Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 341 of 352
Found at i:109267431 original size:12 final size:12
Alignment explanation
Indices: 109267396--109267439 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
109267386 TGATACACAA
*
109267396 AAATAATATAAGG
1 AAAT-ATATAATG
109267409 AAATATATAATG
1 AAATATATAATG
*
109267421 AAATATATAATA
1 AAATATATAATG
109267433 AAATATA
1 AAATATA
109267440 ATTTATAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 25 0.86
13 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (12 bp):
AAATATATAATG
Found at i:109267470 original size:5 final size:5
Alignment explanation
Indices: 109267425--109267500 Score: 57
Period size: 5 Copynumber: 14.2 Consensus size: 5
109267415 ATAATGAAAT
* *
109267425 ATATA ATAAA ATATA ATTTATA GATAAA ATATA CA-ATA ATATA ATATA
1 ATATA ATATA ATATA A--TATA -ATATA ATATA -ATATA ATATA ATATA
109267473 ATATA ATGGATA ATATA TATATA A-ATA A
1 ATATA AT--ATA ATATA -ATATA ATATA A
109267501 AAATAATAAC
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
4 5 0.08
5 35 0.59
6 9 0.15
7 9 0.15
8 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:109269160 original size:45 final size:45
Alignment explanation
Indices: 109269096--109269185 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
109269086 AGTAGAAGGG
109269096 GGTTTGTTTGAAGTGAAGTAAATGATTGAAATTAAACAAGGAAAT
1 GGTTTGTTTGAAGTGAAGTAAATGATTGAAATTAAACAAGGAAAT
*
109269141 GGTTTGTTTGAAGTGAAGTAAATGATTGAAATTAAACAAGTAAAT
1 GGTTTGTTTGAAGTGAAGTAAATGATTGAAATTAAACAAGGAAAT
109269186 TAAAAAGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.32
Consensus pattern (45 bp):
GGTTTGTTTGAAGTGAAGTAAATGATTGAAATTAAACAAGGAAAT
Found at i:109269182 original size:22 final size:22
Alignment explanation
Indices: 109269111--109269185 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
109269101 GTTTGAAGTG
109269111 AAGTAAATGATTGAAATTAAAC
1 AAGTAAATGATTGAAATTAAAC
* * * **
109269133 AAGGAAATGGTTTG--TTTGAAGTG
1 AAGTAAAT-GATTGAAATT-AA-AC
109269156 AAGTAAATGATTGAAATTAAAC
1 AAGTAAATGATTGAAATTAAAC
109269178 AAGTAAAT
1 AAGTAAAT
109269186 TAAAAAGATT
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
21 2 0.05
22 21 0.55
23 13 0.34
24 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.20, T:0.29
Consensus pattern (22 bp):
AAGTAAATGATTGAAATTAAAC
Found at i:109280768 original size:30 final size:30
Alignment explanation
Indices: 109280734--109280794 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
109280724 CATACTCTAA
109280734 CATTCACCCAACTTCCTCAACGGGTAACAC
1 CATTCACCCAACTTCCTCAACGGGTAACAC
109280764 CATTCACCCAACTTCCTCAACGGGTAACAC
1 CATTCACCCAACTTCCTCAACGGGTAACAC
109280794 C
1 C
109280795 CAAAGCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.41, G:0.10, T:0.20
Consensus pattern (30 bp):
CATTCACCCAACTTCCTCAACGGGTAACAC
Found at i:109297229 original size:41 final size:40
Alignment explanation
Indices: 109297184--109297402 Score: 215
Period size: 41 Copynumber: 5.4 Consensus size: 40
109297174 CGTTTGACCA
* *
109297184 AAAACGCCGCTAAAAACAGAGCAATAGTAGCATTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCAATAGTAGC-GTTTTTGGT
* *
109297225 AAAACGCCGCTAAAAACAGAGCATTAGTGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCAATAGTAGCGTTTTTGGT
* * * *
109297265 AAAACGCCGCTAAAAGCCAGAGCATTAGCT-GCGCTTCTGGT
1 AAAACGCCGCTAAAA-ACAGAGCAATAG-TAGCGTTTTTGGT
* * * ** *
109297306 AAAACGCCGCTAAAAGCCAGAGCATTTGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAA-ACAGAGCAATAGTAGCGTTTTTGGT
* * ** *
109297347 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAA-ACAGAGCAATAGTAGCGTTTTTGGT
109297388 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
109297403 GTCATATAAC
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
40 22 0.13
41 141 0.86
42 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCAATAGTAGCGTTTTTGGT
Found at i:109297403 original size:41 final size:41
Alignment explanation
Indices: 109297218--109297403 Score: 302
Period size: 41 Copynumber: 4.6 Consensus size: 41
109297208 TAGTAGCATT
* * * *
109297218 TTTTGTTAAAACGCCGCTAAAA-ACAGAGCATTAGTGGCGT
1 TTTTGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC
*
109297258 TTTTGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCTGCGC
1 TTTTGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC
* *
109297299 TTCTGGTAAAACGCCGCTAAAAGCCAGAGCATTTGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC
109297340 TTTTGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC
109297381 TTTTGGTAAAACGCCGCTAAAAG
1 TTTTGGTAAAACGCCGCTAAAAG
109297404 TCATATAACC
Statistics
Matches: 135, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 21 0.16
41 114 0.84
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (41 bp):
TTTTGGTAAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC
Found at i:109297491 original size:23 final size:22
Alignment explanation
Indices: 109297444--109297491 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
109297434 AAAAAATCAT
* *
109297444 AAACACTAATCTATAATCCTTA
1 AAACACTAAACTATAAACCTTA
*
109297466 AAACACTAAACTCCTAAACCTTA
1 AAACACTAAACT-ATAAACCTTA
109297489 AAA
1 AAA
109297492 ATCTTAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACACTAAACTATAAACCTTA
Found at i:109297595 original size:119 final size:119
Alignment explanation
Indices: 109297384--109297622 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
109297374 GCGGCGCTTT
109297384 TGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAAACCCTAAACCCCCTAAAAAATCATAAACA
1 TGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAAACCCTAAACCCCCTAAAAAATCATAAACA
109297449 CTAATCTATAATCCTTAAAACACTAAACTCCTAAACCTTAAAAATCTTAAACCC
66 CTAATCTATAATCCTTAAAACACTAAACTCCTAAACCTTAAAAATCTTAAACCC
109297503 TGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAAACCCTAAACCCCCTAAAAAATCATAAACA
1 TGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAAACCCTAAACCCCCTAAAAAATCATAAACA
109297568 CTAATCTATAATCCTTAAAACACTAAACTCCTAAACCTTAAAAATCTTAAACCC
66 CTAATCTATAATCCTTAAAACACTAAACTCCTAAACCTTAAAAATCTTAAACCC
109297622 T
1 T
109297623 AAACTATAAC
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.45, C:0.28, G:0.04, T:0.22
Consensus pattern (119 bp):
TGGTAAAACGCCGCTAAAAGTCATATAACCCCTAAAACCCTAAACCCCCTAAAAAATCATAAACA
CTAATCTATAATCCTTAAAACACTAAACTCCTAAACCTTAAAAATCTTAAACCC
Found at i:109297610 original size:23 final size:23
Alignment explanation
Indices: 109297563--109297626 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
109297553 AAAAAATCAT
* * *
109297563 AAACACTAATCT-ATAATCCTTA
1 AAACACTAAACTCCTAAACCTTA
109297585 AAACACTAAACTCCTAAACCTTA
1 AAACACTAAACTCCTAAACCTTA
109297608 AAA-ATCTTAAAC-CCTAAAC
1 AAACA-C-TAAACTCCTAAAC
109297627 TATAACCCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.33
23 19 0.53
24 5 0.14
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (23 bp):
AAACACTAAACTCCTAAACCTTA
Found at i:109297855 original size:14 final size:15
Alignment explanation
Indices: 109297823--109297858 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
109297813 TATTTTAAGT
*
109297823 TTTATGGATTATAGG
1 TTTAGGGATTATAGG
109297838 TTTAGGGATTAT-GG
1 TTTAGGGATTATAGG
109297852 TTTAGGG
1 TTTAGGG
109297859 GTTAGGGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (15 bp):
TTTAGGGATTATAGG
Found at i:109298058 original size:14 final size:14
Alignment explanation
Indices: 109298035--109298079 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
109298025 CAATTAATCA
*
109298035 TTATAGTTTAGGGT
1 TTATAATTTAGGGT
109298049 TTATAATTTAGGGT
1 TTATAATTTAGGGT
* * *
109298063 ATATGATTAAGGGT
1 TTATAATTTAGGGT
109298077 TTA
1 TTA
109298080 AGGTTTATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (14 bp):
TTATAATTTAGGGT
Found at i:109298128 original size:22 final size:22
Alignment explanation
Indices: 109298075--109298125 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
109298065 ATGATTAAGG
109298075 GTTTAAGGTTTATGAGTTACTA
1 GTTTAAGGTTTATGAGTTACTA
*
109298097 TTTTAAGGTTTATGTA-TTA-TA
1 GTTTAAGGTTTATG-AGTTACTA
109298118 GTTTAAGG
1 GTTTAAGG
109298126 GTTAGGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 9 0.35
22 16 0.62
23 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
GTTTAAGGTTTATGAGTTACTA
Found at i:109298199 original size:282 final size:281
Alignment explanation
Indices: 109297682--109298202 Score: 764
Period size: 282 Copynumber: 1.9 Consensus size: 281
109297672 GATGTACATC
* * * * *
109297682 ATATGTTAAATATTTTCTTATACAATTGTAAAAGAGATAGTATTAATTTTAAAATATTGAATTAA
1 ATATGATAAATATTTTCTTATACAATTGTAAAAAAGATAATATTAATTTAAAAATATTGAATCAA
* *
109297747 TTATCATTATAGTTTAAGGTTTATGATTTAGGGCATATGGTTAAGGGTTTAAGGTTTATGAGTTA
66 TTATCATTATAGTTTAAGGTTTATAATTTAGGGCATATGATTAAGGGTTTAAGGTTTATGAGTTA
* * *
109297812 CTATTTTAAGTTTTATGGATTATAGGTTTAGGGATTATGGTTTAGGGGTTAGGGGTCTAGGACTA
131 CTATTTTAAGGTTTATGGATTATAGGTTTAGGGATTAGGGGTTAGGGGTTAGGGGTCTAGGACTA
*
109297877 AGAGTTTATATTTTAGGATTTAGGATTTAGGGTCTAGGGATTAAGGATTAAGAGTTTAGGGTTTA
196 AGAGTTTATATTTTAGGATTTAGGATTTAGAGTCTAGGGATTAAGGATTAAGAGTTTAGGGTTTA
109297942 GTTAATTAATGTTTTTAATTT
261 GTTAATTAATGTTTTTAATTT
* *
109297963 ATATGATAAATATTTTCTTATATAATTGTAAAAAAGATAATATTAGTTTAAAAATATTGAATCAA
1 ATATGATAAATATTTTCTTATACAATTGTAAAAAAGATAATATTAATTTAAAAATATTGAATCAA
* *
109298028 TTAATCATTATAGTTTAGGGTTTATAATTTAGGGTATATGATTAAGGGTTTAAGGTTTATGAGTT
66 TT-ATCATTATAGTTTAAGGTTTATAATTTAGGGCATATGATTAAGGGTTTAAGGTTTATGAGTT
* * * *
109298093 ACTATTTTAAGGTTTATGTATTATA-GTTTAAGGG-TTAGGGGTTATGGGTTATGGGT-TCAGGG
130 ACTATTTTAAGGTTTATGGATTATAGGTTT-AGGGATTAGGGGTTAGGGGTTAGGGGTCT-AGGA
* *
109298155 TTAATG-GTTTATATTTTAGGATTTTA-GAGTTTAGAGTTTAGGGATTAA
193 CTAA-GAGTTTATATTTTAGGA-TTTAGGA-TTTAGAGTCTAGGGATTAA
109298203 TGGTTTAGAT
Statistics
Matches: 213, Mismatches: 21, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
280 1 0.00
281 105 0.49
282 107 0.50
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (281 bp):
ATATGATAAATATTTTCTTATACAATTGTAAAAAAGATAATATTAATTTAAAAATATTGAATCAA
TTATCATTATAGTTTAAGGTTTATAATTTAGGGCATATGATTAAGGGTTTAAGGTTTATGAGTTA
CTATTTTAAGGTTTATGGATTATAGGTTTAGGGATTAGGGGTTAGGGGTTAGGGGTCTAGGACTA
AGAGTTTATATTTTAGGATTTAGGATTTAGAGTCTAGGGATTAAGGATTAAGAGTTTAGGGTTTA
GTTAATTAATGTTTTTAATTT
Found at i:109298538 original size:17 final size:17
Alignment explanation
Indices: 109298508--109298542 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
109298498 AACATTGATA
109298508 ACAAATAAAAATAAAAT
1 ACAAATAAAAATAAAAT
109298525 ACAAA-AAAATATAAAAT
1 ACAAATAAAA-ATAAAAT
109298542 A
1 A
109298543 GAGGTTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
ACAAATAAAAATAAAAT
Found at i:109301661 original size:35 final size:35
Alignment explanation
Indices: 109301615--109301682 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
109301605 ATGCAACGCC
* *
109301615 GCAAAAATTAGTGGCGTTTTTTTGAAAAAAACGTT
1 GCAAAAATTAGTGGCATTTTTTCGAAAAAAACGTT
109301650 GCAAAAATTAGTGGCATTTTTTCGAAAAAAACG
1 GCAAAAATTAGTGGCATTTTTTCGAAAAAAACG
109301683 CTGCTAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (35 bp):
GCAAAAATTAGTGGCATTTTTTCGAAAAAAACGTT
Found at i:109301740 original size:43 final size:43
Alignment explanation
Indices: 109301678--109301819 Score: 185
Period size: 43 Copynumber: 3.3 Consensus size: 43
109301668 TTTTCGAAAA
* * * *
109301678 AAACGCTGCTAAAGGCCATGACCTTTAGCGACGCTTTTTTCGC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTTCAC
* * *
109301721 AAACACCGCTAAAGACCATGACCTTTAGCGGCATTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTTCAC
** * *
109301764 AAACGTTGCTAAAGATCATGACCTTTAGCGACACTTTTCTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTTCAC
109301807 AAACGCCGCTAAA
1 AAACGCCGCTAAA
109301820 AATAATAATC
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 83 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGACACTTTTTTCAC
Found at i:109302168 original size:17 final size:18
Alignment explanation
Indices: 109302141--109302174 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
109302131 ATGCCAAAAT
109302141 GTTGAACTCCATATTCCA
1 GTTGAACTCCATATTCCA
109302159 GTTG-ACTCCATATTCC
1 GTTGAACTCCATATTCC
109302175 CCCACAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTGAACTCCATATTCCA
Found at i:109302906 original size:5 final size:5
Alignment explanation
Indices: 109302896--109302928 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
109302886 TTTGTGTGTT
*
109302896 TTTTA TTTTA -TTTA TTTTA TTCTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
109302929 TCACAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:109302915 original size:14 final size:15
Alignment explanation
Indices: 109302896--109302928 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
109302886 TTTGTGTGTT
*
109302896 TTTTATTTTA-TTTA
1 TTTTATTCTATTTTA
109302910 TTTTATTCTATTTTA
1 TTTTATTCTATTTTA
109302925 TTTT
1 TTTT
109302929 TCACAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATTCTATTTTA
Found at i:109302923 original size:10 final size:9
Alignment explanation
Indices: 109302897--109302927 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
109302887 TTGTGTGTTT
109302897 TTTATTTTA
1 TTTATTTTA
109302906 TTTATTTTA
1 TTTATTTTA
109302915 TTCTATTTTA
1 TT-TATTTTA
109302925 TTT
1 TTT
109302928 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTTA
Found at i:109307285 original size:5 final size:5
Alignment explanation
Indices: 109307275--109307307 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
109307265 TTTGTGTGTT
*
109307275 TTTTA TTTTA TTTTA -TTTA TTCTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
109307308 TCACAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:109307295 original size:14 final size:14
Alignment explanation
Indices: 109307276--109307306 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109307266 TTGTGTGTTT
*
109307276 TTTATTTTATTTTA
1 TTTATTCTATTTTA
109307290 TTTATTCTATTTTA
1 TTTATTCTATTTTA
109307304 TTT
1 TTT
109307307 TTCACAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTCTATTTTA
Found at i:109307742 original size:26 final size:26
Alignment explanation
Indices: 109307713--109307765 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
109307703 TTTACAGTTT
109307713 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
109307739 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
109307765 T
1 T
109307766 GCATGTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:109310060 original size:43 final size:43
Alignment explanation
Indices: 109310012--109310109 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
109310002 TTTCATGACT
* * *
109310012 TTTAGCGGCGTTT-TTGAGAAAAGCGCCGCTAAAGGTCGTGATC
1 TTTAGCGGCGTTTGTAG-GAAAAGCACAGCTAAAGGTCGTGATC
*
109310055 TTTAGCAGCGTTTGTAGGAAAAGCACAGCTAAAGGTCGTGATC
1 TTTAGCGGCGTTTGTAGGAAAAGCACAGCTAAAGGTCGTGATC
109310098 TTTAGCGGCGTT
1 TTTAGCGGCGTT
109310110 CCGCTAAAGG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTAGGAAAAGCACAGCTAAAGGTCGTGATC
Found at i:109310118 original size:30 final size:30
Alignment explanation
Indices: 109310082--109310139 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
109310072 GAAAAGCACA
109310082 GCTAAAGGTCGTGATCTTTAGCGGCGTTCC
1 GCTAAAGGTCGTGATCTTTAGCGGCGTTCC
*
109310112 GCTAAAGGTCGTGATCTTTAGTGGCGTT
1 GCTAAAGGTCGTGATCTTTAGCGGCGTT
109310140 TGTGGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (30 bp):
GCTAAAGGTCGTGATCTTTAGCGGCGTTCC
Found at i:109310160 original size:73 final size:73
Alignment explanation
Indices: 109310037--109310182 Score: 224
Period size: 73 Copynumber: 2.0 Consensus size: 73
109310027 GAGAAAAGCG
*
109310037 CCGCTAAAGGTCGTGATCTTTAGCAGCGTTTGTAGGAAAAGCACAGCTAAAGGTCGTGATCTTTA
1 CCGCTAAAGGTCGTGATCTTTAGCAGCGTTTGTAGGAAAAGCACAGCTAAAGGTCATGATCTTTA
109310102 GCGGCGTT
66 GCGGCGTT
** *
109310110 CCGCTAAAGGTCGTGATCTTTAGTGGCGTTTGT-GGAAAAAGCGCCA-CTAAAGGTCATGATCTT
1 CCGCTAAAGGTCGTGATCTTTAGCAGCGTTTGTAGG-AAAAGC-ACAGCTAAAGGTCATGATCTT
109310173 TAGCGGCGTT
64 TAGCGGCGTT
109310183 TTTTCAAATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
72 2 0.03
73 63 0.94
74 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (73 bp):
CCGCTAAAGGTCGTGATCTTTAGCAGCGTTTGTAGGAAAAGCACAGCTAAAGGTCATGATCTTTA
GCGGCGTT
Found at i:109317667 original size:3 final size:3
Alignment explanation
Indices: 109317659--109317784 Score: 77
Period size: 3 Copynumber: 43.0 Consensus size: 3
109317649 AAAAACATAC
* *
109317659 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA -AA GCTAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA
* ** *
109317705 TAA TAA TAC TATA TAA T-A TAA T-A TATA TAA GCA TCA -AA TAA -AA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * *
109317748 TAA TAA TAA T-A GAA CAC TAA TAA AAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
109317785 CAGTAATAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
2 12 0.13
3 77 0.81
4 5 0.05
5 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:109317786 original size:23 final size:25
Alignment explanation
Indices: 109317744--109317794 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
109317734 AGCATCAAAT
109317744 AAAATAATAATAATAGAACACTAATA
1 AAAATAATAATAATA-AACACTAATA
*
109317770 AAAAT-ATAATAAT-AACAGTAATA
1 AAAATAATAATAATAAACACTAATA
109317793 AA
1 AA
109317795 TGTAATAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATAATAATAATAAACACTAATA
Found at i:109319320 original size:44 final size:44
Alignment explanation
Indices: 109319265--109319826 Score: 420
Period size: 44 Copynumber: 12.9 Consensus size: 44
109319255 ATCTATTCCT
*
109319265 TACTGCTTAGGGGATTAAGATCTTGTAAATTCAGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAATTCAGCCTGTTACCC
*
109319309 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAATTCAGCCTGTTACCC
*
109319353 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAATTCAGCCTGTTACCC
* **** ** * *
109319397 TACTGCTTAGGGGTTTAA-AGCCCACCACCTTC-GATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGA-TCTTGTAAATTCAG-CCTGTTACCC
* *
109319441 TACTGCTTAGGGGGTTAAGATC-TGTAAATTTAGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAATTCAGCCTGTTACCC
** * * ** * *
109319484 TACTGCTTAGGGGTTTAAGGCCCAT-CACCTTC-GACCTATTTCCC
1 TACTGCTTAGGGGTTTAA-GATCTTGTAAATTCAG-CCTGTTACCC
*
109319528 TACTGCTTAAGGGG-TTAAGATCTTGTAAATTCAACCTGTTACCC
1 TACTGCTT-AGGGGTTTAAGATCTTGTAAATTCAGCCTGTTACCC
* * * *
109319572 TACTACTTAGGGGTTTAA-AGTCCATTG--ACTTC-GATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGA-T-C-TTGTAAATTCAG-CCTGTTACCC
* * * *
109319616 TACTACTTAGGGGGTTAAGAT-TTCTAAATTTAGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAATTCAGCCTGTTACCC
** * * * *
109319659 TACTGCTTAGGGGTTTAAGGCCCATCGT--CTTC-GATCTGTTTCCC
1 TACTGCTTAGGGGTTTAA-GATC-TTGTAAATTCAG-CCTGTTACCC
** * * *
109319703 TACTGCTTAGGGGGGTGAGATC-TGTAAATTTACCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAATTCAGCCTGTTACCC
* * ** ** *
109319746 TACTGCTTAGGGGTTTAAGACTCAT-CATCTTCAATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGA-TCTTGTAAATTCAGCCTGTTACCC
* * *
109319790 TATTGCTTAGGGGGTTAAGATC-TGTAAATTTAGCCTG
1 TACTGCTTAGGGGTTTAAGATCTTGTAAATTCAGCCTG
109319827 CTCCACTGTA
Statistics
Matches: 399, Mismatches: 90, Indels: 59
0.73 0.16 0.11
Matches are distributed among these distances:
41 4 0.01
42 1 0.00
43 106 0.27
44 273 0.68
45 10 0.03
46 5 0.01
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (44 bp):
TACTGCTTAGGGGTTTAAGATCTTGTAAATTCAGCCTGTTACCC
Found at i:109319501 original size:175 final size:174
Alignment explanation
Indices: 109319210--109319826 Score: 791
Period size: 175 Copynumber: 3.5 Consensus size: 174
109319200 TATAATTTTT
* * * *
109319210 AGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCT-ATTCCTTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
* * ** *
109319274 GGGGATTAAGATCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA-GATCTTGTAAA
66 GGGGGTTAAGATC-TGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTGT-AC
* * *
109319338 ATC-AGCCTGTTACCCTACTGCTTAGGGGTTTAAGATCTTGTAAAATC
129 TTCGA-CCTGTTTCCCTACTGCTTAGGGG-TTAAGATCTTGTAAATTC
*
109319385 AGCCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCACCACCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
* *
109319450 GGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-CACCT
66 GGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTGTA-CT
*
109319514 TCGACCTATTTCCCTACTGCTTAAGGGGTTAAGATCTTGTAAATTC
130 TCGACCTGTTTCCCTACTGCTT-AGGGGTTAAGATCTTGTAAATTC
* * * * *
109319560 AACCTGTTACCCTACTACTTAGGGGTTTAAAGTCCATTGA-CTTCGATCTGTTTCCCTACTACTT
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCA-TCACCTTCGATCTGTTTCCCTACTGCTT
* * *
109319624 AGGGGGTTAAGATTTCTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGT-C
65 AGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCC-TTGTAC
* * * *
109319688 TTCGATCTGTTTCCCTACTGCTTAGGGGGGTGAGATC-TGTAAATTT
129 TTCGACCTGTTTCCCTACTGCTTA-GGGGTTAAGATCTTGTAAATTC
* * * * *
109319734 ACCCTGTTACCCTACTGCTTAGGGGTTT-AAGACTCATCATCTTCAATCTGTTTCCCTATTGCTT
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAAG-CCCATCACCTTCGATCTGTTTCCCTACTGCTT
109319798 AGGGGGTTAAGATCTGTAAATTTAGCCTG
65 AGGGGGTTAAGATCTGTAAATTTAGCCTG
109319827 CTCCACTGTA
Statistics
Matches: 389, Mismatches: 42, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
173 5 0.01
174 86 0.22
175 263 0.68
176 35 0.09
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (174 bp):
AGCCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCATCACCTTCGATCTGTTTCCCTACTGCTTA
GGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTGTACTT
CGACCTGTTTCCCTACTGCTTAGGGGTTAAGATCTTGTAAATTC
Found at i:109319507 original size:87 final size:87
Alignment explanation
Indices: 109319207--109319826 Score: 789
Period size: 87 Copynumber: 7.1 Consensus size: 87
109319197 ATCTATAATT
* * *
109319207 TTTAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCT-ATTCCTTACTGC
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGC
*
109319271 TTAGGGGATTAAGATCTTGTAAA
66 TTAGGGGGTTAAGATC-TGTAAA
* ** * * *** * *
109319294 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAA-GATCTTGTAAAATC-AGCCTGTTACCCTACT
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-CACCTTCGA-TCTGTTTCCCTACT
*
109319357 GCTTAGGGGTTTAAGATCTTGTAAA
64 GCTTAGGGGGTTAAGATC-TGTAAA
* * * *
109319382 ATCAGCCTGTTACCCTACTGCTTAGGGGTTTAAAGCCCACCACCTTCGATCTGTTTCCCTACTGC
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGC
109319447 TTAGGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
* *
109319469 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGACCTATTTCCCTACTGC
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGC
*
109319534 TTAAGGGGTTAAGATCTTGTAAA
66 TTAGGGGGTTAAGATC-TGTAAA
* * * * * * *
109319557 TTCAACCTGTTACCCTACTACTTAGGGGTTTAAAGTCCATTGA-CTTCGATCTGTTTCCCTACTA
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCA-TCACCTTCGATCTGTTTCCCTACTG
* *
109319621 CTTAGGGGGTTAAGATTTCTAAA
65 CTTAGGGGGTTAAGATCTGTAAA
**
109319644 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGC
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGC
* *
109319709 TTAGGGGGGTGAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
* * * * * *
109319731 TTTACCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCATCTTCAATCTGTTTCCCTATTGC
1 TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGC
109319796 TTAGGGGGTTAAGATCTGTAAA
66 TTAGGGGGTTAAGATCTGTAAA
109319818 TTTAGCCTG
1 TTTAGCCTG
109319827 CTCCACTGTA
Statistics
Matches: 459, Mismatches: 66, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
86 5 0.01
87 281 0.61
88 168 0.37
89 5 0.01
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (87 bp):
TTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGTTTCCCTACTGC
TTAGGGGGTTAAGATCTGTAAA
Found at i:109319907 original size:43 final size:44
Alignment explanation
Indices: 109319824--109319915 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
109319814 TAAATTTAGC
* * *
109319824 CTGCTCCACTGTAACTTCAAGGAGATGAGACTTGTAACTTCAGT
1 CTGCTCCACTGTAACTTCAAGGAGATAAGACTAGTAACTTCAAT
* * * *
109319868 CTGCTCCACTG-CACTTCAGGGAGATAAGGCTAGTGACTTCAAT
1 CTGCTCCACTGTAACTTCAAGGAGATAAGACTAGTAACTTCAAT
109319911 CTGCT
1 CTGCT
109319916 TCGCTGAGGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 30 0.73
44 11 0.27
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGTAACTTCAAGGAGATAAGACTAGTAACTTCAAT
Found at i:109332172 original size:27 final size:26
Alignment explanation
Indices: 109332125--109332176 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
109332115 AGTTATTATT
* * *
109332125 AAAAATATATACGTAAGATAATATAA
1 AAAAATATAAAAGTAACATAATATAA
109332151 AAAAATATAAAAGTATACATAATATA
1 AAAAATATAAAAGTA-ACATAATATA
109332177 TTACTAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (26 bp):
AAAAATATAAAAGTAACATAATATAA
Found at i:109332424 original size:3 final size:3
Alignment explanation
Indices: 109332416--109332457 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
109332406 AAACATACTG
*
109332416 ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
109332458 TTATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:109332534 original size:17 final size:17
Alignment explanation
Indices: 109332514--109332570 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
109332504 ATAAGCATCA
109332514 AATAAAATAATAATAAT
1 AATAAAATAATAATAAT
* * * *
109332531 AATAGAACACTAATAAA
1 AATAAAATAATAATAAT
* * *
109332548 AATATAATAATAACAGT
1 AATAAAATAATAATAAT
109332565 AATAAA
1 AATAAA
109332571 TGTAATAGCA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAAAATAATAATAAT
Found at i:109332551 original size:23 final size:23
Alignment explanation
Indices: 109332519--109332570 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
109332509 CATCAAATAA
*
109332519 AATAATAATAATAAT-AGAACACT
1 AATAAAAAT-ATAATAAGAACACT
* *
109332542 AATAAAAATATAATAATAACAGT
1 AATAAAAATATAATAAGAACACT
109332565 AATAAA
1 AATAAA
109332571 TGTAATAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (23 bp):
AATAAAAATATAATAAGAACACT
Found at i:109335379 original size:20 final size:19
Alignment explanation
Indices: 109335354--109335396 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
109335344 AGAAATGTAT
109335354 GTATTTTTGAAATATTAATG
1 GTATTTTTGAAA-ATTAATG
**
109335374 GTATTTTTTTAAATTAATG
1 GTATTTTTGAAAATTAATG
109335393 GTAT
1 GTAT
109335397 ATATTTAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
GTATTTTTGAAAATTAATG
Found at i:109335403 original size:19 final size:19
Alignment explanation
Indices: 109335367--109335404 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
109335357 TTTTTGAAAT
* *
109335367 ATTAATGGTATTTTTTTAA
1 ATTAATGGTATATATTTAA
109335386 ATTAATGGTATATATTTAA
1 ATTAATGGTATATATTTAA
109335405 TGTACGAAAC
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:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (19 bp):
ATTAATGGTATATATTTAA
Found at i:109337128 original size:153 final size:153
Alignment explanation
Indices: 109336827--109337120 Score: 351
Period size: 153 Copynumber: 1.9 Consensus size: 153
109336817 TCTAAGGGAC
* *
109336827 TGCAATCTTTGTGAAGGAGATATTCCACGTGATATTTCTGGTCTATCCTCTTTGTGGTGTCTTGA
1 TGCAATCTTGGTGAAGGAGATATTCCACGTGATATTTCTGGTCTATCCTCTTTGTGATGTCTTGA
* * * * ***
109336892 TCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCGAAGCTTGGATGTC
66 TCTTAGTGGTAACAATTTCATCACCATACCTGCAGCTCTTACTCAACTCTCCAAGCTCAAATGTC
*
109336957 TTATATTGTCAAATTGCAACATG
131 TTAAATTGTCAAATTGCAACATG
* * * *
109336980 TGCACTCTTGGTGAAGTAGATCTTCCTA-GTGATCTTTCTGGTCTATCCTCTTTGAT-ATGTCTT
1 TGCAATCTTGGTGAAGGAGATATTCC-ACGTGATATTTCTGGTCTATCCTCTTTG-TGATGTCTT
* * *** * *
109337043 GATCTTAGTGGTAAGAATTTCATCACCATTCCTTTGGCTCTTACTCAACTTTCCAGGCTCAAAT-
64 GATCTTAGTGGTAACAATTTCATCACCATACCTGCAGCTCTTACTCAACTCTCCAAGCTCAAATG
109337107 TGCTTAAATTGTCA
129 T-CTTAAATTGTCA
109337121 GGTTGCAAGA
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
152 1 0.01
153 114 0.97
154 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (153 bp):
TGCAATCTTGGTGAAGGAGATATTCCACGTGATATTTCTGGTCTATCCTCTTTGTGATGTCTTGA
TCTTAGTGGTAACAATTTCATCACCATACCTGCAGCTCTTACTCAACTCTCCAAGCTCAAATGTC
TTAAATTGTCAAATTGCAACATG
Found at i:109341491 original size:3 final size:3
Alignment explanation
Indices: 109341478--109341805 Score: 102
Period size: 3 Copynumber: 107.0 Consensus size: 3
109341468 TAAAAACCTT
* * *
109341478 TAA TGA TAA TAA TATA TAGA TAA AAA TGTA TAA TAA T-A TAA -AA -AA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
109341523 TGACA TAA TAA TATA TAA TAA -AA TAA TTA TAA TATA TAA T-A TAA -AA
1 T-A-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
*
109341569 GTATA TATG TAA -AA -AA TAA TATA TAA TATA TAA -AA TAA TTAA TAAA
1 -TA-A TA-A TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA -TAA T-AA
* * *
109341615 TATA TAA -AA CAA GTAA AAA T-A TAA TAA TAA TATA TAAA TAA TAA T-G
1 TA-A TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA
** *
109341661 TAA -AA TAA TAA TAA TTTG TGAA AAA TAA TATA TAA TAAA TAA TAA T-A
1 TAA TAA TAA TAA TAA -TAA T-AA TAA TAA TA-A TAA T-AA TAA TAA TAA
* *
109341708 TAAA TAA TATA TAA TAA -AA TAA TTA T-A TAA TATA TAA T-A TAA AAA
1 T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
*** * * *
109341753 TAA CGT TAA AAA TAA -AA CAAA TAA CAA T-A TAA T-A TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TAA
109341797 TAA TAA TAA
1 TAA TAA TAA
109341806 ATATATAGGG
Statistics
Matches: 246, Mismatches: 36, Indels: 86
0.67 0.10 0.23
Matches are distributed among these distances:
2 39 0.16
3 140 0.57
4 63 0.26
5 4 0.02
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:109341605 original size:19 final size:19
Alignment explanation
Indices: 109341527--109341749 Score: 127
Period size: 20 Copynumber: 11.2 Consensus size: 19
109341517 AAAAAATGAC
109341527 ATAATA-AT-ATATAATAAA
1 ATAATATATAATAT-ATAAA
*
109341545 ATAAT-TATAATATATAAT
1 ATAATATATAATATATAAA
* * *
109341563 ATAAAAGTATATATGTAAAAA
1 ATAATA-TATA-ATATATAAA
109341584 ATAATATATAATATATAAA
1 ATAATATATAATATATAAA
109341603 ATAAT-TAATAAATATATAAA
1 ATAATAT-AT-AATATATAAA
* *
109341623 ACAAGTA-AAAATATAATAATA
1 ATAA-TATATAATAT-ATAA-A
* *
109341644 ATATATAAATAATAATGTAAA
1 ATA-ATATATAAT-ATATAAA
* *
109341665 ATAATA-ATAATTTGTGAAAA
1 ATAATATATAATATAT--AAA
*
109341685 ATAATATATAATAAATAATA
1 ATAATATATAATATATAA-A
*
109341705 AT-ATAAATAATATATAATAAA
1 ATAATATAT-A-ATAT-ATAAA
*
109341726 ATAATTATATAATATATAAT
1 ATAA-TATATAATATATAAA
109341746 ATAA
1 ATAA
109341750 AAATAACGTT
Statistics
Matches: 161, Mismatches: 21, Indels: 44
0.71 0.09 0.19
Matches are distributed among these distances:
18 19 0.12
19 35 0.22
20 50 0.31
21 37 0.23
22 14 0.09
23 6 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATAATATATAATATATAAA
Found at i:109341617 original size:101 final size:103
Alignment explanation
Indices: 109341485--109341746 Score: 253
Period size: 101 Copynumber: 2.6 Consensus size: 103
109341475 CTTTAATGAT
*
109341485 AATAATATATAGATAAA-AAT-GTA-TAAT-AATATAAAAAATGACA-TAATAATATATAATAA-
1 AATAATATATA-ATAAATAATAATATTAATAAATATAAAAAAT-A-AGTAATAATATATAATAAT
* *
109341544 AATA-AT-TATAAT-ATATAATATAA-AAGTATATATGTAAAA
63 AATATATAAATAATAATATAAAATAATAA-TA-ATATGTAAAA
* * *
109341583 AATAATATATAATATATAA-AATAATTAATAAATATATAAAACAAGTAA-AA-ATATAATAATAA
1 AATAATATATAATAAATAATAAT-ATTAATAAATATAAAAAATAAGTAATAATATATAATAATAA
* * *
109341645 TATATAAATAATAATGTAAAATAATAATAATTTGTGAAA
65 TATATAAATAATAATATAAAATAATAATAATATGTAAAA
* *
109341684 AATAATATATAATAAATAATAATATAAATAATATATAATAAAATAATTATATAATATATAATA
1 AATAATATATAATAAATAATAATATTAATAA-ATATAA-AAAATAAGTA-ATAATATATAATA
109341747 TAAAAATAAC
Statistics
Matches: 133, Mismatches: 14, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
97 4 0.03
98 23 0.17
99 8 0.06
100 10 0.08
101 48 0.36
102 19 0.14
103 10 0.08
104 1 0.01
105 2 0.02
106 8 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (103 bp):
AATAATATATAATAAATAATAATATTAATAAATATAAAAAATAAGTAATAATATATAATAATAAT
ATATAAATAATAATATAAAATAATAATAATATGTAAAA
Found at i:109341629 original size:58 final size:61
Alignment explanation
Indices: 109341484--109341751 Score: 163
Period size: 61 Copynumber: 4.3 Consensus size: 61
109341474 CCTTTAATGA
*
109341484 TAAT-AATATATAGATA-AAAATGTATAATAATATAAAAAATGACATAATAAT-ATATAATAAAA
1 TAATAAATATATA-ATATAAAA-GTA-AA-AATAT-AATAAT-A-ATAATAATAATAT-ATAAAA
109341546 TAAT
58 TAAT
* * *
109341550 T-AT-AATATATAATATAAAAGTATATATGTAA-AA-AATAATATATAATATATAAAATAAT
1 TAATAAATATATAATATAAAAGTAAAAATATAATAATAATAATA-ATAATATATAAAATAAT
* *
109341608 TAATAAATATATAA-A-ACAAGTAAAAATATAATAATAATATATAAATAATAATGTAAAATAA-
1 TAATAAATATATAATATAAAAGTAAAAATATAATAATAATA-AT-AATAAT-ATATAAAATAAT
* * * *
109341669 TAAT-AATTTGTGAAAAATAATATA-TAATAA-ATAATAAT-ATAAATAAT-ATATAATAAAATA
1 TAATAAATATAT--AATATAA-A-AGTAAAAATATAATAATAAT-AATAATAATAT-ATAAAATA
109341729 AT
60 AT
109341731 T-ATATAATATATAATATAAAA
1 TAATA-AATATATAATATAAAA
109341752 ATAACGTTAA
Statistics
Matches: 165, Mismatches: 16, Indels: 49
0.72 0.07 0.21
Matches are distributed among these distances:
57 6 0.04
58 26 0.16
59 10 0.06
60 23 0.14
61 31 0.19
62 20 0.12
63 11 0.07
64 16 0.10
65 20 0.12
66 2 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (61 bp):
TAATAAATATATAATATAAAAGTAAAAATATAATAATAATAATAATAATATATAAAATAAT
Found at i:109341669 original size:30 final size:30
Alignment explanation
Indices: 109341483--109341806 Score: 95
Period size: 28 Copynumber: 10.9 Consensus size: 30
109341473 ACCTTTAATG
* * * *
109341483 ATAATAATATATAGATAAAAATGTATAATA
1 ATAATAATATATAAATAATAATATAAAATA
* * * *
109341513 AT-ATAAAAAATGACATAATAATATATAATA
1 ATAATAATATAT-AAATAATAATATAAAATA
109341543 A-AATAAT-TAT-AATATATAATATAAAAGT-
1 ATAATAATATATAAATA-ATAATATAAAA-TA
* *
109341571 AT-AT-ATGTA-AAA-AATAATATATAATA
1 ATAATAATATATAAATAATAATATAAAATA
* *
109341597 TATAA-AATA-ATTAATAA-ATATATAAAACA
1 -ATAATAATATATAAATAATA-ATATAAAATA
109341626 AGTAA-AA-ATAT-AATAATAATATATAAATA
1 A-TAATAATATATAAATAATAATATA-AAATA
* *
109341655 ATAATGTAA-A-AT-AATAATAATTTGTGAAA-A
1 ATAA--TAATATATAAATAATAA--TATAAAATA
109341685 ATAAT-ATATAATAAATAATAATAT-AAATA
1 ATAATAATAT-ATAAATAATAATATAAAATA
* *
109341714 ATATATAATAAAATAATTATATAATATATAATATA
1 ATA-ATAAT-ATATAAATA-ATAATATA-AA-ATA
* **
109341749 AAAATAACGT-TAAA-AATAA-A-ACAAATA
1 ATAATAATATATAAATAATAATATA-AAATA
*
109341776 ACAATATAATATATATAATAATAATAATAAA
1 A-TA-ATAATATATA-AATAATAAT-ATAAA
109341807 TATATAGGGT
Statistics
Matches: 223, Mismatches: 28, Indels: 82
0.67 0.08 0.25
Matches are distributed among these distances:
25 1 0.00
26 10 0.04
27 14 0.06
28 48 0.22
29 45 0.20
30 47 0.21
31 25 0.11
32 18 0.08
34 9 0.04
35 6 0.03
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
ATAATAATATATAAATAATAATATAAAATA
Found at i:109341795 original size:20 final size:20
Alignment explanation
Indices: 109341772--109341812 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
109341762 AAATAAAACA
109341772 AATAACAAT-ATAATATATAT
1 AATAACAATAATAA-ATATAT
*
109341792 AATAATAATAATAAATATAT
1 AATAACAATAATAAATATAT
109341812 A
1 A
109341813 GGGTTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AATAACAATAATAAATATAT
Found at i:109343973 original size:26 final size:26
Alignment explanation
Indices: 109343944--109344025 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
109343934 TGATACAAAT
*
109343944 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109343970 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109343996 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
109344022 TGAT
1 TGAT
109344026 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:109345536 original size:26 final size:26
Alignment explanation
Indices: 109345507--109345559 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
109345497 TTTACAGTTT
*
109345507 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
109345533 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
109345559 T
1 T
109345560 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:109347296 original size:52 final size:52
Alignment explanation
Indices: 109347188--109347356 Score: 215
Period size: 52 Copynumber: 3.3 Consensus size: 52
109347178 ACTAGTGACT
*
109347188 CAAGTTTGGTACTATGTGAAGGCCAC--T-TGAAGAAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAA-AGATAGCTTTGGTCA
*
109347237 CAAGTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* * **
109347289 CAGGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTT-CACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
*
109347340 CAAGGGTGGTACTATGT
1 CAAGTGTGGTACTATGT
109347357 ACAGACCACT
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
49 24 0.23
50 1 0.01
51 34 0.32
52 47 0.44
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:109349633 original size:19 final size:19
Alignment explanation
Indices: 109349609--109349706 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
109349599 AATCTTTAAG
*
109349609 GATATGCAATCTTAGATCT
1 GATATGCAATCTTAGATAT
*
109349628 GATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
109349647 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
109349664 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
109349683 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
109349704 GAT
1 GAT
109349707 CTTGTAATCT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
17 16 0.23
19 45 0.64
21 9 0.13
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:109349656 original size:36 final size:37
Alignment explanation
Indices: 109349609--109349706 Score: 126
Period size: 36 Copynumber: 2.6 Consensus size: 37
109349599 AATCTTTAAG
* *
109349609 GATATGCAATCTTAGATCTGATATGCAATATTAGATAT
1 GATA-GCAATCTTAGATATGATATGAAATATTAGATAT
*
109349647 GATA-CAATCTTAGATATGATATGAAATCTTAGATAT
1 GATAGCAATCTTAGATATGATATGAAATATTAGATAT
109349683 GATATGCAATCTTGAAGATATGAT
1 GATA-GCAATCTT--AGATATGAT
109349707 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
36 33 0.62
38 11 0.21
40 9 0.17
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (37 bp):
GATAGCAATCTTAGATATGATATGAAATATTAGATAT
Found at i:109351490 original size:25 final size:27
Alignment explanation
Indices: 109351453--109351505 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
109351443 TCAAACATGC
109351453 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
109351479 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
109351505 A
1 A
109351506 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:109353020 original size:32 final size:32
Alignment explanation
Indices: 109352983--109353047 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
109352973 AATGCTTACC
109352983 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
109353015 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
109353047 A
1 A
109353048 AATACATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:109354091 original size:29 final size:29
Alignment explanation
Indices: 109354049--109354107 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
109354039 ACTAGGTTGC
*
109354049 TTCTGGTGGGTAGCAATAAGTGATGTAGT
1 TTCTGGTAGGTAGCAATAAGTGATGTAGT
109354078 TTCTGGTAGGTAGCAATAAGTGATGTAGT
1 TTCTGGTAGGTAGCAATAAGTGATGTAGT
109354107 T
1 T
109354108 GGCTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.32, T:0.36
Consensus pattern (29 bp):
TTCTGGTAGGTAGCAATAAGTGATGTAGT
Found at i:109354627 original size:16 final size:16
Alignment explanation
Indices: 109354606--109354636 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109354596 AGACAGTAAG
*
109354606 CAAAGTGCGAGCCTGC
1 CAAAGTGAGAGCCTGC
109354622 CAAAGTGAGAGCCTG
1 CAAAGTGAGAGCCTG
109354637 TTGAATTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.26, G:0.32, T:0.13
Consensus pattern (16 bp):
CAAAGTGAGAGCCTGC
Found at i:109354693 original size:44 final size:44
Alignment explanation
Indices: 109354660--109354750 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 44
109354650 TGAAGTGGCG
*
109354660 GACAGTCTAAATGCAAGCCCGAGTGGGTGCAAGCCAAAGAGGCA
1 GACAGTCTAAATGCAAGCCCGAGAGGGTGCAAGCCAAAGAGGCA
** *
109354704 GACAGTCTAAATGCAAGCTTGAGAGGGTGCAAGCCAAAAATGGCA
1 GACAGTCTAAATGCAAGCCCGAGAGGGTGCAAGCCAAAGA-GGCA
109354749 GA
1 GA
109354751 TTGAAGGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 36 0.86
45 6 0.14
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.13
Consensus pattern (44 bp):
GACAGTCTAAATGCAAGCCCGAGAGGGTGCAAGCCAAAGAGGCA
Found at i:109356993 original size:25 final size:25
Alignment explanation
Indices: 109356955--109357002 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
109356945 AATGTATGTA
109356955 TTTTTGAAATATTAATGGTATATTT
1 TTTTTGAAATATTAATGGTATATTT
*
109356980 TTTTGTGAAA-ATTAATGTTATAT
1 TTTT-TGAAATATTAATGGTATAT
109357003 ATTTAATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (25 bp):
TTTTTGAAATATTAATGGTATATTT
Found at i:109361560 original size:26 final size:27
Alignment explanation
Indices: 109361510--109361560 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
109361500 AGTTAATAAA
* *
109361510 TTCTCTCTGAGTTTTTTTTTCAAGAAT
1 TTCTCTCTGAGTTTCTTTTACAAGAAT
*
109361537 TTCTCT-TGAGTTTCTTTTAGAAGA
1 TTCTCTCTGAGTTTCTTTTACAAGA
109361561 GTTTTAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (27 bp):
TTCTCTCTGAGTTTCTTTTACAAGAAT
Found at i:109361731 original size:12 final size:12
Alignment explanation
Indices: 109361714--109361743 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
109361704 CGCCACGTTC
*
109361714 TATCTTTTCATT
1 TATCTTTCCATT
109361726 TATCTTTCCATT
1 TATCTTTCCATT
109361738 TATCTT
1 TATCTT
109361744 CTTTATTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:109370865 original size:22 final size:21
Alignment explanation
Indices: 109370824--109370867 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
109370814 GAGTTTTTAG
*
109370824 AAATAATTAATATATGTAATA
1 AAATAATTAATATATATAATA
109370845 AAATACATTACATA-ATATAATA
1 AAATA-ATTA-ATATATATAATA
109370867 A
1 A
109370868 TTCAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATAATTAATATATATAATA
Found at i:109371092 original size:27 final size:25
Alignment explanation
Indices: 109371053--109371105 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
109371043 AATAAAAATG
* *
109371053 ATATAATATAATAATTTACATATATAA
1 ATATAATAAAATAA-ATA-ATATATAA
*
109371080 ATATAGTAAAATAAATAATATATAA
1 ATATAATAAAATAAATAATATATAA
109371105 A
1 A
109371106 GTAAAATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 2 0.09
27 12 0.52
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
ATATAATAAAATAAATAATATATAA
Found at i:109374886 original size:13 final size:13
Alignment explanation
Indices: 109374868--109374892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109374858 GATAAATAAA
109374868 AGTCCATTTATAC
1 AGTCCATTTATAC
109374881 AGTCCATTTATA
1 AGTCCATTTATA
109374893 GGTCCAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (13 bp):
AGTCCATTTATAC
Found at i:109376169 original size:16 final size:17
Alignment explanation
Indices: 109376148--109376182 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
109376138 AAAAATTGTT
109376148 TTACTTTTC-TATATTA
1 TTACTTTTCATATATTA
109376164 TTACTTTTCATATATTA
1 TTACTTTTCATATATTA
109376181 TT
1 TT
109376183 TCATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
TTACTTTTCATATATTA
Found at i:109381410 original size:4 final size:4
Alignment explanation
Indices: 109381401--109381964 Score: 1119
Period size: 4 Copynumber: 141.0 Consensus size: 4
109381391 TACGGATATA
109381401 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
109381449 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT ATAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381497 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381545 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381593 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381641 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381689 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381737 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381785 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381833 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381881 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381929 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
109381965 ATGAGAAACG
Statistics
Matches: 558, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 558 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:109383110 original size:36 final size:36
Alignment explanation
Indices: 109383059--109383132 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
109383049 AGAAATTGTC
*
109383059 GATAGTTTGGGTTGAGATGCTCGTTCTTGGGTAAAG
1 GATAGTTTGGGTTGAGATGCTCGTTATTGGGTAAAG
*
109383095 GATAGTTTGGTTTGAGATGCTCGTTATTGGGTAAAG
1 GATAGTTTGGGTTGAGATGCTCGTTATTGGGTAAAG
109383131 GA
1 GA
109383133 ATAATGAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.07, G:0.35, T:0.36
Consensus pattern (36 bp):
GATAGTTTGGGTTGAGATGCTCGTTATTGGGTAAAG
Found at i:109383468 original size:20 final size:20
Alignment explanation
Indices: 109383443--109383487 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
109383433 CTCACATAAA
109383443 ATGAAAACGTAATGTCTATG
1 ATGAAAACGTAATGTCTATG
109383463 ATGAAAACGTAATGTCTATG
1 ATGAAAACGTAATGTCTATG
109383483 ATGAA
1 ATGAA
109383488 GCAGGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (20 bp):
ATGAAAACGTAATGTCTATG
Found at i:109384063 original size:14 final size:16
Alignment explanation
Indices: 109384025--109384065 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
109384015 CGAGAATAGG
109384025 TTTTTAATTAAATAAA
1 TTTTTAATTAAATAAA
109384041 TTTAATTAATT-AA-AAA
1 TTT--TTAATTAAATAAA
109384057 TTTTTAATT
1 TTTTTAATT
109384066 TATTACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.26
16 9 0.39
17 2 0.09
18 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTTTAATTAAATAAA
Found at i:109384187 original size:19 final size:19
Alignment explanation
Indices: 109384165--109384226 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
109384155 TCCAAGTTAG
109384165 AAATTCAAGTTGTCATTTA
1 AAATTCAAGTTGTCATTTA
* * *
109384184 AAA-TCAATTTGGACAGTTA
1 AAATTCAAGTT-GTCATTTA
*
109384203 GAAGTTCAAGTTGTCATTTA
1 -AAATTCAAGTTGTCATTTA
109384223 AAAT
1 AAAT
109384227 CAATTTGGAC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 6 0.19
19 12 0.38
20 8 0.25
21 6 0.19
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
AAATTCAAGTTGTCATTTA
Found at i:109384202 original size:39 final size:39
Alignment explanation
Indices: 109384159--109384236 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
109384149 TTCTTATCCA
109384159 AGTTAGAAATTCAAGTTGTCATTTAAAATCAATTTGGAC
1 AGTTAGAAATTCAAGTTGTCATTTAAAATCAATTTGGAC
*
109384198 AGTTAGAAGTTCAAGTTGTCATTTAAAATCAATTTGGAC
1 AGTTAGAAATTCAAGTTGTCATTTAAAATCAATTTGGAC
109384237 TGCCACGTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (39 bp):
AGTTAGAAATTCAAGTTGTCATTTAAAATCAATTTGGAC
Found at i:109384381 original size:31 final size:29
Alignment explanation
Indices: 109384313--109384381 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
109384303 ACAGTAACGT
* *
109384313 AAGTGACTAAAATGTAGTATTTCAAACAT
1 AAGTGACTAAAATGTAATATTTCAAACAA
*
109384342 AAGCGACTAAAATGTAAT-TTGTGGCAAACAA
1 AAGTGACTAAAATGTAATATT-T--CAAACAA
109384373 AAGTGACTA
1 AAGTGACTA
109384382 TTTTTATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
31 14 0.42
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (29 bp):
AAGTGACTAAAATGTAATATTTCAAACAA
Found at i:109389971 original size:153 final size:153
Alignment explanation
Indices: 109389708--109390226 Score: 796
Period size: 153 Copynumber: 3.4 Consensus size: 153
109389698 GATATTCCAC
* * * *
109389708 GTGATATTTCTGGTCTATCTTGTTTG-GAAAAACTTGATCTTAGTGGTAACAATTTCATCAGCAT
1 GTGATATTTCTGGTCTATCCTCTTTGTG-ACATCTTGATCTTAGTGGTAACAATTTCATCAGCAT
* * * *
109389772 GCCTGCATCTCTTACTCGACTCTCGAAGCTTGGATATCTTGA-ATTGTCAAATTGCAACATGTGC
65 ACCTGCATCTCTTACTCGACTCTCAAAGCTTGCAAATCTT-ATATTGTCAAATTGCAACATGTGC
109389836 ACTCTTGGTGAAGCAGATACTCATA
129 ACTCTTGGTGAAGCAGATACTCATA
*
109389861 GTGATATTTCTGGTCTATCCTCTTTGTGGCATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
1 GTGATATTTCTGGTCTATCCTCTTTGTGACATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
109389926 CCTGCATCTCTTACTCGACTCTCAAAGCTTGCAAATCTTATATTGTCAAATTGCAACATGTGCAC
66 CCTGCATCTCTTACTCGACTCTCAAAGCTTGCAAATCTTATATTGTCAAATTGCAACATGTGCAC
109389991 TCTTGGTGAAGCAGATACTCATA
131 TCTTGGTGAAGCAGATACTCATA
* *
109390014 GTGATATTTCTGGTCTATCCTCTTTGCGTCATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
1 GTGATATTTCTGGTCTATCCTCTTTGTGACATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
**
109390079 CCTGCATCTCTTACTCGACTCTCAAAGCTT-CATGTTCTT-TACTTGTCAAATTGCAACATGTGC
66 CCTGCATCTCTTACTCGACTCTCAAAGCTTGCA-AATCTTATA-TTGTCAAATTGCAACATGTGC
*
109390142 ACTCTTGGTGAAGCAGATACTCATT
129 ACTCTTGGTGAAGCAGATACTCATA
* * * *
109390167 GTGATCTTTCTGGTCTATCCTCTTTGAT-ACGTCTTCATCTTAGTGGTAAGAATTTCATCA
1 GTGATATTTCTGGTCTATCCTCTTTG-TGACATCTTGATCTTAGTGGTAACAATTTCATCA
109390227 CCATTCCTTT
Statistics
Matches: 341, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
152 5 0.01
153 335 0.98
154 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (153 bp):
GTGATATTTCTGGTCTATCCTCTTTGTGACATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
CCTGCATCTCTTACTCGACTCTCAAAGCTTGCAAATCTTATATTGTCAAATTGCAACATGTGCAC
TCTTGGTGAAGCAGATACTCATA
Found at i:109391709 original size:105 final size:105
Alignment explanation
Indices: 109391593--109391801 Score: 357
Period size: 105 Copynumber: 2.0 Consensus size: 105
109391583 TTGGTTTCAA
*
109391593 TTTTTTATTTTATTAAAATTTTATTT-TCATTATATATATTTACTTACATCTATATTTTATTTGT
1 TTTTTTATTTTATTAAAATTTTATTTCT-ATTATATATATTCACTTACATCTATATTTTATTTGT
* *
109391657 AGGTTGAAGACGAAGCAATTTGAAACAAAATTGTGAGACAC
65 AGGTTGAAGACAAAGCAACTTGAAACAAAATTGTGAGACAC
109391698 TTTTTTATTTTATTAAAATTTTATTTCTATTATATATATTCACTTACATCTATATTTTATTTGTA
1 TTTTTTATTTTATTAAAATTTTATTTCTATTATATATATTCACTTACATCTATATTTTATTTGTA
* *
109391763 TGTTGAAGGCAAAGCAACTTGAAACAAAATTGTGAGACA
66 GGTTGAAGACAAAGCAACTTGAAACAAAATTGTGAGACA
109391802 AAAATAGAGA
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 97 0.99
106 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (105 bp):
TTTTTTATTTTATTAAAATTTTATTTCTATTATATATATTCACTTACATCTATATTTTATTTGTA
GGTTGAAGACAAAGCAACTTGAAACAAAATTGTGAGACAC
Found at i:109395162 original size:15 final size:16
Alignment explanation
Indices: 109395142--109395171 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
109395132 TTTTGCTTCT
109395142 TCTTCCTTCA-CATCA
1 TCTTCCTTCATCATCA
109395157 TCTTCCTTCATCATC
1 TCTTCCTTCATCATC
109395172 TTAACTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.43
Consensus pattern (16 bp):
TCTTCCTTCATCATCA
Found at i:109397507 original size:38 final size:38
Alignment explanation
Indices: 109397432--109397508 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
109397422 GTATAGGTTA
* * *
109397432 TAAAAATTATGAATTGAGTTATAGAAATGTATTTTTAT
1 TAAAAATTATGAATTGAGTTATACAAATATATATTTAT
* *
109397470 TAAAAATTGTGAATTGAGTTATACATATATATATTTAT
1 TAAAAATTATGAATTGAGTTATACAAATATATATTTAT
109397508 T
1 T
109397509 TATTTATTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (38 bp):
TAAAAATTATGAATTGAGTTATACAAATATATATTTAT
Found at i:109401415 original size:17 final size:17
Alignment explanation
Indices: 109401395--109401427 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
109401385 ATTAAGAATG
109401395 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
109401412 TTATTAAATTATATTT
1 TTATTAAATTATATTT
109401428 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:109401698 original size:16 final size:16
Alignment explanation
Indices: 109401674--109401729 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
109401664 TGAATTACTT
* *
109401674 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCA
109401690 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* **
109401706 ATTACAGCCCTATTTT
1 ATTACAGCTCTATTCA
109401722 ATTACAGC
1 ATTACAGC
109401730 CAACCAAACG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:109402951 original size:15 final size:15
Alignment explanation
Indices: 109402931--109403008 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
109402921 TTTATGGAAA
109402931 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
109402946 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
109402960 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
109402976 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
109402990 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
109403006 ATC
1 ATC
109403009 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:109402960 original size:30 final size:30
Alignment explanation
Indices: 109402924--109403008 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
109402914 ATCCATATTT
*
109402924 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
109402954 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
109402984 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
109403009 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:109407605 original size:15 final size:15
Alignment explanation
Indices: 109407585--109407662 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
109407575 TTTATGGAAA
109407585 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
109407600 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
109407614 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
109407630 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
109407644 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
109407660 ATC
1 ATC
109407663 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:109407614 original size:30 final size:30
Alignment explanation
Indices: 109407578--109407662 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
109407568 ATCCATATTT
*
109407578 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
109407608 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
109407638 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
109407663 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:109415813 original size:20 final size:20
Alignment explanation
Indices: 109415788--109415829 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
109415778 GAATTTCTTC
*
109415788 AACCTCGTTAACTTTTGCTA
1 AACCTCATTAACTTTTGCTA
109415808 AACCTCATTAACTTTTGCTA
1 AACCTCATTAACTTTTGCTA
109415828 AA
1 AA
109415830 GCAACAGCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (20 bp):
AACCTCATTAACTTTTGCTA
Found at i:109417939 original size:3 final size:3
Alignment explanation
Indices: 109417931--109417956 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
109417921 GATTTAGTCC
109417931 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
109417957 CCTATTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:109418259 original size:23 final size:23
Alignment explanation
Indices: 109418215--109418274 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
109418205 TACTATTAAT
* *
109418215 TTATATACGTACATATCCTTTTA
1 TTATATAAGTACATATACTTTTA
* *
109418238 TTATATAAGTATATATATTTTTA
1 TTATATAAGTACATATACTTTTA
* *
109418261 -TATGTACGTACATA
1 TTATATAAGTACATA
109418275 CATATTTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (23 bp):
TTATATAAGTACATATACTTTTA
Found at i:109430820 original size:44 final size:44
Alignment explanation
Indices: 109430770--109430912 Score: 123
Period size: 44 Copynumber: 3.2 Consensus size: 44
109430760 GACAAAGGAT
109430770 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
** * * * * * *
109430814 CTTGCCTCTT-TCGGTTGTGATA--G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TTCT-GCAT-TGACAGCGAAGCAGATCGAAGACACAA-AC
* *
109430858 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
109430902 CTTGCTCTTTC
1 CTTGC-CTTTC
109430913 GGTTGTGATA
Statistics
Matches: 71, Mismatches: 19, Indels: 17
0.66 0.18 0.16
Matches are distributed among these distances:
42 4 0.06
43 16 0.23
44 25 0.35
45 22 0.31
46 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (44 bp):
CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:109430905 original size:88 final size:88
Alignment explanation
Indices: 109430756--109431090 Score: 421
Period size: 87 Copynumber: 3.9 Consensus size: 88
109430746 GACAGATCAA
* * * *
109430756 TGAAGACAAAGGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
**
109430821 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTGATAGAGCTGGT
*
109430844 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTG-CT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
**
109430908 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTGATAGAGCTGGT
*
109430931 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCA
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCC
* * * *
109430994 TCCATCGATTG-CAGTGGAGCTAGT
65 TCCATCGGTTGTGA-TAGAGCTGGT
* ** * * * *
109431018 TAAAGA-AGTAGATCTTGCCTTCCTGCATTAAGAGCGAAGCAGATCAAAGACA-AAGCCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
109431081 CCATCGGTTG
66 CCATCGGTTG
109431091 CATTGGAGCA
Statistics
Matches: 222, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
85 5 0.02
86 60 0.27
87 97 0.44
88 60 0.27
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CCATCGGTTGTGATAGAGCTGGT
Found at i:109430938 original size:42 final size:42
Alignment explanation
Indices: 109430802--109430938 Score: 116
Period size: 45 Copynumber: 3.2 Consensus size: 42
109430792 GAAGCAGATC
109430802 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTG-CTCTTTCGGTTGTGATAGAGCTGGTT
* * * ** ** * * *
109430845 GAAGACAAAAGATCTTGC-CTTCCTAC-ATTGACAGCGAAGCAGATC
1 GAAGACACAA-ACCTTGCTCTT--T-CGGTTGTGATAG-AGCTGGTT
109430890 GAAGACACAAACCTTGCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCTCTTTCGGTTGTGATAGAGCTGGTT
109430932 GAAGACA
1 GAAGACA
109430939 AAAGATCTTG
Statistics
Matches: 67, Mismatches: 20, Indels: 15
0.66 0.20 0.15
Matches are distributed among these distances:
42 16 0.24
43 16 0.24
44 17 0.25
45 18 0.27
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (42 bp):
GAAGACACAAACCTTGCTCTTTCGGTTGTGATAGAGCTGGTT
Found at i:109431158 original size:21 final size:21
Alignment explanation
Indices: 109431134--109431177 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
109431124 CCCTAAGATT
109431134 ACAGCGGAGCA-AGTCGAAGAC
1 ACAGCGGAGCAGA-TCGAAGAC
*
109431155 ACAGCGGAGCGGATCGAAGAC
1 ACAGCGGAGCAGATCGAAGAC
109431176 AC
1 AC
109431178 TATCCTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.25, G:0.34, T:0.05
Consensus pattern (21 bp):
ACAGCGGAGCAGATCGAAGAC
Found at i:109431370 original size:44 final size:43
Alignment explanation
Indices: 109431260--109431418 Score: 160
Period size: 44 Copynumber: 3.6 Consensus size: 43
109431250 TCACATCAGG
* * *
109431260 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA----AGA
* * *
109431306 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA-AGA
* **
109431350 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAGA
*
109431393 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
109431419 ATGGATTAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 1 0.01
43 23 0.24
44 39 0.41
46 32 0.33
47 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAGA
Found at i:109436922 original size:21 final size:20
Alignment explanation
Indices: 109436898--109436965 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
109436888 AACAACCTTA
109436898 AATGTCCAATTAAGCAACACT
1 AATGTCCAATTAAGC-ACACT
* *
109436919 AATGGT--AATTATAACCACGCT
1 AAT-GTCCAA-T-TAAGCACACT
109436940 AAATGTCCAATTAAGGCACACT
1 -AATGTCCAATTAA-GCACACT
109436962 AATG
1 AATG
109436966 GTAGTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
20 2 0.06
21 17 0.47
22 15 0.42
23 2 0.06
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTCCAATTAAGCACACT
Found at i:109436943 original size:43 final size:43
Alignment explanation
Indices: 109436877--109436975 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
109436867 GGAAAGTTTG
109436877 ATGGTAGTTATAACAACCTTAAATGTCCAATTAA-GCAACACTA
1 ATGGTAGTTATAACAACCTTAAATGTCCAATTAAGGC-ACACTA
* *
109436920 ATGGTAATTATAACCACGC-TAAATGTCCAATTAAGGCACACTA
1 ATGGTAGTTATAACAAC-CTTAAATGTCCAATTAAGGCACACTA
109436963 ATGGTAGTTATAA
1 ATGGTAGTTATAA
109436976 GAGAGAGCTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
43 48 0.94
44 3 0.06
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGGTAGTTATAACAACCTTAAATGTCCAATTAAGGCACACTA
Found at i:109436963 original size:22 final size:21
Alignment explanation
Indices: 109436896--109436963 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
109436886 ATAACAACCT
109436896 TAAATGTCCAATTAAGCAACAC
1 TAAATGTCCAATTAAGC-ACAC
* *
109436918 T-AATGGT--AATTATAACCACGC
1 TAAAT-GTCCAA-T-TAAGCACAC
109436939 TAAATGTCCAATTAAGGCACAC
1 TAAATGTCCAATTAA-GCACAC
109436961 TAA
1 TAA
109436964 TGGTAGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
22 18 0.51
23 2 0.06
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.25
Consensus pattern (21 bp):
TAAATGTCCAATTAAGCACAC
Found at i:109439554 original size:3 final size:3
Alignment explanation
Indices: 109439532--109439576 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
109439522 TTTCCCCATT
* *
109439532 TTC TCC TTC TT- TTCC TTC TTC TTC TTC CTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
109439577 ATCATCATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:109447015 original size:8 final size:8
Alignment explanation
Indices: 109447002--109447030 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
109446992 AACAATAGAC
109447002 ATTTTATA
1 ATTTTATA
109447010 ATTTTATA
1 ATTTTATA
109447018 ATTTTATA
1 ATTTTATA
109447026 ATTTT
1 ATTTT
109447031 CAACCCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
ATTTTATA
Found at i:109448539 original size:60 final size:60
Alignment explanation
Indices: 109448465--109448580 Score: 223
Period size: 60 Copynumber: 1.9 Consensus size: 60
109448455 CACACCGGCC
*
109448465 GGATATCCTCCACCGGTCGCTACAACATATCCTTCACCTGGGGGATATCCTCCTCCCAAT
1 GGATACCCTCCACCGGTCGCTACAACATATCCTTCACCTGGGGGATATCCTCCTCCCAAT
109448525 GGATACCCTCCACCGGTCGCTACAACATATCCTTCACCTGGGGGATATCCTCCTCC
1 GGATACCCTCCACCGGTCGCTACAACATATCCTTCACCTGGGGGATATCCTCCTCC
109448581 TCCTCCTCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (60 bp):
GGATACCCTCCACCGGTCGCTACAACATATCCTTCACCTGGGGGATATCCTCCTCCCAAT
Found at i:109450220 original size:133 final size:134
Alignment explanation
Indices: 109449976--109450242 Score: 509
Period size: 133 Copynumber: 2.0 Consensus size: 134
109449966 TGGATAAATA
109449976 AAATATATTAGGCTCTAATTTCACAATTTTCTTTAATTAAAACCTCTATATTTTCTTTTTTCTAC
1 AAATATATTAGGCTCTAATTTCACAATTTTCTTTAATTAAAACCTCTATATTTTCTTTTTTCTAC
*
109450041 ACAGGAATGGTAAATAAAGAAAATTAGGTATTGAGCCGATTGAGTTTTAGCTCGATTGGTATGGG
66 ACAGGAAAGGTAAATAAAGAAAATTAGGTATTGAGCCGATTGAGTTTTAGCTCGATTGGTATGGG
109450106 CATT
131 CATT
*
109450110 AAATGTATTAGGCTCTAATTTCACAATTTTCTTTAATTAAAACCTCTATATTTTC-TTTTTCTAC
1 AAATATATTAGGCTCTAATTTCACAATTTTCTTTAATTAAAACCTCTATATTTTCTTTTTTCTAC
109450174 ACAGGAAAGGTAAATAAAGAAAATTAGGTATTGAGCCGATTGAGTTTTAGCTCGATTGGTATGGG
66 ACAGGAAAGGTAAATAAAGAAAATTAGGTATTGAGCCGATTGAGTTTTAGCTCGATTGGTATGGG
109450239 CATT
131 CATT
109450243 GTTACTAATG
Statistics
Matches: 131, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
133 77 0.59
134 54 0.41
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (134 bp):
AAATATATTAGGCTCTAATTTCACAATTTTCTTTAATTAAAACCTCTATATTTTCTTTTTTCTAC
ACAGGAAAGGTAAATAAAGAAAATTAGGTATTGAGCCGATTGAGTTTTAGCTCGATTGGTATGGG
CATT
Found at i:109450317 original size:74 final size:73
Alignment explanation
Indices: 109450186--109450332 Score: 231
Period size: 74 Copynumber: 2.0 Consensus size: 73
109450176 AGGAAAGGTA
* * * * *
109450186 AATAAAGAAAATTAGGTATTGAGCCGATTGAGTTTTAGCTCGATTGGTATGGGCATTGTTACTAA
1 AATAAAGAAAAATAGGCATTGAGCCAATTGAGTTTTAGCTCGATTGGCATAGGCATTGTTACTAA
109450251 TGTAGGAG
66 TGTAGGAG
*
109450259 AATAAAGAAAAATAGGCATTGAGCCAATTGAGTCTTTAGCTCGATTGGCATAGGCATTGTTGCTA
1 AATAAAGAAAAATAGGCATTGAGCCAATTGAGT-TTTAGCTCGATTGGCATAGGCATTGTTACTA
109450324 ATGTAGGAG
65 ATGTAGGAG
109450333 GACGTGGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
73 30 0.45
74 37 0.55
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (73 bp):
AATAAAGAAAAATAGGCATTGAGCCAATTGAGTTTTAGCTCGATTGGCATAGGCATTGTTACTAA
TGTAGGAG
Found at i:109451161 original size:20 final size:20
Alignment explanation
Indices: 109451136--109451187 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
109451126 GGGCACACGT
*
109451136 CCGTGTGGCCTGGGACATGC
1 CCGTGTGGCCTGGAACATGC
109451156 CCGTGTGGCCTGGAACATGC
1 CCGTGTGGCCTGGAACATGC
109451176 CCGTGTGGCCTG
1 CCGTGTGGCCTG
109451188 CCCATGGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.10, C:0.31, G:0.38, T:0.21
Consensus pattern (20 bp):
CCGTGTGGCCTGGAACATGC
Found at i:109452032 original size:53 final size:51
Alignment explanation
Indices: 109451974--109452136 Score: 184
Period size: 52 Copynumber: 3.1 Consensus size: 51
109451964 ACACGGATCA
* * *
109451974 CACATCATACCGATGCCATATCCCAGATATGGTCTTATACGGACTCACATTAT
1 CACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGA-ACACA-TAT
* * *
109452027 CACATCACACCGATGCTATAGCCCAGCTATGGTCTTAAACGGGAACACGA-AT
1 CACATCATACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAACAC-ATAT
** * *
109452079 CACATTGTACCGATGCCATAGCCCGGCTATGGTCTTATACAGAAGCACATAT
1 CACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAA-CACATAT
109452131 CACATC
1 CACATC
109452137 TTTTCCGTCA
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
51 4 0.04
52 46 0.50
53 38 0.41
54 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
CACATCATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAACACATAT
Found at i:109453353 original size:17 final size:17
Alignment explanation
Indices: 109453327--109453365 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
109453317 TTAATCTACA
* *
109453327 AATTTCTTTTAGCTCAT
1 AATTTATTTTAACTCAT
*
109453344 AATTTATTTTAATTCAT
1 AATTTATTTTAACTCAT
109453361 AATTT
1 AATTT
109453366 CACTAATTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (17 bp):
AATTTATTTTAACTCAT
Found at i:109454584 original size:16 final size:16
Alignment explanation
Indices: 109454551--109454585 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
109454541 TTGTATTACT
*
109454551 CAACAAGGCTTATGTA
1 CAACAAGGCTTATATA
*
109454567 CAACAAGGCTTTTATA
1 CAACAAGGCTTATATA
109454583 CAA
1 CAA
109454586 ACCAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (16 bp):
CAACAAGGCTTATATA
Found at i:109454617 original size:99 final size:100
Alignment explanation
Indices: 109454482--109454682 Score: 316
Period size: 99 Copynumber: 2.0 Consensus size: 100
109454472 AGGCACTCAA
* * *
109454482 ACAAACCAAATACAAGGAGCTAATATGCAAAGAAAGTGAGTGTAAGACCATGTTATATCTTGTAT
1 ACAAACCAAATACAAGGAGCTAATATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTAT
* * *
109454547 TACTCAACAAGGCTTATGTACAACAAGGCTTTTAT
66 TACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
*
109454582 ACAAACCAAATACAA-GA-CTTAATATGCAAAGAAAGTGAGTGTAAGAGAATGCTATAGCTTGTA
1 ACAAACCAAATACAAGGAGC-TAATATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTA
109454645 TTACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
65 TTACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
109454681 AC
1 AC
109454683 GATGATTCAT
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
98 1 0.01
99 77 0.83
100 15 0.16
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (100 bp):
ACAAACCAAATACAAGGAGCTAATATGCAAAGAAAGTGAGTGTAAGACAATGCTATAGCTTGTAT
TACTCAACAAAGCTTATATAAAACAAGGCTTTTAT
Found at i:109456650 original size:16 final size:16
Alignment explanation
Indices: 109456629--109456660 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
109456619 ATAATTATTG
*
109456629 ACTTAAACTTAATCTA
1 ACTTAAACTCAATCTA
109456645 ACTTAAACTCAATCTA
1 ACTTAAACTCAATCTA
109456661 TGCCTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
ACTTAAACTCAATCTA
Found at i:109457643 original size:16 final size:16
Alignment explanation
Indices: 109457624--109457659 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
109457614 AAAAATTCCT
109457624 TTTTA-TAATACATTTA
1 TTTTACTAATA-ATTTA
109457640 TTTTACTAATAATTTA
1 TTTTACTAATAATTTA
109457656 TTTT
1 TTTT
109457660 CTTTTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTACTAATAATTTA
Found at i:109464783 original size:46 final size:46
Alignment explanation
Indices: 109464707--109465250 Score: 806
Period size: 46 Copynumber: 11.8 Consensus size: 46
109464697 TGATGTCATA
* * * * *
109464707 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* *** *
109464753 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
109464800 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
109464846 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
109464892 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
109464938 GTATCTTTCAACCATGGTCTTA-TACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGTTGCCATG
109464984 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
109465030 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
109465076 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
109465122 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
109465168 GTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
109465214 GTATCTTTCAACCATGGTCTTACAT-ATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTAC-TCATTTCATATCAG
109465251 AGAGCACACT
Statistics
Matches: 466, Mismatches: 27, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.00
46 425 0.91
47 40 0.09
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:109467418 original size:39 final size:40
Alignment explanation
Indices: 109467375--109467527 Score: 265
Period size: 40 Copynumber: 3.9 Consensus size: 40
109467365 GATTCCACTT
* *
109467375 CCCCATGCTACTTTG-TTTTATTATTAATTAAAACTATTC
1 CCCCATACTATTTTGTTTTTATTATTAATTAAAACTATTC
109467414 CCCCATACTATTTTG-TTTTATTATTAATTAAAACTATTC
1 CCCCATACTATTTTGTTTTTATTATTAATTAAAACTATTC
*
109467453 CCCCATACTATTTTGTTTTTATTATTAATTAAAACCATTC
1 CCCCATACTATTTTGTTTTTATTATTAATTAAAACTATTC
109467493 CCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 CCCCATACTATTTTGTTTTTATTATTAATTAAAAC
109467528 CATACTTTAT
Statistics
Matches: 110, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 52 0.47
40 58 0.53
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.48
Consensus pattern (40 bp):
CCCCATACTATTTTGTTTTTATTATTAATTAAAACTATTC
Found at i:109467482 original size:79 final size:79
Alignment explanation
Indices: 109467375--109467527 Score: 263
Period size: 79 Copynumber: 1.9 Consensus size: 79
109467365 GATTCCACTT
* *
109467375 CCCCATGCTACTTTGTTTTATTATTAATTAAAACTATTCCCCCATACTATTTTG-TTTTATTATT
1 CCCCATACTACTTTGTTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGTTTTTATTATT
109467439 AATTAAAACTATTC
66 AATTAAAACTATTC
*
109467453 CCCCATACTATTTTGTTTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGTTTTTATTAT
1 CCCCATACTACTTTG-TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGTTTTTATTAT
109467518 TAATTAAAAC
65 TAATTAAAAC
109467528 CATACTTTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 13 0.19
79 38 0.54
80 19 0.27
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.48
Consensus pattern (79 bp):
CCCCATACTACTTTGTTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGTTTTTATTATT
AATTAAAACTATTC
Found at i:109470693 original size:14 final size:14
Alignment explanation
Indices: 109470656--109470693 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
109470646 AGAGTTATAC
109470656 AATAACAACAAAAT
1 AATAACAACAAAAT
**
109470670 AATAGTAACAAAAT
1 AATAACAACAAAAT
109470684 AATAACAACA
1 AATAACAACA
109470694 TAATTGTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.68, C:0.13, G:0.03, T:0.16
Consensus pattern (14 bp):
AATAACAACAAAAT
Found at i:109470757 original size:21 final size:21
Alignment explanation
Indices: 109470733--109470784 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
109470723 AAAAAACAAC
*
109470733 AAAATAGCAACAAAACA-ATAA
1 AAAACAGCAACAAAACAGA-AA
* *
109470754 AAAAGAGCAAGAAAACAGAAA
1 AAAACAGCAACAAAACAGAAA
109470775 AAAACAGCAA
1 AAAACAGCAA
109470785 ACTTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.71, C:0.13, G:0.12, T:0.04
Consensus pattern (21 bp):
AAAACAGCAACAAAACAGAAA
Found at i:109471740 original size:7 final size:7
Alignment explanation
Indices: 109471728--109471755 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
109471718 TATAATATTC
109471728 AAATTTA
1 AAATTTA
109471735 AAATTTA
1 AAATTTA
109471742 AAATTTA
1 AAATTTA
109471749 AAATTTA
1 AAATTTA
109471756 TACTTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATTTA
Found at i:109473744 original size:6 final size:6
Alignment explanation
Indices: 109473733--109473766 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
109473723 ACACCATTCT
109473733 TATATC TATATC TATATC TATATC TATATC TATA
1 TATATC TATATC TATATC TATATC TATATC TATA
109473767 CCGGTTCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATC
Found at i:109476431 original size:4 final size:4
Alignment explanation
Indices: 109476422--109476529 Score: 85
Period size: 4 Copynumber: 27.5 Consensus size: 4
109476412 ATCAACGGAG
* * * *
109476422 GAGA GAGA GAGA GAAA GAGG GAGA GAGA GAGA GAAA GAGG GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
109476470 GGGA GGGA GGGA GGGA GAGA GAGA GAGG GATA GA-A G-GA GGGA GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
*
109476516 GAGA GAGA GGGA GA
1 GAGA GAGA GAGA GA
109476530 AATAACCAAA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
3 4 0.05
4 82 0.95
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.01
Consensus pattern (4 bp):
GAGA
Found at i:109476466 original size:26 final size:26
Alignment explanation
Indices: 109476422--109476531 Score: 77
Period size: 26 Copynumber: 4.4 Consensus size: 26
109476412 ATCAACGGAG
* **
109476422 GAGAGAGAGAGAGAAAGAGGGAGAGA
1 GAGAGAGAAAGAGGGAGAGGGAGAGA
109476448 GAGAGAGAAAGAGGGAGA--GAGAG-
1 GAGAGAGAAAGAGGGAGAGGGAGAGA
* ** *
109476471 G-GAGGGAGGGAGGGAGAGAGAGAGA
1 GAGAGAGAAAGAGGGAGAGGGAGAGA
* * *
109476496 GGGATAGAAGGAGGGAG-GGAGAGAGA
1 GAGAGAGAAAGAGGGAGAGG-GAGAGA
*
109476522 GAGGGAGAAA
1 GAGAGAGAAA
109476532 TAACCAAAGA
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
22 13 0.20
23 1 0.02
24 10 0.15
25 2 0.03
26 39 0.60
ACGTcount: A:0.44, C:0.00, G:0.55, T:0.01
Consensus pattern (26 bp):
GAGAGAGAAAGAGGGAGAGGGAGAGA
Found at i:109476473 original size:30 final size:30
Alignment explanation
Indices: 109476423--109476529 Score: 109
Period size: 28 Copynumber: 3.8 Consensus size: 30
109476413 TCAACGGAGG
* *
109476423 AGAGAGAGAGAGAAAGAGGGAGAGAGAGAG
1 AGAGAGAGAGAGAGAGAGGGAGAGAGAGGG
* *
109476453 AGAAAGAGGGAGAGAGAGGGAG-G-GAGGG
1 AGAGAGAGAGAGAGAGAGGGAGAGAGAGGG
*
109476481 AG-G-GAGAGAGAGAGAGGGATAGA-A-GG
1 AGAGAGAGAGAGAGAGAGGGAGAGAGAGGG
* *
109476507 AGGGAGGGAGAGAGAGAGGGAGA
1 AGAGAGAGAGAGAGAGAGGGAGA
109476530 AATAACCAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
26 19 0.30
27 3 0.05
28 22 0.34
29 1 0.02
30 19 0.30
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.01
Consensus pattern (30 bp):
AGAGAGAGAGAGAGAGAGGGAGAGAGAGGG
Found at i:109476891 original size:18 final size:18
Alignment explanation
Indices: 109476818--109476892 Score: 61
Period size: 18 Copynumber: 4.4 Consensus size: 18
109476808 GCTGGGTATA
109476818 AATATTATA-TTAATTAT
1 AATATTATATTTAATTAT
* * * *
109476835 ACTATTAGATATATTTAT
1 AATATTATATTTAATTAT
*
109476853 AATA-TAT-GTT-ATTA-
1 AATATTATATTTAATTAT
109476867 AATTATTATATTTAATTAT
1 AA-TATTATATTTAATTAT
109476886 AATATTA
1 AATATTA
109476893 CAAATTTCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 11
0.67 0.16 0.17
Matches are distributed among these distances:
14 2 0.05
15 5 0.12
16 4 0.10
17 11 0.26
18 18 0.43
19 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (18 bp):
AATATTATATTTAATTAT
Found at i:109477720 original size:27 final size:27
Alignment explanation
Indices: 109477678--109477762 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
109477668 TAAAATATGG
109477678 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
* * *
109477705 GTGGAGGGTACTCCACAGGCGACATCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
109477732 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
109477759 GTGG
1 GTGG
109477763 TGCCTTTTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.22, C:0.29, G:0.38, T:0.11
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:109477875 original size:4 final size:4
Alignment explanation
Indices: 109477861--109477925 Score: 53
Period size: 4 Copynumber: 15.5 Consensus size: 4
109477851 ACAGAAGAAG
* *
109477861 AAGA TAGA AAGA AAGA AAGGA GAAG- AAGA TAGA AAGA AAGA AAGGA GAAG-
1 AAGA AAGA AAGA AAGA AA-GA -AAGA AAGA AAGA AAGA AAGA AA-GA -AAGA
109477911 AAGA AAGAA AAGA AA
1 AAGA AAG-A AAGA AA
109477926 AGGTTATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
3 6 0.12
4 30 0.60
5 10 0.20
6 4 0.08
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:109477877 original size:21 final size:20
Alignment explanation
Indices: 109477855--109477920 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
109477845 AAATTTACAG
109477855 AAGAAGAAGATAGAAAGAAAGA
1 AAGAAGAAGA-AG-AAGAAAGA
*
109477877 AAGGAGAAGAAGATAGAAAGA
1 AAGAAGAAGAAGA-AGAAAGA
*
109477898 AAGAAAGGAGAAGAAGAAAGA
1 AAG-AAGAAGAAGAAGAAAGA
109477919 AA
1 AA
109477921 AGAAAAGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 21 0.54
22 17 0.44
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (20 bp):
AAGAAGAAGAAGAAGAAAGA
Found at i:109477884 original size:25 final size:25
Alignment explanation
Indices: 109477856--109477925 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
109477846 AATTTACAGA
109477856 AGAAGAAGATAGAAAGAAAGAAAGG
1 AGAAGAAGATAGAAAGAAAGAAAGG
109477881 AGAAGAAGATAGAAAGAAAGAAAGG
1 AGAAGAAGATAGAAAGAAAGAAAGG
*
109477906 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGATAG-AAAGAAA
109477926 AGGTTATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 36 0.84
26 7 0.16
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (25 bp):
AGAAGAAGATAGAAAGAAAGAAAGG
Found at i:109484863 original size:145 final size:142
Alignment explanation
Indices: 109484316--109485466 Score: 1424
Period size: 145 Copynumber: 8.0 Consensus size: 142
109484306 TTGGTATTTA
* *
109484316 TTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTATTTTA
1 TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTA
* * *
109484380 GTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTAATAAAAAACTCTAAT
66 GTACATAATGTTTC--ATGTATTATTTTAG--TTTTTTTATATTAATTTAGTAAAAAACTCTGAT
* * *
109484445 TTTGACCGTTTGTTTTTCT
127 TTTGGCC-CTT-TTTAT-T
* * * *
109484464 ATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCATATTTTATTTTTTATATTATTTT
1 -TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTT
* *
109484529 AGTACATAATGTTCCAAATGTATTATTTTAG-TTTTTTATATTAATTTAAT-AAAAACTCTGATT
65 AGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATT
*
109484592 TTGG-CC-GTTTATT
128 TTGGCCCTTTTTATT
109484605 TTTTATTTT---A---T-TTTTTTAAAATATACTATTTTCGTATTTTATGTTTTTTATATTATTT
1 TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA--TTTTTTATATTATTT
* * * * *
109484663 TAGTACATAATATTTAAAATGTATTATTTTAGTTTTTTTATATGAATATAGAAAAAAACTCTGAT
64 TAGTACATAATGTTT--CATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGAT
109484728 TTTGGCCCTTTTTATT
127 TTTGGCCCTTTTTATT
*
109484744 TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTTCGTATTTTATTTTTTATATTATTAT
1 TTTTATTTTCGGATTTTATTTTTTAAAATATACTA-TTTTCGTATTTTATTTTTTATATTATTTT
* * *
109484809 AGTACATAATGTTTCATTTATTATTTTAGTTTTTTCTATATTAATTTAGTAAAAATCTGTGATTT
65 AGTACATAATGTTTCATGTATTATTTTAGTTTTTT-TATATTAATTTAGTAAAAAACTCTGATTT
*
109484874 TGG-CCGTTTTATTT
129 TGGCCCTTTTTA-TT
* *
109484888 ATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATCTTATTTTTTCATATTACTT
1 -TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTT-ATATTATTT
* * *
109484953 TAGTATATAATGTTTTAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGAAAAAAACTCTGA
64 TAGTACATAATG-TTT-CATGTATTATTTTAG-TTTTTTTATATTAATTTAGTAAAAAACTCTGA
* *
109485018 TTTTAGCCTTTTTTA-T
126 TTTTGGCCCTTTTTATT
* * *
109485034 TTTTATTTTCAGG-TTTTATTTTTTAAGATATATTATTTTCGTATTTTGTTTTTTATATTATTTT
1 TTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTT
* * *
109485098 AGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTGTGGTTTT
65 AGTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTTT
*
109485163 GG-CCTTTTT-TA
130 GGCCCTTTTTATT
* *
109485174 TTTTGTTTTCAGATTTT-TTATTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTT
1 TTTTATTTTCGGATTTTATT-TTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTT
* *
109485238 TAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAATTATGAT
64 TAGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGAT
** *
109485302 TTTGGCGTTTGTTTTTT
127 TTTGGCCCTT-TTTATT
*
109485319 ATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCGTATTTTATTTTTT-TATTATTTT
1 -TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTT
*
109485383 AGTACATAATGTTTCATATGTATTATTTTAGTTTATTTATATTAATTTAGTAAAAAAACTCTGAT
65 AGTACATAATGTTTC--ATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAAACTCTGAT
*
109485448 TTTGGCCTTTTTTTATT
127 TTTGGCC-CTTTTTATT
109485465 TT
1 TT
109485467 CGAATTTCTT
Statistics
Matches: 880, Mismatches: 82, Indels: 84
0.84 0.08 0.08
Matches are distributed among these distances:
133 27 0.03
134 1 0.00
135 42 0.05
136 15 0.02
137 18 0.02
138 2 0.00
139 18 0.02
140 52 0.06
141 65 0.07
142 52 0.06
143 45 0.05
144 108 0.12
145 157 0.18
146 102 0.12
147 78 0.09
148 12 0.01
149 42 0.05
150 44 0.05
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (142 bp):
TTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTA
GTACATAATGTTTCATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAAACTCTGATTTTG
GCCCTTTTTATT
Found at i:109485211 original size:430 final size:425
Alignment explanation
Indices: 109484312--109485466 Score: 1613
Period size: 430 Copynumber: 2.7 Consensus size: 425
109484302 TATTTTGGTA
*
109484312 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTTATATTAT
1 TTTATTTTATTTTCG-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
* * * *
109484376 TTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTAATAAAAAACTC
65 TTTAGTACATAATGTTTC-AATGTATTATTTTAG--TTTTTTTATATTAATTTAGTAAAAATCTA
* * * * * *
109484441 TAATTTTGACCGTTTGTTTTTCTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTTCA
127 TGATTTTGGCCGTTTGTTTTT-TATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCG
*
109484506 TATTTTATTTTTTATATTATTTTAGTACATAATGTTCCAAATGTATTATTTTAG-TTTTTTATAT
191 TATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATAT
* * *
109484570 TAATTTA-ATAAAAACTCTGATTTTGGCCGTTTAT-TTTTTATTTTATTTTTTTAAAATATACTA
256 TAATTTAGAAAAAAACTCTGATTTTGGCCTTTTTTATTTTTATTTTATTTTTTTAAAATATACTA
109484633 TTTTCGTATTTTATGTTTTTTATATTATTTTAGTACATAATATTTAAAATGTATTATTTTAGTTT
321 TTTTCGTATTTTATGTTTTTTATATTATTTTAGTACATAATATTT-AAATGTATTATTTTAGTTT
109484698 TTTTATATGAATATAGAAAAAAACTCTGATTTTGGCCCTTT
385 TTTTATATGAATATAGAAAAAAACTCTGATTTTGGCCCTTT
*
109484739 TTATTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTTCGTATTTTATTTTTTATATT
1 TT-TATTTTATTTTC-GATTTTATTTTTTAAAATATACTA-TTTTCGTATTTTATTTTTTATATT
* * *
109484804 ATTATAGTACATAATGTTTC-ATTTATTATTTTAGTTTTTTCTATATTAATTTAGTAAAAATCTG
63 ATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTT-TATATTAATTTAGTAAAAATCTA
*
109484868 TGATTTTGGCCG-TT-TTATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
127 TGATTTTGGCCGTTTGTTTTTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGT
* * * *
109484931 ATCTTATTTTTTCATATTACTTTAGTATATAATGTTTTAAATGTATTATTTTAGTTTTTTTTATA
192 ATTTTATTTTTT-ATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTTATA
* *
109484996 TTAATTTAGAAAAAAACTCTGATTTTAGCCTTTTTTATTTTTATTTTCAGGTTTTATTTTTTAAG
255 TTAATTTAGAAAAAAACTCTGATTTTGGCCTTTTTTATTTTTATTTT-A-----T-TTTTTTAAA
* * *
109485061 ATATATTATTTTCGTA-TTT-TGTTTTTTATATTATTTTAGTACATAATGTTT-CATGTATTATT
313 ATATACTATTTTCGTATTTTATGTTTTTTATATTATTTTAGTACATAATATTTAAATGTATTATT
* * * * * *
109485123 TTAGTTTTTTTATATTAATTTAGTAAAAATCTGTGGTTTTGG-CCTTT
378 TTAGTTTTTTTATATGAATATAGAAAAAAACTCTGATTTTGGCCCTTT
*
109485170 TTTATTTTGTTTTCAGATTTT-TTATTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 TTTATTTTATTTTC-GATTTTATT-TTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
109485234 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAAT-T
63 ATTTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTATATTAATTTAGT-AAAAATCT
*
109485297 ATGATTTTGG-CGTTTGTTTTTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCG
126 ATGATTTTGGCCGTTTGTTTTTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCG
* *
109485361 TATTTTATTTTTT-TATTATTTTAGTACATAATGTTTCATATGTATTATTTTAGTTTATTTATAT
191 TATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATAT
109485425 TAATTTAGTAAAAAAACTCTGATTTTGGCCTTTTTTTATTTT
256 TAATTTAG-AAAAAAACTCTGATTTTGGCC-TTTTTTATTTT
109485467 CGAATTTCTT
Statistics
Matches: 653, Mismatches: 49, Indels: 49
0.87 0.07 0.07
Matches are distributed among these distances:
424 51 0.08
425 41 0.06
426 8 0.01
427 49 0.08
428 86 0.13
429 97 0.15
430 128 0.20
431 76 0.12
432 59 0.09
434 31 0.05
435 4 0.01
436 23 0.04
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (425 bp):
TTTATTTTATTTTCGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
TTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAAAATCTATGAT
TTTGGCCGTTTGTTTTTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTT
TATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATT
TAGAAAAAAACTCTGATTTTGGCCTTTTTTATTTTTATTTTATTTTTTTAAAATATACTATTTTC
GTATTTTATGTTTTTTATATTATTTTAGTACATAATATTTAAATGTATTATTTTAGTTTTTTTAT
ATGAATATAGAAAAAAACTCTGATTTTGGCCCTTT
Done.