Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 35 of 91
Found at i:5958479 original size:20 final size:19
Alignment explanation
Indices: 5958454--5958505 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
5958444 TTTTTTGATT
5958454 TTTTTTGTAATTT-TGAAAA
1 TTTTTTG-AATTTCTGAAAA
*
5958473 TTGTTTTGAATTTCTTAAAA
1 TT-TTTTGAATTTCTGAAAA
5958493 TTTTTTAGAATTT
1 TTTTTT-GAATTT
5958506 AAAAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (19 bp):
TTTTTTGAATTTCTGAAAA
Found at i:5960492 original size:20 final size:20
Alignment explanation
Indices: 5960463--5960501 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5960453 AAATTCCATG
5960463 AAATCCTAAACCTTAAACCT
1 AAATCCTAAACCTTAAACCT
* *
5960483 AAATCTTAAACCTTGAACC
1 AAATCCTAAACCTTAAACC
5960502 CAAAACACAA
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:0.44, C:0.28, G:0.03, T:0.26
Consensus pattern (20 bp):
AAATCCTAAACCTTAAACCT
Found at i:5960608 original size:22 final size:20
Alignment explanation
Indices: 5960574--5960615 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
5960564 TACTTCTTGA
*
5960574 ATCATCATGCATTCATATCAT
1 ATCATCATACATTCAT-TCAT
5960595 ATCATTCATACATTCATTCAT
1 ATCA-TCATACATTCATTCAT
5960616 TTTTATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (20 bp):
ATCATCATACATTCATTCAT
Found at i:5963221 original size:14 final size:15
Alignment explanation
Indices: 5963189--5963228 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
5963179 TCTTTAGACC
*
5963189 TTTGGATTTTTAGGT
1 TTTGGATTTTAAGGT
5963204 TTTGGATTTTAAGGT
1 TTTGGATTTTAAGGT
*
5963219 TTGGGATTTT
1 TTTGGATTTT
5963229 GGATTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.57
Consensus pattern (15 bp):
TTTGGATTTTAAGGT
Found at i:5963231 original size:22 final size:21
Alignment explanation
Indices: 5963203--5963250 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
5963193 GATTTTTAGG
*
5963203 TTTTGGATTTTAAGGTTTGGGA
1 TTTTGGATTTTAAGGTTT-CGA
*
5963225 TTTTGGATTTTAGGGTTTCGA
1 TTTTGGATTTTAAGGTTTCGA
5963246 TTTTG
1 TTTTG
5963251 TGGTTTGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.15, C:0.02, G:0.29, T:0.54
Consensus pattern (21 bp):
TTTTGGATTTTAAGGTTTCGA
Found at i:5963395 original size:14 final size:13
Alignment explanation
Indices: 5963344--5963401 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
5963334 TTGGATTTTG
*
5963344 GATTTTTGGGTTT
1 GATTTTAGGGTTT
*
5963357 CAATTTTAGGGTTT
1 -GATTTTAGGGTTT
5963371 GAATGTTTTAGGGATTT
1 G-A--TTTTAGGG-TTT
5963388 GATTTTAGGGTTT
1 GATTTTAGGGTTT
5963401 G
1 G
5963402 GAGGGTTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.11
14 20 0.54
16 9 0.24
17 4 0.11
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.52
Consensus pattern (13 bp):
GATTTTAGGGTTT
Found at i:5963462 original size:14 final size:14
Alignment explanation
Indices: 5963421--5963467 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
5963411 AGGTTAGTGC
*
5963421 TTTCGATTTTAGGA
1 TTTCGATTTTAGGG
5963435 TTT-GAAGGTTTTAGGG
1 TTTCG-A--TTTTAGGG
5963451 TTTCGATTTTAGGG
1 TTTCGATTTTAGGG
5963465 TTT
1 TTT
5963468 AGAGATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
13 1 0.04
14 15 0.54
16 11 0.39
17 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (14 bp):
TTTCGATTTTAGGG
Found at i:5963476 original size:16 final size:15
Alignment explanation
Indices: 5963425--5963477 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
5963415 TAGTGCTTTC
*
5963425 GATTTTAGGATTTGAA
1 GATTTTAGGGTTTG-A
* *
5963441 GGTTTTAGGGTTT-C
1 GATTTTAGGGTTTGA
5963455 GATTTTAGGGTTTAGA
1 GATTTTAGGGTTT-GA
5963471 GATTTTA
1 GATTTTA
5963478 TTATTTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 12 0.40
16 18 0.60
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (15 bp):
GATTTTAGGGTTTGA
Found at i:5963477 original size:30 final size:30
Alignment explanation
Indices: 5963421--5963477 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
5963411 AGGTTAGTGC
*
5963421 TTTCGATTTTAGGATTTGAAGGTTTTAGGG
1 TTTCGATTTTAGGATTTGAAGATTTTAGGG
*
5963451 TTTCGATTTTAGGGTTT-AGAGATTTTA
1 TTTCGATTTTAGGATTTGA-AGATTTTA
5963478 TTATTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.21, C:0.04, G:0.26, T:0.49
Consensus pattern (30 bp):
TTTCGATTTTAGGATTTGAAGATTTTAGGG
Found at i:5965057 original size:17 final size:18
Alignment explanation
Indices: 5965035--5965086 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 18
5965025 TTGTTTAATT
* *
5965035 AATAAATATTAAAGT-AA
1 AATAAATAATAAAATGAA
5965052 AATAAATAATAAAATGAA
1 AATAAATAATAAAATGAA
5965070 AAT-AA-AATAAAATGAA
1 AATAAATAATAAAATGAA
5965086 A
1 A
5965087 GTATAGATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 12 0.38
17 15 0.47
18 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
AATAAATAATAAAATGAA
Found at i:5965082 original size:24 final size:24
Alignment explanation
Indices: 5965034--5965080 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
5965024 TTTGTTTAAT
* *
5965034 TAATAAATATTAAAGTAAAATAAA
1 TAATAAATATGAAAATAAAATAAA
5965058 TAATAAA-ATGAAAATAAAATAAA
1 TAATAAATATGAAAATAAAATAAA
5965081 ATGAAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (24 bp):
TAATAAATATGAAAATAAAATAAA
Found at i:5965518 original size:37 final size:38
Alignment explanation
Indices: 5965461--5966443 Score: 623
Period size: 37 Copynumber: 26.3 Consensus size: 38
5965451 CGAATAATAA
* * *
5965461 TAAAGAAAATGA-CTAGGACAACACCGAGAGTCTAAAAG
1 TAAAGAAAATGATCGA-GACAACACCGCGAGTCGAAAAG
*
5965499 TAAAG-AAATGATCGAGACAACACCGCGAGTCGAAGAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
* *
5965536 T-AAGAAAACGA-CTGGGACAACACCGCGAGTC-AAAGAG
1 TAAAGAAAATGATC-GAGACAACACCGCGAGTCGAAA-AG
* *
5965573 T-AAGAAAATGA-CTGGGACAACACCGTGAGTCGAAAAG
1 TAAAGAAAATGATC-GAGACAACACCGCGAGTCGAAAAG
* * * ***
5965610 TAATGAAAATGAT-TAGGACAGCTTTGCGAGTCGAAAAG
1 TAAAGAAAATGATCGA-GACAACACCGCGAGTCGAAAAG
* * **
5965648 T-AAGAAAACGATTGAGACAACACCATGAGTCGAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
* * *
5965685 T-AAGAAAAATGATCGGGACAACACTGCGAGTCAAAAAG
1 TAAAG-AAAATGATCGAGACAACACCGCGAGTCGAAAAG
* **
5965723 T-AAGAAAAATGATTGAGACAACACTACGAGTCGAAAAG
1 TAAAG-AAAATGATCGAGACAACACCGCGAGTCGAAAAG
* * * * *
5965761 TAATGAAAATGA-CTAGGACAACACCGTGAGTTGGAAAG
1 TAAAGAAAATGATCGA-GACAACACCGCGAGTCGAAAAG
* * **
5965799 T-AAGAAAATGATCGGGACAACACCGTGAGTAAAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
* *
5965836 T-AAGAAAATGATCGAGACAACACCGCAAGTTGAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
* * * * * *
5965873 TAATGAAAACGATTGGGACAACACTGCGAGTTGAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
* * * * ** *
5965911 TAATGAAAAGGACCCAGACAACATTGCCAGTC-AAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
***
5965948 T-AAGAAAATGATCGAGACAATTTCGCGAGTCGAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
*
5965985 T-AAGAAAATGATCGAGACAACACCACGAGTCGAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
* * *
5966022 TAATGAAAATGA-CCAGGACAACACCACGAGTC-AGAAAG
1 TAAAGAAAATGATCGA-GACAACACCGCGAGTCGA-AAAG
* * * * *
5966060 T-AAGAAAACGATCGAGACAATATCGTGAGTCAAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
** * *
5966097 T-AAGAAAAACAATCGGGACAACACCACGAGTC-AGAAAG
1 TAAAG-AAAATGATCGAGACAACACCGCGAGTCGA-AAAG
* * * * *
5966135 TAATGAAAATGA-CCAGGATAACACCGTGAGTC-AAAAA
1 TAAAGAAAATGATCGA-GACAACACCGCGAGTCGAAAAG
** * *
5966172 TAAAG-ACTTGACCTG-GACAACATCGCGAGTCGAAAAG
1 TAAAGAAAATGATC-GAGACAACACCGCGAGTCGAAAAG
* * *
5966209 TAAAG--AATCGATCGAGACAACACCACAAGTTGAATAA-
1 TAAAGAAAAT-GATCGAGACAACACCGCGAGTCGAA-AAG
* * * * * * *
5966246 CAAAGAAAATGATCGGGATAACAACGCTAATC-AAAAA
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
* * **
5966283 TAAAG-AATTAATCGAGACAACACTACGAGTCGAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
** * * *
5966320 T-AA-AAGGTCAATCGAGACAACACCGCGAGTCAAAAAA
1 TAAAGAAAAT-GATCGAGACAACACCGCGAGTCGAAAAG
*** * * *
5966357 TAAAGAGTCT-ATAGGGACAACACCGTGAGTCGAAAAG
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
* * ** * *
5966394 TAAAGAAAATGACCGGGACAACATTGCGAATTGAATAA-
1 TAAAGAAAATGATCGAGACAACACCGCGAGTCGAA-AAG
5966432 TAAAGAAAATGA
1 TAAAGAAAATGA
5966444 CCAGGACAAC
Statistics
Matches: 741, Mismatches: 164, Indels: 80
0.75 0.17 0.08
Matches are distributed among these distances:
36 70 0.09
37 355 0.48
38 305 0.41
39 11 0.01
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (38 bp):
TAAAGAAAATGATCGAGACAACACCGCGAGTCGAAAAG
Found at i:5966090 original size:75 final size:74
Alignment explanation
Indices: 5965463--5966416 Score: 675
Period size: 75 Copynumber: 12.8 Consensus size: 74
5965453 AATAATAATA
* * * *
5965463 AAGAAAATGA-CTAGGACAACACCGAGAGTCTAAAAGTAA-AGAAATGATCGAGACAACACCGCG
1 AAGAAAATGATCGA-GACAACACCGCGAGTCGAAAAGTAAGA-AAATGATCGGGACAACACCGCG
*
5965526 AGTCGAAGAGT
64 AGTCGAAAAGT
* * *
5965537 AAGAAAACGA-CTGGGACAACACCGCGAGTC-AAAGAGTAAGAAAATGA-CTGGGACAACACCGT
1 AAGAAAATGATC-GAGACAACACCGCGAGTCGAAA-AGTAAGAAAATGATC-GGGACAACACCGC
5965599 GAGTCGAAAAGT
63 GAGTCGAAAAGT
* * *** * * * **
5965611 AATGAAAATGAT-TAGGACAGCTTTGCGAGTCGAAAAGTAAGAAAACGATTGAGACAACACCATG
1 AA-GAAAATGATCGA-GACAACACCGCGAGTCGAAAAGTAAGAAAATGATCGGGACAACACCGCG
5965675 AGTCGAAAAGT
64 AGTCGAAAAGT
* * * * * **
5965686 AAGAAAAATGATCGGGACAACACTGCGAGTCAAAAAGTAAGAAAAATGATTGAGACAACACTACG
1 AAG-AAAATGATCGAGACAACACCGCGAGTCGAAAAGTAAG-AAAATGATCGGGACAACACCGCG
5965751 AGTCGAAAAGT
64 AGTCGAAAAGT
* * * * *
5965762 AATGAAAATGA-CTAGGACAACACCGTGAGTTGGAAAGTAAGAAAATGATCGGGACAACACCGTG
1 AA-GAAAATGATCGA-GACAACACCGCGAGTCGAAAAGTAAGAAAATGATCGGGACAACACCGCG
**
5965826 AGTAAAAAAGT
64 AGTCGAAAAGT
* * * * *
5965837 AAGAAAATGATCGAGACAACACCGCAAGTTGAAAAGTAATGAAAACGATTGGGACAACACTGCGA
1 AAGAAAATGATCGAGACAACACCGCGAGTCGAAAAGTAA-GAAAATGATCGGGACAACACCGCGA
*
5965902 GTTGAAAAGT
65 GTCGAAAAGT
* * * ** * * ***
5965912 AATGAAAAGGACCCAGACAACATTGCCAGTC-AAAAGTAAGAAAATGATCGAGACAATTTCGCGA
1 AA-GAAAATGATCGAGACAACACCGCGAGTCGAAAAGTAAGAAAATGATCGGGACAACACCGCGA
5965976 GTCGAAAAGT
65 GTCGAAAAGT
* * * *
5965986 AAGAAAATGATCGAGACAACACCACGAGTCGAAAAGTAATGAAAATGACCAGGACAACACCACGA
1 AAGAAAATGATCGAGACAACACCGCGAGTCGAAAAGTAA-GAAAATGATCGGGACAACACCGCGA
5966051 GTC-AGAAAGT
65 GTCGA-AAAGT
* * * * * ** *
5966061 AAGAAAACGATCGAGACAATATCGTGAGTCAAAAAGTAAGAAAAACAATCGGGACAACACCACGA
1 AAGAAAATGATCGAGACAACACCGCGAGTCGAAAAGTAAG-AAAATGATCGGGACAACACCGCGA
5966126 GTC-AGAAAGT
65 GTCGA-AAAGT
* * * * ** * * *
5966136 AATGAAAATGA-CCAGGATAACACCGTGAGTC-AAAAATAA-AGACTTGACCTGGACAACATCGC
1 AA-GAAAATGATCGA-GACAACACCGCGAGTCGAAAAGTAAGA-AAATGATCGGGACAACACCGC
5966198 GAGTCGAAAAGT
63 GAGTCGAAAAGT
* * * * ** * * *
5966210 AA-AGAATCGATCGAGACAACACCACAAGTTGAATAACAAAGAAAATGATCGGGATAACAACGCT
1 AAGAAAAT-GATCGAGACAACACCGCGAGTCGAA-AAGTAAGAAAATGATCGGGACAACACCGCG
* *
5966274 AATC-AAAAAT
64 AGTCGAAAAGT
* * ** ** * *
5966284 AA-AGAATTAATCGAGACAACACTACGAGTCGAAAAGTAA-AAGGTCAATCGAGACAACACCGCG
1 AAGA-AAATGATCGAGACAACACCGCGAGTCGAAAAGTAAGAAAAT-GATCGGGACAACACCGCG
* *
5966347 AGTCAAAAAAT
64 AGTCGAAAAGT
* * * * * * *
5966358 AA-AGAGTCTATAGGGACAACACCGTGAGTCGAAAAGTAAAGAAAATGACCGGGACAACA
1 AAGAAAAT-GATCGAGACAACACCGCGAGTCGAAAAGT-AAGAAAATGATCGGGACAACA
5966417 TTGCGAATTG
Statistics
Matches: 693, Mismatches: 151, Indels: 71
0.76 0.17 0.08
Matches are distributed among these distances:
72 7 0.01
73 61 0.09
74 220 0.32
75 295 0.43
76 109 0.16
77 1 0.00
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (74 bp):
AAGAAAATGATCGAGACAACACCGCGAGTCGAAAAGTAAGAAAATGATCGGGACAACACCGCGAG
TCGAAAAGT
Found at i:5966202 original size:36 final size:37
Alignment explanation
Indices: 5966144--5966214 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
5966134 GTAATGAAAA
* *
5966144 TGACCAGGATAACACCGTGAGTC-AAAAATAAAGACT
1 TGACCAGGACAACACCGCGAGTCGAAAAATAAAGACT
* * *
5966180 TGACCTGGACAACATCGCGAGTCGAAAAGTAAAGA
1 TGACCAGGACAACACCGCGAGTCGAAAAATAAAGA
5966215 ATCGATCGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 19 0.66
37 10 0.34
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (37 bp):
TGACCAGGACAACACCGCGAGTCGAAAAATAAAGACT
Found at i:5966709 original size:69 final size:68
Alignment explanation
Indices: 5966581--5966716 Score: 161
Period size: 69 Copynumber: 2.0 Consensus size: 68
5966571 GTCAAAAAGT
* * ***
5966581 AACAAGATCGGGATTGAACTACGATTCAAAAAATAATGAGACCAGGATTGAATTGTGAGTCAAAG
1 AACAAGATCGGGATTAAACTACGATTCAAAAAATAATGAGACCAGGATTAAACCATGAGTCAAAG
5966646 AAC
66 AAC
*
5966649 AACAATGATCGGGATTAAA-TCACG-TGTCAAAAAATAATGAGA-CTGAGATTAAACCATGAGTC
1 AACAA-GATCGGGATTAAACT-ACGAT-TCAAAAAATAATGAGACCAG-GATTAAACCATGAGTC
5966711 AAAGAA
62 AAAGAA
5966717 TAATGTTAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
68 9 0.16
69 49 0.84
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (68 bp):
AACAAGATCGGGATTAAACTACGATTCAAAAAATAATGAGACCAGGATTAAACCATGAGTCAAAG
AAC
Found at i:5967048 original size:35 final size:35
Alignment explanation
Indices: 5966955--5967081 Score: 107
Period size: 35 Copynumber: 3.7 Consensus size: 35
5966945 GATGACGATC
* *
5966955 GAGATTGAATCACAAGT-AAAAAATAAAGACGACT
1 GAGATTGAACCACGAGTCAAAAAATAAAGACGACT
** * *
5966989 GAGATT-AGACCTTGACTCAAAAAATAAAGATGACT
1 GAGATTGA-ACCACGAGTCAAAAAATAAAGACGACT
* * * *
5967024 GGGATTGAACCACGAGTCATAAAATAAATA-GATT
1 GAGATTGAACCACGAGTCAAAAAATAAAGACGACT
** *
5967058 GAGATAAAACCATGAGTCAAAAAA
1 GAGATTGAACCACGAGTCAAAAAA
5967082 CGATGACTAT
Statistics
Matches: 72, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
33 1 0.01
34 32 0.44
35 38 0.53
36 1 0.01
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.20
Consensus pattern (35 bp):
GAGATTGAACCACGAGTCAAAAAATAAAGACGACT
Found at i:5979695 original size:22 final size:22
Alignment explanation
Indices: 5979667--5979748 Score: 73
Period size: 21 Copynumber: 3.8 Consensus size: 22
5979657 AATTTTTAGG
5979667 TTTTGGAATTTAGGGTTTGGGA
1 TTTTGGAATTTAGGGTTTGGGA
* *
5979689 TTTTGGATTTTAGGGTTT-CGA
1 TTTTGGAATTTAGGGTTTGGGA
* * *
5979710 TTTTAGG-GTTTAAGGTTTGGGG
1 TTTT-GGAATTTAGGGTTTGGGA
5979732 TTTT--AATTTTAGGGTTT
1 TTTTGGAA-TTTAGGGTTT
5979749 AAAGGATTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
21 24 0.50
22 24 0.50
ACGTcount: A:0.16, C:0.01, G:0.32, T:0.51
Consensus pattern (22 bp):
TTTTGGAATTTAGGGTTTGGGA
Found at i:5979770 original size:29 final size:28
Alignment explanation
Indices: 5979697--5979778 Score: 112
Period size: 29 Copynumber: 2.9 Consensus size: 28
5979687 GATTTTGGAT
5979697 TTTAGGGTTTCGATTTTAGGGTTT-AAGG
1 TTTAGGGTTT-GATTTTAGGGTTTAAAGG
* *
5979725 TTTGGGGTTTTAATTTTAGGGTTTAAAGG
1 TTTAGGG-TTTGATTTTAGGGTTTAAAGG
5979754 ATTTAGGGTTTGATTTTAGGGTTTA
1 -TTTAGGGTTTGATTTTAGGGTTTA
5979779 GTGTTTAGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 18 0.38
29 23 0.49
30 6 0.13
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTTGATTTTAGGGTTTAAAGG
Found at i:5979787 original size:14 final size:13
Alignment explanation
Indices: 5979696--5979788 Score: 62
Period size: 14 Copynumber: 6.6 Consensus size: 13
5979686 GGATTTTGGA
*
5979696 TTTTAGGGTTTCG
1 TTTTAGGGTTTAG
5979709 ATTTTAGGGTTTAAG
1 -TTTTAGGGTTT-AG
* * *
5979724 GTTTGGGGTTTTAA
1 TTTTAGGG-TTTAG
5979738 TTTTAGGGTTTAAAGG
1 TTTTAGGGTTT--A-G
*
5979754 ATTTAGGGTTT-G
1 TTTTAGGGTTTAG
5979766 ATTTTAGGGTTTAG
1 -TTTTAGGGTTTAG
5979780 TGTTTAGGG
1 T-TTTAGGG
5979789 ACTGGAATTG
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
12 1 0.02
13 14 0.23
14 32 0.52
15 5 0.08
16 10 0.16
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.48
Consensus pattern (13 bp):
TTTTAGGGTTTAG
Found at i:5979803 original size:57 final size:58
Alignment explanation
Indices: 5979697--5979805 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 58
5979687 GATTTTGGAT
** ** *
5979697 TTTAGGGTTTCGATTTTAGGGTTTAAGGTTTGGGGTTTTAATTTTAGGGTTTAAAGGA
1 TTTAGGGTTTCGATTTTAGGGTTTAAGGTTTGGGACTGGAATTTGAGGGTTTAAAGGA
5979755 TTTAGGGTTT-GATTTTAGGGTTT-AGTGTTTAGGGACTGGAA-TTGAGGGTTT
1 TTTAGGGTTTCGATTTTAGGGTTTAAG-GTTT-GGGACTGGAATTTGAGGGTTT
5979806 GGGTTTTTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 2 0.05
57 26 0.59
58 16 0.36
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (58 bp):
TTTAGGGTTTCGATTTTAGGGTTTAAGGTTTGGGACTGGAATTTGAGGGTTTAAAGGA
Found at i:5979833 original size:14 final size:14
Alignment explanation
Indices: 5979816--5979864 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
5979806 GGGTTTTTGG
*
5979816 ATTTTTGGTTTTCA
1 ATTTTAGGTTTTCA
* *
5979830 ATTTTGGGTTTTGA
1 ATTTTAGGTTTTCA
*
5979844 A-TTTAGGGTTTCA
1 ATTTTAGGTTTTCA
5979857 ATTTTAGG
1 ATTTTAGG
5979865 GTTTGGATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.18, C:0.04, G:0.22, T:0.55
Consensus pattern (14 bp):
ATTTTAGGTTTTCA
Found at i:5979836 original size:13 final size:13
Alignment explanation
Indices: 5979818--5979861 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
5979808 GTTTTTGGAT
5979818 TTTTGGTTTTCAA
1 TTTTGGTTTTCAA
*
5979831 TTTTGGGTTTTGAA
1 TTTT-GGTTTTCAA
* *
5979845 TTTAGGGTTTCAA
1 TTTTGGTTTTCAA
5979858 TTTT
1 TTTT
5979862 AGGGTTTGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.16, C:0.05, G:0.20, T:0.59
Consensus pattern (13 bp):
TTTTGGTTTTCAA
Found at i:5979865 original size:14 final size:14
Alignment explanation
Indices: 5979825--5979868 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
5979815 GATTTTTGGT
5979825 TTTCAATTTT-GGG
1 TTTCAATTTTAGGG
*
5979838 TTTTGAA-TTTAGGG
1 -TTTCAATTTTAGGG
5979852 TTTCAATTTTAGGG
1 TTTCAATTTTAGGG
5979866 TTT
1 TTT
5979869 GGATGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.18, C:0.05, G:0.23, T:0.55
Consensus pattern (14 bp):
TTTCAATTTTAGGG
Found at i:5979887 original size:121 final size:120
Alignment explanation
Indices: 5979670--5979898 Score: 291
Period size: 121 Copynumber: 1.9 Consensus size: 120
5979660 TTTTAGGTTT
* * *
5979670 TGGAATTTAGGGTTTGGGATTTTGGATTTTAGGGTTTCGATTTTAGGGTTTAAGGTTTGGGGTTT
1 TGGAATTGAGGGTTTGGGATTTTGGATTTTAGGGTTTCAATTTTAGGGTTTAA-GTTTAGGGTTT
* * *
5979735 TAATTTTAGGGTTTAAAGGATTTAGGGTTTGATTTTAGGGTTTAGTGTTTAGGGAC
65 CAATTTTAGGGTTTAAAGGATTTAGGATTTGATTTTAAGGTTTAGTGTTTAGGGAC
* * *
5979791 TGGAATTGAGGGTTTGGGTTTTTGGATTTTTGGTTTTCAATTTT-GGGTTTTGAA-TTTAGGGTT
1 TGGAATTGAGGGTTTGGGATTTTGGATTTTAGGGTTTCAATTTTAGGG-TTT-AAGTTTAGGGTT
** * *
5979854 TCAATTTTAGGGTTTGGATGTTTTAGAGATTTGATTTTAAGGTTT
64 TCAATTTTAGGGTTTAAAGGATTTAG-GATTTGATTTTAAGGTTT
5979899 GGAGGGTTTA
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
120 32 0.35
121 58 0.63
122 2 0.02
ACGTcount: A:0.18, C:0.02, G:0.31, T:0.49
Consensus pattern (120 bp):
TGGAATTGAGGGTTTGGGATTTTGGATTTTAGGGTTTCAATTTTAGGGTTTAAGTTTAGGGTTTC
AATTTTAGGGTTTAAAGGATTTAGGATTTGATTTTAAGGTTTAGTGTTTAGGGAC
Found at i:5979995 original size:11 final size:11
Alignment explanation
Indices: 5979973--5980002 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5979963 TTTGGAGATT
5979973 TTATTA-TTTA
1 TTATTATTTTA
5979983 TTATTATTTTA
1 TTATTATTTTA
5979994 TTATTATTT
1 TTATTATTT
5980003 AATATCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:5980135 original size:13 final size:13
Alignment explanation
Indices: 5980117--5980142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5980107 TAATTAAATT
5980117 TTTTTATATTTTA
1 TTTTTATATTTTA
5980130 TTTTTATATTTTA
1 TTTTTATATTTTA
5980143 ATGAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATATTTTA
Found at i:5981732 original size:27 final size:27
Alignment explanation
Indices: 5981684--5981736 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
5981674 TTAAATAATG
* * * *
5981684 AGATTGGGCTTTAAGCCTAATTGAATC
1 AGATTGGGCCTGAAACCCAATTGAATC
5981711 AGATTGGGCCTGAAACCCAATTGAAT
1 AGATTGGGCCTGAAACCCAATTGAAT
5981737 TAAAATCGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (27 bp):
AGATTGGGCCTGAAACCCAATTGAATC
Found at i:5981785 original size:28 final size:28
Alignment explanation
Indices: 5981718--5981787 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
5981708 ATCAGATTGG
* * * *
5981718 GCCTGAAACCCAATTGAATTAAAATCGG
1 GCCTAAAACCCAGTTGAATCAAAATCGA
* * *
5981746 GCCTAGAGCCCAGTTGAGTCAAAATCGA
1 GCCTAAAACCCAGTTGAATCAAAATCGA
5981774 GCCTAAAACCCAGT
1 GCCTAAAACCCAGT
5981788 CAAATTGAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (28 bp):
GCCTAAAACCCAGTTGAATCAAAATCGA
Found at i:5986347 original size:2 final size:2
Alignment explanation
Indices: 5986340--5986368 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5986330 CTCATCTAAG
5986340 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5986369 TACAAAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5995496 original size:25 final size:24
Alignment explanation
Indices: 5995445--5995496 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
5995435 TGCATGAATC
*
5995445 CAATTAAAAATGATATGTAAATGA
1 CAATTAAAAATGATATGTAAATAA
* *
5995469 CAATTAAAAATGTTAATGTATATAA
1 CAATTAAAAATGAT-ATGTAAATAA
5995494 CAA
1 CAA
5995497 ATTATTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.31
Consensus pattern (24 bp):
CAATTAAAAATGATATGTAAATAA
Found at i:5995758 original size:25 final size:25
Alignment explanation
Indices: 5995709--5995761 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
5995699 TTTGGTCTAA
* *
5995709 GGTTTGAGTTTAGGGTTATAGCTAG
1 GGTTTAAGTTTAGGGTTATAACTAG
5995734 GGTTTAAGTTTAGGGTT-TCAACTAG
1 GGTTTAAGTTTAGGGTTAT-AACTAG
5995759 GGT
1 GGT
5995762 AGGCTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.21, C:0.06, G:0.34, T:0.40
Consensus pattern (25 bp):
GGTTTAAGTTTAGGGTTATAACTAG
Found at i:5995934 original size:43 final size:43
Alignment explanation
Indices: 5995878--5995974 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
5995868 AAGGTTTTAT
* * *
5995878 GGTTT-AAGATTAGGATTTTAGG-TTTTGTGGTTTAGGGACAAA
1 GGTTTCAAGGTTAGGATTTT-GGATTTCGTGGTTTAAGGACAAA
* *
5995920 GGTTTCAAGGTTAGGGTTTTGGATTTCGTGGTTTAAGGACTAA
1 GGTTTCAAGGTTAGGATTTTGGATTTCGTGGTTTAAGGACAAA
* *
5995963 GATTTCTAGGTT
1 GGTTTCAAGGTT
5995975 TTAAGGTTAG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 7 0.15
43 39 0.85
ACGTcount: A:0.23, C:0.05, G:0.31, T:0.41
Consensus pattern (43 bp):
GGTTTCAAGGTTAGGATTTTGGATTTCGTGGTTTAAGGACAAA
Found at i:6002105 original size:16 final size:15
Alignment explanation
Indices: 6002080--6002110 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
6002070 AGGCTTTTTA
6002080 TTTTATTAGGGTTAT
1 TTTTATTAGGGTTAT
6002095 TTTTAATTAGGGTTAT
1 TTTT-ATTAGGGTTAT
6002111 ATTTGGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (15 bp):
TTTTATTAGGGTTAT
Found at i:6004881 original size:1 final size:1
Alignment explanation
Indices: 6004875--6004902 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
6004865 CGAACCCTAG
6004875 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
6004903 CAACTTACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6006516 original size:19 final size:19
Alignment explanation
Indices: 6006463--6006522 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
6006453 AAAACAAATA
*
6006463 AAATATTAATAATAATTTAAT
1 AAATATTAATAAT--TTTATT
6006484 ATAATAATT-A-AATTTTATT
1 A-AAT-ATTAATAATTTTATT
*
6006503 AAATATTAATAATTTAATT
1 AAATATTAATAATTTTATT
6006522 A
1 A
6006523 CTATTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
17 3 0.09
18 4 0.12
19 15 0.45
21 4 0.12
22 4 0.12
23 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATATTAATAATTTTATT
Found at i:6006614 original size:21 final size:21
Alignment explanation
Indices: 6006524--6006747 Score: 158
Period size: 21 Copynumber: 10.9 Consensus size: 21
6006514 ATTTAATTAC
* *
6006524 TATTAATTTCATAAAATTAAA
1 TATTAATTTAATAATATTAAA
**
6006545 TATTAA-TTAATAATATTTTA
1 TATTAATTTAATAATATTAAA
* * * **
6006565 TATTGATATAAAAATATTCTA
1 TATTAATTTAATAATATTAAA
* *
6006586 TATCAATTTAATAATATTTAA
1 TATTAATTTAATAATATTAAA
* * *
6006607 CATTAATTTAATATTGTTAAA
1 TATTAATTTAATAATATTAAA
* *
6006628 T-TCTTATTTAAAAATATTAAA
1 TAT-TAATTTAATAATATTAAA
*
6006649 TATT--TTTGAACAATATTAAA
1 TATTAATTT-AATAATATTAAA
*
6006669 TATTAATTTAATCATATTAAA
1 TATTAATTTAATAATATTAAA
* *
6006690 TATTCAATTTAATAATATCAAT
1 TATT-AATTTAATAATATTAAA
*
6006712 TATTAA-TTATATTATATTAAA
1 TATTAATTTA-ATAATATTAAA
*
6006733 CA-T--TTTAATAATATT
1 TATTAATTTAATAATATT
6006748 TTATACAAAA
Statistics
Matches: 159, Mismatches: 35, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
18 7 0.04
19 6 0.04
20 35 0.22
21 89 0.56
22 22 0.14
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (21 bp):
TATTAATTTAATAATATTAAA
Found at i:6006837 original size:29 final size:29
Alignment explanation
Indices: 6006791--6007011 Score: 75
Period size: 29 Copynumber: 7.7 Consensus size: 29
6006781 TATTATGAAA
*
6006791 TTAAAATT-AATATTATTTAAATAATTTT
1 TTAATATTAAATATTATTTAAATAATTTT
***
6006819 TT-ATATTAAATATTAATTTTTTTAATTTT
1 TTAATATTAAATATT-ATTTAAATAATTTT
* * * *
6006848 TTAATATTTTTAATTTTATTT---TGA-TAT
1 TTAATA--TTAAATATTATTTAAATAATTTT
* * *** *
6006875 TAAATATTAAATTAATATTTTCTTAATATT
1 TTAATATTAAA-TATTATTTAAATAATTTT
* * *
6006905 TTAATACT-AATTTTATTTAAATAATATT
1 TTAATATTAAATATTATTTAAATAATTTT
* * *
6006933 ATAATATTTAATATTATTCT-AATAATCTT
1 TTAATATTAAATATTATT-TAAATAATTTT
** * *
6006962 TT-ATACCAAATATTAATTT-AGTAATATT
1 TTAATATTAAATATT-ATTTAAATAATTTT
* *
6006990 TCAATATTTAATATTAATTTAA
1 TTAATATTAAATATT-ATTTAA
6007012 TATTTAATAT
Statistics
Matches: 142, Mismatches: 36, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
25 4 0.03
26 6 0.04
27 11 0.08
28 47 0.33
29 51 0.36
30 12 0.08
31 4 0.03
32 7 0.05
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (29 bp):
TTAATATTAAATATTATTTAAATAATTTT
Found at i:6006845 original size:9 final size:9
Alignment explanation
Indices: 6006831--6006864 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6006821 ATATTAAATA
6006831 TTAATTTTT
1 TTAATTTTT
6006840 TTAA-TTTT
1 TTAATTTTT
*
6006848 TTAATATTT
1 TTAATTTTT
6006857 TTAATTTT
1 TTAATTTT
6006865 ATTTTGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTAATTTTT
Found at i:6006849 original size:8 final size:8
Alignment explanation
Indices: 6006831--6006864 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
6006821 ATATTAAATA
6006831 TTAATTTTT
1 TTAA-TTTT
6006840 TTAATTTT
1 TTAATTTT
6006848 TTAATATTT
1 TTAAT-TTT
6006857 TTAATTTT
1 TTAATTTT
6006865 ATTTTGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.50
9 12 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTAATTTT
Found at i:6006857 original size:17 final size:17
Alignment explanation
Indices: 6006831--6006864 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6006821 ATATTAAATA
*
6006831 TTAATTTTTTTAATTTT
1 TTAATATTTTTAATTTT
6006848 TTAATATTTTTAATTTT
1 TTAATATTTTTAATTTT
6006865 ATTTTGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTAATATTTTTAATTTT
Found at i:6006944 original size:54 final size:54
Alignment explanation
Indices: 6006886--6007027 Score: 136
Period size: 57 Copynumber: 2.6 Consensus size: 54
6006876 AAATATTAAA
6006886 TTAATATT-TTCTTAATATTTTAATACTAATTTTATTTAAATAATATTAT-AATAT
1 TTAATATTATTCTTAATATTTTAATACTAATTTTATTT-AATAATATT-TCAATAT
* * * *
6006940 TTAATATTATTC-TAATAATCTTTTATACCAAATATTAATTTAGTAATATTTCAATAT
1 TTAATATTATTCTTAAT-AT-TTTAATA-CTAAT-TTTATTTAATAATATTTCAATAT
*
6006997 TTAATATTAAT-TTAATA-TTTAATA-T-ATTTTA
1 TTAATATTATTCTTAATATTTTAATACTAATTTTA
6007028 ATAATCTTTG
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
50 3 0.04
51 2 0.03
54 18 0.25
55 5 0.07
56 8 0.11
57 31 0.42
58 6 0.08
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.54
Consensus pattern (54 bp):
TTAATATTATTCTTAATATTTTAATACTAATTTTATTTAATAATATTTCAATAT
Found at i:6006950 original size:18 final size:19
Alignment explanation
Indices: 6006918--6006956 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6006908 ATACTAATTT
6006918 TATTTAAATAATATTATAA
1 TATTTAAATAATATTATAA
* *
6006937 TATTT-AATATTATTCTAA
1 TATTTAAATAATATTATAA
6006955 TA
1 TA
6006957 ATCTTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTAAATAATATTATAA
Found at i:6007013 original size:18 final size:17
Alignment explanation
Indices: 6006987--6007030 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
6006977 ATTTAGTAAT
6006987 ATTTCAATATTTAATATTA
1 ATTT-AATATTTAATA-TA
6007006 ATTTAATATTTAATATA
1 ATTTAATATTTAATATA
*
6007023 TTTTAATA
1 ATTTAATA
6007031 ATCTTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.38
18 11 0.46
19 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTAATATTTAATATA
Found at i:6007065 original size:75 final size:76
Alignment explanation
Indices: 6006934--6007089 Score: 174
Period size: 75 Copynumber: 2.1 Consensus size: 76
6006924 AATAATATTA
* *
6006934 TAATATTTAATATTATTCTAATAATCTTTTATACCAAATATTAATTTAGTAATATTTCAATA-TT
1 TAATATTTAATATTATTCTAATAATCTTTAATACCAAATATTAATTTAATAATATTTCAATATTT
* *
6006998 TAATATTAATT
66 TAATATAAATC
* ** * * * *
6007009 TAATATTTAATA-TATTTTAATAATCTTTGAATATTACATATT-ATTCTAATAGTATTTTATTAT
1 TAATATTTAATATTATTCTAATAATCTTT-AATACCAAATATTAATT-TAATAATATTTCAATAT
6007072 TTTAATATAAATC
64 TTTAATATAAATC
6007085 TAATA
1 TAATA
6007090 ATATTTTAGT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
74 18 0.27
75 33 0.49
76 16 0.24
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (76 bp):
TAATATTTAATATTATTCTAATAATCTTTAATACCAAATATTAATTTAATAATATTTCAATATTT
TAATATAAATC
Found at i:6007159 original size:18 final size:18
Alignment explanation
Indices: 6007132--6007169 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6007122 AGTTTATTAT
* *
6007132 TATTTTATATTATTTAAA
1 TATTTAATATTAATTAAA
6007150 TATTTAATATTAATTAAA
1 TATTTAATATTAATTAAA
6007168 TA
1 TA
6007170 GTTTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAATATTAATTAAA
Found at i:6007323 original size:22 final size:22
Alignment explanation
Indices: 6007298--6007370 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
6007288 TAGATATAAT
6007298 ATTTAATATTATTTAATTATTA
1 ATTTAATATTATTTAATTATTA
* *
6007320 ATTT-ATCGTAATTTAA-T-TTA
1 ATTTAAT-ATTATTTAATTATTA
*
6007340 A-TTAATATTAATTAATTATCTA
1 ATTTAATATTATTTAATTAT-TA
*
6007362 ATTAAATAT
1 ATTTAATAT
6007371 GTAAGGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
19 8 0.21
20 7 0.18
21 4 0.10
22 14 0.36
23 6 0.15
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (22 bp):
ATTTAATATTATTTAATTATTA
Found at i:6010482 original size:73 final size:71
Alignment explanation
Indices: 6010338--6010479 Score: 187
Period size: 73 Copynumber: 1.9 Consensus size: 71
6010328 TTTAGAAATC
* * *
6010338 AATAAAGACAAAGTTTTAATATAAAAATGTGATCATTATTGAAAATATGAAAAATTTTATTTTTC
1 AATAAAGACAAAGTTTTAAGATAAAAATATGATCATTATTGAAAATATGAAAAATATTATTTTT-
6010403 AAAATTT
65 AAAATTT
* *
6010410 AATAAAGACAATGTTTTAAGATAAAAAATATGATCTTTATTGAAAATATGTTAAATAA-ATTATT
1 AATAAAGACAAAGTTTTAAGAT-AAAAATATGATCATTATTGAAAATATG--AAA-AATATTATT
6010474 TTTAAA
62 TTTAAA
6010480 TTTCAACAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
72 20 0.33
73 25 0.41
74 3 0.05
75 11 0.18
76 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (71 bp):
AATAAAGACAAAGTTTTAAGATAAAAATATGATCATTATTGAAAATATGAAAAATATTATTTTTA
AAATTT
Found at i:6010899 original size:19 final size:19
Alignment explanation
Indices: 6010877--6010915 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6010867 TATTATAATA
6010877 AAATTTTACTATTACATAT
1 AAATTTTACTATTACATAT
*
6010896 AAATTTTATTATTACATAT
1 AAATTTTACTATTACATAT
6010915 A
1 A
6010916 TTTTATGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTTTACTATTACATAT
Found at i:6010920 original size:17 final size:18
Alignment explanation
Indices: 6010866--6010921 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 18
6010856 TGAAAAAAAA
*
6010866 TTATTA-TA-ATAAAATT
1 TTATTATTACATATAATT
*
6010882 TTACTATTACATATAAATT
1 TTATTATTACATAT-AATT
6010901 TTATTATTACATAT-ATT
1 TTATTATTACATATAATT
6010918 TTAT
1 TTAT
6010922 GTGTAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 5 0.15
17 9 0.26
18 3 0.09
19 17 0.50
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTATTACATATAATT
Found at i:6011220 original size:68 final size:67
Alignment explanation
Indices: 6011100--6011235 Score: 209
Period size: 68 Copynumber: 2.0 Consensus size: 67
6011090 TAGATAATCT
* * *
6011100 TACATTCGTCTAACTAAACAAAAAAATATTGCAGTCCTTAACGTCAAGATTACCGAAGAATCAAA
1 TACATTCATCTAACTAAACAAAAAAATATTGCAGTCCTTAACGTCAACATTACCCAAGAATCAAA
6011165 CA
66 CA
* * *
6011167 TACATTCATCTAACTAAACAAAAAATTTGTTGCATTCCTTAACGTCAACATTACCCAAGAATCAA
1 TACATTCATCTAACTAAACAAAAAA-ATATTGCAGTCCTTAACGTCAACATTACCCAAGAATCAA
6011232 ACA
65 ACA
6011235 T
1 T
6011236 TCTCCTTCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 24 0.39
68 38 0.61
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.26
Consensus pattern (67 bp):
TACATTCATCTAACTAAACAAAAAAATATTGCAGTCCTTAACGTCAACATTACCCAAGAATCAAA
CA
Found at i:6015045 original size:131 final size:133
Alignment explanation
Indices: 6014809--6015074 Score: 358
Period size: 131 Copynumber: 2.0 Consensus size: 133
6014799 CTAGAATAGG
* * *
6014809 GATTTTATTATTTAGCCCAAAAGGGTAAGAGTCACAATATGGTTTGTCTTTTGCTTGTTCTGTCT
1 GATTTTATTATTTAGCCCAAAAGGGCAAGAGTCACAATATGATTTGTCTTTTGCTTGTTCTATCT
** * * *
6014874 CTAATAACACAGTTGAGTATAAAGCTTTAGCTCTAGGACTTGAGTTGA-A-CTAACTTGAATGCT
66 CTAATAACACAAATGAGTATAAAACTTTAGCTCTAAGACTTAAGTTGACAGCTAACTTGAATGCT
6014937 AAA
131 AAA
* * ** * * *
6014940 GATTTTATTGTTTAGCCCAAAAGGGCAAGTGTGGCAATATGATTTGTTTTTTGGTTTTTCTATCT
1 GATTTTATTATTTAGCCCAAAAGGGCAAGAGTCACAATATGATTTGTCTTTTGCTTGTTCTATCT
*
6015005 TTAATAACACAAATGAGTATAAAACTTTAGCTAC-AAGACTTAAGTTGACAGCTAACTTGAATGC
66 CTAATAACACAAATGAGTATAAAACTTTAGCT-CTAAGACTTAAGTTGACAGCTAACTTGAATGC
6015069 TAAA
130 TAAA
6015073 GA
1 GA
6015075 CTTAATAGTA
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
131 95 0.82
132 2 0.02
133 19 0.16
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (133 bp):
GATTTTATTATTTAGCCCAAAAGGGCAAGAGTCACAATATGATTTGTCTTTTGCTTGTTCTATCT
CTAATAACACAAATGAGTATAAAACTTTAGCTCTAAGACTTAAGTTGACAGCTAACTTGAATGCT
AAA
Found at i:6017411 original size:12 final size:11
Alignment explanation
Indices: 6017378--6017420 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
6017368 ATAACTTACC
* *
6017378 AAAAATATATT
1 AAAAATAAATA
*
6017389 AAGAATAAATA
1 AAAAATAAATA
6017400 AAAAACTAAATA
1 AAAAA-TAAATA
6017412 AAAAATAAA
1 AAAAATAAA
6017421 ATTACCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:6019978 original size:22 final size:22
Alignment explanation
Indices: 6019953--6020008 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
6019943 TTTGCCTAGT
*
6019953 AGTCTTACAAATTATGCCTGAA
1 AGTCTTACAAATTATGACTGAA
* *
6019975 AGTCTTAGAGATTATGACTGAA
1 AGTCTTACAAATTATGACTGAA
* *
6019997 GGTCTTATAAAT
1 AGTCTTACAAAT
6020009 CTCAACATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (22 bp):
AGTCTTACAAATTATGACTGAA
Found at i:6020290 original size:104 final size:103
Alignment explanation
Indices: 6019967--6020301 Score: 338
Period size: 104 Copynumber: 3.2 Consensus size: 103
6019957 TTACAAATTA
* *
6019967 TGCCTGAAAGTCTTAGAGATTATGACTGAAGGTCTTATAAATCTCAACATCTTTGAATG-TTCTT
1 TGCCTGAAGGTCTTAGAGATTAT-ACTGAAGGTCTTACAAATCTCAACATCTTTGAATGCTT-TT
* * * * *
6020031 TGTATTAGAGGTATTGAAACTTTGAAAATTTAAACTGTTT
64 CGTATCAAAGGCATTGAAACTTTGAAAATTTAAAATGTTT
* * * * * * ***
6020071 TGCCT-AGAGGTCTTACAAATTATGCTCAGAGGTTTTACAAATCTCAATATCTTTGAATGCTCAC
1 TGCCTGA-AGGTCTTAGAGATTATACTGA-AGGTCTTACAAATCTCAACATCTTTGAATGCTTTT
*
6020135 CATATCAGAA-GCATTGAAACTTTGAAAATTTAAAATGTTAT
64 CGTATCA-AAGGCATTGAAACTTTGAAAATTTAAAATGTT-T
** * *
6020176 ACCCCG-AGGTCTTAGAGATTATACTTGAAGGTCTTACCAATCTCAACATCTTTGAATGCTTTTC
1 TGCCTGAAGGTCTTAGAGATTATAC-TGAAGGTCTTACAAATCTCAACATCTTTGAATGCTTTTC
* *
6020240 GTATCAAAGGCATT-AAAATTTTAAAATTTTAAAATGTTT
65 GTATCAAAGGCATTGAAACTTTGAAAA-TTTAAAATGTTT
* *
6020279 TGCTTGAAGGTCTTATAGATTAT
1 TGCCTGAAGGTCTTAGAGATTAT
6020302 TTTTGATGAT
Statistics
Matches: 183, Mismatches: 38, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
103 19 0.10
104 157 0.86
105 7 0.04
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (103 bp):
TGCCTGAAGGTCTTAGAGATTATACTGAAGGTCTTACAAATCTCAACATCTTTGAATGCTTTTCG
TATCAAAGGCATTGAAACTTTGAAAATTTAAAATGTTT
Found at i:6020389 original size:23 final size:23
Alignment explanation
Indices: 6020361--6020406 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
6020351 CTAGGCTTGG
6020361 GTACCAGCTAAACTAGACTTAAA
1 GTACCAGCTAAACTAGACTTAAA
* *
6020384 GTACCAGTTAAACTGGACTTAAA
1 GTACCAGCTAAACTAGACTTAAA
6020407 ATATCAACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (23 bp):
GTACCAGCTAAACTAGACTTAAA
Found at i:6020706 original size:22 final size:22
Alignment explanation
Indices: 6020667--6020709 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6020657 AACGATTTGA
*
6020667 GCTTAAATACCAGTTAATCTAG
1 GCTTAAATACCAGCTAATCTAG
* *
6020689 GCTTAAGTACTAGCTAATCTA
1 GCTTAAATACCAGCTAATCTA
6020710 AGTTTAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (22 bp):
GCTTAAATACCAGCTAATCTAG
Found at i:6020716 original size:22 final size:22
Alignment explanation
Indices: 6020681--6020739 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
6020671 AAATACCAGT
* *
6020681 TAATCTAGGCTTAAGTACTAGC
1 TAATCTAAGTTTAAGTACTAGC
**
6020703 TAATCTAAGTTTAAAGTGTTAGC
1 TAATCTAAGTTT-AAGTACTAGC
* *
6020726 TAAACTGAGTTTAA
1 TAATCTAAGTTTAA
6020740 ATCTTATTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (22 bp):
TAATCTAAGTTTAAGTACTAGC
Found at i:6021261 original size:26 final size:26
Alignment explanation
Indices: 6021232--6021290 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
6021222 CACATTCAAG
6021232 TGATGCAGATGCAAATGTCTTTTTCA
1 TGATGCAGATGCAAATGTCTTTTTCA
6021258 TGATGCAGATGCAAATGTCTTTTTCA
1 TGATGCAGATGCAAATGTCTTTTTCA
*
6021284 TGTTGCA
1 TGATGCA
6021291 TATACAAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.39
Consensus pattern (26 bp):
TGATGCAGATGCAAATGTCTTTTTCA
Found at i:6021335 original size:67 final size:67
Alignment explanation
Indices: 6021176--6021322 Score: 177
Period size: 67 Copynumber: 2.2 Consensus size: 67
6021166 GCATACAACT
* * * * ** * *
6021176 CAAATGTCTTTCTCATAATGCAAATACAAATACCTTTTTCATAATGCACATTCAAGTGATGCAGA
1 CAAATGTCTTTTTCATGATGCAGATGCAAATGTCTTTTTCATAATGCACATACAAGTGATGCAAA
6021241 TG
66 TG
** *
6021243 CAAATGTCTTTTTCATGATGCAGATGCAAATGTCTTTTTCATGTTGCATATACAAGTGATGCAAA
1 CAAATGTCTTTTTCATGATGCAGATGCAAATGTCTTTTTCATAATGCACATACAAGTGATGCAAA
6021308 TG
66 TG
* *
6021310 CGAATGTTTTTTT
1 CAAATGTCTTTTT
6021323 TGTGATGTAG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (67 bp):
CAAATGTCTTTTTCATGATGCAGATGCAAATGTCTTTTTCATAATGCACATACAAGTGATGCAAA
TG
Found at i:6027836 original size:38 final size:39
Alignment explanation
Indices: 6027778--6027858 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 39
6027768 CATGTGCTAT
* * *
6027778 TTATTATGATGCATGGGATAGAATGCATGTATTATCTGA
1 TTATGATGATGCATGAGATAGAATACATGTATTATCTGA
** *
6027817 TTATGATG-TGCATGAGATAGGGTACATGTATTATCTTA
1 TTATGATGATGCATGAGATAGAATACATGTATTATCTGA
6027855 TTAT
1 TTAT
6027859 TTCCATCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 29 0.81
39 7 0.19
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (39 bp):
TTATGATGATGCATGAGATAGAATACATGTATTATCTGA
Found at i:6028115 original size:6 final size:6
Alignment explanation
Indices: 6028104--6028136 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6028094 AAAATTTTTG
*
6028104 TTTGTT TTTGTT TTTGTT TTT-TT TATGTT TTTG
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTG
6028137 GATAATGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (6 bp):
TTTGTT
Found at i:6028132 original size:17 final size:16
Alignment explanation
Indices: 6028098--6028136 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6028088 TGTTTAAAAA
6028098 TTTTTGTTTGTTTTTG
1 TTTTTGTTTGTTTTTG
*
6028114 TTTTTGTTTTTTTTATG
1 TTTTTGTTTGTTTT-TG
6028131 TTTTTG
1 TTTTTG
6028137 GATAATGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (16 bp):
TTTTTGTTTGTTTTTG
Found at i:6030257 original size:26 final size:25
Alignment explanation
Indices: 6030210--6030272 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
6030200 TCAATGGTTC
*
6030210 AGACCAGTTCAAAAATGATTTACTT
1 AGACCAGTTCAAAAATGATTTACGT
*
6030235 AGACCAGTTCAGAAAAT-AGTTTAGGT
1 AGACCAGTTCA-AAAATGA-TTTACGT
*
6030261 AGACCGGTTCAA
1 AGACCAGTTCAA
6030273 GGTTATGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 13 0.39
26 20 0.61
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (25 bp):
AGACCAGTTCAAAAATGATTTACGT
Found at i:6030809 original size:15 final size:16
Alignment explanation
Indices: 6030781--6030819 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6030771 TGTGATATAT
6030781 TTTTTATTTATTTTA-
1 TTTTTATTTATTTTAC
* *
6030796 TTTTTGTTTTTTTTAC
1 TTTTTATTTATTTTAC
6030812 TTTTTATT
1 TTTTTATT
6030820 GTGGGGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTATTTATTTTAC
Found at i:6035283 original size:48 final size:48
Alignment explanation
Indices: 6035157--6035311 Score: 195
Period size: 48 Copynumber: 3.2 Consensus size: 48
6035147 TGCATTTATC
* * **
6035157 CATTCATGCATCATAAAATAGTCATGTTAAACTAAGCAGTC-ATTCAT
1 CATTCATGCATCATAAAATAGTCATGTTAACCTAGGCAGTCAATTGTT
* *
6035204 CTATTTATGCATCATATAATAGTCATGTTAACCTAGGCAGTCAATTGTT
1 C-ATTCATGCATCATAAAATAGTCATGTTAACCTAGGCAGTCAATTGTT
** * * *
6035253 CATTCATGCATCATAAAATAAACATGTTAACCTAGGTAGTCACTTGTC
1 CATTCATGCATCATAAAATAGTCATGTTAACCTAGGCAGTCAATTGTT
6035301 CATTCATGCAT
1 CATTCATGCAT
6035312 AATTATGGGA
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
47 1 0.01
48 87 0.94
49 5 0.05
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (48 bp):
CATTCATGCATCATAAAATAGTCATGTTAACCTAGGCAGTCAATTGTT
Found at i:6038231 original size:10 final size:10
Alignment explanation
Indices: 6038216--6038257 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
6038206 TGGAACCGTG
6038216 AAAGAAAAAA
1 AAAGAAAAAA
6038226 AAAGAAAAAA
1 AAAGAAAAAA
* *
6038236 AATG-AAAGA
1 AAAGAAAAAA
6038245 AAAGAAAAAA
1 AAAGAAAAAA
6038255 AAA
1 AAA
6038258 AGATGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:6038266 original size:24 final size:24
Alignment explanation
Indices: 6038214--6038258 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6038204 AGTGGAACCG
6038214 TGAAAGAAAAAAAAAGAAAAAAAA
1 TGAAAGAAAAAAAAAGAAAAAAAA
*
6038238 TGAAAGAAAAGAAAA-AAAAAA
1 TGAAAGAAAAAAAAAGAAAAAA
6038259 GATGGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (24 bp):
TGAAAGAAAAAAAAAGAAAAAAAA
Found at i:6038269 original size:20 final size:20
Alignment explanation
Indices: 6038216--6038260 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
6038206 TGGAACCGTG
6038216 AAAGAAA-AAAA-AAGAAAAA
1 AAAGAAAGAAAAGAA-AAAAA
6038235 AAATGAAAGAAAAGAAAAAAA
1 AAA-GAAAGAAAAGAAAAAAA
6038256 AAAGA
1 AAAGA
6038261 TGGAAAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.13
20 6 0.26
21 12 0.52
22 2 0.09
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAAAAGAAAAAAA
Found at i:6039799 original size:22 final size:21
Alignment explanation
Indices: 6039772--6039822 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
6039762 CCTCTAGACT
*
6039772 TAATTTTCAATACCTACGAGCA
1 TAATTTT-AAGACCTACGAGCA
* *
6039794 TGATTTGTAAGACCTTCGAGCA
1 TAATTT-TAAGACCTACGAGCA
6039816 TAATTTT
1 TAATTTT
6039823 GACCTTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (21 bp):
TAATTTTAAGACCTACGAGCA
Found at i:6040199 original size:149 final size:148
Alignment explanation
Indices: 6039858--6040199 Score: 389
Period size: 149 Copynumber: 2.3 Consensus size: 148
6039848 TTCTGAGCAT
* * * * * * *
6039858 GATTTGTAAGACCTTTAGGTACAGTCTCTAAGTCTTCCAGGAAAAATGTTTAAATTTTTAAAGTT
1 GATTTGTAAGACC-TTAAGCATAGTCTCTAAGTCTTTCAGGCAAAATGTTTAAAATTTTAAAGCT
* * * *
6039923 GTTGAGATTGTGTTTAAAGGAGCATTTCAATATGAGAATTTTAAAATGGTGAAGTCTCTATTTAG
65 GTTGAGATTGTGTTTAAAGGAGCATTTCAAGATAAGAATTTTAAAATGGTAAAGCCTCTATTTAG
** * **
6039988 GTAAGCGTTTTCATCTTGA
130 AAAAGCATTTAAATCTTGA
* * * * *
6040007 GATTTCTAAGACCTTTAGACATAATCTTTAAGTTCTAT-AGGCAAAATGTTTAAAATTTTAAAGC
1 GATTTGTAAGACCTTAAG-CATAGTCTCTAAG-TCTTTCAGGCAAAATGTTTAAAATTTTAAAGC
* * * *
6040071 TGTTGAGCTTTTGTTTAAATGAGCATTTCAAGATAAGAATTTTAAAATGGTAAAGCCTCTGTTTA
64 TGTTGAGATTGTGTTTAAAGGAGCATTTCAAGATAAGAATTTTAAAATGGTAAAGCCTCTATTTA
* *
6040136 GAAAAGTATTTAAATGTTGA
129 GAAAAGCATTTAAATCTTGA
*
6040156 GATTTGTAAGACCTTCAAGCATAGTCTCTAAGTCTTTCGGGCAA
1 GATTTGTAAGACCTT-AAGCATAGTCTCTAAGTCTTTCAGGCAA
6040200 GATTTGTAAG
Statistics
Matches: 156, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
148 7 0.04
149 144 0.92
150 5 0.03
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (148 bp):
GATTTGTAAGACCTTAAGCATAGTCTCTAAGTCTTTCAGGCAAAATGTTTAAAATTTTAAAGCTG
TTGAGATTGTGTTTAAAGGAGCATTTCAAGATAAGAATTTTAAAATGGTAAAGCCTCTATTTAGA
AAAGCATTTAAATCTTGA
Found at i:6043226 original size:13 final size:13
Alignment explanation
Indices: 6043204--6043238 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 13
6043194 AACTTTTTCT
6043204 TTTTTGTTTTTGACA
1 TTTTT-TTTTTG-CA
6043219 TTTTTTTTTTGCA
1 TTTTTTTTTTGCA
6043232 TTTTTTT
1 TTTTTTT
6043239 AGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 6 0.30
15 5 0.25
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTGCA
Found at i:6049406 original size:28 final size:29
Alignment explanation
Indices: 6049356--6049411 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
6049346 TGTAACCCTG
*
6049356 AAAAACCTAGAAAATTCCCAAAA-CCCAA
1 AAAAACCTAGAAAATACCCAAAAGCCCAA
*
6049384 AAAAACCTTGAAAA-ACCCTAAAAGCCCA
1 AAAAACCTAGAAAATACCC-AAAAGCCCA
6049412 TTACAGTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 17 0.71
29 4 0.17
ACGTcount: A:0.55, C:0.29, G:0.05, T:0.11
Consensus pattern (29 bp):
AAAAACCTAGAAAATACCCAAAAGCCCAA
Found at i:6052256 original size:22 final size:21
Alignment explanation
Indices: 6052225--6052298 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 21
6052215 AAGTTAGATA
6052225 TATAATTTAAATATATATCTTT
1 TATAATTTAAATATATAT-TTT
**
6052247 TATCTTTTAAA-AT-TATTTTT
1 TATAATTTAAATATATA-TTTT
*
6052267 TAATAATTTAGATATATATTTT
1 T-ATAATTTAAATATATATTTT
6052289 TA-AATTTAAA
1 TATAATTTAAA
6052299 AATGTCAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
20 13 0.31
21 11 0.26
22 16 0.38
23 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (21 bp):
TATAATTTAAATATATATTTT
Found at i:6053220 original size:102 final size:101
Alignment explanation
Indices: 6053111--6053311 Score: 350
Period size: 102 Copynumber: 2.0 Consensus size: 101
6053101 GTATTTACCA
6053111 AATAAATAAAAATATTTAAAAATTAT-TAGTTATCCAAAATTAATTTTCTAATAATTTATATATA
1 AATAAATAAAAATATTTAAAAATTATAT-GTTATCCAAAATTAATTTTCTAATAATTTATATATA
* *
6053175 ATTCAAATATACATCTTTTTATTTTTTAAAATTAATCC
65 ATTCAAATATACATC-TTTTATCTTATAAAATTAATCC
6053213 AATAAATAAAAATATTTAAAAATTATATGTTATCCAAAATTAATTTTCTAATAATTTATATATAA
1 AATAAATAAAAATATTTAAAAATTATATGTTATCCAAAATTAATTTTCTAATAATTTATATATAA
*
6053278 TTTAAATATACATCTTTTATCTTATAAAATTAAT
66 TTCAAATATACATCTTTTATCTTATAAAATTAAT
6053312 TTACTAATAA
Statistics
Matches: 95, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
101 18 0.19
102 76 0.80
103 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (101 bp):
AATAAATAAAAATATTTAAAAATTATATGTTATCCAAAATTAATTTTCTAATAATTTATATATAA
TTCAAATATACATCTTTTATCTTATAAAATTAATCC
Found at i:6053254 original size:227 final size:230
Alignment explanation
Indices: 6052989--6053442 Score: 591
Period size: 228 Copynumber: 2.0 Consensus size: 230
6052979 ATTTATCAAT
* *
6052989 TAAATAAAATATTTAAAAATGATTAGTTATTCAAAATTAATTTTTTAATAATTTATATATATAAT
1 TAAATAAAATATTTAAAAATGATTAGTTATCCAAAATTAATTTTCTAATAA-TT-TATATATAAT
* *
6053054 CTAATAAATA-AT-TTTTTTC-CAT-AAACTAATTTTCTAATAATTTTATGGTATTTACCAAATA
64 CTAA-AAATACATCTTTTATCTCATAAAACTAATTTACTAATAATTTTATGGTATTTACCAAATA
* * *
6053115 AATAAAAATATTTAAAAATTATTAGTTATCCAAAATTAATTTTCTAATAA-TT-TA-TATATAAT
128 AATAAAAATATTTAAAAACTATTAGTTATACAAAATTAATTTTCTAATAACTTAGACTATATAAT
*
6053177 TCAAATATACATCTTTTTATTTTTTAAAATTAATCCAA
193 TCAAATATACATCTTTTTATCTTTTAAAATTAATCCAA
*
6053215 TAAATAAAAATATTTAAAAATTA-TATGTTATCCAAAATTAATTTTCTAATAATTTATATATAAT
1 TAAAT-AAAATATTTAAAAATGATTA-GTTATCCAAAATTAATTTTCTAATAATTTATATATAAT
* * * * * *
6053279 TTAAATATACATCTTTTATCTTATAAAATTAATTTACTAATAATTTTATTGTATTTATCAAATAA
64 CTAAAAATACATCTTTTATCTCATAAAACTAATTTACTAATAATTTTATGGTATTTACCAAATAA
** * *
6053344 ATAAATGTATTTACAAACTATTAGTTATATAAAATTAATTTTCTAATAACTTAGACTTATATAAT
129 ATAAAAATATTTAAAAACTATTAGTTATACAAAATTAATTTTCTAATAACTTAGAC-TATATAAT
* * * *
6053409 TTAAATATATATTTTTTTGTCTTTTAAAATTAAT
193 TCAAATATACATCTTTTTATCTTTTAAAATTAAT
6053443 TTTTTTAATA
Statistics
Matches: 195, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
224 4 0.02
225 15 0.08
226 15 0.08
227 42 0.22
228 79 0.41
229 2 0.01
230 1 0.01
232 37 0.19
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (230 bp):
TAAATAAAATATTTAAAAATGATTAGTTATCCAAAATTAATTTTCTAATAATTTATATATAATCT
AAAAATACATCTTTTATCTCATAAAACTAATTTACTAATAATTTTATGGTATTTACCAAATAAAT
AAAAATATTTAAAAACTATTAGTTATACAAAATTAATTTTCTAATAACTTAGACTATATAATTCA
AATATACATCTTTTTATCTTTTAAAATTAATCCAA
Found at i:6053344 original size:126 final size:130
Alignment explanation
Indices: 6053213--6053444 Score: 312
Period size: 126 Copynumber: 1.8 Consensus size: 130
6053203 AAATTAATCC
* * *
6053213 AATAAATAAAAATATTTAAAAATTA-TATGTTATCCAAAATTAATTTTCTAATAA-TT-TA-TAT
1 AATAAATAAAAATATTTAAAAACTATTA-GTTATACAAAATTAATTTTCTAATAACTTAGACTAT
6053274 ATAATTTAAATATACA-TCTTTTATCTTATAAAATTAATTTACTAATAATTTTATTGTATTTATC
65 ATAATTTAAATATACATTCTTTTATCTTATAAAATTAATTTACTAATAATTTTATTGTATTTATC
6053338 A
130 A
** * *
6053339 AATAAATAAATGTATTTACAAACTATTAGTTATATAAAATTAATTTTCTAATAACTTAGACTTAT
1 AATAAATAAAAATATTTAAAAACTATTAGTTATACAAAATTAATTTTCTAATAACTTAGAC-TAT
* * * *
6053404 ATAATTTAAATATATATTTTTTTGTCTTTTAAAATTAATTT
65 ATAATTTAAATATACATTCTTTTATCTTATAAAATTAATTT
6053445 TTTTAATAGT
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
126 45 0.51
127 4 0.04
128 1 0.01
130 18 0.20
131 21 0.24
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (130 bp):
AATAAATAAAAATATTTAAAAACTATTAGTTATACAAAATTAATTTTCTAATAACTTAGACTATA
TAATTTAAATATACATTCTTTTATCTTATAAAATTAATTTACTAATAATTTTATTGTATTTATCA
Found at i:6060363 original size:221 final size:220
Alignment explanation
Indices: 6059933--6060364 Score: 482
Period size: 221 Copynumber: 2.0 Consensus size: 220
6059923 TATGTGGCGA
* * * * *
6059933 TATATAGAAGGTATTTTATATTAGAAGACGTCTTTAATAATTCTTAAATTTTTTTAAGGGAAAAT
1 TATATAGAAGGCATTTTATATTAGAAGACGCCTTTAATAATTCTCAAATATTTTTAAGGAAAAAT
* *
6059998 ATTACAGGCGTCTATTATTAACAAACACCTTCAGTAATGGAATAGTAAGTGTAAAGGTATATTGA
66 ATGACAGGCGTCTATTATTAACAAACACCTTCAGTAATGGAATAGTAAGTGTAAAGGTATACTGA
* * * *
6060063 AGGCACTTTTTCAAATAAACGCCTTCTATAACCATCGTCGTATATTGAAGGCATTTAATAATAAA
131 AGGCACATTTTCAAATAAACGCCTTCTATAAACATCATCGTATATTGAAGGAATTTAATAATAAA
*
6060128 TGATGCCTTTAATAATCTCATCATGG
196 TGAT-CCATTAATAATCTCATCATGG
* * *
6060154 TATATTGAAGGCATTTTATTTTAGAAGATGCCTTTAATAATGTC-CAAA-ATTTTTAGAGGAAAA
1 TATATAGAAGGCATTTTATATTAGAAGACGCCTTTAATAAT-TCTCAAATATTTTTA-AGGAAAA
* * * * * * *
6060217 ATAGTGA-AGGCGTTTGTTATTAACAAATACCTTCCGTAATGG-ATTGCTAAGTTTAAGGGTATA
64 ATA-TGACAGGCGTCTATTATTAACAAACACCTTCAGTAATGGAATAG-TAAGTGTAAAGGTATA
* * * * * *
6060280 CTGAAGGCGCATTTTCGAATAAATGCTTTCTATAAACATCATGGTATA-TGAAAGGTAATTTACT
127 CTGAAGGCACATTTTCAAATAAACGCCTTCTATAAACATCATCGTATATTG-AAGG-AATTTAAT
6060344 ATATAAGAT-AT-CATTAATAAT
190 A-ATAA-ATGATCCATTAATAAT
6060365 TGATAACAGG
Statistics
Matches: 175, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
220 11 0.06
221 145 0.83
222 11 0.06
223 6 0.03
224 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (220 bp):
TATATAGAAGGCATTTTATATTAGAAGACGCCTTTAATAATTCTCAAATATTTTTAAGGAAAAAT
ATGACAGGCGTCTATTATTAACAAACACCTTCAGTAATGGAATAGTAAGTGTAAAGGTATACTGA
AGGCACATTTTCAAATAAACGCCTTCTATAAACATCATCGTATATTGAAGGAATTTAATAATAAA
TGATCCATTAATAATCTCATCATGG
Found at i:6066178 original size:25 final size:25
Alignment explanation
Indices: 6066150--6066199 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
6066140 CACATGCCAC
*
6066150 CTTTCTTAACATATAATCTATTTAT
1 CTTTCTTAACATACAATCTATTTAT
*
6066175 CTTTCTTAACCTACAATCTATTTAT
1 CTTTCTTAACATACAATCTATTTAT
6066200 TGATTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (25 bp):
CTTTCTTAACATACAATCTATTTAT
Found at i:6067869 original size:11 final size:11
Alignment explanation
Indices: 6067853--6067894 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
6067843 TATTTACTTA
6067853 TTTTTTTC-TT
1 TTTTTTTCTTT
6067863 TTTTTTTCTTT
1 TTTTTTTCTTT
**
6067874 TTCGTTTCTTT
1 TTTTTTTCTTT
6067885 TTCTTTTTCT
1 TT-TTTTTCT
6067895 AGCAACGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 13 0.50
12 5 0.19
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:6067874 original size:6 final size:6
Alignment explanation
Indices: 6067855--6067894 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
6067845 TTTACTTATT
*
6067855 TTTTTC -TTTT- TTTTTC TTTTTC -GTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T
6067895 AGCAACGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
5 12 0.41
6 17 0.59
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:6067885 original size:17 final size:16
Alignment explanation
Indices: 6067855--6067894 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
6067845 TTTACTTATT
*
6067855 TTTTTCTTTTTTTTTC
1 TTTTTCTTTCTTTTTC
6067871 TTTTTCGTTTCTTTTTC
1 TTTTTC-TTTCTTTTTC
6067888 TTTTTCT
1 TTTTTCT
6067895 AGCAACGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTCTTTTTC
Found at i:6069138 original size:22 final size:22
Alignment explanation
Indices: 6069087--6069130 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6069077 GAGTATTTAT
*
6069087 AAAAAGTTTTCAATATAATAAA
1 AAAAAATTTTCAATATAATAAA
*
6069109 AAAAAATTTTCTAT-TAATAAA
1 AAAAAATTTTCAATATAATAAA
6069130 A
1 A
6069131 TTAAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAAAATTTTCAATATAATAAA
Found at i:6071656 original size:63 final size:63
Alignment explanation
Indices: 6071545--6071669 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
6071535 TCTATTTTTT
* *
6071545 CAATTTTAGTTTCACTCTTTGCTAAACACAATCCCAACATCATGGGAGATTGTATTGCAGGTC
1 CAATTTTAGTTTCACTCTTTGATAAACACAATCCCAACATCATAGGAGATTGTATTGCAGGTC
* * ** * *
6071608 CAATTTTAGTTTCACTCTTT-ATAGAATACAATTCTTACGTCATAGGAGATTGTATTGTAGGT
1 CAATTTTAGTTTCACTCTTTGATA-AACACAATCCCAACATCATAGGAGATTGTATTGCAGGT
6071670 TTCTTTTCTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 2 0.04
63 51 0.96
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (63 bp):
CAATTTTAGTTTCACTCTTTGATAAACACAATCCCAACATCATAGGAGATTGTATTGCAGGTC
Found at i:6072759 original size:148 final size:148
Alignment explanation
Indices: 6072491--6072942 Score: 886
Period size: 148 Copynumber: 3.1 Consensus size: 148
6072481 AGGACAGTAC
6072491 CTTCTATTCTGTCTGACGGGAATAGCTATCATCCATAAAGAGAAAGATGCCTTACCTGCAGATGC
1 CTTCTATTCTGTCTGACGGGAATAGCTATCATCCATAAAGAGAAAGATGCCTTACCTGCAGATGC
*
6072556 ACCTAATTCACTTACAAATGCTACCTTTCTAACAGATTTGTTTGATGAGGAATCACCAACTAAGA
66 ACCTAATTCACTTACAAATACTACCTTTCTAACAGATTTGTTTGATGAGGAATCACCAACTAAGA
6072621 AACCGAGAAGAAAGTATG
131 AACCGAGAAGAAAGTATG
6072639 CTTCTATTCTGTCTGACGGGAATAGCTATCATCCATAAAGAGAAAGATGCCTTACCTGCAGATGC
1 CTTCTATTCTGTCTGACGGGAATAGCTATCATCCATAAAGAGAAAGATGCCTTACCTGCAGATGC
6072704 ACCTAATTCACTTACAAATACTACCTTTCTAACAGATTTGTTTGATGAGGAATCACCAACTAAGA
66 ACCTAATTCACTTACAAATACTACCTTTCTAACAGATTTGTTTGATGAGGAATCACCAACTAAGA
6072769 AACCGAGAAGAAAGTATG
131 AACCGAGAAGAAAGTATG
6072787 CTTCTATTCTGTCTGACGGGAATAGCTATCATCCATAAAGAGAAAGATGCCTTACCTGCAGATGC
1 CTTCTATTCTGTCTGACGGGAATAGCTATCATCCATAAAGAGAAAGATGCCTTACCTGCAGATGC
6072852 ACCTAATTCACTTACAAATACTACCTTTCTAACAGATTTGTTTGATGAGGAATCACCAACTAAGA
66 ACCTAATTCACTTACAAATACTACCTTTCTAACAGATTTGTTTGATGAGGAATCACCAACTAAGA
6072917 AACCGAGAAGAAAGTATG
131 AACCGAGAAGAAAGTATG
*
6072935 CTACTATT
1 CTTCTATT
6072943 AGAACATTTT
Statistics
Matches: 302, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 302 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (148 bp):
CTTCTATTCTGTCTGACGGGAATAGCTATCATCCATAAAGAGAAAGATGCCTTACCTGCAGATGC
ACCTAATTCACTTACAAATACTACCTTTCTAACAGATTTGTTTGATGAGGAATCACCAACTAAGA
AACCGAGAAGAAAGTATG
Found at i:6087441 original size:16 final size:16
Alignment explanation
Indices: 6087422--6087459 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6087412 ATTAAAGATT
6087422 TTTATTTTTAA-GTTAA
1 TTTATTTTTAATGTT-A
*
6087438 TTTATATTTAATGTTA
1 TTTATTTTTAATGTTA
6087454 TTTATT
1 TTTATT
6087460 AAATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTATTTTTAATGTTA
Found at i:6093804 original size:19 final size:19
Alignment explanation
Indices: 6093754--6093791 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6093744 AAGAAGGTTT
6093754 TCTTACTTTGACTTGAAAA
1 TCTTACTTTGACTTGAAAA
6093773 TCTTACTTTGACTT-AAAA
1 TCTTACTTTGACTTGAAAA
6093791 T
1 T
6093792 TTTTACCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.45
Consensus pattern (19 bp):
TCTTACTTTGACTTGAAAA
Found at i:6096156 original size:16 final size:16
Alignment explanation
Indices: 6096137--6096183 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
6096127 GATTTTAAAG
6096137 TTTTAGGGTTTT-AGAA
1 TTTTAGGGTTTTAAG-A
6096153 TTTTA-GGTTTTAAGA
1 TTTTAGGGTTTTAAGA
*
6096168 TTTTAGGGTTTCAAGA
1 TTTTAGGGTTTTAAGA
6096184 AAAAATGGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (16 bp):
TTTTAGGGTTTTAAGA
Found at i:6096161 original size:15 final size:14
Alignment explanation
Indices: 6096124--6096174 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
6096114 AAGGTTTTGG
*
6096124 TTAGATTTTAAAGTT
1 TTAGGTTTTAAA-TT
6096139 TTAGGGTTTTAGAATT
1 TTA-GGTTTTA-AATT
6096155 TTAGGTTTTAAGATT
1 TTAGGTTTTAA-ATT
6096170 TTAGG
1 TTAGG
6096175 GTTTCAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.03
15 18 0.56
16 11 0.34
17 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TTAGGTTTTAAATT
Found at i:6097055 original size:50 final size:49
Alignment explanation
Indices: 6096932--6097102 Score: 180
Period size: 50 Copynumber: 3.6 Consensus size: 49
6096922 ATAATGTCAA
* * * * *
6096932 GAGCCATTTTCATACAAGA-TTTTAAAGTTTCAAAGCCTATGTTGAGAAC
1 GAGCCATTTTCAAACAAGATTTTTAAAGTTTCAAAG-CTTTATTGAGGAT
* *
6096981 AAGCCATTTTCAAACAAGACTTTTAAAGTTTCAAAGCTTTTATTGAGGAT
1 GAGCCATTTTCAAACAAGATTTTTAAAGTTTCAAAGC-TTTATTGAGGAT
* *
6097031 GAGCCATTTTCAGACAAGATTTTT-AAG---C----CTTTATTCAGGAT
1 GAGCCATTTTCAAACAAGATTTTTAAAGTTTCAAAGCTTTATTGAGGAT
6097072 GAGCCATTTTCAAACAAGATTTTTAAAGTTT
1 GAGCCATTTTCAAACAAGATTTTTAAAGTTT
6097103 TAAAACCTTT
Statistics
Matches: 105, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
41 34 0.32
42 4 0.04
46 1 0.01
49 21 0.20
50 45 0.43
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (49 bp):
GAGCCATTTTCAAACAAGATTTTTAAAGTTTCAAAGCTTTATTGAGGAT
Found at i:6097076 original size:41 final size:41
Alignment explanation
Indices: 6097014--6097097 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
6097004 TAAAGTTTCA
* * *
6097014 AAGCTTTTATTGAGGATGAGCCATTTTCAGACAAGATTTTT
1 AAGCCTTTATTCAGGATGAGCCATTTTCAAACAAGATTTTT
6097055 AAGCCTTTATTCAGGATGAGCCATTTTCAAACAAGATTTTT
1 AAGCCTTTATTCAGGATGAGCCATTTTCAAACAAGATTTTT
6097096 AA
1 AA
6097098 AGTTTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (41 bp):
AAGCCTTTATTCAGGATGAGCCATTTTCAAACAAGATTTTT
Found at i:6098779 original size:110 final size:114
Alignment explanation
Indices: 6098587--6098796 Score: 275
Period size: 110 Copynumber: 1.9 Consensus size: 114
6098577 GATCGGAAGT
* * * * *
6098587 TTTTTTAAAAAAAATAAAAACCAAAACTCCCAAGAAAGCCTTTTCTTTTAAACTAGTTTCATCAC
1 TTTTTCAAAAAAAATAAAAACAAAAACTCCCAAGAAAG-C-TTTCTTTAAAACCAGTTGCATCAC
*
6098652 TTTTTGTTGCATGGAAGCCTGAGGTGTCCCATGAATCGAACGGAAGTTCCC
64 TTTCTGTTGCATGGAAGCCTGAGGTGTCCCATGAATCGAACGGAAGTTCCC
* *
6098703 TTTTTCAAAAAAAA-AAAAA-AAAAACTCCCATGAAAG-TTT-TTTAAAACCAGTTGCGTCACTT
1 TTTTTCAAAAAAAATAAAAACAAAAACTCCCAAGAAAGCTTTCTTTAAAACCAGTTGCATCACTT
* * *
6098764 TCTGTTGCATGGAAGCTTGAGGTTTCCTATGAA
66 TCTGTTGCATGGAAGCCTGAGGTGTCCCATGAA
6098797 CATGTTTGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
110 47 0.57
111 3 0.04
114 15 0.18
115 5 0.06
116 13 0.16
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (114 bp):
TTTTTCAAAAAAAATAAAAACAAAAACTCCCAAGAAAGCTTTCTTTAAAACCAGTTGCATCACTT
TCTGTTGCATGGAAGCCTGAGGTGTCCCATGAATCGAACGGAAGTTCCC
Found at i:6100018 original size:3 final size:3
Alignment explanation
Indices: 6100010--6100038 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6100000 TTAGGTGTTT
6100010 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6100039 TCTTTTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6100498 original size:21 final size:21
Alignment explanation
Indices: 6100458--6100499 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6100448 GGACGAGCTA
*
6100458 GGAATTTTTTTAAATTTTTTT
1 GGAATTTTTTTAAATGTTTTT
* *
6100479 GGAATTTTTTTGAGTGTTTTT
1 GGAATTTTTTTAAATGTTTTT
6100500 TTTTTGGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (21 bp):
GGAATTTTTTTAAATGTTTTT
Found at i:6100891 original size:20 final size:20
Alignment explanation
Indices: 6100868--6100906 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6100858 TTCCATTTTC
6100868 TTTTTATTT-TCTTATTTTAA
1 TTTTTATTTAT-TTATTTTAA
6100888 TTTTTATTTATTTATTTTA
1 TTTTTATTTATTTATTTTA
6100907 CCCATGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTATTTATTTATTTTAA
Found at i:6110593 original size:95 final size:94
Alignment explanation
Indices: 6110431--6110604 Score: 276
Period size: 95 Copynumber: 1.8 Consensus size: 94
6110421 TTCTAAAAAG
* * * *
6110431 AATTATATCAGATAATGCCAAGAACCTGAATAGAAGATGATGCAAAAAGTATGTGCTTAGTTCAA
1 AATTATATCAAATAATGCCAAAAACCTAAATAGAAGATGATGCAAAAAGTATGTGCTCAGTTCAA
*
6110496 AATCAAACATCATATGGGCTTTTAGAAAT
66 AATCAAACACCATATGGGCTTTTAGAAAT
* *
6110525 AATTATATCAAATAATGCCAAAAACTTAAATAGCAAGATGATGCAAGAAGTATGTGCTCAGTTCA
1 AATTATATCAAATAATGCCAAAAACCTAAATAG-AAGATGATGCAAAAAGTATGTGCTCAGTTCA
6110590 AAATCAAACACCATA
65 AAATCAAACACCATA
6110605 ATTCAGCCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 29 0.40
95 43 0.60
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (94 bp):
AATTATATCAAATAATGCCAAAAACCTAAATAGAAGATGATGCAAAAAGTATGTGCTCAGTTCAA
AATCAAACACCATATGGGCTTTTAGAAAT
Found at i:6112277 original size:116 final size:116
Alignment explanation
Indices: 6112066--6112292 Score: 276
Period size: 116 Copynumber: 2.0 Consensus size: 116
6112056 TCATTTTTGA
* * * *
6112066 TGATTCATGGTTTCATCCTTATCATTTATTTCGACCTTGACTCGATCTTGGTCTCTTTATTTTAA
1 TGATTCATGATTTCATCCTGATCATTTATTTCGACCTTGACTCGATCCTGGTCGCTTTATTTTAA
* * * ** *
6112131 CTTGTGGTTTTACTCCGGTCGTTTGATCTTGGCTCAGTCCAGATCACTTCT
66 CTTATGGTGTCACTCCGGTCACTGGATCTTGGCTCAGTCCAGATCACTTCT
* * * * * *
6112182 TGATTTATGATTTCATCCTGATCATTTATTTTGACTTTGACTTGGTCCTGGTCGCTTTATTTTGA
1 TGATTCATGATTTCATCCTGATCATTTATTTCGACCTTGACTCGATCCTGGTCGCTTTATTTTAA
* *
6112247 TTTATGGTGTCAC-CCTGGTCACTGGGTCTTGGCTCAGTCCAGATCA
66 CTTATGGTGTCACTCC-GGTCACTGGATCTTGGCTCAGTCCAGATCA
6112293 TTTATGATAA
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
115 2 0.02
116 90 0.98
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (116 bp):
TGATTCATGATTTCATCCTGATCATTTATTTCGACCTTGACTCGATCCTGGTCGCTTTATTTTAA
CTTATGGTGTCACTCCGGTCACTGGATCTTGGCTCAGTCCAGATCACTTCT
Found at i:6112674 original size:114 final size:113
Alignment explanation
Indices: 6112364--6112676 Score: 353
Period size: 114 Copynumber: 2.8 Consensus size: 113
6112354 GTTTTATTTC
* *
6112364 ATTTGACTCGTGGTTTTATCCCGATCGCTTGATTTTGGCTCAGTCTAGATTATTTCTTATGATTC
1 ATTTGACTCGTGGTTTTATCCCGGTCGCTTGATCTTGGCTCAGTCTAGATTATTTCTTATGATTC
* * * * *
6112429 GTGGTTTCGATAATT-T-ATTTTTGACATTGACTCGATCTTGGTCACCTT
66 GTGGTTTC-AT-CTTATCATTTTCGACATTAACTCGATCCTAGTCACCTT
* * * * * *
6112477 ATTTAACTCGTGGTTTTATCTCAGTCTCTTGATCTTGGCTCAGTCTATATCATTTCTTATGATTC
1 ATTTGACTCGTGGTTTTATCCCGGTCGCTTGATCTTGGCTCAGTCTAGATTATTTCTTATGATTC
* * * * * *
6112542 ATGCTTTCGTCCTAATCATTTTCGACCTTAACTCGATCCTAGTCGCCTT
66 GTGGTTTCAT-CTTATCATTTTCGACATTAACTCGATCCTAGTCACCTT
* * * *
6112591 ATTTGATTTGTGG-TTTAGTCCCGGTCGCTTGATCTTGGCTCAGTCCAGATTATTTTTTATGATT
1 ATTTGACTCGTGGTTTTA-TCCCGGTCGCTTGATCTTGGCTCAGTCTAGATTATTTCTTATGATT
6112655 CGTGGTTTCATCTTGATCATTT
65 CGTGGTTTCATCTT-ATCATTT
6112677 ATTTTAACCT
Statistics
Matches: 162, Mismatches: 34, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
112 2 0.01
113 70 0.43
114 90 0.56
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (113 bp):
ATTTGACTCGTGGTTTTATCCCGGTCGCTTGATCTTGGCTCAGTCTAGATTATTTCTTATGATTC
GTGGTTTCATCTTATCATTTTCGACATTAACTCGATCCTAGTCACCTT
Found at i:6112946 original size:26 final size:24
Alignment explanation
Indices: 6112868--6112946 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 24
6112858 GTCTAGACCT
* *
6112868 GATTAGGCCCATTTCAATCCTGGCCT
1 GATTAGGCCCATTT-AGTCC-GGCCC
*
6112894 GATTAGGCCCATTTTTAGTACGGGCCC
1 GATTAGGCCCA--TTTAGT-CCGGCCC
6112921 GATTAGGCCCATCTTAGTCCGAGCCC
1 GATTAGGCCCAT-TTAGTCCG-GCCC
6112947 AATATAGTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
25 3 0.07
26 20 0.45
27 17 0.39
28 4 0.09
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (24 bp):
GATTAGGCCCATTTAGTCCGGCCC
Found at i:6113126 original size:10 final size:11
Alignment explanation
Indices: 6113111--6113140 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6113101 TTATTATTAT
6113111 TATTTTTTT-C
1 TATTTTTTTGC
6113121 TATTTTTTTGC
1 TATTTTTTTGC
6113132 TATTTTTTT
1 TATTTTTTT
6113141 TTCTCGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TATTTTTTTGC
Found at i:6114100 original size:29 final size:28
Alignment explanation
Indices: 6114068--6114122 Score: 76
Period size: 27 Copynumber: 1.9 Consensus size: 28
6114058 TCTTTTTATA
*
6114068 AAAAAAAATGAATGAAAAAATA-AAAATAT
1 AAAAAAAAT--ATAAAAAAATATAAAATAT
6114097 AAAAAAAATATAAAAAAATATAAAAT
1 AAAAAAAATATAAAAAAATATAAAAT
6114123 TTGCTACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 10 0.42
28 5 0.21
29 9 0.38
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (28 bp):
AAAAAAAATATAAAAAAATATAAAATAT
Found at i:6114102 original size:10 final size:10
Alignment explanation
Indices: 6114089--6114121 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
6114079 ATGAAAAAAT
6114089 AAAAATATAAA
1 AAAAATAT-AA
6114100 AAAAATATAA
1 AAAAATATAA
6114110 AAAAATATAA
1 AAAAATATAA
6114120 AA
1 AA
6114122 TTTGCTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAATATAA
Found at i:6114103 original size:11 final size:11
Alignment explanation
Indices: 6114089--6114121 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
6114079 ATGAAAAAAT
6114089 AAAAATATAAA
1 AAAAATATAAA
6114100 AAAAATAT-AA
1 AAAAATATAAA
6114110 AAAAATATAAA
1 AAAAATATAAA
6114121 A
1 A
6114122 TTTGCTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAATATAAA
Found at i:6114121 original size:19 final size:18
Alignment explanation
Indices: 6114082--6114121 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
6114072 AAAATGAATG
*
6114082 AAAAAATAAAAATATAAA
1 AAAAAATAAAAAAATAAA
6114100 AAAAATATAAAAAAATATAA
1 AAAAA-ATAAAAAAATA-AA
6114120 AA
1 AA
6114122 TTTGCTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 10 0.53
20 4 0.21
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAAATAAAAAAATAAA
Found at i:6115294 original size:20 final size:21
Alignment explanation
Indices: 6115252--6115295 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
6115242 ATTGTGAAAT
6115252 AATTAAAGAAGAATAAAACAA
1 AATTAAAGAAGAATAAAACAA
*
6115273 AATTAAA-ATGAATAACAA-AA
1 AATTAAAGAAGAATAA-AACAA
6115293 AAT
1 AAT
6115296 ATAACATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.18
Consensus pattern (21 bp):
AATTAAAGAAGAATAAAACAA
Found at i:6124388 original size:8 final size:8
Alignment explanation
Indices: 6124375--6124427 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
6124365 TTTGGTTAGA
6124375 TTTTAAGG
1 TTTTAAGG
6124383 TTTTAAGG
1 TTTTAAGG
*
6124391 TTTTAAGA
1 TTTTAAGG
* *
6124399 TTTCAAGT
1 TTTTAAGG
*
6124407 TTTTATGG
1 TTTTAAGG
* *
6124415 TTTCAAGA
1 TTTTAAGG
6124423 TTTTA
1 TTTTA
6124428 GAGTTTCAAG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (8 bp):
TTTTAAGG
Found at i:6124396 original size:16 final size:16
Alignment explanation
Indices: 6124372--6124438 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 16
6124362 GGTTTTGGTT
*
6124372 AGATTTTAAGGTTTTA
1 AGATTTTAAGGTTTCA
* *
6124388 AGGTTTTAAGATTTCA
1 AGATTTTAAGGTTTCA
* *
6124404 AGTTTTTATGGTTTCA
1 AGATTTTAAGGTTTCA
6124420 AGATTTT-AGAGTTTCA
1 AGATTTTAAG-GTTTCA
6124436 AGA
1 AGA
6124439 AAAAATGAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
15 1 0.02
16 41 0.98
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.46
Consensus pattern (16 bp):
AGATTTTAAGGTTTCA
Found at i:6124410 original size:24 final size:24
Alignment explanation
Indices: 6124372--6124425 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
6124362 GGTTTTGGTT
* *
6124372 AGATTTTAAGGTTTTAAGGTTTTA
1 AGATTTCAAGGTTTTAAGGTTTCA
* *
6124396 AGATTTCAAGTTTTTATGGTTTCA
1 AGATTTCAAGGTTTTAAGGTTTCA
6124420 AGATTT
1 AGATTT
6124426 TAGAGTTTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.50
Consensus pattern (24 bp):
AGATTTCAAGGTTTTAAGGTTTCA
Found at i:6124417 original size:32 final size:32
Alignment explanation
Indices: 6124375--6124437 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
6124365 TTTGGTTAGA
* *
6124375 TTTTAAGGTTTTAAGGTTTTA-AGATTTCAAGT
1 TTTTAAGGTTTCAAGATTTTAGAG-TTTCAAGT
*
6124407 TTTTATGGTTTCAAGATTTTAGAGTTTCAAG
1 TTTTAAGGTTTCAAGATTTTAGAGTTTCAAG
6124438 AAAAAATGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 25 0.93
33 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.49
Consensus pattern (32 bp):
TTTTAAGGTTTCAAGATTTTAGAGTTTCAAGT
Found at i:6125185 original size:13 final size:13
Alignment explanation
Indices: 6125167--6125208 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
6125157 ATAGGTAAGG
6125167 ATTCCAAACTCAT
1 ATTCCAAACTCAT
6125180 ATTCCAAACTCAT
1 ATTCCAAACTCAT
6125193 ATTCCAAACTCAT
1 ATTCCAAACTCAT
6125206 ATT
1 ATT
6125209 TTCACTTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTCCAAACTCAT
Found at i:6125484 original size:26 final size:26
Alignment explanation
Indices: 6125446--6125499 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
6125436 AGGGTAAGAA
*
6125446 AATATACCCACTTAGCTTTGGGCTTG
1 AATATACCAACTTAGCTTTGGGCTTG
*
6125472 AATATACCAACTTAGTTTTGGGCTTG
1 AATATACCAACTTAGCTTTGGGCTTG
6125498 AA
1 AA
6125500 CCCAATGAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
AATATACCAACTTAGCTTTGGGCTTG
Found at i:6131114 original size:18 final size:16
Alignment explanation
Indices: 6131070--6131120 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
6131060 TATAAAAATA
6131070 AATTAATAATAATATG
1 AATTAATAATAATATG
* * *
6131086 ATTTAAAAATAAGTTTTG
1 AATTAATAATAA--TATG
6131104 AATTAATAATAATATG
1 AATTAATAATAATATG
6131120 A
1 A
6131121 TACAAAATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (16 bp):
AATTAATAATAATATG
Found at i:6131451 original size:19 final size:19
Alignment explanation
Indices: 6131413--6131451 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6131403 TGTTATCATA
*
6131413 ATGATTTATACATTACATT
1 ATGATTTATACATTAAATT
6131432 ATGATTTATA-ATTTAAATT
1 ATGATTTATACA-TTAAATT
6131451 A
1 A
6131452 ACAAACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
ATGATTTATACATTAAATT
Found at i:6131775 original size:19 final size:21
Alignment explanation
Indices: 6131753--6131797 Score: 60
Period size: 18 Copynumber: 2.3 Consensus size: 21
6131743 ATAATATTAT
*
6131753 AAATTGATTAAAA-ATAA-AC
1 AAATTAATTAAAATATAACAC
6131772 AAA-TAATTAAAATATAACAC
1 AAATTAATTAAAATATAACAC
6131792 AAATTA
1 AAATTA
6131798 CGGTGCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.36
19 7 0.32
20 5 0.23
21 2 0.09
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATTAAAATATAACAC
Found at i:6136078 original size:18 final size:18
Alignment explanation
Indices: 6136057--6136116 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
6136047 ACATATATTT
6136057 ATATATAAATGTATATGA
1 ATATATAAATGTATATGA
*
6136075 ATATATATAGATGTATATGT
1 ATATATA-A-ATGTATATGA
* * * *
6136095 ATACATATACGTATATGC
1 ATATATAAATGTATATGA
6136113 ATAT
1 ATAT
6136117 GCATGCATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 18 0.53
19 1 0.03
20 15 0.44
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (18 bp):
ATATATAAATGTATATGA
Found at i:6136079 original size:20 final size:20
Alignment explanation
Indices: 6136056--6136103 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
6136046 TACATATATT
6136056 TATATATAAATGTATATGAA
1 TATATATAAATGTATATGAA
* *
6136076 TATATATAGATGTATATGTA
1 TATATATAAATGTATATGAA
*
6136096 TACATATA
1 TATATATA
6136104 CGTATATGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (20 bp):
TATATATAAATGTATATGAA
Found at i:6148628 original size:15 final size:15
Alignment explanation
Indices: 6148610--6148642 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6148600 TTTTGTTGCT
6148610 TTTCTTCTTGAACTG
1 TTTCTTCTTGAACTG
6148625 TTTCTTCTTGAACTG
1 TTTCTTCTTGAACTG
6148640 TTT
1 TTT
6148643 TTTTAGGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.58
Consensus pattern (15 bp):
TTTCTTCTTGAACTG
Found at i:6152663 original size:15 final size:14
Alignment explanation
Indices: 6152639--6152676 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
6152629 GGATAACAAA
6152639 AATGAAAAAAGAATG
1 AATGAAAAAAGAA-G
*
6152654 AATGATAAAAGAAG
1 AATGAAAAAAGAAG
6152668 AAT-AAAAAA
1 AATGAAAAAA
6152677 TGGGTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 5 0.24
14 4 0.19
15 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (14 bp):
AATGAAAAAAGAAG
Found at i:6153279 original size:46 final size:46
Alignment explanation
Indices: 6153161--6153279 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
6153151 ATTCAGTTTA
* *
6153161 AGATTTTTAAAGTTGTTGAACATTTGCACCAAAGCTTTTCAAAATT
1 AGATTTTTAAAGTTGTTAAACATTTACACCAAAGCTTTTCAAAATT
* ** ** *
6153207 AGATATTTAAAGTTGTTGAGTC-TTTACGTCAAAGCTTTTCAAGATT
1 AGATTTTTAAAGTTGTT-AAACATTTACACCAAAGCTTTTCAAAATT
*
6153253 AGATTTTTAAACTTGTTAAACATTTAC
1 AGATTTTTAAAGTTGTTAAACATTTAC
6153280 TTAAAAAAGC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
45 2 0.03
46 56 0.95
47 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (46 bp):
AGATTTTTAAAGTTGTTAAACATTTACACCAAAGCTTTTCAAAATT
Found at i:6153571 original size:44 final size:44
Alignment explanation
Indices: 6153486--6153571 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
6153476 ATGAGGTTTT
* *
6153486 TTTTCAAATTTATTTTCGAAAATTATGGAACCTTTGCTTAAAGC
1 TTTTCAAATTTATTTTCGAAAATTATGGAACCTATACTTAAAGC
*
6153530 TTTT-AAATTTATTTTCGAAAAGTTATGGAGCCTATACTTAAA
1 TTTTCAAATTTATTTTCGAAAA-TTATGGAACCTATACTTAAA
6153572 AGAGTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 17 0.45
44 21 0.55
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.43
Consensus pattern (44 bp):
TTTTCAAATTTATTTTCGAAAATTATGGAACCTATACTTAAAGC
Found at i:6153581 original size:95 final size:98
Alignment explanation
Indices: 6153434--6153663 Score: 263
Period size: 99 Copynumber: 2.3 Consensus size: 98
6153424 TAAAAGAGTT
* * * * *
6153434 TTTTAAATTTATTTTCAAAAAAGTTGTGGAACCTTTGCTTAAATGAG-GTTTTTTTTCAAATTTA
1 TTTTAAATTTATTTTC-GAAAAGTTGTGGAGCCTATACTTAAAAGAGTGTTTTTTTTCAAATTTA
*
6153498 TTTTCGAAAA-TTATGGAACCTTTGCTT-AA-AGC
65 CTTTC-AAAAGTTATGGAACCTTTGCTTAAAGAGC
* * *
6153530 TTTTAAATTTATTTTCGAAAAGTTATGGAGCCTATACTTAAAAGAGTTTTTTTTTTTTTTAAATT
1 TTTTAAATTTATTTTCGAAAAGTTGTGGAGCCTATACTTAAAAGAG---TGTTTTTTTTCAAATT
* * *
6153595 TACTTTCAAAAGTTATGTAGCTTTTGCTTAAAAGAGC
63 TACTTTCAAAAGTTATGGAACCTTTGCTT-AAAGAGC
6153632 TTTTAAATTTATTTTCG-AAAGTTGTGGAGCCT
1 TTTTAAATTTATTTTCGAAAAGTTGTGGAGCCT
6153664 TCGTTTAAAG
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
95 24 0.21
96 16 0.14
98 4 0.04
99 33 0.29
101 16 0.14
102 20 0.18
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (98 bp):
TTTTAAATTTATTTTCGAAAAGTTGTGGAGCCTATACTTAAAAGAGTGTTTTTTTTCAAATTTAC
TTTCAAAAGTTATGGAACCTTTGCTTAAAGAGC
Done.