Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168359.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_58, 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: 144159
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:45623 original size:29 final size:27
Alignment explanation
Indices: 45537--45643 Score: 67
Period size: 26 Copynumber: 3.7 Consensus size: 27
45527 TTTATTGTTA
*
45537 ATAATATTAATAATATTATTATTAATAATTT
1 ATAATATTAAT--TA-TAATATTAA-AATTT
45568 AAATAATATT-ATTA-AATACTTAAAATTGATT
1 --ATAATATTAATTATAATA-TTAAAA-T--TT
*
45599 ATAATATTAATTATAATATT-GAATTT
1 ATAATATTAATTATAATATTAAAATTT
* *
45625 ATATTATTAATTATTATAT
1 ATAATATTAATTATAATAT
45644 AATGATATTG
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
26 19 0.30
28 6 0.09
29 15 0.23
30 8 0.12
31 6 0.09
32 2 0.03
33 8 0.12
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (27 bp):
ATAATATTAATTATAATATTAAAATTT
Found at i:45957 original size:26 final size:26
Alignment explanation
Indices: 45927--45991 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
45917 TAAGATTTAA
45927 AATTTATATTAATTAATTAGAAATTAT
1 AATTTATATTAATTAATT-GAAATTAT
* *
45954 -ATTTAAATTAA-TAATTTAAATTAT
1 AATTTATATTAATTAATTGAAATTAT
*
45978 AATTTTTA-TAATTA
1 AATTTATATTAATTA
45992 TAAATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
24 10 0.31
25 12 0.38
26 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
AATTTATATTAATTAATTGAAATTAT
Found at i:45972 original size:13 final size:13
Alignment explanation
Indices: 45923--45982 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 13
45913 TTAATAAGAT
*
45923 TTAA-AATTTATA
1 TTAATAATTTAAA
*
45935 TTAATTAATTAGAAA
1 TTAA-TAATT-TAAA
45950 TT-AT-ATTTAAA
1 TTAATAATTTAAA
45961 TTAATAATTTAAA
1 TTAATAATTTAAA
45974 TT-ATAATTT
1 TTAATAATTT
45983 TTATAATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 5 0.12
12 16 0.40
13 10 0.25
14 5 0.12
15 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
TTAATAATTTAAA
Found at i:46242 original size:15 final size:16
Alignment explanation
Indices: 46219--46251 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46209 ATAATATAGT
*
46219 TTAATTAAAAT-ATTA
1 TTAAATAAAATAATTA
46234 TTAAATAAAATAATTA
1 TTAAATAAAATAATTA
46250 TT
1 TT
46252 TAACTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATAAAATAATTA
Found at i:46330 original size:15 final size:15
Alignment explanation
Indices: 46300--46347 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
46290 ATGTAATTTC
46300 ATAT-AATAAA-TAT
1 ATATAAATAAATTAT
*
46313 ATATAAATTAATTAT
1 ATATAAATAAATTAT
*
46328 ATATAAATAAATAAT
1 ATATAAATAAATTAT
46343 ATATA
1 ATATA
46348 TACATAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 4 0.13
14 5 0.17
15 21 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATAAATAAATTAT
Found at i:46354 original size:13 final size:13
Alignment explanation
Indices: 46300--46357 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
46290 ATGTAATTTC
46300 ATAT-AATAAATA
1 ATATAAATAAATA
*
46312 TATATAAATTAATTA
1 -ATATAAA-TAAATA
46327 TATATAAATAAATA
1 -ATATAAATAAATA
* *
46341 ATATATATACATA
1 ATATAAATAAATA
46354 ATAT
1 ATAT
46358 TTTTATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 19 0.49
14 7 0.18
15 13 0.33
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATAAATAAATA
Found at i:46608 original size:21 final size:20
Alignment explanation
Indices: 46582--46635 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
46572 TGATAATATT
46582 TTAATAATATATTTATATCAA
1 TTAATAATATATTTA-ATCAA
* * *
46603 TTAATATTATAATTAATTAA
1 TTAATAATATATTTAATCAA
*
46623 ATAATTAATATAT
1 TTAA-TAATATAT
46636 AATTTTATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAATAATATATTTAATCAA
Found at i:47048 original size:19 final size:18
Alignment explanation
Indices: 47024--47062 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
47014 TGTTTGAAAT
47024 ATTAATAATTAATATTTTA
1 ATTAATAATTAAT-TTTTA
*
47043 ATTAATAATTTATTTTTA
1 ATTAATAATTAATTTTTA
47061 AT
1 AT
47063 AAAATAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTAATAATTAATTTTTA
Found at i:47068 original size:19 final size:19
Alignment explanation
Indices: 47027--47080 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
47017 TTGAAATATT
*
47027 AATAATTAATATTTTAATT
1 AATAATTAATATTTTAATA
*
47046 AATAATTTAT-TTTTAATAA
1 AATAATTAATATTTTAAT-A
47065 AATAATGTTAATATTT
1 AATAA--TTAATATTT
47081 GACTATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 7 0.25
19 14 0.50
21 4 0.14
22 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AATAATTAATATTTTAATA
Found at i:47559 original size:14 final size:14
Alignment explanation
Indices: 47542--47568 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47532 TCTATTTATA
47542 TATTATATTTATTG
1 TATTATATTTATTG
47556 TATTATATTTATT
1 TATTATATTTATT
47569 AAATAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (14 bp):
TATTATATTTATTG
Found at i:47757 original size:14 final size:14
Alignment explanation
Indices: 47714--47764 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
47704 AATATAAATA
47714 TTTAATT-AT-ATT
1 TTTAATTAATAATT
47726 TATTAAATTAATTAATT
1 T-TT-AATTAA-TAATT
47743 TTTAATTAATAATT
1 TTTAATTAATAATT
47757 TTTAATTA
1 TTTAATTA
47765 GATTACTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 1 0.03
13 2 0.06
14 17 0.50
15 7 0.21
16 3 0.09
17 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAATTAATAATT
Found at i:47811 original size:18 final size:19
Alignment explanation
Indices: 47763--47812 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
47753 AATTTTTAAT
*
47763 TAGATTACTTATTAATATA
1 TAGATTAATTATTAATATA
47782 TA-ATATAA-TATTAATA-A
1 TAGAT-TAATTATTAATATA
47799 TAGATTAATTATTA
1 TAGATTAATTATTA
47813 TAAATAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 6 0.22
18 17 0.63
19 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (19 bp):
TAGATTAATTATTAATATA
Found at i:47889 original size:11 final size:11
Alignment explanation
Indices: 47875--47910 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
47865 TTTGCAAATT
*
47875 ATTATTTATTA
1 ATTATTTAATA
47886 ATTATTTAATA
1 ATTATTTAATA
47897 ATTA-TTAATA
1 ATTATTTAATA
47907 ATTA
1 ATTA
47911 ATTATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTTAATA
Found at i:48033 original size:5 final size:4
Alignment explanation
Indices: 47976--48050 Score: 52
Period size: 4 Copynumber: 18.5 Consensus size: 4
47966 ATTATATCTT
47976 ATTA A-TA ATT- ATTA TATTA A-T- ATTAA ACTTA ATTA A-TA ATTA TATTA
1 ATTA ATTA ATTA ATTA -ATTA ATTA ATT-A A-TTA ATTA ATTA ATTA -ATTA
*
48023 ATTA ATATA ATCA ATTTA ATTA ATTA AT
1 ATTA AT-TA ATTA A-TTA ATTA ATTA AT
48051 ATTAAATATT
Statistics
Matches: 58, Mismatches: 2, Indels: 22
0.71 0.02 0.27
Matches are distributed among these distances:
2 1 0.02
3 11 0.19
4 26 0.45
5 18 0.31
6 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:48038 original size:22 final size:21
Alignment explanation
Indices: 47995--48052 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
47985 TATTATATTA
47995 ATATTAAACTTAAT-TAATAATT
1 ATATT-AA-TTAATATAATAATT
48017 ATATTAATTAATATAATCAATT
1 ATATTAATTAATATAAT-AATT
48039 -TAATTAATTAATAT
1 AT-ATTAATTAATAT
48053 TAAATATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.15
21 7 0.21
22 21 0.64
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTAATTAATATAATAATT
Found at i:48079 original size:21 final size:21
Alignment explanation
Indices: 48055--48095 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48045 ATTAATATTA
48055 AATATTAAAATAAATAAATAG
1 AATATTAAAATAAATAAATAG
* *
48076 AATATTTAAATAATTAAATA
1 AATATTAAAATAAATAAATA
48096 ATATTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AATATTAAAATAAATAAATAG
Found at i:49523 original size:11 final size:11
Alignment explanation
Indices: 49489--49525 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
49479 GACTATTGTT
49489 TTAAT-TAATA
1 TTAATATAATA
49499 TTAA-ATAATA
1 TTAATATAATA
*
49509 TTAATATAATT
1 TTAATATAATA
49520 TTAATA
1 TTAATA
49526 ATTAATAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 13 0.54
11 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TTAATATAATA
Found at i:49531 original size:18 final size:18
Alignment explanation
Indices: 49504--49551 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
49494 TAATATTAAA
49504 TAAT-ATTAAT-ATAATTT
1 TAATAATTAATAAT-ATTT
*
49521 TAATAATTAATAATGTTT
1 TAATAATTAATAATATTT
*
49539 TGATAATTAATAA
1 TAATAATTAATAA
49552 GAATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 4 0.15
18 21 0.78
19 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
TAATAATTAATAATATTT
Found at i:49866 original size:13 final size:14
Alignment explanation
Indices: 49847--49879 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49837 ATATTTATTA
*
49847 AATTTAAGTATAAT
1 AATTTAACTATAAT
49861 -ATTTAACTATAAT
1 AATTTAACTATAAT
49874 AATTTA
1 AATTTA
49880 TTAAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (14 bp):
AATTTAACTATAAT
Found at i:50703 original size:182 final size:181
Alignment explanation
Indices: 50321--50963 Score: 443
Period size: 182 Copynumber: 3.6 Consensus size: 181
50311 GAGTAAGCTA
** *
50321 TTTT-AAATAGTTGTAACTATTTGAATTTATTCGGTAAACAAATTTATTTTTTAAAACTCTTGCT
1 TTTTCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAAATTTATTTTTTAAAACTCTTGCT
* * * * * *
50385 TATTAACTTTCAAAATATTAAGAAATTAGTATTATTTTATTTTAAATAAGCTTTTATGAACTGAA
66 TATTAACTTTCAAAATATTAAGAAATTAGGATTATTTTATTCTAAACAAACTTGTAAGAACTGAA
* * ** * * * * *
50450 ACAATTATTTTATTTCAAAACAAAAGGTCATAACTATTTTAAATAAATAAT
131 ACAAGTATTTGATGACAAAACAAAAGGTAAGAACGATCTAAAATAAATAAT
*
50501 TTTTCAAATAGTCATAACTATTTGAACTTA-TCTGGTAAACAAATTTATTTTTTCAAATA-TTTT
1 TTTTCAAATAGTCATAACTATTTGAACTTATTC-GGTAAACAAATTTATTTTTT-AAA-ACTCTT
* *** * * *
50564 GCTTATTAATTTTTTGAATGTTAATAAATTTGGATTATTTTATTCTAAACAAACTTGTAAGATA-
63 GCTTATTAACTTTCAAAATATTAAGAAATTAGGATTATTTTATTCTAAACAAACTTGTAAGA-AC
* * *
50628 TGAAATAGGTATTTGATGACAAAACAAAAGGTAAGAACGATCTAAAATAGATAAT
127 TGAAACAAGTATTTGATGACAAAACAAAAGGTAAGAACGATCTAAAATAAATAAT
* ** *** * *
50683 TATTT-TAATCA-TTTTAACTATTTGAACTGT-TTCCACAAGCAAATTTATTTTTTAAATCTCTT
1 T-TTTCAAAT-AGTCATAACTATTTGAACT-TATTCGGTAAACAAATTTATTTTTTAAAACTCTT
* * * ** ** * * * * * * * * *
50745 ACTCATTAATTTTTGAAATATTATTAAATTAGTAATATTTT-TAACTGAATAAGCTTTTATGATC
63 GCTTATTAACTTTCAAAATATTAAGAAATTAGGATTATTTTAT-TCTAAACAAACTTGTAAGAAC
* * * * ** * * * **
50809 -GAAAACAATTGTTTTATGAC-AAA-AAAAGATATCAACGATTTGAGATTGATAAT
127 TG-AAACAAGTATTTGATGACAAAACAAAAGGTAAGAACGATCTAAAATAAATAAT
* ** *
50862 TGTTCAAATAGTC-TAACTATTTGAACTGGTTTGGTAAACAAATTTATTTTTTAAAA-TC-T-CT
1 TTTTCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAAATTTATTTTTTAAAACTCTTGCT
* ** * *
50923 TATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATT
66 TATTAACTTTCAAAATATTAAGAAATTAGGATTATTTTATT
50964 TCAAATAACC
Statistics
Matches: 366, Mismatches: 80, Indels: 39
0.75 0.16 0.08
Matches are distributed among these distances:
175 37 0.10
176 2 0.01
177 2 0.01
178 38 0.10
179 28 0.08
180 11 0.03
181 106 0.29
182 133 0.36
183 9 0.02
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (181 bp):
TTTTCAAATAGTCATAACTATTTGAACTTATTCGGTAAACAAATTTATTTTTTAAAACTCTTGCT
TATTAACTTTCAAAATATTAAGAAATTAGGATTATTTTATTCTAAACAAACTTGTAAGAACTGAA
ACAAGTATTTGATGACAAAACAAAAGGTAAGAACGATCTAAAATAAATAAT
Found at i:51420 original size:19 final size:20
Alignment explanation
Indices: 51396--51435 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
51386 TATTTAATAA
51396 ATTAATAATATTG-TTAATT
1 ATTAATAATATTGATTAATT
*
51415 ATTAATTATATTGATTAATT
1 ATTAATAATATTGATTAATT
51435 A
1 A
51436 ATAGTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
ATTAATAATATTGATTAATT
Found at i:51775 original size:12 final size:11
Alignment explanation
Indices: 51758--51791 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
51748 AAATAACCTT
51758 ATTTATTAACTG
1 ATTTATTAA-TG
51770 ATTTATTAATG
1 ATTTATTAATG
51781 ATTATATTAAT
1 ATT-TATTAAT
51792 TTATTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (11 bp):
ATTTATTAATG
Found at i:52363 original size:180 final size:180
Alignment explanation
Indices: 51914--52390 Score: 465
Period size: 180 Copynumber: 2.6 Consensus size: 180
51904 TAATATCATT
* * * * ** *
51914 AATAATACTAATTTATTAATATTT-AAAAATTAATCAGTAAGAGATTTAAAATGTAAATTTGCTT
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAAATTTAAAAAATAAATTTGATT
** * ** * * * *
51978 ACAAAACCATTTCAAATAGTTTTGACTATTTTAAAAATTATCTATTTCGAATCGTTATAACTTTT
66 ACTGAACCAGTTCAAATAGTTAAGACTA-TTGAATAATTATCTATTTCAAATCGTTATAACCTTT
* * * **
52043 TATTTTATCATCAAACAATTGGTTCTGTTTATACTATTTTATTCGAAATAA
130 TATTTTATCATAAAACAATTGGTTCTGTTCATACAAGCTTATTCGAAATAA
* * * * * * *
52094 AATAAAACTAATTTAATAATA-TTCTGAAACTTAATAACCAAGAAAATTAAAAAATAAATCTAAT
1 AATAATACTAATTTAATAATATTTC-AAAAATTAATAACTAAGAAATTTAAAAAATAAATTTGAT
** * * * * * *
52158 TGTTGAACCAGTTGAAATAGTTAAGATTAGATGAATGATTATCTATTTTAAATCGTTATGACCTT
65 TACTGAACCAGTTCAAATAGTTAAGACTA-TTGAATAATTATCTATTTCAAATCGTTATAACCTT
* * * * * * * *
52223 TTCTTTTGTCGTAAAACAATT-GTTTTGTTCGTACAAGCTTATTTGGATTAA
129 TTATTTTATCATAAAACAATTGGTTCTGTTCATACAAGCTTATTCGAAATAA
* *
52274 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGATATTTAAAAAATAAATTTGTTT
1 AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAAATTTAAAAAATAAATTTGATT
* *
52339 ACTGAATCAGTTCAAATGGTTAAGACTATTAGAATAATTATCTATTTCAAAT
66 ACTGAACCAGTTCAAATAGTTAAGACTATT-GAATAATTATCTATTTCAAAT
52391 TGTGTTGATA
Statistics
Matches: 230, Mismatches: 63, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
179 3 0.01
180 133 0.58
181 94 0.41
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (180 bp):
AATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAAATTTAAAAAATAAATTTGATT
ACTGAACCAGTTCAAATAGTTAAGACTATTGAATAATTATCTATTTCAAATCGTTATAACCTTTT
ATTTTATCATAAAACAATTGGTTCTGTTCATACAAGCTTATTCGAAATAA
Found at i:52503 original size:24 final size:25
Alignment explanation
Indices: 52455--52505 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
52445 ATTATACTAG
*
52455 TAATTTATAACTATTTATAAATAAT
1 TAATTTATAACTAATTATAAATAAT
* *
52480 TAATTTA-AAGTAATTATAATTAAT
1 TAATTTATAACTAATTATAAATAAT
52504 TA
1 TA
52506 TTATATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TAATTTATAACTAATTATAAATAAT
Found at i:52515 original size:12 final size:12
Alignment explanation
Indices: 52492--52522 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
52482 ATTTAAAGTA
52492 ATTATAATTAATT
1 ATTAT-ATTAATT
52505 ATTATATTAATT
1 ATTATATTAATT
52517 ATTATA
1 ATTATA
52523 ACAATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATATTAATT
Found at i:54145 original size:14 final size:15
Alignment explanation
Indices: 54128--54156 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54118 TAATTATTAA
54128 TTTTTATTAT-ATAT
1 TTTTTATTATGATAT
54142 TTTTTATTATGATAT
1 TTTTTATTATGATAT
54157 ATAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTTATTATGATAT
Found at i:54234 original size:22 final size:22
Alignment explanation
Indices: 54201--54256 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
54191 TAAATAGATA
*
54201 AATCATTTTAATAATTTAATATT
1 AATCATTATAATAATTTAAT-TT
*
54224 AA-CATTATAATTATTTAATTT
1 AATCATTATAATAATTTAATTT
*
54245 AATTATTATAAT
1 AATCATTATAAT
54257 TTTAGACAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.14
22 23 0.79
23 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (22 bp):
AATCATTATAATAATTTAATTT
Found at i:54351 original size:25 final size:24
Alignment explanation
Indices: 54292--54356 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
54282 AGTTATGATT
* *
54292 TAATCAATAATATTTATTTATTTA
1 TAATAAATAATATTTATTAATTTA
* *
54316 TAATTACTAATTATTTATTAATTTA
1 TAATAAATAA-TATTTATTAATTTA
54341 -AATAAAATAATATTTA
1 TAAT-AAATAATATTTA
54357 AAATAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 17 0.50
25 17 0.50
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAAATAATATTTATTAATTTA
Found at i:54989 original size:15 final size:16
Alignment explanation
Indices: 54964--55003 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
54954 TATATTTTTG
54964 TTAATTCAATTTAATA-
1 TTAATT-AATTTAATAT
54980 TTAATTAA-TTAATAT
1 TTAATTAATTTAATAT
54995 TTAATTAAT
1 TTAATTAAT
55004 AAACAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTAATTTAATAT
Found at i:55119 original size:22 final size:20
Alignment explanation
Indices: 55094--55176 Score: 87
Period size: 22 Copynumber: 3.9 Consensus size: 20
55084 GTTAATTAAT
55094 ATTATAAATTTATAATATAACA
1 ATTAT-AATTTATAAT-TAACA
55116 ATTATTATATTATATAATTAACA
1 ATTA-TA-ATT-TATAATTAACA
*
55139 ATT-TAATTTATTATTAATCAA
1 ATTATAATTTATAATTAA-C-A
55160 ATTATAATTTATAATTA
1 ATTATAATTTATAATTA
55177 TATTTAACAT
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.15
20 4 0.08
21 6 0.11
22 17 0.32
23 12 0.23
24 6 0.11
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTATAATTTATAATTAACA
Found at i:55272 original size:15 final size:13
Alignment explanation
Indices: 55216--55286 Score: 74
Period size: 13 Copynumber: 5.4 Consensus size: 13
55206 AAATAAATCA
55216 ATAATATAATATT
1 ATAATATAATATT
*
55229 AT--TAGTAATACT
1 ATAATA-TAATATT
55241 ATAATATAATATT
1 ATAATATAATATT
*
55254 ATAATATAATTGTTT
1 ATAATATAA-T-ATT
*
55269 ATAATATTATATT
1 ATAATATAATATT
55282 ATAAT
1 ATAAT
55287 TATTTGAACA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
11 2 0.04
12 8 0.17
13 24 0.50
14 4 0.08
15 10 0.21
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (13 bp):
ATAATATAATATT
Found at i:55453 original size:15 final size:17
Alignment explanation
Indices: 55421--55455 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
55411 TTATATATAA
55421 ATATAATTGTTAATATT
1 ATATAATTGTTAATATT
55438 ATATAATT-TTAA-ATT
1 ATATAATTGTTAATATT
55453 ATA
1 ATA
55456 ATTATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 4 0.22
17 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATATAATTGTTAATATT
Found at i:55463 original size:23 final size:23
Alignment explanation
Indices: 55400--55464 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
55390 AATTAATTAA
*
55400 TTAACTTATAATTATATATAAAT
1 TTAAATTATAATTATATATAAAT
* * *
55423 AT-AATTGTTAA-TATTATATAATT
1 TTAAATT-ATAATTA-TATATAAAT
55446 TTAAATTATAATTATATAT
1 TTAAATTATAATTATATAT
55465 TATACTATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
22 5 0.16
23 21 0.66
24 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAATTATAATTATATATAAAT
Found at i:55605 original size:24 final size:25
Alignment explanation
Indices: 55569--55634 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
55559 AAATTAGTAT
55569 ATATT-AATAAATTATAATATTAATA
1 ATATTAAAT-AATTATAATATTAATA
*
55594 AT-TTAAATAATTA-AACAATTAATA
1 ATATTAAATAATTATAA-TATTAATA
*
55618 ATATTATAT-ATTATAAT
1 ATATTAAATAATTATAAT
55635 CATTTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
23 2 0.06
24 20 0.59
25 12 0.35
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTAAATAATTATAATATTAATA
Found at i:55606 original size:16 final size:16
Alignment explanation
Indices: 55537--55634 Score: 85
Period size: 16 Copynumber: 6.0 Consensus size: 16
55527 GGAAATATTA
* *
55537 ATTAATAAATTGTTAT
1 ATTAATAAATTATAAT
*
55553 ATTATTAAATTAGTATAT
1 ATTAATAAATTA-TA-AT
55571 ATTAATAAATTATAAT
1 ATTAATAAATTATAAT
*
55587 ATTAATAATTTA-AAT
1 ATTAATAAATTATAAT
55602 AATTAA-ACAATTAATAAT
1 -ATTAATA-AATT-ATAAT
*
55620 ATT-ATATATTATAAT
1 ATTAATAAATTATAAT
55635 CATTTTAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
15 9 0.13
16 35 0.51
17 8 0.12
18 16 0.24
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAATAAATTATAAT
Found at i:55742 original size:26 final size:23
Alignment explanation
Indices: 55686--55745 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 23
55676 TACTCAATAA
*
55686 ATAATTATATTAATATAATTTATT
1 ATAATT-TATTATTATAATTTATT
55710 -TAA-TTATTATTATAATATTATTCT
1 ATAATTTATTATTATAAT-TTA-T-T
55734 ATAATTTATTAT
1 ATAATTTATTAT
55746 CAGTAACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 11 0.37
22 4 0.13
23 4 0.13
24 1 0.03
25 3 0.10
26 7 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATAATTTATTATTATAATTTATT
Found at i:55955 original size:20 final size:18
Alignment explanation
Indices: 55908--55957 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
55898 TATTAGTTAT
*
55908 TAATAATTATCAATTATA
1 TAATAATTATCAAATATA
55926 TGAATAAATTATCCAAATATTA
1 T-AAT-AATTAT-CAAATA-TA
55948 TAATAATTAT
1 TAATAATTAT
55958 AATAATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 12 0.44
21 8 0.30
22 3 0.11
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATAATTATCAAATATA
Found at i:56086 original size:20 final size:20
Alignment explanation
Indices: 56061--56125 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
56051 TAATTTATTT
*
56061 ATATTACTTATTAATAATAA
1 ATATTAATTATTAATAATAA
* *
56081 ATATTAATTATTTATTATAA
1 ATATTAATTATTAATAATAA
* *
56101 ATTTTAA-T-TT-ATCATAA
1 ATATTAATTATTAATAATAA
56118 ATATTAAT
1 ATATTAAT
56126 AACTATTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 12 0.32
18 2 0.05
19 1 0.03
20 23 0.61
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTAATTATTAATAATAA
Found at i:56112 original size:17 final size:17
Alignment explanation
Indices: 56090--56125 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56080 AATATTAATT
* *
56090 ATTTATTATAAATTTTA
1 ATTTATCATAAATATTA
56107 ATTTATCATAAATATTA
1 ATTTATCATAAATATTA
56124 AT
1 AT
56126 AACTATTATT
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:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATCATAAATATTA
Found at i:56282 original size:22 final size:22
Alignment explanation
Indices: 56257--56303 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
56247 AGTTTATCCA
56257 AATAAAATAACTAT-TTTATTAT
1 AATAAAATAA-TATATTTATTAT
**
56279 AATATTATAATATATTTATTAT
1 AATAAAATAATATATTTATTAT
56301 AAT
1 AAT
56304 GTACTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAAAATAATATATTTATTAT
Found at i:57628 original size:11 final size:10
Alignment explanation
Indices: 57609--57638 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
57599 TAGATAATTA
57609 AATTATATTT
1 AATTATATTT
57619 AATTATTATTT
1 AATTA-TATTT
57630 AATTATATT
1 AATTATATT
57639 AAAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTATATTT
Found at i:57633 original size:21 final size:21
Alignment explanation
Indices: 57609--57648 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57599 TAGATAATTA
* *
57609 AATTATATTTAATTATTATTT
1 AATTATATTAAAATATTATTT
57630 AATTATATTAAAATATTAT
1 AATTATATTAAAATATTAT
57649 ATAACAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATTATATTAAAATATTATTT
Found at i:60232 original size:20 final size:20
Alignment explanation
Indices: 60204--60250 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 20
60194 TAAAATATGT
60204 TATTATATAATAAATTTA-TTTA
1 TATTATA-AAT-AA-TTAGTTTA
60226 TATTATAAATAATTAGTTTA
1 TATTATAAATAATTAGTTTA
60246 TATTA
1 TATTA
60251 GTATAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 3 0.12
22 7 0.29
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TATTATAAATAATTAGTTTA
Found at i:60345 original size:38 final size:34
Alignment explanation
Indices: 60289--60364 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 34
60279 TAAGTAAATT
*
60289 TTATAATTGTTATAATTATAATTTAACTAATATTAAA
1 TTATAATTGTTATAATTATAA-TTAA-TAA-AATAAA
* *
60326 TTATAATTATTTATTATTATAATTAATAAAATAAA
1 TTATAATT-GTTATAATTATAATTAATAAAATAAA
60361 TTAT
1 TTAT
60365 TTTTATAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 9 0.26
36 3 0.09
37 12 0.34
38 11 0.31
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (34 bp):
TTATAATTGTTATAATTATAATTAATAAAATAAA
Found at i:60349 original size:22 final size:23
Alignment explanation
Indices: 60298--60350 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
60288 TTTATAATTG
60298 TTATAATTATAATTTAACTAATA
1 TTATAATTATAATTTAACTAATA
** *
60321 TTA-AATTATAA-TTATTTATTA
1 TTATAATTATAATTTAACTAATA
60342 TTATAATTA
1 TTATAATTA
60351 ATAAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 10 0.38
22 13 0.50
23 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTATAATTATAATTTAACTAATA
Found at i:60476 original size:14 final size:14
Alignment explanation
Indices: 60457--60494 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
60447 AAATTTATAT
*
60457 TAATATTAATTAAG
1 TAATATTAATTAAA
60471 TAATATTAAATTAAA
1 TAATATT-AATTAAA
60486 TAA-ATTAAT
1 TAATATTAAT
60495 ACTATATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 10 0.45
15 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TAATATTAATTAAA
Found at i:60494 original size:20 final size:20
Alignment explanation
Indices: 60447--60495 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
60437 TATATAATAG
*
60447 AAATTTATATTAATATTAAT
1 AAATTAATATTAATATTAAT
* *
60467 TAAGTAATATTAA-ATTAAAT
1 AAATTAATATTAATATT-AAT
60487 AAATTAATA
1 AAATTAATA
60496 CTATATTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATTAATATTAATATTAAT
Found at i:60542 original size:16 final size:17
Alignment explanation
Indices: 60523--60563 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
60513 ATAAGATTAT
*
60523 TAATTAATAACT-AATA
1 TAATTAATAAATAAATA
60539 TAATT-ATAAATAAATA
1 TAATTAATAAATAAATA
60555 TAATATAAT
1 TAAT-TAAT
60564 TATTATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 13 0.62
17 1 0.05
18 2 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATTAATAAATAAATA
Found at i:60767 original size:43 final size:42
Alignment explanation
Indices: 60720--60814 Score: 97
Period size: 43 Copynumber: 2.2 Consensus size: 42
60710 ATTATAACTT
*
60720 ATACTATTAGATAATAATAT-AATTTTATAATTTA-TTTAATA-AA
1 ATACTATTA-ATAATAATATGAA-TTCAT--TTTATTTTAATATAA
* *
60763 ATACTAAATATTAATAATATGAATTCATTTTATTTTAATATAA
1 ATACT-ATTAATAATAATATGAATTCATTTTATTTTAATATAA
60806 ATACTATTA
1 ATACTATTA
60815 TATTTATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
41 4 0.09
42 10 0.23
43 25 0.57
44 5 0.11
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (42 bp):
ATACTATTAATAATAATATGAATTCATTTTATTTTAATATAA
Found at i:60820 original size:21 final size:21
Alignment explanation
Indices: 60752--60825 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 21
60742 TTTTATAATT
*
60752 TATTTAATA-AAATACTA-AA
1 TATTTAATATAAATACTATTA
* * *
60771 TATTAATAATATGAATTC-ATTT
1 TATT--TAATATAAATACTATTA
60793 TATTTTAATATAAATACTATTA
1 TA-TTTAATATAAATACTATTA
*
60815 TATTTATTATA
1 TATTTAATATA
60826 TATTAATTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 4 0.10
21 24 0.59
22 11 0.27
23 2 0.05
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (21 bp):
TATTTAATATAAATACTATTA
Found at i:60850 original size:12 final size:11
Alignment explanation
Indices: 60810--60887 Score: 51
Period size: 12 Copynumber: 7.3 Consensus size: 11
60800 ATATAAATAC
60810 TATTAT-ATT-
1 TATTATAATTA
60819 TATTATATATTA
1 TATTATA-ATTA
60831 -A-T-TAATTA
1 TATTATAATTA
60839 TATCTATAATTA
1 TAT-TATAATTA
*
60851 TAATTATGATTA
1 T-ATTATAATTA
60863 T-TTATAATTA
1 TATTATAATTA
* *
60873 GTAATATTATTA
1 -TATTATAATTA
60885 TAT
1 TAT
60888 AAATTAATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
8 4 0.07
9 9 0.17
10 9 0.17
11 8 0.15
12 22 0.41
13 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (11 bp):
TATTATAATTA
Found at i:60868 original size:22 final size:22
Alignment explanation
Indices: 60843--60893 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
60833 TAATTATATC
*
60843 TATAATTA-TAATTATGATTATT
1 TATAATTAGTAA-TATGATTATA
*
60865 TATAATTAGTAATATTATTATA
1 TATAATTAGTAATATGATTATA
60887 TA-AATTA
1 TATAATTA
60894 ATTAGCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.19
22 18 0.69
23 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
TATAATTAGTAATATGATTATA
Found at i:61094 original size:17 final size:15
Alignment explanation
Indices: 61057--61093 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
61047 TTTATAAATA
61057 ATATATAATATACAT
1 ATATATAATATACAT
*
61072 ATATATAATATATAT
1 ATATATAATATACAT
*
61087 AGATATA
1 ATATATA
61094 TTTGAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (15 bp):
ATATATAATATACAT
Found at i:62238 original size:25 final size:27
Alignment explanation
Indices: 62203--62265 Score: 85
Period size: 25 Copynumber: 2.4 Consensus size: 27
62193 TTATAATTAA
*
62203 TATATTTTTAAATATTAAT-CAAT-AT
1 TATATTATTAAATATTAATACAATAAT
*
62228 TATATTATTAAATATTAATATAATAAT
1 TATATTATTAAATATTAATACAATAAT
62255 TAGTATTATTA
1 TA-TATTATTA
62266 TTAATTAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 18 0.55
26 3 0.09
27 4 0.12
28 8 0.24
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
TATATTATTAAATATTAATACAATAAT
Found at i:62516 original size:8 final size:8
Alignment explanation
Indices: 62505--62578 Score: 50
Period size: 8 Copynumber: 9.5 Consensus size: 8
62495 TTAATAATAA
62505 ATAATATT
1 ATAATATT
62513 ATAATATT
1 ATAATATT
62521 AT-A-ATT
1 ATAATATT
62527 ATAATATAT
1 ATAATAT-T
62536 ATAA-ATT
1 ATAATATT
*
62543 GAATAATAGT
1 --ATAATATT
* *
62553 ATTATAAT
1 ATAATATT
62561 ATAA-A-T
1 ATAATATT
*
62567 ATAATACT
1 ATAATATT
62575 ATAA
1 ATAA
62579 GTTATAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
6 10 0.19
7 5 0.09
8 28 0.52
9 9 0.17
10 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (8 bp):
ATAATATT
Found at i:63448 original size:177 final size:176
Alignment explanation
Indices: 63181--63505 Score: 458
Period size: 177 Copynumber: 1.8 Consensus size: 176
63171 TAATTTTTTA
** * *
63181 CTTATTAATTATCAAAATATTAATAAATTAGTATTATTTTAATCTGAACAAGCTTGTATGAATAA
1 CTTATTAATTATCAAAATATTAATAAATTAGTATTATTTTAATCCAAACAAACTTATATGAATAA
63246 AAACTATTGTTTATAATAGAACAAAAAGTAATAATGATTTGAAATAAATAATTGCTCAAATAGTC
66 AAACTATTGTTTATAATAGAACAAAAAGTAATAATGATTTGAAATAAATAATTGCTCAAATAGTC
* *
63311 ATAATTATTTGAATTGGTTTGATAAAAAGATTTATTTTTTAAATCT
131 ATAATTATTAGAACTGGTTTGATAAAAAGATTTATTTTTTAAATCT
* * * *
63357 CTTATTAATTTTTGAAAATATTAATAGATTAGTATTATTTTATTCCAAACAAACTTATATGAACT
1 CTTATTAA-TTATCAAAATATTAATAAATTAGTATTATTTTAATCCAAACAAACTTATATGAA-T
* * * * *
63422 -AAAAC-ATTTGTTTTATGATA-AACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
64 AAAAACTA-TTG-TTTATAATAGAACAAAAAGTAATAATGATTTGAAATAAATAATTGCTCAAAT
63484 AGTCATAATTATTAGAACTGGT
127 AGTCATAATTATTAGAACTGGT
63506 ATGAATATAA
Statistics
Matches: 130, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
176 9 0.07
177 112 0.86
178 9 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (176 bp):
CTTATTAATTATCAAAATATTAATAAATTAGTATTATTTTAATCCAAACAAACTTATATGAATAA
AAACTATTGTTTATAATAGAACAAAAAGTAATAATGATTTGAAATAAATAATTGCTCAAATAGTC
ATAATTATTAGAACTGGTTTGATAAAAAGATTTATTTTTTAAATCT
Found at i:64349 original size:180 final size:180
Alignment explanation
Indices: 64044--64681 Score: 518
Period size: 180 Copynumber: 3.5 Consensus size: 180
64034 AAAATAAATA
* * * * * * *
64044 TTTTTAAATCTCTTTCATATTAATTTTCCAAATGTTAATAAATTAGTATTAATTTATTCTGAATA
1 TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATA
* * * *
64109 AGCTT-TATGAACTGAAACAATTGTTTTATGACT-AAACAAAAGATCAAAATGATATGAAATAGA
66 AGCTTGTATGAAC-AAAACAATTGTTTTATGA-TAAAACAAAAGGTCATAATGATTTGAAATAGA
* *
64172 TAATTATTCTAATA-A-TTTTAACCATTTGAACCGATTCAGTAAACAAATTTAT
129 TAATTATTC--ATAGAGTCTTAACCATTTGAACCGATTCAATAAACAAATTTAT
* *
64224 TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTAATCCAAATA
1 TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATA
** * * * *
64289 AGCTTGTGCGAGCAAAACAATTGTTTTACGTTAAAAGAAAAGGTCATAATGATTTGAAATAGATA
66 AGCTTGTATGAACAAAACAATTGTTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATA
* * ** * ** *
64354 ATTGTTCATAGAGTCTTAACTATTTGAATTGGTTCAATAATTAGATTTAT
131 ATTATTCATAGAGTCTTAACCATTTGAACCGATTCAATAAACAAATTTAT
* * ** *
64404 TTTTTAATTTTCTTGGTTATTAAGTTTT-GAAATATTATTAAATTAGTATTATTTTATTCTAAAT
1 TTTTTAAATCTCTTACTTATTAA-TTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAAT
** * * * * * * *
64468 AAAATAGTATGAACATAACCAATTGTTTGATGATAAAATAAAAGGTTATAACGATTTGAAATAAA
65 AAGCTTGTATGAACA-AAACAATTGTTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGA
* * * ** * ** *** * *
64533 TAATTATTGAAATAGTCAAAACTATTTGAAATTG-TTTGGTAAGCAGATTT-T
129 TAATTATTCATAGAGTCTTAACCATTTG-AACCGATTCAATAAACAAATTTAT
** * * * ** *
64584 CTTTTTAAATCTCTTACAGATTTATTTTCTAAATATTAATAAAACAGTATTGTTTTATT-TCAAA
1 -TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTATTCT-AAA
* * * *
64648 CAAACTTATATTAACAAAAACAATTGTTTTATGA
64 TAAGCTTGTATGAAC-AAAACAATTGTTTTATGA
64682 CAACAAATCT
Statistics
Matches: 367, Mismatches: 80, Indels: 21
0.78 0.17 0.04
Matches are distributed among these distances:
178 3 0.01
179 2 0.01
180 205 0.56
181 151 0.41
182 6 0.02
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.42
Consensus pattern (180 bp):
TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATA
AGCTTGTATGAACAAAACAATTGTTTTATGATAAAACAAAAGGTCATAATGATTTGAAATAGATA
ATTATTCATAGAGTCTTAACCATTTGAACCGATTCAATAAACAAATTTAT
Found at i:64591 original size:181 final size:180
Alignment explanation
Indices: 64218--64562 Score: 404
Period size: 181 Copynumber: 1.9 Consensus size: 180
64208 CAGTAAACAA
* * **
64218 ATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTAATC
1 ATTTATTTTTTAATTTTCTTGGTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTAATC
** * * * * * *
64283 CAAATAAGCTTGTGCGAGCAAAACAATTGTTTTACGTTAAAAGAAAAGGTCATAATGATTTGAAA
66 CAAATAAAATAGTACGAACAAAACAATTGTTTGACGATAAAAGAAAAGGTCATAACGATTTGAAA
* * * ** **
64348 TAGATAATTGTTCATAGAGTCTTAACTATTTGAATTGGTTCAATAATTAG
131 TAAATAATTATTCAAAGAGTCAAAACTATTTGAATTGGTTCAATAAGCAG
* *
64398 ATTTATTTTTTAATTTTCTTGGTTATTAAGTTTT-GAAATATTATTAAATTAGTATTATTTTATT
1 ATTTATTTTTTAATTTTCTTGGTTATTAA-TTTTCAAAATATTATTAAATTAGTATTATTTTAAT
* * * * * *
64462 CTAAATAAAATAGTATGAACATAACCAATTGTTTGATGATAAAATAAAAGGTTATAACGATTTGA
65 CCAAATAAAATAGTACGAACA-AAACAATTGTTTGACGATAAAAGAAAAGGTCATAACGATTTGA
* *
64527 AATAAATAATTATTGAAATAGTCAAAACTATTTGAA
129 AATAAATAATTATTCAAAGAGTCAAAACTATTTGAA
64563 ATTGTTTGGT
Statistics
Matches: 136, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
180 67 0.49
181 69 0.51
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (180 bp):
ATTTATTTTTTAATTTTCTTGGTTATTAATTTTCAAAATATTATTAAATTAGTATTATTTTAATC
CAAATAAAATAGTACGAACAAAACAATTGTTTGACGATAAAAGAAAAGGTCATAACGATTTGAAA
TAAATAATTATTCAAAGAGTCAAAACTATTTGAATTGGTTCAATAAGCAG
Found at i:65308 original size:26 final size:25
Alignment explanation
Indices: 65258--65308 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
65248 AATTTTATAA
*
65258 TAGATCAATTTTTATATTAATAATT
1 TAGATCAATTTTTATATTAAAAATT
*
65283 TAGAT-AATTATTCTATTTTAAAAATT
1 TAGATCAATT-TT-TATATTAAAAATT
65309 ATTATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 11 0.50
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (25 bp):
TAGATCAATTTTTATATTAAAAATT
Found at i:66314 original size:163 final size:163
Alignment explanation
Indices: 66128--66599 Score: 454
Period size: 163 Copynumber: 2.8 Consensus size: 163
66118 CTATTTGAAC
66128 AATTATTTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTCAGT-TCAATA
1 AATTATTTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTT-AGTATC-ATA
* * * * **
66192 -AAACTTA-TCCAAAATAAAATAATATTACTTTATTACTATTTCAAAAATTGAGAAGTTGGAGAT
64 CAAACTTACT-CAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAGAAGTAAGAGAT
66255 TTAAAAAATAAATCAGTTTATCGAATTACTTCAAAT
128 TTAAAAAATAAATCAGTTTATCGAATTACTTCAAAT
* * * **
66291 AATTATTTATTTCAAATCATTATGTCCTTTTGTTTTATTATAAAACAATTGTTTTTTATCATACA
1 AATTATTTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTAGTATCATACA
* *
66356 AGCTTACTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAGAGATTTA
66 AACTTACTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAGAAGTAAGAGATTTA
* * ** * *
66421 AAAAATAAATCTA-TTTACCAAACCAGTTTAAAT
131 AAAAATAAATC-AGTTTATCGAATTACTTCAAAT
* * * *
66454 AATTATGATCAGTTTAAATAGTTATTATTATTTGAACCTTTTGTTCTATCATAAAACAATTATTT
1 AATTAT--TTA-TTT-AA-A---ATCATTA--TG-ACCTTTTGTTTTATCATAAAACAATT-GTT
* * * * * * *
66519 TTGT-TCATACAAATTTATTCAAAA-AAACATAATACTAATTTAATAATA-GTCTAAAAATTCAT
54 TAGTATCATACAAACTTACTCAAAATAAA-ATAATACTAATTTATTAATATTTC-AAAAATTAAG
*
66581 AATTAAGAGATTTAAAAAA
117 AAGTAAGAGATTTAAAAAA
66600 AATTCATTCA
Statistics
Matches: 257, Mismatches: 34, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
162 4 0.02
163 140 0.54
164 2 0.01
165 2 0.01
166 3 0.01
167 1 0.00
168 1 0.00
171 6 0.02
173 7 0.03
174 86 0.33
175 5 0.02
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.40
Consensus pattern (163 bp):
AATTATTTATTTAAAATCATTATGACCTTTTGTTTTATCATAAAACAATTGTTTAGTATCATACA
AACTTACTCAAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAAGAAGTAAGAGATTTA
AAAAATAAATCAGTTTATCGAATTACTTCAAAT
Found at i:66726 original size:13 final size:13
Alignment explanation
Indices: 66692--66726 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
66682 ATTTATTAAC
66692 TAATTAATAATTA
1 TAATTAATAATTA
* *
66705 TTATAAATAATTA
1 TAATTAATAATTA
66718 TAATTAATA
1 TAATTAATA
66727 GAATATTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTAATAATTA
Found at i:67302 original size:6 final size:6
Alignment explanation
Indices: 67291--67324 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
67281 ATTAATCAAA
*
67291 ATAATT ATAATT ATAATT ACAATT ATAATT -TAAT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAAT
67325 ACTTACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:67641 original size:25 final size:25
Alignment explanation
Indices: 67613--67671 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
67603 TATTATTATA
67613 ATAAATATAATAATT-TATAATTAAT
1 ATAAATATAA-AATTATATAATTAAT
* *
67638 ATAATTATAAAGTTATATAATTAAT
1 ATAAATATAAAATTATATAATTAAT
67663 ATATAATAT
1 ATA-AATAT
67672 TTCTTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 3 0.10
25 22 0.76
26 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
ATAAATATAAAATTATATAATTAAT
Found at i:67643 original size:9 final size:9
Alignment explanation
Indices: 67593--67665 Score: 55
Period size: 9 Copynumber: 8.1 Consensus size: 9
67583 ATAATATTGC
67593 AATTAATTAT
1 AATTAA-TAT
* *
67603 TATTATTAT
1 AATTAATAT
*
67612 AATAAATAT
1 AATTAATAT
67621 AA-TAATTTAT
1 AATTAA--TAT
67631 AATTAATAT
1 AATTAATAT
67640 AATT-ATA-
1 AATTAATAT
67647 AAGTT-ATAT
1 AA-TTAATAT
67656 AATTAATAT
1 AATTAATAT
67665 A
1 A
67666 TAATATTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
7 2 0.04
8 12 0.24
9 25 0.49
10 9 0.18
11 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (9 bp):
AATTAATAT
Found at i:68151 original size:19 final size:19
Alignment explanation
Indices: 68110--68200 Score: 61
Period size: 19 Copynumber: 4.8 Consensus size: 19
68100 ATAACAATTA
68110 AATTTAT-A-AATATTATAT
1 AATTTATAATAATATT-TAT
68128 AAATTTATAATAATATTTAT
1 -AATTTATAATAATATTTAT
68148 AA-TTATCAATTAATAATTTAAT
1 AATTTAT-AA-TAAT-ATTT-AT
*
68170 AA-TTATTA-AATA-TTA-
1 AATTTATAATAATATTTAT
*
68185 AATTAATAATAATATT
1 AATTTATAATAATATT
68201 GATTTAATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
15 2 0.03
16 5 0.08
17 6 0.10
18 6 0.10
19 14 0.23
20 8 0.13
21 11 0.18
22 8 0.13
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTATAATAATATTTAT
Found at i:68174 original size:22 final size:22
Alignment explanation
Indices: 68134--68194 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
68124 ATATAAATTT
*
68134 ATAATAATATTTATAATTATCAA
1 ATAATAAT-TTAATAATTATCAA
* *
68157 TTAATAATTTAATAATTATTAA
1 ATAATAATTTAATAATTATCAA
* *
68179 ATATTAAATTAATAAT
1 ATAATAATTTAATAAT
68195 AATATTGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATAATTTAATAATTATCAA
Found at i:68454 original size:24 final size:25
Alignment explanation
Indices: 68397--68466 Score: 90
Period size: 24 Copynumber: 2.8 Consensus size: 25
68387 TATAATCTAA
* *
68397 ATAAGT-TAAATAATAAAGTAATATT
1 ATAAGTATAAAT-ATAGATTAATATT
*
68422 ATAACTATAAATATAGATTAAT-TT
1 ATAAGTATAAATATAGATTAATATT
68446 ATAAGTATAAATATAGATTAA
1 ATAAGTATAAATATAGATTAA
68467 ATCTAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 22 0.55
25 13 0.32
26 5 0.12
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (25 bp):
ATAAGTATAAATATAGATTAATATT
Found at i:68516 original size:7 final size:6
Alignment explanation
Indices: 68419--68529 Score: 69
Period size: 6 Copynumber: 19.2 Consensus size: 6
68409 ATAAAGTAAT
* * * * *
68419 ATTATA ACTATA AATATA GATTA-A TTTATA AGTATA AATATA GATTA-A
1 ATTATA ATTATA ATTATA -ATTATA ATTATA ATTATA ATTATA -ATTATA
68467 ATCTA-A ATTAT- ATTAT- -TTATA ATTATA ATTTATA ATTA-A ATTAATA
1 AT-TATA ATTATA ATTATA ATTATA ATTATA A-TTATA ATTATA ATT-ATA
68513 ATTAT- -TTATA ATTATA A
1 ATTATA ATTATA ATTATA A
68530 ACATTCAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 24
0.73 0.07 0.21
Matches are distributed among these distances:
4 8 0.09
5 16 0.19
6 45 0.53
7 16 0.19
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (6 bp):
ATTATA
Found at i:68599 original size:29 final size:32
Alignment explanation
Indices: 68557--68644 Score: 105
Period size: 29 Copynumber: 2.8 Consensus size: 32
68547 ATATTAAACT
* *
68557 TATACTAATA-AATTGTATAAATATAA-TACA
1 TATATTAATATAATTGTATAAATATAATTAAA
68587 TAT-TT-ATATAATT-TAATAAATATAATTAAA
1 TATATTAATATAATTGT-ATAAATATAATTAAA
68617 TATATTAATATAATATGTATAAATATAA
1 TATATTAATATAAT-TGTATAAATATAA
68645 ACCCTAATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
28 4 0.08
29 15 0.31
30 9 0.18
31 2 0.04
32 7 0.14
33 11 0.22
34 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (32 bp):
TATATTAATATAATTGTATAAATATAATTAAA
Found at i:68609 original size:20 final size:19
Alignment explanation
Indices: 68562--68644 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 19
68552 AAACTTATAC
68562 TAATAAAT-TGTATAAATA
1 TAATAAATATGTATAAATA
* * *
68580 TAATACATATTTATATAATT
1 TAATAAATATGTATA-AATA
*
68600 TAATAAATAT-AATTAAATATA
1 TAATAAATATGTA-T-AA-ATA
68621 TTAATATAATATGTATAAATA
1 -TAATA-AATATGTATAAATA
68642 TAA
1 TAA
68645 ACCCTAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
18 7 0.14
19 6 0.12
20 17 0.34
21 6 0.12
22 7 0.14
23 6 0.12
24 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (19 bp):
TAATAAATATGTATAAATA
Found at i:68844 original size:14 final size:14
Alignment explanation
Indices: 68827--68889 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
68817 ATTATATATT
*
68827 TATATATATAATAA
1 TATATATTTAATAA
68841 TATATTATTTAATTAA
1 TATA-TATTTAA-TAA
*
68857 TA-ATATTTAATTA
1 TATATATTTAATAA
*
68870 TATATTATTTATTAA
1 TATA-TATTTAATAA
68885 -ATATA
1 TATATA
68890 CTAATTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 6 0.15
14 15 0.37
15 15 0.37
16 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATATTTAATAA
Found at i:68862 original size:29 final size:28
Alignment explanation
Indices: 68817--68884 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
68807 TTCTGATCAA
* *
68817 ATTATATATTTAT-ATATATAATAATAT
1 ATTATTTATTAATAATATATAATAATAT
* *
68844 ATTATTTAATTAATAATATTTAATTATAT
1 ATTATTT-ATTAATAATATATAATAATAT
68873 ATTATTTATTAA
1 ATTATTTATTAA
68885 ATATACTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.17
28 10 0.29
29 19 0.54
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTATTTATTAATAATATATAATAATAT
Found at i:68887 original size:29 final size:29
Alignment explanation
Indices: 68830--68884 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
68820 ATATATTTAT
68830 ATATATAATAATATATTATTTAATTAATA
1 ATATATAATAATATATTATTTAATTAATA
* *
68859 ATATTTAATTATATATTATTT-ATTAA
1 ATATATAATAATATATTATTTAATTAA
68885 ATATACTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
ATATATAATAATATATTATTTAATTAATA
Found at i:69006 original size:10 final size:10
Alignment explanation
Indices: 68991--69072 Score: 61
Period size: 10 Copynumber: 8.5 Consensus size: 10
68981 TATATTTTAT
68991 TAATTAATTA
1 TAATTAATTA
69001 TAATTAATT-
1 TAATTAATTA
*
69010 TAAAT-ATATA
1 TAATTAAT-TA
69020 TTAATATAATTA
1 -TAAT-TAATTA
69032 TATATTAA-TA
1 TA-ATTAATTA
69042 TAATTAA-T-
1 TAATTAATTA
69050 TAA-TAA-TA
1 TAATTAATTA
*
69058 TACTTAATTA
1 TAATTAATTA
69068 TAATT
1 TAATT
69073 TATATATATT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
7 4 0.07
8 7 0.12
9 14 0.24
10 19 0.32
11 8 0.14
12 5 0.08
13 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (10 bp):
TAATTAATTA
Found at i:69024 original size:16 final size:16
Alignment explanation
Indices: 68988--69047 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
68978 TAATATATTT
68988 TATTAA-TTAATTATA
1 TATTAATTTAATTATA
*
69003 -ATTAATTTAAATATA
1 TATTAATTTAATTATA
*
69018 TATTAATATAATTATA
1 TATTAATTTAATTATA
*
69034 TATTAATATAATTA
1 TATTAATTTAATTA
69048 ATTAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
14 5 0.12
15 8 0.20
16 27 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTAATTTAATTATA
Found at i:69056 original size:16 final size:16
Alignment explanation
Indices: 68991--69071 Score: 62
Period size: 16 Copynumber: 4.9 Consensus size: 16
68981 TATATTTTAT
68991 TAATTAATT-ATAAT-
1 TAATTAATTAATAATA
69005 TAATTTAAATATATATTAATA
1 TAA-TT-AAT-TA-A-TAATA
*
69026 TAATT-ATATATTAATA
1 TAATTAAT-TAATAATA
69042 TAATTAATTAATAATA
1 TAATTAATTAATAATA
*
69058 TACTTAATT-ATAAT
1 TAATTAATTAATAAT
69072 TTATATATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
14 3 0.05
15 7 0.12
16 28 0.50
17 3 0.05
18 5 0.09
19 1 0.02
20 6 0.11
21 3 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATTAATTAATAATA
Found at i:69309 original size:17 final size:16
Alignment explanation
Indices: 69282--69323 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
69272 AACAAAATAT
69282 TTATTATAACTTATAA
1 TTATTATAACTTATAA
69298 TTATTAATAACTTAT-A
1 TTATT-ATAACTTATAA
69314 TTAATTATAA
1 TT-ATTATAA
69324 TATCATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
TTATTATAACTTATAA
Found at i:69624 original size:19 final size:18
Alignment explanation
Indices: 69596--69656 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
69586 TGAGGTATTA
*
69596 ATTT-AATTATATAATGTT
1 ATTTAAATTATATAAT-AT
69614 ATTTAAATTATATTAATAT
1 ATTTAAATTATA-TAATAT
69633 ATTTAATATT-TATAAT-T
1 ATTTAA-ATTATATAATAT
69650 A-TTAAAT
1 ATTTAAAT
69657 AGTTATGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 2 0.05
16 4 0.10
17 2 0.05
18 8 0.21
19 16 0.41
20 7 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTAAATTATATAATAT
Found at i:69802 original size:17 final size:20
Alignment explanation
Indices: 69782--69818 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
69772 TTAACTATTT
69782 AAAA-TATT-TAAT-TTATA
1 AAAAGTATTATAATATTATA
69799 AAAAGTATTATAATATTATA
1 AAAAGTATTATAATATTATA
69819 TTTATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 4 0.24
20 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (20 bp):
AAAAGTATTATAATATTATA
Found at i:69985 original size:18 final size:19
Alignment explanation
Indices: 69959--70004 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
69949 GAATATAACA
*
69959 TTTAAAATTATATT-CTAT
1 TTTATAATTATATTACTAT
*
69977 TTTATAATT-TATTATTAT
1 TTTATAATTATATTACTAT
*
69995 ATTATAATTA
1 TTTATAATTA
70005 ATTTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATAATTATATTACTAT
Found at i:70013 original size:18 final size:18
Alignment explanation
Indices: 69978--70051 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 18
69968 ATATTCTATT
*
69978 TTATAATTTATTATTATA
1 TTATAATTAATTATTATA
69996 TTATAATTAA-T-TTATA
1 TTATAATTAATTATTATA
** *
70012 -TATAATTAACAATTAAA
1 TTATAATTAATTATTATA
* *
70029 TTATTAA-CAATTATTTTA
1 TTA-TAATTAATTATTATA
70047 TTATA
1 TTATA
70052 GAACAAAAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
15 9 0.20
16 5 0.11
17 7 0.16
18 20 0.45
19 3 0.07
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAATTAATTATTATA
Found at i:70017 original size:15 final size:16
Alignment explanation
Indices: 69991--70020 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
69981 TAATTTATTA
69991 TTATATTATAATTAAT
1 TTATATTATAATTAAT
70007 TTATA-TATAATTAA
1 TTATATTATAATTAA
70021 CAATTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATATTATAATTAAT
Found at i:70464 original size:183 final size:177
Alignment explanation
Indices: 70034--70745 Score: 483
Period size: 183 Copynumber: 4.0 Consensus size: 177
70024 TTAAATTATT
* * * * ** *
70034 AACAATTATTTTATTATAGAACAAAAGGTTGTAACAATTTGAAATAGAA-AATTGTTCAAATAGT
1 AACAATTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATA-AATAATTGTTCAAATAGC
* **
70098 CATAACTATTTGAACT-AGTTCAATAAACTGATTTATTTTTTAAA-TGTCTTATTAATTCTTAAA
65 CATAATTATTTGAACTGA-TTCGGTAAACTGATTTATTTTTTAAATTGTCTTATTAATTCTTAAA
* * * *
70161 ATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGTTGAA
129 ATATTAACAAAGTAGTATTATTTTATTTCAAATAAACTTGTATGCTGAA
* * * * * *
70210 AACAATTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAGATAGTTATTTAAATGGCT
1 AACAATTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAAATAATTGTTCAAATAGCC
* * *
70275 ATAATTATTTGAACTGATTGGGTAAACTGATTTATTCTTTTAAATTAGTTACTTATTAATTTTTG
66 ATAATTATTTGAACTGATTCGGTAAACTGATTTATT-TTTTAAATT-G-T-CTTATTAATTCTTA
* *** *
70340 AAATATTACCAAAGTAGTATTATTTTATTTTGGATAAACTTTTTATGAACT-AA
127 AAATATTAACAAAGTAGTATTATTTTATTTCAAATAAAC-TTGTATG--CTGAA
* ** * *
70393 AACAATTGTTTTATGACAAAACAAATGGTAATAATTATTTTAAATAAATAATTGCTCAAATAGCC
1 AACAATTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAAATAATTGTTCAAATAGCC
* * * *
70458 ATAATTATTCGAACTTG-TTCGGTAAA-TGGATTTATTTTTTTAAATCTCATGATTATTAATTTT
66 ATAATTATTTGAAC-TGATTCGGTAAACT-GATTTA-TTTTTTAAAT-T-GT-CTTATTAATTCT
** * ** * * * *
70521 TTGAATGTTAGTAAATTAGTATTATTTTCTTCCAAATAAGCTTGTATGAACTG-A
125 TAAAATATTAACAAAGTAGTATTATTTTATTTCAAATAAACTTGTATG--CTGAA
* * ** * * * * * ** ** * * *
70575 AGCAATTATTACACGACTAAAGAAAAGGTTAGAATGATTTGAAATTGATAATTATTCTAATAG-T
1 AACAATTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAAATAATTGTTCAAATAGCC
* * * * * * **
70639 ATTAACTATTTGAACTGGTTCGGTAAA-TACATTTATTTTTTGAA-TCTCTTATTAATTTTTGGA
66 A-TAATTATTTGAACTGATTCGGTAAACT-GATTTATTTTTTAAATTGTCTTATTAATTCTTAAA
** * * * *
70702 ATATTATTAAATTAGTAATATTTT-TATCTAAATAAGCTTGTATG
129 ATATTAACAAAGTAGTATTATTTTATTTC-AAATAAACTTGTATG
70746 ATTAGAAATA
Statistics
Matches: 429, Mismatches: 89, Indels: 35
0.78 0.16 0.06
Matches are distributed among these distances:
175 1 0.00
176 82 0.19
177 58 0.14
178 2 0.00
179 2 0.00
180 1 0.00
181 55 0.13
182 90 0.21
183 132 0.31
184 6 0.01
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (177 bp):
AACAATTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAATAAATAATTGTTCAAATAGCC
ATAATTATTTGAACTGATTCGGTAAACTGATTTATTTTTTAAATTGTCTTATTAATTCTTAAAAT
ATTAACAAAGTAGTATTATTTTATTTCAAATAAACTTGTATGCTGAA
Found at i:71395 original size:181 final size:177
Alignment explanation
Indices: 71208--71841 Score: 537
Period size: 179 Copynumber: 3.5 Consensus size: 177
71198 TAATTTTTGG
* * * * * *
71208 AATATTATTAAATTAATATTATTTTAATATGAATAAGCTTATATGAAAAGAAACAATTGTTTTAT
1 AATATTAATAAATTAGTATTATTTTATTCTGAATAAACTTGTATGAAAAGAAACAATTGTTTTAT
*
71273 GACAAAATAAAGATCATAACAATTT-AATATAAATAATTGTTCAAATAGTCATAACCATTTGAAC
66 GACAAAA-AAAGATCATAACTATTTGAA-ATAAATAATTGTTCAAATAGTCATAACCATTTG---
* * ** * *
71337 TGTTTTGTTTTGGTAAATAAATTTAGTTTTTAAATCT-CT-TATTAATTTTCAA
126 -GATTT-ATTCAGTAAACAAATTTAGTTTTTAAATCTCCTCTATTAACTTTCAA
* * * * ** * * *
71389 AATATTAATAGATCAGTAATGTTTTATTCTGAATAATTTTGCATGAACAA-AAACAATTATTTTC
1 AATATTAATAAATTAGTATTATTTTATTCTGAATAAACTTGTATGAA-AAGAAACAATTGTTTTA
* * * * * * *
71453 TAACAAAAAAAAGGTCATAACTATTTGAAATAGATAATTGTTCAAATGGACATGACTATTTGGAT
65 TGAC-AAAAAAAGATCATAACTATTTGAAATAAATAATTGTTCAAATAGTCATAACCATTTGGAT
* *
71518 TTATTCAGTAAACAGATTTATTTTTTAAATCTCCTACCTATTAACTTTCAA
129 TTATTCAGTAAACAAATTTAGTTTTTAAATCTCCT--CTATTAACTTTCAA
* * ** *
71569 AGTATTAATCAATTAGTATTATTTTATTCCAAATAAACTTGTAT-AAATAGAAATAATTGTTTTA
1 AATATTAATAAATTAGTATTATTTTATTCTGAATAAACTTGTATGAAA-AGAAACAATTGTTTTA
* * * * * *
71633 GGACAACAAAAGATCATAACTATTTGAAATAAAAAATTGTTCAAATAGTCATAACGATTT-AAAT
65 TGACAAAAAAAGATCATAACTATTTGAAATAAATAATTGTTCAAATAGTCATAACCATTTGGATT
* * * ** * **
71697 TAGCTCAGTAAACAAAGTTA-TTTTTAAAATTTTTTACTTATTAATTTTTGA
130 TA-TTCAGTAAACAAATTTAGTTTTT-AAATCTCCT-C-TATTAACTTTCAA
* ** * *
71748 AATATTAATAAATTAGTATTATTTTATT-TCAAATATGCTTGTATGAATAGAAACAATTGGTTTA
1 AATATTAATAAATTAGTATTATTTTATTCT-GAATAAACTTGTATGAAAAGAAACAATTGTTTTA
*
71812 TGACAAAACAAAGGGTCATAACTATTTGAA
65 TGACAAAA-AAA-GATCATAACTATTTGAA
71842 CATGTTCAGA
Statistics
Matches: 360, Mismatches: 77, Indels: 32
0.77 0.16 0.07
Matches are distributed among these distances:
176 24 0.07
177 6 0.02
178 11 0.03
179 139 0.39
180 63 0.17
181 109 0.30
182 8 0.02
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.40
Consensus pattern (177 bp):
AATATTAATAAATTAGTATTATTTTATTCTGAATAAACTTGTATGAAAAGAAACAATTGTTTTAT
GACAAAAAAAGATCATAACTATTTGAAATAAATAATTGTTCAAATAGTCATAACCATTTGGATTT
ATTCAGTAAACAAATTTAGTTTTTAAATCTCCTCTATTAACTTTCAA
Found at i:72114 original size:323 final size:326
Alignment explanation
Indices: 71527--72142 Score: 773
Period size: 323 Copynumber: 1.9 Consensus size: 326
71517 TTTATTCAGT
* *
71527 AAACAGATTTATTTTTTAAATCTCCTACCTATTAACTTTCAAAGTATTAATCAATTAGTATTATT
1 AAACAGATTTATTTTTAAAATCTCCTACCTATTAACTTTCAAAGTATTAATAAATTAGTATTATT
* * * *
71592 TTATTCCAAATAAACTTGTATAAATAGAAATAATTGTTTTAGGACAACAAAAGATCATAACTATT
66 TTATTCAAAATAAACTTGTATAAATAGAAACAATTGTTTTAGGACAAAAAAAGATCATAACAATT
* *
71657 TGAAATAAAAAATTGTTCAAATAGTCATAACGATTTAAATTAGCTCAGTAAACAAAGTTATTTTT
131 TGAAATAAAAAATAGTTCAAATAGACATAACGATTTAAATTAGCTCAGTAAACAAAGTTATTTTT
* *** **
71722 AAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATATGCT
196 AAAATCTCCAACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAACT
*
71787 TGTATGAATAGAAACA-ATTGGTTTATGACAAAACAAAGGGTCATAACTATTTGAACATGTTCAG
261 TGTATGAATAAAAACATA-TGGTTTATGACAAAACAAAGGGTCATAACTATTTGAACATGTTCAG
71851 AA
325 AA
* * * * *
71853 AAACATATTTATTTTTAAAAT-T-TTACTTATTAATTTTTGAAA-TATTAATAAATTTA-TATTA
1 AAACAGATTTATTTTTAAAATCTCCTACCTATTAA-CTTTCAAAGTATTAATAAA-TTAGTATTA
* * *
71914 TTTTATTCAAAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACAAAAAAA-ATGTCATAAC
64 TTTTATTCAAAATAAACTTGTATAAATAGAAACAATTGTTTTAGGACAAAAAAAGA--TCATAAC
* * * * * * * * ** *
71978 AATTTGAAATAGATAATAGTTTAAATGGACATGACTATTTAAATTTGTTTGGTAAAC-AA-TTTT
127 AATTTGAAATAAAAAATAGTTCAAATAGACATAACGATTTAAATTAGCTCAGTAAACAAAGTTAT
* **
72041 TTTTTAAATCTCCAACTTATTAATTTTT-AGAATATTAATTGATTAGTATTATTTTATTTCAAAT
192 TTTTAAAATCTCCAACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTCAAAT
*
72105 AAACTTGTATGAATAAAAACATATGTTTTATGACAAAA
256 AAACTTGTATGAATAAAAACATATGGTTTATGACAAAA
72143 TCTAACTATT
Statistics
Matches: 246, Mismatches: 38, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
322 1 0.00
323 91 0.37
324 74 0.30
325 61 0.25
326 19 0.08
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (326 bp):
AAACAGATTTATTTTTAAAATCTCCTACCTATTAACTTTCAAAGTATTAATAAATTAGTATTATT
TTATTCAAAATAAACTTGTATAAATAGAAACAATTGTTTTAGGACAAAAAAAGATCATAACAATT
TGAAATAAAAAATAGTTCAAATAGACATAACGATTTAAATTAGCTCAGTAAACAAAGTTATTTTT
AAAATCTCCAACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAACT
TGTATGAATAAAAACATATGGTTTATGACAAAACAAAGGGTCATAACTATTTGAACATGTTCAGA
A
Found at i:72349 original size:23 final size:21
Alignment explanation
Indices: 72322--72363 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
72312 TAATCTAATT
72322 CATTTTAAATTTAATAGAAATAG
1 CATTTTAAA-TTAATA-AAATAG
72345 CATTTTAAATTAATAAAAT
1 CATTTTAAATTAATAAAAT
72364 TAAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
CATTTTAAATTAATAAAATAG
Found at i:72391 original size:33 final size:34
Alignment explanation
Indices: 72352--72422 Score: 83
Period size: 33 Copynumber: 2.1 Consensus size: 34
72342 TAGCATTTTA
*
72352 AATTAATAAAATTAAATT-AATTATAATAA-TAAT
1 AATTAATAAAATT-AATTAAAATATAATAATTAAT
* * *
72385 AATTAATTATATTATTTAAAATATAATAATTAAT
1 AATTAATAAAATTAATTAAAATATAATAATTAAT
72419 AATT
1 AATT
72423 TTTATTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 3 0.09
33 21 0.66
34 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (34 bp):
AATTAATAAAATTAATTAAAATATAATAATTAAT
Found at i:72414 original size:23 final size:25
Alignment explanation
Indices: 72348--72417 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
72338 GAAATAGCAT
*
72348 TTTAAATTAATAA-AATTAAATTAA
1 TTTAAAATAATAATAATTAAATTAA
*
72372 TTATAATAATAATAATTAATTATATT-A
1 TT-TAA-AATAATAA-TAATTAAATTAA
72399 TTTAAAAT-ATAATAATTAA
1 TTTAAAATAATAATAATTAA
72418 TAATTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 6 0.15
24 6 0.15
25 6 0.15
26 10 0.26
27 3 0.08
28 8 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTAAAATAATAATAATTAAATTAA
Found at i:73401 original size:179 final size:176
Alignment explanation
Indices: 72951--73524 Score: 539
Period size: 179 Copynumber: 3.2 Consensus size: 176
72941 AATAAATTTA
* * * *
72951 TTTTTAAAAT-TTTTACTTACTAATTTTTGGAACATTAATAAATTTATATTATTTTATTTGAAAT
1 TTTTTAAAATCTTTTACTTATTAATTGTTGGAATATTAATAAATTAATATTATTTTATTTG-AAT
* * * * * * *
73015 AAGCTTGAATGAATATAACCAATTGTTTTTATGACAAAACAAAAGGTTGTAATGTTTTGAAATAG
65 AAGCTTGAATGAATAGAAACAATTG-TTTTATGACAAAACAAAAAGTT-CAAAGATTTGAAGTAG
* *
73080 ATAATTATT-AAGATAATCATAACTATTTGAACTTGTTCGATAAACATATTTATT
128 ATAATTATTCAA-ATAGTCAT-ACTATTTGAACTTGTTTGATAAAC----TTATT
* * * * * * * *
73134 TTTTTTAATTCTCTTACTTTTTATAATTTTTGGAATATTAATAAATTAGTATTATTTTGTTTCAA
1 TTTTTAAAATCTTTTAC-TTAT-TAATTGTTGGAATATTAATAAATTAATATTATTTTATTT-GA
* * * * *
73199 ATAAGC-TAACATGAATTGAAACAATTGTGTTATTACAAAACAAAATGTTACAAAGATTTGAAGT
63 ATAAGCTTGA-ATGAATAGAAACAATTGTTTTATGACAAAACAAAAAGTT-CAAAGATTTGAAGT
*
73263 AGATAATTATTCAAATAGTCATGACTATTTGAACTTGTTTGGTAAACTTATT
126 AGATAATTATTCAAATAGTCAT-ACTATTTGAACTTGTTTGATAAACTTATT
* *
73315 TTTTTAAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATCTGAAT
1 TTTTTAAAATCTTTTACTTATTAATTGTTGGAATATTAATAAATTAATATTATTTT-ATTTGAAT
* * *
73380 AAGCTTGTATGGATGGAAACAATTGTTTTATGACAAAACAAAAAAG-TCATAAGAATTTGAAAG-
65 AAGCTTGAATGAATAGAAACAATTGTTTTATGACAAAAC-AAAAAGTTCA-AAG-ATTTG-AAGT
* * * * * *
73443 AAATAATTATTCAGATAGTCATAATGATTTTAATTTGTTTGATAAA-TAGATT
126 AGATAATTATTCAAATAGTCATACT-ATTTGAACTTGTTTGATAAACT-TATT
*
73495 TATTGTTTAAATCTTTTACTTATTAATTGT
1 T-TT-TTAAAATCTTTTACTTATTAATTGT
73525 CTTATTAGTA
Statistics
Matches: 324, Mismatches: 51, Indels: 33
0.79 0.12 0.08
Matches are distributed among these distances:
178 2 0.01
179 73 0.23
180 57 0.18
181 24 0.07
182 24 0.07
183 8 0.02
184 5 0.02
185 73 0.23
186 58 0.18
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.44
Consensus pattern (176 bp):
TTTTTAAAATCTTTTACTTATTAATTGTTGGAATATTAATAAATTAATATTATTTTATTTGAATA
AGCTTGAATGAATAGAAACAATTGTTTTATGACAAAACAAAAAGTTCAAAGATTTGAAGTAGATA
ATTATTCAAATAGTCATACTATTTGAACTTGTTTGATAAACTTATT
Found at i:74140 original size:9 final size:9
Alignment explanation
Indices: 74123--74170 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
74113 TTAAATTAAT
74123 TTAATATTA
1 TTAATATTA
*
74132 TTAAAATTA
1 TTAATATTA
*
74141 TTATTATTA
1 TTAATATTA
74150 TTATATATTA
1 TTA-ATATTA
74160 -TAATAATTA
1 TTAAT-ATTA
74169 TT
1 TT
74171 GTAAATTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 2 0.06
9 24 0.75
10 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATATTA
Found at i:74144 original size:12 final size:12
Alignment explanation
Indices: 74127--74170 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
74117 ATTAATTTAA
*
74127 TATTATTAAAAT
1 TATTATTATAAT
*
74139 TATTATTATTAT
1 TATTATTATAAT
74151 TATATATTATAAT
1 TAT-TATTATAAT
*
74164 AATTATT
1 TATTATT
74171 GTAAATTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTATTATAAT
Found at i:74531 original size:15 final size:17
Alignment explanation
Indices: 74505--74536 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
74495 TAATTAAATT
74505 AATTATATAAAT-TTAA
1 AATTATATAAATATTAA
74521 AATTA-ATAAATATTAA
1 AATTATATAAATATTAA
74537 TAAATTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTATATAAATATTAA
Found at i:74952 original size:17 final size:17
Alignment explanation
Indices: 74878--74973 Score: 55
Period size: 17 Copynumber: 5.9 Consensus size: 17
74868 TTCATTTGTT
74878 TAATAAA-ATTAATATTA
1 TAATAAATATT-ATATTA
* *
74895 TTATATA-ATTA-ATTA
1 TAATAAATATTATATTA
*
74910 -AAT-AATATAAT-TATA
1 TAATAAATATTATAT-TA
**
74925 TAATATTTATTATATTA
1 TAATAAATATTATATTA
74942 TAATAAATATT-TAATATA
1 TAATAAATATTAT-AT-TA
74960 TAAT-AATATTATAT
1 TAATAAATATTATAT
74974 AATTATGCTA
Statistics
Matches: 60, Mismatches: 10, Indels: 18
0.68 0.11 0.20
Matches are distributed among these distances:
13 1 0.02
14 6 0.10
15 6 0.10
16 5 0.08
17 34 0.57
18 8 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATAAATATTATATTA
Found at i:74959 original size:21 final size:21
Alignment explanation
Indices: 74912--74967 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
74902 ATTAATTAAA
74912 TAATATAATTAT-AT-AATATT
1 TAATAT-ATTATAATAAATATT
*
74932 TATTATATTATAATAAATATT
1 TAATATATTATAATAAATATT
*
74953 TAATATATAATAATA
1 TAATATATTATAATA
74968 TTATATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 7 0.23
21 19 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATATTATAATAAATATT
Found at i:75027 original size:17 final size:16
Alignment explanation
Indices: 75002--75048 Score: 69
Period size: 17 Copynumber: 2.9 Consensus size: 16
74992 AATCATTATG
75002 TTATAATATTAAGTAA
1 TTATAATATTAAGTAA
*
75018 TTATTAATATTAATTAA
1 TTA-TAATATTAAGTAA
75035 TTATAA-ATTAAGTA
1 TTATAATATTAAGTA
75049 CTTTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 15 0.54
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
TTATAATATTAAGTAA
Found at i:75101 original size:20 final size:19
Alignment explanation
Indices: 75078--75141 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 19
75068 AAATATTAGT
75078 TATTTAATAATTATCAATTA
1 TATTTAATAATTATCAA-TA
* *
75098 TATTGAACAAATTATCCAA-A
1 TATTTAA-TAATTAT-CAATA
75118 TATTATAATAATTAT-AATAA
1 TATT-TAATAATTATCAAT-A
75138 TATT
1 TATT
75142 AGTTACAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 2 0.06
20 22 0.63
21 8 0.23
22 3 0.09
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (19 bp):
TATTTAATAATTATCAATA
Found at i:75274 original size:20 final size:20
Alignment explanation
Indices: 75235--75299 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
75225 TAATTTATTT
* *
75235 ATATTACTTATTAATAATAA
1 ATATTAATTATTTATAATAA
*
75255 ATATTAATTATTTATTATAA
1 ATATTAATTATTTATAATAA
* * *
75275 GT-TT--TAATTTATCATAA
1 ATATTAATTATTTATAATAA
75292 ATATTAAT
1 ATATTAAT
75300 AATTACTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 12 0.34
18 2 0.06
19 2 0.06
20 19 0.54
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATTAATTATTTATAATAA
Found at i:75302 original size:20 final size:20
Alignment explanation
Indices: 75251--75303 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 20
75241 CTTATTAATA
* *
75251 ATAAATATTAATTATTTATT
1 ATAAATATTAATAATTTATC
*
75271 ATAAGT-TT--TAATTTATC
1 ATAAATATTAATAATTTATC
75288 ATAAATATTAATAATT
1 ATAAATATTAATAATT
75304 ACTATTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 12 0.46
18 2 0.08
19 2 0.08
20 10 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
ATAAATATTAATAATTTATC
Found at i:75476 original size:13 final size:13
Alignment explanation
Indices: 75425--75585 Score: 57
Period size: 13 Copynumber: 11.8 Consensus size: 13
75415 AATAAATAAC
75425 TATTTATTA-TAA
1 TATTTATTATTAA
75437 TATTATAATTATCT--
1 TATT-T-ATTAT-TAA
*
75451 TAATTATTATTAA
1 TATTTATTATTAA
*
75464 TATTTATTTTTAA
1 TATTTATTATTAA
*
75477 TATTAAATATAATTAA
1 TATT---TATTATTAA
75493 T-TTATATTATTTAA
1 TATT-TATTA-TTAA
* * *
75507 TA-ATATAAATAA
1 TATTTATTATTAA
75519 T-TATTATATATTAA
1 TAT-TTAT-TATTAA
75533 TCTATTTATTATATAA
1 --TATTTATTAT-TAA
* *
75549 TAATTATTA-TAT
1 TATTTATTATTAA
*
75561 TATTTATCTATCAA
1 TATTTAT-TATTAA
*
75575 TATTAATTATT
1 TATTTATTATT
75586 TTAATTAATA
Statistics
Matches: 110, Mismatches: 19, Indels: 39
0.65 0.11 0.23
Matches are distributed among these distances:
11 1 0.01
12 21 0.19
13 34 0.31
14 31 0.28
15 5 0.05
16 17 0.15
17 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTATTATTAA
Found at i:75501 original size:39 final size:39
Alignment explanation
Indices: 75425--75584 Score: 94
Period size: 40 Copynumber: 4.3 Consensus size: 39
75415 AATAAATAAC
*
75425 TATTTATTATAATATTATAATTATCTTAATTATTATTAA
1 TATTTATTATAATATTATAATTATATTAATTATTATTAA
* *
75464 TATTTATTTTTAATATTA-AA-TATAATTAA-T-TTA-TAT
1 TATTTA-TTATAATATTATAATTAT-ATTAATTATTATTAA
75500 TATTTA--ATAATA-TA-AA-TA-ATT-ATTATATATTAA
1 TATTTATTATAATATTATAATTATATTAATTAT-TATTAA
* * * *
75533 TCTATTTATTAT-ATAATAATTATTATATTATTTATCTATCAA
1 --TATTTATTATAAT-ATTATAATTATATTAATTAT-TATTAA
*
75575 TATTAATTAT
1 TATTTATTAT
75585 TTTAATTAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
29 1 0.01
30 4 0.04
31 1 0.01
32 8 0.09
33 7 0.07
35 6 0.06
36 10 0.11
37 6 0.06
38 5 0.05
39 13 0.14
40 21 0.22
41 3 0.03
42 9 0.10
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (39 bp):
TATTTATTATAATATTATAATTATATTAATTATTATTAA
Found at i:75532 original size:26 final size:26
Alignment explanation
Indices: 75482--75625 Score: 71
Period size: 26 Copynumber: 5.1 Consensus size: 26
75472 TTTAATATTA
*
75482 AATATAATTAA-T-TTATATTATTTAAT
1 AATATAAATAATTATTATA-TA-TTAAT
75508 AATATAAATAATTATTATATATTAATCT
1 AATATAAATAATTATTATATATTAA--T
*
75536 ATTTATTATATAATAATTATTATATTATTTAT
1 A---A-TATA-AATAATTATTATA-TATTAAT
* *
75568 -CTATCAATATTAATTATTTTA-ATTAAT
1 AATAT-AA-A-TAATTATTATATATTAAT
* *
75595 ACTATAAATTAATAATTATAATATTAAT
1 AATATAAA-TAATTATTAT-ATATTAAT
75623 AAT
1 AAT
75626 TATTTAATTT
Statistics
Matches: 94, Mismatches: 8, Indels: 30
0.71 0.06 0.23
Matches are distributed among these distances:
26 24 0.26
27 15 0.16
28 21 0.22
29 10 0.11
31 1 0.01
32 5 0.05
33 13 0.14
34 5 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (26 bp):
AATATAAATAATTATTATATATTAAT
Found at i:75543 original size:19 final size:18
Alignment explanation
Indices: 75498--75563 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
75488 ATTAATTTAT
*
75498 ATTATTTAATA-AT-ATA
1 ATTATTTATTATATAATA
* * *
75514 AATAATTATTATATATTA
1 ATTATTTATTATATAATA
75532 ATCTATTTATTATATAATA
1 AT-TATTTATTATATAATA
75551 ATTATTATATTAT
1 ATTATT-TATTAT
75564 TTATCTATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 8 0.21
17 2 0.05
18 7 0.18
19 22 0.56
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTTATTATATAATA
Found at i:75634 original size:23 final size:23
Alignment explanation
Indices: 75419--75613 Score: 56
Period size: 26 Copynumber: 8.4 Consensus size: 23
75409 TATCCAAATA
*
75419 AATAACTATTT-ATTATAATATT
1 AATAATTATTTAATTATAATATT
75441 -ATAATTATCTTAATTAT--TATT
1 AATAATTAT-TTAATTATAATATT
*
75462 AATATTTA-TT--TT-TAATATT
1 AATAATTATTTAATTATAATATT
* *
75481 -A-AATATAATTAATTTATATTATTT
1 AATAAT-TATTTAA-TTATAATA-TT
** *
75505 AATAATATAAATAATTATTATA-T
1 AATAAT-TATTTAATTATAATATT
* *
75528 ATTAATCTATTTATTATATAATAATT
1 AATAAT-TATTTAAT-TATAAT-ATT
*
75554 ATTATATTATTT-ATCTATCAATATT
1 AATA-ATTATTTAAT-TAT-AATATT
* *
75579 AATTATTTTAATTAATACTATAA-ATT
1 AA-TA-ATTATTTAAT--TATAATATT
75605 AATAATTAT
1 AATAATTAT
75614 AATATTAATA
Statistics
Matches: 131, Mismatches: 20, Indels: 42
0.68 0.10 0.22
Matches are distributed among these distances:
17 3 0.02
18 5 0.04
19 6 0.05
20 2 0.02
21 11 0.08
22 10 0.08
23 20 0.15
24 10 0.08
25 18 0.14
26 36 0.27
27 6 0.05
28 4 0.03
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
AATAATTATTTAATTATAATATT
Found at i:75794 original size:46 final size:47
Alignment explanation
Indices: 75705--75794 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 47
75695 ATTATTAAGA
* * *
75705 ATAATTAATATAATAATTAAATTAAATTATTAAATAATTTATTACTT
1 ATAATTAATAAAATAATAAAATTAAATTATTAAATAATATATTACTT
* *
75752 ATAATT-ATAAAATAATAAAATTAAA-TATATCAATTATATATTA
1 ATAATTAATAAAATAATAAAATTAAATTAT-TAAATAATATATTA
75795 TAAGATTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
45 3 0.08
46 28 0.76
47 6 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (47 bp):
ATAATTAATAAAATAATAAAATTAAATTATTAAATAATATATTACTT
Found at i:76109 original size:142 final size:142
Alignment explanation
Indices: 75963--76252 Score: 311
Period size: 142 Copynumber: 2.0 Consensus size: 142
75953 TTATTCGAAA
* ** *
75963 ATAAAATAATACT-AATCTAATAATAATTTTGAAAATTAATAA-CTAAGAGAATTAAAATAAATT
1 ATAAAATAA-AATGAATCTAATAAT-ATTTCAAAAATTAATAAGC-AAGAGAATTAAAAAAAATT
* ** * * * *
76026 -TGTTTGTCAAACCAGTTTAAATATTTAAGACTATAAT-AAGAATT-ATCTATTTCAAATCATTA
63 CTATTTACCAAACCAATTCAAATAATTAAGACTAT-ATGAACAATTAATCTATTT-AAATCATTA
*
76088 TGACTTTTTGTTTTATC
126 TGACCTTTTGTTTTATC
* * *
76105 ATAAAATAAAATGAATTTATTAATATTTCAAAAATTAATAAGCAAGAGATTTAAAAAAAATTCTA
1 ATAAAATAAAATGAATCTAATAATATTTCAAAAATTAATAAGCAAGAGAATTAAAAAAAATTCTA
* * * *
76170 TTTACCTAACCAATTCAAATAATTATGACTATTTGAACAATTAATGTATTTAAATCATTATGACC
66 TTTACCAAACCAATTCAAATAATTAAGACTATATGAACAATTAATCTATTTAAATCATTATGACC
*
76235 TTTTGTTTTGTC
131 TTTTGTTTTATC
*
76247 ACAAAA
1 ATAAAA
76253 ATATTTTGTT
Statistics
Matches: 122, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
141 35 0.29
142 80 0.66
143 7 0.06
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (142 bp):
ATAAAATAAAATGAATCTAATAATATTTCAAAAATTAATAAGCAAGAGAATTAAAAAAAATTCTA
TTTACCAAACCAATTCAAATAATTAAGACTATATGAACAATTAATCTATTTAAATCATTATGACC
TTTTGTTTTATC
Found at i:76166 original size:141 final size:142
Alignment explanation
Indices: 75994--76252 Score: 319
Period size: 142 Copynumber: 1.8 Consensus size: 142
75984 AATAATTTTG
* * ** * * *
75994 AAAATTAATAACTAAGAGAATTAAAATAAATT-TGTTTGTCAAACCAGTTTAAATATTTAAGACT
1 AAAATTAATAACTAAGAGAATTAAAAAAAATTCTATTTACCAAACCAATTCAAATAATTAAGACT
* * *
76058 ATAAT-AAGAATT-ATCTATTTCAAATCATTATGACTTTTTGTTTTATCATAAAATAAAATGAAT
66 AT-ATGAACAATTAATCTATTT-AAATCATTATGACCTTTTGTTTTATCACAAAATAAAATGAAT
76121 TTATTAATATTTCA
129 TTATTAATATTTCA
* * *
76135 AAAATTAATAAGC-AAGAGATTTAAAAAAAATTCTATTTACCTAACCAATTCAAATAATTATGAC
1 AAAATTAATAA-CTAAGAGAATTAAAAAAAATTCTATTTACCAAACCAATTCAAATAATTAAGAC
* * *
76199 TATTTGAACAATTAATGTATTTAAATCATTATGACCTTTTGTTTTGTCACAAAA
65 TATATGAACAATTAATCTATTTAAATCATTATGACCTTTTGTTTTATCACAAAA
76253 ATATTTTGTT
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
141 29 0.30
142 62 0.63
143 7 0.07
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (142 bp):
AAAATTAATAACTAAGAGAATTAAAAAAAATTCTATTTACCAAACCAATTCAAATAATTAAGACT
ATATGAACAATTAATCTATTTAAATCATTATGACCTTTTGTTTTATCACAAAATAAAATGAATTT
ATTAATATTTCA
Found at i:76817 original size:10 final size:10
Alignment explanation
Indices: 76795--76886 Score: 53
Period size: 10 Copynumber: 8.2 Consensus size: 10
76785 TAATAATTTA
76795 ATAATAT-TGT
1 ATAATATAT-T
76805 ATAATATATT
1 ATAATATATT
76815 ATAATTATAATT
1 ATAA-TAT-ATT
76827 ATTAATTTATAATT
1 A-TAA--TAT-ATT
76841 ATAATTATATT
1 ATAA-TATATT
*
76852 ATTATATATT
1 ATAATATATT
76862 AATAA-ATATT
1 -ATAATATATT
76872 AATATATAGTATT
1 -ATA-ATA-TATT
76885 AT
1 AT
76887 TATTAATGAC
Statistics
Matches: 71, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
10 27 0.38
11 14 0.20
12 11 0.15
13 10 0.14
14 9 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
ATAATATATT
Found at i:76823 original size:6 final size:6
Alignment explanation
Indices: 76804--76853 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
76794 AATAATATTG
76804 TATAA- TAT-AT TATAAT TATAAT TATTAATT TATAAT TATAAT TAT-AT
1 TATAAT TATAAT TATAAT TATAAT TA-TAA-T TATAAT TATAAT TATAAT
76851 TAT
1 TAT
76854 TATATATTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
4 1 0.02
5 11 0.27
6 20 0.49
7 6 0.15
8 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TATAAT
Found at i:76824 original size:26 final size:26
Alignment explanation
Indices: 76795--76859 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
76785 TAATAATTTA
76795 ATAATATTGTATAATAT-ATTATAATT
1 ATAATATT-TATAATATAATTATAATT
* *
76821 ATAATTATTAAT-TTATAATTATAATT
1 ATAA-TATTTATAATATAATTATAATT
*
76847 ATATTATTATATA
1 ATAATATT-TATA
76860 TTAATAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
25 7 0.23
26 20 0.65
27 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
ATAATATTTATAATATAATTATAATT
Found at i:76836 original size:20 final size:20
Alignment explanation
Indices: 76813--76893 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 20
76803 GTATAATATA
76813 TTATAATTATAATTATTAAT
1 TTATAATTATAATTATTAAT
*
76833 TTATAATTATAATTA-TATT
1 TTATAATTATAATTATTAAT
*
76852 ATTATATATTAATAAATATTAAT
1 -TTATA-ATT-ATAATTATTAAT
* * *
76875 ATAT-AGTATTATTATTAAT
1 TTATAATTATAATTATTAAT
76894 GACTATAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
19 13 0.26
20 22 0.44
21 3 0.06
22 9 0.18
23 3 0.06
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (20 bp):
TTATAATTATAATTATTAAT
Found at i:77176 original size:45 final size:48
Alignment explanation
Indices: 77117--77226 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 48
77107 TTAAATTAGT
*
77117 TATAATAA-ATAAAT-ATTAATTATTAT-AAT-ACTTATATTAT-ATCTA
1 TATAATAATATAAATAATTAA-TATTATAAATAACTAATATTATAAT-TA
* *
77162 TATAATAATA-AAATAATTAATATTTTAAATAACTAATTTTATAATTA
1 TATAATAATATAAATAATTAATATTATAAATAACTAATATTATAATTA
*
77209 TATAATAATATTAATAAT
1 TATAATAATATAAATAAT
77227 AAATTAGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
45 17 0.31
46 9 0.16
47 21 0.38
48 8 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (48 bp):
TATAATAATATAAATAATTAATATTATAAATAACTAATATTATAATTA
Found at i:77341 original size:11 final size:10
Alignment explanation
Indices: 77315--77372 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
77305 TACAAATACT
*
77315 AATTATTACA
1 AATTATTATA
77325 ATATTATTTATA
1 A-ATTA-TTATA
*
77337 AATTAGTATA
1 AATTATTATA
*
77347 AATTATAATA
1 AATTATTATA
77357 ATATTATTAT-
1 A-ATTATTATA
77367 AATTAT
1 AATTAT
77373 AATTATACTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 5 0.12
10 15 0.38
11 15 0.38
12 5 0.12
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
AATTATTATA
Found at i:77801 original size:24 final size:25
Alignment explanation
Indices: 77767--77813 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
77757 AATCTTAACT
77767 TAATTAGTATA-ACTAATAATATTAC
1 TAATTAGTATATA-TAATAATATTAC
77792 TAATTA-TATATATAATAATATT
1 TAATTAGTATATATAATAATATT
77814 TATTATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (25 bp):
TAATTAGTATATATAATAATATTAC
Found at i:77807 original size:21 final size:21
Alignment explanation
Indices: 77782--77831 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
77772 AGTATAACTA
*
77782 ATAATATTACTAATTATATAT
1 ATAATATTACTAATTATAAAT
* * *
77803 ATAATAATATTTATTATAAAT
1 ATAATATTACTAATTATAAAT
*
77824 TTAATATT
1 ATAATATT
77832 TAATAGTTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATATTACTAATTATAAAT
Found at i:78704 original size:23 final size:23
Alignment explanation
Indices: 78677--78720 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
78667 AACTAGTAAA
78677 TATATAAGAT-ATATTAATTATTT
1 TATAT-AGATAATATTAATTATTT
*
78700 TATATATATAATATTAATTAT
1 TATATAGATAATATTAATTAT
78721 ATATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATATAGATAATATTAATTATTT
Found at i:78706 original size:16 final size:17
Alignment explanation
Indices: 78685--78732 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
78675 AATATATAAG
78685 ATATATTAATTATT-TT
1 ATATATTAATTATTATT
78701 ATATATATAA-TATTAATT
1 ATATAT-TAATTATT-ATT
78719 ATATATTAA-TATTA
1 ATATATTAATTATTA
78733 AACAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.38
17 10 0.34
18 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATTAATTATTATT
Found at i:79988 original size:22 final size:22
Alignment explanation
Indices: 79957--80042 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 22
79947 AATTTTTTAC
79957 CAATACTTATTAATAATAATAAT
1 CAATA-TTATTAATAATAATAAT
*
79980 -AATATTTATTGTTAATAATATTAAT
1 CAATA-TTA---TTAATAATAATAAT
80005 CAATATTATTAATTAATAATTTAAT
1 CAATATTATTAA-TAATAA--TAAT
*
80030 ATAATATTATTAA
1 -CAATATTATTAA
80043 ATACATTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
22 11 0.22
23 5 0.10
25 20 0.39
26 15 0.29
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (22 bp):
CAATATTATTAATAATAATAAT
Found at i:80009 original size:13 final size:12
Alignment explanation
Indices: 79964--80038 Score: 59
Period size: 12 Copynumber: 6.4 Consensus size: 12
79954 TACCAATACT
79964 TATTAATAATAA
1 TATTAATAATAA
* *
79976 TAATAAT-AT-T
1 TATTAATAATAA
**
79986 TATTGTTAATAA
1 TATTAATAATAA
*
79998 TATTAATCAATAT
1 TATTAAT-AATAA
80011 TATTAATTAATAA
1 TATTAA-TAATAA
80024 T-TTAAT-ATAA
1 TATTAATAATAA
80034 TATTA
1 TATTA
80039 TTAAATACAT
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
10 9 0.19
11 8 0.17
12 15 0.31
13 15 0.31
14 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (12 bp):
TATTAATAATAA
Found at i:80011 original size:10 final size:9
Alignment explanation
Indices: 79964--80030 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
79954 TACCAATACT
79964 TATTAATAA
1 TATTAATAA
*
79973 TAATAATAA
1 TATTAATAA
*
79982 TATT--TAT
1 TATTAATAA
*
79989 TGTTAATAA
1 TATTAATAA
79998 TATTAATCAA
1 TATTAAT-AA
*
80008 TATT-ATTA
1 TATTAATAA
80016 -ATTAATAA
1 TATTAATAA
80024 T-TTAATA
1 TATTAATA
80031 TAATATTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
7 8 0.18
8 10 0.22
9 21 0.47
10 6 0.13
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (9 bp):
TATTAATAA
Found at i:80020 original size:26 final size:25
Alignment explanation
Indices: 79965--80079 Score: 94
Period size: 26 Copynumber: 4.5 Consensus size: 25
79955 ACCAATACTT
*
79965 ATTAATAATAATAATAATATTTATT-
1 ATTAATAATATTAATAATA-TTATTA
*
79990 GTTAATAATATTAATCAATATTATTA
1 ATTAATAATATTAAT-AATATTATTA
80016 ATTAATAAT-TTAATATAATATTATTA
1 ATTAATAATATT-A-ATAATATTATTA
* * * *
80042 AATACATTAAAATTGATTATA-TATTA
1 ATTA-A-TAATATTAATAATATTATTA
80068 ATT-ATAATATTA
1 ATTAATAATATTA
80080 TATTGTATTA
Statistics
Matches: 73, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
23 6 0.08
24 1 0.01
25 20 0.27
26 33 0.45
27 8 0.11
28 3 0.04
29 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
ATTAATAATATTAATAATATTATTA
Done.