Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168479.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_78, 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: 117733
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Warning! 1000 characters in sequence are not A, C, G, or T
File 3 of 3
Found at i:81299 original size:26 final size:27
Alignment explanation
Indices: 81252--81317 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
81242 AAATTATTAA
* * * *
81252 TATTATTATACTAATTATTATT-ATTT
1 TATTATAATAATAATAATTATTAATTG
81278 TA-TATAAATAATAATAATTATTAATTG
1 TATTAT-AATAATAATAATTATTAATTG
81305 TATTATAATAATA
1 TATTATAATAATA
81318 TTCATAAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
25 3 0.09
26 15 0.45
27 12 0.36
28 3 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTATAATAATAATAATTATTAATTG
Found at i:81466 original size:18 final size:18
Alignment explanation
Indices: 81416--81466 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
81406 ATTTAAGTTT
81416 ATATATTAACTATT-AATA
1 ATATATTAA-TATTAAATA
*
81434 ATA-ATGATAACATTAAATA
1 ATATAT--TAATATTAAATA
81453 ATATATTAATATTA
1 ATATATTAATATTA
81467 TTTTAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.07
18 13 0.48
19 10 0.37
20 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (18 bp):
ATATATTAATATTAAATA
Found at i:81804 original size:24 final size:24
Alignment explanation
Indices: 81771--81818 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
81761 TTTATATTGA
*
81771 TAATTTATTTATAGGA-TAAATATT
1 TAATTAATTTATA-GATTAAATATT
81795 TAATTAATTTATAGATTAAATATT
1 TAATTAATTTATAGATTAAATATT
81819 ATTAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (24 bp):
TAATTAATTTATAGATTAAATATT
Found at i:81833 original size:53 final size:52
Alignment explanation
Indices: 81765--81878 Score: 126
Period size: 53 Copynumber: 2.1 Consensus size: 52
81755 AATTATTTTA
* *
81765 TATTGATAATTTATTTATAGGATA-AATATTTAATTAAT-TTAT-AGATTAAATAT
1 TATTAATAAATTATTTATA--ATAGAATA-TTAA-TAATATTATAAGATTAAATAT
*
81818 TATTAATAAATTATTTATAATAGTAATATTAATAATATTATAATATTAAATAT
1 TATTAATAAATTATTTATAATAG-AATATTAATAATATTATAAGATTAAATAT
81871 TAATTAAT
1 T-ATTAAT
81879 TATATTTACT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
51 7 0.13
52 8 0.15
53 32 0.60
54 6 0.11
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (52 bp):
TATTAATAAATTATTTATAATAGAATATTAATAATATTATAAGATTAAATAT
Found at i:81858 original size:23 final size:24
Alignment explanation
Indices: 81818--81882 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 24
81808 GATTAAATAT
81818 TATTAATAAATTATTTATAATAGT-AA
1 TATTAAT-AA-TA-TTATAATAGTAAA
*
81844 TATTAATAATATTATAATATTAAA
1 TATTAATAATATTATAATAGTAAA
*
81868 TATTAATTA-ATTATA
1 TATTAATAATATTATA
81883 TTTACTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 15 0.42
24 12 0.33
25 2 0.06
26 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTAATAATATTATAATAGTAAA
Found at i:81939 original size:16 final size:16
Alignment explanation
Indices: 81909--81951 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
81899 TCTATACAAT
*
81909 TATTAATTA-ATATTA
1 TATTTATTATATATTA
81924 TATTTATTATATATTA
1 TATTTATTATATATTA
*
81940 TAATTA-TATATA
1 TATTTATTATATA
81952 ATAAATATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTATTATATATTA
Found at i:82127 original size:25 final size:25
Alignment explanation
Indices: 82097--82145 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
82087 AGATCGAATT
*
82097 TAATTTAATT-TGATATTTTAATTAA
1 TAATTTAATTGTGATA-CTTAATTAA
*
82122 TAATTTTATTGTGATACTTAATTA
1 TAATTTAATTGTGATACTTAATTA
82146 CTATTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (25 bp):
TAATTTAATTGTGATACTTAATTAA
Found at i:82225 original size:23 final size:23
Alignment explanation
Indices: 82182--82225 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
82172 ATATTAATAA
*
82182 TTAATAATAATAGTTATTATTAT
1 TTAATAATAATAGTTACTATTAT
*
82205 TTAATTATAATTA-TTACTATT
1 TTAATAATAA-TAGTTACTATT
82226 TAGAATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTAATAATAATAGTTACTATTAT
Found at i:83048 original size:41 final size:41
Alignment explanation
Indices: 82952--83048 Score: 92
Period size: 44 Copynumber: 2.3 Consensus size: 41
82942 AGATAATATT
82952 TAATATA-TTATAATACATAAATATATTATATTTATATTAA
1 TAATATATTTATAATACATAAATATATTATATTTATATTAA
* * * *
82992 CAATATAATTATTATA-ATTAGATATATAATTA-ATTTTTATTCAA
1 TAATATATTTATAATACA-TA-A-ATAT-ATTATATTTATATT-AA
83036 TAATATATTTATA
1 TAATATATTTATA
83049 TTATGTAGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
40 7 0.16
41 9 0.20
42 1 0.02
43 12 0.27
44 16 0.36
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.48
Consensus pattern (41 bp):
TAATATATTTATAATACATAAATATATTATATTTATATTAA
Found at i:83321 original size:28 final size:28
Alignment explanation
Indices: 83269--83328 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
83259 ATCTATTCAT
*
83269 ATTAATTATTATTAATAGTTAATAATTA
1 ATTAATTATAATTAATAGTTAATAATTA
*
83297 ATTAATTTATAATTATATTAGATAAT-ATTA
1 ATTAA-TTATAATTA-A-TAGTTAATAATTA
83327 AT
1 AT
83329 AATATTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.19
29 8 0.30
30 7 0.26
31 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
ATTAATTATAATTAATAGTTAATAATTA
Found at i:83657 original size:15 final size:17
Alignment explanation
Indices: 83632--83682 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
83622 TTTTAATTTA
83632 TAATAATTTATAATTAAT
1 TAATAA-TTATAATTAAT
83650 T-AT-ATTATAATTAAT
1 TAATAATTATAATTAAT
83665 ATAATAATT-TAATTAAT
1 -TAATAATTATAATTAAT
83682 T
1 T
83683 TTAAGAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.37
16 3 0.10
17 12 0.40
18 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATAATTATAATTAAT
Found at i:83671 original size:12 final size:11
Alignment explanation
Indices: 83625--83673 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 11
83615 AACAAATTTT
83625 TAATT-TATAA
1 TAATTATATAA
83635 TAATT-TATAA
1 TAATTATATAA
*
83645 TTAATTATATTA
1 -TAATTATATAA
83657 TAATTAATATAA
1 TAATT-ATATAA
83669 TAATT
1 TAATT
83674 TAATTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 10 0.29
11 10 0.29
12 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TAATTATATAA
Found at i:84194 original size:22 final size:20
Alignment explanation
Indices: 84160--84201 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
84150 TTATTTAATT
84160 TTAATAATCAATTTAAAATATA
1 TTAATAATCAA-TT-AAATATA
84182 TTAATAGAT-AATTAAATATA
1 TTAATA-ATCAATTAAATATA
84202 ATACAAGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 8 0.42
23 2 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAATAATCAATTAAATATA
Found at i:84688 original size:21 final size:22
Alignment explanation
Indices: 84659--84706 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
84649 ATTATTTTAA
84659 AATAATTTAAAGAATTAAAT-T
1 AATAATTTAAAGAATTAAATAT
* *
84680 AATACTTTAAAGAATTATATAT
1 AATAATTTAAAGAATTAAATAT
84702 AATAA
1 AATAA
84707 AATTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
AATAATTTAAAGAATTAAATAT
Found at i:84814 original size:13 final size:13
Alignment explanation
Indices: 84796--84828 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
84786 AGATTATATC
84796 AAATAGAGTATTT
1 AAATAGAGTATTT
84809 AAATAGAGTATTT
1 AAATAGAGTATTT
84822 AAATAGA
1 AAATAGA
84829 TTAACTGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (13 bp):
AAATAGAGTATTT
Found at i:84840 original size:13 final size:13
Alignment explanation
Indices: 84824--84851 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
84814 GAGTATTTAA
84824 ATAGATTAACTGT
1 ATAGATTAACTGT
84837 ATAGATTAACTGT
1 ATAGATTAACTGT
84850 AT
1 AT
84852 TTTATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (13 bp):
ATAGATTAACTGT
Found at i:85414 original size:18 final size:19
Alignment explanation
Indices: 85380--85428 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
85370 TAATAGTCAT
85380 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
* *
85399 ATATTA-TTACTATTTATT
1 ATATTAGTTAATATTTATA
*
85417 ATAATAGTTAAT
1 ATATTAGTTAAT
85429 TTATATAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (19 bp):
ATATTAGTTAATATTTATA
Found at i:85689 original size:29 final size:28
Alignment explanation
Indices: 85657--85742 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
85647 ACTATTAACT
85657 ATTAATATTATAATTAATTATAAGTTATA
1 ATTAA-ATTATAATTAATTATAAGTTATA
*
85686 ATTAAATTTTAATTTAATTATTAA--TAGTA
1 ATTAAATTATAA-TTAATTA-TAAGTTA-TA
* *
85715 ATTAAGTTAT--TTTATTATAAGTTATA
1 ATTAAATTATAATTAATTATAAGTTATA
85741 AT
1 AT
85743 AATAATTGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
25 3 0.06
26 10 0.21
27 2 0.04
28 8 0.17
29 22 0.46
30 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (28 bp):
ATTAAATTATAATTAATTATAAGTTATA
Found at i:85957 original size:13 final size:13
Alignment explanation
Indices: 85920--85967 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
85910 TAATATACTG
*
85920 AATAATATATTTAT
1 AATAAT-TATTAAT
*
85934 AATAATAATTAAT
1 AATAATTATTAAT
*
85947 AATTATTATTAATT
1 AATAATTATTAA-T
85961 AATAATT
1 AATAATT
85968 TAATTACTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAATTATTAAT
Found at i:87386 original size:180 final size:179
Alignment explanation
Indices: 87080--87577 Score: 497
Period size: 180 Copynumber: 2.8 Consensus size: 179
87070 AAAATAAATA
* * * * ** * * *
87080 TTTTTAAATTTCTTTCATATTAATTTTCAAAATGTT-TATAAATTAGTATTAATTTATTTTGACT
1 TTTTTAAATTTCTTGCTTATTAATGTTCAAAATATTAT-TAAATTAGTATTTTTTTA-TCTAAAT
* * * * *
87144 AAACTTGTATGAACTGAAACAATTATTTTATGACT-AAACAAAAGATCAAAATGATATGAAATAG
64 AAACTTGTACGAAC-AAAACAATTGTTTTATGA-TAAAACAAAAGATCATAATGATTTGAAATAG
*
87208 ATAATTATTCTAATA-A-TTTTAACTATTTGAACTGATTCAGTA-AA-CAAATTTAT
127 ATAATTATTC--ATAGAGTCTTAACTATTTGAACTGATT-AG-ACAATCAAATTTAT
*
87261 TTTTTAAATCTCTTGCTTATTAATGTTCAAAATATTATTAAATTAGTATTCTTTTTATCTAAATA
1 TTTTTAAATTTCTTGCTTATTAATGTTCAAAATATTATTAAATTAGTATT-TTTTTATCTAAATA
* * * **
87326 AGCTTGTACGAACAAAACAATTGTTTTATGTTAAAAGAAAAGATCATAACAATTTGAAATAGATA
65 AACTTGTACGAACAAAACAATTGTTTTATGATAAAACAAAAGATCATAATGATTTGAAATAGATA
* * * * *
87391 ATCATTCATAGAGTCTTAACTATTTGAACTGGTTTGACAATTAGATTTAT
130 ATTATTCATAGAGTCTTAACTATTTGAACTGATTAGACAATCAAATTTAT
* * *
87441 TTTTTAATTTTCTTGGTTATTAA-GTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAAT
1 TTTTTAAATTTCTTGCTTATTAATG-TTCAAAATATTATTAAATTAGTATTTTTTTA-TCTAAAT
* * * * * * * * *
87505 AAAATAGTACGAACAGAACCAATTGCTTGATGATAAAATAAAAGATTATGATGATTTGAAATAAA
64 AAACTTGTACGAACA-AAACAATTGTTTTATGATAAAACAAAAGATCATAATGATTTGAAATAGA
87570 TAATTATT
128 TAATTATT
87578 GAAATAGTCA
Statistics
Matches: 263, Mismatches: 44, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
178 4 0.02
179 11 0.04
180 138 0.52
181 105 0.40
182 5 0.02
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (179 bp):
TTTTTAAATTTCTTGCTTATTAATGTTCAAAATATTATTAAATTAGTATTTTTTTATCTAAATAA
ACTTGTACGAACAAAACAATTGTTTTATGATAAAACAAAAGATCATAATGATTTGAAATAGATAA
TTATTCATAGAGTCTTAACTATTTGAACTGATTAGACAATCAAATTTAT
Found at i:88459 original size:181 final size:177
Alignment explanation
Indices: 88060--88469 Score: 419
Period size: 181 Copynumber: 2.3 Consensus size: 177
88050 TGGTAAATAG
* * * * *
88060 ATTTATTTATTAAATCTCT-TATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTTCGA
1 ATTTATTTTTTAAATCTCTATATTAATTTTTCAAATATTAATATATTAGTATTATTTTATTTCAA
* * * **
88124 CCAAACTTATATGAACAAAAACATTTGTTTTACGACAAACAAAAGGTCATAACGATTTGAAATAG
66 ACAAACTTATATGAACAAAAACAATTGTTTTACGACAAACAAAAGGTCATAACGACTAAAAATAG
* * * ** *
88189 ATAATTATTCATATAGCCTTAACTATTTGAATTGGTTTGATAAACAA
131 ATAATTATTCAAATAGCCATAACTATTTGAACTAATTCGATAAACAA
* * * *
88236 ATTTATTTTTTAAATCTATCAGTTATTAA-ATTTCATAATATTACTATATTAGTATTCTTTTATT
1 ATTTATTTTTTAAATCTCT-A--TATTAATTTTTCA-AATATTAATATATTAGTATTATTTTATT
* * * * * * * * *
88300 TCAAATAAGCTTGTATGAAGATAAATAATTGTTTTATGACAAAATAAAAGGTTATAACGACTAAA
62 TCAAACAAACTTATATGAACAAAAACAATTGTTTTACGAC-AAACAAAAGGTCATAACGACTAAA
* * * *
88365 AATATATAATTGTTCAAATAGTCATAACTATTTGAGCTAATTCGATAAACAA
126 AATAGATAATTATTCAAATAGCCATAACTATTTGAACTAATTCGATAAACAA
*
88417 ATTTATTTTTTAAATCTCCTACTAATTAATTTTTTAAATATTAATATTATTAG
1 ATTTATTTTTTAAATCT-CTA-T-ATTAATTTTTCAAATATTAATA-TATTAG
88470 AAATCAAATA
Statistics
Matches: 186, Mismatches: 38, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
176 17 0.09
179 4 0.02
180 61 0.33
181 93 0.50
182 11 0.06
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.42
Consensus pattern (177 bp):
ATTTATTTTTTAAATCTCTATATTAATTTTTCAAATATTAATATATTAGTATTATTTTATTTCAA
ACAAACTTATATGAACAAAAACAATTGTTTTACGACAAACAAAAGGTCATAACGACTAAAAATAG
ATAATTATTCAAATAGCCATAACTATTTGAACTAATTCGATAAACAA
Found at i:88648 original size:16 final size:16
Alignment explanation
Indices: 88620--88652 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
88610 TAGTTTAAAT
88620 AATAATAATTTAAACA
1 AATAATAATTTAAACA
88636 AATATATAA-TTAAACA
1 AATA-ATAATTTAAACA
88652 A
1 A
88653 TAGTACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATAATTTAAACA
Found at i:89829 original size:16 final size:15
Alignment explanation
Indices: 89808--89842 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
89798 TTAATAATTT
89808 TATAATAATCAAATAG
1 TATAATAATCAAAT-G
*
89824 TATAATAATTAAATG
1 TATAATAATCAAATG
89839 TATA
1 TATA
89843 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:90237 original size:17 final size:18
Alignment explanation
Indices: 90212--90245 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90202 ATAAATAGTT
*
90212 ATATCTAATTATAATAAC
1 ATATCTAATTAAAATAAC
90230 ATAT-TAATTAAAATAA
1 ATATCTAATTAAAATAA
90246 TTATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATCTAATTAAAATAAC
Found at i:90465 original size:11 final size:11
Alignment explanation
Indices: 90441--90535 Score: 58
Period size: 11 Copynumber: 8.5 Consensus size: 11
90431 ATTATAGTAT
90441 TAATAATTAT-A
1 TAAT-ATTATAA
90452 TAATATTATAA
1 TAATATTATAA
90463 TAAT-TTATAAA
1 TAATATTAT-AA
*
90474 TATAAATTA-AA
1 TA-ATATTATAA
90485 T-ATAATTAT-A
1 TAAT-ATTATAA
90495 TGAATAATTCA-AA
1 T-AAT-ATT-ATAA
*
90508 TAATATAATAA
1 TAATATTATAA
*
90519 TAATATAATAA
1 TAATATTATAA
90530 TAATAT
1 TAATAT
90536 AAATTATTCT
Statistics
Matches: 70, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
9 1 0.01
10 16 0.23
11 37 0.53
12 10 0.14
13 6 0.09
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TAATATTATAA
Found at i:90472 original size:26 final size:26
Alignment explanation
Indices: 90426--90490 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
90416 AGAATTAAGT
* *
90426 TAATAATTATAGTATTAATAATTATA
1 TAATAATTATAATATTAATAAATATA
*
90452 TAAT-ATTATAATAATTTATAAATATA
1 TAATAATTATAAT-ATTAATAAATATA
*
90478 -AATTAAATATAAT
1 TAA-TAATTATAAT
90491 TATATGAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
25 9 0.28
26 16 0.50
27 7 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATAATTATAATATTAATAAATATA
Found at i:90477 original size:16 final size:19
Alignment explanation
Indices: 90441--90582 Score: 71
Period size: 19 Copynumber: 7.3 Consensus size: 19
90431 ATTATAGTAT
90441 TAATAATTATATAATATTA
1 TAATAATTATATAATATTA
*
90460 TAATAATTTATAAATATAAATTA
1 TAATAA-TTAT--ATA-ATATTA
*
90483 AATATAATTATATGAATAATTCA
1 TA-ATAATTATAT-AAT-ATT-A
*
90506 -AATAA-TATAATAATAATA
1 TAATAATTAT-ATAATATTA
*
90524 TAATAATAATATAA-ATTA
1 TAATAATTATATAATATTA
** * *
90542 TTCTAATAATCTAATA-TA
1 TAATAATTATATAATATTA
*
90560 -AATAATAAT-TAATATTTA
1 TAATAATTATATAATA-TTA
90578 TAATA
1 TAATA
90583 TAACTAATAT
Statistics
Matches: 97, Mismatches: 11, Indels: 30
0.70 0.08 0.22
Matches are distributed among these distances:
16 5 0.05
17 7 0.07
18 19 0.20
19 22 0.23
20 12 0.12
21 9 0.09
22 8 0.08
23 11 0.11
24 4 0.04
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (19 bp):
TAATAATTATATAATATTA
Found at i:90515 original size:37 final size:38
Alignment explanation
Indices: 90472--90570 Score: 103
Period size: 40 Copynumber: 2.6 Consensus size: 38
90462 ATAATTTATA
*
90472 AATATAAATTAAAT-ATAATTATATGAATAATTCAAAT
1 AATATAAATTAAATAATAATTATATAAATAATTCAAAT
* * * *
90509 AATATAATAATAATATAATAATAATATAAATTATTCTAAT
1 AATATAA-ATTAA-ATAATAATTATATAAATAATTCAAAT
*
90549 AATCT-AATATAAATAATAATTA
1 AATATAAAT-TAAATAATAATTA
90571 ATATTTATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
37 7 0.14
38 14 0.28
39 6 0.12
40 23 0.46
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (38 bp):
AATATAAATTAAATAATAATTATATAAATAATTCAAAT
Found at i:90536 original size:11 final size:11
Alignment explanation
Indices: 90506--90595 Score: 69
Period size: 11 Copynumber: 8.0 Consensus size: 11
90496 GAATAATTCA
90506 AATAATATAAT
1 AATAATATAAT
90517 AATAATATAAT
1 AATAATATAAT
90528 AATAATATAA-
1 AATAATATAAT
* * *
90538 ATTATTCTAAT
1 AATAATATAAT
90549 AATCTAATATAAAT
1 AA--TAATAT-AAT
90563 AATAAT-TAAT
1 AATAATATAAT
* *
90573 ATTTATA-ATAT
1 AATAATATA-AT
90584 AACTAATATAAT
1 AA-TAATATAAT
90596 TGTTTTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
10 15 0.25
11 26 0.43
12 10 0.16
13 5 0.08
14 5 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
AATAATATAAT
Found at i:91804 original size:13 final size:13
Alignment explanation
Indices: 91778--91827 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
91768 TTAATTAAAT
*
91778 AAATTGATAATTA
1 AAATTAATAATTA
*
91791 AAATTAATATTTA
1 AAATTAATAATTA
91804 AAATT--TAATTA
1 AAATTAATAATTA
91815 ATAATTAAATAAT
1 A-AATT-AATAAT
91828 AATACTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.20
12 4 0.13
13 16 0.53
15 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
AAATTAATAATTA
Found at i:91820 original size:89 final size:89
Alignment explanation
Indices: 91606--91803 Score: 362
Period size: 89 Copynumber: 2.2 Consensus size: 89
91596 ATAGATTAAA
*
91606 ATAATTACAATTAAATATTTATATTTATATTTTAAATCTTTAAAGTTTTAATTGTTAATTATTAA
1 ATAATTACAATTAAATATTTATATTTATATTTTAATTCTTTAAAGTTTTAATTGTTAATTATTAA
91671 TTTTCTATTTAATTAAATAAATTG
66 TTTTCTATTTAATTAAATAAATTG
*
91695 ACAATTACAATTAAATATTTATATTTATATTTTAATTCTTTAAAGTTTTAATTGTTAATTATTAA
1 ATAATTACAATTAAATATTTATATTTATATTTTAATTCTTTAAAGTTTTAATTGTTAATTATTAA
91760 TTTTCTATTTAATTAAATAAATTG
66 TTTTCTATTTAATTAAATAAATTG
*
91784 ATAATTAAAATT-AATATTTA
1 ATAATTACAATTAAATATTTA
91804 AAATTTAATT
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 8 0.08
89 97 0.92
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (89 bp):
ATAATTACAATTAAATATTTATATTTATATTTTAATTCTTTAAAGTTTTAATTGTTAATTATTAA
TTTTCTATTTAATTAAATAAATTG
Found at i:91954 original size:3 final size:3
Alignment explanation
Indices: 91941--91974 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
91931 TTTATATGTT
91941 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91975 GTATATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:92196 original size:17 final size:17
Alignment explanation
Indices: 92174--92226 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
92164 ATATTTATAT
92174 TATATTTTAATTAATTA
1 TATATTTTAATTAATTA
*
92191 TATATTATAATTAAATTA
1 TATATTTTAATT-AATTA
* * *
92209 GAT-TATTATTTAATTA
1 TATATTTTAATTAATTA
92225 TA
1 TA
92227 ACAATTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATATTTTAATTAATTA
Found at i:92197 original size:22 final size:23
Alignment explanation
Indices: 92169--92224 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
92159 TTTAAATATT
* *
92169 TATATTATATTTTAATTA-ATTA
1 TATATTATAATTAAATTAGATTA
92191 TATATTATAATTAAATTAGATTA
1 TATATTATAATTAAATTAGATTA
92214 T-TATT-TAATTA
1 TATATTATAATTA
92225 TAACAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 20 0.65
23 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATATTATAATTAAATTAGATTA
Found at i:93281 original size:181 final size:179
Alignment explanation
Indices: 92974--93380 Score: 451
Period size: 181 Copynumber: 2.3 Consensus size: 179
92964 TTGATCGATA
* * *
92974 AGAAACAATTGTTTTACAACAAAATAAAATGTCATAACAATTTGAAATAAATAATAGTTCAAATG
1 AGAAACAATTGTTTTATAACAAAACAAAA-GTCATAACAATTTGAAATAAATAATAGTTCAAATC
* * *** ** * *
93039 GACATGACTATTTGAATTGGTTTGCTAAACTAATTAATTTTACAAATCTTGAACTTATTAATTTT
65 AACATAACTATTTGAATCACTCAGCTAAACAAATTAATTTTACAAATCTTGAACCTATTAA-TTT
* * *
93104 TAAAATGTTAA-TATATTAGTATTATTTTATTCCAAATAAACTTCTCTGCAT
129 TAAAATATTAATTA-ATTAGAATTATTTTATTCCAAATAAACTTCTCTGAAT
*
93155 AGAAACAATTGTTTTATAACAAAACAAAAGATCATAACAATTTGAAATAAATAATTGTTCAAA-C
1 AGAAACAATTGTTTTATAACAAAACAAAAG-TCATAACAATTTGAAATAAATAATAGTTCAAATC
* ** **
93219 AATCATAACTATTTGAACTCACTCAG-TAAACAAATTTATTTTTTAAATCTTTTACCTATTAATT
65 AA-CATAACTATTTGAA-TCACTCAGCTAAACAAATTAATTTTACAAATCTTGAACCTATTAATT
** ** * *
93283 TTGGAATATTAATTAATTAGAATTATTTTATTCCAAATAAGTTTGTTTGAAT
128 TTAAAATATTAATTAATTAGAATTATTTTATTCCAAATAAACTTCTCTGAAT
* * * *
93335 AGAAAAAATTGGTTTATGACAAAACAAATAGTCATAACTATTTGAA
1 AGAAACAATTGTTTTATAACAAAACAAA-AGTCATAACAATTTGAA
93381 TGTGTTTAGA
Statistics
Matches: 190, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
180 83 0.44
181 104 0.55
182 3 0.02
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (179 bp):
AGAAACAATTGTTTTATAACAAAACAAAAGTCATAACAATTTGAAATAAATAATAGTTCAAATCA
ACATAACTATTTGAATCACTCAGCTAAACAAATTAATTTTACAAATCTTGAACCTATTAATTTTA
AAATATTAATTAATTAGAATTATTTTATTCCAAATAAACTTCTCTGAAT
Found at i:95246 original size:14 final size:15
Alignment explanation
Indices: 95217--95252 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
95207 CCCTTAGATT
95217 TAAT-ATTATTATAA
1 TAATAATTATTATAA
95231 TAATAATTATTA-AA
1 TAATAATTATTATAA
95245 TAATAATT
1 TAATAATT
95253 TAAAATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATAATTATTATAA
Found at i:95988 original size:17 final size:17
Alignment explanation
Indices: 95966--96030 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
95956 TCTTAATATG
95966 ATATAACTAAT-TTATTA
1 ATATAACTAATATTA-TA
*
95983 ATATAACTTATATTATA
1 ATATAACTAATATTATA
*
96000 ATATATA-TAAGTATAATA
1 ATATA-ACTAA-TATTATA
*
96018 ATATTACTAATAT
1 ATATAACTAATAT
96031 AAGACTTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 23 0.57
18 17 0.43
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (17 bp):
ATATAACTAATATTATA
Found at i:98524 original size:59 final size:58
Alignment explanation
Indices: 98378--98772 Score: 449
Period size: 60 Copynumber: 6.7 Consensus size: 58
98368 AAAAGAATTT
* * * ** * *
98378 AAAAAAGATTTTTGAGGAGAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
* *
98435 AAAAAAGGT-TTTTTGAGGAAAAATTG-AAGTATCAATTTTCCTCGAAATTAAAGTTTTTC
1 AAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TTTCC
*
98494 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCC
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
*
98552 AAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCC
1 -AAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATT-AAAGTTTCC
* * *
98613 AAAAAACTTTTTTTG-GGAAAAAGTTGAAAATATCAATTTTCCTCGAAATAAAAGTTTCC
1 AAAAAA-TATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
* * * * ** * * *
98672 AAAAAATATTGTTG-GGAAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCA
1 AAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
98730 AAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
98773 CTGCACAAAA
Statistics
Matches: 292, Mismatches: 33, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
57 29 0.10
58 82 0.28
59 60 0.21
60 111 0.38
61 10 0.03
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCC
Found at i:98700 original size:178 final size:174
Alignment explanation
Indices: 98378--98772 Score: 499
Period size: 178 Copynumber: 2.2 Consensus size: 174
98368 AAAAGAATTT
* * * * *
98378 AAAAAAGATTTTTGAGGAGAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTCCAAAAAACG
* * * *
98443 TTTTTTGAGGAAAAATTGAAGTATCAATTTTCCTCGAAATTAAAGTTTTTCAAAAAATATTTTTG
66 TTTTTTGAGGAAAAATTGAAATATCAATTTTCCTCGAAATAAAAGTTTTCCAAAAAATATTGTTG
* * * *
98508 AGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAGGTTTCCA
131 AGGAAAAATTGAAAGTATCAATTTTCCTCAAAAATAA-ATTTCCA
* *
98553 AAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCCAAAAA
1 AAAAAA-GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAA-TTTCCAAAAA
*
98618 ACTTTTTTTG-GGAAAAAGTTGAAAATATCAATTTTCCTCGAAATAAAAG-TTTCCAAAAAATAT
63 ACGTTTTTTGAGGAAAAA-TTG-AAATATCAATTTTCCTCGAAATAAAAGTTTTCCAAAAAATAT
* * * *
98681 TGTTG-GGAAAAAATTGAAAGTATTAATTTTTCTTAAAAATAAATTTTCAA
126 TGTTGAGG-AAAAATTGAAAGTATCAATTTTCCTCAAAAATAAA-TTTCCA
*
98731 AAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAA-AGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
98773 CTGCACAAAA
Statistics
Matches: 191, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
175 6 0.03
176 38 0.20
177 12 0.06
178 109 0.57
179 26 0.14
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (174 bp):
AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTCCAAAAAACG
TTTTTTGAGGAAAAATTGAAATATCAATTTTCCTCGAAATAAAAGTTTTCCAAAAAATATTGTTG
AGGAAAAATTGAAAGTATCAATTTTCCTCAAAAATAAATTTCCA
Found at i:98727 original size:17 final size:17
Alignment explanation
Indices: 98705--98744 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
98695 TGAAAGTATT
**
98705 AATTTTTCTTAAAAATA
1 AATTTTTCAAAAAAATA
98722 AA-TTTTCAAAAAAATA
1 AATTTTTCAAAAAAATA
98738 AATTTTT
1 AATTTTT
98745 GAGGAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTTTCAAAAAAATA
Found at i:105628 original size:9 final size:9
Alignment explanation
Indices: 105614--105647 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
105604 TACTATGCTT
*
105614 AAAAAATGA
1 AAAAAATAA
105623 AAAAAATAAA
1 AAAAAAT-AA
105633 AAAAAATAA
1 AAAAAATAA
105642 AAAAAA
1 AAAAAA
105648 AGAAAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:105636 original size:11 final size:10
Alignment explanation
Indices: 105622--105655 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
105612 TTAAAAAATG
105622 AAAAAAATAA
1 AAAAAAATAA
105632 AAAAAAATAA
1 AAAAAAATAA
*
105642 AAAAAAAGAA
1 AAAAAAATAA
105652 AAAA
1 AAAA
105656 GTTAGTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.91, C:0.00, G:0.03, T:0.06
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:105638 original size:19 final size:18
Alignment explanation
Indices: 105614--105655 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
105604 TACTATGCTT
105614 AAAAAATGAAAAAAATAA-A
1 AAAAAAT-AAAAAAA-AAGA
105633 AAAAAATAAAAAAAAAGA
1 AAAAAATAAAAAAAAAGA
105651 AAAAA
1 AAAAA
105656 GTTAGTGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.09
18 13 0.59
19 7 0.32
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAAATAAAAAAAAAGA
Found at i:106865 original size:42 final size:41
Alignment explanation
Indices: 106666--106969 Score: 365
Period size: 41 Copynumber: 7.3 Consensus size: 41
106656 ATGATTGCCA
*
106666 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCAGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
106707 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* *
106748 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
106789 AAGAGCAATTTACTTTCCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
106830 AGGAGCAATTTATTTTTTCAAAGTTGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
106872 AGGAGCCATTTATTTTTCCAAAGTCGTTGAGCCTCTGATCAG
1 AGGAGCAATTTATTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
106914 AGGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGATCAG
1 AGGAGCAATTTAT-TTT-TCAAAGTCGTGGTGCCTCTGTTTAG
*
106957 AGGAGCCATTTAT
1 AGGAGCAATTTAT
106970 GTCTGATCAG
Statistics
Matches: 245, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
41 134 0.55
42 70 0.29
43 40 0.16
44 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:106978 original size:23 final size:23
Alignment explanation
Indices: 106948--106994 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
106938 TCGTTGAGCC
106948 TCTGATCAGAGGAGCCATTTATG
1 TCTGATCAGAGGAGCCATTTATG
106971 TCTGATCAGAGGAGCCATTTATG
1 TCTGATCAGAGGAGCCATTTATG
106994 T
1 T
106995 TTCTCAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (23 bp):
TCTGATCAGAGGAGCCATTTATG
Found at i:106987 original size:66 final size:66
Alignment explanation
Indices: 106905--107028 Score: 221
Period size: 66 Copynumber: 1.9 Consensus size: 66
106895 TCGTTGAGCC
*
106905 TCTGATCAGAGGAGCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGATCAGAGGAGCCATTTAT
1 TCTGATCAGAGGAGCCATTTATGTTTCTCAAAGTCGTTGAACCTCTGATCAGAGGAGCCATTTAT
106970 G
66 G
* *
106971 TCTGATCAGAGGAGCCATTTATGTTTCTCAAAGTCGTTGAACCTCTGTTTAGAGGAGC
1 TCTGATCAGAGGAGCCATTTATGTTTCTCAAAGTCGTTGAACCTCTGATCAGAGGAGC
107029 TTTGATCGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (66 bp):
TCTGATCAGAGGAGCCATTTATGTTTCTCAAAGTCGTTGAACCTCTGATCAGAGGAGCCATTTAT
G
Found at i:107226 original size:3 final size:3
Alignment explanation
Indices: 107220--107312 Score: 83
Period size: 3 Copynumber: 32.7 Consensus size: 3
107210 TTCTTTTTTT
* *
107220 TTA TTA TT- TTA TT- TTCA TTT TTA TT- TTA TT- TTA TTT TTA TT-
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
107261 CTA TT- TCTA TT- TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
107305 TTA TTA TT
1 TTA TTA TT
107313 GTTTATATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
2 12 0.16
3 58 0.79
4 3 0.04
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:107245 original size:6 final size:6
Alignment explanation
Indices: 107213--107318 Score: 78
Period size: 6 Copynumber: 18.0 Consensus size: 6
107203 GTCTATGTTC
*
107213 TTTT-T TTTTATT ATTTTAT TTTCAT TTTTA- TTTTA- TTTTAT TTTTA-
1 TTTTAT TTTTA-T -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * * * *
107259 TTCTAT TTCTA- TTTTAT TTTTAT TATTAT TATTAT TATTAT TATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
107306 TATTAT TGTTTAT
1 TTTTAT T-TTTAT
107319 ATATATATAT
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
5 22 0.25
6 55 0.62
7 6 0.07
8 5 0.06
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:107248 original size:22 final size:23
Alignment explanation
Indices: 107214--107312 Score: 105
Period size: 22 Copynumber: 4.3 Consensus size: 23
107204 TCTATGTTCT
* *
107214 TTTTTTTTATTATTTTATTTTCA
1 TTTTTATTATTATTTTATTTTTA
107237 TTTTTATT-TTATTTTATTTTTA
1 TTTTTATTATTATTTTATTTTTA
*
107259 -TTCTATT-TCTATTTTATTTTTA
1 TTTTTATTAT-TATTTTATTTTTA
* *
107281 TTATTATTATTATTATTATTATTA
1 TTTTTATTATTATT-TTATTTTTA
*
107305 TTATTATT
1 TTTTTATT
107313 GTTTATATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
21 7 0.11
22 26 0.39
23 16 0.24
24 17 0.26
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTATTATTATTTTATTTTTA
Found at i:108646 original size:59 final size:57
Alignment explanation
Indices: 108426--108823 Score: 449
Period size: 59 Copynumber: 6.7 Consensus size: 57
108416 AAATAAAATC
108426 CAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAA-ATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * **
108484 CAAAAAAAGGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTT
1 CAAAAAAA-----ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTT
* * *
108548 CCAAAAAATATTTTTG-GAGAAAATTTGAAAGTATTAATTTTCCTTAAAAATAAATTTT
1 -CAAAAAAAATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
* * * * *
108606 CAAAAAAAAAGTTTCTCAGGAAGAGTTGAAAGTATCAATTTTTCTAAAAAAATAAATTTT
1 C-AAAAAAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAATAAATTTT
** ** *
108666 CAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTC
1 CAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTT
* *
108725 CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
1 CAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
108782 CAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
1 C-AAAAA-AAATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
108824 TTCTGCACAA
Statistics
Matches: 288, Mismatches: 35, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
57 10 0.03
58 60 0.21
59 116 0.40
60 49 0.17
62 36 0.12
63 6 0.02
64 4 0.01
65 7 0.02
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (57 bp):
CAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
Found at i:108770 original size:176 final size:178
Alignment explanation
Indices: 108445--108824 Score: 597
Period size: 176 Copynumber: 2.1 Consensus size: 178
108435 ATTTTTAGGA
* * *
108445 AAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGGTTTTTTTTTTAGGAAA
1 AAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAATTTTCAAAAAAAGG---TTTTTTGAGGAAA
* *
108510 AGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTTCCAAAAAATATTTTTGGAGAAAATTTG
63 AGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCCAAAAAATATTTTTGGAGAAAAGTTG
*
108575 AAAGTATTAATTTTCCTTAAAAATAAATTTTCAAAAAA-AAAGTTTCTCAGG
128 AAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATAAA-TTTCTCAGG
*
108626 AAGAGTTGAAAGTATCAATTTTTCTAAAAAAATAAATTTTC-AAAAAAGG-TTTTTGAGGAAAAG
1 AAAAGTTGAAAGTATCAATTTTTCT-AAAAAATAAATTTTCAAAAAAAGGTTTTTTGAGGAAAAG
*
108689 TTGAAAGTATCAATTTTCCTCGAAAATAAAAG-TTTCCAAAAAATATTTTTGGGGAAAAGTTGAA
65 TTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCCAAAAAATATTTTTGGAGAAAAGTTGAA
* *
108753 AGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATAAATTTTTGAGG
130 AGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATAAATTTCTCAGG
108802 AAAAGTTGAAAGTATCAATTTTT
1 AAAAGTTGAAAGTATCAATTTTT
108825 TCTGCACAAG
Statistics
Matches: 186, Mismatches: 11, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
176 94 0.51
177 47 0.25
181 31 0.17
182 14 0.08
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (178 bp):
AAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAATTTTCAAAAAAAGGTTTTTTGAGGAAAAGT
TGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTTCCAAAAAATATTTTTGGAGAAAAGTTGAAA
GTATCAATTTTCCTTAAAAATAAATTTTCAAAAAATAAATTTCTCAGG
Found at i:109512 original size:14 final size:15
Alignment explanation
Indices: 109485--109520 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
109475 TAAATTAAAT
109485 TAATATAATTTATATA
1 TAATATAA-TTATATA
109501 TAATATAA-TATATA
1 TAATATAATTATATA
109515 TAATAT
1 TAATAT
109521 TAACTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.60
16 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATAATTATATA
Found at i:109642 original size:19 final size:19
Alignment explanation
Indices: 109614--109672 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
109604 AATGTAAATA
*
109614 TAATACTATTATATTATAT
1 TAATAATATTATATTATAT
109633 TAATAATATTATAATTAT-T
1 TAATAATATTAT-ATTATAT
*
109652 T-ATAATATATCTATTA-AT
1 TAATAATAT-TATATTATAT
109670 TAA
1 TAA
109673 ATTATAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 13 0.38
19 16 0.47
20 5 0.15
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATAATATTATATTATAT
Found at i:110164 original size:16 final size:18
Alignment explanation
Indices: 110143--110177 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
110133 GTTAATTTAC
110143 AATAATA-TTAT-ATTGT
1 AATAATATTTATAATTGT
110159 AATAATATTTATAATTGT
1 AATAATATTTATAATTGT
110177 A
1 A
110178 TACAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AATAATATTTATAATTGT
Found at i:110823 original size:14 final size:15
Alignment explanation
Indices: 110799--110844 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
110789 ATGCTCCATG
110799 ATTAT-TATAATTAA
1 ATTATATATAATTAA
110813 ATTATAT-TAATT--
1 ATTATATATAATTAA
110825 ATTATATACTAATTAA
1 ATTATATA-TAATTAA
110841 ATTA
1 ATTA
110845 ATAATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 7 0.26
14 15 0.56
15 1 0.04
16 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATATATAATTAA
Found at i:110838 original size:23 final size:23
Alignment explanation
Indices: 110799--110846 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
110789 ATGCTCCATG
* *
110799 ATTATTATAATTAAATTATATTA
1 ATTATTATAACTAAATTAAATTA
110822 ATTATTATATACT-AATTAAATTA
1 ATTATTATA-ACTAAATTAAATTA
110845 AT
1 AT
110847 AATAATATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATTATTATAACTAAATTAAATTA
Found at i:110855 original size:28 final size:26
Alignment explanation
Indices: 110799--110863 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
110789 ATGCTCCATG
*
110799 ATTATTATAATTAAATTATATTAATT
1 ATTATTATAATTAAATTATAATAATT
110825 ATTATATACTAATTAAATTAATAATAA-T
1 ATTAT-TA-TAATTAAATT-ATAATAATT
*
110853 ATTGTTATAAT
1 ATTATTATAAT
110864 CATGACTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 9 0.26
27 4 0.12
28 15 0.44
29 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTATTATAATTAAATTATAATAATT
Found at i:111153 original size:18 final size:19
Alignment explanation
Indices: 111124--111174 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
111114 AATTGTAAAA
111124 TAATTATAAATAT-TTAATT
1 TAATT-TAAATATGTTAATT
* *
111143 TATTTTAAATATGTTATTT
1 TAATTTAAATATGTTAATT
111162 TAATTTAATATAT
1 TAATTTAA-ATAT
111175 ATACAAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.26
19 16 0.59
20 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TAATTTAAATATGTTAATT
Found at i:111330 original size:18 final size:15
Alignment explanation
Indices: 111292--111324 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
111282 TAATAATATC
111292 ATAA-AATTATTTAT
1 ATAATAATTATTTAT
111306 ATAATAATTATTTAT
1 ATAATAATTATTTAT
111321 -TAAT
1 ATAAT
111325 TAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATAATAATTATTTAT
Found at i:113112 original size:18 final size:19
Alignment explanation
Indices: 113076--113116 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
113066 TTAATTTTAT
*
113076 ATTAATTTAACTAATATAA
1 ATTAATTTAAATAATATAA
113095 ATTAATTTAAAT-ATATAA
1 ATTAATTTAAATAATATAA
113113 ATTA
1 ATTA
113117 TTAATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTAATTTAAATAATATAA
Found at i:113130 original size:23 final size:22
Alignment explanation
Indices: 113101--113164 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
113091 ATAAATTAAT
* *
113101 TTAAATATATAAATTATTAATTA
1 TTAAATAT-TAATTTATTAATGA
113124 TTAAATATTTAATTTATTAATGA
1 TTAAATA-TTAATTTATTAATGA
113147 TT--ATATTAATTTATTAAT
1 TTAAATATTAATTTATTAAT
113165 AATAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
20 13 0.34
21 3 0.08
23 21 0.55
24 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAAATATTAATTTATTAATGA
Found at i:113142 original size:16 final size:19
Alignment explanation
Indices: 113115--113163 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
113105 ATATATAAAT
113115 TATTAA-TTATTAA-A-TA
1 TATTAATTTATTAAGATTA
113131 T-TTAATTTATTAATGATTA
1 TATTAATTTATTAA-GATTA
113150 TATTAATTTATTAA
1 TATTAATTTATTAA
113164 TAATAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.14
16 8 0.29
18 1 0.04
19 3 0.11
20 12 0.43
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTAATTTATTAAGATTA
Found at i:113729 original size:180 final size:179
Alignment explanation
Indices: 113279--113764 Score: 492
Period size: 180 Copynumber: 2.7 Consensus size: 179
113269 TAATATAATT
* * * * *
113279 AATAATACTAATTTATTAATATTTAAAAAATTAATTAGTAAGAGATTTAAAAAGTAAATCTGCTT
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAGTAAATCTGATT
* ** * * * *
113344 ACCAAACCATTTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTTAAATCATTATAACCTTT
66 ACCAAA-CAGTTCAAATAGTTAAGACTA-TTGAATAATTATCTATTTCAAATCATTATGACCTTT
* * * * * **
113409 TGTTTTATCATCAAACAATTGGTTATGTTTATTCTATTTTATTCAAAATAA
129 TCTTTTATCATAAAACAATTGGTTATGTTCATACAAGCTTATTCAAAATAA
* * * * * *
113460 AAT-ATAACTAATTTAATAATA-TTCTGAAACTTAATAACCAAGAAAATTAAAAAGTAAATCTAA
1 AATAAT-ACTAATTTAATAATATTTC-AAAAATTAATAACTAAGAGATTTAAAAAGTAAATCTGA
* * * * *
113523 TTGCCGAACTAGTTGAAATAGTTAAGACTATATGAATGATTATCTATTTCAAATCGTTATGACCT
64 TTACCAAAC-AGTTCAAATAGTTAAGACTAT-TGAATAATTATCTATTTCAAATCATTATGACCT
* * *** *
113588 TTTCTTTTATCATAAAACAATT-GTTTTGTTCGTACAAGCTTATTTGGATTAA
127 TTTCTTTTATCATAAAACAATTGGTTATGTTCATACAAGCTTATTCAAAATAA
* * *
113640 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTT
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAGTAAATCTGATT
* * * *
113705 AACAAATCGGTTCAAATGGTTAAGACTATTAGAATAATTATTTATTTCAAATCATTATGA
66 ACCAAA-CAGTTCAAATAGTTAAGACTATT-GAATAATTATCTATTTCAAATCATTATGA
113765 TATTATTAAT
Statistics
Matches: 243, Mismatches: 54, Indels: 17
0.77 0.17 0.05
Matches are distributed among these distances:
179 1 0.00
180 121 0.50
181 121 0.50
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (179 bp):
AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAGATTTAAAAAGTAAATCTGATT
ACCAAACAGTTCAAATAGTTAAGACTATTGAATAATTATCTATTTCAAATCATTATGACCTTTTC
TTTTATCATAAAACAATTGGTTATGTTCATACAAGCTTATTCAAAATAA
Found at i:114579 original size:20 final size:21
Alignment explanation
Indices: 114544--114620 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 21
114534 ATTTAAAACA
114544 ATTATATTAGTTATATTATAAAT
1 ATTA-ATTA-TTATATTATAAAT
114567 ATTAA-TATTATATTATAAAT
1 ATTAATTATTATATTATAAAT
114587 ATTAATTATTAT-TTATAATTAT
1 ATTAATTATTATATTATAA--AT
114609 ATTAGATTATTA
1 ATTA-ATTATTA
114621 GAATAATATT
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
20 24 0.48
21 8 0.16
22 7 0.14
23 11 0.22
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTAATTATTATATTATAAAT
Found at i:115341 original size:15 final size:16
Alignment explanation
Indices: 115321--115351 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
115311 TAAATATTTT
115321 AATTATTGATT-AATA
1 AATTATTGATTCAATA
115336 AATTATTGATTCAATA
1 AATTATTGATTCAATA
115352 GACTATTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
AATTATTGATTCAATA
Found at i:115392 original size:16 final size:15
Alignment explanation
Indices: 115363--115397 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
115353 ACTATTCACA
115363 TATACATTTAATTAT
1 TATACATTTAATTAT
*
115378 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
115394 TATA
1 TATA
115398 AAATTATTAA
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:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:115579 original size:21 final size:21
Alignment explanation
Indices: 115532--115581 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
115522 ATATGTTCAA
115532 ATAATTA-ATTTATTATAACT
1 ATAATTATATTTATTATAACT
115552 -TATATTATATTATATT-TAACT
1 ATA-ATTATATT-TATTATAACT
115573 ATAATTATA
1 ATAATTATA
115582 ATTAAAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.08
20 4 0.15
21 14 0.54
22 6 0.23
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
ATAATTATATTTATTATAACT
Found at i:115690 original size:25 final size:24
Alignment explanation
Indices: 115649--115704 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
115639 AGATATAGTA
115649 ATAATAA-GTAATATATTATCAAATT
1 ATAATAATGTAATATATTAT-AAA-T
* *
115674 ATAATAATTTAAT-TATTATATAT
1 ATAATAATGTAATATATTATAAAT
115697 ATAATAAT
1 ATAATAAT
115705 AAGAATGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 9 0.32
24 2 0.07
25 13 0.46
26 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATAATAATGTAATATATTATAAAT
Done.