Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014733.1 Kokia drynarioides strain JFW-HI SEQ_129772, 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: 172481
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 20 characters in sequence are not A, C, G, or T
Found at i:198 original size:6 final size:6
Alignment explanation
Indices: 173--238 Score: 77
Period size: 6 Copynumber: 11.5 Consensus size: 6
163 TTATAATAAT
* *
173 TTTAAA TTTGAAA -ATAAA TTTAAA TTT-AA TTTAAA TTTAAA -ATAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
219 TTTAAA TTT-AA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTT
239 TTAACAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
5 17 0.33
6 31 0.61
7 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:205 original size:11 final size:12
Alignment explanation
Indices: 173--238 Score: 77
Period size: 11 Copynumber: 5.8 Consensus size: 12
163 TTATAATAAT
173 TTTAAATTTGAAA
1 TTTAAATTT-AAA
*
186 -ATAAATTTAAA
1 TTTAAATTTAAA
197 TTT-AATTTAAA
1 TTTAAATTTAAA
*
208 TTTAAA-ATAAA
1 TTTAAATTTAAA
219 TTTAAATTT-AA
1 TTTAAATTTAAA
230 TTTAAATTT
1 TTTAAATTT
239 TTAACAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 35 0.76
12 11 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:223 original size:28 final size:29
Alignment explanation
Indices: 173--238 Score: 125
Period size: 28 Copynumber: 2.3 Consensus size: 29
163 TTATAATAAT
173 TTTAAATTTGAAAATAAATTTAAATTTAA
1 TTTAAATTTGAAAATAAATTTAAATTTAA
202 TTTAAATTT-AAAATAAATTTAAATTTAA
1 TTTAAATTTGAAAATAAATTTAAATTTAA
230 TTTAAATTT
1 TTTAAATTT
239 TTAACAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 28 0.76
29 9 0.24
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTAAATTTGAAAATAAATTTAAATTTAA
Found at i:247 original size:28 final size:28
Alignment explanation
Indices: 173--268 Score: 113
Period size: 28 Copynumber: 3.4 Consensus size: 28
163 TTATAATAAT
*
173 TTTAAATTTGAAAATAAATTTAAATTTAA
1 TTTAAATTT-AAAACAAATTTAAATTTAA
*
202 TTTAAATTTAAAATAAATTTAAATTTAA
1 TTTAAATTTAAAACAAATTTAAATTTAA
**
230 TTTAAATTTTTAACAAATTT-AATCTTAA
1 TTTAAATTTAAAACAAATTTAAAT-TTAA
**
258 AATAAATTTAA
1 TTTAAATTTAA
269 GGGGGAGTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 3 0.05
28 47 0.80
29 9 0.15
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (28 bp):
TTTAAATTTAAAACAAATTTAAATTTAA
Found at i:842 original size:6 final size:6
Alignment explanation
Indices: 817--855 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
807 ACAATTCATA
* * *
817 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
856 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:5004 original size:30 final size:30
Alignment explanation
Indices: 4965--5021 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
4955 TTTATGATTA
* * *
4965 CTAATTTAAAATTTTATAATTTTAAAGTGT
1 CTAAATTAAAAATTTACAATTTTAAAGTGT
*
4995 CTAAATTAAAAATTTACCATTTTAAAG
1 CTAAATTAAAAATTTACAATTTTAAAG
5022 GGGCTATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (30 bp):
CTAAATTAAAAATTTACAATTTTAAAGTGT
Found at i:8411 original size:24 final size:24
Alignment explanation
Indices: 8383--8448 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
8373 TAGAGTAATA
*
8383 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* * *
8407 AGAGTTTAATTGAAATAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
8431 AGAGTTTAACT-AAA-AAAT
1 AGAGTTTAACTCAAACAAAT
8449 TATTTCTCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 4 0.11
23 3 0.08
24 30 0.81
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:8649 original size:21 final size:19
Alignment explanation
Indices: 8603--8695 Score: 89
Period size: 21 Copynumber: 4.6 Consensus size: 19
8593 ACATAATTCC
8603 AAAATTATAAAAAATCA-T
1 AAAATTATAAAAAATCATT
8621 AAACATTATAAGAAAATCATT
1 AAA-ATTATAA-AAAATCATT
*
8642 ACAAATTATAAAAAAATCATA
1 A-AAATTAT-AAAAAATCATT
* *
8663 AAAATATATTTAAAAATTATT
1 AAAAT-TA-TAAAAAATCATT
8684 AAAATTCATAAA
1 AAAATT-ATAAA
8696 TGACATCTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.05
19 7 0.11
20 15 0.24
21 32 0.52
22 5 0.08
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.30
Consensus pattern (19 bp):
AAAATTATAAAAAATCATT
Found at i:8689 original size:41 final size:40
Alignment explanation
Indices: 8603--8695 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 40
8593 ACATAATTCC
*
8603 AAAATTAT-AAAAAATCATAAACATTATAAGAAAATCATT
1 AAAATTATAAAAAAATCATAAAAATTATAAGAAAATCATT
* *
8642 ACAAATTATAAAAAAATCATAAAAATATATTTA-AAAATTATT
1 A-AAATTATAAAAAAATCATAAAAAT-TA-TAAGAAAATCATT
8684 AAAATTCATAAA
1 AAAATT-ATAAA
8696 TGACATCTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
39 1 0.02
40 7 0.15
41 20 0.43
42 16 0.35
43 2 0.04
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.30
Consensus pattern (40 bp):
AAAATTATAAAAAAATCATAAAAATTATAAGAAAATCATT
Found at i:14288 original size:15 final size:15
Alignment explanation
Indices: 14264--14293 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14254 AATAAATAAT
*
14264 TAAAATTAATTAAAC
1 TAAAAGTAATTAAAC
14279 TAAAAGTAATTAAAC
1 TAAAAGTAATTAAAC
14294 ATTTAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (15 bp):
TAAAAGTAATTAAAC
Found at i:17149 original size:42 final size:42
Alignment explanation
Indices: 17102--17182 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
17092 TGAGAATATG
17102 CAGAACTAGAAAAGAAAATCACAAAAAGATGTAAATTTTATA
1 CAGAACTAGAAAAGAAAATCACAAAAAGATGTAAATTTTATA
*
17144 CAGAACTAGGAAAGAAAATCACAAAAAGATGTAAATTTT
1 CAGAACTAGAAAAGAAAATCACAAAAAGATGTAAATTTT
17183 GTGTTATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.56, C:0.10, G:0.14, T:0.21
Consensus pattern (42 bp):
CAGAACTAGAAAAGAAAATCACAAAAAGATGTAAATTTTATA
Found at i:17658 original size:15 final size:16
Alignment explanation
Indices: 17625--17660 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17615 GCATTTAATT
*
17625 TTTATATTTTTGTTTA
1 TTTATATTGTTGTTTA
17641 TTTATATTGTTG-TTA
1 TTTATATTGTTGTTTA
17656 TTTAT
1 TTTAT
17661 TTTCATGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (16 bp):
TTTATATTGTTGTTTA
Found at i:17762 original size:41 final size:39
Alignment explanation
Indices: 17694--17780 Score: 95
Period size: 41 Copynumber: 2.2 Consensus size: 39
17684 TCTTTTATTA
* * *
17694 TTATTTATTTAATTTGCATTTATTTTTATTATCTTGTTTGT
1 TTATTTATTTAATTTGCATTAAATTTTATT-TCTTGCTT-T
* *
17735 TTATTTATTT-ATTTATCATTAAATTTTATTTTTTGCTTT
1 TTATTTATTTAATTT-GCATTAAATTTTATTTCTTGCTTT
17774 TTATTTA
1 TTATTTA
17781 ATTACGTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 8 0.20
40 10 0.25
41 22 0.55
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.69
Consensus pattern (39 bp):
TTATTTATTTAATTTGCATTAAATTTTATTTCTTGCTTT
Found at i:18241 original size:18 final size:18
Alignment explanation
Indices: 18218--18254 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
18208 AGAAAATCAA
*
18218 GGCAATATTCTTTGTTTC
1 GGCAATATTCTTTATTTC
18236 GGCAATATTCTTTATTTC
1 GGCAATATTCTTTATTTC
18254 G
1 G
18255 AGAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (18 bp):
GGCAATATTCTTTATTTC
Found at i:19464 original size:22 final size:22
Alignment explanation
Indices: 19439--19504 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
19429 TCATACAATG
*
19439 ACAAAAAATATCAATACTTTTT
1 ACAAAAAATATCAATACCTTTT
* * **
19461 ACAAAAAGTATCGATACCTTGC
1 ACAAAAAATATCAATACCTTTT
*
19483 A-AAAAAATATGAATACCTTTT
1 ACAAAAAATATCAATACCTTTT
19504 A
1 A
19505 TAAAGTATCG
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
21 16 0.47
22 18 0.53
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (22 bp):
ACAAAAAATATCAATACCTTTT
Found at i:19466 original size:21 final size:21
Alignment explanation
Indices: 19441--19504 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
19431 ATACAATGAC
*
19441 AAAAAATATCAATACTTTTTA
1 AAAAAATATCAATACCTTTTA
* * **
19462 CAAAAAGTATCGATACCTTGCA
1 -AAAAAATATCAATACCTTTTA
*
19484 AAAAAATATGAATACCTTTTA
1 AAAAAATATCAATACCTTTTA
19505 TAAAGTATCG
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.31
Consensus pattern (21 bp):
AAAAAATATCAATACCTTTTA
Found at i:24035 original size:15 final size:14
Alignment explanation
Indices: 24007--24045 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
23997 TGTTTGACAG
*
24007 TTTTATTGAAAATA
1 TTTTATTAAAAATA
24021 TTTTAATTAAAAATA
1 TTTT-ATTAAAAATA
24036 TTTTATTAAA
1 TTTTATTAAA
24046 TTCAGGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
TTTTATTAAAAATA
Found at i:24295 original size:15 final size:15
Alignment explanation
Indices: 24275--24328 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
24265 ATATTACAAA
24275 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
24290 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
24307 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
24324 ATATT
1 ATATT
24329 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:24527 original size:13 final size:14
Alignment explanation
Indices: 24505--24536 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24495 CATATTGAGA
24505 AATA-TAATATTTT
1 AATATTAATATTTT
24518 -ATATTAATATTTT
1 AATATTAATATTTT
24531 AATATT
1 AATATT
24537 TTTAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 9 0.53
14 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATTAATATTTT
Found at i:26324 original size:49 final size:48
Alignment explanation
Indices: 26246--26338 Score: 141
Period size: 49 Copynumber: 1.9 Consensus size: 48
26236 GGAGTTCTAA
* * *
26246 CCAAATGAGTGGGAAGAAACAAAGAAAATGATAATCCAGCTATGGCAG
1 CCAAATGAGTGAGAAAAAACAAAGAAAATGAAAATCCAGCTATGGCAG
*
26294 CCAAATGAGTGAGAACAAAACAAAGGAAATGAAAATCCAGCTATG
1 CCAAATGAGTGAGAA-AAAACAAAGAAAATGAAAATCCAGCTATG
26339 TTATTAACGT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 14 0.35
49 26 0.65
ACGTcount: A:0.48, C:0.15, G:0.23, T:0.14
Consensus pattern (48 bp):
CCAAATGAGTGAGAAAAAACAAAGAAAATGAAAATCCAGCTATGGCAG
Found at i:33072 original size:20 final size:20
Alignment explanation
Indices: 33019--33072 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
33009 CTCCTAAGAG
* *
33019 ACTTCTACCGATAAAACTCC
1 ACTTCTACTGATACAACTCC
33039 ACTTCTACTGATACAACTCC
1 ACTTCTACTGATACAACTCC
33059 ACTTCTACTGATAC
1 ACTTCTACTGATAC
33073 CTTGAAGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.33, G:0.06, T:0.30
Consensus pattern (20 bp):
ACTTCTACTGATACAACTCC
Found at i:38980 original size:23 final size:23
Alignment explanation
Indices: 38915--39001 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
38905 TAATTCACCA
* * *
38915 AAGTGCCACTTTCATTCGTACCG
1 AAGTGCCACTTTCATTTGCACTG
* * * *
38938 AAATGTCATATTTCAATTGCACTG
1 AAGTGCCA-CTTTCATTTGCACTG
*
38962 AAGTGTCACTTTCATTTGCA-TCG
1 AAGTGCCACTTTCATTTGCACT-G
38985 AAGTGCCACTTTCATTT
1 AAGTGCCACTTTCATTT
39002 ACGCGCATAA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
22 1 0.02
23 33 0.65
24 17 0.33
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (23 bp):
AAGTGCCACTTTCATTTGCACTG
Found at i:40466 original size:15 final size:15
Alignment explanation
Indices: 40442--40471 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40432 CTTCGCAGAG
*
40442 AATTTTCTCTCTTTA
1 AATTTGCTCTCTTTA
40457 AATTTGCTCTCTTTA
1 AATTTGCTCTCTTTA
40472 TATAAGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (15 bp):
AATTTGCTCTCTTTA
Found at i:42171 original size:22 final size:21
Alignment explanation
Indices: 42146--42186 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
42136 TAGGAACTGA
42146 TGTTTAATGTAGAATGTTAACT
1 TGTTTAATGTAGAAT-TTAACT
* *
42168 TGTTTATTTTAGAATTTAA
1 TGTTTAATGTAGAATTTAA
42187 TACTCATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (21 bp):
TGTTTAATGTAGAATTTAACT
Found at i:42446 original size:5 final size:6
Alignment explanation
Indices: 42385--42470 Score: 51
Period size: 5 Copynumber: 14.7 Consensus size: 6
42375 CAAGATAAAC
*
42385 ATTAA- ATTAAT -TTAAT ATTAAG A-TAAT CACTTTAAT ATTAA- ATTAAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT -A--TTAAT ATTAAT ATTAAT
* *
42432 AAT-AT ATTAAT -TTAAT ATTAAACT ATTAA- AATAAT ATTA
1 ATTAAT ATTAAT ATTAAT ATT-AA-T ATTAAT ATTAAT ATTA
42471 TTTTTGGAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 23
0.68 0.07 0.25
Matches are distributed among these distances:
5 31 0.49
6 19 0.30
7 4 0.06
8 5 0.08
9 4 0.06
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (6 bp):
ATTAAT
Found at i:42710 original size:20 final size:22
Alignment explanation
Indices: 42671--42710 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
42661 TTTAGTTGAA
*
42671 TAATTCTCACGATCACATAATT
1 TAATTCTCACGATCAAATAATT
42693 TAATTC-CAC-ATCAAATAA
1 TAATTCTCACGATCAAATAA
42711 ATCAACTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.33
Consensus pattern (22 bp):
TAATTCTCACGATCAAATAATT
Found at i:62337 original size:17 final size:17
Alignment explanation
Indices: 62307--62357 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
62297 TGGGCCCAAC
62307 AAAATTTAAATTTATTTT
1 AAAA-TTAAATTTATTTT
*
62325 AAAATTAAGTTTATTTT
1 AAAATTAAATTTATTTT
*
62342 AAATTTAAATTTATTT
1 AAAATTAAATTTATTT
62358 AAATAATGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 26 0.87
18 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AAAATTAAATTTATTTT
Found at i:63015 original size:16 final size:17
Alignment explanation
Indices: 62994--63039 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
62984 TAAACGAATC
62994 AATAATAAATAATA-TT
1 AATAATAAATAATATTT
** *
63010 AATAATAACGACTATTT
1 AATAATAAATAATATTT
63027 AATAA-AAATAATA
1 AATAATAAATAATA
63040 ATGGATATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAATAAATAATATTT
Found at i:63087 original size:13 final size:13
Alignment explanation
Indices: 63071--63133 Score: 60
Period size: 12 Copynumber: 5.1 Consensus size: 13
63061 AATGAATGAC
*
63071 ATTAATAAATATT
1 ATTAATAAATAAT
*
63084 ATTAATTAATAAT
1 ATTAATAAATAAT
*
63097 AATAAT-AATAAT
1 ATTAATAAATAAT
*
63109 AATAAT-AATAAT
1 ATTAATAAATAAT
*
63121 AATAAT-AATAAT
1 ATTAATAAATAAT
63133 A
1 A
63134 AGTTTTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
12 31 0.66
13 16 0.34
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAATAAATAAT
Found at i:63096 original size:3 final size:3
Alignment explanation
Indices: 63090--63134 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
63080 TATTATTAAT
63090 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
63135 GTTTTTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:64289 original size:30 final size:30
Alignment explanation
Indices: 64148--64280 Score: 141
Period size: 29 Copynumber: 4.5 Consensus size: 30
64138 GGAGGTCCTT
*
64148 AAACTGTCCGAAAATT-TCATTTTT-ACTCCCG
1 AAACT-TCCAAAAATTCT-ATTTTTGAC-CCCG
* *
64179 -AACTTCCAAAAATTCCA-TTTTGACCCCA
1 AAACTTCCAAAAATTCTATTTTTGACCCCG
* * **
64207 AAACTTTCTAAAATTCTATTTTTGACCTTG
1 AAACTTCCAAAAATTCTATTTTTGACCCCG
64237 -AACTTCCAAAAATTCTATTTTTGACCCCG
1 AAACTTCCAAAAATTCTATTTTTGACCCCG
64266 AAACTTCCAAAAATT
1 AAACTTCCAAAAATT
64281 ACTGTTTTGC
Statistics
Matches: 84, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.08
29 51 0.61
30 26 0.31
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (30 bp):
AAACTTCCAAAAATTCTATTTTTGACCCCG
Found at i:64289 original size:59 final size:59
Alignment explanation
Indices: 64177--64316 Score: 160
Period size: 59 Copynumber: 2.4 Consensus size: 59
64167 TTTTTACTCC
* * * *
64177 CGAACTTCCAAAAATTCCA-TTTTGACCCCAAAACTTTCTAAAATTCTATTTTTGACCT
1 CGAACTTCCAAAAATTCAATTTTTGACCCCAAAACTTCCAAAAATTCTAGTTTTGACCT
* * * *
64235 TGAACTTCCAAAAATTCTATTTTTGACCCCGAAACTTCCAAAAATTACT-GTTTTGCCCT
1 CGAACTTCCAAAAATTCAATTTTTGACCCCAAAACTTCCAAAAATT-CTAGTTTTGACCT
*
64294 CGAA-TGTCCAAAAACTCAATTTT
1 CGAACT-TCCAAAAATTCAATTTT
64317 CGACATCGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 18 0.26
59 49 0.71
60 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (59 bp):
CGAACTTCCAAAAATTCAATTTTTGACCCCAAAACTTCCAAAAATTCTAGTTTTGACCT
Found at i:65675 original size:25 final size:25
Alignment explanation
Indices: 65647--65698 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
65637 TACAAAGTAC
65647 CCTTGTTTTCGTGAAGTTTTCACTT
1 CCTTGTTTTCGTGAAGTTTTCACTT
65672 CCTTGTTTTCGTGAAGTTTTCACTT
1 CCTTGTTTTCGTGAAGTTTTCACTT
65697 CC
1 CC
65699 GTGCAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.12, C:0.23, G:0.15, T:0.50
Consensus pattern (25 bp):
CCTTGTTTTCGTGAAGTTTTCACTT
Found at i:68802 original size:22 final size:21
Alignment explanation
Indices: 68761--68803 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
68751 TTTAGACAAA
*
68761 TAGAGGAAAAATACAGGCGAT
1 TAGAGGAAAAATACACGCGAT
68782 TAGAGGAGAAAAT-CGACGCGAT
1 TAGAGGA-AAAATAC-ACGCGAT
68804 GCAAGGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.44, C:0.12, G:0.30, T:0.14
Consensus pattern (21 bp):
TAGAGGAAAAATACACGCGAT
Found at i:76562 original size:116 final size:119
Alignment explanation
Indices: 76404--76615 Score: 295
Period size: 116 Copynumber: 1.8 Consensus size: 119
76394 AAATGGTTAG
* * * * ** * *
76404 CTTCCTGATGAGATATAGAGAAGTATACCAACTCAGGGCTCGATGTGATCAAATCTTCGAATCCC
1 CTTCCTGATGAGATACAAAGAAGAATACCAACTCAGGACTCGATGCAAGCAAATCTTCGAACCCC
76469 -A-A-CTTCCTGATGAGATACAGAGAAACAGATTGAAACAAGTAAGACATTCAT
66 AACAGCTTCCTGATGAGATACAGAGAAACAGATTGAAACAAGTAAGACATTCAT
* *
76520 CTTCCTGATGAGATACAAAGAAGAATATCGACTCAGGACTCGATGCAAGCAAATCTTCGAACCCC
1 CTTCCTGATGAGATACAAAGAAGAATACCAACTCAGGACTCGATGCAAGCAAATCTTCGAACCCC
* *
76585 AACAGCTTCTTGATGAGATACTGAGAAACAG
66 AACAGCTTCCTGATGAGATACAGAGAAACAG
76616 GTCGAAGCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
116 55 0.68
117 1 0.01
118 1 0.01
119 24 0.30
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (119 bp):
CTTCCTGATGAGATACAAAGAAGAATACCAACTCAGGACTCGATGCAAGCAAATCTTCGAACCCC
AACAGCTTCCTGATGAGATACAGAGAAACAGATTGAAACAAGTAAGACATTCAT
Found at i:76897 original size:122 final size:121
Alignment explanation
Indices: 76675--76988 Score: 463
Period size: 122 Copynumber: 2.6 Consensus size: 121
76665 CCAAATTCAT
* * * **
76675 CTTCCTGATGAGATACAGAGAAGTGGATTGAAACAA-GCAATGCAGTTATCTTCCTGATGAGACA
1 CTTCCTGATAAGATACTGAGAAGAGG-TTGAAGTAATGCAATGCAGTTATCTTCCTGATGAGACA
* * *
76739 CTGAGAAGAAGACCAAATCAAACCCATGCTCGATGTGAGCAAATCCTCGAACCCCAG
65 CTGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCCTCGAACCCCAA
76796 CTTCCTGATAAGATACTGAGAAGCAGGTTGAAGTAATGCAATGCAGTTATCTTCCTGATGAGACA
1 CTTCCTGATAAGATACTGAGAAG-AGGTTGAAGTAATGCAATGCAGTTATCTTCCTGATGAGACA
76861 CTGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCCTCGAACCCCAA
65 CTGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCCTCGAACCCCAA
** * * *
76918 CTTCCTGATAAGATACTGAGAAGTAGGTTGAAGTAATAAAATG--GTTAGCTTCCTAATGAGATA
1 CTTCCTGATAAGATACTGAGAAG-AGGTTGAAGTAATGCAATGCAGTTATCTTCCTGATGAGACA
76981 CTGAGAAG
65 CTGAGAAG
76989 TGAATCAAAT
Statistics
Matches: 177, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
120 25 0.14
121 28 0.16
122 124 0.70
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (121 bp):
CTTCCTGATAAGATACTGAGAAGAGGTTGAAGTAATGCAATGCAGTTATCTTCCTGATGAGACAC
TGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCCTCGAACCCCAA
Found at i:77197 original size:206 final size:206
Alignment explanation
Indices: 76796--77293 Score: 664
Period size: 206 Copynumber: 2.4 Consensus size: 206
76786 CGAACCCCAG
* * **
76796 CTTCCTGATAAGATACTGAGAAGCAGG-TTGAAGTAATGCAATGCA-GTTATCTTCCTGATGAGA
1 CTTCCTGATGAGATACAGAGAAGC-GGATTGAAACAA-GCAATG-AGGTTATCTTCCTGATGAGA
76859 CACTGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCCTCGAACCCCAACTTCCT
63 CACTGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCCTCGAACCCCAACTTCCT
* * * *
76924 GATAAGATACTGAGAAGTAGGTTGAAGTAATAAAATGGTTAGCTTCCTAATGAGATACTGAGAAG
128 GATAAGATACTGAGAAGCAGGTTGAAGTAATAAAATGGTTAGCTTCCTAACGAAATACGGAGAAG
** *
76989 TGAA-TCAAATTCGT
193 TGAACT-AAAACCAT
77003 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCAATGAGGTTATCTTCCTGATGAGACAC
1 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCAATGAGGTTATCTTCCTGATGAGACAC
* * * *
77068 TGAAAAGAAGACCAAATCAAACCCACGCTCTATGTGAGCAAATCCTCGAACCCCAGCTTCTTGAT
66 TGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCCTCGAACCCCAACTTCCTGAT
* * *
77133 AAGATACTGAGAAGCAGGTTGAAGTAATAAAATGGTTAGCTTCTTGACGAAATACGGGGAAGTGA
131 AAGATACTGAGAAGCAGGTTGAAGTAATAAAATGGTTAGCTTCCTAACGAAATACGGAGAAGTGA
77198 ACTAAAACCAT
196 ACTAAAACCAT
* * * ** *
77209 CTTCCTGATGAAATACAGAGAAGTGGATCGAAACAAG-AGAT-ATGGTCGTCTTCCTGATGAGAT
1 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCA-ATGA-GGTTATCTTCCTGATGAGAC
* * *
77272 ACTTAGAAGAAGGCCAAGTCAA
64 ACTGAGAAGAAGACCAAATCAA
77294 TAAAACCAGA
Statistics
Matches: 258, Mismatches: 28, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
205 3 0.01
206 225 0.87
207 30 0.12
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (206 bp):
CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCAATGAGGTTATCTTCCTGATGAGACAC
TGAGAAGAAGACCAAATCAAACCCACGCTCAATGTGAGCAAATCCTCGAACCCCAACTTCCTGAT
AAGATACTGAGAAGCAGGTTGAAGTAATAAAATGGTTAGCTTCCTAACGAAATACGGAGAAGTGA
ACTAAAACCAT
Found at i:77615 original size:6 final size:6
Alignment explanation
Indices: 77604--77690 Score: 85
Period size: 6 Copynumber: 15.2 Consensus size: 6
77594 AGGTCCAACA
* * * *
77604 AAATTT AAATTT -ATTTT AAAATT AAGTTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
77650 --ATTT GAAATTT AAATTT ATA-TT AAATTT AAATTT AAATTT A
1 AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT A
77691 TTTAAATAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.06
5 12 0.18
6 46 0.70
7 4 0.06
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
AAATTT
Found at i:77633 original size:17 final size:17
Alignment explanation
Indices: 77604--77684 Score: 126
Period size: 17 Copynumber: 4.8 Consensus size: 17
77594 AGGTCCAACA
77604 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTTT
* *
77621 AAAATTAAGTTTATTTT
1 AAATTTAAATTTATTTT
*
77638 AAATTTAAATTTATTTG
1 AAATTTAAATTTATTTT
*
77655 AAATTTAAATTTATATT
1 AAATTTAAATTTATTTT
77672 AAATTTAAATTTA
1 AAATTTAAATTTA
77685 AATTTATTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AAATTTAAATTTATTTT
Found at i:77661 original size:23 final size:23
Alignment explanation
Indices: 77604--77690 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 23
77594 AGGTCCAACA
*
77604 AAATTTAAATTT-ATTTTAAAATT
1 AAATTTAAATTTAAATTT-AAATT
* *
77627 AAGTTT-ATTTTAAATTTAAATT
1 AAATTTAAATTTAAATTTAAATT
* *
77649 -TATTTGAAATTTAAATTTATATT
1 AAATTT-AAATTTAAATTTAAATT
77672 AAATTTAAATTTAAATTTA
1 AAATTTAAATTTAAATTTA
77691 TTTAAATAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.06
22 9 0.17
23 36 0.69
24 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
AAATTTAAATTTAAATTTAAATT
Found at i:78354 original size:16 final size:17
Alignment explanation
Indices: 78333--78378 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
78323 TAAACGAATC
78333 AATAATAAATAATA-TT
1 AATAATAAATAATATTT
** *
78349 AATAATAACGACTATTT
1 AATAATAAATAATATTT
78366 AATAA-AAATAATA
1 AATAATAAATAATA
78379 ACGGATATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (17 bp):
AATAATAAATAATATTT
Found at i:79535 original size:29 final size:29
Alignment explanation
Indices: 79488--79682 Score: 164
Period size: 29 Copynumber: 6.7 Consensus size: 29
79478 GCCCTGGAGT
* *
79488 CCCTAAACTATTCGAAAATACCATTTTTAC
1 CCCTAAACT-TTCAAAAATTCCATTTTTAC
* * *
79518 CCCTAAACTTTCGAAAATTTCATTTTAAC
1 CCCTAAACTTTCAAAAATTCCATTTTTAC
* * *
79547 CTCGAAAC-TTCCAAAATTCCATTTTTTA-
1 CCCTAAACTTTCAAAAATTCCA-TTTTTAC
* * *
79575 CCTTGAAACTTCCAAAAATTCTATTTTTGAC
1 CCCT-AAACTTTCAAAAATTCCATTTTT-AC
* *
79606 CCC-GAACTTCCAAAAATTCCATTTTTA-
1 CCCTAAACTTTCAAAAATTCCATTTTTAC
*
79633 CCCTCAAACTTTCAAAAATTCTATTTTTGAC
1 CCCT-AAACTTTCAAAAATTCCATTTTT-AC
* *
79664 CCCGAAACTTCCAAAAATT
1 CCCTAAACTTTCAAAAATT
79683 ACCGTTTTGC
Statistics
Matches: 134, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
27 3 0.02
28 13 0.10
29 78 0.58
30 35 0.26
31 5 0.04
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTTCAAAAATTCCATTTTTAC
Found at i:79673 original size:59 final size:59
Alignment explanation
Indices: 79502--79682 Score: 237
Period size: 58 Copynumber: 3.1 Consensus size: 59
79492 AAACTATTCG
* * * *
79502 AAAATACCATTTTTACCC-CTAAACTTTCGAAAATT-TCA-TTTTAACCTCGAAACTTCC-
1 AAAATTCCATTTTTACCCTC-AAACTTTCAAAAATTCT-ATTTTTGACCCCGAAACTTCCA
* * *
79559 AAAATTCCATTTTTTACCTTGAAACTTCCAAAAATTCTATTTTTGACCCCG-AACTTCCA
1 AAAATTCCA-TTTTTACCCTCAAACTTTCAAAAATTCTATTTTTGACCCCGAAACTTCCA
79618 AAAATTCCATTTTTACCCTCAAACTTTCAAAAATTCTATTTTTGACCCCGAAACTTCCA
1 AAAATTCCATTTTTACCCTCAAACTTTCAAAAATTCTATTTTTGACCCCGAAACTTCCA
79677 AAAATT
1 AAAATT
79683 ACCGTTTTGC
Statistics
Matches: 108, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
57 8 0.07
58 67 0.62
59 33 0.31
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (59 bp):
AAAATTCCATTTTTACCCTCAAACTTTCAAAAATTCTATTTTTGACCCCGAAACTTCCA
Found at i:79773 original size:58 final size:59
Alignment explanation
Indices: 79585--79776 Score: 169
Period size: 58 Copynumber: 3.3 Consensus size: 59
79575 CCTTGAAACT
* * * * *
79585 TCCAAAAATTCTATTTTTGACCCCG-AACTTCCAAAAATT-CCATTTTTACCCTCAAACT-
1 TCCAAAAATTCCATTTTCGACCCCGAAACTTCCAAAAATTACC-CTTTTACCCCCGAA-TG
* * * * * * * *
79643 TTCAAAAATTCTATTTTTGACCCCGAAACTTCCAAAAATTACCGTTTTGCTCTCGGATG
1 TCCAAAAATTCCATTTTCGACCCCGAAACTTCCAAAAATTACCCTTTTACCCCCGAATG
* * *
79702 TCCAAAAACTCCATTTTCGACCTCGAAAC-TCTC-AAAATTGCCCTTTTACCCCCGAATG
1 TCCAAAAATTCCATTTTCGACCCCGAAACTTC-CAAAAATTACCCTTTTACCCCCGAATG
*
79760 TCTAAAAATTCCATTTT
1 TCCAAAAATTCCATTTT
79777 TAACTCCGAA
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
58 61 0.55
59 48 0.43
60 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (59 bp):
TCCAAAAATTCCATTTTCGACCCCGAAACTTCCAAAAATTACCCTTTTACCCCCGAATG
Found at i:82609 original size:33 final size:33
Alignment explanation
Indices: 82568--82635 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
82558 GACCCCTCTT
82568 AAAAATATTCAAAATAATCTTCGAATCAAACAA
1 AAAAATATTCAAAATAATCTTCGAATCAAACAA
82601 AAAAATATTCAAAATAATCTTCGAATCAAACAA
1 AAAAATATTCAAAATAATCTTCGAATCAAACAA
82634 AA
1 AA
82636 TCATTGATGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24
Consensus pattern (33 bp):
AAAAATATTCAAAATAATCTTCGAATCAAACAA
Found at i:85389 original size:2 final size:2
Alignment explanation
Indices: 85382--85414 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
85372 TAAAAGGAAG
85382 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
85415 CAACAAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:91733 original size:41 final size:40
Alignment explanation
Indices: 91635--91793 Score: 169
Period size: 41 Copynumber: 4.0 Consensus size: 40
91625 AGTGGCGACT
* * *
91635 TTTC-CATAAACGCCGCTAATACTATGACCTTTAGC-GGC
1 TTTCTCATAAGCGCCGCTAATGCTCTGACCTTTAGCGGGC
* * * * *
91673 GTTTATGAGAAAGCACCGCTAATGCTCTAACCTTTAGCGGTGC
1 -TTTCTCA-TAAGCGCCGCTAATGCTCTGACCTTTAGCGG-GC
* *
91716 TTTCTCATAAGCGCCGCTAATGCTCCGACCTTTAGTGGGC
1 TTTCTCATAAGCGCCGCTAATGCTCTGACCTTTAGCGGGC
* *
91756 TTTCCCATAAGAGCCGCTAATGCTCTGACCTTTAGCGG
1 TTTCTCATAAGCGCCGCTAATGCTCTGACCTTTAGCGG
91794 CCCCGCTAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.03
40 37 0.38
41 49 0.51
42 6 0.06
43 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (40 bp):
TTTCTCATAAGCGCCGCTAATGCTCTGACCTTTAGCGGGC
Found at i:91772 original size:40 final size:41
Alignment explanation
Indices: 91688--91793 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 41
91678 TGAGAAAGCA
* * *
91688 CCGCTAATGCTCTAACCTTTAGCGGTGCTTTCTCATAAGCG
1 CCGCTAATGCTCTGACCTTTAGCGGTGCTTTCCCATAAGAG
* *
91729 CCGCTAATGCTCCGACCTTTAGTGG-GCTTTCCCATAAGAG
1 CCGCTAATGCTCTGACCTTTAGCGGTGCTTTCCCATAAGAG
91769 CCGCTAATGCTCTGACCTTTAGCGG
1 CCGCTAATGCTCTGACCTTTAGCGG
91794 CCCCGCTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 36 0.62
41 22 0.38
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.29
Consensus pattern (41 bp):
CCGCTAATGCTCTGACCTTTAGCGGTGCTTTCCCATAAGAG
Found at i:91842 original size:68 final size:67
Alignment explanation
Indices: 91729--91861 Score: 185
Period size: 68 Copynumber: 2.0 Consensus size: 67
91719 CTCATAAGCG
* * * * *
91729 CCGCTAATGCTCCGACCTTTAGTGGGCTTTCCCATAAGAGCCGCTAATGCTCTGACCTTTAGCGG
1 CCGCTAATGCTCCAAACTTTAGAGCGCTTTCCCATAAGAGCCGCTAATGCTCCGACCTTTAGCGG
91794 CC
66 CC
* * *
91796 CCGCTAATGCTCCAAACTTTAGCAGCGCTTTCCTATAAGCGCCGCTAATGCTCCGACTTTTAGCG
1 CCGCTAATGCTCCAAACTTTAG-AGCGCTTTCCCATAAGAGCCGCTAATGCTCCGACCTTTAGCG
91861 G
65 G
91862 TGCTTCCTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
67 20 0.35
68 37 0.65
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.27
Consensus pattern (67 bp):
CCGCTAATGCTCCAAACTTTAGAGCGCTTTCCCATAAGAGCCGCTAATGCTCCGACCTTTAGCGG
CC
Found at i:91858 original size:41 final size:41
Alignment explanation
Indices: 91796--91884 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
91786 TTTAGCGGCC
*
91796 CCGCTAATGCTCCAAACTTTAGCAGCGCTTTCC-TATAAGCG
1 CCGCTAATGCTCCAAACTTTAGCAGCGC-TTCCTTATAAACG
* * *
91837 CCGCTAATGCTCC-GACTTTTAGCGGTGCTTCCTTATAAACG
1 CCGCTAATGCTCCAAAC-TTTAGCAGCGCTTCCTTATAAACG
91878 CCGCTAA
1 CCGCTAA
91885 AGGTCAGAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 6 0.14
41 36 0.86
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.28
Consensus pattern (41 bp):
CCGCTAATGCTCCAAACTTTAGCAGCGCTTCCTTATAAACG
Found at i:92023 original size:40 final size:40
Alignment explanation
Indices: 91956--92069 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
91946 TTTTTTCTAT
*
91956 AAACATCGCTATTGCTTTACCTTTTGCGGCGTTTATGGAA
1 AAACACCGCTATTGCTTTACCTTTTGCGGCGTTTATGGAA
*
91996 AAACGCCG-TCATTGCTTTA-CTTGTTGCGGCGTTTATGGAA
1 AAACACCGCT-ATTGCTTTACCTT-TTGCGGCGTTTATGGAA
* *
92036 AAACATCGCTAATGCTTTACCTTTTGCGGCGTTT
1 AAACACCGCTATTGCTTTACCTTTTGCGGCGTTT
92070 TCTGTCCAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
39 4 0.06
40 57 0.88
41 4 0.06
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (40 bp):
AAACACCGCTATTGCTTTACCTTTTGCGGCGTTTATGGAA
Found at i:93691 original size:6 final size:6
Alignment explanation
Indices: 93666--93710 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
93656 ACAATTCATA
* * *
93666 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
93711 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:94054 original size:20 final size:21
Alignment explanation
Indices: 94012--94061 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
94002 TATGCATCAA
94012 TTTTTCATTTCTATTTCAATT
1 TTTTTCATTTCTATTTCAATT
* * *
94033 TTTTTCTTTTTTATTTC-TTT
1 TTTTTCATTTCTATTTCAATT
94053 TTTTTCATT
1 TTTTTCATT
94062 AATTTTCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTCATTTCTATTTCAATT
Found at i:102479 original size:28 final size:31
Alignment explanation
Indices: 102439--102495 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 31
102429 TCCATTATAC
*
102439 CACATACATCCATGAATTTCAC-ATTTTTCA
1 CACATACATCCATCAATTTCACTATTTTTCA
*
102469 CACATA-A-CCATCAATTTGACTATTTTT
1 CACATACATCCATCAATTTCACTATTTTT
102496 ATGATTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.46
29 7 0.29
30 6 0.25
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.39
Consensus pattern (31 bp):
CACATACATCCATCAATTTCACTATTTTTCA
Found at i:106832 original size:21 final size:21
Alignment explanation
Indices: 106808--106876 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
106798 CCGCAACACT
106808 TTTTAACCATAATAAAAAACA
1 TTTTAACCATAATAAAAAACA
* *
106829 TTTTAA--ATTAACAAATCATAC-
1 TTTTAACCA-TAATAAA--AAACA
106850 TTTTAACCATAATAAAAAACA
1 TTTTAACCATAATAAAAAACA
106871 TTTTAA
1 TTTTAA
106877 ATTAACAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 18 0.47
22 9 0.24
23 1 0.03
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTTAACCATAATAAAAAACA
Found at i:106861 original size:42 final size:42
Alignment explanation
Indices: 106808--106895 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
106798 CCGCAACACT
106808 TTTTAACCATAATAAAAAACATTTTAAATTAACAAATCATAC
1 TTTTAACCATAATAAAAAACATTTTAAATTAACAAATCATAC
106850 TTTTAACCATAATAAAAAACATTTTAAATTAACAAATCATAC
1 TTTTAACCATAATAAAAAACATTTTAAATTAACAAATCATAC
106892 TTTT
1 TTTT
106896 TCACACTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (42 bp):
TTTTAACCATAATAAAAAACATTTTAAATTAACAAATCATAC
Found at i:106895 original size:21 final size:21
Alignment explanation
Indices: 106829--106895 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
106819 ATAAAAAACA
106829 TTTTAAATTAACAAATCATAC
1 TTTTAAATTAACAAATCATAC
* *
106850 TTTTAACCA-TAATAAA--AAAC
1 TTTTAA--ATTAACAAATCATAC
106870 ATTTTAAATTAACAAATCATAC
1 -TTTTAAATTAACAAATCATAC
106892 TTTT
1 TTTT
106896 TCACACTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
19 1 0.03
20 9 0.25
21 16 0.44
22 9 0.25
23 1 0.03
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTTAAATTAACAAATCATAC
Found at i:110679 original size:89 final size:88
Alignment explanation
Indices: 110509--110747 Score: 221
Period size: 89 Copynumber: 2.7 Consensus size: 88
110499 TTAAGGATGT
* ** * *
110509 AAAAAATCTTCAAACTTTTTTTAAAAAAATAATTAAGTCCCAACTTTTTTTTGCACTCAATTGGA
1 AAAAAAACTTCAAACTTTTTCAAAAAAAATAATTAAGGCCCAACGTTTTTTTGCACTCAATTGGA
*
110574 TACTTGAACTGCCAAAACGCATA
66 TACTTAAACTGCCAAAACGCATA
* * *
110597 AAAAAAACTCTCAAACTTTTTCAAAAAAAATAATTAAGGCCCTACGTTTTTTTGCGCTTAATTGG
1 AAAAAAACT-TCAAACTTTTTCAAAAAAAATAATTAAGGCCCAACGTTTTTTTGCACTCAATTGG
* * ** * *
110662 GTGCTTAAACTTTCAAAAGGCATCC
65 ATACTTAAACTGCCAAAACGCAT-A
** ** * ** * *
110687 AAAAAGCCTTCAAGTTTTTTCCAAAAAAGCAATTAA-G-CCAATGATTTTTTTTCACTCAATT
1 AAAAAAACTTCAAACTTTTTCAAAAAAAATAATTAAGGCCCAACG-TTTTTTTGCACTCAATT
110748 ACGTATTGGA
Statistics
Matches: 121, Mismatches: 27, Indels: 6
0.79 0.18 0.04
Matches are distributed among these distances:
87 4 0.03
88 23 0.19
89 87 0.72
90 7 0.06
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (88 bp):
AAAAAAACTTCAAACTTTTTCAAAAAAAATAATTAAGGCCCAACGTTTTTTTGCACTCAATTGGA
TACTTAAACTGCCAAAACGCATA
Found at i:110820 original size:20 final size:20
Alignment explanation
Indices: 110784--110821 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
110774 AAAAGGTTTT
**
110784 TTGACCGTTAACTTTAACAA
1 TTGACCGTTAAAATTAACAA
110804 TTGACCGTTAAAATTAAC
1 TTGACCGTTAAAATTAAC
110822 TACTCCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (20 bp):
TTGACCGTTAAAATTAACAA
Found at i:112167 original size:29 final size:30
Alignment explanation
Indices: 112110--112168 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
112100 TTAAGCCATC
**
112110 AAAATTTAAATATTTTTATAGTTTATTATT
1 AAAATTTAAATATTTTTATAACTTATTATT
112140 AAAATTT-AATAATTTTTATAACTT-TTATT
1 AAAATTTAAAT-ATTTTTATAACTTATTATT
112169 GTTTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
AAAATTTAAATATTTTTATAACTTATTATT
Found at i:112407 original size:90 final size:88
Alignment explanation
Indices: 112255--112459 Score: 215
Period size: 90 Copynumber: 2.3 Consensus size: 88
112245 TTAAAGGTGA
* *
112255 TTCAAGTACTCAATTGAGTGCAAAAAAATCAGTGGCTTAATTGCTTTTTTTGAAAATATTTGAGG
1 TTCAAGTACTCAATTGAGTGCAAAAAAATCAGGGGCTTAATTGATTTTTTTGAAAATATTTGAGG
112320 AT-TTTTTTAATGCATTTTAAAAG
66 -TCTTTTTTAATGCATTTTAAAAG
* *
112343 TTCAAGTA-TCCAATTGGGTGCAAAAAAAATGTAGGGGCTTAATT-ATTTTTTTCGAAAA-AGTT
1 TTCAAGTACT-CAATTGAGTGC-AAAAAAAT-CAGGGGCTTAATTGATTTTTTT-GAAAATA-TT
* * *
112405 TGAGGTCTTTTTT-ATACATTATTTATAG
61 TGAGGTCTTTTTTAATGCATT-TTAAAAG
* * *
112433 TTTAAGTACCCAACT-AGTGCAAAAAAA
1 TTCAAGTACTCAATTGAGTGCAAAAAAA
112460 AAAGCTTAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
87 1 0.01
88 25 0.26
89 27 0.28
90 45 0.46
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (88 bp):
TTCAAGTACTCAATTGAGTGCAAAAAAATCAGGGGCTTAATTGATTTTTTTGAAAATATTTGAGG
TCTTTTTTAATGCATTTTAAAAG
Found at i:113320 original size:13 final size:13
Alignment explanation
Indices: 113293--113328 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
113283 TTGGATTTTT
113293 AGGTTCAATGTTCA
1 AGGTTCAA-GTTCA
113307 AGGTTCAAGTTCA
1 AGGTTCAAGTTCA
*
113320 AGGCTCAAG
1 AGGTTCAAG
113329 GCTTAAGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (13 bp):
AGGTTCAAGTTCA
Found at i:114469 original size:20 final size:20
Alignment explanation
Indices: 114446--114496 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
114436 AGCATACTTA
*
114446 TATCGGTAGAACTGAAGTTG
1 TATCGGTAGAACTGAAGTTC
* *
114466 TATCGGTAAAAGTGAAGTTC
1 TATCGGTAGAACTGAAGTTC
*
114486 TACCGGTAGAA
1 TATCGGTAGAA
114497 GTCCCAGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (20 bp):
TATCGGTAGAACTGAAGTTC
Found at i:114568 original size:20 final size:20
Alignment explanation
Indices: 114543--114592 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
114533 GGAGTCGTTC
114543 TATCGGTAGATGTTTCATTG
1 TATCGGTAGATGTTTCATTG
114563 TATCGGTAGATGTTTCATTG
1 TATCGGTAGATGTTTCATTG
114583 TATCGGTAGA
1 TATCGGTAGA
114593 ACTCTGAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.42
Consensus pattern (20 bp):
TATCGGTAGATGTTTCATTG
Found at i:114747 original size:20 final size:20
Alignment explanation
Indices: 114708--114761 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
114698 AGTCTTCAAG
* *
114708 GTATCGGTAGAACTGTAGTT
1 GTATCGGTAGAAGTGGAGTT
114728 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAGAAGTGGAGTT
*
114748 TTA-CTGGTAGAAGT
1 GTATC-GGTAGAAGT
114762 CTCACTAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.33
Consensus pattern (20 bp):
GTATCGGTAGAAGTGGAGTT
Found at i:115318 original size:31 final size:31
Alignment explanation
Indices: 115283--115343 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
115273 AAATGTTCAT
*
115283 TGAACTATTCAAAAGTTTTCATTTATGTCAC
1 TGAACTATTCAAAAGTTTTCATTTAAGTCAC
*
115314 TGAACTATTCAAAAGTTTTTATTTAAGTCA
1 TGAACTATTCAAAAGTTTTCATTTAAGTCA
115344 TTGAGTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (31 bp):
TGAACTATTCAAAAGTTTTCATTTAAGTCAC
Found at i:130290 original size:41 final size:41
Alignment explanation
Indices: 130242--130442 Score: 244
Period size: 41 Copynumber: 4.9 Consensus size: 41
130232 GCTTTCCTAG
* *
130242 AAGCGCCGCTAATGCTTCGGCCTTTAGCGGCACTTTCTCAT
1 AAGCGCCGCTAATGCTTCGACCTTTAGCGGCGCTTTCTCAT
* * * *
130283 AAGCGCCGCTAATGCTCCGACTTTTAGCGACGCTTTTTCAT
1 AAGCGCCGCTAATGCTTCGACCTTTAGCGGCGCTTTCTCAT
* *
130324 AAGCGCCGCTAATGCTCCGTCCTTTAGCGGCGCTTTCTCAT
1 AAGCGCCGCTAATGCTTCGACCTTTAGCGGCGCTTTCTCAT
* * *
130365 AAAGCGCCGCTAATGCTT-TACCTTTTGCGGCGCTTTCCCAT
1 -AAGCGCCGCTAATGCTTCGACCTTTAGCGGCGCTTTCTCAT
* * * *
130406 AAGCGCAGCTAATGCTT-TACCTTTTGCGGCGTTTTCT
1 AAGCGCCGCTAATGCTTCGACCTTTAGCGGCGCTTTCT
130443 TTCCAAACGC
Statistics
Matches: 141, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 34 0.24
41 91 0.65
42 16 0.11
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (41 bp):
AAGCGCCGCTAATGCTTCGACCTTTAGCGGCGCTTTCTCAT
Found at i:131365 original size:96 final size:96
Alignment explanation
Indices: 131188--131372 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
131178 GAAAAGGATG
* ** * *
131188 TTCGATTATCTCGATTTGAGGAAATGTTGCACCTAGTAAGTTAAGGGGCAAATTTTCAGAATCGA
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTCCAGAATCGA
* *
131253 AGATAAGGAAACATTGCCTTGATTAAGGGTA
66 AGATAAAGAAACATTGCCTCGATTAAGGGTA
* *
131284 TTCGATTATTTCGATTTGAATAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTCC-GAAACTC
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTCCAG-AA-TC
*
131348 GAA-ATAAA-AGAATATTGCCTCGATT
64 GAAGATAAAGA-AACATTGCCTCGATT
131373 TTAAAGTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
95 2 0.03
96 69 0.91
97 5 0.07
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (96 bp):
TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTCCAGAATCGA
AGATAAAGAAACATTGCCTCGATTAAGGGTA
Found at i:131781 original size:59 final size:58
Alignment explanation
Indices: 131623--131851 Score: 200
Period size: 59 Copynumber: 3.9 Consensus size: 58
131613 TGAATTCTCG
* ** * * * *
131623 AGGGCAAAATGGTAATTTTGGGAAAATTCGGGGTTAAAAATGGAT-TTTTTAGACATTCG
1 AGGGCAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGG-TGTTTTTGGACATT-T
* * * * *
131682 GGGGTAAAAGGGTAA--TTTCGATAGTTTCGAGGTCGAAAATGGTGTTTTTGGACATCTT
1 AGGGCAAAATGGTAATTTTTGGA-AGTTTCGAGGTCAAAAATGGTGTTTTTGGACAT-TT
* **
131740 AGGGCAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGA-ATTTT
1 AGGGCAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGTGTTTTTGGACA-TTT
*
131798 GAGGGTAAAAATGG-AATTTTTGGAAGTTTCGAGGTCAAAAATGG-GATTTTTGGA
1 -AGGG-CAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGTG-TTTTTGGA
131852 AGCTCGAGGG
Statistics
Matches: 138, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
57 5 0.04
58 40 0.29
59 81 0.59
60 12 0.09
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (58 bp):
AGGGCAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGTGTTTTTGGACATTT
Found at i:131808 original size:29 final size:31
Alignment explanation
Indices: 131745--131876 Score: 177
Period size: 29 Copynumber: 4.4 Consensus size: 31
131735 ATCTTAGGGC
131745 AAAATGGTAATTTTTGGAAGTTTCG-GGGTCA
1 AAAATGG-AATTTTTGGAAGTTTCGAGGGTCA
*
131776 AAAATGGAATTTTTGGAA-TTTTGAGGGT-A
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTCA
131805 AAAATGGAATTTTTGGAAGTTTCGA-GGTCA
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTCA
* *
131835 AAAATGGGATTTTTGGAAG-CTCGAGGGT-A
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTCA
*
131864 AAAATGTAATTTT
1 AAAATGGAATTTT
131877 CAAACAGTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
29 42 0.46
30 42 0.46
31 7 0.08
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (31 bp):
AAAATGGAATTTTTGGAAGTTTCGAGGGTCA
Found at i:131852 original size:59 final size:59
Alignment explanation
Indices: 131704--131876 Score: 226
Period size: 59 Copynumber: 2.9 Consensus size: 59
131694 TAATTTCGAT
* *
131704 AGTTTCGAGGTCGAAAATGGTG-TTTTTGGACATCTT-AGGG-CAAAATGGTAATTTTTGGA
1 AGTTTCGAGGTCAAAAATGG-GATTTTTGGA-ATCTTGAGGGTAAAAATGG-AATTTTTGGA
* * *
131763 AGTTTCGGGGTCAAAAATGGAATTTTTGGAATTTTGAGGGTAAAAATGGAATTTTTGGA
1 AGTTTCGAGGTCAAAAATGGGATTTTTGGAATCTTGAGGGTAAAAATGGAATTTTTGGA
* * *
131822 AGTTTCGAGGTCAAAAATGGGATTTTTGGAAGCTCGAGGGTAAAAATGTAATTTT
1 AGTTTCGAGGTCAAAAATGGGATTTTTGGAATCTTGAGGGTAAAAATGGAATTTT
131877 CAAACAGTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
58 4 0.04
59 89 0.89
60 7 0.07
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (59 bp):
AGTTTCGAGGTCAAAAATGGGATTTTTGGAATCTTGAGGGTAAAAATGGAATTTTTGGA
Found at i:132453 original size:19 final size:20
Alignment explanation
Indices: 132415--132454 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
132405 TTCTTTAAAA
* *
132415 CAAAAAAACAATCTTTTCTT
1 CAAAAAAACAATCGTCTCTT
132435 CAAAAAAA-AATCGTCTCTT
1 CAAAAAAACAATCGTCTCTT
132454 C
1 C
132455 CTCTCTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.30
Consensus pattern (20 bp):
CAAAAAAACAATCGTCTCTT
Found at i:133004 original size:18 final size:16
Alignment explanation
Indices: 132964--133020 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 16
132954 CCTTTTTTAT
132964 TTATTATTAAATATTA
1 TTATTATTAAATATTA
132980 -TAGTTATTATCAATATTA
1 TTA-TTATTA--AATATTA
*
132998 TTATTATTAAA-ATAA
1 TTATTATTAAATATTA
133013 TTATTATT
1 TTATTATT
133021 GGTATTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 13 0.36
16 8 0.22
18 13 0.36
19 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTATTATTAAATATTA
Found at i:133734 original size:6 final size:6
Alignment explanation
Indices: 133719--133801 Score: 52
Period size: 6 Copynumber: 14.5 Consensus size: 6
133709 TTGGACATTG
* *
133719 TTTAAT TTTAAA TTTATAA --TAAA TTTAAA TTTCTAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* * * *
133765 TTTAAA -ATAAA CTTAAT TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
133802 GTTAGGCCCG
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
4 4 0.07
5 11 0.19
6 40 0.68
7 4 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:133747 original size:17 final size:17
Alignment explanation
Indices: 133725--133801 Score: 109
Period size: 17 Copynumber: 4.5 Consensus size: 17
133715 ATTGTTTAAT
*
133725 TTTAAATTTATAATAAA
1 TTTAAATTTAAAATAAA
**
133742 TTTAAATTTCTAATAAA
1 TTTAAATTTAAAATAAA
133759 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
133776 CTTAATTTTAAAATAAA
1 TTTAAATTTAAAATAAA
133793 TTTAAATTT
1 TTTAAATTT
133802 GTTAGGCCCG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:133912 original size:2 final size:2
Alignment explanation
Indices: 133905--133933 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
133895 ATCATCACCA
133905 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
133934 GTTCCCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:135288 original size:18 final size:18
Alignment explanation
Indices: 135265--135300 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
135255 AAAATAAAAT
135265 GAGAAAAGTTGTAAAACC
1 GAGAAAAGTTGTAAAACC
135283 GAGAAAAGTTGTAAAACC
1 GAGAAAAGTTGTAAAACC
135301 CAATGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.22, T:0.17
Consensus pattern (18 bp):
GAGAAAAGTTGTAAAACC
Found at i:135676 original size:38 final size:37
Alignment explanation
Indices: 135634--136036 Score: 246
Period size: 36 Copynumber: 10.9 Consensus size: 37
135624 TTCAAGGCCG
*
135634 ACCTTTAAAAAAGGTTGAGATATGTA-TTGTCTAAGGCA
1 ACCTTTAAAAAAGGTTGAGATA-G-ACTTGTCTAAAGCA
* * *
135672 ACCTTTTAAAAAAAGTTGGGATAGACTCGTCTAAAGCA
1 ACC-TTTAAAAAAGGTTGAGATAGACTTGTCTAAAGCA
* **
135710 A-CTTT-AATAAGGTTGAGATAGACTTTGTCTAAAATA
1 ACCTTTAAAAAAGGTTGAGATAGAC-TTGTCTAAAGCA
* * * *
135746 ACCTTTAAAAAAGGTTGGGATAAACTTTGTTTAAGGCA
1 ACCTTTAAAAAAGGTTGAGATAGAC-TTGTCTAAAGCA
* * * * *
135784 ACC-TT-AAAAAGATTGGGATATACCTTGT-AAAAGGTA
1 ACCTTTAAAAAAGGTTGAGATAGA-CTTGTCTAAA-GCA
*
135820 ACCTTT-AAAAAGGTTG-GAATAGACATT-TCTAAAACA
1 ACCTTTAAAAAAGGTTGAG-ATAGAC-TTGTCTAAAGCA
* * * * *
135856 ATC-TT-GAAAAGGTTGGGATAGATATTGTCTAAAACA
1 ACCTTTAAAAAAGGTTGAGATAGA-CTTGTCTAAAGCA
* * *
135892 ACCTTTTAAAAAAGATTGGGATAGACCTTGTCTAAAGTA
1 ACC-TTTAAAAAAGGTTGAGATAGA-CTTGTCTAAAGCA
*
135931 A-CTTTAAAAAA-ATTG-GAATAGACTTTGTCT-AAGACA
1 ACCTTTAAAAAAGGTTGAG-ATAGAC-TTGTCTAAAG-CA
* * * **
135967 GCTTTTAAAAAAGGTTGAGATAGACTCGTCTAAAATA
1 ACCTTTAAAAAAGGTTGAGATAGACTTGTCTAAAGCA
* **
136004 ACC-TT-AAAAAGGTTGAGAAAGACACGTCTAAAG
1 ACCTTTAAAAAAGGTTGAGATAGACTTGTCTAAAG
136037 TAATTTTTTT
Statistics
Matches: 292, Mismatches: 49, Indels: 51
0.74 0.12 0.13
Matches are distributed among these distances:
35 65 0.22
36 73 0.25
37 54 0.18
38 56 0.19
39 44 0.15
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (37 bp):
ACCTTTAAAAAAGGTTGAGATAGACTTGTCTAAAGCA
Found at i:135729 original size:74 final size:73
Alignment explanation
Indices: 135636--136021 Score: 272
Period size: 74 Copynumber: 5.2 Consensus size: 73
135626 CAAGGCCGAC
* *
135636 CTTTAAAAAAGGTTGAGATATGTATTGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGACTCG
1 CTTT-AAAAAGGTTGAGATATG-ATTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGACTCG
135701 TCTAAAGCAA
64 TCTAAAGCAA
* * * * *
135711 CTTTAATAAGGTTGAGATA-GACTTTGTCTAAAATAACC-TTTAAAAAAGGTTGGGATAAACTTT
1 CTTTAAAAAGGTTGAGATATGA--TTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGAC-TC
* *
135774 GTTTAAGGCAA
63 GTCTAAAGCAA
* * * ** ** *
135785 CCTTAAAAAGATTGGGATAT-ACCTTGTAAAAGGTAACC-TTT-AAAAAGGTTGGAATAGACAT-
1 CTTTAAAAAGGTTGAGATATGA--TTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGAC-TC
* *
135846 TTCTAAAACAA
63 GTCTAAAGCAA
* * * *
135857 -TCTTGAAAAGGTTGGGATA-GATATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAGACCT
1 CT-TTAAAAAGGTTGAGATATG--ATTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGA-CT
* *
135920 TGTCTAAAGTAA
62 CGTCTAAAGCAA
** * *
135932 CTTTAAAAAAATTG-GA-ATAGACTTTGTCTAAGAC-AGCTTTTAAAAAAGGTTGAGATAGACTC
1 CTTTAAAAAGGTTGAGATAT-GA--TTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGACTC
**
135994 GTCTAAAATAA
63 GTCTAAAGCAA
*
136005 CCTTAAAAAGGTTGAGA
1 CTTTAAAAAGGTTGAGA
136022 AAGACACGTC
Statistics
Matches: 243, Mismatches: 50, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
72 33 0.14
73 66 0.27
74 110 0.45
75 33 0.14
76 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (73 bp):
CTTTAAAAAGGTTGAGATATGATTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGACTCGTC
TAAAGCAA
Found at i:135868 original size:146 final size:149
Alignment explanation
Indices: 135666--136021 Score: 370
Period size: 147 Copynumber: 2.4 Consensus size: 149
135656 TGTATTGTCT
* * *
135666 AAGGCAACCTTTTAAAAAAAGTTGGGATAGACTCGTCTAAAGCAACTTTAATAAGGTTGAGATAG
1 AAGGCAACCTTTTAAAAAAAGTTGGAATAGACTCGTCTAAAACAACTTGAATAAGGTTGAGATAG
* * * * *
135731 ACT-TTGTCTAAAATAACC-TTTAAAAAAGGTTGGGATAAACTTTGTTTAAGGCAACCTTAAAAA
66 A-TATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAAACCTTGTCTAAAGCAACCTTAAAAA
*
135794 GATTGGGATATACCTTGTAA
130 AATTGGGATATACCTTGTAA
* * * *
135814 AAGGTAACC-TTT-AAAAAGGTTGGAATAGACAT-TTCTAAAACAATCTTGAA-AAGGTTGGGAT
1 AAGGCAACCTTTTAAAAAAAGTTGGAATAGAC-TCGTCTAAAACAA-CTTGAATAAGGTTGAGAT
* * *
135875 AGATATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAGACCTTGTCTAAAGTAACTTTAAAA
64 AGATATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAAACCTTGTCTAAAGCAACCTTAAAA
* * * **
135940 AAATTGGAATAGACTTTGTCT
129 AAATTGGGATATACCTTGTAA
* * * * *
135961 AAGAC-AGCTTTTAAAAAAGGTT-GAGATAGACTCGTCTAAAATAACCTT-AAAAAGGTTGAGA
1 AAGGCAACCTTTTAAAAAAAGTTGGA-ATAGACTCGTCTAAAACAA-CTTGAATAAGGTTGAGA
136022 AAGACACGTC
Statistics
Matches: 171, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
145 1 0.01
146 54 0.32
147 72 0.42
148 44 0.26
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (149 bp):
AAGGCAACCTTTTAAAAAAAGTTGGAATAGACTCGTCTAAAACAACTTGAATAAGGTTGAGATAG
ATATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAAACCTTGTCTAAAGCAACCTTAAAAAA
ATTGGGATATACCTTGTAA
Found at i:136431 original size:36 final size:36
Alignment explanation
Indices: 136347--136931 Score: 547
Period size: 36 Copynumber: 16.2 Consensus size: 36
136337 AGAGGTTCGA
* * *
136347 ATAGACCTTATCTGAGGCAACCTTTAAAAAAGGTTAGG
1 ATAGACCTTGTCTAAGGCAACC-TT-AAAAAGGTTGGG
* *
136385 ATAGATCTTGTCTAAGGCAACTTTAAAAAGGTTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * *
136421 GTAGGCCTTGTCTAAAGCAACCTTAAAAAGGTTTGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * *
136457 ATAGA-CTTGTTTAAGGCAACCTTAAAAAAGTTCGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * **
136492 ATAAACCTTGTCTAAAGCAACCTTAAAAAGGTTGAA
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * * *
136528 ATAGACCTTGTTTGAGACAACCTTTAAAAAAAAGTTGAG
1 ATAGACCTTGTCTAAGGCAACC-TT--AAAAAGGTTGGG
** * *
136567 ATAGATTTTGTATAAGGCAACCTT-----GATTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* *
136598 ATAGACCTTGTTTAAAGCAACCTTAAAAAGGTTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * *
136634 GTAGATCTTGTCTAAAGCAACCTTAAAAAGGTTTGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * *
136670 ATAGA-CTCGTCTAAAGTAACCTTAAAAAGATTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * * *
136705 ATAAATCTTGTCTAAGACAACCTTAAAAAAGTTGAG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * *
136741 ATAAACCTTGTTTGAGGCAACCTTTAAAAAAAGTTGGG
1 ATAGACCTTGTCTAAGGCAACC-TT-AAAAAGGTTGGG
**
136779 ATAGACCTTGTCTAAAACAACCTTAAAAAGGTTAGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTT-GGG
* *
136816 -TAGACCTTGTCTAAAGCAACCTTAAAAAAGTTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* **
136851 ATAGATCTTGTCTAAGATAACCTTTAAAAAAGGTTGGG
1 ATAGACCTTGTCTAAGGCAACC-TT-AAAAAGGTTGGG
* *
136889 ATAGACCATGTCTAAGGCAACCTTAAAAAAGTTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
136925 ATAGACC
1 ATAGACC
136932 CGTCTAATGC
Statistics
Matches: 447, Mismatches: 84, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
31 24 0.05
35 63 0.14
36 241 0.54
37 15 0.03
38 77 0.17
39 27 0.06
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
Found at i:136482 original size:71 final size:72
Alignment explanation
Indices: 136363--136929 Score: 555
Period size: 71 Copynumber: 7.8 Consensus size: 72
136353 CTTATCTGAG
* * * * * **
136363 GCAACCTTTAAAAAAGGTTAGGATAGATCTTGTCTAAGGCAACTTTAAAAAGGTTGGGGTAGGCC
1 GCAACC-TT-AAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATC
136428 TTGTCTAAA
64 TTGTCTAAA
* * * *
136437 GCAACCTTAAAAAGGTTTGGATAGA-CTTGTTTAAGGCAACCTTAAAAAAGTTCGGATAAACCTT
1 GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATCTT
136501 GTCTAAA
66 GTCTAAA
* * * * *
136508 GCAACCTTAAAAAGG-TTGAAATAGACCTTGTTTGAGACAACCTTTAAAAAAAAGTTGAGATAGA
1 GCAACCTTAAAAAGGTTTG-GATAGACCTTGTCTAAGGCAACC-TT--AAAAAAGTTGGGATAGA
* * *
136572 TTTTGTATAAG
62 TCTTGTCTAAA
* * * * * *
136583 GCAACCTT-----GATTGGGATAGACCTTGTTTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTT
1 GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATCTT
136643 GTCTAAA
66 GTCTAAA
* * * *
136650 GCAACCTTAAAAAGGTTTGGATAGA-CTCGTCTAAAGTAACCTT-AAAAAGATTGGGATAAATCT
1 GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAG-TTGGGATAGATCT
136713 TGTCT-AA
65 TGTCTAAA
* * * *
136720 GACAACCTTAAAAAAG-TTGAGATAAACCTTGTTTGAGGCAACCTTTAAAAAAAGTTGGGATAGA
1 G-CAACCTTAAAAAGGTTTG-GATAGACCTTGTCTAAGGCAACC-TT-AAAAAAGTTGGGATAGA
*
136784 CCTTGTCTAAA
62 TCTTGTCTAAA
* * * *
136795 ACAACCTTAAAAAGGTTAGGGTAGACCTTGTCTAAAGCAACCTTAAAAAAGTTGGGATAGATCTT
1 GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATCTT
136860 GTCT-AA
66 GTCTAAA
* * *
136866 GATAACCTTTAAAAAAGGTTGGGATAGACCATGTCTAAGGCAACCTTAAAAAAGTTGGGATAGA
1 G-CAACC-TT-AAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGA
136930 CCCGTCTAAT
Statistics
Matches: 408, Mismatches: 62, Indels: 46
0.79 0.12 0.09
Matches are distributed among these distances:
67 30 0.07
69 2 0.00
70 34 0.08
71 112 0.27
72 79 0.19
73 10 0.02
74 102 0.25
75 39 0.10
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (72 bp):
GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATCTT
GTCTAAA
Found at i:136751 original size:213 final size:214
Alignment explanation
Indices: 136383--136927 Score: 690
Period size: 213 Copynumber: 2.5 Consensus size: 214
136373 AAAAAGGTTA
* * * **
136383 GGATAGATCTTGTCTAAGGCAACTTTAAAAAGGTTGGGGTAGGCCTTGTCTAAAGCAACCTTAAA
1 GGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAGCAACCTTAAA
* * *
136448 AAGGTTTGGATAGACTTGTTTAAGGCAACCTTAAAAAAGTTCGGATAAACCTTGTCTAAAGCAAC
66 AAGGTTTGGATAGACTCGTCTAAGGCAACCTTAAAAAAGTTGGGATAAACCTTGTCTAAAGCAAC
* * **
136513 CTTAAAAAGGTTGAAATAGACCTTGTTTGAGACAACCTTTAAAAAAAAGTTGAGATAGATTTTGT
131 CTTAAAAAAGTTGAAATAAACCTTGTTTGAGACAACCTTT-AAAAAAAGTTGAGATAGACCTTGT
**
136578 ATAAGGCAACCTT-GATT-G
195 ATAAAACAACCTTAGATTAG
*
136596 GGATAGACCTTGTTTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAGCAACCTTAAA
1 GGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAGCAACCTTAAA
* * *
136661 AAGGTTTGGATAGACTCGTCTAAAGTAACCTT-AAAAAGATTGGGATAAATCTTGTCT-AAGACA
66 AAGGTTTGGATAGACTCGTCTAAGGCAACCTTAAAAAAG-TTGGGATAAACCTTGTCTAAAG-CA
* * *
136724 ACCTTAAAAAAGTTGAGATAAACCTTGTTTGAGGCAACCTTTAAAAAAAGTTGGGATAGACCTTG
129 ACCTTAAAAAAGTTGAAATAAACCTTGTTTGAGACAACCTTTAAAAAAAGTTGAGATAGACCTTG
* *
136789 TCTAAAACAACCTTAAAAAGGTTAG
194 TATAAAACAACCTT----AGATTAG
* * *
136814 GG-TAGACCTTGTCTAAAGCAACCTTAAAAAAGTTGGGATAGATCTTGTCT-AAGATAACCTTTA
1 GGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAG-CAACC-TT-
*
136877 AAAAAGGTTGGGATAGAC-CATGTCTAAGGCAACCTTAAAAAAGTTGGGATA
63 AAAAAGGTTTGGATAGACTC--GTCTAAGGCAACCTTAAAAAAGTTGGGATA
136928 GACCCGTCTA
Statistics
Matches: 288, Mismatches: 30, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
212 40 0.14
213 143 0.50
216 3 0.01
217 52 0.18
218 6 0.02
219 17 0.06
220 21 0.07
221 6 0.02
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (214 bp):
GGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAGCAACCTTAAA
AAGGTTTGGATAGACTCGTCTAAGGCAACCTTAAAAAAGTTGGGATAAACCTTGTCTAAAGCAAC
CTTAAAAAAGTTGAAATAAACCTTGTTTGAGACAACCTTTAAAAAAAGTTGAGATAGACCTTGTA
TAAAACAACCTTAGATTAG
Found at i:136825 original size:110 final size:109
Alignment explanation
Indices: 136373--136931 Score: 452
Period size: 110 Copynumber: 5.2 Consensus size: 109
136363 GCAACCTTTA
* * * *
136373 AAAAAGGTTAGGATAGATCTTGTCTAAGGCAA-CTTT-AAAAAGGTTGGGGTAGGCCTTGTCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATA-GACTTGTCTAA
* * * *
136436 AGCAACCTTAAAAAGGTTTGGATAGA-CTTGTTTAAGGCAACCTT
65 GGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
* * * * ** * *
136480 AAAAAAGTTCGGATAAACCTTGTCTAAAGCAACC-TT-AAAAAGGTTGAAATAGACCTTGTTTGA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTGTCTAA
* * * ** * *
136543 GACAACCTTTAAAAAAAAGTTGAGATAGATTTTGTATAAGGCAACCTT
65 GGCAACC-TT--AAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
* * * *
136591 -----GATTGGGATAGACCTTGTTTAAAGCAACC-TT-AAAAAGGTTGGGGTAGATCTTGTCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTGTCTAA
* * * *
136649 AGCAACCTTAAAAAGGTTTGGATAGA-CTCGTCTAAAGTAACCTT
65 GGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
* * * * * * * *
136693 AAAAAGATTGGGATAAATCTTGTCTAAGACAACC-TTAAAAAA-GTTGAGATAAACCTTGTTTGA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTGTCTAA
* *
136756 GGCAACCTTTAAAAAAAGTTGGGATAGACCTTGTCTAAAACAACCTT
65 GGCAACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
*
136803 AAAAAGGTTAGGG-TAGACCTTGTCTAAAGCAACC-TTAAAAAA-GTTGGGATAGATCTTGTCTA
1 AAAAAGGTT-GGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTGTCTA
** * *
136865 AGATAACCTTTAAAAAAGGTTGGGATAGACCATGTCTAAGGCAACCTT
64 AGGCAACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
*
136913 AAAAAAGTTGGGATAGACC
1 AAAAAGGTTGGGATAGACC
136932 CGTCTAATGC
Statistics
Matches: 362, Mismatches: 73, Indels: 31
0.78 0.16 0.07
Matches are distributed among these distances:
102 13 0.04
103 14 0.04
105 2 0.01
106 53 0.15
107 100 0.28
108 10 0.03
109 18 0.05
110 133 0.37
111 19 0.05
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (109 bp):
AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACTTGTCTAAG
GCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
Found at i:137641 original size:28 final size:27
Alignment explanation
Indices: 137583--137641 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
137573 TGGGGTTATG
*
137583 GGTTTGAGGTTCATGTTTAGAGTTCGG
1 GGTTTGAGGTTCATGTTTAGAGTTCGA
* *
137610 GGTTTTAGGTTTATGATTTA-AGGTTCGA
1 GGTTTGAGGTTCATG-TTTAGA-GTTCGA
137638 GGTT
1 GGTT
137642 CTAAATTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.17, C:0.05, G:0.34, T:0.44
Consensus pattern (27 bp):
GGTTTGAGGTTCATGTTTAGAGTTCGA
Found at i:138211 original size:141 final size:141
Alignment explanation
Indices: 137908--138370 Score: 712
Period size: 141 Copynumber: 3.3 Consensus size: 141
137898 CAACACTTAG
* *
137908 AAAAGTGTCGGCATAGTGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
1 AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* * * * * * *
137973 TCCAACTCTTATAC-AAAGAGTTGGCCAAAGCGTATGCCGATAAGTCTACCCCAACACTTAGGAA
66 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTCAACACTTAGGAA
* *
138037 AGTGTCGGCCC
131 AGTGTCGTCTC
* * * *
138048 AAAAGTGTCGCCATAGTGTTGGACAAAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGTATAT
1 AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
*
138113 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTTAACACTTAGGAA
66 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTCAACACTTAGGAA
* *
138178 AGTGTCATCTA
131 AGTGTCGTCTC
*
138189 AAAAGTGTCGACATAATGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
1 AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* *
138254 CCCATCCCTTATACAAAAGAGTTGGCAAAAGCATATGTCGACAAGTCTATCTCAACACTTAGGAA
66 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTCAACACTTAGGAA
138319 AGTGTCGTCTC
131 AGTGTCGTCTC
**
138330 AAAAGTGTCGACATAATGTTGGACAAAATCAACTCTTATTT
1 AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTT
138371 TTGCTGTTGA
Statistics
Matches: 294, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
140 74 0.25
141 220 0.75
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (141 bp):
AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTCAACACTTAGGAA
AGTGTCGTCTC
Found at i:138416 original size:6 final size:6
Alignment explanation
Indices: 138405--138470 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
138395 TGGGCCGAAC
* * *
138405 AAATTT AAATTT -ATTTT AAAATT AAGTTT --ATTCT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATT-T AAATTT AAATTT
138451 --ATTAT AAATTT AAATTT AAA
1 AAATT-T AAATTT AAATTT AAA
138471 ATTCATTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
4 5 0.11
5 6 0.13
6 30 0.64
7 6 0.13
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:138434 original size:17 final size:17
Alignment explanation
Indices: 138405--138468 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
138395 TGGGCCGAAC
*
138405 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTAT
* * *
138422 AAAATTAAGTTTATTCT
1 AAATTTAAATTTATTAT
138439 AAATTTAAATTTATTAT
1 AAATTTAAATTTATTAT
138456 AAATTTAAATTTA
1 AAATTTAAATTTA
138469 AAATTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
AAATTTAAATTTATTAT
Found at i:139109 original size:3 final size:3
Alignment explanation
Indices: 139101--139128 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
139091 GCTCATAAGT
139101 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
139129 GTGATAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:139983 original size:96 final size:96
Alignment explanation
Indices: 139806--139990 Score: 232
Period size: 96 Copynumber: 1.9 Consensus size: 96
139796 GAAAAGGATG
* ** * *
139806 TTCGATTATCTCGATTTGAGGAAATGTTGCACCTAGTAAGTTAAGGGGCAAATTTTCAGAATCGA
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTCCAGAATCGA
* *
139871 AGATAAGGAAACATTGCCTTGATTAAGGGTA
66 AGATAAAGAAACATTGCCTCGATTAAGGGTA
* *
139902 TTCGATTATTTCGATTTGAATAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTCC-GAAACTC
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTCCAG-AA-TC
*
139966 GAA-ATAAA-AGAATATTGCCTCGATT
64 GAAGATAAAGA-AACATTGCCTCGATT
139991 TTAAAGTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
95 2 0.03
96 69 0.91
97 5 0.07
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (96 bp):
TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTCCAGAATCGA
AGATAAAGAAACATTGCCTCGATTAAGGGTA
Found at i:140399 original size:59 final size:58
Alignment explanation
Indices: 140241--140469 Score: 200
Period size: 59 Copynumber: 3.9 Consensus size: 58
140231 TGAATTCTCG
* ** * * * *
140241 AGGGCAAAATGGTAATTTTGGGAAAATTCGGGGTTAAAAATGGAT-TTTTTAGACATTCG
1 AGGGCAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGG-TGTTTTTGGACATT-T
* * * * *
140300 GGGGTAAAAGGGTAA--TTTCGATAGTTTCGAGGTCGAAAATGGTGTTTTTGGACATCTT
1 AGGGCAAAATGGTAATTTTTGGA-AGTTTCGAGGTCAAAAATGGTGTTTTTGGACAT-TT
* **
140358 AGGGCAAAATGGTAATTTTTGGAAGTTTCGGGGTCAAAAATGGAATTTTTGGA-ATTTT
1 AGGGCAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGTGTTTTTGGACA-TTT
*
140416 GAGGGTAAAAATGG-AATTTTTGGAAGTTTCGAGGTCAAAAATGG-GATTTTTGGA
1 -AGGG-CAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGTG-TTTTTGGA
140470 AGCTCGAGGG
Statistics
Matches: 138, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
57 5 0.04
58 40 0.29
59 81 0.59
60 12 0.09
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (58 bp):
AGGGCAAAATGGTAATTTTTGGAAGTTTCGAGGTCAAAAATGGTGTTTTTGGACATTT
Found at i:140426 original size:29 final size:31
Alignment explanation
Indices: 140363--140494 Score: 177
Period size: 29 Copynumber: 4.4 Consensus size: 31
140353 ATCTTAGGGC
140363 AAAATGGTAATTTTTGGAAGTTTCG-GGGTCA
1 AAAATGG-AATTTTTGGAAGTTTCGAGGGTCA
*
140394 AAAATGGAATTTTTGGAA-TTTTGAGGGT-A
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTCA
140423 AAAATGGAATTTTTGGAAGTTTCGA-GGTCA
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTCA
* *
140453 AAAATGGGATTTTTGGAAG-CTCGAGGGT-A
1 AAAATGGAATTTTTGGAAGTTTCGAGGGTCA
*
140482 AAAATGTAATTTT
1 AAAATGGAATTTT
140495 CAAACAGTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
29 42 0.46
30 42 0.46
31 7 0.08
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (31 bp):
AAAATGGAATTTTTGGAAGTTTCGAGGGTCA
Found at i:140470 original size:59 final size:59
Alignment explanation
Indices: 140322--140494 Score: 226
Period size: 59 Copynumber: 2.9 Consensus size: 59
140312 TAATTTCGAT
* *
140322 AGTTTCGAGGTCGAAAATGGTG-TTTTTGGACATCTT-AGGG-CAAAATGGTAATTTTTGGA
1 AGTTTCGAGGTCAAAAATGG-GATTTTTGGA-ATCTTGAGGGTAAAAATGG-AATTTTTGGA
* * *
140381 AGTTTCGGGGTCAAAAATGGAATTTTTGGAATTTTGAGGGTAAAAATGGAATTTTTGGA
1 AGTTTCGAGGTCAAAAATGGGATTTTTGGAATCTTGAGGGTAAAAATGGAATTTTTGGA
* * *
140440 AGTTTCGAGGTCAAAAATGGGATTTTTGGAAGCTCGAGGGTAAAAATGTAATTTT
1 AGTTTCGAGGTCAAAAATGGGATTTTTGGAATCTTGAGGGTAAAAATGGAATTTT
140495 CAAACAGTTT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
58 4 0.04
59 89 0.89
60 7 0.07
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (59 bp):
AGTTTCGAGGTCAAAAATGGGATTTTTGGAATCTTGAGGGTAAAAATGGAATTTTTGGA
Found at i:141071 original size:19 final size:20
Alignment explanation
Indices: 141033--141072 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
141023 TTCTTTAAAA
* *
141033 CAAAAAAACAATCTTTTCTT
1 CAAAAAAACAATCGTCTCTT
141053 CAAAAAAA-AATCGTCTCTT
1 CAAAAAAACAATCGTCTCTT
141072 C
1 C
141073 CTCTCTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.30
Consensus pattern (20 bp):
CAAAAAAACAATCGTCTCTT
Found at i:141622 original size:18 final size:16
Alignment explanation
Indices: 141582--141638 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 16
141572 CCTTTTTTAT
141582 TTATTATTAAATATTA
1 TTATTATTAAATATTA
141598 -TAGTTATTATCAATATTA
1 TTA-TTATTA--AATATTA
*
141616 TTATTATTAAA-ATAA
1 TTATTATTAAATATTA
141631 TTATTATT
1 TTATTATT
141639 GGTATTAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 13 0.36
16 8 0.22
18 13 0.36
19 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TTATTATTAAATATTA
Found at i:142352 original size:6 final size:6
Alignment explanation
Indices: 142337--142419 Score: 52
Period size: 6 Copynumber: 14.5 Consensus size: 6
142327 TTGGACATTG
* *
142337 TTTAAT TTTAAA TTTATAA --TAAA TTTAAA TTTCTAA --TAAA TTTAAA
1 TTTAAA TTTAAA TTTA-AA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* * * *
142383 TTTAAA -ATAAA CTTAAT TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
142420 GTTAGGCCCG
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
4 4 0.07
5 11 0.19
6 40 0.68
7 4 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:142365 original size:17 final size:17
Alignment explanation
Indices: 142343--142419 Score: 109
Period size: 17 Copynumber: 4.5 Consensus size: 17
142333 ATTGTTTAAT
*
142343 TTTAAATTTATAATAAA
1 TTTAAATTTAAAATAAA
**
142360 TTTAAATTTCTAATAAA
1 TTTAAATTTAAAATAAA
142377 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
142394 CTTAATTTTAAAATAAA
1 TTTAAATTTAAAATAAA
142411 TTTAAATTT
1 TTTAAATTT
142420 GTTAGGCCCG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:142530 original size:2 final size:2
Alignment explanation
Indices: 142523--142551 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
142513 ATCATCACCA
142523 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
142552 GTTCCCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:143906 original size:18 final size:18
Alignment explanation
Indices: 143883--143918 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
143873 AAAATAAAAT
143883 GAGAAAAGTTGTAAAACC
1 GAGAAAAGTTGTAAAACC
143901 GAGAAAAGTTGTAAAACC
1 GAGAAAAGTTGTAAAACC
143919 CAATGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.22, T:0.17
Consensus pattern (18 bp):
GAGAAAAGTTGTAAAACC
Found at i:144294 original size:38 final size:37
Alignment explanation
Indices: 144252--144654 Score: 246
Period size: 36 Copynumber: 10.9 Consensus size: 37
144242 TTCAAGGCCG
*
144252 ACCTTTAAAAAAGGTTGAGATATGTA-TTGTCTAAGGCA
1 ACCTTTAAAAAAGGTTGAGATA-G-ACTTGTCTAAAGCA
* * *
144290 ACCTTTTAAAAAAAGTTGGGATAGACTCGTCTAAAGCA
1 ACC-TTTAAAAAAGGTTGAGATAGACTTGTCTAAAGCA
* **
144328 A-CTTT-AATAAGGTTGAGATAGACTTTGTCTAAAATA
1 ACCTTTAAAAAAGGTTGAGATAGAC-TTGTCTAAAGCA
* * * *
144364 ACCTTTAAAAAAGGTTGGGATAAACTTTGTTTAAGGCA
1 ACCTTTAAAAAAGGTTGAGATAGAC-TTGTCTAAAGCA
* * * * *
144402 ACC-TT-AAAAAGATTGGGATATACCTTGT-AAAAGGTA
1 ACCTTTAAAAAAGGTTGAGATAGA-CTTGTCTAAA-GCA
*
144438 ACCTTT-AAAAAGGTTG-GAATAGACATT-TCTAAAACA
1 ACCTTTAAAAAAGGTTGAG-ATAGAC-TTGTCTAAAGCA
* * * * *
144474 ATC-TT-GAAAAGGTTGGGATAGATATTGTCTAAAACA
1 ACCTTTAAAAAAGGTTGAGATAGA-CTTGTCTAAAGCA
* * *
144510 ACCTTTTAAAAAAGATTGGGATAGACCTTGTCTAAAGTA
1 ACC-TTTAAAAAAGGTTGAGATAGA-CTTGTCTAAAGCA
*
144549 A-CTTTAAAAAA-ATTG-GAATAGACTTTGTCT-AAGACA
1 ACCTTTAAAAAAGGTTGAG-ATAGAC-TTGTCTAAAG-CA
* * * **
144585 GCTTTTAAAAAAGGTTGAGATAGACTCGTCTAAAATA
1 ACCTTTAAAAAAGGTTGAGATAGACTTGTCTAAAGCA
* **
144622 ACC-TT-AAAAAGGTTGAGAAAGACACGTCTAAAG
1 ACCTTTAAAAAAGGTTGAGATAGACTTGTCTAAAG
144655 TAATTTTTTT
Statistics
Matches: 292, Mismatches: 49, Indels: 51
0.74 0.12 0.13
Matches are distributed among these distances:
35 65 0.22
36 73 0.25
37 54 0.18
38 56 0.19
39 44 0.15
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (37 bp):
ACCTTTAAAAAAGGTTGAGATAGACTTGTCTAAAGCA
Found at i:144347 original size:74 final size:73
Alignment explanation
Indices: 144254--144639 Score: 272
Period size: 74 Copynumber: 5.2 Consensus size: 73
144244 CAAGGCCGAC
* *
144254 CTTTAAAAAAGGTTGAGATATGTATTGTCTAAGGCAACCTTTTAAAAAAAGTTGGGATAGACTCG
1 CTTT-AAAAAGGTTGAGATATG-ATTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGACTCG
144319 TCTAAAGCAA
64 TCTAAAGCAA
* * * * *
144329 CTTTAATAAGGTTGAGATA-GACTTTGTCTAAAATAACC-TTTAAAAAAGGTTGGGATAAACTTT
1 CTTTAAAAAGGTTGAGATATGA--TTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGAC-TC
* *
144392 GTTTAAGGCAA
63 GTCTAAAGCAA
* * * ** ** *
144403 CCTTAAAAAGATTGGGATAT-ACCTTGTAAAAGGTAACC-TTT-AAAAAGGTTGGAATAGACAT-
1 CTTTAAAAAGGTTGAGATATGA--TTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGAC-TC
* *
144464 TTCTAAAACAA
63 GTCTAAAGCAA
* * * *
144475 -TCTTGAAAAGGTTGGGATA-GATATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAGACCT
1 CT-TTAAAAAGGTTGAGATATG--ATTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGA-CT
* *
144538 TGTCTAAAGTAA
62 CGTCTAAAGCAA
** * *
144550 CTTTAAAAAAATTG-GA-ATAGACTTTGTCTAAGAC-AGCTTTTAAAAAAGGTTGAGATAGACTC
1 CTTTAAAAAGGTTGAGATAT-GA--TTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGACTC
**
144612 GTCTAAAATAA
63 GTCTAAAGCAA
*
144623 CCTTAAAAAGGTTGAGA
1 CTTTAAAAAGGTTGAGA
144640 AAGACACGTC
Statistics
Matches: 243, Mismatches: 50, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
72 33 0.14
73 66 0.27
74 110 0.45
75 33 0.14
76 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (73 bp):
CTTTAAAAAGGTTGAGATATGATTGTCTAAGACAACCTTTTAAAAAAGGTTGGGATAGACTCGTC
TAAAGCAA
Found at i:144486 original size:146 final size:149
Alignment explanation
Indices: 144284--144639 Score: 370
Period size: 147 Copynumber: 2.4 Consensus size: 149
144274 TGTATTGTCT
* * *
144284 AAGGCAACCTTTTAAAAAAAGTTGGGATAGACTCGTCTAAAGCAACTTTAATAAGGTTGAGATAG
1 AAGGCAACCTTTTAAAAAAAGTTGGAATAGACTCGTCTAAAACAACTTGAATAAGGTTGAGATAG
* * * * *
144349 ACT-TTGTCTAAAATAACC-TTTAAAAAAGGTTGGGATAAACTTTGTTTAAGGCAACCTTAAAAA
66 A-TATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAAACCTTGTCTAAAGCAACCTTAAAAA
*
144412 GATTGGGATATACCTTGTAA
130 AATTGGGATATACCTTGTAA
* * * *
144432 AAGGTAACC-TTT-AAAAAGGTTGGAATAGACAT-TTCTAAAACAATCTTGAA-AAGGTTGGGAT
1 AAGGCAACCTTTTAAAAAAAGTTGGAATAGAC-TCGTCTAAAACAA-CTTGAATAAGGTTGAGAT
* * *
144493 AGATATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAGACCTTGTCTAAAGTAACTTTAAAA
64 AGATATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAAACCTTGTCTAAAGCAACCTTAAAA
* * * **
144558 AAATTGGAATAGACTTTGTCT
129 AAATTGGGATATACCTTGTAA
* * * * *
144579 AAGAC-AGCTTTTAAAAAAGGTT-GAGATAGACTCGTCTAAAATAACCTT-AAAAAGGTTGAGA
1 AAGGCAACCTTTTAAAAAAAGTTGGA-ATAGACTCGTCTAAAACAA-CTTGAATAAGGTTGAGA
144640 AAGACACGTC
Statistics
Matches: 171, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
145 1 0.01
146 54 0.32
147 72 0.42
148 44 0.26
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (149 bp):
AAGGCAACCTTTTAAAAAAAGTTGGAATAGACTCGTCTAAAACAACTTGAATAAGGTTGAGATAG
ATATTGTCTAAAACAACCTTTTAAAAAAGATTGGGATAAACCTTGTCTAAAGCAACCTTAAAAAA
ATTGGGATATACCTTGTAA
Found at i:145049 original size:36 final size:36
Alignment explanation
Indices: 144965--145549 Score: 547
Period size: 36 Copynumber: 16.2 Consensus size: 36
144955 AGAGGTTCGA
* * *
144965 ATAGACCTTATCTGAGGCAACCTTTAAAAAAGGTTAGG
1 ATAGACCTTGTCTAAGGCAACC-TT-AAAAAGGTTGGG
* *
145003 ATAGATCTTGTCTAAGGCAACTTTAAAAAGGTTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * *
145039 GTAGGCCTTGTCTAAAGCAACCTTAAAAAGGTTTGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * *
145075 ATAGA-CTTGTTTAAGGCAACCTTAAAAAAGTTCGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * **
145110 ATAAACCTTGTCTAAAGCAACCTTAAAAAGGTTGAA
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * * *
145146 ATAGACCTTGTTTGAGACAACCTTTAAAAAAAAGTTGAG
1 ATAGACCTTGTCTAAGGCAACC-TT--AAAAAGGTTGGG
** * *
145185 ATAGATTTTGTATAAGGCAACCTT-----GATTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* *
145216 ATAGACCTTGTTTAAAGCAACCTTAAAAAGGTTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * *
145252 GTAGATCTTGTCTAAAGCAACCTTAAAAAGGTTTGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * *
145288 ATAGA-CTCGTCTAAAGTAACCTTAAAAAGATTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * * *
145323 ATAAATCTTGTCTAAGACAACCTTAAAAAAGTTGAG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* * * *
145359 ATAAACCTTGTTTGAGGCAACCTTTAAAAAAAGTTGGG
1 ATAGACCTTGTCTAAGGCAACC-TT-AAAAAGGTTGGG
**
145397 ATAGACCTTGTCTAAAACAACCTTAAAAAGGTTAGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTT-GGG
* *
145434 -TAGACCTTGTCTAAAGCAACCTTAAAAAAGTTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
* **
145469 ATAGATCTTGTCTAAGATAACCTTTAAAAAAGGTTGGG
1 ATAGACCTTGTCTAAGGCAACC-TT-AAAAAGGTTGGG
* *
145507 ATAGACCATGTCTAAGGCAACCTTAAAAAAGTTGGG
1 ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
145543 ATAGACC
1 ATAGACC
145550 CGTCTAATGC
Statistics
Matches: 447, Mismatches: 84, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
31 24 0.05
35 63 0.14
36 241 0.54
37 15 0.03
38 77 0.17
39 27 0.06
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
ATAGACCTTGTCTAAGGCAACCTTAAAAAGGTTGGG
Found at i:145100 original size:71 final size:72
Alignment explanation
Indices: 144981--145547 Score: 555
Period size: 71 Copynumber: 7.8 Consensus size: 72
144971 CTTATCTGAG
* * * * * **
144981 GCAACCTTTAAAAAAGGTTAGGATAGATCTTGTCTAAGGCAACTTTAAAAAGGTTGGGGTAGGCC
1 GCAACC-TT-AAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATC
145046 TTGTCTAAA
64 TTGTCTAAA
* * * *
145055 GCAACCTTAAAAAGGTTTGGATAGA-CTTGTTTAAGGCAACCTTAAAAAAGTTCGGATAAACCTT
1 GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATCTT
145119 GTCTAAA
66 GTCTAAA
* * * * *
145126 GCAACCTTAAAAAGG-TTGAAATAGACCTTGTTTGAGACAACCTTTAAAAAAAAGTTGAGATAGA
1 GCAACCTTAAAAAGGTTTG-GATAGACCTTGTCTAAGGCAACC-TT--AAAAAAGTTGGGATAGA
* * *
145190 TTTTGTATAAG
62 TCTTGTCTAAA
* * * * * *
145201 GCAACCTT-----GATTGGGATAGACCTTGTTTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTT
1 GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATCTT
145261 GTCTAAA
66 GTCTAAA
* * * *
145268 GCAACCTTAAAAAGGTTTGGATAGA-CTCGTCTAAAGTAACCTT-AAAAAGATTGGGATAAATCT
1 GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAG-TTGGGATAGATCT
145331 TGTCT-AA
65 TGTCTAAA
* * * *
145338 GACAACCTTAAAAAAG-TTGAGATAAACCTTGTTTGAGGCAACCTTTAAAAAAAGTTGGGATAGA
1 G-CAACCTTAAAAAGGTTTG-GATAGACCTTGTCTAAGGCAACC-TT-AAAAAAGTTGGGATAGA
*
145402 CCTTGTCTAAA
62 TCTTGTCTAAA
* * * *
145413 ACAACCTTAAAAAGGTTAGGGTAGACCTTGTCTAAAGCAACCTTAAAAAAGTTGGGATAGATCTT
1 GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATCTT
145478 GTCT-AA
66 GTCTAAA
* * *
145484 GATAACCTTTAAAAAAGGTTGGGATAGACCATGTCTAAGGCAACCTTAAAAAAGTTGGGATAGA
1 G-CAACC-TT-AAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGA
145548 CCCGTCTAAT
Statistics
Matches: 408, Mismatches: 62, Indels: 46
0.79 0.12 0.09
Matches are distributed among these distances:
67 30 0.07
69 2 0.00
70 34 0.08
71 112 0.27
72 79 0.19
73 10 0.02
74 102 0.25
75 39 0.10
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (72 bp):
GCAACCTTAAAAAGGTTTGGATAGACCTTGTCTAAGGCAACCTTAAAAAAGTTGGGATAGATCTT
GTCTAAA
Found at i:145369 original size:213 final size:214
Alignment explanation
Indices: 145001--145545 Score: 690
Period size: 213 Copynumber: 2.5 Consensus size: 214
144991 AAAAAGGTTA
* * * **
145001 GGATAGATCTTGTCTAAGGCAACTTTAAAAAGGTTGGGGTAGGCCTTGTCTAAAGCAACCTTAAA
1 GGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAGCAACCTTAAA
* * *
145066 AAGGTTTGGATAGACTTGTTTAAGGCAACCTTAAAAAAGTTCGGATAAACCTTGTCTAAAGCAAC
66 AAGGTTTGGATAGACTCGTCTAAGGCAACCTTAAAAAAGTTGGGATAAACCTTGTCTAAAGCAAC
* * **
145131 CTTAAAAAGGTTGAAATAGACCTTGTTTGAGACAACCTTTAAAAAAAAGTTGAGATAGATTTTGT
131 CTTAAAAAAGTTGAAATAAACCTTGTTTGAGACAACCTTT-AAAAAAAGTTGAGATAGACCTTGT
**
145196 ATAAGGCAACCTT-GATT-G
195 ATAAAACAACCTTAGATTAG
*
145214 GGATAGACCTTGTTTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAGCAACCTTAAA
1 GGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAGCAACCTTAAA
* * *
145279 AAGGTTTGGATAGACTCGTCTAAAGTAACCTT-AAAAAGATTGGGATAAATCTTGTCT-AAGACA
66 AAGGTTTGGATAGACTCGTCTAAGGCAACCTTAAAAAAG-TTGGGATAAACCTTGTCTAAAG-CA
* * *
145342 ACCTTAAAAAAGTTGAGATAAACCTTGTTTGAGGCAACCTTTAAAAAAAGTTGGGATAGACCTTG
129 ACCTTAAAAAAGTTGAAATAAACCTTGTTTGAGACAACCTTTAAAAAAAGTTGAGATAGACCTTG
* *
145407 TCTAAAACAACCTTAAAAAGGTTAG
194 TATAAAACAACCTT----AGATTAG
* * *
145432 GG-TAGACCTTGTCTAAAGCAACCTTAAAAAAGTTGGGATAGATCTTGTCT-AAGATAACCTTTA
1 GGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAG-CAACC-TT-
*
145495 AAAAAGGTTGGGATAGAC-CATGTCTAAGGCAACCTTAAAAAAGTTGGGATA
63 AAAAAGGTTTGGATAGACTC--GTCTAAGGCAACCTTAAAAAAGTTGGGATA
145546 GACCCGTCTA
Statistics
Matches: 288, Mismatches: 30, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
212 40 0.14
213 143 0.50
216 3 0.01
217 52 0.18
218 6 0.02
219 17 0.06
220 21 0.07
221 6 0.02
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (214 bp):
GGATAGACCTTGTCTAAAGCAACCTTAAAAAGGTTGGGGTAGATCTTGTCTAAAGCAACCTTAAA
AAGGTTTGGATAGACTCGTCTAAGGCAACCTTAAAAAAGTTGGGATAAACCTTGTCTAAAGCAAC
CTTAAAAAAGTTGAAATAAACCTTGTTTGAGACAACCTTTAAAAAAAGTTGAGATAGACCTTGTA
TAAAACAACCTTAGATTAG
Found at i:145443 original size:110 final size:109
Alignment explanation
Indices: 144991--145549 Score: 452
Period size: 110 Copynumber: 5.2 Consensus size: 109
144981 GCAACCTTTA
* * * *
144991 AAAAAGGTTAGGATAGATCTTGTCTAAGGCAA-CTTT-AAAAAGGTTGGGGTAGGCCTTGTCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATA-GACTTGTCTAA
* * * *
145054 AGCAACCTTAAAAAGGTTTGGATAGA-CTTGTTTAAGGCAACCTT
65 GGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
* * * * ** * *
145098 AAAAAAGTTCGGATAAACCTTGTCTAAAGCAACC-TT-AAAAAGGTTGAAATAGACCTTGTTTGA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTGTCTAA
* * * ** * *
145161 GACAACCTTTAAAAAAAAGTTGAGATAGATTTTGTATAAGGCAACCTT
65 GGCAACC-TT--AAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
* * * *
145209 -----GATTGGGATAGACCTTGTTTAAAGCAACC-TT-AAAAAGGTTGGGGTAGATCTTGTCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTGTCTAA
* * * *
145267 AGCAACCTTAAAAAGGTTTGGATAGA-CTCGTCTAAAGTAACCTT
65 GGCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
* * * * * * * *
145311 AAAAAGATTGGGATAAATCTTGTCTAAGACAACC-TTAAAAAA-GTTGAGATAAACCTTGTTTGA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTGTCTAA
* *
145374 GGCAACCTTTAAAAAAAGTTGGGATAGACCTTGTCTAAAACAACCTT
65 GGCAACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
*
145421 AAAAAGGTTAGGG-TAGACCTTGTCTAAAGCAACC-TTAAAAAA-GTTGGGATAGATCTTGTCTA
1 AAAAAGGTT-GGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CTTGTCTA
** * *
145483 AGATAACCTTTAAAAAAGGTTGGGATAGACCATGTCTAAGGCAACCTT
64 AGGCAACC-TT-AAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
*
145531 AAAAAAGTTGGGATAGACC
1 AAAAAGGTTGGGATAGACC
145550 CGTCTAATGC
Statistics
Matches: 362, Mismatches: 73, Indels: 31
0.78 0.16 0.07
Matches are distributed among these distances:
102 13 0.04
103 14 0.04
105 2 0.01
106 53 0.15
107 100 0.28
108 10 0.03
109 18 0.05
110 133 0.37
111 19 0.05
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (109 bp):
AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACTTGTCTAAG
GCAACCTTAAAAAGGTTGGGATAGACCTTGTCTAAAGCAACCTT
Found at i:146259 original size:28 final size:27
Alignment explanation
Indices: 146201--146259 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
146191 TGGGGTTATG
*
146201 GGTTTGAGGTTCATGTTTAGAGTTCGG
1 GGTTTGAGGTTCATGTTTAGAGTTCGA
* *
146228 GGTTTTAGGTTTATGATTTA-AGGTTCGA
1 GGTTTGAGGTTCATG-TTTAGA-GTTCGA
146256 GGTT
1 GGTT
146260 CTAAATTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.17, C:0.05, G:0.34, T:0.44
Consensus pattern (27 bp):
GGTTTGAGGTTCATGTTTAGAGTTCGA
Found at i:146829 original size:141 final size:141
Alignment explanation
Indices: 146526--146988 Score: 712
Period size: 141 Copynumber: 3.3 Consensus size: 141
146516 CAACACTTAG
* *
146526 AAAAGTGTCGGCATAGTGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
1 AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* * * * * * *
146591 TCCAACTCTTATAC-AAAGAGTTGGCCAAAGCGTATGCCGATAAGTCTACCCCAACACTTAGGAA
66 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTCAACACTTAGGAA
* *
146655 AGTGTCGGCCC
131 AGTGTCGTCTC
* * * *
146666 AAAAGTGTCGCCATAGTGTTGGACAAAGCTAACTCTTATTTAAGCGTTGCCTTAGGCATGTATAT
1 AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
*
146731 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTTAACACTTAGGAA
66 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTCAACACTTAGGAA
* *
146796 AGTGTCATCTA
131 AGTGTCGTCTC
*
146807 AAAAGTGTCGACATAATGTTGGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
1 AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* *
146872 CCCATCCCTTATACAAAAGAGTTGGCAAAAGCATATGTCGACAAGTCTATCTCAACACTTAGGAA
66 CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTCAACACTTAGGAA
146937 AGTGTCGTCTC
131 AGTGTCGTCTC
**
146948 AAAAGTGTCGACATAATGTTGGACAAAATCAACTCTTATTT
1 AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTT
146989 TTGCTGTTGA
Statistics
Matches: 294, Mismatches: 28, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
140 74 0.25
141 220 0.75
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (141 bp):
AAAAGTGTCGACATAATGTTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
CCCAACCCTTATACAAAAGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCTCAACACTTAGGAA
AGTGTCGTCTC
Found at i:147034 original size:6 final size:6
Alignment explanation
Indices: 147023--147088 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
147013 TGGGCCGAAC
* * *
147023 AAATTT AAATTT -ATTTT AAAATT AAGTTT --ATTCT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATT-T AAATTT AAATTT
147069 --ATTAT AAATTT AAATTT AAA
1 AAATT-T AAATTT AAATTT AAA
147089 ATTCATTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
4 5 0.11
5 6 0.13
6 30 0.64
7 6 0.13
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:147052 original size:17 final size:17
Alignment explanation
Indices: 147023--147086 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
147013 TGGGCCGAAC
*
147023 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTAT
* * *
147040 AAAATTAAGTTTATTCT
1 AAATTTAAATTTATTAT
147057 AAATTTAAATTTATTAT
1 AAATTTAAATTTATTAT
147074 AAATTTAAATTTA
1 AAATTTAAATTTA
147087 AAATTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
AAATTTAAATTTATTAT
Found at i:147727 original size:3 final size:3
Alignment explanation
Indices: 147719--147746 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
147709 GCTCATAAGT
147719 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
147747 GTGATAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:148827 original size:29 final size:29
Alignment explanation
Indices: 148794--149157 Score: 265
Period size: 30 Copynumber: 12.6 Consensus size: 29
148784 AACTATCTGG
* *
148794 AAATTCCATTTTTACCCTCGAACTTCTAA
1 AAATTCCATTTTTACCCTCAAACTTCCAA
* *
148823 AAATTCCATTTTTAACCTCGAAACTTCCGA
1 AAATTCCATTTTTACCCTC-AAACTTCCAA
* * *
148853 AAATTCCATTTTTACCTCCCGAACTTCCCA
1 AAATTCCATTTTTACC-CTCAAACTTCCAA
* *
148883 AAATCCCATTTTAGACCC-CTAAACTTCCAA
1 AAATTCCATTTT-TACCCTC-AAACTTCCAA
148913 AAATTCCA--TTTACCC-CTAAACTTCCAA
1 AAATTCCATTTTTACCCTC-AAACTTCCAA
* *
148940 ATATCCCA---TTA-----AAACTT-CAA
1 AAATTCCATTTTTACCCTCAAACTTCCAA
*
148960 AAATTCCATTTTTACCCCTCGAACTTCCAA
1 AAATTCCATTTTTA-CCCTCAAACTTCCAA
* *
148990 AAATCCCATTTTTAACCCTAAAACTTCCAA
1 AAATTCCATTTTT-ACCCTCAAACTTCCAA
*
149020 AAATTCCATTTTTGACCCTAAAACTTCCAAA
1 AAATTCCATTTTT-ACCCTCAAACTTCC-AA
*
149051 AAATTCCATTTTTACCCCTCAAACATCCAA
1 AAATTCCATTTTTA-CCCTCAAACTTCCAA
* * * *
149081 AATTTTCATTTTTAACCC-CAAATTTTCCTA
1 AAATTCCATTTTT-ACCCTCAAA-CTTCCAA
* * * *
149111 AAATTATCA-TTTCACCCCCGAAACTTTCAA
1 AAATT-CCATTTTTACCCTC-AAACTTCCAA
149141 AAATTACCA-TTTTACCC
1 AAATT-CCATTTTTACCC
149158 CCGAATATCC
Statistics
Matches: 275, Mismatches: 38, Indels: 43
0.77 0.11 0.12
Matches are distributed among these distances:
20 9 0.03
21 6 0.02
23 3 0.01
26 3 0.01
27 22 0.08
28 2 0.01
29 32 0.12
30 159 0.58
31 39 0.14
ACGTcount: A:0.35, C:0.30, G:0.02, T:0.33
Consensus pattern (29 bp):
AAATTCCATTTTTACCCTCAAACTTCCAA
Found at i:148968 original size:20 final size:21
Alignment explanation
Indices: 148930--148969 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
148920 ATTTACCCCT
*
148930 AAACTTCCAAATATCCCATTA
1 AAACTTCCAAAAATCCCATTA
*
148951 AAACTT-CAAAAATTCCATT
1 AAACTTCCAAAAATCCCATT
148970 TTTACCCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
AAACTTCCAAAAATCCCATTA
Found at i:148996 original size:50 final size:48
Alignment explanation
Indices: 148903--148999 Score: 142
Period size: 50 Copynumber: 2.0 Consensus size: 48
148893 TTAGACCCCT
*
148903 AAACTTCCAAAAATTCCATTTACCCCTAAACTTCCAAATATCCCATTA
1 AAACTTCCAAAAATTCCATTTACCCCTAAACTTCCAAAAATCCCATTA
*
148951 AAACTT-CAAAAATTCCATTTTTACCCCTCGAACTTCCAAAAATCCCATT
1 AAACTTCCAAAAATTCCA--TTTACCCCT-AAACTTCCAAAAATCCCATT
149000 TTTAACCCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 11 0.25
48 6 0.14
49 9 0.20
50 18 0.41
ACGTcount: A:0.38, C:0.31, G:0.01, T:0.30
Consensus pattern (48 bp):
AAACTTCCAAAAATTCCATTTACCCCTAAACTTCCAAAAATCCCATTA
Found at i:148999 original size:137 final size:141
Alignment explanation
Indices: 148814--149081 Score: 361
Period size: 137 Copynumber: 1.9 Consensus size: 141
148804 TTTACCCTCG
* * **
148814 AACTTCTAAAAATTCCATTTTTAACCTCGAAACTTCCGAAAATTCCATTTTT-ACCTCCCGAACT
1 AACTTCTAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATCCCATTTTTAACC-CCAAAACT
* *
148878 TCCCAAAATCCCATTTTAGACCCCT-AAACTTCC-AAAAATTCCA-TTTACCCCT-AAACTTCCA
65 TCCAAAAATCCCATTTTAGA-CCCTAAAACTTCCAAAAAATTCCATTTTACCCCTCAAACATCCA
148939 AATATCCCATTAA
129 AATATCCCATTAA
* *
148952 AACTTC-AAAAATTCCATTTTTACCCCTCG-AACTTCCAAAAATCCCATTTTTAACCCTAAAACT
1 AACTTCTAAAAATTCCATTTTTA-ACCTCGAAACTTCCAAAAATCCCATTTTTAACCCCAAAACT
* *
149015 TCCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAAATTCCATTTTTACCCCTCAAACATCCA
65 TCCAAAAATCCCATTTTAGACCCTAAAACTTCCAAAAAATTCCA-TTTTACCCCTCAAACATCCA
149080 AA
129 AA
149082 ATTTTCATTT
Statistics
Matches: 113, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
136 4 0.04
137 66 0.58
138 24 0.21
140 9 0.08
141 10 0.09
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (141 bp):
AACTTCTAAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATCCCATTTTTAACCCCAAAACTT
CCAAAAATCCCATTTTAGACCCTAAAACTTCCAAAAAATTCCATTTTACCCCTCAAACATCCAAA
TATCCCATTAA
Found at i:149091 original size:61 final size:60
Alignment explanation
Indices: 148949--149098 Score: 185
Period size: 61 Copynumber: 2.5 Consensus size: 60
148939 AATATCCCAT
* * **
148949 TAAAAC-TTCAAAAATTCCATTTTTACCCCTCGAACTTCCAAAAATCCCATTTTTAACCC
1 TAAAACATCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATCCCATTTTTAACCC
* * * *
149008 TAAAACTTCCAAAAATTCCATTTTTGACCCTAAAACTTCCAAAAAATTCCATTTTTACCCC
1 TAAAACATCCAAAAATTCCATTTTTAACCCTAAAACTTCC-AAAAATCCCATTTTTAACCC
* * *
149069 TCAAACATCCAAAATTTTCATTTTTAACCC
1 TAAAACATCCAAAAATTCCATTTTTAACCC
149099 CAAATTTTCC
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 6 0.08
60 28 0.36
61 43 0.56
ACGTcount: A:0.37, C:0.29, G:0.01, T:0.33
Consensus pattern (60 bp):
TAAAACATCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAATCCCATTTTTAACCC
Found at i:149135 original size:91 final size:88
Alignment explanation
Indices: 148950--149191 Score: 238
Period size: 91 Copynumber: 2.7 Consensus size: 88
148940 ATATCCCATT
* *
148950 AAAACTTCAAAAATTCCATTTTTACCCCTCGAACTTCCAAAAATCCCATTTTTAACCCTAAAACT
1 AAAACTTCAAAAATTCCATTTTTACCCCTCGAACATCCAAAAATCCCATTTTTAACCCCAAAACT
* * *
149015 TCCAAAAATTCCATTTTTGACCCT
66 TCCAAAAATT-CATATTTCACCCC
* * ** *
149039 AAAACTTCCAAAAAATTCCATTTTTACCCCTCAAACATCCAAAATTTTCATTTTTAACCCCAAAT
1 AAAACTT-C-AAAAATTCCATTTTTACCCCTCGAACATCCAAAAATCCCATTTTTAACCCCAAAA
* *
149104 TTTCCTAAAATT-ATCATTTCACCCCC
64 CTTCCAAAAATTCAT-ATTTCA-CCCC
* * * * *
149130 GAAACTTTCAAAAATTACCA-TTTTACCCC-CGAATATCCAAAAAGTCTCATTTTGAACTCCAA
1 AAAAC-TTCAAAAATT-CCATTTTTACCCCTCGAACATCCAAAAA-TCCCATTTTTAACCCCAA
149192 TTGCATCATT
Statistics
Matches: 127, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
89 20 0.16
90 36 0.28
91 69 0.54
92 2 0.02
ACGTcount: A:0.37, C:0.29, G:0.02, T:0.32
Consensus pattern (88 bp):
AAAACTTCAAAAATTCCATTTTTACCCCTCGAACATCCAAAAATCCCATTTTTAACCCCAAAACT
TCCAAAAATTCATATTTCACCCC
Found at i:163738 original size:3 final size:3
Alignment explanation
Indices: 163732--163763 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
163722 AAGAGTTAAT
*
163732 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
163764 GCGGTTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Done.