Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 125 of 295
Found at i:37936003 original size:21 final size:21
Alignment explanation
Indices: 37935979--37936021 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
37935969 AGTAAGTAAG
37935979 AATGCCAGAATATATATTAGA
1 AATGCCAGAATATATATTAGA
*
37936000 AATGGCAGAATATATATTAGA
1 AATGCCAGAATATATATTAGA
37936021 A
1 A
37936022 TGTGTTAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (21 bp):
AATGCCAGAATATATATTAGA
Found at i:37938800 original size:18 final size:18
Alignment explanation
Indices: 37938779--37938814 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37938769 CAAAACAATA
37938779 AAAAAATTAAAAATATAT
1 AAAAAATTAAAAATATAT
* *
37938797 AAAAAATTTAAATTATAT
1 AAAAAATTAAAAATATAT
37938815 TTGAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAATTAAAAATATAT
Found at i:37946856 original size:27 final size:26
Alignment explanation
Indices: 37946800--37946856 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
37946790 CAACCTTAAC
* * *
37946800 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTGTACA
* *
37946826 CCTAGGGGTAAATCTGTAAATTGTCCA
1 CCTAGGGGTAAATCAGT-AATTGTACA
37946853 CCTA
1 CCTA
37946857 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTGTACA
Found at i:37952088 original size:40 final size:40
Alignment explanation
Indices: 37952044--37952311 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
37952034 GCAAACACAT
* *
37952044 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37952084 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
37952124 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37952164 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
37952204 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
37952244 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37952284 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
37952312 TCCAATGCTC
Statistics
Matches: 219, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:37966691 original size:47 final size:47
Alignment explanation
Indices: 37966548--37966720 Score: 178
Period size: 47 Copynumber: 3.7 Consensus size: 47
37966538 TGGTTGAGCA
* *
37966548 TTCCGAACTCGTTGAGTTGA-TCCGAGTTCACTTATGGATGCGAATG
1 TTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
37966594 -TCCGAACTCG-TGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACG
*
37966638 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 -TTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
37966686 TTCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37966721 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
42 4 0.04
44 12 0.12
45 19 0.18
46 10 0.10
47 49 0.48
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (47 bp):
TTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:37968590 original size:17 final size:18
Alignment explanation
Indices: 37968561--37968594 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
37968551 TCTTTAATTC
37968561 AATTAGATAATTTTTTCT
1 AATTAGATAATTTTTTCT
37968579 AATTAG-TAATTTTTTC
1 AATTAGATAATTTTTTC
37968595 AACCTAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
AATTAGATAATTTTTTCT
Found at i:37969441 original size:42 final size:43
Alignment explanation
Indices: 37969372--37969550 Score: 191
Period size: 42 Copynumber: 4.2 Consensus size: 43
37969362 CATTAGTTCA
* * * *
37969372 CCCATTGGGCAATACCATACAAAAGCAGACTTTATACAA-TTG
1 CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTTG
* *
37969414 CCCGTTGGCCAATACTATATAATAGCAGACTTTATACAATTTT
1 CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTTG
** * * *
37969457 CCCATTGGTGAATACTATATAATAG-AAACTTTATATAATTTT
1 CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTTG
* * * * * *
37969499 CTCATTGGCGAATACTATATAATAGTAGACTTCATGCAATTCG
1 CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTTG
37969542 CCCATTGGC
1 CCCATTGGC
37969551 GAAATTCCAA
Statistics
Matches: 115, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 72 0.63
43 43 0.37
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.32
Consensus pattern (43 bp):
CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTTG
Found at i:37973589 original size:51 final size:51
Alignment explanation
Indices: 37973517--37973613 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
37973507 TTATGTGACC
37973517 AGAGTACTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAATGAGT
1 AGAGTACTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAATGAGT
*
37973568 AGAGTCCTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAA
1 AGAGTACTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAA
37973614 CTATCTTTGC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (51 bp):
AGAGTACTTCAAGATGGAAAACTAAGGTATCCTAAAGTGGAAAAAATGAGT
Found at i:37973608 original size:23 final size:23
Alignment explanation
Indices: 37973531--37973611 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 23
37973521 TACTTCAAGA
37973531 TGGAAAACTAAGGTATCCTAAAG
1 TGGAAAACTAAGGTATCCTAAAG
*
37973554 TGGAAAA--AATGAGTAGAGTCCTTCAAG
1 TGGAAAACTAA-G-GT--A-TCC-TAAAG
37973581 ATGGAAAACTAAGGTATCCTAAAG
1 -TGGAAAACTAAGGTATCCTAAAG
37973605 TGGAAAA
1 TGGAAAA
37973612 AACTATCTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
21 2 0.04
22 1 0.02
23 16 0.34
24 4 0.09
25 4 0.09
26 4 0.09
27 4 0.09
28 9 0.19
29 1 0.02
30 2 0.04
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.21
Consensus pattern (23 bp):
TGGAAAACTAAGGTATCCTAAAG
Found at i:37973613 original size:25 final size:25
Alignment explanation
Indices: 37973534--37973616 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 25
37973524 TTCAAGATGG
37973534 AAAACTAAGGTATCCTAAAGTGGAA
1 AAAACTAAGGTATCCTAAAGTGGAA
* *
37973559 AAAA-TGA-GTAGAGTCCTTCAAGATGG--
1 AAAACTAAGGT--A-TCC-TAAAG-TGGAA
37973585 AAAACTAAGGTATCCTAAAGTGGAA
1 AAAACTAAGGTATCCTAAAGTGGAA
37973610 AAAACTA
1 AAAACTA
37973617 TCTTTGCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
23 5 0.11
24 6 0.13
25 15 0.33
26 8 0.18
27 6 0.13
28 5 0.11
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (25 bp):
AAAACTAAGGTATCCTAAAGTGGAA
Found at i:37976001 original size:49 final size:48
Alignment explanation
Indices: 37975749--37976026 Score: 178
Period size: 49 Copynumber: 5.6 Consensus size: 48
37975739 GGAGAAGGAT
* * *
37975749 CATATTATTACTTTTTGTAAG-GTTCCCTCTATGCGTTT-GGAAGCAAGGC
1 CATATTATTAC-TTTCGTAAGCCTTCCCTC-ATGAGTTTAGG-AGCAAGGC
* * * * * ** *
37975798 CATATTATCATTTCTCGTAAGCCTTCCCTAAAGAGTCTT-GAAATAGGGC
1 CATATTATTACTT-TCGTAAGCCTTCCCTCATGAGT-TTAGGAGCAAGGC
* * * *
37975847 CATATTATTACTTTCGATAA-ACATCCC-CAATGTGTTTAGGA-CCAGGAC
1 CATATTATTACTTTCG-TAAGCCTTCCCTC-ATGAGTTTAGGAGCAAGG-C
* *
37975895 CATATTATTACTTTTCGTAAG-TTTCCCCTCATGCA-TTTAGGAGCAAAAG-
1 CATATTATTAC-TTTCGTAAGCCTT-CCCTCATG-AGTTTAGGAGC-AAGGC
*
37975944 CATATTATTACTTCTTGTAAGCCTTCCCTCATGAGTTTAGGAGCAAGGC
1 CATATTATTACTT-TCGTAAGCCTTCCCTCATGAGTTTAGGAGCAAGGC
*
37975993 CATTTTATTATCTTTCGTAAAGCCTTCCCCTCAT
1 CATATTATTA-CTTTCGT-AAGCCTT-CCCTCAT
37976027 ATGTTAAGAA
Statistics
Matches: 176, Mismatches: 32, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
47 4 0.02
48 38 0.22
49 102 0.58
50 23 0.13
51 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
CATATTATTACTTTCGTAAGCCTTCCCTCATGAGTTTAGGAGCAAGGC
Found at i:37977751 original size:35 final size:35
Alignment explanation
Indices: 37977701--37977771 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
37977691 TTTATCCTTA
* *
37977701 ATTTTTTTATTTATTTGCATTAATGTCGTTACATG
1 ATTTTTTTATCTATTTGAATTAATGTCGTTACATG
37977736 ATTTTTTTATCTATTTGAATTAATGTCGTTACATG
1 ATTTTTTTATCTATTTGAATTAATGTCGTTACATG
37977771 A
1 A
37977772 GTTAATTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.55
Consensus pattern (35 bp):
ATTTTTTTATCTATTTGAATTAATGTCGTTACATG
Found at i:37980129 original size:21 final size:21
Alignment explanation
Indices: 37980094--37980154 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
37980084 ACATCTACTT
*
37980094 AGGGAAATTATAATCCAA-AAC
1 AGGG-AATTACAATCCAACAAC
37980115 AAGGGAATTACAAT-CAACAAC
1 -AGGGAATTACAATCCAACAAC
*
37980136 AGTGGAACTACAAT-CAACA
1 AG-GGAATTACAATCCAACA
37980155 CACTCAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 5 0.14
21 26 0.74
22 4 0.11
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (21 bp):
AGGGAATTACAATCCAACAAC
Found at i:37990243 original size:46 final size:46
Alignment explanation
Indices: 37990176--37990345 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
37990166 AACCCGCCGC
* *
37990176 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
*
37990222 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACATCCA
* * * * *
37990270 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
37990315 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
37990346 AGATGCTCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.55
47 28 0.27
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
Found at i:37990289 original size:93 final size:93
Alignment explanation
Indices: 37990181--37990351 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
37990171 GCCGCTAAGT
* *
37990181 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
37990246 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
* * *
37990274 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
37990339 CGAGTTCAGATGC
66 CGAGTTCAGATGC
37990352 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:37995191 original size:31 final size:31
Alignment explanation
Indices: 37995150--37995211 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
37995140 CATGTGGGCG
*
37995150 ACACGGGCGTGTGGGCCCACAAGGGTAAACC
1 ACACAGGCGTGTGGGCCCACAAGGGTAAACC
* *
37995181 ACACAGGCGTGTGGGCCCACACGGGTGAACC
1 ACACAGGCGTGTGGGCCCACAAGGGTAAACC
37995212 CAGGAGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.35, T:0.10
Consensus pattern (31 bp):
ACACAGGCGTGTGGGCCCACAAGGGTAAACC
Found at i:37999905 original size:93 final size:93
Alignment explanation
Indices: 37999793--37999964 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
37999783 CGCCCATAAG
*
37999793 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
37999857 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
37999886 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37999951 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
37999965 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:37999959 original size:46 final size:46
Alignment explanation
Indices: 37999786--37999961 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
37999776 TGTAACCCGC
* *
37999786 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
37999832 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
37999882 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37999925 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
37999962 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38007475 original size:93 final size:93
Alignment explanation
Indices: 38007363--38007534 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
38007353 CGCCCATAAG
*
38007363 CGAACTCGGACTCAACTCAACGAGCTTAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
38007427 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
38007456 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
38007521 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
38007535 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTAGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:38007528 original size:46 final size:45
Alignment explanation
Indices: 38007357--38007531 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
38007347 GTAACCCGCC
* *
38007357 CATAAGCGAACTCGGACTCAACTCAACGAGCTTAGG-CGTTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* *
38007402 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
38007452 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38007495 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 C-ATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38007532 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 6 0.05
46 58 0.53
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38017461 original size:39 final size:39
Alignment explanation
Indices: 38017332--38017485 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 39
38017322 AGCGGCACTT
** * *
38017332 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATCAAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAAAAT-GAGCA
** * * *
38017373 TTAGCGGCGTTTTCT-GGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCGTTTT-TAAAAAAACGCCGCTAAA-AATGAGCA
* *
38017413 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
*
38017452 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
38017486 CCTTAGCCCA
Statistics
Matches: 90, Mismatches: 19, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
39 21 0.23
40 55 0.61
41 14 0.16
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
Found at i:38017585 original size:41 final size:40
Alignment explanation
Indices: 38017520--38017635 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
38017510 AACATTTCGT
*
38017520 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATG-CTAGG
* *
38017561 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTAGG
38017602 GGCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAA
38017636 AAACATTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 65 0.96
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTAGG
Found at i:38017877 original size:22 final size:22
Alignment explanation
Indices: 38017852--38017924 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
38017842 GAGTTACTGT
38017852 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
38017874 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
38017896 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
38017916 TTTAAGGTT
1 TTTAAGGTT
38017925 CAGGGTTTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.03
20 3 0.08
21 17 0.43
22 19 0.47
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:38017898 original size:14 final size:15
Alignment explanation
Indices: 38017868--38017908 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
38017858 GTTTATGGAG
38017868 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
38017883 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
38017897 TATGG-TTTAAGG
1 TATGGATTTAAGG
38017909 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:38017951 original size:22 final size:21
Alignment explanation
Indices: 38017921--38017983 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
38017911 TGAGATTTAA
* *
38017921 GGTTCAGGGTTTAGTGGTTAGG
1 GGTTTAGGGTTTAG-AGTTAGG
* *
38017943 GGTTTAGGGGTTAAGAGTTATG
1 GGTTTA-GGGTTTAGAGTTAGG
*
38017965 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGTTTA-GAGTT
38017984 CATGGGTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 6 0.18
22 20 0.61
23 7 0.21
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.40
Consensus pattern (21 bp):
GGTTTAGGGTTTAGAGTTAGG
Found at i:38018035 original size:12 final size:12
Alignment explanation
Indices: 38018014--38018056 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
38018004 TGGGTTTAGA
38018014 TTAA-TTATTTT
1 TTAATTTATTTT
38018025 TTAATTTATTTT
1 TTAATTTATTTT
* *
38018037 TAAATAT-TTTT
1 TTAATTTATTTT
38018048 TTAATTTAT
1 TTAATTTAT
38018057 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:38018051 original size:23 final size:24
Alignment explanation
Indices: 38018013--38018066 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
38018003 TTGGGTTTAG
*
38018013 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
38018035 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
38018059 ATTAAATA
1 ATTAAATA
38018067 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:38018288 original size:21 final size:21
Alignment explanation
Indices: 38018264--38018304 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
38018254 GATTTAAGGT
38018264 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
38018285 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
38018305 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:38018313 original size:21 final size:20
Alignment explanation
Indices: 38018261--38018314 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
38018251 TAGGATTTAA
38018261 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
38018282 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
38018303 GGATTTAGGGTT
1 GG-TTTAGGGTT
38018315 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:38021596 original size:22 final size:22
Alignment explanation
Indices: 38021556--38021597 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
38021546 TATTTTAACC
*
38021556 CTATTTATAAAGTCTAAAAACT
1 CTATTTATAAAGTCAAAAAACT
38021578 CTATTATATAAA-TCAAAAAA
1 CTATT-TATAAAGTCAAAAAA
38021598 TGCCCCTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (22 bp):
CTATTTATAAAGTCAAAAAACT
Found at i:38022669 original size:4 final size:4
Alignment explanation
Indices: 38022660--38022708 Score: 62
Period size: 4 Copynumber: 11.8 Consensus size: 4
38022650 ATATAATGAA
* *
38022660 ATTT ATTT ATTT ATTT ATTT AATT GTTT ATGTT AATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT-TT -ATTT ATTT ATTT ATT
38022709 ATAGGTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
4 33 0.85
5 4 0.10
6 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:38022898 original size:42 final size:41
Alignment explanation
Indices: 38022852--38023076 Score: 182
Period size: 43 Copynumber: 5.3 Consensus size: 41
38022842 ATGGCACTTT
* * *
38022852 TAGCGGCGTTTGCGAAAAAAAGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGAGAAAAAAAGCCGCTAAAGGTC-TGATCTA
*
38022894 TAGCGGCGTTT-ATAAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGAGAAAAAAA--GCCGCTAAAGGTC-TGATCTA
* * **
38022937 TAGCGGCGTTTGTGTAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGAGAAAAAAAGCCGCTAAAGGT-CTGATCTA
* * ** *
38022979 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTG-AGAAAAAAAGCCGCTAAAGG-TCTGATCTA
* * ** * * *
38023022 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTG-AGAAAAAAAGCCGCTAAAGGT-CTGATCTA
38023065 TAGCGGCGTTTG
1 TAGCGGCGTTTG
38023077 TGGGAAAAGC
Statistics
Matches: 158, Mismatches: 18, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
41 7 0.04
42 43 0.27
43 103 0.65
44 5 0.03
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (41 bp):
TAGCGGCGTTTGAGAAAAAAAGCCGCTAAAGGTCTGATCTA
Found at i:38022934 original size:43 final size:43
Alignment explanation
Indices: 38022875--38023096 Score: 302
Period size: 43 Copynumber: 5.2 Consensus size: 43
38022865 GAAAAAAAGT
* * * ***
38022875 CGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* * *
38022918 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GTAAAAGTGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* *
38022960 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTGT
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
*
38023003 CGCTAAAGGTTCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
* * *
38023046 CGTTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
38023089 CGCTAAAG
1 CGCTAAAG
38023097 TTAGCGACGC
Statistics
Matches: 161, Mismatches: 17, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
42 38 0.24
43 123 0.76
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (43 bp):
CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
Found at i:38023084 original size:86 final size:85
Alignment explanation
Indices: 38022852--38023096 Score: 303
Period size: 85 Copynumber: 2.9 Consensus size: 85
38022842 ATGGCACTTT
* * ** * * * * ***
38022852 TAGCGGCGTTTGCGAAAAAAAGTCGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGCG
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCG
38022917 CCGCTAAAGGTCTTGATCTA
66 CCGCTAAAGGTCTTGATCTA
* * *
38022937 TAGCGGCGTTTGTGTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
1 TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCG
*
38023002 TCGCTAAAGGT-TCTGATCTA
66 CCGCTAAAGGTCT-TGATCTA
* * *
38023022 TAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
38023087 GCCGCTAAAG
65 GCCGCTAAAG
38023097 TTAGCGACGC
Statistics
Matches: 138, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 83 0.60
86 54 0.39
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (85 bp):
TAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCG
CCGCTAAAGGTCTTGATCTA
Found at i:38024817 original size:79 final size:81
Alignment explanation
Indices: 38024681--38024865 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
38024671 TTGAATGATG
*
38024681 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
38024745 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38024760 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38024822 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
38024840 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38024866 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:38024879 original size:40 final size:40
Alignment explanation
Indices: 38024682--38024865 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
38024672 TGAATGATGT
* * * *
38024682 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38024722 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
38024762 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38024800 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38024841 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38024866 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38024887 original size:79 final size:79
Alignment explanation
Indices: 38024734--38024898 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
38024724 GGACTAAGAT
* **
38024734 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38024799 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38024813 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38024876 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38024892 CCGAAGG
1 CCGAAGG
38024899 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38032878 original size:79 final size:81
Alignment explanation
Indices: 38032739--38032926 Score: 233
Period size: 79 Copynumber: 2.4 Consensus size: 81
38032729 TATTTGAATG
* *
38032739 ATATCCGGGCTAAGTCCCGAAGGC-TTCGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGC
38032803 ATTTGTGCGAGATACT
66 ATTTGTGCGAGATACT
* * * **
38032819 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAG
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAG
*
38032880 GCATTTGTGCGAGTTACT
64 GCATTTGTGCGAGATACT
* *
38032898 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
38032927 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 1 0.01
79 59 0.63
80 33 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGC
ATTTGTGCGAGATACT
Found at i:38032940 original size:40 final size:41
Alignment explanation
Indices: 38032741--38032926 Score: 224
Period size: 40 Copynumber: 4.7 Consensus size: 41
38032731 TTTGAATGAT
* * * *
38032741 ATCCGGGCTAAGTCCCGAAGGC-TTCGTGCTAAGTGACCAT-
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
* *
38032781 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
38032821 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-A
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
38032860 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
38032901 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
38032927 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 13, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 83 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:38046408 original size:27 final size:26
Alignment explanation
Indices: 38046352--38046527 Score: 138
Period size: 27 Copynumber: 6.5 Consensus size: 26
38046342 AAATTGTACA
* *
38046352 GCACTAAGTGTGCG-ATTCTACTTTGTT
1 GCACTAAGTGTGCGAATT-GACTATG-T
* *
38046379 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATG-T
* *
38046406 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATG-T
**
38046433 GCACTAAGTGTGCGGGTTGACTATGT
1 GCACTAAGTGTGCGAATTGACTATGT
* * *
38046459 AGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGAATTGACTATGT
* * * *
38046486 GGCACTAAATGTGCGAGTTGATTATAT
1 -GCACTAAGTGTGCGAATTGACTATGT
*
38046513 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
38046528 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
27 119 0.98
28 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTGACTATGT
Found at i:38046490 original size:54 final size:54
Alignment explanation
Indices: 38046351--38046527 Score: 180
Period size: 54 Copynumber: 3.3 Consensus size: 54
38046341 TAAATTGTAC
* **
38046351 AGCACTAAGTGTGCGATTCT-ACTT-TGTTGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATT-TGA-TTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* ** * * *
38046404 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGGGTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAGTTGAATATGT
* * * *
38046459 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAGTTGAATATGT
*
38046513 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38046528 GGCTCAATAT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
53 2 0.02
54 98 0.97
55 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAGTTGAATATGT
Found at i:38046491 original size:81 final size:81
Alignment explanation
Indices: 38046352--38046506 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 81
38046342 AAATTGTACA
* * * * *
38046352 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
38046417 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
38046433 GCACTAAGTGTGCGGGTT-GACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAAT
1 GCACTAAGTGTGC-GATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
38046496 GTGCGAGTTGA
64 GTGCGAATTGA
38046507 TTATATAGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.02
81 58 0.94
82 3 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:38047929 original size:44 final size:47
Alignment explanation
Indices: 38047879--38047990 Score: 151
Period size: 44 Copynumber: 2.4 Consensus size: 47
38047869 GTTACATGGG
38047879 CACTTAGTGTGCGAAATTGAGATAGCTTCGG-ATATATATAT-T-TC
1 CACTTAGTGTGCGAAATTGAGATAGCTTCGGCATATATATATATATC
* *
38047923 CACTTAGTGTGTGAGAA-TGAGATAGCTTCGGCTATATATATATATATG
1 CACTTAGTGTGCGA-AATTGAGATAGCTTCGGC-ATATATATATATATC
*
38047971 CACTTAGTGTGCGAGATTGA
1 CACTTAGTGTGCGAAATTGA
38047991 TACAGTTTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
44 27 0.47
45 2 0.03
46 10 0.17
47 2 0.03
48 17 0.29
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.35
Consensus pattern (47 bp):
CACTTAGTGTGCGAAATTGAGATAGCTTCGGCATATATATATATATC
Found at i:38048004 original size:48 final size:48
Alignment explanation
Indices: 38047879--38048011 Score: 141
Period size: 48 Copynumber: 2.9 Consensus size: 48
38047869 GTTACATGGG
*
38047879 CACTTAGTGTGCGA-AATTGAGATAGCTTCGG--ATATATATAT-T-TC
1 CACTTAGTGTGCGAGAA-TGAGACAGCTTCGGCTATATATATATATATC
* * *
38047923 CACTTAGTGTGTGAGAATGAGATAGCTTCGGCTATATATATATATATG
1 CACTTAGTGTGCGAGAATGAGACAGCTTCGGCTATATATATATATATC
* * * * *
38047971 CACTTAGTGTGCGAGATTGATACAGTTTTGGCTATTTATAT
1 CACTTAGTGTGCGAGAATGAGACAGCTTCGGCTATATATAT
38048012 GGCACTAAGT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
44 27 0.36
45 2 0.03
46 10 0.13
47 1 0.01
48 35 0.47
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.38
Consensus pattern (48 bp):
CACTTAGTGTGCGAGAATGAGACAGCTTCGGCTATATATATATATATC
Found at i:38048870 original size:21 final size:20
Alignment explanation
Indices: 38048830--38048870 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38048820 CTAAACCGAT
* *
38048830 CACTTATAAAAATTTCTGAA
1 CACTTAGAAAAATTTATGAA
38048850 CACTTAGAAAAATTTTATGAA
1 CACTTAGAAAAA-TTTATGAA
38048871 AACATAGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
CACTTAGAAAAATTTATGAA
Found at i:38083233 original size:43 final size:42
Alignment explanation
Indices: 38083134--38083246 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
38083124 TGTGTTATCG
* * * **
38083134 TGTAAGACCACGTCTGGGA-TGTTGGCATTGTATTTGATTATG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTATTTGATTACA
*
38083176 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATTTGATTACA
* *
38083219 TGTAAAACCATGTCTGGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACAGTGGCAT
38083247 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:38086498 original size:67 final size:67
Alignment explanation
Indices: 38086388--38086544 Score: 217
Period size: 67 Copynumber: 2.3 Consensus size: 67
38086378 CATCATGTGT
* * *
38086388 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCAGATGCGTGGTTCCAGGTGAAGAATACC
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCAGATGCGTGGTTCCAAGTGAAGAACACC
38086453 ATGTAG
62 ATGTAG
* *
38086459 ACAAGAGAGCTACGGGATATATGTAGCTAGGTC-GCATGCGTGGTTCCAAGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCAG-ATGCGTGGTTCCAAGTGAAGAACACCATG
38086523 TAG
65 TAG
38086526 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
38086545 AACTGGCTAG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
66 1 0.01
67 60 0.76
68 3 0.04
69 2 0.03
71 13 0.16
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCAGATGCGTGGTTCCAAGTGAAGAACACCATGT
AG
Found at i:38096935 original size:39 final size:39
Alignment explanation
Indices: 38096731--38096953 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
38096721 TTGAATGCTG
* * * * *
38096731 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
38096771 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
38096810 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
38096851 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
38096891 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * * *
38096930 ACCGGGCTATGTCCTGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38096954 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:38123925 original size:28 final size:28
Alignment explanation
Indices: 38123822--38123930 Score: 121
Period size: 28 Copynumber: 3.9 Consensus size: 28
38123812 CGAGACTAAT
* *
38123822 TTTCTCACACAAGCTGTAATTTTTG-AA
1 TTTCTCACACAAGCTGTGATATTTGAAA
* * *
38123849 TTTGCTTACACGAGCTGTGATATTTGAAT
1 TTT-CTCACACAAGCTGTGATATTTGAAA
* *
38123878 TTTCTCACACGAGCTATGATATTTGAAA
1 TTTCTCACACAAGCTGTGATATTTGAAA
* *
38123906 TTTCTCACACAAGTTTTGATATTTG
1 TTTCTCACACAAGCTGTGATATTTG
38123931 GGCTACTCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 3 0.04
28 62 0.90
29 4 0.06
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (28 bp):
TTTCTCACACAAGCTGTGATATTTGAAA
Found at i:38123926 original size:56 final size:56
Alignment explanation
Indices: 38123819--38123930 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 56
38123809 ACACGAGACT
* * * *
38123819 AATTTTCTCACACAAGCTGTAATTTTTGAATTTGCTTACACGAGCTGTGATATTTG
1 AATTTTCTCACACAAGCTATAATATTTGAATTTGCTCACACAAGCTGTGATATTTG
* * * *
38123875 AATTTTCTCACACGAGCTATGATATTTGAAATTT-CTCACACAAGTTTTGATATTTG
1 AATTTTCTCACACAAGCTATAATATTTG-AATTTGCTCACACAAGCTGTGATATTTG
38123931 GGCTACTCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
56 42 0.89
57 5 0.11
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (56 bp):
AATTTTCTCACACAAGCTATAATATTTGAATTTGCTCACACAAGCTGTGATATTTG
Found at i:38126954 original size:52 final size:52
Alignment explanation
Indices: 38126876--38126975 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
38126866 ATTAAGGTAC
* * *
38126876 AAAGGTTTCTAATTTAAAAACCTAAATTATTATGGTTATACTCAAAATGCAA
1 AAAGGTTCCTAATTTAAAAACCTAAATTATTACGATTATACTCAAAATGCAA
*
38126928 AAAGGTTCCTAATTTGAAAACCTAAATTATTACGATTATACTCAAAAT
1 AAAGGTTCCTAATTTAAAAACCTAAATTATTACGATTATACTCAAAAT
38126976 ATGATTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (52 bp):
AAAGGTTCCTAATTTAAAAACCTAAATTATTACGATTATACTCAAAATGCAA
Found at i:38127824 original size:28 final size:28
Alignment explanation
Indices: 38127792--38127851 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
38127782 AATCCACCAT
* ** *
38127792 AAAGGGATTTTCTTTCATGGTTTGCCAC
1 AAAGGGAATTTCTTTCACAGTTAGCCAC
38127820 AAA-GGAATTTCTTTCACAGTTAGCCAC
1 AAAGGGAATTTCTTTCACAGTTAGCCAC
38127847 AAAGG
1 AAAGG
38127852 CTTTCTTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (28 bp):
AAAGGGAATTTCTTTCACAGTTAGCCAC
Found at i:38127845 original size:27 final size:26
Alignment explanation
Indices: 38127800--38127870 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
38127790 ATAAAGGGAT
* *
38127800 TTTCTTTCATGGTTTGCCACAAAGGAA
1 TTTCTTTCATAGTTAGCCACAAAGG-A
* *
38127827 TTTCTTTCACAGTTAGCCACAAAGGC
1 TTTCTTTCATAGTTAGCCACAAAGGA
38127853 TTTCTTTTCATAGTTAGC
1 TTTC-TTTCATAGTTAGC
38127871 AAAAAATGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (26 bp):
TTTCTTTCATAGTTAGCCACAAAGGA
Found at i:38127881 original size:27 final size:27
Alignment explanation
Indices: 38127827--38127888 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
38127817 CACAAAGGAA
* *
38127827 TTTC-TTTCACAGTTAGCCACAAAGGC
1 TTTCTTTTCACAGTTAGCAAAAAAGGC
* *
38127853 TTTCTTTTCATAGTTAGCAAAAAATGC
1 TTTCTTTTCACAGTTAGCAAAAAAGGC
*
38127880 TTCCTTTTC
1 TTTCTTTTC
38127889 CTAATGTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (27 bp):
TTTCTTTTCACAGTTAGCAAAAAAGGC
Found at i:38134544 original size:18 final size:21
Alignment explanation
Indices: 38134523--38134564 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 21
38134513 TAATGCCTTC
38134523 TATGTTGGC-TTA-TT-TTGA
1 TATGTTGGCATTAGTTGTTGA
38134541 TATGTTGGCATTAGTTGTTGA
1 TATGTTGGCATTAGTTGTTGA
38134562 TAT
1 TAT
38134565 AGTTTAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
19 3 0.14
20 2 0.10
21 7 0.33
ACGTcount: A:0.19, C:0.05, G:0.24, T:0.52
Consensus pattern (21 bp):
TATGTTGGCATTAGTTGTTGA
Found at i:38137681 original size:52 final size:49
Alignment explanation
Indices: 38137618--38137741 Score: 167
Period size: 49 Copynumber: 2.5 Consensus size: 49
38137608 TCAAAAGGTC
*
38137618 GCCTTCGCATAGTACCACACTTGTGACCAAAGCTATATCTCTTCAGAAAGTG
1 GCCTTCACATAGTACCACACTTGTGACC-AAGCTATATCTCTTC--AAAGTG
* * * *
38137670 GCCTTTACATAGTACCACACTAGTGACCAAGCTATCTCTTTTCAAAGTG
1 GCCTTCACATAGTACCACACTTGTGACCAAGCTATATCTCTTCAAAGTG
*
38137719 GCCTTCACATAGTAGCACACTTG
1 GCCTTCACATAGTACCACACTTG
38137742 AGTCACAAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 26 0.41
51 13 0.20
52 25 0.39
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (49 bp):
GCCTTCACATAGTACCACACTTGTGACCAAGCTATATCTCTTCAAAGTG
Found at i:38137729 original size:49 final size:51
Alignment explanation
Indices: 38137605--38137739 Score: 175
Period size: 52 Copynumber: 2.6 Consensus size: 51
38137595 AAAGCTACCT
* * *
38137605 TCTTCAAAAGGTCGCCTTCGCATAGTACCACACTTGTGACCAAAGCTATATC
1 TCTTCAAAA-GTGGCCTTCACATAGTACCACACTAGTGACCAAAGCTATATC
* *
38137657 TCTTCAGAAAGTGGCCTTTACATAGTACCACACTAGTGACC-AAGCTATCTC
1 TCTTCA-AAAGTGGCCTTCACATAGTACCACACTAGTGACCAAAGCTATATC
* *
38137708 TTTTC-AAAGTGGCCTTCACATAGTAGCACACT
1 TCTTCAAAAGTGGCCTTCACATAGTACCACACT
38137740 TGAGTCACAA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
49 25 0.34
51 13 0.18
52 33 0.45
53 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (51 bp):
TCTTCAAAAGTGGCCTTCACATAGTACCACACTAGTGACCAAAGCTATATC
Found at i:38144068 original size:27 final size:27
Alignment explanation
Indices: 38144024--38144112 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
38144014 CAAAATAGTC
* * * * *
38144024 ATTTTACCCTATAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATTTCGGTA
*
38144051 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTCGGTA
*
38144078 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGGTA
38144105 ATTTTACA
1 ATTTTACA
38144113 AGTCGGGGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGGTA
Found at i:38146040 original size:39 final size:40
Alignment explanation
Indices: 38145882--38146042 Score: 236
Period size: 40 Copynumber: 4.0 Consensus size: 40
38145872 GATGATAACG
*
38145882 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
38145922 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
38145962 GGGCTAAGTCCTGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
38146002 GGGCTATGTCTCGAAGGCA-TTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
38146041 GG
1 GG
38146043 TTAAATCTCG
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
38 2 0.02
39 17 0.15
40 91 0.83
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:38153992 original size:40 final size:40
Alignment explanation
Indices: 38153937--38154111 Score: 221
Period size: 40 Copynumber: 4.4 Consensus size: 40
38153927 GATGATAACT
*
38153937 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
38153977 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
38154017 GGGCTGAGTCCCGAAGGCATTGGTGCGAGTTACTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * * * *
38154057 GGGCTATGTCCC-AAAGAAATTGAGCGAG-TACCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
38154096 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
38154112 TACTTGGCTC
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
38 10 0.09
39 21 0.18
40 86 0.74
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:38155498 original size:27 final size:27
Alignment explanation
Indices: 38155468--38155667 Score: 192
Period size: 27 Copynumber: 7.4 Consensus size: 27
38155458 ACAGGGGGTG
* *
38155468 TTTCGGTAATTTCACAAATTGAAGGTA
1 TTTCGGTAATTTTACAAATCGAAGGTA
* *
38155495 TTTCAGTAATTTTACAAATCAAAGGTA
1 TTTCGGTAATTTTACAAATCGAAGGTA
**
38155522 TTTCAATAATTTTACAAATC-AAGGGTA
1 TTTCGGTAATTTTACAAATCGAA-GGTA
* **
38155549 TTTCGGTAATTTCACAAATCGGGGGTA
1 TTTCGGTAATTTTACAAATCGAAGGTA
* *
38155576 TTTTGGTAATTTTACAAATTG-AGGATA
1 TTTCGGTAATTTTACAAATCGAAGG-TA
* * *
38155603 TTTCAGTAATTTCA-AAATCGAGGGTA
1 TTTCGGTAATTTTACAAATCGAAGGTA
*
38155629 TTTCGATAATTTTACAAATC-AAGGGTA
1 TTTCGGTAATTTTACAAATCGAA-GGTA
**
38155656 TTTTAGTAATTT
1 TTTCGGTAATTT
38155668 CTCTTTATTA
Statistics
Matches: 141, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
26 23 0.16
27 118 0.84
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
TTTCGGTAATTTTACAAATCGAAGGTA
Found at i:38155539 original size:54 final size:54
Alignment explanation
Indices: 38155463--38155668 Score: 245
Period size: 54 Copynumber: 3.8 Consensus size: 54
38155453 GTGTTACAGG
* * * * * *
38155463 GGGTGTTTCGGTAATTTCACAAATTGAA-GGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTTCGATAATTTTACAAA-TCAAGGGTATTTCAGTAATTTCACAAATCGA
* * * *
38155517 AGGTATTTCAATAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAATCGG
1 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAAATCGA
* * ** *
38155571 GGGTATTTTGGTAATTTTACAAATTGAGGATATTTCAGTAATTTCA-AAATCGA
1 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAAATCGA
*
38155624 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTTAGTAATTTC
1 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGTAATTTC
38155669 TCTTTATTAT
Statistics
Matches: 126, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 48 0.38
54 78 0.62
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACAAATCAAGGGTATTTCAGTAATTTCACAAATCGA
Found at i:38155605 original size:81 final size:80
Alignment explanation
Indices: 38155463--38155667 Score: 259
Period size: 81 Copynumber: 2.5 Consensus size: 80
38155453 GTGTTACAGG
* * * *
38155463 GGGTGTTTCGGTAATTTCACAAATTGAAGGTATTTCAGTAATTTTACAAATCAAAGGTATTTCAA
1 GGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAAGGTATTTCAA
*
38155528 TAATTTTACAAATCAA
66 TAATTTCA-AAATCAA
* * **
38155544 GGGTATTTCGGTAATTTCACAAATCGGGGGTATTTTGGTAATTTTACAAAT-TGAGGATATTTCA
1 GGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAAGG-TATTTCA
* *
38155608 GTAATTTCAAAATCGA
65 ATAATTTCAAAATCAA
* * *
38155624 GGGTATTTCGATAATTTTACAAATCAAGGGTATTTTAGTAATTT
1 GGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTAGTAATTT
38155668 CTCTTTATTA
Statistics
Matches: 107, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 48 0.45
81 59 0.55
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (80 bp):
GGGTATTTCGGTAATTTCACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAAGGTATTTCAA
TAATTTCAAAATCAA
Found at i:38157209 original size:93 final size:93
Alignment explanation
Indices: 38157050--38157220 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
38157040 CCCATAAGCA
* *
38157050 AACTCGGACTCAACTCAATAAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACAAGCTTGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
38157115 GAGTTCGGATGCCTAGTTACATTTCACG
66 GAGTTCGGATGCCTAGTTACATTTCACG
*
38157143 AACTCGGACTCAACTCAACGAG-TTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACAAGCTT-GGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38157207 CGAGTTCGGATGCC
65 CGAGTTCGGATGCC
38157221 CAAATATCCG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACAAGCTTGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACG
Found at i:38157216 original size:46 final size:46
Alignment explanation
Indices: 38157041--38157216 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
38157031 TGTAACCCGC
* ** *
38157041 CCATAAGCAAACTCGGACTCAACTCAATAAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACGTTCGCAT
* * * * *
38157087 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* *
38157133 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
38157180 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38157217 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 4 0.04
46 64 0.61
47 35 0.33
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:38159987 original size:30 final size:29
Alignment explanation
Indices: 38159945--38160001 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
38159935 AAAGATAACA
*
38159945 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAACCCAAGATTG
*
38159974 AGAAACCCAGAATAAAGAAACCCAAGAT
1 AGAAAACC-GAATAAAGAAACCCAAGAT
38160002 ACGATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.11
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACCCAAGATTG
Found at i:38165795 original size:30 final size:29
Alignment explanation
Indices: 38165753--38165809 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
38165743 AAAGATAACA
*
38165753 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAACCCAAGATTG
*
38165782 AGAAACCCAGAATAAAGAAACCCAAGAT
1 AGAAAACC-GAATAAAGAAACCCAAGAT
38165810 ACGATACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.56, C:0.18, G:0.16, T:0.11
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAACCCAAGATTG
Found at i:38177794 original size:19 final size:19
Alignment explanation
Indices: 38177766--38177804 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38177756 CAAGGAAGGA
*
38177766 AGAGATAAGAA-AAAGAAAG
1 AGAGAAAAGAAGAAA-AAAG
38177785 AGAGAAAAGAAGAAAAAAG
1 AGAGAAAAGAAGAAAAAAG
38177804 A
1 A
38177805 ATTCGGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
AGAGAAAAGAAGAAAAAAG
Found at i:38180062 original size:56 final size:56
Alignment explanation
Indices: 38179976--38180095 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
38179966 ACAAGGGATA
38179976 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
38180032 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
38180088 ATGGGCAA
1 ATGGGCAA
38180096 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:38181452 original size:40 final size:40
Alignment explanation
Indices: 38181221--38181445 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
38181211 TCGAATGATG
* * * *
38181221 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38181261 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38181301 TCCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38181340 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38181380 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38181421 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38181446 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38181467 original size:119 final size:119
Alignment explanation
Indices: 38181221--38181478 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
38181211 TCGAATGATG
* *
38181221 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ***
38181286 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
38181340 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
38181403 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
38181460 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38181479 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:38187502 original size:56 final size:56
Alignment explanation
Indices: 38187416--38187535 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
38187406 ACAAGGGATG
38187416 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
38187472 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
38187528 ATGGGCAA
1 ATGGGCAA
38187536 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:38188752 original size:40 final size:40
Alignment explanation
Indices: 38188662--38188886 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
38188652 TCGAATGATG
* * * *
38188662 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
38188702 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38188742 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38188781 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38188821 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38188862 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38188887 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 120 0.75
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38188908 original size:119 final size:119
Alignment explanation
Indices: 38188662--38188919 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
38188652 TCGAATGATG
* *
38188662 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
38188727 GTGTGAGATACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
38188781 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
38188844 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGAGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
38188901 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38188920 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:38191306 original size:20 final size:20
Alignment explanation
Indices: 38191281--38191326 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38191271 ATTGGGCCTT
38191281 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
38191301 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
38191320 GCCCATA
1 GCCCATA
38191327 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:38191335 original size:19 final size:20
Alignment explanation
Indices: 38191293--38191336 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
38191283 CCATATTAAC
** *
38191293 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
38191313 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
38191332 ACAGT
1 ACAGT
38191337 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:38194657 original size:12 final size:12
Alignment explanation
Indices: 38194629--38194659 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
38194619 AAATCTGCTA
*
38194629 AAAAATAAAAAT
1 AAAAGTAAAAAT
38194641 AAAAGTAAAAAT
1 AAAAGTAAAAAT
38194653 AAAAGTA
1 AAAAGTA
38194660 GTTTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAAGTAAAAAT
Found at i:38205868 original size:25 final size:25
Alignment explanation
Indices: 38205839--38205889 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
38205829 CCCTTATAAT
* *
38205839 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
38205864 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
38205889 G
1 G
38205890 GATATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:38205946 original size:10 final size:10
Alignment explanation
Indices: 38205933--38205967 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
38205923 TTTATACATA
38205933 ATATGCCATG
1 ATATGCCATG
38205943 ATATGCACATG
1 ATATGC-CATG
38205954 ATATGCCATG
1 ATATGCCATG
38205964 ATAT
1 ATAT
38205968 ATTCATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:38205957 original size:21 final size:21
Alignment explanation
Indices: 38205928--38205967 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38205918 ACTATTTTAT
38205928 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
*
38205949 ACATGATATGCCATGATAT
1 ACATAATATGCCATGATAT
38205968 ATTCATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:38206070 original size:24 final size:25
Alignment explanation
Indices: 38206012--38206081 Score: 124
Period size: 25 Copynumber: 2.8 Consensus size: 25
38206002 GAAGGAAGTG
38206012 CAAAAGGGCTTTGCCCCAGTTTACT
1 CAAAAGGGCTTTGCCCCAGTTTACT
*
38206037 GAAAAGGGCTTTGCCCCAGTTTA-T
1 CAAAAGGGCTTTGCCCCAGTTTACT
38206061 CAAAAGGGCTTTGCCCCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
38206082 ATTAACAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 21 0.49
25 22 0.51
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (25 bp):
CAAAAGGGCTTTGCCCCAGTTTACT
Found at i:38206105 original size:49 final size:49
Alignment explanation
Indices: 38206012--38206106 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
38206002 GAAGGAAGTG
**
38206012 CAAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTAT
* *
38206061 CAAAAGGGCTTTGCCCCAG-TTA-TTAACAGAGGCTAGGCCTCCAGTT
1 CAAAAGGGCTTTGCCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
38206107 ATATGATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.12
48 10 0.25
49 25 0.62
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (49 bp):
CAAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:38213796 original size:25 final size:25
Alignment explanation
Indices: 38213768--38213818 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
38213758 CCCTTATAAT
* *
38213768 GTGAAAATGACCATTTTGCCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
38213793 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
38213818 G
1 G
38213819 GATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:38213871 original size:10 final size:10
Alignment explanation
Indices: 38213858--38213896 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
38213848 CTGTTTTATA
38213858 CATGATATGC
1 CATGATATGC
38213868 CATGATATGC
1 CATGATATGC
38213878 ACATGATATGC
1 -CATGATATGC
*
38213889 CATTATAT
1 CATGATAT
38213897 ATTCATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
CATGATATGC
Found at i:38213883 original size:21 final size:21
Alignment explanation
Indices: 38213857--38213896 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38213847 ACTGTTTTAT
38213857 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
*
38213878 ACATGATATGCCATTATAT
1 ACATGATATGCCATGATAT
38213897 ATTCATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:38213999 original size:24 final size:24
Alignment explanation
Indices: 38213941--38214031 Score: 155
Period size: 24 Copynumber: 3.8 Consensus size: 24
38213931 GGAGGAAGTG
38213941 CAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
38213965 CGAAAAGGGCTTTGCCCTAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
38213990 CAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
38214014 CAAAAGGGTTTTGCCCCA
1 CAAAAGGGCTTTGCCCCA
38214032 ATTATTAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
24 40 0.63
25 23 0.37
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:38214058 original size:49 final size:49
Alignment explanation
Indices: 38213941--38214059 Score: 134
Period size: 49 Copynumber: 2.4 Consensus size: 49
38213931 GGAGGAAGTG
** * *
38213941 CAAAAGGGCTTTGCCCCAGTTTATCGAAAAGGGCTTTGCCCTAGTTTAT
1 CAAAAGGGCTAGGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGATTAT
** *
38213990 CAAAAGGGCTTTGCCCCAGTTTATC-AAAAGGGTTTTGCCCCA-ATTAT
1 CAAAAGGGCTAGGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGATTAT
*
38214037 TAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAG-GGCTAGGCC-CCAGTT
38214060 ATATGATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 9 0.15
48 22 0.35
49 31 0.50
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (49 bp):
CAAAAGGGCTAGGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGATTAT
Found at i:38219602 original size:26 final size:26
Alignment explanation
Indices: 38219573--38219627 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
38219563 TCGGGTACAG
38219573 CATCACAACTGAATCAGATTTTCAAA
1 CATCACAACTGAATCAGATTTTCAAA
*
38219599 CATCACAACTGAATCGGATTTTCAAA
1 CATCACAACTGAATCAGATTTTCAAA
38219625 CAT
1 CAT
38219628 ACATAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (26 bp):
CATCACAACTGAATCAGATTTTCAAA
Found at i:38224548 original size:25 final size:25
Alignment explanation
Indices: 38224484--38224578 Score: 118
Period size: 25 Copynumber: 3.7 Consensus size: 25
38224474 CGTTCTGACC
* * *
38224484 CACAGCTTGTGTGAGCAGACCAATTTT
1 CACAGCTCGTGTGAGCATA-C-ATATT
* *
38224511 CACAGCTCATGTGAGCATACTTATT
1 CACAGCTCGTGTGAGCATACATATT
*
38224536 CACAGTTCGTGTGAGCATACATATT
1 CACAGCTCGTGTGAGCATACATATT
38224561 CACAGCTCGTGTGAGCAT
1 CACAGCTCGTGTGAGCAT
38224579 CTATGTAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 42 0.71
26 1 0.02
27 16 0.27
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCATACATATT
Found at i:38228156 original size:39 final size:40
Alignment explanation
Indices: 38227952--38228172 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
38227942 TTGAATGTTG
* * * * * *
38227952 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
38227992 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
38228032 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
38228072 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
38228112 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
38228151 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
38228173 CTTGAACGAG
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:38228194 original size:79 final size:80
Alignment explanation
Indices: 38228027--38228209 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
38228017 GTGCGAGATA
* * *
38228027 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
38228092 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
38228107 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
38228171 CACTT-GAACGAGGAG
66 CA-TTCGAACGAGGAG
* * *
38228186 CTATATCC-GGTTAAATTCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
38228210 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 13 0.15
79 44 0.51
80 29 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:38236047 original size:39 final size:40
Alignment explanation
Indices: 38235908--38236062 Score: 215
Period size: 40 Copynumber: 3.9 Consensus size: 40
38235898 GAAGACCTTT
*
38235908 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
38235948 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
** *
38235988 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
38236027 GTGTGAGTTACTAAAACCGGGCTATGTCCC-AAGGCA
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
38236063 CTTGAACGAG
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
38 6 0.06
39 25 0.24
40 75 0.71
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
Found at i:38237709 original size:39 final size:41
Alignment explanation
Indices: 38237619--38237712 Score: 133
Period size: 39 Copynumber: 2.4 Consensus size: 41
38237609 CCCCACGAGA
* *
38237619 TGTGCCAGGC-GTTTACCCTTCAAAGTACCTCACACGTCCG
1 TGTGCCAGGCTGTGTACCCTTCAAAGTACCTCACACGCCCG
*
38237659 TGTGCCA-GCTGTGTACCCTTCAAAGTA-CTTACACGCCCG
1 TGTGCCAGGCTGTGTACCCTTCAAAGTACCTCACACGCCCG
38237698 TGTG-CAGGCTGTGTA
1 TGTGCCAGGCTGTGTA
38237713 ACAGCCTGAC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.04
39 24 0.49
40 23 0.47
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (41 bp):
TGTGCCAGGCTGTGTACCCTTCAAAGTACCTCACACGCCCG
Found at i:38238453 original size:10 final size:10
Alignment explanation
Indices: 38238438--38238462 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38238428 TGCTGTACAT
38238438 TCATACCAAA
1 TCATACCAAA
38238448 TCATACCAAA
1 TCATACCAAA
38238458 TCATA
1 TCATA
38238463 TAGCAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (10 bp):
TCATACCAAA
Found at i:38248988 original size:80 final size:79
Alignment explanation
Indices: 38248904--38249075 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
38248894 GGACTAAGAT
*
38248904 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
38248968 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
38248984 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
38249049 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
38249063 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38249076 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:38249055 original size:39 final size:39
Alignment explanation
Indices: 38248851--38249073 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
38248841 TTGAATGCTG
* * * * *
38248851 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
38248891 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
38248930 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
38248971 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
38249011 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
38249050 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38249074 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:38249093 original size:79 final size:80
Alignment explanation
Indices: 38248931--38249108 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
38248921 AGATACAAAT
* * * *
38248931 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
38248996 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
38249011 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
38249075 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
38249090 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38249109 TACATGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:38256846 original size:40 final size:40
Alignment explanation
Indices: 38256814--38256971 Score: 219
Period size: 40 Copynumber: 4.0 Consensus size: 40
38256804 GAAGACCTTT
*
38256814 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
38256854 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
** *
38256894 GTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * * *
38256933 GTGTGAGTTACTAAAACCGGGCTATGTCCCAAAGGCATT
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
38256972 GAACGAGGAG
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 33 0.31
40 75 0.69
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
Found at i:38258640 original size:42 final size:42
Alignment explanation
Indices: 38258580--38258679 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
38258570 CCCACGAGCA
* * * *
38258580 TGTGCCAGGCCGTTTACCCTTCAAAGTAACCTCACACGTCCG
1 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTCACACGCCCG
*
38258622 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTTACACGCCCG
1 TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTCACACGCCCG
38258664 TGTG-CAAGGCTGTGTA
1 TGTGCCAA-GCTGTGTA
38258680 ACAGCCTGAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
41 3 0.06
42 49 0.94
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (42 bp):
TGTGCCAAGCTGTGTACCCTTCAAAGTAACCTCACACGCCCG
Found at i:38260307 original size:42 final size:43
Alignment explanation
Indices: 38260216--38260320 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
38260206 AATGCCAACG
* * *
38260216 TCCCAGAC-GTGGTCTTACATGTAATCGAATATCGATGCCACTA
1 TCCCAGACAG-GGTCTTACACGAAATCAAATATCGATGCCACTA
*
38260259 TCCCAGACAGGGTCTTACACGAAATCAAATA-CGATGCCGA-TG
1 TCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCC-ACTA
* *
38260301 TGCCAGACATGGTCTTACAC
1 TCCCAGACAGGGTCTTACAC
38260321 ATAAATCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 26 0.48
43 27 0.50
44 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGAAATCAAATATCGATGCCACTA
Found at i:38260751 original size:8 final size:8
Alignment explanation
Indices: 38260738--38260762 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38260728 AAATTAGCCC
38260738 TCACATTT
1 TCACATTT
38260746 TCACATTT
1 TCACATTT
38260754 TCACATTT
1 TCACATTT
38260762 T
1 T
38260763 AGTCCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:38260962 original size:22 final size:22
Alignment explanation
Indices: 38260937--38260983 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
38260927 AAATTCAAAG
38260937 ATAAAATATACTAACCCAACAC
1 ATAAAATATACTAACCCAACAC
38260959 ATAAAATATACTAACCCAACAC
1 ATAAAATATACTAACCCAACAC
38260981 ATA
1 ATA
38260984 TCTTTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (22 bp):
ATAAAATATACTAACCCAACAC
Found at i:38262176 original size:20 final size:20
Alignment explanation
Indices: 38262148--38262186 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38262138 AACATTCAAA
*
38262148 ATACTATAATCACAA-CCAAG
1 ATACCATAAT-ACAAGCCAAG
38262168 ATACCATAATACAAGCCAA
1 ATACCATAATACAAGCCAA
38262187 ACTATATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.51, C:0.26, G:0.05, T:0.18
Consensus pattern (20 bp):
ATACCATAATACAAGCCAAG
Found at i:38269514 original size:13 final size:13
Alignment explanation
Indices: 38269496--38269523 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38269486 ATGTGTGTTC
38269496 TAGTTCACAAAGG
1 TAGTTCACAAAGG
38269509 TAGTTCACAAAGG
1 TAGTTCACAAAGG
38269522 TA
1 TA
38269524 CTAAGTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (13 bp):
TAGTTCACAAAGG
Found at i:38269924 original size:48 final size:48
Alignment explanation
Indices: 38269863--38270003 Score: 185
Period size: 48 Copynumber: 3.0 Consensus size: 48
38269853 TACCATGGTT
* * * **
38269863 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTATACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATATCA
* * * *
38269911 ATACATGTAACGTGGTTCTAAGTGGATATGCCACGGTTACATATATCA
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATATCA
*
38269959 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATAT
38270004 AACGTGGTGC
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 35 0.44
48 45 0.56
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATATCA
Found at i:38270016 original size:38 final size:38
Alignment explanation
Indices: 38269965--38270039 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
38269955 ATCAATTCAT
38269965 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATA
* *
38270003 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
38270040 GTTAATTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATA
Found at i:38272937 original size:26 final size:26
Alignment explanation
Indices: 38272907--38272960 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
38272897 GTATTTTCCT
38272907 ATGAGTTTGGT-TTTCGATCTTCCGAC
1 ATGAGTTTGGTATTT-GATCTTCCGAC
38272933 ATGAGTTTGGTATTTGATCTTCCGAC
1 ATGAGTTTGGTATTTGATCTTCCGAC
38272959 AT
1 AT
38272961 AGTATTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.89
27 3 0.11
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.43
Consensus pattern (26 bp):
ATGAGTTTGGTATTTGATCTTCCGAC
Found at i:38272997 original size:15 final size:15
Alignment explanation
Indices: 38272977--38273029 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
38272967 GTATCTTGGG
38272977 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
38272992 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
38273007 TTTCTCTA-TCTTGAA
1 TTTCTTTATTC-TGGA
38273022 TTTCTTTA
1 TTTCTTTA
38273030 CTCAATTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 2 0.06
15 30 0.94
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:38273007 original size:30 final size:30
Alignment explanation
Indices: 38272973--38273029 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
38272963 TATTGTATCT
* *
38272973 TGGGTTTCTTTAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCT-TGAATTTCTTTATTC
38273003 TGGGTTTCTCTATCTTGAATTTCTTTA
1 TGGGTTTCTCTATCTTGAATTTCTTTA
38273030 CTCAATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.12, C:0.14, G:0.16, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGAATTTCTTTATTC
Found at i:38274976 original size:48 final size:48
Alignment explanation
Indices: 38274900--38275040 Score: 185
Period size: 48 Copynumber: 3.0 Consensus size: 48
38274890 TACCATGGTT
* * *
38274900 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACCCATATTA
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
** * *
38274948 ATACATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATCA
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
* * *
38274996 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATAT
38275041 AACGTGGTGC
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 35 0.43
48 46 0.57
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATCA
Found at i:38276668 original size:25 final size:25
Alignment explanation
Indices: 38276640--38276698 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
38276630 ATGCTCACTC
38276640 GAGCTGTAGATC-AGTATGCTCCCAG
1 GAGCTGTAGATCGA-TATGCTCCCAG
* * * *
38276665 GAGCTATAAATCGATATGCTCTCAT
1 GAGCTGTAGATCGATATGCTCCCAG
38276690 GAGCTGTAG
1 GAGCTGTAG
38276699 GTTGCAACGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (25 bp):
GAGCTGTAGATCGATATGCTCCCAG
Found at i:38278122 original size:42 final size:42
Alignment explanation
Indices: 38278052--38278135 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
38278042 ATCAATTTGA
*
38278052 GATTTACGTGTAAGACCATGTCTAGGACA-TCGGCATCGTATAT
1 GATTTACGCGTAAGACCATGTCTAGGACAGT-GGCATCG-ATAT
* * *
38278095 GATTT-CGCGTAAGACCCTGTTTGGGACAGTGGCATCGATAT
1 GATTTACGCGTAAGACCATGTCTAGGACAGTGGCATCGATAT
38278136 TTGACAACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 4 0.11
42 26 0.72
43 6 0.17
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
GATTTACGCGTAAGACCATGTCTAGGACAGTGGCATCGATAT
Found at i:38282676 original size:24 final size:24
Alignment explanation
Indices: 38282644--38282690 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
38282634 AAGTCAAGCA
*
38282644 TTTTGCAATGGACTTGACTATCTG
1 TTTTGCAATGAACTTGACTATCTG
38282668 TTTTGCAATGAACTTGACTATCT
1 TTTTGCAATGAACTTGACTATCT
38282691 CTCTTTTCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTTGCAATGAACTTGACTATCTG
Found at i:38287329 original size:37 final size:37
Alignment explanation
Indices: 38287270--38287378 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
38287260 AGCTCAGACG
* * *
38287270 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
38287307 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
38287344 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
38287379 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:38287650 original size:48 final size:49
Alignment explanation
Indices: 38287524--38287660 Score: 206
Period size: 50 Copynumber: 2.8 Consensus size: 49
38287514 GCACATCGCC
*
38287524 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-A
* * *
38287574 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
38287622 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
38287661 TGCATGTTCA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
48 35 0.45
49 2 0.03
50 41 0.53
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:38287694 original size:47 final size:47
Alignment explanation
Indices: 38287630--38287823 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
38287620 CATACATATT
* * * *
38287630 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
38287677 CCACATTGGTCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
38287724 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
38287771 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
38287818 TCACAT
1 TCACAT
38287824 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:38287750 original size:22 final size:22
Alignment explanation
Indices: 38287723--38287794 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
38287713 GCTCACATTC
38287723 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
38287745 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
38287769 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
38287792 ATC
1 ATC
38287795 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:38288984 original size:21 final size:21
Alignment explanation
Indices: 38288958--38289008 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
38288948 TTGCTCTTAA
38288958 GCTTAAGTAAAACAATAGATT
1 GCTTAAGTAAAACAATAGATT
38288979 GCTTAAGTAAAACAATAGATT
1 GCTTAAGTAAAACAATAGATT
38289000 GCTTAAGTA
1 GCTTAAGTA
38289009 CTTAACTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (21 bp):
GCTTAAGTAAAACAATAGATT
Found at i:38296088 original size:23 final size:23
Alignment explanation
Indices: 38296061--38296185 Score: 105
Period size: 23 Copynumber: 5.4 Consensus size: 23
38296051 ATCTTACTAT
* *
38296061 TTTCAACTCATTGGAGCTTACCG
1 TTTCAGCTCATTAGAGCTTACCG
* *
38296084 TTTCAGCTC-GTATGAGCTTACTG
1 TTTCAGCTCATTA-GAGCTTACCG
* *
38296107 TTT-AGCTCAATAGAGCTTACTG
1 TTTCAGCTCATTAGAGCTTACCG
*
38296129 -TTCAGCTCGA-TAGAGCTTACCA
1 TTTCAGCTC-ATTAGAGCTTACCG
* *
38296151 TTTTAGCTCATTAGAGCTTACTG
1 TTTCAGCTCATTAGAGCTTACCG
38296174 TTCATCAGCTCA
1 TT--TCAGCTCA
38296186 AGAGAAGCTT
Statistics
Matches: 83, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
21 2 0.02
22 32 0.39
23 42 0.51
25 7 0.08
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (23 bp):
TTTCAGCTCATTAGAGCTTACCG
Found at i:38296122 original size:22 final size:22
Alignment explanation
Indices: 38296074--38296175 Score: 109
Period size: 22 Copynumber: 4.5 Consensus size: 22
38296064 CAACTCATTG
* *
38296074 GAGCTTACCGTTTCAGCTC-GTA
1 GAGCTTACTGTTT-AGCTCAATA
38296096 TGAGCTTACTGTTTAGCTCAATA
1 -GAGCTTACTGTTTAGCTCAATA
* *
38296119 GAGCTTACTGTTCAGCTCGATA
1 GAGCTTACTGTTTAGCTCAATA
*
38296141 GAGCTTACCAT-TTTAGCTCATTA
1 GAGCTTA-C-TGTTTAGCTCAATA
38296164 GAGCTTACTGTT
1 GAGCTTACTGTT
38296176 CATCAGCTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.01
22 35 0.51
23 31 0.46
24 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (22 bp):
GAGCTTACTGTTTAGCTCAATA
Done.