 8106854--8106951 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
8106844 TTAGATTCTG
* * *
8106854 CTATTGATATTTTGATATAATTTTTTCCCTTAAAAGATACTTATAATTC
1 CTATTGAAATTTTGATATAACTTTTTCCCTCAAAAGATACTTATAATTC
*
8106903 CTATTGAAATTTTGATATACCTTTTTCCCTCAAAAGATACTTATAATTC
1 CTATTGAAATTTTGATATAACTTTTTCCCTCAAAAGATACTTATAATTC
8106952 ATGCAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (49 bp):
CTATTGAAATTTTGATATAACTTTTTCCCTCAAAAGATACTTATAATTC
Found at i:8108972 original size:15 final size:14
Alignment explanation
Indices: 8108949--8108987 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
8108939 TATGAAGAAC
*
8108949 TTTTAATTTATTGAT
1 TTTTTATTT-TTGAT
*
8108964 TTTTTATTTTTTAT
1 TTTTTATTTTTGAT
8108978 TTTTTATTTT
1 TTTTTATTTT
8108988 GAATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTTATTTTTGAT
Found at i:8108974 original size:7 final size:7
Alignment explanation
Indices: 8108962--8108987 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8108952 TAATTTATTG
8108962 ATTTTTT
1 ATTTTTT
8108969 ATTTTTT
1 ATTTTTT
8108976 ATTTTTT
1 ATTTTTT
8108983 ATTTT
1 ATTTT
8108988 GAATTTTATT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:8110250 original size:33 final size:33
Alignment explanation
Indices: 8110204--8110288 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
8110194 TCCGTAACTT
* *
8110204 CAAGTCATTTCATTTTTTAACTTCGATTAAATC
1 CAAGTCATTTCATTTTTTAACTTAGACTAAATC
* * * *
8110237 TAAGTCATATCATTTTTTAATTTAGACTAAGTC
1 CAAGTCATTTCATTTTTTAACTTAGACTAAATC
*
8110270 CAAGTTATTTCATTTTTTA
1 CAAGTCATTTCATTTTTTA
8110289 TATTTAATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (33 bp):
CAAGTCATTTCATTTTTTAACTTAGACTAAATC
Found at i:8110555 original size:33 final size:31
Alignment explanation
Indices: 8110479--8110556 Score: 77
Period size: 33 Copynumber: 2.5 Consensus size: 31
8110469 CAATTAAATC
*
8110479 CAAGTTACCA-TTTTTCAACTTTTGGCAATT
1 CAAGTTATCATTTTTTCAACTTTTGGCAATT
* * * *
8110509 CAAGTCATAATTTTTTTATCTTTTGGCTCAATT
1 CAAGTTATCATTTTTTCAACTTTTGG--CAATT
*
8110542 TAAGTTATCATTTTT
1 CAAGTTATCATTTTT
8110557 AGACTTTTGC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 7 0.19
31 13 0.35
33 17 0.46
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (31 bp):
CAAGTTATCATTTTTTCAACTTTTGGCAATT
Found at i:8110564 original size:32 final size:31
Alignment explanation
Indices: 8110479--8110572 Score: 84
Period size: 32 Copynumber: 3.0 Consensus size: 31
8110469 CAATTAAATC
*
8110479 CAAGTTACCATTTTTCAACTTTTGG--CAATT
1 CAAGTTATCATTTTT-AACTTTTGGCTCAATT
* * *
8110509 CAAGTCATAATTTTTTTATCTTTTGGCTCAATT
1 CAAGTTATCA--TTTTTAACTTTTGGCTCAATT
* *
8110542 TAAGTTATCATTTTTAGACTTTTGCCTCAAT
1 CAAGTTATCATTTTTA-ACTTTTGGCTCAAT
8110573 CTAACTCATA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
30 7 0.14
31 14 0.28
32 17 0.34
33 12 0.24
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.48
Consensus pattern (31 bp):
CAAGTTATCATTTTTAACTTTTGGCTCAATT
Found at i:8110993 original size:12 final size:11
Alignment explanation
Indices: 8110968--8111080 Score: 68
Period size: 12 Copynumber: 9.5 Consensus size: 11
8110958 ATACTTAATC
*
8110968 TTTATTGTTAT
1 TTTATTTTTAT
8110979 TTTATTTTCTAT
1 TTTATTTT-TAT
* *
8110991 TTTGTTATATAT
1 TTTATT-TTTAT
8111003 ATTTATCTTTTA-
1 -TTTAT-TTTTAT
*
8111015 TTTATTTATAT
1 TTTATTTTTAT
8111026 TTATATTTTTAT
1 TT-TATTTTTAT
8111038 ATTTATCTTTGTA-
1 -TTTAT-TTT-TAT
*
8111051 TTTATCTTTATT
1 TTTATTTTTA-T
8111063 TTTATTTTATACT
1 TTTATTTT-TA-T
8111076 TTTAT
1 TTTAT
8111081 GACATATTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
10 6 0.08
11 16 0.20
12 34 0.43
13 21 0.26
14 3 0.04
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:8111019 original size:21 final size:21
Alignment explanation
Indices: 8110995--8111034 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8110985 TTCTATTTTG
*
8110995 TTATATATATTTATCTTTTAT
1 TTATATATATTTATATTTTAT
*
8111016 TTATTTATATTTATATTTT
1 TTATATATATTTATATTTT
8111035 TATATTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TTATATATATTTATATTTTAT
Found at i:8111028 original size:6 final size:6
Alignment explanation
Indices: 8111000--8111073 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
8110990 TTTTGTTATA
* *
8111000 TATATT TATCTT T-TA-T T-TATT TATATT TATATTTT TATATT TATCTT
1 TATATT TATATT TATATT TATATT TATATT TATA--TT TATATT TATATT
* * *
8111047 TGTATT TATCTT TATTTT TAT-TT TATA
1 TATATT TATATT TATATT TATATT TATA
8111074 CTTTTATGAC
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
4 4 0.07
5 8 0.15
6 37 0.67
8 6 0.11
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.70
Consensus pattern (6 bp):
TATATT
Found at i:8111042 original size:20 final size:21
Alignment explanation
Indices: 8110979--8111080 Score: 66
Period size: 20 Copynumber: 4.9 Consensus size: 21
8110969 TTATTGTTAT
* *
8110979 TTTAT-TTTCTATTTTGT-TA
1 TTTATATTTATATTTTATATA
* * *
8110998 TATATATTTATCTTTTATTTA
1 TTTATATTTATATTTTATATA
8111019 TTTATATTTATATTTT-TATA
1 TTTATATTTATATTTTATATA
* * * *
8111039 TTTATCTTTGTATTTATCTTTA
1 TTTATATTTATATTT-TATATA
*
8111061 TTTTTATTTTATACTTTTAT
1 TTTATA-TTTATA-TTTTAT
8111081 GACATATTAT
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
19 4 0.06
20 25 0.40
21 17 0.27
22 7 0.11
23 7 0.11
24 3 0.05
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTATATTTATATTTTATATA
Found at i:8111073 original size:35 final size:35
Alignment explanation
Indices: 8111000--8111070 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 35
8110990 TTTTGTTATA
8111000 TATATTTATCTTTTATTTATTTATATTTATATTTT
1 TATATTTATCTTTTATTTATTTATATTTATATTTT
*
8111035 TATATTTATCTTTGTATTTATCTT-TATTTTTATTTT
1 TATATTTATCTTT-TATTTAT-TTATATTTATATTTT
8111071 ATACTTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 13 0.39
36 18 0.55
37 2 0.06
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.72
Consensus pattern (35 bp):
TATATTTATCTTTTATTTATTTATATTTATATTTT
Found at i:8111091 original size:47 final size:47
Alignment explanation
Indices: 8111002--8111093 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
8110992 TTGTTATATA
*
8111002 TATTTATCTTTTATTTATTTATATTTATATTTTTATATTTATCTTTG
1 TATTTATCTTTTATTTATTTATATTTATATTTTTACATTTATCTTTG
8111049 TATTTATC-TTTA-TT-TTTAT-TTTATACTTTTATGACATATTATCTT
1 TATTTATCTTTTATTTATTTATATTTATA-TTTT-T-ACAT-TTATCTT
8111094 CATTTTAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
43 6 0.15
44 9 0.22
45 3 0.08
46 7 0.17
47 15 0.38
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (47 bp):
TATTTATCTTTTATTTATTTATATTTATATTTTTACATTTATCTTTG
Found at i:8114003 original size:14 final size:14
Alignment explanation
Indices: 8113986--8114012 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8113976 TGGAAAATAG
8113986 TTTTTATTTTCTAT
1 TTTTTATTTTCTAT
8114000 TTTTTATTTTCTA
1 TTTTTATTTTCTA
8114013 ACAAATGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTCTAT
Found at i:8114309 original size:18 final size:18
Alignment explanation
Indices: 8114271--8114308 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
8114261 TCATATTTGA
8114271 TTTCTAAAAGCATTTTTT
1 TTTCTAAAAGCATTTTTT
8114289 TTTCTAAAAGC-TTTTTT
1 TTTCTAAAAGCATTTTTT
8114306 TTT
1 TTT
8114309 TTTTAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTCTAAAAGCATTTTTT
Found at i:8115601 original size:20 final size:20
Alignment explanation
Indices: 8115576--8115616 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8115566 AATACATATT
*
8115576 TATACGTGTATATATATGTA
1 TATACGTATATATATATGTA
*
8115596 TATACGTATATATGTATGTA
1 TATACGTATATATATATGTA
8115616 T
1 T
8115617 TGTAGCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (20 bp):
TATACGTATATATATATGTA
Found at i:8120225 original size:25 final size:25
Alignment explanation
Indices: 8120163--8120217 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
8120153 ATATTTTTTA
8120163 GATT-TACATTATAATGTTATATAT
1 GATTATACATTATAATGTTATATAT
*
8120187 GATTATACACTATAATGTTATATAT
1 GATTATACATTATAATGTTATATAT
*
8120212 GTTTAT
1 GATTAT
8120218 TCTTTATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.49
Consensus pattern (25 bp):
GATTATACATTATAATGTTATATAT
Found at i:8120641 original size:41 final size:41
Alignment explanation
Indices: 8120579--8120658 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
8120569 AAAACTTTTG
* * *
8120579 GATTTGAGCAAGTAGCTCAATCCTTCTA-GTTTAGATTAATT
1 GATTTGAGCAAGTAACCCAATCCTTC-ACGCTTAGATTAATT
*
8120620 GATTTGAGTAAGTAACCCAATCCTTCACGCTTAGATTAA
1 GATTTGAGCAAGTAACCCAATCCTTCACGCTTAGATTAA
8120659 ACCGTCGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (41 bp):
GATTTGAGCAAGTAACCCAATCCTTCACGCTTAGATTAATT
Found at i:8134136 original size:24 final size:26
Alignment explanation
Indices: 8134090--8134146 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 26
8134080 ATATTCAACT
* *
8134090 TTTTATGTTTTAATGAAATTTTTGAA
1 TTTTATGTTTTAATGAAAATTTTCAA
* *
8134116 TTTTAT-TTTT-ATTAAAATTTTCAT
1 TTTTATGTTTTAATGAAAATTTTCAA
8134140 TTTTATG
1 TTTTATG
8134147 AATTTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 16 0.62
25 4 0.15
26 6 0.23
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (26 bp):
TTTTATGTTTTAATGAAAATTTTCAA
Found at i:8134174 original size:22 final size:21
Alignment explanation
Indices: 8134148--8134195 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
8134138 ATTTTTATGA
*
8134148 ATTTTTCA-GAAAATTTTTGG
1 ATTTTTTATGAAAATTTTTGG
*
8134168 ATTTTTTATTAAAATTTTTGG
1 ATTTTTTATGAAAATTTTTGG
8134189 ATTTTTT
1 ATTTTTT
8134196 TAAGTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.60
Consensus pattern (21 bp):
ATTTTTTATGAAAATTTTTGG
Found at i:8134224 original size:49 final size:49
Alignment explanation
Indices: 8134122--8134226 Score: 115
Period size: 49 Copynumber: 2.1 Consensus size: 49
8134112 TGAATTTTAT
* ** *
8134122 TTTTATTAAAATTTTCATTTTTATGAATTTTTCAGAAAATTTTTGGATT
1 TTTTATTAAAATTTTCATTTTTATGAAGTTTTCAGAAAATTTTTAAATA
* * *
8134171 TTTTATTAAAATTTTTGGATTTTT-TTAAGTTTTCA-TAAATTTTTAAATA
1 TTTTATTAAAA-TTTT-CATTTTTATGAAGTTTTCAGAAAATTTTTAAATA
8134220 TTTTATT
1 TTTTATT
8134227 TATTTTTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 28 0.60
50 13 0.28
51 6 0.13
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (49 bp):
TTTTATTAAAATTTTCATTTTTATGAAGTTTTCAGAAAATTTTTAAATA
Found at i:8134241 original size:19 final size:20
Alignment explanation
Indices: 8134191--8134242 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
8134181 ATTTTTGGAT
8134191 TTTTTTAAG-TTTTCATAAA
1 TTTTTTAAGATTTTCATAAA
* * **
8134210 TTTTTAAATATTTT-ATTTA
1 TTTTTTAAGATTTTCATAAA
8134229 TTTTTTAAGATTTT
1 TTTTTTAAGATTTT
8134243 GTAATTTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTTTAAGATTTTCATAAA
Found at i:8140636 original size:3 final size:3
Alignment explanation
Indices: 8140630--8140658 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
8140620 GGGAAAAGAA
8140630 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
8140659 TGAAGTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:8146670 original size:14 final size:14
Alignment explanation
Indices: 8146651--8146677 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8146641 ATAAACAAAC
8146651 TAACTTTAATAAAG
1 TAACTTTAATAAAG
8146665 TAACTTTAATAAA
1 TAACTTTAATAAA
8146678 AAGGAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (14 bp):
TAACTTTAATAAAG
Found at i:8154928 original size:14 final size:16
Alignment explanation
Indices: 8154909--8154945 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8154899 TCAGCTGCCA
8154909 TTGTTGT-TTT-GTTT
1 TTGTTGTGTTTGGTTT
8154923 TTGTTGTGTTTGGTTT
1 TTGTTGTGTTTGGTTT
*
8154939 TTCTTGT
1 TTGTTGT
8154946 CTAGTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.00, C:0.03, G:0.24, T:0.73
Consensus pattern (16 bp):
TTGTTGTGTTTGGTTT
Found at i:8155533 original size:31 final size:31
Alignment explanation
Indices: 8155485--8155596 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 31
8155475 AAGAAATTCC
*
8155485 ATAT-ATTTTAAAAAATTAGGTAAAAATTTTT
1 ATATCATTTT-AAAAATTAAGTAAAAATTTTT
* * *
8155516 ATATCAATTTAAAAATTAAATAAAGAA-CTTT
1 ATATCATTTTAAAAATTAAGTAAA-AATTTTT
* * * *
8155547 ATGTCCTTTTAAATATTAAGTACAAATTTTT
1 ATATCATTTTAAAAATTAAGTAAAAATTTTT
*
8155578 AAATCATTTTAAAAATTAA
1 ATATCATTTTAAAAATTAA
8155597 TTTATTAATT
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
30 2 0.03
31 55 0.87
32 6 0.10
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.42
Consensus pattern (31 bp):
ATATCATTTTAAAAATTAAGTAAAAATTTTT
Found at i:8157578 original size:4 final size:4
Alignment explanation
Indices: 8157571--8157598 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
8157561 AGAACGGAAG
8157571 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA
8157599 AAAAAGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:8159809 original size:15 final size:14
Alignment explanation
Indices: 8159783--8159819 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
8159773 CCTATAAGGG
8159783 TCTTTTTTTCCTCT
1 TCTTTTTTTCCTCT
8159797 TCTTTTCTTTCCTCT
1 TCTTTT-TTTCCTCT
8159812 TCATTTTT
1 TC-TTTTT
8159820 CAGTTTTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (14 bp):
TCTTTTTTTCCTCT
Found at i:8163159 original size:2 final size:2
Alignment explanation
Indices: 8163152--8163183 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
8163142 TGAGTTTGAC
*
8163152 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8163184 TTCATGTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8171017 original size:12 final size:12
Alignment explanation
Indices: 8171000--8171038 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8170990 CAAGTCTCAG
8171000 TAGTTTATAATT
1 TAGTTTATAATT
8171012 TAGTTTATAATT
1 TAGTTTATAATT
* *
8171024 AAATTTAATAATT
1 TAGTTT-ATAATT
8171037 TA
1 TA
8171039 AAATATGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (12 bp):
TAGTTTATAATT
Found at i:8171672 original size:13 final size:13
Alignment explanation
Indices: 8171654--8171682 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
8171644 CGCTAATTTG
8171654 AAAAAAAGTTCAA
1 AAAAAAAGTTCAA
8171667 AAAAAAAGTTCAA
1 AAAAAAAGTTCAA
8171680 AAA
1 AAA
8171683 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAAAAAGTTCAA
Found at i:8176639 original size:64 final size:62
Alignment explanation
Indices: 8176504--8176684 Score: 276
Period size: 64 Copynumber: 2.9 Consensus size: 62
8176494 TTTTGTAGGA
*
8176504 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAA-TTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTTGATTTTCAAGG
** *
8176564 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTTTCTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT-TTGAT-TTTCAAGG
* *
8176628 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTTTTATTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTTGATTTT
8176685 TATTTAAAGA
Statistics
Matches: 111, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
60 32 0.29
61 12 0.11
62 5 0.05
63 7 0.06
64 55 0.50
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (62 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTTGATTTTCAAGG
Found at i:8176714 original size:10 final size:10
Alignment explanation
Indices: 8176699--8176731 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8176689 TAAAGAAAAT
8176699 AAAATAATAA
1 AAAATAATAA
8176709 AAAATAAT-A
1 AAAATAATAA
8176718 AAAATAAATAA
1 AAAAT-AATAA
8176729 AAA
1 AAA
8176732 GAATATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 11 0.52
11 4 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAATAATAA
Found at i:8176736 original size:19 final size:19
Alignment explanation
Indices: 8176699--8176736 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8176689 TAAAGAAAAT
*
8176699 AAAATAATAAAAAATAATA
1 AAAATAATAAAAAAGAATA
8176718 AAAATAA-ATAAAAAGAATA
1 AAAATAATA-AAAAAGAATA
8176737 TTACATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAATAATAAAAAAGAATA
Found at i:8177178 original size:19 final size:20
Alignment explanation
Indices: 8177140--8177183 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8177130 ACACCGGTGG
*
8177140 CGGATTCTGGAAATTTTCGC
1 CGGAATCTGGAAATTTTCGC
8177160 CGGAATCTGGAAA-TTTCGC
1 CGGAATCTGGAAATTTTCGC
8177179 CGGAA
1 CGGAA
8177184 GTTGGCCGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (20 bp):
CGGAATCTGGAAATTTTCGC
Found at i:8177282 original size:31 final size:31
Alignment explanation
Indices: 8177235--8177305 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
8177225 AACTGGGTAG
* *
8177235 TTCGCCGGAAACTTC-AATGTTCGCCGGAATT
1 TTCGCCGGAAAATTCAAAT-TTCGCCGAAATT
*
8177266 TTCGTCGGAAAATTCAAATTTCGCCGAAATT
1 TTCGCCGGAAAATTCAAATTTCGCCGAAATT
8177297 TTCGCCGGA
1 TTCGCCGGA
8177306 TTCTGGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 32 0.91
32 3 0.09
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (31 bp):
TTCGCCGGAAAATTCAAATTTCGCCGAAATT
Found at i:8178105 original size:9 final size:9
Alignment explanation
Indices: 8178072--8178109 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
8178062 CAACTCAACA
*
8178072 TTTTTTGGT
1 TTTTTTGTT
8178081 TTTTTTGTTT
1 TTTTTTG-TT
8178091 TTTTTTGTT
1 TTTTTTGTT
8178100 TTTTTT-TT
1 TTTTTTGTT
8178108 TT
1 TT
8178110 ACTAAAGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 4 0.15
9 15 0.56
10 8 0.30
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:8178107 original size:11 final size:10
Alignment explanation
Indices: 8178080--8178106 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8178070 CATTTTTTGG
8178080 TTTTTTTGTT
1 TTTTTTTGTT
8178090 TTTTTTTGTT
1 TTTTTTTGTT
8178100 TTTTTTT
1 TTTTTTT
8178107 TTTACTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:8178204 original size:41 final size:41
Alignment explanation
Indices: 8178116--8178933 Score: 1102
Period size: 41 Copynumber: 20.1 Consensus size: 41
8178106 TTTTACTAAA
* *
8178116 GCTCCTCTAAACAGAGGCACCACGACTTTTAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGAC-TTTGGAAAGTAAATT
8178158 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
* *
8178199 ACTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
* * *
8178240 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
8178281 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGG-AAAGTAAATT
* *
8178323 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
*
8178364 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTG-GAAAGTAAATT
* * *
8178406 GCTCCTCTAAATAGAGG--CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAGTAAATT
* *
8178446 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
* *
8178487 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
8178528 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
*
8178569 GCTCCTCTAAACAGAGG--CAACGAAACTTT-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACG--ACTTTGGAAAGTAAATT
* *
8178609 GCTCCTCTAAACAGAGGCAACA-GAACTTT-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAGTAAATT
** *
8178649 GCTCCTCTAAACAGAGGTACCACGACTTTAAAAAATAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
* *
8178690 GCTCCTCTAAACAGAGG--CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAGTAAATT
*
8178730 GCTCCT-T-GACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
*
8178769 GCTCCTCTAAACAGAGG--CAACGAAACTTT-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACG--ACTTTGGAAAGTAAATT
*
8178809 GCTCCTCTAAACAGAGG--CAACGGAACTTT-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCAC-G-ACTTTGGAAAGTAAATT
8178849 GCTCCTCTAAACAGAGGTA-C-CGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
* *
8178888 GCTCCTCTAAACAGAGG--CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAGTAAATT
8178928 GCTCCT
1 GCTCCT
8178934 TGACAATCAT
Statistics
Matches: 709, Mismatches: 42, Indels: 52
0.88 0.05 0.06
Matches are distributed among these distances:
38 12 0.02
39 66 0.09
40 216 0.30
41 321 0.45
42 94 0.13
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
Found at i:8180539 original size:17 final size:17
Alignment explanation
Indices: 8180517--8180550 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8180507 GTCATGTGTG
*
8180517 GCTTTTATTTTTCTTTT
1 GCTTTTATTTCTCTTTT
*
8180534 GCTTTTCTTTCTCTTTT
1 GCTTTTATTTCTCTTTT
8180551 CATCTTTGAG
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:0.03, C:0.18, G:0.06, T:0.74
Consensus pattern (17 bp):
GCTTTTATTTCTCTTTT
Found at i:8184318 original size:179 final size:180
Alignment explanation
Indices: 8184012--8184361 Score: 555
Period size: 179 Copynumber: 1.9 Consensus size: 180
8184002 TTTTTTGTAG
* * *
8184012 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTTCCCAAAAACACTTTTTTTGAAAATTTGATTTTCAAGGAAA
* *
8184077 ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTCTTTCTAAGAAAAATTGAT
66 ATTGATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTAAGAAAAATTGAT
8184142 ACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
131 ACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
*
8184192 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTTGAAAATTT-A-TTTCTAAGGA
1 GAAAAATTGATACTTTCAACTTTTTCC-CAAAAACACTTTTTTTGAAAATTTGATTTTC-AAGGA
* * *
8184254 AAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTGAAAATTTATTTCTAAGGAAAATT
64 AAATTGATACTTTCAACTTTTCCTC-AAAAACACTTTTTTTGAAAATTTATTTCTAAGAAAAATT
*
8184318 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAATTTT
128 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTT
8184362 TTATTTTTAT
Statistics
Matches: 157, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
178 5 0.03
179 112 0.71
180 40 0.25
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (180 bp):
GAAAAATTGATACTTTCAACTTTTTCCCAAAAACACTTTTTTTGAAAATTTGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAACACTTTTTTTGAAAATTTATTTCTAAGAAAAATTGAT
ACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTTTCAA
Found at i:8184353 original size:120 final size:119
Alignment explanation
Indices: 8184012--8184335 Score: 564
Period size: 120 Copynumber: 2.7 Consensus size: 119
8184002 TTTTTTGTAG
8184012 GAAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAA
1 GAAAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAA
*
8184076 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTCTTTCTAA
65 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
*
8184131 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTTTCAAGAAA
1 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAATTTTGATTTTCAAGGAA
8184196 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
65 AATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
* *
8184251 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTT-A-TTTCTAAGGAA
1 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTGATTTTC-AAGGAA
8184314 AATTGATACTTTCAACTTTTCC
65 AATTGATACTTTCAACTTTTCC
8184336 CTAAAAATAT
Statistics
Matches: 197, Mismatches: 5, Indels: 7
0.94 0.02 0.03
Matches are distributed among these distances:
117 4 0.02
118 35 0.18
119 42 0.21
120 116 0.59
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (119 bp):
GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTTGATTTTCAAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
Found at i:8184360 original size:59 final size:59
Alignment explanation
Indices: 8184014--8184352 Score: 472
Period size: 59 Copynumber: 5.7 Consensus size: 59
8184004 TTTTGTAGGA
*
8184014 AAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTTGAAATTTTGATTT-TCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTTTGAAAATTT-ATTTCT-AAGG
*** * *
8184074 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTCTTTCTAAGA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTATTTCTAAGG
* *
8184133 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTTGATTT-TCAAGA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAAATTT-ATTTCT-AAGG
***
8184194 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTGAAAATTTATTTCTAAGG
8184253 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAAGG
8184312 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTT
8184353 TGGAATTTTT
Statistics
Matches: 250, Mismatches: 19, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
58 2 0.01
59 137 0.55
60 77 0.31
61 34 0.14
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTATTTCTAAGG
Found at i:8184398 original size:10 final size:10
Alignment explanation
Indices: 8184383--8184415 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
8184373 TAAAGAAAAT
8184383 AAAATAATAA
1 AAAATAATAA
8184393 AAAATAAT-A
1 AAAATAATAA
8184402 AAAATAAATAA
1 AAAAT-AATAA
8184413 AAA
1 AAA
8184416 GAATATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.29
10 11 0.52
11 4 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAATAATAA
Found at i:8184420 original size:19 final size:19
Alignment explanation
Indices: 8184383--8184420 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8184373 TAAAGAAAAT
*
8184383 AAAATAATAAAAAATAATA
1 AAAATAATAAAAAAGAATA
8184402 AAAATAA-ATAAAAAGAATA
1 AAAATAATA-AAAAAGAATA
8184421 TTACATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAATAATAAAAAAGAATA
Found at i:8185034 original size:25 final size:25
Alignment explanation
Indices: 8184988--8185041 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
8184978 ATTCTGGAAA
*
8184988 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAAAAATTTCCAGAAAAATT
* *
8185013 TTTCGCCAAAAATTTCTA-AAAATTT
1 TTTC-CCAAAAATTTCCAGAAAAATT
8185038 TTTC
1 TTTC
8185042 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.39
Consensus pattern (25 bp):
TTTCCCAAAAATTTCCAGAAAAATT
Found at i:8185442 original size:15 final size:17
Alignment explanation
Indices: 8185405--8185444 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
8185395 ATTAGATAAG
8185405 TAAAAATACAAAAATGA
1 TAAAAATACAAAAATGA
8185422 -ATAAAATA-AAAAA-GA
1 TA-AAAATACAAAAATGA
8185437 TAAAAATA
1 TAAAAATA
8185445 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (17 bp):
TAAAAATACAAAAATGA
Found at i:8185472 original size:28 final size:29
Alignment explanation
Indices: 8185439--8185553 Score: 69
Period size: 28 Copynumber: 3.9 Consensus size: 29
8185429 AAAAAAGATA
*
8185439 AAAATATATATATA-TATACATAAATAAT
1 AAAATATACATATACTATACATAAATAAT
* * *
8185467 AAAATACACATA-AATATTAACAAAAAATAAAT
1 AAAATATACATATACTA-T-AC-ATAAAT-AAT
*
8185499 AAATATATACATATATTAATACAT-AATAAT
1 AAA-ATATACATATACT-ATACATAAATAAT
*
8185529 AATAATA-A-ATAATACAATACATAAA
1 AA-AATATACAT-ATACTATACATAAA
8185554 ATACAAAAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
27 1 0.01
28 20 0.29
29 7 0.10
30 10 0.15
31 9 0.13
32 7 0.10
33 10 0.15
34 3 0.04
35 1 0.01
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAATATACATATACTATACATAAATAAT
Found at i:8190056 original size:22 final size:22
Alignment explanation
Indices: 8190028--8190071 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8190018 TCTGTATATT
8190028 TATTTGTA-TCTCTAGAATTAAG
1 TATTTGTATTC-CTAGAATTAAG
8190050 TATTTGTATTCCTAGAATTAAG
1 TATTTGTATTCCTAGAATTAAG
8190072 GATAGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (22 bp):
TATTTGTATTCCTAGAATTAAG
Found at i:8190693 original size:18 final size:19
Alignment explanation
Indices: 8190654--8190694 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8190644 CATCATTCTT
*
8190654 AAAAATAAATACATAAGTG
1 AAAAAGAAATACATAAGTG
8190673 AAAAAGAAAT-CATGAAG-G
1 AAAAAGAAATACAT-AAGTG
8190691 AAAA
1 AAAA
8190695 TAATATTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAAAGAAATACATAAGTG
Found at i:8199376 original size:14 final size:14
Alignment explanation
Indices: 8199357--8199395 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
8199347 TTTTAATTTT
8199357 AAAAAATGGGAAAA
1 AAAAAATGGGAAAA
8199371 AAAAAA-GGGAAAA
1 AAAAAATGGGAAAA
8199384 AAGAAATATGGG
1 AA-AAA-ATGGG
8199396 TGGTCTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
14 9 0.41
15 1 0.05
16 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.08
Consensus pattern (14 bp):
AAAAAATGGGAAAA
Found at i:8200954 original size:22 final size:22
Alignment explanation
Indices: 8200904--8201066 Score: 81
Period size: 22 Copynumber: 7.6 Consensus size: 22
8200894 GTTAATTAGT
* * *
8200904 GATAACTTAATAATAAATCAAT
1 GATAATTTAATAATAAATTAAC
* *
8200926 GAAAATTTAATAGTAAATTAAC
1 GATAATTTAATAATAAATTAAC
* *
8200948 GATAATTTACTAATAAATTAAT
1 GATAATTTAATAATAAATTAAC
** **
8200970 TTTAGCTTAATAAT-AATTAA-
1 GATAATTTAATAATAAATTAAC
* * *
8200990 -TTGA--TAGTAATAAATCATAA-
1 GATAATTTAATAATAAAT--TAAC
* *
8201010 -ATAATTTAGTAATAAATTAAT
1 GATAATTTAATAATAAATTAAC
* *
8201031 AATAATTTAATAATAAA-TAATT
1 GATAATTTAATAATAAATTAA-C
8201053 GATAATTTAATAAT
1 GATAATTTAATAAT
8201067 TAGTAATTGA
Statistics
Matches: 112, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
17 6 0.05
18 3 0.03
19 2 0.02
20 8 0.07
21 9 0.08
22 84 0.75
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (22 bp):
GATAATTTAATAATAAATTAAC
Found at i:8201023 original size:11 final size:11
Alignment explanation
Indices: 8201009--8201066 Score: 64
Period size: 11 Copynumber: 5.3 Consensus size: 11
8200999 ATAAATCATA
*
8201009 AATAATTTAGT
1 AATAATTTAAT
*
8201020 AATAAATTAAT
1 AATAATTTAAT
8201031 AATAATTTAAT
1 AATAATTTAAT
*
8201042 AATAA-ATAATT
1 AATAATTTAA-T
*
8201053 GATAATTTAAT
1 AATAATTTAAT
8201064 AAT
1 AAT
8201067 TAGTAATTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 3 0.08
11 32 0.84
12 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AATAATTTAAT
Found at i:8201063 original size:83 final size:83
Alignment explanation
Indices: 8200914--8201076 Score: 195
Period size: 83 Copynumber: 2.0 Consensus size: 83
8200904 GATAACTTAA
* * * * * *
8200914 TAATAAATCAATGAAAATTTAATAGTAAATTAACGATAATTTACTAATAAATTAATTTTAGCTTA
1 TAATAAATCAATAAAAATTTAATAATAAATTAACAATAATTTAATAATAAATTAATTATAACTTA
*
8200979 ATAATAATTAATTGATAG
66 ATAATAAGTAATTGATAG
* * *
8200997 TAATAAATC-ATAAATAATTTAGTAATAAATTAATAATAATTTAATAATAAA-TAATTGATAATT
1 TAATAAATCAATAAA-AATTTAATAATAAATTAACAATAATTTAATAATAAATTAATT-ATAACT
*
8201060 TAATAATTAGTAATTGA
64 TAATAATAAGTAATTGA
8201077 AACTTTAAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
82 9 0.13
83 58 0.87
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (83 bp):
TAATAAATCAATAAAAATTTAATAATAAATTAACAATAATTTAATAATAAATTAATTATAACTTA
ATAATAAGTAATTGATAG
Found at i:8201158 original size:65 final size:66
Alignment explanation
Indices: 8201009--8201172 Score: 147
Period size: 65 Copynumber: 2.5 Consensus size: 66
8200999 ATAAATCATA
* * * * * * *
8201009 AATAATTTAGTAATAAATTAATAATAATTTAATAATAAATAATTGATAATTTAATAATTAGTAAT
1 AATAACTTAATAATAAATCAATAATAATTTAATAATAAATAATCGATAACTTAATAATTAATAAC
8201074 T
66 T
* * * * * *
8201075 GA-AACTTTAA-AAGCAAATCAAT-ATAATTTTATCATAAATCATCGATAACTTAATAATTAATC
1 AATAAC-TTAATAA-TAAATCAATAATAATTTAATAATAAATAATCGATAACTTAATAATTAATA
8201137 ACT
64 ACT
*
8201140 AATAACTTAATAATAAATC-ATGCATAATTTAAT
1 AATAACTTAATAATAAATCAAT-AATAATTTAAT
8201173 TTAAGTCAAT
Statistics
Matches: 76, Mismatches: 16, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
64 2 0.03
65 49 0.64
66 25 0.33
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (66 bp):
AATAACTTAATAATAAATCAATAATAATTTAATAATAAATAATCGATAACTTAATAATTAATAAC
T
Found at i:8201166 original size:22 final size:21
Alignment explanation
Indices: 8201108--8201172 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
8201098 TAATTTTATC
8201108 ATAAATCATCGATAACTTAATA
1 ATAAATCATC-ATAACTTAATA
* *
8201130 ATTAATCACTAATAACTTAATA
1 ATAAATCA-TCATAACTTAATA
*
8201152 ATAAATCATGCATAATTTAAT
1 ATAAATCAT-CATAACTTAAT
8201173 TTAAGTCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAAATCATCATAACTTAATA
Found at i:8201273 original size:22 final size:23
Alignment explanation
Indices: 8201237--8201332 Score: 62
Period size: 22 Copynumber: 4.3 Consensus size: 23
8201227 AATAATTTTA
8201237 TAGTAAATAATTGAA-AAT-TAAG
1 TAGTAAATAATTGAATAATAT-AG
8201259 TAGTAAATCAA-TGAATAATATAG
1 TAGTAAAT-AATTGAATAATATAG
* * *
8201282 TAGTACAT-ATAT-AAAAATATAA
1 TAGTAAATAAT-TGAATAATATAG
* * *
8201304 TAGT-AATCATT-AATAATTTAA
1 TAGTAAATAATTGAATAATATAG
8201325 TAGTAAAT
1 TAGTAAAT
8201333 TGATAACTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
21 16 0.26
22 29 0.48
23 15 0.25
24 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (23 bp):
TAGTAAATAATTGAATAATATAG
Found at i:8201579 original size:11 final size:11
Alignment explanation
Indices: 8201565--8201658 Score: 62
Period size: 11 Copynumber: 8.5 Consensus size: 11
8201555 GTCAAATCAT
8201565 TAATAAATTAA
1 TAATAAATTAA
*
8201576 TAATAAATTAT
1 TAATAAATTAA
* * *
8201587 TGATAATTTAG
1 TAATAAATTAA
* *
8201598 TAACAAATTAT
1 TAATAAATTAA
**
8201609 TAATATCTTAA
1 TAATAAATTAA
* *
8201620 TAATAAATCAT
1 TAATAAATTAA
*
8201631 TAATAACTTAA
1 TAATAAATTAA
* *
8201642 TTATCAATTAA
1 TAATAAATTAA
*
8201653 TGATAA
1 TAATAA
8201659 CTTTTTTTTT
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
11 59 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.40
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:8201583 original size:22 final size:22
Alignment explanation
Indices: 8201424--8201642 Score: 109
Period size: 22 Copynumber: 9.8 Consensus size: 22
8201414 TAAATTAGTT
* ** *
8201424 AATCATTGATAACTTTTTATTA
1 AATCATTAATAACTTAATAATA
** * *
8201446 AATCATCGATAAATTAGTAATA
1 AATCATTAATAACTTAATAATA
* *
8201468 AATCAATT-ATAAATTTATAATA
1 AATC-ATTAATAACTTAATAATA
** * * **
8201490 AATTGTCAATAACTTAGTGGTA
1 AATCATTAATAACTTAATAATA
** * *
8201512 AATCACCATTAATTTAATATATAGA
1 AATCATTAATAACTTAATA-AT--A
* *
8201537 AATCATTCATAACTTAAT-GTCA
1 AATCATTAATAACTTAATAAT-A
*
8201559 AATCATTAATAAATTAATAATA
1 AATCATTAATAACTTAATAATA
* * * * *
8201581 AATTATTGATAATTTAGTAACA
1 AATCATTAATAACTTAATAATA
* *
8201603 AATTATTAATATCTTAATAATA
1 AATCATTAATAACTTAATAATA
8201625 AATCATTAATAACTTAAT
1 AATCATTAATAACTTAAT
8201643 TATCAATTAA
Statistics
Matches: 145, Mismatches: 46, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
21 1 0.01
22 125 0.86
23 5 0.03
25 14 0.10
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.39
Consensus pattern (22 bp):
AATCATTAATAACTTAATAATA
Found at i:8201651 original size:44 final size:44
Alignment explanation
Indices: 8201536--8201648 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 44
8201526 TAATATATAG
* * *
8201536 AAATCATTCATAACTTAATGTCAAATCATTAATAAATTAATAAT
1 AAATCATTAATAACTTAATATCAAATTATTAATAAATTAATAAT
* * * * * **
8201580 AAATTATTGATAATTTAGTAACAAATTATTAATATCTTAATAAT
1 AAATCATTAATAACTTAATATCAAATTATTAATAAATTAATAAT
8201624 AAATCATTAATAACTTAATTATCAA
1 AAATCATTAATAACTTAA-TATCAA
8201649 TTAATGATAA
Statistics
Matches: 54, Mismatches: 14, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
44 49 0.91
45 5 0.09
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (44 bp):
AAATCATTAATAACTTAATATCAAATTATTAATAAATTAATAAT
Found at i:8202163 original size:22 final size:21
Alignment explanation
Indices: 8202137--8202213 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
8202127 TAAATTATCA
*
8202137 ATAACTTAATAATTAATCACTG
1 ATAACTTAATAATAAATCA-TG
*
8202159 ATAACTTAATAATAAATTATG
1 ATAACTTAATAATAAATCATG
* * *
8202180 ATAATTTAAT-ATAAGTTAGTG
1 ATAACTTAATAATAAATCA-TG
*
8202201 ATAACTTGATAAT
1 ATAACTTAATAAT
8202214 GAATTATAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 7 0.15
21 21 0.45
22 19 0.40
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (21 bp):
ATAACTTAATAATAAATCATG
Found at i:8202304 original size:22 final size:22
Alignment explanation
Indices: 8202278--8202373 Score: 86
Period size: 22 Copynumber: 4.4 Consensus size: 22
8202268 AAAAACTAAG
*
8202278 TAGTAAATTAATGATAATATAG
1 TAGTAAATTAATGATAATATAA
* * *
8202300 TAGTAAATGAATAATAACATAA
1 TAGTAAATTAATGATAATATAA
* * *
8202322 TAGTAAATCATTGATAAT-TTA
1 TAGTAAATTAATGATAATATAA
* * *
8202343 TATGTAAATTATTTATAATTTAA
1 TA-GTAAATTAATGATAATATAA
8202366 TAGTAAAT
1 TAGTAAAT
8202374 CAGGAAAAAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
21 4 0.07
22 52 0.87
23 4 0.07
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (22 bp):
TAGTAAATTAATGATAATATAA
Found at i:8202337 original size:44 final size:44
Alignment explanation
Indices: 8202278--8202375 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
8202268 AAAAACTAAG
*
8202278 TAGTAAATTAATGATAATATAGTA-GTAAATGAATAATAACATAA
1 TAGTAAATCAATGATAATATA-TATGTAAATGAATAATAACATAA
* * * * * **
8202322 TAGTAAATCATTGATAATTTATATGTAAATTATTTATAATTTAA
1 TAGTAAATCAATGATAATATATATGTAAATGAATAATAACATAA
8202366 TAGTAAATCA
1 TAGTAAATCA
8202376 GGAAAAACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
43 2 0.04
44 43 0.96
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.39
Consensus pattern (44 bp):
TAGTAAATCAATGATAATATATATGTAAATGAATAATAACATAA
Found at i:8202409 original size:22 final size:22
Alignment explanation
Indices: 8202384--8202429 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8202374 CAGGAAAAAC
8202384 TTAATTGCAAATGAA-TGATAAT
1 TTAATTGCAAAT-AAGTGATAAT
*
8202406 TTAATTGTAAATAAGTGATAAT
1 TTAATTGCAAATAAGTGATAAT
8202428 TT
1 TT
8202430 TGTCGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (22 bp):
TTAATTGCAAATAAGTGATAAT
Found at i:8203133 original size:21 final size:21
Alignment explanation
Indices: 8203109--8203170 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
8203099 TATCAAAGAA
8203109 ATATCGAAGGTTATTAAAATT
1 ATATCGAAGGTTATTAAAATT
* * *
8203130 ATATCGAATGTCACTAAAATT
1 ATATCGAAGGTTATTAAAATT
* * *
8203151 TTATCAAAGGTTATTGAAAT
1 ATATCGAAGGTTATTAAAAT
8203171 CAAAATTATA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (21 bp):
ATATCGAAGGTTATTAAAATT
Found at i:8204794 original size:11 final size:11
Alignment explanation
Indices: 8204780--8204873 Score: 62
Period size: 11 Copynumber: 8.5 Consensus size: 11
8204770 GTCAAATCAT
8204780 TAATAAATTAA
1 TAATAAATTAA
*
8204791 TAATAAATTAT
1 TAATAAATTAA
* * *
8204802 TGATAATTTAG
1 TAATAAATTAA
* *
8204813 TAACAAATTAT
1 TAATAAATTAA
**
8204824 TAATATCTTAA
1 TAATAAATTAA
* *
8204835 TAATAAATCAT
1 TAATAAATTAA
*
8204846 TAATAACTTAA
1 TAATAAATTAA
* *
8204857 TTATCAATTAA
1 TAATAAATTAA
*
8204868 TGATAA
1 TAATAA
8204874 CTTTTTTTTT
Statistics
Matches: 59, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
11 59 1.00
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.40
Consensus pattern (11 bp):
TAATAAATTAA
Found at i:8204798 original size:22 final size:22
Alignment explanation
Indices: 8204751--8204857 Score: 108
Period size: 22 Copynumber: 4.9 Consensus size: 22
8204741 NNNNNNNTAG
* *
8204751 AAATCATTCATAACTTAAT-GT
1 AAATCATTAATAACTTAATAAT
*
8204772 CAAATCATTAATAAATTAATAAT
1 -AAATCATTAATAACTTAATAAT
* * * * *
8204795 AAATTATTGATAATTTAGTAAC
1 AAATCATTAATAACTTAATAAT
* *
8204817 AAATTATTAATATCTTAATAAT
1 AAATCATTAATAACTTAATAAT
8204839 AAATCATTAATAACTTAAT
1 AAATCATTAATAACTTAAT
8204858 TATCAATTAA
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
22 68 0.99
23 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (22 bp):
AAATCATTAATAACTTAATAAT
Found at i:8204866 original size:44 final size:44
Alignment explanation
Indices: 8204751--8204863 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 44
8204741 NNNNNNNTAG
* * *
8204751 AAATCATTCATAACTTAATGTCAAATCATTAATAAATTAATAAT
1 AAATCATTAATAACTTAATATCAAATTATTAATAAATTAATAAT
* * * * * **
8204795 AAATTATTGATAATTTAGTAACAAATTATTAATATCTTAATAAT
1 AAATCATTAATAACTTAATATCAAATTATTAATAAATTAATAAT
8204839 AAATCATTAATAACTTAATTATCAA
1 AAATCATTAATAACTTAA-TATCAA
8204864 TTAATGATAA
Statistics
Matches: 54, Mismatches: 14, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
44 49 0.91
45 5 0.09
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.39
Consensus pattern (44 bp):
AAATCATTAATAACTTAATATCAAATTATTAATAAATTAATAAT
Found at i:8205204 original size:44 final size:43
Alignment explanation
Indices: 8205156--8205442 Score: 161
Period size: 44 Copynumber: 6.5 Consensus size: 43
8205146 AATTAACGAT
*
8205156 TGATAACTTAATAATAAATTAAGGATAATTTAATAGTAAATTAG
1 TGATAACTTAATAATAAATTAA-AATAATTTAATAGTAAATTAG
** * ** *
8205200 TGATAACTTAATCGTAAATCAATTTTAATTTAATAGT-AATTAAT
1 TGATAACTTAATAATAAATTAA-AATAATTTAATAGTAAATT-AG
* * * * *
8205244 TAATAAACTTAGTAATAAATTATAAAT-ATTATAGTAGTAAATCAA
1 TGAT-AACTTAATAATAAATTA-AAATAATT-TAATAGTAAATTAG
* * * * *
8205289 TGATAATTTAGTAATTAATTATTACA-AATTTAAAAGTAAATTAG
1 TGATAACTTAATAATAAATTA--AAATAATTTAATAGTAAATTAG
* * * * * * *
8205333 T-ATAACTTAGCAGTAGTAAATTATCAATAACTTAATAATTAATCAC
1 TGATAACTTA--A-TAATAAATTA-AAATAATTTAATAGTAAATTAG
** *
8205379 TGATAACTTAATAATAAATTATGGATAATTTAATA-TAAGTTAG
1 TGATAACTTAATAATAAATTA-AAATAATTTAATAGTAAATTAG
* *
8205422 TGATAACTTGATAATGAATTA
1 TGATAACTTAATAATAAATTA
8205443 TAGTTAATTT
Statistics
Matches: 184, Mismatches: 47, Indels: 25
0.72 0.18 0.10
Matches are distributed among these distances:
43 34 0.18
44 84 0.46
45 33 0.18
46 25 0.14
47 8 0.04
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.38
Consensus pattern (43 bp):
TGATAACTTAATAATAAATTAAAATAATTTAATAGTAAATTAG
Found at i:8205426 original size:21 final size:21
Alignment explanation
Indices: 8205136--8205462 Score: 99
Period size: 22 Copynumber: 14.8 Consensus size: 21
8205126 GAAACAAGTA
* **
8205136 ATAACTTAATAATTAACGATTG
1 ATAACTTAATAATAAATTA-TG
*
8205158 ATAACTTAATAATAAATTAAGG
1 ATAACTTAATAATAAATT-ATG
* *
8205180 ATAATTTAATAGTAAATTAGTG
1 ATAACTTAATAATAAATTA-TG
** * *
8205202 ATAACTTAATCGTAAATCAATT
1 ATAACTTAATAATAAAT-TATG
* * * *
8205224 TTAATTTAATAGT-AATTAATTA
1 ATAACTTAATAATAAATT-A-TG
*
8205246 ATAAACTTAGTAATAAATTAT-
1 AT-AACTTAATAATAAATTATG
* * *
8205267 A-AATATTATAGTAGTAAATCAATG
1 ATAA-CTTA-A-TAATAAAT-TATG
* * * *
8205291 ATAATTTAGTAATTAATTATT
1 ATAACTTAATAATAAATTATG
* *
8205312 ACAAATTTAA-AAGTAAATTA-G
1 A-TAACTTAATAA-TAAATTATG
* *
8205333 TATAACTTAGCAGTAGTAAATTATCA
1 -ATAACTTA--A-TAATAAATTAT-G
* *
8205359 ATAACTTAATAATTAATCACTG
1 ATAACTTAATAATAAATTA-TG
8205381 ATAACTTAATAATAAATTATGG
1 ATAACTTAATAATAAATTAT-G
* *
8205403 ATAATTTAAT-ATAAGTTAGTG
1 ATAACTTAATAATAAATTA-TG
* *
8205424 ATAACTTGATAATGAATTATAG
1 ATAACTTAATAATAAATTAT-G
* * *
8205446 TTAATTTAGTAATAAAT
1 ATAACTTAATAATAAAT
8205463 ATGTGATGAT
Statistics
Matches: 223, Mismatches: 55, Indels: 54
0.67 0.17 0.16
Matches are distributed among these distances:
19 2 0.01
20 3 0.01
21 34 0.15
22 142 0.64
23 16 0.07
24 15 0.07
25 11 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (21 bp):
ATAACTTAATAATAAATTATG
Found at i:8205526 original size:22 final size:22
Alignment explanation
Indices: 8205500--8205595 Score: 77
Period size: 22 Copynumber: 4.4 Consensus size: 22
8205490 AAAAACTAAG
*
8205500 TAGTAAATTAATGATAATATAG
1 TAGTAAATTAATGATAATATAA
* * *
8205522 TAGTAAATGAATAATAACATAA
1 TAGTAAATTAATGATAATATAA
* * * *
8205544 TAATAAATCATTGATAAT-TTA
1 TAGTAAATTAATGATAATATAA
* * *
8205565 TATGTAAATTATTTATAATTTAA
1 TA-GTAAATTAATGATAATATAA
8205588 TAGTAAAT
1 TAGTAAAT
8205596 CAGGAAAAAC
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
21 4 0.07
22 50 0.86
23 4 0.07
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (22 bp):
TAGTAAATTAATGATAATATAA
Found at i:8205631 original size:22 final size:22
Alignment explanation
Indices: 8205606--8205651 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8205596 CAGGAAAAAC
8205606 TTAATTGCAAATGAA-TGATAAT
1 TTAATTGCAAAT-AAGTGATAAT
*
8205628 TTAATTGTAAATAAGTGATAAT
1 TTAATTGCAAATAAGTGATAAT
8205650 TT
1 TT
8205652 TGTCGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (22 bp):
TTAATTGCAAATAAGTGATAAT
Found at i:8205769 original size:22 final size:22
Alignment explanation
Indices: 8205708--8205759 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
8205698 TGAATTAATA
8205708 ATAAATCAATTATAACTTTATG
1 ATAAATCAATTATAACTTTATG
8205730 ATAAATCAATTATAACTTTATG
1 ATAAATCAATTATAACTTTATG
8205752 ATAAATCA
1 ATAAATCA
8205760 TTAGCAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAAATCAATTATAACTTTATG
Found at i:8205921 original size:22 final size:22
Alignment explanation
Indices: 8205768--8205921 Score: 85
Period size: 22 Copynumber: 7.0 Consensus size: 22
8205758 CATTAGCAAC
* **
8205768 TTAGTAGTGAATCATCAATAAT
1 TTAGTAGTAAATCATTGATAAT
* * * *
8205790 TTATTAATATATCATTCATAAT
1 TTAGTAGTAAATCATTGATAAT
* ** * *
8205812 TTACTAGTAAAAGTTTTTTATAAA
1 TTAGTAGT-AAA-TCATTGATAAT
* ** * *
8205836 TTAATAGTACTTGATTGCTAAT
1 TTAGTAGTAAATCATTGATAAT
8205858 TTAGTAGTAAA-CATTGATAAT
1 TTAGTAGTAAATCATTGATAAT
* * * *
8205879 TTAGTAATATATCATTAATAAC
1 TTAGTAGTAAATCATTGATAAT
*
8205901 TTAGTAGTAAATTATTGATAA
1 TTAGTAGTAAATCATTGATAA
8205922 AATATCACTA
Statistics
Matches: 95, Mismatches: 34, Indels: 6
0.70 0.25 0.04
Matches are distributed among these distances:
21 17 0.18
22 61 0.64
23 3 0.03
24 14 0.15
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (22 bp):
TTAGTAGTAAATCATTGATAAT
Found at i:8206376 original size:21 final size:21
Alignment explanation
Indices: 8206352--8206413 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
8206342 TATCAAAGAA
8206352 ATATCGAAGGTTATTAAAATT
1 ATATCGAAGGTTATTAAAATT
* * *
8206373 ATATCGAATGTCACTAAAATT
1 ATATCGAAGGTTATTAAAATT
* * *
8206394 TTATCAAAGGTTATTGAAAT
1 ATATCGAAGGTTATTAAAAT
8206414 CAAAATTATA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (21 bp):
ATATCGAAGGTTATTAAAATT
Found at i:8213706 original size:27 final size:27
Alignment explanation
Indices: 8213676--8213765 Score: 81
Period size: 29 Copynumber: 3.2 Consensus size: 27
8213666 TGCATCTAAT
8213676 TAACACAAAGTTTAATAATTAGTATAA
1 TAACACAAAGTTTAATAATTAGTATAA
* * ** * * *
8213703 TAACATTCAGATTTTTTTAATACATTCTAA
1 TAACA--CAAAGTTTAATAAT-TAGTATAA
8213733 TTAACACAAAGTTTAATAATTAGTATAA
1 -TAACACAAAGTTTAATAATTAGTATAA
8213761 TAACA
1 TAACA
8213766 TTCAATTTTT
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
27 10 0.22
28 5 0.11
29 20 0.44
30 5 0.11
31 5 0.11
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (27 bp):
TAACACAAAGTTTAATAATTAGTATAA
Found at i:8213734 original size:58 final size:57
Alignment explanation
Indices: 8213670--8213785 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 57
8213660 CAAATATGCA
8213670 TCTAATTAACACAAAGTTTAATAATTAGTATAATAACATTCAGATTTTTTTAATACAT
1 TCTAATTAACACAAAGTTTAATAATTAGTATAATAACATTCA-ATTTTTTTAATACAT
8213728 TCTAATTAACACAAAGTTTAATAATTAGTATAATAACATTCAATTTTTTTAATACAT
1 TCTAATTAACACAAAGTTTAATAATTAGTATAATAACATTCAATTTTTTTAATACAT
8213785 T
1 T
8213786 AACCAAAAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 16 0.28
58 42 0.72
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.42
Consensus pattern (57 bp):
TCTAATTAACACAAAGTTTAATAATTAGTATAATAACATTCAATTTTTTTAATACAT
Found at i:8222914 original size:28 final size:28
Alignment explanation
Indices: 8222871--8222948 Score: 122
Period size: 28 Copynumber: 2.7 Consensus size: 28
8222861 TTTTGTTTAA
8222871 ATATTGTGATTTGCTGAATGGTATTGTATG
1 ATATTGT--TTTGCTGAATGGTATTGTATG
8222901 ATATTGTTTTGCTGAATGGTATTGTATG
1 ATATTGTTTTGCTGAATGGTATTGTATG
8222929 ATATTAG-TTTGCTGAATGGT
1 ATATT-GTTTTGCTGAATGGT
8222949 GTTTCTGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
28 39 0.83
29 1 0.02
30 7 0.15
ACGTcount: A:0.23, C:0.04, G:0.26, T:0.47
Consensus pattern (28 bp):
ATATTGTTTTGCTGAATGGTATTGTATG
Found at i:8222958 original size:13 final size:13
Alignment explanation
Indices: 8222935--8223007 Score: 53
Period size: 13 Copynumber: 5.7 Consensus size: 13
8222925 TATGATATTA
8222935 GTTTGCTGAATGGT
1 GTTT-CTGAATGGT
8222949 GTTTCTGAATGGT
1 GTTTCTGAATGGT
** *
8222962 -TACCT-AAGTGAT
1 GTTTCTGAA-TGGT
*
8222974 GTTTTTGAATGGT
1 GTTTCTGAATGGT
*
8222987 -TTGCTGAATGGT
1 GTTTCTGAATGGT
*
8222999 GTTTTTGAA
1 GTTTCTGAA
8223008 CACATTACTG
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
11 2 0.05
12 16 0.36
13 20 0.45
14 6 0.14
ACGTcount: A:0.19, C:0.07, G:0.29, T:0.45
Consensus pattern (13 bp):
GTTTCTGAATGGT
Found at i:8223001 original size:25 final size:26
Alignment explanation
Indices: 8222880--8223007 Score: 100
Period size: 28 Copynumber: 4.8 Consensus size: 26
8222870 AATATTGTGA
* *
8222880 TTTGCTGAATGGTATTGTATGATATTGT
1 TTTGCTGAATGGTGTT-TATGA-ATTGG
* *
8222908 TTTGCTGAATGGTATTGTATGATATTAG
1 TTTGCTGAATGGTGTT-TATGA-ATTGG
*
8222936 TTTGCTGAATGGTGTTTCTGAA-TGG
1 TTTGCTGAATGGTGTTTATGAATTGG
** * *
8222961 TTACCT-AAGTGATGTTTTTGAA-TGG
1 TTTGCTGAA-TGGTGTTTATGAATTGG
*
8222986 TTTGCTGAATGGTGTTTTTGAA
1 TTTGCTGAATGGTGTTTATGAA
8223008 CACATTACTG
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
24 2 0.02
25 36 0.42
26 3 0.03
27 4 0.05
28 41 0.48
ACGTcount: A:0.21, C:0.05, G:0.27, T:0.47
Consensus pattern (26 bp):
TTTGCTGAATGGTGTTTATGAATTGG
Found at i:8223854 original size:22 final size:22
Alignment explanation
Indices: 8223826--8223874 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
8223816 AAAATCAAAG
8223826 AAAACCAAAGGAACATTAGGGC
1 AAAACCAAAGGAACATTAGGGC
8223848 AAAACCAAAGGAACATTAGGGC
1 AAAACCAAAGGAACATTAGGGC
*
8223870 CAAAC
1 AAAAC
8223875 AAATATATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.08
Consensus pattern (22 bp):
AAAACCAAAGGAACATTAGGGC
Found at i:8226631 original size:61 final size:62
Alignment explanation
Indices: 8226560--8226762 Score: 182
Period size: 63 Copynumber: 3.3 Consensus size: 62
8226550 GATAGGATAT
* * * *
8226560 TTATTGAAGGCATTTTTGACCAAAAACACCTTCAATAA-TCCTCTGCAATTTTTTAGTGGAA
1 TTATTCAAGGCATTTTTGACCAAAAACACCTTCAATAATTCCTCTACATTTTTTTAGTGGGA
* * * * *
8226621 TTATTAAAGGCGTTTCTTGTA--GAAAACACCTTCAATAATTGC-CTACATTTTTTTATGACGGG
1 TTATTCAAGGCATTT-TTG-ACCAAAAACACCTTCAATAATTCCTCTACATTTTTTTA-G-TGGG
8226683 A
62 A
* * * * * *
8226684 TTATTCAAGGCATTCTCTG-CCAAAAATACCTTCAGTAATTGCCTATCCATTTTTTTAATGGGA
1 TTATTCAAGGCATT-TTTGACCAAAAACACCTTCAATAATT-CCTCTACATTTTTTTAGTGGGA
8226747 TTATTCAAGGCATTTT
1 TTATTCAAGGCATTTT
8226763 CTATTAAAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
61 40 0.36
62 7 0.06
63 52 0.46
64 2 0.02
65 11 0.10
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (62 bp):
TTATTCAAGGCATTTTTGACCAAAAACACCTTCAATAATTCCTCTACATTTTTTTAGTGGGA
Found at i:8226723 original size:63 final size:62
Alignment explanation
Indices: 8226643--8226785 Score: 180
Period size: 63 Copynumber: 2.3 Consensus size: 62
8226633 TTTCTTGTAG
* * *
8226643 AAAACACCTTCAATAATTGCCTA-CATTTTTTTATGACGGGATTATTCAAGGCATTCTCTGCCA
1 AAAATACCTTCAGTAATTGCCTACCATTTTTTTA--ACGGGATTATTCAAGGCATTCTCTACCA
* * **
8226706 AAAATACCTTCAGTAATTGCCTATCCATTTTTTTAATGGGATTATTCAAGGCATTTTCTATTA
1 AAAATACCTTCAGTAATTGCCTA-CCATTTTTTTAACGGGATTATTCAAGGCATTCTCTACCA
*
8226769 AAAATGCCTTCAGTAAT
1 AAAATACCTTCAGTAAT
8226786 CATTCCAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
63 60 0.86
65 10 0.14
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (62 bp):
AAAATACCTTCAGTAATTGCCTACCATTTTTTTAACGGGATTATTCAAGGCATTCTCTACCA
Found at i:8227571 original size:21 final size:21
Alignment explanation
Indices: 8227532--8227571 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8227522 TCCATTGAGT
* *
8227532 TTAAAATATTAATTTATTAAA
1 TTAAAATATTAAATAATTAAA
*
8227553 TTAAAGTATTAAATAATTA
1 TTAAAATATTAAATAATTA
8227572 TTTATTAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
TTAAAATATTAAATAATTAAA
Found at i:8230019 original size:6 final size:6
Alignment explanation
Indices: 8230008--8230060 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
8229998 GGTATGGAAT
* * * *
8230008 ATATAC ATATAC ATATAC ATATAC ATATAT ATATAG ATATAT ATATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
8230056 ATATA
1 ATATA
8230061 AAGGCTCTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (6 bp):
ATATAC
Found at i:8230031 original size:18 final size:18
Alignment explanation
Indices: 8230008--8230060 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
8229998 GGTATGGAAT
*
8230008 ATATACATATACATATAC
1 ATATACATATATATATAC
*
8230026 ATATACATATATATATAG
1 ATATACATATATATATAC
*
8230044 ATATATATATATATATA
1 ATATACATATATATATA
8230061 AAGGCTCTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATACATATATATATAC
Found at i:8233895 original size:6 final size:6
Alignment explanation
Indices: 8233887--8233920 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
8233877 AAAAAAATTA
* *
8233887 AAAAAA AAAAAC AAAAAC AAAAAC AAAAAT AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
8233921 GAAGAGCTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:8234308 original size:14 final size:15
Alignment explanation
Indices: 8234276--8234311 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
8234266 TATCTAATTC
8234276 AAATATATATAAATGA
1 AAATATATATAAA-GA
*
8234292 AAATATATATAAAAA
1 AAATATATATAAAGA
8234307 AAATA
1 AAATA
8234312 AGGATGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AAATATATATAAAGA
Found at i:8239343 original size:20 final size:20
Alignment explanation
Indices: 8239315--8239352 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8239305 AAAAAATATT
8239315 TATGAAAAAGTGAAAAAAAAA
1 TATGAAAAAGT-AAAAAAAAA
8239336 TATG-AAAAGTAAAAAAA
1 TATGAAAAAGTAAAAAAA
8239353 GAAATGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (20 bp):
TATGAAAAAGTAAAAAAAAA
Found at i:8239357 original size:21 final size:21
Alignment explanation
Indices: 8239315--8239357 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
8239305 AAAAAATATT
*
8239315 TATGAAAAAGTGAAAAAAAAA
1 TATGAAAAAGTAAAAAAAAAA
8239336 TATG-AAAAGTAAAAAAAGAAA
1 TATGAAAAAGTAAAAAAA-AAA
8239357 T
1 T
8239358 GGAAATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (21 bp):
TATGAAAAAGTAAAAAAAAAA
Found at i:8240499 original size:16 final size:16
Alignment explanation
Indices: 8240474--8240511 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
8240464 CTTACAAAAG
8240474 AAAAAAATTAAAT-AT
1 AAAAAAATTAAATAAT
8240489 AAAAAATATTAAATAAT
1 AAAAAA-ATTAAATAAT
8240506 AAAAAA
1 AAAAAA
8240512 GAAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 7 0.33
17 8 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAAAATTAAATAAT
Found at i:8241556 original size:15 final size:15
Alignment explanation
Indices: 8241538--8241570 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
8241528 CAAAAGCTTT
8241538 AAAAAA-CAAAGAAAA
1 AAAAAACCAAA-AAAA
8241553 AAAAAACCAAAAAAA
1 AAAAAACCAAAAAAA
8241568 AAA
1 AAA
8241571 GAGAGAGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAACCAAAAAAA
Found at i:8241820 original size:27 final size:25
Alignment explanation
Indices: 8241804--8241861 Score: 53
Period size: 28 Copynumber: 2.2 Consensus size: 25
8241794 AAACAAATTA
* *
8241804 AAAAATTAAAAATAAAAAATAGATTTA
1 AAAAATTAAAAA-AAAAAA-AAAATTA
* *
8241831 ATAAAATTAAAAAAATAAAAAGATTA
1 A-AAAATTAAAAAAAAAAAAAAATTA
8241857 AAAAA
1 AAAAA
8241862 GGTATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.15
26 5 0.19
27 6 0.23
28 11 0.42
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (25 bp):
AAAAATTAAAAAAAAAAAAAAATTA
Found at i:8242347 original size:2 final size:2
Alignment explanation
Indices: 8242340--8242373 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8242330 ATTGACTATT
8242340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8242374 CACACACACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8244361 original size:42 final size:40
Alignment explanation
Indices: 8244315--8244437 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 40
8244305 TTACTAATAG
* *
8244315 ATTACTAAATTATAGCAAGAGGTTATTAAAATTTTATTAGAA
1 ATTACTAAATTATATCAA-A-GTTATCAAAATTTTATTAGAA
* * * *
8244357 ATTACTATAATTGTATCAATAGTTATCAAAATTATATCATAA
1 ATTACTA-AATTATATCAA-AGTTATCAAAATTTTATTAGAA
* *
8244399 GTTACCAAAATTATATCGAAAGTTATCAAAATTTTATTA
1 ATTA-CTAAATTATATC-AAAGTTATCAAAATTTTATTA
8244438 AAGGTTATCA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 52 0.79
43 14 0.21
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (40 bp):
ATTACTAAATTATATCAAAGTTATCAAAATTTTATTAGAA
Found at i:8244394 original size:21 final size:20
Alignment explanation
Indices: 8244365--8244451 Score: 102
Period size: 21 Copynumber: 4.2 Consensus size: 20
8244355 AAATTACTAT
*
8244365 AATTGTATCAATAGTTATCAA
1 AATTATATCAA-AGTTATCAA
*
8244386 AATTATATCATAAGTTACCAA
1 AATTATATCA-AAGTTATCAA
8244407 AATTATATCGAAAGTTATCAA
1 AATTATATC-AAAGTTATCAA
* *
8244428 AATTTTATTAAAGGTTATCAA
1 AATTATATCAAA-GTTATCAA
8244449 AAT
1 AAT
8244452 CAAAATTATG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
20 3 0.05
21 53 0.91
22 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (20 bp):
AATTATATCAAAGTTATCAA
Found at i:8248220 original size:24 final size:25
Alignment explanation
Indices: 8248191--8248247 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
8248181 AAAAAAATTA
*
8248191 ATAAATTTGATA-TATATTTTTTAT
1 ATAAATTTGATACTAAATTTTTTAT
**
8248215 ATAAATATTTTTACTAAATTTTTTAT
1 ATAAAT-TTGATACTAAATTTTTTAT
8248241 A-AAATTT
1 ATAAATTT
8248248 TTATATGTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
25 8 0.29
26 12 0.43
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (25 bp):
ATAAATTTGATACTAAATTTTTTAT
Found at i:8248225 original size:13 final size:13
Alignment explanation
Indices: 8248195--8248253 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
8248185 AAATTAATAA
* *
8248195 ATTTGATATATAT
1 ATTTTATATAAAT
*
8248208 TTTTTATATAAAT
1 ATTTTATATAAAT
8248221 ATTTT-TACTAAAT
1 ATTTTATA-TAAAT
*
8248234 TTTTTATA-AAAT
1 ATTTTATATAAAT
8248246 -TTTTATAT
1 ATTTTATAT
8248254 GTGAATAAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 7 0.18
12 6 0.16
13 23 0.61
14 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTTTATATAAAT
Found at i:8248239 original size:12 final size:11
Alignment explanation
Indices: 8248208--8248252 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
8248198 TGATATATAT
8248208 TTTTTATATAAA
1 TTTTT-TATAAA
8248220 TATTTTTACTAAA
1 T-TTTTTA-TAAA
8248233 TTTTTTATAAA
1 TTTTTTATAAA
*
8248244 ATTTTTATA
1 TTTTTTATA
8248253 TGTGAATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 12 0.40
12 9 0.30
13 9 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTTATAAA
Found at i:8257736 original size:14 final size:13
Alignment explanation
Indices: 8257721--8257767 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
8257711 TGATATATAT
8257721 ATTTTTATATAAA
1 ATTTTTATATAAA
*
8257734 TATTTTTA-CT-AA
1 -ATTTTTATATAAA
8257746 ATTTTT-TATAAA
1 ATTTTTATATAAA
8257758 ATTTTTATAT
1 ATTTTTATAT
8257768 GTGAATAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
11 7 0.25
12 10 0.36
13 4 0.14
14 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTATATAAA
Found at i:8257751 original size:11 final size:11
Alignment explanation
Indices: 8257723--8257766 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
8257713 ATATATATAT
8257723 TTTTATATAAATA
1 TTTT-TATAAA-A
*
8257736 TTTTTACTAAAT
1 TTTTTA-TAAAA
8257748 TTTTTATAAAA
1 TTTTTATAAAA
8257759 TTTTTATA
1 TTTTTATA
8257767 TGTGAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 12 0.43
12 8 0.29
13 8 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTTATAAAA
Found at i:8258215 original size:16 final size:16
Alignment explanation
Indices: 8258196--8258229 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8258186 AATACAAATT
8258196 AAAAAAAAAAAAAGAG
1 AAAAAAAAAAAAAGAG
**
8258212 AAAAAAAGGAAAAGAG
1 AAAAAAAAAAAAAGAG
8258228 AA
1 AA
8258230 GCGTACGCAC
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:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAGAG
Found at i:8258500 original size:6 final size:6
Alignment explanation
Indices: 8258491--8258526 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
8258481 TTACCACTAC
8258491 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
8258527 TAATAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (6 bp):
CACCAT
Found at i:8278020 original size:3 final size:3
Alignment explanation
Indices: 8278014--8278056 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
8278004 CAAAATGATG
8278014 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8278057 ATATGGAACC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8286986 original size:14 final size:15
Alignment explanation
Indices: 8286946--8286986 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
8286936 TTTTTAATTT
8286946 TATTTTTTATTAAAAA
1 TATTTTTT-TTAAAAA
*
8286962 TATTTTATTTTTAAAA
1 TATTTT-TTTTAAAAA
8286978 TATTTTTTT
1 TATTTTTTT
8286987 GGGACTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 18 0.78
17 2 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTTTTTAAAAA
Found at i:8289091 original size:16 final size:16
Alignment explanation
Indices: 8289070--8289100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8289060 TTAAGATGCA
*
8289070 ATCCATCTATTCATTC
1 ATCCATCTATCCATTC
8289086 ATCCATCTATCCATT
1 ATCCATCTATCCATT
8289101 TTATAAATTT
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:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (16 bp):
ATCCATCTATCCATTC
Found at i:8289207 original size:12 final size:11
Alignment explanation
Indices: 8289167--8289206 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
8289157 GTATTTTATG
*
8289167 TTTTTTTT-CT
1 TTTTTTTTGGT
8289177 TTTTTTTTGGT
1 TTTTTTTTGGT
8289188 TTTTTTTTGGT
1 TTTTTTTTGGT
8289199 TTTTTTTT
1 TTTTTTTT
8289207 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.88
Consensus pattern (11 bp):
TTTTTTTTGGT
Found at i:8297940 original size:22 final size:21
Alignment explanation
Indices: 8297915--8297957 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8297905 ATTAAACAAA
8297915 CAAAAAAAACTTTATATTATAT
1 CAAAAAAAACTTT-TATTATAT
* *
8297937 CAAAAACAACTTTTTTTATAT
1 CAAAAAAAACTTTTATTATAT
8297958 TGCGGACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (21 bp):
CAAAAAAAACTTTTATTATAT
Found at i:8298094 original size:22 final size:21
Alignment explanation
Indices: 8298069--8298109 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8298059 AAGTGTGAAA
*
8298069 TTTATATGATATTTTAATTAAT
1 TTTATATAAT-TTTTAATTAAT
8298091 TTTATATAATTTTTAATTA
1 TTTATATAATTTTTAATTA
8298110 TAATTAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTATATAATTTTTAATTAAT
Found at i:8298121 original size:21 final size:21
Alignment explanation
Indices: 8298066--8298123 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
8298056 TATAAGTGTG
* *
8298066 AAATTTATATGATATTTTAATT
1 AAATTAATATAAT-TTTTAATT
* *
8298088 AATTTTATATAATTTTTAATT
1 AAATTAATATAATTTTTAATT
8298109 ATAATTAAT-TAATTT
1 A-AATTAATATAATTT
8298124 AATGCAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
AAATTAATATAATTTTTAATT
Found at i:8305400 original size:13 final size:13
Alignment explanation
Indices: 8305382--8305408 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8305372 TTCCTCTCTA
8305382 TGTTACTTTATTC
1 TGTTACTTTATTC
8305395 TGTTACTTTATTC
1 TGTTACTTTATTC
8305408 T
1 T
8305409 AAACAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (13 bp):
TGTTACTTTATTC
Found at i:8306340 original size:20 final size:20
Alignment explanation
Indices: 8306315--8306352 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
8306305 TATGATAAAT
8306315 AAAATTTATTACTTATTAAC
1 AAAATTTATTACTTATTAAC
*
8306335 AAAATTTATTATTTATTA
1 AAAATTTATTACTTATTA
8306353 GCAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
AAAATTTATTACTTATTAAC
Found at i:8314284 original size:3 final size:3
Alignment explanation
Indices: 8314276--8314303 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8314266 TCATTTCTCT
8314276 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8314304 GACTTGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8331389 original size:20 final size:21
Alignment explanation
Indices: 8331351--8331389 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8331341 GTGTAGACAC
8331351 TCAATTGGGTCCAGGCCCATA
1 TCAATTGGGTCCAGGCCCATA
*
8331372 TCAATTGGG-CCTGGCCCA
1 TCAATTGGGTCCAGGCCCA
8331390 AAAGGGTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.23
Consensus pattern (21 bp):
TCAATTGGGTCCAGGCCCATA
Found at i:8331435 original size:9 final size:9
Alignment explanation
Indices: 8331421--8331489 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
8331411 TTCTATCTGG
8331421 TATTATTTT
1 TATTATTTT
8331430 TATTATTTT
1 TATTATTTT
*
8331439 TTTTATTTCT
1 TATTATTT-T
*
8331449 T-TTGTATTT
1 TATTAT-TTT
8331458 TATGTA-TTT
1 TAT-TATTTT
8331467 TATTATTTAT
1 TATTATTT-T
*
8331477 TATTATTAT
1 TATTATTTT
8331486 TATT
1 TATT
8331490 GTGTATTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
8 2 0.04
9 34 0.68
10 13 0.26
11 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (9 bp):
TATTATTTT
Found at i:8331475 original size:16 final size:16
Alignment explanation
Indices: 8331456--8331489 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8331446 TCTTTTGTAT
8331456 TTTATGTATT-TTATTA
1 TTTAT-TATTATTATTA
8331472 TTTATTATTATTATTA
1 TTTATTATTATTATTA
8331488 TT
1 TT
8331490 GTGTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTATTATTATTATTA
Found at i:8331496 original size:13 final size:13
Alignment explanation
Indices: 8331421--8331578 Score: 50
Period size: 12 Copynumber: 12.3 Consensus size: 13
8331411 TTCTATCTGG
8331421 TATTATTT-TTAT
1 TATTATTTATTAT
*
8331433 TATT-TTTTTTAT
1 TATTATTTATTAT
*
8331445 T-TCT-TTT-GTAT
1 TAT-TATTTATTAT
*
8331456 T-TTATGTATT-T
1 TATTATTTATTAT
8331467 TATTATTTATTAT
1 TATTATTTATTAT
*
8331480 TATTA-TTATTGT
1 TATTATTTATTAT
*
8331492 GTATTAATATATATAT
1 -TATT-ATTTAT-TAT
* * * *
8331508 TTTTTTTCTGTTAA
1 TATTATT-TATTAT
*
8331522 TATT-TATATGTAT
1 TATTATTTAT-TAT
8331535 T-TTATTTATATAGT
1 TATTATTTAT-TA-T
*
8331549 TA-TATTTGTTAT
1 TATTATTTATTAT
*
8331561 TATTATGTTATCAT
1 TATTAT-TTATTAT
8331575 TATT
1 TATT
8331579 GTCGTAACGT
Statistics
Matches: 108, Mismatches: 21, Indels: 32
0.67 0.13 0.20
Matches are distributed among these distances:
10 1 0.01
11 13 0.12
12 35 0.32
13 25 0.23
14 24 0.22
15 8 0.07
16 2 0.02
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:8332016 original size:13 final size:13
Alignment explanation
Indices: 8331998--8332023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8331988 TTAGTTAAAG
8331998 AAAAATCAAAATA
1 AAAAATCAAAATA
8332011 AAAAATCAAAATA
1 AAAAATCAAAATA
8332024 GAAATCAGAA
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:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATCAAAATA
Done.