Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167896.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_162, 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: 62003
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
File 2 of 2
Found at i:34111 original size:19 final size:19
Alignment explanation
Indices: 34037--34111 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 19
34027 TTACTAGTAT
34037 ATTATTTAATTAATATTATA
1 ATTATTTAATTAATATTA-A
*
34057 ATTACTAATAATATAATAGTTTAAA
1 ATTA-T-TTAAT-TAATA--TT-AA
* *
34082 AATAATT-ATTAATATTAA
1 ATTATTTAATTAATATTAA
34100 ATTATTTAATTA
1 ATTATTTAATTA
34112 TAATATACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 15
0.67 0.10 0.24
Matches are distributed among these distances:
18 7 0.17
19 6 0.14
20 4 0.10
21 6 0.14
22 6 0.14
23 6 0.14
25 6 0.14
26 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (19 bp):
ATTATTTAATTAATATTAA
Found at i:35134 original size:328 final size:328
Alignment explanation
Indices: 34742--35408 Score: 1230
Period size: 328 Copynumber: 2.0 Consensus size: 328
34732 AAAACAATTG
34742 TTTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTAT
1 TTTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTAT
34807 AAGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAAT
66 AAGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAAT
* * *
34872 AATAATCTATTTCAAATCATCATGAGCTTTTGTTTTGTAATAAAATAATTGCTTCAGTTCATATT
131 AATAATCTATTTCAAATCATCATAAGCTTTTGTTTTGTAATAAAATAATTGCTTCAATTCATATC
*
34937 AGCCTATTTGAGATAAAATAATATTCCAAAAATTAAAGAGTAACAGAATTAAAAAAATGAATTTT
196 AGCCTATTTGAGATAAAATAATATTCCAAAAATTAAAGAGAAACAGAATTAAAAAAATGAATTTT
* *
35002 CTTATCGATCAAGTTGAATTAGTTATGACTATATGAATAATTATCTATTCCAAAAC-TTATGACA
261 CTTATCGATCAAGTTGAATTAGTTATGACTATATAAACAATTATCTATTCCAAAACATTATGACA
35066 TTT
326 TTT
*
35069 TGTTTTGTTCATACTAGCTTATTTAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTA
1 T-TTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTA
35134 TAAGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAA
65 TAAGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAA
*
35199 TAATAATCTATTTCAAATCATCATAAGCTTTTGTTTTGTAATAAAATAATTGGTTCAATTCATAT
130 TAATAATCTATTTCAAATCATCATAAGCTTTTGTTTTGTAATAAAATAATTGCTTCAATTCATAT
*
35264 CAGCCTATTTGAGATAAAATAATATTCCAAAAATTAAAGAGAAATAGAATTAAAAAAATGAATTT
195 CAGCCTATTTGAGATAAAATAATATTCCAAAAATTAAAGAGAAACAGAATTAAAAAAATGAATTT
35329 TCTTATCGATCAAGTTGAATTAGTTATGACTATATAAACAATTATCTATTCCAAAACATTATGAC
260 TCTTATCGATCAAGTTGAATTAGTTATGACTATATAAACAATTATCTATTCCAAAACATTATGAC
35394 ATTT
325 ATTT
35398 TTTTTG-TCATA
1 TTTTTGTTCATA
35409 AAACAATTGG
Statistics
Matches: 329, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
327 6 0.02
328 311 0.95
329 12 0.04
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (328 bp):
TTTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTAT
AAGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAAT
AATAATCTATTTCAAATCATCATAAGCTTTTGTTTTGTAATAAAATAATTGCTTCAATTCATATC
AGCCTATTTGAGATAAAATAATATTCCAAAAATTAAAGAGAAACAGAATTAAAAAAATGAATTTT
CTTATCGATCAAGTTGAATTAGTTATGACTATATAAACAATTATCTATTCCAAAACATTATGACA
TTT
Found at i:35201 original size:160 final size:161
Alignment explanation
Indices: 34743--35237 Score: 525
Period size: 160 Copynumber: 3.0 Consensus size: 161
34733 AAACAATTGT
34743 TTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTATA
1 TTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTATA
34808 AGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAATA
66 AGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAATA
*
34873 ATAATCTATTTCAAATCATCATGAGCTTTTG
131 ATAATCTATTTCAAAACATCATGAGCTTTTG
* * * * * *** ** * * ** *
34904 TTTTGTAATAAAATAATTGCTTCAGTTCATATTAGCCT-AT-TTGAGATAAAATAATA-TTCCAA
1 TTTTGT--T--CATACTAGCTT-A-TTCAGAATAAAATAATATT-A-ATTTATTTATATTTTGAC
* * * * * * ** * * * *
34966 AAATTAAAGAGTAACAGAATTAAAAAAATGAAT-TTTCTTATCGATCAAGTTGAATTAGTTATGA
58 AATTTATA-AGTAAAAG-ATTTAAAAAATAAATATGT-TTGCCGAACAAGTTCAAATAGTCATGA
* * * *
35030 CTATATGAATAATTATCTATTCCAAAAC-TTATGA-CATTTTG
120 CTATTTGAATAATAATCTATTTCAAAACATCATGAGC-TTTTG
*
35071 TTTTGTTCATACTAGCTTATTTAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTATA
1 TTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTATA
35136 AGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAATA
66 AGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAATA
* *
35201 ATAATCTATTTCAAATCATCATAAGCTTTTG
131 ATAATCTATTTCAAAACATCATGAGCTTTTG
35232 TTTTGT
1 TTTTGT
35238 AATAAAATAA
Statistics
Matches: 250, Mismatches: 66, Indels: 36
0.71 0.19 0.10
Matches are distributed among these distances:
160 58 0.23
161 44 0.18
162 14 0.06
163 11 0.04
165 11 0.04
166 14 0.06
167 40 0.16
168 58 0.23
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (161 bp):
TTTTGTTCATACTAGCTTATTCAGAATAAAATAATATTAATTTATTTATATTTTGACAATTTATA
AGTAAAAGATTTAAAAAATAAATATGTTTGCCGAACAAGTTCAAATAGTCATGACTATTTGAATA
ATAATCTATTTCAAAACATCATGAGCTTTTG
Found at i:35361 original size:168 final size:166
Alignment explanation
Indices: 34843--35428 Score: 518
Period size: 168 Copynumber: 3.5 Consensus size: 166
34833 GTTTGCCGAA
* * *
34843 CAAGTTCAAATAGTCATGACTATTTGAATAATAATCTATTTCAAATCATCATGAGC-TTTTGTTT
1 CAAGTTCAAATAGTCATGACTATATGAATAATAATCTATTCCAAAACATCATGA-CATTTTGTTT
*
34907 TGTAATAAAATAATTGCTTCAGTTCATATTAGCCTATTTGAGATAAAATAATATTCCAAAAATTA
65 TGTAATAAAATAATTGCTTCAATTCATA-TAGCCTATTTGAGATAAAATAATATTCCAAAAATTA
*
34972 AAGAGTAACAGAATTAAAAAAATGAATTTTCTTATCGAT
129 AAGAG-AAAAGAATTAAAAAAATGAATTTTCTTATCGAT
* * * * *
35011 CAAGTTGAATTAGTTATGACTATATGAATAATTATCTATTCCAAAAC-TTATGACATTTTGTTTT
1 CAAGTTCAAATAGTCATGACTATATGAATAATAATCTATTCCAAAACATCATGACATTTTGTTTT
* * * * * *** ** * * ** * *
35075 GT--T--CATACTAGCTT--ATTTAGAATAAAATAATATT-A-ATTTATTTATATTTTGACAATT
66 GTAATAAAATAATTGCTTCAATTCA-TATAGCCT-AT-TTGAGATAAAATAATA-TTCCAAAAAT
* * * * ** *
35132 TATAAG-TAAAAG-ATTTAAAAAATAAATATGT-TTGCCGAA
127 TA-AAGAGAAAAGAATTAAAAAAATGAAT-TTTCTTATCGAT
* * * *
35171 CAAGTTCAAATAGTCATGACTATTTGAATAATAATCTATTTCAAATCATCATAAGC-TTTTGTTT
1 CAAGTTCAAATAGTCATGACTATATGAATAATAATCTATTCCAAAACATCATGA-CATTTTGTTT
*
35235 TGTAATAAAATAATTGGTTCAATTCATATCAGCCTATTTGAGATAAAATAATATTCCAAAAATTA
65 TGTAATAAAATAATTGCTTCAATTCATAT-AGCCTATTTGAGATAAAATAATATTCCAAAAATTA
35300 AAGAGAAATAGAATTAAAAAAATGAATTTTCTTATCGAT
129 AAGAGAAA-AGAATTAAAAAAATGAATTTTCTTATCGAT
* * * * * * *
35339 CAAGTTGAATTAGTTATGACTATATAAACAATTATCTATTCCAAAACATTATGACATTTT-TTTT
1 CAAGTTCAAATAGTCATGACTATATGAATAATAATCTATTCCAAAACATCATGACATTTTGTTTT
* * * *
35403 GTCATAAAACAATTGGTTCTATTCAT
66 GTAATAAAATAATTGCTTCAATTCAT
35429 GCAAGTGTAT
Statistics
Matches: 315, Mismatches: 80, Indels: 47
0.71 0.18 0.11
Matches are distributed among these distances:
160 58 0.18
161 34 0.11
162 13 0.04
163 14 0.04
165 13 0.04
166 17 0.05
167 61 0.19
168 105 0.33
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (166 bp):
CAAGTTCAAATAGTCATGACTATATGAATAATAATCTATTCCAAAACATCATGACATTTTGTTTT
GTAATAAAATAATTGCTTCAATTCATATAGCCTATTTGAGATAAAATAATATTCCAAAAATTAAA
GAGAAAAGAATTAAAAAAATGAATTTTCTTATCGAT
Found at i:35658 original size:14 final size:15
Alignment explanation
Indices: 35641--35673 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35631 AATTCTAACT
*
35641 AATTAAT-ATTAAAA
1 AATTAATAAGTAAAA
35655 AATTAATAAGTAAAA
1 AATTAATAAGTAAAA
35670 AATT
1 AATT
35674 TTAAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATTAATAAGTAAAA
Found at i:35946 original size:181 final size:179
Alignment explanation
Indices: 35331--35963 Score: 638
Period size: 180 Copynumber: 3.5 Consensus size: 179
35321 ATGAATTTTC
* * * * * * *
35331 TTATCG-ATCAAGTTGAATTAGTTATGACTATATAAACAATTATCTATTCCAAAACATTATGACA
1 TTATCGAATC-AGTTCAAATAGTTATGTCTATTTGAACAATTATCTATTTCAAATCATTATGACA
* * * * *
35395 TTTT-TTTTGTCATAAAACAATTGGTTCTATTCATGCAAGTGTATTTTGAATAAAATAGTA-TAA
65 TTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATACT-A
* * * * *
35458 ATTTATTAATATTCCAAAAATTAATAAGTATAATTTTAGAAAATAAAGCTA-T
129 ATATATTAATATTCAAAAAATTAATAAGT-TAAATTTAAAAAATAAA-TTAGT
* * * *
35510 TT-TCTAAACACATTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACC
1 TTATCGAATCA-GTTCAAATAGTTATGTCTATTTGAACAATTATCTATTTCAAATCATTATGA-C
* * * * *
35574 A-TTTGTTTTGTCATAAACCAATTGTTTCTATTGAAACAAGCTTATTTGGAATAAAATAATTCTA
64 ATTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATACTA
* * * *
35638 ACTA-ATTAATATT-AAAAAATTAATAAGTAAAAAATTTTAAAAATGAATTTGT
129 A-TATATTAATATTCAAAAAATTAATAAGT--TAAATTTAAAAAATAAATTAGT
* * * *
35690 TTATCGAGTAAGTTCAAATAGTTATGAT-TGTTTGAACAATTATTTATTTCAAATCATTATGATC
1 TTATCGAATCAGTTCAAATAGTTATG-TCTATTTGAACAATTATCTATTTCAAATCATTATGA-C
*
35754 -TTTTGTTTTGTTATAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATACTA
64 ATTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATACTA
* * *
35818 ATATATTAACATTCTAAAAATTAATAAGTTGAAGATTTAAAAAATTAATTAGT
129 ATATATTAATATTCAAAAAATTAATAAGTT-AA-ATTTAAAAAATAAATTAGT
* * * * * ** *
35871 TTACCGAATCAGTTCAAATAGTCATGTCCATTTGAACTATTGTCTATTTCAAATTGTTATGATAT
1 TTATCGAATCAGTTCAAATAGTTATGTCTATTTGAACAATTATCTATTTCAAATCATTATGACAT
* **
35936 TTTATTTTGTTGTAAAACAATTGTTTCT
66 TTTGTTTTGTCATAAAACAATTGTTTCT
35964 TATCGATCAA
Statistics
Matches: 374, Mismatches: 63, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
178 3 0.01
179 68 0.18
180 191 0.51
181 112 0.30
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (179 bp):
TTATCGAATCAGTTCAAATAGTTATGTCTATTTGAACAATTATCTATTTCAAATCATTATGACAT
TTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTTGGAATAAAATAATACTAAT
ATATTAATATTCAAAAAATTAATAAGTTAAATTTAAAAAATAAATTAGT
Found at i:36965 original size:16 final size:15
Alignment explanation
Indices: 36927--36974 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
36917 AACTTAACTA
*
36927 ATATAATCTAATATT
1 ATATAATTTAATATT
36942 ATATAA-TTATATATT
1 ATATAATTTA-ATATT
36957 ATAATAATTTAATATT
1 AT-ATAATTTAATATT
36973 AT
1 AT
36975 TAAACTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.07
15 13 0.45
16 11 0.38
17 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATAATTTAATATT
Found at i:37254 original size:16 final size:16
Alignment explanation
Indices: 37195--37269 Score: 57
Period size: 16 Copynumber: 4.7 Consensus size: 16
37185 TTATAACTTG
*
37195 TATTATAATTTGATATA
1 TATTATAATAT-ATATA
*
37212 AATTGATTAATATAT-TA
1 TATT-A-TAATATATATA
*
37229 -ATCA-AATATATATA
1 TATTATAATATATATA
37243 TATTATAATATATATA
1 TATTATAATATATATA
* *
37259 CAATATAATAT
1 TATTATAATAT
37270 TAGTTTAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
13 7 0.15
14 2 0.04
15 4 0.09
16 21 0.45
17 5 0.11
18 3 0.06
19 5 0.11
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
TATTATAATATATATA
Found at i:37372 original size:22 final size:23
Alignment explanation
Indices: 37338--37404 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
37328 ATTAGTTATG
*
37338 TAAAATATATTAATTATATTTAA
1 TAAACTATATTAATTATATTTAA
*
37361 TAAACTAT-TTAATCATATATT-A
1 TAAACTATATTAATTATAT-TTAA
* *
37383 TTAACTATATTAA-TATAATTAA
1 TAAACTATATTAATTATATTTAA
37405 ACATAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
21 2 0.06
22 21 0.58
23 13 0.36
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAACTATATTAATTATATTTAA
Found at i:37781 original size:27 final size:26
Alignment explanation
Indices: 37751--37821 Score: 62
Period size: 27 Copynumber: 2.7 Consensus size: 26
37741 TTTATAACAG
37751 ATAATAGTTATATTAATTAAT-TTATTA
1 ATAATAGTTA-ATTAATTAATATT-TTA
37778 ATAAATA-TTAAAATT-ATTAATATTTTA
1 AT-AATAGTT--AATTAATTAATATTTTA
37805 A-AA-AGTTAATTAATTAA
1 ATAATAGTTAATTAATTAA
37822 ATAATAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
23 4 0.11
24 6 0.16
25 4 0.11
27 14 0.37
28 9 0.24
29 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (26 bp):
ATAATAGTTAATTAATTAATATTTTA
Found at i:37906 original size:23 final size:22
Alignment explanation
Indices: 37867--37911 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
37857 ATTTATTATT
37867 AATTATAAAATTGATAATGAATA
1 AATTATAAAATTGATAAT-AATA
*
37890 AATTA-AAAATTATATAATAATA
1 AATTATAAAATT-GATAATAATA
37912 TAAAGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AATTATAAAATTGATAATAATA
Found at i:38107 original size:17 final size:17
Alignment explanation
Indices: 38082--38133 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
38072 ATAATTTATA
*
38082 TAAAA-TATTTATTTAT
1 TAAAATTATTTATTAAT
* *
38098 TAATATTATTAATTAAT
1 TAAAATTATTTATTAAT
* *
38115 TAAAATTAATTATGAAT
1 TAAAATTATTTATTAAT
38132 TA
1 TA
38134 TGTTAAACAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TAAAATTATTTATTAAT
Found at i:38369 original size:34 final size:33
Alignment explanation
Indices: 38304--38369 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
38294 AAATTATTAT
* *
38304 TTATAAATTATTTAAAATTTATATTAATATAAA
1 TTATAAATTATTAAAAATTTAGATTAATATAAA
* *
38337 TTATAATTTATTAATAAATTTAGATTACTATAA
1 TTATAAATTATTAA-AAATTTAGATTAATATAA
38370 GTATAGAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (33 bp):
TTATAAATTATTAAAAATTTAGATTAATATAAA
Found at i:38638 original size:27 final size:29
Alignment explanation
Indices: 38608--38684 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 29
38598 ATATTTTAGA
** *
38608 TAATAATATTTTTATAATTT-ATCA-ATT
1 TAATAATATAATTATAATTTAATAATATT
*
38635 TAATATTATAATTATAATTTAATAATATT
1 TAATAATATAATTATAATTTAATAATATT
38664 TAATAATTATAAGTTAGTAAT
1 TAATAA-TATAA-TTA-TAAT
38685 AAACGTATCT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 17 0.43
28 3 0.08
29 8 0.20
30 5 0.12
31 3 0.08
32 4 0.10
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (29 bp):
TAATAATATAATTATAATTTAATAATATT
Found at i:38643 original size:14 final size:13
Alignment explanation
Indices: 38619--38660 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
38609 AATAATATTT
38619 TTATAATTTATCAA
1 TTATAATTTAT-AA
38633 TT-TAATATTATAA
1 TTATAAT-TTATAA
38646 TTATAATTTAATAA
1 TTATAATTT-ATAA
38660 T
1 T
38661 ATTTAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (13 bp):
TTATAATTTATAA
Found at i:38655 original size:19 final size:21
Alignment explanation
Indices: 38619--38658 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
38609 AATAATATTT
38619 TTATAATTTATCAATTTAATA
1 TTATAATTTATCAATTTAATA
38640 TTATAA-TTAT-AATTTAATA
1 TTATAATTTATCAATTTAATA
38659 ATATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATAATTTATCAATTTAATA
Found at i:38674 original size:24 final size:22
Alignment explanation
Indices: 38635--38685 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
38625 TTTATCAATT
*
38635 TAATATTATAATTATAATTTAA
1 TAATATTATAATTATAAGTTAA
*
38657 TAATATTTAATAATTATAAGTTAG
1 TAATA-TT-ATAATTATAAGTTAA
38681 TAATA
1 TAATA
38686 AACGTATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.20
23 2 0.08
24 18 0.72
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAATATTATAATTATAAGTTAA
Found at i:39041 original size:17 final size:17
Alignment explanation
Indices: 39019--39051 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
39009 GAAAATCAAG
39019 CTTATTATTAACAATTT
1 CTTATTATTAACAATTT
39036 CTTATTATTAACAATT
1 CTTATTATTAACAATT
39052 GTAATAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
CTTATTATTAACAATTT
Found at i:39461 original size:23 final size:24
Alignment explanation
Indices: 39413--39469 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
39403 AATTAATATA
*
39413 TAATATTAAATTAGATTATACTAT
1 TAATAATAAATTAGATTATACTAT
*
39437 TAATAATACATTA-ATTATA-TAAT
1 TAATAATAAATTAGATTATACT-AT
*
39460 TAATACTAAA
1 TAATAATAAA
39470 CAAGATTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.04
23 16 0.57
24 11 0.39
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
TAATAATAAATTAGATTATACTAT
Found at i:40236 original size:172 final size:171
Alignment explanation
Indices: 40036--40347 Score: 407
Period size: 172 Copynumber: 1.8 Consensus size: 171
40026 TTTAAATCTC
* * *
40036 TTAATTATTAATTTTCAAAATATTAATAACA-TGGTATTATGTTATTTCC-AATAACCTTATATA
1 TTAATTATTAATTGTCAAAATATTAATAA-ATTAGTATTATGTTA-ATCCAAATAACCTTATATA
* * * * *
40099 AACT-GAAATAAGTT-TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAACTATTC
64 AA-TAGAAACAA-TTGTTTTATAACAAAACAAAAGGTCATAAAGATTTGAAATAAATAACTACTC
40162 AAATAGTCATAACTGTCTAGGTAAACATATTTATTTCTAAAAGTT
127 AAATAGTCATAACTGTCTAGGTAAACATATTTATTTCTAAAAGTT
* * * *
40207 TTAACTTATTAATTGTCAAAATATTAATAAATTAGTATTATTTTAATCCAAATAAGCTTGTATTA
1 TTAA-TTATTAATTGTCAAAATATTAATAAATTAGTATTATGTTAATCCAAATAACCTTATATAA
* * * *
40272 ATAGAAACAATTGTTTTATAATAGAACAAAATGTCATAAAGATTTGAAATAAATAATTACTCAAA
65 ATAGAAACAATTGTTTTATAACAAAACAAAAGGTCATAAAGATTTGAAATAAATAACTACTCAAA
40337 TAGTCATAACT
130 TAGTCATAACT
40348 ATTTGAACAA
Statistics
Matches: 120, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
171 11 0.09
172 109 0.91
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (171 bp):
TTAATTATTAATTGTCAAAATATTAATAAATTAGTATTATGTTAATCCAAATAACCTTATATAAA
TAGAAACAATTGTTTTATAACAAAACAAAAGGTCATAAAGATTTGAAATAAATAACTACTCAAAT
AGTCATAACTGTCTAGGTAAACATATTTATTTCTAAAAGTT
Found at i:40780 original size:15 final size:14
Alignment explanation
Indices: 40762--40836 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 14
40752 ATTTAATATT
*
40762 TTAATATTTTGAATA
1 TTAATATATT-AATA
40777 TTAATTATATTAATA
1 TTAA-TATATTAATA
* *
40792 TTAATATAATATTA
1 TTAATATATTAATA
40806 TTGAATA-ATATAATAA
1 TT-AATATAT-TAAT-A
*
40822 TTATTATATT-ATA
1 TTAATATATTAATA
40835 TT
1 TT
40837 TTATTATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
13 3 0.06
14 13 0.27
15 23 0.47
16 10 0.20
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
TTAATATATTAATA
Found at i:41754 original size:16 final size:17
Alignment explanation
Indices: 41723--41764 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
41713 AGTATAAATT
*
41723 TATATACTAATATAATG
1 TATATAATAATATAATG
* *
41740 TATA-AATAATTTAATT
1 TATATAATAATATAATG
41756 TATATAATA
1 TATATAATA
41765 TTACAAATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TATATAATAATATAATG
Found at i:41851 original size:18 final size:18
Alignment explanation
Indices: 41830--41873 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
41820 AGTTATAATT
*
41830 TTATTAGTTACTAAATAA
1 TTATTAATTACTAAATAA
*
41848 TTATTAATTATTAAATAA
1 TTATTAATTACTAAATAA
41866 TT-TTAATT
1 TTATTAATT
41874 CAAATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TTATTAATTACTAAATAA
Found at i:42606 original size:16 final size:15
Alignment explanation
Indices: 42587--42649 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 15
42577 ATTAAATTGT
*
42587 TATTTAATTATTAATA
1 TATTAAATTATT-ATA
42603 TATTAAATTATTATA
1 TATTAAATTATTATA
*
42618 TA-T-AATAATTATA
1 TATTAAATTATTATA
*
42631 AATT-AATTA-TATA
1 TATTAAATTATTATA
42644 T-TTAAA
1 TATTAAA
42650 CTATAAAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 2 0.05
13 16 0.40
14 6 0.15
15 5 0.12
16 11 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTAAATTATTATA
Found at i:42919 original size:16 final size:15
Alignment explanation
Indices: 42898--42932 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
42888 CTAATAATTT
42898 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
42914 TATAATAATTAAATG
1 TATAATAATCAAATG
42929 TATA
1 TATA
42933 TGTGAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (15 bp):
TATAATAATCAAATG
Found at i:43995 original size:21 final size:21
Alignment explanation
Indices: 43964--44004 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43954 TGAATATATT
43964 AATATATAATTAATTATAAATA
1 AATATATAATTAATTA-AAATA
*
43986 AATA-ATAATTATTTAAAAT
1 AATATATAATTAATTAAAAT
44005 TATTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATATAATTAATTAAAATA
Found at i:46820 original size:22 final size:21
Alignment explanation
Indices: 46782--46832 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
46772 ACTAATTTTG
* *
46782 ATATTATTATTTGTAATATGT
1 ATATTATTAGTTATAATATGT
46803 ATATTAATTAGTTATAATAT-T
1 ATATT-ATTAGTTATAATATGT
*
46824 ATTTTATTA
1 ATATTATTA
46833 TAATATAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 10 0.38
22 12 0.46
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
ATATTATTAGTTATAATATGT
Found at i:47033 original size:22 final size:24
Alignment explanation
Indices: 47005--47049 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
46995 AATATAGAGC
47005 ATTTGTTT-ATAATATAA-ATTTA
1 ATTTGTTTAATAATATAATATTTA
*
47027 ATTTGTTTAATTATATAATATTT
1 ATTTGTTTAATAATATAATATTT
47050 GTTTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 8 0.40
24 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTTGTTTAATAATATAATATTTA
Found at i:47413 original size:22 final size:23
Alignment explanation
Indices: 47363--47421 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
47353 TTAAGACTAT
* * *
47363 TAATAAATAAAATAACTATATAA
1 TAATTAATAAATTAAATATATAA
* *
47386 TTATT-ATAAATTAAATATATTA
1 TAATTAATAAATTAAATATATAA
47408 TAATTAATAAATTA
1 TAATTAATAAATTA
47422 GTTAATACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATTAATAAATTAAATATATAA
Found at i:47685 original size:23 final size:21
Alignment explanation
Indices: 47659--47702 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
47649 TTAGTTTAAT
47659 ATTATAACATTAATATAATATAA
1 ATTATAACATTAAT-T-ATATAA
* *
47682 ATTATTATATTAATTATATAA
1 ATTATAACATTAATTATATAA
47703 TTAATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTATAACATTAATTATATAA
Found at i:47705 original size:17 final size:17
Alignment explanation
Indices: 47685--47741 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
47675 AATATAAATT
47685 ATTATATTAATT-ATATA
1 ATTATATT-ATTAATATA
*
47702 ATTAATATTATTTGATA-A
1 ATT-ATATTA-TTAATATA
47720 ATTATATT-TTAATATA
1 ATTATATTATTAATATA
47736 ATTATA
1 ATTATA
47742 AATACTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 5 0.14
16 7 0.20
17 9 0.26
18 11 0.31
19 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTATATTATTAATATA
Found at i:47710 original size:23 final size:23
Alignment explanation
Indices: 47654--47712 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 23
47644 TATTATTAGT
47654 TTAATATTATAACATTAATATAA
1 TTAATATTATAACATTAATATAA
47677 TATAAATTATTATATTA-ATT-ATATAA
1 T-T-AA-TATTATA--ACATTAATATAA
47703 TTAATATTAT
1 TTAATATTAT
47713 TTGATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
23 7 0.23
24 3 0.10
25 3 0.10
26 14 0.45
27 3 0.10
28 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATATTATAACATTAATATAA
Found at i:47802 original size:18 final size:19
Alignment explanation
Indices: 47763--47803 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
47753 ATTTTAATAA
*
47763 TAATTTGTAATTATTTATT
1 TAATTTGTAATTATTTAAT
47782 TAATTT-TAATT-TATTAAT
1 TAATTTGTAATTAT-TTAAT
47800 TAAT
1 TAAT
47804 ATCTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 13 0.65
19 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TAATTTGTAATTATTTAAT
Found at i:48482 original size:18 final size:17
Alignment explanation
Indices: 48435--48485 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
48425 AATATAAAAG
48435 AATT-TAATTTAATTAT
1 AATTATAATTTAATTAT
*
48451 -ATATATATTATTAATTATT
1 AAT-TATAAT-TTAATTA-T
48470 AATTATAATTTAATTA
1 AATTATAATTTAATTA
48486 ATTATTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 2 0.07
16 1 0.04
17 3 0.11
18 14 0.50
19 6 0.21
20 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
AATTATAATTTAATTAT
Found at i:49037 original size:28 final size:28
Alignment explanation
Indices: 49005--49060 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
48995 ATTTATTAAC
49005 AAATATTGATAA-TTAAATAATAAAAATT
1 AAATATT-ATAATTTAAATAATAAAAATT
* *
49033 AAATATTTTAATTTAAATATTAAAAATT
1 AAATATTATAATTTAAATAATAAAAATT
49061 TAAAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (28 bp):
AAATATTATAATTTAAATAATAAAAATT
Found at i:49068 original size:28 final size:29
Alignment explanation
Indices: 49017--49074 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
49007 ATATTGATAA
49017 TTAAATAATAAAAATTAAATA-TTTTAAT
1 TTAAATAATAAAAATTAAATATTTTTAAT
*
49045 TTAAATATTAAAAATTTAAA-ATTTTTAAT
1 TTAAATAATAAAAA-TTAAATATTTTTAAT
49074 T
1 T
49075 ATTAACATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAAATAATAAAAATTAAATATTTTTAAT
Found at i:49666 original size:29 final size:28
Alignment explanation
Indices: 49627--49681 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
49617 ATATATTTTA
49627 ATATATAATTATAAAATAAATAATTAAT
1 ATATATAATTATAAAATAAATAATTAAT
* *
49655 ATATATAAATTATCAAATAATTAATTA
1 ATATAT-AATTATAAAATAAATAATTA
49682 TTTTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
ATATATAATTATAAAATAAATAATTAAT
Found at i:49712 original size:12 final size:11
Alignment explanation
Indices: 49680--49734 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 11
49670 AATAATTAAT
49680 TATT-TTATTA
1 TATTATTATTA
49690 TATTATATATTA
1 TATTAT-TATTA
49702 TATTTATTATTA
1 TA-TTATTATTA
*
49714 -ATTTATAATTA
1 TA-TTATTATTA
49725 GTATTATTAT
1 -TATTATTAT
49735 AAATTATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 4 0.11
11 11 0.29
12 18 0.47
13 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTATTATTA
Found at i:49731 original size:23 final size:22
Alignment explanation
Indices: 49676--49739 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
49666 ATCAAATAAT
*
49676 TAATTATTTTATTA-T-A-TTA
1 TAATTATATTATTATTAATTTA
49695 TATATTATATTTATTATTAATTTA
1 TA-ATTATA-TTATTATTAATTTA
*
49719 TAATTAGTATTATTATAAATT
1 TAATTA-TATTATTATTAATT
49740 ATTCAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 2 0.05
20 5 0.14
21 6 0.16
22 1 0.03
23 16 0.43
24 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TAATTATATTATTATTAATTTA
Found at i:49764 original size:43 final size:46
Alignment explanation
Indices: 49717--49827 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 46
49707 ATTATTAATT
49717 TATAATTAGTATTATTATAAA-TT-ATTCAA-ATTTAA-TAAATTAA
1 TATAATTA-TATTATTATAAATTTAATTCAATATTTAATTAAATTAA
* *
49760 TATAATCTATATCTTTTATAAATTTAATTTAATATTTAATTAAATTAA
1 TATAAT-TATAT-TATTATAAATTTAATTCAATATTTAATTAAATTAA
*
49808 T-TATTTAATATTATCTATAA
1 TATAATT-ATATTAT-TATAA
49828 TTACTTATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
43 9 0.16
44 10 0.18
45 2 0.04
46 8 0.14
47 18 0.32
48 9 0.16
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (46 bp):
TATAATTATATTATTATAAATTTAATTCAATATTTAATTAAATTAA
Found at i:49805 original size:17 final size:17
Alignment explanation
Indices: 49783--49816 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
49773 TTTTATAAAT
*
49783 TTAATTTAA-TATTTAA
1 TTAAATTAATTATTTAA
49799 TTAAATTAATTATTTAA
1 TTAAATTAATTATTTAA
49816 T
1 T
49817 ATTATCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAATTAATTATTTAA
Found at i:49867 original size:13 final size:14
Alignment explanation
Indices: 49837--49895 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 14
49827 ATTACTTATT
49837 TATAATTATATAA-A
1 TATAATT-TATAATA
49851 TATAAATTTATAATA
1 TAT-AATTTATAATA
*
49866 TATAA-TAATAATAA
1 TATAATTTATAAT-A
49880 TATAATTTATTAATA
1 TATAATTTA-TAATA
49895 T
1 T
49896 TTTAAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 6 0.16
14 16 0.42
15 12 0.32
16 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TATAATTTATAATA
Found at i:50220 original size:179 final size:177
Alignment explanation
Indices: 49920--50427 Score: 503
Period size: 161 Copynumber: 2.9 Consensus size: 177
49910 AGTAAGAGAT
* ** * * * * * *
49920 TTTAAAAAATGAATTTGTTTACTGAACAAGTTTAAATAG-TGATGACTATTTGAACAATTATCTA
1 TTTAAAAAATAAATTTGTTTTTTGAACATGCTCAAATAGAT-CTAACTATTTGAACAATTATTTA
* * * * *
49984 TTTCAAATTGTTATAACCTTTTGTTTTGTCATAAAACAATTGTTTATGTTCATACAAGCTTATTT
65 TTTCAAATAGTTATGACCTTTTGTTTTGTGATAAACCAATTGTTTATGTCCATACAAGCTTATTT
* *
50049 TGAATAAAATAATTAAATTAATTAATATTCCAAAATTTAATAAGTATAAA
130 T-AATAAAATAATTAAATTAA-TAATATTCCAAAATTGAATAAGTAAAAA
* * * *
50099 TTTAAAAAATAAATTTGTTTTTTGAATATGTTCGAATAGTTCTAACTATTTGAACAATTATTTAT
1 TTTAAAAAATAAATTTGTTTTTTGAACATGCTCAAATAGATCTAACTATTTGAACAATTATTTAT
* * *
50164 TTCAAATAGTTATGACCTTTTATTTTGTGATAAACCAATTATTTTTGTCCATACAAGCTTA--TT
66 TTCAAATAGTTATGACCTTTTGTTTTGTGATAAACCAATTGTTTATGTCCATACAAGCTTATTTT
*
50227 --T--CA-AA-T-AA--AAT-A-ATT---AAATTGAATAAGTAAAAA
131 AATAAAATAATTAAATTAATAATATTCCAAAATTGAATAAGTAAAAA
* *
50260 TTTTAAAAATAAATTTGTTTTTTGAACATGCTCAAATAGATCTAACTATTTGAATAATT-TTCTA
1 TTTAAAAAATAAATTTGTTTTTTGAACATGCTCAAATAGATCTAACTATTTGAACAATTATT-TA
* * * * * *
50324 TTTCAAATAGTAATGATCTTTTGTTTTGTGATAAACCAATTGTTTCTATCTATATAAGCTTATTC
65 TTTCAAATAGTTATGACCTTTTGTTTTGTGATAAACCAATTGTTTATGTCCATACAAGCTTATT-
** *
50389 AAAATAAAATAATACTAATTTAATAATATTCCAACAATT
129 TTAATAAAATAAT--TAAATTAATAATATTCCAA-AATT
50428 AGTTAATTTA
Statistics
Matches: 268, Mismatches: 39, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
160 2 0.01
161 125 0.47
164 3 0.01
165 1 0.00
166 2 0.01
167 2 0.01
168 1 0.00
169 4 0.01
170 1 0.00
171 2 0.01
172 2 0.01
173 1 0.00
174 1 0.00
175 3 0.01
176 1 0.00
177 5 0.02
179 106 0.40
180 2 0.01
181 4 0.01
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (177 bp):
TTTAAAAAATAAATTTGTTTTTTGAACATGCTCAAATAGATCTAACTATTTGAACAATTATTTAT
TTCAAATAGTTATGACCTTTTGTTTTGTGATAAACCAATTGTTTATGTCCATACAAGCTTATTTT
AATAAAATAATTAAATTAATAATATTCCAAAATTGAATAAGTAAAAA
Found at i:50754 original size:17 final size:16
Alignment explanation
Indices: 50718--50758 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
50708 ATTACAATTG
*
50718 ATATTATTTTAATATA
1 ATATAATTTTAATATA
*
50734 ATATAATTTTAATTGTA
1 ATATAATTTTAA-TATA
50751 ATATAATT
1 ATATAATT
50759 AATATTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
ATATAATTTTAATATA
Found at i:51502 original size:20 final size:22
Alignment explanation
Indices: 51474--51515 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
51464 GCTATTAAGA
51474 TATAAATTATTA-A-TATAATT
1 TATAAATTATTATAGTATAATT
*
51494 TATATATTATTATAGTATAATT
1 TATAAATTATTATAGTATAATT
51516 AATAGCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 1 0.05
22 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATAAATTATTATAGTATAATT
Found at i:52253 original size:20 final size:20
Alignment explanation
Indices: 52228--52266 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
52218 AAAATTAATT
*
52228 AAAATTATATTTATATTATA
1 AAAATTATAATTATATTATA
52248 AAAATTATAATTATATTAT
1 AAAATTATAATTATATTAT
52267 TTATAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATTATAATTATATTATA
Found at i:52259 original size:26 final size:24
Alignment explanation
Indices: 52224--52272 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
52214 AATTAAAATT
52224 AATTAAAATTATATTTATATTATAAA
1 AATTAAAATTATA-TTAT-TTATAAA
*
52250 AATTATAATTATATTATTTATAA
1 AATTAAAATTATATTATTTATAA
52273 TTGTTTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
AATTAAAATTATATTATTTATAAA
Found at i:52375 original size:23 final size:23
Alignment explanation
Indices: 52348--52391 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
52338 TATTATTAAT
52348 TTAATTAATATATATAAATAAAC
1 TTAATTAATATATATAAATAAAC
* * *
52371 TTAATTATTATTTATTAATAA
1 TTAATTAATATATATAAATAA
52392 TTATTTACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAATTAATATATATAAATAAAC
Found at i:52637 original size:17 final size:16
Alignment explanation
Indices: 52606--52641 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
52596 AATTGATGTT
52606 ATTTTAATATAATATA
1 ATTTTAATATAATATA
*
52622 ATTTTAATTGTAATATA
1 ATTTTAA-TATAATATA
52639 ATT
1 ATT
52642 AATATTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTTTAATATAATATA
Found at i:52959 original size:22 final size:22
Alignment explanation
Indices: 52933--52976 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52923 ATATGATAAA
*
52933 TATTATAACTATT-TATTAAAAT
1 TATTATAAC-ATTATAATAAAAT
52955 TATTATAACATTATAATAAAAT
1 TATTATAACATTATAATAAAAT
52977 AAAATAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTATAACATTATAATAAAAT
Found at i:53177 original size:41 final size:38
Alignment explanation
Indices: 53120--53221 Score: 100
Period size: 41 Copynumber: 2.6 Consensus size: 38
53110 AATTAGTTTA
* * *
53120 ATTTATATTTAAATTAATTCATAAATATAATATAATATAAT
1 ATTTAAATTTAAATTAATTAATAAAT-TAAAAT-ATA-AAT
* *
53161 ATTTAAATTTTAATTAATTAATTAATTAAAATATAAAT
1 ATTTAAATTTAAATTAATTAATAAATTAAAATATAAAT
*
53199 ATTT-AA-TTAAATATATTTAATAA
1 ATTTAAATTTAAAT-TAATTAATAA
53222 TTATTATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
36 5 0.10
37 10 0.19
38 7 0.13
39 3 0.06
40 5 0.10
41 22 0.42
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (38 bp):
ATTTAAATTTAAATTAATTAATAAATTAAAATATAAAT
Found at i:53189 original size:23 final size:22
Alignment explanation
Indices: 53163--53233 Score: 58
Period size: 23 Copynumber: 3.3 Consensus size: 22
53153 AATATAATAT
53163 TTAAATTTTAATTAATTAATTAA
1 TTAAATTTTAA-TAATTAATTAA
* * *
53186 TTAAAATATAAATATTTAATTAA
1 TT-AAATTTTAATAATTAATTAA
* *
53209 ATATA-TTTAATAATT-ATT-A
1 TTAAATTTTAATAATTAATTAA
53228 TTAAAT
1 TTAAAT
53234 GTATTTTTAC
Statistics
Matches: 36, Mismatches: 10, Indels: 7
0.68 0.19 0.13
Matches are distributed among these distances:
19 4 0.11
20 3 0.08
21 7 0.19
22 2 0.06
23 13 0.36
24 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAATTTTAATAATTAATTAA
Found at i:53332 original size:20 final size:20
Alignment explanation
Indices: 53309--53347 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53299 TTATAAAATT
**
53309 AAAATTATTTTTATATTATA
1 AAAATTATAATTATATTATA
53329 AAAATTATAATTATATTAT
1 AAAATTATAATTATATTAT
53348 TTATAATTGT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATTATAATTATATTATA
Found at i:53332 original size:26 final size:24
Alignment explanation
Indices: 53294--53353 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
53284 TTAAATCTAA
53294 TTTATTTATAAAATTAAAATTATT
1 TTTATTTATAAAATTAAAATTATT
*
53318 TTTATATTATAAAAATTATAATTA-T
1 TTTAT-TTAT-AAAATTAAAATTATT
*
53343 ATTATTTATAA
1 TTTATTTATAA
53354 TTGTTTACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 2 0.06
24 9 0.28
25 9 0.28
26 12 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTATTTATAAAATTAAAATTATT
Found at i:53722 original size:17 final size:16
Alignment explanation
Indices: 53691--53726 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
53681 AATTGATGTT
53691 ATTTTAATATAATATA
1 ATTTTAATATAATATA
*
53707 ATTTTAATTGTAATATA
1 ATTTTAA-TATAATATA
53724 ATT
1 ATT
53727 AATATTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTTTAATATAATATA
Found at i:54483 original size:181 final size:181
Alignment explanation
Indices: 54059--54874 Score: 680
Period size: 179 Copynumber: 4.5 Consensus size: 181
54049 AACAAACTTA
* * * * **
54059 TTTCAATTCATATAAGATTA-TTGGAAATAAAATAATAC-CATGTTATTAATAGTT-TGAAAATT
1 TTTCAATTCATACAAGCTTACTT-CAAATAAAATAATACAAAT-TTATTAATA-TTCCAAAAATT
* * * * * * *
54121 AATAATTAAGAGATTTAAAAAATGAATCTATTTA-CTAAATAAGTTTAAATAGTTATGGCCATTT
63 AATAAGTAAAAGATTTAAAAAATAAATCTATTTATC-AAATAAGTTCAAATAGTTATGACTATCT
* ** ** * * ** *
54185 GAACAATTAT-TATTTGGAATCGCTATAACCTTTTGGTTTGTCATATAATGATTTTG
127 GAATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATA-AAACA-ATTG
* * *
54241 TTT--GTTCATATAAGCTTACTTCGAATAAAATAATACAAATTTATTAATATT--AAGACAATTA
1 TTTCAATTCATACAAGCTTACTTCAAATAAAATAATACAAATTTATTAATATTCCAA-A-AATTA
* * * *
54302 ATAAGTAAAAGATTTAAAAAATAAATCTATTTTTGAACA-AA-TTCAAATCGTTATGATTATCTG
64 ATAAGTAAAAGATTTAAAAAATAAATCTATTTATCAA-ATAAGTTCAAATAGTTATGACTATCTG
* * * *
54365 AATAATTATTTATTTCAAATTC-TTATGACTTTTTTGTTTTCTCATAAAACAATTG
128 AATAATTATCTATTTCAAA-TCATTATAAC-ATTTTGTTTTGTCATAAAACAATTG
* * * * * *** * *
54420 TTTCCATCCATACGAGCTTA-TTCGGATTAAAATAATATTGATTTATTAATATTTCAACAATTAA
1 TTTCAATTCATACAAGCTTACTTC-AAATAAAATAATACAAATTTATTAATATTCCAAAAATTAA
* * * * * * *
54484 CAAGTAAAAGATTT-TAAAA-AAAT-AAGTTTACCAAATAATTTCAAATAGTCATGACTATTTGA
65 TAAGTAAAAGATTTAAAAAATAAATCTA-TTTATCAAATAAGTTCAAATAGTTATGACTATCTGA
* * * *
54546 ATAATTATCTACTTCAAATCATTGTAACATTTTGTTTTGTAATAAAAAAATTG
129 ATAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTG
*** * * * * *
54599 TTTCAATTCATGTTAGCTTATTTGAAATAAAATAATACTAAGTTATTAATATTCCAAAAATTAAA
1 TTTCAATTCATACAAGCTTACTTCAAATAAAATAATACAAATTTATTAATATTCCAAAAATTAAT
* * *
54664 AAGTAAGAGAATTAAAAAAATAAATCTATTTATCAAATAAGTTCAAATAGTTATGACTATCTTAA
66 AAGTAAAAG-ATTTAAAAAATAAATCTATTTATCAAATAAGTTCAAATAGTTATGACTATCTGAA
* * *
54729 TAATTATCTATTTCAAAACATTACAACCTTTTGTTTTGTCATAAAACAATTGG
130 TAATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATT-G
* * * *
54782 TTT-TATTCATTCAAGCTTATTTCAAATAAAATAATA-AAATTTATTAATGTTCCAAAAATTAAT
1 TTTCAATTCATACAAGCTTACTTCAAATAAAATAATACAAATTTATTAATATTCCAAAAATTAAT
** *
54845 AAGTAAAA-ATTTTGAAAATAAATTTATTTA
66 AAGTAAAAGATTTAAAAAATAAATCTATTTA
54875 AAAATTAATG
Statistics
Matches: 511, Mismatches: 99, Indels: 51
0.77 0.15 0.08
Matches are distributed among these distances:
178 3 0.01
179 141 0.28
180 140 0.27
181 109 0.21
182 111 0.22
183 7 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (181 bp):
TTTCAATTCATACAAGCTTACTTCAAATAAAATAATACAAATTTATTAATATTCCAAAAATTAAT
AAGTAAAAGATTTAAAAAATAAATCTATTTATCAAATAAGTTCAAATAGTTATGACTATCTGAAT
AATTATCTATTTCAAATCATTATAACATTTTGTTTTGTCATAAAACAATTG
Found at i:55621 original size:156 final size:155
Alignment explanation
Indices: 55385--55673 Score: 379
Period size: 156 Copynumber: 1.9 Consensus size: 155
55375 CTATTTGAAC
*
55385 AATTATCTATTTAAAATCATTATGACCTTATATTTTATCATAAAACAATTGTTTCAGTTCATAAA
1 AATTATCTATTTAAAATCATTATGAACTTATATTTTATCATAAAACAATTGTTTCAG-TCATAAA
* * * * *
55450 AGCTTATCTAAAATAAAATAATATTACTTTATTAATATTAT-AAAAATTGATAAGTTA-GATATT
65 AGCCTATCTAAAATAAAATAATACTAATTTATTAATATT-TGAAAAATTAATAAG-TAGGAGATT
55513 TAAAACAAATAATTATGGCCATTTAAAT
128 TAAAACAAATAATTATGGCCATTTAAAT
* * * * * *
55541 AATTATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTGTTTTTCA-TCATAC
1 AATTATCTATTTAAAATCATTATGAACTTATATTTTATCATAAAACAATTG--TTTCAGTCATAA
*
55605 AAGCCTAT-TCAGAATAAAATAATACTAATTTATTAATATTTGAAAAATTAATAAGTAGGAGATT
64 AAGCCTATCT-AAAATAAAATAATACTAATTTATTAATATTTGAAAAATTAATAAGTAGGAGATT
55669 TAAAA
128 TAAAA
55674 AATAAATTTG
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
155 4 0.03
156 106 0.92
158 5 0.04
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (155 bp):
AATTATCTATTTAAAATCATTATGAACTTATATTTTATCATAAAACAATTGTTTCAGTCATAAAA
GCCTATCTAAAATAAAATAATACTAATTTATTAATATTTGAAAAATTAATAAGTAGGAGATTTAA
AACAAATAATTATGGCCATTTAAAT
Found at i:55985 original size:33 final size:34
Alignment explanation
Indices: 55927--55990 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
55917 ATTTATTTAA
* *
55927 TAAATATAATAATTTAATATAAATTAGTTATTTG
1 TAAATATAATAATTTAATAGAAATTAATTATTTG
55961 TAAA-ATAAT-ATTTAATAGATAATTAATTAT
1 TAAATATAATAATTTAATAGA-AATTAATTAT
55991 CTAACAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 9 0.33
33 14 0.52
34 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (34 bp):
TAAATATAATAATTTAATAGAAATTAATTATTTG
Found at i:56177 original size:26 final size:25
Alignment explanation
Indices: 56135--56194 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
56125 CATATTGATG
*
56135 TATAATATAATTATTTTAATTATAA
1 TATAATATAATTATTTTAAATATAA
*
56160 T-TAAATATATTATATTTTAAATATAA
1 TAT-AATATAAT-TATTTTAAATATAA
56186 TATAATATA
1 TATAATATA
56195 CATGTCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 1 0.03
25 8 0.27
26 20 0.67
27 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TATAATATAATTATTTTAAATATAA
Found at i:56187 original size:21 final size:21
Alignment explanation
Indices: 56138--56194 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
56128 ATTGATGTAT
*
56138 AATATAAT-TATTTTAATTATA
1 AATATAATATATTAT-ATTATA
* *
56159 ATTA-AATATATTATATTTTA
1 AATATAATATATTATATTATA
*
56179 AATATAATATAATATA
1 AATATAATATATTATA
56195 CATGTCAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAATATATTATATTATA
Found at i:56592 original size:15 final size:15
Alignment explanation
Indices: 56574--56742 Score: 74
Period size: 15 Copynumber: 11.5 Consensus size: 15
56564 AATAATTTAT
56574 ATAATTTTAATATTA
1 ATAATTTTAATATTA
**
56589 ATAAAATTAATATTTA
1 ATAATTTTAATA-TTA
56605 ATTAATTTTAATA-TA
1 A-TAATTTTAATATTA
* *
56620 ATTATTGTT-ATATTTC
1 ATAATT-TTAATA-TTA
*
56636 AT-ATTGTAATATT-
1 ATAATTTTAATATTA
56649 ATAA--TTAATATT-
1 ATAATTTTAATATTA
56661 ATAATTATATAATATT-
1 ATAATT-T-TAATATTA
* *
56677 ATAA--CTATTATTA
1 ATAATTTTAATATTA
* *
56690 ATAGTTATAAT-TTA
1 ATAATTTTAATATTA
56704 ATAA-TTTATATATTAA
1 ATAATTTTA-ATATT-A
* *
56720 ATATATATTAATAGTA
1 ATA-ATTTTAATATTA
56736 ATAATTT
1 ATAATTT
56743 ATAACTTAGT
Statistics
Matches: 117, Mismatches: 18, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
12 17 0.15
13 8 0.07
14 19 0.16
15 30 0.26
16 26 0.22
17 14 0.12
18 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (15 bp):
ATAATTTTAATATTA
Found at i:56675 original size:28 final size:29
Alignment explanation
Indices: 56642--56698 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
56632 TTTCATATTG
*
56642 TAATATTATAATTAATATT-ATAATTATA
1 TAATATTATAACTAATATTAATAATTATA
* *
56670 TAATATTATAACTATTATTAATAGTTATA
1 TAATATTATAACTAATATTAATAATTATA
56699 ATTTAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (29 bp):
TAATATTATAACTAATATTAATAATTATA
Found at i:56700 original size:9 final size:8
Alignment explanation
Indices: 56654--56746 Score: 63
Period size: 8 Copynumber: 11.4 Consensus size: 8
56644 ATATTATAAT
56654 TAATATTA
1 TAATATTA
56662 TAAT-TATA
1 TAATAT-TA
56670 TAATATTA
1 TAATATTA
56678 TAACTATTA
1 TAA-TATTA
56687 TTAATAGTTA
1 -TAATA-TTA
56697 TAAT-TTAA
1 TAATATT-A
56705 TAAT-TTA
1 TAATATTA
56712 T-ATATTA
1 TAATATTA
56719 -AATATATA
1 TAATAT-TA
*
56727 TTAATAGTAA
1 -TAATA-TTA
56737 TAAT-TTA
1 TAATATTA
56744 TAA
1 TAA
56747 CTTAGTTTGA
Statistics
Matches: 71, Mismatches: 2, Indels: 25
0.72 0.02 0.26
Matches are distributed among these distances:
6 2 0.03
7 17 0.24
8 24 0.34
9 16 0.23
10 11 0.15
11 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (8 bp):
TAATATTA
Found at i:56740 original size:40 final size:43
Alignment explanation
Indices: 56661--56743 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 43
56651 AATTAATATT
*
56661 ATAATTATATAATATTATAACTATTATTAATAGTTATAATTTA
1 ATAATTATATAATATTATAACTATTATTAATAGTAATAATTTA
56704 ATAATT-TAT-ATATTA-AA-TATATATTAATAGTAATAATTTA
1 ATAATTATATAATATTATAACTAT-TATTAATAGTAATAATTTA
56744 TAACTTAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
39 3 0.08
40 20 0.53
41 6 0.16
42 3 0.08
43 6 0.16
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (43 bp):
ATAATTATATAATATTATAACTATTATTAATAGTAATAATTTA
Found at i:56842 original size:20 final size:21
Alignment explanation
Indices: 56809--56847 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
56799 AAGTATATTA
56809 TTATATACTATAATTGTTTACT
1 TTATATACTATAATT-TTTACT
56831 TTATATA-T-TAATTTTTA
1 TTATATACTATAATTTTTA
56848 ATATCTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 1 0.06
22 7 0.41
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (21 bp):
TTATATACTATAATTTTTACT
Found at i:56884 original size:22 final size:22
Alignment explanation
Indices: 56843--56885 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56833 ATATATTAAT
*
56843 TTTTAATATCTTATAATATTAG
1 TTTTAATATCTAATAATATTAG
56865 TTTTAATAT-TAATAATTATTA
1 TTTTAATATCTAATAA-TATTA
56886 ATATAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTAATATCTAATAATATTAG
Found at i:56909 original size:22 final size:21
Alignment explanation
Indices: 56884--56937 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
56874 TAATAATTAT
*
56884 TAATATAAATAGTAAATTAAAA
1 TAATATAAATA-TAAACTAAAA
* *
56906 TAATATATACTATAAACTAACA
1 TAATATA-AATATAAACTAAAA
56928 TAAT-TAAATA
1 TAATATAAATA
56938 AATAGATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 3 0.11
21 2 0.07
22 19 0.70
23 3 0.11
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (21 bp):
TAATATAAATATAAACTAAAA
Found at i:57292 original size:17 final size:17
Alignment explanation
Indices: 57270--57308 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
57260 TTTTGTATAC
* *
57270 TTATACTAATTTTAAAA
1 TTATACTAATATAAAAA
57287 TTATACTAATATAAAAA
1 TTATACTAATATAAAAA
57304 TTATA
1 TTATA
57309 ATTAGATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATACTAATATAAAAA
Found at i:58127 original size:19 final size:20
Alignment explanation
Indices: 58084--58130 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
58074 AAACTATCAA
58084 TATATAATAATTTATAATTG
1 TATATAATAATTTATAATTG
*
58104 T-TATAATTATCTTA-AATT-
1 TATATAATAAT-TTATAATTG
58122 TATATAATA
1 TATATAATA
58131 GTTATCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 1 0.04
19 18 0.78
20 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATAATAATTTATAATTG
Found at i:59923 original size:17 final size:17
Alignment explanation
Indices: 59889--59926 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
59879 ATATAGTATT
*
59889 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
59906 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
59923 ATTA
1 ATTA
59927 AATAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:60793 original size:24 final size:23
Alignment explanation
Indices: 60763--60829 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 23
60753 TCTTAATTAT
60763 TTATCAATAAATTTAATTTTTGAA
1 TTATCAATAAATTTAATTTTT-AA
60787 TTATCAAATAAATATT-ATTTTTAA
1 TTATC-AATAAAT-TTAATTTTTAA
* *
60811 TT-TGAAATAAATATAATTT
1 TTAT-CAATAAATTTAATTT
60830 AATATTACAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 1 0.03
23 12 0.32
24 9 0.24
25 13 0.35
26 2 0.05
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
TTATCAATAAATTTAATTTTTAA
Found at i:60863 original size:18 final size:19
Alignment explanation
Indices: 60840--60912 Score: 66
Period size: 18 Copynumber: 4.0 Consensus size: 19
60830 AATATTACAC
60840 AATTATATAAATT-TATTG
1 AATTATATAAATTATATTG
*
60858 AATTATAAAAATTAATATTG
1 AATTATATAAATT-ATATTG
*
60878 AATTA-AT-AATTA-ATTTA
1 AATTATATAAATTATA-TTG
*
60895 AATTA-ATATATTATATTG
1 AATTATATAAATTATATTG
60913 TTCTATTCTG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.02
17 10 0.22
18 22 0.49
19 2 0.04
20 10 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (19 bp):
AATTATATAAATTATATTG
Found at i:61009 original size:20 final size:20
Alignment explanation
Indices: 60984--61039 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
60974 AATCAAACAA
60984 TATATAAATATT-ATTAAATT
1 TATATAAAT-TTAATTAAATT
61004 TATATAAATTTAATTAAAATT
1 TATATAAATTTAATT-AAATT
61025 T-TAATAATATTTAAT
1 TAT-ATAA-ATTTAAT
61040 ATTAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.06
20 13 0.41
21 10 0.31
22 7 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATAAATTTAATTAAATT
Found at i:61127 original size:3 final size:3
Alignment explanation
Indices: 61114--61179 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
61104 TTTATTGCTT
* * *
61114 ATA ACTA ATA ATA A-A TTA A-A TTA ATA TATA ATA ATA TTTA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA
61160 ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
61180 TCATTATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 39 0.76
4 8 0.16
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:61154 original size:17 final size:17
Alignment explanation
Indices: 61119--61179 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
61109 TGCTTATAAC
* *
61119 TAATAATAA-ATTAAAT
1 TAATAATAATAATAATT
61135 TAATATATAATAAT-ATT
1 TAATA-ATAATAATAATT
*
61152 TAATAATAATAATAATA
1 TAATAATAATAATAATT
61169 TAATAATAATA
1 TAATAATAATA
61180 TCATTATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
16 13 0.33
17 24 0.62
18 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAATAATAATAATT
Found at i:61464 original size:7 final size:7
Alignment explanation
Indices: 61454--61480 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
61444 CTAATTAACA
61454 ATTAATT
1 ATTAATT
61461 ATTAATT
1 ATTAATT
61468 ATTAATT
1 ATTAATT
61475 ATTAAT
1 ATTAAT
61481 ATTTTAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTAATT
Found at i:61570 original size:21 final size:21
Alignment explanation
Indices: 61546--61589 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61536 TTACATTTAC
*
61546 TAATTAA-TAAATGTTAATTAA
1 TAATTAACT-AATATTAATTAA
61567 TAATTAACTAATATTAATTAA
1 TAATTAACTAATATTAATTAA
61588 TA
1 TA
61590 CCAATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATTAACTAATATTAATTAA
Found at i:61819 original size:21 final size:21
Alignment explanation
Indices: 61787--61832 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 21
61777 TGATCTATTG
*
61787 AATAATATATATTATTTATAATTA
1 AATAA-ATATAATA-TT-TAATTA
61811 AATAAATATAATATTTAATTA
1 AATAAATATAATATTTAATTA
61832 A
1 A
61833 CAATTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 7 0.33
24 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAAATATAATATTTAATTA
Found at i:61872 original size:6 final size:6
Alignment explanation
Indices: 61861--61885 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
61851 CTAAAATATA
61861 ATTAAT ATTAAT ATTAAT ATTAAT A
1 ATTAAT ATTAAT ATTAAT ATTAAT A
61886 ATAAGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTAAT
Done.