Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold877
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: 219531
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 1 of 2
Found at i:2121 original size:28 final size:27
Alignment explanation
Indices: 2081--2152 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
2071 GGAATAAAAC
*
2081 CGGGGTTGGAGTATCTCCTCG-GAAGTAA
1 CGGGGTTGGAGTATC-CC-CGAGAAATAA
2109 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGA-GAAATAA
*
2137 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2153 TCGATTATGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 36 0.90
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGAAATAA
Found at i:2356 original size:51 final size:51
Alignment explanation
Indices: 2140--2364 Score: 207
Period size: 52 Copynumber: 4.3 Consensus size: 51
2130 GAAATAACGA
* * * **
2140 GGTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTATGAAAAA-T--TAGTGTTTTGGAAATAAAACCGG
* * * * * *
2194 AGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGA
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTAGTGTTTTGGAAATAAAACCGG
* * *
2247 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * * **
2299 GATTGGAGTATTCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
2350 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2365 TCGAAAATAA
Statistics
Matches: 136, Mismatches: 32, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
51 36 0.26
52 42 0.31
53 34 0.25
54 17 0.12
55 1 0.01
56 6 0.04
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:2414 original size:27 final size:27
Alignment explanation
Indices: 2347--2422 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 27
2337 GAAATAAAGT
2347 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAAATAA
* * *
2375 TGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
2402 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2423 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 27 0.63
28 13 0.30
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:2513 original size:51 final size:53
Alignment explanation
Indices: 2406--2528 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 53
2396 GATTAACGGG
* ** * **
2406 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAATG-TTTTTGAAAATAAAATCAGA
2460 GTTGGAGTATCCCCGATTAT--AGAAAATTAATG-TTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAATGTTTTTGAAAATAAAATCAGA
* *
2511 GTTGGAATGTCCCCGATT
1 GTTGGAGTATCCCCGATT
2529 GTGGAGAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
51 32 0.53
52 2 0.03
53 7 0.12
54 19 0.32
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAATGTTTTTGAAAATAAAATCAGA
Found at i:4918 original size:13 final size:13
Alignment explanation
Indices: 4900--4925 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4890 ACAAAGATCC
4900 ATGTATCGATACA
1 ATGTATCGATACA
4913 ATGTATCGATACA
1 ATGTATCGATACA
4926 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4921 original size:33 final size:33
Alignment explanation
Indices: 4879--4945 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4869 AAAATTTCCA
***
4879 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
4912 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
4945 A
1 A
4946 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:4989 original size:19 final size:18
Alignment explanation
Indices: 4965--5032 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
4955 CAGTAGCTAA
4965 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4984 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4999 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
5016 TTATGTATCAATACAAA
1 TTATGTATCGATACAAA
5033 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:5005 original size:13 final size:13
Alignment explanation
Indices: 4987--5011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4977 ACAATACTTA
4987 TGTATCGATACAT
1 TGTATCGATACAT
5000 TGTATCGATACA
1 TGTATCGATACA
5012 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5009 original size:32 final size:32
Alignment explanation
Indices: 4968--5030 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
4958 TAGCTAATTA
* *
4968 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCAATACAT
5000 TGTATCGATACAAAACTTATGTATCAATACA
1 TGTATCGATACAAAACTTATGTATCAATACA
5031 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCAATACAT
Found at i:9833 original size:22 final size:22
Alignment explanation
Indices: 9805--9854 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
9795 CGGTAATAGC
*
9805 AGCAGCAAATGAAAAACACACT
1 AGCAGCAAATGAAAAACACACA
*
9827 AGCAGCAAATGACAAACACACA
1 AGCAGCAAATGAAAAACACACA
9849 AGCAGC
1 AGCAGC
9855 TGATGGTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.52, C:0.26, G:0.16, T:0.06
Consensus pattern (22 bp):
AGCAGCAAATGAAAAACACACA
Found at i:9985 original size:17 final size:17
Alignment explanation
Indices: 9949--9986 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9939 CACCAACGAT
*
9949 AGCAAACAGCAATCAGC
1 AGCAAACAGCAATCAAC
9966 AGCAAACAGCCAA-CAAC
1 AGCAAACAG-CAATCAAC
9983 AGCA
1 AGCA
9987 GCTTTAGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.50, C:0.32, G:0.16, T:0.03
Consensus pattern (17 bp):
AGCAAACAGCAATCAAC
Found at i:10083 original size:19 final size:20
Alignment explanation
Indices: 10045--10086 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10035 ATGAAACAAT
10045 AGCTCCAGCAACCAAATAGC
1 AGCTCCAGCAACCAAATAGC
* *
10065 AGCTCTAGCAGCC-AATAGC
1 AGCTCCAGCAACCAAATAGC
10084 AGC
1 AGC
10087 AGCTTCAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.36, C:0.33, G:0.19, T:0.12
Consensus pattern (20 bp):
AGCTCCAGCAACCAAATAGC
Found at i:12019 original size:155 final size:155
Alignment explanation
Indices: 11570--12294 Score: 597
Period size: 155 Copynumber: 4.7 Consensus size: 155
11560 ACTAGGTTTA
* * * * * *
11570 CTTTTATGCCAAAAGTAGGTATTTAGGATAGGTTCACCCCATCTATAAAT-CTTTTTAAAGCCCT
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCC-T-TCTAAATCCTTTTT-AAGTCTT
* * * * * *
11634 TTAGGGGTATCGGGTACTTTTACGTCGAAGATATCTCCTAGGGGCATTTTCATAATTTTTCTCGA
63 TTAGGAGTATCGAGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCTAGA
* *** * *
11699 ATTAAGCCCTAGGTTGTCACCAAGCCCG
128 ACTAAATTCTAGGTTGTCACCGAGTCCG
* * * * * *
11727 CTTTTATGCTGAAA-GTGGGTATTTAGGGTAAGTTCACCCCATTC-ATATCATTTTTAAGT-TCT
1 CTTTTATGC-CAAAGGTGGGTATTTAGGATAGGTTCATCCC-TTCTAAATCCTTTTTAAGTCT-T
* * * ** * * * * *
11789 TTAGGGGTATCGGGCA-TTATTATGTCGAAGATCTCTCCTAGGGACATTTTCATAATTTTTTTAG
63 TTAGGAGTATCGAGTACTT-TTACATCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCTAG
* * * * *
11853 -AGTCGATTTCTAGGTTGTCATCGGGTCCG
127 AACT-AAATTCTAGGTTGTCACCGAGTCCG
* *
11882 CTTTTACGCCAAAGGTGGGTATTTAGGATATGTTCATCCCTTCTAAATCCTTTTTAAGTCTTTTA
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTCTAAATCCTTTTTAAGTCTTTTA
* * * *
11947 GGAGTATCGAGTACTTTTGCATCGAAGGTTTCCCCTAGGGGTATTTTCATAATTTTTTTAGAACT
66 GGAGTATCGAGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCTAGAACT
* **
12012 AAATTCTAGGTTGTCACTG-GATTTG
131 AAATTCTAGGTTGTCACCGAG-TCCG
* * * * * * * * *
12037 TTTTTATGCCGAAGGTGGGTATTTAAGATAGGTTTATCCTTTTTAAAATTCTTTTTAGGTCATTT
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTCT-AAATCCTTTTTAAGTCTTTT
* * ** *
12102 AGGAGTAT-TAGGTACTTTTACATCAAAGGTATCCTTTAGCGGCATTTTCATAATTTTTCTAGAA
65 AGGAGTATCGA-GTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCTAGAA
* * * **
12166 CCAACTTCTAGGTTGTTACCGAGTCTA
129 CTAAATTCTAGGTTGTCACCGAGTCCG
* * * * *
12193 CTTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTCTATATCCTTTTTAGGTCCTTTA
1 CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTCTAAATCCTTTTTAAGT-CTTTT
* *
12258 AGG-GTAT-TAGGTACTTTTACGTCGAAGGTATCCCCTA
65 AGGAGTATCGA-GTACTTTTACATCGAAGGTATCCCCTA
12295 AAAGTAGTTT
Statistics
Matches: 464, Mismatches: 89, Indels: 32
0.79 0.15 0.05
Matches are distributed among these distances:
154 11 0.02
155 271 0.58
156 144 0.31
157 35 0.08
158 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (155 bp):
CTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTCTAAATCCTTTTTAAGTCTTTTA
GGAGTATCGAGTACTTTTACATCGAAGGTATCCCCTAGGGGCATTTTCATAATTTTTCTAGAACT
AAATTCTAGGTTGTCACCGAGTCCG
Found at i:12729 original size:21 final size:21
Alignment explanation
Indices: 12705--12744 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12695 GGATGATGGA
* *
12705 ACAAATTCAAGCGTTACAAGT
1 ACAAATCCAAGCATTACAAGT
*
12726 ACAAGTCCAAGCATTACAA
1 ACAAATCCAAGCATTACAA
12745 AATTGCTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.12, T:0.20
Consensus pattern (21 bp):
ACAAATCCAAGCATTACAAGT
Found at i:18370 original size:31 final size:31
Alignment explanation
Indices: 18333--18438 Score: 98
Period size: 30 Copynumber: 3.5 Consensus size: 31
18323 TTTTAAATAT
18333 TTAAAAGTTATGAATGAAAATGAAATATTAA
1 TTAAAAGTTATGAATGAAAATGAAATATTAA
* *
18364 TTAAAAG-T-TGAATATGATAAATGTAA-CTT--
1 TTAAAAGTTATG-A-ATGA-AAATGAAATATTAA
* *
18393 TTAAAAGTAATGAATGAAAATAAAATATTAA
1 TTAAAAGTTATGAATGAAAATGAAATATTAA
*
18424 -TAAAGGTTATGAATG
1 TTAAAAGTTATGAATG
18439 GTTAATGTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
28 6 0.10
29 15 0.25
30 16 0.27
31 15 0.25
32 7 0.12
ACGTcount: A:0.52, C:0.01, G:0.14, T:0.33
Consensus pattern (31 bp):
TTAAAAGTTATGAATGAAAATGAAATATTAA
Found at i:21255 original size:18 final size:19
Alignment explanation
Indices: 21220--21255 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
21210 GGTTGCTTGT
*
21220 AAAATTTAAAAATAAAAAG
1 AAAATTTAAAAAAAAAAAG
21239 AAAA-TTAAAAAAAAAAA
1 AAAATTTAAAAAAAAAAA
21256 TTCCTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATTTAAAAAAAAAAAG
Found at i:22043 original size:13 final size:13
Alignment explanation
Indices: 22025--22067 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22015 AAATTTTTGT
22025 AATTTTTATTTTA
1 AATTTTTATTTTA
* *
22038 AATTTTGATTTTT
1 AATTTTTATTTTA
*
22051 AATTATTTATATTA
1 AATT-TTTATTTTA
22065 AAT
1 AAT
22068 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
AATTTTTATTTTA
Found at i:23157 original size:29 final size:27
Alignment explanation
Indices: 23125--23178 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
23115 GTTAATATAT
23125 TAAAGATTATTTT-TATATTAATATTTATG
1 TAAAGATT-TTTTATA-ATTAA-ATTTATG
*
23154 TAAATATTTTTTATAATTAAATTTA
1 TAAAGATTTTTTATAATTAAATTTA
23179 AATAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.22
28 9 0.39
29 9 0.39
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (27 bp):
TAAAGATTTTTTATAATTAAATTTATG
Found at i:23186 original size:28 final size:28
Alignment explanation
Indices: 23130--23200 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 28
23120 TATATTAAAG
**
23130 ATTA-TTTTTATATTAATATTTATGTAA
1 ATTATTTTTTATATTAATATTTAAATAA
23157 A-TATTTTTTATAATTAA-ATTTAAATAAA
1 ATTATTTTTTAT-ATTAATATTTAAAT-AA
*
23185 ATTTATTTTTTTTATT
1 A-TTATTTTTTATATT
23201 GAATGAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
26 2 0.06
27 14 0.39
28 8 0.22
29 3 0.08
30 9 0.25
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (28 bp):
ATTATTTTTTATATTAATATTTAAATAA
Found at i:28098 original size:2 final size:2
Alignment explanation
Indices: 28056--28085 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28046 AACCGGTGCA
28056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28086 CAATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45483 original size:15 final size:16
Alignment explanation
Indices: 45463--45496 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45453 GTAAAAGCAC
45463 AAAAAATG-AAAAGAA
1 AAAAAATGCAAAAGAA
45478 AAAAAATGCAAAAGAA
1 AAAAAATGCAAAAGAA
45494 AAA
1 AAA
45497 TAAAAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAAATGCAAAAGAA
Found at i:46877 original size:27 final size:27
Alignment explanation
Indices: 46836--47355 Score: 597
Period size: 27 Copynumber: 19.1 Consensus size: 27
46826 TGGCATTTCT
*
46836 TTTTAAAGTCCACAACTTCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
46864 TTTTAAGTCCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
46891 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
46919 TTTTAAGTCCACAACTCCGTGGCAT-C
1 TTTTAAGTCCACAACTCCGTGGCATCC
46945 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
*
46973 -TTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
46999 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
* *
47027 TTTTAAAGTCCATAACTCTGTGGCA-CC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
* * *
47054 CTTTAGAGTCCACAACTCTGTGGCACCC
1 TTTTA-AGTCCACAACTCCGTGGCATCC
* *
47082 TTTTAAGTCCACAACTCCGTGACACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
47109 TTTTAAGTCCACAACTTCGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
47135 TTTTTAAGTCCACAACTCTGTGGCA-CTC
1 -TTTTAAGTCCACAACTCCGTGGCATC-C
* * * * *
47163 TTTTAAAGTCCATAATTTCGTGGTACCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
* *
47191 TTTTAAGTCCACAACCCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
47218 TTTTAAGTCCACAACTCCGTGGCA-CTT
1 TTTTAAGTCCACAACTCCGTGGCATC-C
* *
47245 TTTTAAGTCCATAACTCCATGGCA-CTC
1 TTTTAAGTCCACAACTCCGTGGCATC-C
* * **
47272 TTTTGAAATCCACAACTTCGTGGCATTA
1 TTTT-AAGTCCACAACTCCGTGGCATCC
47300 TTTTAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * * *
47326 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTT-TAAGTCCACAACTCCGTGGCATCC
47354 TT
1 TT
47356 CTCAAAGCCC
Statistics
Matches: 432, Mismatches: 44, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
26 34 0.08
27 270 0.62
28 127 0.29
29 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCATCC
Found at i:47050 original size:109 final size:109
Alignment explanation
Indices: 46836--47481 Score: 674
Period size: 109 Copynumber: 5.9 Consensus size: 109
46826 TGGCATTTCT
* *
46836 TTTTAAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
46901 CACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATC
66 CACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCATC
* *
46945 TTTTAAAGTCCACAACTCCGTGGCATCC-TTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
* * *
47009 CACAACTCCGTGGCACCCTTTTAAAGTCCATAACTCTGTGGCACC
66 CACAACTCCGTGGCA-CCTTTTAAAGTCCACAACTCCGTGGCATC
* * * * *
47054 CTTTAGAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGACACCCTTTT-AAGTC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
* * *
47118 CACAACTTCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACTC
66 CACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCA-TC
* * * * * *
47163 TTTTAAAGTCCATAATTTCGTGGTACCCTTTTAAGTCCACAACCCCGTGGCACCCTTTT-AAGTC
1 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
* * * *
47227 CACAACTCCGTGGCACTTTTTTAAGTCCATAACTCCATGGCACTC
66 CACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCA-TC
* ** * *
47272 TTTTGAAA-TCCACAACTTCGTGGCATTATTTTAAGTCCACAACTCCGTGGCA-CCTTTCAAAGC
1 TTTT-AAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGT
* * * * * **
47335 CCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAATGGCATC
65 CCACAACTCCGTGGCA-CCTT-TTAAAGTCCACAACTCCGTGGCATC
* * * * * * * ** * *
47382 TTTTCAAAGCCCACAAGTCAGTGACATCCTTTCAAAGCCCACAAGTTAGTGGCACCATTTCAAAG
1 TTTT-AAAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCCGTGGCACCCTTTTAAAG
* * ** * *
47447 CCCACAAGTTAGTGGCATCATTTTAAAGCCCACAA
64 TCCACAACTCCGTGGCA-CCTTTTAAAGTCCACAA
47482 GTCAATGGCA
Statistics
Matches: 461, Mismatches: 66, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
108 86 0.19
109 243 0.53
110 42 0.09
111 33 0.07
112 28 0.06
113 29 0.06
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.29
Consensus pattern (109 bp):
TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
CACAACTCCGTGGCACCTTTTAAAGTCCACAACTCCGTGGCATC
Found at i:47339 original size:136 final size:136
Alignment explanation
Indices: 46836--47355 Score: 620
Period size: 136 Copynumber: 3.8 Consensus size: 136
46826 TGGCATTTCT
* * *
46836 TTTTAAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAAGTC
* * *
46901 CACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTAAAGTCCACAACTCCG
65 CACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCG
46965 TGGCA-TC
129 TGGCACTC
* *
46972 CTTTAAGTCCACAACTCTGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
1 TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAA-TCCACAACTCCGTGGCACCCTTTTAAAGTC
* * * *
47037 CATAACTCTGTGGCACCCTTTAGAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
* *
47102 GACACCC
130 GGCACTC
* * * *
47109 TTTTAAGTCCACAACTTCGTGGCA-CCTTTTTAAGTCCACAACTCTGTGGCACTCTTTTAAAGTC
1 TTTTAAGTCCACAACTCCGTGGCATCC-TTTTAAATCCACAACTCCGTGGCACCCTTTTAAAGTC
* * * * * *
47173 CATAATTTCGTGGTACCCTTTTAAGTCCACAACCCCGTGGCACCCTTTTAAGTCCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
*
47238 GGCACTT
130 GGCACTC
* * * ***
47245 TTTTAAGTCCATAACTCCATGGCA-CTCTTTTGAAATCCACAACTTCGTGGCATTATTTT-AAGT
1 TTTTAAGTCCACAACTCCGTGGCATC-CTTTT-AAATCCACAACTCCGTGGCACCCTTTTAAAGT
* * * *
47308 CCACAACTCCGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCATCCTT
64 CCACAACTCCGTGGCACCCTTT-AAAGTCCACAACTCCGTGGCACCCTT
47356 CTCAAAGCCC
Statistics
Matches: 328, Mismatches: 49, Indels: 14
0.84 0.13 0.04
Matches are distributed among these distances:
135 32 0.10
136 240 0.73
137 56 0.17
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (136 bp):
TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAAGTCC
ACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
GCACTC
Found at i:47482 original size:28 final size:28
Alignment explanation
Indices: 47291--48123 Score: 531
Period size: 28 Copynumber: 28.3 Consensus size: 28
47281 CCACAACTTC
* * * * *
47291 GTGGCATTATTT-TAAGTCCACAACTCC
1 GTGGCATCATTTCAAAGCCCACAAGTCA
*
47318 GTGGCA-CCTTTCAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
*
47345 GTGGCATCCTTCTCAAAGCCCACAAGTCA
1 GTGGCATCATT-TCAAAGCCCACAAGTCA
* *
47374 ATGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
47402 GTGACATCCTTTCAAAGCCCACAAGTTA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
47430 GTGGCACCATTTCAAAGCCCACAAGTTA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
*
47458 GTGGCATCATTTTAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
47486 ATGGCACCATTTCAAAGCCCACAAGTTA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
47514 GTTGCATCACTTCAAAGCCCACACAAGTCG
1 GTGGCATCATTTCAAAG-CC-CACAAGTCA
* * *
47544 GTGGCACCCTTTGAAAGCCCACACGAGTC-
1 GTGGCATCATTTCAAAGCCCACA--AGTCA
** *
47573 GATGGCAACTCATTTGGAAGCCCACACAAGTTA
1 G-TGGC-A-TCATTTCAAAG-CC-CACAAGTCA
** **
47606 GTGGCAACTCATTTGGAAGCCCACACAAGTTG
1 GTGGC-A-TCATTTCAAAG-CC-CACAAGTCA
** * **
47638 GTGATAACCCATTTCAAAGCTCACACAAGTTG
1 GTG-GCA-TCATTTCAAAGC-C-CACAAGTCA
* *
47670 GTGGCAACCCATTTCAAAGCCCACACAAGTTA
1 GTGGC-A-TCATTTCAAAG-CC-CACAAGTCA
* **
47702 GTGGCAACCTATTTCAAAGCCCACACAAGTTG
1 GTGGC-ATC-ATTTCAAAG-CC-CACAAGTCA
* *
47734 GTGGCAACCCATTTGAAAGCCCACACAAGTC-
1 GTGGC-A-TCATTTCAAAG-CC-CACAAGTCA
**
47765 GATGGCAACTCATTTCAAAGCCCACACAAGTTG
1 G-TGGC-A-TCATTTCAAAG-CC-CACAAGTCA
* * *
47798 GTGGTAACCCATTTCAAAGCCCACACAAGTCG
1 GTGG-CA-TCATTTCAAAG-CC-CACAAGTCA
* * *
47830 GTGGTAACCCATTTCAAAGCCCACACAAGTCG
1 GTGG-CA-TCATTTCAAAG-CC-CACAAGTCA
* *
47862 GTGGCATCTTTTCAAAGCCCACAAGTTA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
47890 GTGGCACCCTTTCAAAGCCCACAAGTAA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * * * *
47918 GTGGCATCCTTTTAATGTCCACAAGTCG
1 GTGGCATCATTTCAAAGCCCACAAGTCA
*
47946 GTGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * * *
47974 ATGGTATCTTTTCCAAGCCCACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
48002 GTGGCAACTTTTCAAAGCCCACGAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * * *
48030 GTGGCATCCTTCCAAAACCCACGAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* *
48058 GTGGCATCCTTTCAAAGCCAACAAGTCA
1 GTGGCATCATTTCAAAGCCCACAAGTCA
* * *
48086 GTAGCATCTTTTCAAAGCCCACAGAAGTTA
1 GTGGCATCATTTCAAAGCCCAC--AAGTCA
48116 GTGGCATC
1 GTGGCATC
48124 TTTTTTTTAA
Statistics
Matches: 687, Mismatches: 95, Indels: 45
0.83 0.11 0.05
Matches are distributed among these distances:
26 3 0.00
27 23 0.03
28 328 0.48
29 33 0.05
30 48 0.07
31 6 0.01
32 235 0.34
33 7 0.01
34 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (28 bp):
GTGGCATCATTTCAAAGCCCACAAGTCA
Found at i:47599 original size:32 final size:32
Alignment explanation
Indices: 47524--47912 Score: 452
Period size: 32 Copynumber: 12.4 Consensus size: 32
47514 GTTGCATCAC
47524 TTCAAAGCCCACACAAGTCGGTGGC-ACCC-T
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * * *
47554 TTGAAAGCCCACACGAGTCGATGGCAACTCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
** ** *
47586 TTGGAAGCCCACACAAGTTAGTGGCAACTCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
** * **
47618 TTGGAAGCCCACACAAGTTGGTGATAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
47650 TTCAAAGCTCACACAAGTTGGTGGCAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
** *
47682 TTCAAAGCCCACACAAGTTAGTGGCAACCTAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
47714 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* * *
47746 TTGAAAGCCCACACAAGTCGATGGCAACTCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
47778 TTCAAAGCCCACACAAGTTGGTGGTAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
*
47810 TTCAAAGCCCACACAAGTCGGTGGTAACCCAT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
* *
47842 TTCAAAGCCCACACAAGTCGGTGGC-A-TCTT
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
**
47872 TTCAAAG-CC-CACAAGTTAGTGGC-ACCC-T
1 TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
47900 TTCAAAGCCCACA
1 TTCAAAGCCCACA
47913 AGTAAGTGGC
Statistics
Matches: 315, Mismatches: 39, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
28 21 0.07
29 5 0.02
30 33 0.10
31 4 0.01
32 252 0.80
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (32 bp):
TTCAAAGCCCACACAAGTCGGTGGCAACCCAT
Found at i:47675 original size:96 final size:95
Alignment explanation
Indices: 47411--47912 Score: 560
Period size: 96 Copynumber: 5.5 Consensus size: 95
47401 AGTGACATCC
** * *
47411 TTTCAAAG-CC-CACAAGTTAGTGGC-ACCATTTCAAAG-CC-CACAAGTTAGTGG-CA-TCATT
1 TTTCAAAGCCCACACAAGTTAGTGGCAACCATTTCAAAGCCCACACAAGTCGGTGGTAACCCATT
* *
47469 TTAAAG-CC-CACAAGTCAATGGC-AC-CA
66 TCAAAGCCCACACAAGTCGATGGCAACTCA
* * * *
47495 TTTCAAAG-CC-CACAAGTTAGTTGC-ATCACTTCAAAGCCCACACAAGTCGGTGG-CACCC-TT
1 TTTCAAAGCCCACACAAGTTAGTGGCAACCATTTCAAAGCCCACACAAGTCGGTGGTAACCCATT
* *
47555 TGAAAGCCCACACGAGTCGATGGCAACTCA
66 TCAAAGCCCACACAAGTCGATGGCAACTCA
** ** * *
47585 TTTGGAAGCCCACACAAGTTAGTGGCAACTCATTTGGAAGCCCACACAAGTTGGTGATAACCCAT
1 TTTCAAAGCCCACACAAGTTAGTGGCAAC-CATTTCAAAGCCCACACAAGTCGGTGGTAACCCAT
* * * *
47650 TTCAAAGCTCACACAAGTTGGTGGCAACCCA
65 TTCAAAGCCCACACAAGTCGATGGCAACTCA
* *
47681 TTTCAAAGCCCACACAAGTTAGTGGCAACCTATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTTCAAAGCCCACACAAGTTAGTGGCAACC-ATTTCAAAGCCCACACAAGTCGGTGGTAACCCAT
*
47746 TTGAAAGCCCACACAAGTCGATGGCAACTCA
65 TTCAAAGCCCACACAAGTCGATGGCAACTCA
* *
47777 TTTCAAAGCCCACACAAGTTGGTGGTAACCCATTTCAAAGCCCACACAAGTCGGTGGTAACCCAT
1 TTTCAAAGCCCACACAAGTTAGTGGCAA-CCATTTCAAAGCCCACACAAGTCGGTGGTAACCCAT
* *
47842 TTCAAAGCCCACACAAGTCGGTGGC-A-TCT
65 TTCAAAGCCCACACAAGTCGATGGCAACTCA
*
47871 TTTCAAAG-CC-CACAAGTTAGTGGC-ACCCTTTCAAAGCCCACA
1 TTTCAAAGCCCACACAAGTTAGTGGCAACCATTTCAAAGCCCACA
47913 AGTAAGTGGC
Statistics
Matches: 357, Mismatches: 46, Indels: 24
0.84 0.11 0.06
Matches are distributed among these distances:
84 33 0.09
85 2 0.01
86 20 0.06
87 3 0.01
88 12 0.03
89 2 0.01
90 24 0.07
91 3 0.01
92 25 0.07
93 3 0.01
94 32 0.09
95 6 0.02
96 190 0.53
97 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (95 bp):
TTTCAAAGCCCACACAAGTTAGTGGCAACCATTTCAAAGCCCACACAAGTCGGTGGTAACCCATT
TCAAAGCCCACACAAGTCGATGGCAACTCA
Found at i:48369 original size:94 final size:94
Alignment explanation
Indices: 48208--48379 Score: 301
Period size: 94 Copynumber: 1.8 Consensus size: 94
48198 ATCGCTGGCA
* * *
48208 TTGAATCAGCATATTGGCACCTTTATTAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGTCC
1 TTGAATCAGCACATTGCCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCC
48273 ACTTTTCCCTTAGCTCAATGTTGCTGACC
66 ACTTTTCCCTTAGCTCAATGTTGCTGACC
48302 TTGAATCAGCACATTGTCCA-CTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTC
1 TTGAATCAGCACATTG-CCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTC
48366 CACTTTTCCCTTAG
65 CACTTTTCCCTTAG
48380 TCCAACGTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
94 72 0.97
95 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (94 bp):
TTGAATCAGCACATTGCCACCTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCC
ACTTTTCCCTTAGCTCAATGTTGCTGACC
Found at i:48408 original size:94 final size:94
Alignment explanation
Indices: 48211--48410 Score: 287
Period size: 94 Copynumber: 2.1 Consensus size: 94
48201 GCTGGCATTG
* * *
48211 AATCAGCATATTG-GCACCTTTATTAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGTCCAC
1 AATCAGCACATTGTCCA-CTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCAC
* * *
48275 TTTTCCCTTAGCTCAATGTTGCTGACCTTG
65 TTTTCCCTTAGCTCAACGTCGCTGACCTTA
48305 AATCAGCACATTGTCCACTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACT
1 AATCAGCACATTGTCCACTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACT
*
48370 TTTCCCTTAG-TCCAACGTCGCTGGCCTTA
66 TTTCCCTTAGCT-CAACGTCGCTGACCTTA
**
48399 AATTGGCACATT
1 AATCAGCACATT
48411 AGCAATCCTC
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
93 1 0.01
94 92 0.97
95 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (94 bp):
AATCAGCACATTGTCCACTTTATTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACT
TTTCCCTTAGCTCAACGTCGCTGACCTTA
Found at i:48410 original size:49 final size:49
Alignment explanation
Indices: 48199--48397 Score: 243
Period size: 45 Copynumber: 4.2 Consensus size: 49
48189 AAATCCGATA
* * * *
48199 TCGCTGGCATTGAATCAGCATATTGG--CACCTTT--ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
* *
48244 TCGTTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCTCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
* * *
48293 TTGCTGACCTTGAATCAGCACATT-GTCCAC-TTT--ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
* *
48338 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGTCCAACG
1 TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
48387 TCGCTGGCCTT
1 TCGCTGGCCTT
48398 AAATTGGCAC
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
45 55 0.42
46 6 0.05
47 12 0.09
48 6 0.05
49 51 0.39
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.33
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
Found at i:48881 original size:13 final size:13
Alignment explanation
Indices: 48863--48888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48853 CATTATTCAA
48863 TGTATCGATACAT
1 TGTATCGATACAT
48876 TGTATCGATACAT
1 TGTATCGATACAT
48889 CAATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:48952 original size:20 final size:20
Alignment explanation
Indices: 48926--48980 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
48916 GTTTACCCAG
*
48926 ATGTATCGATACATTTTGCA
1 ATGTATCGATACATTTTACA
*
48946 TTGTATCGATACATTTTACA
1 ATGTATCGATACATTTTACA
48966 ATGTATCGATACATT
1 ATGTATCGATACATT
48981 CAGGCATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTACA
Found at i:51326 original size:51 final size:51
Alignment explanation
Indices: 51271--51507 Score: 266
Period size: 51 Copynumber: 4.6 Consensus size: 51
51261 TAAGTTTCTC
* * *
51271 AATTTTTCATAATCAGGGG-TACTTCAACCCCGGTTTTA-TTTCTAAAACACT
1 AATTTTTCACAATC-GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACT
* * * * *
51322 AATTTTCCACAATTGGGGATACTCCAACTCCGATTTTATTTTCGAACCACT
1 AATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT
* *
51373 AATTTTCCACAATCGGGGATACTCCAACCCC-AGTTTTATTTTCAAAACACC
1 AATTTTTCACAATCGGGGATACTCCAACCCCGA-TTTTATTTTCAAAACACT
* ** *
51424 AA-TTTTCTATAATCGGGGATACTCCAACTTCGATTTTATTTCCAAAAACACT
1 AATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACT
*
51476 AATTTTTCACAATCGAGGATACTCCAACCCCG
1 AATTTTTCACAATCGGGGATACTCCAACCCCG
51508 TTAATCATCG
Statistics
Matches: 156, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
50 9 0.06
51 108 0.69
52 34 0.22
53 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.33
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACT
Found at i:51447 original size:102 final size:103
Alignment explanation
Indices: 51271--51506 Score: 316
Period size: 102 Copynumber: 2.3 Consensus size: 103
51261 TAAGTTTCTC
* * * *
51271 AATTTTTCATAATCAGGGG-TACTTCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAAT
1 AATTTTTCACAATC-GGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTCCACAAT
* * * *
51335 TGGGGATACTCCAACTCCGATTTTATTTTC-GAACCACT
65 CGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACT
* * *
51373 AATTTTCCACAATCGGGGATACTCCAACCCCAGTTTTATTT-TCAAAACACCAATTTTCTATAAT
1 AATTTTTCACAATCGGGGATACTCCAACCCCAGTTTTATTTCT-AAAACACCAATTTTCCACAAT
*
51437 CGGGGATACTCCAACTTCGATTTTATTTCCAAAAACACT
65 CGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACT
*
51476 AATTTTTCACAATCGAGGATACTCCAACCCC
1 AATTTTTCACAATCGGGGATACTCCAACCCC
51507 GTTAATCATC
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
101 5 0.04
102 77 0.66
103 35 0.30
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (103 bp):
AATTTTTCACAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTCCACAATC
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACT
Found at i:51522 original size:27 final size:28
Alignment explanation
Indices: 51487--51562 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 28
51477 ATTTTTCACA
*
51487 ATCGAGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
51514 ATCGGGGATACTCCAACGCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
51542 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
51563 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:51597 original size:79 final size:79
Alignment explanation
Indices: 51514--52125 Score: 918
Period size: 79 Copynumber: 7.7 Consensus size: 79
51504 CCCGTTAATC
* *
51514 ATCGGGGATACTCCAACGCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
*
51579 ATTGATTTCTCATA
66 ATTGATTTCTCACA
** *
51593 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGCTTTATTTCTAAATT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
51658 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * * *
51672 ATTGGGAATACTCCAACCTCATTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
51737 ATTGATTTCTCACA
66 ATTGATTTCTCACA
*
51751 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
51816 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * * * *
51830 ATCGGGGATACTCCAATCCTGTAATTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
51895 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * * *
51909 ATCAGGGATACTCCAACCCCGTTATTTCCGAGGAGATACTCCAACCCTGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
51974 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * *
51988 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
*
52053 ATTGATTTCTCATA
66 ATTGATTTCTCACA
** * * * * * * **
52067 ATTAGGGATACTCCCACCCTGTTATTTTCAAGAGGATACGCCAACCCCGATTTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTC
52126 CAGAACACTG
Statistics
Matches: 485, Mismatches: 48, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 485 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT
ATTGATTTCTCACA
Found at i:53450 original size:20 final size:20
Alignment explanation
Indices: 53425--53509 Score: 118
Period size: 20 Copynumber: 4.2 Consensus size: 20
53415 TGTATCAATA
53425 ATTCTTCAATGCATCGATAC
1 ATTCTTCAATGCATCGATAC
*
53445 ATTCTTCAATGTATCGATAC
1 ATTCTTCAATGCATCGATAC
* *
53465 ATGT-ATGAATGCATCGATAC
1 AT-TCTTCAATGCATCGATAC
*
53485 ATTCTTCAATGTATCGATAC
1 ATTCTTCAATGCATCGATAC
53505 ATTCT
1 ATTCT
53510 ATGTTTTTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.02
20 54 0.96
21 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (20 bp):
ATTCTTCAATGCATCGATAC
Found at i:54314 original size:20 final size:21
Alignment explanation
Indices: 54277--54315 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
54267 GGCCTTTGAC
**
54277 CATGCATTTTTTTTTATGTTT
1 CATGCATTTTTTAATATGTTT
54298 CATGCA-TTTTTAATATGT
1 CATGCATTTTTTAATATGT
54316 CCAGCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (21 bp):
CATGCATTTTTTAATATGTTT
Found at i:59754 original size:15 final size:15
Alignment explanation
Indices: 59722--59785 Score: 60
Period size: 13 Copynumber: 4.1 Consensus size: 15
59712 ATGCTAAACA
*
59722 TATTATAATGATCAAT
1 TATTATAAT-AACAAT
*
59738 TATTAAAATAACAAT
1 TATTATAATAACAAT
59753 TACCTTTATAATAAC-A-
1 TA---TTATAATAACAAT
59769 TATTATAATAACAAT
1 TATTATAATAACAAT
59784 TA
1 TA
59786 CATGTTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
13 10 0.25
14 1 0.03
15 9 0.22
16 10 0.25
17 1 0.03
18 9 0.22
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (15 bp):
TATTATAATAACAAT
Found at i:61278 original size:25 final size:24
Alignment explanation
Indices: 61237--61287 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
61227 AAATAATTGT
61237 TTAATTAATAAAAATTTATAAATA
1 TTAATTAATAAAAATTTATAAATA
* *
61261 TTAATATAA-AAAATATTTTTTAATA
1 TTAAT-TAATAAAA-ATTTATAAATA
61286 TT
1 TT
61288 TGAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTAATTAATAAAAATTTATAAATA
Found at i:61480 original size:39 final size:37
Alignment explanation
Indices: 61426--61507 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 37
61416 TGTTTTATAA
61426 ATTATTTAAAATTTATTTATTATTTGATTA-AATATAATT
1 ATTATTTAAAATTTA-TTA--ATTTGATTATAATATAATT
* * *
61465 ATTATTTATATTTTATTAATTTGTTTATAATATAATT
1 ATTATTTAAAATTTATTAATTTGATTATAATATAATT
61502 ACTTAT
1 A-TTAT
61508 ATTTTTGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
36 8 0.21
37 10 0.26
38 7 0.18
39 13 0.34
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (37 bp):
ATTATTTAAAATTTATTAATTTGATTATAATATAATT
Found at i:61533 original size:15 final size:16
Alignment explanation
Indices: 61500--61533 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
61490 TATAATATAA
*
61500 TTACTTATATTTTTGT
1 TTACTTATATTTATGT
61516 TTACTTAT-TTTATGT
1 TTACTTATATTTATGT
61531 TTA
1 TTA
61534 ATAAGAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
TTACTTATATTTATGT
Found at i:63584 original size:3 final size:3
Alignment explanation
Indices: 63578--63607 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
63568 AATAATATAA
*
63578 ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63608 TGAGGAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:63841 original size:3 final size:3
Alignment explanation
Indices: 63835--63867 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
63825 AATAATAATA
63835 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63868 TTTAATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:64438 original size:32 final size:34
Alignment explanation
Indices: 64380--64462 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 34
64370 AAAATAAATG
64380 TAATATAAATATTTAATATGTCAAAA-TTTA-TA
1 TAATATAAATATTTAATATGTCAAAATTTTACTA
*
64412 TAATATAAATTATTATTATAT-T-AAAATTTTACTA
1 TAATATAAA-TATT-TAATATGTCAAAATTTTACTA
64446 TAA-ATATAATATGTTAA
1 TAATATA-AATAT-TTAA
64463 ATATAATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
32 13 0.30
33 17 0.40
34 13 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (34 bp):
TAATATAAATATTTAATATGTCAAAATTTTACTA
Found at i:64467 original size:20 final size:20
Alignment explanation
Indices: 64444--64493 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
64434 AAAATTTTAC
**
64444 TATAAATATAATATGTTAAA
1 TATAAATATAATATAATAAA
*
64464 TATAATTATAATATAATAAA
1 TATAAATATAATATAATAAA
*
64484 AATAAATATA
1 TATAAATATA
64494 TAAATTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TATAAATATAATATAATAAA
Found at i:65077 original size:25 final size:24
Alignment explanation
Indices: 65049--65107 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
65039 GCTTGATCTA
* *
65049 ATTAATTTTGTA-TTATTTAGTATAT
1 ATTAATTTTATACTTATATA-TAT-T
65074 ATTAATTTTATACTTATATATATT
1 ATTAATTTTATACTTATATATATT
65098 ATGTAATTTT
1 AT-TAATTTT
65108 TATCATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 3 0.10
25 21 0.70
26 6 0.20
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (24 bp):
ATTAATTTTATACTTATATATATT
Found at i:67402 original size:25 final size:25
Alignment explanation
Indices: 67350--67408 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
67340 TTTTTATTAA
* *
67350 ATTTATTATATTCTTATTAATTTTT
1 ATTTATTATAATCTTAATAATTTTT
*
67375 ATTTATTATAATGTTAAT-A-TTTT
1 ATTTATTATAATCTTAATAATTTTT
67398 ATATTATTATA
1 AT-TTATTATA
67409 GTTATTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.20
24 9 0.30
25 15 0.50
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
ATTTATTATAATCTTAATAATTTTT
Found at i:67437 original size:24 final size:24
Alignment explanation
Indices: 67378--67443 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
67368 AATTTTTATT
* *
67378 TATTA-TAATGTTAATATT-TT-A
1 TATTATTAAAGTTATTATTATTCA
* *
67399 TATTATTATAGTTATTTTTATTCA
1 TATTATTAAAGTTATTATTATTCA
*
67423 TATTATTAAATTTATTATTAT
1 TATTATTAAAGTTATTATTAT
67444 ATATTTTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 5 0.14
22 9 0.26
23 2 0.06
24 19 0.54
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (24 bp):
TATTATTAAAGTTATTATTATTCA
Found at i:69060 original size:20 final size:21
Alignment explanation
Indices: 69018--69063 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
69008 TTCTACGATT
* *
69018 TGTATCGATACAATTAGTGAA
1 TGTATCGATACAATAAATGAA
69039 TGTATCGATAC-ATAAATGAA
1 TGTATCGATACAATAAATGAA
69059 TGTAT
1 TGTAT
69064 TGATGCATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (21 bp):
TGTATCGATACAATAAATGAA
Found at i:72845 original size:24 final size:24
Alignment explanation
Indices: 72818--72900 Score: 94
Period size: 24 Copynumber: 3.3 Consensus size: 24
72808 ATAAATTTAA
* *
72818 GTTACAAAATATACAGAAATAATT
1 GTTATAAAATATAAAGAAATAATT
**
72842 GTTATAGTATATAAAGAAAAAATAATT
1 GTTATAAAATATAAAG---AAATAATT
*
72869 GTTATAAAATATAAAGAAAAAATT
1 GTTATAAAATATAAAGAAATAATT
72893 GTTATAAA
1 GTTATAAA
72901 GAGATTAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 27 0.55
27 22 0.45
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (24 bp):
GTTATAAAATATAAAGAAATAATT
Found at i:72864 original size:27 final size:27
Alignment explanation
Indices: 72834--72891 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
72824 AAATATACAG
**
72834 AAATAATTGTTATAGTATATAAAGAAA
1 AAATAATTGTTATAAAATATAAAGAAA
72861 AAATAATTGTTATAAAATATAAAGAAA
1 AAATAATTGTTATAAAATATAAAGAAA
72888 AAAT
1 AAAT
72892 TGTTATAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATAATTGTTATAAAATATAAAGAAA
Found at i:76797 original size:18 final size:18
Alignment explanation
Indices: 76761--76796 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
76751 TATATACAGA
*
76761 TATATGAGTTGGTTCTTT
1 TATATGAGTTGCTTCTTT
76779 TATATGAGTTGCTT-TTT
1 TATATGAGTTGCTTCTTT
76796 T
1 T
76797 TTTTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.17, C:0.06, G:0.19, T:0.58
Consensus pattern (18 bp):
TATATGAGTTGCTTCTTT
Found at i:84310 original size:25 final size:25
Alignment explanation
Indices: 84282--84342 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
84272 GAAATAGAAC
84282 CGATAAACAAAAATACCTATAAGAT
1 CGATAAACAAAAATACCTATAAGAT
84307 CGATAAACAAAAATACCTATAAGAT
1 CGATAAACAAAAATACCTATAAGAT
*
84332 CAATAAACAAA
1 CGATAAACAAA
84343 GATCCAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.59, C:0.16, G:0.07, T:0.18
Consensus pattern (25 bp):
CGATAAACAAAAATACCTATAAGAT
Found at i:85927 original size:15 final size:15
Alignment explanation
Indices: 85871--85929 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 15
85861 AAGAATGGAG
*
85871 AGAAAGAGAAAAGAG
1 AGAAAGAGAAAAGAA
* * *
85886 AGAGAGCGAAAAAAA
1 AGAAAGAGAAAAGAA
*
85901 AG-AAGA-AAAGGAA
1 AGAAAGAGAAAAGAA
*
85914 AGAAAGAGAAAGGAA
1 AGAAAGAGAAAAGAA
85929 A
1 A
85930 AAGGAGGGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 7 0.21
14 6 0.18
15 21 0.62
ACGTcount: A:0.68, C:0.02, G:0.31, T:0.00
Consensus pattern (15 bp):
AGAAAGAGAAAAGAA
Found at i:86022 original size:17 final size:17
Alignment explanation
Indices: 86000--86055 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 17
85990 ATATTTAAAA
86000 TATTATATAAAATTTAT
1 TATTATATAAAATTTAT
*
86017 TATTATA-AAATTTTA-
1 TATTATATAAAATTTAT
86032 TA-TAT-TAATAATTTAT
1 TATTATATAA-AATTTAT
86048 T-TTATATA
1 TATTATATA
86056 TCTATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 5 0.16
15 7 0.22
16 11 0.34
17 9 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATATAAAATTTAT
Found at i:86025 original size:15 final size:15
Alignment explanation
Indices: 86000--86053 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
85990 ATATTTAAAA
86000 TATTA-TATAAAATT
1 TATTATTATAAAATT
86014 TATTATTATAAAATTT
1 TATTATTATAAAA-TT
*
86030 TATATATTA-ATAATT
1 TAT-TATTATAAAATT
86045 TATT-TTATA
1 TATTATTATA
86054 TATCTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 3 0.09
14 7 0.20
15 12 0.34
16 8 0.23
17 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTATTATAAAATT
Found at i:86409 original size:64 final size:68
Alignment explanation
Indices: 86340--86505 Score: 214
Period size: 71 Copynumber: 2.4 Consensus size: 68
86330 TTTTTTACAT
* *
86340 TAATTATT-TTTCATA-TT-ATATTGTG-TCGTAGCTCACTTAATCTTATATTTTTTATAATTTA
1 TAATTATTATTTCATATTTAATAGTGTGATCGTAGCTCACTTAATCTTATATATTTTATAATTTA
86401 TCA
66 TCA
*
86404 TAATTAATTATTTTATATTTCAAATAGTGTGATCGTAGCTCACTTAATCTTATATATTTTATAAT
1 TAATT-ATTATTTCATATTT--AATAGTGTGATCGTAGCTCACTTAATCTTATATATTTTATAAT
86469 TTATCA
63 TTATCA
*
86475 TAATTAATTATTTTATATTTCAAATAGTGTG
1 TAATT-ATTATTTCATATTT--AATAGTGTG
86506 TTTAATATTG
Statistics
Matches: 92, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
64 5 0.05
65 3 0.03
66 6 0.07
67 2 0.02
70 7 0.08
71 69 0.75
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (68 bp):
TAATTATTATTTCATATTTAATAGTGTGATCGTAGCTCACTTAATCTTATATATTTTATAATTTA
TCA
Found at i:86447 original size:71 final size:70
Alignment explanation
Indices: 86361--86506 Score: 274
Period size: 71 Copynumber: 2.1 Consensus size: 70
86351 CATATTATAT
*
86361 TGTGTCGTAGCTCACTTAATCTTATATTTTTTATAATTTATCATAATTAATTATTTTATATTTCA
1 TGTGTCGTAGCTCACTTAATCTTATATATTTTATAATTTATCATAATTAATTATTTTATATTTCA
86426 AATAG
66 AATAG
86431 TGTGATCGTAGCTCACTTAATCTTATATATTTTATAATTTATCATAATTAATTATTTTATATTTC
1 TGTG-TCGTAGCTCACTTAATCTTATATATTTTATAATTTATCATAATTAATTATTTTATATTTC
86496 AAATAG
65 AAATAG
86502 TGTGT
1 TGTGT
86507 TTAATATTGT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 5 0.07
71 69 0.93
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.51
Consensus pattern (70 bp):
TGTGTCGTAGCTCACTTAATCTTATATATTTTATAATTTATCATAATTAATTATTTTATATTTCA
AATAG
Found at i:86926 original size:28 final size:28
Alignment explanation
Indices: 86873--86926 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
86863 ATTATTCTAT
* *
86873 ATTTAATTTTCATAATATTTTGAATAAA
1 ATTTAATTTTCATAATAATATGAATAAA
86901 ATTTAATTTTCATAATTAATAT-AATA
1 ATTTAATTTTCATAA-TAATATGAATA
86927 TGATAGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (28 bp):
ATTTAATTTTCATAATAATATGAATAAA
Found at i:87198 original size:2 final size:2
Alignment explanation
Indices: 87145--87180 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
87135 GAGTATATGG
* *
87145 AT AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87181 TAATTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:92883 original size:32 final size:32
Alignment explanation
Indices: 92837--92927 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 32
92827 ATTTTCATTG
*
92837 TTCATCACTATTCATGTATCGATACATCACTA
1 TTCATCACTGTTCATGTATCGATACATCACTA
* *
92869 TTCATCACTGTTCATATATCGATACATCACTG
1 TTCATCACTGTTCATGTATCGATACATCACTA
92901 TTCATCACTGTTCATGTATCGATACAT
1 TTCATCACTGTTCATGTATCGATACAT
92928 TATGAATAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (32 bp):
TTCATCACTGTTCATGTATCGATACATCACTA
Found at i:96843 original size:2 final size:2
Alignment explanation
Indices: 96836--96885 Score: 73
Period size: 2 Copynumber: 24.5 Consensus size: 2
96826 TTTTTAATTT
* *
96836 TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96878 TGA TA TA T
1 T-A TA TA T
96886 GAGTTAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98642 original size:32 final size:33
Alignment explanation
Indices: 98583--98653 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
98573 TATTATAATT
* *
98583 ATTTTTTTCATATTATAATTAATTTTTATATAA
1 ATTTTATTCATATTATAATTAATTTTTACATAA
* *
98616 ATTTTATT-ATATTAATAATTTA-TTTTACGTAA
1 ATTTTATTCATATT-ATAATTAATTTTTACATAA
98648 ATTTTA
1 ATTTTA
98654 ATTTATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (33 bp):
ATTTTATTCATATTATAATTAATTTTTACATAA
Found at i:99446 original size:32 final size:32
Alignment explanation
Indices: 99417--99494 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
99407 TTATAATAAC
*
99417 TATTAAAATTACGAGTAATTATATTTAATATT
1 TATTAAAATTACGAATAATTATATTTAATATT
* **
99449 TATTAAATTTATAAATAATTATATTTAATATT
1 TATTAAAATTACGAATAATTATATTTAATATT
*
99481 TATTAAACTTACGA
1 TATTAAAATTACGA
99495 TCAATATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (32 bp):
TATTAAAATTACGAATAATTATATTTAATATT
Found at i:99453 original size:16 final size:16
Alignment explanation
Indices: 99434--99485 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
99424 ATTACGAGTA
99434 ATTATATTTAATATTT
1 ATTATATTTAATATTT
* * *
99450 ATTAAATTT-ATAAATA
1 ATTATATTTAAT-ATTT
99466 ATTATATTTAATATTT
1 ATTATATTTAATATTT
99482 ATTA
1 ATTA
99486 AACTTACGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 2 0.07
16 24 0.86
17 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATATTTAATATTT
Found at i:99896 original size:2 final size:2
Alignment explanation
Indices: 99884--99917 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
99874 ATCCCTTGAC
*
99884 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99918 AGTATTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:109074 original size:2 final size:2
Alignment explanation
Indices: 109037--109062 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
109027 AGAATATTAC
109037 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
109063 GAATGAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109728 original size:14 final size:15
Alignment explanation
Indices: 109709--109740 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
109699 AAATAAAAAT
109709 ATATTTTTATA-TTA
1 ATATTTTTATATTTA
109723 ATATTTTTATATTTA
1 ATATTTTTATATTTA
109738 ATA
1 ATA
109741 ATTAAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTTTATATTTA
Found at i:111174 original size:39 final size:39
Alignment explanation
Indices: 111125--111202 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
111115 TAATCCAATC
111125 CTTATCATCTTAATAAAAGAAAACCCATCATCCAAACAA
1 CTTATCATCTTAATAAAAGAAAACCCATCATCCAAACAA
*
111164 CTTATTATCTTAATAAAAGAAAACCCATCATCCAAACAA
1 CTTATCATCTTAATAAAAGAAAACCCATCATCCAAACAA
111203 TTCAAAGCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (39 bp):
CTTATCATCTTAATAAAAGAAAACCCATCATCCAAACAA
Found at i:115549 original size:14 final size:14
Alignment explanation
Indices: 115530--115561 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
115520 ATGTAATAAA
115530 AAAGGAATTGATAT
1 AAAGGAATTGATAT
115544 AAAGGAATTGATAT
1 AAAGGAATTGATAT
115558 AAAG
1 AAAG
115562 CTAACTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (14 bp):
AAAGGAATTGATAT
Found at i:116683 original size:120 final size:120
Alignment explanation
Indices: 116491--116727 Score: 320
Period size: 120 Copynumber: 2.0 Consensus size: 120
116481 AATAAGCTCA
* * *
116491 AAGTTAATCTTATTTAATTAGTTTCTTCTACATCATTCAAACCAAATCTTTTACTTATCTTTAGC
1 AAGTTAATCTTATTTAATCAGTTTCATCTACATCATTCAAACCAAATCTTTTACTTATCTTTAAC
* *
116556 AAGATAGCAACTGA-A-TGCTTTTTTTTACTAATTGTTACTTTTGTGCTTTTTCACT
66 AAGATAGCAACT-ACAGTGC-TTTTTTCACCAATTGTTACTTTTGTGCTTTTTCACT
* * *
116611 AAGTTAATCTTGTTTAATCAGCTTT-ATCTATATCATTTC-AGCCAAATCTTTTACTTATCTTTA
1 AAGTTAATCTTATTTAATCAG-TTTCATCTACATCA-TTCAAACCAAATCTTTTACTTATCTTTA
* *
116674 ACAATATAGCAACTACAGTGCTTTTTTCACCAATTGTTACTTTTGTGTTTTTTC
64 ACAAGATAGCAACTACAGTGCTTTTTTCACCAATTGTTACTTTTGTGCTTTTTC
116728 TTACAAAATA
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
119 1 0.01
120 93 0.90
121 9 0.09
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.47
Consensus pattern (120 bp):
AAGTTAATCTTATTTAATCAGTTTCATCTACATCATTCAAACCAAATCTTTTACTTATCTTTAAC
AAGATAGCAACTACAGTGCTTTTTTCACCAATTGTTACTTTTGTGCTTTTTCACT
Found at i:120326 original size:13 final size:13
Alignment explanation
Indices: 120308--120335 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
120298 CATTTTTCAA
120308 TGTATCGATACAT
1 TGTATCGATACAT
120321 TGTATCGATACAT
1 TGTATCGATACAT
120334 TG
1 TG
120336 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:120345 original size:33 final size:33
Alignment explanation
Indices: 120288--120353 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
120278 GCCAAGGAAA
**
120288 TGTATCGATACATTTTTCAATGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
** *
120321 TGTATCGATACATTGATCTTTGTATTGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
120354 CTGGGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:124928 original size:14 final size:14
Alignment explanation
Indices: 124909--124940 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
124899 ATGTAATAAA
124909 AAAGGAATTGATAT
1 AAAGGAATTGATAT
124923 AAAGGAATTGATAT
1 AAAGGAATTGATAT
124937 AAAG
1 AAAG
124941 CTAACTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (14 bp):
AAAGGAATTGATAT
Found at i:125992 original size:121 final size:119
Alignment explanation
Indices: 125867--126103 Score: 321
Period size: 121 Copynumber: 2.0 Consensus size: 119
125857 AATAAGCTCA
* *
125867 AAGTTAATCTTATTTAATTAGTTTTATCTACATCATTCAAACTAAATCTTTTACTTATCTTTAGC
1 AAGTTAATCTTATTTAATAAGCTTTATCTACATCATTCAAACTAAATCTTTTACTTATCTTTA-C
* * * * *
125932 AAGATGGCAATTGCAATGCCTTTTTTTACTAATTGTTACTTTTGTGCTTTTTCACT
65 AAGATAGCAACTACAATG-CTTTTTTCACCAATTGTTACTTTTGTGCTTTTTCACT
* * * *
125988 AAGTTAATCTTATTTAATAAGCTTTATCTATATCATTCCAGCTAAATCTTTTACTTATGTTTACA
1 AAGTTAATCTTATTTAATAAGCTTTATCTACATCATTCAAACTAAATCTTTTACTTATCTTTACA
* * * *
126053 ATATAGCAACTACAGTGCTTTTTTCACCGATTGTTACTTTTGTGTTTTTTC
66 AGATAGCAACTACAATGCTTTTTTCACCAATTGTTACTTTTGTGCTTTTTC
126104 TTACAAAATA
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
119 30 0.30
120 14 0.14
121 57 0.56
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (119 bp):
AAGTTAATCTTATTTAATAAGCTTTATCTACATCATTCAAACTAAATCTTTTACTTATCTTTACA
AGATAGCAACTACAATGCTTTTTTCACCAATTGTTACTTTTGTGCTTTTTCACT
Found at i:132565 original size:15 final size:15
Alignment explanation
Indices: 132545--132587 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
132535 ACTTCAACTC
132545 ATATTATTTTTATTT
1 ATATTATTTTTATTT
132560 ATATTATTTTTTATTT
1 ATATTA-TTTTTATTT
132576 -TATTATTGTTTA
1 ATATTATT-TTTA
132588 AAAATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.08
15 15 0.58
16 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
ATATTATTTTTATTT
Found at i:133294 original size:25 final size:23
Alignment explanation
Indices: 133265--133331 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
133255 TTGTATCGTA
*
133265 AATAATAATTTAATTATGTAAATTAT
1 AATAATAATTAAATTA---AAATTAT
*
133291 -ATAAAAATTAAATTAAAATTAT
1 AATAATAATTAAATTAAAATTAT
*
133313 AATAATAA-TAAAATAAAAT
1 AATAATAATTAAATTAAAAT
133332 AAAAAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 17 0.47
23 6 0.17
25 13 0.36
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (23 bp):
AATAATAATTAAATTAAAATTAT
Found at i:133794 original size:5 final size:5
Alignment explanation
Indices: 133786--133847 Score: 51
Period size: 5 Copynumber: 12.6 Consensus size: 5
133776 AAATAATTTT
* *
133786 TAATA TAATA T--TA TTATA TAATA TAAATA TAATA TAAAAA TAAT- TAA-A
1 TAATA TAATA TAATA TAATA TAATA T-AATA TAATA T-AATA TAATA TAATA
133834 TAAATA TAATA TAA
1 T-AATA TAATA TAA
133848 ATATGTAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
3 3 0.06
4 4 0.09
5 29 0.62
6 11 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:133815 original size:11 final size:11
Alignment explanation
Indices: 133787--133851 Score: 67
Period size: 11 Copynumber: 5.5 Consensus size: 11
133777 AATAATTTTT
133787 AATATAATATTA
1 AATATAATA-TA
*
133799 TTATATAATATA
1 -AATATAATATA
133811 AATATAATATA
1 AATATAATATA
*
133822 AAAATAATTAAATA
1 AATATAA-T--ATA
133836 AATATAATATA
1 AATATAATATA
133847 AATAT
1 AATAT
133852 GTAAATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 24 0.53
12 3 0.07
13 9 0.20
14 9 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATAATATA
Found at i:133858 original size:8 final size:8
Alignment explanation
Indices: 133800--133900 Score: 53
Period size: 8 Copynumber: 11.9 Consensus size: 8
133790 ATAATATTAT
133800 TATATAATA
1 TATATAA-A
*
133809 TAAATATAA
1 TATATA-AA
*
133818 TATAAAAA
1 TATATAAA
133826 TA-ATTAAA
1 TATA-TAAA
* *
133834 TAAATATA
1 TATATAAA
133842 -ATATAAA
1 TATATAAA
*
133849 TATGTAAA
1 TATATAAA
133857 TATATAAA
1 TATATAAA
* *
133865 AATTATTAA
1 TA-TATAAA
133874 TATATTAAAA
1 TATA-T-AAA
133884 TTTATATAAA
1 --TATATAAA
133894 TATATAA
1 TATATAA
133901 TTTTTAAGCA
Statistics
Matches: 70, Mismatches: 13, Indels: 19
0.69 0.13 0.19
Matches are distributed among these distances:
7 6 0.09
8 35 0.50
9 18 0.26
10 6 0.09
11 1 0.01
12 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (8 bp):
TATATAAA
Found at i:133877 original size:17 final size:19
Alignment explanation
Indices: 133812--133900 Score: 78
Period size: 19 Copynumber: 4.7 Consensus size: 19
133802 TATAATATAA
*
133812 ATAT-AATATAAAAATAATT
1 ATATAAATATATAAA-AATT
* *
133831 AAATAAATATAATATAAA-T
1 ATATAAATAT-ATAAAAATT
*
133850 ATGTAAATATATAAAAATT
1 ATATAAATATATAAAAATT
*
133869 AT-T-AATATATTAAAATTT
1 ATATAAATATA-TAAAAATT
133887 ATATAAATATATAA
1 ATATAAATATATAA
133901 TTTTTAAGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
17 6 0.11
18 16 0.28
19 19 0.33
20 13 0.23
21 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (19 bp):
ATATAAATATATAAAAATT
Found at i:133901 original size:27 final size:28
Alignment explanation
Indices: 133833--133901 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 28
133823 AAATAATTAA
* *
133833 ATAAATATAATATAA-ATATGTAAATAT
1 ATAAAAATTATATAATATATGTAAATAT
*
133860 ATAAAAATTAT-TAATATAT-TAAAATTT
1 ATAAAAATTATATAATATATGT-AAATAT
*
133887 ATATAAA-TATATAAT
1 ATAAAAATTATATAAT
133902 TTTTAAGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 7 0.20
27 28 0.80
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (28 bp):
ATAAAAATTATATAATATATGTAAATAT
Found at i:134403 original size:20 final size:21
Alignment explanation
Indices: 134378--134429 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 21
134368 TGTTATTTTT
134378 TATTATAATTATATT-TAAAA
1 TATTATAATTATATTATAAAA
134398 TATTAT-ATT-TATTATAAAA
1 TATTATAATTATATTATAAAA
134417 -ATT-TAA-TATATTA
1 TATTATAATTATATTA
134430 ATAATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 2 0.07
18 13 0.45
19 8 0.28
20 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTATAATTATATTATAAAA
Found at i:134408 original size:29 final size:28
Alignment explanation
Indices: 134376--134486 Score: 91
Period size: 29 Copynumber: 3.8 Consensus size: 28
134366 TATGTTATTT
134376 TTTATTATAATTATATTTAAAATATTATA
1 TTTATTATAA-TATATTTAAAATATTATA
* *
134405 TTTATTATAA-AAATTTAATATATTAATAA
1 TTTATTATAATATATTTAAAATATT-AT-A
* * *
134434 TTTATTTTAATATATTT-ATATATAAATA
1 TTTATTATAATATATTTAAAATAT-TATA
*
134462 TTTTATTTTTAATTATATTTAAAAT
1 -TTTA-TTATAA-TATATTTAAAAT
134487 TATTTAATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
27 12 0.18
28 3 0.04
29 32 0.47
30 11 0.16
31 7 0.10
32 3 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATATATTTAAAATATTATA
Found at i:134437 original size:43 final size:45
Alignment explanation
Indices: 134379--134486 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 45
134369 GTTATTTTTT
*
134379 ATTA-TAATTATATTTAAAATATTATATTTAT-TATAAAAATTTA
1 ATTATTAATTATATTTAAAATAATATATTTATATATAAAAATTTA
*** * *
134422 ATATATTAA-TA-ATTTATTTTAATATATTTATATATAAATATTTT
1 AT-TATTAATTATATTTAAAATAATATATTTATATATAAAAATTTA
*
134466 ATTTTTAATTATATTTAAAAT
1 ATTATTAATTATATTTAAAAT
134487 TATTTAATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
43 23 0.46
44 18 0.36
45 9 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (45 bp):
ATTATTAATTATATTTAAAATAATATATTTATATATAAAAATTTA
Found at i:135082 original size:15 final size:16
Alignment explanation
Indices: 135057--135087 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
135047 TTTTTAATTA
135057 TTTTAAAAAAATATTG
1 TTTTAAAAAAATATTG
135073 TTTT-AAAAAATATTG
1 TTTTAAAAAAATATTG
135088 ATATCTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTTAAAAAAATATTG
Found at i:135150 original size:22 final size:21
Alignment explanation
Indices: 135108--135151 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
135098 TTAAAAAGAT
*
135108 AGTTTTTTTTTTAAAGTAAAA
1 AGTTTATTTTTTAAAGTAAAA
*
135129 AGTTTATTTTTTAAAGTGAAA
1 AGTTTATTTTTTAAAGTAAAA
135150 AG
1 AG
135152 GTGATACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.48
Consensus pattern (21 bp):
AGTTTATTTTTTAAAGTAAAA
Found at i:135643 original size:4 final size:4
Alignment explanation
Indices: 135636--135668 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
135626 TAGATAGCTG
135636 AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA A
135669 TTATCATCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:136339 original size:2 final size:2
Alignment explanation
Indices: 136334--136374 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
136324 TTTCTAAGGA
* *
136334 TC TC TC GC TC TC TC TC TC TC TC TC TC TC TC TC TC TG TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
136375 TTTAATGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.46, G:0.05, T:0.49
Consensus pattern (2 bp):
TC
Found at i:143650 original size:3 final size:3
Alignment explanation
Indices: 143642--143669 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
143632 ATACCCAAGC
143642 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
143670 ACCGTGTTTA
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:143880 original size:3 final size:3
Alignment explanation
Indices: 143874--143929 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
143864 TTCTTTGTTA
* *
143874 TAT TAT TAT CAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
143922 TAT TAT TA
1 TAT TAT TA
143930 CTTGAACTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:153080 original size:21 final size:22
Alignment explanation
Indices: 153038--153089 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
153028 ATCAATTCAA
*
153038 AAAAAGAAAGTTGGCAAAAAAAT
1 AAAAA-AAAGTTGACAAAAAAAT
153061 AAAAAAAAGTTGAC-AAAAAAT
1 AAAAAAAAGTTGACAAAAAAAT
153082 AAAAAAAA
1 AAAAAAAA
153090 AGGTTGGACG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 15 0.54
22 8 0.29
23 5 0.18
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.12
Consensus pattern (22 bp):
AAAAAAAAGTTGACAAAAAAAT
Found at i:153090 original size:22 final size:21
Alignment explanation
Indices: 153036--153091 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
153026 TTATCAATTC
* *
153036 AAAAAAAGAAAGTTGGCAAAA
1 AAAAAAAAAAAGTTGACAAAA
153057 AAATAAAAAAAAGTTGACAAAA
1 AAA-AAAAAAAAGTTGACAAAA
153079 AATAAAAAAAAAG
1 AA-AAAAAAAAAG
153092 GTTGGACGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 3 0.10
22 27 0.87
23 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.11
Consensus pattern (21 bp):
AAAAAAAAAAAGTTGACAAAA
Found at i:155948 original size:166 final size:163
Alignment explanation
Indices: 155724--156176 Score: 441
Period size: 166 Copynumber: 2.8 Consensus size: 163
155714 AAAATTATTT
* * **
155724 AAATATTATTATTTAACTAAAATTAAATTAGTTTTTCAAAATCCCTTTTATTTCATGAGTTTTTC
1 AAATATTATTATTTAACTTAAATTAAATTAG-TTTTAAAAATTTCTTTTATTTCATGAGTTTTTC
* * * *
155789 A-TTTTTCTTTTA-AATTCTTCCTATTTTCGAAATACAAAATTTTCTT-CAT-TGTAAATTTTTG
65 ATTTTTTC-CTTACAATT-TTCCTATTTTCGAAATACAAAATTTT-TTAC-TCCGTAAATGTTTA
* *
155850 TGGGAGGATTTTCATGGGTTCATAATTTTTAATATTCATC
126 CGGGAGGATTTT--TGGGTTCATAATTTTTAAAATTCATC
* * *
155890 AAATATTATTATTTAACTTATATTAAATTAGTTTTGAAAATTTCTTTTATTTTCATGAGTTTATC
1 AAATATTATTATTTAACTTAAATTAAATTAGTTTTAAAAATTTCTTTTA-TTTCATGAGTTTTTC
* ** * *
155955 GTTTTTTCCTTACAATTTTTTTATTTTTGAAATACGAAATTTTTTACTCCGTAAATGTTTACGGG
65 ATTTTTTCCTTACAATTTTCCTATTTTCGAAATACAAAATTTTTTACTCCGTAAATGTTTACGGG
* ** *
156020 GGGATTTTTTTGTTTATAATTTTTAAAATTCATC
130 AGGATTTTTGGGTTCATAATTTTTAAAATTCATC
* * * * *
156054 AAATATCATCATCTAA-TTCACATTAAATTAATTTTAAAAATTTCTTTTATTTCATGAGTTTTT-
1 AAATATTATTATTTAACTT-AAATTAAATTAGTTTTAAAAATTTCTTTTATTTCATGAGTTTTTC
* * ** * * ** * * *
156117 ATTTTTTCCTGAAAATTTTTTTGTTTCCGAAATATGAAATTTTCTATTCTGTAAATGTTT
65 ATTTTTTCCTTACAATTTTCCTATTTTCGAAATACAAAATTTTTTACTCCGTAAATGTTT
156177 TAAAAGGGAT
Statistics
Matches: 243, Mismatches: 38, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
162 50 0.21
163 15 0.06
164 62 0.26
165 18 0.07
166 88 0.36
167 10 0.04
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (163 bp):
AAATATTATTATTTAACTTAAATTAAATTAGTTTTAAAAATTTCTTTTATTTCATGAGTTTTTCA
TTTTTTCCTTACAATTTTCCTATTTTCGAAATACAAAATTTTTTACTCCGTAAATGTTTACGGGA
GGATTTTTGGGTTCATAATTTTTAAAATTCATC
Found at i:156096 original size:164 final size:164
Alignment explanation
Indices: 155871--156222 Score: 433
Period size: 164 Copynumber: 2.1 Consensus size: 164
155861 TCATGGGTTC
* * * * * * *
155871 ATAATTTTTAATATTCATCAAATATTATTATTTAACTTATATTAAATTAGTTTTGAAAATTTCTT
1 ATAATTTTTAAAATTCATCAAATATCATCATCTAACTTACATTAAATTAATTTTAAAAATTTCTT
* * * ** *
155936 TTATTTTCATGAGTTTATCGTTTTTTCCTTACAATTTTTTTATTTTTGAAATACGAAATTTTTTA
66 TTA-TTTCATGAGTTT-TCATTTTTTCCTGAAAATTTTTTTATTTCCGAAATACGAAATTTTCTA
***
156001 CTCCGTAAATG-TTTACGGGGGGATTTTT-TTG-TTT
129 CTCCGTAAATGTTTTA-AAAGGGATTTTTCTTGATTT
156035 ATAATTTTTAAAATTCATCAAATATCATCATCTAA-TTCACATTAAATTAATTTTAAAAATTTCT
1 ATAATTTTTAAAATTCATCAAATATCATCATCTAACTT-ACATTAAATTAATTTTAAAAATTTCT
* * * *
156099 TTTATTTCATGAGTTTTTATTTTTTCCTGAAAATTTTTTTGTTTCCGAAATATGAAATTTTCTAT
65 TTTATTTCATGAGTTTTCATTTTTTCCTGAAAATTTTTTTATTTCCGAAATACGAAATTTTCTAC
*
156164 TCTGTAAATGTTTTAAAAGGGATTTTTCTTGATTT
130 TCCGTAAATGTTTTAAAAGGGATTTTTCTTGATTT
* *
156199 AAAATTTTTGAAATTCATCAAATA
1 ATAATTTTTAAAATTCATCAAATA
156223 CTGGTATTAA
Statistics
Matches: 161, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
162 57 0.35
163 21 0.13
164 83 0.52
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.51
Consensus pattern (164 bp):
ATAATTTTTAAAATTCATCAAATATCATCATCTAACTTACATTAAATTAATTTTAAAAATTTCTT
TTATTTCATGAGTTTTCATTTTTTCCTGAAAATTTTTTTATTTCCGAAATACGAAATTTTCTACT
CCGTAAATGTTTTAAAAGGGATTTTTCTTGATTT
Found at i:157195 original size:166 final size:162
Alignment explanation
Indices: 156910--157336 Score: 427
Period size: 166 Copynumber: 2.6 Consensus size: 162
156900 AAAATTATTT
*
156910 AAATATTATTATTTAAC-TACAATTAAATTAGTTTTTCAAAATTCCTTTTA-TTTCATGAGTTTT
1 AAATATTATTATTTAACTTA-AATTAAATTAG-TTTT-AAAATTTCTTTTATTTTCATGAGTTTT
* * * **
156973 T-TATTTTTCTTTTAAATTCTTCCTATTTTCGAAATACAAAATTCATTTCATCGTAAATTTTTGT
63 TAT-TTTTTC-CTTAAATTCTTCCTATTTTCGAAATACAAAATTCATTACATCGTAAATGTTTAC
*
157037 AGGAGGATTTTCATCGGATCAA-AATTTTTAATATTCATC
126 AGGAGGATTTT--TCGG-TCAATAATTTTTAAAATTCATC
*
157076 AAATATTATTATTTAACTTATATTAAATTAGTTTTAAAATTTTCTTTTATTTTCATGAGTTTTTC
1 AAATATTATTATTTAACTTAAATTAAATTAGTTTTAAAA-TTTCTTTTATTTTCATGAGTTTTT-
* ** * * * * * *
157141 ATTTTTTCCTTAAATTTTTTTTATTTTCGAAATGCGAAGTTTATTACTTCGTAAATGTTTACGGG
64 ATTTTTTCCTTAAATTCTTCCTATTTTCGAAATACAAAATTCATTACATCGTAAATGTTTACAGG
* ** *
157206 GGGATTTTTTTGTTAATAATTTTTAAAATTCATC
129 AGGATTTTTCGGTCAATAATTTTTAAAATTCATC
* * * * * *
157240 AGATATCATCATCTAA-TTAACATTAAATCAGTTTTAAAAGTTCTTTTTATTTT-ATGAGTTTTT
1 AAATATTATTATTTAACTTAA-ATTAAATTAGTTTTAAAATTTC-TTTTATTTTCATGAGTTTTT
* *
157303 ATTTTTTCCTTAAAATT-TCCCTGTTTTCGAAATA
64 ATTTTTTCCTT-AAATTCTTCCTATTTTCGAAATA
157337 TGAACTTTTC
Statistics
Matches: 219, Mismatches: 33, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
162 23 0.11
163 24 0.11
164 60 0.27
165 12 0.05
166 91 0.42
167 8 0.04
168 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (162 bp):
AAATATTATTATTTAACTTAAATTAAATTAGTTTTAAAATTTCTTTTATTTTCATGAGTTTTTAT
TTTTTCCTTAAATTCTTCCTATTTTCGAAATACAAAATTCATTACATCGTAAATGTTTACAGGAG
GATTTTTCGGTCAATAATTTTTAAAATTCATC
Found at i:157431 original size:164 final size:161
Alignment explanation
Indices: 157057--157431 Score: 359
Period size: 164 Copynumber: 2.3 Consensus size: 161
157047 TCATCGGATC
* * *
157057 AAAATTTTTAATATTCATCAAATATTATTATTTAACTTATATTAAATTAGTTTTAAAATTTTCTT
1 AAAATTTTTAA-ATTCATCAAATATTATTA-TTAAATTATATTAAATCAGTTTTAAAATTCTCTT
* *** * *
157122 TTATTTTCATGAGTTTTTCATTTTTTCCTTAAATTTTTTTTATTTTCGAAATGCGAAGTTTATTA
64 TTATTTTCATGAGTTTTTCATTTTTTCCTTAAAATTTCCCTATTTTCGAAATACGAACTTTATTA
* *** **
157187 CTTCGTAAATGTTTACGGGGGGATTTTTTTGTT
129 CTTCATAAATGTTTACAAAGCCATTTTTTTGTT
* * * *
157220 AATAATTTTTAAAATTCATCAGATATCATCATCT-AATTAACATTAAATCAGTTTTAAAAGTTCT
1 AA-AATTTTT-AAATTCATCAAATATTATTAT-TAAATT-ATATTAAATCAGTTTTAAAA-TTCT
* *
157284 -TTTTATTTT-ATGAGTTTTT-ATTTTTTCCTTAAAATTTCCCTGTTTTCGAAATATGAACTTT-
61 CTTTTATTTTCATGAGTTTTTCATTTTTTCCTTAAAATTTCCCTATTTTCGAAATACGAACTTTA
*
157345 TCTAC-TCTATAAATGTTTTA-AAATCCATTTTTCTTGAATT
126 T-TACTTC-ATAAATG-TTTACAAAGCCATTTTT-TTG--TT
*
157385 AAAATTTTTGAAATTCATCAAATATTGTTATTAAATTCATATTAAAT
1 AAAATTTTT-AAATTCATCAAATATTATTATTAAATT-ATATTAAAT
157432 TCGTTTTGCA
Statistics
Matches: 171, Mismatches: 29, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
161 3 0.02
162 49 0.29
163 24 0.14
164 86 0.50
165 9 0.05
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (161 bp):
AAAATTTTTAAATTCATCAAATATTATTATTAAATTATATTAAATCAGTTTTAAAATTCTCTTTT
ATTTTCATGAGTTTTTCATTTTTTCCTTAAAATTTCCCTATTTTCGAAATACGAACTTTATTACT
TCATAAATGTTTACAAAGCCATTTTTTTGTT
Found at i:158088 original size:21 final size:21
Alignment explanation
Indices: 158064--158103 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
158054 GTGATATTTA
158064 TCATGTCATATCTT-TGTTGAT
1 TCATGTCATAT-TTATGTTGAT
*
158085 TCATGTTATATTTATGTTG
1 TCATGTCATATTTATGTTG
158104 TTTTATGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (21 bp):
TCATGTCATATTTATGTTGAT
Found at i:159051 original size:148 final size:149
Alignment explanation
Indices: 158684--159054 Score: 385
Period size: 148 Copynumber: 2.5 Consensus size: 149
158674 CTTTTACATT
* * * * *
158684 GAAGGTATATTCC-TAAGAGCATTTTCATAATTTTTCTAGAATCGAGTCCTAATTTATCATCGGG
1 GAAGGTATA-CCCATAAGGGCATTTTCATAATTTTTCTAGAATCGAGTCATAATTTGTCACCGGG
* * * * * *
158748 TC-ACTTCTATGTCGAGGGTACCTATTAGGTGTAGGTTCACTTTTCCTTTTTCAGTCTTTTAGGG
65 TCTACTTTTATGTCGAAGGTACATATTAGGCGTAGGTTCACTTTTCCTTTTTAAGTCTTTTAAGG
* * *
158812 TTACCAAGATACTTTTTATC
130 TTACCAAGACACTTATAATC
* * * * *
158832 GAAGGTATACCCATAGGGGCATTTTCATAATTTTTCTAGAACCGAGTCATAATTTGTCTCTGAGT
1 GAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTAGAATCGAGTCATAATTTGTCACCGGGT
* **
158897 -TGCTTTTATGTCGAAGGTACATATTAGGCGTAGGTTTGCTTTTCCTTTTTAAGTCTTTTATAGG
66 CTACTTTTATGTCGAAGGTACATATTAGGCGTAGGTTCACTTTTCCTTTTTAAGTCTTTTA-AGG
* *
158961 -TATCGAG-CACTTATAAGTC
130 TTACCAAGACACTTATAA-TC
* * * * * * **
158980 TAAGGTAT-CCCTTAAGGGTATTTTCATAATTTTTTTAAAATCGAGTCTTAGGTTGTCACCGGGT
1 GAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTAGAATCGAGTCATAATTTGTCACCGGGT
159044 CTACTTTTATG
66 CTACTTTTATG
159055 CTGAATGTAG
Statistics
Matches: 180, Mismatches: 38, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
147 52 0.29
148 126 0.70
149 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (149 bp):
GAAGGTATACCCATAAGGGCATTTTCATAATTTTTCTAGAATCGAGTCATAATTTGTCACCGGGT
CTACTTTTATGTCGAAGGTACATATTAGGCGTAGGTTCACTTTTCCTTTTTAAGTCTTTTAAGGT
TACCAAGACACTTATAATC
Found at i:165813 original size:32 final size:32
Alignment explanation
Indices: 165762--165845 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
165752 ATTAGACTTA
* *
165762 ATTT-TATTTGATTTGCTTAATAAACAG-TCTT
1 ATTTGTATTGGATTTACTTAATAAA-AGATCTT
* *
165793 ATTTGTATTGGATTTCCTTAATAAATGATCTT
1 ATTTGTATTGGATTTACTTAATAAAAGATCTT
*
165825 ATTTGTCTTGGATTTACTTAA
1 ATTTGTATTGGATTTACTTAA
165846 CGATGACTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 5 0.11
32 41 0.89
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (32 bp):
ATTTGTATTGGATTTACTTAATAAAAGATCTT
Found at i:169240 original size:18 final size:19
Alignment explanation
Indices: 169213--169248 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
169203 GGTTCATTTA
*
169213 ATAAGTATAA-ATATCATT
1 ATAAGAATAATATATCATT
169231 ATAAGAATAATATATCAT
1 ATAAGAATAATATATCAT
169249 CACTTTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (19 bp):
ATAAGAATAATATATCATT
Found at i:173684 original size:22 final size:22
Alignment explanation
Indices: 173658--173702 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
173648 AAAATTATAC
*
173658 TAGAGAGATTAAATTTAAATTT
1 TAGAGAGATTAAATCTAAATTT
173680 TAGAGAGATTAAATCTAAATTT
1 TAGAGAGATTAAATCTAAATTT
173702 T
1 T
173703 GGAGCTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (22 bp):
TAGAGAGATTAAATCTAAATTT
Found at i:175538 original size:2 final size:2
Alignment explanation
Indices: 175531--175578 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
175521 TTAGTGAACT
*
175531 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
175573 TA TA TA
1 TA TA TA
175579 GCGCATGTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:175777 original size:6 final size:6
Alignment explanation
Indices: 175754--175904 Score: 65
Period size: 6 Copynumber: 22.8 Consensus size: 6
175744 CATTAAAATT
* * * *
175754 TATATAA TATTAAT TATAAA TATATTAA AATTAA TATAAA TATAAA TAAAAA
1 TATA-AA TA-TAAA TATAAA TATA--AA TATAAA TATAAA TATAAA TATAAA
*
175806 TAATAAA TATAAA TAT-AT TA-AAA TTTATATAA TATAAA TTATAAACA
1 T-ATAAA TATAAA TATAAA TATAAA --TATA-AA TATAAA -TAT-AA-A
* *
175853 TATTAAA -ATTAA TATAAA TATATAA TATCTTAAA TATAAT TATAACA
1 TA-TAAA TATAAA TATAAA TATA-AA TA---TAAA TATAAA TATAA-A
175900 TATAA
1 TATAA
175905 TAAGCCGTTG
Statistics
Matches: 111, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
5 7 0.06
6 52 0.47
7 29 0.26
8 13 0.12
9 8 0.07
10 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (6 bp):
TATAAA
Found at i:175807 original size:32 final size:32
Alignment explanation
Indices: 175740--175807 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
175730 TAAAAATATG
* * *
175740 AATACATTAAAATTTATATAATATTAATTATA
1 AATACATTAAAATTAATATAATATTAAATAAA
*
175772 AATATATTAAAATTAATATAA-ATATAAATAAA
1 AATACATTAAAATTAATATAATAT-TAAATAAA
175804 AATA
1 AATA
175808 ATAAATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 2 0.06
32 29 0.94
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (32 bp):
AATACATTAAAATTAATATAATATTAAATAAA
Found at i:175818 original size:25 final size:26
Alignment explanation
Indices: 175720--175850 Score: 83
Period size: 25 Copynumber: 5.0 Consensus size: 26
175710 TATAATACCG
* * *
175720 ATAAAAATAATAAAAATATGAATA-CA
1 ATAAAAATAAT-ATAATATAAATATAA
* * * *
175746 TTAAAATTTATATAATATTAATTATAA
1 ATAAAAATAATATAATA-TAAATATAA
*
175773 ATATATTAA-AAT-TAATATAAATATAA
1 ATA-A-AAATAATATAATATAAATATAA
175799 ATAAAAATAATA-AATATAAATAT-A
1 ATAAAAATAATATAATATAAATATAA
* * *
175823 TTAAAATTTATATAATATAAATTATAA
1 ATAAAAATAATATAATATAAA-TATAA
175850 A
1 A
175851 CATATTAAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
24 12 0.15
25 28 0.35
26 26 0.33
27 9 0.11
28 3 0.04
29 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.37
Consensus pattern (26 bp):
ATAAAAATAATATAATATAAATATAA
Found at i:175823 original size:45 final size:44
Alignment explanation
Indices: 175759--175844 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 44
175749 AAATTTATAT
* *
175759 AATATTAATTATAAATATATTAAAATTAATATAAATATAAATAAA
1 AATAATAAATATAAATATATTAAAATTAATAT-AATATAAATAAA
*
175804 AATAATAAATATAAATATATTAAAATTTATATAATATAAAT
1 AATAATAAATATAAATATATTAAAATTAATATAATATAAAT
175845 TATAAACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 9 0.24
45 29 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (44 bp):
AATAATAAATATAAATATATTAAAATTAATATAATATAAATAAA
Found at i:175830 original size:77 final size:79
Alignment explanation
Indices: 175720--175879 Score: 261
Period size: 77 Copynumber: 2.0 Consensus size: 79
175710 TATAATACCG
* * *
175720 ATAAAAATAATAAAAATATGAATACATTAAAATTTATATAATATTAATTATAAATATATTAAAAT
1 ATAAAAATAAT-AAAATATAAATACATTAAAATTTATATAATATAAATTATAAACATATTAAAAT
175785 TAATATAAATATA-A
65 TAATATAAATATATA
*
175799 ATAAAAATAAT-AAATATAAATATATTAAAATTTATATAATATAAATTATAAACATATTAAAATT
1 ATAAAAATAATAAAATATAAATACATTAAAATTTATATAATATAAATTATAAACATATTAAAATT
175863 AATATAAATATATA
66 AATATAAATATATA
175877 ATA
1 ATA
175880 TCTTAAATAT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
77 61 0.80
78 4 0.05
79 11 0.14
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (79 bp):
ATAAAAATAATAAAATATAAATACATTAAAATTTATATAATATAAATTATAAACATATTAAAATT
AATATAAATATATA
Found at i:175856 original size:32 final size:32
Alignment explanation
Indices: 175798--175880 Score: 105
Period size: 32 Copynumber: 2.5 Consensus size: 32
175788 TATAAATATA
* *
175798 AATAAAAATAATAAATATAAATATATTAAAATT
1 AATATAAAT-ATAAATATAAACATATTAAAATT
*
175831 TATAT-AATATAAATTATAAACATATTAAAATT
1 AATATAAATATAAA-TATAAACATATTAAAATT
175863 AATATAAATATATAATAT
1 AATATAAATATA-AATAT
175881 CTTAAATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
31 5 0.12
32 24 0.56
33 12 0.28
34 2 0.05
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (32 bp):
AATATAAATATAAATATAAACATATTAAAATT
Found at i:175885 original size:27 final size:26
Alignment explanation
Indices: 175758--175903 Score: 90
Period size: 27 Copynumber: 5.5 Consensus size: 26
175748 AAAATTTATA
*
175758 TAATATTAAT-TATAAATATATTAAAAT
1 TAATATAAATATAT-AATAT-TTAAAAT
**
175785 TAATATAAATATA-AATA-AAAATAAT
1 TAATATAAATATATAATATTTAA-AAT
* * *
175810 AAATATAAATATATTAAAATTT-ATA-
1 TAATATAAATATA-TAATATTTAAAAT
*
175835 TAATATAAAT-TATAAACATATTAAAAT
1 TAATATAAATATAT-AATAT-TTAAAAT
175862 TAATATAAATATATAATATCTT-AAAT
1 TAATATAAATATATAATAT-TTAAAAT
175888 ATAATTATAACATATA
1 -TAA-TATAA-ATATA
175904 ATAAGCCGTT
Statistics
Matches: 93, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
23 1 0.01
24 8 0.09
25 26 0.28
26 11 0.12
27 32 0.34
28 10 0.11
29 5 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TAATATAAATATATAATATTTAAAAT
Found at i:179770 original size:21 final size:21
Alignment explanation
Indices: 179746--179786 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
179736 AAATTAAAAA
179746 ATATTTTAT-ATTAATATTTAT
1 ATATTTTATAATTAA-ATTTAT
179767 ATATTTTATAATTAAATTTA
1 ATATTTTATAATTAAATTTA
179787 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTATAATTAAATTTAT
Found at i:183221 original size:17 final size:18
Alignment explanation
Indices: 183196--183230 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
183186 AAATAAATAT
183196 AAATCATATAAAAATAAA
1 AAATCATATAAAAATAAA
*
183214 AAAT-ATATAAAATTAAA
1 AAATCATATAAAAATAAA
183231 TTAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATCATATAAAAATAAA
Found at i:185266 original size:12 final size:12
Alignment explanation
Indices: 185246--185275 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
185236 CAATCTCATG
*
185246 TGACGTCAAATA
1 TGACTTCAAATA
185258 TGACTTCAAATA
1 TGACTTCAAATA
185270 TGACTT
1 TGACTT
185276 TTAGGGGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (12 bp):
TGACTTCAAATA
Found at i:186796 original size:9 final size:8
Alignment explanation
Indices: 186783--186818 Score: 54
Period size: 9 Copynumber: 4.2 Consensus size: 8
186773 TAAATTAAAT
186783 AAATATAA
1 AAATATAA
186791 ATAATATAA
1 A-AATATAA
186800 AAATATAA
1 AAATATAA
186808 AATATATAA
1 AA-ATATAA
186817 AA
1 AA
186819 TTAAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 10 0.38
9 16 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
AAATATAA
Found at i:186805 original size:17 final size:17
Alignment explanation
Indices: 186783--186818 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
186773 TAAATTAAAT
186783 AAATAT-AAATAATATAA
1 AAATATAAAAT-ATATAA
186800 AAATATAAAATATATAA
1 AAATATAAAATATATAA
186817 AA
1 AA
186819 TTAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATATAAAATATATAA
Found at i:186823 original size:15 final size:15
Alignment explanation
Indices: 186754--186823 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
186744 TTACATGAAT
186754 AAATATAAAATATAA
1 AAATATAAAATATAA
** *
186769 CGAT-TAAATTA-AA
1 AAATATAAAATATAA
186782 TAAATATAAATAATATAA
1 -AAATAT-AA-AATATAA
186800 AAATATAAAATATATA
1 AAATATAAAATATA-A
186816 AAAT-TAAA
1 AAATATAAA
186824 TTAATTTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
13 2 0.05
14 8 0.19
15 13 0.30
16 9 0.21
17 9 0.21
18 2 0.05
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (15 bp):
AAATATAAAATATAA
Found at i:187992 original size:14 final size:14
Alignment explanation
Indices: 187973--187999 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
187963 ATTTTGTTAC
187973 ATTTTTTCAATTTT
1 ATTTTTTCAATTTT
187987 ATTTTTTCAATTT
1 ATTTTTTCAATTT
188000 GTCGTGTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTTCAATTTT
Found at i:188640 original size:26 final size:25
Alignment explanation
Indices: 188602--188656 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
188592 CTTAATATTT
188602 GTTGCAAAA-TTTTATTAGTTTTTTTA
1 GTTGCAAAATTTTTA-TA-TTTTTTTA
** *
188628 GTTGCAACTTTTTTATATTTTTTTG
1 GTTGCAAAATTTTTATATTTTTTTA
188653 GTTG
1 GTTG
188657 TATATTAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 11 0.44
26 9 0.36
27 5 0.20
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (25 bp):
GTTGCAAAATTTTTATATTTTTTTA
Found at i:190245 original size:34 final size:29
Alignment explanation
Indices: 190218--190276 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 29
190208 TTTTTATCTG
190218 ATTGAATTTTGCCATAAGTTTTGATTTTTA
1 ATTGAATTTTGCCATAAGTTTT-ATTTTTA
*
190248 ATTGAATTTTGCCATTCAATTTTTATTTT
1 ATTGAATTTTGCCA-T-AAGTTTTATTTT
190277 GAATGGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.54
31 6 0.23
32 6 0.23
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (29 bp):
ATTGAATTTTGCCATAAGTTTTATTTTTA
Done.