Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000290.1 Hibiscus syriacus cultivar Beakdansim tig00000534_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 176468
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:797 original size:16 final size:17
Alignment explanation
Indices: 766--799 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
756 TGATTTATAC
*
766 AAATTATTTACGTAATT
1 AAATTATTTACATAATT
783 AAATTA-TTACATAATT
1 AAATTATTTACATAATT
799 A
1 A
800 TTAAGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (17 bp):
AAATTATTTACATAATT
Found at i:1634 original size:407 final size:404
Alignment explanation
Indices: 1090--1872 Score: 982
Period size: 407 Copynumber: 1.9 Consensus size: 404
1080 TTTGGCACCA
*
1090 AAAAATAGGGAGAAATGATTCTGATAGTATAATTTTTCATAATGATTAAAATATATAACTACAAA
1 AAAAATAGGGAGAAATGATTCTGATAGTATAATTTTTCATAATGATTAAAATATATAAATACAAA
* *
1155 AATAATTGATTAAAAAAACTTTAATTTTATTATCTGATTGATAATTTTTTATATAACATAACTAT
66 AATAATTGATTAAAAAAACTTGAATTTTATTATCTGATTGATAATTTTTTATATAACAAAACTAT
* * * * *
1220 AAATTATAA-T-TACAACTTATCAATATCACTTTTTGAAACGAAAAAAAGTGGAGAAAAT-TTTA
131 AAATTATAATTATAAAAATTATCAATATAAC-TTTTGAAAC--AAAAAAGTGGAAAAAATAATTA
*
1282 T-CAATATATG-TCATCACTATAATAAAAATTTATAACTACAAGTATAATTTGTAACAAAAAAAG
193 TACAATACATGCT-AT-ACTATAATAAAAATTTATAACTA-AA--ATAATTTGTAAC-AAAAAAG
1345 TGAATACCATTATTTTTGT-TACA-A-TGTTTTTTGTAATAATTATAAACACTTATACTTACAAA
252 TGAATACCA-TATTTTTGTGTA-ATACT-TTTTTTGTAATAATTATAAACACTTATACTTACAAA
* * * *
1407 AATTATTACTATATGATTTTTTTG-GCACAAA-AAATATGGA-GGAAATCTTTATGATAATATTT
314 AATTATCACCATA-GA-CTTTTTGAGCA-AAACAAATATGGAGGGAAATCTTTATGACAATATTT
1469 TGTTACTATATAACATTTTTTACACACTG
376 TGTTACTATATAACATTTTTTACACACTG
* *
1498 AAAAATATGGAG-AATGGTTCTGATAGTATAATTTTTCATAATGATTAAAATATATAAATACAAA
1 AAAAATAGGGAGAAATGATTCTGATAGTATAATTTTTCATAATGATTAAAATATATAAATACAAA
** * *
1562 AATAATTGATTACAAAAAGGTTGAATTTTATTATTTGATGTGATAATTTTTT-TATAA-AAAATT
66 AATAATTGATTA-AAAAAACTTGAATTTTATTATCTGAT-TGATAATTTTTTATATAACAAAACT
*
1625 ATAAATTATAATTATAAAAATTGTCAATATAACTTTTGAAACAAAAAAGTGGAAAAAATAATTAT
129 ATAAATTATAATTATAAAAATTATCAATATAACTTTTGAAACAAAAAAGTGGAAAAAATAATTAT
* * * ** * * *
1690 GACAATACATGCTATATTATAGTTAAAATTTATAACTAAAATTTTTTTTTACAAAAACGTGAATA
194 -ACAATACATGCTATACTATAATAAAAATTTATAACTAAAATAATTTGTAACAAAAAAGTGAATA
* * * * *
1755 TCATATTTTTGTGGTAATACTTTTTTTGTAATAATTATTAACACTTATAGTTACAAAATTTGTCA
258 CCATATTTTTGT-GTAATACTTTTTTTGTAATAATTATAAACACTTATACTTACAAAAATTATCA
*
1820 CCATAGACTTTTTGACGCAAAACAAATATGGAGGGAAATCTTTGTGACAATAT
322 CCATAGACTTTTTGA-GCAAAACAAATATGGAGGGAAATCTTTATGACAATAT
1873 ATTTTATCAC
Statistics
Matches: 325, Mismatches: 34, Indels: 34
0.83 0.09 0.09
Matches are distributed among these distances:
403 15 0.05
404 20 0.06
405 66 0.20
406 35 0.11
407 83 0.26
408 68 0.21
409 37 0.11
410 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.39
Consensus pattern (404 bp):
AAAAATAGGGAGAAATGATTCTGATAGTATAATTTTTCATAATGATTAAAATATATAAATACAAA
AATAATTGATTAAAAAAACTTGAATTTTATTATCTGATTGATAATTTTTTATATAACAAAACTAT
AAATTATAATTATAAAAATTATCAATATAACTTTTGAAACAAAAAAGTGGAAAAAATAATTATAC
AATACATGCTATACTATAATAAAAATTTATAACTAAAATAATTTGTAACAAAAAAGTGAATACCA
TATTTTTGTGTAATACTTTTTTTGTAATAATTATAAACACTTATACTTACAAAAATTATCACCAT
AGACTTTTTGAGCAAAACAAATATGGAGGGAAATCTTTATGACAATATTTTGTTACTATATAACA
TTTTTTACACACTG
Found at i:3721 original size:40 final size:41
Alignment explanation
Indices: 3653--3731 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 41
3643 CCTGAATAAA
3653 AAATAAGTTGTTATTTGGTTGTTATGGATAGTATTCCAGAC
1 AAATAAGTTGTTATTTGGTTGTTATGGATAGTATTCCAGAC
3694 AAATAAGTTGTTA-TTGGTTGTTATGGATAGTATTCCAG
1 AAATAAGTTGTTATTTGGTTGTTATGGATAGTATTCCAG
3732 CAAGGCAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
40 25 0.66
41 13 0.34
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (41 bp):
AAATAAGTTGTTATTTGGTTGTTATGGATAGTATTCCAGAC
Found at i:9561 original size:15 final size:15
Alignment explanation
Indices: 9537--9566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9527 CCCAAAACAG
*
9537 AGGTATCGATACCAT
1 AGGTACCGATACCAT
9552 AGGTACCGATACCAT
1 AGGTACCGATACCAT
9567 CAAGCATGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (15 bp):
AGGTACCGATACCAT
Found at i:12429 original size:23 final size:24
Alignment explanation
Indices: 12389--12438 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
12379 CCACTAGGGG
12389 CTATGAAATTTGTCCCGAAGGACCA
1 CTATGAAA-TTGTCCCGAAGGACCA
12414 CTATGAAA-TGTCCCGAAGGACCA
1 CTATGAAATTGTCCCGAAGGACCA
12437 CT
1 CT
12439 GTGTCCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 17 0.68
25 8 0.32
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (24 bp):
CTATGAAATTGTCCCGAAGGACCA
Found at i:16781 original size:23 final size:23
Alignment explanation
Indices: 16755--16805 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
16745 CCACTAGGGG
*
16755 CTATGAAATTGTCCTTAA-GACCA
1 CTATGAAA-TGTCCTGAATGACCA
16778 CTATGAAATGTCCTGAATGACCA
1 CTATGAAATGTCCTGAATGACCA
16801 CTATG
1 CTATG
16806 TCCCGAAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (23 bp):
CTATGAAATGTCCTGAATGACCA
Found at i:23272 original size:15 final size:15
Alignment explanation
Indices: 23248--23277 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23238 CCCAAAGCAG
*
23248 AGGTATCGATACCAT
1 AGGTACCGATACCAT
23263 AGGTACCGATACCAT
1 AGGTACCGATACCAT
23278 CAAGCATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (15 bp):
AGGTACCGATACCAT
Found at i:24032 original size:23 final size:23
Alignment explanation
Indices: 24005--24055 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
23995 TGGCACTACG
*
24005 GTGCAATTCTACGCGACACTTCA
1 GTGCAAATCTACGCGACACTTCA
* * *
24028 TTGCAAATCTACGTGGCACTTCA
1 GTGCAAATCTACGCGACACTTCA
24051 GTGCA
1 GTGCA
24056 TTTATACGAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (23 bp):
GTGCAAATCTACGCGACACTTCA
Found at i:24509 original size:23 final size:23
Alignment explanation
Indices: 24483--24530 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
24473 GTATAAACCT
24483 ATGTATAATATCGTATTTTCTTA
1 ATGTATAATATCGTATTTTCTTA
24506 ATGTATAATATCGTATTTTCTTA
1 ATGTATAATATCGTATTTTCTTA
24529 AT
1 AT
24531 ATAAGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (23 bp):
ATGTATAATATCGTATTTTCTTA
Found at i:27782 original size:15 final size:17
Alignment explanation
Indices: 27742--27783 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
27732 GACTTTTTTT
27742 TTTAAT-TAAGAGTGTA
1 TTTAATATAAGAGTGTA
27758 TTTAAATATAAGA-TGTA
1 TTT-AATATAAGAGTGTA
27775 -TTAATATAA
1 TTTAATATAA
27784 TTATTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 7 0.29
18 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (17 bp):
TTTAATATAAGAGTGTA
Found at i:33157 original size:14 final size:14
Alignment explanation
Indices: 33138--33165 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33128 TAACAGACTT
33138 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
33152 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
33166 TGGTATCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:35025 original size:51 final size:51
Alignment explanation
Indices: 34925--35025 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
34915 TCAGAGGGAG
* *
34925 AGTTAAAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTAAAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
* *
34976 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTATAACCTAT
1 AGTTAAAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
35026 CATTTCCTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (51 bp):
AGTTAAAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
Found at i:37269 original size:14 final size:14
Alignment explanation
Indices: 37250--37277 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37240 TAACAGACTT
37250 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
37264 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
37278 CAAGGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:38752 original size:16 final size:15
Alignment explanation
Indices: 38712--38749 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
38702 CGTTCATTTA
38712 ATAAATAA-ACGAAC
1 ATAAATAACACGAAC
38726 ATAAATGAACACGAAC
1 ATAAAT-AACACGAAC
38742 ATAAATAA
1 ATAAATAA
38750 ACAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 4 0.18
16 12 0.55
ACGTcount: A:0.63, C:0.13, G:0.08, T:0.16
Consensus pattern (15 bp):
ATAAATAACACGAAC
Found at i:38839 original size:16 final size:16
Alignment explanation
Indices: 38818--38849 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38808 CATTTAATAA
38818 ATAAACGAACACAAAC
1 ATAAACGAACACAAAC
*
38834 ATAAACGAACATAAAC
1 ATAAACGAACACAAAC
38850 GAACATAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.62, C:0.22, G:0.06, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACAAAC
Found at i:38844 original size:10 final size:10
Alignment explanation
Indices: 38831--38860 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
38821 AACGAACACA
38831 AACATAAACG
1 AACATAAACG
38841 AACATAAACG
1 AACATAAACG
38851 AACATAAACG
1 AACATAAACG
38861 TTGGAGACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.10, T:0.10
Consensus pattern (10 bp):
AACATAAACG
Found at i:39982 original size:24 final size:24
Alignment explanation
Indices: 39949--40014 Score: 114
Period size: 24 Copynumber: 2.8 Consensus size: 24
39939 AACATAAATG
39949 AACGAACATAACCGAACGAGCATA
1 AACGAACATAACCGAACGAGCATA
*
39973 AACGAGCATAACCGAACGAGCATA
1 AACGAACATAACCGAACGAGCATA
*
39997 AATGAACATAACCGAACG
1 AACGAACATAACCGAACG
40015 TTCACGAACG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.09
Consensus pattern (24 bp):
AACGAACATAACCGAACGAGCATA
Found at i:39990 original size:14 final size:14
Alignment explanation
Indices: 39948--39997 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
39938 AAACATAAAT
*
39948 GAACGAACATAACC
1 GAACGAGCATAACC
39962 GAACGAGCAT-A--
1 GAACGAGCATAACC
39973 -AACGAGCATAACC
1 GAACGAGCATAACC
39986 GAACGAGCATAA
1 GAACGAGCATAA
39998 ATGAACATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.29
11 1 0.03
13 1 0.03
14 20 0.65
ACGTcount: A:0.48, C:0.24, G:0.20, T:0.08
Consensus pattern (14 bp):
GAACGAGCATAACC
Found at i:40003 original size:14 final size:14
Alignment explanation
Indices: 39941--40003 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 14
39931 TTGGGTTAAA
* *
39941 CATAAATGAACGAA
1 CATAAACGAACGAG
*
39955 CATAACCGAACGAG
1 CATAAACGAACGAG
39969 CAT--A--AACGAG
1 CATAAACGAACGAG
*
39979 CATAACCGAACGAG
1 CATAAACGAACGAG
*
39993 CATAAATGAAC
1 CATAAACGAAC
40004 ATAACCGAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 9 0.24
14 29 0.76
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.11
Consensus pattern (14 bp):
CATAAACGAACGAG
Found at i:40358 original size:13 final size:13
Alignment explanation
Indices: 40340--40364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40330 TATCACATCG
40340 AAATAAAAAAATT
1 AAATAAAAAAATT
40353 AAATAAAAAAAT
1 AAATAAAAAAAT
40365 ATTTTTATTA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAAAAATT
Found at i:49504 original size:24 final size:24
Alignment explanation
Indices: 49477--49533 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
49467 CACCACAACT
*
49477 CGTATAAAT-TGCACCGAAGTGCCG
1 CGTA-AAATATGCACCGAAGTGCCA
*
49501 CGTAGAATATGCACCGAAGTGCCA
1 CGTAAAATATGCACCGAAGTGCCA
49525 CGTAGAAAT
1 CGTA-AAAT
49534 GTCTTGAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 22 0.79
25 3 0.11
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (24 bp):
CGTAAAATATGCACCGAAGTGCCA
Found at i:49624 original size:23 final size:23
Alignment explanation
Indices: 49501--49626 Score: 85
Period size: 23 Copynumber: 5.3 Consensus size: 23
49491 CGAAGTGCCG
49501 CGTAGAATATG-CACCGAAGTG-CCA
1 CGTAGAA-ATGTC-CCGAAG-GACCA
**
49525 CGTAGAAATGTCTTGAAGGATGACCA
1 CGTAGAAATGTCCCGAA-G--GACCA
* **
49551 CATAGGTATGTCCCGAAGGACCA
1 CGTAGAAATGTCCCGAAGGACCA
* *
49574 CATAGAAATGTCCCGAAGAACCA
1 CGTAGAAATGTCCCGAAGGACCA
* * * *
49597 TGTAGAATTGTCCCGTAGGACCG
1 CGTAGAAATGTCCCGAAGGACCA
49620 CGTAGAA
1 CGTAGAA
49627 CCCTTGACTC
Statistics
Matches: 81, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
23 54 0.67
24 9 0.11
25 3 0.04
26 15 0.19
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGTCCCGAAGGACCA
Found at i:49775 original size:45 final size:45
Alignment explanation
Indices: 49726--49829 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
49716 ATCATATAGA
* *
49726 CATATAATCACATAAATCATAT-TCACATAACTTATATCACTTTTT
1 CATATAATCACATAAATCA-ATGCCACATAACTTATATCACATTTT
** * *
49771 CATATAATCACATAGGTTAATGCCACATAGCTTATATCACATTTT
1 CATATAATCACATAAATCAATGCCACATAACTTATATCACATTTT
*
49816 CATGTAATCACATA
1 CATATAATCACATA
49830 GGTCAATATC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 2 0.04
45 49 0.96
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.37
Consensus pattern (45 bp):
CATATAATCACATAAATCAATGCCACATAACTTATATCACATTTT
Found at i:59892 original size:21 final size:21
Alignment explanation
Indices: 59819--59900 Score: 69
Period size: 21 Copynumber: 3.9 Consensus size: 21
59809 CAGAACCCCA
*
59819 GGGGGTATCGATTCCC-C-TG
1 GGGGGGATCGATTCCCTCATG
* **
59838 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGG-ATCGATT-CCC-TCATG
* *
59862 GGGGGAATCGGTTCCCTCATG
1 GGGGGGATCGATTCCCTCATG
59883 GGGGGGATCGATTCCCTC
1 GGGGGGATCGATTCCCTC
59901 TGCACCAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
19 5 0.10
20 6 0.12
21 22 0.45
22 3 0.06
23 8 0.16
24 5 0.10
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.23
Consensus pattern (21 bp):
GGGGGGATCGATTCCCTCATG
Found at i:76382 original size:16 final size:16
Alignment explanation
Indices: 76361--76399 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
76351 TCTATCTTTT
76361 TAATCTCCTTACTCCC
1 TAATCTCCTTACTCCC
* *
76377 TAATCTCTTTACTCCT
1 TAATCTCCTTACTCCC
76393 TAATCTC
1 TAATCTC
76400 AAAAACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATCTCCTTACTCCC
Found at i:77690 original size:54 final size:54
Alignment explanation
Indices: 77600--78104 Score: 561
Period size: 54 Copynumber: 9.4 Consensus size: 54
77590 TTTATTGAGA
* * * * * * * *
77600 TGCACACGTATTGTCTATACCGTCATTCATAAATATATTATGAATTTCAT-GGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
* * ** * *
77653 T-CATACACATAGTGCTTATATAGTCGTTCATCAATATATGATGAATTTCGTGGGT
1 TGC--ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
* * * *
77708 TGCACACTTAATGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
* * *
77762 TGCACATTTAGTGCCTATACGGTCGTTCATCAATATATGATGAA-TTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTC-ATGGGT
* * * *
77816 TGTACAGTTAGTGCCTATATGGTCGTCCATCAACATATGATGAA-TTC-TGAGGAT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATG-GG-T
** * * **
77870 TATACACTTAGTACCTATGCGGTCGTTCATCAACATATGATGAATTTTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
* * *
77924 TGCACACTTAGTGCCTATACGGTCGTTCATCAATATATGATGAATTCCATAGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
*
77978 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCATGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
* * ** * *
78032 TGCACACTTAGTGCCTATACAGTCGTTCATCATCATATGACAAATTCCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
78086 TGCACACTTAGTGCCTATA
1 TGCACACTTAGTGCCTATA
78105 GTACACATAT
Statistics
Matches: 392, Mismatches: 51, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
52 3 0.01
53 5 0.01
54 373 0.95
55 8 0.02
56 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCATGGGT
Found at i:77900 original size:162 final size:161
Alignment explanation
Indices: 77600--78104 Score: 638
Period size: 162 Copynumber: 3.1 Consensus size: 161
77590 TTTATTGAGA
* * * * * * * * *
77600 TGCACACGTATTGTCTATACCGTCATTCATAAATATATTATGAATTTCAT-GGTT-CATACACAT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAATATATGATGAATTCCATAGGTTGC--ACACTT
* * * * *
77663 AGTGCTTATATAGTCGTTCATCAATATATGATGAATTTCGTGGGTTGCACACTTAATGCCTATAC
64 AGTGCCTATATGGTCGTTCATCAACATATGATGAA-TTCATGGGTTGCACACTTAGTGCCTATAC
*
77728 GGTTGTTCATCAACATATGATGAATTCCGTGGGT
128 GGTCGTTCATCAACATATGATGAATTCCGTGGGT
* ** * * *
77762 TGCACATTTAGTGCCTATACGGTCGTTCATCAATATATGATGAATTCTGTGGGTTGTACAGTTAG
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAATATATGATGAATTCCATAGGTTGCACACTTAG
* ** * *
77827 TGCCTATATGGTCGTCCATCAACATATGATGAATTC-TGAGGATTATACACTTAGTACCTATGCG
66 TGCCTATATGGTCGTTCATCAACATATGATGAATTCATG-GG-TTGCACACTTAGTGCCTATACG
**
77891 GTCGTTCATCAACATATGATGAATTTTGTGGGT
129 GTCGTTCATCAACATATGATGAATTCCGTGGGT
77924 TGCACACTTAGTGCCTATACGGTCGTTCATCAATATATGATGAATTCCATAGGTTGCACACTTAG
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAATATATGATGAATTCCATAGGTTGCACACTTAG
* *
77989 TGCCTATACGGTCGTTCATCAACATATGATGAATTCCATGGGTTGCACACTTAGTGCCTATACAG
66 TGCCTATATGGTCGTTCATCAACATATGATGAATT-CATGGGTTGCACACTTAGTGCCTATACGG
* **
78054 TCGTTCATCATCATATGACAAATTCCGTGGGT
130 TCGTTCATCAACATATGATGAATTCCGTGGGT
78086 TGCACACTTAGTGCCTATA
1 TGCACACTTAGTGCCTATA
78105 GTACACATAT
Statistics
Matches: 293, Mismatches: 44, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
160 2 0.01
161 5 0.02
162 277 0.95
163 7 0.02
164 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (161 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAATATATGATGAATTCCATAGGTTGCACACTTAG
TGCCTATATGGTCGTTCATCAACATATGATGAATTCATGGGTTGCACACTTAGTGCCTATACGGT
CGTTCATCAACATATGATGAATTCCGTGGGT
Found at i:78468 original size:14 final size:15
Alignment explanation
Indices: 78451--78482 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
78441 TCGGTACCTC
78451 TACC-CTGGTATCGA
1 TACCACTGGTATCGA
78465 TACCACTGGTATCGA
1 TACCACTGGTATCGA
78480 TAC
1 TAC
78483 TTCTATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (15 bp):
TACCACTGGTATCGA
Found at i:79972 original size:54 final size:54
Alignment explanation
Indices: 79864--80139 Score: 325
Period size: 54 Copynumber: 5.2 Consensus size: 54
79854 GTTAAGATTA
* * * *
79864 ACACGTAGTGCCTATACAGTCATTCAT-AA-ATAT-ATGAATTAT-GT-GGTTCGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TCGTGGGTT-AC
* * * *
79915 ACACATAGTGCATAAATGGTCGTTCAAT-AACATATGATGAATTTCGTGGGTTAC
1 ACACTTAGTGCCTATACGGTCGTTC-ATCAACATATGATGAATTTCGTGGGTTAC
* *
79969 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTTGTGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTAC
*
80023 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTAT-GTGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-TCGTGGGTTAC
** *
80077 ACACTTAGTGCCTATACGACCATTCATCAACATATGATGAA-TTCAGTGGGTTAC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTC-GTGGGTTAC
80131 ACACTTAGT
1 ACACTTAGT
80140 ATCTATAGTA
Statistics
Matches: 199, Mismatches: 17, Indels: 15
0.86 0.07 0.06
Matches are distributed among these distances:
51 19 0.10
52 5 0.03
53 8 0.04
54 162 0.81
55 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTAC
Found at i:80055 original size:108 final size:108
Alignment explanation
Indices: 79864--80139 Score: 359
Period size: 108 Copynumber: 2.6 Consensus size: 108
79854 GTTAAGATTA
* * *
79864 ACACGTAGTGCCTATACAGTCATTCAT-AA-ATAT-ATGAATTATGT-GGTTCGCACACATAGTG
1 ACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATTATGTGGGTT-GCACACTTAGTG
*
79925 CATAAATGGTCGTTCAATAACATATGATGAATT-TCGTGGGTTAC
65 CATAAACGGTCGTTCAATAACATATGATGAATTAT-GTGGGTTAC
* *
79969 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTTGTGGGTTGCACACTTAGTGC
1 ACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATTATGTGGGTTGCACACTTAGTGC
* * *
80034 CTATACGGTCGTTC-ATCAACATATGATGAATTATGTGGGTTGC
66 ATAAACGGTCGTTCAAT-AACATATGATGAATTATGTGGGTTAC
** *
80077 ACACTTAGTGCCTATACGACCATTCATCAACATATGATGAATTCA-GTGGGTTACACACTTAGT
1 ACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATT-ATGTGGGTTGCACACTTAGT
80140 ATCTATAGTA
Statistics
Matches: 150, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
105 24 0.16
106 2 0.01
107 6 0.04
108 113 0.75
109 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (108 bp):
ACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATTATGTGGGTTGCACACTTAGTGC
ATAAACGGTCGTTCAATAACATATGATGAATTATGTGGGTTAC
Found at i:82134 original size:86 final size:88
Alignment explanation
Indices: 82018--82188 Score: 265
Period size: 86 Copynumber: 2.0 Consensus size: 88
82008 TACCTTAATT
* **
82018 TAAATATTTATGCATGTGATTCATTGCAAATGATATCTCTCTAACTATTGATATCAA-TTTTTT-
1 TAAATATTTATGCATGTGATTCATTGCAAATGATATATCTCTAAAAATTGATATCAATTTTTTTA
82081 AATGCATAACATTTTTGGAAGTA
66 AATGCATAACATTTTTGGAAGTA
* * *
82104 TAAATGTTTATGCTTGTGATTTATTGCAAATGATATATCTCTAAAAATTGATATCAATTTTTTTC
1 TAAATATTTATGCATGTGATTCATTGCAAATGATATATCTCTAAAAATTGATATCAATTTTTTT-
82169 AAATGCATAACATTTTTGGA
65 AAATGCATAACATTTTTGGA
82189 TAGCTTTATG
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
86 51 0.67
87 6 0.08
89 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.44
Consensus pattern (88 bp):
TAAATATTTATGCATGTGATTCATTGCAAATGATATATCTCTAAAAATTGATATCAATTTTTTTA
AATGCATAACATTTTTGGAAGTA
Found at i:84447 original size:21 final size:21
Alignment explanation
Indices: 84418--84480 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
84408 AGTCGAGGGT
*
84418 TATATGAGGTCATTCGGGACA
1 TATATGAGGTCCTTCGGGACA
* *
84439 TATACGAGGTCCTTCGGCACA
1 TATATGAGGTCCTTCGGGACA
*
84460 TACATGAGGTCCTTCGGGACA
1 TATATGAGGTCCTTCGGGACA
84481 AATTTTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (21 bp):
TATATGAGGTCCTTCGGGACA
Found at i:90195 original size:20 final size:20
Alignment explanation
Indices: 90172--90222 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
90162 CTAAAAGGTA
90172 GTATCGATACCCTAAGGCAT
1 GTATCGATACCCTAAGGCAT
90192 GTATCGATACCCTAAGGCAT
1 GTATCGATACCCTAAGGCAT
90212 GTATCGATACC
1 GTATCGATACC
90223 ATTTTGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (20 bp):
GTATCGATACCCTAAGGCAT
Found at i:90806 original size:21 final size:21
Alignment explanation
Indices: 90777--90837 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
90767 AGTCGAGGGT
*
90777 TATATGAGGTCCTTCGGGACA
1 TATATGAGGTCTTTCGGGACA
* *
90798 TATACGAGGTCTTTCTGGACA
1 TATATGAGGTCTTTCGGGACA
*
90819 TACATGAGGTCTTTCGGGA
1 TATATGAGGTCTTTCGGGA
90838 AAAATGTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (21 bp):
TATATGAGGTCTTTCGGGACA
Found at i:91744 original size:22 final size:21
Alignment explanation
Indices: 91718--91758 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
91708 TTAAAAATTA
*
91718 TAAAGGAAGTACTGATACTCAT
1 TAAAGG-AGTACCGATACTCAT
*
91740 TAAAGGGGTACCGATACTC
1 TAAAGGAGTACCGATACTC
91759 CCTGTCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (21 bp):
TAAAGGAGTACCGATACTCAT
Found at i:99043 original size:15 final size:16
Alignment explanation
Indices: 99011--99050 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
99001 ATTCCTTATA
*
99011 TTAATTTTTTAGTAAT
1 TTAATTTTGTAGTAAT
*
99027 TTAATTTTGTAGTATT
1 TTAATTTTGTAGTAAT
99043 TTATATTT
1 TTA-ATTT
99051 AATTTATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (16 bp):
TTAATTTTGTAGTAAT
Found at i:103394 original size:16 final size:18
Alignment explanation
Indices: 103362--103400 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
103352 ATATATACAT
103362 ATAATAATAACATGAATA
1 ATAATAATAACATGAATA
103380 ATAA-AATAA-ATGAATA
1 ATAATAATAACATGAATA
103396 A-AATA
1 ATAATA
103401 TCCATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.10
16 9 0.45
17 5 0.25
18 4 0.20
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAATAATAACATGAATA
Found at i:104673 original size:105 final size:105
Alignment explanation
Indices: 104440--104999 Score: 880
Period size: 105 Copynumber: 5.4 Consensus size: 105
104430 ACAACCAGTC
* * * *
104440 GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAA
1 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
104505 ATTGACTCTG-AA-TGA-AA-TT-TTGTTAACAAGCAGCG
66 ATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCG
104540 GTCCCTTCGTCGT-AGAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
1 GTCCCTTCGTCGTGA-AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
* * *
104604 AATTGGCTATGAGATTGGGAAGTTGTTGTTGACAAGCAGCG
65 AATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCG
*
104645 GTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
104710 ATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCG
66 ATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCG
*
104750 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTTGAA
1 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
104815 ATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCG
66 ATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCG
*
104855 GTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
1 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
104920 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCC
66 ATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAGCAGCG
* * * *
104961 ATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
1 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
105000 GTCACGATAT
Statistics
Matches: 430, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
99 1 0.00
100 67 0.16
101 1 0.00
102 2 0.00
103 2 0.00
104 2 0.00
105 304 0.71
106 51 0.12
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
ATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCG
Found at i:105384 original size:104 final size:104
Alignment explanation
Indices: 105174--105487 Score: 471
Period size: 104 Copynumber: 3.1 Consensus size: 104
105164 TTCGTTAAAT
* ** *
105174 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* * * *
105236 AAGCTATCTCAAGAGAGATAAAATTCATTTCTAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAAATCATTTCAAGGGAAA
* *
105275 TGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGATAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
105340 AAACTATCTCAAGAGAGAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAAATCATTTCAAGGGAAA
*
105379 TGTTTTCAATATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
105444 AAACTATCTC-AG-GAGAGAAAAA--ATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAAATCATTTCAAGGGAAA
105479 TGTTTTCAA
1 TGTTTTCAA
105488 GAGAAACTGT
Statistics
Matches: 196, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
100 22 0.11
101 44 0.22
102 9 0.05
103 5 0.03
104 116 0.59
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAAATCATTTCAAGGGAAA
Found at i:105448 original size:39 final size:39
Alignment explanation
Indices: 105394--105540 Score: 102
Period size: 39 Copynumber: 3.6 Consensus size: 39
105384 TCAATATTTA
* *
105394 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
105433 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAA-TTTC
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
* *
105471 AAGGGAAATGTTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 --------TG-TTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
105519 TGTTTCGAGGGAAACTATCTCA
1 TGTTTCAAGAGAAACTATCTCA
105541 AGCAAGATAA
Statistics
Matches: 85, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
38 8 0.09
39 42 0.49
40 2 0.02
46 2 0.02
47 24 0.28
48 7 0.08
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:105553 original size:86 final size:86
Alignment explanation
Indices: 105396--105553 Score: 282
Period size: 86 Copynumber: 1.8 Consensus size: 86
105386 AATATTTATG
*
105396 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAGGAGAG
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAGCAGAG
105461 AAAAAATTTCAAGGGAAATGT
66 AAAAAATTTCAAGGGAAATGT
105482 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGCA-A
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTC-AGCAGA
*
105546 GATAAAAT
65 GAAAAAAT
105554 CTTCTTAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
86 66 0.96
87 3 0.04
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (86 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAGCAGAG
AAAAAATTTCAAGGGAAATGT
Found at i:107037 original size:183 final size:183
Alignment explanation
Indices: 106729--107265 Score: 943
Period size: 183 Copynumber: 2.9 Consensus size: 183
106719 ATCAGGTTTA
* * *
106729 ACTGAAGGATTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACTGAATT
* **
106794 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
106858 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
*
106912 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACTGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACTGAATT
106977 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
107042 TCATCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
*
107095 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAA-AATCGAAT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACT-GAAT
*
107159 TGCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGGGT
65 TGCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
107224 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
107266 CGGATTTAAT
Statistics
Matches: 339, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
182 2 0.01
183 336 0.99
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACTGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
Found at i:114457 original size:356 final size:355
Alignment explanation
Indices: 113803--114505 Score: 1120
Period size: 356 Copynumber: 2.0 Consensus size: 355
113793 TTCAAAACCA
*
113803 ATAAAACCAGAAGGGTTAGTTGCAAAATCCACCATTGCACTCGAAGAAATCACCGCCTCTAATAG
1 ATAAAACCAGAAGGGTTAGTTGCAAAAACCACCATTGCACTCGAAGAAATCACCGCCTCTAATAG
* * *
113868 GGCAGTGAAAGTAAAAGTTGAGGAATCCGATAGAAGTTCTACTGATATGGAGGTTGTTGAAGTTA
66 GGCAGTGAAAGTAAAAGCTGAGGAATCCGACAGAAGTTCTACTGAAATGGAGGTTGTTGAAGTTA
* * *
113933 TATATAGAGGGACCAAAAGGATGTTAGGTAAGGCAATCACCTCTAACTTGATTGATCACTTATTT
131 AAGATAGAGGGACCAAAAGGAAGTTAGGTAAGGCAATCACCTCTAACTTGATTGATCACTTATTT
* * * *
113998 TGATTTTGGATTTTACATTAACATTACAGATTTCTTCCCTATAGAACAAAAGGAACACAAGGAAT
196 TGATGTTGGATTTTACATTAACATTACAAATCTCTTCCCTATAGAACAAAAGGAACACAAAGAAT
* ****
114063 TGATTACCTTGGTTGAAAGCTGTTCTTCGCCGACCTTAATTGGCCCCTATTCAAGCAATATAATC
261 TGATTACCTTGGTAGAAAGCCACACTTCGCCGACCTTAATTGGCCCCTATTCAAGCAATATAATC
114128 CCCAGTCAACACAAAAGAAAGTTGAGCAAT
326 CCCAGTCAACACAAAAGAAAGTTGAGCAAT
* ***
114158 ATAAAACCAGAAGGGTTAGTTGCAAAAACCACCATTGCTCTCGAAGAAA-CTGTTGCCTCTAATA
1 ATAAAACCAGAAGGGTTAGTTGCAAAAACCACCATTGCACTCGAAGAAATC-ACCGCCTCTAATA
* *
114222 GGGCAGTGAAAGTAAAAGCTGAGGAATCCGACATAAGTTCTATTGAAATGGAGGTTGTTGAAGTT
65 GGGCAGTGAAAGTAAAAGCTGAGGAATCCGACAGAAGTTCTACTGAAATGGAGGTTGTTGAAGTT
* *
114287 AAAGATAAGAGGGACTAAAAGGAAGTTAGGTAAGGCAATCACCTCTAACTTGATTGATTACTTAT
130 AAAGAT-AGAGGGACCAAAAGGAAGTTAGGTAAGGCAATCACCTCTAACTTGATTGATCACTTAT
* * * *
114352 TTTGATGTTGGATTTTACATTAACATTACAAATCTCTTCTCTATAGAACAAGAGGAGCGCAAAGA
194 TTTGATGTTGGATTTTACATTAACATTACAAATCTCTTCCCTATAGAACAAAAGGAACACAAAGA
*
114417 ATTGATTACCTTGGTAGAAAGCCACACTTCGCCTACCTTAATTGGCCCCTATTCAAGCAATATAA
259 ATTGATTACCTTGGTAGAAAGCCACACTTCGCCGACCTTAATTGGCCCCTATTCAAGCAATATAA
114482 TCCCCAGTCAACACAAAAGAAAGT
324 TCCCCAGTCAACACAAAAGAAAGT
114506 CGAGAAGTCT
Statistics
Matches: 317, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
354 1 0.00
355 121 0.38
356 195 0.62
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (355 bp):
ATAAAACCAGAAGGGTTAGTTGCAAAAACCACCATTGCACTCGAAGAAATCACCGCCTCTAATAG
GGCAGTGAAAGTAAAAGCTGAGGAATCCGACAGAAGTTCTACTGAAATGGAGGTTGTTGAAGTTA
AAGATAGAGGGACCAAAAGGAAGTTAGGTAAGGCAATCACCTCTAACTTGATTGATCACTTATTT
TGATGTTGGATTTTACATTAACATTACAAATCTCTTCCCTATAGAACAAAAGGAACACAAAGAAT
TGATTACCTTGGTAGAAAGCCACACTTCGCCGACCTTAATTGGCCCCTATTCAAGCAATATAATC
CCCAGTCAACACAAAAGAAAGTTGAGCAAT
Found at i:117805 original size:3 final size:3
Alignment explanation
Indices: 117797--117845 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
117787 CCTGAAAATA
* *
117797 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT -AT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
117844 AA
1 AA
117846 ATTAGAACTC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:121751 original size:15 final size:14
Alignment explanation
Indices: 121725--121765 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
121715 AAATAAAATT
121725 AATTATTTATTTGA
1 AATTATTTATTTGA
*
121739 AATTATATTATTTTA
1 AATTAT-TTATTTGA
*
121754 AATTATCTATTT
1 AATTATTTATTT
121766 AATTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (14 bp):
AATTATTTATTTGA
Found at i:121891 original size:19 final size:19
Alignment explanation
Indices: 121839--121891 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
121829 TCCGTGCAAT
*
121839 ATTATTTAAAATTAAAT-AG
1 ATTATTTAAAA-TAAATAAC
*
121858 ATAATTT--AA-AAATAAC
1 ATTATTTAAAATAAATAAC
121874 ATTATTTAAAATAAATAA
1 ATTATTTAAAATAAATAA
121892 TTAATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
15 4 0.15
16 7 0.26
17 2 0.07
18 2 0.07
19 12 0.44
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTATTTAAAATAAATAAC
Found at i:121911 original size:23 final size:23
Alignment explanation
Indices: 121867--121931 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
121857 GATAATTTAA
*
121867 AAATAACATTATTTAAAATAAAT
1 AAATAATATTATTTAAAATAAAT
* * *
121890 AATTAATATTATTTCAATTAAAT
1 AAATAATATTATTTAAAATAAAT
*
121913 AAATAATATGATTCTAAAA
1 AAATAATATTATT-TAAAA
121932 ATTAAAAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 30 0.91
24 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (23 bp):
AAATAATATTATTTAAAATAAAT
Found at i:122001 original size:2 final size:2
Alignment explanation
Indices: 121994--122025 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
121984 TAATATGAAT
121994 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
122026 AATAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122133 original size:3 final size:3
Alignment explanation
Indices: 122125--122180 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
122115 CGAGACTATA
* * *
122125 TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAA TAT TAT TA- TAT ATATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T
122173 TAT TAT TA
1 TAT TAT TA
122181 CAAAAAATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.09
3 34 0.79
4 4 0.09
5 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:123468 original size:26 final size:25
Alignment explanation
Indices: 123411--123468 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
123401 AGATATATCC
* *
123411 TAATAATATATACTAATATTTAAAA
1 TAATAATATATAATAATAATTAAAA
*
123436 TAA-AATATATAATGGATAATTAAAA
1 TAATAATATATAAT-AATAATTAAAA
123461 TAATAATA
1 TAATAATA
123469 AAGACATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 9 0.32
25 15 0.54
26 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (25 bp):
TAATAATATATAATAATAATTAAAA
Found at i:130992 original size:1 final size:1
Alignment explanation
Indices: 130988--131071 Score: 51
Period size: 1 Copynumber: 84.0 Consensus size: 1
130978 AAAAGGAAAG
* * * * * * * * * *
130988 AAAAAGAAAAAAATAAAAATAAAAATAAAAATAAAAAGAAAAATAAAAATAAAGAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
131053 TAAAAATAAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAA
131072 GAGAAAAGAA
Statistics
Matches: 57, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.12
Consensus pattern (1 bp):
A
Found at i:130993 original size:6 final size:6
Alignment explanation
Indices: 130966--131093 Score: 66
Period size: 6 Copynumber: 21.3 Consensus size: 6
130956 ATACTCATCC
** * * * *
130966 AAAAGA AAATTA AAAAG- GAAAGA AAAAGAAA AAAATA AAAATA AAAATA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAG--A AAAAGA AAAAGA AAAAGA
* * * * * *
131015 AAAATA AAAAGA AAAA-T AAAA-A TAAAGA AAAATA AAAATA AAAATA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
131061 AAAAAA TAAAAGA GAAAAG- AAAAGA AGAAGA AA
1 AAAAGA -AAAAGA -AAAAGA AAAAGA AAAAGA AA
131094 TTGAATCAAG
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
5 16 0.16
6 67 0.68
7 10 0.10
8 5 0.05
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.09
Consensus pattern (6 bp):
AAAAGA
Found at i:131011 original size:12 final size:12
Alignment explanation
Indices: 130996--131064 Score: 106
Period size: 12 Copynumber: 5.9 Consensus size: 12
130986 AGAAAAAGAA
130996 AAAAATAAAAAT
1 AAAAATAAAAAT
131008 AAAAATAAAAAT
1 AAAAATAAAAAT
*
131020 AAAAAGAAAAAT
1 AAAAATAAAAAT
*
131032 AAAAAT--AAAG
1 AAAAATAAAAAT
131042 AAAAATAAAAAT
1 AAAAATAAAAAT
131054 AAAAATAAAAA
1 AAAAATAAAAA
131065 AATAAAAGAG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.18
12 42 0.82
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:131055 original size:40 final size:38
Alignment explanation
Indices: 130984--131083 Score: 130
Period size: 40 Copynumber: 2.6 Consensus size: 38
130974 ATTAAAAAGG
* *
130984 AAAGAAAAAGAAAAAAATAAAAATAAAAATAAAAATAA
1 AAAGAAAAAAAAAAAAAGAAAAATAAAAATAAAAATAA
131022 AAAGAAAAATAAAAATAAAGAAAAATAAAAATAAAAATAA
1 AAAGAAAAA-AAAAA-AAAGAAAAATAAAAATAAAAATAA
* *
131062 AAA-AATAAAAGAGAAAAGAAAA
1 AAAGAA-AAAAAAAAAAAGAAAA
131084 GAAGAAGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
38 17 0.31
39 9 0.16
40 29 0.53
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (38 bp):
AAAGAAAAAAAAAAAAAGAAAAATAAAAATAAAAATAA
Found at i:131078 original size:14 final size:14
Alignment explanation
Indices: 130988--131071 Score: 82
Period size: 14 Copynumber: 5.7 Consensus size: 14
130978 AAAAGGAAAG
*
130988 AAAAAGAAAAAAAT
1 AAAAATAAAAAAAT
131002 AAAAATAAAAATAA-
1 AAAAATAAAAA-AAT
*
131016 AAATAAAAAGAAAAAT
1 AAA-AATAA-AAAAAT
131032 AAAAATAAAGAAAAAT
1 AAAAAT-AA-AAAAAT
131048 AAAAATAAAAATAA-
1 AAAAATAAAAA-AAT
131062 AAAAATAAAA
1 AAAAATAAAA
131072 GAGAAAAGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
14 26 0.43
15 14 0.23
16 21 0.34
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.12
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:131079 original size:54 final size:55
Alignment explanation
Indices: 130966--131083 Score: 152
Period size: 52 Copynumber: 2.2 Consensus size: 55
130956 ATACTCATCC
* * *
130966 AAAAGAAAATTAAAAAGGAAAGAAAAAGAAAAAAATAAAAATAAAAATAAAAATA
1 AAAAGAAAAATAAAAAGGAAAGAAAAAGAAAAAAATAAAAATAAAAAAAAAAAGA
* *
131021 AAAAGAAAAATAAAAA-TAAAG-AAAA-ATAAAAATAAAAATAAAAAAATAAAAGA
1 AAAAGAAAAATAAAAAGGAAAGAAAAAGAAAAAAATAAAAATAAAAAAA-AAAAGA
131074 GAAAAGAAAA
1 -AAAAGAAAA
131084 GAAGAAGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
52 19 0.34
53 9 0.16
54 13 0.23
55 15 0.27
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.10
Consensus pattern (55 bp):
AAAAGAAAAATAAAAAGGAAAGAAAAAGAAAAAAATAAAAATAAAAAAAAAAAGA
Found at i:133894 original size:20 final size:20
Alignment explanation
Indices: 133866--133920 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
133856 TCTAGAAAAT
*
133866 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
* *
133886 TAAATCCTCCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
133906 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
133921 GGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:133991 original size:119 final size:119
Alignment explanation
Indices: 133760--134613 Score: 1422
Period size: 119 Copynumber: 7.2 Consensus size: 119
133750 ATTTTCCACA
* * * *
133760 AATTTGTAAATCTTCCA-GGTCATCTGTAAAACCTCGGGGTAGGATATTTTCGCATGAAAAATGA
1 AATTTGTAAAACCT-CAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATG-AAAATGA
*
133824 GAAAGTAATAATCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
64 GAAAGTAATAAACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
* *
133880 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* * *
133945 AAGTAATAAACAAAGGTTCTCATTTAATGTTATAGAAAATTAAAACCTCTGGGT
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
*
133999 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* *
134064 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGA
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
* * *
134118 AATTTGTAAAACCTCAAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTTGCTTGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
134183 AAGTAATAACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
*
134237 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* *
134302 AAGTAATAACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGAGT
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
* * * *
134356 AATTTGTAAATCCTCCGGGTCATTTGTAAAACCTCAGGGTAGGATTTTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* * *
134421 AAGTAATAAACAAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCTTCGAGT
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
*
134475 AATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
134540 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGT
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
134594 AATTTGTAAAACCTCAGGGT
1 AATTTGTAAAACCTCAGGGT
134614 ATGATGTTTT
Statistics
Matches: 691, Mismatches: 42, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
119 641 0.93
120 50 0.07
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (119 bp):
AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
AAGTAATAAACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
Found at i:134010 original size:20 final size:20
Alignment explanation
Indices: 133985--134039 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
133975 TATAGAAAAT
* *
133985 TAAAACCTCTGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
*
134005 TAAAACCTCAGGGTCATCTG
1 TAAAACCTCAGGGTAATCTG
134025 TAAAACCTCAGGGTA
1 TAAAACCTCAGGGTA
134040 GGATATTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:134179 original size:238 final size:237
Alignment explanation
Indices: 133760--135079 Score: 1885
Period size: 238 Copynumber: 5.7 Consensus size: 237
133750 ATTTTCCACA
* * * *
133760 AATTTGTAAATCTTCCA-GGTCATCTGTAAAACCTCGGGGTAGGATATTTTCGCATGAAAAATGA
1 AATTTGTAAAACCT-CAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATG-AAAATGA
* *
133824 GAAAGTAATAATCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGTAA
64 GAAAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTGTAA
*
133889 ATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAA
129 A-CCTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAA
* *
133954 ACAAAGGTTCTCATTTAATGTTATAGAAAATTAAAACCTCTGGGT
193 ACAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCTGGGT
*
133999 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATATTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
134064 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGAAATTTGTAAAA
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTGT-AAA
* * * *
134129 CCTCAAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTTGCTTGAAAATGAGAAAGTAATAACC
130 CCTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAAC
*
134194 AAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
195 AAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCTGGGT
*
134237 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* * *
134302 AAGTAATAACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGAGTAATTTGTAAAT
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTGTAAA-
* * *
134367 CCTCCGGGTCATTTGTAAAACCTCAGGGTAGGATTTTTTCGCATGAAAATGAGAAAGTAATAAAC
130 CCTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAAC
* *
134432 AAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCT-TCGAGT
195 AAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCT-GGGT
*
134475 AATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
134540 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCC-GG------GT--A-
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTGTAAAC
* * *
134595 ----A--T--T-TGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGAAAGAAATAACCA
131 CTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAACA
*
134651 AAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGT
196 AAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCTGGGT
* *
134693 AATTTGTAAAACCTCAGGATCATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
*
134758 AAGTAATAACCAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCC-GG------G-----
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTGTAAAC
* *
134811 -T-CA--T--T-TGTAAAACCTCAAGGTAGGATGTTTTCACATGAAAATGAGAAAGTAATAAACA
131 CTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAACA
*
134869 AAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCT-TCGGGT
196 AAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCT-GGGT
* *
134911 AATTTGTAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGTATGAAAATGAGA
1 AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
* * * *
134976 AAGTAATAAACAAAGTTTCTCATTTAATGTTCTAAAAAATTAAAACCTCTGGGTAATTTTTAAAA
66 AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTGT-AAA
* *
135041 CCTCCGGGTCATCTGTAAAACCTCAAGGTAGGATGTTTT
130 CCTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
135080 TTTTACTTTA
Statistics
Matches: 989, Mismatches: 64, Indels: 57
0.89 0.06 0.05
Matches are distributed among these distances:
218 398 0.40
219 3 0.00
221 1 0.00
229 1 0.00
231 2 0.00
232 1 0.00
233 1 0.00
235 1 0.00
237 5 0.01
238 523 0.53
239 53 0.05
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (237 bp):
AATTTGTAAAACCTCAGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGA
AAGTAATAAACAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTGTAAAC
CTCCAGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAACA
AAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCTGGGT
Found at i:134248 original size:20 final size:20
Alignment explanation
Indices: 134223--134277 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
134213 TCTAGAAAAT
* *
134223 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCAGGGTAATCTG
*
134243 TAAAACCTCAGGGTCATCTG
1 TAAAACCTCAGGGTAATCTG
*
134263 TAAAACCTCAAGGTA
1 TAAAACCTCAGGGTA
134278 GGATGTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATCTG
Found at i:134395 original size:20 final size:20
Alignment explanation
Indices: 134342--134396 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
134332 TCTAGAAAAT
*
134342 TAAAACCTCCGAGTAATTTG
1 TAAAACCTCCGGGTAATTTG
* *
134362 TAAATCCTCCGGGTCATTTG
1 TAAAACCTCCGGGTAATTTG
*
134382 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
134397 GGATTTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATTTG
Found at i:134486 original size:20 final size:20
Alignment explanation
Indices: 134461--134509 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
134451 TCTAGAAAAT
* *
134461 TAAAACCTTCGAGTAATTTG
1 TAAAACCTCCGAGTAATCTG
* *
134481 TAAAACCTCCGGGTCATCTG
1 TAAAACCTCCGAGTAATCTG
134501 TAAAACCTC
1 TAAAACCTC
134510 AGGGTAGGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (20 bp):
TAAAACCTCCGAGTAATCTG
Found at i:134635 original size:218 final size:218
Alignment explanation
Indices: 134362--135049 Score: 1178
Period size: 218 Copynumber: 3.2 Consensus size: 218
134352 GAGTAATTTG
* * *
134362 TAAATCCTCCGGGTCATTTGTAAAACCTCAGGGTAGGATTTTTTCGCATGAAAATGAGAAAGTAA
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAA
*
134427 TAAACAAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCTTCGAGTAATTTGTAAAACCTCCG
66 TAAACAAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCTTCGGGTAATTTGTAAAACCTCCG
134492 GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAACAAAGTT
131 GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAACAAAGTT
134557 TCTCATTTAATGTTATAGAAAAT
196 TCTCATTTAATGTTATAGAAAAT
* *
134580 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGAAAGAAA
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAA
* * * *
134645 TAACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGTAAAACCTCAG
66 TAAACAAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCTTCGGGTAATTTGTAAAACCTCCG
* * *
134710 GATCATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAACCAAAGTT
131 GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAACAAAGTT
134775 TCTCATTTAATGTTATAGAAAAT
196 TCTCATTTAATGTTATAGAAAAT
* * *
134798 TAAAACCTCCGGGTCATTTGTAAAACCTCAAGGTAGGATGTTTTCACATGAAAATGAGAAAGTAA
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAA
134863 TAAACAAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCTTCGGGTAATTTGTAAAACCTCCG
66 TAAACAAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCTTCGGGTAATTTGTAAAACCTCCG
*
134928 GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGTATGAAAATGAGAAAGTAATAAACAAAGTT
131 GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAACAAAGTT
* *
134993 TCTCATTTAATGTTCTAAAAAAT
196 TCTCATTTAATGTTATAGAAAAT
* * *
135016 TAAAACCTCTGGGTAATTTTTAAAACCTCCGGGT
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGT
135050 CATCTGTAAA
Statistics
Matches: 437, Mismatches: 33, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
218 437 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (218 bp):
TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAA
TAAACAAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCTTCGGGTAATTTGTAAAACCTCCG
GGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAATAAACAAAGTT
TCTCATTTAATGTTATAGAAAAT
Found at i:134653 original size:99 final size:99
Alignment explanation
Indices: 134481--134930 Score: 488
Period size: 99 Copynumber: 4.3 Consensus size: 99
134471 GAGTAATTTG
* * *
134481 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAA
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAAA
134546 TAAACAAAGTTTCTCATTTAATGTTATAGAAAAT
66 TAAACAAAGTTTCTCATTTAATGTTATAGAAAAT
*
134580 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGAAAGAAA
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAAA
* *
134645 TAACCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TAAACAAAGTTTCTCATTTAATGTTATAGAAAAT
* ** * * *
134679 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGATCA-TCTGTAAAACCTCAAGGTAGGATGTTTT
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGT-AGGATGT------T----TTCGCATG----
*** *
134743 CGCATGAAAATGAGAAAGTAATAACCAAAGTTTCTCATTTAATGTTATAGAAAAT
51 AAAATGAGAA--AGAAA-T-A-AA-CAAAGTTTCTCATTTAATGTTATAGAAAAT
* * * *
134798 TAAAACCTCCGGGTCATTTGTAAAACCTCAAGGTAGGATGTTTTCACATGAAAATGAGAAAGTAA
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAAA
* *
134863 TAAACAAAGTTTGTCATTTAATGTTCTAGAAAAT
66 TAAACAAAGTTTCTCATTTAATGTTATAGAAAAT
* *
134897 TAAAACCTTCGGGTAATTTGTAAAACCTCCGGGT
1 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGT
134931 CATCTGTAAA
Statistics
Matches: 291, Mismatches: 38, Indels: 44
0.78 0.10 0.12
Matches are distributed among these distances:
99 187 0.64
100 3 0.01
101 1 0.00
102 1 0.00
103 4 0.01
105 7 0.02
109 9 0.03
113 7 0.02
115 5 0.02
116 1 0.00
117 1 0.00
118 2 0.01
119 63 0.22
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.30
Consensus pattern (99 bp):
TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGAAA
TAAACAAAGTTTCTCATTTAATGTTATAGAAAAT
Found at i:134704 original size:20 final size:20
Alignment explanation
Indices: 134679--134728 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
134669 TCTAGAAAAT
* * *
134679 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCAGGATAATCTG
*
134699 TAAAACCTCAGGATCATCTG
1 TAAAACCTCAGGATAATCTG
134719 TAAAACCTCA
1 TAAAACCTCA
134729 AGGTAGGATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (20 bp):
TAAAACCTCAGGATAATCTG
Found at i:134794 original size:119 final size:119
Alignment explanation
Indices: 134580--134827 Score: 415
Period size: 119 Copynumber: 2.1 Consensus size: 119
134570 TATAGAAAAT
* * * * *
134580 TAAAACCTCCGGGTAATTTGTAAAACCTCAGGGTATGATGTTTTCGCATGAAAATGAGAAAGAAA
1 TAAAACCTCAGGATAATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGAAAGAAA
*
134645 TAACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTG
66 TAACCAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTG
* *
134699 TAAAACCTCAGGATCATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGAAAGTAA
1 TAAAACCTCAGGATAATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGAAAGAAA
*
134764 TAACCAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTCATTTG
66 TAACCAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTG
134818 TAAAACCTCA
1 TAAAACCTCA
134828 AGGTAGGATG
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (119 bp):
TAAAACCTCAGGATAATCTGTAAAACCTCAAGGTAGGATGTTTTCGCATGAAAATGAGAAAGAAA
TAACCAAAGTTTCTCATTTAATGTTATAGAAAATTAAAACCTCCGGGTAATTTG
Found at i:134922 original size:20 final size:20
Alignment explanation
Indices: 134897--134951 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
134887 TCTAGAAAAT
* *
134897 TAAAACCTTCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
*
134917 TAAAACCTCCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
134937 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
134952 GGATGTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:134922 original size:119 final size:119
Alignment explanation
Indices: 134798--135079 Score: 485
Period size: 119 Copynumber: 2.4 Consensus size: 119
134788 TATAGAAAAT
*
134798 TAAAACCTCCGGGTCATTTGTAAAACCTCAAGGTAGGATGTTTTCACATGAAAATGAGAAAGTAA
1 TAAAACCTCCGGGTCATCTGTAAAACCTCAAGGTAGGATGTTTTCACATGAAAATGAGAAAGTAA
* *
134863 TAAACAAAGTTTGTCATTTAATGTTCTAGAAAATTAAAACCT-TCGGGTAATTTG
66 TAAACAAAGTTTCTCATTTAATGTTCTAAAAAATTAAAACCTCT-GGGTAATTTG
* **
134917 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGTATGAAAATGAGAAAGTAA
1 TAAAACCTCCGGGTCATCTGTAAAACCTCAAGGTAGGATGTTTTCACATGAAAATGAGAAAGTAA
*
134982 TAAACAAAGTTTCTCATTTAATGTTCTAAAAAATTAAAACCTCTGGGTAATTTT
66 TAAACAAAGTTTCTCATTTAATGTTCTAAAAAATTAAAACCTCTGGGTAATTTG
135036 TAAAACCTCCGGGTCATCTGTAAAACCTCAAGGTAGGATGTTTT
1 TAAAACCTCCGGGTCATCTGTAAAACCTCAAGGTAGGATGTTTT
135080 TTTTACTTTA
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
119 153 0.99
120 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (119 bp):
TAAAACCTCCGGGTCATCTGTAAAACCTCAAGGTAGGATGTTTTCACATGAAAATGAGAAAGTAA
TAAACAAAGTTTCTCATTTAATGTTCTAAAAAATTAAAACCTCTGGGTAATTTG
Found at i:135040 original size:20 final size:20
Alignment explanation
Indices: 135015--135064 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
135005 TTCTAAAAAA
* *
135015 TTAAAACCTCTGGGTAATTT
1 TTAAAACCTCCGGGTAATCT
*
135035 TTAAAACCTCCGGGTCATCT
1 TTAAAACCTCCGGGTAATCT
*
135055 GTAAAACCTC
1 TTAAAACCTC
135065 AAGGTAGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (20 bp):
TTAAAACCTCCGGGTAATCT
Found at i:135224 original size:3 final size:3
Alignment explanation
Indices: 135216--135269 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
135206 CTATACTATA
* * *
135216 TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAA TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
135261 ATAT TAT TA
1 -TAT TAT TA
135270 AAAATAATAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.79
4 7 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:135233 original size:14 final size:14
Alignment explanation
Indices: 135214--135269 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
135204 TCCTATACTA
135214 TATATTATTATTAT
1 TATATTATTATTAT
135228 TATATTACAATTATTAT
1 TATATT---ATTATTAT
135245 TAATATTATTA-TAT
1 T-ATATTATTATTAT
135259 ATATATTATTA
1 -TATATTATTA
135270 AAAATAATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.49
15 5 0.14
17 9 0.24
18 5 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATTATTATTAT
Found at i:135265 original size:23 final size:22
Alignment explanation
Indices: 135207--135270 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
135197 ATTTTTGTCC
* *
135207 TATACTATATAT-TATTATTAT
1 TATATTATATATATATTATTAA
*
135228 TATATTACA-AT-TATTATTAA
1 TATATTATATATATATTATTAA
135248 TATTATTATATATATATTATTAA
1 TA-TATTATATATATATTATTAA
135271 AAATAATACA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.33
21 13 0.36
22 2 0.06
23 9 0.25
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTATATATATATTATTAA
Found at i:135266 original size:26 final size:25
Alignment explanation
Indices: 135207--135269 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
135197 ATTTTTGTCC
* *
135207 TATACTATATATTATTATTATTATAT
1 TATATTAT-TATTAATATTATTATAT
*
135233 TACAATTATTATTAATATTATTATAT
1 TA-TATTATTATTAATATTATTATAT
135259 ATATATTATTA
1 -TATATTATTA
135270 AAAATAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATTATTATTAATATTATTATAT
Found at i:135275 original size:26 final size:26
Alignment explanation
Indices: 135222--135275 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
135212 TATATATTAT
**
135222 TATTATTATATTACAATTATTATTAA
1 TATTATTATATTACAATTATTAAAAA
*
135248 TATTATTATATATA-TATTATTAAAAA
1 TATTATTATAT-TACAATTATTAAAAA
135274 TA
1 TA
135276 ATACAACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTATTATATTACAATTATTAAAAA
Found at i:142214 original size:27 final size:27
Alignment explanation
Indices: 142165--142216 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
142155 CATTTCGAAA
* *
142165 CTCAAGGGTATTTCTATCGTTTTATAG
1 CTCAAGGGTATTTATATCATTTTATAG
142192 CTCAAGGGTA-TTATAGTCATTTTAT
1 CTCAAGGGTATTTATA-TCATTTTAT
142217 TCTATTCCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (27 bp):
CTCAAGGGTATTTATATCATTTTATAG
Found at i:144056 original size:15 final size:16
Alignment explanation
Indices: 144018--144058 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
144008 ACAGAGCCTC
*
144018 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
144034 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
144050 T-AATCATTC
1 TGAATCATTC
144059 TGAAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:149996 original size:24 final size:20
Alignment explanation
Indices: 149947--150007 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 20
149937 TTTTATTTTA
*
149947 ATTTAATATAAATACTAAAT
1 ATTTAATATTAATACTAAAT
149967 ATTTAATATTAATACTATTATAGT
1 ATTTAATATTAATACTA--A-A-T
*
149991 ATTTAATATTAAAACTA
1 ATTTAATATTAATACTA
150008 GATAAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.46
22 1 0.03
23 1 0.03
24 17 0.49
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTAATATTAATACTAAAT
Found at i:151327 original size:3 final size:3
Alignment explanation
Indices: 151311--151421 Score: 102
Period size: 3 Copynumber: 37.0 Consensus size: 3
151301 TTTGGGCTTG
* * * * *
151311 TAA TAA TTAT TAA TAA TAA TAA TAT TAG TAG TAA TAA TAT TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
151357 T-A TAA TAA TAG T-A TAA TATA TAA TTA TATA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
*
151401 TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
151422 GACCGGATGA
Statistics
Matches: 90, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
2 5 0.06
3 77 0.86
4 8 0.09
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:151808 original size:99 final size:99
Alignment explanation
Indices: 151590--151813 Score: 299
Period size: 99 Copynumber: 2.3 Consensus size: 99
151580 TGACCCAGAC
* * * *
151590 GTTTTACAAATCACCCGGAGGATTTAATTTTCTAGAATATTAAATAAGAAACTTTGAAAATCGTT
1 GTTTTACAAATGACCTGGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGAAAATCGCT
* *
151655 TTCTCATTTTCATGCGAAAACATCCTACCCTAAG
66 TTCTCATTTTCATACGAAAACATCCTACCATAAG
* * * *
151689 GTTTCACAGATGA-CTCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTT-AAAACTTG
1 GTTTTACAAATGACCT-GGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGAAAA-TCG
*
151752 CTTTCTCATTTTCATACGAAAACATCCTACCATGAG
64 CTTTCTCATTTTCATACGAAAACATCCTACCATAAG
* *
151788 GTTTTACATATGACCTGGAGGTTTTA
1 GTTTTACAAATGACCTGGAGGATTTA
151814 CAAATCCGTG
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
98 5 0.05
99 101 0.94
100 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Consensus pattern (99 bp):
GTTTTACAAATGACCTGGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGAAAATCGCT
TTCTCATTTTCATACGAAAACATCCTACCATAAG
Found at i:152491 original size:21 final size:22
Alignment explanation
Indices: 152440--152491 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
152430 AAAGCTTTCG
*
152440 TCTTTGAAAAGAGAATCTATCAT
1 TCTTT-AAAAGAAAATCTATCAT
*
152463 TTTTTAAAAGAAAATCTATCA-
1 TCTTTAAAAGAAAATCTATCAT
152484 TCTTTAAA
1 TCTTTAAA
152492 GCATGTAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (22 bp):
TCTTTAAAAGAAAATCTATCAT
Found at i:152647 original size:54 final size:54
Alignment explanation
Indices: 152581--152722 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
152571 ACACTTCACA
*
152581 AAAAAGATTTATCCTAATTCATTTCATGTCTCCATATCTCTTGAAATAACTCAT
1 AAAAAGATTTATCCTAATTCCTTTCATGTCTCCATATCTCTTGAAATAACTCAT
*
152635 AAAAGGATTTATCCTAATTCCTTTCATGTCTCCATATCTCTTGAAATAACTCAT
1 AAAAAGATTTATCCTAATTCCTTTCATGTCTCCATATCTCTTGAAATAACTCAT
* *
152689 AAAAAGATTTATCCTAATTCCTTCCATATCTCCA
1 AAAAAGATTTATCCTAATTCCTTTCATGTCTCCA
152723 CATTTAATCA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.38
Consensus pattern (54 bp):
AAAAAGATTTATCCTAATTCCTTTCATGTCTCCATATCTCTTGAAATAACTCAT
Found at i:157893 original size:26 final size:26
Alignment explanation
Indices: 157864--157917 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
157854 TATAAATAGT
* *
157864 TAATCAAATCAATTTATCAAATCAAC
1 TAATCAAATCAATTGATCAAACCAAC
* *
157890 TAATTAAATCAGTTGATCAAACCAAC
1 TAATCAAATCAATTGATCAAACCAAC
157916 TA
1 TA
157918 TCAGCTATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (26 bp):
TAATCAAATCAATTGATCAAACCAAC
Found at i:158470 original size:25 final size:25
Alignment explanation
Indices: 158442--158536 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
158432 CATCTATAAT
* *
158442 TTTATAAATTTGTCTCTTTTAAAAC
1 TTTAAAAATTTATCTCTTTTAAAAC
** *
158467 TTTAAAAATTTATCTCTCAACATAAAAT
1 TTTAAAAATTTATCTCT---TTTAAAAC
* * *
158495 TTTATATATTTGTCTCTTTTAAAAC
1 TTTAAAAATTTATCTCTTTTAAAAC
158520 TTTAAAAATTTATCTCT
1 TTTAAAAATTTATCTCT
158537 CAACATAAAA
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
25 34 0.64
28 19 0.36
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTAAAAATTTATCTCTTTTAAAAC
Found at i:158554 original size:53 final size:53
Alignment explanation
Indices: 158439--158556 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
158429 ATTCATCTAT
*
158439 AATTTTATAAATTTGTCTCTTTTAAAACTTTAAAAATTTATCTCTCAACATAA
1 AATTTTATATATTTGTCTCTTTTAAAACTTTAAAAATTTATCTCTCAACATAA
158492 AATTTTATATATTTGTCTCTTTTAAAACTTTAAAAATTTATCTCTCAACATAA
1 AATTTTATATATTTGTCTCTTTTAAAACTTTAAAAATTTATCTCTCAACATAA
158545 AATTTTATATAT
1 AATTTTATATAT
158557 GTTCCGGATG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 64 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (53 bp):
AATTTTATATATTTGTCTCTTTTAAAACTTTAAAAATTTATCTCTCAACATAA
Found at i:158575 original size:53 final size:51
Alignment explanation
Indices: 158464--158578 Score: 142
Period size: 53 Copynumber: 2.2 Consensus size: 51
158454 TCTCTTTTAA
** *
158464 AACTTTAAAAATTTATCTCTCAACATAAAATTTTATATATTTGTCTCTTTT
1 AACTTTAAAAATTTATCTCTCAACATAAAATTTTATATATTTGGATCATTT
*
158515 AAAACTTTAAAAATTTATCTCTCAACATAAAATTTTATATATGTTCCGGATGATTT
1 --AACTTTAAAAATTTATCTCTCAACATAAAATTTTATATAT-TT--GGATCATTT
158571 -ACTTTAAA
1 AACTTTAAA
158579 GACGAGGGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
53 48 0.87
54 2 0.04
56 5 0.09
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.44
Consensus pattern (51 bp):
AACTTTAAAAATTTATCTCTCAACATAAAATTTTATATATTTGGATCATTT
Found at i:159391 original size:22 final size:22
Alignment explanation
Indices: 159366--159410 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
159356 TCGAGTACTA
159366 TAGATATTAAAAGTATAAACTT
1 TAGATATTAAAAGTATAAACTT
*
159388 TAGATATTAAAAGTGTAAACTT
1 TAGATATTAAAAGTATAAACTT
159410 T
1 T
159411 CAAGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (22 bp):
TAGATATTAAAAGTATAAACTT
Found at i:159423 original size:24 final size:22
Alignment explanation
Indices: 159374--159423 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
159364 TATAGATATT
**
159374 AAAAGTATAAACTTTAGATATT
1 AAAAGTATAAACTTTAGATAAA
*
159396 AAAAGTGTAAACTTTCAAGATAAA
1 AAAAGTATAAACTTT--AGATAAA
159420 AAAA
1 AAAA
159424 AATTGAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 14 0.61
24 9 0.39
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.28
Consensus pattern (22 bp):
AAAAGTATAAACTTTAGATAAA
Found at i:160757 original size:14 final size:14
Alignment explanation
Indices: 160711--160762 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
160701 AATTGGTTTC
*
160711 CTGGAAATTAAATT
1 CTGGAAATTGAATT
*
160725 CTGAAAATTGAATT
1 CTGGAAATTGAATT
*
160739 ACTGGAATTTGAATT
1 -CTGGAAATTGAATT
160754 CTGGTAAAT
1 CTGG-AAAT
160763 GTTTTTCGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (14 bp):
CTGGAAATTGAATT
Found at i:160949 original size:25 final size:25
Alignment explanation
Indices: 160921--160995 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 25
160911 ATCATAAACT
160921 TAATATTATTATTTTAAAATATTAA
1 TAATATTATTATTTTAAAATATTAA
* *
160946 TAATTTTATTA--TT-AAATATTAT
1 TAATATTATTATTTTAAAATATTAA
* *
160968 TTATAATT-TTATTAATAAAATATTAA
1 TAAT-ATTATTATT-TTAAAATATTAA
160994 TA
1 TA
160996 TTGATATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
22 14 0.37
23 4 0.11
25 11 0.29
26 9 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATATTATTATTTTAAAATATTAA
Found at i:160954 original size:22 final size:23
Alignment explanation
Indices: 160920--160995 Score: 93
Period size: 25 Copynumber: 3.3 Consensus size: 23
160910 TATCATAAAC
160920 TTAAT-ATTATTATT-TTAAAATA
1 TTAATAATT-TTATTATTAAAATA
160942 TTAATAATTTTATTATTAAATATTA
1 TTAATAATTTTATTATTAAA-A-TA
* *
160967 TTTATAATTTTATTAATAAAATA
1 TTAATAATTTTATTATTAAAATA
160990 TTAATA
1 TTAATA
160996 TTGATATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
22 10 0.21
23 15 0.32
24 2 0.04
25 20 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAATAATTTTATTATTAAAATA
Found at i:160985 original size:12 final size:12
Alignment explanation
Indices: 160940--160985 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
160930 TATTTTAAAA
160940 TATTAATAATTT
1 TATTAATAATTT
* *
160952 TATTATTAAATAT
1 TATTAAT-AATTT
*
160965 TATTTATAATTT
1 TATTAATAATTT
160977 TATTAATAA
1 TATTAATAA
160986 AATATTAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
12 18 0.67
13 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTAATAATTT
Found at i:161017 original size:29 final size:25
Alignment explanation
Indices: 160940--161035 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 25
160930 TATTTTAAAA
* *
160940 TATTAATAATTTTATTATTAAATAT
1 TATTTATAATTTTATTAATAAATAT
160965 TATTTATAATTTTATTAATAAAATAT
1 TATTTATAATTTTATTAAT-AAATAT
160991 TAATATTGAT-ATTTTATTGAAATAAATA-
1 T-AT-TT-ATAATTTTATT--AATAAATAT
*
161019 TA-TTATAAATTATATTA
1 TATTTAT-AATTTTATTA
161036 TGTTAGAGTT
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
24 3 0.05
25 19 0.32
26 14 0.23
27 3 0.05
28 11 0.18
29 7 0.12
30 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTTATAATTTTATTAATAAATAT
Found at i:161034 original size:31 final size:27
Alignment explanation
Indices: 160948--161034 Score: 72
Period size: 31 Copynumber: 3.1 Consensus size: 27
160938 AATATTAATA
* *
160948 ATTTTATT-ATTAAATATT--ATTTAT
1 ATTTTATTAATAAAATATTAAAATTAT
*
160972 AATTTTATTAATAAAATATTAATATTGAT
1 -ATTTTATTAATAAAATATTAAAATT-AT
161001 ATTTTATTGAAATAAATATATTATAAATTAT
1 ATTTTATT--AATAAA-ATATTA-AAATTAT
161032 ATT
1 ATT
161035 ATGTTAGAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
25 8 0.16
26 9 0.18
28 10 0.20
29 2 0.04
30 6 0.12
31 11 0.22
32 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTTATTAATAAAATATTAAAATTAT
Found at i:161296 original size:28 final size:28
Alignment explanation
Indices: 161259--161315 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
161249 CCCCGAAATT
161259 CCGTGTTTGTTTCACGTAATTCGTTTTC
1 CCGTGTTTGTTTCACGTAATTCGTTTTC
161287 CCGTGTTTGTTTCACGTAATTCGTTTTC
1 CCGTGTTTGTTTCACGTAATTCGTTTTC
161315 C
1 C
161316 GGAAAATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.49
Consensus pattern (28 bp):
CCGTGTTTGTTTCACGTAATTCGTTTTC
Found at i:161325 original size:28 final size:28
Alignment explanation
Indices: 161266--161326 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
161256 ATTCCGTGTT
****
161266 TGTTTCACGTAATTCGTTTTCCCGTGTT
1 TGTTTCACGTAATTCGTTTTCCCGAAAA
*
161294 TGTTTCACGTAATTCGTTTTCCGGAAAA
1 TGTTTCACGTAATTCGTTTTCCCGAAAA
161322 TGTTT
1 TGTTT
161327 TCCAGTGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (28 bp):
TGTTTCACGTAATTCGTTTTCCCGAAAA
Found at i:167737 original size:31 final size:31
Alignment explanation
Indices: 167702--167794 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
167692 TTACATTGTC
* * *
167702 ATTTTTAACATATAATATGTGTCACGTCGTT
1 ATTTTTAACATATAATATGTGTCACATCATA
* *
167733 A-TTTTAGATATACAATATGTGTCACATCATA
1 ATTTTTA-ACATATAATATGTGTCACATCATA
* * *
167764 ATATTTTAACACATGATATGTGTCATATCAT
1 AT-TTTTAACATATAATATGTGTCACATCAT
167795 TACTTTCAAC
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
30 5 0.10
31 21 0.43
32 18 0.37
33 5 0.10
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (31 bp):
ATTTTTAACATATAATATGTGTCACATCATA
Found at i:167893 original size:56 final size:57
Alignment explanation
Indices: 167831--167951 Score: 142
Period size: 56 Copynumber: 2.1 Consensus size: 57
167821 ATCACACGTA
*
167831 ATCACTTTCGACATATAACAT-ATTATCATCATTTTTATTATA-TGATATGT-C-ACATC
1 ATCACTTTCGACACATAACATCA-TATCATCATTTTTA--ATAGTGATATGTACTACATC
** * *
167887 ATCACTTTCGACACATAATGTCATGTCATCATTTTTAATAGTGATATGTACTATATC
1 ATCACTTTCGACACATAACATCATATCATCATTTTTAATAGTGATATGTACTACATC
167944 ATCACTTT
1 ATCACTTT
167952 TAACACACGA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
54 3 0.05
55 8 0.14
56 32 0.57
57 13 0.23
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.42
Consensus pattern (57 bp):
ATCACTTTCGACACATAACATCATATCATCATTTTTAATAGTGATATGTACTACATC
Found at i:169532 original size:18 final size:20
Alignment explanation
Indices: 169497--169542 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
169487 ATCGTAAAAT
169497 CATAATAAGCATCGAAAT-ATC
1 CATAA-AAGCATC-AAATCATC
169518 CATAAAAGCAT-AAATCATC
1 CATAAAAGCATCAAATCATC
169537 CA-AAAA
1 CATAAAA
169543 CCACAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.33
19 5 0.21
20 6 0.25
21 5 0.21
ACGTcount: A:0.54, C:0.20, G:0.07, T:0.20
Consensus pattern (20 bp):
CATAAAAGCATCAAATCATC
Found at i:171044 original size:2 final size:2
Alignment explanation
Indices: 171037--171069 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
171027 CTTAATGAAT
171037 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
171070 GTGAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:174063 original size:23 final size:22
Alignment explanation
Indices: 174037--174079 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
174027 ATATGAAATT
174037 TGTCCCGAAGGACCTCATGTATA
1 TGTCCCGAAGGACCT-ATGTATA
174060 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
174080 ACCCTCGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:174795 original size:14 final size:16
Alignment explanation
Indices: 174770--174801 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
174760 ATCGATACTA
174770 ACCTTATGGTATC-AT
1 ACCTTATGGTATCGAT
174785 ACCTT-TGGTATCGAT
1 ACCTTATGGTATCGAT
174800 AC
1 AC
174802 TACCTTCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (16 bp):
ACCTTATGGTATCGAT
Found at i:174883 original size:13 final size:13
Alignment explanation
Indices: 174861--174894 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
174851 TTAGGATCGA
*
174861 TATTGTTAACTAG
1 TATTGATAACTAG
174874 TATTGATAACTAG
1 TATTGATAACTAG
*
174887 TATCGATA
1 TATTGATA
174895 CCCCTATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (13 bp):
TATTGATAACTAG
Done.