Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 26 of 182
Found at i:8709592 original size:98 final size:98
Alignment explanation
Indices: 8709282--8709584 Score: 561
Period size: 98 Copynumber: 3.1 Consensus size: 98
8709272 CATGTTTGGA
* * * *
8709282 ACATGGCATTTGGTAAGATAAAGATATCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTT
1 ACATGGCA-TTAGTAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTT
8709347 ATAAGGCAAGGATACCACGTAAGACTATGTCAAG
65 ATAAGGCAAGGATACCACGTAAGACTATGTCAAG
8709381 ACATGGCATTAGTAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTA
1 ACATGGCATTAGTAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTA
8709446 TAAGGCAAGGATACCACGTAAGACTATGTCAAG
66 TAAGGCAAGGATACCACGTAAGACTATGTCAAG
8709479 ACATGGCATTAGTAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTA
1 ACATGGCATTAGTAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTA
8709544 TAAGGCAAGGATACCACGTAAGACTATGTCAAG
66 TAAGGCAAGGATACCACGTAAGACTATGTCAAG
8709577 ACATGGCA
1 ACATGGCA
8709585 ATGGTAAGTT
Statistics
Matches: 200, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
98 192 0.96
99 8 0.04
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (98 bp):
ACATGGCATTAGTAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTA
TAAGGCAAGGATACCACGTAAGACTATGTCAAG
Found at i:8724179 original size:32 final size:32
Alignment explanation
Indices: 8724143--8724206 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
8724133 AAAAGATCAT
8724143 TGATATGCTCAAATGTTCTGTTCCTAGCACAG
1 TGATATGCTCAAATGTTCTGTTCCTAGCACAG
8724175 TGATATGCTCAAATGTTCTGTTCCTAGCACAG
1 TGATATGCTCAAATGTTCTGTTCCTAGCACAG
8724207 AAAACAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (32 bp):
TGATATGCTCAAATGTTCTGTTCCTAGCACAG
Found at i:8725041 original size:100 final size:99
Alignment explanation
Indices: 8724863--8725056 Score: 259
Period size: 100 Copynumber: 1.9 Consensus size: 99
8724853 TCTTCTGGAG
* * *
8724863 TCATCTTATTCCCCGGGTGCCATGCTTTATCTGCTAAAAATCCTTTGGTTTATGTTTGCTTGAGA
1 TCATCTTATTCCCCGGGTGCCATGCTTTATCTGCTAAAAATCCTTTGCTTAATGTCTGCTTGAGA
*
8724928 ATATATTTCTTAAAATTATTCAATACCATGTTCCA
66 ATATATTTATT-AAATTATTCAATACCATGTTCCA
* * * *
8724963 TCATCTTATTCCTCGGGTGCCAAT-CTTTATCTGCTGAAAA-CCATTTGCTTAATGTCTGTTTGT
1 TCATCTTATTCCCCGGGTGCC-ATGCTTTATCTGCTAAAAATCC-TTTGCTTAATGTCTGCTTGA
8725026 GAA-ATCATTTATTAAATTATTCAATACCATG
64 GAATAT-ATTTATTAAATTATTCAATACCATG
8725057 CGTCATTACT
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
99 22 0.27
100 59 0.71
101 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.42
Consensus pattern (99 bp):
TCATCTTATTCCCCGGGTGCCATGCTTTATCTGCTAAAAATCCTTTGCTTAATGTCTGCTTGAGA
ATATATTTATTAAATTATTCAATACCATGTTCCA
Found at i:8730163 original size:14 final size:14
Alignment explanation
Indices: 8730144--8730194 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
8730134 TGATAAAGAA
8730144 AATAAAATATATAT
1 AATAAAATATATAT
*
8730158 AATAAAAT-TA-AA
1 AATAAAATATATAT
8730170 ATATATAAATATATTAT
1 A-ATA-AAATATA-TAT
8730187 AATAAAAT
1 AATAAAAT
8730195 TTTGGTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
12 2 0.07
13 5 0.17
14 12 0.40
15 6 0.20
16 3 0.10
17 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:8730169 original size:20 final size:18
Alignment explanation
Indices: 8730136--8730180 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
8730126 TGTACAATTG
*
8730136 ATAAAGAAAATAAAATAT
1 ATAAATAAAATAAAATAT
8730154 ATATAATAAAATTAAAATAT
1 ATA-AATAAAA-TAAAATAT
8730174 ATAAATA
1 ATAAATA
8730181 TATTATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAATAAAATAAAATAT
Found at i:8730169 original size:29 final size:29
Alignment explanation
Indices: 8730142--8730195 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
8730132 ATTGATAAAG
8730142 AAAATA-AAATATA-TATAATAAAATTAA
1 AAAATATAAATATATTATAATAAAATTAA
*
8730169 AATATATAAATATATTATAATAAAATT
1 AAAATATAAATATATTATAATAAAATT
8730196 TTGGTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 7 0.29
29 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAAATATATTATAATAAAATTAA
Found at i:8730190 original size:18 final size:20
Alignment explanation
Indices: 8730142--8730180 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8730132 ATTGATAAAG
8730142 AAAA-TAAAATATATATAAT
1 AAAATTAAAATATATATAAT
8730161 AAAATTAAAATATATA-AAT
1 AAAATTAAAATATATATAAT
8730180 A
1 A
8730181 TATTATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTAAAATATATATAAT
Found at i:8730981 original size:28 final size:28
Alignment explanation
Indices: 8730949--8731016 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
8730939 CATAATAAAA
8730949 TATATTAAATA-TATTTT-TATTATATAAT
1 TATA-TAAATATTATTTTAT-TTATATAAT
* *
8730977 TATATAATTATTATTTTATTTATATAAA
1 TATATAAATATTATTTTATTTATATAAT
*
8731005 TA-AAAAATATTA
1 TATATAAATATTA
8731017 GTTAAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 13 0.38
28 20 0.59
29 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TATATAAATATTATTTTATTTATATAAT
Found at i:8731015 original size:27 final size:28
Alignment explanation
Indices: 8730946--8731016 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
8730936 TAACATAATA
*
8730946 AAATATATTAAATA-TATTTTTATTATAT
1 AAATATA-AAAATATTATTTTTATTATAT
* * *
8730974 AATTATATAATTATTA-TTTTATTTATAT
1 AAATATAAAAATATTATTTTTA-TTATAT
8731002 AAATA-AAAAATATTA
1 AAATATAAAAATATTA
8731017 GTTAAATAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 18 0.50
28 18 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AAATATAAAAATATTATTTTTATTATAT
Found at i:8742105 original size:28 final size:30
Alignment explanation
Indices: 8742074--8742143 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 30
8742064 TTAGTCTATA
* *
8742074 ATAAAATTATATTTTAATT-TTT-AAAATG
1 ATAAAAATATAATTTAATTATTTAAAAATG
*
8742102 ATAAAAATATAATTTAATTATTTAAAAATT
1 ATAAAAATATAATTTAATTATTTAAAAATG
8742132 ATAAAAATATAA
1 ATAAAAATATAA
8742144 AGTATTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 17 0.46
29 3 0.08
30 17 0.46
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAAAATATAATTTAATTATTTAAAAATG
Found at i:8742549 original size:41 final size:41
Alignment explanation
Indices: 8742504--8742670 Score: 207
Period size: 41 Copynumber: 4.1 Consensus size: 41
8742494 CAAAAATTAT
* * * *
8742504 AAAACACGGAGCAATAGCGAC-ATTTTGGTAAAATGCCGCTA
1 AAAACAC-GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
8742545 AAAAC-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACAC-GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
8742586 AAAAGCA-GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAA-CACGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
***
8742627 AAAACTA-GAGCATTAGCGGCGCTTTCAATAAAACGCCGCTA
1 AAAAC-ACGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
8742668 AAA
1 AAA
8742671 GTCATATAAT
Statistics
Matches: 114, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
40 13 0.11
41 100 0.88
42 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAACACGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:8742556 original size:40 final size:41
Alignment explanation
Indices: 8742526--8742670 Score: 236
Period size: 41 Copynumber: 3.5 Consensus size: 41
8742516 AATAGCGACA
*
8742526 TTTTGGTAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
*
8742567 TTTTGGTAAAACGCCGCTAAAAAGCAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
*
8742608 TTTTGGTAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGC
1 TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
***
8742649 TTTCAATAAAACGCCGCTAAAA
1 TTTTGGTAAAACGCCGCTAAAA
8742671 GTCATATAAT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (41 bp):
TTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
Found at i:8742835 original size:120 final size:119
Alignment explanation
Indices: 8742698--8742937 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 119
8742688 ACCCTAAAAC
8742698 ACTAAATATAACTCCTAAAACCCTAAACTCCAAAAAACATCATATGGATGTTGATGTGTATATAC
1 ACTAAATATAACTCCTAAAACCCTAAACTCCAAAAAACATCATATGGATGTTGATGTGTATATAC
8742763 ATAGATATTAATGTAAAAGCTTATGTTCATAATAATTTATGAAATTAAAACTGA
66 ATAGATATTAATGTAAAAGCTTATGTTCATAATAATTTATGAAATTAAAACTGA
8742817 ACTAAACTATAACTCCTAAAACCCTAAACTCCAAAAAACATCATATGGATGTTGATGTGTATATA
1 ACTAAA-TATAACTCCTAAAACCCTAAACTCCAAAAAACATCATATGGATGTTGATGTGTATATA
8742882 CATAGATATTAATGTAAAAGCTTATGTTCATAATAATTTATGAAATTAAAACTGA
65 CATAGATATTAATGTAAAAGCTTATGTTCATAATAATTTATGAAATTAAAACTGA
8742937 A
1 A
8742938 TGGGGTTTGA
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 6 0.05
120 114 0.95
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.32
Consensus pattern (119 bp):
ACTAAATATAACTCCTAAAACCCTAAACTCCAAAAAACATCATATGGATGTTGATGTGTATATAC
ATAGATATTAATGTAAAAGCTTATGTTCATAATAATTTATGAAATTAAAACTGA
Found at i:8747817 original size:18 final size:20
Alignment explanation
Indices: 8747777--8747828 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
8747767 TCTTTTAACA
*
8747777 AAAAATACAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
*
8747796 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
8747815 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
8747829 TTGTGGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:8749117 original size:42 final size:41
Alignment explanation
Indices: 8749065--8749175 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 41
8749055 AATATATATG
* * *
8749065 GTCTCTAGTGGCGTTTTTGGGAAAAGTGTCGCTAAAGATCAT
1 GTCTTTAGTGGCGTTTTTGGG-AAAGCGCCGCTAAAGATCAT
*
8749107 GTCTTTAGTGGCGTTTTTAGGGAAAGCGCCGCTAAAGGTCAT
1 GTCTTTAGTGGCGTTTTT-GGGAAAGCGCCGCTAAAGATCAT
*
8749149 GACTTTTAGTGGCGTTTTTGGGGAAAG
1 GTC-TTTAGTGGCGTTTTT-GGGAAAG
8749176 ACCTTTAGCG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 36 0.59
43 25 0.41
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.33
Consensus pattern (41 bp):
GTCTTTAGTGGCGTTTTTGGGAAAGCGCCGCTAAAGATCAT
Found at i:8749573 original size:24 final size:24
Alignment explanation
Indices: 8749545--8749596 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
8749535 TTTCTAAAAG
* *
8749545 ATTTAGTATTTATTAGTATA-ATAT
1 ATTTAGCATTTATTACTATAGAT-T
8749569 ATTTAGCATTTATTACTATAGATT
1 ATTTAGCATTTATTACTATAGATT
8749593 ATTT
1 ATTT
8749597 GACTTTGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTACTATAGATT
Found at i:8752678 original size:11 final size:11
Alignment explanation
Indices: 8752664--8752703 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
8752654 ATTTTCTCCC
8752664 TATTTTGCTAT
1 TATTTTGCTAT
*
8752675 TATTTTACTAT
1 TATTTTGCTAT
* *
8752686 TATGTTGCTAC
1 TATTTTGCTAT
8752697 TATTTTG
1 TATTTTG
8752704 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:8754167 original size:7 final size:7
Alignment explanation
Indices: 8754155--8754186 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
8754145 TATTTTTTAT
8754155 ATTTGAA
1 ATTTGAA
8754162 ATTTGAA
1 ATTTGAA
8754169 ATTTGAA
1 ATTTGAA
*
8754176 ACTTGAA
1 ATTTGAA
8754183 ATTT
1 ATTT
8754187 AATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (7 bp):
ATTTGAA
Found at i:8754658 original size:38 final size:40
Alignment explanation
Indices: 8754611--8754686 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
8754601 AACTTGACCC
*
8754611 AATTCAAATTTAATT-T-AAATGATAAATAATATTTTTAA
1 AATTCAAATTTAATTATAAAATCATAAATAATATTTTTAA
* *
8754649 AATTTAAATTTAATTATAAAAATCATAAATACTATTTT
1 AATTCAAATTTAATTAT-AAAATCATAAATAATATTTT
8754687 AAATAATGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 14 0.44
39 1 0.03
41 17 0.53
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (40 bp):
AATTCAAATTTAATTATAAAATCATAAATAATATTTTTAA
Found at i:8759777 original size:5 final size:5
Alignment explanation
Indices: 8759767--8759796 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
8759757 TTAGTTGTTA
8759767 ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
8759797 TAACTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:8761069 original size:27 final size:28
Alignment explanation
Indices: 8761037--8761091 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
8761027 GTAAAACAAT
8761037 TTAAAATAGAGT-ATATATATATA-AATA
1 TTAAAATAG-GTAATATATATATATAATA
8761064 TTAAAATAGGTAATATATATATATAATA
1 TTAAAATAGGTAATATATATATATAATA
8761092 AATACTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 2 0.08
27 20 0.77
28 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (28 bp):
TTAAAATAGGTAATATATATATATAATA
Found at i:8761093 original size:25 final size:27
Alignment explanation
Indices: 8761038--8761093 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
8761028 TAAAACAATT
*
8761038 TAAAATAGAGTATATATATATAAATAT
1 TAAAATAGAGTATATATATATAAATAA
*
8761065 TAAAATAG-GTA-ATATATATATATAA
1 TAAAATAGAGTATATATATATAAATAA
8761090 TAAA
1 TAAA
8761094 TACTATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.59
26 3 0.11
27 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (27 bp):
TAAAATAGAGTATATATATATAAATAA
Found at i:8761224 original size:45 final size:44
Alignment explanation
Indices: 8761132--8761229 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 44
8761122 ATAATAAAAC
* * * *
8761132 AATTTAAAACGAATAAGAGATTTTAAAATAAGTTGTATAAGACA
1 AATTTAAAAAGAATAAGAAAGTTTAAAATAAGTTATATAAGACA
*
8761176 AATTTAAATAAGAATAAGACAAGTTTAAAATAA-TATATATAA-AGA
1 AATTTAAA-AAGAATAAGA-AAGTTTAAAATAAGT-TATATAAGACA
8761221 AATTTAAAA
1 AATTTAAAA
8761230 TAAATATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
44 9 0.20
45 20 0.43
46 17 0.37
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (44 bp):
AATTTAAAAAGAATAAGAAAGTTTAAAATAAGTTATATAAGACA
Found at i:8761277 original size:27 final size:26
Alignment explanation
Indices: 8761247--8761451 Score: 160
Period size: 26 Copynumber: 7.7 Consensus size: 26
8761237 TAAGAGGCTC
*
8761247 AAAAT-AATAATATGTAAAAAGAAATTT
1 AAAATAAATAATATAT-AAAA-AAATTT
* *
8761274 AAAATAAATAATATATAAGAAATTTT
1 AAAATAAATAATATATAAAAAAATTT
* * *
8761300 AAAGTAAATAACATATAAAATAATTT
1 AAAATAAATAATATATAAAAAAATTT
** * * * *
8761326 AAACCAAGTAATACATATAAAACTTT
1 AAAATAAATAATATATAAAAAAATTT
* * * *
8761352 AAAATAGATAATATACACAAAGATTT
1 AAAATAAATAATATATAAAAAAATTT
* * *
8761378 AAAATAAATCATATGTGGAAAAAATTT
1 AAAATAAATAATATAT-AAAAAAATTT
*
8761405 AAAATAAATAATATGTAAAAATAATTTT
1 AAAATAAATAATATATAAAAA-AA-TTT
*
8761433 GAAAATATATAATATATAA
1 -AAAATAAATAATATATAA
8761452 GAAGTATGTA
Statistics
Matches: 137, Mismatches: 36, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
26 77 0.56
27 32 0.23
28 12 0.09
29 16 0.12
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAATAAATAATATATAAAAAAATTT
Found at i:8765126 original size:28 final size:28
Alignment explanation
Indices: 8765095--8765156 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
8765085 TCCCATATTA
8765095 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
8765123 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
8765151 ATGGGG
1 ATGGGG
8765157 ATGATAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:8770231 original size:28 final size:28
Alignment explanation
Indices: 8770200--8770261 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
8770190 TCCCATATTA
8770200 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
8770228 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
8770256 ATGGGG
1 ATGGGG
8770262 ATGATAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.31, T:0.31
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:8789388 original size:25 final size:25
Alignment explanation
Indices: 8789289--8789401 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
8789279 ATACATGTAT
*
8789289 GCTCATACGAGC-G-ATAAACGGTAA
1 GCTCATATGAGCTGAAT-AACGGTAA
* * *
8789313 GCTCAT-TCGAGCAGAATATCAGTAA
1 GCTCATAT-GAGCTGAATAACGGTAA
* *
8789338 GCTCCTATGAGCTGAATAACGATAA
1 GCTCATATGAGCTGAATAACGGTAA
* **
8789363 GCTCTTATGAGCTGAGA-ATTGGTAA
1 GCTCATATGAGCTGA-ATAACGGTAA
*
8789388 GCTCATACGAGCTG
1 GCTCATATGAGCTG
8789402 CAGTGAGTCC
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
24 10 0.14
25 56 0.80
26 4 0.06
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (25 bp):
GCTCATATGAGCTGAATAACGGTAA
Found at i:8792045 original size:132 final size:132
Alignment explanation
Indices: 8791800--8792293 Score: 376
Period size: 132 Copynumber: 3.7 Consensus size: 132
8791790 TACTTATTCT
*
8791800 TTTTAAGAATTCTTTAAAACGAAGGCGGTATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
1 TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
* * ** * *
8791865 CGTGTTGGGTTGCAATTTCTTGTTTGCTCAAAGTAATTGAAAGGCCCTTTCGAATTTCACCCATG
66 CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTCAAAAGCCCTTTCGAATTTCACCCATG
8791930 TC
131 TC
* ** * *
8791932 TTTTAAGAGTTCTTTTCAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAA
1 TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
* * * *
8791997 TGTGCTGGGTTGCAATTT-TGCGTTTGCTCAAAACAA-TCAAATATCCC-TTCAAAATTTCACTC
66 CGTGCTGGGTTGCAATTTCT-CGTTTGCTCAAAACAATTCAAA-AGCCCTTTC-GAATTTCACCC
*
8792059 AGGTC
128 ATGTC
* * * * * * *
8792064 TTCTAAAAATCCTTTAAAATGAAGGC-A-AGTCTCGGTGTTTGACAATTC-AGGAATCATGCCCT
1 TTTTAAGAATTCTTTAAAACGAAGGCGATA-T-TCGATATTTGACAATTCGAGGAATCGTGCCCT
* ** * * * * * ** * ** *
8792126 ATCGTGCTGGGTTGTGATCTCTCATTTGTTAAAAACAA-TCGAATATTCCTTTAGGTTTTCACTC
64 AACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTC-AAAAGCCCTTTCGAATTTCACCC
*
8792190 ACGT-
128 ATGTC
* ** * * ** * * * * *
8792194 TTTCTAAAAAACCCTTTAAAATGAAAGAAATGTTCGATGTTTGGCAATTCGGGGGATCGTGCCCT
1 TTT-T-AAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCT
*
8792259 AACGTGTTGGGTTGCAATTTC-CTGTTTGCTCAAAA
64 AACGTGCTGGGTTGCAATTTCTC-GTTTGCTCAAAA
8792294 TAATCGAATG
Statistics
Matches: 286, Mismatches: 62, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
130 3 0.01
131 68 0.24
132 177 0.62
133 38 0.13
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (132 bp):
TTTTAAGAATTCTTTAAAACGAAGGCGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAA
CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATTCAAAAGCCCTTTCGAATTTCACCCATG
TC
Found at i:8792162 original size:131 final size:133
Alignment explanation
Indices: 8791962--8792272 Score: 315
Period size: 131 Copynumber: 2.4 Consensus size: 133
8791952 GAAGGCGATA
* * * * * ** * * * *
8791962 TTCGATATTTGGCAATTCGTGGAATCGTGCCCTAATGTGCTGGGTTGCAAT-TTTGCGTTTGCTC
1 TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCT-CATTTGTTA
* * * *
8792026 AAAACAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCT-AAAAATCCTTTAAAATGAAGGC
65 AAAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGA
8792090 AA-G
130 AATG
* *
8792093 TCTCGGTGTTTGACAATTC-AGGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGTTA
1 T-TCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCTCATTTGTTA
* * * *** *
8792157 AAAACAATCGAATATTCCTTTAGGTTTTCACTCACGTTTTCTAAAAAACCCTTTAAAATGAAAGA
65 AAAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGA
8792222 AATG
130 AATG
* * * * *
8792226 TTCGATGTTTGGCAATTCGGGGGATCGTGCCCTAACGTGTTGGGTTG
1 TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTG
8792273 CAATTTCCTG
Statistics
Matches: 144, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
131 67 0.47
132 52 0.36
133 25 0.17
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (133 bp):
TTCGATGTTTGACAATTCGAGGAATCATGCCCTAACGTGCTGGGTTGTGATCTCTCATTTGTTAA
AAACAATCAAATATCCCTTCAAAATTTCACTCACGTCTTCTAAAAAACCCTTTAAAATGAAAGAA
ATG
Found at i:8807361 original size:132 final size:132
Alignment explanation
Indices: 8807024--8807583 Score: 761
Period size: 132 Copynumber: 4.2 Consensus size: 132
8807014 ACAAATCCTA
* * * * *
8807024 TTTCCCTGAAGTTGTAGTGAAACAGATCGAAGACGGCGAGTCTTGGCTTCCTGAAGTTGCAGTGA
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
* * *
8807089 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGGTCC
66 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
8807154 TG
131 TG
* * * *
8807156 TATT-CC-TAAAATGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTCGTAGTG
1 T-TTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTG
*
8807219 AAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATC
65 AAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATC
8807284 TTG
130 TTG
*
8807287 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTGGCTTCCTGAAGTTGCAGTGA
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
* ** *
8807352 AGCAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTACAGATTT
66 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
8807417 TG
131 TG
** * * *
8807419 TTTCCC-TAAAGTTGCAGTGGAA-CAGATCGAAGACGATGAATCTTGGTTTCCTGAAGCTGCAAT
1 TTTCCCTTAAA-TTGCAGT-GAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGT
* * ***
8807482 GAAGCAGATTTACA-CCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAGATAGAAG
64 GAAGCAGATTTA-AGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAA-ATTTTAG
8807546 ATCTTG
127 ATCTTG
* * *
8807552 TCTCCCTGAAGTTGCAGTGAAGCAGATCGAAG
1 TTTCCCTTAAATTGCAGTGAAGCAGATCGAAG
8807584 TCATAATACT
Statistics
Matches: 380, Mismatches: 39, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
130 2 0.01
131 119 0.31
132 220 0.58
133 37 0.10
134 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TTTCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCGAATCTTGGCTTCCTGAAGTTGCAGTGA
AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
TG
Found at i:8807613 original size:264 final size:263
Alignment explanation
Indices: 8807026--8807583 Score: 782
Period size: 263 Copynumber: 2.1 Consensus size: 263
8807016 AAATCCTATT
* * * * * *
8807026 TCCCTGAAGTTGTAGTGAAACAGATCGAAGACGGCGAGTCTTGGCTTCCTGAAGTTGCAGTGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTAGCTTCCTGAAGTTGCAGTGAAG
* ** *
8807091 CAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTTTAGGTCCTG
66 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCCTG
* * *
8807156 TATTCCTAAAATGCAGTGAAGCAGATCGAAGACGGTGAATCTTGGCTTCCTGAAGTCGTAGTGAA
131 TATTCCTAAAATGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTCGCAATGAA
* * * ***
8807221 GTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCTT
196 GCAGATTTAAGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAATAGAAGATCTT
*
8807286 GTT
261 GTC
* *
8807289 TCCCTTAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTGGCTTCCTGAAGTTGCAGTGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTAGCTTCCTGAAGTTGCAGTGAAG
* **
8807354 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTACAGATTTTG
66 CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCCTG
* *
8807419 T-TTCCCTAAAGTTGCAGTGGAA-CAGATCGAAGACGATGAATCTTGGTTTCCTGAAG-CTGCAA
131 TATT-CCTAAA-ATGCAGT-GAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTC-GCAA
8807481 TGAAGCAGATTTACA-CCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAGATAGAA
192 TGAAGCAGATTTA-AGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAA-ATAGAA
8807545 GATCTTGTC
255 GATCTTGTC
*
8807554 TCCCTGAAGTTGCAGTGAAGCAGATCGAAG
1 TCCCTGAAATTGCAGTGAAGCAGATCGAAG
8807584 TCATAATACT
Statistics
Matches: 262, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
262 2 0.01
263 125 0.48
264 92 0.35
265 43 0.16
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (263 bp):
TCCCTGAAATTGCAGTGAAGCAGATCGAAGACGGCAAATCTTAGCTTCCTGAAGTTGCAGTGAAG
CAGATTTAAGCCACCAACCTAGCCCCCTAAAGTTGTAGTGGAGTAGGCTAAAATTACAGATCCTG
TATTCCTAAAATGCAGTGAAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGTCGCAATGAA
GCAGATTTAAGCCACCAACCTAACTCCCTAAAGATGTAGTGGAGTAGGCTGAAATAGAAGATCTT
GTC
Found at i:8810651 original size:131 final size:130
Alignment explanation
Indices: 8810412--8810920 Score: 434
Period size: 131 Copynumber: 3.9 Consensus size: 130
8810402 AGAATTCTTG
** *
8810412 AAAACGAAGGCGGTATTCGAT-TTTGACAATTCCTCGAGGAATCGTGCCCTAACGTGTTGGGTTG
1 AAAACGAAGGCAATATTCGATGTTTGACAA-T--TCG-GGAATCGTGCCCTAACGTGCTGGGTTG
* * * * * * * *
8810476 CAATTTCTCGTTTGCTCAAAGTAATCGAAAGATCCTTTC-GAATTTCACCCATGCCTTTTAAGAT
62 CAATTTCTCGTTTGCTCAAACTAATC-AAATATCCCTTCAAAATTTCACTCACG-CTTTTAAAAA
*
8810540 TTCTTT
125 TCCTTT
* * *
8810546 -AAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAA
1 AAAACGAAGGCAATATTCGATGTTTGACAATTCG-GGAATCGTGCCCTAACGTGCTGGGTTGCAA
* * * *
8810610 TTTCGCGTTTGCTCGAACTAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCTAAAAATCCT
65 TTTCTCGTTTGCTCAAACTAATCAAATATCCCTTCAAAATTTCACTCACG-CTTTTAAAAATCCT
8810675 TT
129 TT
* * * * * * **
8810677 AAAACGAAGGCAAGACTCGGTGTTTGACAATTTGGGAATCATGCCCTATCGTGCTGGGTTGTGAT
1 AAAACGAAGGCAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGCAAT
* * * * ** * *
8810742 CTCTCGTTTGTTCAAAAC-AATCGAATATTCCTT-AAGGTTTTCACTCACGTTTTCTAAAAAACC
66 TTCTCGTTTGCTC-AAACTAATCAAATATCCCTTCAA-AATTTCACTCACGCTTT-T-AAAAATC
8810805 CTTT
127 CTTT
* * * * * *
8810809 AAAACGAAAGAAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGGCAATATTCGATGTTTGACAATTC-GGGAATCGTGCCCTAACGTGCTGGGTTGCAA
* * * * * **
8810874 TTTCCCGTTTGCTCAAAATAATCGAATGTCTCTTCAGGATTTCACTC
65 TTTCTCGTTTGCTCAAACTAATCAAATATCCCTTCAAAATTTCACTC
8810921 GTATTTTCTA
Statistics
Matches: 302, Mismatches: 63, Indels: 21
0.78 0.16 0.05
Matches are distributed among these distances:
130 14 0.05
131 136 0.45
132 66 0.22
133 78 0.26
134 8 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (130 bp):
AAAACGAAGGCAATATTCGATGTTTGACAATTCGGGAATCGTGCCCTAACGTGCTGGGTTGCAAT
TTCTCGTTTGCTCAAACTAATCAAATATCCCTTCAAAATTTCACTCACGCTTTTAAAAATCCTTT
Found at i:8813936 original size:58 final size:58
Alignment explanation
Indices: 8813846--8813963 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
8813836 AAGAGGAAAG
8813846 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
1 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
8813904 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
1 ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
8813962 AT
1 AT
8813964 TGTTATCTCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (58 bp):
ATATTTTCTATTTCATATTCATTATTAAGTGTACTATTTGTATTGGTAATGGCTTTAC
Found at i:8821275 original size:31 final size:31
Alignment explanation
Indices: 8821202--8821275 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
8821192 TTCTGGTTTG
* *
8821202 AATTTTTTTTAAGATTAAGTTCTAAATTTGAT
1 AATTTTTTTT-AGATTAAGTTCTAAACTTGAC
* * *
8821234 AAATATTTTTATATTAGAGTT-TAAACTTGAC
1 AATTTTTTTTAGATTA-AGTTCTAAACTTGAC
8821265 AATTTTTTTTA
1 AATTTTTTTTA
8821276 CATTGGGGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
31 22 0.65
32 12 0.35
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (31 bp):
AATTTTTTTTAGATTAAGTTCTAAACTTGAC
Found at i:8821455 original size:60 final size:60
Alignment explanation
Indices: 8821363--8821501 Score: 174
Period size: 60 Copynumber: 2.3 Consensus size: 60
8821353 TTTTTAAGGA
* ** * * *
8821363 CTAACTTGGA-TAAAAATAAGTTTAAGTTCCAATATGGGAACATTTGCCAAATTTAGGGC
1 CTAACTTGGACTAAAAAAAAGTTTAAGCCCCAATATGGGAACAATTGCCAAATTCAGAGC
*
8821422 CTAACTTGGACTAAAAAAAAGTTT-AGACCCCAATATGGGAACAATTGCCAAGTTCAGAGC
1 CTAACTTGGACTAAAAAAAAGTTTAAG-CCCCAATATGGGAACAATTGCCAAATTCAGAGC
* *
8821482 TTAACTTGGACAAAAAAAAA
1 CTAACTTGGACTAAAAAAAA
8821502 TTCAGGCCTC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 12 0.17
60 57 0.83
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (60 bp):
CTAACTTGGACTAAAAAAAAGTTTAAGCCCCAATATGGGAACAATTGCCAAATTCAGAGC
Found at i:8821534 original size:59 final size:60
Alignment explanation
Indices: 8821391--8821536 Score: 168
Period size: 60 Copynumber: 2.5 Consensus size: 60
8821381 AGTTTAAGTT
* * * * * * *
8821391 CCAATATGGGAACATTTGCCAAATTTAGGGCCTAACTTGGACTAAAAAAAAGTTTAGACC
1 CCAATATGGGAACAATTGCCAAGTTCAGAGCTTAACTTGGACTAAAAAAAAATTCAGACC
*
8821451 CCAATATGGGAACAATTGCCAAGTTCAGAGCTTAACTTGGAC-AAAAAAAAATTCAGGCC
1 CCAATATGGGAACAATTGCCAAGTTCAGAGCTTAACTTGGACTAAAAAAAAATTCAGACC
* * * * *
8821510 TCAATGTGGGAAGAGTTGCTAAGTTCA
1 CCAATATGGGAACAATTGCCAAGTTCA
8821537 AGCCCCAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 36 0.49
60 37 0.51
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (60 bp):
CCAATATGGGAACAATTGCCAAGTTCAGAGCTTAACTTGGACTAAAAAAAAATTCAGACC
Found at i:8826421 original size:6 final size:6
Alignment explanation
Indices: 8826397--8826446 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
8826387 ACAATACCTA
* * * *
8826397 AACAGT AATAAGT AACAGT AGCAGT AACAGT AACTGT AATAGT AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
8826446 A
1 A
8826447 TTCAACACAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (6 bp):
AACAGT
Found at i:8826487 original size:45 final size:45
Alignment explanation
Indices: 8826438--8826536 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
8826428 AACTGTAATA
* *
8826438 GTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGTC-AAATCGGTAACAGTAACG
* *
8826483 GTAACAGTATTCGACACACAAAGTGTCAAATCGGTAACAGTAACT
1 GTAACAGTATTCAACACACAAAGTGTCAAATCGGTAACAGTAACG
8826528 GTAACAGTA
1 GTAACAGTA
8826537 ACAGTAGTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (45 bp):
GTAACAGTATTCAACACACAAAGTGTCAAATCGGTAACAGTAACG
Found at i:8826948 original size:53 final size:53
Alignment explanation
Indices: 8826876--8826981 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
8826866 ACCCAATCAT
8826876 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
1 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
8826929 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
1 AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
8826982 GTAAATTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.36
Consensus pattern (53 bp):
AAATTTATCATTTTACTCAACACTTACCTTAAAATACTTACCACACATAATTA
Found at i:8826969 original size:25 final size:25
Alignment explanation
Indices: 8826888--8826969 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
8826878 ATTTATCATT
8826888 TTACTCAACACTTACCTTAAAATAC
1 TTACTCAACACTTACCTTAAAATAC
* *
8826913 TTAC-C-ACACATA-ATTAAAATTTATC
1 TTACTCAACACTTACCTTAAAA--TA-C
8826938 ATTTTACTCAACACTTACCTTAAAATAC
1 ---TTACTCAACACTTACCTTAAAATAC
8826966 TTAC
1 TTAC
8826970 CACACATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 18
0.67 0.06 0.27
Matches are distributed among these distances:
22 6 0.14
23 6 0.14
24 3 0.07
25 9 0.20
28 5 0.11
29 3 0.07
30 6 0.14
31 6 0.14
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.35
Consensus pattern (25 bp):
TTACTCAACACTTACCTTAAAATAC
Found at i:8827900 original size:33 final size:32
Alignment explanation
Indices: 8827863--8827925 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
8827853 ATTATTTAAT
*
8827863 TAATAAATATCT-CTTAATTTTAATAATAATAAA
1 TAATAAATATCTAC-TAATTTAAATAA-AATAAA
8827896 TAATAAATATCTACTAATTTAAATAAAATA
1 TAATAAATATCTACTAATTTAAATAAAATA
8827926 TTACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAAATATCTACTAATTTAAATAAAATAAA
Found at i:8835470 original size:33 final size:32
Alignment explanation
Indices: 8835419--8835481 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
8835409 ATTATTTAAT
*
8835419 TAATAAATATATCTTAATTTTAATAATAATAAA
1 TAATAAATATATCTTAATTTAAATAA-AATAAA
*
8835452 TAATAAATATCTAC-TAATTTAAATAAAATA
1 TAATAAATATAT-CTTAATTTAAATAAAATA
8835482 TTACAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 4 0.15
33 22 0.81
34 1 0.04
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAAATATATCTTAATTTAAATAAAATAAA
Found at i:8840282 original size:33 final size:32
Alignment explanation
Indices: 8840231--8840293 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
8840221 ATTATTTAAT
*
8840231 TAATAAATATATCTTAATTTTAATAATAATAAA
1 TAATAAATATATCTTAATTTAAATAA-AATAAA
*
8840264 TAATAAATATCTAC-TAATTTAAATAAAATA
1 TAATAAATATAT-CTTAATTTAAATAAAATA
8840294 TTACAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 4 0.15
33 22 0.81
34 1 0.04
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (32 bp):
TAATAAATATATCTTAATTTAAATAAAATAAA
Found at i:8849970 original size:10 final size:12
Alignment explanation
Indices: 8849944--8849971 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8849934 GTGCCAGGCC
8849944 GTGTGCTAGGTT
1 GTGTGCTAGGTT
8849956 GTGTGCTAGGTT
1 GTGTGCTAGGTT
8849968 GTGT
1 GTGT
8849972 AACTCACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.43, T:0.43
Consensus pattern (12 bp):
GTGTGCTAGGTT
Found at i:8855255 original size:32 final size:29
Alignment explanation
Indices: 8855192--8855279 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
8855182 TATGTGTGAC
* * * *
8855192 ACACGACCATATGATACGGCCGTGTGT-T
1 ACACAACCATACGACACGACCGTGTGTCT
* *
8855220 ACACACAGCCATGCGACACGATCGTGTGTCGT
1 ACACA-A-CCATACGACACGACCGTGTGTC-T
*
8855252 ACACAACTATACGACACGACCGTGTGTC
1 ACACAACCATACGACACGACCGTGTGTC
8855280 CCTTATAGGC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
28 4 0.09
29 1 0.02
30 35 0.74
31 1 0.02
32 6 0.13
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (29 bp):
ACACAACCATACGACACGACCGTGTGTCT
Found at i:8857659 original size:19 final size:19
Alignment explanation
Indices: 8857618--8857659 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
8857608 GAAATAGTAG
*
8857618 AAAAGAAGAAAAAGAAAAC
1 AAAAGAAGAAAAAGAAAAA
*
8857637 AAAAGTAAG-AAATGAAAAA
1 AAAAG-AAGAAAAAGAAAAA
8857656 AAAA
1 AAAA
8857660 TGGGAAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAAGAAGAAAAAGAAAAA
Found at i:8865224 original size:30 final size:30
Alignment explanation
Indices: 8865190--8865252 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
8865180 AACCAAACCA
8865190 TCTGATGATAACCGTCGTAAAACTTATCAG
1 TCTGATGATAACCGTCGTAAAACTTATCAG
8865220 TCTGATGATAACCGTCGTAAAACTTATCAG
1 TCTGATGATAACCGTCGTAAAACTTATCAG
8865250 TCT
1 TCT
8865253 CAGAAAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (30 bp):
TCTGATGATAACCGTCGTAAAACTTATCAG
Found at i:8866175 original size:31 final size:31
Alignment explanation
Indices: 8866137--8866199 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
8866127 TCATGTCTAC
*
8866137 AGGATTTTCATGAGTACTAATTTTGCTCACA
1 AGGATTTTCATGAATACTAATTTTGCTCACA
* *
8866168 AGGATTTTTATGAATACTAATTTTTCTCACA
1 AGGATTTTCATGAATACTAATTTTGCTCACA
8866199 A
1 A
8866200 CAATATCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (31 bp):
AGGATTTTCATGAATACTAATTTTGCTCACA
Found at i:8866401 original size:26 final size:26
Alignment explanation
Indices: 8866365--8866419 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
8866355 AAGAGTCCCT
8866365 TCAACCAAATAGCTTATTTACAAGCA
1 TCAACCAAATAGCTTATTTACAAGCA
8866391 TCAACCAAATAGCTTATTTACAAGCA
1 TCAACCAAATAGCTTATTTACAAGCA
8866417 TCA
1 TCA
8866420 GTAATCACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (26 bp):
TCAACCAAATAGCTTATTTACAAGCA
Found at i:8871258 original size:6 final size:6
Alignment explanation
Indices: 8871249--8871273 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8871239 TATTCGAACA
8871249 TGTATT TGTATT TGTATT TGTATT T
1 TGTATT TGTATT TGTATT TGTATT T
8871274 TAATTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TGTATT
Found at i:8879372 original size:19 final size:19
Alignment explanation
Indices: 8879334--8879373 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8879324 CACTATAATG
*
8879334 TTTTCTTTCTTTTTTTCTT
1 TTTTCTTTCTTTTTTCCTT
8879353 TTTTCTTT-TTTTTTGCCTT
1 TTTTCTTTCTTTTTT-CCTT
8879372 TT
1 TT
8879374 GGAGGCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTTCTTTCTTTTTTCCTT
Found at i:8883143 original size:19 final size:20
Alignment explanation
Indices: 8883121--8883159 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8883111 TCAAATTTAT
8883121 TTTTTAAATTTA-AATATTC
1 TTTTTAAATTTATAATATTC
*
8883140 TTTTTACATTTATAATATTC
1 TTTTTAAATTTATAATATTC
8883160 GAATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAATTTATAATATTC
Found at i:8887544 original size:37 final size:37
Alignment explanation
Indices: 8887420--8887565 Score: 105
Period size: 37 Copynumber: 3.9 Consensus size: 37
8887410 TATGCAGCAG
* * ** *
8887420 ATGCAC-GAGGCGAAGGCGATGGAGGAGATGAATTGCG
1 ATGCACAG-GGCGAAAGCGACGGAGGAGATGGGTTGCA
* * * * * *
8887457 ATGCTCTGGACGAAGGCGATGGAGGAGATGGTTTGCA
1 ATGCACAGGGCGAAAGCGACGGAGGAGATGGGTTGCA
* * *
8887494 ATGCACAGTGCGAAAGTGACGGAGGAGATGGGTTGCG
1 ATGCACAGGGCGAAAGCGACGGAGGAGATGGGTTGCA
** * *
8887531 ATGCATGGGGCGAAAGCGACGAAAGAGATAGGGTT
1 ATGCACAGGGCGAAAGCGACGGAGGAGAT-GGGTT
8887566 TGGGGGGAAT
Statistics
Matches: 87, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
37 81 0.93
38 6 0.07
ACGTcount: A:0.29, C:0.13, G:0.42, T:0.16
Consensus pattern (37 bp):
ATGCACAGGGCGAAAGCGACGGAGGAGATGGGTTGCA
Found at i:8888174 original size:165 final size:163
Alignment explanation
Indices: 8887831--8888176 Score: 382
Period size: 165 Copynumber: 2.1 Consensus size: 163
8887821 TTTTTGCAAT
* * * * *
8887831 AAAACACCACTAAAAGTTTAATTCCATATTGTGAAAC-GTCGTCGTTCAAGGTTAATGGGTATTG
1 AAAACACCACTAAAAG-TTAAAT-CGTGTTGTGAAACAAT-GTCGTTCAAGGGTAATGGGTATTG
* *
8887895 CACTTTTACGGCGTTTTTCAAAAACGCCCTTAAAACTTAATTCCATGACGTAGAATGATGACGTC
63 AACTTTTACGGCGTTTTACAAAAACGCCCTTAAAACTTAATTCCATGACGTAGAA-GATGACGTC
* * *
8887960 CAGGGTAAATATGTATTATAAATTTGCGGCGTTTATG
127 CAGGGCAAATATGTATTACAAATTTACGGCGTTTATG
8887997 AAAACACCACTAAAAGTTAAATCGTGTTGTGAAACAATGTCGTTCAAGGGTAATGGGTATTGAAC
1 AAAACACCACTAAAAGTTAAATCGTGTTGTGAAACAATGTCGTTCAAGGGTAATGGGTATTGAAC
* * *
8888062 TTTTGCGGCGTTTATACAAAAACGCCAC-TAAAACTTATTTGCC-TGGCGT-GAA-ACT-ACGTC
66 TTTTACGGCGTTT-TACAAAAACGCC-CTTAAAACTTAATT-CCATGACGTAGAAGA-TGACGTC
* *
8888122 TTCGAGGGCAAAT-TGGTGTTGCAAATTTACGGCGTTTATG
127 --C-AGGGCAAATAT-GTATTACAAATTTACGGCGTTTATG
* *
8888162 AAAGCGCCACTAAAA
1 AAAACACCACTAAAA
8888177 ATTTTATTCC
Statistics
Matches: 154, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
162 6 0.04
163 1 0.01
164 53 0.34
165 75 0.49
166 19 0.12
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (163 bp):
AAAACACCACTAAAAGTTAAATCGTGTTGTGAAACAATGTCGTTCAAGGGTAATGGGTATTGAAC
TTTTACGGCGTTTTACAAAAACGCCCTTAAAACTTAATTCCATGACGTAGAAGATGACGTCCAGG
GCAAATATGTATTACAAATTTACGGCGTTTATG
Found at i:8888986 original size:41 final size:41
Alignment explanation
Indices: 8888845--8888985 Score: 194
Period size: 41 Copynumber: 3.5 Consensus size: 41
8888835 GATAAAAACA
* * *
8888845 CCGCTATTGATCAATTTTTAGTGGCGTTTTGGCCAAAAATG
1 CCGCTATTGCTCAGTTTTTAGTGGCATTTTGGCCAAAAATG
* * *
8888886 CCGCTATTGCTCAGTTTTTAGTGGCAGTTAGGCCAAAAACG
1 CCGCTATTGCTCAGTTTTTAGTGGCATTTTGGCCAAAAATG
8888927 CCGCTATTGCTCAGTTTTTAGTGGC-TTTTGGCCAAAAATG
1 CCGCTATTGCTCAGTTTTTAGTGGCATTTTGGCCAAAAATG
* * *
8888967 CTGCTATTGTTAAGTTTTT
1 CCGCTATTGCTCAGTTTTT
8888986 TTGCGAAAAC
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 28 0.32
41 60 0.68
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
CCGCTATTGCTCAGTTTTTAGTGGCATTTTGGCCAAAAATG
Found at i:8891126 original size:35 final size:35
Alignment explanation
Indices: 8891087--8891154 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
8891077 TAGGGATAAG
8891087 GTATCAATACTTCATTG-AAGGTATTGATACCTTTC
1 GTATCAATACTTCA-TGAAAGGTATTGATACCTTTC
* *
8891122 GTATCGATACTTTATGAAAGGTATTGATACCTT
1 GTATCAATACTTCATGAAAGGTATTGATACCTT
8891155 CGATTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (35 bp):
GTATCAATACTTCATGAAAGGTATTGATACCTTTC
Found at i:8899323 original size:26 final size:27
Alignment explanation
Indices: 8899257--8899352 Score: 72
Period size: 27 Copynumber: 3.6 Consensus size: 27
8899247 AATAACTGAT
* * *
8899257 TTCGCGCATTTAGTGCTCAGAAAT-TAA
1 TTCGCACACTTAGTGCTCAG-AATCCAA
** * *
8899284 TTTACACACATAGTGCTTA-AATCCAA
1 TTCGCACACTTAGTGCTCAGAATCCAA
* *
8899310 CTT-GCACACTTAGTGCTCAGTATCGAA
1 -TTCGCACACTTAGTGCTCAGAATCCAA
8899337 TTCGCACACTTAGTGC
1 TTCGCACACTTAGTGC
8899353 ATCCCTGAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
25 3 0.06
26 17 0.32
27 33 0.62
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (27 bp):
TTCGCACACTTAGTGCTCAGAATCCAA
Found at i:8901245 original size:17 final size:18
Alignment explanation
Indices: 8901220--8901270 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
8901210 TTATGTTTTG
* *
8901220 TCATGTATTTTTTTGTA-
1 TCATATATTTTGTTGTAC
8901237 TCATATATTTTGTTGTAC
1 TCATATATTTTGTTGTAC
8901255 TAACATATATTTTGTT
1 T--CATATATTTTGTT
8901271 AACTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.52
18 1 0.03
20 13 0.45
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.59
Consensus pattern (18 bp):
TCATATATTTTGTTGTAC
Found at i:8902102 original size:132 final size:132
Alignment explanation
Indices: 8901794--8902162 Score: 381
Period size: 132 Copynumber: 2.8 Consensus size: 132
8901784 AGTATTCACT
* * * *
8901794 TAAAAATTCTTTAAAACGAAGACGAGAT-T-CGATGTTTGGCAATTCACAGAATAGTGCCCTAAC
1 TAAAAATTCTCTAAAACGAAG--GAAATCTGCGATGTTTGGCAATTCACGGAATCGTGCCCTAAC
* * * *
8901857 GTGTTAGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGT
64 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACTCATAT
*
8901922 CTTT
129 CTTC
* * * ** * * *
8901926 TAAAAATTCTTTCAAACGGAGGTGATGTGCGATATTTGGTAATTCACGGAATCGTGCCCTAACGT
1 TAAAAATTCTCTAAAACGAAGGAAATCTGCGATGTTTGGCAATTCACGGAATCGTGCCCTAACGT
* *
8901991 GCTAGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTCCAAAATTTCA-TGCATATC
66 GCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACT-CATATC
8902055 TTC
130 TTC
* * * * ** *
8902058 TAAAAA-TCATCTAAAACGAATGAAATACT-CGGTGTTTGACAATTC-GGGAATCACGCCCTATC
1 TAAAAATTC-TCTAAAACGAAGGAAAT-CTGCGATGTTTGGCAATTCACGGAATCGTGCCCTAAC
* ** *
8902120 GTGCTGGGTTGTGATTTCTCGTTTGCTCAAAACAATCGAATAT
64 GTGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATAT
8902163 TCCTTTAGGT
Statistics
Matches: 197, Mismatches: 35, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
130 4 0.02
131 54 0.27
132 138 0.70
133 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (132 bp):
TAAAAATTCTCTAAAACGAAGGAAATCTGCGATGTTTGGCAATTCACGGAATCGTGCCCTAACGT
GCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATATCCCTCCAAAATTTCACTCATATCT
TC
Found at i:8904816 original size:18 final size:19
Alignment explanation
Indices: 8904781--8904816 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8904771 ATATAAGACA
8904781 AATAGTATCATGTCAACTT
1 AATAGTATCATGTCAACTT
*
8904800 AATAGTA-CATGTGAACT
1 AATAGTATCATGTCAACT
8904817 GCTATACGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (19 bp):
AATAGTATCATGTCAACTT
Found at i:8905733 original size:15 final size:15
Alignment explanation
Indices: 8905709--8905743 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8905699 TAATATTTTA
8905709 ATTA-ATTTTTAAAT
1 ATTATATTTTTAAAT
*
8905723 ATTATATTTTTAATT
1 ATTATATTTTTAAAT
8905738 ATTATA
1 ATTATA
8905744 ATTAGCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATATTTTTAAAT
Found at i:8913629 original size:31 final size:31
Alignment explanation
Indices: 8913591--8913708 Score: 155
Period size: 31 Copynumber: 3.8 Consensus size: 31
8913581 ACAAATGACA
* * *
8913591 AGTGAAAAGTGGTAGCTTCTGCTACCTGGTC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
8913622 AGTGAAAAGTGGTAGCTCCGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
8913653 AGTGAAAAATGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
8913684 AGTGAATAGTTGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
8913709 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:8913812 original size:47 final size:46
Alignment explanation
Indices: 8913726--8913898 Score: 130
Period size: 47 Copynumber: 3.7 Consensus size: 46
8913716 AAGTGATTTC
* * ** * * *
8913726 CGTATAATACCATATTTGGGATATAACATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* *
8913772 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
* * * * * * *
8913819 CGTGTACGACCATAGCTGGGTTATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATATCTGGGATATGGCATC-A-GTGAGATATATGA-TA
* * * *
8913868 CATGTAAGACCATAGCTGGGCTATGGCATCA
1 CGTATAAGACCATATCTGGGATATGGCATCA
8913899 TTATGTGAAG
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
46 26 0.25
47 38 0.37
48 12 0.12
49 28 0.27
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATA
Found at i:8913885 original size:49 final size:47
Alignment explanation
Indices: 8913777--8913906 Score: 163
Period size: 49 Copynumber: 2.7 Consensus size: 47
8913767 TGCTACTGTA
* * * *
8913777 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGATATGGCATCATATGTGATATGTGATTCATG
* *
8913823 TACGACCATAGCTGGGTTATGGCATCGATATGTGATATGTGATTACATG
1 TAAGACCATAGCTGGGATATGGCATC-ATATGTGATATGTGATT-CATG
*
8913872 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGATATGGCATCA-TATGTGA
8913907 AGGTGTAAGA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 23 0.32
47 1 0.01
48 14 0.19
49 34 0.47
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (47 bp):
TAAGACCATAGCTGGGATATGGCATCATATGTGATATGTGATTCATG
Found at i:8914323 original size:18 final size:18
Alignment explanation
Indices: 8914300--8914354 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
8914290 AATAATTGTG
8914300 GAATTATATACCTCATGT
1 GAATTATATACCTCATGT
* * *
8914318 GCATTATTCATA-ATTATG-
1 GAATTA-T-ATACCTCATGT
8914336 GAATTATATACCTCATGT
1 GAATTATATACCTCATGT
8914354 G
1 G
8914355 TACTATTTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 11 0.41
19 5 0.19
20 3 0.11
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (18 bp):
GAATTATATACCTCATGT
Found at i:8914325 original size:36 final size:36
Alignment explanation
Indices: 8914285--8914354 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
8914275 ATAAATGTGT
*
8914285 TTATTAATAATTGTGGAATTATATACCTCATGTGCA
1 TTATTAATAATTATGGAATTATATACCTCATGTGCA
*
8914321 TTATTCATAATTATGGAATTATATACCTCATGTG
1 TTATTAATAATTATGGAATTATATACCTCATGTG
8914355 TACTATTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (36 bp):
TTATTAATAATTATGGAATTATATACCTCATGTGCA
Found at i:8915449 original size:13 final size:13
Alignment explanation
Indices: 8915431--8915457 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8915421 TCCAGCGAAT
8915431 TCTAACTCCATAA
1 TCTAACTCCATAA
8915444 TCTAACTCCATAA
1 TCTAACTCCATAA
8915457 T
1 T
8915458 TTCCAACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (13 bp):
TCTAACTCCATAA
Found at i:8916902 original size:30 final size:30
Alignment explanation
Indices: 8916866--8916925 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
8916856 ACTTAACAAT
8916866 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
8916896 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
8916926 TAATAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:8918683 original size:74 final size:73
Alignment explanation
Indices: 8918556--8918780 Score: 310
Period size: 74 Copynumber: 3.0 Consensus size: 73
8918546 TGGTCCCCCC
* * * *
8918556 AAGGTTTAA-ATTTTTTGCAATTTAGCCCTTTATAGAGATACTAT-GACCCTCCCAAAAATATAA
1 AAGGTTTAAGA-TTTTTGCAATTT-CCCCTTTGTATATATACTATAG-CCCTCCCAAAAATATAA
8918619 GTAGGCCCTCT
63 GTAGGCCCTCT
* *
8918630 AAGGTTTAAGATTTTTGCAATTTTCCCGTTTGTATATATACTATAGCCTTCCCAAAAATATAAGT
1 AAGGTTTAAGATTTTTGCAA-TTTCCCCTTTGTATATATACTATAGCCCTCCCAAAAATATAAGT
8918695 AGGCCCTCT
65 AGGCCCTCT
* *
8918704 AAGGTTTAAGATTTTTGCAATTTCCCCCTTTGAATATATACTATAACCCTCCCAAAAATATAAGT
1 AAGGTTTAAGATTTTTGCAATTT-CCCCTTTGTATATATACTATAGCCCTCCCAAAAATATAAGT
8918769 AGGCCTCTCT
65 AGGCC-CTCT
8918779 AA
1 AA
8918781 TATTTTTATA
Statistics
Matches: 136, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
73 3 0.02
74 122 0.90
75 11 0.08
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (73 bp):
AAGGTTTAAGATTTTTGCAATTTCCCCTTTGTATATATACTATAGCCCTCCCAAAAATATAAGTA
GGCCCTCT
Found at i:8918820 original size:13 final size:12
Alignment explanation
Indices: 8918788--8918812 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8918778 TAATATTTTT
8918788 ATAATATTAAAA
1 ATAATATTAAAA
8918800 ATAATATTAAAA
1 ATAATATTAAAA
8918812 A
1 A
8918813 ATATTATTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATATTAAAA
Found at i:8918910 original size:24 final size:25
Alignment explanation
Indices: 8918883--8918933 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
8918873 AACTTTTGAA
**
8918883 TAATATTTTTGTT-AAATAATAATT
1 TAATATTTTACTTAAAATAATAATT
8918907 TAATATTTTACTTAAAATAATAATT
1 TAATATTTTACTTAAAATAATAATT
8918932 TA
1 TA
8918934 TAAGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TAATATTTTACTTAAAATAATAATT
Found at i:8921690 original size:20 final size:23
Alignment explanation
Indices: 8921653--8921696 Score: 67
Period size: 20 Copynumber: 2.0 Consensus size: 23
8921643 CATAGAAAAC
8921653 AATTTTAGTGTTAGTAAAATTAA
1 AATTTTAGTGTTAGTAAAATTAA
8921676 AATTTTA-TG-TA-TAAAATTAA
1 AATTTTAGTGTTAGTAAAATTAA
8921696 A
1 A
8921697 TTAAAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
21 2 0.10
22 2 0.10
23 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (23 bp):
AATTTTAGTGTTAGTAAAATTAA
Found at i:8921711 original size:25 final size:25
Alignment explanation
Indices: 8921669--8921719 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
8921659 AGTGTTAGTA
* *
8921669 AAATTAAAATTTTATGTATAAAATT
1 AAATTAAAAATTCATGTATAAAATT
* *
8921694 AAATTAAAAATTCGTGTATAATATT
1 AAATTAAAAATTCATGTATAAAATT
8921719 A
1 A
8921720 CATATTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (25 bp):
AAATTAAAAATTCATGTATAAAATT
Found at i:8946411 original size:29 final size:29
Alignment explanation
Indices: 8946369--8946425 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
8946359 GTAATAATAC
8946369 AAATTCCACCATCTTTTTTCCAAGCATAT
1 AAATTCCACCATCTTTTTTCCAAGCATAT
8946398 AAATTCCACCATCTTTTTTCCAAGCATA
1 AAATTCCACCATCTTTTTTCCAAGCATA
8946426 CCCTTCTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.37
Consensus pattern (29 bp):
AAATTCCACCATCTTTTTTCCAAGCATAT
Found at i:8954011 original size:69 final size:69
Alignment explanation
Indices: 8953898--8954036 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
8953888 GATAGGAAAA
*
8953898 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGGTAGG
8953963 GCTG
66 GCTG
*
8953967 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGGTAGG
8954032 GCTG
66 GCTG
8954036 A
1 A
8954037 TAGAGTCTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTCCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:8968016 original size:54 final size:55
Alignment explanation
Indices: 8967946--8968054 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 55
8967936 GTGAAAATAA
*
8967946 TTTTCAAGTTCAAGGATTAACTTGAATAAAAATAATCAAGTATAAAAACTATCAC
1 TTTTCAAGTTCAAGGATTAACTTGAATAAAAATAATCAAATATAAAAACTATCAC
* *
8968001 TTTT-AAGTTCGAGGATTAACTTGGATAAAAATAATCAAATATAAAAACTATCAC
1 TTTTCAAGTTCAAGGATTAACTTGAATAAAAATAATCAAATATAAAAACTATCAC
8968055 CAAGTTTAGC
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 47 0.92
55 4 0.08
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (55 bp):
TTTTCAAGTTCAAGGATTAACTTGAATAAAAATAATCAAATATAAAAACTATCAC
Found at i:8972290 original size:15 final size:17
Alignment explanation
Indices: 8972259--8972291 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8972249 CTCTACTTAT
8972259 TTTAATTATATAATTTA
1 TTTAATTATATAATTTA
8972276 TTTAATTA-A-AATTTA
1 TTTAATTATATAATTTA
8972291 T
1 T
8972292 AATTTTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAATTATATAATTTA
Found at i:8972878 original size:19 final size:19
Alignment explanation
Indices: 8972856--8972905 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
8972846 TGACTTATTG
**
8972856 ATTAAATTGGAATTAAAAA
1 ATTAAATTAAAATTAAAAA
*
8972875 ATTAATTTAAAATTAAAAA
1 ATTAAATTAAAATTAAAAA
* *
8972894 AGTAAAATAAAA
1 ATTAAATTAAAA
8972906 AATACATCAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (19 bp):
ATTAAATTAAAATTAAAAA
Found at i:8973536 original size:3 final size:3
Alignment explanation
Indices: 8973530--8973837 Score: 132
Period size: 3 Copynumber: 102.0 Consensus size: 3
8973520 AAAGCTGCTG
* * *
8973530 CTT CTT CTT CTT C-T CTTT CTC CTT C-T CATT CTC CTT CTT C-T CCT
1 CTT CTT CTT CTT CTT C-TT CTT CTT CTT C-TT CTT CTT CTT CTT CTT
* * * * * * * * *
8973574 CCT CCT CCT CCT CCT CTT CCT CCT CCTT CTT TTT CTC CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT
* * * *
8973620 CTT CTT CTT TTT CCTT CTT CTT CTT CTT CTT CCT CCT CATT CTT CTC
1 CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT
* * * *
8973667 CTT C-T CCT CTTT CTT C-T CTT -TCT CATT CTC CTT CTT CTC CTT CTC
1 CTT CTT CTT C-TT CTT CTT CTT CT-T C-TT CTT CTT CTT CTT CTT CTT
* * * *
8973712 CTC CTT C-T CCT CCT CTT -TT -TT CCTT CTT CTT CTT CTT CTT ATT
1 CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT CTT
* * ** * * * * *
8973755 CGTC CTC CCC CTC CTC CTC CTT CTT CTT CTT TTT CTT TTT CCTT -TT
1 C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT
*
8973801 CCTC CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 -CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
8973838 TAATTCAACT
Statistics
Matches: 247, Mismatches: 37, Indels: 42
0.76 0.11 0.13
Matches are distributed among these distances:
2 19 0.08
3 206 0.83
4 21 0.09
5 1 0.00
ACGTcount: A:0.01, C:0.42, G:0.00, T:0.57
Consensus pattern (3 bp):
CTT
Found at i:8977031 original size:37 final size:40
Alignment explanation
Indices: 8976935--8977032 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
8976925 AACACACCAG
* * ** *
8976935 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCAGATAAACCAAAGTAATAA
* *
8976975 TTTGACACCCAGTGTCTCATCAGCTAAACCAAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCAGATAAACCAAAGTAATAA
8977013 -TTGACACCCAGTGCCTCATC
1 TTTGACACCCAGTGCCTCATC
8977033 GAATTAATCT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 19 0.38
38 2 0.04
39 1 0.02
40 28 0.56
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCAGATAAACCAAAGTAATAA
Found at i:8977982 original size:11 final size:10
Alignment explanation
Indices: 8977966--8978034 Score: 50
Period size: 11 Copynumber: 6.6 Consensus size: 10
8977956 GTCTTTCTCC
8977966 TTTTCTTTCCT
1 TTTTCTTT-CT
8977977 TTTTCTTTCT
1 TTTTCTTTCT
*
8977987 TTTTCCCTTCT
1 TTTT-CTTTCT
* *
8977998 GTTTCATTTAT
1 TTTTC-TTTCT
8978009 TCTTTCTTTCT
1 T-TTTCTTTCT
*
8978020 TTCT-TTTCT
1 TTTTCTTTCT
*
8978029 ATTTCT
1 TTTTCT
8978035 ATTTCTTTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
9 7 0.16
10 10 0.22
11 24 0.53
12 4 0.09
ACGTcount: A:0.04, C:0.23, G:0.01, T:0.71
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:8982582 original size:15 final size:13
Alignment explanation
Indices: 8982549--8982573 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8982539 ACAAACACTA
8982549 AAATTTTCACACG
1 AAATTTTCACACG
8982562 AAATTTTCACAC
1 AAATTTTCACAC
8982574 ATATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:8996623 original size:25 final size:25
Alignment explanation
Indices: 8996595--8996661 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
8996585 CCGATTTATG
8996595 GCTCGCATAAGCTTCCCAATATACA
1 GCTCGCATAAGCTTCCCAATATACA
*
8996620 GCTCG-ATTGAA-CTTCCCATTATACA
1 GCTCGCA-T-AAGCTTCCCAATATACA
* *
8996645 GCTCACATGAGCTTCCC
1 GCTCGCATAAGCTTCCC
8996662 GTTTACATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
24 2 0.06
25 30 0.86
26 3 0.09
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (25 bp):
GCTCGCATAAGCTTCCCAATATACA
Found at i:9005324 original size:11 final size:11
Alignment explanation
Indices: 9005304--9005347 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
9005294 AGATAAATGT
*
9005304 TATTTAATTAA
1 TATTTTATTAA
9005315 TATTTTATTAA
1 TATTTTATTAA
* *
9005326 GACTTTTAGTAA
1 TA-TTTTATTAA
9005338 TATTTTATTA
1 TATTTTATTA
9005348 TTAAATGACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:9006609 original size:19 final size:19
Alignment explanation
Indices: 9006587--9006624 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9006577 ATTAAGAATG
9006587 GAAGATATAATTATACTAA
1 GAAGATATAATTATACTAA
9006606 GAAGATATAATTATACTAA
1 GAAGATATAATTATACTAA
9006625 ATAGTGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
GAAGATATAATTATACTAA
Found at i:9006813 original size:22 final size:22
Alignment explanation
Indices: 9006788--9006859 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
9006778 ACTGTTTCAT
*
9006788 ACTTCGGTGTTTATCGTTTTGC
1 ACTTCGGTGCTTATCGTTTTGC
* *
9006810 ACTTCGGAGCTTA-CTATTTTGC
1 ACTTCGGTGCTTATC-GTTTTGC
* *
9006832 ACTTCGATGCTTAGT-GATTTGC
1 ACTTCGGTGCTTA-TCGTTTTGC
9006854 ACTTCG
1 ACTTCG
9006860 ATGCATACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
21 1 0.03
22 39 0.98
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.43
Consensus pattern (22 bp):
ACTTCGGTGCTTATCGTTTTGC
Found at i:9006860 original size:22 final size:22
Alignment explanation
Indices: 9006804--9006873 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
9006794 GTGTTTATCG
9006804 TTTTGCACTTCGGA-GCTTACTA
1 TTTTGCACTTC-GATGCTTACTA
*
9006826 TTTTGCACTTCGATGCTTAGTGA
1 TTTTGCACTTCGATGCTTACT-A
*
9006849 -TTTGCACTTCGATGCATACTA
1 TTTTGCACTTCGATGCTTACTA
9006870 TTTT
1 TTTT
9006874 ATTAGTGTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.07
22 38 0.90
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (22 bp):
TTTTGCACTTCGATGCTTACTA
Found at i:9018632 original size:43 final size:44
Alignment explanation
Indices: 9018574--9018662 Score: 162
Period size: 43 Copynumber: 2.0 Consensus size: 44
9018564 TTCATATACA
9018574 TATATTACATAAAAAAATATTAGCAACCTAACGCACGGGGAAAT
1 TATATTACATAAAAAAATATTAGCAACCTAACGCACGGGGAAAT
*
9018618 TATATTACAT-AAAAAATATTAGCAACCTATCGCACGGGGAAAT
1 TATATTACATAAAAAAATATTAGCAACCTAACGCACGGGGAAAT
9018661 TA
1 TA
9018663 GAAAATTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 34 0.77
44 10 0.23
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (44 bp):
TATATTACATAAAAAAATATTAGCAACCTAACGCACGGGGAAAT
Found at i:9019561 original size:15 final size:15
Alignment explanation
Indices: 9019541--9019570 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9019531 AATAATAATT
9019541 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
9019556 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
9019571 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:9019670 original size:15 final size:15
Alignment explanation
Indices: 9019652--9019682 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9019642 AAAAATATTA
9019652 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
9019667 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
9019682 A
1 A
9019683 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:9019980 original size:3 final size:3
Alignment explanation
Indices: 9019974--9020107 Score: 112
Period size: 3 Copynumber: 44.7 Consensus size: 3
9019964 ATAGTTGTAG
* * * * * * *
9019974 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9020021 T-A TAA CAA -AA GAA TAA TAA TAA TAA TAG TAA TGGAGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--A-A TAA TAA TAA
* *
9020067 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAC TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9020108 TAAATAAAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.06
3 94 0.90
4 1 0.01
5 1 0.01
6 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:9020018 original size:20 final size:21
Alignment explanation
Indices: 9019979--9020018 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
9019969 TGTAGTAATA
*
9019979 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
9020000 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
9020019 AATATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:9020113 original size:12 final size:13
Alignment explanation
Indices: 9020032--9020121 Score: 89
Period size: 12 Copynumber: 6.9 Consensus size: 13
9020022 ATAACAAAAG
9020032 AATAATAATA-AT
1 AATAATAATATAT
* *
9020044 AATAGTAATGGAGAT
1 AATAATAAT--ATAT
9020059 AATAATAATA-AT
1 AATAATAATATAT
9020071 AATAATAATA-AT
1 AATAATAATATAT
9020083 AATAATAATGATACT
1 AATAATAAT-ATA-T
9020098 AATAATAATATA-
1 AATAATAATATAT
*
9020110 AATAAAAATATA
1 AATAATAATATA
9020122 AACAACAACA
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
12 42 0.61
13 2 0.03
14 5 0.07
15 20 0.29
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (13 bp):
AATAATAATATAT
Found at i:9020268 original size:9 final size:9
Alignment explanation
Indices: 9020254--9020278 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9020244 AAATATAAAA
9020254 GAAAAGGAC
1 GAAAAGGAC
9020263 GAAAAGGAC
1 GAAAAGGAC
9020272 GAAAAGG
1 GAAAAGG
9020279 GGCTAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.36, T:0.00
Consensus pattern (9 bp):
GAAAAGGAC
Found at i:9021266 original size:33 final size:33
Alignment explanation
Indices: 9021219--9021287 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
9021209 AGTGTCAGAC
9021219 GCGTGGAGCATGGTGACCAAGGCTGAGGGGCAT
1 GCGTGGAGCATGGTGACCAAGGCTGAGGGGCAT
* * * *
9021252 GCGTGGGGCGTGGTGGCCAAGGCTGAGGGGTAT
1 GCGTGGAGCATGGTGACCAAGGCTGAGGGGCAT
9021285 GCG
1 GCG
9021288 GCAGCTGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.16, C:0.17, G:0.51, T:0.16
Consensus pattern (33 bp):
GCGTGGAGCATGGTGACCAAGGCTGAGGGGCAT
Found at i:9022150 original size:87 final size:88
Alignment explanation
Indices: 9022059--9022304 Score: 315
Period size: 87 Copynumber: 2.8 Consensus size: 88
9022049 TGAATTCAAC
* * *
9022059 CTGTTACCCTACTGCTTAGGG-GTTTAAGGTCTGT-AATTTCAGCTTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGTG-TTAAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGG
9022122 GGGTTAAAGCCCATCACGT-TCT-AT
65 GGGTTAAAGCCC-T-ACGTCTCTGAT
*
9022146 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGAG
1 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGG
* * *
9022210 GGTTAAGGCCCTTCGTCTTTGAT
66 GGTTAAAGCCCTACGTCTCTGAT
* * * *
9022233 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTGAA-TTCAACCTGTTACCCTACTACTTAGGG
1 CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGG
*
9022297 GTTTAAAG
66 GGTTAAAG
9022305 TCTGTAAATT
Statistics
Matches: 140, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
85 3 0.02
86 5 0.04
87 126 0.90
88 6 0.04
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (88 bp):
CTGTTTCCCTACTGCTTAGGGTGTTAAGATCTGTAAATTTCAGCCTGTTACCCTACTGCTTAGGG
GGTTAAAGCCCTACGTCTCTGAT
Found at i:9022150 original size:130 final size:131
Alignment explanation
Indices: 9021963--9022217 Score: 372
Period size: 130 Copynumber: 2.0 Consensus size: 131
9021953 AGGATATTTG
* * *
9021963 ATTTCTAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCATCGCCTTCGATCTGTTTCCCTAC
1 ATTTCTAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCCCATCACCTTCGATCTGTTTCCCTAC
* *
9022028 TGGTTAGGGT-TATAAGATCTGTGAATTCAACCTGTTACCCTACTGCTTAG-GGGTTTAAGGTCT
66 TGCTTAGGGTGT-TAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGAGGG-TTAAGGTCT
9022091 GTA
129 GTA
* * * *
9022094 ATTTC-AGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACGTTCTATCTGTTTCCCTAC
1 ATTTCTAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCCCATCACCTTCGATCTGTTTCCCTAC
* *
9022158 TGCTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
66 TGCTTAGGGTGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGAGGGTTAAGG
9022218 CCCTTCGTCT
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
130 102 0.92
131 9 0.08
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (131 bp):
ATTTCTAGCCTGTTACCCTACTACTTAGGGGGTTAAAGCCCATCACCTTCGATCTGTTTCCCTAC
TGCTTAGGGTGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGAGGGTTAAGGTCTGT
A
Found at i:9022280 original size:130 final size:129
Alignment explanation
Indices: 9022014--9022477 Score: 458
Period size: 130 Copynumber: 3.6 Consensus size: 129
9022004 ATCGCCTTCG
* ** * *
9022014 ATCTGTTTCCCTACTGGTTA-GGGTTATAAGATCTGTGAATTCAACCTGTTACCCTACTGCTTAG
1 ATCTGTTACCCTACTACTTAGGGGTT-TAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
* * * * * * * * * ** *
9022078 GGGTTTAAGG-TC-TGTAATTTCAGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCACG
65 GGGGTTAAGGCCCTTGT-CTTTGATC-TGTTTCCCTACTGCTTAGGGAGATAAGA-TCTGTCA-A
*
9022140 TTCT
126 TTCA
* * *
9022144 ATCTGTTTCCCTACTGCTTA-GGGTGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAG
1 ATCTGTTACCCTACTACTTAGGGGT-TTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
* * *
9022208 AGGGTTAAGGCCCTTCGTCTTTGATCTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTGAATTC
65 GGGGTTAAGGCCCTT-GTCTTTGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTCAATTC
9022273 A
129 A
* * *
9022274 ACCTGTTACCCTACTACTTAGGGGTTTAA-AGTCTGTAAATTCGGCTTGTTACCCTACTGCTTAG
1 ATCTGTTACCCTACTACTTAGGGGTTTAAGA-TCTGTAAATTCAGCCTGTTACCCTACTGCTTAG
* * * * *
9022338 GGGGTCAAGACCCTTTGTCTTCGATTTG-CTCCACTACTGCTTAGGGAGATAAGATCTG-CAATT
65 GGGGTTAAGGCCC-TTGTCTTTGATCTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGTCAATT
*
9022401 CG
128 CA
* * *
9022403 GTCTGTTACCCTACTACTTAGGGGTTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGGTTAGG
1 ATCTGTTACCCTACTACTTAGGGGTTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG
9022468 GGGTTAAGGC
66 GGGTTAAGGC
9022478 TTGTGGATTC
Statistics
Matches: 282, Mismatches: 42, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
129 74 0.26
130 165 0.59
131 34 0.12
132 7 0.02
133 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (129 bp):
ATCTGTTACCCTACTACTTAGGGGTTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCCCTTGTCTTTGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTCAATTCA
Found at i:9022377 original size:217 final size:215
Alignment explanation
Indices: 9021968--9022428 Score: 631
Period size: 217 Copynumber: 2.1 Consensus size: 215
9021958 ATTTGATTTC
* *
9021968 TAGCCTGTTACCCTACTACTTAGGGGGTTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGGTT
1 TAGCCTGTTACCCTACTACTTA-GGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTT
* * * *
9022033 AGGGTTATAAGATCTGTGAATTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCTGTAATTT
65 AGGGTGATAAGATCTGTGAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAAGTCTGTAAATT
* * *
9022098 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCACGTTCTATCTGTTTCCCTACTGCTT
130 CAGCTTGTTACCCTACTGCTTAGGGGGTCAAAGCCCATCACGTTCGATCTGTCTCCCTACTGCTT
* *
9022163 AGGGTGTTAAGATCTGTAAATT
195 AGGGAGATAAGATCTG-AAATT
* * * *
9022185 TAGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCCCTTCGTCTTTGATCTGTTTCCCTACTGCTT
1 TAGCCTGTTACCCTACTACTTAG-GGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTT
9022250 AGGGTGATAAGATCTGTGAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAAGTCTGTAAATT
65 AGGGTGATAAGATCTGTGAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAAGTCTGTAAATT
* * ** *
9022315 CGGCTTGTTACCCTACTGCTTAGGGGGTC-AAGACCCTTTGTC-TTCGATTTG-CTCCACTACTG
130 CAGCTTGTTACCCTACTGCTTAGGGGGTCAAAG-CCC-ATCACGTTCGATCTGTCTCC-CTACTG
*
9022377 CTTAGGGAGATAAGATCTGCAATT
192 CTTAGGGAGATAAGATCTGAAATT
** *
9022401 CGGTCTGTTACCCTACTACTTAGGGGTT
1 TAGCCTGTTACCCTACTACTTAGGGGTT
9022429 TAAGATCTGT
Statistics
Matches: 215, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
215 5 0.02
216 30 0.14
217 178 0.83
218 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (215 bp):
TAGCCTGTTACCCTACTACTTAGGGGTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTA
GGGTGATAAGATCTGTGAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAAGTCTGTAAATTC
AGCTTGTTACCCTACTGCTTAGGGGGTCAAAGCCCATCACGTTCGATCTGTCTCCCTACTGCTTA
GGGAGATAAGATCTGAAATT
Found at i:9022469 original size:43 final size:43
Alignment explanation
Indices: 9022016--9022475 Score: 241
Period size: 43 Copynumber: 10.7 Consensus size: 43
9022006 CGCCTTCGAT
* * * * *
9022016 CTGTTTCCCTACTGGTTA-GGGTTATAAGATCTGTGAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGTT-TAAGATCTGTAAATTTAGC
*
9022059 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCTGT-AATTTCAGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTT-AGC
* * ** * ** *
9022102 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CACGTTCTA-T
1 CTGTTACCCTACTGCTTA-GGGGTTTAAGATC-TGTAAATT-TAGC
*
9022146 CTGTTTCCCTACTGCTTA-GGGTGTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTTAGC
** * *
9022189 CTGTTACCCTACTGCTTAGAGGG-TTAAGGCCCTTCGT--CTTT-GAT
1 CTGTTACCCTACTGCTTAG-GGGTTTAA-GATC-T-GTAAATTTAG-C
* * * * *
9022233 CTGTTTCCCTACTGCTTA-GGGTGATAAGATCTGTGAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTTAGC
* **
9022276 CTGTTACCCTACTACTTAGGGGTTTAA-AGTCTGTAAATTCGGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGA-TCTGTAAATTTAGC
* * * * ** * *
9022319 TTGTTACCCTACTGCTTAGGGGGTCAAGACCCT-T-TGTCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGTTTAAGA-TCTGTAAAT-TTAG-C
* * * * ** *
9022363 TTGCT-CCACTACTGCTTAGGGAG-ATAAGATCTG-CAATTCGGT
1 CTGTTACC-CTACTGCTTAGGG-GTTTAAGATCTGTAAATTTAGC
*
9022405 CTGTTACCCTACTACTTAGGGGTTTAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAGC
* *
9022448 CTGTTACCCTACTGGTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTAGGGGTTTAAG
9022476 GCTTGTGGAT
Statistics
Matches: 314, Mismatches: 71, Indels: 64
0.70 0.16 0.14
Matches are distributed among these distances:
41 3 0.01
42 42 0.13
43 172 0.55
44 85 0.27
45 9 0.03
46 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAGC
Found at i:9022649 original size:64 final size:64
Alignment explanation
Indices: 9022548--9022675 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
9022538 TCATGTATCT
9022548 ATGCTTATGCCAAATAATTAAGATGCAATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAAGATGCAATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* * * *
9022612 ATGCTTATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAAGATGCAATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
9022676 TTATGAATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAAGATGCAATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:9024346 original size:7 final size:7
Alignment explanation
Indices: 9024334--9024359 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9024324 TTTGGGTCTC
9024334 TTTTTCT
1 TTTTTCT
9024341 TTTTTCT
1 TTTTTCT
9024348 TTTTTCT
1 TTTTTCT
9024355 TTTTT
1 TTTTT
9024360 TTTGCCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:9029106 original size:24 final size:25
Alignment explanation
Indices: 9029066--9029120 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
9029056 AATGTAAGAG
9029066 AATAATA--AAAAATTAATAATAAT
1 AATAATAGTAAAAATTAATAATAAT
* *
9029089 TATAATAGTAAAAA-TAATAATAGT
1 AATAATAGTAAAAATTAATAATAAT
9029113 AATAATAG
1 AATAATAG
9029121 CTAAGTGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.22
24 16 0.59
25 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (25 bp):
AATAATAGTAAAAATTAATAATAAT
Found at i:9029110 original size:15 final size:15
Alignment explanation
Indices: 9029090--9029119 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9029080 AATAATAATT
9029090 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
9029105 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
9029120 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:9029223 original size:15 final size:15
Alignment explanation
Indices: 9029205--9029235 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9029195 AAAAATATTA
9029205 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
9029220 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
9029235 A
1 A
9029236 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:9029777 original size:26 final size:26
Alignment explanation
Indices: 9029748--9029803 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
9029738 TGGTACAAAT
*
9029748 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
9029774 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
9029800 TGAT
1 TGAT
9029804 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:9032602 original size:33 final size:33
Alignment explanation
Indices: 9032558--9032626 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
9032548 AGTGTCAGAC
9032558 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
1 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
* * *
9032591 GCGTGGGGCGTGGTGGCCAAGGCTGAGGGGTAT
1 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
9032624 GCG
1 GCG
9032627 GCGGCTGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.14, C:0.17, G:0.52, T:0.16
Consensus pattern (33 bp):
GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
Found at i:9033297 original size:13 final size:13
Alignment explanation
Indices: 9033279--9033304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9033269 TTGCAAAAAT
9033279 TACTCCATTTGTC
1 TACTCCATTTGTC
9033292 TACTCCATTTGTC
1 TACTCCATTTGTC
9033305 ACATGTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
TACTCCATTTGTC
Found at i:9033817 original size:13 final size:13
Alignment explanation
Indices: 9033794--9033837 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
9033784 AAATAAACAA
9033794 TTAATAGAATCAG
1 TTAATAGAATCAG
9033807 TTAATCA-AATCAG
1 TTAAT-AGAATCAG
*
9033820 TTAATAGAATCAA
1 TTAATAGAATCAG
9033833 TTAAT
1 TTAAT
9033838 TAAACCAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (13 bp):
TTAATAGAATCAG
Found at i:9034875 original size:19 final size:19
Alignment explanation
Indices: 9034851--9034889 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
9034841 ATCTAAAATG
9034851 ATAAAATATGTATCCTTCA
1 ATAAAATATGTATCCTTCA
*
9034870 ATAAAATATTTATCCTTCA
1 ATAAAATATGTATCCTTCA
9034889 A
1 A
9034890 CTCTTATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAAAATATGTATCCTTCA
Found at i:9036282 original size:37 final size:37
Alignment explanation
Indices: 9036234--9036370 Score: 145
Period size: 37 Copynumber: 3.7 Consensus size: 37
9036224 TCTATCGAGC
*
9036234 CAAATCTTACTGTTATACTGAATGAAGCTCAATCGAA
1 CAAATCTTACTGTTATACTGAATGAAGCTTAATCGAA
* * *
9036271 CAAATCATACTGTTATACTGAATGGAGCTTAA-CTAA
1 CAAATCTTACTGTTATACTGAATGAAGCTTAATCGAA
** *
9036307 GCAAATCTTACCATTATACTGAAT-AATGTTTAATCGAGA
1 -CAAATCTTACTGTTATACTGAATGAA-GCTTAATCGA-A
* *
9036346 -AAATTTTACTGTTATACTGAGTGAA
1 CAAATCTTACTGTTATACTGAATGAA
9036371 TTTCAAACGA
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
36 4 0.05
37 72 0.89
38 4 0.05
39 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (37 bp):
CAAATCTTACTGTTATACTGAATGAAGCTTAATCGAA
Found at i:9040957 original size:40 final size:40
Alignment explanation
Indices: 9040910--9040989 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
9040900 TCATTTTGGA
9040910 CAAAACCAGATTCATTTCAAAATAATTTCATTTCTTCATT
1 CAAAACCAGATTCATTTCAAAATAATTTCATTTCTTCATT
9040950 CAAAACCAGATTCATTTCAAAATAATTTCATTTCTTCATT
1 CAAAACCAGATTCATTTCAAAATAATTTCATTTCTTCATT
9040990 TACATTTTGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (40 bp):
CAAAACCAGATTCATTTCAAAATAATTTCATTTCTTCATT
Found at i:9041043 original size:19 final size:19
Alignment explanation
Indices: 9041007--9041044 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9040997 TGGAGAAAAC
**
9041007 CATAATCATTTCTGAATGT
1 CATAATCATTTCCAAATGT
9041026 CATAATCATTTCCAAATGT
1 CATAATCATTTCCAAATGT
9041045 TTCTCATTTC
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:0.34, C:0.18, G:0.08, T:0.39
Consensus pattern (19 bp):
CATAATCATTTCCAAATGT
Found at i:9048554 original size:42 final size:42
Alignment explanation
Indices: 9048490--9048641 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 42
9048480 TCGAGACTAT
* * *
9048490 GTGTAAGACCATATATGAGATATGGAATCATTATGAGAATTC
1 GTGTAAGACCATATCTGGGATATGGAATCAATATGAGAATTC
* *
9048532 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGAATCAATATGAGAATTC
* * ** * * *
9048574 GTGTAAGACCATAGCTGGGCTATTGGCGTCGATACGAG-ATCCC
1 GTGTAAGACCATATCTGGGATA-TGGAATCAATATGAGAAT-TC
**
9048617 ACGTAAGACCATATCTGGGATATGG
1 GTGTAAGACCATATCTGGGATATGG
9048642 CATTGGTGTG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 61 0.66
43 31 0.34
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGAATCAATATGAGAATTC
Found at i:9050131 original size:14 final size:14
Alignment explanation
Indices: 9050112--9050146 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9050102 TTGTTTCACT
9050112 GAAAATGACTTTTG
1 GAAAATGACTTTTG
*
9050126 GAAAATGATTTTTG
1 GAAAATGACTTTTG
9050140 GAAAATG
1 GAAAATG
9050147 GATTACTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (14 bp):
GAAAATGACTTTTG
Found at i:9050716 original size:16 final size:16
Alignment explanation
Indices: 9050685--9050721 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
9050675 ATGTTAAGAA
9050685 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
9050701 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
9050717 TATTA
1 TATTA
9050722 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:9050781 original size:16 final size:16
Alignment explanation
Indices: 9050735--9050784 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
9050725 TAAAATTGAA
9050735 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
9050752 A-A--AATAATAAATT
1 ATATTAATAATTTATT
9050765 ATATTAATAATTTATT
1 ATATTAATAATTTATT
9050781 ATAT
1 ATAT
9050785 GACTACATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:9053556 original size:241 final size:239
Alignment explanation
Indices: 9053133--9053613 Score: 890
Period size: 241 Copynumber: 2.0 Consensus size: 239
9053123 GGCGAGGAAG
9053133 ATTGGAAGTAGATGGACAAGCAACAATATGGAATACGAAACACAATGAATAAACTAATCAAAATC
1 ATTGGAAGTAGATGGACAAGCAACAATATGGAATACGAAACACAATGAATAAACTAATCAAAATC
9053198 AAAGAGACAGCTATAAAACCAATAGCTACATTTCAGTCTTGGTTAAACTTTAAACAACAAATAAA
66 AAAGAGACAGCTATAAAACCAATAGCTACATTTCAGTCTTGGTTAAACTTTAAACAACAAATAAA
*
9053263 CTGCCTAGGATGTTACTGTTAGTAATAGATACCAAACATATTCCCATAATATGACTATTACCTAG
131 CTGCCTAGGATGTTACTGGTAGTAATAGATACCAAACATATTCCCATAATATGAC--TTACCTAG
*
9053328 AGACCAAATAACCCTAAGTCACTTGCTCACTCACCAGGTTCAAACT
194 AGACCAAATAACCCTAAATCACTTGCTCACTCACCAGGTTCAAACT
*
9053374 ATTGGAAGTAGATGGACAAGCAGCAATATGGAATACGAAACACAATGAATAAACTAATCAAAATC
1 ATTGGAAGTAGATGGACAAGCAACAATATGGAATACGAAACACAATGAATAAACTAATCAAAATC
9053439 AAAGAGACAGCTATAAAACCAATAGCTACATTTCAGTCTTGGTTAAACTTTAAACAACAAATAAA
66 AAAGAGACAGCTATAAAACCAATAGCTACATTTCAGTCTTGGTTAAACTTTAAACAACAAATAAA
* *
9053504 CTGCCTAGGATGTTACTGGTAGTAATAGATACCAAACATATTCCTATAATATGACTTACCTAGGG
131 CTGCCTAGGATGTTACTGGTAGTAATAGATACCAAACATATTCCCATAATATGACTTACCTAGAG
*
9053569 AGCAAATAACCCTAAATCACTTGCTCACTCACCAGGTTCAAACT
196 ACCAAATAACCCTAAATCACTTGCTCACTCACCAGGTTCAAACT
9053613 A
1 A
9053614 ATGAAGATTA
Statistics
Matches: 234, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
239 52 0.22
241 182 0.78
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (239 bp):
ATTGGAAGTAGATGGACAAGCAACAATATGGAATACGAAACACAATGAATAAACTAATCAAAATC
AAAGAGACAGCTATAAAACCAATAGCTACATTTCAGTCTTGGTTAAACTTTAAACAACAAATAAA
CTGCCTAGGATGTTACTGGTAGTAATAGATACCAAACATATTCCCATAATATGACTTACCTAGAG
ACCAAATAACCCTAAATCACTTGCTCACTCACCAGGTTCAAACT
Found at i:9056733 original size:18 final size:18
Alignment explanation
Indices: 9056700--9056738 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9056690 ATTACAAAAA
*
9056700 AAATTTAAAATAATTTTT
1 AAATTTAAAATAATTTAT
9056718 AAATTTCAAAAT-ATTTAT
1 AAATTT-AAAATAATTTAT
9056736 AAA
1 AAA
9056739 AAATTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTAAAATAATTTAT
Found at i:9056744 original size:21 final size:22
Alignment explanation
Indices: 9056718--9056764 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
9056708 AATAATTTTT
*
9056718 AAATTTCAAAA-TATTTATAAA
1 AAATTTCAAAATTATATATAAA
9056739 AAATTTCAAAATTTATATATAAA
1 AAATTTCAAAA-TTATATATAAA
9056762 AAA
1 AAA
9056765 GTTATGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
23 12 0.52
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATTTCAAAATTATATATAAA
Done.