Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008165.1 Hibiscus syriacus cultivar Beakdansim tig00110745_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: 2894944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:751788 original size:32 final size:31
Alignment explanation
Indices: 751714--751798 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 31
751704 CTAATGTGAC
* * *
751714 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATTAT
** *
751745 TCTCGGGTAGGCCCTACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-TAT
*
751777 TCTTAGGTAGGCCCCACGGCCC
1 TCTTAGGTAGGCCCTACGGCCC
751799 CGAAATCTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 23 0.52
32 21 0.48
ACGTcount: A:0.15, C:0.29, G:0.29, T:0.26
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATTAT
Found at i:751816 original size:63 final size:63
Alignment explanation
Indices: 751714--751837 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
751704 CTAATGTGAC
* ** * *
751714 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCT-ACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCA-GGCCCTAAGATGTGT
* *
751777 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
751838 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 49 0.94
64 3 0.06
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:758053 original size:10 final size:9
Alignment explanation
Indices: 758018--758139 Score: 118
Period size: 10 Copynumber: 12.7 Consensus size: 9
758008 GCTGCTGGAA
758018 ACCGGTTTG
1 ACCGGTTTG
*
758027 ACCGGTTTTCA
1 ACCGG-TTT-G
758038 ACCGGTTCTG
1 ACCGGTT-TG
758048 ACCGGTTTG
1 ACCGGTTTG
*
758057 ACCGGTTTCA
1 ACCGGTTT-G
758067 ACCGGTTCTG
1 ACCGGTT-TG
758077 ACCGGTTTG
1 ACCGGTTTG
*
758086 ACCGGTTTCA
1 ACCGGTTT-G
*
758096 ACCGGTTCG
1 ACCGGTTTG
758105 AACCGGTTTG
1 -ACCGGTTTG
*
758115 ACCGGTCTG
1 ACCGGTTTG
*
758124 AATCGGTTTG
1 -ACCGGTTTG
758134 ACCGGT
1 ACCGGT
758140 CCGACCCGAC
Statistics
Matches: 93, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
9 38 0.41
10 48 0.52
11 7 0.08
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:758062 original size:19 final size:18
Alignment explanation
Indices: 758018--758139 Score: 118
Period size: 19 Copynumber: 6.3 Consensus size: 18
758008 GCTGCTGGAA
*
758018 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGG-TTT-G
758038 ACCGGTTCTGACCGGTTTG
1 ACCGGTT-TGACCGGTTTG
*
758057 ACCGGTTTCAACCGGTTCTG
1 ACCGGTTT-GACCGGTT-TG
*
758077 ACCGGTTTGACCGGTTTCA
1 ACCGGTTTGACCGGTTT-G
*
758096 ACCGGTTCGAACCGGTTTG
1 ACCGGTTTG-ACCGGTTTG
* *
758115 ACCGGTCTGAATCGGTTTG
1 ACCGGTTTG-ACCGGTTTG
758134 ACCGGT
1 ACCGGT
758140 CCGACCCGAC
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
18 2 0.02
19 51 0.58
20 28 0.32
21 7 0.08
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (18 bp):
ACCGGTTTGACCGGTTTG
Found at i:758075 original size:29 final size:29
Alignment explanation
Indices: 758018--758139 Score: 185
Period size: 29 Copynumber: 4.2 Consensus size: 29
758008 GCTGCTGGAA
758018 ACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTCTG
758048 ACCGGTTTGACCGGTTTCAACCGGTTCTG
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
758077 ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 ACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
758105 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCTG
758134 ACCGGT
1 ACCGGT
758140 CCGACCCGAC
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
28 7 0.08
29 66 0.76
30 14 0.16
ACGTcount: A:0.15, C:0.26, G:0.29, T:0.30
Consensus pattern (29 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:758166 original size:22 final size:22
Alignment explanation
Indices: 758140--758184 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
758130 TTTGACCGGT
758140 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
758162 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGACCCGACCGTTGAC
758184 C
1 C
758185 GTTGACCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.51, G:0.22, T:0.09
Consensus pattern (22 bp):
CCGACCCGACCCGACCGTTGAC
Found at i:758186 original size:7 final size:7
Alignment explanation
Indices: 758174--758232 Score: 91
Period size: 7 Copynumber: 8.4 Consensus size: 7
758164 GACCCGACCC
758174 GACCGTT
1 GACCGTT
758181 GACCGTT
1 GACCGTT
*
758188 GACCCTT
1 GACCGTT
*
758195 GACTGTT
1 GACCGTT
*
758202 GACCTTT
1 GACCGTT
758209 GACCGTT
1 GACCGTT
758216 GACCGTT
1 GACCGTT
758223 GACCGTT
1 GACCGTT
758230 GAC
1 GAC
758233 TTTCTTTGAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (7 bp):
GACCGTT
Found at i:759186 original size:32 final size:31
Alignment explanation
Indices: 759102--759178 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
759092 CTAATGTGAC
* *
759102 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
759133 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
759165 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
759179 CACGGCCCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:759204 original size:63 final size:63
Alignment explanation
Indices: 759102--759225 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
759092 CTAATGTGAC
* ** * *
759102 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
759165 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
759226 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:764853 original size:25 final size:25
Alignment explanation
Indices: 764825--764873 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
764815 AAATTTATAA
764825 AATTTTAGAG-AAAATAAACTTAAAG
1 AATTTTAGAGAAAAATAAA-TTAAAG
*
764850 AATTTTATAGAAAAATAAATTAAA
1 AATTTTAGAGAAAAATAAATTAAA
764874 TTACCTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (25 bp):
AATTTTAGAGAAAAATAAATTAAAG
Found at i:769374 original size:10 final size:10
Alignment explanation
Indices: 769355--769388 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
769345 TTCAAATAGC
769355 AAAA-AAAAA
1 AAAAGAAAAA
769364 AAAAGAAAAA
1 AAAAGAAAAA
769374 AAAAGAAAGAA
1 AAAAGAAA-AA
769385 AAAA
1 AAAA
769389 AGAGTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 13 0.57
11 6 0.26
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:769374 original size:14 final size:14
Alignment explanation
Indices: 769355--769389 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
769345 TTCAAATAGC
769355 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
769369 AAAAAAAAAGAAAG
1 AAAAAAAAAAAAAG
769383 AAAAAAA
1 AAAAAAA
769390 GAGTGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:770410 original size:21 final size:22
Alignment explanation
Indices: 770374--770419 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
770364 TATAGTTTTC
770374 TTCTTTTATAAAGTTTTTACTT
1 TTCTTTTATAAAGTTTTTACTT
*
770396 TTCTTTT-TCAAGTTTTTACTT
1 TTCTTTTATAAAGTTTTTACTT
770417 TTC
1 TTC
770420 ATGTTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.17, C:0.13, G:0.04, T:0.65
Consensus pattern (22 bp):
TTCTTTTATAAAGTTTTTACTT
Found at i:778707 original size:16 final size:16
Alignment explanation
Indices: 778686--778745 Score: 111
Period size: 16 Copynumber: 3.8 Consensus size: 16
778676 AATTAGGTGG
*
778686 TGACATGTGGCACTAA
1 TGACATGTGTCACTAA
778702 TGACATGTGTCACTAA
1 TGACATGTGTCACTAA
778718 TGACATGTGTCACTAA
1 TGACATGTGTCACTAA
778734 TGACATGTGTCA
1 TGACATGTGTCA
778746 TTACCATGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (16 bp):
TGACATGTGTCACTAA
Found at i:784337 original size:54 final size:54
Alignment explanation
Indices: 784257--784590 Score: 461
Period size: 54 Copynumber: 6.2 Consensus size: 54
784247 ATGGGCACTA
* * * *
784257 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTCATATCGGCATTG
1 TGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGCATTG
* * * * *
784311 TGTTTGCAACTTAACAAGTTCATAATATGTTTATGAATTTCCATATTGGCACTG
1 TGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGCATTG
* * * * * *
784365 TATGTGCAACTTAAGAAATTCATTAGATGTTTATGAATTTCTGTATTGACACTG
1 TGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGCATTG
* *
784419 TGTGTGTAACTTAAGAAATTAATAATATGTTTATGAATTTCCGTATTGGCATTG
1 TGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGCATTG
*
784473 TGTGTGCAACTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATTGGCATTG
1 TGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGCATTG
* ** * *
784527 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTGGCACTA
1 TGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGCATTG
784581 TGTGTGCAAC
1 TGTGTGCAAC
784591 CCCACGTAAT
Statistics
Matches: 247, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 247 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (54 bp):
TGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGCATTG
Found at i:784627 original size:55 final size:54
Alignment explanation
Indices: 784543--784666 Score: 133
Period size: 55 Copynumber: 2.3 Consensus size: 54
784533 CAACTTAAGA
** ** * * *
784543 AATTCATAAT-AAGTTTATGAATTTTTGTATTGGCACTATGTGTGCAACCCCACGT
1 AATTCATAATGAA-TTTATGAATTACTGTATCAGCACTACGTGTGCAA-ACCACGG
* *
784598 AATTCATAATGAATTTGTGAATTACTGTATCAGCACTACGTGTGCAAACCATGG
1 AATTCATAATGAATTTATGAATTACTGTATCAGCACTACGTGTGCAAACCACGG
*
784652 AATTTATAATGAATT
1 AATTCATAATGAATT
784667 ATAATAGTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 18 0.31
55 38 0.66
56 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (54 bp):
AATTCATAATGAATTTATGAATTACTGTATCAGCACTACGTGTGCAAACCACGG
Found at i:791189 original size:54 final size:54
Alignment explanation
Indices: 791095--791540 Score: 579
Period size: 54 Copynumber: 8.2 Consensus size: 54
791085 CCAAATGGGA
* * * *
791095 ACTATGCGTGCAACTTAAGAAATTCATAATAAGTTCATGAATTTCCATATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGC
* * *
791149 ACTGTGTGTGCAACTTAAGAAATTCATAACAAGTTTATGAATTTCCGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGC
* *
791203 ACTATGTGTGCAACTTAAGAAGTTCATAATATGTTTATGAATTTCAGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGC
* * * *
791257 ACTATATGTGCAACTTAAGAAATTTATGAGATGTTTATGAATTTCCGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGC
* * *
791311 ACTGTGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCTGTATTGAC
1 ACTATGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGC
* * * * *
791365 ACTATGTGTACAACATAAGAAATTCATGACATGTTTATGAATTTTCGTATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGC
* * *
791419 ACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGC
** * * * * *
791473 ACTATGTGTGCAACCCCACGTAATTCATAATGA-GTTTGTGAATTACCGTATTAGC
1 ACTATGTGTGCAA-CTTAAGAAATTCATAAT-ATGTTTATGAATTTCCGTATTGGC
*
791528 ACTACGTGTGCAA
1 ACTATGTGTGCAA
791541 ACCATGGAAT
Statistics
Matches: 341, Mismatches: 49, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
54 297 0.87
55 43 0.13
56 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (54 bp):
ACTATGTGTGCAACTTAAGAAATTCATAATATGTTTATGAATTTCCGTATTGGC
Found at i:795859 original size:24 final size:24
Alignment explanation
Indices: 795832--795879 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
795822 AATTCTGCTA
795832 AAGGCAAAGGCTTTTCTAATGATC
1 AAGGCAAAGGCTTTTCTAATGATC
* *
795856 AAGGCAGATGCTTTTCTAATGATC
1 AAGGCAAAGGCTTTTCTAATGATC
795880 CCTTGAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (24 bp):
AAGGCAAAGGCTTTTCTAATGATC
Found at i:800692 original size:44 final size:43
Alignment explanation
Indices: 800627--800724 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 43
800617 AAATTCAAAC
* *
800627 GTATCGATACC-TTCAAGGGAGTATCGATACTACAATACATAGTA
1 GTATCGATACCGTCCAAGGGAGTATCGATACTAC--TACATAGCA
* *
800671 GTATCGATACCGTCCAA-GGAGTATTGATACTACTATATAGCA
1 GTATCGATACCGTCCAAGGGAGTATCGATACTACTACATAGCA
*
800713 ATATCGATACCG
1 GTATCGATACCG
800725 AAACATGGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 18 0.38
44 26 0.54
45 4 0.08
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (43 bp):
GTATCGATACCGTCCAAGGGAGTATCGATACTACTACATAGCA
Found at i:803392 original size:20 final size:21
Alignment explanation
Indices: 803354--803408 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
803344 CCCATTCAAG
*
803354 TAGTATCGGTACTGCATGA-A
1 TAGTATCGATACTGCATGAGA
*
803374 TAGTATCGATACT-CGATGAGT
1 TAGTATCGATACTGC-ATGAGA
803395 TCAGTATCGATACT
1 T-AGTATCGATACT
803409 AGGCTAGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 16 0.53
21 1 0.03
22 12 0.40
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (21 bp):
TAGTATCGATACTGCATGAGA
Found at i:810071 original size:30 final size:29
Alignment explanation
Indices: 810035--810098 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
810025 ATGCTCCATG
*
810035 AAAAAAATCAACAT-TTCGAAAAAAAAGAA
1 AAAAAAAACAAC-TGTTCGAAAAAAAAGAA
* * *
810064 AAAAAAAAGAGCTGTTCGAAATAAAAGAA
1 AAAAAAAACAACTGTTCGAAAAAAAAGAA
810093 AAAAAA
1 AAAAAA
810099 GACGTGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.69, C:0.08, G:0.11, T:0.12
Consensus pattern (29 bp):
AAAAAAAACAACTGTTCGAAAAAAAAGAA
Found at i:811766 original size:18 final size:19
Alignment explanation
Indices: 811731--811768 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
811721 CTCTCTTATT
*
811731 TTTATTTAAATTGCTTTTA
1 TTTATTTAAATCGCTTTTA
811750 TTTATTT-AATCGCTTTTA
1 TTTATTTAAATCGCTTTTA
811768 T
1 T
811769 CACTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTATTTAAATCGCTTTTA
Found at i:816956 original size:42 final size:43
Alignment explanation
Indices: 816858--816956 Score: 128
Period size: 44 Copynumber: 2.3 Consensus size: 43
816848 ATAACCCAAC
* * *
816858 AGTATCGATACCTTCAAAAGAGTATTGATATTACTATACATAGT
1 AGTATCGATACCGTCAAAAGAGTATCGATACTACTATA-ATAGT
* * *
816902 AGTATGGATACCGTCCAAGGAGTATCGATACTACTAT-ATAGT
1 AGTATCGATACCGTCAAAAGAGTATCGATACTACTATAATAGT
816944 AGTATCGATACCG
1 AGTATCGATACCG
816957 AAACATGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 17 0.35
44 31 0.65
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.30
Consensus pattern (43 bp):
AGTATCGATACCGTCAAAAGAGTATCGATACTACTATAATAGT
Found at i:822788 original size:21 final size:20
Alignment explanation
Indices: 822764--822838 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 20
822754 GCCATAGCAT
822764 ACAAAGTACTACTACATGTAC
1 ACAAAGTACTACT-CATGTAC
822785 ACAAAGTACT-CTTGTCATAGTAC
1 ACAAAGTACTAC---TCAT-GTAC
* *
822808 ACAAAGTACTACTCTAAGTAT
1 ACAAAGTACTACTC-ATGTAC
822829 ACAAAGTACT
1 ACAAAGTACT
822839 CTTACAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.02
21 25 0.54
22 4 0.09
23 15 0.33
24 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (20 bp):
ACAAAGTACTACTCATGTAC
Found at i:823964 original size:14 final size:15
Alignment explanation
Indices: 823938--823991 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 15
823928 GCGAGAACAC
*
823938 AAAGAATCAAAAGAA
1 AAAGAAACAAAAGAA
*
823953 GAA-AAACAAAAGAA
1 AAAGAAACAAAAGAA
*
823967 AAAGAAAAAAAAGAA
1 AAAGAAACAAAAGAA
*
823982 AGAG-AACAAA
1 AAAGAAACAAA
823992 TTATGTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
14 17 0.53
15 15 0.47
ACGTcount: A:0.78, C:0.06, G:0.15, T:0.02
Consensus pattern (15 bp):
AAAGAAACAAAAGAA
Found at i:823980 original size:15 final size:15
Alignment explanation
Indices: 823946--823987 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
823936 ACAAAGAATC
* *
823946 AAAAGAAGAA-AAAC
1 AAAAGAAAAAGAAAA
823960 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
*
823975 AAAAGAAAGAGAA
1 AAAAGAAAAAGAA
823988 CAAATTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAA
Found at i:826748 original size:37 final size:38
Alignment explanation
Indices: 826689--826762 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 38
826679 AGATTATTTC
* ** * *
826689 TCTTGAAACAAACCTTTCTCTCATTTTAGATCGTTTTT
1 TCTTGAAACAAACATTGATCTCACTTGAGATCGTTTTT
*
826727 TCTTGAAACAAA-ATTGATCTCACTTGAGATTGTTTT
1 TCTTGAAACAAACATTGATCTCACTTGAGATCGTTTT
826763 CCTAAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
37 18 0.60
38 12 0.40
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.45
Consensus pattern (38 bp):
TCTTGAAACAAACATTGATCTCACTTGAGATCGTTTTT
Found at i:827587 original size:137 final size:136
Alignment explanation
Indices: 827284--827628 Score: 329
Period size: 137 Copynumber: 2.5 Consensus size: 136
827274 TACAAACCAG
* * * * *
827284 ATCTCCTCAATATGAAGGATCAGTCTCATCATCAGACAATCAGACTTCCTCAAC-ATGAAGGAAC
1 ATCTCCACAATACGAAGAAGCAGTGTCATCATCAGACAATCAGACTTCCTCAACGA-GAAGGAAC
* * * * *
827348 AGTGATTGCCTCCAAATTATCCAAATACGTCTAGACTTCCTCAATGCGAAGGAAGAATGTCATCC
65 A-TG-TTGCCTCCAAATTATCCAAATACGTATAAACGTCCTCAATGCGAAGAAAGAATGTCATAC
827413 ACTGAACAA
128 ACTGAACAA
* ** * * * * *
827422 ATCTCCTCAATGTGAAGGAGTAGAGTCATCATCAGACAATCAAAATTCCTCAACGAGAAGGAACG
1 ATCTCCACAATACGAAGAAGCAGTGTCATCATCAGACAATCAGACTTCCTCAACGAGAAGGAAC-
* * * * * **
827487 ATGTTGTCTCCAAATT-TCCTAAATACTTATAAACGTCTTGAATGCGAAGAAATAATGTTGTACA
65 ATGTTGCCTCCAAATTATCC-AAATACGTATAAACGTCCTCAATGCGAAGAAAGAATGTCATACA
827551 CTG-ACAA
129 CTGAACAA
* * * *
827558 GATTTCCACAATACGAAGAAGCAGTGTCAT-ACTCAGACAAGCAGACTTCCTCAATGCGAAGGAA
1 -ATCTCCACAATACGAAGAAGCAGTGTCATCA-TCAGACAATCAGACTTCCTCAACGAGAAGGAA
827622 CTATGTT
64 C-ATGTT
827629 ATCTTTAAAC
Statistics
Matches: 170, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
136 8 0.05
137 103 0.61
138 57 0.34
139 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (136 bp):
ATCTCCACAATACGAAGAAGCAGTGTCATCATCAGACAATCAGACTTCCTCAACGAGAAGGAACA
TGTTGCCTCCAAATTATCCAAATACGTATAAACGTCCTCAATGCGAAGAAAGAATGTCATACACT
GAACAA
Found at i:827993 original size:20 final size:23
Alignment explanation
Indices: 827968--828016 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
827958 CTGAGTTTTA
827968 ATTTTATT-AT-A-ATTATTATT
1 ATTTTATTAATAATATTATTATT
*
827988 ATTTTATTAATAATATTTTTATT
1 ATTTTATTAATAATATTATTATT
828011 ATTTTA
1 ATTTTA
828017 CAGACAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 8 0.32
21 2 0.08
22 1 0.04
23 14 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
ATTTTATTAATAATATTATTATT
Found at i:834854 original size:3 final size:3
Alignment explanation
Indices: 834846--834878 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
834836 GTTGATCTTG
834846 TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
834879 CAACAACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:837409 original size:3 final size:3
Alignment explanation
Indices: 837401--837452 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
837391 TTTCCATAAC
837401 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
837449 ATA A
1 ATA A
837453 AAGGCTAGAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:840348 original size:17 final size:17
Alignment explanation
Indices: 840328--840373 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
840318 AAAGTACAGA
840328 AAAAGAAATAGTGCATG
1 AAAAGAAATAGTGCATG
* *
840345 AAAAGAAACAATGCATG
1 AAAAGAAATAGTGCATG
840362 AAAAGAAATAGT
1 AAAAGAAATAGT
840374 ATAGGAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.59, C:0.07, G:0.20, T:0.15
Consensus pattern (17 bp):
AAAAGAAATAGTGCATG
Found at i:840366 original size:34 final size:34
Alignment explanation
Indices: 840327--840416 Score: 119
Period size: 34 Copynumber: 2.6 Consensus size: 34
840317 AAAAGTACAG
* *
840327 AAAAAGAAATAGTGCATGAAAAGAAACAATGCAT-
1 AAAAAGAAATAGTACATGAAAAG-AACAATACATA
* * *
840361 GAAAAGAAATAGTATAGGAAAAGAACAATACATA
1 AAAAAGAAATAGTACATGAAAAGAACAATACATA
840395 AAAAAGAAATAGTACATGAAAA
1 AAAAAGAAATAGTACATGAAAA
840417 AGAAGAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 9 0.19
34 38 0.81
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.14
Consensus pattern (34 bp):
AAAAAGAAATAGTACATGAAAAGAACAATACATA
Found at i:856538 original size:30 final size:30
Alignment explanation
Indices: 856495--856565 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
856485 AAGCCTTAGA
*
856495 AAAAGTT-TGGGACC-ATTTTGT-ATTTTG
1 AAAAGTTATGGGACCTATTTGGTAATTTTG
856522 TCAAAAGTTATGGGACCTATTTGGTAATTTTG
1 --AAAAGTTATGGGACCTATTTGGTAATTTTG
856554 AAAAGTTATGGG
1 AAAAGTTATGGG
856566 GTAAATGTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
29 7 0.18
30 19 0.50
31 6 0.16
32 6 0.16
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (30 bp):
AAAAGTTATGGGACCTATTTGGTAATTTTG
Found at i:869061 original size:2 final size:2
Alignment explanation
Indices: 869054--869080 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
869044 TAAATCAAAC
869054 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
869081 ACCATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:869126 original size:16 final size:16
Alignment explanation
Indices: 869088--869141 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
869078 ATAACCATTT
869088 AAATTCAAACATCCAAAAC
1 AAATTCAAACATCC---AC
*
869107 AAATTCAACCATCCAC
1 AAATTCAAACATCCAC
*
869123 AAATTCAAACATTCAC
1 AAATTCAAACATCCAC
869139 AAA
1 AAA
869142 CATCTAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 19 0.59
19 13 0.41
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATTCAAACATCCAC
Found at i:875035 original size:22 final size:21
Alignment explanation
Indices: 874993--875032 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
874983 AAGACTATTT
874993 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
875014 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
875033 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:876895 original size:78 final size:78
Alignment explanation
Indices: 876800--876953 Score: 290
Period size: 78 Copynumber: 2.0 Consensus size: 78
876790 ATATTGCTTG
876800 ATCTTGATTGCAATTATAATCTAAATGAACACCATTTACAAAACATATACATTTCAAACCACATG
1 ATCTTGATTGCAATTATAATCTAAATGAACACCATTTACAAAACATATACATTTCAAACCACATG
876865 TTAGAATTTTATT
66 TTAGAATTTTATT
* *
876878 ATCTTGATTTCAATTATAATCTAAATGAACATCATTTACAAAACATATACATTTCAAACCACATG
1 ATCTTGATTGCAATTATAATCTAAATGAACACCATTTACAAAACATATACATTTCAAACCACATG
876943 TTAGAATTTTA
66 TTAGAATTTTA
876954 CTAACATTGG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (78 bp):
ATCTTGATTGCAATTATAATCTAAATGAACACCATTTACAAAACATATACATTTCAAACCACATG
TTAGAATTTTATT
Found at i:878121 original size:57 final size:57
Alignment explanation
Indices: 877938--878274 Score: 418
Period size: 57 Copynumber: 6.0 Consensus size: 57
877928 CCCTCTACCA
* * * * *
877938 ATACGGAAATTCACCTACA--TATTATGAATTTCTT-A-TGTTTACACATATAGTTCCC
1 ATACGGAAATTCA--TACACTTAGTATGAATTTCTTAACTTTTTGCACACATAGTGCCC
** * * *
877993 ATACAAAAATTCATACACTTAGTATGAATTTCTT-A-GTTTTGCACCCATAGCGCCC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACATAGTGCCC
* * * *
878048 ATACGGAAATTTATACACTTAGCATGAATTTCTTAACTTTTTGAACACATAATGCCC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACATAGTGCCC
*
878105 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACATAGTTCCC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACATAGTGCCC
* * *
878162 ATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTGCACATATAGTGCCC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACATAGTGCCC
* *
878219 ATATGGAAATTCATACACTTTGTATGAATTTCTTAACTTTTTGCACAC-TCAGTGCC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAT-AGTGCC
878275 ATTTGGAAAT
Statistics
Matches: 244, Mismatches: 33, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
53 4 0.02
55 69 0.28
56 2 0.01
57 169 0.69
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (57 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACATAGTGCCC
Found at i:878713 original size:20 final size:20
Alignment explanation
Indices: 878688--878756 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
878678 GTTATCAATG
878688 GTATCGATACCTTCCTTATA
1 GTATCGATACCTTCCTTATA
878708 GTATCGATACCTTCCTTATA
1 GTATCGATACCTTCCTTATA
* * *
878728 GTATCGATACC-CCCTTTTG
1 GTATCGATACCTTCCTTATA
878747 GTATCGATAC
1 GTATCGATAC
878757 TGCTTGCATC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 15 0.33
20 31 0.67
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (20 bp):
GTATCGATACCTTCCTTATA
Found at i:881717 original size:16 final size:15
Alignment explanation
Indices: 881683--881717 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
881673 ATTCATGCTT
881683 TTCA-GTAAAAATTA
1 TTCATGTAAAAATTA
881697 TTCATGTAAAAATTA
1 TTCATGTAAAAATTA
881712 TGTCAT
1 T-TCAT
881718 TTTTTATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 11 0.58
16 4 0.21
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (15 bp):
TTCATGTAAAAATTA
Found at i:881833 original size:84 final size:84
Alignment explanation
Indices: 881692--881848 Score: 251
Period size: 84 Copynumber: 1.9 Consensus size: 84
881682 TTTCAGTAAA
* *
881692 AATTATTCATGTAAAAATTATGTCATTTTTTATCAATTGAAAGATTGATTCACCCGCTAAATACC
1 AATTATTCATGTAAAAATTATGTCATTTTTTATCAACTGAAAGACTGATTCACCCGCTAAATACC
*
881757 CAATTTTTTATCCAATAAT
66 AAATTTTTTATCCAATAAT
** * *
881776 AATTATTCATGTAAATTTTATGTCATTTTTTATCCACTGAAAGACTGATTCACCCGCTAAATATC
1 AATTATTCATGTAAAAATTATGTCATTTTTTATCAACTGAAAGACTGATTCACCCGCTAAATACC
881841 AAATTTTT
66 AAATTTTT
881849 CCCGAAAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (84 bp):
AATTATTCATGTAAAAATTATGTCATTTTTTATCAACTGAAAGACTGATTCACCCGCTAAATACC
AAATTTTTTATCCAATAAT
Found at i:885032 original size:26 final size:26
Alignment explanation
Indices: 885003--885056 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
884993 ATTATTGTTA
* *
885003 TCGTATGTTAAATGTACTCGTGGATC
1 TCGTATGTTAAAGGTACTCGGGGATC
885029 TCGTATGTTAAAGGTACTCGGGGATC
1 TCGTATGTTAAAGGTACTCGGGGATC
885055 TC
1 TC
885057 CTGACCGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (26 bp):
TCGTATGTTAAAGGTACTCGGGGATC
Found at i:887310 original size:32 final size:31
Alignment explanation
Indices: 887274--887360 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
887264 TCTTAGACTT
*
887274 CAAGGTACTCCCTTAGGTAGGCTCTGAGGACC
1 CAAGGTA-TCCCTTAGGTAGGCTCTAAGGACC
* * *
887306 CAAGGTATTCCTT-GGATAGTCTTTAAGGACC
1 CAAGGTATCCCTTAGG-TAGGCTCTAAGGACC
* *
887337 CAAGGAATCCCTTAGGTTGGCTCT
1 CAAGGTATCCCTTAGGTAGGCTCT
887361 TATACCCAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
30 2 0.05
31 33 0.75
32 9 0.20
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (31 bp):
CAAGGTATCCCTTAGGTAGGCTCTAAGGACC
Found at i:887718 original size:31 final size:31
Alignment explanation
Indices: 887646--887733 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 31
887636 CGAGATGTTC
* * * *
887646 CCTTAGGTAGGCTCTCAAGCTCCAATGTACT
1 CCTTGGGTAGGCTCTAAAGCCCCAAGGTACT
*
887677 CCTTTGGGTAGGCTCTAAAGCCCCAAGGTATT
1 CC-TTGGGTAGGCTCTAAAGCCCCAAGGTACT
* *
887709 CCTTGGGTAGGCTTTAAGGCCCCAA
1 CCTTGGGTAGGCTCTAAAGCCCCAA
887734 ATTGACTCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
31 23 0.47
32 26 0.53
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (31 bp):
CCTTGGGTAGGCTCTAAAGCCCCAAGGTACT
Found at i:897353 original size:79 final size:78
Alignment explanation
Indices: 897252--897554 Score: 333
Period size: 79 Copynumber: 3.9 Consensus size: 78
897242 CAATTATAGC
* * ** *
897252 ATTCTTTTAGGTTGGTAATGCACCCATATGTATTTCAAATTTGGCATGCTATCATGCCAATAATG
1 ATTCTTTTATGTTGATAATGCACCCATATACATTTCAAATTTGGCAT-CTTTCATGCCAATAATG
897317 CACCCATATGCATT
65 CACCCATATGCATT
* *** *
897331 ATTCTTTTATGTTGATAATGCA-CCATATATATTTCAACCATGGCATCTTTTAATGCCAATAA-G
1 ATTCTTTTATGTTGATAATGCACCCATATACATTTCAAATTTGGCATC-TTTCATGCCAATAATG
897394 CACCCATATGCATT
65 CACCCATATGCATT
* * * *
897408 ATTCGTTTATGTTGATAATGCACCCATATACATTT-TAGTTATGGCATCCTTTCATGCAAATAAT
1 ATTCTTTTATGTTGATAATGCACCCATATACATTTCAAATT-TGGCAT-CTTTCATGCCAATAAT
**
897472 GCACTGATATGCATT
64 GCACCCATATGCATT
* * ** * **
897487 ATTCTTTTATGCTGATAATGCACCCATATGCATTTCATCTATGGCATCCTTTCATGATAATAATG
1 ATTCTTTTATGTTGATAATGCACCCATATACATTTCAAATTTGGCAT-CTTTCATGCCAATAATG
897552 CAC
65 CAC
897555 ACACAGTGCC
Statistics
Matches: 191, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
77 38 0.20
78 61 0.32
79 91 0.48
80 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (78 bp):
ATTCTTTTATGTTGATAATGCACCCATATACATTTCAAATTTGGCATCTTTCATGCCAATAATGC
ACCCATATGCATT
Found at i:897354 original size:34 final size:34
Alignment explanation
Indices: 897311--897520 Score: 100
Period size: 34 Copynumber: 5.6 Consensus size: 34
897301 TATCATGCCA
*
897311 ATAATGCACCCATATGCATTATTCTTTTATGTTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
** **
897345 ATAATGCA-CCATATATATTTCAACCATGGCATCTTTTAATGCCA
1 ATAATGCACCCATATGCA-TT-----AT----TCTTTT-ATGCTG
* *
897389 ATAA-GCACCCATATGCATTATTCGTTTATGTTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
* **
897422 ATAATGCACCCATATACATTTTAGTTATGGCATCCTTTCATGCAA
1 ATAATGCACCCATATGCA--TTA--T-T--C-T--TTT-ATGCTG
**
897467 ATAATGCACTGATATGCATTATTCTTTTATGCTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
897501 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
897521 TCATCTATGG
Statistics
Matches: 129, Mismatches: 23, Indels: 48
0.64 0.12 0.24
Matches are distributed among these distances:
33 14 0.11
34 49 0.38
35 3 0.02
36 3 0.02
37 1 0.01
38 4 0.03
39 3 0.02
40 1 0.01
41 2 0.02
43 14 0.11
44 17 0.13
45 18 0.14
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTCTTTTATGCTG
Found at i:898018 original size:22 final size:22
Alignment explanation
Indices: 897991--898067 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
897981 ATACCCTATC
*
897991 ATGGTATCAATACTACTATAAT
1 ATGGTATCGATACTACTATAAT
* ** **
898013 ATGGTACCGATAC--CCCTACC
1 ATGGTATCGATACTACTATAAT
898033 ATGGTATCGATACTACTATAAT
1 ATGGTATCGATACTACTATAAT
898055 ATGGTATCGATAC
1 ATGGTATCGATAC
898068 CCCCCTTCGG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 15 0.36
22 27 0.64
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (22 bp):
ATGGTATCGATACTACTATAAT
Found at i:898037 original size:42 final size:42
Alignment explanation
Indices: 897979--898070 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
897969 TCTTCAATAT
*
897979 CGATA-CCCTATCATGGTATCAATACTACTATAATATGGTAC
1 CGATACCCCTACCATGGTATCAATACTACTATAATATGGTAC
* *
898020 CGATACCCCTACCATGGTATCGATACTACTATAATATGGTAT
1 CGATACCCCTACCATGGTATCAATACTACTATAATATGGTAC
898062 CGATACCCC
1 CGATACCCC
898071 CCTTCGGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 5 0.11
42 42 0.89
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (42 bp):
CGATACCCCTACCATGGTATCAATACTACTATAATATGGTAC
Found at i:898176 original size:95 final size:94
Alignment explanation
Indices: 898013--898255 Score: 312
Period size: 95 Copynumber: 2.6 Consensus size: 94
898003 CTACTATAAT
* * * *
898013 ATGGTACCGATACCCCTACCATGGTATCGATACTACTATAATATGGTATCGATACCCCCCTTCGG
1 ATGGTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATA-CCCCCTTCGG
**
898078 TATCGATACCAATTTTAGATTCAATGTTAC
65 TATCGATACCAAAATTAGATTCAATGTTAC
* *
898108 ATGGTATCAATACCCTTGCCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTTCCGG
1 ATGGTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTT-CGG
* * * *
898173 TATCGATACTAAAATTAGGTTCGATGTTGC
65 TATCGATACCAAAATTAGATTCAATGTTAC
* *
898203 TTGGTATCGATACTCTTACCATGGTATCGATACTACC-T-CT-TCGGTATCGATAC
1 ATGGTATCGATACCCTTACCATGGTATCGATACTACCATACTAT-GGTATCGATAC
898256 TGATTCAATC
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
92 1 0.01
93 13 0.10
94 8 0.06
95 108 0.83
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (94 bp):
ATGGTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTTCGGT
ATCGATACCAAAATTAGATTCAATGTTAC
Found at i:904330 original size:59 final size:59
Alignment explanation
Indices: 904081--904309 Score: 314
Period size: 59 Copynumber: 3.9 Consensus size: 59
904071 TTTCCCATAT
* * * ** *
904081 GGAAATTCATACACTTGGTATGAATTTCTTAACATTTTTGCACACCGAGTGCCCAATAC
1 GGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCTCAATAC
* * * * * *
904140 GGAAATCCATACGCTTAGTATGAATTTCTAAACATTTTTGCAAACAAAGTGCTCAATAA
1 GGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCTCAATAC
*
904199 GGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGAGCTCAATAC
1 GGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCTCAATAC
* * *
904258 GGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACTTAGTGC
1 GGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGC
904310 CATTTGGTAA
Statistics
Matches: 150, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 150 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (59 bp):
GGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCTCAATAC
Found at i:904488 original size:79 final size:78
Alignment explanation
Indices: 904361--904672 Score: 419
Period size: 79 Copynumber: 4.0 Consensus size: 78
904351 CTTTTATATT
*** * *
904361 GATAATGCACCCATATGCATTTCAAG-TTTTGCATCCTTTCATGCCAATAATTCACCCATATACA
1 GATAATGCACCCATATGCATTTC-AGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATGCA
904425 TTATTCTTTTATGTC
65 TTATTCTTTTATG-C
* * **
904440 GTTAATGCACCCATATGCATTTCAGCTAAGACATCCTTTCATTTCAATAATGCACCCATATGCAT
1 GATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATGCAT
*
904505 TATTCTTTTATACC
66 TATTCTTTTAT-GC
* *
904519 GATAATGCACCCATATGCATTTTAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATTCAT
1 GATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATGCAT
*
904584 TATTATTTTATGC
66 TATTCTTTTATGC
* * * * *
904597 AAATAATGCACCCATATGCATTTCAGCTAAGGCATACTTCCATGCCAATAATGCACCTATATGTA
1 -GATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATGCA
904662 TTATTCTTTTA
65 TTATTCTTTTA
904673 ATTATTTTTT
Statistics
Matches: 204, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
78 3 0.01
79 201 0.99
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.37
Consensus pattern (78 bp):
GATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCACCCATATGCAT
TATTCTTTTATGC
Found at i:904571 original size:45 final size:44
Alignment explanation
Indices: 904520--904659 Score: 138
Period size: 45 Copynumber: 3.4 Consensus size: 44
904510 TTTTATACCG
904520 ATAATGCACCCATATGCATTTTAGCTAAGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTTAGCTAAGGCAT-CTTTCATGCCA
* * *
904565 ATAATGCACCCATATTCA--TTA--T----TAT-TTT-ATGCAA
1 ATAATGCACCCATATGCATTTTAGCTAAGGCATCTTTCATGCCA
* *
904599 ATAATGCACCCATATGCATTTCAGCTAAGGCATACTTCCATGCCA
1 ATAATGCACCCATATGCATTTTAGCTAAGGCAT-CTTTCATGCCA
*
904644 ATAATGCACCTATATG
1 ATAATGCACCCATATG
904660 TATTATTCTT
Statistics
Matches: 75, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
34 22 0.29
35 3 0.04
36 2 0.03
37 2 0.03
38 1 0.01
41 1 0.01
42 2 0.03
43 3 0.04
44 2 0.03
45 37 0.49
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTTAGCTAAGGCATCTTTCATGCCA
Found at i:905289 original size:95 final size:96
Alignment explanation
Indices: 905117--905305 Score: 233
Period size: 95 Copynumber: 2.0 Consensus size: 96
905107 ATTTCTATAT
* * *
905117 TATGGTACCGATACCTCCTTCGATATCGATACCAATTTTAGGTAGGTTCGATGTTACCTGGTATT
1 TATGGTACCGATACCTCCTTCGATATCGATACCAATTTT--GTAGCTTCGATGATACCTGGTATC
905182 GATACATATACCATGGTATCAATACTACCATAC
64 GATACATATACCATGGTATCAATACTACCATAC
* * *
905215 TATGGTACCGATACC-CCATTTCGGTATCGATACCAA-TTT-TAGCTTCGATGATGCTTGGTATC
1 TATGGTACCGATACCTCC--TTCGATATCGATACCAATTTTGTAGCTTCGATGATACCTGGTATC
* *
905277 GATACCCT-TACCATGGTATCGATACTACC
64 GATA-CATATACCATGGTATCAATACTACC
905306 TCGTCGGTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
95 42 0.52
96 2 0.03
97 2 0.03
98 18 0.22
99 16 0.20
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (96 bp):
TATGGTACCGATACCTCCTTCGATATCGATACCAATTTTGTAGCTTCGATGATACCTGGTATCGA
TACATATACCATGGTATCAATACTACCATAC
Found at i:907241 original size:2 final size:2
Alignment explanation
Indices: 907234--907267 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
907224 TCAGAAAAAC
907234 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
907268 TTCTGACCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:908197 original size:2 final size:2
Alignment explanation
Indices: 908190--908218 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
908180 TCAGAAAAGC
908190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
908219 GACCTAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:908892 original size:935 final size:943
Alignment explanation
Indices: 907014--908904 Score: 3106
Period size: 935 Copynumber: 2.0 Consensus size: 943
907004 ACTCTTTTAT
*
907014 TTGAGCCTCTAATTTTCTTAACTCGTTTAAGTCATTGGATACGAAATTAAAGAAACATGTTAAAT
1 TTGAGCCTCTAATTTTCTTAACTCGTTTAAGTCATTGGATACGAAATCAAAGAAACATGTTAAAT
* *
907079 AATTTACTAACCATCAACTTTGAATTCCACCTCTCGATCTGAAGATAACCCCATAATTTTATCTG
66 AATTTACTAACCATCAACTTTGAATTCCACCTCTCGATCTGAAGATAACCCCATAATTCTAACTG
* *
907144 AAATGACATATATAAATTCCCAACTTTTGTGGAATTATCAAACAATTATACTTTAATCAATTGAG
131 AAATGACATATATAAATTCCCAACTTTTATGGAATTATCAAAAAATTATACTTTAATCAATTGAG
*
907209 TATGTATCACATTAGTCAGAAAAACTATATATATATATATATATATATATATTATATATTTCTGA
196 TATCTATCACATTAGTCAGAAAAAC---ATATATATATATATATATATATATTATATA--T-TGA
* *
907274 CCTAATCATCTCTAGAGACAAACAACATATACCCAATATGATTTTAATTCAATATATGATAATTC
255 CCTAATCATCTATAGAGACAAACAACATATACCCAATATGATTTTAATTCAATATATGACAATTC
* * *
907339 CATCAGATTCACATGGAGCATATCCCATGTAATCTTTATTAAATCTTTACTACTTGCCTTGCTCA
320 CATCAGATTAACATGGAGCATATCCCATGTAATCTTGATTAAATCTTTACTACCTGCCTTGCTCA
*
907404 CACTTGTACCATACCCCTAGGGTTTACTGCTATCATCTCACTCGAGATTAAATTAAATAAATACT
385 CACTTGTACCATACCCCTAAGGTTTACTGCTATCATCTCACTCGAGATTAAATTAAATAAATACT
*
907469 TTTATTTTAAAATCTTTCATCTCATTCTTGAGTAAATATGTGTAACTTTCCAGATCCATTTAAAA
450 TTTATTTTAAAATCTTTCATCTCATTCTTGAGTAAATATGTGTAACTTTCAAGATCCATTTAAAA
* *
907534 TATTATCGAGCAATTGAAACATTTTCTCTATCAACTATGAAAGTCTAATTATCCACATCATTAAA
515 TATTATCGAGCAATTGAAACATTTTCTCTATCAACTATGAAAGTATAATTATACACATCATTAAA
* *
907599 TAAGAATACTTGACAACTTTGTAGCAATAACCTCCTATCAGTTAATGTTAAAATTACACTAGTAA
580 TAAGAAGACTTGACAACTTTGTAGCAATAACCTCCTATCAGTTAATGCTAAAATTACACTAGTAA
*
907664 CCAATTTACTCTTTTTCCTTTCATTATGAACTTGACCCTTTTTCAAGTTCTCAAGAATCAATCTC
645 CCAATTTAC-CTTTTTCCTTTCATTATGAACTTGACACTTTTTCAAGTTCTC----ATCAA--TC
*
907729 AATTTTCAATAATAATCCATTGAAGCATGAAACGGGTAGTAAATCCATTTTCACAAATTACTTTC
703 AATTTTAAATAATAATCCATTGAAGCATGAAACGGGTAGTAAATCCATTTTCACAAATTACTTTC
* *
907794 TAAAATAACTCTATTAGTTTCATAAAACTTAACATTTATTCTTAAATAACTCATAATCAGTTGAT
768 TAAAATAACTATATTAGTTTCATAAAACTTAACATTTATTCTTAAATAACTCATAATCAATTGAT
* * * *
907859 CCATTAACAACTTCTCTTTCTATAAGCTTTTAGCGGTCAATGTACTTACTGCTTATTCATTTCTT
833 CCACTAACAACTTCTCTTTCTATAAGCTTTTAGCAGTCAATGTACTTACCGCTTATTCATTTATT
* *
907924 CTTACTCAAATTAACCATACTGCAAACACTTTAATGCTTTACTTAA
898 CTTACTAAAATTAACCATACTGCAAACACTTTAATGCTTCACTTAA
* * *
907970 TTGAGCCTCTAATTTTCTTAACTCGTTTAAGTCATTGGATTCGAAATCAGAGTAACATGTTAAAT
1 TTGAGCCTCTAATTTTCTTAACTCGTTTAAGTCATTGGATACGAAATCAAAGAAACATGTTAAAT
* *
908035 AATTTACTAACCATCAACTTTGAATTCCACCTCTCGTTCTGGAGATAACCCCATAATTCTAACTG
66 AATTTACTAACCATCAACTTTGAATTCCACCTCTCGATCTGAAGATAACCCCATAATTCTAACTG
*
908100 AAATGACATATATAAATTCCCAACTTTTATGGAATTATCAAAAAATTCTACTTTAATCAATTGAG
131 AAATGACATATATAAATTCCCAACTTTTATGGAATTATCAAAAAATTATACTTTAATCAATTGAG
*
908165 TATCTATCACATTAGTCAGAAAAGC-TATATATATATATATATATATA-TATATA-TGACCTAAT
196 TATCTATCACATTAGTCAGAAAAACATATATATATATATATATATATATTATATATTGACCTAAT
* *
908227 CATCTATAGAGACAAACAACATATACCCATTATGATTTTAATTCAATATATGACAATTCCATCAT
261 CATCTATAGAGACAAACAACATATACCCAATATGATTTTAATTCAATATATGACAATTCCATCAG
* *
908292 ATTAACATGGAGCATATCCCATGTAATCTTGA-TAAATGTTTACTACCTGTCTTGCTCACACTTG
326 ATTAACATGGAGCATATCCCATGTAATCTTGATTAAATCTTTACTACCTGCCTTGCTCACACTTG
908356 TACCATGACCCCTAAGGTTTACTGCTATCATCTCACTCGAGATTAAATTAAATAAAATACTTTTA
391 TACCAT-ACCCCTAAGGTTTACTGCTATCATCTCACTCGAGATTAAATTAAAT-AAATACTTTTA
*
908421 TTTTAAAATCTTTCATCTCATTCTTGAGTAAATCCT-TGTAACTTTCAAGATCCATTTAAAATAT
454 TTTTAAAATCTTTCATCTCATTCTTGAGTAAAT-ATGTGTAACTTTCAAGATCCATTTAAAATAT
* * **
908485 TCTCGAGCAATTGAAACATTTTCTCTCTTGACTATGAAAGTATAATTATACACATCATTAAATAA
518 TATCGAGCAATTGAAACATTTTCTCTATCAACTATGAAAGTATAATTATACACATCATTAAATAA
*
908550 GAAGACTTGACAACTTTGTAGCAATAACCTCCTAGT-AGTTAATGCTAAAATTACACTAGTACCC
583 GAAGACTTGACAACTTTGTAGCAATAACCTCCTA-TCAGTTAATGCTAAAATTACACTAGTAACC
908614 AATTTA-CTTTTTCCTTTCATTATGAACTTGACACTTTTTCAAG-T-TC-TC-A-CAATTTTAAA
647 AATTTACCTTTTTCCTTTCATTATGAACTTGACACTTTTTCAAGTTCTCATCAATCAATTTTAAA
908673 TAATAATCCATTGAAGCATGAAACGGGTAGTAAATCCATTTTCACAAATTACTTTCTAAAATAAC
712 TAATAATCCATTGAAGCATGAAACGGGTAGTAAATCCATTTTCACAAATTACTTTCTAAAATAAC
908738 TATATTAGTTTCATAAAACTTAACATTTATTCTTAAATAACTCATAATCAATTGATCCACTAACA
777 TATATTAGTTTCATAAAACTTAACATTTATTCTTAAATAACTCATAATCAATTGATCCACTAACA
*
908803 A-TTCATGTTTCTATAAGCTTTTAGCAGTCAATGTACTTACCGCTTATTCATTTATTCTTACTAA
842 ACTTC-TCTTTCTATAAGCTTTTAGCAGTCAATGTACTTACCGCTTATTCATTTATTCTTACTAA
**
908867 AATTAACCATACTTTAAACACTTTAATGCTTCACTTAA
906 AATTAACCATACTGCAAACACTTTAATGCTTCACTTAA
908905 GTATTTCTCA
Statistics
Matches: 883, Mismatches: 47, Indels: 31
0.92 0.05 0.03
Matches are distributed among these distances:
934 3 0.00
935 226 0.26
938 1 0.00
939 2 0.00
944 2 0.00
945 1 0.00
946 71 0.08
947 145 0.16
948 195 0.22
949 2 0.00
951 6 0.01
952 22 0.02
956 207 0.23
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.37
Consensus pattern (943 bp):
TTGAGCCTCTAATTTTCTTAACTCGTTTAAGTCATTGGATACGAAATCAAAGAAACATGTTAAAT
AATTTACTAACCATCAACTTTGAATTCCACCTCTCGATCTGAAGATAACCCCATAATTCTAACTG
AAATGACATATATAAATTCCCAACTTTTATGGAATTATCAAAAAATTATACTTTAATCAATTGAG
TATCTATCACATTAGTCAGAAAAACATATATATATATATATATATATATTATATATTGACCTAAT
CATCTATAGAGACAAACAACATATACCCAATATGATTTTAATTCAATATATGACAATTCCATCAG
ATTAACATGGAGCATATCCCATGTAATCTTGATTAAATCTTTACTACCTGCCTTGCTCACACTTG
TACCATACCCCTAAGGTTTACTGCTATCATCTCACTCGAGATTAAATTAAATAAATACTTTTATT
TTAAAATCTTTCATCTCATTCTTGAGTAAATATGTGTAACTTTCAAGATCCATTTAAAATATTAT
CGAGCAATTGAAACATTTTCTCTATCAACTATGAAAGTATAATTATACACATCATTAAATAAGAA
GACTTGACAACTTTGTAGCAATAACCTCCTATCAGTTAATGCTAAAATTACACTAGTAACCAATT
TACCTTTTTCCTTTCATTATGAACTTGACACTTTTTCAAGTTCTCATCAATCAATTTTAAATAAT
AATCCATTGAAGCATGAAACGGGTAGTAAATCCATTTTCACAAATTACTTTCTAAAATAACTATA
TTAGTTTCATAAAACTTAACATTTATTCTTAAATAACTCATAATCAATTGATCCACTAACAACTT
CTCTTTCTATAAGCTTTTAGCAGTCAATGTACTTACCGCTTATTCATTTATTCTTACTAAAATTA
ACCATACTGCAAACACTTTAATGCTTCACTTAA
Found at i:910620 original size:59 final size:58
Alignment explanation
Indices: 910470--910665 Score: 186
Period size: 59 Copynumber: 3.4 Consensus size: 58
910460 CCCATATGGG
* * **
910470 AATTCATACACTGAGTATGAATT-TCTTAACATTTTTACACACCGAGTGCCCAATACGAA
1 AATTCATACACTTA-TATGAATTAT-TTAACATTTTTGCACACAAAGTGCCCAATACGAA
* ** * * *
910529 AATTTATATGCTTA-ATGAATTTATTT-ACATTTTTGCAAACAAAATGCCCAATACGGA
1 AATTCATACACTTATATGAA-TTATTTAACATTTTTGCACACAAAGTGCCCAATACGAA
* * * *
910586 AATCCATACACTTAGTATGAATTATTTAAAATTTTAGCACACATAGTGCCCAATAC-ATA
1 AATTCATACACTTA-TATGAATTATTTAACATTTTTGCACACAAAGTGCCCAATACGA-A
910645 AATTCATACACTTATA-GAATT
1 AATTCATACACTTATATGAATT
910666 TCTTATCACT
Statistics
Matches: 110, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
57 45 0.41
58 12 0.11
59 53 0.48
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (58 bp):
AATTCATACACTTATATGAATTATTTAACATTTTTGCACACAAAGTGCCCAATACGAA
Found at i:910692 original size:57 final size:59
Alignment explanation
Indices: 910573--910692 Score: 138
Period size: 57 Copynumber: 2.1 Consensus size: 59
910563 GCAAACAAAA
* *
910573 TGCCCAATACGGAAATCCATACACTTAGTATGAATTATTTAAAATTTTAGCACACATAG
1 TGCCCAATACAGAAATCCATACACTTAGTATGAATTATTTAAAACTTTAGCACACATAG
* * ** * *
910632 TGCCCAATACATAAATTCATACACTTA-TA-GAATT-TCTTATCACTTTGGCACACTTAG
1 TGCCCAATACAGAAATCCATACACTTAGTATGAATTAT-TTAAAACTTTAGCACACATAG
910689 TGCC
1 TGCC
910693 ATTTAGTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
56 1 0.02
57 25 0.48
58 2 0.04
59 24 0.46
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (59 bp):
TGCCCAATACAGAAATCCATACACTTAGTATGAATTATTTAAAACTTTAGCACACATAG
Found at i:910795 original size:45 final size:43
Alignment explanation
Indices: 910744--910965 Score: 149
Period size: 45 Copynumber: 5.5 Consensus size: 43
910734 TTTTATGTTG
910744 ATAATGCACCCATATGCATTTCAAATTTTGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTC-AA-TTTGCATCCTTTCATGCCA
910789 ATAATGCACCCATATGCA-TT--A-TT-C-T--TTT-ATGCCA
1 ATAATGCACCCATATGCATTTCAATTTGCATCCTTTCATGCCA
* ** *
910823 ATAATGCA-CCATATGCATTTCAGCTAAGGCATCCTTTCATGTCA
1 ATAATGCACCCATATGCATTTCA-AT-TTGCATCCTTTCATGCCA
* *
910867 ATAATGCACCCATATGCA-TT--A-TT-C-T--TTT-TTGCCG
1 ATAATGCACCCATATGCATTTCAATTTGCATCCTTTCATGCCA
* * ** *
910901 ATAATGCCCCCATATGCATTTCAGCTAAGGCATCATTTCATGCCA
1 ATAATGCACCCATATGCATTTCA-AT-TTGCATCCTTTCATGCCA
*
910946 ATAATGCACTCATATGCATT
1 ATAATGCACCCATATGCATT
910966 ATTCTTTTAT
Statistics
Matches: 136, Mismatches: 18, Indels: 46
0.68 0.09 0.23
Matches are distributed among these distances:
33 9 0.07
34 36 0.26
35 8 0.06
37 2 0.01
38 2 0.01
39 2 0.01
40 1 0.01
41 3 0.02
42 1 0.01
43 3 0.02
44 20 0.15
45 49 0.36
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (43 bp):
ATAATGCACCCATATGCATTTCAATTTGCATCCTTTCATGCCA
Found at i:910821 original size:34 final size:34
Alignment explanation
Indices: 910778--910999 Score: 140
Period size: 34 Copynumber: 5.9 Consensus size: 34
910768 ATTTTGCATC
910778 CTTTCATGCCAATAATGCACCCATATGCATTATT
1 CTTTCATGCCAATAATGCACCCATATGCATTATT
*
910812 CTTTTATGCCAATAATGCA-CCATATGCATTTCAGCTAAGGCAT
1 CTTTCATGCCAATAATGCACCCATATGCA-TT-A--T------T
*
910855 CCTTTCATGTCAATAATGCACCCATATGCATTATT
1 -CTTTCATGCCAATAATGCACCCATATGCATTATT
** * *
910890 CTTTTTTGCCGATAATGCCCCCATATGCATTTCAGCTAAGGCAT
1 CTTTCATGCCAATAATGCACCCATATGCA-TT-A--T------T
*
910934 CATTTCATGCCAATAATGCACTCATATGCATTATT
1 C-TTTCATGCCAATAATGCACCCATATGCATTATT
* * * *
910969 CTTTTATGTCGATAATGCAGCCATATGCATT
1 CTTTCATGCCAATAATGCACCCATATGCATT
911000 TTAGCTAAGG
Statistics
Matches: 147, Mismatches: 18, Indels: 46
0.70 0.09 0.22
Matches are distributed among these distances:
33 9 0.06
34 69 0.47
35 6 0.04
36 1 0.01
37 1 0.01
38 1 0.01
41 2 0.01
43 3 0.02
44 23 0.16
45 32 0.22
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (34 bp):
CTTTCATGCCAATAATGCACCCATATGCATTATT
Found at i:910948 original size:79 final size:79
Alignment explanation
Indices: 910733--911053 Score: 473
Period size: 79 Copynumber: 4.1 Consensus size: 79
910723 TTATAGCATA
** ** ***
910733 CTTTTATGTTGATAATGCACCCATATGCATTTCAAATTTTGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
910798 CCATATGCATTATT
66 CCATATGCATTATT
* *
910812 CTTTTATGCCAATAATGCA-CCATATGCATTTCAGCTAAGGCATCCTTTCATGTCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
910876 CCATATGCATTATT
66 CCATATGCATTATT
* * *
910890 CTTTTTTGCCGATAATGCCCCCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
*
910955 TCATATGCATTATT
66 CCATATGCATTATT
* * * * *
910969 CTTTTATGTCGATAATGCAGCCATATGCATTTTAGCTAAGGCGTCCTTTCATTCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
911034 CCATATGCATTATT
66 CCATATGCATTATT
911048 CTTTTA
1 CTTTTA
911054 ATCTTTTGTT
Statistics
Matches: 217, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
78 69 0.32
79 148 0.68
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (79 bp):
CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:912390 original size:54 final size:54
Alignment explanation
Indices: 912334--912606 Score: 429
Period size: 54 Copynumber: 5.1 Consensus size: 54
912324 ACACCCAATA
* * * * * *
912334 CCAATACGGATATTCATAAACTTATTATGAATTTCTAAAGTTTCACAAATAGTA
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
912388 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* **
912442 TCAATATTGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* *
912496 CCAATACGGAAATTCATAAACATATTATGAATTTCTTAGGTCGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* *
912550 CCAATACGGAAATTCATAAACATATTATGAATTTCTAAGGTTGCACACATAGTG
1 CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
912604 CCA
1 CCA
912607 TTCAATAATT
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 203 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
CCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
Found at i:919218 original size:54 final size:54
Alignment explanation
Indices: 919171--919433 Score: 377
Period size: 54 Copynumber: 4.9 Consensus size: 54
919161 ACACCCAATA
* *
919171 CCAATACATAAATTCATAAACTTATTATGAATTTCTTAAGGTT-CACACATAATG
1 CCAATACAGAAATTCATAAACTTATTATGAATTTCTT-AGGTTGCACACATAGTG
*
919225 CCAATAC-GAAAATTCATAAACTTATTATGAATTTCTTAGGGTGCACACATAGTG
1 CCAATACAG-AAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* * *
919279 CCAATACGGAAATTCATAAACTTATTATGAATTTATTAGGTTGTACACATAGTG
1 CCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* *
919333 CCTATACGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
1 CCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
* * * * *
919387 CCAATAAAGGAATCCATAAACGTATTATGAATTTATTAGGTTGCACA
1 CCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACA
919434 TAGAGTACCA
Statistics
Matches: 190, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
53 4 0.02
54 185 0.97
55 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
CCAATACAGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTG
Found at i:934729 original size:23 final size:23
Alignment explanation
Indices: 934693--934762 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
934683 GGGACGTTGC
*
934693 AGCTTCTAGAAGGTCCAGTCAGT
1 AGCTTATAGAAGGTCCAGTCAGT
* *
934716 AGTTTATAGAAGGTCCAGTCATT
1 AGCTTATAGAAGGTCCAGTCAGT
* * *
934739 AGCTTCTAGAAGGTTCAATCAGT
1 AGCTTATAGAAGGTCCAGTCAGT
934762 A
1 A
934763 TTCTGGAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (23 bp):
AGCTTATAGAAGGTCCAGTCAGT
Found at i:938214 original size:12 final size:12
Alignment explanation
Indices: 938197--938227 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
938187 GAGAGAGTTG
938197 GAGGAATTCAAT
1 GAGGAATTCAAT
938209 GAGGAATTCAAT
1 GAGGAATTCAAT
938221 GAGGAAT
1 GAGGAAT
938228 CCAAAGAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (12 bp):
GAGGAATTCAAT
Found at i:951783 original size:21 final size:21
Alignment explanation
Indices: 951757--951799 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
951747 GGGATGATAT
951757 GTATCTCTGGAAACATTGTTC
1 GTATCTCTGGAAACATTGTTC
951778 GTATCTCTGGAAACATTGTTC
1 GTATCTCTGGAAACATTGTTC
951799 G
1 G
951800 GATCAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (21 bp):
GTATCTCTGGAAACATTGTTC
Found at i:956955 original size:18 final size:18
Alignment explanation
Indices: 956932--956967 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
956922 TACAAGGTCC
956932 ATTGTAACTAGTTTCTAT
1 ATTGTAACTAGTTTCTAT
956950 ATTGTAACTAGTTTCTAT
1 ATTGTAACTAGTTTCTAT
956968 TCCCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTGTAACTAGTTTCTAT
Found at i:958559 original size:81 final size:81
Alignment explanation
Indices: 958467--958619 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
958457 TATAATTCCT
* * * * * * *
958467 TTATTCTTTTAC-CTAAAGGTATTTAGCCTTTTATCTAACTTGCATATTTGACACTTTTCTATCA
1 TTATTCTTTTACTC-AAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATAA
958531 AATGCACAACTAGTCCA
65 AATGCACAACTAGTCCA
* * *
958548 TTATTCTTTTACTCAATGGTATTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGTAAA
1 TTATTCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATAAA
958613 ATGCACA
66 ATGCACA
958620 GTTAGGCTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (81 bp):
TTATTCTTTTACTCAAAGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTATAAA
ATGCACAACTAGTCCA
Found at i:959527 original size:234 final size:233
Alignment explanation
Indices: 959033--959591 Score: 756
Period size: 234 Copynumber: 2.4 Consensus size: 233
959023 TTGCCCGTAT
* **
959033 GAAATTATACACGTAGTATGAATCTT-TTAAC-GGTTTGCACACAAAGTGCCCAATACAG--ATT
1 GAAATTATACACTTAGTATGAAT-TTCTTAACATTTTTGCACACAAAGTGCCCAATACAGAAATT
*
959094 CAAACACTTAGTATG-A-TTCTTAAC-TTTTTGCACACGAAGTGCCCAATACGGAAATTCATACA
65 CATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAAATTCATACA
* * * * * * * *
959156 CTTGGTGTGAATTTCTTAACTTTTTTCACATGAAGTGCCCAATACAAGAATTCATACAGTTAGTA
130 ATTAGTATGAATTTCATAACTTTTTGCACACGAAGTGCCCAATACAAGAATTCACACACTTAGTA
* * * *
959221 TGAATTTCTTAACTATTTGCACACAAAGTGCCCAATACA
195 TAAACTTCTAAACTATTTACACACAAAGTGCCCAATACA
* * * *
959260 GAAATTCATACAGTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCAAATATAGAAATT
1 GAAATT-ATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAGAAATT
*
959325 CATACACTCAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAAATTCATACA
65 CATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAAATTCATACA
* * **
959390 ATTAGTATTAATTTCATAACTTTTTGCTCACGAAGTGCCTTATACGAA-AATTCACACACTTAGT
130 ATTAGTATGAATTTCATAACTTTTTGCACACGAAGTGCCCAATAC-AAGAATTCACACACTTAGT
* * * *
959454 ATAAACTTCTAAACTTTTTACACACGAAGTTCCCAATACG
194 ATAAACTTCTAAACTATTTACACACAAAGTGCCCAATACA
*
959494 GAAATTAATACACTTAGTATGAATTTCTTAACATTTTTGTACACAAAGTGCCCAATACAGAAATT
1 GAAATT-ATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAGAAATT
959559 CATACACTTAGTATGAATTTCTTAACATTTTTG
65 CATACACTTAGTATGAATTTCTTAACATTTTTG
959592 TAGACTTAGT
Statistics
Matches: 287, Mismatches: 36, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
227 8 0.03
228 20 0.07
229 22 0.08
231 16 0.06
232 1 0.00
233 8 0.03
234 210 0.73
235 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (233 bp):
GAAATTATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAGAAATTC
ATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAAATTCATACAA
TTAGTATGAATTTCATAACTTTTTGCACACGAAGTGCCCAATACAAGAATTCACACACTTAGTAT
AAACTTCTAAACTATTTACACACAAAGTGCCCAATACA
Found at i:959593 original size:59 final size:58
Alignment explanation
Indices: 959033--959591 Score: 693
Period size: 58 Copynumber: 9.7 Consensus size: 58
959023 TTGCCCGTAT
* ** *
959033 GAAATT-ATACACGTAGTATGAATCTT-TTAACGGTTTGCACACAAAGTGCCCAATACA
1 GAAATTCATACACTTAGTATGAAT-TTCTTAACTTTTTGCACACGAAGTGCCCAATACA
* *
959090 G--ATTCAAACACTTAGTATG-A-TTCTTAACTTTTTGCACACGAAGTGCCCAATACG
1 GAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACA
* * * *
959144 GAAATTCATACACTTGGTGTGAATTTCTTAACTTTTTTCACATGAAGTGCCCAATACA
1 GAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACA
* * *
959202 -AGAATTCATACAGTTAGTATGAATTTCTTAACTATTTGCACACAAAGTGCCCAATACA
1 GA-AATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACA
* * *
959260 GAAATTCATACAGTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCAAATATA
1 GAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACA
* *
959319 GAAATTCATACACTCAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACG
1 GAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACA
* * * * **
959378 GAAATTCATACAATTAGTATTAATTTCATAACTTTTTGCTCACGAAGTGCCTTATAC-
1 GAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACA
* * * * * * *
959435 GAAAATTCACACACTTAGTATAAACTTCTAAACTTTTTACACACGAAGTTCCCAATACG
1 G-AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACA
* * *
959494 GAAATTAATACACTTAGTATGAATTTCTTAACATTTTTGTACACAAAGTGCCCAATACA
1 GAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACA
959553 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTTG
1 GAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTG
959592 TAGACTTAGT
Statistics
Matches: 433, Mismatches: 57, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.00
54 28 0.06
55 4 0.01
56 27 0.06
57 4 0.01
58 203 0.47
59 165 0.38
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (58 bp):
GAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACA
Found at i:963101 original size:12 final size:12
Alignment explanation
Indices: 963084--963110 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
963074 CTACCGGTTA
963084 CTTCTCTCATCT
1 CTTCTCTCATCT
963096 CTTCTCTCATCT
1 CTTCTCTCATCT
963108 CTT
1 CTT
963111 GTTCCCCCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.41, G:0.00, T:0.52
Consensus pattern (12 bp):
CTTCTCTCATCT
Found at i:965126 original size:117 final size:116
Alignment explanation
Indices: 964728--965820 Score: 1200
Period size: 117 Copynumber: 9.3 Consensus size: 116
964718 CCATATGGAT
* * *
964728 ATTCATACACTTAGTATGAATCTCTTAA-TGGTTTGCACACAAAGTGCCCAATACGGAAATTCAT
1 ATTCATACACTTAGTATGAATTTCTTAACT-TTTTGCACACAAAGTGCCCAATACAGAAATTCAT
** *
964792 ACACTTAGTACAAATTTCTTAACTTTTTGCACAAGAAGTGCCCAATACAGAA
65 ACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAA
*
964844 ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATAC-GAAAATCCAT
1 ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAG-AAATTCAT
* * *
964908 ACACTTAGTACGAATTTCTTAACTTTTTGCACACGAAGTGTCCAATACGGAA
65 ACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAA
* *
964960 ATTCATAGACTTAGTATG-ATTTCTTAACATTTTTTGCACACGAAGTGCCCAATACAGAAATTCA
1 ATTCATACACTTAGTATGAATTTCTTAAC--TTTTTGCACACAAAGTGCCCAATACAGAAATTCA
*
965024 TACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGTCCAATACAGAA
64 TACACTTAGTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACAGAA
* * * *
965078 ATTCATACACTTAGTATGAATTTCTTAACTTTGTACACATAAAGTGCCCAATACAGAAATTAATA
1 ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAGAAATTCATA
* * * * *
965143 CACTTAGTATGAATATCTTATCTTTTTTGAACACCAAGTGCCCAATACAAAA
66 CACTTAGTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACAGAA
* * * * **
965195 ATTCATATACTCA-TATGAATTTCTTAATATTTTTGCACAC-GAGTGCCCAATATGGAAATTCAT
1 ATTCATACACTTAGTATGAATTTCTTAA-CTTTTTGCACACAAAGTGCCCAATACAGAAATTCAT
** *** *
965258 ACACTTAGTATGAATTTCTTAACATTTTTGCACACTTAGTG-CC-ATTTGGTA
65 ACACTTAGTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATACAGAA
* * * * ** *
965309 ATCACCATACATACATTA--AT-AA-TTCCTACTACTATAATTAT-TATAGC--A-TGTAC-GTA
1 AT--TCATAC--AC-TTAGTATGAATTTCTTA--ACT-T--TT-TGCACA-CAAAGTGCCCAATA
* * *
965365 CA-TAATTAAATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATAC-GAAA
54 CAGAAATT-CATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAG-AA
* * * *
965428 ATCCATACACTTAGTACGAATTTCTTAACTTTTTGCACACGAAGT-CTCCAATACGGAAATTCAT
1 ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGC-CCAATACAGAAATTCAT
*
965492 AGACTTAGTATGAATTTCTTAACATTTTTTGCACACGAAGTGCCCAATACAGAA
65 ACACTTAGTATGAATTTCTTAAC--TTTTTGCACACGAAGTGCCCAATACAGAA
* ** *
965546 ATTCATACACTTAGTATGAATTTCTTAGCATTTTTGCACACGTAGTGTCCAATACAGAAATTCAT
1 ATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCAATACAGAAATTCAT
* * *
965611 ACACTTAGTATGAATTTATTAACTTTTTACACATGAAGTGCCCAATACAGAA
65 ACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAA
* * * *
965663 ATTAATACACTTAGTATGAATTTCTTATCTTTTTTGCACACCAAGTGCCCAATACGGAAATTCAT
1 ATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCAATACAGAAATTCAT
* * * **
965728 ATACTCA-TATGAATTTCTTAATATTTTTGCACACGAAGTGCCCAATATGGAA
65 ACACTTAGTATGAATTTCTTAA-CTTTTTGCACACGAAGTGCCCAATACAGAA
965780 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC
1 ATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACAC
965821 TTAGTGCCAT
Statistics
Matches: 831, Mismatches: 105, Indels: 81
0.82 0.10 0.08
Matches are distributed among these distances:
112 2 0.00
113 4 0.00
114 9 0.01
115 18 0.02
116 243 0.29
117 336 0.40
118 139 0.17
119 73 0.09
120 5 0.01
121 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (116 bp):
ATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACAGAAATTCATA
CACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACAGAA
Found at i:965847 original size:59 final size:59
Alignment explanation
Indices: 964728--965820 Score: 1232
Period size: 58 Copynumber: 18.7 Consensus size: 59
964718 CCATATGGAT
* * *
964728 ATTCATACACTTAGTATGAATCTCTT-A-ATGGTTTGCACACAAAGTGCCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACAT-TTTTGCACACGAAGTGCCCAATACGGAA
** * *
964786 ATTCATACACTTAGTACAAATTTCTTAAC-TTTTTGCACAAGAAGTGCCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* *
964844 ATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCAATACGAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* * *
964902 ATCCATACACTTAGTACGAATTTCTTAAC-TTTTTGCACACGAAGTGTCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* *
964960 ATTCATAGACTTAGTATG-ATTTCTTAACATTTTTTGCACACGAAGTGCCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACA-TTTTTGCACACGAAGTGCCCAATACGGAA
* *
965019 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGTCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* * ** *
965078 ATTCATACACTTAGTATGAATTTCTTAAC-TTTGTACACATAAAGTGCCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* * * * * * **
965136 ATTAATACACTTAGTATGAATATCTTATCTTTTTTGAACACCAAGTGCCCAATACAAAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* * * *
965195 ATTCATATACTCA-TATGAATTTCTTAATATTTTTGCACACG-AGTGCCCAATATGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
** ** *
965252 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACTTAGTG-CC-ATTTGGTA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* * * * ** *
965309 ATCACCATACATACATTA--AT-AATTCCTACTACTATA-ATTATT--ATA-GCA-TGTAC-GTA
1 AT--TCATAC--AC-TTAGTATGAATT--T-CT--TA-ACATTTTTGCACACGAAGTGCCCAATA
965365 C--ATA
55 CGGA-A
* * *
965369 ATTAAATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCAATACGAAA
1 ATT-CATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* *
965428 ATCCATACACTTAGTACGAATTTCTTAAC-TTTTTGCACACGAAGT-CTCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGC-CCAATACGGAA
* *
965486 ATTCATAGACTTAGTATGAATTTCTTAACATTTTTTGCACACGAAGTGCCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACA-TTTTTGCACACGAAGTGCCCAATACGGAA
* * * *
965546 ATTCATACACTTAGTATGAATTTCTTAGCATTTTTGCACACGTAGTGTCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* * * *
965605 ATTCATACACTTAGTATGAATTTATTAAC-TTTTTACACATGAAGTGCCCAATACAGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* * * *
965663 ATTAATACACTTAGTATGAATTTCTTATCTTTTTTGCACACCAAGTGCCCAATACGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
* * * *
965722 ATTCATATACTCA-TATGAATTTCTTAATATTTTTGCACACGAAGTGCCCAATATGGAA
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
965780 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC
1 ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACAC
965821 TTAGTGCCAT
Statistics
Matches: 883, Mismatches: 113, Indels: 77
0.82 0.11 0.07
Matches are distributed among these distances:
53 5 0.01
54 2 0.00
55 2 0.00
56 6 0.01
57 49 0.06
58 449 0.51
59 275 0.31
60 73 0.08
61 7 0.01
62 7 0.01
64 7 0.01
65 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (59 bp):
ATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGGAA
Found at i:969166 original size:61 final size:64
Alignment explanation
Indices: 969066--969202 Score: 190
Period size: 61 Copynumber: 2.2 Consensus size: 64
969056 TGAGCTTATG
*
969066 CTCTAGTGCTAATCTGGATATGACACATAAAGTTATGCCCACCACCTACA-CTA-TGT-TTACA
1 CTCTAGTGCTAATCCGGATATGACACATAAAGTTATGCCCACCACCTACACCTAGTGTCTTACA
* * * *
969127 CTCTAGTGCTGATCCGGATATGACATATAAGGTTGTGCCCACCACCTACACCTAGTGTCCTTACA
1 CTCTAGTGCTAATCCGGATATGACACATAAAGTTATGCCCACCACCTACACCTAGTGT-CTTACA
*
969192 CACTAGTGCTA
1 CTCTAGTGCTA
969203 GTATAAACCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
61 45 0.69
62 3 0.05
63 3 0.05
65 14 0.22
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (64 bp):
CTCTAGTGCTAATCCGGATATGACACATAAAGTTATGCCCACCACCTACACCTAGTGTCTTACA
Found at i:969379 original size:22 final size:22
Alignment explanation
Indices: 969354--969396 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
969344 CAAAATATCA
* *
969354 TTCATGTTAAATATCATATATG
1 TTCATGATAAACATCATATATG
969376 TTCATGATAAACATCATATAT
1 TTCATGATAAACATCATATAT
969397 AATGATCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (22 bp):
TTCATGATAAACATCATATATG
Found at i:974532 original size:19 final size:19
Alignment explanation
Indices: 974504--974541 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
974494 AGAGGTGACC
*
974504 CATTTATTTATTTTTCTTT
1 CATTTATTTACTTTTCTTT
*
974523 CATTTCTTTACTTTTCTTT
1 CATTTATTTACTTTTCTTT
974542 AGTTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (19 bp):
CATTTATTTACTTTTCTTT
Found at i:976686 original size:21 final size:21
Alignment explanation
Indices: 976645--976688 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
976635 TTAATAAAAC
*
976645 TTCTTTTTCTTTTCATCTTTCT
1 TTCTTTTTCTTTGCA-CTTTCT
976667 TTCTTTTTACTTTGCA-TTTCT
1 TTCTTTTT-CTTTGCACTTTCT
976688 T
1 T
976689 AATTATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCTTTTTCTTTGCACTTTCT
Found at i:978035 original size:19 final size:20
Alignment explanation
Indices: 977997--978034 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
977987 TGAAAATGAT
977997 TTGATTTTG-AAAACAAAAA
1 TTGATTTTGAAAAACAAAAA
978016 TTGATTTTGAAAAACAAAA
1 TTGATTTTGAAAAACAAAA
978035 TGAAATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (20 bp):
TTGATTTTGAAAAACAAAAA
Found at i:979348 original size:20 final size:20
Alignment explanation
Indices: 979301--979377 Score: 109
Period size: 20 Copynumber: 3.8 Consensus size: 20
979291 CCAAAAACCC
* *
979301 TGTCAGTCTTGAGACCATTACC
1 TGTCAGTCTCGAGACCA--ACA
979323 TGTCAGTCTCGAGACCAACA
1 TGTCAGTCTCGAGACCAACA
979343 TGTCAGTCTCGAGACCAACA
1 TGTCAGTCTCGAGACCAACA
*
979363 TGCCAGTCTCGAGAC
1 TGTCAGTCTCGAGAC
979378 TGAAATTCCA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 36 0.69
22 16 0.31
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (20 bp):
TGTCAGTCTCGAGACCAACA
Found at i:987988 original size:21 final size:21
Alignment explanation
Indices: 987941--987998 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
987931 ATACCGTAGC
* *
987941 CATTTCATATGGCATCACAAT
1 CATTTCATATGGCACCACAAG
** *
987962 TGTTTCAGATGGCACCACAAG
1 CATTTCATATGGCACCACAAG
*
987983 CATTTCATATGTCACC
1 CATTTCATATGGCACC
987999 GCATGATTTT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (21 bp):
CATTTCATATGGCACCACAAG
Found at i:991500 original size:20 final size:19
Alignment explanation
Indices: 991472--991511 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
991462 ATTTCTATCC
*
991472 TTATCTTTAATTCATTTCAT
1 TTATATTTAATTCA-TTCAT
*
991492 TTATATTTATTTCATTCAT
1 TTATATTTAATTCATTCAT
991511 T
1 T
991512 ATCATTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATATTTAATTCATTCAT
Found at i:996306 original size:18 final size:17
Alignment explanation
Indices: 996271--996312 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
996261 CTTTAAATTA
*
996271 TTTATTAAATTATTTCT
1 TTTATTTAATTATTTCT
*
996288 TTTATTTAATTCTTATCT
1 TTTATTTAATTATT-TCT
996306 TTTATTT
1 TTTATTT
996313 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTTAATTATTTCT
Found at i:996404 original size:19 final size:19
Alignment explanation
Indices: 996359--996407 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
996349 CTATTGTTTA
*
996359 TTATTTTATTATTTTCCCTT
1 TTATTTTATTATTTT-CATT
996379 TTA-TTTATTATTATT-ATT
1 TTATTTTATTATT-TTCATT
996397 TTATTTTATTA
1 TTATTTTATTA
996408 AATCTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 16 0.62
20 5 0.19
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTTTATTATTTTCATT
Found at i:1001011 original size:10 final size:11
Alignment explanation
Indices: 1000996--1001054 Score: 70
Period size: 11 Copynumber: 5.6 Consensus size: 11
1000986 AGACAACCCA
1000996 TTTATTTTTG-
1 TTTATTTTTGT
*
1001006 TTTA-TTTCGT
1 TTTATTTTTGT
*
1001016 TTTGTTTTTGT
1 TTTATTTTTGT
1001027 TTTA-TTTTGT
1 TTTATTTTTGT
*
1001037 TTTGTTTTTGT
1 TTTATTTTTGT
1001048 TTTATTT
1 TTTATTT
1001055 ACTTTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
9 4 0.10
10 16 0.40
11 20 0.50
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.80
Consensus pattern (11 bp):
TTTATTTTTGT
Found at i:1001030 original size:21 final size:21
Alignment explanation
Indices: 1001000--1001054 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1000990 AACCCATTTA
1001000 TTTTTG-TTTATTTCGTTTTG
1 TTTTTGTTTTATTTCGTTTTG
*
1001020 TTTTTGTTTTATTTTGTTTTG
1 TTTTTGTTTTATTTCGTTTTG
1001041 TTTTTGTTTTATTT
1 TTTTTGTTTTATTT
1001055 ACTTTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.05, C:0.02, G:0.13, T:0.80
Consensus pattern (21 bp):
TTTTTGTTTTATTTCGTTTTG
Found at i:1001060 original size:21 final size:20
Alignment explanation
Indices: 1001000--1001066 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
1000990 AACCCATTTA
1001000 TTTTTG-TTTATTTCGTTTTG
1 TTTTTGTTTTATTTC-TTTTG
*
1001020 TTTTTGTTTTATTTTGTTTTG
1 TTTTTGTTTTA-TTTCTTTTG
*
1001041 TTTTTGTTTTATTTACTTTTA
1 TTTTTGTTTTATTT-CTTTTG
1001062 TTTTT
1 TTTTT
1001067 AGCAAACTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.22
21 29 0.71
22 3 0.07
ACGTcount: A:0.07, C:0.03, G:0.10, T:0.79
Consensus pattern (20 bp):
TTTTTGTTTTATTTCTTTTG
Found at i:1003804 original size:17 final size:18
Alignment explanation
Indices: 1003784--1003822 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1003774 CTTTAAATTA
1003784 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
* *
1003801 TTTATTTGATTCTTATCT
1 TTTATTTAATTATTATCT
1003819 TTTA
1 TTTA
1003823 ATTTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:1014780 original size:21 final size:21
Alignment explanation
Indices: 1014724--1014780 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
1014714 GAAGTTGACG
* *
1014724 ATTTCCCAGGAGAAACTGGTT
1 ATTTCCCAGGAAAAACTAGTT
* * *
1014745 ACTTCTCA-AACAAAACTAGTT
1 ATTTCCCAGGA-AAAACTAGTT
1014766 ATTTCCCAGGAAAAA
1 ATTTCCCAGGAAAAA
1014781 TTCCAAAGTA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (21 bp):
ATTTCCCAGGAAAAACTAGTT
Found at i:1021551 original size:12 final size:13
Alignment explanation
Indices: 1021525--1021553 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1021515 CATTATCTCA
1021525 ATTTATTTAAATT
1 ATTTATTTAAATT
1021538 ATTTATTT-AATT
1 ATTTATTTAAATT
1021550 ATTT
1 ATTT
1021554 CTTTTATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTATTTAAATT
Found at i:1021559 original size:17 final size:18
Alignment explanation
Indices: 1021539--1021580 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
1021529 ATTTAAATTA
1021539 TTTATTTAATTATT-TCT
1 TTTATTTAATTATTATCT
* *
1021556 TTTATTTCATTCTTATCT
1 TTTATTTAATTATTATCT
1021574 TTTATTT
1 TTTATTT
1021581 TAAAAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:1027793 original size:64 final size:65
Alignment explanation
Indices: 1027723--1027871 Score: 205
Period size: 65 Copynumber: 2.3 Consensus size: 65
1027713 CCCCATTTCG
** *
1027723 AATGCATTTTATGCATCGATGCAC-TTCCATGCATCGATGCACT-CAGAATT-TTATGGAAACAT
1 AATGCATTTTATGCATCGATGCACAAACCATGCATCAATGCACTCCAGAATTGTT-T-GAAACAT
1027785 CA
64 CA
* * *
1027787 AATGCATTTTATGCATTGATGCACAAACCATGCATCAATGCACTCCAGACTTGTTTGAAACATCG
1 AATGCATTTTATGCATCGATGCACAAACCATGCATCAATGCACTCCAGAATTGTTTGAAACATCA
1027852 AATGCATTTTATGCATCGAT
1 AATGCATTTTATGCATCGAT
1027872 CCACCCGTAG
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
64 23 0.31
65 43 0.57
66 7 0.09
67 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (65 bp):
AATGCATTTTATGCATCGATGCACAAACCATGCATCAATGCACTCCAGAATTGTTTGAAACATCA
Found at i:1027893 original size:65 final size:62
Alignment explanation
Indices: 1027720--1027895 Score: 185
Period size: 65 Copynumber: 2.7 Consensus size: 62
1027710 ACACCCCATT
*
1027720 TCGAATGCATTTTATGCATCGATGCACTTCCATGCATCGATGCACTCAGAATTTTATGGAAACA
1 TCGAATGCATTTTATGCATCGATCCAC--CCATGCATCGATGCACTCAGAATTTTATGGAAACA
* * * * *
1027784 TCAAATGCATTTTATGCATTGATGCACAAACCATGCATCAATGCACTCCAGACTTGTT-T-GAAA
1 TCGAATGCATTTTATGCATCGAT-C-C-ACCCATGCATCGATGCACT-CAGAATT-TTATGGAAA
1027847 CA
61 CA
*
1027849 TCGAATGCATTTTATGCATCGATCCACCCGTAGTGCACCGATGCACT
1 TCGAATGCATTTTATGCATCGATCCACCC--A-TGCATCGATGCACT
1027896 AAGTGTTCCA
Statistics
Matches: 93, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
62 3 0.03
63 1 0.01
64 23 0.25
65 55 0.59
66 8 0.09
67 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (62 bp):
TCGAATGCATTTTATGCATCGATCCACCCATGCATCGATGCACTCAGAATTTTATGGAAACA
Found at i:1033147 original size:23 final size:22
Alignment explanation
Indices: 1033110--1033187 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 22
1033100 CTATCCAGTA
*
1033110 CATCGATGCATCATGTGAATGTG
1 CATCGATGCACCAT-TGAATGTG
* *
1033133 CATCGATACACCA-TGAAGGTG
1 CATCGATGCACCATTGAATGTG
* *
1033154 CACCGATGCACTCCTTGAATGTG
1 CATCGATGCAC-CATTGAATGTG
1033177 CATCGATGCAC
1 CATCGATGCAC
1033188 TTAGCAGTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 16 0.36
22 1 0.02
23 28 0.62
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (22 bp):
CATCGATGCACCATTGAATGTG
Found at i:1035217 original size:27 final size:27
Alignment explanation
Indices: 1035170--1035226 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
1035160 CTTTGAATGC
* *
1035170 TTGAACTTATAATTATATATTTGGTTT
1 TTGAACTTATAATTATATATTAGATTT
* *
1035197 TTGAACTTAT-ATTGGTTTATTAGATTT
1 TTGAACTTATAATT-ATATATTAGATTT
1035224 TTG
1 TTG
1035227 CATCATTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (27 bp):
TTGAACTTATAATTATATATTAGATTT
Found at i:1035947 original size:65 final size:64
Alignment explanation
Indices: 1035816--1035963 Score: 192
Period size: 65 Copynumber: 2.3 Consensus size: 64
1035806 GCACTCATTG
* *
1035816 ATGCATTTTATGCATCGATGCACTGCCATGCATCGATGCACTCAGAATTTTATGGAAACATTGA
1 ATGCATTTTATGCATCGATGCACAGCCATGCATCGATGCACTCAGAATTTTATGGAAACATCGA
* * **
1035880 ATGCATTTTATGCATTGATGCACAGACCATGCATCGATGGACTCCAGGCTTGTT-T-GAAACATC
1 ATGCATTTTATGCATCGATGCACAG-CCATGCATCGATGCACT-CAGAATT-TTATGGAAACATC
1035943 GA
63 GA
*
1035945 ATGCTTTTTATGCATCGAT
1 ATGCATTTTATGCATCGAT
1035964 CCACCCTTAG
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 23 0.32
65 42 0.58
66 6 0.08
67 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (64 bp):
ATGCATTTTATGCATCGATGCACAGCCATGCATCGATGCACTCAGAATTTTATGGAAACATCGA
Found at i:1036419 original size:32 final size:32
Alignment explanation
Indices: 1036373--1036479 Score: 119
Period size: 32 Copynumber: 3.3 Consensus size: 32
1036363 TCCTTGTGAG
1036373 GATTCAACATCAAATGTTGGGGCATTATTTT-A
1 GATTCAACATCAAATGTTGGGGCATT-TTTTGA
*
1036405 GATTTAACATCAAATGTTGGGGCATTTTTTGA
1 GATTCAACATCAAATGTTGGGGCATTTTTTGA
* ** * * *
1036437 GATTCAATATTGAATATTGGGGCA-TCTTTGG
1 GATTCAACATCAAATGTTGGGGCATTTTTTGA
1036468 GAATTCAACATC
1 G-ATTCAACATC
1036480 CTGATGCAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
31 10 0.16
32 53 0.84
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (32 bp):
GATTCAACATCAAATGTTGGGGCATTTTTTGA
Found at i:1037209 original size:93 final size:93
Alignment explanation
Indices: 1037050--1037235 Score: 318
Period size: 93 Copynumber: 2.0 Consensus size: 93
1037040 ACAACACGAG
* * *
1037050 TTCAACTCCACAATGAAGGGATGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTCCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTT
1037115 CAACTTCACAGCGAAGGATATTGGACTC
66 CAACTTCACAGCGAAGGATATTGGACTC
*
1037143 TTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTCCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTT
* *
1037208 CAACTTCACATCGAATGATATTGGACTC
66 CAACTTCACAGCGAAGGATATTGGACTC
1037236 AGAACAATAC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (93 bp):
TTCAACTCCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTT
CAACTTCACAGCGAAGGATATTGGACTC
Found at i:1037558 original size:87 final size:87
Alignment explanation
Indices: 1037458--1037640 Score: 330
Period size: 87 Copynumber: 2.1 Consensus size: 87
1037448 GACAGTTTCT
* *
1037458 CTTGAAACATAAACATTTAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTAAGATAGTTTCC
1037523 CTTGAAACAAAATTTTGTCTCC
66 CTTGAAACAAAATTTTGTCTCC
1037545 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTAAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTAAGATAGTTTCC
* *
1037610 CTTGAAACGAAATTTTGTCTTC
66 CTTGAAACAAAATTTTGTCTCC
1037632 CTTGAAACA
1 CTTGAAACA
1037641 AAATTTTGTC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTAAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCC
Found at i:1037635 original size:22 final size:22
Alignment explanation
Indices: 1037607--1037662 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
1037597 TAAGATAGTT
1037607 TCCCTTGAAACGAAATTTTGTC
1 TCCCTTGAAACGAAATTTTGTC
* *
1037629 TTCCTTGAAACAAAATTTTGTC
1 TCCCTTGAAACGAAATTTTGTC
1037651 TCCCTTGAAACG
1 TCCCTTGAAACG
1037663 TAAACATTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (22 bp):
TCCCTTGAAACGAAATTTTGTC
Found at i:1037722 original size:108 final size:109
Alignment explanation
Indices: 1037519--1037843 Score: 429
Period size: 108 Copynumber: 3.1 Consensus size: 109
1037509 TTGAGATAGT
*
1037519 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGA
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
* *
1037584 ATTTTATCTCGATTAAGATAGTTTCCCTTGAAACGAAATTTTGTC
66 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTC
*
1037629 TT-CCTTGAAACAAAATTTTGTCTCCCTTGAAACGTAAACATTG-AAACATTTCCCTTGAAATAA
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
* *
1037692 ATTTTATCTCGCTTGGGGTAGTTTCCCTTGAAACAAAATTTTGT-
66 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTC
* * * * *
1037736 TTCCCTTG--A-GATA-GTT-TCT--CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTA
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
* *
1037794 ATTTTTTCTCTCTTGAGATAGTTTCCCTTGAAACAAAGTTTTGTC
66 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA-TTTTGTC
1037839 -TCCCT
1 TTCCCT
1037844 CGAGATAGTT
Statistics
Matches: 194, Mismatches: 17, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
101 20 0.10
102 59 0.30
103 3 0.02
104 2 0.01
105 2 0.01
106 1 0.01
107 2 0.01
108 63 0.32
109 40 0.21
110 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (109 bp):
TTCCCTTGAAACAAAATTTTGTCTCCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAATTTTGTC
Found at i:1037751 original size:37 final size:37
Alignment explanation
Indices: 1037677--1037763 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
1037667 CATTGAAACA
* * * *
1037677 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGATAG
* *
1037713 TTTCCCTTGAAACAAAATTTTGTTTCCCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGATAG
*
1037750 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
1037764 TAAACATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTATCTCCCTTGAGATAG
Found at i:1037819 original size:102 final size:102
Alignment explanation
Indices: 1037545--1037888 Score: 413
Period size: 102 Copynumber: 3.3 Consensus size: 102
1037535 TTTTGTCTCC
* * *
1037545 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTAAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
* * * *
1037610 CTTGAAACGAAATTTTGTCTT-CCTTGAAACAAAATTTTGTCT
66 CTTGAAACAAAATTTTGT-TTCCCTTG--A-GATA-GTT-TCT
* * *
1037652 CCCTTGAAACGTAAACATTG-AAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTT
1 --CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTT
1037716 CCCTTGAAACAAAATTTTGTTTCCCTTGAGATAGTTTCT
64 CCCTTGAAACAAAATTTTGTTTCCCTTGAGATAGTTTCT
* * * *
1037755 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTTTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
* * *
1037820 CTTGAAACAAAGTTTTGTCTCCCTCGAGATAGTTTCT
66 CTTGAAACAAAATTTTGTTTCCCTTGAGATAGTTTCT
* ** *
1037857 CTTCAAACATAAACCCTGAAAACGTTTCCCTT
1 CTTGAAACATAAACATTGAAAACATTTCCCTT
1037889 AAAACACAAA
Statistics
Matches: 208, Mismatches: 25, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
101 17 0.08
102 101 0.49
103 3 0.01
104 2 0.01
105 2 0.01
106 1 0.00
107 2 0.01
108 63 0.30
109 17 0.08
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCC
CTTGAAACAAAATTTTGTTTCCCTTGAGATAGTTTCT
Found at i:1037980 original size:37 final size:37
Alignment explanation
Indices: 1037930--1038032 Score: 163
Period size: 36 Copynumber: 2.8 Consensus size: 37
1037920 AAAACGAGTT
* *
1037930 TTGAGACAGTTTCCCTTGTAACAAAATCTTGTCTCTC
1 TTGAGACAATTTCCCTTGAAACAAAATCTTGTCTCTC
* *
1037967 TTGAGACAATTTCCCTTGAAAC-AAATTTTGTCTTTC
1 TTGAGACAATTTCCCTTGAAACAAAATCTTGTCTCTC
1038003 TTGAGACAATTTCCCTTGAAACAAAATCTT
1 TTGAGACAATTTCCCTTGAAACAAAATCTT
1038033 TGAATATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 34 0.57
37 26 0.43
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (37 bp):
TTGAGACAATTTCCCTTGAAACAAAATCTTGTCTCTC
Found at i:1038108 original size:37 final size:36
Alignment explanation
Indices: 1038047--1038162 Score: 144
Period size: 36 Copynumber: 3.2 Consensus size: 36
1038037 TATATTTTCC
* *
1038047 TTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTT
1 TTGAAACCAATTTTGTCTCTCTTGAGATAGTTTCTT
* *
1038083 TT-AGAACTATGTTTTGTCTCTCTTGAGATAGTTTCTT
1 TTGA-AACCA-ATTTTGTCTCTCTTGAGATAGTTTCTT
* * *
1038120 TTGAAACCAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACCAATTTTGTCTCTCTTGAGATAGTTTCTT
1038156 TTGAAAC
1 TTGAAAC
1038163 ACAAAAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
35 1 0.01
36 36 0.52
37 31 0.45
38 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.44
Consensus pattern (36 bp):
TTGAAACCAATTTTGTCTCTCTTGAGATAGTTTCTT
Found at i:1038237 original size:39 final size:36
Alignment explanation
Indices: 1038149--1038239 Score: 119
Period size: 39 Copynumber: 2.4 Consensus size: 36
1038139 TCTTGAGACA
*
1038149 GTTTCTCTTGAAACACAAAAAAAAACCCTCGAAATT
1 GTTTCTCTTGAAACACAAAAAAAAACCCTCGAAAAT
* * *
1038185 GTTTCTCTTGAAACACACACACAGAAACCCTTTGAAAAT
1 GTTTCTCTTGAAACACA-A-AAAAAAACCC-TCGAAAAT
1038224 GTTTCTCTTGAAACAC
1 GTTTCTCTTGAAACAC
1038240 CAAACCCTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
36 17 0.35
37 1 0.02
38 8 0.17
39 22 0.46
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.27
Consensus pattern (36 bp):
GTTTCTCTTGAAACACAAAAAAAAACCCTCGAAAAT
Found at i:1039336 original size:37 final size:37
Alignment explanation
Indices: 1039262--1039333 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
1039252 TATATATATA
* * *
1039262 TATATATATATTTACTCTTTTTTTATTTTTTATTTAT
1 TATATATATATATAATATTTTTTTATTTTTTATTTAT
1039299 TATATATATATATAATATTTTTACTT-TTTTTTATT
1 TATATATATATATAATATTTTT--TTATTTTTTATT
1039334 ATTTTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 19 0.63
38 9 0.30
39 2 0.07
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (37 bp):
TATATATATATATAATATTTTTTTATTTTTTATTTAT
Found at i:1039384 original size:54 final size:55
Alignment explanation
Indices: 1039294--1039397 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
1039284 TTATTTTTTA
*
1039294 TTTATTATATATATATATAATATTTTTACTT-TTTTTTATTATTTTATTTACTTGT
1 TTTATTATATATATATATAATATTTTTACTTCTTTTTCATTATTTT-TTTACTTGT
* * *
1039349 TTTATT-TATATATTTATATATTTTTTTA-TTCTTTTTCTTTATTTTTTTA
1 TTTATTATATATATATATA-ATATTTTTACTTCTTTTTCATTATTTTTTTA
1039398 TATTTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
54 17 0.40
55 26 0.60
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (55 bp):
TTTATTATATATATATATAATATTTTTACTTCTTTTTCATTATTTTTTTACTTGT
Found at i:1039405 original size:14 final size:13
Alignment explanation
Indices: 1039318--1039420 Score: 57
Period size: 13 Copynumber: 7.7 Consensus size: 13
1039308 ATATAATATT
1039318 TTTACTTTTTTTTA
1 TTTA-TTTTTTTTA
*
1039332 -TTATTTTATTTA
1 TTTATTTTTTTTA
* * *
1039344 CTTGTTTTATTTA
1 TTTATTTTTTTTA
* *
1039357 TATATTTATATATTTT
1 TTTATTT-T-T-TTTA
* *
1039373 TTTATTCTTTTTC
1 TTTATTTTTTTTA
1039386 TTTATTTTTTTATA
1 TTTATTTTTTT-TA
**
1039400 TTTATTTTACTTA
1 TTTATTTTTTTTA
1039413 -TTATTTTT
1 TTTATTTTT
1039421 ACTTTTCTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
12 15 0.22
13 33 0.48
14 12 0.17
15 1 0.01
16 8 0.12
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (13 bp):
TTTATTTTTTTTA
Found at i:1039407 original size:13 final size:12
Alignment explanation
Indices: 1039323--1039420 Score: 62
Period size: 12 Copynumber: 8.2 Consensus size: 12
1039313 ATATTTTTAC
1039323 TTTTT-TTTATT
1 TTTTTATTTATT
*
1039334 ATTTTATTTACTT
1 TTTTTATTTA-TT
* *
1039347 GTTTTATTTATA
1 TTTTTATTTATT
* *
1039359 TATTTATATATT
1 TTTTTATTTATT
1039371 TTTTTATTCT-TT
1 TTTTTATT-TATT
1039383 TTCTTTA-TT-TT
1 TT-TTTATTTATT
*
1039394 TTTATATTTATT
1 TTTTTATTTATT
*
1039406 TTACTTA-TTATT
1 TT-TTTATTTATT
1039418 TTT
1 TTT
1039421 ACTTTTCTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
10 3 0.04
11 11 0.16
12 35 0.52
13 18 0.27
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (12 bp):
TTTTTATTTATT
Found at i:1054044 original size:54 final size:54
Alignment explanation
Indices: 1053952--1054267 Score: 356
Period size: 54 Copynumber: 5.9 Consensus size: 54
1053942 TGCCGATAAA
* *
1053952 TTCATTCATACACTCATT-TGAATTCCGTCGGTTGCACACATAGTG-TGAATACG
1 TTCATTCATAAACTCATTATGAATTCCGTGGGTTGCACACATAGTGCTG-ATACG
* * *
1054005 TTCATTCATAAGCTCATTATGAATTACGTGGGTTGCACACATAGTGAC-GATATG
1 TTCATTCATAAACTCATTATGAATTCCGTGGGTTGCACACATAGTG-CTGATACG
* ** * *
1054059 GTCATTCATAAACTCATTATGAATTTTGTGGGCTGCACACATAGTG-TCAATACAG
1 TTCATTCATAAACTCATTATGAATTCCGTGGGTTGCACACATAGTGCT-GATAC-G
** * *
1054114 -TCATTCATAAACTCATTATGAATTATGTAGGTTGCACACATAGCGCTGATAC-
1 TTCATTCATAAACTCATTATGAATTCCGTGGGTTGCACACATAGTGCTGATACG
* * * * * *
1054166 TGTCATTGATAACCTCATTATGAATTCCGTCGGTTGTACACATAGTGCTGGTACA
1 T-TCATTCATAAACTCATTATGAATTCCGTGGGTTGCACACATAGTGCTGATACG
*
1054221 ATCATTCATAAACTCATTATGAATTCCGTGGGTTGCACACATAGTGC
1 TTCATTCATAAACTCATTATGAATTCCGTGGGTTGCACACATAGTGC
1054268 CAATATAAAA
Statistics
Matches: 223, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
53 16 0.07
54 204 0.91
55 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (54 bp):
TTCATTCATAAACTCATTATGAATTCCGTGGGTTGCACACATAGTGCTGATACG
Found at i:1054133 original size:108 final size:108
Alignment explanation
Indices: 1053953--1054267 Score: 406
Period size: 108 Copynumber: 2.9 Consensus size: 108
1053943 GCCGATAAAT
* *
1053953 TCATTCATACACTCATT-TGAATTCCGTCGGTTGCACACATAGTGTGAATAC-GTTCATTCATAA
1 TCATTCATAAACTCATTATGAATTCCGTCGGTTGCACACATAGTGTCAATACAG-TCATTCATAA
*
1054016 GCTCATTATGAATTACGTGGGTTGCACACATAGTGAC-GATA-TGG
65 ACTCATTATGAATTACGTGGGTTGCACACATAGTG-CTGATACT-G
** * *
1054060 TCATTCATAAACTCATTATGAATTTTGTGGGCTGCACACATAGTGTCAATACAGTCATTCATAAA
1 TCATTCATAAACTCATTATGAATTCCGTCGGTTGCACACATAGTGTCAATACAGTCATTCATAAA
* * *
1054125 CTCATTATGAATTATGTAGGTTGCACACATAGCGCTGATACTG
66 CTCATTATGAATTACGTGGGTTGCACACATAGTGCTGATACTG
* * * ** *
1054168 TCATTGATAACCTCATTATGAATTCCGTCGGTTGTACACATAGTG-CTGGTACAATCATTCATAA
1 TCATTCATAAACTCATTATGAATTCCGTCGGTTGCACACATAGTGTC-AATACAGTCATTCATAA
*
1054232 ACTCATTATGAATTCCGTGGGTTGCACACATAGTGC
65 ACTCATTATGAATTACGTGGGTTGCACACATAGTGC
1054268 CAATATAAAA
Statistics
Matches: 179, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
107 18 0.10
108 159 0.89
109 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (108 bp):
TCATTCATAAACTCATTATGAATTCCGTCGGTTGCACACATAGTGTCAATACAGTCATTCATAAA
CTCATTATGAATTACGTGGGTTGCACACATAGTGCTGATACTG
Found at i:1054228 original size:162 final size:161
Alignment explanation
Indices: 1053953--1054272 Score: 421
Period size: 162 Copynumber: 2.0 Consensus size: 161
1053943 GCCGATAAAT
* * * * *
1053953 TCATTCATACACTCATTTGAATTCCGTCGGTTGCACACATAGTGTGAATACGTTCATTCATAAGC
1 TCATTCATAAACTCATTTGAATTACGTAGGTTGCACACATAGCGTGAATACGTTCATTCATAACC
* ***
1054018 TCATTATGAATTACGTGGGTTGCACACATAGTGACGATATGGTCATTCATAAACTCATTATGAAT
66 TCATTATGAATTACGTCGGTTGCACACATAGTGACGATACAATCATTCATAAACTCATTATGAAT
** *
1054083 TTTGTGGGCTGCACACATAGTGTCAATACAG
131 TCCGTGGGCTGCACACATAGTGCCAATACAG
* *
1054114 TCATTCATAAACTCATTATGAATTATGTAGGTTGCACACATAGCGCTG-ATAC-TGTCATTGATA
1 TCATTCATAAACTCATT-TGAATTACGTAGGTTGCACACATAGCG-TGAATACGT-TCATTCATA
* * *
1054177 ACCTCATTATGAATTCCGTCGGTTGTACACATAGTG-CTGGTACAATCATTCATAAACTCATTAT
63 ACCTCATTATGAATTACGTCGGTTGCACACATAGTGAC-GATACAATCATTCATAAACTCATTAT
*
1054241 GAATTCCGTGGGTTGCACACATAGTGCCAATA
127 GAATTCCGTGGGCTGCACACATAGTGCCAATA
1054273 TAAAAATGCA
Statistics
Matches: 137, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
161 18 0.13
162 117 0.85
163 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (161 bp):
TCATTCATAAACTCATTTGAATTACGTAGGTTGCACACATAGCGTGAATACGTTCATTCATAACC
TCATTATGAATTACGTCGGTTGCACACATAGTGACGATACAATCATTCATAAACTCATTATGAAT
TCCGTGGGCTGCACACATAGTGCCAATACAG
Found at i:1056998 original size:18 final size:19
Alignment explanation
Indices: 1056977--1057018 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
1056967 GTAAGAAAAT
* *
1056977 ATTAAAATAA-TAGAAGTG
1 ATTAAAATAAGTAAAAGTA
1056995 ATT-AAATAAGTAAAAGTA
1 ATTAAAATAAGTAAAAGTA
1057013 ATTAAA
1 ATTAAA
1057019 GTAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 12 0.60
19 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (19 bp):
ATTAAAATAAGTAAAAGTA
Found at i:1063701 original size:22 final size:22
Alignment explanation
Indices: 1063674--1063722 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
1063664 ATTTAGCAGT
1063674 AATAATTCCTCAAATTTGAAGA
1 AATAATTCCTCAAATTTGAAGA
1063696 AATAATTCCTCAAATTTGAAGA
1 AATAATTCCTCAAATTTGAAGA
1063718 AATAA
1 AATAA
1063723 CGAGCAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (22 bp):
AATAATTCCTCAAATTTGAAGA
Found at i:1070030 original size:24 final size:23
Alignment explanation
Indices: 1069987--1070031 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1069977 TTTGACTTTG
*
1069987 AATACACCAAAATATTATCCATA
1 AATACACCAAAATATGATCCATA
1070010 AATACCACCACAAAT-TGATCCA
1 AATA-CACCA-AAATATGATCCA
1070032 GATAAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (23 bp):
AATACACCAAAATATGATCCATA
Found at i:1070944 original size:47 final size:43
Alignment explanation
Indices: 1070845--1070969 Score: 126
Period size: 47 Copynumber: 2.8 Consensus size: 43
1070835 TATAAAATCT
* * * *
1070845 CTTACCATTTATCCATAAGTTCGTAAGCTTATTTTACAGAAATG
1 CTTACCA-TTATTCATAAGCTCGTAAACTTATTTTACAGAAATA
*
1070889 CTTACCATTTAAATTTCATAAGCTCGTAAACTTATTTTATCA-ATATA
1 CTTACCA-TT--A-TTCATAAGCTCGTAAACTTATTTTA-CAGAAATA
* *
1070936 CTTGCCATTATTCATAAGCTCGTAAACGTATTTT
1 CTTACCATTATTCATAAGCTCGTAAACTTATTTT
1070970 CATACTTACC
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
43 23 0.33
44 11 0.16
46 3 0.04
47 31 0.44
48 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (43 bp):
CTTACCATTATTCATAAGCTCGTAAACTTATTTTACAGAAATA
Found at i:1072050 original size:29 final size:29
Alignment explanation
Indices: 1072017--1072079 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
1072007 ACCCATTAAT
* *
1072017 TTTTCAAAATTTAC-AAATTGATCTCCAAC
1 TTTTCAAAACTTACGAAATTG-TCCCCAAC
*
1072046 TTTTCAAAACTTACGAAATTGTCCCCAAT
1 TTTTCAAAACTTACGAAATTGTCCCCAAC
1072075 TTTTC
1 TTTTC
1072080 TAAGGCTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (29 bp):
TTTTCAAAACTTACGAAATTGTCCCCAAC
Found at i:1074701 original size:11 final size:10
Alignment explanation
Indices: 1074682--1074763 Score: 69
Period size: 10 Copynumber: 8.1 Consensus size: 10
1074672 TTCAATCATC
*
1074682 TTTCATTTTT
1 TTTCTTTTTT
*
1074692 TTCCTCTTTTT
1 TTTCT-TTTTT
1074703 TTTCTTTTATT
1 TTTCTTTT-TT
*
1074714 TTTCTATTTT
1 TTTCTTTTTT
*
1074724 TTTGTTTTCTT
1 TTTCTTTT-TT
*
1074735 TTT-TTCTTT
1 TTTCTTTTTT
*
1074744 TTT-TTTTTC
1 TTTCTTTTTT
1074753 TTTCTTTTTT
1 TTTCTTTTTT
1074763 T
1 T
1074764 ATATTATATT
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
9 12 0.21
10 23 0.40
11 23 0.40
ACGTcount: A:0.04, C:0.12, G:0.01, T:0.83
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:1074710 original size:8 final size:8
Alignment explanation
Indices: 1074699--1074763 Score: 64
Period size: 8 Copynumber: 7.9 Consensus size: 8
1074689 TTTTTCCTCT
1074699 TTTTTTTC
1 TTTTTTTC
1074707 TTTTATTT-
1 TTTT-TTTC
1074715 TTCTATTTT-
1 TT-T-TTTTC
1074724 TTTGTTTTC
1 TTT-TTTTC
1074733 TTTTTTTC
1 TTTTTTTC
1074741 TTTTTTT-
1 TTTTTTTC
1074748 TTTTCTTTC
1 TTTT-TTTC
1074757 TTTTTTT
1 TTTTTTT
1074764 ATATTATATT
Statistics
Matches: 50, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
7 4 0.08
8 29 0.58
9 16 0.32
10 1 0.02
ACGTcount: A:0.03, C:0.09, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Done.