Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 137 of 205
Found at i:41574837 original size:21 final size:19
Alignment explanation
Indices: 41574794--41574866 Score: 75
Period size: 18 Copynumber: 3.9 Consensus size: 19
41574784 ATTTGTCCTA
*
41574794 TTATTAT-TACTATTATAAC
1 TTATTATATA-TATTATATC
41574813 -TA-TATATATA-TATCATC
1 TTATTATATATATTAT-ATC
41574830 TTATTATATAT-TTATATC
1 TTATTATATATATTATATC
41574848 TTATTATATATATCTATAT
1 TTATTATATATAT-TATAT
41574867 ATCTCTTTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
16 3 0.07
17 7 0.15
18 20 0.43
19 11 0.24
20 5 0.11
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATTATATATATTATATC
Found at i:41574850 original size:18 final size:19
Alignment explanation
Indices: 41574815--41574860 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
41574805 ATTATAACTA
41574815 TATATATATATCATCTTAT
1 TATATATATATCATCTTAT
*
41574834 TATATATTTAT-ATCTTAT
1 TATATATATATCATCTTAT
41574852 TATATATAT
1 TATATATAT
41574861 CTATATATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATATATATCATCTTAT
Found at i:41575028 original size:30 final size:29
Alignment explanation
Indices: 41574994--41575050 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
41574984 TTATATATAT
*
41574994 ATATACATACTTACACTGTTTTATTTTACG
1 ATATACATACTTACA-TCTTTTATTTTACG
*
41575024 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATCTTTTATTTTA
41575051 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTACG
Found at i:41578846 original size:12 final size:11
Alignment explanation
Indices: 41578821--41578907 Score: 77
Period size: 12 Copynumber: 7.5 Consensus size: 11
41578811 AAAAATTGTT
41578821 AAAAAGAAGAAG
1 AAAAA-AAGAAG
41578833 AAAAAAAGAGAG
1 AAAAAAAGA-AG
41578845 AAAAAAAGAA-
1 AAAAAAAGAAG
* * *
41578855 AAAGAAGGAAA
1 AAAAAAAGAAG
41578866 AAGAAAAAGAAG
1 AA-AAAAAGAAG
*
41578878 AAAAAAGAAAAG
1 AAAAAA-AGAAG
*
41578890 AAAAAAGAAAAG
1 AAAAAA-AGAAG
41578902 AAAAAA
1 AAAAAA
41578908 GGAGAGGCCA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
10 8 0.12
11 11 0.17
12 46 0.71
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAG
Found at i:41578859 original size:26 final size:24
Alignment explanation
Indices: 41578821--41578906 Score: 84
Period size: 26 Copynumber: 3.5 Consensus size: 24
41578811 AAAAATTGTT
*
41578821 AAAAAGAAGAAGAAAAAAAGAGAGAA
1 AAAAAGAAAAAGAAAAAAA-AGA-AA
*
41578847 AAAAAGAAAAAGAAGGAAAAAGAAA
1 AAAAAGAAAAAGAA-AAAAAAGAAA
* *
41578872 AAGAAGAAAAAAGAAAAGAAA-AAA
1 AAAAAG-AAAAAGAAAAAAAAGAAA
*
41578896 GAAAAGAAAAA
1 AAAAAGAAAAA
41578907 AGGAGAGGCC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
25 11 0.22
26 24 0.47
27 4 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAAGAAAAAAAAGAAA
Found at i:41578868 original size:16 final size:16
Alignment explanation
Indices: 41578821--41578906 Score: 88
Period size: 16 Copynumber: 5.3 Consensus size: 16
41578811 AAAAATTGTT
*
41578821 AAAAAGAAG-AAGAA-
1 AAAAAGAAGAAAAAAG
41578835 AAAAAGAGAGAAAAAAAG
1 AAAAAGA-AG-AAAAAAG
*
41578853 AAAAAGAAGGAAAAAG
1 AAAAAGAAGAAAAAAG
41578869 AAAAAGAAGAAAAAAG
1 AAAAAGAAGAAAAAAG
*
41578885 -AAAAGAAAAAAGAAAAG
1 AAAAAG-AAGAA-AAAAG
41578902 AAAAA
1 AAAAA
41578907 AGGAGAGGCC
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
14 7 0.11
15 7 0.11
16 25 0.41
17 11 0.18
18 11 0.18
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (16 bp):
AAAAAGAAGAAAAAAG
Found at i:41578873 original size:7 final size:7
Alignment explanation
Indices: 41578846--41578908 Score: 53
Period size: 7 Copynumber: 9.0 Consensus size: 7
41578836 AAAAGAGAGA
41578846 AAAAAAG
1 AAAAAAG
41578853 AAAAAGAAG
1 -AAAA-AAG
*
41578862 GAAAAAG
1 AAAAAAG
41578869 -AAAAAG
1 AAAAAAG
41578875 AAGAAAA-
1 AA-AAAAG
41578882 AAGAAAAG
1 AA-AAAAG
41578890 AAAAAAG
1 AAAAAAG
41578897 --AAAAG
1 AAAAAAG
41578902 AAAAAAG
1 AAAAAAG
41578909 GAGAGGCCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
5 5 0.10
6 6 0.12
7 21 0.44
8 13 0.27
9 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:41578907 original size:26 final size:27
Alignment explanation
Indices: 41578821--41578907 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 27
41578811 AAAAATTGTT
41578821 AAAAAGAAGAAGAAAAAAAGAGAGAA-AAA
1 AAAAAGAAGAAG-AAAAAAGA-A-AAGAAA
*
41578850 AAGAAA-AAGAAGGAAAAAGAAAAAGAAGA
1 AA-AAAGAAGAAGAAAAAAG-AAAAGAA-A
41578879 AAAAAGAA-AAGAAAAAAGAAAAGAAA
1 AAAAAGAAGAAGAAAAAAGAAAAGAAA
41578905 AAA
1 AAA
41578908 GGAGAGGCCA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
26 4 0.08
27 9 0.18
28 21 0.41
29 14 0.27
30 3 0.06
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (27 bp):
AAAAAGAAGAAGAAAAAAGAAAAGAAA
Found at i:41580295 original size:50 final size:50
Alignment explanation
Indices: 41580222--41580994 Score: 319
Period size: 50 Copynumber: 15.5 Consensus size: 50
41580212 GAAATTCAAA
* * * *
41580222 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCCATGCAACGGAGC
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGACATGCAACGGAAC
* * * *** *
41580272 AGGTTGAAGCTACGACGGTGAATCTCACTTCCCCA--ACATTGCAATTTAAA
1 AGATTGAAGCCACAACGGTGAATCTCACTT-CCCAGGACA-TGCAACGGAAC
* * ** * * *
41580322 AGATTGAAACCACAACGGTGAATCTTACTTCCCAGGTGATGTAGCAGAAC
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGACATGCAACGGAAC
* * * * *** *
41580372 AAATTGAAGCTACGACGGTGAGTCTCACTTCCCCA--ACATTGCAATTTAAA
1 AGATTGAAGCCACAACGGTGAATCTCACTT-CCCAGGACA-TGCAACGGAAC
* * *
41580422 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGG-CGATGCAGCGAAAC
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGAC-ATGCAACGGAAC
* * * * *** *
41580472 ATATTGAAGCTACGACGGCGAATCTCACTT-CC-GTGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAG-GACA-TGCAACGGAAC
* * *
41580522 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAAG-CGATGCAGCGGAAC
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGAC-ATGCAACGGAAC
* * * *** *
41580572 AAATTGAAGCTACGACGGTGAATCTCACTT-CC-GCGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAG-GACA-TGCAACGGAAC
* * * * * *
41580622 AGATTGAAGCCACAATGGCGAATCTTACTTCCCAAG-CGATGCAGCAGAAC
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGAC-ATGCAACGGAAC
* * ** *** *
41580672 AGATTGAAGCGACGACGGCAAATCTCACTT-CC-GCGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAG-GACA-TGCAACGGAAC
** *
41580722 AGATTGAAGCCACAATAGTGAATCTTACTTCCCAGG-CGATGC-ACGGAAC
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGAC-ATGCAACGGAAC
* * ** *** *
41580771 ATATTGAAGCTACAACGGCAAATCTCACTTCCTC--GACATTGCAATTTAAA
1 AGATTGAAGCCACAACGGTGAATCTCACTTCC-CAGGACA-TGCAACGGAAC
* * * * * * * * *
41580821 ATATTTAAGCCATAACAGCGAATCTTACTTCCCAGG-CGATGTAGCAGAAC
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGAC-ATGCAACGGAAC
* * * * * * ** *
41580871 AAATTGAAGCTACGACGGCGAATCTCATTTCCC-CGACATTGCAA-TTAAA
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGACA-TGCAACGGAAC
* * * * * ** *
41580920 AGATTGAAACGACAACGGTGAATCTTATTTTCCA-GAGGGTGCAGCGGAAC
1 AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGA-CATGCAACGGAAC
* **
41580970 AGATTGAAGCTACAACAATGAATCT
1 AGATTGAAGCCACAACGGTGAATCT
41580995 TGTTTCCCCG
Statistics
Matches: 517, Mismatches: 167, Indels: 78
0.68 0.22 0.10
Matches are distributed among these distances:
48 3 0.01
49 92 0.18
50 397 0.77
51 24 0.05
52 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGTGAATCTCACTTCCCAGGACATGCAACGGAAC
Found at i:41580392 original size:100 final size:100
Alignment explanation
Indices: 41580214--41581434 Score: 1264
Period size: 100 Copynumber: 12.3 Consensus size: 100
41580204 CATAGTTTGA
* * * * **
41580214 AATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCCATGCAACGGAGCAGGTTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
* *
41580279 AGCTACGACGGTGAATCTCACTTCCCCAACATTGC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * * * *
41580314 AATTTAAAAGATTGAAACCACAACGGTGAATCTTACTTCCCAGGTGATGTAGCAGAACAAATTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
* * *
41580379 AGCTACGACGGTGAGTCTCACTTCCCCAACATTGC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * *
41580414 AATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGAAACATATTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
**
41580479 AGCTACGACGGCGAATCTCACTTCCGTGACATTGC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * *
41580514 AATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAACAAATTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
* *
41580579 AGCTACGACGGTGAATCTCACTTCCGCGACATTGC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * * * *
41580614 AATTCAAAAGATTGAAGCCACAATGGCGAATCTTACTTCCCAAGCGATGCAGCAGAACAGATTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
* * *
41580679 AGCGACGACGGCAAATCTCACTTCCGCGACATTGC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* ** * *
41580714 AATTCAAAAGATTGAAGCCACAATAGTGAATCTTACTTCCCAGGCGATGCA-CGGAACATATTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
* * *
41580778 AGCTACAACGGCAAATCTCACTTCCTCGACATTGC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * * * * *
41580813 AATTTAAAATATTTAAGCCATAACAGCGAATCTTACTTCCCAGGCGATGTAGCAGAACAAATTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
*
41580878 AGCTACGACGGCGAATCTCATTTCCCCGACATTGC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * * * * * *
41580913 AA-TTAAAAGATTGAAACGACAACGGTGAATCTTATTTTCCAGAG-GGTGCAGCGGAACAGATTG
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAG-GCGATGCAGCGGAACAAATTG
* *** *** *
41580976 AAGCTACAACAATGAATCTTGTTTCCCCGACATTGT
65 AAGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * *** * * *
41581012 AATTAAAAAGATTGAAGCTACAACGGCGAATCTTACTTTTTAGGC-AGTACAGCGAAACAGATTG
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACAAATTG
* * ** *
41581076 AAGCTATGACGGCAAATCTTGCTTCCCCGACAATGC
65 AAGCTACGACGGCGAATCTCACTTCCCCGACATTGC
** * ** * * * * *
41581112 AA-TTAAAAGATTGGGGCCAAAACAACGAATCTTACTT-CCAGGCGGTGTAGCGAAATAGATTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
* * ** * *
41581175 AGCTAGGACGGGGAATCTTGCTTACCCGACATTAC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * * *
41581210 AA-TTAAAAGATTGAGGCCACAACGACGAATCTTACTT-CCAGGCGGTGCAGTGGAA-AAGATTG
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAA-ATTG
* * ** * * *
41581272 AAGCTACAACGACGAATCTTGCTTCCCCAATATTGT
65 AAGCTACGACGGCGAATCTCACTTCCCCGACATTGC
* * * * * * * *
41581308 AA-TTAAAAGATTGAGGCCACAACAGCGAATCTTACTT-CCAGGTGGTACAGCGAAATAGATTGA
1 AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
** * *
41581371 AGCTACGA---CGAATCTTGCTTTCTCGACATTGC
66 AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
*
41581403 AATTTAAAAGATTGAAGTCACAACGGCGAATC
1 AATTTAAAAGATTGAAGCCACAACGGCGAATC
41581435 ACGCTTCCCC
Statistics
Matches: 965, Mismatches: 147, Indels: 22
0.85 0.13 0.02
Matches are distributed among these distances:
95 21 0.02
96 26 0.03
97 1 0.00
98 189 0.20
99 194 0.20
100 534 0.55
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (100 bp):
AATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAAATTGA
AGCTACGACGGCGAATCTCACTTCCCCGACATTGC
Found at i:41581240 original size:49 final size:48
Alignment explanation
Indices: 41581187--41581485 Score: 210
Period size: 49 Copynumber: 6.1 Consensus size: 48
41581177 CTAGGACGGG
*
41581187 GAATCTTGCTTACCCGACATTACAATTAAAAGATTGAGGCCACAACGAC
1 GAATCTTGCTT-CCCGACATTACAATTAAAAGATTGAAGCCACAACGAC
* * * ** * * * *
41581236 GAATCTTACTTCCAGGCGGTGCAGTGGAAAAGATTGAAGCTACAACGAC
1 GAATCTTGCTTCCCGACATTACAAT-TAAAAGATTGAAGCCACAACGAC
* * ** *
41581285 GAATCTTGCTTCCCCAATATTGTAATTAAAAGATTGAGGCCACAAC-AGC
1 GAATCTTGCTT-CCCGACATTACAATTAAAAGATTGAAGCCACAACGA-C
* * **** *** *
41581334 GAATCTTACTTCCAGGTGGTACAGCGAAATAGATTGAAG---CTACGAC
1 GAATCTTGCTTCCCGACATTACAATTAAA-AGATTGAAGCCACAACGAC
* * * *
41581380 GAATCTTGCTTTCTCGACATTGCAATTTAAAAGATTGAAGTCACAACGGC
1 GAATCTTGC-TTCCCGACATTACAA-TTAAAAGATTGAAGCCACAACGAC
** *
41581430 GAATCACGCTTCCCCGACATTACAATTAAAAGATTGAGGCCACAACGAC
1 GAATCTTGCTT-CCCGACATTACAATTAAAAGATTGAAGCCACAACGAC
41581479 GAATCTT
1 GAATCTT
41581486 ACCTTCCCAG
Statistics
Matches: 182, Mismatches: 57, Indels: 22
0.70 0.22 0.08
Matches are distributed among these distances:
46 12 0.07
47 17 0.09
48 20 0.11
49 104 0.57
50 29 0.16
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (48 bp):
GAATCTTGCTTCCCGACATTACAATTAAAAGATTGAAGCCACAACGAC
Found at i:41581441 original size:145 final size:148
Alignment explanation
Indices: 41581263--41581555 Score: 362
Period size: 145 Copynumber: 2.0 Consensus size: 148
41581253 GGTGCAGTGG
** * **
41581263 AAAAGATTGAAGCTACAACGACGAATCTTGCTTCCCCAATATTGTAATTAAAAGATTGAGGCCAC
1 AAAAGATTGAAGCTACAACGACGAATCACGCTTCCCCAACATTACAATTAAAAGATTGAGGCCAC
* * *
41581328 AAC-AGCGAATCTTA-CTT-CCAGGTGGTACAGCGAAATAGATTGAAGCT-ACGACGAATCTTGC
66 AACGA-CGAATCTTACCTTCCCAGGCGGTACAGCGAAAGAGATTGAAGCTAACGACGAATCTTCC
* *
41581389 TTTCTCGACATTGCAATTT
130 TTCCCCGACATTGCAATTT
* *
41581408 AAAAGATTGAAG-TCACAACGGCGAATCACGCTTCCCCGACATTACAATTAAAAGATTGAGGCCA
1 AAAAGATTGAAGCT-ACAACGACGAATCACGCTTCCCCAACATTACAATTAAAAGATTGAGGCCA
** * * *
41581472 CAACGACGAATCTTACCTTCCCAGGCGGTGTAGTGGAAGAGATTGAAGCTACAACGGCGAATCTT
65 CAACGACGAATCTTACCTTCCCAGGCGGTACAGCGAAAGAGATTGAAGCT--AACGACGAATCTT
41581537 CCTTCCCCGACATTGCAAT
128 CCTTCCCCGACATTGCAAT
41581556 CTCATTTCCC
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
144 1 0.01
145 68 0.55
146 4 0.03
147 24 0.19
150 27 0.22
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (148 bp):
AAAAGATTGAAGCTACAACGACGAATCACGCTTCCCCAACATTACAATTAAAAGATTGAGGCCAC
AACGACGAATCTTACCTTCCCAGGCGGTACAGCGAAAGAGATTGAAGCTAACGACGAATCTTCCT
TCCCCGACATTGCAATTT
Found at i:41581517 original size:196 final size:194
Alignment explanation
Indices: 41580519--41581542 Score: 464
Period size: 199 Copynumber: 5.2 Consensus size: 194
41580509 ATTGCAATTC
* * * * * * * * *
41580519 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAACAAATTGAAGCTA
1 AAAAGATTGAGGCCACAACAGCGAATCTTACTT-CCAGGCGGTACAGCGAAATAGATTGAAGCTA
** * * * **
41580584 CGACGGTGAATCTCACTT-CCGCGACATTGCAATTCAAAAGATTGAAGCCACAATGGCGAATCTT
65 CGAC-G-GAATCTTGCTTACC-CGACATTACAATT-AAAAGATTGAAGCCACAACGACGAATCAC
* *** * * * * * * *
41580648 ACTTCCCA-AGC-GATGCAGCAGAACAGATTGAAGCGACGACGGCAAATC-TCACTTCCGCGACA
126 ACTT-CCAGA-CAG-TACAATGGAAAAGATTGAAGCCACAACGACGAATCTTC-CTTCCCCAACA
* * *
41580710 TTGCAATTC
187 GTGTAA-TG
* * * * * * * *
41580719 AAAAGATTGAAGCCACAATAGTGAATCTTACTTCCCAGGCGATGCA-CGGAACATATTGAAGCTA
1 AAAAGATTGAGGCCACAACAGCGAATCTTACTT-CCAGGCGGTACAGCGAAATAGATTGAAGCTA
* ** * * * * *
41580783 CAACGGCAAATCTCACTT-CCTCGACATTGCAATTTAAAATATTTAAGCCATAAC-AGCGAATCT
65 CGACGG--AATCTTGCTTACC-CGACATTACAA-TTAAAAGATTGAAGCCACAACGA-CGAATCA
* * * * * * *
41580846 TACTTCCCAGGCGATGTAGC-A--GAACAA-ATTGAAGCTACGACGGCGAATC-TCATTTCCCCG
125 CACTT-CCAGAC-A-GTA-CAATGGAA-AAGATTGAAGCCACAACGACGAATCTTC-CTTCCCCA
* * *
41580906 ACATTGCAATT
184 ACAGTGTAATG
** * * * * * * *
41580917 AAAAGATTGAAACGACAACGGTGAATCTTATTTTCCAGAG-GGTGCAGCGGAACAGATTGAAGCT
1 AAAAGATTGAGGCCACAACAGCGAATCTTA-CTTCCAG-GCGGTACAGCGAAATAGATTGAAGCT
* * * * ** * * **
41580981 ACAACAATGAATCTTGTTTCCCCGACATTGTAATTAAAAAGATTGAAGCTACAACGGCGAATCTT
64 ACGAC--GGAATCTTGCTTACCCGACATTACAATT-AAAAGATTGAAGCCACAACGACGAATCAC
** * * ** * * * * *
41581046 ACTTTTTAGGCAGTAC-A-GCGAAACAGATTGAAGCTATGACGGCAAATCTTGCTTCCCCGACAA
126 AC-TTCCAGACAGTACAATG-GAAA-AGATTGAAGCCACAACGACGAATCTTCCTTCCCCAACAG
* *
41581109 TGCAATT
188 TGTAATG
* * * ** *
41581116 AAAAGATTGGGGCCAAAACAACGAATCTTACTTCCAGGCGGTGTAGCGAAATAGATTGAAGCTAG
1 AAAAGATTGAGGCCACAACAGCGAATCTTACTTCCAGGCGGTACAGCGAAATAGATTGAAGCTAC
* **
41581181 GACGGGGAATCTTGCTTACCCGACATTACAATTAAAAGATTGAGGCCACAACGACGAATCTTACT
66 GAC--GGAATCTTGCTTACCCGACATTACAATTAAAAGATTGAAGCCACAACGACGAATCACACT
* * * * * * * *
41581246 TCCAGGCGGTGCAGTGGAAAAGATTGAAGCTACAACGACGAATCTTGCTTCCCCAATATTGTAAT
129 TCCAGACAGTACAATGGAAAAGATTGAAGCCACAACGACGAATCTTCCTTCCCCAACAGTGTAAT
*
41581311 T
194 G
*
41581312 AAAAGATTGAGGCCACAACAGCGAATCTTACTTCCAGGTGGTACAGCGAAATAGATTGAAGCTAC
1 AAAAGATTGAGGCCACAACAGCGAATCTTACTTCCAGGCGGTACAGCGAAATAGATTGAAGCTAC
* * * * * *
41581377 GAC-GAATCTTGCTTTCTCGACATTGCAATTTAAAAGATTGAAGTCACAACGGCGAATCACGCTT
66 GACGGAATCTTGCTTACCCGACATTACAA-TTAAAAGATTGAAGCCACAACGACGAATCACACTT
* * * * * *
41581441 CCCCGACATTACAAT-TAAAAGATTGAGGCCACAACGACGAATCTTACCTT-CCCAGGCGGTGTA
130 -CCAGACAGTACAATGGAAAAGATTGAAGCCACAACGACGAATCTT-CCTTCCCCA-ACAGTGTA
*
41581504 GTGG
192 AT-G
* * * * *
41581508 AAGAGATTGAAGCTACAACGGCGAATCTTCCTTCC
1 AAAAGATTGAGGCCACAACAGCGAATCTTACTTCC
41581543 CCGACATTGC
Statistics
Matches: 674, Mismatches: 118, Indels: 68
0.78 0.14 0.08
Matches are distributed among these distances:
193 22 0.03
194 60 0.09
195 16 0.02
196 140 0.21
197 38 0.06
198 98 0.15
199 245 0.36
200 51 0.08
201 2 0.00
202 2 0.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (194 bp):
AAAAGATTGAGGCCACAACAGCGAATCTTACTTCCAGGCGGTACAGCGAAATAGATTGAAGCTAC
GACGGAATCTTGCTTACCCGACATTACAATTAAAAGATTGAAGCCACAACGACGAATCACACTTC
CAGACAGTACAATGGAAAAGATTGAAGCCACAACGACGAATCTTCCTTCCCCAACAGTGTAATG
Found at i:41581765 original size:51 final size:48
Alignment explanation
Indices: 41581690--41581909 Score: 149
Period size: 51 Copynumber: 4.7 Consensus size: 48
41581680 AAGATAGCAA
41581690 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCACAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC-AT-AA-CACAT
* * * *
41581741 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T--CGCATCAGAC-T
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCATAACACAT
* * * * * * * *
41581785 TTATT-T-TCT-TAAAGATGCAGTAAAACAGGTTGAAG-AT-ACA-A-
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCATAACACAT
* * *
41581826 GTCTTATAC-CCCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCACAT
1 ATCTTAT-CTCTCTGAAGTTGCAGTAGAGCAGATTAAAGC-AT-AA-CACAT
*
41581877 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
41581910 CGCATCAGAC
Statistics
Matches: 127, Mismatches: 26, Indels: 32
0.69 0.14 0.17
Matches are distributed among these distances:
41 17 0.13
42 7 0.06
43 4 0.03
44 26 0.20
45 2 0.02
46 3 0.02
47 2 0.02
48 3 0.02
49 2 0.02
50 3 0.02
51 58 0.46
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (48 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCATAACACAT
Found at i:41581844 original size:136 final size:136
Alignment explanation
Indices: 41581671--41581993 Score: 585
Period size: 136 Copynumber: 2.4 Consensus size: 136
41581661 TTCTTCGGTG
* * * *
41581671 AACAGATTGAAGATAGCAAATCTTAT-CTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
1 AACAGGTTGAAGATA-CAAGTCTTATAC-CCCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAA
41581735 CCACATATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGA
64 CCACATATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGA
41581800 TGCAGTAA
129 TGCAGTAA
41581808 AACAGGTTGAAGATACAAGTCTTATACCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACC
1 AACAGGTTGAAGATACAAGTCTTATACCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACC
41581873 ACATATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGATG
66 ACATATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGATG
41581938 CAGTAA
131 CAGTAA
41581944 AACAGGTTGAAGATACAAGTCTTATACCCCTAAAGTTGCAGTAGAGCAGA
1 AACAGGTTGAAGATACAAGTCTTATACCCCTAAAGTTGCAGTAGAGCAGA
41581994 CTGAGCTACT
Statistics
Matches: 181, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
136 166 0.92
137 15 0.08
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (136 bp):
AACAGGTTGAAGATACAAGTCTTATACCCCTAAAGTTGCAGTAGAGCAGATTAAAGCTATAAACC
ACATATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGACTTTATTTTCTTAAAGATG
CAGTAA
Found at i:41582576 original size:13 final size:13
Alignment explanation
Indices: 41582558--41582584 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41582548 GAAACAAAGA
41582558 AACCCTAGCCTCT
1 AACCCTAGCCTCT
41582571 AACCCTAGCCTCT
1 AACCCTAGCCTCT
41582584 A
1 A
41582585 CCGCCGCACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.44, G:0.07, T:0.22
Consensus pattern (13 bp):
AACCCTAGCCTCT
Found at i:41583771 original size:18 final size:19
Alignment explanation
Indices: 41583735--41583781 Score: 78
Period size: 18 Copynumber: 2.5 Consensus size: 19
41583725 TTATAACTAT
41583735 TTATATATATATCATCTTA
1 TTATATATATATCATCTTA
*
41583754 TTATATATTTAT-ATCTTA
1 TTATATATATATCATCTTA
41583772 TTATATATAT
1 TTATATATAT
41583782 CTATATATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATATATATATCATCTTA
Found at i:41583949 original size:30 final size:29
Alignment explanation
Indices: 41583915--41583971 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
41583905 TTATATATAT
*
41583915 ATATACATACTTACACTGTTTTATTTTACG
1 ATATACATACTTACA-TCTTTTATTTTACG
*
41583945 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATCTTTTATTTTA
41583972 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTACG
Found at i:41586989 original size:4 final size:4
Alignment explanation
Indices: 41586980--41587006 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
41586970 AAGAATGCAA
41586980 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
41587007 AGATACCGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:41588700 original size:50 final size:50
Alignment explanation
Indices: 41588629--41589756 Score: 559
Period size: 50 Copynumber: 22.7 Consensus size: 50
41588619 TTTGCAATTT
*
41588629 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
** * * * * * * **
41588679 AGCAGGTTGAAGCTACGACGGCGAATCTCACTTCCGC-GAC-ATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGGCGA-TGCAGTGG
*
41588729 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * * * ** * * **
41588779 AATAGATTGAAGCTACGACGGTGAATCTCACTTCCGTGAC-ATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
* * **
41588829 AAAAGAGTGAAGCCACAACAGCGAATCTTACTTCCCAGGCGATGCAGCAG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * * * * * * **
41588879 AACAGATTTAAGCGACGACGGTGAATCTCACTTCCGC-GAC-ATTGCAATTC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGGCGA-TGCAGTGG
* **
41588929 AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAACGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * * * **
41588979 AACATATTGAAGCTACAACGGCGAATCTCACTTCCTC-GAC-ATTGCAGTTT
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC-CAGGCGA-TGCAGTGG
* * * *
41589029 AAAAGATTTAAGCCACAACAGCGAATCTTACTTCCCAGGCGATGTAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * * * * * * *
41589079 AACAA-ATTGAAGCTACGACGGTGAATCTCATTTCCCCGAC-ATTGCAAT-T
1 AA-AAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
* * * * *
41589128 AAAAGATTGAAGCCACAATGGTGAATCTTACTTTCCAGGCGGTGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * ** * * * * **
41589178 AACAGATTGAAGCTACAACGACGAATCTTGTTTCCCCGAC-ATTGTAATTA
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
* * *** * *
41589228 AAAAGATTGAAGCTACAATGGCGAATCTTACTTTTTAGGC-AGTACAG-CG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
* ** * * * * *
41589277 AAACAGATTGAAGCTATGACGGCGAATCTTGCTTCCCCGAC-ATTGCAAT-T
1 AAA-AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
** * ** * * *
41589327 AAAAGATTGGGGCCAAAACAACGAATCTTACTT-CCAGGCGGTGTAG-CG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * * * * * *
41589375 AAACAGATTGAAGCTACGACGGTGAATCTTGCTTACCC-GAC-ATTACAAT-T
1 AAA-AGATTGAAGCCACAACGGCGAATCTTACTT-CCCAGGCGA-TGCAGTGG
* ** *
41589425 AAAAGATTGAGGCCACAACAACGAATCTTACTT-CCAGGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * * * * *
41589474 AACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCCGGC-ATTGTAAT-T
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
* * *
41589523 AAAAGATTGAGGCCACAACGGCGAATCTTACTT-CCAGGCGGTGCAG-CG
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
* * * * * * **
41589571 AAACAGATTGAAGCTACGACGGCGAATCTTGCTTTCTC-GAC-ATTGCAATTT
1 AAA-AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCAGGCGA-TGCAGTGG
*** * * * * *
41589622 AAAAGATTGAAGCCACAACGGCGAATCACGCTTCCCCGAC-ATTACAAT-T
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGTGG
* * *
41589671 AAAAGATTGAGGCCACAATGGCGAATCTTACCTTCCCAGGCGGTGCAGTGG
1 AAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCCCAGGCGATGCAGTGG
* * * *
41589722 AATAGATTGAAGCTACAGCGGCGAATCTTCCTTCC
1 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCC
41589757 TCGACATTGC
Statistics
Matches: 780, Mismatches: 253, Indels: 90
0.69 0.23 0.08
Matches are distributed among these distances:
47 2 0.00
48 29 0.04
49 220 0.28
50 490 0.63
51 39 0.05
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGTGG
Found at i:41588793 original size:100 final size:99
Alignment explanation
Indices: 41588620--41589648 Score: 1256
Period size: 100 Copynumber: 10.4 Consensus size: 99
41588610 AAACCATAGT
* *
41588620 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGG
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
*
41588685 TTGAAGCTACGACGGCGAATCTCACTTCCGCGACA
65 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * *
41588720 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGTGGAATAGA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* **
41588785 TTGAAGCTACGACGGTGAATCTCACTTCCGTGACA
65 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * *
41588820 TTGCAATTCAAAAGAGTGAAGCCACAACAGCGAATCTTACTTCCCAGGCGATGCAGCAGAACAGA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * * *
41588885 TTTAAGCGACGACGGTGAATCTCACTTCCGCGACA
65 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * *
41588920 TTGCAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAACGGAACATA
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* *
41588985 TTGAAGCTACAACGGCGAATCTCACTTCCTCGACA
65 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * * *
41589020 TTGCAGTTTAAAAGATTTAAGCCACAACAGCGAATCTTACTTCCCAGGCGATGTAGCGGAACAAA
1 TTGCA-ATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* *
41589085 TTGAAGCTACGACGGTGAATCTCATTTCCCCGACA
65 TTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
41589120 TTGCAATTAAAAGATTGAAGCCACAATGGTGAATCTTACTTTCCAGGCGGTGCAGCGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGAT
* * ***
41589185 TGAAGCTACAACGACGAATCTTGTTTCCCCGACA
66 TGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *** * *
41589219 TTGTAATTAAAAAGATTGAAGCTACAATGGCGAATCTTACTTTTTAGGC-AGTACAGCGAAACAG
1 TTGCAATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGA-TGCAGCGGAACAG
* **
41589283 ATTGAAGCTATGACGGCGAATCTTGCTTCCCCGACA
64 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGACA
** * ** * * *
41589319 TTGCAATTAAAAGATTGGGGCCAAAACAACGAATCTTACTT-CCAGGCGGTGTAGCGAAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGAT
* ** *
41589383 TGAAGCTACGACGGTGAATCTTGCTTACCCGACA
66 TGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * ** * *
41589417 TTACAATTAAAAGATTGAGGCCACAACAACGAATCTTACTT-CCAGGCGGTGCAGTGGAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGAT
* ** *
41589481 TGAAGCTACAACGGCGAATCTTGCTTCCCCGGCA
66 TGAAGCTACGACGGCGAATCTCACTTCCCCGACA
* * * *
41589515 TTGTAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTT-CCAGGCGGTGCAGCGAAACAGAT
1 TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGAT
** * *
41589579 TGAAGCTACGACGGCGAATCTTGCTTTCTCGACA
66 TGAAGCTACGACGGCGAATCTCACTTCCCCGACA
41589613 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATC
1 TTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATC
41589649 ACGCTTCCCC
Statistics
Matches: 821, Mismatches: 102, Indels: 13
0.88 0.11 0.01
Matches are distributed among these distances:
98 229 0.28
99 143 0.17
100 447 0.54
101 2 0.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (99 bp):
TTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGAT
TGAAGCTACGACGGCGAATCTCACTTCCCCGACA
Found at i:41591038 original size:26 final size:26
Alignment explanation
Indices: 41590995--41591046 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
41590985 TTGATTTGTA
* ** *
41590995 ATAATATATATATTATAAATATATAC
1 ATAATATATAAAAAATAAAAATATAC
41591021 ATAATATATAAAAAATAAAAATATAC
1 ATAATATATAAAAAATAAAAATATAC
41591047 CTTTTCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATATATAAAAAATAAAAATATAC
Found at i:41591826 original size:21 final size:19
Alignment explanation
Indices: 41591802--41591855 Score: 74
Period size: 18 Copynumber: 2.7 Consensus size: 19
41591792 TAACTATTTA
41591802 TATATATATATATCATCTTAT
1 TATATATAT-TAT-ATCTTAT
41591823 TATATAT-TTATATCTTAT
1 TATATATATTATATCTTAT
41591841 TATATATATCTATAT
1 TATATATAT-TATAT
41591856 ATCTCTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
18 14 0.45
19 4 0.13
20 6 0.19
21 7 0.23
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATATTATATCTTAT
Found at i:41591839 original size:18 final size:19
Alignment explanation
Indices: 41591799--41591849 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
41591789 TAATAACTAT
41591799 TTATATATATATATATCATC
1 TTAT-TATATATATATCATC
*
41591819 TTATTATATATTTAT-ATC
1 TTATTATATATATATCATC
41591837 TTATTATATATAT
1 TTATTATATATAT
41591850 CTATATATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 15 0.52
19 10 0.34
20 4 0.14
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATATATATATCATC
Found at i:41592017 original size:30 final size:29
Alignment explanation
Indices: 41591983--41592039 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
41591973 TTATATATAT
*
41591983 ATATACATACTTACACTGTTTTATTTTACG
1 ATATACATACTTACA-TCTTTTATTTTACG
*
41592013 ATATACATACTTATATCTTTTATTTTA
1 ATATACATACTTACATCTTTTATTTTA
41592040 TGTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTACG
Found at i:41598614 original size:36 final size:37
Alignment explanation
Indices: 41598531--41598621 Score: 114
Period size: 36 Copynumber: 2.5 Consensus size: 37
41598521 TCTAATGGAG
*
41598531 GACATGGCTTTT-AAGCTACACATAGAACAAATGAAAA
1 GACATGCCTTTTCAA-CTACACATAGAACAAATGAAAA
** * *
41598568 GACATGCCTTTTCAACTACACAT-GGTCAAGTGAAGA
1 GACATGCCTTTTCAACTACACATAGAACAAATGAAAA
41598604 GACATGCCTTTTCAACTA
1 GACATGCCTTTTCAACTA
41598622 TACACCATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 27 0.56
37 19 0.40
38 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (37 bp):
GACATGCCTTTTCAACTACACATAGAACAAATGAAAA
Found at i:41600473 original size:98 final size:98
Alignment explanation
Indices: 41600352--41600549 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
41600342 AAAAACCCTA
* *
41600352 AGGTAAGAAATTGTTACCAACATTAACAACGAAAAGGAAAAGAAAACTAGGTTTAGCAGCCGCAT
1 AGGTAAGAAAGTGTTACCAACATTAACAACAAAAAGGAAAAGAAAACTAGGTTTAGCAGCCGCAT
*
41600417 TTTTTTCAAAAAAAAACTCTTTGAAACATTCAG
66 TTTTTTCAAAAAAAAACTCTCTGAAACATTCAG
* * *
41600450 AGGTAAGAGAGTGTTACCGACATTAACAACAAAAAGGAAAAGAAAACTAGGTTTAGTAGCCGCAT
1 AGGTAAGAAAGTGTTACCAACATTAACAACAAAAAGGAAAAGAAAACTAGGTTTAGCAGCCGCAT
*
41600515 TTTTTTCGAAAAAAAACTCTCTGAAACATTCAG
66 TTTTTTCAAAAAAAAACTCTCTGAAACATTCAG
41600548 AG
1 AG
41600550 AGAGTTTTTG
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (98 bp):
AGGTAAGAAAGTGTTACCAACATTAACAACAAAAAGGAAAAGAAAACTAGGTTTAGCAGCCGCAT
TTTTTTCAAAAAAAAACTCTCTGAAACATTCAG
Found at i:41606113 original size:22 final size:21
Alignment explanation
Indices: 41606083--41606124 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
41606073 TCTCCCAATG
41606083 ATACAGTTATGCCAAGTATGT
1 ATACAGTTATGCCAAGTATGT
41606104 ATACAAGTTATGCCAAGTATG
1 ATAC-AGTTATGCCAAGTATG
41606125 CTTACCTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (21 bp):
ATACAGTTATGCCAAGTATGT
Found at i:41608858 original size:27 final size:27
Alignment explanation
Indices: 41608789--41608862 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
41608779 TTCTCATCCT
* *
41608789 ATTTTACCTCTAGT-TAATTTTTGATG
1 ATTTTACCCCTAGTAAAATTTTTGATG
* *
41608815 ATTTTACCCC-CGATAAAATTTTTTATG
1 ATTTTACCCCTAG-TAAAATTTTTGATG
41608842 ATTTTACCCCTAGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
41608863 CAAGATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 10 0.25
27 28 0.70
28 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.47
Consensus pattern (27 bp):
ATTTTACCCCTAGTAAAATTTTTGATG
Found at i:41611064 original size:27 final size:27
Alignment explanation
Indices: 41611034--41611090 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
41611024 TGTCATTGAG
41611034 TTAGTATTAAAGTTTCGTTAGAAAATT
1 TTAGTATTAAAGTTTCGTTAGAAAATT
41611061 TTAGTATTAAAGTTTCGTTAGAAAATT
1 TTAGTATTAAAGTTTCGTTAGAAAATT
41611088 TTA
1 TTA
41611091 ACGTTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.46
Consensus pattern (27 bp):
TTAGTATTAAAGTTTCGTTAGAAAATT
Found at i:41612342 original size:42 final size:42
Alignment explanation
Indices: 41612269--41612395 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
41612259 TCTTACGAGC
* * * *
41612269 TTCAGTT-AACTCATATGAGTTTCAGTTTAACCCTAATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* *
41612310 TTCAGTTCAGCTCTT-TCGAGCTTCATTTTAACCCTTATGAGT
1 TTCAGTTCAGCTCTTAT-GAGCTTCAGTTTAACCCTTATGGGT
* * *
41612352 TTCCGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
41612394 TT
1 TT
41612396 TCGTTTAGCA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 8 0.11
42 63 0.88
43 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.41
Consensus pattern (42 bp):
TTCAGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:41612369 original size:21 final size:21
Alignment explanation
Indices: 41612339--41612400 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
41612329 GCTTCATTTT
41612339 AACCCTTATGAGTTTCCGTTC
1 AACCCTTATGAGTTTCCGTTC
* * *
41612360 AGCTCTTATGAGCTTCCGTTC
1 AACCCTTATGAGTTTCCGTTC
* *
41612381 AACCCTTATGGGTTTTCGTT
1 AACCCTTATGAGTTTCCGTT
41612401 TAGCACTTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (21 bp):
AACCCTTATGAGTTTCCGTTC
Found at i:41612381 original size:63 final size:62
Alignment explanation
Indices: 41612248--41612381 Score: 142
Period size: 63 Copynumber: 2.1 Consensus size: 62
41612238 CATGTTTACT
* * * * *
41612248 TTCCGTTTAGCTCTTACGAGCTTCAGTTAACTCATATGAGTTTCAGTTTAACCCTAATGGGT
1 TTCCGTTCAGCTCTTACGAGCTTCAGTTAACCCATATGAGTTTCAGTTCAACCCTAATGAGC
* * * * * * * *
41612310 TTCAGTTCAGCTCTTTCGAGCTTCATTTTAACCCTTATGAGTTTCCGTTCAGCTCTTATGAGC
1 TTCCGTTCAGCTCTTACGAGCTTCA-GTTAACCCATATGAGTTTCAGTTCAACCCTAATGAGC
41612373 TTCCGTTCA
1 TTCCGTTCA
41612382 ACCCTTATGG
Statistics
Matches: 57, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
62 22 0.39
63 35 0.61
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.40
Consensus pattern (62 bp):
TTCCGTTCAGCTCTTACGAGCTTCAGTTAACCCATATGAGTTTCAGTTCAACCCTAATGAGC
Found at i:41629424 original size:22 final size:22
Alignment explanation
Indices: 41629398--41629439 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
41629388 AATACCTGGT
*
41629398 AAAAGGTATCAATACTTTTTTG
1 AAAAGGTATCAATACATTTTTG
*
41629420 AAAAGGTATCGATACATTTT
1 AAAAGGTATCAATACATTTT
41629440 GTAATTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (22 bp):
AAAAGGTATCAATACATTTTTG
Found at i:41629674 original size:23 final size:22
Alignment explanation
Indices: 41629632--41629676 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
41629622 TTTTTTCAAC
41629632 TTTAACTTTTATTCAGAAACAT
1 TTTAACTTTTATTCAGAAACAT
*
41629654 TTTAATTTATTATATCA-AAACAT
1 TTTAACTT-TTAT-TCAGAAACAT
41629677 ATTATCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 10 0.50
24 3 0.15
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAACTTTTATTCAGAAACAT
Found at i:41635846 original size:79 final size:81
Alignment explanation
Indices: 41635703--41635885 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
41635693 TACTCGTTCA
* *
41635703 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
* *
41635767 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* *
41635783 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTT-AGTCCG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CG
* *
41635844 GATATGGTCACTTAGCAC
64 GATATAGTAACTTAGCAC
*
41635862 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41635886 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 5 0.06
79 56 0.63
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
TATAGTAACTTAGCAC
Found at i:41635885 original size:40 final size:40
Alignment explanation
Indices: 41635682--41635885 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
41635672 CGGAATTTAA
** *
41635682 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41635722 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
41635762 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41635801 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
41635841 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
41635881 CCGGA
1 CCGGA
41635886 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41642263 original size:65 final size:65
Alignment explanation
Indices: 41642049--41642345 Score: 264
Period size: 65 Copynumber: 4.6 Consensus size: 65
41642039 AATAAGCATA
* * * * *
41642049 TTACTTTAAAGAGGTAAAGCCACTTTAAAGAATTGTGCAACATAGGTTCGCTTTAAAGAAGC-GT
1 TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAA-CTGT
41642113 G
65 G
* * * * *
41642114 ATACCTAAAAAAAGGTAAAGCCACTTTAAAGAAGTGTGGCAACACAA-GTTTAATTTAAA-AA-T
1 TTACCT-TAAAAAGGTAAAGCCACTTTAAAGAAATGT-GCAACA-AAGGTTCACTTTAAAGAACT
41642176 GTG
63 GTG
* * * *
41642179 TATTACCTTATAAAGGTAAAGCCACTTTAAAGAAATGTGTAATAAAGGTTCACTTTAAAGAACTA
1 --TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTG
41642244 TG
64 TG
* * ** * * *
41642246 TTACCTTAAAAAGGTAAATCCACTTTAAAGAAGTGTATAACATAGGTT-ACTTTAAAAAAGTGTG
1 TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTGTG
* * * *
41642310 TTACATTAAAGAA-GTAAAGTCATTTTAAAAAAATGT
1 TTACCTTAAA-AAGGTAAAGCCACTTTAAAGAAATGT
41642346 TAAAGTTCGC
Statistics
Matches: 189, Mismatches: 33, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
64 42 0.22
65 65 0.34
66 58 0.31
67 23 0.12
68 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.30
Consensus pattern (65 bp):
TTACCTTAAAAAGGTAAAGCCACTTTAAAGAAATGTGCAACAAAGGTTCACTTTAAAGAACTGTG
Found at i:41646304 original size:22 final size:22
Alignment explanation
Indices: 41646262--41646304 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
41646252 AATAATAAAA
* *
41646262 TAAAATTTTATATTTATTCATT
1 TAAAATTTTAAATTTAGTCATT
41646284 TAAAATATTTAAATTT-GTCAT
1 TAAAAT-TTTAAATTTAGTCAT
41646305 ACCCCTCCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAAATTTTAAATTTAGTCATT
Found at i:41648778 original size:23 final size:22
Alignment explanation
Indices: 41648689--41649391 Score: 327
Period size: 23 Copynumber: 30.0 Consensus size: 22
41648679 AGCATATATA
* *
41648689 TATATACAAAATTGGACAGCATT
1 TATACACAAAATTTGACAGCA-T
* * *
41648712 TATTCACCAAAATTAGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* * *
41648735 ATATATATACCAATTTGGACAGCACT
1 -TATACACA-AAATTT-GACAGCA-T
41648761 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* * *
41648783 GTACATACAAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
41648807 TATTCACCAAAATTAGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* * *
41648830 ATATATATACCAATTTGGACAGCACT
1 -TATACACA-AAATTT-GACAGCA-T
41648856 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* * *
41648878 GTACATACAAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
41648902 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
**
41648925 ATATATGTC--AATTTGGACAGCACT
1 -TATA-CACAAAATTT-GACAGCA-T
*
41648949 TATACACAAAAATTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* *
41648971 GTATATACAAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
41648995 TATTCACTAAAATTGGGCAGCAT
1 TATACAC-AAAATTTGACAGCAT
* * *
41649018 ATATATATACCAATTTGGACAGCAAT
1 -TATACACA-AAATTT-GACAGC-AT
41649044 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* * *
41649066 GTATATACAAAATTGGATAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
41649090 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* *
41649113 ATATATAC-CAATTTGGACAGCACT
1 -TATACACAAAATTT-GACAGCA-T
*
41649137 TATACACAAGATTTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* *
41649159 GTATATACAAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
41649183 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* * * *
41649206 ATATATAC-CAATTTGGGCAACACT
1 -TATACACAAAATTT-GACAGCA-T
* *
41649230 TATACACAAATTTTGACAGTAT
1 TATACACAAAATTTGACAGCAT
* * *
41649252 GTATATACGAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
41649276 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
* *
41649299 ATATATAC-CAATTTGGACAGCACT
1 -TATACACAAAATTT-GACAGCA-T
41649323 TATACACAAAATTTGACAGCAT
1 TATACACAAAATTTGACAGCAT
* * *
41649345 GTATATACGAAATTGGACAGCATT
1 -TATACACAAAATTTGACAGCA-T
* * *
41649369 TATTCACCAAAATTGGGCAGCAT
1 TATACA-CAAAATTTGACAGCAT
41649392 AAATACAACA
Statistics
Matches: 513, Mismatches: 115, Indels: 104
0.70 0.16 0.14
Matches are distributed among these distances:
22 25 0.05
23 260 0.51
24 189 0.37
25 35 0.07
26 4 0.01
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (22 bp):
TATACACAAAATTTGACAGCAT
Found at i:41648815 original size:95 final size:95
Alignment explanation
Indices: 41648689--41649392 Score: 1208
Period size: 93 Copynumber: 7.5 Consensus size: 95
41648679 AGCATATATA
*
41648689 TATATACAAAATTGGACAGCATTTATTCACCAAAATTAGGCAGCATATATATATACCAATTTGGA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGA
41648754 CAGCACTTATACACAAAATTTGACAGCATG
66 CAGCACTTATACACAAAATTTGACAGCATG
* *
41648784 TACATACAAAATTGGACAGCATTTATTCACCAAAATTAGGCAGCATATATATATACCAATTTGGA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGA
41648849 CAGCACTTATACACAAAATTTGACAGCATG
66 CAGCACTTATACACAAAATTTGACAGCATG
* *
41648879 TACATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATGT--CAATTTGGA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGA
*
41648942 CAGCACTTATACACAAAAATTGACAGCATG
66 CAGCACTTATACACAAAATTTGACAGCATG
*
41648972 TATATACAAAATTGGACAGCATTTATTCACTAAAATTGGGCAGCATATATATATACCAATTTGGA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGA
*
41649037 CAGCAATTATACACAAAATTTGACAGCATG
66 CAGCACTTATACACAAAATTTGACAGCATG
*
41649067 TATATACAAAATTGGATAGCATTTATTCACCAAAATTGGGCAGC--ATATATATACCAATTTGGA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGA
*
41649130 CAGCACTTATACACAAGATTTGACAGCATG
66 CAGCACTTATACACAAAATTTGACAGCATG
*
41649160 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGC--ATATATATACCAATTTGGG
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGA
* * *
41649223 CAACACTTATACACAAATTTTGACAGTATG
66 CAGCACTTATACACAAAATTTGACAGCATG
*
41649253 TATATACGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGC--ATATATATACCAATTTGGA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGA
41649316 CAGCACTTATACACAAAATTTGACAGCATG
66 CAGCACTTATACACAAAATTTGACAGCATG
*
41649346 TATATACGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATA
41649393 AATACAACAA
Statistics
Matches: 581, Mismatches: 24, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
93 355 0.61
95 226 0.39
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (95 bp):
TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATATACCAATTTGGA
CAGCACTTATACACAAAATTTGACAGCATG
Found at i:41648973 original size:188 final size:188
Alignment explanation
Indices: 41648689--41649392 Score: 1223
Period size: 188 Copynumber: 3.7 Consensus size: 188
41648679 AGCATATATA
*
41648689 TATATACAAAATTGGACAGCATTTATTCACCAAAATTAGGCAGCATATATATATACCAATTTGGA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGC--ATATATATACCAATTTGGA
*
41648754 CAGCACTTATACACAAAATTTGACAGCATGTACATACAAAATTGGACAGCATTTATTCACCAAAA
64 CAGCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAA
*
41648819 TTAGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATG
129 TTGGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATG
* **
41648879 TACATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATGTCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
* *
41648944 GCACTTATACACAAAAATTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACTAAAATT
66 GCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATT
*
41649009 GGGCAGCATATATATATACCAATTTGGACAGCAATTATACACAAAATTTGACAGCATG
131 GGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATG
*
41649067 TATATACAAAATTGGATAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
*
41649132 GCACTTATACACAAGATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATT
66 GCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATT
* * * *
41649197 GGGCAGC--ATATATATACCAATTTGGGCAACACTTATACACAAATTTTGACAGTATG
131 GGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATG
*
41649253 TATATACGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
*
41649318 GCACTTATACACAAAATTTGACAGCATGTATATACGAAATTGGACAGCATTTATTCACCAAAATT
66 GCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATT
41649383 GGGCAGCATA
131 GGGCAGCATA
41649393 AATACAACAA
Statistics
Matches: 487, Mismatches: 25, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
186 177 0.36
188 268 0.55
190 42 0.09
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (188 bp):
TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATATATATACCAATTTGGACA
GCACTTATACACAAAATTTGACAGCATGTATATACAAAATTGGACAGCATTTATTCACCAAAATT
GGGCAGCATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATG
Found at i:41649644 original size:23 final size:23
Alignment explanation
Indices: 41649618--41649802 Score: 90
Period size: 23 Copynumber: 8.0 Consensus size: 23
41649608 AAGCAACACT
* *
41649618 TATACACAAATTTTGACAGTATG
1 TATACACAAATTTGGACAGCATG
* *
41649641 TATATACGAAA-TTGGACAGCATT
1 TATACAC-AAATTTGGACAGCATG
* * * *
41649664 TATTCACCAAAATTGGGCAGCATA
1 TATACA-CAAATTTGGACAGCATG
* * * *
41649688 TATATACCAATTTGGGCAACACT-
1 TATACACAAATTTGGACAGCA-TG
* *
41649711 TATACACAAATTTTGACAGTATG
1 TATACACAAATTTGGACAGCATG
* *
41649734 TATATACGAAA-TTGGACAGCATT
1 TATACAC-AAATTTGGACAGCATG
* * * *
41649757 TATTCACCAAAATTGGGCAGCATA
1 TATACA-CAAATTTGGACAGCATG
* *
41649781 AATACAACAAA-TTGGGCAGCAT
1 TATAC-ACAAATTTGGACAGCAT
41649803 TTAAGCATAA
Statistics
Matches: 124, Mismatches: 29, Indels: 18
0.73 0.17 0.11
Matches are distributed among these distances:
22 1 0.01
23 82 0.66
24 40 0.32
25 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.29
Consensus pattern (23 bp):
TATACACAAATTTGGACAGCATG
Found at i:41649676 original size:24 final size:24
Alignment explanation
Indices: 41649649--41649805 Score: 101
Period size: 23 Copynumber: 6.7 Consensus size: 24
41649639 TGTATATACG
*
41649649 AAATTGGACAGCATTTATTCACCA
1 AAATTGGGCAGCATTTATTCACCA
*
41649673 AAATTGGGCAGCATATATAT-ACC-
1 AAATTGGGCAGCATTTAT-TCACCA
* * * *
41649696 AATTTGGGCAACACTTATACA-CA
1 AAATTGGGCAGCATTTATTCACCA
* * * * * *
41649719 AATTTTGACAGTATGTATAT-A-CG
1 AAATTGGGCAGCATTTAT-TCACCA
*
41649742 AAATTGGACAGCATTTATTCACCA
1 AAATTGGGCAGCATTTATTCACCA
** * *
41649766 AAATTGGGCAGCATAAATACAAC-
1 AAATTGGGCAGCATTTATTCACCA
41649789 AAATTGGGCAGCATTTA
1 AAATTGGGCAGCATTTA
41649806 AGCATAAAAA
Statistics
Matches: 100, Mismatches: 27, Indels: 13
0.71 0.19 0.09
Matches are distributed among these distances:
22 2 0.02
23 59 0.59
24 38 0.38
25 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (24 bp):
AAATTGGGCAGCATTTATTCACCA
Found at i:41649692 original size:388 final size:388
Alignment explanation
Indices: 41649222--41649997 Score: 1516
Period size: 388 Copynumber: 2.0 Consensus size: 388
41649212 ACCAATTTGG
41649222 GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
1 GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
*
41649287 ATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATA
66 ATTGGGCAGCATATATATACCAATTTGGACAACACTTATACACAAAATTTGACAGCATGTATATA
41649352 CGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAAATACAACAAATTGGGCAGCATTT
131 CGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAAATACAACAAATTGGGCAGCATTT
41649417 AAGCATAAAAATTACATGAACATATACCATATTTTAGACCATTAAAGCATATGCATTAATACTGA
196 AAGCATAAAAATTACATGAACATATACCATATTTTAGACCATTAAAGCATATGCATTAATACTGA
41649482 ATTCAAACCAAAAGAGATAAGTCATTTTCGCATGGCTTTTAGATACATATACACAGTAGTTCCAA
261 ATTCAAACCAAAAGAGATAAGTCATTTTCGCATGGCTTTTAGATACATATACACAGTAGTTCCAA
41649547 AATCAATATTTTAACTATACTATACATGCCATATATTTGAGAACGATTTAGCAAAATACCAAA
326 AATCAATATTTTAACTATACTATACATGCCATATATTTGAGAACGATTTAGCAAAATACCAAA
41649610 GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
1 GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
* * *
41649675 ATTGGGCAGCATATATATACCAATTTGGGCAACACTTATACACAAATTTTGACAGTATGTATATA
66 ATTGGGCAGCATATATATACCAATTTGGACAACACTTATACACAAAATTTGACAGCATGTATATA
41649740 CGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAAATACAACAAATTGGGCAGCATTT
131 CGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAAATACAACAAATTGGGCAGCATTT
41649805 AAGCATAAAAATTACATGAACATATACCATATTTTAGACCATTAAAGCATATGCATTAATACTGA
196 AAGCATAAAAATTACATGAACATATACCATATTTTAGACCATTAAAGCATATGCATTAATACTGA
41649870 ATTCAAACCAAAAGAGATAAGTCATTTTCGCATGGCTTTTAGATACATATACACAGTAGTTCCAA
261 ATTCAAACCAAAAGAGATAAGTCATTTTCGCATGGCTTTTAGATACATATACACAGTAGTTCCAA
41649935 AATCAATATTTTAACTATACTATACATGCCATATATTTGAGAACGATTTAGCAAAATACCAAA
326 AATCAATATTTTAACTATACTATACATGCCATATATTTGAGAACGATTTAGCAAAATACCAAA
41649998 AGAAAATATT
Statistics
Matches: 384, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
388 384 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (388 bp):
GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
ATTGGGCAGCATATATATACCAATTTGGACAACACTTATACACAAAATTTGACAGCATGTATATA
CGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATAAATACAACAAATTGGGCAGCATTT
AAGCATAAAAATTACATGAACATATACCATATTTTAGACCATTAAAGCATATGCATTAATACTGA
ATTCAAACCAAAAGAGATAAGTCATTTTCGCATGGCTTTTAGATACATATACACAGTAGTTCCAA
AATCAATATTTTAACTATACTATACATGCCATATATTTGAGAACGATTTAGCAAAATACCAAA
Found at i:41649769 original size:93 final size:93
Alignment explanation
Indices: 41649610--41649798 Score: 342
Period size: 93 Copynumber: 2.0 Consensus size: 93
41649600 AAATACCAAA
41649610 GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
1 GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
* * * *
41649675 ATTGGGCAGCATATATATACCAATTTGG
66 ATTGGGCAGCATAAATACAACAAATTGG
41649703 GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
1 GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
41649768 ATTGGGCAGCATAAATACAACAAATTGG
66 ATTGGGCAGCATAAATACAACAAATTGG
41649796 GCA
1 GCA
41649799 GCATTTAAGC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (93 bp):
GCAACACTTATACACAAATTTTGACAGTATGTATATACGAAATTGGACAGCATTTATTCACCAAA
ATTGGGCAGCATAAATACAACAAATTGG
Found at i:41650944 original size:498 final size:499
Alignment explanation
Indices: 41650002--41651002 Score: 1986
Period size: 498 Copynumber: 2.0 Consensus size: 499
41649992 ACCAAAAGAA
41650002 AATATTGATAGTGTAACGAGCTTAGCTGACGATCCCCGAACACATAGCGATCACCAAAATCTATA
1 AATATTGATAGTGTAACGAGCTTAGCTGACGATCCCCGAACACATAGCGATCACCAAAATCTATA
41650067 CATCAAAACAATTATCCAACACATTGTAAGCTAATTTAGCTTAGTAAGTTATAAGCAAACAAACT
66 CATCAAAACAATTATCCAACACATTGTAAGCTAATTTAGCTTAGTAAGTTATAAGCAAACAAACT
41650132 CTACTATTTAAACCGATATCTCAAATAATATTCAACCAATTCATACTACTAAATCATCTTACCTT
131 CTACTATTTAAACCGATATCTCAAATAATATTCAACCAATTCATACTACTAAATCATCTTACCTT
41650197 TAGCCTACCATATCATAAGATAATTATTCACTTATTACTATGATTCAACTAAAATCAATATAATT
196 TAGCCTACCATATCATAAGATAATTATTCACTTATTACTATGATTCAACTAAAATCAATATAATT
41650262 ACACGACCATAAACATTTCTTCAAATTTAATCACAAGACCAAATACATTATGCATTTCCTCATCA
261 ACACGACCATAAACATTTCTTCAAATTTAATCACAAGACCAAATACATTATGCATTTCCTCATCA
41650327 TGTAATATAAAGAATCATATTATATATATATGATTCCAAATATAATCACCACATAGGTTTAATAC
326 TGTAATATAAAGAATCATATTATATATATATGATTCCAAATATAATCACCACATAGGTTTAATAC
41650392 CTACAAAGCTTAACCTTAAAATATAACCATAATGGTTATTACTCAAGAATTCCAAGTATTTACTC
391 CTACAAAGCTTAACCTTAAAATATAACCATAATGGTTATTACTCAAGAATTCCAAGTATTTACTC
41650457 ATTTTAATAATCATGATTTCTCAATAAGACAAATACTCAATGCT
456 ATTTTAATAATCATGATTTCTCAATAAGACAAATACTCAATGCT
41650501 AATA-TGATAGTGTAACGAGCTTAGCTGACGATCCCCGAACACATAGCGATCACCAAAATCTATA
1 AATATTGATAGTGTAACGAGCTTAGCTGACGATCCCCGAACACATAGCGATCACCAAAATCTATA
41650565 CATCAAAACAATTATCCAACACATTGTAAGCTAATTTAGCTTAGTAAGTTATAAGCAAACAAACT
66 CATCAAAACAATTATCCAACACATTGTAAGCTAATTTAGCTTAGTAAGTTATAAGCAAACAAACT
41650630 CTACTATTTAAACCGATATCTCAAATAATATTCAACCAATTCATACTACTAAATCATCTTACCTT
131 CTACTATTTAAACCGATATCTCAAATAATATTCAACCAATTCATACTACTAAATCATCTTACCTT
41650695 TAGCCTACCATATCATAAGATAATTATTCACTTATTACTATGATTCAACTAAAATCAATATAATT
196 TAGCCTACCATATCATAAGATAATTATTCACTTATTACTATGATTCAACTAAAATCAATATAATT
41650760 ACACGACCATAAACATTTCTTCAAATTTAATCACAAGACCAAATACATTATGCATTTCCTCATCA
261 ACACGACCATAAACATTTCTTCAAATTTAATCACAAGACCAAATACATTATGCATTTCCTCATCA
*
41650825 TGTAATATAAAGAATCATATTATATATATATGATTCCAAATATAATCACCACATAGTTTTAATAC
326 TGTAATATAAAGAATCATATTATATATATATGATTCCAAATATAATCACCACATAGGTTTAATAC
41650890 CTACAAAGCTTAACCTTAAAATATAACCATAATGGTTATTACTCAAGAATTCCAAGTATTTACTC
391 CTACAAAGCTTAACCTTAAAATATAACCATAATGGTTATTACTCAAGAATTCCAAGTATTTACTC
41650955 ATTTTAATAATCATGATTTCTCAATAAGACAAATACTCAATGCT
456 ATTTTAATAATCATGATTTCTCAATAAGACAAATACTCAATGCT
41650999 AATA
1 AATA
41651003 GTTATTCGAA
Statistics
Matches: 501, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
498 497 0.99
499 4 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (499 bp):
AATATTGATAGTGTAACGAGCTTAGCTGACGATCCCCGAACACATAGCGATCACCAAAATCTATA
CATCAAAACAATTATCCAACACATTGTAAGCTAATTTAGCTTAGTAAGTTATAAGCAAACAAACT
CTACTATTTAAACCGATATCTCAAATAATATTCAACCAATTCATACTACTAAATCATCTTACCTT
TAGCCTACCATATCATAAGATAATTATTCACTTATTACTATGATTCAACTAAAATCAATATAATT
ACACGACCATAAACATTTCTTCAAATTTAATCACAAGACCAAATACATTATGCATTTCCTCATCA
TGTAATATAAAGAATCATATTATATATATATGATTCCAAATATAATCACCACATAGGTTTAATAC
CTACAAAGCTTAACCTTAAAATATAACCATAATGGTTATTACTCAAGAATTCCAAGTATTTACTC
ATTTTAATAATCATGATTTCTCAATAAGACAAATACTCAATGCT
Found at i:41651059 original size:28 final size:28
Alignment explanation
Indices: 41651027--41651124 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
41651017 TTTAATAAGT
*
41651027 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTCAACAATCAAAC
** * *
41651055 TCGCACACTTAGTGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTCAACAATCAAAC
** ** *
41651083 TCGCACACTTAGCCCTTTACAATTAAAC
1 TCGCACACTTAGTGCTCAACAATCAAAC
*
41651111 TCGCACACTCAGTG
1 TCGCACACTTAGTG
41651125 TCGAAAGTCA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCAACAATCAAAC
Found at i:41665653 original size:40 final size:39
Alignment explanation
Indices: 41665622--41665831 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
41665612 GGACTAAGAT
* *
41665622 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
41665662 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
41665702 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
41665742 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
41665782 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
41665821 CCGAAGGCATT
1 CCGAAGGCATT
41665832 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:41665785 original size:120 final size:120
Alignment explanation
Indices: 41665569--41665831 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
41665559 TTGAATGCTG
* *
41665569 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
41665633 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
41665689 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
41665752 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
41665808 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41665832 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:41665851 original size:79 final size:80
Alignment explanation
Indices: 41665622--41665866 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
41665612 GGACTAAGAT
* * * * * * * ** *
41665622 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
41665685 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
41665702 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
41665767 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
41665782 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
41665846 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
41665860 CCGAAGG
1 CCGAAGG
41665867 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:41668386 original size:47 final size:47
Alignment explanation
Indices: 41668323--41668722 Score: 432
Period size: 47 Copynumber: 8.5 Consensus size: 47
41668313 GCAGCATATA
41668323 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * * * *
41668370 TATATACAAAATTGGACAACATTTATTCACCAAAATTCGGCAGTATATA
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAG--CATG
* * *
41668419 TATATACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * *
41668465 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATA
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * * * *
41668512 TATATGCCAATTTGGACAGCACTTATACA-CAAAAATTGACAACATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * *
41668558 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCATA
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * *
41668605 TATATACCAATTTGGACAGCACTTATACA-GAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* * * *
41668651 TATATACGAAATTGGACAGCATTTATTCACCAAAATTGGGCAGCA--
1 TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
* *
41668696 TAAATACAACAAATTGGGCAGCATTTA
1 TATATAC-A-AAATTGGACAGCATTTA
41668723 AGCATAAAAA
Statistics
Matches: 286, Mismatches: 60, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
45 6 0.02
46 101 0.35
47 142 0.50
48 11 0.04
49 26 0.09
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (47 bp):
TATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATG
Found at i:41668387 original size:23 final size:23
Alignment explanation
Indices: 41668306--41668722 Score: 312
Period size: 23 Copynumber: 17.7 Consensus size: 23
41668296 TATACATAAG
41668306 AAATT-GAGCAGCATATATATATACA
1 AAATTGGA-CAGCAT-T-TATATACA
*
41668331 AAATTGGACAGCATTTATACACCA
1 AAATTGGACAGCATTTATATA-CA
* *
41668355 AAATTTGACAGCATGTATATACA
1 AAATTGGACAGCATTTATATACA
*
41668378 AAATTGGACAACATTTAT-TCACCA
1 AAATTGGACAGCATTTATAT-A-CA
* *
41668402 AAATTCGG-CAGTATATATATATACC
1 AAATT-GGACAGCAT-T-TATATACA
* * *
41668427 AATTTGGACAGCACTTATACACA
1 AAATTGGACAGCATTTATATACA
* *
41668450 AAATTTGACAGCATGTATATACA
1 AAATTGGACAGCATTTATATACA
41668473 AAATTGGACAGCATTTAT-TCACCA
1 AAATTGGACAGCATTTATAT-A-CA
* * * *
41668497 AAATTGGGCAGCATATATATGCC
1 AAATTGGACAGCATTTATATACA
* * *
41668520 AATTTGGACAGCACTTATACACAA
1 AAATTGGACAGCATTTATATAC-A
* *
41668544 AAATT-GACAACATGTATATACA
1 AAATTGGACAGCATTTATATACA
41668566 AAATTGGACAGCATTTAT-TCACCA
1 AAATTGGACAGCATTTATAT-A-CA
* * *
41668590 AAATTGGGCAGCATATATATACC
1 AAATTGGACAGCATTTATATACA
* * * *
41668613 AATTTGGACAGCACTTATACAGA
1 AAATTGGACAGCATTTATATACA
* * *
41668636 AAATTTGACAGCATGTATATACG
1 AAATTGGACAGCATTTATATACA
41668659 AAATTGGACAGCATTTAT-TCACCA
1 AAATTGGACAGCATTTATAT-A-CA
* *
41668683 AAATTGGGCAGCA--TAAATACAA
1 AAATTGGACAGCATTTATATAC-A
*
41668705 CAAATTGGGCAGCATTTA
1 -AAATTGGACAGCATTTA
41668723 AGCATAAAAA
Statistics
Matches: 306, Mismatches: 62, Indels: 48
0.74 0.15 0.12
Matches are distributed among these distances:
21 1 0.00
22 14 0.05
23 168 0.55
24 89 0.29
25 27 0.09
26 6 0.02
27 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (23 bp):
AAATTGGACAGCATTTATATACA
Found at i:41668718 original size:93 final size:93
Alignment explanation
Indices: 41668306--41668697 Score: 631
Period size: 93 Copynumber: 4.2 Consensus size: 93
41668296 TATACATAAG
* * * *
41668306 AAATTGAGCAGCATATATATATACAAAATTGGACAGCATTTATACACCAAAATTTGACAGCATGT
1 AAATTGGGCAGC--ATATATATACCAATTTGGACAGCACTTATACA-CAAAATTTGACAGCATGT
*
41668371 ATATACAAAATTGGACAACATTTATTCACCA
63 ATATACAAAATTGGACAGCATTTATTCACCA
* *
41668402 AAATTCGGCAGTATATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTA
1 AAATTGGGCAG--CATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTA
41668467 TATACAAAATTGGACAGCATTTATTCACCA
64 TATACAAAATTGGACAGCATTTATTCACCA
* * *
41668497 AAATTGGGCAGCATATATATGCCAATTTGGACAGCACTTATACACAAAAATTGACAACATGTATA
1 AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATA
41668562 TACAAAATTGGACAGCATTTATTCACCA
66 TACAAAATTGGACAGCATTTATTCACCA
*
41668590 AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACAGAAAATTTGACAGCATGTATA
1 AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATA
*
41668655 TACGAAATTGGACAGCATTTATTCACCA
66 TACAAAATTGGACAGCATTTATTCACCA
41668683 AAATTGGGCAGCATA
1 AAATTGGGCAGCATA
41668698 AATACAACAA
Statistics
Matches: 277, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
93 181 0.65
95 58 0.21
96 38 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (93 bp):
AAATTGGGCAGCATATATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATA
TACAAAATTGGACAGCATTTATTCACCA
Found at i:41669475 original size:28 final size:28
Alignment explanation
Indices: 41669443--41669565 Score: 174
Period size: 28 Copynumber: 4.4 Consensus size: 28
41669433 AATAAGTTCA
** * *
41669443 CACACTTAGTGCTCAATAATCAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
*
41669471 CACACTTAGTGCTTTACCATTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
* *
41669499 CACACTTAGCGCTTTACATTTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
*
41669527 CACACTTAGTGCATTACAATTAAACTCG
1 CACACTTAGTGCTTTACAATTAAACTCG
41669555 CACACTTAGTG
1 CACACTTAGTG
41669566 TCGAAAGTCA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.32, C:0.28, G:0.11, T:0.29
Consensus pattern (28 bp):
CACACTTAGTGCTTTACAATTAAACTCG
Found at i:41670348 original size:50 final size:50
Alignment explanation
Indices: 41670273--41670405 Score: 185
Period size: 50 Copynumber: 2.7 Consensus size: 50
41670263 GTTACAAAAT
* * *
41670273 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAA
* * *
41670323 GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAA
* * *
41670373 CTCCCATGTAAGACCATATCTGGGATATGGCAT
1 GTCCCATGTAAGACCATGTCTGGGACATGGCAT
41670406 TTGCAGTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAA
Found at i:41670688 original size:16 final size:16
Alignment explanation
Indices: 41670667--41670697 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41670657 GTTATTTAAG
41670667 CAAGTAAGTAAGTAAA
1 CAAGTAAGTAAGTAAA
*
41670683 CAAGTAAGTGAGTAA
1 CAAGTAAGTAAGTAA
41670698 GTAAAGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
CAAGTAAGTAAGTAAA
Found at i:41670711 original size:20 final size:20
Alignment explanation
Indices: 41670668--41670713 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
41670658 TTATTTAAGC
*
41670668 AAGTAAGTAAGTAAACAAGT
1 AAGTAAGTAAGTAAACAAGA
* *
41670688 AAGTGAGTAAGTAAAGAAGA
1 AAGTAAGTAAGTAAACAAGA
41670708 AAGTAA
1 AAGTAA
41670714 AGATCCTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGTAAGTAAGTAAACAAGA
Found at i:41679054 original size:23 final size:23
Alignment explanation
Indices: 41679028--41679072 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
41679018 AGTTTTAAAA
41679028 TATTGTTAAAAACATTCTAAATT
1 TATTGTTAAAAACATTCTAAATT
*
41679051 TATTGTTAAAACCATTCTAAAT
1 TATTGTTAAAAACATTCTAAAT
41679073 CGATTGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (23 bp):
TATTGTTAAAAACATTCTAAATT
Found at i:41679078 original size:23 final size:23
Alignment explanation
Indices: 41679029--41679078 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
41679019 GTTTTAAAAT
**
41679029 ATTGTTAAAAACATTCTAAATTT
1 ATTGTTAAAAACATTCTAAATCG
*
41679052 ATTGTTAAAACCATTCTAAATCG
1 ATTGTTAAAAACATTCTAAATCG
41679075 ATTG
1 ATTG
41679079 AAATGTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (23 bp):
ATTGTTAAAAACATTCTAAATCG
Found at i:41705379 original size:367 final size:366
Alignment explanation
Indices: 41704706--41705800 Score: 1940
Period size: 367 Copynumber: 3.0 Consensus size: 366
41704696 GTTGATAGTG
* * ** *
41704706 GAGAGTTACCGGGTTTACGAGGCAGCTGAGAGTAGAAGGAAAGTTCCTCTAACTCTTAGGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
41704771 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* *
41704836 AAAACGGTGCCGTATTATCATCTGATCCGCGCGGTGACCCGACTTGGGGAAGGATCCGCGCGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
*
41704901 TCCAACACTTGGGTATATTGCACGAAATGTCCTTCAGATCTTACAGGGTTTTTAAATCGGTCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATC-GTCCTC
41704966 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
41705031 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
325 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
*
41705073 GAGAGTTACCAGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
* * *
41705138 AGGGTTTTAAGAGGCATTTATAAGTGTTTAAAACATCACCGTTTGGGGCTAGATTCAATGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* *
41705203 AAAACGGTGCCGTATTATTATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCACGCGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
*
41705268 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTTAGATCTTACAGGGTTTTTAAATCTGTCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATC-GTCCTC
41705333 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCG-TGTCACT
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCT-TCACT
*
41705397 ACGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAT
324 ACGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
* **
41705440 GAAAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAATGTCCTCTGACTCTTAGGTTTTT
1 GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
41705505 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
66 AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
* *
41705570 AAAACGGTGCCGTATTATCATCTGATCCACGCCGTGACCCGACCTGGGGAAGGATCCGCGTGTTT
131 AAAACGGTGCCGTATTATCATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
41705635 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCGATCCTC
196 TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCG-TCCTC
* *
41705700 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTTGTCCGCATCACTA
260 TTTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTA
41705765 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTG
325 CGCTGCGTTTTGGGGAATGGAATAATTTCCAATCTG
41705801 GCCCCCTCAT
Statistics
Matches: 694, Mismatches: 31, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
366 2 0.00
367 692 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (366 bp):
GAGAGTTACCGGGTTTGCGAGGCGGCTGAGAGTAGAAGGAAAACTCCTCTGACTCTTAGGTTTTT
AGGGTTTTAAGAGGCATTTATAAGTGTTCAAAACGTCACCGTTTGGGGCTAGATTCAGTGGCTCC
AAAACGGTGCCGTATTATCATCTGATCCACGCGGTGACCCGACCTGGGGAAGGATCCGCGCGTTT
TCCAACACTTGGGTATATTGCACGAAAGGTCCTTCAGATCTTACAGGGTTTTTAAATCGTCCTCT
TTTTTTCTTTTTTTAATTTTTTGCCCTGCATTTTGATATTGCCTCATTTTGGTCCGCTTCACTAC
GCTGCGTTTTGGGGAATGGAATAATTTCCAATCTGCGTCAC
Found at i:41713642 original size:26 final size:26
Alignment explanation
Indices: 41713575--41713645 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
41713565 TCCTGAAGTG
* *
41713575 TTCTAAAACTGATACAGGTTATGGTA
1 TTCTAAAACTGATATAGGTTATGATA
* *
41713601 TTCTGAAACTGATATATGTTATGATA
1 TTCTAAAACTGATATAGGTTATGATA
41713627 TTCTAAAACT-ACTATAGGT
1 TTCTAAAACTGA-TATAGGT
41713646 AGTATACTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.03
26 37 0.97
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (26 bp):
TTCTAAAACTGATATAGGTTATGATA
Found at i:41720680 original size:21 final size:21
Alignment explanation
Indices: 41720637--41720681 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
41720627 GTGCTTTAGT
41720637 GCACCGAAGTGTCACTTTCACTA
1 GCACCGAAGTGT--CTTTCACTA
41720660 GCACCGAAGTGT-TTATCACTA
1 GCACCGAAGTGTCTT-TCACTA
41720681 G
1 G
41720682 TGCGCTGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.10
21 7 0.33
23 12 0.57
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
GCACCGAAGTGTCTTTCACTA
Found at i:41726029 original size:25 final size:25
Alignment explanation
Indices: 41726001--41726058 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
41725991 TTTACGTGGT
41726001 GCCTTTGTAGCAAAATGTTTGGGAA
1 GCCTTTGTAGCAAAATGTTTGGGAA
* * **
41726026 GCCTTTATGGTGAAATGTTTGGGAA
1 GCCTTTGTAGCAAAATGTTTGGGAA
41726051 GCCTTTGT
1 GCCTTTGT
41726059 GGTAGGTTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.36
Consensus pattern (25 bp):
GCCTTTGTAGCAAAATGTTTGGGAA
Found at i:41726061 original size:25 final size:25
Alignment explanation
Indices: 41726013--41726061 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
41726003 CTTTGTAGCA
41726013 AAATGTTTGGGAAGCCTTTATGGTG
1 AAATGTTTGGGAAGCCTTTATGGTG
*
41726038 AAATGTTTGGGAAGCCTTTGTGGT
1 AAATGTTTGGGAAGCCTTTATGGT
41726062 AGGTTACCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.33, T:0.37
Consensus pattern (25 bp):
AAATGTTTGGGAAGCCTTTATGGTG
Found at i:41729580 original size:26 final size:26
Alignment explanation
Indices: 41729549--41729623 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
41729539 ACCAATAGCA
*
41729549 CAGCAAAGCTGTCAGTAATAGTATCG
1 CAGCAAAGCTGCCAGTAATAGTATCG
* * *
41729575 TAGCAAAGCTGCCAGTAACAGTATTG
1 CAGCAAAGCTGCCAGTAATAGTATCG
41729601 CAGCAAAGCTGCCAGT-ATAGTAT
1 CAGCAAAGCTGCCAGTAATAGTAT
41729624 ACTTCCTCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 6 0.14
26 37 0.86
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAGTATCG
Found at i:41732027 original size:38 final size:38
Alignment explanation
Indices: 41731976--41732053 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
41731966 TATCGAAACG
*
41731976 AGATAAAATAAGATTGCTTTCATAAAGAGTATACAATA
1 AGATAAAATAAGATTACTTTCATAAAGAGTATACAATA
*
41732014 AGATAAAATAAGATTACTTTCGTAAAGAGTATACAATA
1 AGATAAAATAAGATTACTTTCATAAAGAGTATACAATA
41732052 AG
1 AG
41732054 GTGTTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (38 bp):
AGATAAAATAAGATTACTTTCATAAAGAGTATACAATA
Found at i:41732495 original size:13 final size:13
Alignment explanation
Indices: 41732477--41732501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41732467 TTCAATGGGT
41732477 AATTGAACTTGAA
1 AATTGAACTTGAA
41732490 AATTGAACTTGA
1 AATTGAACTTGA
41732502 GATCGTCAAT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:41732910 original size:20 final size:19
Alignment explanation
Indices: 41732885--41732935 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
41732875 TTAATTTATT
*
41732885 TTATTAATTTAATATTAAAG
1 TTATTAATTTAATA-TAAAA
41732905 TTATTATATTT-ATATAAAA
1 TTATTA-ATTTAATATAAAA
41732924 TT-TTAATTTAAT
1 TTATTAATTTAAT
41732936 GTTTATCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.14
18 5 0.18
19 6 0.21
20 9 0.32
21 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTATTAATTTAATATAAAA
Found at i:41737177 original size:35 final size:33
Alignment explanation
Indices: 41737134--41737374 Score: 299
Period size: 32 Copynumber: 7.2 Consensus size: 33
41737124 TCACTTGTCT
* *
41737134 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* * *
41737168 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCAGCATTA
41737201 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* * *
41737235 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
41737268 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
41737302 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
41737335 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
41737369 TTTCTT
1 TTTCTT
41737375 TTTGGACCTG
Statistics
Matches: 181, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
32 74 0.41
33 14 0.08
34 19 0.10
35 74 0.41
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.41
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
Found at i:41737242 original size:67 final size:67
Alignment explanation
Indices: 41737134--41737371 Score: 422
Period size: 67 Copynumber: 3.6 Consensus size: 67
41737124 TCACTTGTCT
* * *
41737134 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
41737199 CA
66 CA
41737201 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
41737266 CA
66 CA
*
41737268 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
41737333 CA
66 CA
* *
41737335 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
41737372 CTTTTTGGAC
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 165 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTTTCCTGTTCACAT
CA
Found at i:41740202 original size:21 final size:22
Alignment explanation
Indices: 41740172--41740216 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
41740162 GAGCAAATTG
41740172 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
41740194 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
41740215 TT
1 TT
41740217 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:41746778 original size:29 final size:30
Alignment explanation
Indices: 41746739--41746817 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
41746729 CTTAATAATC
41746739 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
41746769 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
41746798 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41746818 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:41754677 original size:29 final size:29
Alignment explanation
Indices: 41754614--41754681 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
41754604 TAATCACCCA
* *
41754614 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
41754643 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
41754672 CGCACACTTA
1 CGCACACTTA
41754682 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:41754823 original size:29 final size:30
Alignment explanation
Indices: 41754784--41754862 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
41754774 CTTAATAATC
41754784 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
41754814 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
*
41754843 AACCCACACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
41754863 ATCTCATGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:41756421 original size:28 final size:27
Alignment explanation
Indices: 41756375--41756429 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
41756365 TATATTTGTT
* *
41756375 TTATAATTGTTTATAATATTATGTAATG
1 TTATAATTGTATATAATA-TATGAAATG
41756403 TTATAATTGTGATAT-ATATATGAAATG
1 TTATAATTGT-ATATAATATATGAAATG
41756430 ATCCACAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 13 0.54
29 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (27 bp):
TTATAATTGTATATAATATATGAAATG
Found at i:41761449 original size:7 final size:7
Alignment explanation
Indices: 41761437--41761461 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41761427 AATAAATTTA
41761437 ATTTCAC
1 ATTTCAC
41761444 ATTTCAC
1 ATTTCAC
41761451 ATTTCAC
1 ATTTCAC
41761458 ATTT
1 ATTT
41761462 AACTATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTCAC
Found at i:41768994 original size:23 final size:22
Alignment explanation
Indices: 41768947--41768994 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
41768937 TTCTAAGTCA
*
41768947 ATATTTAATTCAATTCCACAGTT
1 ATATTTAATTCAATT-CACACTT
41768970 ATATTTATTATTCAATT-ACACTT
1 ATATTTA--ATTCAATTCACACTT
41768993 AT
1 AT
41768995 TCAATTTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATTTAATTCAATTCACACTT
Found at i:41769200 original size:51 final size:50
Alignment explanation
Indices: 41769135--41769318 Score: 156
Period size: 51 Copynumber: 3.6 Consensus size: 50
41769125 TGGTTCACAA
* *
41769135 AGTAGACTGCACATAGTACTACACATGTGACCCTTACCATCTGATACACGT
1 AGTAGCCTGCACATAGTACTACACACGTGACCC-TACCATCTGATACACGT
* *** * * * * *
41769186 AGTAGCCTGTACATAGTACTACACACGTGATCGAAACTATCCGGTACGCAT
1 AGTAGCCTGCACATAGTACTACACACGTGA-CCCTACCATCTGATACACGT
* ** * * *
41769237 AGTAGCCTGCATATAGTACTACACGTGCGA-CCTATCAT-TCCAGTACACGT
1 AGTAGCCTGCACATAGTACTACACACGTGACCCTACCATCT-GA-TACACGT
*
41769287 AGTAGCCTACACATAGTACTACACACGTGACC
1 AGTAGCCTGCACATAGTACTACACACGTGACC
41769319 AGCACTTTCA
Statistics
Matches: 98, Mismatches: 31, Indels: 8
0.72 0.23 0.06
Matches are distributed among these distances:
49 3 0.03
50 30 0.31
51 64 0.65
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
AGTAGCCTGCACATAGTACTACACACGTGACCCTACCATCTGATACACGT
Found at i:41772010 original size:42 final size:42
Alignment explanation
Indices: 41771930--41772011 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
41771920 CGTTTTCTCT
* **
41771930 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
41771972 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
41772012 CACACCGACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:41774225 original size:10 final size:10
Alignment explanation
Indices: 41774210--41774238 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
41774200 TTGAAAACAT
41774210 AAAAAGTACA
1 AAAAAGTACA
41774220 AAAAAGTACA
1 AAAAAGTACA
41774230 AAAAA-TACA
1 AAAAAGTACA
41774239 TGAAATTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.10
Consensus pattern (10 bp):
AAAAAGTACA
Found at i:41778405 original size:27 final size:27
Alignment explanation
Indices: 41778347--41778526 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
41778337 ATATTGAGTC
* * * *
41778347 CGCACACTCAGTGCTATATATAATCAACT
1 CGCACACTTAGTGC--TACATAGTCAAAT
* *
41778376 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41778403 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41778431 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41778458 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
* *
41778485 CGCACACTTAGTGCAACATAGTAAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41778512 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41778527 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 92 0.71
28 24 0.19
29 13 0.10
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41778441 original size:55 final size:55
Alignment explanation
Indices: 41778347--41778526 Score: 202
Period size: 55 Copynumber: 3.3 Consensus size: 55
41778337 ATATTGAGTC
* * * * * *
41778347 CGCACACTCAGTGCTATATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
41778403 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATAGTC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* ** *
41778458 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTAAAAT
1 CGCACACTTAGTGCTATCATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
41778512 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41778527 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
54 44 0.42
55 45 0.43
56 15 0.14
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATAGTCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:41778469 original size:82 final size:81
Alignment explanation
Indices: 41778370--41778525 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
41778360 CTATATATAA
* * *
41778370 TCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGT-AAAATCGC
41778434 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
41778452 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTAAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAAAATCGCAC
41778517 ACTTAGTGC
66 ACTTAGTGC
41778526 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 47 0.71
83 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41786540 original size:27 final size:27
Alignment explanation
Indices: 41786510--41786687 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
41786500 ATATTGAGTC
* * * *
41786510 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
41786537 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41786564 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
41786592 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
41786619 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
41786646 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
41786673 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41786688 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:41786649 original size:82 final size:81
Alignment explanation
Indices: 41786531--41786686 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
41786521 TGCTATATAA
* *
41786531 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
41786596 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
41786613 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
41786677 CACTTAGTGC
65 CACTTAGTGC
41786687 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:41787189 original size:12 final size:12
Alignment explanation
Indices: 41787172--41787197 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41787162 ATGGCATACT
41787172 TATGTATATATA
1 TATGTATATATA
41787184 TATGTATATATA
1 TATGTATATATA
41787196 TA
1 TA
41787198 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:41790622 original size:43 final size:43
Alignment explanation
Indices: 41790563--41790665 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
41790553 TCCCAAACGT
* * *
41790563 GGTCTTACATGTAATCAACTAT-CGATGCC-ACTGTCCCAGACAG
1 GGTCTTACACGAAATCAA-TATACGATGCCGA-TATCCCAGACAG
* *
41790606 GGTCTTACACGAAATC-ATATACGATGCCGATATCCTAGACAT
1 GGTCTTACACGAAATCAATATACGATGCCGATATCCCAGACAG
*
41790648 GGTGTTACACGTAAATCA
1 GGTCTTACACG-AAATCA
41790666 CAAGTCAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
41 3 0.06
42 27 0.54
43 20 0.40
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCAATATACGATGCCGATATCCCAGACAG
Found at i:41804689 original size:43 final size:43
Alignment explanation
Indices: 41804637--41804745 Score: 141
Period size: 43 Copynumber: 2.5 Consensus size: 43
41804627 ACTATCCTAG
* * *
41804637 ACATAGTCTTACACGA-AATCA-TATAACAATGCCAATGTTCCAA
1 ACATGGTCTTACAC-ATAATCACAAT-ACAATGCCAATGTCCCAA
41804680 ACATGGTCTTACACATAATCACAATACAATGCCAATGTCCCAA
1 ACATGGTCTTACACATAATCACAATACAATGCCAATGTCCCAA
**
41804723 ACATGGTCTTACATGTAATCACA
1 ACATGGTCTTACACATAATCACA
41804746 TCTCGGTAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 1 0.02
43 56 0.95
44 2 0.03
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.26
Consensus pattern (43 bp):
ACATGGTCTTACACATAATCACAATACAATGCCAATGTCCCAA
Found at i:41810660 original size:48 final size:48
Alignment explanation
Indices: 41810593--41810684 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
41810583 ATAGCCAAAT
* * *
41810593 CTATATCAATCTCGCACACTAAGTGCCAGTATGTATATATAGCCGGAG
1 CTATATCAATCACGCACACTAAGTGCCAATATATATATATAGCCGGAG
* * *
41810641 CTATCTCAATCACGTACACTAAGTGCCAATATATGTATATAGCC
1 CTATATCAATCACGCACACTAAGTGCCAATATATATATATAGCC
41810685 AAAGTTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (48 bp):
CTATATCAATCACGCACACTAAGTGCCAATATATATATATAGCCGGAG
Found at i:41818504 original size:13 final size:13
Alignment explanation
Indices: 41818486--41818510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41818476 AACAATGCCA
41818486 GACACGGCCGTGC
1 GACACGGCCGTGC
41818499 GACACGGCCGTG
1 GACACGGCCGTG
41818511 TGCACCCACA
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:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:41819171 original size:21 final size:21
Alignment explanation
Indices: 41819142--41819181 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
41819132 TTCGAATTTG
41819142 TTTACCTATTATTATTATTCA
1 TTTACCTATTATTATTATTCA
*
41819163 TTTATCTATTATTATTATT
1 TTTACCTATTATTATTATT
41819182 GTTTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTACCTATTATTATTATTCA
Found at i:41826777 original size:48 final size:47
Alignment explanation
Indices: 41826666--41826799 Score: 126
Period size: 48 Copynumber: 2.8 Consensus size: 47
41826656 TGCCAAATAA
* * * *
41826666 ATAGCCGAAGCTATATCAATCTTGCACATTAAGTGCCAATATGTATAT
1 ATAGCCGAAGCTATCTC-ATCTTGCACACTAAGTGCCAATATATACAT
* *
41826714 ATAGCCGGAGCTATCTCAGTCTTGCACACTAAGTGCCAATATATGCAT
1 ATAGCCGAAGCTATCTCA-TCTTGCACACTAAGTGCCAATATATACAT
* * * ** *
41826762 GTAG-CGAAAGTTATCTGATCTCACACACTTAGTGCCAA
1 ATAGCCG-AAGCTATCTCATCTTGCACACTAAGTGCCAA
41826800 CGTATTTAGC
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
47 20 0.28
48 51 0.72
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (47 bp):
ATAGCCGAAGCTATCTCATCTTGCACACTAAGTGCCAATATATACAT
Found at i:41826837 original size:43 final size:44
Alignment explanation
Indices: 41826643--41826886 Score: 154
Period size: 43 Copynumber: 5.4 Consensus size: 44
41826633 TACCCGGAAA
* ** * *
41826643 CTCACACACTTAGTGCCAA-ATAAATAGCCGAAGCTATATCAAT
1 CTCACACATTTAGTGCCAACATATTTAGCCGAAGCTATCTCAGT
** * * *
41826686 CTTGCACATTAAGTGCCAATATGTATATATAGCCGGAGCTATCTCAGT
1 CTCACACATTTAGTGCCAACA--TAT-T-TAGCCGAAGCTATCTCAGT
** * * * * *
41826734 CTTGCACACTAAGTGCCAATATATGCATGTAG-CGAAAGTTATCTGA-T
1 CTCACACATTTAGTGCCAACATAT---T-TAGCCG-AAGCTATCTCAGT
* * * * *
41826781 CTCACACACTTAGTGCCAACGTATTTAGCTGAATCTATC-CGGT
1 CTCACACATTTAGTGCCAACATATTTAGCCGAAGCTATCTCAGT
* *
41826824 CTCACACATTTAGTTCCAATATATTTAGCCGAAGCTATCTCAGT
1 CTCACACATTTAGTGCCAACATATTTAGCCGAAGCTATCTCAGT
*
41826868 CTCGCACATTTAGTGCCAA
1 CTCACACATTTAGTGCCAA
41826887 TGTACAATAT
Statistics
Matches: 157, Mismatches: 33, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
43 58 0.37
44 23 0.15
46 5 0.03
47 22 0.14
48 49 0.31
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (44 bp):
CTCACACATTTAGTGCCAACATATTTAGCCGAAGCTATCTCAGT
Found at i:41829934 original size:22 final size:23
Alignment explanation
Indices: 41829887--41829990 Score: 95
Period size: 24 Copynumber: 4.4 Consensus size: 23
41829877 TGGCTTGTAT
*
41829887 GAGCTTACTGATTCAGCTCGAA-A
1 GAGCTTACTGTTTCAGCTC-AATA
41829910 GAGCTTACTGTTT-AGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
* * * *
41829932 GAGCTTCCCGTTTCCAACTCAATC
1 GAGCTTACTGTTT-CAGCTCAATA
* *
41829956 GAGCTTACTGTTATCTGCTCATTA
1 GAGCTTACTGTT-TCAGCTCAATA
41829980 TGAGCTTACTG
1 -GAGCTTACTG
41829991 GCCATGTCTC
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.03
22 17 0.26
23 12 0.18
24 23 0.35
25 11 0.17
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:41832722 original size:45 final size:45
Alignment explanation
Indices: 41832661--41832875 Score: 158
Period size: 45 Copynumber: 4.9 Consensus size: 45
41832651 CAGGATTCTG
*
41832661 ATATGTGTTTTCGTGTAAGACCACGACTGGGACATTGGCATCGAT
1 ATATGTATTTTCGTGTAAGACCACGACTGGGACATTGGCATCGAT
* * *
41832706 ATATGTATTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTATTTTCGTGTAAGACCACGACTGGGACATTGGCATCGAT
* ** * * * * **
41832751 CTATGTGGTTACATGTAAGACCATGTCTAAGACATTGGCATCG-T
1 ATATGTATTTTCGTGTAAGACCACGACTGGGACATTGGCATCGAT
* * * * *
41832795 ATTTG-A--TTCGAGTAAGACC-CTGTCTGGGATAGTGGCATCGAT
1 ATATGTATTTTCGTGTAAGACCAC-GACTGGGACATTGGCATCGAT
* * * *
41832837 ATGA-G-A-TATCATGTAAGACCACGTCTGGGACGTTGGCAT
1 AT-ATGTATTTTCGTGTAAGACCACGACTGGGACATTGGCAT
41832876 TGTATGATAT
Statistics
Matches: 133, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
41 25 0.19
42 5 0.04
43 24 0.18
44 5 0.04
45 74 0.56
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (45 bp):
ATATGTATTTTCGTGTAAGACCACGACTGGGACATTGGCATCGAT
Found at i:41833008 original size:38 final size:38
Alignment explanation
Indices: 41832957--41833034 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
41832947 AACGAAGGTG
41832957 TAAAACGAGCTAAAACAATCAGGTATGAGTTAGTTGAT
1 TAAAACGAGCTAAAACAATCAGGTATGAGTTAGTTGAT
41832995 TAAAACGAGCTAAAACAATCAGGTATGAGTTAGTTGAT
1 TAAAACGAGCTAAAACAATCAGGTATGAGTTAGTTGAT
41833033 TA
1 TA
41833035 CTTGTTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (38 bp):
TAAAACGAGCTAAAACAATCAGGTATGAGTTAGTTGAT
Found at i:41835897 original size:46 final size:46
Alignment explanation
Indices: 41835845--41835939 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
41835835 CAAAGTATGC
41835845 TTTATAAAATGGTTGTAGAAAATGATGGTACTATTATCACTAAAAT
1 TTTATAAAATGGTTGTAGAAAATGATGGTACTATTATCACTAAAAT
41835891 TTTATAAAATGGTTGTAGAAAATGATGGTACTATTATCACTAAAAT
1 TTTATAAAATGGTTGTAGAAAATGATGGTACTATTATCACTAAAAT
41835937 TTT
1 TTT
41835940 CAACTTTCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (46 bp):
TTTATAAAATGGTTGTAGAAAATGATGGTACTATTATCACTAAAAT
Found at i:41842901 original size:19 final size:20
Alignment explanation
Indices: 41842865--41842902 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
41842855 TAATTTTCAA
**
41842865 AAAAATTTATAATTTATATT
1 AAAAATTTATAAAATATATT
41842885 AAAAA-TTATAAAATATAT
1 AAAAATTTATAAAATATAT
41842903 CTAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAAATTTATAAAATATATT
Found at i:41843442 original size:19 final size:20
Alignment explanation
Indices: 41843418--41843501 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 20
41843408 TGGTATCTAT
*
41843418 ATATATATTA-AAAATAAAA
1 ATATATATTATAAATTAAAA
* **
41843437 ATATAT-TTATAAACTCTAA
1 ATATATATTATAAATTAAAA
*
41843456 ACATA-ATTA-AAATTTAAAA
1 ATATATATTATAAA-TTAAAA
41843475 ATA-AT-TTATAAATTAAAA
1 ATATATATTATAAATTAAAA
41843493 ATATA-ATTA
1 ATATATATTA
41843502 GCATTTTTAG
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
18 19 0.38
19 31 0.62
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATATATTATAAATTAAAA
Found at i:41843492 original size:18 final size:19
Alignment explanation
Indices: 41843432--41843495 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 19
41843422 ATATTAAAAA
41843432 TAAAAATATATTTATAAACT
1 TAAAAATA-ATTTATAAACT
* *
41843452 CTAAACATAA-TTA-AAATT
1 -TAAAAATAATTTATAAACT
41843470 TAAAAATAATTTATAAA-T
1 TAAAAATAATTTATAAACT
41843488 TAAAAATA
1 TAAAAATA
41843496 TAATTAGCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.21
18 16 0.42
19 6 0.16
20 1 0.03
21 7 0.18
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAATAATTTATAAACT
Found at i:41843499 original size:37 final size:37
Alignment explanation
Indices: 41843418--41843501 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 37
41843408 TGGTATCTAT
**
41843418 ATATATATTAAAAATAAAAATATATTTATAAACTCTAA
1 ATATA-ATTAAAAATAAAAATATATTTATAAACTAAAA
* * *
41843456 ACATAATTAAAATTTAAAAATA-ATTTATAAATTAAAA
1 ATATAATTAAAA-ATAAAAATATATTTATAAACTAAAA
41843493 ATATAATTA
1 ATATAATTA
41843502 GCATTTTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
37 27 0.69
38 12 0.31
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (37 bp):
ATATAATTAAAAATAAAAATATATTTATAAACTAAAA
Found at i:41844325 original size:38 final size:39
Alignment explanation
Indices: 41844259--41844339 Score: 105
Period size: 38 Copynumber: 2.1 Consensus size: 39
41844249 AACATATTAG
*
41844259 AAAAAATTAAATTTTAAATTTAAAAAAAT-TTCTCATAGT
1 AAAAAATTAAATTTTAAATTTAAAAAAATATTCTAATA-T
*
41844298 AAAAAA-TAAATTTTAAATCTT-TAAAAATATTCTAATAT
1 AAAAAATTAAATTTTAAAT-TTAAAAAAATATTCTAATAT
41844336 AAAA
1 AAAA
41844340 CTTGAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
38 23 0.61
39 15 0.39
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (39 bp):
AAAAAATTAAATTTTAAATTTAAAAAAATATTCTAATAT
Found at i:41844507 original size:13 final size:13
Alignment explanation
Indices: 41844457--41844508 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
41844447 AACTTTCTAA
*
41844457 AATTTTTAATTAT
1 AATTTTTATTTAT
41844470 -ATTTTTATTTTAT
1 AATTTTTA-TTTAT
*
41844483 AAATTATT-TTTAT
1 -AATTTTTATTTAT
41844496 AATTTTTATTTAT
1 AATTTTTATTTAT
41844509 TCTCTTAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 13 0.41
13 14 0.44
15 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
AATTTTTATTTAT
Found at i:41851135 original size:17 final size:16
Alignment explanation
Indices: 41851085--41851140 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
41851075 TAATCACTTT
41851085 AATATTAAATT-AATA
1 AATATTAAATTAAATA
*
41851100 TAATATT-TATTAAGATA
1 -AATATTAAATTAA-ATA
41851117 AATATTAAATTAAATTA
1 AATATTAAATTAAA-TA
41851134 AATATTA
1 AATATTA
41851141 GATCTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
15 3 0.09
16 14 0.41
17 17 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AATATTAAATTAAATA
Found at i:41854226 original size:37 final size:37
Alignment explanation
Indices: 41854173--41854273 Score: 148
Period size: 37 Copynumber: 2.7 Consensus size: 37
41854163 CGAATAGTCC
* *
41854173 CCACATGTAGTTATCGGGTCTTACCCGAACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
* * *
41854210 CCACACGTAGTCATCGGGTCTCACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
*
41854247 CCACACGTAATCATCGGGTCTTACCCG
1 CCACACGTAGTCATCGGGTCTTACCCG
41854274 GAATATATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGAACAAAATCT
Found at i:41858286 original size:42 final size:42
Alignment explanation
Indices: 41858239--41858395 Score: 136
Period size: 42 Copynumber: 3.6 Consensus size: 42
41858229 AGTGATTTCA
41858239 TATAAGACCATGTCTGGGACATGGCATCAATATGAGGTCCCG
1 TATAAGACCATGTCTGGGACATGGCATCAATATGAGGTCCCG
* * *
41858281 TATAAGACCATGTCTGGGACATGGCGTCGGCACTGATTTGAGG-CTTCG
1 TATAAGACCATGTCTGGGACATGGCAT---CA---ATATGAGGTC-CCG
* * * * * * * *
41858329 TATAAGACCATATTTGGGATATGGCATCGATGTGTGGTTCCA
1 TATAAGACCATGTCTGGGACATGGCATCAATATGAGGTCCCG
*
41858371 TGTAAGACCATGTCTGGGACATGGC
1 TATAAGACCATGTCTGGGACATGGC
41858396 TTTGGCACCT
Statistics
Matches: 90, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
42 54 0.60
45 3 0.03
47 1 0.01
48 32 0.36
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (42 bp):
TATAAGACCATGTCTGGGACATGGCATCAATATGAGGTCCCG
Found at i:41862217 original size:24 final size:27
Alignment explanation
Indices: 41862184--41862237 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
41862174 CAATTTTCAT
41862184 AAAATATT-AATAATCCAAA-AAA-TTG
1 AAAATATTAAATAAT-CAAATAAATTTG
41862209 AAAA-ATTAAATAATCAAATAAATTTG
1 AAAATATTAAATAATCAAATAAATTTG
41862235 AAA
1 AAA
41862238 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.27
25 13 0.50
26 6 0.23
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (27 bp):
AAAATATTAAATAATCAAATAAATTTG
Found at i:41865766 original size:35 final size:35
Alignment explanation
Indices: 41865727--41865814 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
41865717 TCTCTATTTG
41865727 GCGTGTTACGGTTGGATTAACTCTTATAAGCATTA
1 GCGTGTTACGGTTGGATTAACTCTTATAAGCATTA
* * *
41865762 GCGTGTTACGGTTGGATTAGCTCTTATGAGCATTG
1 GCGTGTTACGGTTGGATTAACTCTTATAAGCATTA
*
41865797 GCGTGTTATGGTTGGATT
1 GCGTGTTACGGTTGGATT
41865815 GATGATGTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.39
Consensus pattern (35 bp):
GCGTGTTACGGTTGGATTAACTCTTATAAGCATTA
Found at i:41875623 original size:59 final size:59
Alignment explanation
Indices: 41875506--41875624 Score: 134
Period size: 59 Copynumber: 2.0 Consensus size: 59
41875496 TTGGTGTGCT
* * * *
41875506 ACGGTTGGATTAGCTCTTATGAGCATTGGCATGTTATGATTGGATTAGCTTTTCTGAGC
1 ACGGTTGGATTAGCTCTTATGAGAATTGGCATGTTATGATTGGATTAACTCTTATGAGC
* ** *
41875565 ACGGTTGGATTAGCTTTTATGAGAATTGGTGTGTT-TCGGTTTGG-TTAACTCTTATGAGC
1 ACGGTTGGATTAGCTCTTATGAGAATTGGCATGTTAT--GATTGGATTAACTCTTATGAGC
41875624 A
1 A
41875625 TCAGCATGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
58 1 0.02
59 44 0.88
60 5 0.10
ACGTcount: A:0.20, C:0.12, G:0.28, T:0.40
Consensus pattern (59 bp):
ACGGTTGGATTAGCTCTTATGAGAATTGGCATGTTATGATTGGATTAACTCTTATGAGC
Found at i:41879066 original size:14 final size:14
Alignment explanation
Indices: 41879047--41879076 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41879037 GCTGGATTTT
*
41879047 AACTAAGTAAATTA
1 AACTAAGAAAATTA
41879061 AACTAAGAAAATTA
1 AACTAAGAAAATTA
41879075 AA
1 AA
41879077 AGGTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (14 bp):
AACTAAGAAAATTA
Found at i:41881355 original size:50 final size:50
Alignment explanation
Indices: 41881236--41881531 Score: 238
Period size: 50 Copynumber: 5.9 Consensus size: 50
41881226 ATTGTGAGAA
* * *** *
41881236 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGATTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-A-GTTAGGT
** *
41881288 CATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
41881338 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGA-TAGTT-AGGT
* * * * * * *
41881389 CACGTGTGTAATACTAACTGTAGGCTAATACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
41881439 CACGTGTTTAATACTAAGTCCAGGCTACTACGTGTACTAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
41881488 CGCATGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAAATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
41881532 CTTTGGTTAC
Statistics
Matches: 190, Mismatches: 49, Indels: 13
0.75 0.19 0.05
Matches are distributed among these distances:
49 38 0.20
50 81 0.43
51 36 0.19
52 35 0.18
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:41881476 original size:101 final size:101
Alignment explanation
Indices: 41881291--41881476 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 101
41881281 TTTAGGTCAT
* * * * *
41881291 GTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAG
1 GTGTGTAATACTAACTGCAGGCTAATACATGTACCAGATAGTTAGGTCACATGTGTAATACTAAG
* *
41881356 TGCAGGCTACTATGCGTACTCGACAACTTCAATCAC
66 TCCAGGCTACTACGCGTACTCGACAACTTCAATCAC
* * * * * *
41881392 GTGTGTAATACTAACTGTAGGCTAATACGTGTATCAGATGGTTAGGTCACGTGTTTAATACTAAG
1 GTGTGTAATACTAACTGCAGGCTAATACATGTACCAGATAGTTAGGTCACATGTGTAATACTAAG
*
41881457 TCCAGGCTACTACGTGTACT
66 TCCAGGCTACTACGCGTACT
41881477 AGATTGTTGG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
GTGTGTAATACTAACTGCAGGCTAATACATGTACCAGATAGTTAGGTCACATGTGTAATACTAAG
TCCAGGCTACTACGCGTACTCGACAACTTCAATCAC
Found at i:41885944 original size:48 final size:48
Alignment explanation
Indices: 41885824--41886039 Score: 245
Period size: 48 Copynumber: 4.5 Consensus size: 48
41885814 AAGGTAAGAT
* *
41885824 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCG-G
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG--CTCACATATCGAG
** * *
41885873 TGTTGATGCCATGTTCCAAACATGGTATTACACTAGCTCACATATCGAG
1 -GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* ** ** *
41885922 GCCGATGCCATGTCCCATACATGGTCTTACACTAGCTTTCATATAAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
* * * *
41885970 ACCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
*
41886018 GCCAATGCCATGTCCCAAACAT
1 GCCGATGCCATGTCCCAAACAT
41886040 TGTAATATCC
Statistics
Matches: 137, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
48 106 0.77
49 1 0.01
50 30 0.22
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCGAG
Found at i:41886019 original size:96 final size:97
Alignment explanation
Indices: 41885824--41886039 Score: 308
Period size: 96 Copynumber: 2.2 Consensus size: 97
41885814 AAGGTAAGAT
* ** ***
41885824 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGTTGATGCCATGTTC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA-CAATACCGATGCCATGTTC
41885889 CAAACATGGTATTACACTAGCTCACATATCGAG
65 CAAACATGGTATTACACTAGCTCACATATCGAG
* *
41885922 GCCGATGCCATGTCCCATACATGGTCTTACACTAGCTTTCATATA-AATACCGATGCCATGTTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATACAATACCGATGCCATGTTCC
* * *
41885986 AAACATGGTCTTACACTGGCTCACATATTGAG
66 AAACATGGTATTACACTAGCTCACATATCGAG
*
41886018 GCCAATGCCATGTCCCAAACAT
1 GCCGATGCCATGTCCCAAACAT
41886040 TGTAATATCC
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 63 0.59
98 43 0.41
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (97 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATACAATACCGATGCCATGTTCC
AAACATGGTATTACACTAGCTCACATATCGAG
Found at i:41888455 original size:20 final size:20
Alignment explanation
Indices: 41888432--41888489 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
41888422 TAAACATGGT
41888432 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
41888452 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
41888472 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
41888490 CTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:41888472 original size:11 final size:11
Alignment explanation
Indices: 41888436--41888489 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
41888426 CATGGTATGT
41888436 ATGATATGCAC
1 ATGATATGCAC
* *
41888447 ATGACATG--T
1 ATGATATGCAC
41888456 ATGATATGCAC
1 ATGATATGCAC
*
41888467 ATGATATG--T
1 ATGATATGCAC
41888476 ATGATATGCAC
1 ATGATATGCAC
41888487 ATG
1 ATG
41888490 CTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:41888575 original size:23 final size:23
Alignment explanation
Indices: 41888542--41888661 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
41888532 AGGAAGTGAA
* *
41888542 AAAGGGCTTATGCACTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
41888565 AAAGGGATTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
41888588 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
41888612 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
41888635 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
41888659 AAA
1 AAA
41888662 AGAGGCTAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 46 0.51
24 44 0.49
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:41888595 original size:47 final size:47
Alignment explanation
Indices: 41888541--41888661 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
41888531 GAGGAAGTGA
* *
41888541 AAAAGGGCTTATGCACTAGTTATTAAAGGGATTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATT
*
41888588 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATT
*
41888635 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
41888662 AGAGGCTAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGATTATGCCCCAGTTATT
Found at i:41888599 original size:24 final size:24
Alignment explanation
Indices: 41888541--41888682 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
41888531 GAGGAAGTGA
* *
41888541 AAAAGGGCTTATGCACTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
41888565 -AAAGGGATTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41888588 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
41888612 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
41888635 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
41888659 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41888683 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.40
24 53 0.50
25 11 0.10
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Done.