Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 37 of 313
Found at i:12526211 original size:6 final size:6
Alignment explanation
Indices: 12526202--12526232 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
12526192 GAATGGATTG
*
12526202 GGGAGA GGGAGA GGGAGA GGGAGA GGAAGA G
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA G
12526233 AAGTGCGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:12526340 original size:6 final size:6
Alignment explanation
Indices: 12526324--12526364 Score: 73
Period size: 6 Copynumber: 6.7 Consensus size: 6
12526314 AGCCCCTTGT
12526324 GCTATTG GCTATG GCTATG GCTATG GCTATG GCTATG GCTA
1 GCTA-TG GCTATG GCTATG GCTATG GCTATG GCTATG GCTA
12526365 AAAAAATATC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 30 0.88
7 4 0.12
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (6 bp):
GCTATG
Found at i:12526747 original size:9 final size:9
Alignment explanation
Indices: 12526713--12526745 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
12526703 TTAAGTCTAA
12526713 TTTTTAATT
1 TTTTTAATT
12526722 TTTTTAATT
1 TTTTTAATT
12526731 TTTTT-ATT
1 TTTTTAATT
12526739 TATTTTA
1 T-TTTTA
12526746 TTAGTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTAATT
Found at i:12537131 original size:22 final size:23
Alignment explanation
Indices: 12537092--12537137 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
12537082 ATACTTCTTG
*
12537092 ATCATAATCTTTTTATAA-ATGT
1 ATCATAATCTTTTCATAACATGT
12537114 ATCATAATAC-TTTCATAACATGT
1 ATCATAAT-CTTTTCATAACATGT
12537137 A
1 A
12537138 AATTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
ATCATAATCTTTTCATAACATGT
Found at i:12539649 original size:48 final size:48
Alignment explanation
Indices: 12539573--12539800 Score: 235
Period size: 48 Copynumber: 4.8 Consensus size: 48
12539563 GGTATATGTA
* * **
12539573 AGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGTACT-GTTATGAG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-ACTCAATATGAG
* * * * *
12539621 AGCTAGTGTAAGACCATGTATGGGACATGGCATTGGCCTCAATATGTG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGACTCAATATGAG
* * ***
12539669 AGCCAGTGTAAGACCATGTTTGGAACATGGCATTGG-CATTGTTATGAG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGAC-TCAATATGAG
** * * * *
12539717 AGTTAGTGCAAGACCATGTTTGGGACATGGCATCTGCCTCAATATGTG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGACTCAATATGAG
*
12539765 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
12539801 CATCTTACTC
Statistics
Matches: 146, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
47 3 0.02
48 142 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGACTCAATATGAG
Found at i:12539730 original size:96 final size:96
Alignment explanation
Indices: 12539566--12539803 Score: 370
Period size: 96 Copynumber: 2.5 Consensus size: 96
12539556 ACGCTGGGGT
* * * * *
12539566 ATATGTAAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGTACTGTTATGAGAGCTAGTGTA
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGCA
12539631 AGACCATGTATGGGACATGGCAT-TGGCCTCA
66 AGACCATGTATGGGACATGGCATCT-GCCTCA
* *
12539662 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGAGAGTTAGTGCA
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGCA
*
12539727 AGACCATGTTTGGGACATGGCATCTGCCTCA
66 AGACCATGTATGGGACATGGCATCTGCCTCA
* *
12539758 ATATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
12539804 CTTACTCTTT
Statistics
Matches: 130, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
96 129 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (96 bp):
ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGCA
AGACCATGTATGGGACATGGCATCTGCCTCA
Found at i:12542029 original size:93 final size:93
Alignment explanation
Indices: 12541870--12542040 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
12541860 GCCCATAAGT
* * * * *
12541870 GAACTCGGAGTCAAGTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
12541935 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
12541963 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
12542028 CGAGTTCGGATGC
66 CGAGCTCGGATGC
12542041 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:12542037 original size:46 final size:46
Alignment explanation
Indices: 12541862--12542037 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
12541852 TGTAACCCGC
* * * * *
12541862 CCATAAGTGAACTCGGAGTCAAGTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
12541908 CCATAAATGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
12541954 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
12542001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
12542038 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 65 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:12543646 original size:21 final size:21
Alignment explanation
Indices: 12543622--12543661 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12543612 GTTAAGATGT
*
12543622 CACACGGGCATGTCGCCCTTC
1 CACACGGGCATGTCCCCCTTC
* *
12543643 CACATGGGCGTGTCCCCCT
1 CACACGGGCATGTCCCCCT
12543662 GTTTGCATTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.42, G:0.25, T:0.20
Consensus pattern (21 bp):
CACACGGGCATGTCCCCCTTC
Found at i:12544950 original size:22 final size:25
Alignment explanation
Indices: 12544902--12544952 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
12544892 CATTTTTGAT
12544902 AAGTAGAATATCATCAACATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
*
12544927 AAGTAGAATATCATCAATATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
12544952 A
1 A
12544953 TGAGGAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.22
Consensus pattern (25 bp):
AAGTAGAATATCATCAACATAAAAA
Found at i:12545506 original size:46 final size:46
Alignment explanation
Indices: 12545405--12545492 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
12545395 TGTAACCCGC
* * *
12545405 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
*
12545451 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
12545493 AACCATCCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:12549693 original size:93 final size:93
Alignment explanation
Indices: 12549581--12549751 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
12549571 GCCCATAAGT
* *
12549581 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12549646 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
12549674 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
12549739 CGAGTTCGGATGC
66 CGAGTTCGGATGC
12549752 TCAAACATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:12549748 original size:46 final size:46
Alignment explanation
Indices: 12549573--12549748 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
12549563 TGTAACCCGC
* * *
12549573 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
12549619 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
12549669 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
12549712 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
12549749 TGCTCAAACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:12552183 original size:30 final size:30
Alignment explanation
Indices: 12552139--12552227 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
12552129 CAAAGATAAC
*
12552139 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
12552168 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
12552198 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
12552228 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:12552187 original size:15 final size:14
Alignment explanation
Indices: 12552139--12552221 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
12552129 CAAAGATAAC
*
12552139 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
12552153 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
12552168 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
12552183 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
12552198 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
12552213 AAGAAACCC
1 AAGAAACCC
12552222 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:12552227 original size:15 final size:15
Alignment explanation
Indices: 12552150--12552227 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
12552140 AGAAAACCGA
12552150 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
12552165 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
12552179 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
12552194 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
12552210 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
12552225 ATA
1 ATA
12552228 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:12556225 original size:21 final size:21
Alignment explanation
Indices: 12556196--12556235 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12556186 GTTAAGATGT
*
12556196 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCGTGTCCCCCTTC
*
12556217 CACATGGGCGTGTCCCCCT
1 CACACGGGCGTGTCCCCCT
12556236 GTTTGCATTG
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:0.10, C:0.42, G:0.28, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTGTCCCCCTTC
Found at i:12557562 original size:25 final size:25
Alignment explanation
Indices: 12557475--12557550 Score: 152
Period size: 25 Copynumber: 3.0 Consensus size: 25
12557465 CATTTTTGAT
12557475 AAGTAGAATATCATCAACATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
12557500 AAGTAGAATATCATCAACATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
12557525 AAGTAGAATATCATCAACATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
12557550 A
1 A
12557551 TGAGGAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.20
Consensus pattern (25 bp):
AAGTAGAATATCATCAACATAAAAA
Found at i:12560036 original size:21 final size:20
Alignment explanation
Indices: 12559991--12560036 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
12559981 GTATCGGTAA
*
12559991 AAATCAAAAAATATCGATAC
1 AAATTAAAAAATATCGATAC
* *
12560011 TAATTAAAAAATATTGATACC
1 AAATTAAAAAATATCGATA-C
12560032 AAATT
1 AAATT
12560037 TGCATTGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (20 bp):
AAATTAAAAAATATCGATAC
Found at i:12560429 original size:38 final size:38
Alignment explanation
Indices: 12560345--12560420 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
12560335 AACATATGCC
*
12560345 ATAATCAACCATTTACACCCCACTTTGAAATGCAAACA
1 ATAATCAACCATTTACACCCCACTTTAAAATGCAAACA
12560383 ATAATCAACCATTTACACCCCACTTTAAAATGCAAACA
1 ATAATCAACCATTTACACCCCACTTTAAAATGCAAACA
12560421 TACTTCAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.24
Consensus pattern (38 bp):
ATAATCAACCATTTACACCCCACTTTAAAATGCAAACA
Found at i:12566887 original size:198 final size:194
Alignment explanation
Indices: 12566553--12566936 Score: 615
Period size: 198 Copynumber: 2.0 Consensus size: 194
12566543 CACCTTAGGT
* *
12566553 TTGGGTGTCGTAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATAAGCCCTCCTTTGAC
1 TTGGGTGTCGCAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATAAGCCCCCCTTTGAC
* *
12566618 TCAATCTGTTCCTTCGAAGTCGACACCACAACATCGAGAGCATCATCCCTTACTGTCAGCTTATC
66 TCAATATGTTCCTTCGAAGTCGACACCACAACATCGAGAGCATCATCCCTTACTATCAGCTTATC
* * *
12566683 CACAATGGAATTGAACACCCATTGCATCGCTTTCACTTTGGAACTGAGAGCCTTCACCACAAGC
131 CACAATGGAATTGAACACCCATTGCATCACTTTCACATTGGAACCGAGAGCCTTCACCACAAGC
*
12566747 TTGGGTGTCGCAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATGAGCCCCCCTTTGAG
1 TTGGGTGTCGCAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATAAGCCCCCCTTTGA-
* *
12566812 CTCTTCAATATGTTCTTTCGAAGTCGACACCATAACATCGAGAGCATCATCCCTTACTATCAGCT
65 --C-TCAATATGTTCCTTCGAAGTCGACACCACAACATCGAGAGCATCATCCCTTACTATCAGCT
* * *
12566877 TCTCCACAATGGAATTGAACACCCATTGCATCACTTTCTCATTGGAACCGAGAGCTTTCA
127 TATCCACAATGGAATTGAACACCCATTGCATCACTTTCACATTGGAACCGAGAGCCTTCA
12566937 TCGCAAAATC
Statistics
Matches: 173, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
194 61 0.35
197 1 0.01
198 111 0.64
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (194 bp):
TTGGGTGTCGCAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATAAGCCCCCCTTTGAC
TCAATATGTTCCTTCGAAGTCGACACCACAACATCGAGAGCATCATCCCTTACTATCAGCTTATC
CACAATGGAATTGAACACCCATTGCATCACTTTCACATTGGAACCGAGAGCCTTCACCACAAGC
Found at i:12567432 original size:54 final size:54
Alignment explanation
Indices: 12567306--12567409 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 54
12567296 AATCAAAGAA
* * **
12567306 ATATATAAAAATACATAAATATTTTTTTAAAATATAATAATAAATTTTAAATAC
1 ATATTTAAAAATAAATAAATATTTTTACAAAATATAATAATAAATTTTAAATAC
12567360 ATATTTAAAAATAAATAAATATTTTTCACAAAATATAATAAT-AATTTTAA
1 ATATTTAAAAATAAATAAATATTTTT-ACAAAATATAATAATAAATTTTAA
12567410 TATTTATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 32 0.71
55 13 0.29
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (54 bp):
ATATTTAAAAATAAATAAATATTTTTACAAAATATAATAATAAATTTTAAATAC
Found at i:12571026 original size:14 final size:14
Alignment explanation
Indices: 12571007--12571036 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12570997 ATGATTATTT
*
12571007 TAATCTAAATTTAC
1 TAATCTAAATTAAC
12571021 TAATCTAAATTAAC
1 TAATCTAAATTAAC
12571035 TA
1 TA
12571037 CAAACGCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:12573777 original size:9 final size:9
Alignment explanation
Indices: 12573763--12573834 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
12573753 TAAGTTGAAG
12573763 AAAATAAAA
1 AAAATAAAA
*
12573772 AAAATAAAG
1 AAAATAAAA
* *
12573781 CAACTAAAA
1 AAAATAAAA
*
12573790 CAAAATTAAA
1 -AAAATAAAA
*
12573800 AAAATAAGA
1 AAAATAAAA
*
12573809 TAAAT--AA
1 AAAATAAAA
12573816 AAAATAAAA
1 AAAATAAAA
12573825 TAAAATAAAA
1 -AAAATAAAA
12573835 TGAATAATAA
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
7 5 0.11
9 27 0.57
10 15 0.32
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (9 bp):
AAAATAAAA
Found at i:12573818 original size:17 final size:18
Alignment explanation
Indices: 12573763--12573834 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 18
12573753 TAAGTTGAAG
12573763 AAAATAAAA-AAAATAAA
1 AAAATAAAATAAAATAAA
* * *
12573780 GCAACTAAAACAAAATTAAA
1 -AAAATAAAATAAAA-TAAA
*
12573800 AAAATAAGAT-AAAT-AA
1 AAAATAAAATAAAATAAA
12573816 AAAATAAAATAAAATAAA
1 AAAATAAAATAAAATAAA
12573834 A
1 A
12573835 TGAATAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
16 11 0.26
17 5 0.12
18 13 0.30
19 10 0.23
20 4 0.09
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAATAAAATAAA
Found at i:12573819 original size:16 final size:17
Alignment explanation
Indices: 12573763--12573834 Score: 67
Period size: 16 Copynumber: 4.1 Consensus size: 17
12573753 TAAGTTGAAG
12573763 AAAATAAAA-AAAATAA
1 AAAATAAAATAAAATAA
* *
12573779 AGCAACTAAAACAAAATTAAA
1 A--AAATAAAATAAAA-T-AA
*
12573800 AAAATAAGAT-AAATAA
1 AAAATAAAATAAAATAA
12573816 AAAATAAAATAAAATAA
1 AAAATAAAATAAAATAA
12573833 AA
1 AA
12573835 TGAATAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
16 12 0.27
17 9 0.20
18 10 0.22
19 10 0.22
20 1 0.02
21 3 0.07
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAATAAAATAAAATAA
Found at i:12573848 original size:6 final size:5
Alignment explanation
Indices: 12573763--12573857 Score: 61
Period size: 5 Copynumber: 18.6 Consensus size: 5
12573753 TAAGTTGAAG
* * * * * *
12573763 AAAAT AAAA- AAAAT -AAAG CAACT AAAAC AAAAT TAAA- AAAAT AAGAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
*
12573810 AAATAA AAAAT AAAAT AAAAT AAAAT GAATAAT AATAAT AACAAT AAA
1 AAA-AT AAAAT AAAAT AAAAT AAAAT -AA-AAT AA-AAT AA-AAT AAA
12573858 CTCGATGATT
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
4 10 0.14
5 38 0.54
6 19 0.27
7 3 0.04
ACGTcount: A:0.75, C:0.04, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12573899 original size:6 final size:6
Alignment explanation
Indices: 12573890--12574035 Score: 57
Period size: 5 Copynumber: 25.5 Consensus size: 6
12573880 AAGGTAATTG
* * *
12573890 TAATAA TAATAG TAA-AA AAATAA TAA-AA AAATAA -AATAA -AATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * *
12573934 AAATAA -AATAA -AATAA AAAT-A TAAGT-A TAAGAA TAATAAA TAAAACA
1 TAATAA TAATAA TAATAA TAATAA TAA-TAA TAATAA TAAT-AA TAATA-A
* * *
12573981 TAAATAA -AATAA -AA-AA TAGTAA -AATAA AAATAAA TAAT-A TAACAAA
1 T-AATAA TAATAA TAATAA TAATAA TAATAA TAAT-AA TAATAA TAA-TAA
12574027 TAATAA TAA
1 TAATAA TAA
12574036 ATAAAAAAAT
Statistics
Matches: 110, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
4 2 0.02
5 46 0.42
6 42 0.38
7 17 0.15
8 3 0.03
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (6 bp):
TAATAA
Found at i:12573916 original size:11 final size:11
Alignment explanation
Indices: 12573897--12574044 Score: 72
Period size: 10 Copynumber: 13.0 Consensus size: 11
12573887 TTGTAATAAT
*
12573897 AATAGTAAAAA
1 AATAATAAAAA
12573908 AATAATAAAAA
1 AATAATAAAAA
*
12573919 AATAA-AATAA
1 AATAATAAAAA
12573929 AATAA-AAATAA
1 AATAATAAA-AA
12573940 AATAAAATAAAAA
1 AAT--AATAAAAA
* * *
12573953 TATAAGTATAAG
1 AATAA-TAAAAA
12573965 AATAATAAATAAA
1 AATAAT-AA-AAA
12573978 ACATAAATAAAATA
1 A-AT-AATAAAA-A
* **
12573992 AAAAATAGTAA
1 AATAATAAAAA
*
12574003 AATAA-AAATA
1 AATAATAAAAA
*
12574013 AATAATATAACA
1 AATAATA-AAAA
*
12574025 AATAAT-AATA
1 AATAATAAAAA
12574035 AATAA-AAAAA
1 AATAATAAAAA
12574045 TGGGGTGGCT
Statistics
Matches: 105, Mismatches: 19, Indels: 27
0.70 0.13 0.18
Matches are distributed among these distances:
10 29 0.28
11 29 0.28
12 23 0.22
13 12 0.11
14 9 0.09
15 3 0.03
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:12573927 original size:16 final size:15
Alignment explanation
Indices: 12573906--12574044 Score: 111
Period size: 16 Copynumber: 8.8 Consensus size: 15
12573896 TAATAGTAAA
12573906 AAAATAATAAAAAAAT
1 AAAATAA-AAAAAAAT
12573922 AAAATAAAATAAAAAT
1 AAAATAAAA-AAAAAT
12573938 AAAATAAAATAAAAAT
1 AAAATAAAA-AAAAAT
* * *
12573954 ATAAGTATAAGAATAAT
1 A-AAATA-AAAAAAAAT
*
12573971 -AAATAAAACATAAAT
1 AAAATAAAA-AAAAAT
* *
12573986 AAAATAAAAAATAGT
1 AAAATAAAAAAAAAT
*
12574001 AAAATAAAAATAAAT
1 AAAATAAAAAAAAAT
*
12574016 AATATAACAAATAATAAT
1 AAAATAA-AAA-AA-AAT
12574034 -AAATAAAAAAA
1 AAAATAAAAAAA
12574045 TGGGGTGGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
14 2 0.02
15 33 0.33
16 44 0.44
17 15 0.15
18 5 0.05
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAAAAAAAAAT
Found at i:12573928 original size:30 final size:29
Alignment explanation
Indices: 12573894--12574045 Score: 102
Period size: 30 Copynumber: 5.1 Consensus size: 29
12573884 TAATTGTAAT
12573894 AATAATAGTAAAAAAATAATAAAAAAATAA
1 AATAATA-TAAAAAAATAATAAAAAAATAA
*
12573924 AATAAAATAAAAATAA-AATAAAATAAA-AA
1 AATAATATAAAAA-AATAATAAAA-AAATAA
* * *
12573953 TATAAGTAT--AAGAATAATAAATAAAACATA
1 AATAA-TATAAAAAAATAATAAA-AAAATA-A
*
12573983 AATAAAATAAAAAATAGTAA-AATAAAAAT-A
1 AATAATATAAAAAA-A-TAATAA-AAAAATAA
*
12574013 AATAATATAACAAATAATAATAAATAAA-AA
1 AATAATATAA-AAA-AATAATAAAAAAATAA
12574043 AAT
1 AAT
12574046 GGGGTGGCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 32
0.70 0.07 0.23
Matches are distributed among these distances:
27 2 0.02
28 11 0.11
29 23 0.24
30 39 0.41
31 9 0.09
32 8 0.08
33 4 0.04
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (29 bp):
AATAATATAAAAAAATAATAAAAAAATAA
Found at i:12573972 original size:44 final size:45
Alignment explanation
Indices: 12573916--12574042 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 45
12573906 AAAATAATAA
*
12573916 AAAAATAAAATAAAATAAAAATAAAATAAAATAAAAATA-TAAGTAT
1 AAAAAT-AAATAAAATAAAAATAAAATAAAATAAAAATAGTAA-AAT
*
12573962 AAGAAT-AAT-AAATAAAACAT-AAATAAAATAAAAAATAGTAAAAT
1 AAAAATAAATAAAATAAAA-ATAAAATAAAAT-AAAAATAGTAAAAT
*
12574006 AAAAATAAATAATATAACAAATAATAAT-AAATAAAAA
1 AAAAATAAATAAAATAA-AAATAA-AATAAAATAAAAA
12574043 AATGGGGTGG
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
43 17 0.25
44 19 0.28
45 6 0.09
46 17 0.25
47 7 0.10
48 3 0.04
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (45 bp):
AAAAATAAATAAAATAAAAATAAAATAAAATAAAAATAGTAAAAT
Found at i:12574017 original size:48 final size:49
Alignment explanation
Indices: 12573897--12574043 Score: 123
Period size: 48 Copynumber: 3.0 Consensus size: 49
12573887 TTGTAATAAT
* * *
12573897 AATAGTAAAA-AAATAATAAAAAAATAAAATAAAATAAAAATAAAAT--AA
1 AATAGTAAAATAAAGAATAAAATAAT-AAATAAAA-ATAAATAAAATAAAA
*
12573945 AATA--AAAATATAAGTATAAGAATAATAAATAAAACATAAATAAAATAAAA
1 AATAGTAAAATA-AAGAATAA-AATAATAAATAAAA-ATAAATAAAATAAAA
*
12573995 AATAGTAAAATAAA-AAT-AAATAATATAACAAATAAT-AAT-AAATAAAA
1 AATAGTAAAATAAAGAATAAAATAATA-AATAAA-AATAAATAAAATAAAA
12574042 AA
1 AA
12574044 ATGGGGTGGC
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
46 4 0.05
47 11 0.13
48 38 0.46
49 13 0.16
50 9 0.11
51 2 0.02
52 6 0.07
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (49 bp):
AATAGTAAAATAAAGAATAAAATAATAAATAAAAATAAATAAAATAAAA
Found at i:12574038 original size:63 final size:64
Alignment explanation
Indices: 12573918--12574041 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 64
12573908 AATAATAAAA
*
12573918 AAATAAAATAAAATAAAAATAAAATAAAATAAAAATATAAGTATAAGAATAATAAATAAAACAT
1 AAATAAAATAAAATAAAAATAAAATAAAATAAAAATATAAGCATAAGAATAATAAATAAAACAT
* * *
12573982 AAATAAAATAAAA-AATAGTAAAATAAAAATAAATAATATAA-CA-AATAATAATAAATAAAA
1 AAATAAAATAAAATAAAAATAAAAT-AAAATAAA-AATATAAGCATAAGAATAATAAATAAAA
12574042 AAATGGGGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
63 25 0.46
64 22 0.41
65 7 0.13
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (64 bp):
AAATAAAATAAAATAAAAATAAAATAAAATAAAAATATAAGCATAAGAATAATAAATAAAACAT
Found at i:12574044 original size:48 final size:43
Alignment explanation
Indices: 12573903--12574045 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 43
12573893 TAATAATAGT
*
12573903 AAAAAAATA-ATAA-AAAAATAAAATAAAATAAAAATAAAATAAA
1 AAAAAAATATAAAATAAAAAT-AAAT-AAATAAAAATAAAATAAA
* * *
12573946 ATAAAAATATAAGTATAAGAAT-AATAAATAAAACAT-AAATAAA
1 AAAAAAATATAA-AATAAAAATAAATAAATAAAA-ATAAAATAAA
12573989 ATAAAAAATAGTAAAATAAAAATAAATAATATAACAAATAATAATAAA
1 A-AAAAAATA-TAAAATAAAAATAAATAA-ATAA-AAATAA-AATAAA
12574037 TAAAAAAAT
1 -AAAAAAAT
12574046 GGGGTGGCTT
Statistics
Matches: 81, Mismatches: 7, Indels: 19
0.76 0.07 0.18
Matches are distributed among these distances:
43 24 0.30
44 20 0.25
45 9 0.11
46 11 0.14
47 3 0.04
48 13 0.16
49 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.02, T:0.21
Consensus pattern (43 bp):
AAAAAAATATAAAATAAAAATAAATAAATAAAAATAAAATAAA
Found at i:12576962 original size:25 final size:25
Alignment explanation
Indices: 12576933--12576980 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12576923 TTATAATATG
* * *
12576933 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
12576958 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
12576981 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:12577031 original size:9 final size:9
Alignment explanation
Indices: 12577019--12577075 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
12577009 TTTGATAAAC
12577019 ATGATATGT
1 ATGATATGT
*
12577028 ATGATATGCAC
1 ATGATATG--T
*
12577039 ATGACATGT
1 ATGATATGT
*
12577048 ATGATATGCAC
1 ATGATATG--T
12577059 ATGATATGT
1 ATGATATGT
12577068 ATGATATG
1 ATGATATG
12577076 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:12577042 original size:20 final size:20
Alignment explanation
Indices: 12577017--12577079 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
12577007 ATTTTGATAA
12577017 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
12577037 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
12577057 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
12577077 ACA
1 ACA
12577080 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:12577272 original size:25 final size:24
Alignment explanation
Indices: 12577133--12577276 Score: 222
Period size: 24 Copynumber: 6.0 Consensus size: 24
12577123 GAGGAAGTGC
12577133 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
12577157 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
12577181 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
12577205 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
12577228 AAAAAGGGGCTT-TGCCCCAGTTATT
1 -AAAA-GGGCTTATGCCCCAGTTATT
*
12577253 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
12577277 ATGATAAAGC
Statistics
Matches: 113, Mismatches: 1, Indels: 11
0.90 0.01 0.09
Matches are distributed among these distances:
23 25 0.22
24 58 0.51
25 24 0.21
26 6 0.05
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:12577505 original size:31 final size:31
Alignment explanation
Indices: 12577470--12577533 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
12577460 CGTTTACAGT
12577470 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
12577501 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
12577532 AA
1 AA
12577534 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:12578890 original size:42 final size:41
Alignment explanation
Indices: 12578772--12578890 Score: 102
Period size: 42 Copynumber: 2.8 Consensus size: 41
12578762 TACCATAACA
* * *
12578772 ATGCCATATCCCAGATA-CGTCTT-ACATGGGATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTAACAT-AG-TCTCGTATCG
* *
12578813 ATGCCAATAGCCCA-ACTATGGTCTTAGACGA-AGTCTCTTATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTA-AC-ATAGTCTCGTATCG
12578856 ATGCCATATCCCAGATATGGTCTTACACATAGTCT
1 ATGCCATATCCCAGATATGGTCTTA-ACATAGTCT
12578891 TAATAGCTCT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
41 7 0.11
42 33 0.52
43 19 0.30
44 1 0.02
45 2 0.03
46 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTAACATAGTCTCGTATCG
Found at i:12589105 original size:19 final size:19
Alignment explanation
Indices: 12589083--12589120 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
12589073 TAGAAACACC
12589083 TATTAT-TTTTACTTTTTAT
1 TATTATATTTTA-TTTTTAT
*
12589102 TATTTTATTTTATTTTTAT
1 TATTATATTTTATTTTTAT
12589121 CTTTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTATATTTTATTTTTAT
Found at i:12589120 original size:6 final size:6
Alignment explanation
Indices: 12589085--12589135 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
12589075 GAAACACCTA
* *
12589085 TTATTT TTACTTT TTATTAT TT-TATT TTATTT TTATCT TTATTT ATATTT
1 TTATTT TTA-TTT TTATT-T TTAT-TT TTATTT TTATTT TTATTT TTATTT
12589135 T
1 T
12589136 GGAATTACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 26 0.70
7 11 0.30
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:12597610 original size:14 final size:14
Alignment explanation
Indices: 12597591--12597620 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12597581 ATGATTGTTT
*
12597591 TAATCTAAATTTAC
1 TAATCTAAATTAAC
12597605 TAATCTAAATTAAC
1 TAATCTAAATTAAC
12597619 TA
1 TA
12597621 CGAACGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:12609038 original size:59 final size:60
Alignment explanation
Indices: 12608910--12609056 Score: 233
Period size: 59 Copynumber: 2.5 Consensus size: 60
12608900 AAATATACAA
** * *
12608910 CAGGATTACCAGTCCAGGCTAAATTTTGTCTCCAATATATATTTACTTAATAGAGCTTAGT
1 CAGGATTACCAGTCCAGGCTAAATCCTATCTCCAATATATA-TTACTCAATAGAGCTTAGT
12608971 CAGGATTACCAGTCCAGGCTAAATCCTATCTCCAATATATA-TACTCAATAGAGCTTAGT
1 CAGGATTACCAGTCCAGGCTAAATCCTATCTCCAATATATATTACTCAATAGAGCTTAGT
*
12609030 CAGGATTACCAGTCCAAGCTAAATCCT
1 CAGGATTACCAGTCCAGGCTAAATCCT
12609057 TTTTATGACA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
59 43 0.53
61 38 0.47
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (60 bp):
CAGGATTACCAGTCCAGGCTAAATCCTATCTCCAATATATATTACTCAATAGAGCTTAGT
Found at i:12609110 original size:57 final size:57
Alignment explanation
Indices: 12608961--12609130 Score: 155
Period size: 57 Copynumber: 2.9 Consensus size: 57
12608951 TTTACTTAAT
* * * * *
12608961 AGAGCTTAGTCAGGATTACCAGTCCAGGCTAAATCCTATCTCCA-ATATATATACTC-AA
1 AGAGCTTAATCAGGATTACCAGTCCAAGCTAAATCCAATCT--ATA-ACATATGCTCTAA
* ** * *
12609019 TAGAGCTTAGTCAGGATTACCAGTCCAAGCTAAATCCTTTTTATGACATATGCTCTAA
1 -AGAGCTTAATCAGGATTACCAGTCCAAGCTAAATCCAATCTATAACATATGCTCTAA
* * ** *
12609077 AGAGCTTAATCTGGATTACCCGTCCGGGTTAAATCCAATCTATAACATATGCTC
1 AGAGCTTAATCAGGATTACCAGTCCAAGCTAAATCCAATCTATAACATATGCTC
12609131 GAGAGGACTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
57 53 0.57
58 2 0.02
59 38 0.41
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (57 bp):
AGAGCTTAATCAGGATTACCAGTCCAAGCTAAATCCAATCTATAACATATGCTCTAA
Found at i:12615789 original size:27 final size:26
Alignment explanation
Indices: 12615753--12615856 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
12615743 ATTTCTTTAG
* *
12615753 AGTTCACCATACGTACTATTCCTTCAG
1 AGTTCACCATACATACTATT-CTTCAA
*
12615780 AGTTCACCATATATACTATTCTCTCAA
1 AGTTCACCATACATACTATTCT-TCAA
* * *
12615807 AGTTTACCATACCTACCATTCTTCAA
1 AGTTCACCATACATACTATTCTTCAA
12615833 AGTT-AGCCATACATA-TCATTCTTC
1 AGTTCA-CCATACATACT-ATTCTTC
12615857 TAGGGTTTGT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.02
26 25 0.38
27 39 0.60
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.36
Consensus pattern (26 bp):
AGTTCACCATACATACTATTCTTCAA
Found at i:12616010 original size:27 final size:27
Alignment explanation
Indices: 12615980--12616051 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
12615970 CCATAGATCG
* *
12615980 CCACAAAAACTTCTATTTTATAGACTA
1 CCACAAAAACTTCCATTTCATAGACTA
** *
12616007 CCACAAAGGCTTCCATTTCATAGACTG
1 CCACAAAAACTTCCATTTCATAGACTA
**
12616034 CCACAAAGGCTTCCATTT
1 CCACAAAAACTTCCATTT
12616052 TCTAGTGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (27 bp):
CCACAAAAACTTCCATTTCATAGACTA
Found at i:12620630 original size:13 final size:14
Alignment explanation
Indices: 12620612--12620640 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12620602 TTTGGATGTA
12620612 TTGTTGTG-TGAAT
1 TTGTTGTGTTGAAT
12620625 TTGTTGTGTTGAAT
1 TTGTTGTGTTGAAT
12620639 TT
1 TT
12620641 TTGGATTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (14 bp):
TTGTTGTGTTGAAT
Found at i:12624485 original size:75 final size:75
Alignment explanation
Indices: 12624315--12624465 Score: 284
Period size: 75 Copynumber: 2.0 Consensus size: 75
12624305 TTCCCGAGCG
* *
12624315 TATTTGCTAAGTCTAACAAATTTTCGCTCGTAATCAGTAACCGACATGGAGCCTTGCTTAAGCTC
1 TATTTGCTAAGTCTAACAAATTCTCGCTCGTAATCAGTAACCGACATGGAACCTTGCTTAAGCTC
12624380 AAGAAATTCC
66 AAGAAATTCC
12624390 TATTTGCTAAGTCTAACAAATTCTCGCTCGTAATCAGTAACCGACATGGAACCTTGCTTAAGCTC
1 TATTTGCTAAGTCTAACAAATTCTCGCTCGTAATCAGTAACCGACATGGAACCTTGCTTAAGCTC
12624455 AAGAAATTCC
66 AAGAAATTCC
12624465 T
1 T
12624466 TCCGTTTTTG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (75 bp):
TATTTGCTAAGTCTAACAAATTCTCGCTCGTAATCAGTAACCGACATGGAACCTTGCTTAAGCTC
AAGAAATTCC
Found at i:12626572 original size:40 final size:40
Alignment explanation
Indices: 12626527--12626718 Score: 204
Period size: 40 Copynumber: 4.8 Consensus size: 40
12626517 TATAACCACA
** *
12626527 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * *
12626567 CGCACAAATGCCTTCGGATCTTAGTCTGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
12626607 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
12626647 CGTACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
12626687 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
12626719 TCATTCAAAT
Statistics
Matches: 118, Mismatches: 34, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:12626647 original size:80 final size:80
Alignment explanation
Indices: 12626527--12626719 Score: 287
Period size: 80 Copynumber: 2.4 Consensus size: 80
12626517 TATAACCACA
* * * *
12626527 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGC
**
12626592 CTGGATAAAATCACT
66 CCAGATAAAATCACT
* * * *
12626607 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGTACAAATGCCTTCGGGTCTTAGC
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGC
12626672 CCAGATAAAATCACT
66 CCAGATAAAATCACT
*
12626687 AGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
12626720 CATTCAAATG
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 100 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGC
CCAGATAAAATCACT
Found at i:12634641 original size:40 final size:40
Alignment explanation
Indices: 12634596--12634787 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 40
12634586 TATAACCACA
** *
12634596 AGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * *
12634636 CGCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * * * **
12634676 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* * *
12634716 CGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
* *
12634756 AGCACAATTGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
12634788 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATAACT
Found at i:12634716 original size:80 final size:79
Alignment explanation
Indices: 12634568--12634788 Score: 309
Period size: 80 Copynumber: 2.8 Consensus size: 79
12634558 ACCCAAGTTT
* * * * * *
12634568 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
12634632 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
12634647 CTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
12634712 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
12634727 CTTCGGGTCTTAGCCCAGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
12634789 CATTCAAATG
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 114 0.90
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:12637499 original size:19 final size:20
Alignment explanation
Indices: 12637475--12637512 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
12637465 GGTACCACCA
12637475 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
12637494 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
12637513 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:12644484 original size:19 final size:20
Alignment explanation
Indices: 12644460--12644497 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
12644450 GGTACCACCA
12644460 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
12644479 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
12644498 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:12657314 original size:27 final size:27
Alignment explanation
Indices: 12657235--12657327 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 27
12657225 TGTGAAAAGG
* * *
12657235 AAAGGTATATTTTGTGTATACAACATGA
1 AAAGGTATACTTTGTGTGTAC-ACTTGA
12657263 AAAGGCTATGTACACTTTGTGTGTACACTTGA
1 AAAGG-TA--T--ACTTTGTGTGTACACTTGA
*
12657295 AAAGGTATACTTTGTGTGTACCATTTGA
1 AAAGGTATACTTTGTGTGTA-CACTTGA
12657323 AAAGG
1 AAAGG
12657328 AAATGTACAC
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
27 12 0.22
28 16 0.29
29 3 0.05
31 3 0.05
32 10 0.18
33 11 0.20
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (27 bp):
AAAGGTATACTTTGTGTGTACACTTGA
Found at i:12657324 original size:60 final size:61
Alignment explanation
Indices: 12657235--12657360 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 61
12657225 TGTGAAAAGG
* ** * * * *
12657235 AAAGGTATATTTTGTGTATACAACATGAAAAGGCTATGTACACTTTGTGTGTAC-ACTTGA
1 AAAGGTATACTTTGTGTATACAACATGAAAAGGAAATGTACACCTCGAGTGTACTACTGGA
* * **
12657295 AAAGGTATACTTTGTGTGTACCATTTGAAAAGGAAATGTACACCTCGAGTGTACTACTGGA
1 AAAGGTATACTTTGTGTATACAACATGAAAAGGAAATGTACACCTCGAGTGTACTACTGGA
12657356 AAAGG
1 AAAGG
12657361 AAATATCCAT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
60 44 0.81
61 10 0.19
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (61 bp):
AAAGGTATACTTTGTGTATACAACATGAAAAGGAAATGTACACCTCGAGTGTACTACTGGA
Found at i:12659575 original size:23 final size:22
Alignment explanation
Indices: 12659548--12659592 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
12659538 AACTAGGCTC
12659548 ATTAAG-CTTTAATTACATATTTT
1 ATTAAGTCTTTAATT-CA-ATTTT
12659571 ATTAAGTCTTTAATTCAATTTT
1 ATTAAGTCTTTAATTCAATTTT
12659593 CACAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 8 0.38
24 8 0.38
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTAAGTCTTTAATTCAATTTT
Found at i:12662757 original size:48 final size:48
Alignment explanation
Indices: 12662686--12663015 Score: 330
Period size: 48 Copynumber: 6.9 Consensus size: 48
12662676 GACATTTGGG
* * *
12662686 TGACATGTGAGCTAGTGTAAGACCATGTCTGGTACATGGCTTCGGCCA-
1 TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT
* * * * *
12662734 TGACATGAGAGCTAGTGTAAGACCATGTTTAGAACATGGCATCGACAA
1 TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
12662782 TGTA-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TG-ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * *
12662830 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * * *
12662878 TAACATGTGCGCTAGTAT-AGAACAATGTCTAGGACATGGCATCGGCCACAT
1 TGACATGAGAGCTAGTGTAAG-ACCATGTCTGGGACATGGCATCGG---CAT
* * * * * *
12662929 T---ATGAGACCGAGTGTAAAACGATGTTTGGGACATGGCATCAGCAT
1 TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
** *
12662974 TGAGGTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
12663016 GTAACACCCC
Statistics
Matches: 235, Mismatches: 36, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
45 4 0.02
47 5 0.02
48 220 0.94
49 2 0.01
51 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
Found at i:12662959 original size:144 final size:144
Alignment explanation
Indices: 12662690--12663015 Score: 399
Period size: 144 Copynumber: 2.3 Consensus size: 144
12662680 TTTGGGTGAC
* * * *
12662690 ATGTGAGCTAGTGTAAGACCATGTCTGGTACATGGCTTCGGCCATGACATGAGAGCTAGTGTAAG
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGAGCTAGTATAAG
* * * * *
12662755 ACCATGTTTAGAACATGGCATCGACAATGTAATGAGAGCTAGTGTAAGACCATGTCTGGGACATG
66 ACAATGTCTAGAACATGGCATCGACAATGTAATGAGACCGAGTGTAAAACCATGTCTGGGACATG
* *
12662820 GCATCGGCATTGAT
131 GCATCAGCATTGAG
* * *
12662834 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTAACATGTGCGCTAGTAT-A
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TAACATGAGAGCTAGTATAA
* * * *
12662897 GAACAATGTCTAGGACATGGCATCGGCCACAT-T-ATGAGACCGAGTGTAAAACGATGTTTGGGA
65 G-ACAATGTCTAGAACATGGCATC-GACA-ATGTAATGAGACCGAGTGTAAAACCATGTCTGGGA
12662960 CATGGCATCAGCATTGAG
127 CATGGCATCAGCATTGAG
* **
12662978 GTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
12663016 GTAACACCCC
Statistics
Matches: 156, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
143 4 0.03
144 146 0.94
145 4 0.03
146 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (144 bp):
ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGAGCTAGTATAAG
ACAATGTCTAGAACATGGCATCGACAATGTAATGAGACCGAGTGTAAAACCATGTCTGGGACATG
GCATCAGCATTGAG
Found at i:12670969 original size:46 final size:48
Alignment explanation
Indices: 12670854--12670975 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 48
12670844 TGTCTTCGAC
* * *
12670854 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATACATCTAAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCA-ATATA-ATCTAAT
* *
12670904 ATGGGCTTACAT-AGCTCATTCCTGTCTCCAAAGCC-ATAT-ATCTGAT
1 ATGGACTTACATGA-CTCATTCCTGTCTCCAAAGCCAATATAATCTAAT
*
12670950 ATGGACTTACATGACTCATTTCTGTC
1 ATGGACTTACATGACTCATTCCTGTC
12670976 CTGTTCGGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 28 0.44
47 1 0.02
48 4 0.06
49 1 0.02
50 29 0.46
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATAATCTAAT
Found at i:12675178 original size:29 final size:29
Alignment explanation
Indices: 12675143--12675216 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
12675133 GTTGTGAGAT
* *
12675143 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
12675172 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
12675201 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
12675217 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:12675621 original size:40 final size:41
Alignment explanation
Indices: 12675531--12675801 Score: 139
Period size: 40 Copynumber: 6.7 Consensus size: 41
12675521 TTGAATGATG
* *
12675531 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAA
* * * * *
12675571 TCCGGACTAAGACCCGAAGGCATTGGTGC-GAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAA
* ** ***
12675611 TTCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTGGTGCTAAGTGACCAAA
* ** ***
12675651 TCTGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTGGTGCTAAGTGACCAAA
** ***
12675691 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTGGTGCTAAGTGACCAAA
* * * *
12675731 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTGGTGCTAAGTGACCAAA
* ** *
12675771 TCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 TCCGGGCTAAGTCCCGAAG-GCATTGGTGCT
12675802 GGTGTTATGT
Statistics
Matches: 203, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
40 185 0.91
41 18 0.09
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAA
Found at i:12675667 original size:80 final size:80
Alignment explanation
Indices: 12675531--12675833 Score: 333
Period size: 80 Copynumber: 3.8 Consensus size: 80
12675521 TTGAATGATG
** ** * *
12675531 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGACCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTCCCGAAGAGCA
* * * *
12675593 TTGGTGCGAGTTACTAAA
64 TTCGTGCTAGTGA-TATA
* *
12675611 TTCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCTGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
* *
12675676 CATGCTAGTGATGTA
66 CGTGCTAGTGATATA
*
12675691 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
12675756 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
* ** * * * * * * *
12675771 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAGGTGCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
12675834 ATCATGCTGG
Statistics
Matches: 191, Mismatches: 29, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
80 166 0.87
81 19 0.10
82 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:12675828 original size:40 final size:40
Alignment explanation
Indices: 12675613--12675846 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
12675603 TTACTAAATT
12675613 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
*
12675653 TGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
12675693 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * *
12675733 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* ** * * * * *
12675773 CGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATGTC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * * *
12675813 CGGGCTAGGTGCCGAAGAGCAATCATGCTGGTGA
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
12675847 CGTGTATTCG
Statistics
Matches: 174, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
Found at i:12677789 original size:47 final size:47
Alignment explanation
Indices: 12677731--12678219 Score: 906
Period size: 47 Copynumber: 10.4 Consensus size: 47
12677721 CAGCCAAGAC
12677731 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12677778 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12677825 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12677872 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12677919 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12677966 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12678013 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12678060 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
12678107 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
12678154 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
12678201 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
12678220 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 432 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:12678394 original size:37 final size:37
Alignment explanation
Indices: 12678338--12678416 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
12678328 CCGAGCTCTA
* * *
12678338 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
12678375 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
12678412 AAGAC
1 AAGAC
12678417 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:12684216 original size:47 final size:47
Alignment explanation
Indices: 12684148--12685025 Score: 1756
Period size: 47 Copynumber: 18.7 Consensus size: 47
12684138 ATCCATAAGT
12684148 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684195 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684242 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684289 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684336 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684383 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684430 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684477 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684524 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684571 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684618 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684665 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684712 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684759 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684806 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684853 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684900 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684947 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
12684994 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
12685026 TCAACCATCC
Statistics
Matches: 831, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 831 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:12689680 original size:46 final size:45
Alignment explanation
Indices: 12689627--12689793 Score: 122
Period size: 46 Copynumber: 3.6 Consensus size: 45
12689617 CTTGTAGCTA
* *
12689627 ATGCATGTCCCAAACATGTCTTACACTG-ACTTACGTCTCGAGGCCG
1 ATGCATGTCCCAAACATGTCTTACACTGCAC-T-CATCTCAAGGCCG
** * * *
12689673 ATGCATGTCTTAGACATGTCTTACACTAGCACTCATCTCAATGTCG
1 ATGCATGTCCCAAACATGTCTTACACT-GCACTCATCTCAAGGCCG
* * * ** *
12689719 ATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
1 ATG-CATGTCCCAAACAT-GTCTTACACT-GCACTCAT-CTCAAGGCCG
* *
12689767 ATGCATATCCCAGACATGTCTTACACT
1 ATGCATGTCCCAAACATGTCTTACACT
12689794 AGCTTACAAT
Statistics
Matches: 94, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
46 46 0.49
47 23 0.24
48 24 0.26
49 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTGCACTCATCTCAAGGCCG
Found at i:12701816 original size:48 final size:49
Alignment explanation
Indices: 12701714--12702044 Score: 248
Period size: 48 Copynumber: 6.8 Consensus size: 49
12701704 ACATTTCGGG
* * * * * * **
12701714 ACATGTGAGCTAGTGTAAGATCATGTCTGGGACATGGCTTTGGCCACGAT
1 ACATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGG-CAATAT
* * *
12701764 --ATGAGAGCCAGCGTAAGACCATGTTTGGAACTTGGCATCGGCAATAT
1 ACATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCAATAT
* *
12701811 A-ATGAGAGCTAGTGTAAGACCATGTCTGGGAA-ATGACATCGGC-AT-T
1 ACATGAGAGCCAGTGTAAGACCATGTCT-GGAACATGGCATCGGCAATAT
* * * * ** *
12701857 GATATGTGTGCTAGTGTAAGACCATGTCTGGGGCATGGCATCGGCACTGAT
1 -ACATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCAAT-AT
* * *
12701908 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-AT-T
1 ACATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCAATAT
** * * * * **
12701955 GAGGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC-CTCG
1 -ACATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCAATAT
* * *
12702004 ACATGTGAGGCAGTGTAAGACCATGTTTGGAACATGGCATC
1 ACATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATC
12702045 AACATTTCAC
Statistics
Matches: 228, Mismatches: 43, Indels: 22
0.78 0.15 0.08
Matches are distributed among these distances:
46 1 0.00
47 10 0.04
48 171 0.75
49 6 0.03
50 39 0.17
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
ACATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCAATAT
Found at i:12701939 original size:98 final size:98
Alignment explanation
Indices: 12701764--12702029 Score: 326
Period size: 98 Copynumber: 2.8 Consensus size: 98
12701754 TGGCCACGAT
* * * * * * *
12701764 ATGAGAGCCAGCGTAAGACCATGTTTGGAACTTGGCATCGGCAAT-ATA-ATGAGAGCTAGTGTA
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGAGAGCCAGTGTA
* *
12701827 AGACCATGTCTGGGAAATGACATCGGCATTGAT
66 AGACCATGTCTGGGAAATGACATCAGCATTGAG
* * *
12701860 ATGTGTGCTAGTGTAAGACCATGTCTGGGGCATGGCATCGGCACTGATATATGAGAGCCAGTGTA
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGAGAGCCAGTGTA
* *
12701925 AGACCATGTCTGGGACATGGCATCAGCATTGAG
66 AGACCATGTCTGGGAAATGACATCAGCATTGAG
* * * *
12701958 GTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC-CTCGACATGTGAG-G-CAGTGT
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-GATATATGAGAGCCAGTGT
12702020 AAGACCATGT
65 AAGACCATGT
12702030 TTGGAACATG
Statistics
Matches: 146, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
96 52 0.36
97 6 0.04
98 88 0.60
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (98 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATATGAGAGCCAGTGTA
AGACCATGTCTGGGAAATGACATCAGCATTGAG
Found at i:12701978 original size:146 final size:144
Alignment explanation
Indices: 12701713--12702044 Score: 411
Period size: 146 Copynumber: 2.3 Consensus size: 144
12701703 GACATTTCGG
* * *
12701713 GACATGTGAGCTAGTGTAAGATCATGTCTGGGACATGGCTTTGGCCACGATATGAGAGCCAGCGT
1 GACATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGCGT
* * *
12701778 AAGACCATGTTTGGAACTTGGCATCGGCAATATAATGAGAGCTAGTGTAAGACCATGTCTGGGAA
66 AAGACCATGTCTGGAACATGGCATCAGCAATATAATGAGAGCTAGTGTAAGACCATGTCTGGGAA
*
12701843 ATGACATCGGCATT
131 ATGACATCGGCATC
* * *
12701857 GATATGTGTGCTAGTGTAAGACCATGTCTGGGGCATGGCATCGG-CACTGATATATGAGAGCCAG
1 GACATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-G--ATATGAGAGCCAG
* * *
12701921 TGTAAGACCATGTCTGGGACATGGCATCAGC-AT-TGAGGTGAGAGCTAGTGTAAGACCATGTCT
63 CGTAAGACCATGTCTGGAACATGGCATCAGCAATAT-A-ATGAGAGCTAGTGTAAGACCATGTCT
* * * *
12701984 GGGACATGGCATTGGCCTC
126 GGGAAATGACATCGGCATC
* *
12702003 GACATGTGAGGC-AGTGTAAGACCATGTTTGGAACATGGCATC
1 GACATGTGA-GCTAGTGTAAGACCATGTCTGGGACATGGCATC
12702045 AACATTTCAC
Statistics
Matches: 160, Mismatches: 22, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
143 3 0.02
144 40 0.25
145 3 0.02
146 112 0.70
147 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (144 bp):
GACATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGCGT
AAGACCATGTCTGGAACATGGCATCAGCAATATAATGAGAGCTAGTGTAAGACCATGTCTGGGAA
ATGACATCGGCATC
Found at i:12717973 original size:18 final size:18
Alignment explanation
Indices: 12717950--12717987 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
12717940 AATATATATT
12717950 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
12717968 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
12717986 AA
1 AA
12717988 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:12717980 original size:13 final size:13
Alignment explanation
Indices: 12717964--12717988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12717954 CAAGTACCCA
12717964 ACCCAACCCAATT
1 ACCCAACCCAATT
12717977 ACCCAACCCAAT
1 ACCCAACCCAAT
12717989 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:12718054 original size:7 final size:6
Alignment explanation
Indices: 12718013--12718053 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
12718003 ATAATTTAAT
*
12718013 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
12718054 ACATTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:12718054 original size:20 final size:20
Alignment explanation
Indices: 12718016--12718055 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12718006 ATTTAATAAA
**
12718016 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
12718036 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
12718056 ATTTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:12718139 original size:9 final size:9
Alignment explanation
Indices: 12718073--12718158 Score: 66
Period size: 9 Copynumber: 9.6 Consensus size: 9
12718063 TTTATACAAA
12718073 TAATTCGGT
1 TAATTCGGT
*
12718082 CAATTCGGT
1 TAATTCGGT
* *
12718091 TAATTTGGA
1 TAATTCGGT
* *
12718100 TAATTTGGG
1 TAATTCGGT
* *
12718109 TAATTTGGG
1 TAATTCGGT
*
12718118 TAATTCAAG-
1 TAATTC-GGT
*
12718127 TAATCCGGT
1 TAATTCGGT
*
12718136 TAATTCGAT
1 TAATTCGGT
12718145 TAATTCGGT
1 TAATTCGGT
12718154 TAATT
1 TAATT
12718159 TTATACTTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
8 1 0.02
9 61 0.97
10 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:12719225 original size:33 final size:33
Alignment explanation
Indices: 12719184--12719252 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
12719174 AAAAAACTAT
12719184 TTTTTAAATAGTAACTTCAAAGAAAGATTATGA
1 TTTTTAAATAGTAACTTCAAAGAAAGATTATGA
*
12719217 TTTTTAAATAGTAACTTGAAAGAAAGATTATGA
1 TTTTTAAATAGTAACTTCAAAGAAAGATTATGA
12719250 TTT
1 TTT
12719253 AAGTGCTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (33 bp):
TTTTTAAATAGTAACTTCAAAGAAAGATTATGA
Found at i:12719963 original size:9 final size:9
Alignment explanation
Indices: 12719949--12720011 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
12719939 TTCACATCCT
12719949 TCTCTCAAC
1 TCTCTCAAC
*
12719958 TCTCTCAAT
1 TCTCTCAAC
* *
12719967 TTTCTCAAAT
1 TCTCTC-AAC
*
12719977 TCTCTCAAA
1 TCTCTCAAC
12719986 TCCTCTCAAGC
1 T-CTCTCAA-C
12719997 -CTCTCAAC
1 TCTCTCAAC
12720005 TCTCTCA
1 TCTCTCA
12720012 TTTTTAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
8 1 0.02
9 29 0.64
10 15 0.33
ACGTcount: A:0.24, C:0.38, G:0.02, T:0.37
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:12719982 original size:10 final size:10
Alignment explanation
Indices: 12719948--12719994 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
12719938 ATTCACATCC
12719948 TTCTCTC-AA
1 TTCTCTCAAA
*
12719957 CTCTCTC-AA
1 TTCTCTCAAA
*
12719966 TTTTCTCAAA
1 TTCTCTCAAA
12719976 TTCTCTCAAA
1 TTCTCTCAAA
*
12719986 TCCTCTCAA
1 TTCTCTCAA
12719995 GCCTCTCAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 13 0.41
10 19 0.59
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:12722580 original size:49 final size:49
Alignment explanation
Indices: 12722407--12722651 Score: 294
Period size: 49 Copynumber: 4.9 Consensus size: 49
12722397 TCTATTGTGA
* * * * *
12722407 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * * * **
12722458 GATCACGTGTGTAGTACTAAGTGCAGTCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
12722507 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
12722557 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
* * * * *
12722606 GGTCGCATGTATAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
12722652 GCTTTGGCTA
Statistics
Matches: 167, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 85 0.51
50 45 0.27
51 36 0.22
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:12729672 original size:15 final size:16
Alignment explanation
Indices: 12729643--12729672 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12729633 CAAACATGTT
12729643 TTAACACATTATCAAA
1 TTAACACATTATCAAA
12729659 TTAACACA-TATCAA
1 TTAACACATTATCAA
12729673 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:12731143 original size:137 final size:138
Alignment explanation
Indices: 12730896--12731170 Score: 390
Period size: 137 Copynumber: 2.0 Consensus size: 138
12730886 AGCTATAAAA
* * * ** * *
12730896 TGGGTCTACTTACACAAGTTGTTGGTCGGAATGTAAGCTACAAGATGCTTCTCACACAAGCTTTC
1 TGGGTCTACTCACACAAGCTATTGGTCAAAATGTAAGCTACAAGATGCTGCTCACACAAGCTGTC
* * * * * *
12730961 GTGTATCAACAACTAATTCCAAACCTTAGCCATCGGTAGGACATTCAAGACCAGCACCCAAAACA
66 GAGCATCAACAACTAATACCAAACCTCAGCCATCGATAAGACATTCAAGACCAGCACCCAAAACA
12731026 TGGTAACC
131 TGGTAACC
*
12731034 TGGGTCTACTCACACAAGCTATTGGTCAAAATGT-AGCTACACGATGCTGCTCACACAAGCTGTC
1 TGGGTCTACTCACACAAGCTATTGGTCAAAATGTAAGCTACAAGATGCTGCTCACACAAGCTGTC
** *
12731098 GAGCATCTGCAACTAATACCAGACCTCAGCCATCGATAAGACATTCAAGACCAGCACCCAAAACA
66 GAGCATCAACAACTAATACCAAACCTCAGCCATCGATAAGACATTCAAGACCAGCACCCAAAACA
12731163 TGGTAACC
131 TGGTAACC
12731171 CTAATGACAT
Statistics
Matches: 120, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
137 91 0.76
138 29 0.24
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (138 bp):
TGGGTCTACTCACACAAGCTATTGGTCAAAATGTAAGCTACAAGATGCTGCTCACACAAGCTGTC
GAGCATCAACAACTAATACCAAACCTCAGCCATCGATAAGACATTCAAGACCAGCACCCAAAACA
TGGTAACC
Found at i:12737746 original size:48 final size:48
Alignment explanation
Indices: 12737236--12737745 Score: 867
Period size: 48 Copynumber: 10.6 Consensus size: 48
12737226 AGATAAATAT
12737236 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
12737284 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
12737332 ATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** *
12737380 ATATGTATATGTGGTAAAGCCGAATGGCTAGCGTGAACTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12737428 AGATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** *
12737476 ATATGTATATGTGGTAAAGCCGAATGGCTAGCGTGAACTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
12737524 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12737572 ATATGCATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
12737620 ATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
12737668 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
12737716 ATATGTATACGTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
12737746 GGTATACGTG
Statistics
Matches: 435, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 435 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:12737758 original size:27 final size:27
Alignment explanation
Indices: 12737720--12737773 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
12737710 TATGAGATAT
12737720 GTATACGTGGTAAAGCCGAATGGCTAG
1 GTATACGTGGTAAAGCCGAATGGCTAG
12737747 GTATACGTGGTAAAGCCGAATGGCTAG
1 GTATACGTGGTAAAGCCGAATGGCTAG
12737774 TGTGAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
GTATACGTGGTAAAGCCGAATGGCTAG
Found at i:12737795 original size:75 final size:75
Alignment explanation
Indices: 12737672--12737820 Score: 271
Period size: 75 Copynumber: 2.0 Consensus size: 75
12737662 TATGAGATAT
* *
12737672 GTATATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATACGTGGTAAAGCC
1 GTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCC
12737737 GAATGGCTAG
66 GAATGGCTAG
*
12737747 GTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 GTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCC
12737812 GAATGGCTA
66 GAATGGCTA
12737821 ATGCGAAATA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (75 bp):
GTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATACGTGGTAAAGCC
GAATGGCTAG
Found at i:12737818 original size:48 final size:48
Alignment explanation
Indices: 12737747--12737871 Score: 223
Period size: 48 Copynumber: 2.6 Consensus size: 48
12737737 GAATGGCTAG
* *
12737747 GTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGATAT
*
12737795 GTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATAT
1 GTATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGATAT
12737843 GTATATGTGGTAAAGCCGAATGGCTAGTG
1 GTATATGTGGTAAAGCCGAATGGCTAGTG
12737872 ATTCGGCTAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
GTATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGATAT
Found at i:12737843 original size:123 final size:123
Alignment explanation
Indices: 12737632--12737869 Score: 431
Period size: 123 Copynumber: 1.9 Consensus size: 123
12737622 ATGTATATGA
12737632 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
1 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
* * *
12737697 AGTGTGAACTATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGGTATACGT
66 AATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGGTATACGT
*
12737755 GGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
1 GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
*
12737820 AATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
66 AATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAG
12737870 TGATTCGGCT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 110 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (123 bp):
GGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT
AATGCGAAATATGTATGAGATATGTATACGTGGTAAAGCCGAATGGCTAGGTATACGT
Found at i:12738091 original size:37 final size:37
Alignment explanation
Indices: 12738041--12738143 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
12738031 GGAAATATAT
12738041 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
12738078 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
12738115 TCCGGGTAAGACCCGATAACTATGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
12738144 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:12743807 original size:23 final size:23
Alignment explanation
Indices: 12743766--12743832 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 23
12743756 GAGCTCATGG
*
12743766 ACAGTAAGCTCTATTGAGCTAA-A
1 ACAGTAAGCTCTA-CGAGCTAAGA
12743789 ACAGTAAGCTCTGACGAGCTAAGA
1 ACAGTAAGCTCT-ACGAGCTAAGA
* *
12743813 ATAGTAACCTCTTACGAGCT
1 ACAGTAAGCTC-TACGAGCT
12743833 GATATATCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 19 0.50
24 18 0.47
25 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (23 bp):
ACAGTAAGCTCTACGAGCTAAGA
Found at i:12743824 original size:24 final size:23
Alignment explanation
Indices: 12743781--12743832 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
12743771 AAGCTCTATT
*
12743781 GAGCTAAAACAGTAAGCTCTGAC
1 GAGCTAAAACAGTAACCTCTGAC
* *
12743804 GAGCTAAGAATAGTAACCTCTTAC
1 GAGCTAA-AACAGTAACCTCTGAC
12743828 GAGCT
1 GAGCT
12743833 GATATATCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (23 bp):
GAGCTAAAACAGTAACCTCTGAC
Found at i:12748650 original size:19 final size:18
Alignment explanation
Indices: 12748628--12748679 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
12748618 AAAGAGAGAA
*
12748628 AAAAGAAAGTAAGAAAAAG
1 AAAAGAAAAT-AGAAAAAG
*
12748647 AAAAGCAAAATTGAAAAAG
1 AAAAG-AAAATAGAAAAAG
12748666 AGAAAGAAAA-AGAA
1 A-AAAGAAAATAGAA
12748680 TTTGATCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.11
19 17 0.61
20 8 0.29
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAAGAAAATAGAAAAAG
Found at i:12748666 original size:44 final size:42
Alignment explanation
Indices: 12748618--12748711 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
12748608 AAAGAGTGTG
12748618 AAAGAGAGA-AAAAAGAAAGTAAGAAAAAGAAAAGCAAAATTGAA
1 AAAGAGAGAGAAAAAG-AA-TAAGAAAAAGAAAAG-AAAATTGAA
* ** **
12748662 AAAGAGAAAGAAAAAGAATTTGATCAAGAAAAGAAAATTGAA
1 AAAGAGAGAGAAAAAGAATAAGAAAAAGAAAAGAAAATTGAA
12748704 AAAGAGAG
1 AAAGAGAG
12748712 TGAGTATGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
42 16 0.37
43 11 0.26
44 10 0.23
45 6 0.14
ACGTcount: A:0.67, C:0.02, G:0.21, T:0.10
Consensus pattern (42 bp):
AAAGAGAGAGAAAAAGAATAAGAAAAAGAAAAGAAAATTGAA
Found at i:12748708 original size:18 final size:19
Alignment explanation
Indices: 12748640--12748708 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 19
12748630 AAGAAAGTAA
*
12748640 GAAAAAGAAAAGCAAAATT
1 GAAAAAGAAAAGAAAAATT
12748659 GAAAAAGAGAAAGAAAAAGAATTT
1 GAAAAAGA-AAAG--AAA-AA-TT
**
12748683 GATCAAGAAAAG-AAAATT
1 GAAAAAGAAAAGAAAAATT
12748701 GAAAAAGA
1 GAAAAAGA
12748709 GAGTGAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
18 8 0.20
19 10 0.25
20 6 0.15
22 2 0.05
23 6 0.15
24 8 0.20
ACGTcount: A:0.67, C:0.03, G:0.19, T:0.12
Consensus pattern (19 bp):
GAAAAAGAAAAGAAAAATT
Found at i:12750991 original size:40 final size:40
Alignment explanation
Indices: 12750947--12751028 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
12750937 ATTAAATGTG
* *
12750947 TTCATTTCCTTTATAGGTTTAGCCGAATATGGAAGTGCAT
1 TTCATTTCATTTATAGGTTCAGCCGAATATGGAAGTGCAT
* *
12750987 TTCATTTCATTTGTAGGTTCAGTCGAATATGGAAGTGCAT
1 TTCATTTCATTTATAGGTTCAGCCGAATATGGAAGTGCAT
12751027 TT
1 TT
12751029 AAGGCTAGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (40 bp):
TTCATTTCATTTATAGGTTCAGCCGAATATGGAAGTGCAT
Found at i:12752337 original size:48 final size:46
Alignment explanation
Indices: 12752267--12752480 Score: 197
Period size: 47 Copynumber: 4.6 Consensus size: 46
12752257 GAGGCTGATA
* *
12752267 CATGTCCCAGGCATGTCTTACACTAGCACTCATCTCAATGTCAATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGTCGATG
* * *
12752313 TCATGTCTCAGACATGGTCTTACACTGGCTCTCA--T-AATGTGGTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAA--T-GTCGATG
* *
12752361 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGTCGATG
* * *
12752407 CCATGTCCCAAACATGGTCTTACACTGGCTCTCA--T-AATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAATGT---CGATG
*
12752455 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
12752481 ATCACACAAG
Statistics
Matches: 137, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
45 6 0.04
46 34 0.25
47 52 0.38
48 43 0.31
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGTCGATG
Found at i:12752377 original size:94 final size:94
Alignment explanation
Indices: 12752267--12752480 Score: 347
Period size: 94 Copynumber: 2.3 Consensus size: 94
12752257 GAGGCTGATA
* * * * *
12752267 CATGTCCCAGGCATGTCTTACACTAGCACTCATCTCAATGTCAATGTCATGTCTCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGCCAATGCCATGTCCCAAACATGGTC
*
12752332 TTACACTGGCTCTCATAATGTGGTCGATG
66 TTACACTGGCTCTCATAATGTGGCCGATG
* *
12752361 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAAACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGCCAATGCCATGTCCCAAACATGGTC
12752426 TTACACTGGCTCTCATAATGTGGCCGATG
66 TTACACTGGCTCTCATAATGTGGCCGATG
*
12752455 CATGTCCTAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
12752481 ATCACACAAG
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
94 111 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGCCAATGCCATGTCCCAAACATGGTC
TTACACTGGCTCTCATAATGTGGCCGATG
Found at i:12755746 original size:5 final size:5
Alignment explanation
Indices: 12755736--12755761 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
12755726 TGCATGAATG
12755736 AAACA AAACA AAACA AAACA AAACA A
1 AAACA AAACA AAACA AAACA AAACA A
12755762 GGGAACTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:12758046 original size:103 final size:103
Alignment explanation
Indices: 12757862--12758069 Score: 389
Period size: 103 Copynumber: 2.0 Consensus size: 103
12757852 GCCCAACACT
*
12757862 ACACATAAATTCAGCAAGCATCAATATGATAAAAAATAGGAAGCCCCGTTTCTAATATGATAAAA
1 ACACATAAACTCAGCAAGCATCAATATGATAAAAAATAGGAAGCCCCGTTTCTAATATGATAAAA
*
12757927 AAGTGTAAAACCTTATTTTTGTCAAGAATGGGATTCGA
66 AAGTGTAAAAACTTATTTTTGTCAAGAATGGGATTCGA
12757965 ACACATAAACTCAGCAAGCATCAATATGATAAAAAATAGGAAGCCCCGTTTCTAATATGATAAAA
1 ACACATAAACTCAGCAAGCATCAATATGATAAAAAATAGGAAGCCCCGTTTCTAATATGATAAAA
*
12758030 AAGTGTAAAAATTTATTTTTGTCAAGAATGGGATTCGA
66 AAGTGTAAAAACTTATTTTTGTCAAGAATGGGATTCGA
12758068 AC
1 AC
12758070 CCATGCCCTT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (103 bp):
ACACATAAACTCAGCAAGCATCAATATGATAAAAAATAGGAAGCCCCGTTTCTAATATGATAAAA
AAGTGTAAAAACTTATTTTTGTCAAGAATGGGATTCGA
Found at i:12766277 original size:23 final size:22
Alignment explanation
Indices: 12766226--12766277 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
12766216 CCTCGTCTTT
*
12766226 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
12766248 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
12766271 TTCTTTT
1 TTCTTTT
12766278 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:12766292 original size:18 final size:18
Alignment explanation
Indices: 12766271--12766309 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
12766261 TTTCTTCAAC
* *
12766271 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
12766289 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
12766307 TTC
1 TTC
12766310 ACTCGCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:12773424 original size:27 final size:27
Alignment explanation
Indices: 12773394--12773571 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
12773384 ATATTGAGTC
* * * *
12773394 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12773421 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
12773448 TGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12773476 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12773503 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12773530 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12773557 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12773572 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12773535 original size:82 final size:81
Alignment explanation
Indices: 12773415--12773570 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
12773405 TGCTATATAA
* *
12773415 TCAACTCGCACACTTAGTGCTACGTAATCAAATTGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATTGCACACTTAGTGCAACATAGTCAAA-TCGCA
12773480 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * *
12773497 TCAATTCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATT-GCACACTTAGTGCAACATAGTCAAATCGC
12773560 ACACTTAGTGC
64 ACACTTAGTGC
12773571 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 19 0.28
82 48 0.72
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATTGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12784185 original size:34 final size:34
Alignment explanation
Indices: 12784114--12784204 Score: 112
Period size: 34 Copynumber: 2.6 Consensus size: 34
12784104 TTGCATATTG
* *
12784114 TACTGAAATGGGTTAAGGCCCAGACTGCCTCTAT
1 TACTGAAATGGGCTAAGGCCCAGACTGCATCTAT
* *
12784148 TACTGAAATGGGCTCAGGCCCAGACTG-ATACTGT
1 TACTGAAATGGGCTAAGGCCCAGACTGCAT-CTAT
12784182 TACTGAAAAATGGGCTAAGGCCC
1 TACTG--AAATGGGCTAAGGCCC
12784205 TAACTGGAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 1 0.02
34 33 0.67
36 15 0.31
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACTGCATCTAT
Found at i:12785141 original size:127 final size:126
Alignment explanation
Indices: 12784914--12785145 Score: 356
Period size: 127 Copynumber: 1.8 Consensus size: 126
12784904 TTCATGCATT
* * * *
12784914 GAAATTTTAAAAGGATATTTGGTTATTTGGTCAACGGAAAATCGAAACCCAGCACGTTAGGGCAC
1 GAAATTTTAAAAGGATATTTAGTTATTCGGTCAACAGAAAATCAAAACCCAGCACGTTAGGGCAC
12784979 GATTTCTCGAATTTCCAAACACGAAACATTGCCTTGTTTTTTAATTTAAGAAAACATGAAC
66 GATTTCTCGAATTTCCAAACACGAAACATTGCCTTGTTTTTTAATTTAAGAAAACATGAAC
* *
12785040 GAAATTTTGAAAGGATATTTAGTTGTTCGGTCAAACAGAAAATCAAAACCCAGCACGTTAGGGCA
1 GAAATTTTAAAAGGATATTTAGTTATTCGGTC-AACAGAAAATCAAAACCCAGCACGTTAGGGCA
* * * * *
12785105 CGATTTTTCGAATTTCTAAATACGAAATATTTCCTTGTTTT
65 CGATTTCTCGAATTTCCAAACACGAAACATTGCCTTGTTTT
12785146 GAAAAACTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
126 28 0.30
127 66 0.70
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (126 bp):
GAAATTTTAAAAGGATATTTAGTTATTCGGTCAACAGAAAATCAAAACCCAGCACGTTAGGGCAC
GATTTCTCGAATTTCCAAACACGAAACATTGCCTTGTTTTTTAATTTAAGAAAACATGAAC
Found at i:12785874 original size:30 final size:30
Alignment explanation
Indices: 12785825--12785897 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
12785815 CTTAAAAGAG
* *
12785825 ATAAATTATATATAGATTTAAAAGAGAATAT
1 ATAAA-TATAAATAGATTTAAAAGAAAATAT
*
12785856 ATAAATATAAATTGATTTAAAAGAAAATAT
1 ATAAATATAAATAGATTTAAAAGAAAATAT
*
12785886 ATACATA-AAATA
1 ATAAATATAAATA
12785898 ATATGCAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.11
30 28 0.76
31 5 0.14
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (30 bp):
ATAAATATAAATAGATTTAAAAGAAAATAT
Found at i:12785915 original size:41 final size:41
Alignment explanation
Indices: 12785870--12785980 Score: 118
Period size: 30 Copynumber: 3.0 Consensus size: 41
12785860 ATATAAATTG
12785870 ATTTAAAAGAAAATATATACATAAAATAATATGCAATCAAA
1 ATTTAAAAGAAAATATATACATAAAATAATATGCAATCAAA
* **
12785911 ATTTAAAAG-AAA-ACAT--AT-AAAT-ATA---AAT--TG
1 ATTTAAAAGAAAATATATACATAAAATAATATGCAATCAAA
12785941 ATTTAAAAGAAAATATATACATAAAATAATATGCAATCAA
1 ATTTAAAAGAAAATATATACATAAAATAATATGCAATCAA
12785981 CATAATAATG
Statistics
Matches: 54, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
30 9 0.17
31 3 0.06
32 6 0.11
34 2 0.04
35 7 0.13
36 7 0.13
37 2 0.04
39 6 0.11
40 3 0.06
41 9 0.17
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.28
Consensus pattern (41 bp):
ATTTAAAAGAAAATATATACATAAAATAATATGCAATCAAA
Found at i:12785929 original size:71 final size:71
Alignment explanation
Indices: 12785840--12785980 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 71
12785830 TTATATATAG
* *
12785840 ATTTAAAAGAGAATATATAAATATAAATTGATTTAAAAGAAAATATATACATAAAATAATATGCA
1 ATTTAAAAGAAAACATATAAATATAAATTGATTTAAAAGAAAATATATACATAAAATAATATGCA
12785905 ATCAAA
66 ATCAAA
12785911 ATTTAAAAGAAAACATATAAATATAAATTGATTTAAAAGAAAATATATACATAAAATAATATGCA
1 ATTTAAAAGAAAACATATAAATATAAATTGATTTAAAAGAAAATATATACATAAAATAATATGCA
12785976 ATCAA
66 ATCAA
12785981 CATAATAATG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (71 bp):
ATTTAAAAGAAAACATATAAATATAAATTGATTTAAAAGAAAATATATACATAAAATAATATGCA
ATCAAA
Found at i:12787909 original size:44 final size:44
Alignment explanation
Indices: 12787843--12787929 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
12787833 GAGATCAGAT
* * *
12787843 CTACAATCTTCGGTATGTTCCCTTTG-TACCTC-AAGAAGATAAGG
1 CTACAATCTTCAGCATGCTCCC-TTGCTACCTCAAAGAA-ATAAGG
*
12787887 CTACAATCTTCAGCCTGCTCCCTTGCTACCTCAAAGAAATAAG
1 CTACAATCTTCAGCATGCTCCCTTGCTACCTCAAAGAAATAAG
12787930 ACTAGTGGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 3 0.08
44 29 0.78
45 5 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (44 bp):
CTACAATCTTCAGCATGCTCCCTTGCTACCTCAAAGAAATAAGG
Found at i:12788024 original size:133 final size:133
Alignment explanation
Indices: 12787879--12788165 Score: 387
Period size: 133 Copynumber: 2.2 Consensus size: 133
12787869 TACCTCAAGA
* * *
12787879 AGATAAG-GCTACAATCTTCAGCCTGCTCCCTTGCTACCTCAAAGAAATAAGACTAGTGGCTAAA
1 AGATAAGATCTACAATCTTCAGCCTACTCCCTTGCCACCTCAAAGAAATAAGACTAGTGGCTAAA
* *
12787943 ATCTACTCCCCTGCTACCTCGGCAAGATAAGATTCGCCATCTTCGATCCGCTCCACTACTGCTTA
66 ATCTACTCCCCTGCTACCTCGGCAAAATAAGATTCGCCATCTTCGATCCACTCCACTACTGCTTA
12788008 GGG
131 GGG
* * * * * * * * *
12788011 AGATAAGATCTACAAACTTCAACCTATTCTCTTGCCACCTTAGAGAGATAAGGCTGGTGGCTAAA
1 AGATAAGATCTACAATCTTCAGCCTACTCCCTTGCCACCTCAAAGAAATAAGACTAGTGGCTAAA
* * * * *
12788076 ATTTTCTCCCCTGCTACCTCGGGAAAATAAGATTTGCCATCTTCGATCTACTCCACTACTGCTTA
66 ATCTACTCCCCTGCTACCTCGGCAAAATAAGATTCGCCATCTTCGATCCACTCCACTACTGCTTA
12788141 GGG
131 GGG
*
12788144 AGATAATATCTACAATCTTCAG
1 AGATAAGATCTACAATCTTCAG
12788166 TCTCTCTCGG
Statistics
Matches: 132, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
132 7 0.05
133 125 0.95
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (133 bp):
AGATAAGATCTACAATCTTCAGCCTACTCCCTTGCCACCTCAAAGAAATAAGACTAGTGGCTAAA
ATCTACTCCCCTGCTACCTCGGCAAAATAAGATTCGCCATCTTCGATCCACTCCACTACTGCTTA
GGG
Found at i:12791314 original size:30 final size:30
Alignment explanation
Indices: 12791265--12791337 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
12791255 CTTAAAAGAG
* *
12791265 ATAAATTATATATAGATTTAAAAGAGAATAT
1 ATAAA-TATAAATAGATTTAAAAGAAAATAT
*
12791296 ATAAATATAAATTGATTTAAAAGAAAATAT
1 ATAAATATAAATAGATTTAAAAGAAAATAT
*
12791326 ATACATA-AAATA
1 ATAAATATAAATA
12791338 ATATGCAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.11
30 28 0.76
31 5 0.14
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (30 bp):
ATAAATATAAATAGATTTAAAAGAAAATAT
Found at i:12791815 original size:166 final size:166
Alignment explanation
Indices: 12791634--12791958 Score: 632
Period size: 166 Copynumber: 2.0 Consensus size: 166
12791624 ATCTACAAAG
* *
12791634 AAATAAAATTACCTAAACAAAGGCAAAGACTAAAATGAAACTCACACCAATGATCAGGGATTTAA
1 AAATAAAATTACCTAAACAAAGGCAAAGACTAAAATGAAACGCACACCAATGATCAAGGATTTAA
12791699 AATACAAATATCCCAAGTCTTGAAACGCAACGTTTAAATGAGGACCGAATTGAAATAACGCACAA
66 AATACAAATATCCCAAGTCTTGAAACGCAACGTTTAAATGAGGACCGAATTGAAATAACGCACAA
12791764 ATTCCAGGGAAGATTTTAAAAGTAAATAGCACTAAA
131 ATTCCAGGGAAGATTTTAAAAGTAAATAGCACTAAA
12791800 AAATAAAATTACCTAAACAAAGGCAAAGACTAAAATGAAACGCACACCAATGATCAAGGATTTAA
1 AAATAAAATTACCTAAACAAAGGCAAAGACTAAAATGAAACGCACACCAATGATCAAGGATTTAA
12791865 AATACAAATATCCCAAGTCTTGAAACGCAACGTTTAAATGAGGACCGAATTGAAATAACGCACAA
66 AATACAAATATCCCAAGTCTTGAAACGCAACGTTTAAATGAGGACCGAATTGAAATAACGCACAA
12791930 ATTCCAGGGAAGATTTTAAAAGTAAATAG
131 ATTCCAGGGAAGATTTTAAAAGTAAATAG
12791959 AACGGGATCA
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 157 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (166 bp):
AAATAAAATTACCTAAACAAAGGCAAAGACTAAAATGAAACGCACACCAATGATCAAGGATTTAA
AATACAAATATCCCAAGTCTTGAAACGCAACGTTTAAATGAGGACCGAATTGAAATAACGCACAA
ATTCCAGGGAAGATTTTAAAAGTAAATAGCACTAAA
Found at i:12796724 original size:55 final size:53
Alignment explanation
Indices: 12796637--12796891 Score: 252
Period size: 55 Copynumber: 4.8 Consensus size: 53
12796627 ATTAGGGTTT
*
12796637 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
12796692 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
12796747 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTAGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* *
12796800 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTT-TAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * * * *
12796849 AAGGATACTACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
12796892 GTACCCGCGT
Statistics
Matches: 168, Mismatches: 26, Indels: 18
0.79 0.12 0.08
Matches are distributed among these distances:
49 38 0.23
52 8 0.05
53 41 0.24
54 10 0.06
55 67 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:12796843 original size:108 final size:110
Alignment explanation
Indices: 12796644--12796844 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
12796634 TTTAAGGATA
* *
12796644 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
12796709 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
12796754 CCATGTAAGACCATGCCAAGGCATGGC-ATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
12796816 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
12796845 TTAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 6 0.07
110 27 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:12797104 original size:16 final size:16
Alignment explanation
Indices: 12797083--12797113 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12797073 ATAAACTTGA
12797083 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
12797099 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
12797114 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:12801814 original size:86 final size:85
Alignment explanation
Indices: 12801629--12801832 Score: 250
Period size: 86 Copynumber: 2.4 Consensus size: 85
12801619 CAAACGCAGT
* * * ** *
12801629 TTTAGTGGCACTTTTCTCGCAAACGTCGCTAAAGACCATGACCTTTAGTGGCGCTTTTTCGCAAA
1 TTTAGTGGCACTTTTTTAGCAAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTCACAAA
* * *
12801694 CGCCGCTAAAGATGATAACC
66 CACCGCTAAAAATCATAACC
* * *
12801714 TTTAGCT-TCGCTTTTTTAGAAAACGCCGCTAAAGACCATGACCTTTAACGGCGCATTTTTCACA
1 TTTAG-TGGCACTTTTTTAGCAAACGCCGCTAAAGACCATGACCTTTAACGGCGC-TTTTTCACA
12801778 AACACCGCTAAAAATCATAACC
64 AACACCGCTAAAAATCATAACC
*
12801800 TTTAGTGGCACTTTTCTCA-CAAACGCCGCTAAA
1 TTTAGTGGCACTTTT-TTAGCAAACGCCGCTAAA
12801833 AATAATGATC
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
85 45 0.45
86 52 0.53
87 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (85 bp):
TTTAGTGGCACTTTTTTAGCAAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTTCACAAA
CACCGCTAAAAATCATAACC
Found at i:12801835 original size:43 final size:42
Alignment explanation
Indices: 12801629--12801832 Score: 203
Period size: 43 Copynumber: 4.8 Consensus size: 42
12801619 CAAACGCAGT
* * * * *
12801629 TTTAGTGGCACTTTTCTCGCAAACGTCGCTAAAGACCATGACC
1 TTTAGTGGCGCTTTT-TCACAAACGCCGCTAAAGATCATAACC
* *
12801672 TTTAGTGGCGCTTTTTCGCAAACGCCGCTAAAGATGATAACC
1 TTTAGTGGCGCTTTTTCACAAACGCCGCTAAAGATCATAACC
* * * * *
12801714 TTTAGCT-TCGCTTTTTTAGAAAACGCCGCTAAAGACCATGACC
1 TTTAG-TGGCGCTTTTTCA-CAAACGCCGCTAAAGATCATAACC
** * *
12801757 TTTAACGGCGCATTTTTCACAAACACCGCTAAAAATCATAACC
1 TTTAGTGGCGC-TTTTTCACAAACGCCGCTAAAGATCATAACC
*
12801800 TTTAGTGGCACTTTTCTCACAAACGCCGCTAAA
1 TTTAGTGGCGCTTTT-TCACAAACGCCGCTAAA
12801833 AATAATGATC
Statistics
Matches: 131, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
42 40 0.31
43 85 0.65
44 6 0.05
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
TTTAGTGGCGCTTTTTCACAAACGCCGCTAAAGATCATAACC
Found at i:12801895 original size:22 final size:23
Alignment explanation
Indices: 12801867--12801909 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12801857 TTTATTTTAA
*
12801867 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
12801889 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
12801910 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:12803236 original size:15 final size:16
Alignment explanation
Indices: 12803210--12803240 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
12803200 TGTTTCTTGC
12803210 TTTTAGATCATATATA
1 TTTTAGATCATATATA
12803226 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
12803241 AGATAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Done.