Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007021.1 Hibiscus syriacus cultivar Beakdansim tig00018136_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: 207656
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:874 original size:90 final size:91
Alignment explanation
Indices: 694--959 Score: 381
Period size: 90 Copynumber: 2.9 Consensus size: 91
684 AATAAAACCA
* ** *
694 ATCAACATTTCCAGCGGGGAGTTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGATAATTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
* * *
759 AATGAGAAAAGCTTGTTTAACCTTGC
66 AATGAGAAAAACTTGTTCAAACTTGC
* *
785 ATCCACATTTCCAGTGG-TAATTCATAATAAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGATAATTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
849 AATGAGAAAAACTTGTTCAAACTTGC
66 AATGAGAAAAACTTGTTCAAACTTGC
** * * *
875 ATCAACATTTCCAGTGGATTGTTCATAATGAGAATAACTCATCCAACAAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGATAATTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
* *
940 AATAAGAAGAACTTGTTCAA
66 AATGAGAAAAACTTGTTCAA
960 CCTTAGCTCG
Statistics
Matches: 157, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
90 83 0.53
91 74 0.47
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.24
Consensus pattern (91 bp):
ATCAACATTTCCAGTGGATAATTCATAATGAGAAGAACTCATCCGACGAGGGAGAAGAAGTTCAT
AATGAGAAAAACTTGTTCAAACTTGC
Found at i:2492 original size:38 final size:37
Alignment explanation
Indices: 2419--2492 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 37
2409 TGTAGTTTTT
** *
2419 TTTATTTTATGATTTTGTTTAGTGTTTTTATTTATTA
1 TTTATTTTATGATTTTAATTAGTGTTTTTAATTATTA
*
2456 TTTATTTTAATTATTTTAATTAG-GTTTATTAATTATT
1 TTTATTTT-ATGATTTTAATTAGTGTTT-TTAATTATT
2493 TTGTTTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
37 12 0.39
38 19 0.61
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (37 bp):
TTTATTTTATGATTTTAATTAGTGTTTTTAATTATTA
Found at i:24922 original size:22 final size:22
Alignment explanation
Indices: 24872--24922 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
24862 GTATACAAAC
* *
24872 TTGAAGAGTAAGGACATAGTGT
1 TTGAAGTGTAAGGACATAGAGT
*
24894 TTGAAGTGTAAGGATATAGAGT
1 TTGAAGTGTAAGGACATAGAGT
24916 TTGAAGT
1 TTGAAGT
24923 AGGAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.31, T:0.31
Consensus pattern (22 bp):
TTGAAGTGTAAGGACATAGAGT
Found at i:27898 original size:2 final size:2
Alignment explanation
Indices: 27893--27920 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27883 ACTCTGTATG
27893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27921 TTGTATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30131 original size:14 final size:14
Alignment explanation
Indices: 30077--30145 Score: 68
Period size: 14 Copynumber: 4.8 Consensus size: 14
30067 AAGAAAAACG
30077 AAAATA-AATAAAT
1 AAAATATAATAAAT
* *
30090 AAAAAATGAAAAAAT
1 AAAATAT-AATAAAT
*
30105 GAAAATGAAAATAAAT
1 -AAAAT-ATAATAAAT
30121 AAAATATAATAAAT
1 AAAATATAATAAAT
*
30135 AATATATAATA
1 AAAATATAATA
30146 CTATACTATA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.11
14 18 0.40
15 11 0.24
16 10 0.22
17 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (14 bp):
AAAATATAATAAAT
Found at i:30261 original size:37 final size:37
Alignment explanation
Indices: 30170--30454 Score: 334
Period size: 37 Copynumber: 7.7 Consensus size: 37
30160 ATGTAAATAT
*
30170 ATATTTTCAAAAA-AATATA-TA-ATATATTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATATTTTCAAA
30204 ATATTTTCAAAAACTATATATTATATATATTTTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATA--TTTTCAAA
* *
30243 ATGTTTTCAAAAACTATATAGTATATATATTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATATTTTCAAA
* *
30280 ATTATTTTCAAAAACTATAT-TATATATATGTTTTTAAA
1 A-TATTTTCAAAAACTATATAT-TATATATATTTTCAAA
*
30318 ATGTTTTCAAAAACTATATATTATATATATTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATATTTTCAAA
* *
30355 ATATTTTTAAAAACTATATATTATATATGTTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATATTTTCAAA
** **
30392 ACGTTTT-TTAAACTATATATTATATAT-TCTTTCAAA
1 ATATTTTCAAAAACTATATATTATATATAT-TTTCAAA
*
30428 AT-TTTAT-AAAAAATAATATATTATATA
1 ATATTT-TCAAAAACT-ATATATTATATA
30455 CTATATTTAT
Statistics
Matches: 219, Mismatches: 21, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
34 13 0.06
35 9 0.04
36 33 0.15
37 96 0.44
38 33 0.15
39 35 0.16
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (37 bp):
ATATTTTCAAAAACTATATATTATATATATTTTCAAA
Found at i:30330 original size:75 final size:74
Alignment explanation
Indices: 30173--30429 Score: 348
Period size: 75 Copynumber: 3.5 Consensus size: 74
30163 TAAATATATA
*
30173 TTTTCAAAAA-AATATA-TA-ATATATTTTCAAAATATTTTCAAAAACTATATATTATATATAT-
1 TTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAAC--TATATTATATATATG
30234 TTTTTCAAAATG
64 TTTTT-AAAATG
*
30246 TTTTCAAAAACTATATAGTATATATATTTTCAAAATTATTTTCAAAAACTATATTATATATATGT
1 TTTTCAAAAACTATATATTATATATATTTTCAAAA-TATTTTCAAAAACTATATTATATATATGT
30311 TTTTAAAATG
65 TTTTAAAATG
*
30321 TTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTTAAAAACTATA-TATTATATATGT
1 TTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTATATTA-TATATATGT
* *
30385 TTTCAAAACG
65 TTTTAAAATG
**
30395 TTTT-TTAAACTATATATTATATAT-TCTTTCAAAAT
1 TTTTCAAAAACTATATATTATATATAT-TTTCAAAAT
30430 TTTATAAAAA
Statistics
Matches: 170, Mismatches: 7, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
72 1 0.01
73 39 0.23
74 42 0.25
75 56 0.33
76 19 0.11
77 13 0.08
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.47
Consensus pattern (74 bp):
TTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTATATTATATATATGTT
TTTAAAATG
Found at i:35542 original size:17 final size:17
Alignment explanation
Indices: 35522--35580 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
35512 GTACTGAACG
35522 AAAGAAAATTGAATTCA
1 AAAGAAAATTGAATTCA
*
35539 AAAGAAAAGTACT-AA-ACA
1 AAAGAAAA-T--TGAATTCA
*
35557 AAAGAAAATTGAGTTCA
1 AAAGAAAATTGAATTCA
35574 AAAGAAA
1 AAAGAAA
35581 TGAAACAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 1 0.03
16 1 0.03
17 18 0.53
18 11 0.32
19 2 0.06
20 1 0.03
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.17
Consensus pattern (17 bp):
AAAGAAAATTGAATTCA
Found at i:35561 original size:35 final size:35
Alignment explanation
Indices: 35512--35580 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
35502 ATGAAATGAG
* *
35512 GTACTGAACGAAAGAAAATTGAATTCAAAAGAAAA
1 GTACTAAACAAAAGAAAATTGAATTCAAAAGAAAA
*
35547 GTACTAAACAAAAGAAAATTGAGTTCAAAAGAAA
1 GTACTAAACAAAAGAAAATTGAATTCAAAAGAAA
35581 TGAAACAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.58, C:0.09, G:0.16, T:0.17
Consensus pattern (35 bp):
GTACTAAACAAAAGAAAATTGAATTCAAAAGAAAA
Found at i:37707 original size:62 final size:62
Alignment explanation
Indices: 37594--37753 Score: 180
Period size: 62 Copynumber: 2.5 Consensus size: 62
37584 CGGTGCACCA
* * ** *
37594 AGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAGTATGAGTGCATCG-GCATTG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAACCA-GAGTGCATCGAGCATAG
** * *
37656 CTTGTGCATCGAAGCATGAAATGCATTCGATGTTTTAATAAAACCCA-AGTGCATCGATGCATAG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAAA-CCAGAGTGCATCGA-GCATAG
*
37720 AGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
37754 CAATTTATTC
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
62 42 0.52
63 3 0.04
64 36 0.44
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (62 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAACCAGAGTGCATCGAGCATAG
Found at i:37772 original size:64 final size:65
Alignment explanation
Indices: 37659--37802 Score: 163
Period size: 64 Copynumber: 2.2 Consensus size: 65
37649 GGCATTGCTT
* *
37659 GTGCATCGAAGCATGAAATGCATTCGATGTTTTAATAAAACCCAAGTGCATCGATGCATAG-A-G
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAAAACCCAAGTGCATCGATGCAT-GTATG
37722 A
65 A
** **
37723 GTGCATCGATGCATGAAATGCATTCGATG-TTCAAT-TTATTCAATGGTGCATCGATGCATGTAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAAAACCCAA--GTGCATCGATGCATGTA-
37786 TGA
63 TGA
37789 -TGCATCGATGCATG
1 GTGCATCGATGCATG
37803 CCTTTGAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
62 4 0.06
63 6 0.09
64 43 0.62
65 14 0.20
66 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAAAACCCAAGTGCATCGATGCATGTATGA
Found at i:38183 original size:17 final size:16
Alignment explanation
Indices: 38148--38180 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38138 CCCCTTACTA
38148 TAACATTTCTCCCCCT
1 TAACATTTCTCCCCCT
38164 TAACATTTCTCCCCCT
1 TAACATTTCTCCCCCT
38180 T
1 T
38181 TAAAACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.39
Consensus pattern (16 bp):
TAACATTTCTCCCCCT
Found at i:38895 original size:21 final size:21
Alignment explanation
Indices: 38871--38914 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
38861 GAGGAGGAGG
* *
38871 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
38892 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
38913 AG
1 AG
38915 TTCCCAGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:43636 original size:64 final size:63
Alignment explanation
Indices: 43568--43746 Score: 200
Period size: 64 Copynumber: 2.8 Consensus size: 63
43558 TGGAACACTT
* * * **
43568 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* * *
43632 AGTGCATCGGTGCAT-TGCTTGTGCAACGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* * *
43696 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTTGATGTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
43747 CAATTTATTC
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
62 1 0.01
64 93 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:44177 original size:17 final size:16
Alignment explanation
Indices: 44142--44174 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44132 CCCCTTACTA
44142 TAACATTTCTCCCCCT
1 TAACATTTCTCCCCCT
44158 TAACATTTCTCCCCCT
1 TAACATTTCTCCCCCT
44174 T
1 T
44175 TAAAACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.39
Consensus pattern (16 bp):
TAACATTTCTCCCCCT
Found at i:44889 original size:21 final size:21
Alignment explanation
Indices: 44865--44908 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
44855 GAGGAGGAGG
* *
44865 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
44886 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
44907 AG
1 AG
44909 CTCCCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:49635 original size:64 final size:63
Alignment explanation
Indices: 49562--49740 Score: 200
Period size: 64 Copynumber: 2.8 Consensus size: 63
49552 TGGAACACTT
* * * **
49562 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* * * *
49626 AGTGTATCGGTGCAT-TGCTTGTGCAACGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* *
49690 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
49741 CAATTTATTC
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
62 1 0.01
64 92 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:50889 original size:21 final size:21
Alignment explanation
Indices: 50864--50907 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
50854 CTGGAGCAGG
* *
50864 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
* *
50885 AGGAGCAGCTCGTGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
50906 AG
1 AG
50908 CTCCCGGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.43, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:56339 original size:22 final size:21
Alignment explanation
Indices: 56297--56336 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56287 AAGACTATTT
56297 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
56318 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
56337 ATAGAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:58330 original size:64 final size:63
Alignment explanation
Indices: 58262--58440 Score: 202
Period size: 64 Copynumber: 2.8 Consensus size: 63
58252 TGGAACACTT
* * * * *
58262 AGTGCATCGTTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATA-GCA
1 AGTGCATCGATGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* * *
58324 TGAGTGCATCGGTGCAT-TGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACC
1 --AGTGCATCGATGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACC
58388 CA
62 CA
*
58390 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
58441 CAATTTATTC
Statistics
Matches: 99, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
62 1 0.01
64 92 0.93
65 3 0.03
66 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:58462 original size:64 final size:64
Alignment explanation
Indices: 58282--58468 Score: 180
Period size: 64 Copynumber: 2.9 Consensus size: 64
58272 TGCACCAAGT
* * * * * * * * ***
58282 GTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCATGAGTGCATCGGTGCATTGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAAAACCA-AAGTACATCGATGCATAGAGA
* * *
58346 GTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCAAGTGCATCGATGCATAGAGA
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAAAACCAAAGTACATCGATGCATAGAGA
** **
58410 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCAAAGGTACATCGATGCAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAAAACCAAA-GTACATCGATGCAT
58469 GGATTGATGC
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
63 9 0.09
64 90 0.87
65 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATAAAACCAAAGTACATCGATGCATAGAGA
Found at i:67053 original size:40 final size:40
Alignment explanation
Indices: 66995--67071 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
66985 CTGCTACCTC
66995 GATAAAGTTGCTCAAATCATGACATGCTACCAAGTTTCTT
1 GATAAAGTTGCTCAAATCATGACATGCTACCAAGTTTCTT
* ** * * *
67035 GATAAAGTTTCTGGAATCATGCCTTGTTACCAAGTTT
1 GATAAAGTTGCTCAAATCATGACATGCTACCAAGTTT
67072 ACAAACCATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (40 bp):
GATAAAGTTGCTCAAATCATGACATGCTACCAAGTTTCTT
Found at i:67203 original size:27 final size:27
Alignment explanation
Indices: 67170--67221 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
67160 AGTGTTAGGG
* *
67170 TAGCAAGGCATGTTTTGAGCAACTTGA
1 TAGCAAGGCATGATTCGAGCAACTTGA
67197 TAGCAAGGCATGATTCGAGCAACTT
1 TAGCAAGGCATGATTCGAGCAACTT
67222 TATTAGGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (27 bp):
TAGCAAGGCATGATTCGAGCAACTTGA
Found at i:67242 original size:32 final size:32
Alignment explanation
Indices: 67197--67287 Score: 128
Period size: 32 Copynumber: 2.8 Consensus size: 32
67187 AGCAACTTGA
*
67197 TAGCAAGGCATGATTCGAGCAACTTTATTAGGG
1 TAGCAA-GCATGATTCGAGCAACTTGATTAGGG
*
67230 TAGCAAGCATGATTTGAGCAACTTGATTAGGG
1 TAGCAAGCATGATTCGAGCAACTTGATTAGGG
* *
67262 TAACAAGATATGATTCGAGCAACTTG
1 TAGCAAG-CATGATTCGAGCAACTTG
67288 TAGTGTCCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 30 0.58
33 22 0.42
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (32 bp):
TAGCAAGCATGATTCGAGCAACTTGATTAGGG
Found at i:71237 original size:50 final size:50
Alignment explanation
Indices: 71153--71249 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
71143 TATGAAGATG
* *
71153 CATCTTCCTTGGCGGAATGGTGATATGCTTGTTCATCTTGGAGCCAAAGT
1 CATCTTCCTTGGCCGAATCGTGATATGCTTGTTCATCTTGGAGCCAAAGT
* * *
71203 CATCTTCCTTGGCCGAATCGTGTTGTG-TTGGTTCATCTTGGCGCCAA
1 CATCTTCCTTGGCCGAATCGTGATATGCTT-GTTCATCTTGGAGCCAA
71250 TTTATTAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (50 bp):
CATCTTCCTTGGCCGAATCGTGATATGCTTGTTCATCTTGGAGCCAAAGT
Found at i:78137 original size:24 final size:24
Alignment explanation
Indices: 78092--78149 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
78082 AAATAATATG
* **
78092 ATTAAATTTAAAAATCTAAAAATA
1 ATTAAATTGAAAAAAATAAAAATA
*
78116 ATTAAATTGAAAAAAATGAAAAAAA
1 ATTAAATTGAAAAAAAT-AAAAATA
78141 ATTATAATT
1 ATTA-AATT
78150 TATGTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 14 0.50
25 10 0.36
26 4 0.14
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
ATTAAATTGAAAAAAATAAAAATA
Found at i:78255 original size:15 final size:15
Alignment explanation
Indices: 78230--78269 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
78220 TAAATTTTAA
78230 AAAATTAAAAAATAT
1 AAAATTAAAAAATAT
78245 AAGAATTAAAAAATAT
1 AA-AATTAAAAAATAT
*
78261 CAAATTAAA
1 AAAATTAAA
78270 TGATACGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (15 bp):
AAAATTAAAAAATAT
Found at i:79149 original size:30 final size:30
Alignment explanation
Indices: 79114--79179 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
79104 AGAACCGGAA
* * *
79114 GAACCGGTTGAAAATCGGGAAAACCGGGGT
1 GAACCGGCTGAAAACCGGCAAAACCGGGGT
**
79144 GAACCGGCTGAAAACCGGCAAAACCGGTTT
1 GAACCGGCTGAAAACCGGCAAAACCGGGGT
79174 GAACCG
1 GAACCG
79180 CCGGTTCACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.32, T:0.12
Consensus pattern (30 bp):
GAACCGGCTGAAAACCGGCAAAACCGGGGT
Found at i:86849 original size:41 final size:41
Alignment explanation
Indices: 86798--86877 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
86788 GGCAATCTCG
86798 TGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCCT
1 TGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCCT
* * *
86839 TGTTTGTTTCACGTAATTCTTTTTTCGGAAAATGTTTTC
1 TGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTC
86878 TAGTGTTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (41 bp):
TGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCCT
Found at i:86886 original size:42 final size:42
Alignment explanation
Indices: 86797--86886 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
86787 AGGCAATCTC
86797 GTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCCT
1 GTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCCT
* * *
86839 -TGTTTGTTTCACGTAATTCTTTTTTCGGAAAATGTTTT-CT
1 GTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCCT
86879 AGTGTTTG
1 -GTGTTTG
86887 GTTGAAGGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 2 0.05
41 35 0.81
42 6 0.14
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.52
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCCT
Found at i:87517 original size:182 final size:181
Alignment explanation
Indices: 87210--88065 Score: 1248
Period size: 182 Copynumber: 4.7 Consensus size: 181
87200 TGTCGGTTTA
* * * * **
87210 TGTCGATACTTTATAAAAATGTATCAATCCACATCAATA-ATACAGGTAAAAATATGAGGAAACC
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATA-ACATGTAAAAATATGAAAAAACC
* * *
87274 GGTCTCGAAAAGACAAAACCGGTAAAGCGGTACTGGATATATTGAAAGTGTCGATACTTTAATAT
65 GGTCTCGAAAAGAAAAAACCGGTAAAGCGCTAC-CGATATATTGAAAGTGTCGATACTTTAATAT
*
87339 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGTGCCTATAAAG
129 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
87392 TGTCGATACTTTATAAAAATGTATTGATCCACAACGATATAACATGTAAAAATATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGAAAAAACCG
* * *
87457 GTCTTGAAAAGAAAAAATCGGTAAAGCGCTACCAGATATATTGAAAGTGCCGATACTTTAATATA
66 GTCTCGAAAAGAAAAAACCGGTAAAGCGCTACC-GATATATTGAAAGTGTCGATACTTTAATATA
87522 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
130 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
87574 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGAAAAAACCG
* * * * * *
87639 GTCTCCAAAGGACAAAACCGGTATAGAGCGACCGAATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCGAAAAGAAAAAACCGGTAAAGCGCTACCG-ATATATTGAAAGTGTCGATACTTTAATATA
*
87704 AGTATCGACACTTTGTGAATTTAAAAGAGAAGAAGTTTTAGCGCCTATAAAG
130 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
87756 TGTCGATACTTTATAACAATGTATCGATCAACAACGATATAACATGTAAAAATATGAAAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGAAAAAACCG
* * * * * **
87821 ATCTC-TAAAGAACAAACCCGGTATAGAGAGACCAGATATATTGAAAGTGTCGATACTTTAATAT
66 GTCTCGAAAAGAA-AAAACCGGTAAAGCGCTACC-GATATATTGAAAGTGTCGATACTTTAATAT
87885 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
129 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
87938 TGTCGATACTTTATAAAATTGTATCGATCCATAACGATATAACATGTAAAAATATGAAAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGAAAAAACCG
* * * *
88003 GTCTCGAAATGAAAAAACCGATAAAGCTCTACCGAATACATTGAAAGTGTCGATACTTTAATA
66 GTCTCGAAAAGAAAAAACCGGTAAAGCGCTACCG-ATATATTGAAAGTGTCGATACTTTAATA
88066 AGTACGCATA
Statistics
Matches: 610, Mismatches: 57, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
181 6 0.01
182 597 0.98
183 7 0.01
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (181 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGAAAAAACCG
GTCTCGAAAAGAAAAAACCGGTAAAGCGCTACCGATATATTGAAAGTGTCGATACTTTAATATAA
GTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:90965 original size:24 final size:24
Alignment explanation
Indices: 90908--90966 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
90898 AATTCATTTC
*
90908 ATATATAATTGGAGTTTGAATTTAA
1 ATATA-AATTTGAGTTTGAATTTAA
* * * *
90933 ATTTCAATTTGAGTTTGAGTTTTA
1 ATATAAATTTGAGTTTGAATTTAA
90957 ATATAAATTT
1 ATATAAATTT
90967 CGGCTCCACT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.49
Consensus pattern (24 bp):
ATATAAATTTGAGTTTGAATTTAA
Found at i:92728 original size:200 final size:197
Alignment explanation
Indices: 92303--93666 Score: 1657
Period size: 199 Copynumber: 6.8 Consensus size: 197
92293 AAAGTTTCCT
* * *
92303 ATAAAGTGTTC-ATACATGTTTAAAAGGTATTGATCCCAAAAACATCGAAACCGAAAATTATAAT
1 ATAAAGTG-TCGATACAT-TTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* * *
92367 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACC-ATTTTTTGAGAAAATAGCTATACA
64 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-TACA
* * *
92431 TAATGTATCGACACTTGTAGAATTTGTGTCGATACTTTTTATCCAAAATGAATGCCAAA-AGTGG
128 TAATGTATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACA-TGG
*
92495 TGCATGC
191 TGCAGGC
* *
92502 ATACAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATG
1 ATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* ** * * *
92567 TAATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACAT
65 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-TACAT
*
92632 AATGTGA-CAACACTTTTGAATTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA-ATGG
129 AATGT-ATCGACACTTTTGAA-TTTGTGTCGATACTTTTTGTCCAGAATGAATG-CCAAACATGG
* *
92695 TGAACGC
191 TGCAGGC
* * *
92702 ATAAAGTGTCGATACATTTATAAAAAGTATCGATCCTAGAAACATCGAAACCCATAATTATAATG
1 ATAAAGTGTCGATACATTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
** * * *
92767 TAATAGGTAAATTTACAATGTAACCTATATAACTATACCAGTTTTATGAGAGAATAGGTCTACAT
65 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-TACAT
* * * * *
92832 AATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCTAAAATCAATGCCAAA-AGGGTT
129 AATGTATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACATGG-T
*
92896 GCACGC
192 GCAGGC
* * *
92902 ATAAAGTGTCGATGCATTTTTAAAAAGTATCGATCCCAAAAACATCAAAACTGATAATTATAATG
1 ATAAAGTGTCGATACA-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATG
* * * *
92967 TAATAGGTAAATTTATAATGTAACCGATATAAATTTACCGGTTTTATAAGAAAATAGGTTAACAT
65 TAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTT-ACAT
* * * *
93032 AATGTATCGACAAGTTTT-AGATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAACGTTGT
129 AATGTATCGAC-ACTTTTGA-ATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACATGGT
93096 GCAGGC
192 GCAGGC
* * ** *
93102 AAAAAGTGTCGATACATTTGAAATTGTATCAATCCCAAAAACATCGAAACCGATAATTATAATGT
1 ATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
** * *
93167 AATAGGTAAATTTACAATGTAACTAGTATAAATTTACCGGTTTTATGAGAAAATAGGTGAACATA
66 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-TACATA
* * *
93232 ATGTATCGACACGTTTTCG-ATTTGTGACGATACATTTTGTCCAGAATGAATGCCAAACATTGTG
130 ATGTATCGACAC-TTTT-GAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACATGGTG
93296 CAGGC
193 CAGGC
* * * ** *
93301 AAAAAGTGTTGATACATTTGAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGT
1 ATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
* * * * *
93366 AATAGGTAAATTTACAATGTAATCGGTATAAATTTATCGGTTTTATGAGAAAATAGGTGAATATA
66 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT-TACATA
* ***
93431 ATGTATCGACACGTTTT-AGATTTGTGTCGATACATTTTGTCCAGAATGAATGCCAAAGGGGGTG
130 ATGTATCGACAC-TTTTGA-ATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACATGGTG
93495 CAGGC
193 CAGGC
* * ** * ** *
93500 AAAAAGTGTCAATGTATTTGAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGT
1 ATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
* * *
93565 AATAGGTAAATTTACAATGTAACCGCTATAAATATACTGGTTTTATGAGAGAATAGGTTAACATA
66 AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTT-ACATA
* * *
93630 ATGTATCAACACTTTTAAATTTGGGTCGATACTTTTT
130 ATGTATCGACACTTTTGAATTTGTGTCGATACTTTTT
93667 AAATAACGCG
Statistics
Matches: 1033, Mismatches: 109, Indels: 47
0.87 0.09 0.04
Matches are distributed among these distances:
198 24 0.02
199 584 0.57
200 407 0.39
201 18 0.02
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (197 bp):
ATAAAGTGTCGATACATTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTTACATAA
TGTATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACATGGTGCAG
GC
Found at i:95291 original size:19 final size:19
Alignment explanation
Indices: 95267--95315 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
95257 AATGTAGGGT
95267 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
** *
95286 TAATTTTACATACGATTTA
1 TAATTTTGTATAAGATTTA
95305 TAATTTTGTAT
1 TAATTTTGTAT
95316 GTGAATGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:97739 original size:20 final size:19
Alignment explanation
Indices: 97701--97739 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
97691 AGAAACCAAT
*
97701 AATTAAAATGTAATAGGTA
1 AATTAAAATGTAACAGGTA
*
97720 AATTAACAATGTAACCGGTA
1 AATTAA-AATGTAACAGGTA
97740 TAAATATACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (19 bp):
AATTAAAATGTAACAGGTA
Found at i:98186 original size:199 final size:198
Alignment explanation
Indices: 97651--98372 Score: 761
Period size: 199 Copynumber: 3.6 Consensus size: 198
97641 ACCTAAATAT
* * * * *
97651 GTGTCGATATATTT-TCTAAAAGTATCGA-CCCAAAAAACATAGAAACCAATAATTAAAATGTAA
1 GTGTCGATACATTTAT-TAAAAGTATAGATCAC-AAAAACATCGAAACCGATAATTAAAATGTAA
* * * *
97714 TAGGTAAATTAACAATGTAACC-GGTATAAATATACCGG-TTAATTAGAAAATAGGTCAACATAA
64 TAGGTAAATTTACAATGT-ACCTGGTATAAATATACCGGTTTTATGAGAAAATAGGTCGA-ATAA
97777 TGTATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAACGAGGTG
127 TGTATCGACACTTGT-TAAATTTGTGTCGATACTT-TTGTCCAGAATGAATG-CCAAACGAGGTG
* *
97841 TACACATAAA
189 CACGCATAAA
* * *** *** *
97851 GTGTCGATACATTTATTAAAAGTATCA-ATCCCAATAAA-ATCGATACTTTTAAATTTGTATATA
1 GTGTCGATACATTTATTAAAAGTAT-AGATCACAA-AAACATCGAAACCGAT-AATTAAAATGTA
* * *
97914 ATATGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAGCATAA
63 ATAGGTAAATTTACAATGTACCTGGTATAAATATACCGGTTTTATGAGAAAATAGGTC-GAATAA
* *
97979 AGTATCGACACTTGTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACG-GGTGCA
127 TGTATCGACACTTGTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAACGAGGTGCA
*
98043 CGTATAAA
191 CGCATAAA
* * *
98051 GTGTCGATACATTTATTAAAAATATAGATCACAAAAACATCGAAACCGATCATTACAATGTAATA
1 GTGTCGATACATTTATTAAAAGTATAGATCACAAAAACATCGAAACCGATAATTAAAATGTAATA
* * * *
98116 GGTAAATTTACAACGTACCTGATAAAAATATACCGGTTTTATGAGAAAATATGTCTGAATAATGT
66 GGTAAATTTACAATGTACCTGGTATAAATATACCGGTTTTATGAGAAAATAGGTC-GAATAATGT
* * * * * *
98181 ATCGACACTTTTTAAGTTTGTGTCGATATTTTTTTCCAGAATGAATGCCCAACGAGGTGCATGCA
130 ATCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCA
98246 TAAA
195 TAAA
** * * *
98250 GTGTCGATACATTTCA--AATTGTATTGATCTA-AAAAACATTGAAACCGATAATTATAATGTAA
1 GTGTCGATACATTT-ATTAAAAGTATAGATC-ACAAAAACATCGAAACCGATAATTAAAATGTAA
* * * *
98312 TATGTAAATTTGCAATGTTACC-GGTATAAATATATCGG-TTTAGTTAGAAAATAGGTC-AATA
64 TAGGTAAATTTACAATG-TACCTGGTATAAATATACCGGTTTTA-TGAGAAAATAGGTCGAATA
98373 TAAGCGCTAC
Statistics
Matches: 439, Mismatches: 66, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
196 4 0.01
197 4 0.01
198 98 0.22
199 127 0.29
200 84 0.19
201 56 0.13
202 64 0.15
203 2 0.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (198 bp):
GTGTCGATACATTTATTAAAAGTATAGATCACAAAAACATCGAAACCGATAATTAAAATGTAATA
GGTAAATTTACAATGTACCTGGTATAAATATACCGGTTTTATGAGAAAATAGGTCGAATAATGTA
TCGACACTTGTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACGCAT
AAA
Found at i:98469 original size:87 final size:87
Alignment explanation
Indices: 98370--98532 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
98360 AAATAGGTCA
* *
98370 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
98435 TCGGTTAAATGCCTATTTTATT
66 TCGGTTAAATGCCTATTTTATT
98457 ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
98522 TCGGTTAAATG
66 TCGGTTAAATG
98533 ATATAACATA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (87 bp):
ATATAAGAGCTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
TCGGTTAAATGCCTATTTTATT
Found at i:98472 original size:23 final size:23
Alignment explanation
Indices: 98446--98504 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
98436 CGGTTAAATG
*
98446 CCTATTTTATTATATAAGAGCTA
1 CCTATTATATTATATAAGAGCTA
* *
98469 CCTATTACATTATATAAGCGCTA
1 CCTATTATATTATATAAGAGCTA
*
98492 CCTAATATATTAT
1 CCTATTATATTAT
98505 TGTACTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (23 bp):
CCTATTATATTATATAAGAGCTA
Found at i:101698 original size:18 final size:18
Alignment explanation
Indices: 101653--101698 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
101643 AGTAGCAAAA
101653 CTTCTTTCTCCTCACATT
1 CTTCTTTCTCCTCACATT
*
101671 CTTCTCTCTCCTCACATT
1 CTTCTTTCTCCTCACATT
*
101689 CTTTTTTCTC
1 CTTCTTTCTC
101699 ACTCTCTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.39, G:0.00, T:0.52
Consensus pattern (18 bp):
CTTCTTTCTCCTCACATT
Found at i:103974 original size:16 final size:16
Alignment explanation
Indices: 103949--103983 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
103939 AAAAGTAAAG
*
103949 AATATTTAATAACCCA
1 AATATGTAATAACCCA
*
103965 AATATGTAATACCCCA
1 AATATGTAATAACCCA
103981 AAT
1 AAT
103984 TTTGGCCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (16 bp):
AATATGTAATAACCCA
Found at i:116651 original size:3 final size:3
Alignment explanation
Indices: 116636--116697 Score: 108
Period size: 3 Copynumber: 20.7 Consensus size: 3
116626 ACAAAGACCA
116636 AAT AAT AGA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
116681 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
116698 ACATATTTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 1 0.02
3 55 0.96
4 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:119270 original size:21 final size:21
Alignment explanation
Indices: 119245--119284 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
119235 AAGCCTCTAT
119245 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
119266 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
119285 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:122064 original size:169 final size:170
Alignment explanation
Indices: 121785--122123 Score: 671
Period size: 169 Copynumber: 2.0 Consensus size: 170
121775 AGATTGTCAA
121785 ACTTTTTAATTGAAAAAGGTTTTTCAAAAGGGAAGGTTGACACTACATTGTTTTTAAAGCATAAA
1 ACTTTTTAATTGAAAAAGGTTTTTCAAAAGGGAAGGTTGACACTACATTGTTTTTAAAGCATAAA
121850 GGTAAAGATTTATTAGTAGTTCAAATTTATGTTGATGATATAATATTTGGTTCTACTAATGATGT
66 GGTAAAGATTTATTAGTAGTTCAAATTTATGTTGATGATATAATATTTGGTTCTACTAATGATGT
121915 TCTTTGCCAAGAATTTTCTAAGCTAATGC-AAACGAATTC
131 TCTTTGCCAAGAATTTTCTAAGCTAATGCAAAACGAATTC
121954 ACTTTTTAATTGAAAAAGGTTTTTCAAAAGGGAAGGTTGACACTACATTGTTTTTAAAGCATAAA
1 ACTTTTTAATTGAAAAAGGTTTTTCAAAAGGGAAGGTTGACACTACATTGTTTTTAAAGCATAAA
122019 GGTAAAGATTTATTAGTAGTTCAAATTTATGTTGATGATATAATATTTGGTTCTACTAATGATGT
66 GGTAAAGATTTATTAGTAGTTCAAATTTATGTTGATGATATAATATTTGGTTCTACTAATGATGT
122084 TCTTTGCCAAGAATTTTCTAAGCTAATGCAAAACGAATTC
131 TCTTTGCCAAGAATTTTCTAAGCTAATGCAAAACGAATTC
122124 GAAATGAGCA
Statistics
Matches: 169, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
169 159 0.94
170 10 0.06
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (170 bp):
ACTTTTTAATTGAAAAAGGTTTTTCAAAAGGGAAGGTTGACACTACATTGTTTTTAAAGCATAAA
GGTAAAGATTTATTAGTAGTTCAAATTTATGTTGATGATATAATATTTGGTTCTACTAATGATGT
TCTTTGCCAAGAATTTTCTAAGCTAATGCAAAACGAATTC
Found at i:123265 original size:21 final size:23
Alignment explanation
Indices: 123230--123290 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
123220 TAGTGTAGAG
* *
123230 GGAATCGATACCCCCTTG-AGGA
1 GGAACCGATTCCCCCTTGAAGGA
*
123252 GGAACTGATTCCCCCTTTGAAGG-
1 GGAACCGATTCCCCC-TTGAAGGA
123275 GGAACCGATTCCCCCT
1 GGAACCGATTCCCCCT
123291 GTAGGAGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 13 0.39
23 17 0.52
24 3 0.09
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (23 bp):
GGAACCGATTCCCCCTTGAAGGA
Found at i:123309 original size:21 final size:21
Alignment explanation
Indices: 123231--123310 Score: 56
Period size: 21 Copynumber: 3.7 Consensus size: 21
123221 AGTGTAGAGG
123231 GAATCGATACCCCCT-TGAGGA
1 GAATCGATACCCCCTGT-AGGA
* * *
123252 GGAA-CTGATTCCCCCTTTGAAGGG
1 -GAATC-GATACCCCC--TGTAGGA
* *
123276 GAACCGATTCCCCCTGTAGGA
1 GAATCGATACCCCCTGTAGGA
123297 GAATCGATACCCCC
1 GAATCGATACCCCC
123311 CTGGGGTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
21 18 0.39
22 11 0.24
23 12 0.26
24 5 0.11
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (21 bp):
GAATCGATACCCCCTGTAGGA
Found at i:134987 original size:5 final size:5
Alignment explanation
Indices: 134973--135002 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
134963 GTGCTTCAAC
134973 TTTC- TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
135003 CTTTTTGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:135022 original size:27 final size:28
Alignment explanation
Indices: 134992--135056 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
134982 TTTCTTTTCT
* *
134992 TTTCTTTTCTTCTTTTTGAGTG-TTGAA
1 TTTCTTTTCTTCTTTTGGAGTGCTTCAA
135019 TTTC-TTTCTTTCTTTTGGAGTGCTTCAA
1 TTTCTTTTC-TTCTTTTGGAGTGCTTCAA
135047 TTTCTTTTCT
1 TTTCTTTTCT
135057 GATTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 4 0.12
27 16 0.48
28 9 0.27
29 4 0.12
ACGTcount: A:0.09, C:0.15, G:0.12, T:0.63
Consensus pattern (28 bp):
TTTCTTTTCTTCTTTTGGAGTGCTTCAA
Found at i:141710 original size:3 final size:3
Alignment explanation
Indices: 141702--141754 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
141692 ACCTTTTTTA
* *
141702 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAAT TA- TAA TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA-T
141748 TAT TAT T
1 TAT TAT T
141755 TGTTTTCCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.05
3 37 0.84
4 5 0.11
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:142082 original size:14 final size:14
Alignment explanation
Indices: 142063--142089 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
142053 AAAACCCCAA
142063 GTTAGTGAGCGAGG
1 GTTAGTGAGCGAGG
142077 GTTAGTGAGCGAG
1 GTTAGTGAGCGAG
142090 CAAGACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (14 bp):
GTTAGTGAGCGAGG
Found at i:144119 original size:131 final size:130
Alignment explanation
Indices: 143828--144163 Score: 399
Period size: 131 Copynumber: 2.6 Consensus size: 130
143818 TGGTCGAAGT
* * * * *
143828 AATAATTGATTGCTTTAAGGCA-TAAGAGGTCATTTATTCTCGATTGGAAATAATTTGATATTTT
1 AATAAATGACTGCTTTAAGGCACGAA-AGGTCATTTATTCTCGATTGGAAATAATTAGATATTAT
* * *
143892 CGTTTTCTA-TCGAATTAATATCGATTTTAAGATGGAATAATGATATGTCTTCATTTCAATTAGA
65 CGTTTTC-ACTCGAATTAATATCGATTTTAAGACGAAATAATAATATGTCTTCATTTCAATTAGA
143956 GC
129 GC
* * * * *
143958 AATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCGGTTGGAAATCATTAGATATTATC
1 AATAAATGACTGCTTTAAGGCACGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATC
* * * * * * *
144023 GTTTTCACTTGAATCT-ATATTGAATTTTAAGACGAAATAGTAATATTTCTTTATTTCAATTGGG
66 GTTTTCACTCGAAT-TAATATCG-ATTTTAAGACGAAATAATAATATGTCTTCATTTCAATTAGA
*
144087 GT
129 GC
* *
144089 AATAAATGACTGTTTTAATGCACGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATC
1 AATAAATGACTGCTTTAAGGCACGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATC
*
144154 ATTTTCACTC
66 GTTTTCACTC
144164 TTAAAATTAT
Statistics
Matches: 173, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
129 1 0.01
130 70 0.40
131 102 0.59
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (130 bp):
AATAAATGACTGCTTTAAGGCACGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATC
GTTTTCACTCGAATTAATATCGATTTTAAGACGAAATAATAATATGTCTTCATTTCAATTAGAGC
Found at i:146063 original size:17 final size:16
Alignment explanation
Indices: 146032--146065 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
146022 CACGTGAGGA
146032 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
146048 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
146065 T
1 T
146066 ACTGTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:152363 original size:21 final size:21
Alignment explanation
Indices: 152320--152365 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
152310 TTAACTTTTC
* * *
152320 TTTTCTCTTTCTTATTCATTT
1 TTTTCTCTTTCATATTAACTT
*
152341 TTTTCTCTTTCATGTTAACTT
1 TTTTCTCTTTCATATTAACTT
152362 TTTT
1 TTTT
152366 TTTGTCTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTCTCTTTCATATTAACTT
Found at i:156238 original size:17 final size:16
Alignment explanation
Indices: 156207--156240 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
156197 CACGTGAGGA
156207 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
156223 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
156240 T
1 T
156241 ACTATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:164722 original size:133 final size:133
Alignment explanation
Indices: 164525--165203 Score: 703
Period size: 134 Copynumber: 5.1 Consensus size: 133
164515 TCAAAATTGT
* * *
164525 TTCAATCTTCCCTGAGTGACAGTGAAATGAATCAACGTCCCTAGATCTGATTTTCCCTCAAGAAG
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAAC-TCCCCATATCTGATTTTCCCTCAAGAAG
*
164590 AAGCAAAACATAACACTCTCTTCCAAGATTTGATATTCCCTGAGT-ACTAGTGGAACAAGTCTGC
65 AAGCAAAACATAACACTCTCTTTCAAGATTTGATATTCCCTGAGTAAC-AGTGGAACAAGTCTGC
164654 CTCGA
129 CTCGA
* ** *
164659 TTCAATCTTCCTTGAGTGGTAGTGGAATGAATCAACTCCCCATATCTGATTTTCCCTTAAGAAGA
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACTCCCCATATCTGATTTTCCCTCAAGAAGA
* * * * * * * *
164724 AACGAAACAGT-TCCCTCTCTTCCAAGATTTGATATTCCCTGAGTAACAATGGAACAAGTTTGTC
66 AGCAAAACA-TAACACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCC
164788 TCGA
130 TCGA
* * *
164792 TTCAGTCTTCCCTGAGTGACAGTGGAATGAATCAATTCCCCCATATTTGATTTTCCCTCAAGAAG
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACT-CCCCATATCTGATTTTCCCTCAAGAAG
** * * * * * * * *
164857 AAGCGGAATAGATCAATCTCTTTTAGGATTTGATATT-CCTTATGTAACAGTGGAACAAGTCTTC
65 AAGCAAAACATAACACTCTCTTTCAAGATTTGATATTCCCTGA-GTAACAGTGGAACAAGTCTGC
*
164921 CTTGA
129 CTCGA
* * * *
164926 TTCAATCTTCCCTGAGTAACAGTGGAAT-AGATCAACGTCCCCAGATCTAATTTTCCCTCAGGAA
1 TTCAATCTTCCCTGAGTGACAGTGGAATGA-ATCAAC-TCCCCATATCTGATTTTCCCTCAAGAA
* * * * * *
164990 GAAGCAGAACA-AATCCCTCTATTTCAAGATTTGATATT-ACTGAGTAACAGTGGAACAAGTTTT
64 GAAGCAAAACATAA-CACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTG
*
165053 CCTTGA
128 CCTCGA
* * * * *
165059 TTCAATCTTCCCTGAGTAACATTGGAATGAATCAATGTCCCCATATATGATTTTGCCTC-AGAAA
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAA-CTCCCCATATCTGATTTTCCCTCAAG-AA
* * * * *
165123 GAAGCGGAATAA-AT-CCA-TCACTTTCAAGATTTGATATTCACTGAGTAATAGTGGAACAAATC
64 GAAGC--AA-AACATAACACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
*
165185 TGCCTCAA
126 TGCCTCGA
165193 TTCAATCTTCC
1 TTCAATCTTCC
165204 TTGAAAAACA
Statistics
Matches: 457, Mismatches: 72, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
132 1 0.00
133 221 0.48
134 230 0.50
135 3 0.01
136 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (133 bp):
TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAACTCCCCATATCTGATTTTCCCTCAAGAAGA
AGCAAAACATAACACTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTGCCT
CGA
Found at i:164904 original size:134 final size:131
Alignment explanation
Indices: 164525--165203 Score: 727
Period size: 133 Copynumber: 5.1 Consensus size: 131
164515 TCAAAATTGT
* * *
164525 TTCAATCTTCCCTGAGTGACAGTGAAATGAATCAACGTCCCTAGATCTGATTTTCCCTCAAGAAG
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAA-GTCCCCATATCTGATTTTCCCTCAAGAAG
** * * *
164590 AAGCAAAACATAA-CACTCTCTTCCAAGATTTGATATTCCCTGAGT-ACTAGTGGAACAAGTCTG
65 AAGCGGAACA-AATCCCTCTCTTTCAAGATTTGATATT-CCTGAGTAAC-AGTGGAACAAGT-TT
164653 CCTCGA
126 CCTCGA
* ** * *
164659 TTCAATCTTCCTTGAGTGGTAGTGGAATGAATCAACTCCCCATATCTGATTTTCCCTTAAGAAGA
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAAGTCCCCATATCTGATTTTCCCTCAAGAAGA
* * ** * * *
164724 AACGAAACAGTTCCCTCTCTTCCAAGATTTGATATTCCCTGAGTAACAATGGAACAAGTTTGTCT
66 AGCGGAACAAATCCCTCTCTTTCAAGATTTGATATT-CCTGAGTAACAGTGGAACAAGTTT-CCT
164789 CGA
129 CGA
* * *
164792 TTCAGTCTTCCCTGAGTGACAGTGGAATGAATCAATTCCCCCATATTTGATTTTCCCTCAAGAAG
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAAGT-CCCCATATCTGATTTTCCCTCAAGAAG
* * ** * * *
164857 AAGCGGAATAGATCAATCTCTTTTAGGATTTGATATTCCTTATGTAACAGTGGAACAAGTCTTCC
65 AAGCGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCTGA-GTAACAGTGGAACAAGT-TTCC
*
164922 TTGA
128 TCGA
* * * *
164926 TTCAATCTTCCCTGAGTAACAGTGGAAT-AGATCAACGTCCCCAGATCTAATTTTCCCTCAGGAA
1 TTCAATCTTCCCTGAGTGACAGTGGAATGA-ATCAA-GTCCCCATATCTGATTTTCCCTCAAGAA
* * *
164990 GAAGCAGAACAAATCCCTCTATTTCAAGATTTGATATTACTGAGTAACAGTGGAACAAGTTTTCC
64 GAAGCGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCTGAGTAACAGTGGAACAAG-TTTCC
*
165055 TTGA
128 TCGA
* * * *
165059 TTCAATCTTCCCTGAGTAACATTGGAATGAATCAATGTCCCCATATATGATTTTGCCTC-AGAAA
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAA-GTCCCCATATCTGATTTTCCCTCAAG-AA
* * * * * *
165123 GAAGCGGAATAAATCCATCACTTTCAAGATTTGATATTCACTGAGTAATAGTGGAACAAATCTGC
64 GAAGCGGAACAAATCCCTCTCTTTCAAGATTTGATATTC-CTGAGTAACAGTGGAACAAGT-TTC
*
165188 CTCAA
127 CTCGA
165193 TTCAATCTTCC
1 TTCAATCTTCC
165204 TTGAAAAACA
Statistics
Matches: 461, Mismatches: 71, Indels: 26
0.83 0.13 0.05
Matches are distributed among these distances:
132 2 0.00
133 228 0.49
134 228 0.49
135 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (131 bp):
TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAAGTCCCCATATCTGATTTTCCCTCAAGAAGA
AGCGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCTGAGTAACAGTGGAACAAGTTTCCTCG
A
Found at i:165230 original size:267 final size:266
Alignment explanation
Indices: 164525--165230 Score: 836
Period size: 267 Copynumber: 2.6 Consensus size: 266
164515 TCAAAATTGT
* * * * *
164525 TTCAATCTTCCCTGAGTGACAGTGAAATGAATCAACGTCCCTAGATCTGATTTTCCCTCAAGAAG
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAATGTCCCCATATATGATTTTCCCTCAAGAAG
* * *
164590 AAGC--AA-AACATAACACTCTCTTCCAAGATTTGATATTCCCTGAGTACTAGTGGAACAAGTCT
66 AAGCGGAATAA-AT-CCA-TCTCTTTCAAGATTTGATATT-CCTGAGTAATAGTGGAACAAGTCT
*** * *
164652 GCCTCGATTCAATCTTCCTTGAGTGGTAGTGGAATGAATCAAC-TCCCCATATCTGATTTTCCCT
127 GCCTCGATTCAATCTTCCTTGAGTAACAGTGGAATG-ATCAACGTCCCCAGATCTAATTTTCCCT
* ** * *
164716 TAAGAAGAAACGAAACAGTTCCCTCTCTTCCAAGATTTGATATTCCCTGAGTAACAATGGAACAA
191 CAAGAAGAAACGAAACAAATCCCTCTATTCCAAGATTTGATATTCACTGAGTAACAATGGAACAA
164781 GTTTGTCTCGA
256 GTTTGTCTCGA
* *
164792 TTCAGTCTTCCCTGAGTGACAGTGGAATGAATCAAT-TCCCCCATATTTGATTTTCCCTCAAGAA
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAATGT-CCCCATATATGATTTTCCCTCAAGAA
* * * * * * *
164856 GAAGCGGAATAGATCAATCTCTTTTAGGATTTGATATTCCTTATGTAACAGTGGAACAAGTCTTC
65 GAAGCGGAATAAATCCATCTCTTTCAAGATTTGATATTCCTGA-GTAATAGTGGAACAAGTCTGC
* *
164921 CTTGATTCAATCTTCCCTGAGTAACAGTGGAATAGATCAACGTCCCCAGATCTAATTTTCCCTCA
129 CTCGATTCAATCTTCCTTGAGTAACAGTGGAAT-GATCAACGTCCCCAGATCTAATTTTCCCTCA
* * * *
164986 GGAAGAAGC-AGAACAAATCCCTCTATTTCAAGATTTGATATT-ACTGAGTAACAGTGGAACAAG
193 AGAAGAAACGA-AACAAATCCCTCTATTCCAAGATTTGATATTCACTGAGTAACAATGGAACAAG
*
165049 TTT-TCCTTGA
257 TTTGT-CTCGA
* * *
165059 TTCAATCTTCCCTGAGTAACATTGGAATGAATCAATGTCCCCATATATGATTTTGCCTC-AGAAA
1 TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAATGTCCCCATATATGATTTTCCCTCAAG-AA
* *
165123 GAAGCGGAATAAATCCATCACTTTCAAGATTTGATATTCACTGAGTAATAGTGGAACAAATCTGC
65 GAAGCGGAATAAATCCATCTCTTTCAAGATTTGATATTC-CTGAGTAATAGTGGAACAAGTCTGC
* ** * *
165188 CTCAATTCAATCTTCCTTGAAAAACAGAGAAATGACTCAACGT
129 CTCGATTCAATCTTCCTTGAGTAACAGTGGAATGA-TCAACGT
165231 TTCTCGATCT
Statistics
Matches: 372, Mismatches: 54, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
266 10 0.03
267 297 0.80
268 60 0.16
269 4 0.01
270 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (266 bp):
TTCAATCTTCCCTGAGTGACAGTGGAATGAATCAATGTCCCCATATATGATTTTCCCTCAAGAAG
AAGCGGAATAAATCCATCTCTTTCAAGATTTGATATTCCTGAGTAATAGTGGAACAAGTCTGCCT
CGATTCAATCTTCCTTGAGTAACAGTGGAATGATCAACGTCCCCAGATCTAATTTTCCCTCAAGA
AGAAACGAAACAAATCCCTCTATTCCAAGATTTGATATTCACTGAGTAACAATGGAACAAGTTTG
TCTCGA
Found at i:167675 original size:131 final size:131
Alignment explanation
Indices: 167509--167875 Score: 398
Period size: 130 Copynumber: 2.8 Consensus size: 131
167499 CGATATTGAG
* * *
167509 AATAGTAATATCTTTTCATTTCGGTCGGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATT
* * * * * *
167574 TATTCTCGATTGGAAATAATTTGATATTTTCGTTTTCTCTCGAATTAATATCGATTTTTAAGATG
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATCGAATTTTAAGACG
*
167639 T
131 A
* * * * * *
167640 AATAGTGATATCTCTTCATTTCGTTTGGAGCAATAAATGTATTCTTTAAGGTATGAGAGGTC-TT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATT
* * * * * *
167704 TATTCTCGGTTGGAAATCATTAGATATTATCGTTTTCACTTGAATCGATGTTGAATTTTAAGACG
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATCGAATTTTAAGACG
167769 A
131 A
* * * * * * * * *
167770 AATAGTAATATTTCATT-AGTTCAATTGGGGTAATAAATTATTGTTTTAATGCACGA-ATGGTCA
1 AATAGTAATATCTC-TTCATTTCGATTGGAGTAATAAATGAATGCTTTAAGGCATGAGA-GGTCA
* *
167833 TTTATTATCGATTAGAAATAATTAGATATTATCGTTTTCACTC
64 TTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTC
167876 TTAAAATTAT
Statistics
Matches: 192, Mismatches: 41, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
129 1 0.01
130 97 0.51
131 94 0.49
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (131 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATT
TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATCGAATTTTAAGACG
A
Found at i:169125 original size:77 final size:77
Alignment explanation
Indices: 169032--169185 Score: 211
Period size: 77 Copynumber: 2.0 Consensus size: 77
169022 TACTTTACCC
* *
169032 TAATTGTTAAACATCAAAGATATTTTAATGAGTTGTTACATGTTTAAACCTGAATAAACACAAAA
1 TAATTGTTAAACATCAAAGATATTTTAATGAGTTGATACATGTTTAAACCTAAATAAACACAAAA
*
169097 ATATTTTTTAAA
66 ATAATTTTTAAA
* ** **
169109 TAATT-TTGAAACATCAAAGATATTTTGATGTTTTGATACATGTTTAAATGTAAATAAACACAAA
1 TAATTGTT-AAACATCAAAGATATTTTAATGAGTTGATACATGTTTAAACCTAAATAAACACAAA
*
169173 ACTAATTTTTAAA
65 AATAATTTTTAAA
169186 CATCAAAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
76 2 0.03
77 65 0.97
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.38
Consensus pattern (77 bp):
TAATTGTTAAACATCAAAGATATTTTAATGAGTTGATACATGTTTAAACCTAAATAAACACAAAA
ATAATTTTTAAA
Found at i:170774 original size:71 final size:72
Alignment explanation
Indices: 170675--170834 Score: 207
Period size: 71 Copynumber: 2.2 Consensus size: 72
170665 TGAAAAGTTA
* * *
170675 CTGAAGATGATTGATGGGACACTAAAAAGTTGTTGGCATTTTCTAGCATGATGTATTATTAATGG
1 CTGAAGATGATTGATGGGACAATAAAAAGTTGCTGGCATTTTCTAGCATGATGCATTATTAATGG
170740 CA-TTTT
66 CATTTTT
* * * * *
170746 CTGAAGATGATTGCTGGGGA-AATGAAAAGTTGCTGGTATTTTCTGGCATGTTGCATTATTAATG
1 CTGAAGATGATTGAT-GGGACAATAAAAAGTTGCTGGCATTTTCTAGCATGATGCATTATTAATG
170810 GCATTTTT
65 GCATTTTT
* *
170818 CTGAAGATTATTAATGG
1 CTGAAGATGATTGATGG
170835 CCCGTTTTGA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
71 56 0.74
72 20 0.26
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.38
Consensus pattern (72 bp):
CTGAAGATGATTGATGGGACAATAAAAAGTTGCTGGCATTTTCTAGCATGATGCATTATTAATGG
CATTTTT
Found at i:172493 original size:26 final size:26
Alignment explanation
Indices: 172464--172513 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
172454 TATAGTTTTC
*
172464 ATGTAATTGAAATTTAGTCCTACATT
1 ATGTAATTGAAATTTAGTACTACATT
** *
172490 ATGTTTTTTAAATTTAGTACTACA
1 ATGTAATTGAAATTTAGTACTACA
172514 CTTTTCAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (26 bp):
ATGTAATTGAAATTTAGTACTACATT
Found at i:174880 original size:22 final size:22
Alignment explanation
Indices: 174855--174896 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
174845 TGTCCAAAGG
* *
174855 AAGAGAGACTTCTACGAAAGAA
1 AAGAAAGACTTCGACGAAAGAA
*
174877 AAGAAAGAGTTCGACGAAAG
1 AAGAAAGACTTCGACGAAAG
174897 CAACCTTGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.26, T:0.12
Consensus pattern (22 bp):
AAGAAAGACTTCGACGAAAGAA
Found at i:178416 original size:2 final size:2
Alignment explanation
Indices: 178409--178486 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
178399 ATACTCAACA
178409 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178487 GGGTATACAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:180029 original size:16 final size:18
Alignment explanation
Indices: 180001--180035 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
179991 CAATGTGATA
180001 AAAATGTATGAAG-AGTG
1 AAAATGTATGAAGCAGTG
180018 AAAATG-ATGAAGCAGTG
1 AAAATGTATGAAGCAGTG
180035 A
1 A
180036 CAGTGGAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.49, C:0.03, G:0.29, T:0.20
Consensus pattern (18 bp):
AAAATGTATGAAGCAGTG
Found at i:180946 original size:36 final size:34
Alignment explanation
Indices: 180886--182063 Score: 687
Period size: 36 Copynumber: 32.4 Consensus size: 34
180876 ACCAAATAGG
180886 AGTGAAGC--ACCATCCTAAGCCTTCATCGGAGAAT
1 AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
* *
180920 AGTGAAGCAAATCATCTGAAGCCTTCACTGGAGAGT
1 AGTGAAGCAAACCATCT-AAGCCTTCAC-GGAGAAT
* *
180956 AGTGAAGCAAACCATCATAAGCATTTACTGGA-AAGT
1 AGTGAAGCAAACCATC-TAAGCCTTCAC-GGAGAA-T
*
180992 AGTGAAGCAAACCATCCTAAGCCTTCACCGGATAAT
1 AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
*
181028 AGTAAAGCAAACCATCTGAAGCCTTCACCGGAGAAT
1 AGTGAAGCAAACCATCT-AAGCCTTCA-CGGAGAAT
** * *
181064 AGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGT
1 AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
* *
181100 AGTGAAGCAAACCATCTTAAGCCTTCACCGAAAAGT
1 AGTGAAGCAAACCATC-TAAGCCTTCACGGAGAA-T
*
181136 AGTGAAGAAAACCATCCTAAGCCTTCACCGGAGAAT
1 AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
*
181172 AGTGAAGCAAACCATCTAAAGCCTTCACCGGAGAGT
1 AGTGAAGCAAACCATCT-AAGCCTTCA-CGGAGAAT
* * * *
181208 AGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGT
1 AGTGAAGCAAACCAT-CTAAGCCTTCAC-GGAGAAT
* * * *
181244 AGTGAA-TAAATCAATCTTAAGCCTTCACTGAAGAGT
1 AGTGAAGCAAA-CCATC-TAAGCCTTCAC-GGAGAAT
* * * **
181280 AGTGAA-TAAATCAATCTTAAGCCTTCACTGAAGCGT
1 AGTGAAGCAAA-CCATC-TAAGCCTTCAC-GGAGAAT
* * *
181316 AGTGAAGAAAATCCATCAGTAAGCCTT--CTGAGCAT
1 AGTGAAGCAAA-CCATC--TAAGCCTTCACGGAGAAT
* *** * *
181351 GAAGATTAAGTCCTCTGGGCCATCCTAAGCCTTCACCGAAGAGT
1 --AG-TGAAG----C-AAACCAT-CTAAGCCTTCA-CGGAGAAT
*
181395 AGTGAAGCAAACCATCTTAAGCCTTCAC-CA-AAT
1 AGTGAAGCAAACCATC-TAAGCCTTCACGGAGAAT
181428 AGGAGTGAAGC--ACCATCCTAAGCCTTCATCGGAGAAT
1 ---AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
* *
181465 AGTGAAGCAAATCATCTGAAGCCTTCACTGGAGAGT
1 AGTGAAGCAAACCATCT-AAGCCTTCAC-GGAGAAT
* *
181501 AGTGAAGCAAACCATCATAAGCATTTACTGGA-AAGT
1 AGTGAAGCAAACCATC-TAAGCCTTCAC-GGAGAA-T
*
181537 AGTGAAGCAAACCATCCTAAGCCTTCACCGGATAAT
1 AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
*
181573 AGTAAAGCAAACCATCTGAAGCCTTCACCGGAGAAT
1 AGTGAAGCAAACCATCT-AAGCCTTCA-CGGAGAAT
** * *
181609 AGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGT
1 AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
* *
181645 AGTGAAGCAAACCATCTTAAGCCTTCACCGAAAAGT
1 AGTGAAGCAAACCATC-TAAGCCTTCACGGAGAA-T
*
181681 AGTGAAGAAAACCATCCTAAGCCTTCACCGGAGAAT
1 AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
*
181717 AGTGAAGCAAACCATCTAAAGCCTTCACCGGAGAGT
1 AGTGAAGCAAACCATCT-AAGCCTTCA-CGGAGAAT
* * * *
181753 AGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGT
1 AGTGAAGCAAACCAT-CTAAGCCTTCAC-GGAGAAT
* * * *
181789 AGTGAA-TAAATCAATCTTAAGCCTTCACTGAAGAGT
1 AGTGAAGCAAA-CCATC-TAAGCCTTCAC-GGAGAAT
* * * **
181825 AGTGAA-TAAATCAATCTTAAGCCTTCACTGAAGCGT
1 AGTGAAGCAAA-CCATC-TAAGCCTTCAC-GGAGAAT
* * *
181861 AGTGAAGAAAATCCATCAGTAAGCCTT--CTGAGCAT
1 AGTGAAGCAAA-CCATC--TAAGCCTTCACGGAGAAT
* *** * *
181896 GAAGATTAAGTCCTCTGGGCCATCCTAAGCCTTCACCGAAGAGT
1 --AG-TGAAG----C-AAACCAT-CTAAGCCTTCA-CGGAGAAT
* *
181940 AGTGAAGCAAACCATCTTAAGCCTTCACCGAAGAGT
1 AGTGAAGCAAACCATC-TAAGCCTTCA-CGGAGAAT
* * *
181976 AGTGAAGCAAACAATCCTAAGCCTTCACCGAAGAGT
1 AGTGAAGCAAACCAT-CTAAGCCTTCA-CGGAGAAT
* * * *
182012 AGTGAGGCAATCCATCTTAAGCCTTCACAGAAGAGT
1 AGTGAAGCAAACCATC-TAAGCCTTCAC-GGAGAAT
182048 AGTGAAGCAAATCCAT
1 AGTGAAGCAAA-CCAT
182064 TAGTAAGCCT
Statistics
Matches: 944, Mismatches: 119, Indels: 159
0.77 0.10 0.13
Matches are distributed among these distances:
33 2 0.00
34 32 0.03
35 49 0.05
36 733 0.78
37 58 0.06
38 24 0.03
41 24 0.03
42 12 0.01
43 2 0.00
44 8 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (34 bp):
AGTGAAGCAAACCATCTAAGCCTTCACGGAGAAT
Found at i:180998 original size:72 final size:71
Alignment explanation
Indices: 180867--182063 Score: 880
Period size: 72 Copynumber: 16.5 Consensus size: 71
180857 CAATCAATCT
* * *
180867 TAAGCCTTCACCAAATAGGAGTGAAGC--ACCATCCTAAGCCTTCA-TCGGAGAA-TAGTGAAGC
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACT-GGA-AAGTAGTGAAGC
*
180928 AAATCATC
64 AAACCATC
* * * * *
180936 TGAAGCCTTCACTGGAGAGTAGTGAAGCAAACCATCATAAGCATTTACTGGAAAGTAGTGAAGCA
1 T-AAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGTAGTGAAGCA
181001 AACCATCC
65 AACCAT-C
* * * * *
181009 TAAGCCTTCACCGGATAATAGTAAAGCAAACCAT-CTGAAGCCTTCACCGGAGAA-TAGTGAAGC
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCT-AAGCCTTCACTGGA-AAGTAGTGAAGC
**
181072 AAAATATCC
64 AAACCAT-C
** * * * * *
181081 TAAGCCTTCAGTGGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCGAAAAGTAGTGAAGAAA
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGTAGTGAAGCAA
181146 ACCATCC
66 ACCAT-C
* * * *
181153 TAAGCCTTCACCGGAGAATAGTGAAGCAAACCAT-CTAAAGCCTTCACCGGAGAGTAGTGAAGCA
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCT-AAGCCTTCACTGGAAAGTAGTGAAGCA
*
181217 AATCATCC
65 AACCAT-C
* * * * * *
181225 AAAGCCTTCACAGAAGAGTAGTGAA-TAAATCAATCTTAAGCCTTCACT-GAAGAGTAGTGAA-T
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CCATCCTAAGCCTTCACTGGAA-AGTAGTGAAGC
*
181287 AAATCAATC
64 AAA-CCATC
* * * * *
181296 TTAAGCCTTCACTGAAGCGTAGTGAAGAAAATCCATCAGTAAGCCTTCTGAGCAT-GAAGATTAA
1 -TAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CCATC-CTAAGCCTTC--A-C-TGGAA-AGT-A
*** ***
181360 GT-CCTCTGGGCCATCC
57 GTGAAGC-AAACCAT-C
* ** *
181376 TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCTTAAGCCTTCAC-CAAATAGGAGTGAAGC-
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGAA-AGTAGTGAAGCA
181439 -ACCATCC
65 AACCAT-C
* * * * *
181446 TAAGCCTTCATCGGAGAATAGTGAAGCAAATCAT-CTGAAGCCTTCACTGGAGAGTAGTGAAGCA
1 TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCT-AAGCCTTCACTGGAAAGTAGTGAAGCA
181510 AACCATC
65 AACCATC
* * * * *
181517 ATAAGCATTTACTGGAA-AGTAGTGAAGCAAACCATCCTAAGCCTTCACCGGATAA-TAGTAAAG
1 -TAAGCCTTCAC-CGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGA-AAGTAGTGAAG
181580 CAAACCATC
63 CAAACCATC
* * ** * *
181589 TGAAGCCTTCACCGGAGAATAGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGTAGTGAAGCA
1 T-AAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGTAGTGAAGCA
181654 AACCATC
65 AACCATC
* * *
181661 TTAAGCCTTCACCGAAAAGTAGTGAAGAAAACCATCCTAAGCCTTCACCGGAGAA-TAGTGAAGC
1 -TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGA-AAGTAGTGAAGC
181725 AAACCATC
64 AAACCATC
* * * * *
181733 TAAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATCCAAAGCCTTCAC-AGAAGAGTAGTGAA-T
1 T-AAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGAA-AGTAGTGAAGC
*
181796 AAATCAATC
64 AAA-CCATC
* * * * *
181805 TTAAGCCTTCACTGAAGAGTAGTGAA-TAAATCAATCTTAAGCCTTCACT-GAAGCGTAGTGAAG
1 -TAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CCATCCTAAGCCTTCACTGGAA-AGTAGTGAAG
*
181868 AAAATCCATC
63 CAAA-CCATC
* * *** *** *
181878 AGTAAGCCTTCTGAGCATGAAGATTAAGT-CCTCTGGGCCATCCTAAGCCTTCAC-CGAAGAGTA
1 --TAAGCCTTC--A-C-CGAAGAGT-AGTGAAGC-AAACCATCCTAAGCCTTCACTGGAA-AGTA
181941 GTGAAGCAAACCATC
57 GTGAAGCAAACCATC
* * *
181956 TTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCCTAAGCCTTCAC-CGAAGAGTAGTGAGGC
1 -TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGAA-AGTAGTGAAGC
*
182020 AATCCATC
64 AAACCATC
*
182028 TTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCAT
1 -TAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CCAT
182064 TAGTAAGCCT
Statistics
Matches: 910, Mismatches: 158, Indels: 116
0.77 0.13 0.10
Matches are distributed among these distances:
69 2 0.00
70 78 0.09
71 31 0.03
72 618 0.68
73 45 0.05
74 20 0.02
75 2 0.00
76 2 0.00
77 20 0.02
78 24 0.03
79 67 0.07
80 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (71 bp):
TAAGCCTTCACCGAAGAGTAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGTAGTGAAGCAA
ACCATC
Found at i:181085 original size:108 final size:108
Alignment explanation
Indices: 180886--182063 Score: 942
Period size: 108 Copynumber: 10.8 Consensus size: 108
180876 ACCAAATAGG
* * *
180886 AGTGAAGC--ACCATCCTAAGCCTTCATCGGAGAATAGTGAAGCAAATCATCTGAAGCCTTCACT
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACC
* * * *
180949 GGAGAGTAGTGAAGCAAACCATCATAAGCATTTACTGGAAAGT
66 GGAGAATAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGT
* *
180992 AGTGAAGCAAACCATCCTAAGCCTTCACCGGATAATAGTAAAGCAAACCATCTGAAGCCTTCACC
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACC
** * *
181057 GGAGAATAGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGT
66 GGAGAATAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGT
* * *
181100 AGTGAAGCAAACCATCTTAAGCCTTCACC-GAAAAGTAGTGAAGAAAACCATCCT-AAGCCTTCA
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAA-TAGTGAAGCAAACCAT-CTGAAGCCTTCA
* *
181163 CCGGAGAATAGTGAAGCAAACCAT-CTAAAGCCTTCACCGGAGAGT
64 CCGGAGAATAGTGAAGCAAACCATCCT-AAGCCTTCACTGGAAAGT
* * * * * * * *
181208 AGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGTAGTGAA-TAAATCAATCTTAAGCCTTCAC
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAA-CCATCTGAAGCCTTCAC
* * * * * * *
181272 TGAAGAGTAGTGAA-TAAATCAATCTTAAGCCTTCACT-GAAGCGT
65 CGGAGAATAGTGAAGCAAA-CCATCCTAAGCCTTCACTGGAA-AGT
* * * * * *** ***
181316 AGTGAAGAAAATCCATCAGTAAGCCTTCTGAGCATGAAGATTAAGT-CCTCTGGGCCATCCT-AA
1 AGTGAAGCAAA-CCATC-CTAAGCCTTC--A-C-CGGAGAAT-AGTGAAGC-AAACCAT-CTGAA
* * * ** *
181379 GCCTTCACCGAAGAGTAGTGAAGCAAACCATCTTAAGCCTTCAC-CAAATAGG
57 GCCTTCACCGGAGAATAGTGAAGCAAACCATCCTAAGCCTTCACTGGAA-AGT
* * *
181431 AGTGAAGC--ACCATCCTAAGCCTTCATCGGAGAATAGTGAAGCAAATCATCTGAAGCCTTCACT
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACC
* * * *
181494 GGAGAGTAGTGAAGCAAACCATCATAAGCATTTACTGGAAAGT
66 GGAGAATAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGT
* *
181537 AGTGAAGCAAACCATCCTAAGCCTTCACCGGATAATAGTAAAGCAAACCATCTGAAGCCTTCACC
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACC
** * *
181602 GGAGAATAGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGT
66 GGAGAATAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGT
* * *
181645 AGTGAAGCAAACCATCTTAAGCCTTCACC-GAAAAGTAGTGAAGAAAACCATCCT-AAGCCTTCA
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAA-TAGTGAAGCAAACCAT-CTGAAGCCTTCA
* *
181708 CCGGAGAATAGTGAAGCAAACCAT-CTAAAGCCTTCACCGGAGAGT
64 CCGGAGAATAGTGAAGCAAACCATCCT-AAGCCTTCACTGGAAAGT
* * * * * * * *
181753 AGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGTAGTGAA-TAAATCAATCTTAAGCCTTCAC
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAA-CCATCTGAAGCCTTCAC
* * * * * * *
181817 TGAAGAGTAGTGAA-TAAATCAATCTTAAGCCTTCACT-GAAGCGT
65 CGGAGAATAGTGAAGCAAA-CCATCCTAAGCCTTCACTGGAA-AGT
* * * * * *** ***
181861 AGTGAAGAAAATCCATCAGTAAGCCTTCTGAGCATGAAGATTAAGT-CCTCTGGGCCATCCT-AA
1 AGTGAAGCAAA-CCATC-CTAAGCCTTC--A-C-CGGAGAAT-AGTGAAGC-AAACCAT-CTGAA
* * * *
181924 GCCTTCACCGAAGAGTAGTGAAGCAAACCATCTTAAGCCTTCAC-CGAAGAGT
57 GCCTTCACCGGAGAATAGTGAAGCAAACCATCCTAAGCCTTCACTGGAA-AGT
* * * * * * *
181976 AGTGAAGCAAACAATCCTAAGCCTTCACCGAAGAGTAGTGAGGCAATCCATCTTAAGCCTTCACA
1 AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACC
* *
182041 GAAGAGTAGTGAAGCAAATCCAT
66 GGAGAATAGTGAAGCAAA-CCAT
182064 TAGTAAGCCT
Statistics
Matches: 872, Mismatches: 148, Indels: 101
0.78 0.13 0.09
Matches are distributed among these distances:
105 2 0.00
106 65 0.07
107 42 0.05
108 545 0.62
109 30 0.03
110 17 0.02
111 10 0.01
112 7 0.01
113 12 0.01
114 16 0.02
115 116 0.13
116 10 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (108 bp):
AGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTGAAGCCTTCACC
GGAGAATAGTGAAGCAAACCATCCTAAGCCTTCACTGGAAAGT
Found at i:181892 original size:545 final size:545
Alignment explanation
Indices: 180863--182063 Score: 2260
Period size: 545 Copynumber: 2.2 Consensus size: 545
180853 GAACCAATCA
180863 ATCTTAAGCCTTCACCAAATAGGAGTGAAGCACCATCCTAAGCCTTCATCGGAGAATAGTGAAGC
1 ATCTTAAGCCTTCACCAAATAGGAGTGAAGCACCATCCTAAGCCTTCATCGGAGAATAGTGAAGC
180928 AAATCATCTGAAGCCTTCACTGGAGAGTAGTGAAGCAAACCATCATAAGCATTTACTGGAAAGTA
66 AAATCATCTGAAGCCTTCACTGGAGAGTAGTGAAGCAAACCATCATAAGCATTTACTGGAAAGTA
180993 GTGAAGCAAACCATCCTAAGCCTTCACCGGATAATAGTAAAGCAAACCATCTGAAGCCTTCACCG
131 GTGAAGCAAACCATCCTAAGCCTTCACCGGATAATAGTAAAGCAAACCATCTGAAGCCTTCACCG
181058 GAGAATAGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGTAGTGAAGCAAACCATCTTAAGCC
196 GAGAATAGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGTAGTGAAGCAAACCATCTTAAGCC
181123 TTCACCGAAAAGTAGTGAAGAAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATC
261 TTCACCGAAAAGTAGTGAAGAAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATC
181188 TAAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGTAGTGAATAA
326 TAAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGTAGTGAATAA
181253 ATCAATCTTAAGCCTTCACTGAAGAGTAGTGAATAAATCAATCTTAAGCCTTCACTGAAGCGTAG
391 ATCAATCTTAAGCCTTCACTGAAGAGTAGTGAATAAATCAATCTTAAGCCTTCACTGAAGCGTAG
181318 TGAAGAAAATCCATCAGTAAGCCTTCTGAGCATGAAGATTAAGTCCTCTGGGCCATCCTAAGCCT
456 TGAAGAAAATCCATCAGTAAGCCTTCTGAGCATGAAGATTAAGTCCTCTGGGCCATCCTAAGCCT
181383 TCACCGAAGAGTAGTGAAGCAAACC
521 TCACCGAAGAGTAGTGAAGCAAACC
181408 ATCTTAAGCCTTCACCAAATAGGAGTGAAGCACCATCCTAAGCCTTCATCGGAGAATAGTGAAGC
1 ATCTTAAGCCTTCACCAAATAGGAGTGAAGCACCATCCTAAGCCTTCATCGGAGAATAGTGAAGC
181473 AAATCATCTGAAGCCTTCACTGGAGAGTAGTGAAGCAAACCATCATAAGCATTTACTGGAAAGTA
66 AAATCATCTGAAGCCTTCACTGGAGAGTAGTGAAGCAAACCATCATAAGCATTTACTGGAAAGTA
181538 GTGAAGCAAACCATCCTAAGCCTTCACCGGATAATAGTAAAGCAAACCATCTGAAGCCTTCACCG
131 GTGAAGCAAACCATCCTAAGCCTTCACCGGATAATAGTAAAGCAAACCATCTGAAGCCTTCACCG
181603 GAGAATAGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGTAGTGAAGCAAACCATCTTAAGCC
196 GAGAATAGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGTAGTGAAGCAAACCATCTTAAGCC
181668 TTCACCGAAAAGTAGTGAAGAAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATC
261 TTCACCGAAAAGTAGTGAAGAAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATC
181733 TAAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGTAGTGAATAA
326 TAAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGTAGTGAATAA
181798 ATCAATCTTAAGCCTTCACTGAAGAGTAGTGAATAAATCAATCTTAAGCCTTCACTGAAGCGTAG
391 ATCAATCTTAAGCCTTCACTGAAGAGTAGTGAATAAATCAATCTTAAGCCTTCACTGAAGCGTAG
181863 TGAAGAAAATCCATCAGTAAGCCTTCTGAGCATGAAGATTAAGTCCTCTGGGCCATCCTAAGCCT
456 TGAAGAAAATCCATCAGTAAGCCTTCTGAGCATGAAGATTAAGTCCTCTGGGCCATCCTAAGCCT
181928 TCACCGAAGAGTAGTGAAGCAAACC
521 TCACCGAAGAGTAGTGAAGCAAACC
* * * * * * * *
181953 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACAATCCTAAGCCTTCACCGAAGAGTAGTGAG
1 ATCTTAAGCCTTCACCAAATAGGAGTGAAGC--ACCATCCTAAGCCTTCATCGGAGAATAGTGAA
* * *
182018 GC-AATCCATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAAATCCAT
64 GCAAAT-CATCTGAAGCCTTCACTGGAGAGTAGTGAAGCAAA-CCAT
182064 TAGTAAGCCT
Statistics
Matches: 641, Mismatches: 11, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
545 573 0.89
546 3 0.00
547 61 0.10
548 4 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (545 bp):
ATCTTAAGCCTTCACCAAATAGGAGTGAAGCACCATCCTAAGCCTTCATCGGAGAATAGTGAAGC
AAATCATCTGAAGCCTTCACTGGAGAGTAGTGAAGCAAACCATCATAAGCATTTACTGGAAAGTA
GTGAAGCAAACCATCCTAAGCCTTCACCGGATAATAGTAAAGCAAACCATCTGAAGCCTTCACCG
GAGAATAGTGAAGCAAAATATCCTAAGCCTTCAGTGGAGAGTAGTGAAGCAAACCATCTTAAGCC
TTCACCGAAAAGTAGTGAAGAAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACCATC
TAAAGCCTTCACCGGAGAGTAGTGAAGCAAATCATCCAAAGCCTTCACAGAAGAGTAGTGAATAA
ATCAATCTTAAGCCTTCACTGAAGAGTAGTGAATAAATCAATCTTAAGCCTTCACTGAAGCGTAG
TGAAGAAAATCCATCAGTAAGCCTTCTGAGCATGAAGATTAAGTCCTCTGGGCCATCCTAAGCCT
TCACCGAAGAGTAGTGAAGCAAACC
Found at i:182145 original size:36 final size:36
Alignment explanation
Indices: 182104--182289 Score: 140
Period size: 38 Copynumber: 4.9 Consensus size: 36
182094 CCTCCGGACA
*
182104 ATCTTAAGCCTTCACCGAAGAGGAGTGAAGCAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCC
182140 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGC-AATCC
* * * * *** * *
182177 ATCAGTAAGCCTTCCGATCATGATGATTAAGT-CCTCTGAGCC
1 ATC-TTAAGCCTT-C-A-C-CGAAGAGT-AGTGAAGC-AATCC
* * *
182219 ATCTTAAGCCTTCACCAAAGAGTAGTGATGCAAAATCT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGC--AATCC
* *
182257 ATCTTAAGCATTCACCAAAGAGTAGTGAAGCAA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAA
182290 ATCGATCTCG
Statistics
Matches: 116, Mismatches: 25, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
36 35 0.30
37 13 0.11
38 40 0.34
39 2 0.02
40 2 0.02
41 9 0.08
42 12 0.10
43 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCC
Found at i:182188 original size:115 final size:114
Alignment explanation
Indices: 181986--182292 Score: 445
Period size: 115 Copynumber: 2.7 Consensus size: 114
181976 AGTGAAGCAA
* * *
181986 ACAATCCTAAGCCTTCACCGAAGAGTAGTGAGGCAATCCATCTTAAGCCTTCACAGAAGAGTAGT
1 ACAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCGAAGAGTAGT
*
182051 GAAGCAAATCCATTAGTAAGCC-TCTCGAGCATGATGATTAAGTCCTCCGG
66 GAAGCAAATCCATCAGTAAGCCTTC-CGAGCATGATGATTAAGTCCT-CGG
*
182101 ACAATCTTAAGCCTTCACCGAAGAGGAGTGAAGCAATCCATCTTAAGCCTTCACCGAAGAGTAGT
1 ACAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCGAAGAGTAGT
* *
182166 GAAGCAAATCCATCAGTAAGCCTTCCGATCATGATGATTAAGTCCTCTG
66 GAAGCAAATCCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCGG
* * * * * *
182215 AGCCATCTTAAGCCTTCACCAAAGAGTAGTGATGCAAAATCTATCTTAAGCATTCACCAAAGAGT
1 A-CAATCTTAAGCCTTCACCGAAGAGTAGTGAAGC--AATCCATCTTAAGCCTTCACCGAAGAGT
182280 AGTGAAGCAAATC
63 AGTGAAGCAAATC
182293 GATCTCGAGT
Statistics
Matches: 174, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
114 3 0.02
115 131 0.75
116 2 0.01
117 38 0.22
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (114 bp):
ACAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCGAAGAGTAGT
GAAGCAAATCCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCGG
Found at i:201465 original size:21 final size:21
Alignment explanation
Indices: 201441--201495 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
201431 TTCACTCGAT
*
201441 AAATCTCACTATTGAAATTTA
1 AAATCTAACTATTGAAATTTA
201462 AAATCTAACTATTGAAATTTA
1 AAATCTAACTATTGAAATTTA
201483 AAATCTAAC-ATTG
1 AAATCTAACTATTG
201496 GAATCATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATCTAACTATTGAAATTTA
Found at i:201852 original size:11 final size:11
Alignment explanation
Indices: 201836--201861 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
201826 GACATATAAA
201836 AATATCTATTT
1 AATATCTATTT
201847 AATATCTATTT
1 AATATCTATTT
201858 AATA
1 AATA
201862 ATTGAGAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (11 bp):
AATATCTATTT
Found at i:202125 original size:3 final size:3
Alignment explanation
Indices: 202117--202168 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
202107 CCGTTTTTAA
202117 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
202165 TAT T
1 TAT T
202169 CTTTTCAGGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:202627 original size:3 final size:3
Alignment explanation
Indices: 202621--202649 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
202611 AACAAAGTAA
202621 AAG AAG AAG AAG AAG AAG AAG AA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
202650 TGTGTAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:204416 original size:128 final size:129
Alignment explanation
Indices: 204207--204523 Score: 420
Period size: 131 Copynumber: 2.4 Consensus size: 129
204197 TTAATCACTT
* * * * * * *
204207 CTTTAAGGCATAAAAGGTCATTTATTCTCGATTGTAAATAATTCGATATTATCATTCTCTCTCGA
1 CTTTAAGGTATGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGA
* * * * * *
204272 ATTAATATTGATTTTTAATATGGAATAG-TATCTCTTCATTTCTATTGGAGCAATAAATGATTG
66 ATCAATATTGAATTTTAAGATGAAATAGATATCTCTTCATTTCGATTGAAGCAATAAATGATTG
* * * *
204335 CTTTAAGGTATGAGAGGTCATTTATTCTCAATTGGAAATCATTAGATATTATTGTTTTCACTCGA
1 CTTTAAGGTATGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGA
* * *
204400 ATCGATATTGAATTTTAAGATGAAATAGTAATATCTTTTCATTTCGATTGAAGTAATAAATGATT
66 ATCAATATTGAATTTTAAGATGAAATAG--ATATCTCTTCATTTCGATTGAAGCAATAAATGATT
204465 G
129 G
*
204466 TTTTAAGGTATGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTT
1 CTTTAAGGTATGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTT
204524 TCTCTCTTAA
Statistics
Matches: 161, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
128 77 0.48
131 84 0.52
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (129 bp):
CTTTAAGGTATGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGA
ATCAATATTGAATTTTAAGATGAAATAGATATCTCTTCATTTCGATTGAAGCAATAAATGATTG
Found at i:204491 original size:131 final size:131
Alignment explanation
Indices: 204165--204523 Score: 458
Period size: 128 Copynumber: 2.8 Consensus size: 131
204155 CGATATTGAG
* * * * *
204165 AATAGTAATATCTTTTAATTTCG-TTGGAGTAATTAATCACTT-CTTTAAGGCATAAAAGGTCAT
1 AATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATGA-TTGCTTTAAGGTATGAAAGGTCAT
* * * * * * * *
204228 TTATTCTCGATTGTAAATAATTCGATATTATCATTCTCTCTCGAATTAATATTGATTTTTAATAT
65 TTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGAT
*
204293 GG
130 GA
* * * *
204295 AATAG---TATCTCTTCATTTCTATTGGAGCAATAAATGATTGCTTTAAGGTATGAGAGGTCATT
1 AATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAAAGGTCATT
* * * *
204357 TATTCTCAATTGGAAATCATTAGATATTATTGTTTTCACTCGAATCGATATTGAATTTTAAGATG
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGATG
204422 A
131 A
* *
204423 AATAGTAATATCTTTTCATTTCGATTGAAGTAATAAATGATTGTTTTAAGGTATGAAAGGTCATT
1 AATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAAAGGTCATT
204488 TATTCTCGATTGGAAATAATTAGATATTATCGTTTT
66 TATTCTCGATTGGAAATAATTAGATATTATCGTTTT
204524 TCTCTCTTAA
Statistics
Matches: 193, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
127 14 0.07
128 90 0.47
130 5 0.03
131 84 0.44
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (131 bp):
AATAGTAATATCTTTTCATTTCGATTGGAGTAATAAATGATTGCTTTAAGGTATGAAAGGTCATT
TATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTCGAATCAATATTGAATTTTAAGATG
A
Done.