Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004374.1 Hibiscus syriacus cultivar Beakdansim tig00009582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 90993
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:1088 original size:23 final size:24
Alignment explanation
Indices: 1047--1099 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
1037 CCACTAAGGG
* *
1047 CTATGAAATTTGTCCCGAATGACCA
1 CTATGAAA-TTGTCACGAAGGACCA
1072 CTATGAAA-TGTCACGAAGGACCA
1 CTATGAAATTGTCACGAAGGACCA
1095 -TATGA
1 CTATGA
1100 CCCTCGACTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 5 0.19
23 13 0.50
25 8 0.31
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (24 bp):
CTATGAAATTGTCACGAAGGACCA
Found at i:3652 original size:29 final size:29
Alignment explanation
Indices: 3617--3683 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
3607 ATTTTACACA
3617 AATAGCACCCTTTTTAAAATAATTACCAC
1 AATAGCACCCTTTTTAAAATAATTACCAC
* * *
3646 AATAGCACCCTTTTTGAATTAATTACCAG
1 AATAGCACCCTTTTTAAAATAATTACCAC
3675 AATAGCACC
1 AATAGCACC
3684 TAAACCGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (29 bp):
AATAGCACCCTTTTTAAAATAATTACCAC
Found at i:3693 original size:29 final size:29
Alignment explanation
Indices: 3661--3741 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
3651 CACCCTTTTT
* *
3661 GAATTAATTACCAGAATAGCACCTAAACC
1 GAATTAATTCCCAGAATAGCACCAAAACC
3690 GAATTAATTCCCAGAATAGCACCAAAACC
1 GAATTAATTCCCAGAATAGCACCAAAACC
3719 GAATTAATTCCCAGAATAGCACC
1 GAATTAATTCCCAGAATAGCACC
3742 GGTCAACGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.20
Consensus pattern (29 bp):
GAATTAATTCCCAGAATAGCACCAAAACC
Found at i:10883 original size:29 final size:29
Alignment explanation
Indices: 10848--10914 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
10838 ATTTTACACA
* *
10848 AATAGCACCCTTTTTAAAATAATTACCAT
1 AATAGCACCCTTTTCAAAATAATTACCAG
* * *
10877 AATAGCACCCTTTTCGAATTAATTCCCAG
1 AATAGCACCCTTTTCAAAATAATTACCAG
10906 AATAGCACC
1 AATAGCACC
10915 AAAACCGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.30
Consensus pattern (29 bp):
AATAGCACCCTTTTCAAAATAATTACCAG
Found at i:10981 original size:18 final size:17
Alignment explanation
Indices: 10958--11010 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
10948 AACGGTCAAC
10958 GGTCGGGTCGGGTTAACG
1 GGTCGGGTCGGG-TAACG
10976 GGTCGGGTC----AACG
1 GGTCGGGTCGGGTAACG
10989 GGTCGGGTCGGGTCAACG
1 GGTCGGGTCGGGT-AACG
11007 GGTC
1 GGTC
11011 ATGACCGGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 13 0.43
18 17 0.57
ACGTcount: A:0.11, C:0.21, G:0.49, T:0.19
Consensus pattern (17 bp):
GGTCGGGTCGGGTAACG
Found at i:10996 original size:31 final size:30
Alignment explanation
Indices: 10951--11010 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
10941 ACCTATCAAC
*
10951 GGTCAACGGTCGGGTCGGGTTAACGGGTCG
1 GGTCAACGGTCGGGTCGGGTCAACGGGTCG
10981 GGTCAACGGGTCGGGTCGGGTCAACGGGTC
1 GGTCAAC-GGTCGGGTCGGGTCAACGGGTC
11011 ATGACCGGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.13, C:0.22, G:0.47, T:0.18
Consensus pattern (30 bp):
GGTCAACGGTCGGGTCGGGTCAACGGGTCG
Found at i:11010 original size:13 final size:13
Alignment explanation
Indices: 10961--10997 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
10951 GGTCAACGGT
*
10961 CGGGTCGGGTTAA
1 CGGGTCGGGTCAA
10974 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
10987 CGGGTCGGGTC
1 CGGGTCGGGTC
10998 GGGTCAACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:11020 original size:10 final size:10
Alignment explanation
Indices: 11007--11057 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
10997 CGGGTCAACG
11007 GGTCATGACC
1 GGTCATGACC
*
11017 GGTCA--ACG
1 GGTCATGACC
11025 GGTCATGACC
1 GGTCATGACC
*
11035 GGTCA--ACG
1 GGTCATGACC
11043 GGTCATGACC
1 GGTCATGACC
11053 GGTCA
1 GGTCA
11058 AACCGGTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 14 0.42
10 19 0.58
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.18
Consensus pattern (10 bp):
GGTCATGACC
Found at i:11020 original size:18 final size:18
Alignment explanation
Indices: 10999--11058 Score: 120
Period size: 18 Copynumber: 3.3 Consensus size: 18
10989 GGTCGGGTCG
10999 GGTCAACGGGTCATGACC
1 GGTCAACGGGTCATGACC
11017 GGTCAACGGGTCATGACC
1 GGTCAACGGGTCATGACC
11035 GGTCAACGGGTCATGACC
1 GGTCAACGGGTCATGACC
11053 GGTCAA
1 GGTCAA
11059 ACCGGTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.23, C:0.27, G:0.33, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCATGACC
Found at i:11021 original size:36 final size:36
Alignment explanation
Indices: 10950--11058 Score: 131
Period size: 36 Copynumber: 3.2 Consensus size: 36
10940 CACCTATCAA
*
10950 CGGTCAAC-GGTCGGGTCGGGTTAACGGGTC--G--
1 CGGTCAACGGGTCGGGTCGGGTCAACGGGTCATGAC
10981 -GGTCAACGGGTCGGGTCGGGTCAACGGGTCATGAC
1 CGGTCAACGGGTCGGGTCGGGTCAACGGGTCATGAC
** * *
11016 CGGTCAACGGGTCATGACCGGTCAACGGGTCATGAC
1 CGGTCAACGGGTCGGGTCGGGTCAACGGGTCATGAC
11052 CGGTCAA
1 CGGTCAA
11059 ACCGGTTCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
30 7 0.10
31 21 0.31
33 1 0.01
36 38 0.57
ACGTcount: A:0.18, C:0.25, G:0.39, T:0.17
Consensus pattern (36 bp):
CGGTCAACGGGTCGGGTCGGGTCAACGGGTCATGAC
Found at i:12432 original size:16 final size:16
Alignment explanation
Indices: 12411--12476 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 16
12401 CAGTCAACTT
12411 GTTGACTTTGACAAGA
1 GTTGACTTTGACAAGA
* *
12427 GTTGACCTTGACCATGACCAA
1 GTTGACTTTGA-CA--A--GA
12448 CGTTGACTTTGACAAGA
1 -GTTGACTTTGACAAGA
12465 GTTGACTTTGAC
1 GTTGACTTTGAC
12477 CTTGACCAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
16 22 0.55
17 3 0.08
19 2 0.05
21 3 0.08
22 10 0.25
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (16 bp):
GTTGACTTTGACAAGA
Found at i:12462 original size:38 final size:38
Alignment explanation
Indices: 12411--12498 Score: 140
Period size: 38 Copynumber: 2.3 Consensus size: 38
12401 CAGTCAACTT
12411 GTTGACTTTGACAAGAGTTGACCTTGACCATGACCAAC
1 GTTGACTTTGACAAGAGTTGACCTTGACCATGACCAAC
* * *
12449 GTTGACTTTGACAAGAGTTGACTTTGACCTTGACCAGC
1 GTTGACTTTGACAAGAGTTGACCTTGACCATGACCAAC
*
12487 GCTGACTTTGAC
1 GTTGACTTTGAC
12499 TATGACCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (38 bp):
GTTGACTTTGACAAGAGTTGACCTTGACCATGACCAAC
Found at i:12475 original size:22 final size:22
Alignment explanation
Indices: 12450--12504 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
12440 ATGACCAACG
*
12450 TTGACTTTGACAAGAGTTGACT
1 TTGACTTTGACAAGAGCTGACT
* * *
12472 TTGACCTTGACCAGCGCTGACT
1 TTGACTTTGACAAGAGCTGACT
*
12494 TTGACTATGAC
1 TTGACTTTGAC
12505 CAAAAATTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (22 bp):
TTGACTTTGACAAGAGCTGACT
Found at i:12651 original size:13 final size:13
Alignment explanation
Indices: 12633--12668 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
12623 AGCATAGGTA
12633 TGTATTTAAGTAT
1 TGTATTTAAGTAT
12646 TGTATTTAAGTAT
1 TGTATTTAAGTAT
12659 TGTATTTAAG
1 TGTATTTAAG
12669 CACATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (13 bp):
TGTATTTAAGTAT
Found at i:13295 original size:31 final size:31
Alignment explanation
Indices: 13260--13345 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
13250 TAAGGTAACC
* *
13260 CTTGGGTAGGCTCCGATGCCCCAATAACTTT
1 CTTGGGTAGGCTCAGAAGCCCCAATAACTTT
*
13291 CTTGGGTAGGCTCATAAGCCCCAATAACTTT
1 CTTGGGTAGGCTCAGAAGCCCCAATAACTTT
* *
13322 CTTGGGTAGGCTCATAGGCCCCAA
1 CTTGGGTAGGCTCAGAAGCCCCAA
13346 GTTGCTCTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (31 bp):
CTTGGGTAGGCTCAGAAGCCCCAATAACTTT
Found at i:13989 original size:20 final size:21
Alignment explanation
Indices: 13957--13995 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13947 CTTTGGAAAT
*
13957 CATAGGTAGTATCGATACTAC
1 CATAGGTAGTATCAATACTAC
13978 CATAGG-AGTATCAATACT
1 CATAGGTAGTATCAATACT
13996 TCTAGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (21 bp):
CATAGGTAGTATCAATACTAC
Found at i:14004 original size:15 final size:15
Alignment explanation
Indices: 13984--14058 Score: 141
Period size: 15 Copynumber: 5.0 Consensus size: 15
13974 CTACCATAGG
*
13984 AGTATCAATACTTCT
1 AGTATCGATACTTCT
13999 AGTATCGATACTTCT
1 AGTATCGATACTTCT
14014 AGTATCGATACTTCT
1 AGTATCGATACTTCT
14029 AGTATCGATACTTCT
1 AGTATCGATACTTCT
14044 AGTATCGATACTTCT
1 AGTATCGATACTTCT
14059 TTTACCTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 59 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (15 bp):
AGTATCGATACTTCT
Found at i:28703 original size:13 final size:13
Alignment explanation
Indices: 28685--28712 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
28675 GCCCCAAAAC
28685 GACGTCGTTTCAG
1 GACGTCGTTTCAG
28698 GACGTCGTTTCAG
1 GACGTCGTTTCAG
28711 GA
1 GA
28713 TGCCTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (13 bp):
GACGTCGTTTCAG
Found at i:29420 original size:13 final size:13
Alignment explanation
Indices: 29380--29443 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
29370 TGATGGTGAT
29380 AGGGGACTGGTGC
1 AGGGGACTGGTGC
**
29393 AGATGAC-GGTGGC
1 AGGGGACTGGT-GC
29406 AGGGGACTGGTGC
1 AGGGGACTGGTGC
**
29419 AGATGAC-GGTGAC
1 AGGGGACTGGTG-C
29432 AGGGGACTGGTG
1 AGGGGACTGGTG
29444 TAGATAATGG
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
12 7 0.18
13 25 0.64
14 7 0.18
ACGTcount: A:0.20, C:0.14, G:0.50, T:0.16
Consensus pattern (13 bp):
AGGGGACTGGTGC
Found at i:29462 original size:52 final size:52
Alignment explanation
Indices: 29361--29465 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
29351 GCTTTAGAGT
* * * *
29361 TGGTGGAGATGATGGTGATAGGGGACTGGTGCAGATGACGGTGGCAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGACTGGTGCAGATAACGGTGGCAGGGGAC
* * **
29413 TGGTGCAGATGACGGTGACAGGGGACTGGTGTAGATAATGGTGTTAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGACTGGTGCAGATAACGGTGGCAGGGGAC
29465 T
1 T
29466 TTAGGGTTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.22, C:0.10, G:0.47, T:0.22
Consensus pattern (52 bp):
TGGTGCAGATGACGGTGACAGGGGACTGGTGCAGATAACGGTGGCAGGGGAC
Found at i:29465 original size:26 final size:26
Alignment explanation
Indices: 29361--29448 Score: 131
Period size: 26 Copynumber: 3.4 Consensus size: 26
29351 GCTTTAGAGT
* * *
29361 TGGTGGAGATGATGGTGATAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
*
29387 TGGTGCAGATGACGGTGGCAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
29413 TGGTGCAGATGACGGTGACAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
*
29439 TGGTGTAGAT
1 TGGTGCAGAT
29449 AATGGTGTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.22, C:0.10, G:0.48, T:0.20
Consensus pattern (26 bp):
TGGTGCAGATGACGGTGACAGGGGAC
Found at i:29618 original size:3 final size:3
Alignment explanation
Indices: 29612--29646 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
29602 CATAGAAAAA
* *
29612 AAT AAT AAT AGT AAT AAT AAT ATT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
29647 CGATCTTCGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:29629 original size:12 final size:12
Alignment explanation
Indices: 29612--29645 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
29602 CATAGAAAAA
29612 AATAATAATAGT
1 AATAATAATAGT
*
29624 AATAATAATATT
1 AATAATAATAGT
29636 AATAATAATA
1 AATAATAATA
29646 ACGATCTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:30111 original size:138 final size:139
Alignment explanation
Indices: 29836--30340 Score: 531
Period size: 138 Copynumber: 3.7 Consensus size: 139
29826 GATCAAATCT
* * * * * * * * *
29836 GAAAAGGGATCTGCTCCACTGCTTCTCCATGGTAAATTAGATCTAGAAACGTTAATTCATTCCAC
1 GAAAAGGGATATGTTCCACTACTTCTTCAGGGAAAATCAGATCTGGAAACGTTGATTCATTCCAC
* * ** *
29901 TGTTCTTTAGGGAAGATTGAATCGAGGTAGACTTGTTCCACTGTTCCTCGGGGAAGATCAAATCC
66 TGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAGGGAAGATCAAATCT
*
29966 GTA-AAAAA
131 GGAGAAAAA
* *
29974 GAAAAGGGATATGTTCCACTACTTCTTCAGGGAAAATAAGATCTGGAAACGTTGATTCATTCCAT
1 GAAAAGGGATATGTTCCACTACTTCTTCAGGGAAAATCAGATCTGGAAACGTTGATTCATTCCAC
* * *
30039 TGTTCTTCAAGAAAGATTGAATCGAGGCAGACTTGTT-CACTGTTCCTTAGGGAAGATCATATCT
66 TGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAGGGAAGATCAAATCT
30103 GGAGAAAAA
131 GGAGAAAAA
* * ** * * * *
30112 GAAAAGGGATTTCTTCTGCTATTTTTTCAGGGAAAATCAGATTTGGAAATGTTGATTCATTCCAC
1 GAAAAGGGATATGTTCCACTACTTCTTCAGGGAAAATCAGATCTGGAAACGTTGATTCATTCCAC
* ** * * *
30177 TATTCTTCAGGGAAGATTGAATCGAATCATACTTGTTCCACTGCTT-TTTCA-GGAATGAACAAA
66 TGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTG-TTCCTT-AGGGAA-GATCAAA
30240 TCT-G-GAAAAA
128 TCTGGAGAAAAA
* ** * * * * *
30250 GAAATGGGATATGGTT-TGCTGCTTCTTCAAGGTAAATCAGAT-TCGAAAATGTTGATTCATTCC
1 GAAAAGGGATAT-GTTCCACTACTTCTTCAGGGAAAATCAGATCT-GGAAACGTTGATTCATTCC
30313 ACTGTTCTTCAGGGAAGATTGAATCGAG
64 ACTGTTCTTCAGGGAAGATTGAATCGAG
30341 TTCGATTTTC
Statistics
Matches: 311, Mismatches: 49, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
137 26 0.08
138 260 0.84
139 14 0.05
140 11 0.04
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (139 bp):
GAAAAGGGATATGTTCCACTACTTCTTCAGGGAAAATCAGATCTGGAAACGTTGATTCATTCCAC
TGTTCTTCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTTCCTTAGGGAAGATCAAATCT
GGAGAAAAA
Found at i:30699 original size:28 final size:28
Alignment explanation
Indices: 30659--30712 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
30649 CATGTGAAAG
* *
30659 CATCTTTCCCG-AAGGTCTTATGGATGGT
1 CATCTTGCCCGAAAGG-CTTATAGATGGT
*
30687 CATCTTGCTCGAAAGGCTTATAGATG
1 CATCTTGCCCGAAAGGCTTATAGATG
30713 ACCCAAAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 18 0.82
29 4 0.18
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (28 bp):
CATCTTGCCCGAAAGGCTTATAGATGGT
Found at i:32520 original size:13 final size:13
Alignment explanation
Indices: 32502--32529 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32492 GCCCCAAAAC
32502 GACGTCGTTTCAG
1 GACGTCGTTTCAG
32515 GACGTCGTTTCAG
1 GACGTCGTTTCAG
32528 GA
1 GA
32530 TGCCTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (13 bp):
GACGTCGTTTCAG
Found at i:33238 original size:13 final size:13
Alignment explanation
Indices: 33198--33261 Score: 60
Period size: 13 Copynumber: 4.9 Consensus size: 13
33188 TGATGGTGAT
33198 AGGGGACTGGTGC
1 AGGGGACTGGTGC
**
33211 AGATGAC-GGTGGC
1 AGGGGACTGGT-GC
33224 AGGGGACTGGTGC
1 AGGGGACTGGTGC
**
33237 AGATGAC-GGTGAC
1 AGGGGACTGGTG-C
33250 AGGGGACTGGTG
1 AGGGGACTGGTG
33262 TAGATAATGG
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
12 7 0.18
13 25 0.64
14 7 0.18
ACGTcount: A:0.20, C:0.14, G:0.50, T:0.16
Consensus pattern (13 bp):
AGGGGACTGGTGC
Found at i:33280 original size:52 final size:52
Alignment explanation
Indices: 33179--33283 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
33169 GCTTCAGAGT
* * * *
33179 TGGTGGAGATGATGGTGATAGGGGACTGGTGCAGATGACGGTGGCAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGACTGGTGCAGATAACGGTGGCAGGGGAC
* * **
33231 TGGTGCAGATGACGGTGACAGGGGACTGGTGTAGATAATGGTGTTAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGACTGGTGCAGATAACGGTGGCAGGGGAC
33283 T
1 T
33284 TTAGGGTTAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.22, C:0.10, G:0.47, T:0.22
Consensus pattern (52 bp):
TGGTGCAGATGACGGTGACAGGGGACTGGTGCAGATAACGGTGGCAGGGGAC
Found at i:33283 original size:26 final size:26
Alignment explanation
Indices: 33179--33266 Score: 131
Period size: 26 Copynumber: 3.4 Consensus size: 26
33169 GCTTCAGAGT
* * *
33179 TGGTGGAGATGATGGTGATAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
*
33205 TGGTGCAGATGACGGTGGCAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
33231 TGGTGCAGATGACGGTGACAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
*
33257 TGGTGTAGAT
1 TGGTGCAGAT
33267 AATGGTGTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.22, C:0.10, G:0.48, T:0.20
Consensus pattern (26 bp):
TGGTGCAGATGACGGTGACAGGGGAC
Found at i:33436 original size:3 final size:3
Alignment explanation
Indices: 33430--33464 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
33420 CATAGAAAAA
* *
33430 AAT AAT AAT AGT AAT AAT AAT ATT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33465 CGATCTTCGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:33447 original size:12 final size:12
Alignment explanation
Indices: 33430--33463 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
33420 CATAGAAAAA
33430 AATAATAATAGT
1 AATAATAATAGT
*
33442 AATAATAATATT
1 AATAATAATAGT
33454 AATAATAATA
1 AATAATAATA
33464 ACGATCTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:33986 original size:139 final size:138
Alignment explanation
Indices: 33687--34159 Score: 544
Period size: 138 Copynumber: 3.4 Consensus size: 138
33677 TCTCCATGGT
* * * *
33687 AAATTAGATCTAGAAACGTTAATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGTAGACT
1 AAATCAGATCTGGAAACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACT
** * * * * *
33752 TGTTCCACTGTTCCTCGGGGAAGATCAAATCCGTAAAAAAGAAAAGGGATATGTTCCACTAGTTC
66 TGTTCCACTGTTCCTTAGGGAAGATCAAATCTGGAAAAAAGAAAAGGGATATGTTCCGCTACTTT
33817 TTCAGGGA
131 TTCAGGGA
* * * * *
33825 AAATAAGATCTGGAAACGTTGATTAATTCCATTGTTCTTCAAGAAAGATTGAATCGAGGCAGACT
1 AAATCAGATCTGGAAACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACT
* * * * *
33890 TGTT-CACTGTTCCTTAGGGAAGATCATATCTGGAGAAAAAAGAAAAGGGATTTCTTCTGCTATT
66 TGTTCCACTGTTCCTTAGGGAAGATCAAATCT-G-GAAAAAAGAAAAGGGATATGTTCCGCTACT
33954 TTTTCAGGGA
129 TTTTCAGGGA
* * ** *
33964 AAATCAGATCTGGAAATGTTGATTCATTCCACTATTCTTCAGGGAAGATTGAATCGAATCATACT
1 AAATCAGATCTGGAAACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACT
* * * *
34029 TGTTCCACTGCTT-TTTCA-GGAATGATCAAATCTGG-AAAAAGAAATGGGATATGGTCCGCTGC
66 TGTTCCACTG-TTCCTT-AGGGAA-GATCAAATCTGGAAAAAAGAAAAGGGATATGTTCCGCTAC
*
34091 TTTTTCA-AGA
128 TTTTTCAGGGA
* *
34101 TAAATCAGAT-TCGAAAATGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
1 -AAATCAGATCT-GGAAACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAG
34160 TTCGATTTGC
Statistics
Matches: 285, Mismatches: 42, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
137 26 0.09
138 142 0.50
139 93 0.33
140 12 0.04
141 12 0.04
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (138 bp):
AAATCAGATCTGGAAACGTTGATTCATTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCAGACT
TGTTCCACTGTTCCTTAGGGAAGATCAAATCTGGAAAAAAGAAAAGGGATATGTTCCGCTACTTT
TTCAGGGA
Found at i:34520 original size:28 final size:28
Alignment explanation
Indices: 34480--34533 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
34470 CATGTGAAAG
*
34480 CATCTTGCCCG-AAGGTCTTATGGATGGT
1 CATCTTGCCCGAAAGG-CTTATAGATGGT
*
34508 CATCTTGCTCGAAAGGCTTATAGATG
1 CATCTTGCCCGAAAGGCTTATAGATG
34534 ACCCAAAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (28 bp):
CATCTTGCCCGAAAGGCTTATAGATGGT
Found at i:34737 original size:18 final size:19
Alignment explanation
Indices: 34714--34754 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34704 CGTATTTGTT
* *
34714 ATTTTAA-TAAAATATTAA
1 ATTTTAATTAAAACAATAA
34732 ATTTTAATTAAAACAATAA
1 ATTTTAATTAAAACAATAA
34751 ATTT
1 ATTT
34755 CTGCGTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTAATTAAAACAATAA
Found at i:35785 original size:13 final size:13
Alignment explanation
Indices: 35767--35796 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
35757 GCCCCAAAAC
35767 GACGTCGTTTCAG
1 GACGTCGTTTCAG
*
35780 GACGTCGTTTCAT
1 GACGTCGTTTCAG
35793 GACG
1 GACG
35797 CCTATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (13 bp):
GACGTCGTTTCAG
Found at i:35838 original size:17 final size:16
Alignment explanation
Indices: 35812--35845 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
35802 AAATCCCCAC
*
35812 TTTCCTCATTTTCTCTT
1 TTTCCACATTTT-TCTT
35829 TTTCCACATTTTTCTT
1 TTTCCACATTTTTCTT
35845 T
1 T
35846 CCCTTTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCCACATTTTTCTT
Found at i:36524 original size:26 final size:26
Alignment explanation
Indices: 36430--36512 Score: 112
Period size: 26 Copynumber: 3.2 Consensus size: 26
36420 GCTTCAGAGT
* * *
36430 TGGTGGAGATGATGGTGATAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
* * *
36456 TGGTGCAGATGACGATGGCAGGAGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
36482 TGGTGCAGATGACGGTGACAGGGGAC
1 TGGTGCAGATGACGGTGACAGGGGAC
36508 TGGTG
1 TGGTG
36513 TAGAAAATGG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.23, C:0.11, G:0.47, T:0.19
Consensus pattern (26 bp):
TGGTGCAGATGACGGTGACAGGGGAC
Found at i:37185 original size:138 final size:136
Alignment explanation
Indices: 36905--37409 Score: 514
Period size: 138 Copynumber: 3.7 Consensus size: 136
36895 GATCAAATCT
* * * * * * *
36905 GAAAAGGGATCTGCTCCACTGCTTCTCCATGGTAAATTAGATCTAGAAACGTTAATTCATTCCAC
1 GAAAAGGGATCTGCTCCACTACTTCTTCAGGGAAAATCAGATCTGGAAACGTTGATTCATTCCAC
* ** *
36970 TGTTCTTCAAGGAAGATTGAATCGAGGTAGACTTGTTTCACTGTTCCTCGGGGAAGATCAAATCC
66 TGTTCTTCAAGGAAGATTGAATCGAGGCAGACTTG-TTCACTGTTCCTTAGGGAAGATCAAATCT
37035 AGAAAAAA
130 AG-AAAAA
* * * *
37043 GAAAAGGGATCTGTTCCACTACTTCTTCAGGGAAAATTAGATCTGGAAACATTGATTCATTCCAT
1 GAAAAGGGATCTGCTCCACTACTTCTTCAGGGAAAATCAGATCTGGAAACGTTGATTCATTCCAC
* *
37108 TGTTCTTCAAGAAAGATTGAATCGAGGCAGACTTGTTCACTGTTCCTTAGGGAAGATCATATCTG
66 TGTTCTTCAAGGAAGATTGAATCGAGGCAGACTTGTTCACTGTTCCTTAGGGAAGATCAAATCT-
*
37173 GAGAAAAC
130 -AGAAAAA
* ** * * *
37181 GAAAAGGGAT-TTCTTCTGCTACTTTTTCAGGGAAAATCAGATCTGGAAATGTTGATTCATTCAA
1 GAAAAGGGATCTGC-TCCACTACTTCTTCAGGGAAAATCAGATCTGGAAACGTTGATTCATTCCA
* * * ** * *
37245 CTATTCTTCAGGGAAGATTGAATCAAATCATACTTGTTCCACTGCTT-TTTCA-GGAATGATCAA
65 CTGTTCTTCAAGGAAGATTGAATCGAGGCAGACTTGTT-CACTG-TTCCTT-AGGGAA-GATCAA
*
37308 ATCTTGAAAAA
126 ATCTAGAAAAA
* * ** * * * * *
37319 GAAAGGGGATATGCTCGGCTGCTTCTTCAAGGTAAATCAGAT-TCGGAAATGTTGATTCATTTCA
1 GAAAAGGGATCTGCTCCACTACTTCTTCAGGGAAAATCAGATCT-GGAAACGTTGATTCATTCCA
*
37383 CTGTTCTTCAGGGAAGATTGAATCGAG
65 CTGTTCTTCAAGGAAGATTGAATCGAG
37410 TTCGATTTGC
Statistics
Matches: 309, Mismatches: 49, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
137 27 0.09
138 255 0.83
139 15 0.05
140 12 0.04
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (136 bp):
GAAAAGGGATCTGCTCCACTACTTCTTCAGGGAAAATCAGATCTGGAAACGTTGATTCATTCCAC
TGTTCTTCAAGGAAGATTGAATCGAGGCAGACTTGTTCACTGTTCCTTAGGGAAGATCAAATCTA
GAAAAA
Found at i:37762 original size:29 final size:29
Alignment explanation
Indices: 37729--37784 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
37719 CTTGTGAAAG
*
37729 CATCTTGCCCG-AAGGTCTTATGGATGGAT
1 CATCTTGCCCGAAAGG-CTTATAGATGGAT
*
37758 CATCTTGCTCGAAAGGCTTATAGATGG
1 CATCTTGCCCGAAAGGCTTATAGATGG
37785 CCCAAAGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (29 bp):
CATCTTGCCCGAAAGGCTTATAGATGGAT
Found at i:37802 original size:42 final size:42
Alignment explanation
Indices: 37756--37835 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
37746 TTATGGATGG
* * *
37756 ATCATCTTGCTCGAAAGGCTTA-TAGATGGCCCAAAGGATTTA
1 ATCATCATGCTCAAAAGACTTACT-GATGGCCCAAAGGATTTA
*
37798 ATCATCATGCTCAAAAGACTTACTGATGGCCTAAAGGA
1 ATCATCATGCTCAAAAGACTTACTGATGGCCCAAAGGA
37836 CTTGCCAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (42 bp):
ATCATCATGCTCAAAAGACTTACTGATGGCCCAAAGGATTTA
Found at i:39317 original size:44 final size:45
Alignment explanation
Indices: 39237--39326 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 45
39227 CGTGTATTCT
* * *
39237 TGGATGATATAGGTCTTCAAAAAATGCCCCACCATTTATCATTTC
1 TGGATGATATAGGCCTTCAAAAAATACCCCAACATTTATCATTTC
* * *
39282 TGGATTATATGGGCCTTC-AAAAATACCCCAACATTTATTATTTC
1 TGGATGATATAGGCCTTCAAAAAATACCCCAACATTTATCATTTC
39326 T
1 T
39327 TGCTCTAGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 24 0.62
45 15 0.38
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (45 bp):
TGGATGATATAGGCCTTCAAAAAATACCCCAACATTTATCATTTC
Found at i:40444 original size:14 final size:13
Alignment explanation
Indices: 40410--40486 Score: 52
Period size: 14 Copynumber: 5.7 Consensus size: 13
40400 GAAATACTTG
40410 TTCTATTTTC-TTT
1 TTCT-TTTTCATTT
*
40423 CTTCTTTCTCATTT
1 -TTCTTTTTCATTT
40437 TTC-TTTTCA-TT
1 TTCTTTTTCATTT
*
40448 TTCTTTTTCTCCTTTT
1 TTC-TTTT-T-CATTT
*
40464 TTCTTTTTCTTTT
1 TTCTTTTTCATTT
40477 TATCTTTTTC
1 T-TCTTTTTC
40487 TCTCTCCTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
11 5 0.09
12 5 0.09
13 16 0.30
14 17 0.32
15 5 0.09
16 5 0.09
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTTTTCATTT
Found at i:40471 original size:22 final size:21
Alignment explanation
Indices: 40440--40485 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
40430 CTCATTTTTC
*
40440 TTTTCATTTTCTTTTTCTCCTT
1 TTTTCATTTTCTTTTTAT-CTT
*
40462 TTTTCTTTTTCTTTTTATCTT
1 TTTTCATTTTCTTTTTATCTT
40483 TTT
1 TTT
40486 CTCTCTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCATTTTCTTTTTATCTT
Found at i:40476 original size:27 final size:27
Alignment explanation
Indices: 40410--40476 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
40400 GAAATACTTG
40410 TTCTATTTTC-TTTCTTCTTTCTCATTT
1 TTCT-TTTTCTTTTCTTCTTTCTCATTT
*
40437 TTC-TTTTCATTTTCTT-TTTCTCCTTTT
1 TTCTTTTTC-TTTTCTTCTTTCT-CATTT
40464 TTCTTTTTCTTTT
1 TTCTTTTTCTTTT
40477 TATCTTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 5 0.14
26 5 0.14
27 20 0.57
28 5 0.14
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (27 bp):
TTCTTTTTCTTTTCTTCTTTCTCATTT
Found at i:40477 original size:6 final size:6
Alignment explanation
Indices: 40410--40487 Score: 54
Period size: 6 Copynumber: 12.7 Consensus size: 6
40400 GAAATACTTG
* * *
40410 TTCTATT TTCTTT CTTCTTT CTCATTT TTC-TT TTCATT TTCTTT TTC-TC
1 TTCT-TT TTCTTT -TTCTTT TTC-TTT TTCTTT TTCTTT TTCTTT TTCTTT
*
40459 CT-TTT TTCTTT TTCTTTT TATCTTT TTCT
1 TTCTTT TTCTTT TTC-TTT T-TCTTT TTCT
40488 CTCTCCTTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
5 9 0.16
6 23 0.40
7 23 0.40
8 2 0.04
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (6 bp):
TTCTTT
Found at i:40487 original size:14 final size:15
Alignment explanation
Indices: 40449--40489 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
40439 CTTTTCATTT
*
40449 TCTTTTTCTCCTTTTT
1 TCTTTTTCT-CTTTTA
40465 TCTTTTTCT-TTTTA
1 TCTTTTTCTCTTTTA
40479 TCTTTTTCTCT
1 TCTTTTTCTCT
40490 CTCCTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 13 0.57
15 1 0.04
16 9 0.39
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTTTCTCTTTTA
Found at i:45299 original size:31 final size:31
Alignment explanation
Indices: 45195--45304 Score: 89
Period size: 31 Copynumber: 3.4 Consensus size: 31
45185 TTAGGTCCAT
* * *
45195 AAGGAATTATCAGTCGGTGCTGAACCTATAC
1 AAGGAATTACCAGTCGGTGTTGAACCTTTAC
* * * *
45226 AAGGAATTACCAG-C-ATATACTGAACCTGCTAGAGT
1 AAGGAATTACCAGTCGGTGT--TGAACCT--T-TA-C
45261 AAGGAATTACCAGTCGGTGTTGAACCTTTAC
1 AAGGAATTACCAGTCGGTGTTGAACCTTTAC
45292 AAGGAATTACCAG
1 AAGGAATTACCAG
45305 CAGCGACTGA
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
29 1 0.02
30 1 0.02
31 32 0.53
32 1 0.02
33 1 0.02
34 1 0.02
35 20 0.33
36 1 0.02
37 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (31 bp):
AAGGAATTACCAGTCGGTGTTGAACCTTTAC
Found at i:45314 original size:66 final size:66
Alignment explanation
Indices: 45194--45318 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
45184 CTTAGGTCCA
* * *
45194 TAAGGAATTATCAGTCGGTGCTGAACCTATACAAGGAATTACCAGCATATACTGAACCTGCTAGA
1 TAAGGAATTACCAGTCGGTGCTGAACCTATACAAGGAATTACCAGCAGAGACTGAACCTGCTAGA
45259 G
66 G
* * *
45260 TAAGGAATTACCAGTCGGTGTTGAACCTTTACAAGGAATTACCAGCAGCGACTGAACCT
1 TAAGGAATTACCAGTCGGTGCTGAACCTATACAAGGAATTACCAGCAGAGACTGAACCT
45319 ACCAGAGTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (66 bp):
TAAGGAATTACCAGTCGGTGCTGAACCTATACAAGGAATTACCAGCAGAGACTGAACCTGCTAGA
G
Found at i:45316 original size:31 final size:31
Alignment explanation
Indices: 45214--45318 Score: 77
Period size: 31 Copynumber: 3.3 Consensus size: 31
45204 TCAGTCGGTG
* * *
45214 CTGAACCTATACAAGGAATTACCAGCATATA
1 CTGAACCTTTACAAGGAATTACCAGCAGAGA
* * * *
45245 CTGAACCTGCTAGAGTAAGGAATTACCAGTCGGTG-
1 CTGAACCT--T-TA-CAAGGAATTACCAG-CAGAGA
* *
45280 TTGAACCTTTACAAGGAATTACCAGCAGCGA
1 CTGAACCTTTACAAGGAATTACCAGCAGAGA
45311 CTGAACCT
1 CTGAACCT
45319 ACCAGAGTCT
Statistics
Matches: 55, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
30 3 0.05
31 28 0.51
32 1 0.02
33 1 0.02
34 1 0.02
35 20 0.36
36 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (31 bp):
CTGAACCTTTACAAGGAATTACCAGCAGAGA
Found at i:49337 original size:2 final size:2
Alignment explanation
Indices: 49326--49408 Score: 159
Period size: 2 Copynumber: 42.0 Consensus size: 2
49316 CTAAGGAAAA
49326 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49409 TTAGGGTTTT
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 79 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:49523 original size:14 final size:16
Alignment explanation
Indices: 49487--49525 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 16
49477 CCTTTTTCTT
49487 TAATATTAATAAATAAA
1 TAATATTAATAAAT-AA
49504 TAAATATTAATAATATAA
1 T-AATATTAATAA-ATAA
49522 TAAT
1 TAAT
49526 TTTTCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.20
18 14 0.70
19 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATTAATAAATAA
Found at i:49787 original size:3 final size:3
Alignment explanation
Indices: 49779--49853 Score: 87
Period size: 3 Copynumber: 24.3 Consensus size: 3
49769 TTCATTTTAA
**
49779 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
49827 AAT AGT AAT ATT ATTT ATT ATTT ATT A
1 ATT ATT ATT ATT A-TT ATT A-TT ATT A
49854 AATATTACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
3 56 0.90
4 6 0.10
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:52059 original size:24 final size:23
Alignment explanation
Indices: 52005--52060 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
51995 TTTTTAATTC
*
52005 TTTC-TTTTCAAAATTTTTATAT
1 TTTCATTTTCAAAATATTTATAT
* *
52027 TTACTATTTTCATAATATTTATAT
1 TTTC-ATTTTCAAAATATTTATAT
52051 GTTTCATTTT
1 -TTTCATTTT
52061 ATTTGCAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 3 0.11
24 21 0.78
25 3 0.11
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTCATTTTCAAAATATTTATAT
Found at i:52064 original size:18 final size:18
Alignment explanation
Indices: 52023--52057 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
52013 CAAAATTTTT
52023 ATATTTACTATTTTCATA
1 ATATTTACTATTTTCATA
52041 ATATTTA-TATGTTTCAT
1 ATATTTACTAT-TTTCAT
52058 TTTATTTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (18 bp):
ATATTTACTATTTTCATA
Found at i:56415 original size:2 final size:2
Alignment explanation
Indices: 56408--56443 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
56398 TTATCCTTTA
56408 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56444 CCTTGGTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58889 original size:93 final size:91
Alignment explanation
Indices: 58748--59027 Score: 427
Period size: 93 Copynumber: 3.0 Consensus size: 91
58738 AGAAGACCCA
*
58748 ATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGATCCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAT-CAA
58813 TCATTGAATTTAGAAGATGAATGTGCTC
65 TCATTGAATTT-GAAGATGAATGTGCTC
*
58841 ATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAATCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAG-ATCAA
58906 TCATTGAATTTGGAAGATGAATGTGCTC
65 TCATTGAATTT-GAAGATGAATGTGCTC
* * * *
58934 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGATTTGGTATGAACTCCA-AAATCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAA-ACCACAGATCAA
* *
58998 TCATTGGATTTGAAAGATGAATTTGCTC
65 TCATTGAATTTG-AAGATGAATGTGCTC
59026 AT
1 AT
59028 GGTAGAAATA
Statistics
Matches: 174, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
91 1 0.01
92 31 0.18
93 137 0.79
94 5 0.03
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (91 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGATCAAT
CATTGAATTTGAAGATGAATGTGCTC
Found at i:59180 original size:113 final size:113
Alignment explanation
Indices: 58934--59245 Score: 500
Period size: 113 Copynumber: 2.7 Consensus size: 113
58924 GAATGTGCTC
* * * *
58934 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGATTTGGTATGAACTCCAAAATCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
* * *
58999 CATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATAAGGAGGCTCA
66 CATTGGA-TTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
59048 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCC-AAAACCAA
59113 TCATTGG-TTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
65 TCATTGGATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
* * *
59161 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTAGGAACCCCAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
59226 CATTGGAATTGAAAGATGAA
66 CATTGG-ATTGAAAGATGAA
59246 CTGCATGATC
Statistics
Matches: 185, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
112 14 0.08
113 92 0.50
114 65 0.35
115 14 0.08
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (113 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
CATTGGATTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
Found at i:61395 original size:54 final size:54
Alignment explanation
Indices: 61313--61471 Score: 246
Period size: 54 Copynumber: 2.9 Consensus size: 54
61303 CATCAATCCC
* * *
61313 AGCAGAAGCCACATGAGAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
1 AGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
*
61367 AGCAGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
1 AGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
* * **
61421 AGCAGAAGCCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTACGAACAT
1 AGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACAT
61472 GCTATTCTGA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (54 bp):
AGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTG
Found at i:62641 original size:76 final size:76
Alignment explanation
Indices: 62513--63124 Score: 1044
Period size: 76 Copynumber: 8.0 Consensus size: 76
62503 CTATTTCCCA
* *
62513 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
62578 AACCTTAGGGT
66 AGCCTTAGGGT
*
62589 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
62654 AGCCTTCGGGT
66 AGCCTTAGGGT
* * *
62665 CATCTGTAAGTCATTCAGTGCATGATGTTTCCAAAAAAGCCTTTGGGATCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
62730 AAGCCTTCGGGT
65 AAGCCTTAGGGT
* *
62742 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
62807 AGCCTTTGGGT
66 AGCCTTAGGGT
62818 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
62883 AGCCTTCGAGT
66 AGCCTTAGGGT
* *
62894 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
62959 AGCCTTAGGGT
66 AGCCTTAGGGT
62970 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
63035 AGCCTTAGGGT
66 AGCCTTAGGGT
*
63046 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
63111 ACCCTCAGGGT
66 AGCCTTAGGGT
63122 CAT
1 CAT
63125 TCATAAGACC
Statistics
Matches: 509, Mismatches: 26, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
76 438 0.86
77 71 0.14
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:63289 original size:3 final size:3
Alignment explanation
Indices: 63281--63358 Score: 93
Period size: 3 Copynumber: 25.3 Consensus size: 3
63271 TTCATTTTAA
** *
63281 ATT ATT ATT ATT AAA ATT ATT TTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
63329 ATT ATT AGT AAT ATT ATTT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT A-TT ATT A-TT ATT A
63359 AATATTACAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:67189 original size:45 final size:45
Alignment explanation
Indices: 67120--67820 Score: 1181
Period size: 45 Copynumber: 15.6 Consensus size: 45
67110 GAGGTCTTAT
* * * *
67120 CATCTTGCACT-ATAGGTCTTACAGATGACCCAAAGGTTTTGATAA
1 CATCATGCACTGA-AGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
67165 CATTATGCACTGAAGGGATTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
67210 CATCATGCACTGAAGGGCTTACAGATGACCAGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
67255 TATCATGCACTTAAGGGCTTACAGATGACCCG-AGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
67299 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAGAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
67344 CATCATCCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
67389 CATCATGCATTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
67434 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAGAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
67479 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAGAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
67524 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAGAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
67569 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
67614 CATCATGCACTGAAGGGCTTACAGATGACCCGAAAGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
67659 CATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAACA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
*
67704 CATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAAAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
* *
67749 CATCATGCACTGAAGGGCTTACAGATGACCCAAAGGTTTTGAGAA
1 CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
67794 CATCATGCACTGAAGGGCTTACAGATG
1 CATCATGCACTGAAGGGCTTACAGATG
67821 TGGGAAATAG
Statistics
Matches: 622, Mismatches: 32, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
44 42 0.07
45 579 0.93
46 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
CATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:68942 original size:54 final size:52
Alignment explanation
Indices: 68878--68979 Score: 159
Period size: 54 Copynumber: 1.9 Consensus size: 52
68868 TAACTGGTTT
** *
68878 GTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCCCAGATGCTA
1 GTAAAACATTTGACAACACATTCATCC-AGC-TGTGGCTTCTGCACAGATGCTA
68932 GTAAAACATTTGACAACACATTCATCCAGCTGTGGCTTCTGCACAGAT
1 GTAAAACATTTGACAACACATTCATCCAGCTGTGGCTTCTGCACAGAT
68980 TTCTGGTCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 17 0.38
53 1 0.02
54 27 0.60
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (52 bp):
GTAAAACATTTGACAACACATTCATCCAGCTGTGGCTTCTGCACAGATGCTA
Found at i:70068 original size:75 final size:75
Alignment explanation
Indices: 69945--70083 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 75
69935 ATGCCCCAAC
* * * *
69945 GTTCAAAATGCGTCAACATTCCTAATTCTGATTGAAATGGGCTTTCAGCATGCCCCAGCATTTGA
1 GTTCAAAATGCATCAACATTCCTAATTCTAATTGAAATGGGCTCTCAGCATACCCCAGCATTTGA
70010 TGTTACAAAT
66 TGTTACAAAT
* * *
70020 GTTCAAAATGCATTAATATTCC-AACTTCTAATTGAAATGGGCTCTCAGCATACCCCATCATTTG
1 GTTCAAAATGCATCAACATTCCTAA-TTCTAATTGAAATGGGCTCTCAGCATACCCCAGCATTTG
70084 CTTCTTGTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 2 0.04
75 54 0.96
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (75 bp):
GTTCAAAATGCATCAACATTCCTAATTCTAATTGAAATGGGCTCTCAGCATACCCCAGCATTTGA
TGTTACAAAT
Found at i:73312 original size:122 final size:122
Alignment explanation
Indices: 73095--73340 Score: 350
Period size: 122 Copynumber: 2.0 Consensus size: 122
73085 GACATTAGCC
* * ** * *
73095 TTCATTGGACTAATTAAACGGTTCAGGTCATCACAATGTCTTCGACTTGACAATCACAGTGGAGC
1 TTCATTGGACTAACTAAACGGTTAAACTCATAACAATATCTTCGACTTGACAATCACAGTGGAGC
* * *
73160 AAACACCGAACTGCCAAATACCGGATCAAGGTCATGCTTTGAATATATGACTCTTTT
66 AAACACCAAACTGCCAAATACCGGATCAAGGACATGCTTTGAATATATAACTCTTTT
* * * *
73217 TTCATTGGACTAACTAAAGGGTTAAACTCATAACAATATCTTTGGCTTGACAATCACATTGGAGC
1 TTCATTGGACTAACTAAACGGTTAAACTCATAACAATATCTTCGACTTGACAATCACAGTGGAGC
*
73282 AAACACCAAACTGCCAAATATCC-GATCAAGGACATGCTTTGAATATATAACTTTTTT
66 AAACACCAAACTGCCAAATA-CCGGATCAAGGACATGCTTTGAATATATAACTCTTTT
73339 TT
1 TT
73341 GAAATAATTA
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
122 107 0.98
123 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (122 bp):
TTCATTGGACTAACTAAACGGTTAAACTCATAACAATATCTTCGACTTGACAATCACAGTGGAGC
AAACACCAAACTGCCAAATACCGGATCAAGGACATGCTTTGAATATATAACTCTTTT
Found at i:78436 original size:14 final size:16
Alignment explanation
Indices: 78400--78438 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 16
78390 TCTTTTTCTT
78400 TAATATTAATAAATAAA
1 TAATATTAATAAAT-AA
78417 TAAATATTAATAATATAA
1 T-AATATTAATAA-ATAA
78435 TAAT
1 TAAT
78439 TTTTCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.20
18 14 0.70
19 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATTAATAAATAA
Found at i:83797 original size:21 final size:22
Alignment explanation
Indices: 83771--83817 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
83761 CCTACCACCA
*
83771 CTACAAAAC-CTGCTGAAAATC
1 CTACAAAACACTACTGAAAATC
*
83792 CTAC-AACCACTACTGAAAATC
1 CTACAAAACACTACTGAAAATC
83813 CTACA
1 CTACA
83818 GCCACTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.43, C:0.32, G:0.06, T:0.19
Consensus pattern (22 bp):
CTACAAAACACTACTGAAAATC
Found at i:83822 original size:21 final size:21
Alignment explanation
Indices: 83783--83823 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
83773 ACAAAACCTG
83783 CTGAAAATCCTACAACCACTA
1 CTGAAAATCCTACAACCACTA
*
83804 CTGAAAATCCTACAGCCACT
1 CTGAAAATCCTACAACCACT
83824 GTAATTCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.34, G:0.07, T:0.20
Consensus pattern (21 bp):
CTGAAAATCCTACAACCACTA
Found at i:87118 original size:28 final size:28
Alignment explanation
Indices: 87081--87145 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
87071 GGAATGTATA
*
87081 TTTTACCAAATTGTCATTGTTCTATATT
1 TTTTAACAAATTGTCATTGTTCTATATT
87109 TTTTAACAAATTGTCATTGTTCTATATT
1 TTTTAACAAATTGTCATTGTTCTATATT
87137 TTTTAACAA
1 TTTTAACAA
87146 GTGAAATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (28 bp):
TTTTAACAAATTGTCATTGTTCTATATT
Found at i:87177 original size:15 final size:15
Alignment explanation
Indices: 87159--87189 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
87149 AAATTCTAAA
87159 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
87174 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
87189 T
1 T
87190 CTATCAGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Done.