Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 23 of 100
Found at i:4324219 original size:11 final size:11
Alignment explanation
Indices: 4324162--4324223 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
4324152 AGTAATCATC
*
4324162 AATAACTTAGT
1 AATAAATTAGT
*
4324173 ACTAAATTAGT
1 AATAAATTAGT
* *
4324184 AATAACTTAAT
1 AATAAATTAGT
* * *
4324195 AGTAAATGAAT
1 AATAAATTAGT
*
4324206 AATAATTTAGT
1 AATAAATTAGT
4324217 AATAAAT
1 AATAAAT
4324224 AATTGATAAG
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (11 bp):
AATAAATTAGT
Found at i:4324408 original size:44 final size:44
Alignment explanation
Indices: 4324360--4324586 Score: 150
Period size: 44 Copynumber: 5.3 Consensus size: 44
4324350 AAAATAAGAA
*
4324360 ATAACTTAATAGTTAATTATTGATAACTTAATAGTAATTCAATT
1 ATAACTTAATAGTTAATTATTGATAACTTAATAGTAAATCAATT
* * * * *
4324404 ATAACTTAATAGTAAATTAGTAATAATTTAATTGTAAATCAATT
1 ATAACTTAATAGTTAATTATTGATAACTTAATAGTAAATCAATT
* * * *
4324448 TTAATTTAATAG-TAATTAATTGA-CA-TT--T-GTAAATC-ATAA
1 ATAACTTAATAGTTAATT-ATTGATAACTTAATAGTAAATCAAT-T
* * * * * * *
4324487 ATTATTTAGTAGTAAATCAATGATATA-TTAATAGTAAAT-AATGG
1 ATAACTTAATAGTTAATTATTGATA-ACTTAATAGTAAATCAAT-T
* * * *
4324531 ATAATTTAGTAGTTAATTATTGAAAACTTAAAAGTAAATCAA-T
1 ATAACTTAATAGTTAATTATTGATAACTTAATAGTAAATCAATT
*
4324574 ATAATTTAATAGT
1 ATAACTTAATAGT
4324587 AAATCATCTA
Statistics
Matches: 142, Mismatches: 30, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
38 2 0.01
39 20 0.14
40 4 0.03
41 3 0.02
42 2 0.01
43 19 0.13
44 90 0.63
45 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (44 bp):
ATAACTTAATAGTTAATTATTGATAACTTAATAGTAAATCAATT
Found at i:4324429 original size:22 final size:22
Alignment explanation
Indices: 4324162--4324467 Score: 128
Period size: 22 Copynumber: 14.0 Consensus size: 22
4324152 AGTAATCATC
* * *
4324162 AATAACTTAGTACTAAATTAGT
1 AATAACTTAATAGTAAATTAAT
*
4324184 AATAACTTAATAGTAAATGAAT
1 AATAACTTAATAGTAAATTAAT
* * *
4324206 AATAATTTAGTAATAAA-TAATT
1 AATAACTTAATAGTAAATTAA-T
* * ** *
4324228 GATAAGTTTTTAGTAAATCAAT
1 AATAACTTAATAGTAAATTAAT
* * *
4324250 AATATA-ATAATAATATATT-AT
1 AATA-ACTTAATAGTAAATTAAT
* ** *
4324271 AATAGCTTAACGGTAAATCAAT
1 AATAACTTAATAGTAAATTAAT
*
4324293 TATAA-TATAAT--TATAATTATAT
1 AATAACT-TAATAGTA-AATTA-AT
* *
4324315 AATAA-TATAATACTAAATTAAG
1 AATAACT-TAATAGTAAATTAAT
* * * * *
4324337 GATAACTTAACA-AAAAATAAGA
1 AATAACTTAATAGTAAATTAA-T
* *
4324359 AATAACTTAATAGTTAATTATT
1 AATAACTTAATAGTAAATTAAT
*
4324381 GATAACTTAATAGT-AATTCAAT
1 AATAACTTAATAGTAAATT-AAT
* *
4324403 TATAACTTAATAGTAAATTAGT
1 AATAACTTAATAGTAAATTAAT
* * *
4324425 AATAATTTAATTGTAAATCAAT
1 AATAACTTAATAGTAAATTAAT
** *
4324447 TTTAATTTAATAGT-AATTAAT
1 AATAACTTAATAGTAAATTAAT
4324468 TGACATTTGT
Statistics
Matches: 210, Mismatches: 59, Indels: 31
0.70 0.20 0.10
Matches are distributed among these distances:
20 2 0.01
21 36 0.17
22 153 0.73
23 17 0.08
24 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (22 bp):
AATAACTTAATAGTAAATTAAT
Found at i:4324463 original size:11 final size:11
Alignment explanation
Indices: 4324387--4324464 Score: 50
Period size: 11 Copynumber: 7.1 Consensus size: 11
4324377 TATTGATAAC
4324387 TTAATAGTAAT
1 TTAATAGTAAT
* *
4324398 TCAATTA-TAAC
1 TTAA-TAGTAAT
*
4324409 TTAATAGTAAA
1 TTAATAGTAAT
* *
4324420 TTAGTAATAAT
1 TTAATAGTAAT
* *
4324431 TTAATTGTAAA
1 TTAATAGTAAT
* **
4324442 TCAATTTTAAT
1 TTAATAGTAAT
4324453 TTAATAGTAAT
1 TTAATAGTAAT
4324464 T
1 T
4324465 AATTGACATT
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
10 2 0.04
11 44 0.92
12 2 0.04
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (11 bp):
TTAATAGTAAT
Found at i:4324521 original size:22 final size:22
Alignment explanation
Indices: 4324490--4324592 Score: 95
Period size: 22 Copynumber: 4.7 Consensus size: 22
4324480 ATCATAAATT
*
4324490 ATTTAGTAGTAAATCAATGAT-
1 ATTTAATAGTAAATCAATGATA
4324511 ATATTAATAGTAAAT-AATGGATA
1 AT-TTAATAGTAAATCAAT-GATA
* * * * *
4324534 ATTTAGTAGTTAATTATTGAAA
1 ATTTAATAGTAAATCAATGATA
* *
4324556 ACTTAAAAGTAAATCAAT-ATA
1 ATTTAATAGTAAATCAATGATA
4324577 ATTTAATAGTAAATCA
1 ATTTAATAGTAAATCA
4324593 TCTATAATAT
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
21 21 0.33
22 39 0.61
23 4 0.06
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (22 bp):
ATTTAATAGTAAATCAATGATA
Found at i:4324608 original size:22 final size:21
Alignment explanation
Indices: 4324563--4324608 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
4324553 AAAACTTAAA
*
4324563 AGTAAATCAATATAATTTAAT
1 AGTAAATCAATATAATATAAT
* *
4324584 AGTAAATCATCTATAATATAGT
1 AGTAAATCA-ATATAATATAAT
4324606 AGT
1 AGT
4324609 TAATTAGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.37
Consensus pattern (21 bp):
AGTAAATCAATATAATATAAT
Found at i:4324910 original size:22 final size:21
Alignment explanation
Indices: 4324885--4325067 Score: 102
Period size: 22 Copynumber: 8.4 Consensus size: 21
4324875 GATAACATTT
*
4324885 TAGTAAATCATTAGTAAATTAA
1 TAGTAAATCATTA-TAATTTAA
*
4324907 TAGTAAATCAATTATAATTTTA
1 TAGTAAATC-ATTATAATTTAA
* * * * *
4324929 TAATAAATTATCAATAACTTGA
1 TAGTAAATCAT-TATAATTTAA
* *
4324951 TGGTAAATCACTAATAATTTAA
1 TAGTAAATCA-TTATAATTTAA
* *
4324973 TA-AAAATCATTCATAACTTAA
1 TAGTAAATCATT-ATAATTTAA
* *
4324994 T-GATAAATCTTTCATGATTTAA
1 TAG-TAAATCATT-ATAATTTAA
* *
4325016 TGGTAAATCATTCATAAATTAGA
1 TAGTAAATCATT-ATAATTTA-A
*
4325039 -AATAAATCATTAATAATTTAA
1 TAGTAAATCATT-ATAATTTAA
*
4325060 TAATAAAT
1 TAGTAAAT
4325068 TCTTGATAAC
Statistics
Matches: 125, Mismatches: 27, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.01
21 18 0.14
22 99 0.79
23 7 0.06
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (21 bp):
TAGTAAATCATTATAATTTAA
Found at i:4324957 original size:44 final size:43
Alignment explanation
Indices: 4324889--4325067 Score: 121
Period size: 44 Copynumber: 4.1 Consensus size: 43
4324879 ACATTTTAGT
* * * *
4324889 AAATCATT-AGTAAATTAATAGTAAATCAATTATAATTTTATAA
1 AAATCATTCA-TAACTTAATGGTAAATCAATAATAATTTAATAA
* * *
4324932 TAAATTA-TCAATAACTTGATGGTAAATCACTAATAATTTAATAA
1 -AAATCATTC-ATAACTTAATGGTAAATCAATAATAATTTAATAA
* ** * * **
4324976 AAATCATTCATAACTTAATGATAAATCTTTCATGATTTAATGGT
1 AAATCATTCATAACTTAATGGTAAATCAATAATAATTTAAT-AA
* ** *
4325020 AAATCATTCATAAATTAGA-AATAAATCATTAATAATTTAATAA
1 AAATCATTCATAACTTA-ATGGTAAATCAATAATAATTTAATAA
4325063 TAAAT
1 -AAAT
4325068 TCTTGATAAC
Statistics
Matches: 106, Mismatches: 23, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
43 32 0.30
44 72 0.68
45 2 0.02
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.38
Consensus pattern (43 bp):
AAATCATTCATAACTTAATGGTAAATCAATAATAATTTAATAA
Found at i:4325332 original size:8 final size:7
Alignment explanation
Indices: 4325309--4325338 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
4325299 TTAGTGGACT
4325309 TTTTAAA
1 TTTTAAA
4325316 TTTTAAA
1 TTTTAAA
4325323 TTTTATAA
1 TTTTA-AA
4325331 TTTTAAA
1 TTTTAAA
4325338 T
1 T
4325339 GCATAATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTTAAA
Found at i:4325332 original size:15 final size:14
Alignment explanation
Indices: 4325309--4325338 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4325299 TTAGTGGACT
4325309 TTTTAAATTTTAAA
1 TTTTAAATTTTAAA
4325323 TTTTATAATTTTAAA
1 TTTTA-AATTTTAAA
4325338 T
1 T
4325339 GCATAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAAATTTTAAA
Found at i:4325425 original size:22 final size:22
Alignment explanation
Indices: 4325400--4325550 Score: 92
Period size: 22 Copynumber: 6.9 Consensus size: 22
4325390 TTTAGTTGTT
*
4325400 AATCATTGATAACTTAATAATA
1 AATCAATGATAACTTAATAATA
*
4325422 AATCAATGATAACTTAATAGTA
1 AATCAATGATAACTTAATAATA
* * *
4325444 AATTAGTGATAACTT-ATAAGA
1 AATCAATGATAACTTAATAATA
** ** * *
4325465 AATCAATCTTAGTTTAGTAGT-
1 AATCAATGATAACTTAATAATA
* *
4325486 AATTAATTGATAAACTTAATAGTA
1 AATCAA-TGAT-AACTTAATAATA
* * * *
4325510 AAT-TATAAATAATTTAGTAATA
1 AATCAAT-GATAACTTAATAATA
*
4325532 AATCAATGATAATTTAATA
1 AATCAATGATAACTTAATA
4325551 GTTAATTATT
Statistics
Matches: 94, Mismatches: 29, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
21 18 0.19
22 60 0.64
23 13 0.14
24 3 0.03
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (22 bp):
AATCAATGATAACTTAATAATA
Found at i:4325497 original size:43 final size:43
Alignment explanation
Indices: 4325404--4325503 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
4325394 GTTGTTAATC
* *
4325404 ATTGATAACTTAATAATAAATCAATGATAACTTAATAGTAAATT
1 ATTGATAACTT-ATAAGAAATCAATCATAACTTAATAGTAAATT
* * ** *
4325448 AGTGATAACTTATAAGAAATCAATCTTAGTTTAGTAGT-AATT
1 ATTGATAACTTATAAGAAATCAATCATAACTTAATAGTAAATT
4325490 AATTGATAAACTTA
1 -ATTGAT-AACTTA
4325504 ATAGTAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
42 4 0.09
43 26 0.57
44 16 0.35
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (43 bp):
ATTGATAACTTATAAGAAATCAATCATAACTTAATAGTAAATT
Found at i:4325622 original size:16 final size:15
Alignment explanation
Indices: 4325601--4325636 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
4325591 TAGTTAATCA
4325601 TAAATAATATAATAG
1 TAAATAATATAATAG
*
4325616 TTAAATAATTTAATAG
1 -TAAATAATATAATAG
4325632 TAAAT
1 TAAAT
4325637 TATGGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
TAAATAATATAATAG
Found at i:4325666 original size:21 final size:22
Alignment explanation
Indices: 4325619--4325659 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4325609 ATAATAGTTA
*
4325619 AATAATTTAATAGTAAATTATG
1 AATAATTTAATAATAAATTATG
*
4325641 GATAATTTAA-AATAAATTA
1 AATAATTTAATAATAAATTA
4325660 GCAATAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (22 bp):
AATAATTTAATAATAAATTATG
Found at i:4325915 original size:22 final size:22
Alignment explanation
Indices: 4325890--4326032 Score: 114
Period size: 22 Copynumber: 6.6 Consensus size: 22
4325880 ATGTCAGTTT
*
4325890 ATAACTTTA-TAAAAAATCATTA
1 ATAA-TTTAGTAATAAATCATTA
* *
4325912 ATAATTTAGTAGTAAA-CTTTA
1 ATAATTTAGTAATAAATCATTA
* *
4325933 ATAATTTA-TAGTAAATCATTC
1 ATAATTTAGTAATAAATCATTA
* *
4325954 ATAACTTAGTAATAAATCATTC
1 ATAATTTAGTAATAAATCATTA
* * * *
4325976 ATAAATTAAT-ATAAATCAATG
1 ATAATTTAGTAATAAATCATTA
* * * *
4325997 CTAATTTAATAGTAAATCATTG
1 ATAATTTAGTAATAAATCATTA
4326019 ATAATTTAGTAATA
1 ATAATTTAGTAATA
4326033 TATTATTGAT
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
20 7 0.07
21 43 0.43
22 49 0.49
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.39
Consensus pattern (22 bp):
ATAATTTAGTAATAAATCATTA
Found at i:4325946 original size:20 final size:21
Alignment explanation
Indices: 4325909--4325947 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4325899 TAAAAAATCA
4325909 TTAATAATTTAGTAGTAAACT
1 TTAATAATTTAGTAGTAAACT
4325930 TTAATAATTTA-TAGTAAA
1 TTAATAATTTAGTAGTAAA
4325948 TCATTCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (21 bp):
TTAATAATTTAGTAGTAAACT
Found at i:4326493 original size:21 final size:21
Alignment explanation
Indices: 4326402--4326495 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 21
4326392 AAGTTAATTG
*
4326402 CTAAAATTATATCAAGAGGTTA
1 CTAAAATTATATCAA-AAGTTA
* * *
4326424 TATCAAAATTTTATC-AATGATTA
1 -CT-AAAATTATATCAAAAG-TTA
*
4326447 CAAAAATTATATCAAAAGTTA
1 CTAAAATTATATCAAAAGTTA
* *
4326468 CTAAAATTTTATTAAAAGTTA
1 CTAAAATTATATCAAAAGTTA
*
4326489 TTAAAAT
1 CTAAAAT
4326496 CAAAATTTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
21 37 0.65
22 5 0.09
23 5 0.09
24 10 0.18
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.37
Consensus pattern (21 bp):
CTAAAATTATATCAAAAGTTA
Found at i:4326580 original size:48 final size:48
Alignment explanation
Indices: 4326497--4326591 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
4326487 TATTAAAATC
* * *
4326497 AAAATTTATCAAATTTTACTTATATTATACAAAAATCAAAATTATATA
1 AAAAATTATCAAATTTTACTTACAATATACAAAAATCAAAATTATATA
* * *
4326545 AAAAATTATTAAATTTTACTTACAATATGTC-AAAATCAAATTTATAT
1 AAAAATTATCAAATTTTACTTACAATAT-ACAAAAATCAAAATTATAT
4326592 TATTATTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.51, C:0.08, G:0.01, T:0.40
Consensus pattern (48 bp):
AAAAATTATCAAATTTTACTTACAATATACAAAAATCAAAATTATATA
Found at i:4326695 original size:2 final size:2
Alignment explanation
Indices: 4326688--4326713 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4326678 TCAAAAATTA
4326688 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
4326714 ATATATTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:4330571 original size:22 final size:22
Alignment explanation
Indices: 4330545--4330588 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4330535 TGTATATTTA
*
4330545 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4330567 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4330589 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:4334654 original size:22 final size:22
Alignment explanation
Indices: 4334628--4334671 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4334618 TGTATATTTA
* *
4334628 TATTTGTATCTCTATAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4334650 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4334672 GGCAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:4345532 original size:3 final size:3
Alignment explanation
Indices: 4345524--4345560 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4345514 TGGCATTTTC
4345524 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4345561 TTCAACATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4355669 original size:13 final size:12
Alignment explanation
Indices: 4355636--4355670 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4355626 AGATTTTCAG
4355636 AAGGTTTTGAGT
1 AAGGTTTTGAGT
*
4355648 AAGGGTTTGAGT
1 AAGGTTTTGAGT
4355660 AGAGGTTTTGA
1 A-AGGTTTTGA
4355671 AGGTTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (12 bp):
AAGGTTTTGAGT
Found at i:4356977 original size:18 final size:18
Alignment explanation
Indices: 4356954--4356996 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
4356944 TGACAGTGAA
4356954 GGTAGTAAATAGGGTATG
1 GGTAGTAAATAGGGTATG
4356972 GGTAGTAAATAGGGTATG
1 GGTAGTAAATAGGGTATG
4356990 GGTAGTA
1 GGTAGTA
4356997 GGATAAACGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.28
Consensus pattern (18 bp):
GGTAGTAAATAGGGTATG
Found at i:4357754 original size:135 final size:134
Alignment explanation
Indices: 4357512--4357918 Score: 591
Period size: 135 Copynumber: 3.0 Consensus size: 134
4357502 ATCAGGATTG
* * * *
4357512 AACTTAGATTGAATCACAAGTCA-AAATATAAAGAGACCACGATTAAACCACGAGTCAAAAAAAA
1 AACTTGGATTGAATCACAAGTCAGAAA-ATAAAGAGA-CAAGATTAAACCATGAGTCAAAAAATA
* *
4357576 ACAACAATCAAGATTAAACTGCGATTTTGGATTAAAAAAATCGAGATTGAACCGCGAGTCAGAAT
64 ACAACAATCGAGATTAAACTGCGATTTTGGATTAAAGAAATCGAGATTGAACCGCGAGTCAGAAT
4357641 AACGTC
129 AACGTC
*
4357647 AACTTGGATTGAATCACAAGTCAGAAAATAAAGAGATCAAGATTAAACCATGAGTCAGAAAATAA
1 AACTTGGATTGAATCACAAGTCAGAAAATAAAGAGA-CAAGATTAAACCATGAGTCAAAAAATAA
* * *
4357712 CAACAATTGAGATTAAACTACGATTTTGGATTAAAGAAATCGAGGTTGAACCGCGAGTCAGAATA
65 CAACAATCGAGATTAAACTGCGATTTTGGATTAAAGAAATCGAGATTGAACCGCGAGTCAGAATA
4357777 ACGTC
130 ACGTC
* * * *
4357782 AACTTGAATTGAATCACAAGTTAGAAAATAAAGAGACTGAGATTAAACCATTAGTCAAAAAATAA
1 AACTTGGATTGAATCACAAGTCAGAAAATAAAGAGAC-AAGATTAAACCATGAGTCAAAAAATAA
* * ** *
4357847 CAACAATCGAGATTAACCTGCAATTTTGGATTAAAGAAATTAAGATTGAACCGTGAGTCAGAATA
65 CAACAATCGAGATTAAACTGCGATTTTGGATTAAAGAAATCGAGATTGAACCGCGAGTCAGAATA
*
4357912 ACATC
130 ACGTC
4357917 AA
1 AA
4357919 TCAAGATTAA
Statistics
Matches: 245, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
134 1 0.00
135 241 0.98
136 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (134 bp):
AACTTGGATTGAATCACAAGTCAGAAAATAAAGAGACAAGATTAAACCATGAGTCAAAAAATAAC
AACAATCGAGATTAAACTGCGATTTTGGATTAAAGAAATCGAGATTGAACCGCGAGTCAGAATAA
CGTC
Found at i:4357770 original size:68 final size:68
Alignment explanation
Indices: 4357552--4357909 Score: 194
Period size: 68 Copynumber: 5.3 Consensus size: 68
4357542 AAGAGACCAC
* * * ** * *
4357552 GATTAAACCACGAGTCAAAAAAAAACAACAATCAAGATTAAACTGCGATTTTGGATTAAAAAAAT
1 GATTGAACCACGAGTCAGAAAATAACAACAATTGAGATTAAACTACGATTTTGGATTAAAGAAAT
4357617 CGA
66 CGA
* ** * * * ** * *
4357620 GATTGAACCGCGAGTCAG--AATAACGTCAACTTG-GATTGAA-TCACAAGTCAGAAAATAAAGA
1 GATTGAACCACGAGTCAGAAAATAACAACAA-TTGAGATTAAACT-ACGATTTTG-GATTAAAGA
* *
4357681 GATCAA
63 AATCGA
* *
4357687 GATTAAACCATGAGTCAGAAAATAACAACAATTGAGATTAAACTACGATTTTGGATTAAAGAAAT
1 GATTGAACCACGAGTCAGAAAATAACAACAATTGAGATTAAACTACGATTTTGGATTAAAGAAAT
4357752 CGA
66 CGA
* * ** * * * * * *
4357755 GGTTGAACCGCGAGTCAG--AATAACGTCAACTTGA-ATTGAA-TCACAAGTTAGAAAATAAAGA
1 GATTGAACCACGAGTCAGAAAATAACAACAA-TTGAGATTAAACT-ACGATTTTG-GATTAAAGA
*
4357816 GA-CTGA
63 AATC-GA
* ** * * * * *
4357822 GATTAAACCATTAGTCAAAAAATAACAACAATCGAGATTAACCTGCAATTTTGGATTAAAGAAAT
1 GATTGAACCACGAGTCAGAAAATAACAACAATTGAGATTAAACTACGATTTTGGATTAAAGAAAT
**
4357887 TAA
66 CGA
**
4357890 GATTGAACCGTGAGTCAGAA
1 GATTGAACCACGAGTCAGAA
4357910 TAACATCAAT
Statistics
Matches: 205, Mismatches: 69, Indels: 32
0.67 0.23 0.10
Matches are distributed among these distances:
65 2 0.01
66 39 0.19
67 52 0.25
68 71 0.35
69 39 0.19
70 2 0.01
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (68 bp):
GATTGAACCACGAGTCAGAAAATAACAACAATTGAGATTAAACTACGATTTTGGATTAAAGAAAT
CGA
Found at i:4357838 original size:67 final size:67
Alignment explanation
Indices: 4357615--4357838 Score: 195
Period size: 67 Copynumber: 3.3 Consensus size: 67
4357605 GATTAAAAAA
* ** * *
4357615 ATCGAGATTGAACCGCGAGTCAGAATAACGTCAACTTGGATTGAATCACAAGTCAGAAAATAAAG
1 ATCGAGATTAAACCATGAGTCAGAATAACGTCAACTTGAATTGAATCACAAGTTAGAAAATAAAG
4357680 AG
66 AG
* ** * * * * * *
4357682 ATCAAGATTAAACCATGAGTCAGAAAATAACAACAA-TTGAGATT-AAACTACGATTTTG-GATT
1 ATCGAGATTAAACCATGAGTCAG--AATAACGTCAACTTGA-ATTGAATC-ACAAGTTAGAAAAT
*
4357744 AAAGAA
62 AAAGAG
* * **
4357750 ATCGAGGTTGAACCGCGAGTCAGAATAACGTCAACTTGAATTGAATCACAAGTTAGAAAATAAAG
1 ATCGAGATTAAACCATGAGTCAGAATAACGTCAACTTGAATTGAATCACAAGTTAGAAAATAAAG
4357815 AG
66 AG
*
4357817 A-CTGAGATTAAACCATTAGTCA
1 ATC-GAGATTAAACCATGAGTCA
4357839 AAAAATAACA
Statistics
Matches: 115, Mismatches: 34, Indels: 16
0.70 0.21 0.10
Matches are distributed among these distances:
66 19 0.17
67 48 0.42
68 31 0.27
69 17 0.15
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (67 bp):
ATCGAGATTAAACCATGAGTCAGAATAACGTCAACTTGAATTGAATCACAAGTTAGAAAATAAAG
AG
Found at i:4358137 original size:36 final size:35
Alignment explanation
Indices: 4358097--4358264 Score: 135
Period size: 36 Copynumber: 4.7 Consensus size: 35
4358087 AAGATAACTG
* *
4358097 GGATTGAATCGTAAGTCAGAGAAATAAAAGTGACTA
1 GGATTAAACCGTAAGTCA-AGAAATAAAAGTGACTA
* *
4358133 GGATTAAACCGTAAGTCGAGAAGCTATAAGAA-TGACTG
1 GGATTAAACCGTAAGTCAAGAA---ATAA-AAGTGACTA
* * * *
4358171 GGATTAAACCACT-AGTCAA-AGATTAAAGATAACTA
1 GGATTAAACC-GTAAGTCAAGAAATAAAAG-TGACTA
* * * *
4358206 AGATTGAACCGTAAGTCAAAGAAAAAAAAGCGACTA
1 GGATTAAACCGTAAGTC-AAGAAATAAAAGTGACTA
4358242 GGATTAAACCGTAAGTCAAGAAA
1 GGATTAAACCGTAAGTCAAGAAA
4358265 CTATAAGAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
33 2 0.02
34 4 0.04
35 26 0.25
36 36 0.35
37 7 0.07
38 24 0.24
39 3 0.03
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.20
Consensus pattern (35 bp):
GGATTAAACCGTAAGTCAAGAAATAAAAGTGACTA
Found at i:4358407 original size:217 final size:218
Alignment explanation
Indices: 4358020--4358631 Score: 842
Period size: 217 Copynumber: 2.8 Consensus size: 218
4358010 AAAACAAGGA
* * * * **
4358020 GACTGGGATTAAACCGTAATTGAA-AAACTATAAAAATGATCAACATTAAACCACGAGTCAAAGA
1 GACTAGGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAGGATTAAACCACGAGTCAAAGA
* * * *
4358084 TTAAAGATAACTGGGATTGAA-T-CGTAAGTCAGAGAAATAAAAGTGACTAGGATTAAACCGTAA
66 TTAAAGATAACTGAGACTGAACTAC--AAGTCAAAGAAATAAAAATGACTAGGATTAAACCGTAA
4358147 GTCGAGAAGCTATAAGAATGA-CTGGGATTAAACCACT-AGTCAAAGATTAAAGATAACTAAGAT
129 GTCGAGAAGCTATAAGAATGATC-GGGATTAAACCA-TGAGTCAAAGATTAAAGATAACTAAGAT
**
4358210 TGAACCGTAAGTCAAAGAAAAAAAAGC
192 TGAACCACAAGTCAAAGAAAAAAAAGC
4358237 GACTAGGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAGGATTAAACCACGAGTCAAAGA
1 GACTAGGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAGGATTAAACCACGAGTCAAAGA
* ** * * *
4358302 TTAACGACGACCGAGACTGAACTACAAGTCAAAGAAATAAAAATGACTAAG-TTAAATCGTAAGT
66 TTAAAGATAACTGAGACTGAACTACAAGTCAAAGAAATAAAAATGACTAGGATTAAACCGTAAGT
* * *
4358366 CGAGAAGCTATAAAAATGATCGAGATTAAACCATGAGTCAAAGATTAAAGATAACTGAGATTGAA
131 CGAGAAGCTATAAGAATGATCGGGATTAAACCATGAGTCAAAGATTAAAGATAACTAAGATTGAA
*
4358431 CCACAAGTCAAAGAAATAAAAGC
196 CCACAAGTCAAAGAAAAAAAAGC
* ** * *
4358454 GACTAGGATTAAATCGTAAGTTGAGAAGCTATAAGAATGATC-GAGATTAAACCATGAGTCAAAG
1 GACTAGGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAG-GATTAAACCACGAGTCAAAG
* * *
4358518 ATTAAAGATAACTAAGACTGAACCACAAGTCAAAGAAATAAAAACGACTAGGATTAAACCGTAAG
65 ATTAAAGATAACTGAGACTGAACTACAAGTCAAAGAAATAAAAATGACTAGGATTAAACCGTAAG
* *
4358583 TCGAGAAACTATAAGAATGATTGGGATTAAACCATGAGTCAAAGATTAA
130 TCGAGAAGCTATAAGAATGATCGGGATTAAACCATGAGTCAAAGATTAA
4358632 TGATGATCGA
Statistics
Matches: 348, Mismatches: 40, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
216 2 0.01
217 212 0.61
218 132 0.38
219 1 0.00
220 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (218 bp):
GACTAGGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAGGATTAAACCACGAGTCAAAGA
TTAAAGATAACTGAGACTGAACTACAAGTCAAAGAAATAAAAATGACTAGGATTAAACCGTAAGT
CGAGAAGCTATAAGAATGATCGGGATTAAACCATGAGTCAAAGATTAAAGATAACTAAGATTGAA
CCACAAGTCAAAGAAAAAAAAGC
Found at i:4358645 original size:326 final size:326
Alignment explanation
Indices: 4358047--4358645 Score: 952
Period size: 326 Copynumber: 1.8 Consensus size: 326
4358037 AATTGAAAAA
* * **
4358047 CTATAAAAATGATCAACATTAAACCACGAGTCAAAGATTAAAGATAACTGGGATTGAATCGTAAG
1 CTATAAAAATGATCAACATTAAACCACGAGTCAAAGATTAAAGATAACTGAGATTGAACCACAAG
* * *
4358112 TCAGAGAAATAAAAGTGACTAGGATTAAACCGTAAGTCGAGAAGCTATAAGAATGACTGGGATTA
66 TCAAAGAAATAAAAGCGACTAGGATTAAACCGTAAGTCGAGAAGCTATAAGAATGACTGAGATTA
* **
4358177 AACCACTAGTCAAAGATTAAAGATAACTAAGATTGAACCGTAAGTCAAAGAAAAAAAAGCGACTA
131 AACCACTAGTCAAAGATTAAAGATAACTAAGACTGAACCACAAGTCAAAGAAAAAAAAGCGACTA
4358242 GGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAGGATTAAACCACGAGTCAAAGATTAAC
196 GGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAGGATTAAACCACGAGTCAAAGATTAAC
4358307 GACGACCGAGACTGAACTACAAGTCAAAGAAATAAAAATGACTAAGTTAAATCGTAAGTCGAGAA
261 GACGACCGAGACTGAACTACAAGTCAAAGAAATAAAAATGACTAAGTTAAATCGTAAGTCGAGAA
4358372 G
326 G
* * *
4358373 CTATAAAAATGATCGAGATTAAACCATGAGTCAAAGATTAAAGATAACTGAGATTGAACCACAAG
1 CTATAAAAATGATCAACATTAAACCACGAGTCAAAGATTAAAGATAACTGAGATTGAACCACAAG
* *
4358438 TCAAAGAAATAAAAGCGACTAGGATTAAATCGTAAGTTGAGAAGCTATAAGAATGA-TCGAGATT
66 TCAAAGAAATAAAAGCGACTAGGATTAAACCGTAAGTCGAGAAGCTATAAGAATGACT-GAGATT
4358502 AAACCA-TGAGTCAAAGATTAAAGATAACTAAGACTGAACCACAAGTCAAAGAAATAAAAA-CGA
130 AAACCACT-AGTCAAAGATTAAAGATAACTAAGACTGAACCACAAGTCAAAGAAA-AAAAAGCGA
* ** *
4358565 CTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATTGGGATTAAACCATGAGTCAAAGATT
193 CTAGGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAGGATTAAACCACGAGTCAAAGATT
* * *
4358630 AATGATGATCGAGACT
258 AACGACGACCGAGACT
4358646 AAACCGCAAG
Statistics
Matches: 248, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
325 2 0.01
326 241 0.97
327 5 0.02
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (326 bp):
CTATAAAAATGATCAACATTAAACCACGAGTCAAAGATTAAAGATAACTGAGATTGAACCACAAG
TCAAAGAAATAAAAGCGACTAGGATTAAACCGTAAGTCGAGAAGCTATAAGAATGACTGAGATTA
AACCACTAGTCAAAGATTAAAGATAACTAAGACTGAACCACAAGTCAAAGAAAAAAAAGCGACTA
GGATTAAACCGTAAGTCAAGAAACTATAAGAATGATCAGGATTAAACCACGAGTCAAAGATTAAC
GACGACCGAGACTGAACTACAAGTCAAAGAAATAAAAATGACTAAGTTAAATCGTAAGTCGAGAA
G
Found at i:4358669 original size:109 final size:109
Alignment explanation
Indices: 4358020--4358631 Score: 784
Period size: 109 Copynumber: 5.6 Consensus size: 109
4358010 AAAACAAGGA
* * * * * * *
4358020 GACTGGGATTAAACCGTAA-TTGAAAAACTATAAAAATGATCAACATTAAACCACGAGTCAAAGA
1 GACTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATCGAGATTAAACCATGAGTCAAAGA
* * * ** * *
4358084 TTAAAGATAACTGGGATTGAATCGTAAGTCAGAGAAATAAAAGT
66 TTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGC
* *
4358128 GACTAGGATTAAACCGTAAGTCGAGAAGCTATAAGAATGA-CTGGGATTAAACCACT-AGTCAAA
1 GACTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATC-GAGATTAAACCA-TGAGTCAAA
* * ** *
4358191 GATTAAAGATAACTAAGATTGAACCGTAAGTCAAAGAAAAAAAAGC
64 GATTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGC
* *
4358237 GACTAGGATTAAACCGTAAGTCAAGAAACTATAAGAATGATC-AGGATTAAACCACGAGTCAAAG
1 GACTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATCGA-GATTAAACCATGAGTCAAAG
* ** * * **
4358301 ATTAACGACGACCGAGACTGAACTACAAGTCAAAGAAATAAAAAT
65 ATTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGC
* * * *
4358346 GACTAAG-TTAAATCGTAAGTCGAGAAGCTATAAAAATGATCGAGATTAAACCATGAGTCAAAGA
1 GACTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATCGAGATTAAACCATGAGTCAAAGA
*
4358410 TTAAAGATAACTGAGATTGAACCACAAGTCAAAGAAATAAAAGC
66 TTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGC
* * *
4358454 GACTAGGATTAAATCGTAAGTTGAGAAGCTATAAGAATGATCGAGATTAAACCATGAGTCAAAGA
1 GACTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATCGAGATTAAACCATGAGTCAAAGA
* *
4358519 TTAAAGATAACTAAGACTGAACCACAAGTCAAAGAAATAAAAAC
66 TTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGC
* *
4358563 GACTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATTGGGATTAAACCATGAGTCAAAGA
1 GACTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATCGAGATTAAACCATGAGTCAAAGA
4358628 TTAA
66 TTAA
4358632 TGATGATCGA
Statistics
Matches: 440, Mismatches: 56, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
108 111 0.25
109 328 0.75
110 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (109 bp):
GACTAGGATTAAACCGTAAGTCGAGAAACTATAAGAATGATCGAGATTAAACCATGAGTCAAAGA
TTAAAGATAACTGAGACTGAACCACAAGTCAAAGAAATAAAAGC
Found at i:4359732 original size:9 final size:9
Alignment explanation
Indices: 4359720--4359768 Score: 50
Period size: 8 Copynumber: 5.7 Consensus size: 9
4359710 TTTTTATCCA
4359720 TTTTTTCTC
1 TTTTTTCTC
* *
4359729 TTTTTTTGTA
1 -TTTTTTCTC
4359739 TTTTTTC-C
1 TTTTTTCTC
4359747 TTTTTT-TC
1 TTTTTTCTC
4359755 TTTTTTCT-
1 TTTTTTCTC
4359763 TTTTTT
1 TTTTTT
4359769 TAAGCAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 19 0.58
9 7 0.21
10 7 0.21
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (9 bp):
TTTTTTCTC
Found at i:4359768 original size:8 final size:8
Alignment explanation
Indices: 4359720--4359768 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 8
4359710 TTTTTATCCA
4359720 TTTTTTCTC
1 TTTTTT-TC
*
4359729 TTTTTTTG
1 TTTTTTTC
4359737 TATTTTTTCC
1 T-TTTTTT-C
4359747 TTTTTTTC
1 TTTTTTTC
4359755 -TTTTTTC
1 TTTTTTTC
4359762 TTTTTTT
1 TTTTTTT
4359769 TAAGCAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 7 0.20
8 9 0.26
9 18 0.51
10 1 0.03
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (8 bp):
TTTTTTTC
Found at i:4371105 original size:13 final size:12
Alignment explanation
Indices: 4371072--4371106 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
4371062 GGTTTTTTAG
4371072 AAGGTTTTGAGT
1 AAGGTTTTGAGT
*
4371084 AAGGGTTTGAGT
1 AAGGTTTTGAGT
4371096 AGAGGTTTTGA
1 A-AGGTTTTGA
4371107 AGGTTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (12 bp):
AAGGTTTTGAGT
Found at i:4371185 original size:14 final size:15
Alignment explanation
Indices: 4371166--4371247 Score: 78
Period size: 16 Copynumber: 5.4 Consensus size: 15
4371156 TTGAAGGTTT
*
4371166 AGGGTTTTGA-TTTA
1 AGGGTTTGGATTTTA
4371180 AGGGTTTGGATTTTA
1 AGGGTTTGGATTTTA
* *
4371195 GGGGTTTCGAATTTTA
1 AGGGTTT-GGATTTTA
*
4371211 TGGGTTTGGA-TTTA
1 AGGGTTTGGATTTTA
*
4371225 AGGGAATTTGGATTTTT
1 AGGG--TTTGGATTTTA
4371242 AGGGTT
1 AGGGTT
4371248 AGTGTTTAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
14 16 0.29
15 14 0.25
16 19 0.34
17 7 0.12
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.46
Consensus pattern (15 bp):
AGGGTTTGGATTTTA
Found at i:4371240 original size:31 final size:31
Alignment explanation
Indices: 4371176--4371247 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
4371166 AGGGTTTTGA
* *
4371176 TTTAAGGGTTTGGATTTTAGGGGTTTCGAAT
1 TTTAAGGGTTTGGATTTAAGGGATTTCGAAT
* *
4371207 TTTATGGGTTTGGATTTAAGGGAATTT-GGAT
1 TTTAAGGGTTTGGATTTAAGGG-ATTTCGAAT
*
4371238 TTTTAGGGTT
1 TTTAAGGGTT
4371248 AGTGTTTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (31 bp):
TTTAAGGGTTTGGATTTAAGGGATTTCGAAT
Found at i:4372950 original size:27 final size:27
Alignment explanation
Indices: 4372920--4372974 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
4372910 TGCTCACATG
4372920 CAACATCTATCCTCGATCAAGCCGACT
1 CAACATCTATCCTCGATCAAGCCGACT
* *
4372947 CAACATCTATCCTCTATCAAGCTGACT
1 CAACATCTATCCTCGATCAAGCCGACT
4372974 C
1 C
4372975 TTATAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.36, G:0.09, T:0.25
Consensus pattern (27 bp):
CAACATCTATCCTCGATCAAGCCGACT
Found at i:4377543 original size:12 final size:12
Alignment explanation
Indices: 4377516--4377549 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4377506 TTTCGATAGT
4377516 TATATAT-TATA
1 TATATATGTATA
*
4377527 AATATATGTATA
1 TATATATGTATA
4377539 TATATATGTAT
1 TATATATGTAT
4377550 GACATGAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (12 bp):
TATATATGTATA
Found at i:4378444 original size:24 final size:23
Alignment explanation
Indices: 4378393--4378440 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
4378383 TATCTCTTTT
* *
4378393 ATATTAATAAGTTCGATTAACGA
1 ATATTAATAAGATCGATTAACAA
4378416 ATATTAATAAGAATCGATTAA-AA
1 ATATTAATAAG-ATCGATTAACAA
4378439 AT
1 AT
4378441 TATTCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.33
Consensus pattern (23 bp):
ATATTAATAAGATCGATTAACAA
Found at i:4381080 original size:18 final size:19
Alignment explanation
Indices: 4381042--4381083 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
4381032 AATTTTCTTA
4381042 ATTTTTTATTTATTAGAAATT
1 ATTTTTTATTTATT--AAATT
4381063 ATTTTTTATTTATT-AATT
1 ATTTTTTATTTATTAAATT
4381081 ATT
1 ATT
4381084 GTTTCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
21 14 0.67
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATTTTTTATTTATTAAATT
Found at i:4381752 original size:11 final size:11
Alignment explanation
Indices: 4381736--4381760 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4381726 AAAAAAAAAA
4381736 TTTTCTTATTT
1 TTTTCTTATTT
4381747 TTTTCTTATTT
1 TTTTCTTATTT
4381758 TTT
1 TTT
4381761 ATTATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTATTT
Found at i:4381824 original size:12 final size:12
Alignment explanation
Indices: 4381807--4381851 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 12
4381797 TATCAAAAAC
4381807 TTTTATTATATA
1 TTTTATTATATA
4381819 TTTTA-T-TATA
1 TTTTATTATATA
4381829 TTTTATTAT-TAA
1 TTTTATTATAT-A
4381841 TTATTATTATA
1 TT-TTATTATA
4381852 AAACAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.32
11 3 0.11
12 9 0.32
13 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATTATATA
Found at i:4383347 original size:50 final size:50
Alignment explanation
Indices: 4383282--4383405 Score: 148
Period size: 49 Copynumber: 2.5 Consensus size: 50
4383272 TTAAAATCTG
*
4383282 AAAAAGACTCCTCTCAGCAGAGGCTCAACAA-TTTAAAAAAATT-T-ATCTTAA
1 AAAAAG-CTCATCTCAGCAGAGGCTCAACAACTTT--AAAAATTCTCATCTT-A
* * *
4383333 AAAAAGGTCATCTCAGTA-AGGCTCAACAACTTTAAAAATTCTCATCTTG
1 AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTA
4383382 AAAAAGCTCATCTCAGCAGAGGCT
1 AAAAAGCTCATCTCAGCAGAGGCT
4383406 TAAAAATCTC
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
48 7 0.11
49 28 0.44
50 22 0.35
51 6 0.10
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (50 bp):
AAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTA
Found at i:4383426 original size:40 final size:41
Alignment explanation
Indices: 4383364--4383445 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 41
4383354 CTCAACAACT
*
4383364 TTAAAAATTCTCATCTTGAAAAAGCTCATCTCAGCAGAGGC
1 TTAAAAATTCTCATCTTAAAAAAGCTCATCTCAGCAGAGGC
* * * * *
4383405 TTAAAAA-TCTCATTTTAAAAAAGTTCCTTTCAGTAGAGGC
1 TTAAAAATTCTCATCTTAAAAAAGCTCATCTCAGCAGAGGC
4383445 T
1 T
4383446 CAACAACTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (41 bp):
TTAAAAATTCTCATCTTAAAAAAGCTCATCTCAGCAGAGGC
Found at i:4383509 original size:66 final size:65
Alignment explanation
Indices: 4383407--4383542 Score: 184
Period size: 66 Copynumber: 2.1 Consensus size: 65
4383397 GCAGAGGCTT
* * * * * *
4383407 AAAAATCTCATTTTAAAAAAGTTCCTTTCAGTAGAGGCTCAACAACTTTAAAAA-TCTCATTTTG
1 AAAAAGCTCATTTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTA
*
4383471 AAAAAGCTCTTTTTAGAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCT
1 AAAAAGCTCATTTTA-AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCT
4383536 TA
64 TA
4383538 AAAAA
1 AAAAA
4383543 AAGCTTCTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 13 0.21
65 5 0.08
66 31 0.50
67 13 0.21
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (65 bp):
AAAAAGCTCATTTTAAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTA
Found at i:4383553 original size:52 final size:52
Alignment explanation
Indices: 4383487--4383836 Score: 325
Period size: 52 Copynumber: 6.8 Consensus size: 52
4383477 CTCTTTTTAG
* *
4383487 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTAA
1 AAAAAGGCTCCTCTCAGTAAAGGCTCAACAACTTTAAAAATTCTCATCTTAA
* * * * *
4383539 AAAAAAGCTTCTCTCAGCAAAGGCTTAACAACTTTAAAAATTCTCATCTT-G
1 AAAAAGGCTCCTCTCAGTAAAGGCTCAACAACTTTAAAAATTCTCATCTTAA
** ** * * * * *
4383590 AAAAA-GCTTTTCTCAACAAAGGTTCAACAATTTTTGAAAATT-TAAAATCTGAAAA
1 AAAAAGGCTCCTCTCAGTAAAGGCTCAACAA-CTTTAAAAATTCT--CATCT--TAA
** * *
4383645 AAAAAAACTCCTCTCAGTAAAGGCTCAACAACTTAAAAAATT-TTATCTT-A
1 AAAAAGGCTCCTCTCAGTAAAGGCTCAACAACTTTAAAAATTCTCATCTTAA
* * * * *
4383695 AAAAAGGCTCCTGTCAATAGAGGCTCGACAACTTTAAAAA-TCTCATCTGAA
1 AAAAAGGCTCCTCTCAGTAAAGGCTCAACAACTTTAAAAATTCTCATCTTAA
* * * * *
4383746 AAAATGGCTCCTTTCAGTAGAGGCTCAACAACTTTAAAAATTTTCATCTTGA
1 AAAAAGGCTCCTCTCAGTAAAGGCTCAACAACTTTAAAAATTCTCATCTTAA
* *
4383798 AAAAGGGCTCCCCTCAGTAAAGGCTCAACAACTTTAAAA
1 AAAAAGGCTCCTCTCAGTAAAGGCTCAACAACTTTAAAA
4383837 TTTTAATCTA
Statistics
Matches: 243, Mismatches: 45, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.00
50 61 0.25
51 51 0.21
52 93 0.38
53 4 0.02
55 14 0.06
56 19 0.08
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (52 bp):
AAAAAGGCTCCTCTCAGTAAAGGCTCAACAACTTTAAAAATTCTCATCTTAA
Found at i:4383732 original size:51 final size:50
Alignment explanation
Indices: 4383652--4383841 Score: 238
Period size: 51 Copynumber: 3.8 Consensus size: 50
4383642 AAAAAAAAAA
* *
4383652 CTCCTCTCAGTAAAGGCTCAACAACTTAAAAAATTTTATCTTAAAAAAGG
1 CTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAAGG
* * * * * *
4383702 CTCCTGTCAATAGAGGCTCGACAACTTTAAAAATCTCATCTGAAAAAATGG
1 CTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAA-GG
* *
4383753 CTCCTTTCAGTAGAGGCTCAACAACTTTAAAAATTTTCATCTTGAAAAAGGG
1 CTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTT-ATCTT-AAAAAAGG
* *
4383805 CTCCCCTCAGTAAAGGCTCAACAACTTT-AAAATTTTA
1 CTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTTA
4383842 ATCTATTCTC
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 41 0.34
51 42 0.35
52 31 0.26
53 5 0.04
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (50 bp):
CTCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTTATCTTAAAAAAGG
Found at i:4383836 original size:103 final size:102
Alignment explanation
Indices: 4383486--4383836 Score: 373
Period size: 106 Copynumber: 3.4 Consensus size: 102
4383476 GCTCTTTTTA
* * * *
4383486 GAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTCTCATCTTAAAAAAAAGCTTCT
1 GAAAAAGGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAA-TCTCATCTGAAAAAAAAGCTCCT
* * *
4383551 CTCAGCAAAGGCTTAACAACTTTAAAAATTCTCATCTT
65 CTCAGTAAAGGCTCAACAACTTTAAAAATTTTCATCTT
** * * * * * *
4383589 GAAAAA-GCTTTTCTCAACAAAGGTTCAACAATTTTTGAAAATTTAAAATCTGAAAAAAAAAAAC
1 GAAAAAGGCTCCTCTCAACAAAGGCTCAACAA-CTTTAAAAATCT--CATCTG--AAAAAAAAGC
*
4383653 TCCTCTCAGTAAAGGCTCAACAACTTAAAAAATTTT-ATCTT
61 TCCTCTCAGTAAAGGCTCAACAACTTTAAAAATTTTCATCTT
* * * * * ** *
4383694 AAAAAAGGCTCCTGTCAATAGAGGCTCGACAACTTTAAAAATCTCATCTGAAAAAATGGCTCCTT
1 GAAAAAGGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAAAAGCTCCTC
*
4383759 TCAGTAGAGGCTCAACAACTTTAAAAATTTTCATCTT
66 TCAGTAAAGGCTCAACAACTTTAAAAATTTTCATCTT
* **
4383796 GAAAAAGGGCTCCCCTCAGTAAAGGCTCAACAACTTTAAAA
1 GAAAAA-GGCTCCTCTCAACAAAGGCTCAACAACTTTAAAA
4383837 TTTTAATCTA
Statistics
Matches: 200, Mismatches: 40, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
101 40 0.20
102 32 0.16
103 47 0.23
104 4 0.02
105 19 0.09
106 58 0.29
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.27
Consensus pattern (102 bp):
GAAAAAGGCTCCTCTCAACAAAGGCTCAACAACTTTAAAAATCTCATCTGAAAAAAAAGCTCCTC
TCAGTAAAGGCTCAACAACTTTAAAAATTTTCATCTT
Found at i:4388025 original size:21 final size:21
Alignment explanation
Indices: 4388000--4388053 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
4387990 AAATGCATAA
4388000 AAGGGATCGATCTCCCCACAT
1 AAGGGATCGATCTCCCCACAT
4388021 AAGGGATCGATCTCCCCACAT
1 AAGGGATCGATCTCCCCACAT
4388042 AAGGGATCGATC
1 AAGGGATCGATC
4388054 ACCTAAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (21 bp):
AAGGGATCGATCTCCCCACAT
Found at i:4389357 original size:18 final size:18
Alignment explanation
Indices: 4389334--4389374 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
4389324 TTTCTGTTTG
4389334 ATTGATGATCTTAATGAT
1 ATTGATGATCTTAATGAT
4389352 ATTGATGATCTTAATGAT
1 ATTGATGATCTTAATGAT
4389370 ATTGA
1 ATTGA
4389375 CATTGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (18 bp):
ATTGATGATCTTAATGAT
Found at i:4389578 original size:21 final size:21
Alignment explanation
Indices: 4389554--4389604 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4389544 TTTGACAAAA
*
4389554 CAAAATTTGCCTAA-CTTGAAT
1 CAAAATTT-CCTAATCTTAAAT
*
4389575 CAAACTTTCCTAATCTTAAAT
1 CAAAATTTCCTAATCTTAAAT
4389596 CAAACATTT
1 CAAA-ATTT
4389605 TTCCAACCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 5 0.20
21 17 0.68
22 3 0.12
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (21 bp):
CAAAATTTCCTAATCTTAAAT
Found at i:4393956 original size:89 final size:89
Alignment explanation
Indices: 4393805--4393970 Score: 269
Period size: 89 Copynumber: 1.9 Consensus size: 89
4393795 AACTCTTACG
*
4393805 GAAGCTAAGTGCTACACAGTGGAAGCCACCTCTAAAATCCCAACACTTGGTATGATCTTGTGATC
1 GAAGCTAAGTGCTACACAGTGGAAGCCACCTCTAAAATCCCAACACTTGATATGATCTTGTGATC
4393870 TATGTGTGCTTCATGAATCGTACA
66 TATGTGTGCTTCATGAATCGTACA
* * * * *
4393894 GAAGCTAAGTGCTATACGGTGGAAGCCACCTCTAAAATCCCAATATTTGATGTGATCTTGTGATC
1 GAAGCTAAGTGCTACACAGTGGAAGCCACCTCTAAAATCCCAACACTTGATATGATCTTGTGATC
*
4393959 TGTGTGTGCTTC
66 TATGTGTGCTTC
4393971 GTGTTGGGCT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (89 bp):
GAAGCTAAGTGCTACACAGTGGAAGCCACCTCTAAAATCCCAACACTTGATATGATCTTGTGATC
TATGTGTGCTTCATGAATCGTACA
Found at i:4395208 original size:104 final size:104
Alignment explanation
Indices: 4395011--4395209 Score: 272
Period size: 104 Copynumber: 1.9 Consensus size: 104
4395001 TCTAGAACCT
* * * * * *
4395011 CAACATTTGGTATGATCCTATGATTTGTGTATACTTTATATTGGGCTTGCCTAACATTTGGTGTG
1 CAACATCTGGTATGATCCTATGATCTATGTATACTTTATACTAGGCTTGCCCAACATTTGGTGTG
*
4395076 ATTCGATGGATCTGTGTACTTATGTTAAGCATGACGTCC
66 ATTCGATGGATCTGTGTACTTATATTAAGCATGACGTCC
* * * *
4395115 CAACATCTGGTGTGATCCTATGATCTATGTGTACTTTGTACTAGGCTTGCCCAAGATTTGGTGTG
1 CAACATCTGGTATGATCCTATGATCTATGTATACTTTATACTAGGCTTGCCCAACATTTGGTGTG
* * *
4395180 ATTCGATGGATTTGTGTGCTTGTATTAAGC
66 ATTCGATGGATCTGTGTACTTATATTAAGC
4395210 TTAATAAGGA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 81 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.40
Consensus pattern (104 bp):
CAACATCTGGTATGATCCTATGATCTATGTATACTTTATACTAGGCTTGCCCAACATTTGGTGTG
ATTCGATGGATCTGTGTACTTATATTAAGCATGACGTCC
Found at i:4395329 original size:42 final size:42
Alignment explanation
Indices: 4395267--4395348 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
4395257 TCCCACATCG
4395267 GGATGCTTTGAGGATATGCTATGATATATATATATAGAGGTA
1 GGATGCTTTGAGGATATGCTATGATATATATATATAGAGGTA
* *
4395309 GGATGCTTTGA-GACTCTGCTATGATATATATATATGGAGG
1 GGATGCTTTGAGGA-TATGCTATGATATATATATATAGAGG
4395349 CTTAAACCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (42 bp):
GGATGCTTTGAGGATATGCTATGATATATATATATAGAGGTA
Found at i:4398728 original size:28 final size:28
Alignment explanation
Indices: 4398688--4398749 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
4398678 TGATTATCTC
4398688 ATTTGATTAGCCATAATTAGACTTTTTT
1 ATTTGATTAGCCATAATTAGACTTTTTT
4398716 ATTTGATTAGCCATAATTAGACTTTTTT
1 ATTTGATTAGCCATAATTAGACTTTTTT
4398744 ATTTGA
1 ATTTGA
4398750 GGTGAACTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.10, G:0.11, T:0.50
Consensus pattern (28 bp):
ATTTGATTAGCCATAATTAGACTTTTTT
Found at i:4401619 original size:21 final size:21
Alignment explanation
Indices: 4401569--4401633 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 21
4401559 TATAATTACA
*
4401569 TTATTTAAAA-AATTATTTAT
1 TTATTTAAAATAATTATTAAT
4401589 TTATTATAAAATAATGTATTAAT
1 TTATT-TAAAATAAT-TATTAAT
4401612 TTA-TTAAAATAATTATTTAAT
1 TTATTTAAAATAATTA-TTAAT
4401633 T
1 T
4401634 ATCATATGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 7 0.17
21 20 0.50
22 4 0.10
23 9 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTATTTAAAATAATTATTAAT
Found at i:4403109 original size:14 final size:15
Alignment explanation
Indices: 4403090--4403120 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4403080 AAAGCAATTA
4403090 TCATTTTGATTT-TT
1 TCATTTTGATTTCTT
4403104 TCATTTTGATTTCTT
1 TCATTTTGATTTCTT
4403119 TC
1 TC
4403121 TTTGTCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (15 bp):
TCATTTTGATTTCTT
Found at i:4404150 original size:7 final size:7
Alignment explanation
Indices: 4404138--4404164 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4404128 TATTGTTTGT
4404138 TTTTATA
1 TTTTATA
4404145 TTTTATA
1 TTTTATA
4404152 TTTTATA
1 TTTTATA
4404159 TTTTAT
1 TTTTAT
4404165 TCATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTATA
Found at i:4408362 original size:25 final size:25
Alignment explanation
Indices: 4408316--4408375 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
4408306 TATTTTTATA
**
4408316 TATGTAATTAATTAATTAAACTTGGT
1 TATG-AATTAATTAAACAAACTTGGT
* *
4408342 TATGAATTAATTAAACCAACTTGTT
1 TATGAATTAATTAAACAAACTTGGT
*
4408367 TATAAATTA
1 TATGAATTA
4408376 TCCTAACTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (25 bp):
TATGAATTAATTAAACAAACTTGGT
Found at i:4410142 original size:25 final size:23
Alignment explanation
Indices: 4410106--4410159 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
4410096 AATTTTTTAA
*
4410106 TTTTTAATTTTAATACTTATAATT-
1 TTTTTTATTTT-ATAC-TATAATTC
4410130 TTTTTTATCTTTATACTATAATTC
1 TTTTTTAT-TTTATACTATAATTC
4410154 TTTTTT
1 TTTTTT
4410160 GTAAAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 7 0.26
24 17 0.63
25 3 0.11
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTTATTTTATACTATAATTC
Found at i:4414777 original size:18 final size:18
Alignment explanation
Indices: 4414750--4414784 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4414740 TATTAACTTC
4414750 TATAACTATTATAATATG
1 TATAACTATTATAATATG
* *
4414768 TATAATTATTTTAATAT
1 TATAACTATTATAATAT
4414785 TTTTAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (18 bp):
TATAACTATTATAATATG
Found at i:4414814 original size:32 final size:32
Alignment explanation
Indices: 4414776--4414845 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
4414766 TGTATAATTA
* *
4414776 TTTTAATATTTTTAAATAAAATAATATTTAAT
1 TTTTAATAATATTAAATAAAATAATATTTAAT
* *
4414808 TTTTAATAATATTAAATATAATAATTTTTAAT
1 TTTTAATAATATTAAATAAAATAATATTTAAT
*
4414840 TATTAA
1 TTTTAA
4414846 AAAATAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTTTAATAATATTAAATAAAATAATATTTAAT
Found at i:4414818 original size:25 final size:25
Alignment explanation
Indices: 4414777--4414884 Score: 75
Period size: 25 Copynumber: 4.3 Consensus size: 25
4414767 GTATAATTAT
*
4414777 TTTAATATTTTTA-AATAAAATAATA
1 TTTAAT-TTTTAATAATAAAATAATA
4414802 TTTAATTTTTAATAATATTAAAT-ATA
1 TTTAATTTTTAATAATA--AAATAATA
* *
4414828 -ATAATTTTTAATTATTAAAA-AATA
1 TTTAATTTTTAA-TAATAAAATAATA
* *
4414852 -ATAATTTTTAATCAAATAAAATGAT-
1 TTTAATTTTTAAT--AATAAAATAATA
4414877 TTTAATTT
1 TTTAATTT
4414885 ACAAATGATA
Statistics
Matches: 68, Mismatches: 6, Indels: 17
0.75 0.07 0.19
Matches are distributed among these distances:
23 1 0.01
24 22 0.32
25 26 0.38
26 15 0.22
27 4 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
TTTAATTTTTAATAATAAAATAATA
Found at i:4414852 original size:24 final size:24
Alignment explanation
Indices: 4414804--4414863 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
4414794 AAATAATATT
*
4414804 TAATTTTTAATAATATTAAATATAA
1 TAATTTTTAAT-ATATTAAAAATAA
4414829 TAATTTTTAAT-TATTAAAAAATAA
1 TAATTTTTAATATATT-AAAAATAA
4414853 TAATTTTTAAT
1 TAATTTTTAAT
4414864 CAAATAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 4 0.12
24 18 0.55
25 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATTTTTAATATATTAAAAATAA
Found at i:4414872 original size:24 final size:23
Alignment explanation
Indices: 4414804--4414872 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
4414794 AAATAATATT
*
4414804 TAATTTTTAATAATATTAAATATAA
1 TAATTTTTAATAA-A-TAAAAATAA
* *
4414829 TAATTTTTAATTATTAAAAAATAA
1 TAATTTTTAATAAAT-AAAAATAA
4414853 TAATTTTTAATCAAATAAAA
1 TAATTTTTAAT-AAATAAAA
4414873 TGATTTTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 22 0.59
25 14 0.38
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATTTTTAATAAATAAAAATAA
Found at i:4418013 original size:15 final size:16
Alignment explanation
Indices: 4417980--4418016 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
4417970 GGGGAGGGAG
4417980 AAAATAATTCAACTCA
1 AAAATAATTCAACTCA
*
4417996 AAAAT-ATTCAAC-CT
1 AAAATAATTCAACTCA
4418010 AAAATAA
1 AAAATAA
4418017 ATCCATACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAATTCAACTCA
Found at i:4418364 original size:16 final size:16
Alignment explanation
Indices: 4418324--4418367 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
4418314 TATAATAAAA
4418324 TTTGATAACTTTT--T
1 TTTGATAACTTTTGAT
*
4418338 TAT-ATAA-TTTTGAT
1 TTTGATAACTTTTGAT
4418352 TTTGATAACTTTTGAT
1 TTTGATAACTTTTGAT
4418368 ACTAATTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
12 4 0.17
13 4 0.17
14 5 0.21
15 4 0.17
16 7 0.29
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (16 bp):
TTTGATAACTTTTGAT
Found at i:4418475 original size:21 final size:21
Alignment explanation
Indices: 4418437--4418476 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4418427 AGTAATTAAT
*
4418437 TTTTTAATAATTTATGATATA
1 TTTTTAATAATTCATGATATA
4418458 TTTTTAATAA-TCACTGATA
1 TTTTTAATAATTCA-TGATA
4418477 AAATTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTTTAATAATTCATGATATA
Found at i:4425626 original size:20 final size:21
Alignment explanation
Indices: 4425603--4425641 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
4425593 TTAATTAAAA
4425603 AAAATGACA-AAAG-GAAATGC
1 AAAA-GACATAAAGAGAAATGC
4425623 AAAAGACATAAAGAGAAAT
1 AAAAGACATAAAGAGAAAT
4425642 ATCAGTGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.64, C:0.08, G:0.18, T:0.10
Consensus pattern (21 bp):
AAAAGACATAAAGAGAAATGC
Found at i:4429142 original size:20 final size:20
Alignment explanation
Indices: 4429104--4429142 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4429094 AGGATTATGT
* * *
4429104 TTAAGCTTGTTGATTTATCC
1 TTAAACTTGTAGATCTATCC
4429124 TTAAACTTGTAGATCTATC
1 TTAAACTTGTAGATCTATC
4429143 AACTTTGACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (20 bp):
TTAAACTTGTAGATCTATCC
Found at i:4430761 original size:14 final size:14
Alignment explanation
Indices: 4430742--4430771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4430732 TCTACCAACC
*
4430742 TTTTTTCTTCTCTG
1 TTTTTTCTTCCCTG
4430756 TTTTTTCTTCCCTG
1 TTTTTTCTTCCCTG
4430770 TT
1 TT
4430772 CGAGGTCTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTTTCTTCCCTG
Found at i:4438884 original size:3 final size:3
Alignment explanation
Indices: 4438876--4438900 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4438866 AAATGTTGAA
4438876 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
4438901 GAAAATGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4440099 original size:19 final size:19
Alignment explanation
Indices: 4440077--4440117 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
4440067 CAAAATCTAT
*
4440077 ACTTATAGAAGAAATGATA
1 ACTTATAGAAGAAACGATA
4440096 ACTTATAGAAGAAACGATA
1 ACTTATAGAAGAAACGATA
4440115 ACT
1 ACT
4440118 AGAAAGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (19 bp):
ACTTATAGAAGAAACGATA
Found at i:4440613 original size:14 final size:14
Alignment explanation
Indices: 4440577--4440615 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
4440567 TATTTAAGAA
4440577 AAAATATTTATAGT
1 AAAATATTTATAGT
*
4440591 AAAATATTTATATTT
1 AAAATATTTATA-GT
4440606 AAAA-ATTTAT
1 AAAATATTTAT
4440616 TTATATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (14 bp):
AAAATATTTATAGT
Found at i:4454377 original size:22 final size:22
Alignment explanation
Indices: 4454352--4454394 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4454342 TCTTTTGCCT
4454352 TTAATTCTAGAGATACAAATAC
1 TTAATTCTAGAGATACAAATAC
4454374 TTAATTCTAGAGATACAAATA
1 TTAATTCTAGAGATACAAATA
4454395 TAAATATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAC
Found at i:4458108 original size:25 final size:25
Alignment explanation
Indices: 4458072--4458131 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
4458062 AATGGCTATA
*
4458072 AAGGCCTTAACAAGGTTCGACAATG
1 AAGGCCTAAACAAGGTTCGACAATG
*
4458097 AAGGCCTAAACAGGGTTCGACAATG
1 AAGGCCTAAACAAGGTTCGACAATG
*
4458122 AAGACCTAAA
1 AAGGCCTAAA
4458132 ATAGAAGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (25 bp):
AAGGCCTAAACAAGGTTCGACAATG
Found at i:4458416 original size:22 final size:22
Alignment explanation
Indices: 4458391--4458434 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4458381 ATTTTTTGTC
**
4458391 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAAAGATACAAATA
4458413 CTTAATTCTAAAGATACAAATA
1 CTTAATTCTAAAGATACAAATA
4458435 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAAAGATACAAATA
Found at i:4462272 original size:2 final size:2
Alignment explanation
Indices: 4462265--4462299 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4462255 CAAGGGAGCA
4462265 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4462300 GACACACACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4462948 original size:22 final size:22
Alignment explanation
Indices: 4462912--4463067 Score: 109
Period size: 22 Copynumber: 7.1 Consensus size: 22
4462902 ACTACCAAGC
* *
4462912 TATCAATAATATATTACTAAAT
1 TATCAATGATTTATTACTAAAT
**
4462934 TATCAATGATTTATTGTTAAAT
1 TATCAATGATTTATTACTAAAT
* * * *
4462956 TAGCATTGATTTA-TATTAATT
1 TATCAATGATTTATTACTAAAT
* *
4462977 TATGAATGATTTATTACTAAGT
1 TATCAATGATTTATTACTAAAT
* * *
4462999 TATGAATGATTTACTATTAAAT
1 TATCAATGATTTATTACTAAAT
* * **
4463021 TATTAAAGATTTGCTACTAAAT
1 TATCAATGATTTATTACTAAAT
* * *
4463043 TATTAATAATTTGTTA-TAAAGT
1 TATCAATGATTTATTACTAAA-T
4463065 TAT
1 TAT
4463068 AACTGATATA
Statistics
Matches: 109, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
21 20 0.18
22 89 0.82
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (22 bp):
TATCAATGATTTATTACTAAAT
Found at i:4463032 original size:65 final size:65
Alignment explanation
Indices: 4462916--4463090 Score: 156
Period size: 65 Copynumber: 2.7 Consensus size: 65
4462906 CCAAGCTATC
* * * * * ** * *
4462916 AATAATATATTACTAAATTATCAATGATTTATTGTTAAATTAGCATTGATTT-ATATTAATTTAT
1 AATAATTTATTACTAAGTTAT-AATGATTTACTATTAAATTATCAAAGATTTGATACTAAATTAT
4462980 G
65 G
* * *
4462981 AATGATTTATTACTAAGTTATGAATGATTTACTATTAAATTATTAAAGATTTGCTACTAAATTAT
1 AATAATTTATTACTAAGTTAT-AATGATTTACTATTAAATTATCAAAGATTTGATACTAAATTAT
*
4463046 T
65 G
* * *
4463047 AATAATTTGTTA-TAAAGTTATAACTGATATACTATTAATTTATC
1 AATAATTTATTACT-AAGTTATAA-TGATTTACTATTAAATTATC
4463091 GATAATTTAC
Statistics
Matches: 88, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
65 45 0.51
66 43 0.49
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (65 bp):
AATAATTTATTACTAAGTTATAATGATTTACTATTAAATTATCAAAGATTTGATACTAAATTATG
Found at i:4463169 original size:52 final size:52
Alignment explanation
Indices: 4463067--4463171 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
4463057 TATAAAGTTA
* * * * *
4463067 TAACTGATATACTATTAATTTATCGATAATTTACTATAAAGCTATTAATGAT
1 TAACTAATATACTACTAAATTATCCATAATTTACTATAAAGCTATCAATGAT
* *
4463119 TAACTAATTTACTACTAAATTATCCATAATTTACATATAAA-TTATCAATGAT
1 TAACTAATATACTACTAAATTATCCATAATTTAC-TATAAAGCTATCAATGAT
4463171 T
1 T
4463172 TATTATTATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 39 0.87
53 6 0.13
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (52 bp):
TAACTAATATACTACTAAATTATCCATAATTTACTATAAAGCTATCAATGAT
Found at i:4463335 original size:22 final size:22
Alignment explanation
Indices: 4463123--4463337 Score: 68
Period size: 22 Copynumber: 9.9 Consensus size: 22
4463113 AATGATTAAC
*
4463123 TAATTTACTACTAAATTATCCA
1 TAATTTACTATTAAATTATCCA
*
4463145 TAATTTAC-ATATAAATTATCAA
1 TAATTTACTAT-TAAATTATCCA
* * ** **
4463167 TGATTTATTATTATGTT-TTTA
1 TAATTTACTATTAAATTATCCA
* * **
4463188 TGCATTTATTATTATGTTAT-CA
1 T-AATTTACTATTAAATTATCCA
* * **
4463210 TAGATTTACTACTT-AGTTTTTGA
1 TA-ATTTACTA-TTAAATTATCCA
* * *
4463233 TTATTTACTATAAAATCAT-CA
1 TAATTTACTATTAAATTATCCA
* * *
4463254 TAGATCTA-TACTAAATTAACCA
1 TA-ATTTACTATTAAATTATCCA
* * ** *
4463276 TGATTTATTACCAAGTTAT-CA
1 TAATTTACTATTAAATTATCCA
*
4463297 CTAATTTA-TTTTAAATTATCCA
1 -TAATTTACTATTAAATTATCCA
4463319 TAATTTACTATTAAATTAT
1 TAATTTACTATTAAATTAT
4463338 TTAACTATTA
Statistics
Matches: 141, Mismatches: 38, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
21 34 0.24
22 100 0.71
23 7 0.05
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (22 bp):
TAATTTACTATTAAATTATCCA
Found at i:4463344 original size:16 final size:16
Alignment explanation
Indices: 4463321--4463356 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4463311 ATTATCCATA
4463321 ATTT-ACTATTAAATT
1 ATTTAACTATTAAATT
*
4463336 ATTTAACTATTATATT
1 ATTTAACTATTAAATT
4463352 ATTTA
1 ATTTA
4463357 TGATTAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTAACTATTAAATT
Found at i:4463433 original size:22 final size:22
Alignment explanation
Indices: 4463405--4463571 Score: 88
Period size: 22 Copynumber: 7.6 Consensus size: 22
4463395 TTAATAATTA
4463405 ACTATTAAATTATCATTGATTT
1 ACTATTAAATTATCATTGATTT
* * *
4463427 ATTATTAAATTAT-TTATAATTT
1 ACTATTAAATTATCAT-TGATTT
* * *
4463449 ACTACTAAGTTTATCAATT-AATT
1 ACTATTAA-ATTATC-ATTGATTT
* * * **
4463472 ATTACTAAACTAAGATTGATTT
1 ACTATTAAATTATCATTGATTT
* * * *
4463494 CCTA-TAAGTTATCACTAATTT
1 ACTATTAAATTATCATTGATTT
*
4463515 ACTATTAAGTTATCATTGATTT
1 ACTATTAAATTATCATTGATTT
* * * *
4463537 ATTATTAAGTTATCAATGATTA
1 ACTATTAAATTATCATTGATTT
* *
4463559 ACAACTAAATTAT
1 ACTATTAAATTAT
4463572 TACTCTTTTT
Statistics
Matches: 107, Mismatches: 32, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
21 18 0.17
22 73 0.68
23 14 0.13
24 1 0.01
25 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (22 bp):
ACTATTAAATTATCATTGATTT
Found at i:4463649 original size:8 final size:7
Alignment explanation
Indices: 4463619--4463648 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
4463609 GTTATTATGC
4463619 ATTTAAA
1 ATTTAAA
4463626 ATTATAAA
1 ATT-TAAA
4463634 ATTTAAA
1 ATTTAAA
4463641 ATTTAAA
1 ATTTAAA
4463648 A
1 A
4463649 AGTCCACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATTTAAA
Found at i:4463649 original size:15 final size:15
Alignment explanation
Indices: 4463619--4463648 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4463609 GTTATTATGC
4463619 ATTTAAAATTATAAA
1 ATTTAAAATTATAAA
4463634 ATTTAAAATT-TAAA
1 ATTTAAAATTATAAA
4463648 A
1 A
4463649 AGTCCACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTAAAATTATAAA
Found at i:4463915 original size:22 final size:22
Alignment explanation
Indices: 4463890--4464072 Score: 113
Period size: 22 Copynumber: 8.4 Consensus size: 22
4463880 GTTATCAAGA
*
4463890 ATTTACTATTAAATTATTAGTG
1 ATTTACTATTAAATTATTAATG
* * *
4463912 ATTTA-TTTCTAATTTATGAATG
1 ATTTACTAT-TAAATTATTAATG
* * * *
4463934 ATTTACCATTAAATCATGAAAG
1 ATTTACTATTAAATTATTAATG
* * *
4463956 ATCTATCT-TTAAGTTATGAATG
1 ATTTA-CTATTAAATTATTAATG
* *
4463978 ATTT-TTATTAAATTATTAGTG
1 ATTTACTATTAAATTATTAATG
* * * * *
4463999 ATTTACCATCAAGTTATTGATA
1 ATTTACTATTAAATTATTAATG
* *
4464021 ATTTATTATAAAATTA-TAATTG
1 ATTTACTATTAAATTATTAA-TG
* *
4464043 ATTTACTATTAATTTACTAATG
1 ATTTACTATTAAATTATTAATG
4464065 ATTTACTA
1 ATTTACTA
4464073 AAATGTTATC
Statistics
Matches: 119, Mismatches: 35, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
20 1 0.01
21 19 0.16
22 94 0.79
23 5 0.04
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAATTATTAATG
Found at i:4463945 original size:44 final size:44
Alignment explanation
Indices: 4463890--4464072 Score: 142
Period size: 44 Copynumber: 4.2 Consensus size: 44
4463880 GTTATCAAGA
*
4463890 ATTTACTATTAAATTATTAGTGATTTAT-TTCTAATTTATGAATG
1 ATTTACTATTAAATTATTAGTGATTTATCTT-TAAGTTATGAATG
* * * ** *
4463934 ATTTACCATTAAATCATGAAAGATCTATCTTTAAGTTATGAATG
1 ATTTACTATTAAATTATTAGTGATTTATCTTTAAGTTATGAATG
* * * * *
4463978 ATTT-TTATTAAATTATTAGTGATTTACCATCAAGTTATTG-ATA
1 ATTTACTATTAAATTATTAGTGATTTATCTTTAAGTTA-TGAATG
* * * * *
4464021 ATTTATTATAAAATTATAATTGATTTA-CTATTAATTTACT-AATG
1 ATTTACTATTAAATTATTAGTGATTTATCT-TTAAGTTA-TGAATG
4464065 ATTTACTA
1 ATTTACTA
4464073 AAATGTTATC
Statistics
Matches: 107, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
43 30 0.28
44 75 0.70
45 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (44 bp):
ATTTACTATTAAATTATTAGTGATTTATCTTTAAGTTATGAATG
Found at i:4464177 original size:22 final size:22
Alignment explanation
Indices: 4464095--4464179 Score: 66
Period size: 22 Copynumber: 3.9 Consensus size: 22
4464085 TAATTAATTA
* *
4464095 ATTTACTACTAAATTATCATTG
1 ATTTACTACTAAATTATTAGTG
* **
4464117 ATTTA-TAGTTATGTTATTAGTG
1 ATTTACTA-CTAAATTATTAGTG
** *
4464139 ATTTACT-CTTACGTTATTGGTG
1 ATTTACTAC-TAAATTATTAGTG
4464161 ATTTACTACTAAATTATTA
1 ATTTACTACTAAATTATTA
4464180 ATACTATTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
21 2 0.04
22 44 0.92
23 2 0.04
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (22 bp):
ATTTACTACTAAATTATTAGTG
Found at i:4464190 original size:17 final size:17
Alignment explanation
Indices: 4464164--4464199 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4464154 ATTGGTGATT
*
4464164 TACTACTAAATTATTAA
1 TACTACTAAATTATCAA
*
4464181 TACTATTAAATTATCAA
1 TACTACTAAATTATCAA
4464198 TA
1 TA
4464200 ATTTACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (17 bp):
TACTACTAAATTATCAA
Found at i:4464374 original size:22 final size:21
Alignment explanation
Indices: 4464349--4464575 Score: 61
Period size: 22 Copynumber: 10.6 Consensus size: 21
4464339 TGACTAATTA
*
4464349 ACTACTATATTATAGATGATTT
1 ACTACTAAATTATA-ATGATTT
* *
4464371 ACTATTAAATTATATTGATTT
1 ACTACTAAATTATAATGATTT
** * * * **
4464392 ACTTTTAAGTTTTCAATAATGA
1 ACTACTAAATTAT-AATGATTT
*
4464414 ACTACTAAATTATCAATTATTT
1 ACTACTAAATTAT-AATGATTT
* *
4464436 ACTA-TTAATATATCATTGATTT
1 ACTACTAAAT-TAT-AATGATTT
* * *
4464458 AGTACTAAATAATTTATGA-TT
1 ACTACTAAATTA-TAATGATTT
* * *
4464479 --TAC-AAATGT-CAATTAATT
1 ACTACTAAAT-TATAATGATTT
* *
4464497 ACTATTAAATTAAAATTGATTT
1 ACTACTAAATTATAA-TGATTT
* * * *
4464519 ACAATTAAATTATTACTAATTT
1 ACTACTAAATTA-TAATGATTT
* * *
4464541 ACTATTAAGTTATAACTGAATT
1 ACTACTAAATTATAA-TGATTT
*
4464563 ACTACTAAGTTAT
1 ACTACTAAATTAT
4464576 CAATAATTAA
Statistics
Matches: 149, Mismatches: 43, Indels: 26
0.68 0.20 0.12
Matches are distributed among these distances:
17 3 0.02
18 6 0.04
19 3 0.02
20 3 0.02
21 30 0.20
22 98 0.66
23 6 0.04
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (21 bp):
ACTACTAAATTATAATGATTT
Found at i:4464750 original size:11 final size:11
Alignment explanation
Indices: 4464736--4464795 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
4464726 TATCAATTAT
*
4464736 TTATTACTAAA
1 TTATTACTAAG
* *
4464747 TTATTATTAAT
1 TTATTACTAAG
* *
4464758 TTACTATTAAG
1 TTATTACTAAG
*
4464769 TTATTACTAAT
1 TTATTACTAAG
*
4464780 TTAGTACTAAG
1 TTATTACTAAG
4464791 TTATT
1 TTATT
4464796 GATGATTACT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.52
Consensus pattern (11 bp):
TTATTACTAAG
Found at i:4464772 original size:22 final size:22
Alignment explanation
Indices: 4464490--4464795 Score: 110
Period size: 22 Copynumber: 14.0 Consensus size: 22
4464480 ACAAATGTCA
* **
4464490 ATTAA-TTACTATTAAATTAAA
1 ATTAATTTACTATTAAGTTATT
* * *
4464511 ATTGATTTACAATTAAATTATT
1 ATTAATTTACTATTAAGTTATT
* *
4464533 ACTAATTTACTATTAAGTTATA
1 ATTAATTTACTATTAAGTTATT
* * *
4464555 ACTGAA-TTACTACTAAGTTATC
1 A-TTAATTTACTATTAAGTTATT
* *
4464577 AATAATTAACTATTAAGTTATT
1 ATTAATTTACTATTAAGTTATT
* ** * *
4464599 -TCTTATTTTTTGTTAAGTTATC
1 AT-TAATTTACTATTAAGTTATT
* *
4464621 CTTAATTTAGTATTATA-TTATT
1 ATTAATTTACTATTA-AGTTATT
*
4464643 A-TATATTTA-TAATTATA-TTATA
1 ATTA-ATTTACT-ATTA-AGTTATT
* *
4464665 ATTGATTTA-TCATTAAGCTATT
1 ATTAATTTACT-ATTAAGTTATT
* * * **
4464687 A-TCATATATTATTATTTTATT
1 ATTAATTTACTATTAAGTTATT
* * ** * *
4464708 ATTGATTTATTAAAAAATTATCA
1 ATTAATTTACTATTAAGTTAT-T
* * *
4464731 ATT-ATTTATTACTAAATTATT
1 ATTAATTTACTATTAAGTTATT
4464752 ATTAATTTACTATTAAGTTATT
1 ATTAATTTACTATTAAGTTATT
* * *
4464774 ACTAATTTAGTACTAAGTTATT
1 ATTAATTTACTATTAAGTTATT
4464796 GATGATTACT
Statistics
Matches: 214, Mismatches: 57, Indels: 27
0.72 0.19 0.09
Matches are distributed among these distances:
21 27 0.13
22 179 0.84
23 8 0.04
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.51
Consensus pattern (22 bp):
ATTAATTTACTATTAAGTTATT
Found at i:4464782 original size:44 final size:44
Alignment explanation
Indices: 4464524--4464795 Score: 140
Period size: 44 Copynumber: 6.2 Consensus size: 44
4464514 GATTTACAAT
* * *
4464524 TAAATTATTACTAATTTACTATTAAGTTATAACTGAA-TTACTAC
1 TAAATTATTATTAATTTACTATTAAGTTATTACT-AATTTATTAC
* * * * * * * **
4464568 TAAGTTATCAATAATTAACTATTAAGTTATTTCTTATTTTTTGT
1 TAAATTATTATTAATTTACTATTAAGTTATTACTAATTTATTAC
* ** * * *
4464612 TAAGTTATCCTTAATTTAGTATTATA-TTATTA-TATATTTATAAT
1 TAAATTATTATTAATTTACTATTA-AGTTATTACTA-ATTTATTAC
* * * * * * *
4464656 TATATTATAATTGATTTA-TCATTAAGCTATTA-TCATATATTAT
1 TAAATTATTATTAATTTACT-ATTAAGTTATTACTAATTTATTAC
** * * ** * * * *
4464699 TATTTTATTATTGATTTATTAAAAAATTATCAATTATTTATTAC
1 TAAATTATTATTAATTTACTATTAAGTTATTACTAATTTATTAC
*
4464743 TAAATTATTATTAATTTACTATTAAGTTATTACTAATTTAGTAC
1 TAAATTATTATTAATTTACTATTAAGTTATTACTAATTTATTAC
*
4464787 TAAGTTATT
1 TAAATTATT
4464796 GATGATTACT
Statistics
Matches: 170, Mismatches: 51, Indels: 14
0.72 0.22 0.06
Matches are distributed among these distances:
43 34 0.20
44 135 0.79
45 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (44 bp):
TAAATTATTATTAATTTACTATTAAGTTATTACTAATTTATTAC
Found at i:4466149 original size:22 final size:22
Alignment explanation
Indices: 4466104--4466163 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
4466094 TTTATTAATC
*
4466104 AACTTAAACTTGAAATAATTTAA
1 AACTTAAA-TTGAAATAATATAA
4466127 AACTTAAATTGAATATAA-ATAA
1 AACTTAAATTGAA-ATAATATAA
* *
4466149 AATTTAAATTTAAAT
1 AACTTAAATTGAAAT
4466164 TTTATTAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 2 0.06
22 19 0.58
23 12 0.36
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (22 bp):
AACTTAAATTGAAATAATATAA
Found at i:4466256 original size:18 final size:19
Alignment explanation
Indices: 4466205--4466243 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
4466195 AACATTTTTT
*
4466205 TAGTTTAATTATAAAAAAA
1 TAGTTTAATAATAAAAAAA
4466224 TAGTTTAATAATAAAAAAA
1 TAGTTTAATAATAAAAAAA
4466243 T
1 T
4466244 CATTTAAACT
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:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TAGTTTAATAATAAAAAAA
Found at i:4469869 original size:84 final size:84
Alignment explanation
Indices: 4469735--4469895 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 84
4469725 AATTATTTTA
* * *
4469735 ATTTTAGAAACTAATTAGTAGCAAATGAGGTTGAACAAAGATGGTAGGTCAGAAGTTACTAAACA
1 ATTTTAGAAACTAATTAGTAGCAAATAAGATTGAACAAAGATGGTAGGTCAGAAATTACTAAACA
4469800 GAATATTTAAATGATTCTG
66 GAATATTTAAATGATTCTG
* * * * * *
4469819 ATTTTAGAAACTCATTTGTAGCAAATAAGATAT-AAGAAAGATGTTGGGTCAGAAATTGCTAAAC
1 ATTTTAGAAACTAATTAGTAGCAAATAAGAT-TGAACAAAGATGGTAGGTCAGAAATTACTAAAC
*
4469883 AGAATGTTTAAAT
65 AGAATATTTAAAT
4469896 ATCTGAATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
84 65 0.98
85 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.30
Consensus pattern (84 bp):
ATTTTAGAAACTAATTAGTAGCAAATAAGATTGAACAAAGATGGTAGGTCAGAAATTACTAAACA
GAATATTTAAATGATTCTG
Found at i:4471321 original size:130 final size:130
Alignment explanation
Indices: 4471088--4471349 Score: 434
Period size: 130 Copynumber: 2.0 Consensus size: 130
4471078 TTAATTTGGA
* * * * *
4471088 TTGCTCATGCCACATGGTAATATGCCTCCAATAAGTACATACTTAGTAAGCAGTGTACCTACTAA
1 TTGCTCATACCACATGCTAACATGCCTCCAATAAGTACAAACTTAGTAAGCAGTGTACCTACCAA
*
4471153 AGAAAGGTTATGTAACTTCCAAATCAGAGAATTTACATATCAAGGATTTAATAATCCTCTTATAT
66 AGAAAGGTTATGTAACTTCCAAATCAGAGAATTAACATATCAAGGATTTAATAATCCTCTTATAT
* *
4471218 TTGCTCATACCACATTCTAACATGCCTCCAATAAGTACAAACTTGGTAAGCAGTGTACCTACCAA
1 TTGCTCATACCACATGCTAACATGCCTCCAATAAGTACAAACTTAGTAAGCAGTGTACCTACCAA
* *
4471283 AGAAAGGTTATGTAACTTTCAAATCAGAGAATTAACATATCAAGGATTTAATAATTCTCTTATAT
66 AGAAAGGTTATGTAACTTCCAAATCAGAGAATTAACATATCAAGGATTTAATAATCCTCTTATAT
4471348 TT
1 TT
4471350 CATCCTTCAA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 122 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (130 bp):
TTGCTCATACCACATGCTAACATGCCTCCAATAAGTACAAACTTAGTAAGCAGTGTACCTACCAA
AGAAAGGTTATGTAACTTCCAAATCAGAGAATTAACATATCAAGGATTTAATAATCCTCTTATAT
Found at i:4473327 original size:13 final size:13
Alignment explanation
Indices: 4473309--4473369 Score: 73
Period size: 13 Copynumber: 5.2 Consensus size: 13
4473299 TATTATTATT
4473309 ATACTTAAATTAA
1 ATACTTAAATTAA
4473322 ATACTTAAATTAA
1 ATACTTAAATTAA
4473335 ATA--TAAA-T--
1 ATACTTAAATTAA
4473343 -T-CTTAAATTAA
1 ATACTTAAATTAA
4473354 ATACTTAAATTAA
1 ATACTTAAATTAA
4473367 ATA
1 ATA
4473370 TAAATTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
7 1 0.02
8 4 0.10
9 1 0.02
10 1 0.02
11 4 0.10
12 1 0.02
13 29 0.71
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (13 bp):
ATACTTAAATTAA
Found at i:4473352 original size:32 final size:32
Alignment explanation
Indices: 4473312--4473375 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
4473302 TATTATTATA
4473312 CTTAAATTAAATACTTAAATTAAATATAAATT
1 CTTAAATTAAATACTTAAATTAAATATAAATT
4473344 CTTAAATTAAATACTTAAATTAAATATAAATT
1 CTTAAATTAAATACTTAAATTAAATATAAATT
4473376 ATTATACTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (32 bp):
CTTAAATTAAATACTTAAATTAAATATAAATT
Found at i:4473374 original size:19 final size:19
Alignment explanation
Indices: 4473313--4473356 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
4473303 ATTATTATAC
4473313 TTAAAT-TAAATACTTAAA
1 TTAAATATAAATACTTAAA
*
4473331 TTAAATATAAATTCTTAAA
1 TTAAATATAAATACTTAAA
4473350 TTAAATA
1 TTAAATA
4473357 CTTAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TTAAATATAAATACTTAAA
Found at i:4473435 original size:28 final size:26
Alignment explanation
Indices: 4473407--4473471 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
4473397 TCTTATTTAT
4473407 TTTTATTAAATATAAATAATAATAATA
1 TTTTATTAAATATAAA-AATAATAATA
* * *
4473434 -TTTATTAATTTTATAAATAATAATA
1 TTTTATTAAATATAAAAATAATAATA
4473459 TTTTATATAAATA
1 TTTTAT-TAAATA
4473472 ATAATATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
25 10 0.32
26 17 0.55
27 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTTATTAAATATAAAAATAATAATA
Found at i:4473467 original size:19 final size:19
Alignment explanation
Indices: 4473445--4473494 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
4473435 TTATTAATTT
4473445 TATAAATAATAATATTTTA
1 TATAAATAATAATATTTTA
4473464 TATAAATAATAATATTTTA
1 TATAAATAATAATATTTTA
4473483 -A-AAATGAATAAT
1 TATAAAT-AATAAT
4473495 TTAATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 19 0.63
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TATAAATAATAATATTTTA
Found at i:4473477 original size:25 final size:24
Alignment explanation
Indices: 4473408--4473477 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
4473398 CTTATTTATT
4473408 TTTATTAAATATAAATAATAATAATA
1 TTTATT-AATAT-AATAATAATAATA
* *
4473434 TTTATTAATTTTATAAATAATAATA
1 TTTATTAATATAAT-AATAATAATA
4473459 TTTTATATAA-ATAATAATA
1 -TTTAT-TAATATAATAATA
4473478 TTTTAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 2 0.05
25 18 0.49
26 14 0.38
27 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTATTAATATAATAATAATAATA
Found at i:4473537 original size:15 final size:16
Alignment explanation
Indices: 4473515--4473567 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
4473505 ATATATAATT
*
4473515 ATATATATGAATACTAA
1 ATATATATAAATACT-A
4473532 ATATATATATTAATACTA
1 ATATATATA--AATACTA
4473550 A-ATATATAAATACTA
1 ATATATATAAATACTA
4473565 ATA
1 ATA
4473568 ATAAGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 1 0.03
17 15 0.47
18 2 0.06
19 6 0.19
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (16 bp):
ATATATATAAATACTA
Found at i:4473538 original size:19 final size:19
Alignment explanation
Indices: 4473514--4473557 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
4473504 TATATATAAT
4473514 TATATATATGAATACTAAA
1 TATATATATGAATACTAAA
*
4473533 TATATATATTAATACTAAA
1 TATATATATGAATACTAAA
4473552 TATATA
1 TATATA
4473558 AATACTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (19 bp):
TATATATATGAATACTAAA
Found at i:4473612 original size:19 final size:19
Alignment explanation
Indices: 4473588--4473634 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
4473578 AATAATGAAT
4473588 TATAGTAATAACTACAAAA
1 TATAGTAATAACTACAAAA
4473607 TATAGTAATAACTACAAAA
1 TATAGTAATAACTACAAAA
4473626 TATAGTAAT
1 TATAGTAAT
4473635 GAATAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (19 bp):
TATAGTAATAACTACAAAA
Found at i:4473677 original size:17 final size:17
Alignment explanation
Indices: 4473636--4473669 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4473626 TATAGTAATG
*
4473636 AATAAATCATACAATAT
1 AATAAATAATACAATAT
4473653 AATAAATAATACAATAT
1 AATAAATAATACAATAT
4473670 TAACAATATT
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:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAATAATACAATAT
Found at i:4473692 original size:15 final size:15
Alignment explanation
Indices: 4473668--4473699 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4473658 ATAATACAAT
4473668 ATTAACAATATTAAA
1 ATTAACAATATTAAA
*
4473683 ATTAAGAATATTAAA
1 ATTAACAATATTAAA
4473698 AT
1 AT
4473700 AATCATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (15 bp):
ATTAACAATATTAAA
Found at i:4475254 original size:25 final size:24
Alignment explanation
Indices: 4475186--4475255 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 24
4475176 TTTTGGGTTG
*
4475186 TGGTTTGAT-AAA-TTGAGTTTTCA
1 TGGTTTGATAAAACTAG-GTTTTCA
* * *
4475209 TTGTTTAATAAAAACTGGGTTTTCA
1 TGGTTTGAT-AAAACTAGGTTTTCA
4475234 TGGTTTGATAAAACTAAGGTTT
1 TGGTTTGATAAAACT-AGGTTT
4475256 CATTTTAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 7 0.19
24 6 0.16
25 22 0.59
26 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (24 bp):
TGGTTTGATAAAACTAGGTTTTCA
Found at i:4477349 original size:15 final size:17
Alignment explanation
Indices: 4477329--4477360 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
4477319 ACACTTGCTT
4477329 TATTAG-TTTGA-AAAA
1 TATTAGATTTGATAAAA
4477344 TATTAGATTTGATAAAA
1 TATTAGATTTGATAAAA
4477361 AAAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
TATTAGATTTGATAAAA
Found at i:4478183 original size:45 final size:45
Alignment explanation
Indices: 4478119--4478208 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
4478109 GCGCTAACAG
*
4478119 TTGATAACTTTTTAAGATGTGC-GGGTTTTAGATCTAGATCCAAAC
1 TTGATAACTTTTTAAGATGTGCAAGG-TTTAGATCTAGATCCAAAC
*
4478164 TTGATAACTTTTTAAGATGTGCAAGGTTTAGATCTAGATCTAAAC
1 TTGATAACTTTTTAAGATGTGCAAGGTTTAGATCTAGATCCAAAC
4478209 CCACGCGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (45 bp):
TTGATAACTTTTTAAGATGTGCAAGGTTTAGATCTAGATCCAAAC
Found at i:4480677 original size:21 final size:21
Alignment explanation
Indices: 4480593--4480678 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
4480583 ATATTAATAA
*
4480593 TATAAAAAATTATCAAAATTA
1 TATAAAAAATTATCAAAATTT
* ** *
4480614 TATCAAAGGTTAT-ATAAATTG
1 TATAAAAAATTATCA-AAATTT
* *
4480635 TATCAAATATTATCAAAATTT
1 TATAAAAAATTATCAAAATTT
4480656 TATAAAAAATTAT-AAAACTTT
1 TATAAAAAATTATCAAAA-TTT
4480677 TA
1 TA
4480679 ACAAAGGCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
20 5 0.09
21 47 0.89
22 1 0.02
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.38
Consensus pattern (21 bp):
TATAAAAAATTATCAAAATTT
Found at i:4480737 original size:27 final size:26
Alignment explanation
Indices: 4480691--4480743 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
4480681 AAAGGCTATC
* *
4480691 AAATTAATCAAAAGTTATCAAAATCA
1 AAATTAATAAAAACTTATCAAAATCA
4480717 AAATTATATAAAAACTTATCAAAATCA
1 AAATTA-ATAAAAACTTATCAAAATCA
4480744 TATAAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.28
Consensus pattern (26 bp):
AAATTAATAAAAACTTATCAAAATCA
Found at i:4480866 original size:21 final size:22
Alignment explanation
Indices: 4480832--4480881 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
4480822 ACATTATATC
4480832 ATAAGTTATCAAAATGATATTA
1 ATAAGTTATCAAAATGATATTA
*
4480854 A-AAGTTA-CTAAAATTATATTA
1 ATAAGTTATC-AAAATGATATTA
4480875 ATAAGTT
1 ATAAGTT
4480882 GTTATCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 18 0.72
22 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (22 bp):
ATAAGTTATCAAAATGATATTA
Found at i:4480968 original size:21 final size:21
Alignment explanation
Indices: 4480944--4480994 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4480934 TATATTATAT
4480944 ATTACCAAAATAATATAAAAG
1 ATTACCAAAATAATATAAAAG
* ** *
4480965 ATTACTAAAATTTTATCAAAG
1 ATTACCAAAATAATATAAAAG
*
4480986 ATTATCAAA
1 ATTACCAAA
4480995 CTTATAACAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (21 bp):
ATTACCAAAATAATATAAAAG
Found at i:4481005 original size:21 final size:20
Alignment explanation
Indices: 4480961--4481026 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
4480951 AAATAATATA
* * *
4480961 AAAGATTACTAAAATTTTATC
1 AAAGATTA-TCAAATTATAAC
4480982 AAAGATTATCAAACTTATAAC
1 AAAGATTATCAAA-TTATAAC
* * *
4481003 AAAGGTTATTAAATTATATC
1 AAAGATTATCAAATTATAAC
4481023 AAAG
1 AAAG
4481027 GTTTTTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (20 bp):
AAAGATTATCAAATTATAAC
Found at i:4481025 original size:20 final size:20
Alignment explanation
Indices: 4480972--4481035 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
4480962 AAGATTACTA
* * *
4480972 AAATTTTATCAAAGATTATC
1 AAATTATATCAAAGGTTATT
*
4480992 AAACTTATAACAAAGGTTATT
1 AAA-TTATATCAAAGGTTATT
*
4481013 AAATTATATCAAAGGTTTTT
1 AAATTATATCAAAGGTTATT
4481033 AAA
1 AAA
4481036 ATCAAAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 21 0.57
21 16 0.43
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
AAATTATATCAAAGGTTATT
Found at i:4481066 original size:20 final size:20
Alignment explanation
Indices: 4481041--4481079 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4481031 TTAAAATCAA
4481041 AATTATAGAAAAGGTTATCT
1 AATTATAGAAAAGGTTATCT
**
4481061 AATTATATTAAAGGTTATC
1 AATTATAGAAAAGGTTATC
4481080 AAAATTAAAA
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:0.05, G:0.13, T:0.38
Consensus pattern (20 bp):
AATTATAGAAAAGGTTATCT
Found at i:4481106 original size:47 final size:47
Alignment explanation
Indices: 4480989--4481091 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 47
4480979 ATCAAAGATT
* * *
4480989 ATCAAACTTATA-ACAAAGGTTAT-TAAATTATATCAAAGGTTTTTAAA
1 ATCAAAATTATAGA-AAAGGTTATCT-AATTATATCAAAGGTTATCAAA
*
4481036 ATCAAAATTATAGAAAAGGTTATCTAATTATATTAAAGGTTATCAAA
1 ATCAAAATTATAGAAAAGGTTATCTAATTATATCAAAGGTTATCAAA
*
4481083 ATTAAAATT
1 ATCAAAATT
4481092 TTATTAAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 47 0.96
48 2 0.04
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (47 bp):
ATCAAAATTATAGAAAAGGTTATCTAATTATATCAAAGGTTATCAAA
Done.