Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 265 of 318
Found at i:83985321 original size:29 final size:29
Alignment explanation
Indices: 83985288--83985418 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
83985278 TGACGAGATC
*
83985288 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
83985317 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
83985346 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
83985375 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
83985404 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
83985419 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:83993342 original size:29 final size:29
Alignment explanation
Indices: 83993303--83993490 Score: 148
Period size: 29 Copynumber: 6.5 Consensus size: 29
83993293 TGACGAGATC
83993303 GGCACTAAAGTGTGCGTGCTGGAAATATAT
1 GGCACT-AAGTGTGCGTGCTGGAAATATAT
*
83993333 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * *
83993362 GGCACTATGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * ** * *
83993391 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
* * ***
83993420 GGCACT-GGTGTGCGAGCTCGG-AGGGTAT
1 GGCACTAAGTGTGCGTGCT-GGAAATATAT
** * * **
83993448 GGCACTGTGTGTGCGGGCT-TAAATACGT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
83993476 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
83993491 AAATCGAGTA
Statistics
Matches: 130, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
28 34 0.26
29 90 0.69
30 6 0.05
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:83999360 original size:17 final size:18
Alignment explanation
Indices: 83999307--83999432 Score: 175
Period size: 19 Copynumber: 6.9 Consensus size: 18
83999297 AATCATATCT
*
83999307 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
83999326 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
83999344 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
83999361 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
83999379 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
83999396 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
83999415 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
83999433 TGAAGATTAG
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 33 0.34
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:83999365 original size:35 final size:35
Alignment explanation
Indices: 83999307--83999424 Score: 200
Period size: 35 Copynumber: 3.3 Consensus size: 35
83999297 AATCATATCT
83999307 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
83999344 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
83999379 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
83999415 TCTAAGATTG
1 TCTAAGATTG
83999425 CATATCATTG
Statistics
Matches: 79, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:83999440 original size:17 final size:18
Alignment explanation
Indices: 83999307--83999429 Score: 96
Period size: 17 Copynumber: 6.8 Consensus size: 18
83999297 AATCATATCT
* *
83999307 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
83999326 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
83999344 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
83999361 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
83999379 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
83999396 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
83999415 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
83999430 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:84000400 original size:17 final size:18
Alignment explanation
Indices: 84000378--84000415 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
84000368 ACTATATAAG
84000378 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
84000395 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
84000413 ATA
1 ATA
84000416 AATTTTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:84000422 original size:17 final size:18
Alignment explanation
Indices: 84000385--84000422 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
84000375 AAGATATTAA
*
84000385 TTATTACAAAATATTATT
1 TTATTACAAAATATAATT
*
84000403 TTATTATAAAATA-AATT
1 TTATTACAAAATATAATT
84000420 TTA
1 TTA
84000423 GTTCTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATTACAAAATATAATT
Found at i:84004732 original size:41 final size:41
Alignment explanation
Indices: 84004625--84004743 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
84004615 ATACAAATTA
* * * *
84004625 CCTGACACAATACACCGCCACAAAGCCTGCTAAGCTCAAGG
1 CCTGATACAATACACCGACACGAAGCCTGCTAGGCTCAAGG
* * *
84004666 CCTGATACAATACACTGACACGAAGCCTACTAGGCTTACA-G
1 CCTGATACAATACACCGACACGAAGCCTGCTAGGCTCA-AGG
* * *
84004707 CCTGATACAATACACCGGCATGAAGCTTGCTAGGCTC
1 CCTGATACAATACACCGACACGAAGCCTGCTAGGCTC
84004744 GAAGCTTGCT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 63 0.98
42 1 0.02
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (41 bp):
CCTGATACAATACACCGACACGAAGCCTGCTAGGCTCAAGG
Found at i:84004749 original size:16 final size:16
Alignment explanation
Indices: 84004728--84004764 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
84004718 ACACCGGCAT
84004728 GAAGCTTGCTAGGCTC
1 GAAGCTTGCTAGGCTC
84004744 GAAGCTTGCTAGGCTC
1 GAAGCTTGCTAGGCTC
*
84004760 AAAGC
1 GAAGC
84004765 CTGATACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (16 bp):
GAAGCTTGCTAGGCTC
Found at i:84004795 original size:57 final size:57
Alignment explanation
Indices: 84004686--84004800 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
84004676 TACACTGACA
* * * ** *
84004686 CGAAGCCTACTAGGCTTACAGCCTGATACAATACACCGGCATGAAGCTTGCTAGGCT
1 CGAAGCCTACTAGGCTCAAAGCCTGATACAATACACCAGCACAAAGCCTGCTAGGCT
* * *
84004743 CGAAGCTTGCTAGGCTCAAAGCCTGATACAATACACTAGCACAAAGCCTGCTAGGCT
1 CGAAGCCTACTAGGCTCAAAGCCTGATACAATACACCAGCACAAAGCCTGCTAGGCT
84004800 C
1 C
84004801 AAGGCCTGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.20
Consensus pattern (57 bp):
CGAAGCCTACTAGGCTCAAAGCCTGATACAATACACCAGCACAAAGCCTGCTAGGCT
Found at i:84004808 original size:41 final size:41
Alignment explanation
Indices: 84004745--84004891 Score: 231
Period size: 41 Copynumber: 3.6 Consensus size: 41
84004735 GCTAGGCTCG
* * *
84004745 AAGCTTGCTAGGCTCAAAGCCTGATACAATACACTAGCACA
1 AAGCCTGCTAGGCTCAAGGCCTGATACAATACACTGGCACA
84004786 AAGCCTGCTAGGCTCAAGGCCTGATACAATACACTGGCACA
1 AAGCCTGCTAGGCTCAAGGCCTGATACAATACACTGGCACA
* * *
84004827 AAGCCTGCTAGGCTCAAGTCCTGATACAATACTCTGGCACG
1 AAGCCTGCTAGGCTCAAGGCCTGATACAATACACTGGCACA
*
84004868 AAGCCTGTTAGGCTCAAGGCCTGA
1 AAGCCTGCTAGGCTCAAGGCCTGA
84004892 CAGAATATCT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (41 bp):
AAGCCTGCTAGGCTCAAGGCCTGATACAATACACTGGCACA
Found at i:84004836 original size:98 final size:98
Alignment explanation
Indices: 84004647--84004849 Score: 268
Period size: 98 Copynumber: 2.1 Consensus size: 98
84004637 CACCGCCACA
* * *
84004647 AAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACGAAGCCTACTAGGCTTACAGCCTGA
1 AAGCCTGCTAAGCTCAAAGCCTGATACAATACACTGACACAAAGCCTACTAGGCTCACAGCCTGA
** *
84004712 TACAATACACCGGCATGAAGCTTGCTAGGCTCG
66 TACAATACACCGGCACAAAGCCTGCTAGGCTCG
* * *
84004745 AAGCTTGCTAGGCTCAAAGCCTGATACAATACACT-AGCACAAAGCCTGCTAGGCTCA-AGGCCT
1 AAGCCTGCTAAGCTCAAAGCCTGATACAATACACTGA-CACAAAGCCTACTAGGCTCACA-GCCT
*
84004808 GATACAATACACTGGCACAAAGCCTGCTAGGCTC-
64 GATACAATACACCGGCACAAAGCCTGCTAGGCTCG
84004842 AAGTCCTG
1 AAG-CCTG
84004850 ATACAATACT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
97 5 0.05
98 86 0.95
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (98 bp):
AAGCCTGCTAAGCTCAAAGCCTGATACAATACACTGACACAAAGCCTACTAGGCTCACAGCCTGA
TACAATACACCGGCACAAAGCCTGCTAGGCTCG
Found at i:84004880 original size:139 final size:139
Alignment explanation
Indices: 84004625--84004882 Score: 376
Period size: 139 Copynumber: 1.9 Consensus size: 139
84004615 ATACAAATTA
* *
84004625 CCTGACACAATACACCGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACGAA
1 CCTGACACAATACACAGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACAAA
* * *
84004690 GCCTACTAGGCTTACAGCCTGATACAATACACCGGCATGAAGCTTGCTAGGCTCGAAGCTTGCTA
66 GCCTACTAGGCTCACAGCCTGATACAATACACCGGCACGAAGCCTGCTAGGCTCGAAGCTTGCTA
84004755 GGCTCAAAG
131 GGCTCAAAG
* * *
84004764 CCTGATACAATACACTAG-CACAAAGCCTGCTAGGCTCAAGGCCTGATACAATACACTGGCACAA
1 CCTGACACAATACAC-AGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACAA
* * * *
84004828 AGCCTGCTAGGCTCA-AGTCCTGATACAATACTCTGGCACGAAGCCTGTTAGGCTC
65 AGCCTACTAGGCTCACAG-CCTGATACAATACACCGGCACGAAGCCTGCTAGGCTC
84004883 AAGGCCTGAC
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
138 2 0.02
139 102 0.97
140 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (139 bp):
CCTGACACAATACACAGCCACAAAGCCTGCTAAGCTCAAGGCCTGATACAATACACTGACACAAA
GCCTACTAGGCTCACAGCCTGATACAATACACCGGCACGAAGCCTGCTAGGCTCGAAGCTTGCTA
GGCTCAAAG
Found at i:84013200 original size:20 final size:19
Alignment explanation
Indices: 84013171--84013209 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
84013161 ATTTTTTAAA
*
84013171 ATTTTAAAAATTCAAAAAAT
1 ATTTTAAAAAAT-AAAAAAT
*
84013191 ATTTTTAAAAATAAAAAAT
1 ATTTTAAAAAATAAAAAAT
84013210 CATTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
ATTTTAAAAAATAAAAAAT
Found at i:84013966 original size:26 final size:26
Alignment explanation
Indices: 84013918--84013969 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
84013908 CAATAATATC
* *
84013918 CCTTTCATTAATAAATTTATTAACTT
1 CCTTTCATAAATAAATTCATTAACTT
84013944 CCTTT-ATAAATAAATTCATTTAACTT
1 CCTTTCATAAATAAATTCA-TTAACTT
84013970 GGACTCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (26 bp):
CCTTTCATAAATAAATTCATTAACTT
Found at i:84016099 original size:24 final size:23
Alignment explanation
Indices: 84016072--84016374 Score: 113
Period size: 24 Copynumber: 12.5 Consensus size: 23
84016062 TCCCGTAAAC
*
84016072 CCACCTGTTCCAATCTATAAACCT
1 CCACCAGTTCCAATCTA-AAACCT
*
84016096 CCACCAGTTCCAGTCTATAAACCT
1 CCACCAGTTCCAATCTA-AAACCT
* * *
84016120 CCTCCAGTTCCAGT-AAAACCACTTCCT
1 CCACCAGTTCCAATCTAAA--A---CCT
* *
84016147 CCACCTGTTCCGATCTACAAACCT
1 CCACCAGTTCCAATCTA-AAACCT
** * * * *
84016171 CCACCAGTTGAAAAACCACATCCT
1 CCACCAGTT-CCAATCTAAAACCT
*
84016195 CCACCTGTTCCAATCTACAAACCT
1 CCACCAGTTCCAATCTA-AAACCT
** * * * *
84016219 CCACCAGTTGAAAAACCACATCCT
1 CCACCAGTT-CCAATCTAAAACCT
*
84016243 CCACCTGTTCCAATCTACAAACCT
1 CCACCAGTTCCAATCTA-AAACCT
** * * * *
84016267 CCACCAGTTGAAAAACCACATCCT
1 CCACCAGTT-CCAATCTAAAACCT
* * *
84016291 CCACCTGTTCCAGTTTATAAACCT
1 CCACCAGTTCCAATCTA-AAACCT
** * * * *
84016315 CCACCAGTTGAAAAACCACATCCT
1 CCACCAGTT-CCAATCTAAAACCT
* *
84016339 CCACCTGTTCCAGTCTATAAACCT
1 CCACCAGTTCCAATCTA-AAACCT
84016363 CCACCAGTTCCA
1 CCACCAGTTCCA
84016375 GTATATAAGA
Statistics
Matches: 192, Mismatches: 72, Indels: 30
0.65 0.24 0.10
Matches are distributed among these distances:
22 2 0.01
23 14 0.07
24 146 0.76
25 13 0.07
27 14 0.07
28 1 0.01
29 2 0.01
ACGTcount: A:0.30, C:0.39, G:0.07, T:0.23
Consensus pattern (23 bp):
CCACCAGTTCCAATCTAAAACCT
Found at i:84016195 original size:48 final size:48
Alignment explanation
Indices: 84016093--84016371 Score: 425
Period size: 48 Copynumber: 5.8 Consensus size: 48
84016083 AATCTATAAA
* * * * *
84016093 CCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTAAAACCACTT
1 CCTCCACCTGTTCCAGTCTACAAACCTCCACCAGTT---GAAAAACCACAT
84016144 CCTCCACCTGTTCC-GATCTACAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCCAG-TCTACAAACCTCCACCAGTTGAAAAACCACAT
*
84016192 CCTCCACCTGTTCCAATCTACAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCCAGTCTACAAACCTCCACCAGTTGAAAAACCACAT
*
84016240 CCTCCACCTGTTCCAATCTACAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCCAGTCTACAAACCTCCACCAGTTGAAAAACCACAT
* *
84016288 CCTCCACCTGTTCCAGTTTATAAACCTCCACCAGTTGAAAAACCACAT
1 CCTCCACCTGTTCCAGTCTACAAACCTCCACCAGTTGAAAAACCACAT
*
84016336 CCTCCACCTGTTCCAGTCTATAAACCTCCACCAGTT
1 CCTCCACCTGTTCCAGTCTACAAACCTCCACCAGTT
84016372 CCAGTATATA
Statistics
Matches: 216, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
48 184 0.85
50 1 0.00
51 31 0.14
ACGTcount: A:0.30, C:0.39, G:0.08, T:0.23
Consensus pattern (48 bp):
CCTCCACCTGTTCCAGTCTACAAACCTCCACCAGTTGAAAAACCACAT
Found at i:84016402 original size:33 final size:33
Alignment explanation
Indices: 84016360--84016538 Score: 160
Period size: 33 Copynumber: 5.7 Consensus size: 33
84016350 AGTCTATAAA
* **
84016360 CCTCCACCAGTTCCAGTATATAAGAAACCATGT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
* *
84016393 CCTCCACCAGTTCCAGTCTAT-----A--A-AT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
* * *
84016418 -CTCCTCCGGTTCCAGTATACAAGAAACCGCAT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
*
84016450 CCTCCTCCAGTTCCAGTCTATAAGAAACCACAT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
* * **
84016483 CCACCTCCAGTTCCAGTATACAAGAAACCATGT
1 CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
* *
84016516 CCTCCCCCAGTTCCAGTCTATAA
1 CCTCCTCCAGTTCCAGTATATAA
84016539 ATCTCCTCCA
Statistics
Matches: 117, Mismatches: 20, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
24 16 0.14
25 1 0.01
26 1 0.01
28 1 0.01
29 1 0.01
32 2 0.02
33 95 0.81
ACGTcount: A:0.30, C:0.35, G:0.11, T:0.24
Consensus pattern (33 bp):
CCTCCTCCAGTTCCAGTATATAAGAAACCACAT
Found at i:84016415 original size:57 final size:57
Alignment explanation
Indices: 84016335--84016699 Score: 295
Period size: 57 Copynumber: 6.4 Consensus size: 57
84016325 AAAAACCACA
* * *
84016335 TCCTCCACCTGTTCCAGTCTATAAACCTCCACCAGTTCCAGTATATAAGAAACCATG
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTATACAAGAAACCATG
* * ***
84016392 TCCTCCACCAGTTCCAGTCTATAAATCTCCTCCGGTTCCAGTATACAAGAAACCGCA
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTATACAAGAAACCATG
*
84016449 TCCTCCTCCAGTTCCAGTCTATAAGAAACCACATCCACCTCCAGTTCCAGTATACAAGAAACCAT
1 TCCTCCACCAGTTCCAGTCTAT---AAA-C-C-T---CCTCCAGTTCCAGTATACAAGAAACCAT
84016514 G
57 G
* * **
84016515 TCCTCCCCCAGTTCCAGTCTATAAATCTCCTCCAGTTCC-G-------G-AACCACA
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTATACAAGAAACCATG
* * * *
84016563 TCCTCCACCAGTTCCAGTCCATAAGCCTCCTCCAGTTCCGGTATACAAGAAACGA-G
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTATACAAGAAACCATG
* * * * * * * *
84016619 TCCCTCCTCCGGTTCCAATCTACAAGCCCCCTCCAGTTCCTGTATACAACAAACCACT-
1 T-CCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTATACAAGAAACCA-TG
* *
84016677 ACCTCC-CCAGGTTCCAGTGTATA
1 TCCTCCACCA-GTTCCAGTCTATA
84016700 CGAAGCCACT
Statistics
Matches: 248, Mismatches: 38, Indels: 44
0.75 0.12 0.13
Matches are distributed among these distances:
48 40 0.16
49 2 0.01
56 5 0.02
57 145 0.58
60 4 0.02
61 1 0.00
62 1 0.00
63 4 0.02
66 46 0.19
ACGTcount: A:0.27, C:0.37, G:0.12, T:0.24
Consensus pattern (57 bp):
TCCTCCACCAGTTCCAGTCTATAAACCTCCTCCAGTTCCAGTATACAAGAAACCATG
Found at i:84016568 original size:24 final size:24
Alignment explanation
Indices: 84016541--84016603 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
84016531 GTCTATAAAT
* *
84016541 CTCCTCCAGTTCCGGAACCA-CATC
1 CTCCTCCAGTTCCGG-ACCATAAGC
* * *
84016565 CTCCACCAGTTCCAGTCCATAAGC
1 CTCCTCCAGTTCCGGACCATAAGC
84016589 CTCCTCCAGTTCCGG
1 CTCCTCCAGTTCCGG
84016604 TATACAAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.19, C:0.44, G:0.14, T:0.22
Consensus pattern (24 bp):
CTCCTCCAGTTCCGGACCATAAGC
Found at i:84016694 original size:228 final size:228
Alignment explanation
Indices: 84016287--84016725 Score: 533
Period size: 228 Copynumber: 1.9 Consensus size: 228
84016277 AAAAACCACA
* * * *
84016287 TCCTCCACCTGTTCCAGTTTATAAACCTCCACCAGTTGAAAAACCACATCCTCCACCTGTTCCAG
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCAAAAACCACATCCTCCACCAGTTCCAG
* * * *
84016352 TCTATAAACCTCCACCAGTTCCAGTATATAAGAAACCATGTCCTCCACCAGTTCCAGTCTATAAA
66 TCCATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGTCCTCCACCAGTTCCAATCTACAAA
* * * * *
84016417 TCTCCTCCGGTTCCAGTATACAAGAAACCGCATCCTCCTCCAGTTCCAGTCTATAAGAAACCACA
131 CCCCCTCCAGTTCCAGTATACAACAAACCACATCCTCCTCCAGTTCCAGTCTATAAGAAACCACA
*
84016482 TCCACCTCCAGTTCCAGTATACAAGAAACCATG
196 TCCACCACCAGTTCCAGTATACAAGAAACCATG
* * * ***
84016515 TCCTCCCCCAGTTCCAGTCTATAAATCTCCTCCAGTTCCGGAACCACATCCTCCACCAGTTCCAG
1 TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCAAAAACCACATCCTCCACCAGTTCCAG
* * * * * *
84016580 TCCATAAGCCTCCTCCAGTTCCGGTATACAAGAAACGA-GTCCCTCCTCCGGTTCCAATCTACAA
66 TCCATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGT-CCTCCACCAGTTCCAATCTACAA
* * * * *
84016644 GCCCCCTCCAGTTCCTGTATACAACAAACCAC-TACCTCC-CCAGGTTCCAGTGTATACGAAGCC
130 ACCCCCTCCAGTTCCAGTATACAACAAACCACAT-CCTCCTCCA-GTTCCAGTCTATAAGAAACC
* *
84016707 ACTTCCACCACCTGTTCCA
193 ACATCCACCACCAGTTCCA
84016726 ACCTACAATC
Statistics
Matches: 175, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
227 6 0.03
228 169 0.97
ACGTcount: A:0.27, C:0.37, G:0.11, T:0.24
Consensus pattern (228 bp):
TCCTCCACCAGTTCCAGTCTATAAACCTCCACCAGTTCAAAAACCACATCCTCCACCAGTTCCAG
TCCATAAACCTCCACCAGTTCCAGTATACAAGAAACCATGTCCTCCACCAGTTCCAATCTACAAA
CCCCCTCCAGTTCCAGTATACAACAAACCACATCCTCCTCCAGTTCCAGTCTATAAGAAACCACA
TCCACCACCAGTTCCAGTATACAAGAAACCATG
Found at i:84016792 original size:18 final size:18
Alignment explanation
Indices: 84016769--84016804 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
84016759 TACAAGCCAC
84016769 TCCCTCCACTTCCC-AAGA
1 TCCCTCCA-TTCCCTAAGA
84016787 TCCCTCCATTCCCTAAGA
1 TCCCTCCATTCCCTAAGA
84016805 AGCCATGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.22, C:0.47, G:0.06, T:0.25
Consensus pattern (18 bp):
TCCCTCCATTCCCTAAGA
Found at i:84016876 original size:60 final size:60
Alignment explanation
Indices: 84016812--84016934 Score: 212
Period size: 60 Copynumber: 2.0 Consensus size: 60
84016802 AGAAGCCATG
84016812 CCCTCCCCTTCCTAAGCTACCTCCTCTTCCC-AAGATTCCTCCCAAGTATTTCCACCACCA
1 CCCTCCCCTTCCTAAGCTACCTCCTC-TCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
* *
84016872 CCCTCCTCTTCCTAAGCTGCCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
1 CCCTCCCCTTCCTAAGCTACCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
84016932 CCC
1 CCC
84016935 CAAGTTCGGA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
59 4 0.07
60 56 0.93
ACGTcount: A:0.19, C:0.49, G:0.06, T:0.27
Consensus pattern (60 bp):
CCCTCCCCTTCCTAAGCTACCTCCTCTCCCTAAGATTCCTCCCAAGTATTTCCACCACCA
Found at i:84016912 original size:18 final size:18
Alignment explanation
Indices: 84016873--84016913 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
84016863 CCACCACCAC
* *
84016873 CCTCCTCTTCCTAAGCTG
1 CCTCCTCTCCCTAAGATG
*
84016891 CCTCCTCTCCCTAAGATT
1 CCTCCTCTCCCTAAGATG
84016909 CCTCC
1 CCTCC
84016914 CAAGTATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.49, G:0.07, T:0.32
Consensus pattern (18 bp):
CCTCCTCTCCCTAAGATG
Found at i:84016954 original size:60 final size:60
Alignment explanation
Indices: 84016831--84016956 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
84016821 TCCTAAGCTA
** * **
84016831 CCTCCTCTTCCCAAGATTCCTCCCAAGTATTTCCACCACCACCCTCCTCTTCCTAAGCTG
1 CCTCCTCTTCCCAAGATTCCTCCCAAGTATTTCCACCACCACCCTCAACTTCCGAAAATG
* *
84016891 CCTCCTC-TCCCTAAGATTCCTCCCAAGTATTTCCACCACCACCC-CAAGTTCGGAAAATGG
1 CCTCCTCTTCCC-AAGATTCCTCCCAAGTATTTCCACCACCACCCTCAACTTCCGAAAAT-G
84016951 CCTCCT
1 CCTCCT
84016957 TTGCCACCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 11 0.19
60 46 0.81
ACGTcount: A:0.21, C:0.44, G:0.09, T:0.26
Consensus pattern (60 bp):
CCTCCTCTTCCCAAGATTCCTCCCAAGTATTTCCACCACCACCCTCAACTTCCGAAAATG
Found at i:84018136 original size:40 final size:40
Alignment explanation
Indices: 84018108--84018191 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
84018098 TTTTTTTTCA
*
84018108 TTTTAAGCTATTTAATTTTTTTCTTTTATGTTCTTTTAAC
1 TTTTAAGCAATTTAATTTTTTTCTTTTATGTTCTTTTAAC
84018148 TTTTAAGCAATTTAATTTTTTTCTTTTATGTTCTTTTAAC
1 TTTTAAGCAATTTAATTTTTTTCTTTTATGTTCTTTTAAC
84018188 TTTT
1 TTTT
84018192 TTTTCTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.20, C:0.10, G:0.05, T:0.65
Consensus pattern (40 bp):
TTTTAAGCAATTTAATTTTTTTCTTTTATGTTCTTTTAAC
Found at i:84018145 original size:33 final size:33
Alignment explanation
Indices: 84018086--84018186 Score: 87
Period size: 40 Copynumber: 2.8 Consensus size: 33
84018076 AATTCTACAA
* * * *
84018086 TTAATTTTTATATTTT-TTTTCATTTTAAGCTAT
1 TTAATTTTTTTCTTTTATGTTC-TTTTAAGCAAT
84018119 TTAATTTTTTTCTTTTATGTTCTTTTAACTTTTAAGCAAT
1 TTAATTTTTTTCTTTTATG-----TT--CTTTTAAGCAAT
84018159 TTAATTTTTTTCTTTTATGTTCTTTTAA
1 TTAATTTTTTTCTTTTATGTTCTTTTAA
84018187 CTTTTTTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
33 21 0.38
34 1 0.02
35 2 0.04
39 2 0.04
40 29 0.52
41 1 0.02
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (33 bp):
TTAATTTTTTTCTTTTATGTTCTTTTAAGCAAT
Found at i:84024003 original size:13 final size:13
Alignment explanation
Indices: 84023987--84024018 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
84023977 AAAATAAAAA
84023987 AAATAATATATAT
1 AAATAATATATAT
84024000 AAATAATATATAT
1 AAATAATATATAT
84024013 AAATAA
1 AAATAA
84024019 AATTGTATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATAATATATAT
Found at i:84027282 original size:15 final size:15
Alignment explanation
Indices: 84027262--84027293 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84027252 TTCTTGGGCT
84027262 CAACAACTACTAACA
1 CAACAACTACTAACA
*
84027277 CAACAACTACTGACA
1 CAACAACTACTAACA
84027292 CA
1 CA
84027294 GTAAGTTAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.34, G:0.03, T:0.12
Consensus pattern (15 bp):
CAACAACTACTAACA
Found at i:84032336 original size:40 final size:40
Alignment explanation
Indices: 84032209--84032338 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
84032199 ATGCTGGAAA
* *
84032209 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * *
84032249 CTACATCCGGGCTAAGACCCAAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
84032289 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
84032329 TTATATCCGG
1 TTATATCCGG
84032339 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:84042572 original size:38 final size:39
Alignment explanation
Indices: 84042503--84042581 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 39
84042493 AATGAAGATG
84042503 AACACATTTTTGTGTTATTTTTTCCATTTTATTTCATTT
1 AACACATTTTTGTGTTATTTTTTCCATTTTATTTCATTT
84042542 AACACATTTTTGTGTTA-TTTTTCCATTTTATTTCATTT
1 AACACATTTTTGTGTTATTTTTTCCATTTTATTTCATTT
84042580 AA
1 AA
84042582 TATACAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 23 0.57
39 17 0.43
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (39 bp):
AACACATTTTTGTGTTATTTTTTCCATTTTATTTCATTT
Found at i:84045287 original size:22 final size:23
Alignment explanation
Indices: 84045253--84045297 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
84045243 ATATGACAAA
*
84045253 AAATATATAAATATTA-AAGATT
1 AAATATATAAATAATAGAAGATT
* *
84045275 AAATTTATTAATAATAGAAGATT
1 AAATATATAAATAATAGAAGATT
84045298 GTAATTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (23 bp):
AAATATATAAATAATAGAAGATT
Found at i:84049465 original size:25 final size:26
Alignment explanation
Indices: 84049445--84049496 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
84049435 ATTTTTAGTC
84049445 TAAGA-TTTTTTAAATTCTTTTACCA
1 TAAGATTTTTTTAAATTCTTTTACCA
84049470 TAAGATTTTTTTAAATTCTTTTACCA
1 TAAGATTTTTTTAAATTCTTTTACCA
84049496 T
1 T
84049497 TATTGTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.54
Consensus pattern (26 bp):
TAAGATTTTTTTAAATTCTTTTACCA
Found at i:84050446 original size:11 final size:11
Alignment explanation
Indices: 84050430--84050462 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
84050420 CCCAGGAGGA
*
84050430 TTCTTTGTTCT
1 TTCTTTGTTCC
84050441 TTCTTTGTTCC
1 TTCTTTGTTCC
84050452 TTCTTTGTTCC
1 TTCTTTGTTCC
84050463 CATATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.09, T:0.67
Consensus pattern (11 bp):
TTCTTTGTTCC
Found at i:84051147 original size:16 final size:18
Alignment explanation
Indices: 84051122--84051157 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
84051112 CTTAAATTTA
84051122 TTTATCAAAT-AAATAAT
1 TTTATCAAATAAAATAAT
84051139 TTTAT-AAATAAAATAAT
1 TTTATCAAATAAAATAAT
84051156 TT
1 TT
84051158 CCTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTATCAAATAAAATAAT
Found at i:84056360 original size:40 final size:40
Alignment explanation
Indices: 84056277--84056484 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
84056267 CGGGATTTAA
* * * * * *
84056277 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
84056317 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
84056357 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
84056397 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
84056437 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
84056477 CCGGATAT
1 CCGGATAT
84056485 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:84056397 original size:80 final size:80
Alignment explanation
Indices: 84056303--84056484 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
84056293 GCTCGATTGT
* * *** * * * **
84056303 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
84056368 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
84056383 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
84056448 TACTAGCATAATTGC
66 AACTAGCACAAATGC
84056463 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
84056485 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:84058793 original size:22 final size:22
Alignment explanation
Indices: 84058765--84058809 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
84058755 AATAGAGTAC
84058765 TTAGTTACTTAAAGAAAACTAT
1 TTAGTTACTTAAAGAAAACTAT
84058787 TTAGTTACTTAAAGAAAACTAT
1 TTAGTTACTTAAAGAAAACTAT
84058809 T
1 T
84058810 AACTATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (22 bp):
TTAGTTACTTAAAGAAAACTAT
Found at i:84060016 original size:20 final size:20
Alignment explanation
Indices: 84059982--84060023 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
84059972 AACTATTTAA
** *
84059982 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
84060002 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
84060022 AT
1 AT
84060024 GTATTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:84061541 original size:22 final size:21
Alignment explanation
Indices: 84061513--84061554 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
84061503 TCTAATCTAA
* *
84061513 TTTATTTATTTCCTTTTAGAAT
1 TTTATTT-TTTACTTTGAGAAT
84061535 TTTATTTTTTACTTTGAGAA
1 TTTATTTTTTACTTTGAGAA
84061555 GTTAAGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTATTTTTTACTTTGAGAAT
Found at i:84063295 original size:69 final size:69
Alignment explanation
Indices: 84063124--84063461 Score: 342
Period size: 69 Copynumber: 4.8 Consensus size: 69
84063114 ACCTTCTATA
* * * *
84063124 TCCAACATAGTTAGCAAGAACGAAGCTCCCAACTGTCATATTAAGGCTCGCAGGTGAAGAGCCGC
1 TCCAACACAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGCTTGCAGGTGAAGAGCCGC
84063189 AGCC
66 AGCC
* * ** * * *
84063193 CCCAA-AAAGTTAGCGAGAGTAAAGCTCCCAACTGTTATATTTAGGCTTGCAGGTGAAGAGCCGT
1 TCCAACACAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGCTTGCAGGTGAAGAGCCGC
*
84063257 AGTC
66 AGCC
* * *
84063261 TCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATT-AGGCTCGCAGGTGAAGAGTCGC
1 TCCAACACAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGCTTGCAGGTGAAGAG-C-C
84063325 AGCCTCAGCC
64 -G---CAGCC
* * * * *
84063335 TCCAACACAATTAGCGAGAACAAAGCTCCCAGCTGTCATATTAAAGCTTGTAGGTGAAGAGCTGC
1 TCCAACACAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGCTTGCAGGTGAAGAGCCGC
*
84063400 AGTC
66 AGCC
* * * * *
84063404 TCCAACACAATTAACGAGTTA-AAAGCTCCCAGCTGTCATA-TAGGGGCTTGCAGGTGAA
1 TCCAACACAGTTAGCGAG-AACAAAGCTCCCAACTGTCATATTA-AGGCTTGCAGGTGAA
84063462 AAATCGTAGC
Statistics
Matches: 227, Mismatches: 32, Indels: 20
0.81 0.11 0.07
Matches are distributed among these distances:
68 76 0.33
69 90 0.40
70 2 0.01
71 1 0.00
72 1 0.00
74 42 0.19
75 15 0.07
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (69 bp):
TCCAACACAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGCTTGCAGGTGAAGAGCCGC
AGCC
Found at i:84063390 original size:143 final size:136
Alignment explanation
Indices: 84063124--84063461 Score: 376
Period size: 143 Copynumber: 2.4 Consensus size: 136
84063114 ACCTTCTATA
* *
84063124 TCCAACATAGTTAGCAAGAACGAAGCTCCCAACTGTCATATTAAGGCTCGCAGGTGAAGAGCCGC
1 TCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATT-AGGCTCGCAGGTGAAGAGCCGC
** * * *
84063189 AGCCCCCAAAAAGTTAGCGAGAGTAAAGCTCCCAACTGTTATATTTAGGCTTGCAGGTGAAGAGC
65 AGCCCCCAAAAAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAAGCTTGCAGGTGAAGAGC
*
84063254 CGTAGTC
130 CGCAGTC
*
84063261 TCCAACATAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAGGCTCGCAGGTGAAGAGTCGCA
1 TCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAGGCTCGCAGGTGAAGAG-C-C-
* * *
84063326 GCCTCAGCCTCCAACACAA-TTAGCGAGAACAAAGCTCCCAGCTGTCATATTAAAGCTTGTAGGT
63 G---CAGCCCCCAA-A-AAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAAGCTTGCAGGT
*
84063390 GAAGAGCTGCAGTC
123 GAAGAGCCGCAGTC
* * * * * *
84063404 TCCAACACAATTAACGAGTTA-AAAGCTCCCAGCTGTCATA-TAGGGGCTTGCAGGTGAA
1 TCCAACATAGTTAGCGAG-AACAAAGCTCCCAACTGTCATATTA--GGCTCGCAGGTGAA
84063462 AAATCGTAGC
Statistics
Matches: 170, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
136 18 0.11
137 40 0.24
138 1 0.01
139 1 0.01
142 11 0.06
143 84 0.49
144 15 0.09
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (136 bp):
TCCAACATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAGGCTCGCAGGTGAAGAGCCGCA
GCCCCCAAAAAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAAGCTTGCAGGTGAAGAGCC
GCAGTC
Found at i:84065361 original size:18 final size:18
Alignment explanation
Indices: 84065338--84065373 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
84065328 AATAAAATGC
84065338 GTATAATAAA-ATTAAAAT
1 GTATAA-AAATATTAAAAT
84065356 GTATAAAAATATTAAAAT
1 GTATAAAAATATTAAAAT
84065374 AAAATTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
GTATAAAAATATTAAAAT
Found at i:84066226 original size:24 final size:24
Alignment explanation
Indices: 84066174--84066240 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
84066164 TTTTTGTTAG
* * *
84066174 ATTTTTTTTA-AAAATTCACTTAA
1 ATTTTTATTATAAAAGTGACTTAA
84066197 ATTTTTTATTATAAAAGTGACTTAA
1 A-TTTTTATTATAAAAGTGACTTAA
*
84066222 ATTTTTATTATCAAAGTGA
1 ATTTTTATTATAAAAGTGA
84066241 TCAATAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 1 0.03
24 25 0.66
25 12 0.32
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (24 bp):
ATTTTTATTATAAAAGTGACTTAA
Found at i:84068907 original size:16 final size:17
Alignment explanation
Indices: 84068886--84068920 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
84068876 AATTAATTTA
84068886 AATTAATTAA-TTTCTC
1 AATTAATTAATTTTCTC
84068902 AATTAATTAATTTTCTC
1 AATTAATTAATTTTCTC
84068919 AA
1 AA
84068921 CCTAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAATTAATTTTCTC
Found at i:84072262 original size:23 final size:23
Alignment explanation
Indices: 84072236--84072334 Score: 139
Period size: 23 Copynumber: 4.3 Consensus size: 23
84072226 GGTCCATTTA
84072236 CACATTAATATTTAAGCATAAAT
1 CACATTAATATTTAAGCATAAAT
*
84072259 CACATTAATA-TTAATCATAAAT
1 CACATTAATATTTAAGCATAAAT
*
84072281 CACATTAATATTTAAGCATAAAA
1 CACATTAATATTTAAGCATAAAT
*
84072304 CACATTAA-ATTTTAAACATAAAT
1 CACATTAATA-TTTAAGCATAAAT
*
84072327 CATATTAA
1 CACATTAA
84072335 GTTCTAACAC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
22 22 0.32
23 46 0.68
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (23 bp):
CACATTAATATTTAAGCATAAAT
Found at i:84072287 original size:45 final size:46
Alignment explanation
Indices: 84072236--84072334 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 46
84072226 GGTCCATTTA
* *
84072236 CACATTAATATTTAAGCATAAATCACATT-AATATTAATCATAAAT
1 CACATTAATATTTAAGCATAAAACACATTAAATATTAAACATAAAT
*
84072281 CACATTAATATTTAAGCATAAAACACATTAAATTTTAAACATAAAT
1 CACATTAATATTTAAGCATAAAACACATTAAATATTAAACATAAAT
*
84072327 CATATTAA
1 CACATTAA
84072335 GTTCTAACAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 28 0.57
46 21 0.43
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (46 bp):
CACATTAATATTTAAGCATAAAACACATTAAATATTAAACATAAAT
Found at i:84073401 original size:14 final size:14
Alignment explanation
Indices: 84073382--84073409 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
84073372 TCGTTAATGA
84073382 AACTTTAATGTAAG
1 AACTTTAATGTAAG
84073396 AACTTTAATGTAAG
1 AACTTTAATGTAAG
84073410 TTTAGAAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
AACTTTAATGTAAG
Found at i:84075776 original size:51 final size:51
Alignment explanation
Indices: 84075721--84075825 Score: 113
Period size: 51 Copynumber: 2.1 Consensus size: 51
84075711 ATGTAGCCGA
* *
84075721 AGCTACCACATAACATGTAA-CACATCCATAATGAACTCAGACCTCTCAACG
1 AGCTACCACATAACATG-AATCACATCCATAATGAACTCAAACCACTCAACG
** ** * * *
84075772 AGCTAGGATGTTACATGAATCGCATCCATCATGAACTCAAACCACTCAACG
1 AGCTACCACATAACATGAATCACATCCATAATGAACTCAAACCACTCAACG
84075823 AGC
1 AGC
84075826 GATGCTCGCA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
50 2 0.05
51 42 0.95
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (51 bp):
AGCTACCACATAACATGAATCACATCCATAATGAACTCAAACCACTCAACG
Found at i:84083218 original size:40 final size:40
Alignment explanation
Indices: 84083173--84083339 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
84083163 CGGAATATAA
84083173 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
84083213 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
84083253 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84083293 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84083332 CCGGATAT
1 CCGGATAT
84083340 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84083323 original size:80 final size:79
Alignment explanation
Indices: 84083173--84083339 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
84083163 CGGAATATAA
* *
84083173 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
84083238 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
84083253 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
84083315 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
84083332 CCGGATAT
1 CCGGATAT
84083340 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:84084188 original size:17 final size:19
Alignment explanation
Indices: 84084165--84084210 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
84084155 AAGAAGCATG
84084165 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
84084183 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
84084201 AATCATGCTC
1 AATCATGCTC
84084211 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:84091215 original size:40 final size:40
Alignment explanation
Indices: 84091170--84091336 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
84091160 CGGAATATAA
84091170 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
84091210 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
84091250 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84091290 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84091329 CCGGATAT
1 CCGGATAT
84091337 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84091320 original size:80 final size:79
Alignment explanation
Indices: 84091186--84091336 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
84091176 ATAATCACGT
*
84091186 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
84091251 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
84091266 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
84091329 CCGGATAT
64 CCGGATAT
84091337 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:84092184 original size:17 final size:19
Alignment explanation
Indices: 84092161--84092206 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
84092151 AAGAAGCATG
84092161 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
84092179 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
84092197 AATCATGCTC
1 AATCATGCTC
84092207 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:84102179 original size:40 final size:38
Alignment explanation
Indices: 84102053--84102181 Score: 159
Period size: 40 Copynumber: 3.3 Consensus size: 38
84102043 CGGAATATAA
*
84102053 CCGGATATAACCAGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTGCAC-AATGCCTTCGGGTCTTAGC
* **
84102092 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCAC-AATGCCTTCGGGTCTTAGC
* *
84102132 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAA-TGCCTTCGGGTCTTAGC
84102172 CCGGATATAA
1 CCGGATATAA
84102182 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 13 0.17
40 63 0.83
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (38 bp):
CCGGATATAACCACTGCACAATGCCTTCGGGTCTTAGC
Found at i:84102196 original size:40 final size:40
Alignment explanation
Indices: 84102068--84102219 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
84102058 TATAACCAGT
* * *
84102068 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
84102108 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
84102148 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
84102188 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
84102220 CATTCAATTT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 90 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:84102202 original size:80 final size:79
Alignment explanation
Indices: 84102053--84102219 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 79
84102043 CGGAATATAA
* *
84102053 CCGGATATAACCAGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGC
1 CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGC
*
84102118 CTTCGGGTCTTAGC
66 CTTCGGGGCTTAGC
* * * ** *
84102132 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-
*
84102195 TGTCTTCGGGGCTTAGC
63 TGCCTTCGGGGCTTAGC
84102212 CCGGATAT
1 CCGGATAT
84102220 CATTCAATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.79
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGC
CTTCGGGGCTTAGC
Found at i:84110100 original size:40 final size:40
Alignment explanation
Indices: 84110055--84110221 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
84110045 CGGAATATAA
*
84110055 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
84110095 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
84110135 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
84110175 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
84110214 CCGGATAT
1 CCGGATAT
84110222 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84110205 original size:80 final size:79
Alignment explanation
Indices: 84110071--84110221 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
84110061 ATAACCATGT
*
84110071 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
84110136 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
84110151 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
84110214 CCGGATAT
64 CCGGATAT
84110222 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:84113036 original size:19 final size:20
Alignment explanation
Indices: 84112996--84113036 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
84112986 CATCTTTCTT
84112996 TTTTCTTTTATTTACTTAAA
1 TTTTCTTTTATTTACTTAAA
84113016 TTTTCTTTTATTTAC-TAAA
1 TTTTCTTTTATTTACTTAAA
84113035 TT
1 TT
84113037 ACTGCTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTCTTTTATTTACTTAAA
Found at i:84117176 original size:3 final size:3
Alignment explanation
Indices: 84117168--84117225 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
84117158 GTATGTATTG
* *
84117168 TAT TAT TAT TAT TGT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
84117216 TAT TAT TAT T
1 TAT TAT TAT T
84117226 TAGAACAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:84125090 original size:21 final size:22
Alignment explanation
Indices: 84125063--84125129 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
84125053 TGTCACATAC
84125063 ATCATGAACTCAGAGCACAACT
1 ATCATGAACTCAGAGCACAACT
* *
84125085 A-GATGAGCTCAGATGTCACATA-T
1 ATCATGAACTCAGA-G-CACA-ACT
*
84125108 ATCATGAACTCAGACCACAACT
1 ATCATGAACTCAGAGCACAACT
84125130 CAATGAGTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
21 11 0.31
22 7 0.20
23 6 0.17
24 11 0.31
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (22 bp):
ATCATGAACTCAGAGCACAACT
Found at i:84125117 original size:45 final size:45
Alignment explanation
Indices: 84125053--84125143 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
84125043 ACAAAACATG
*
84125053 TGTCACATACATCATGAACTCAGAGCACAACT-AGATGAGCTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCA-ATGAGCTCAGA
* *
84125098 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGCTCAGA
84125143 T
1 T
84125144 CACATTGTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGCTCAGA
Found at i:84125119 original size:24 final size:24
Alignment explanation
Indices: 84125053--84125121 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 24
84125043 ACAAAACATG
*
84125053 TGTCACATACATCATGAACTCAGA
1 TGTCACATATATCATGAACTCAGA
* *
84125077 -G-CACA-ACTA-GATGAGCTCAGA
1 TGTCACATA-TATCATGAACTCAGA
84125098 TGTCACATATATCATGAACTCAGA
1 TGTCACATATATCATGAACTCAGA
84125122 CCACAACTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
21 11 0.31
22 6 0.17
23 7 0.20
24 11 0.31
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (24 bp):
TGTCACATATATCATGAACTCAGA
Found at i:84137605 original size:13 final size:13
Alignment explanation
Indices: 84137587--84137613 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
84137577 AGCCGTGGTA
84137587 ACTGAATTTAGCT
1 ACTGAATTTAGCT
84137600 ACTGAATTTAGCT
1 ACTGAATTTAGCT
84137613 A
1 A
84137614 TCTCGTACCT
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:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ACTGAATTTAGCT
Found at i:84143485 original size:40 final size:40
Alignment explanation
Indices: 84143441--84143668 Score: 334
Period size: 40 Copynumber: 5.7 Consensus size: 40
84143431 GCTACTAGCT
84143441 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
84143481 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
84143521 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
84143561 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** *
84143601 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGCCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
84143640 CAAATGCCTTCGGGACTTGGTCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
84143669 CAATCCGAAT
Statistics
Matches: 169, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 31 0.18
40 136 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:84152807 original size:24 final size:24
Alignment explanation
Indices: 84152775--84152825 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
84152765 CATGTTTAAG
* *
84152775 TTCATCTATTAATATAAGTTGTCT
1 TTCATCTATTAACATAAGTCGTCT
84152799 TTCATCTATTAACATAAGTCGTCT
1 TTCATCTATTAACATAAGTCGTCT
84152823 TTC
1 TTC
84152826 CATGTTACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (24 bp):
TTCATCTATTAACATAAGTCGTCT
Found at i:84154402 original size:43 final size:43
Alignment explanation
Indices: 84154354--84154437 Score: 168
Period size: 43 Copynumber: 2.0 Consensus size: 43
84154344 CAATCAATGA
84154354 GTTAGTCACATAATCATGTATCATGTAATTTAACTAGATGAAC
1 GTTAGTCACATAATCATGTATCATGTAATTTAACTAGATGAAC
84154397 GTTAGTCACATAATCATGTATCATGTAATTTAACTAGATGA
1 GTTAGTCACATAATCATGTATCATGTAATTTAACTAGATGA
84154438 GCTCTTCATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (43 bp):
GTTAGTCACATAATCATGTATCATGTAATTTAACTAGATGAAC
Found at i:84157700 original size:13 final size:13
Alignment explanation
Indices: 84157682--84157709 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
84157672 GTGGCTGCAG
84157682 TAGTGCTTGTAAC
1 TAGTGCTTGTAAC
84157695 TAGTGCTTGTAAC
1 TAGTGCTTGTAAC
84157708 TA
1 TA
84157710 TGGTCATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (13 bp):
TAGTGCTTGTAAC
Found at i:84162891 original size:17 final size:17
Alignment explanation
Indices: 84162869--84162905 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
84162859 CAAAAAAATG
84162869 TGAAAGTATTGAATTCA
1 TGAAAGTATTGAATTCA
84162886 TGAAAGTATTGAATTCA
1 TGAAAGTATTGAATTCA
84162903 TGA
1 TGA
84162906 CTATGTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (17 bp):
TGAAAGTATTGAATTCA
Found at i:84167073 original size:16 final size:16
Alignment explanation
Indices: 84167052--84167083 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
84167042 AGAATGGTTT
84167052 GGTTTGATAAATTCTA
1 GGTTTGATAAATTCTA
84167068 GGTTTGATAAATTCTA
1 GGTTTGATAAATTCTA
84167084 CTTTCATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
GGTTTGATAAATTCTA
Found at i:84181703 original size:13 final size:13
Alignment explanation
Indices: 84181685--84181713 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
84181675 ACCAGTAAGC
84181685 TGGTACTTAACAA
1 TGGTACTTAACAA
84181698 TGGTACTTAACAA
1 TGGTACTTAACAA
84181711 TGG
1 TGG
84181714 CGTTGGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (13 bp):
TGGTACTTAACAA
Found at i:84183319 original size:17 final size:17
Alignment explanation
Indices: 84183297--84183330 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
84183287 CACAAGGATT
84183297 CTTAGGACAAACCTTCC
1 CTTAGGACAAACCTTCC
84183314 CTTAGGACAAACCTTCC
1 CTTAGGACAAACCTTCC
84183331 TTCTTAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (17 bp):
CTTAGGACAAACCTTCC
Found at i:84183963 original size:38 final size:38
Alignment explanation
Indices: 84183921--84183997 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
84183911 ACTAATTTAC
84183921 AAAACTGTTAAAGGTCTAGGGTTTTACCATTGATAAAT
1 AAAACTGTTAAAGGTCTAGGGTTTTACCATTGATAAAT
84183959 AAAACTGTTAAAGGTCTAGGGTTTTACCATTGATAAAT
1 AAAACTGTTAAAGGTCTAGGGTTTTACCATTGATAAAT
84183997 A
1 A
84183998 TTTGTGTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (38 bp):
AAAACTGTTAAAGGTCTAGGGTTTTACCATTGATAAAT
Found at i:84187879 original size:26 final size:26
Alignment explanation
Indices: 84187818--84187880 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
84187808 GTATCCGACC
* * *
84187818 ACTCAATCAAAAGACCATTTCCTGAA
1 ACTCAATCACAAGACCATTGCCCGAA
* *
84187844 ACTCAATCACAAGGCCATTGCCCGGA
1 ACTCAATCACAAGACCATTGCCCGAA
84187870 ACTCAATCACA
1 ACTCAATCACA
84187881 TGTATTGCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.19
Consensus pattern (26 bp):
ACTCAATCACAAGACCATTGCCCGAA
Found at i:84187933 original size:43 final size:44
Alignment explanation
Indices: 84187880--84187969 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 44
84187870 ACTCAATCAC
*
84187880 ATGTATTGCATCCATTATGAACTCAGACCACTCAACAAGCTCGG
1 ATGTATTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGG
* * *
84187924 ATGT-TTGCATCCATAATGAACTCGGACCACTTAACGAGCTCGG
1 ATGTATTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGG
84187967 ATG
1 ATG
84187970 CCACATATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 38 0.90
44 4 0.10
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGTATTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGG
Found at i:84191089 original size:40 final size:40
Alignment explanation
Indices: 84191034--84191140 Score: 133
Period size: 40 Copynumber: 2.6 Consensus size: 40
84191024 ACGACAATTT
* *
84191034 GGCTAAGTGTGGCACTTAGTGTGCGATTCAAGATAGCTTC
1 GGCTAAGTATGGCACTTAGTGTGCGATTCAAGATAACTTC
**
84191074 GGCTAAGTATGGCACTTAGTGTGCGATTTGAGATAACTTC
1 GGCTAAGTATGGCACTTAGTGTGCGATTCAAGATAACTTC
* * **
84191114 AGCTATGTATTAACACTTAGTGTGCGA
1 GGCTAAGTA-TGGCACTTAGTGTGCGA
84191141 GAATTTGAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 43 0.74
41 15 0.26
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (40 bp):
GGCTAAGTATGGCACTTAGTGTGCGATTCAAGATAACTTC
Found at i:84199437 original size:28 final size:28
Alignment explanation
Indices: 84199405--84199474 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
84199395 GCAATAAGCC
* *
84199405 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
84199433 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
84199461 TGCACACTTAGTGC
1 CGCACACTTAGTGC
84199475 CAATTTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:84206878 original size:28 final size:28
Alignment explanation
Indices: 84206846--84206944 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
84206836 GCAATAAGCC
*
84206846 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
84206874 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
84206902 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
84206931 CGCACACTTAGTGC
1 CGCACACTTAGTGC
84206945 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:84210493 original size:27 final size:27
Alignment explanation
Indices: 84210455--84210508 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
84210445 CCTTTTCCGA
*
84210455 GTAGAACTAGACTTGGGCTCTACAGGG
1 GTAGAACTAGACTTGGGCTCGACAGGG
84210482 GTAGAACTAGACTTGGGCTCGACAGGG
1 GTAGAACTAGACTTGGGCTCGACAGGG
84210509 ACACGACCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.20
Consensus pattern (27 bp):
GTAGAACTAGACTTGGGCTCGACAGGG
Found at i:84213159 original size:40 final size:40
Alignment explanation
Indices: 84213114--84213280 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
84213104 CGGAATATAA
84213114 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
84213154 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
84213194 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84213234 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84213273 CCGGATAT
1 CCGGATAT
84213281 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84213264 original size:80 final size:79
Alignment explanation
Indices: 84213114--84213280 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
84213104 CGGAATATAA
* *
84213114 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
84213179 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
84213194 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
84213256 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
84213273 CCGGATAT
1 CCGGATAT
84213281 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:84214129 original size:17 final size:19
Alignment explanation
Indices: 84214106--84214151 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
84214096 AAGAAGCATG
84214106 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
84214124 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
84214142 AATCATGCTC
1 AATCATGCTC
84214152 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:84221161 original size:40 final size:39
Alignment explanation
Indices: 84221116--84221229 Score: 131
Period size: 40 Copynumber: 2.9 Consensus size: 39
84221106 CGGAATATAA
84221116 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCAC-AATGCCTTCGGGTCTTAGC
* * * *
84221156 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCAC-AATGCCTTCGGGTCTTAGC
** *
84221196 CCGGATATAGCCACTAGCACAATTCCTTCGGGTC
1 CCGGATATAATCACTAGCACAATGCCTTCGGGTC
84221230 GTCCTCGTCT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.21
40 49 0.79
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:84226216 original size:40 final size:40
Alignment explanation
Indices: 84226171--84226337 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
84226161 CGGAATATAA
84226171 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
84226211 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
84226251 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
84226291 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
84226330 CCGGATAT
1 CCGGATAT
84226338 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:84226321 original size:80 final size:79
Alignment explanation
Indices: 84226171--84226337 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
84226161 CGGAATATAA
* *
84226171 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
84226236 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
84226251 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
84226313 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
84226330 CCGGATAT
1 CCGGATAT
84226338 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:84227186 original size:17 final size:19
Alignment explanation
Indices: 84227163--84227208 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
84227153 AAGAAGCATG
84227163 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
84227181 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
84227199 AATCATGCTC
1 AATCATGCTC
84227209 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:84236261 original size:11 final size:11
Alignment explanation
Indices: 84236245--84236273 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
84236235 GTCAAAATAT
84236245 TTATTTTATTA
1 TTATTTTATTA
84236256 TTATTTTATTA
1 TTATTTTATTA
84236267 TTATTTT
1 TTATTTT
84236274 GAGGTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:84239914 original size:86 final size:86
Alignment explanation
Indices: 84239823--84239994 Score: 272
Period size: 86 Copynumber: 2.0 Consensus size: 86
84239813 AGTTTTTTTC
* * *
84239823 AAAAAAATGCAGCTGCTAGACCTAGGTTTCTTTTCGTTTTCTTGGTTAATGTTGGTAACACTCTC
1 AAAAAAATGCAGCTACTAGACCTAGGTTTCTTTTCATTTTCGTGGTTAATGTTGGTAACACTCTC
*
84239888 TCACCTTAGGGTTTTTGTGAT
66 TCACCTTAGGGTTTTTATGAT
** * *
84239909 AAAAAAATGTGGCTACTAGACCTAGGTTTTTTTTTATTTTCGTGGTTAATGTTGGTAACACTCTC
1 AAAAAAATGCAGCTACTAGACCTAGGTTTCTTTTCATTTTCGTGGTTAATGTTGGTAACACTCTC
84239974 TCACCTTAGGGTTTTTATGAT
66 TCACCTTAGGGTTTTTATGAT
84239995 TCCCTTTTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (86 bp):
AAAAAAATGCAGCTACTAGACCTAGGTTTCTTTTCATTTTCGTGGTTAATGTTGGTAACACTCTC
TCACCTTAGGGTTTTTATGAT
Found at i:84242902 original size:14 final size:14
Alignment explanation
Indices: 84242883--84242921 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
84242873 TTGTTTAATT
84242883 AAAAATTACTTT-TG
1 AAAAATTA-TTTATG
84242897 AAAAATTATTTATG
1 AAAAATTATTTATG
*
84242911 GAAAATTATTT
1 AAAAATTATTT
84242922 GAATTTCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (14 bp):
AAAAATTATTTATG
Found at i:84248406 original size:25 final size:25
Alignment explanation
Indices: 84248378--84248428 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
84248368 ATTACTCAGG
84248378 TATACCAGTAATAATCCATTAACTT
1 TATACCAGTAATAATCCATTAACTT
84248403 TATACCAGTAATAATCCATTAACTT
1 TATACCAGTAATAATCCATTAACTT
84248428 T
1 T
84248429 GTTCAGAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (25 bp):
TATACCAGTAATAATCCATTAACTT
Found at i:84249878 original size:43 final size:41
Alignment explanation
Indices: 84249742--84249884 Score: 126
Period size: 43 Copynumber: 3.4 Consensus size: 41
84249732 TTTATAAAAA
* * * *
84249742 AAACGCCGTTAAAGAACATGACTTTAGCGGCGCTTTTCTCAT
1 AAACGCCGCTAAA-AACATGATTTTAGCGTCGCTTTTCTTAT
* ** * *
84249784 AAATGTTGCTAAAAATCATGACTTTTAGCGTTG-TTCTTTTTAT
1 AAACGCCGCTAAAAA-CATGA-TTTTAGCGTCGCTT-TTCTTAT
* *
84249827 AAATGCCGCTAAAAACCATGATTTTTAGCGTCGCTTTTCTTAC
1 AAACGCCGCTAAAAA-CATGA-TTTTAGCGTCGCTTTTCTTAT
84249870 AAACGCCGCTAAAAA
1 AAACGCCGCTAAAAA
84249885 ACAAGACCTT
Statistics
Matches: 80, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.03
42 16 0.20
43 60 0.75
44 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (41 bp):
AAACGCCGCTAAAAACATGATTTTAGCGTCGCTTTTCTTAT
Found at i:84252174 original size:6 final size:6
Alignment explanation
Indices: 84252163--84252191 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
84252153 TGAGAAATTT
84252163 CTTTCC CTTTCC CTTTCC CTTTCC CTTTC
1 CTTTCC CTTTCC CTTTCC CTTTCC CTTTC
84252192 AGAAGCAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
CTTTCC
Found at i:84254782 original size:46 final size:45
Alignment explanation
Indices: 84254708--84254954 Score: 338
Period size: 46 Copynumber: 5.4 Consensus size: 45
84254698 GATGTCATAG
* * * * * *
84254708 ATCTTTCAACTATGGTTTTACTCGTTTTCTGTCATGTTGCCATGGT
1 ATCTTTCAACCATGGTCTTATTC-ATTTCTATCAGGTTGCCATGGT
*
84254754 ATCTTTCAACCATGGTCTTATTCATTTTCTCGTCAGGTTGCCATGGT
1 ATCTTTCAACCATGGTCTTATTCA-TTTCT-ATCAGGTTGCCATGGT
*
84254801 ATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGT
1 ATCTTTCAACCATGGTCTTATTCATTTC-TATCAGGTTGCCATGGT
84254847 ATCTTTCAACCATGGTCTTATTCATTTC-AT-A-GTTGCCATGGT
1 ATCTTTCAACCATGGTCTTATTCATTTCTATCAGGTTGCCATGGT
**
84254889 ATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGT
1 ATCTTTCAACCATGGTCTTATTCATTTC-TATCAGGTTGCCATGGT
84254935 ATCTTTCAACCATGGTCTTA
1 ATCTTTCAACCATGGTCTTA
84254955 CACATGGGAT
Statistics
Matches: 185, Mismatches: 9, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
42 37 0.20
43 1 0.01
44 4 0.02
45 1 0.01
46 102 0.55
47 40 0.22
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (45 bp):
ATCTTTCAACCATGGTCTTATTCATTTCTATCAGGTTGCCATGGT
Found at i:84254917 original size:88 final size:92
Alignment explanation
Indices: 84254708--84254954 Score: 360
Period size: 88 Copynumber: 2.7 Consensus size: 92
84254698 GATGTCATAG
* * * * *
84254708 ATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCT
1 ATCTTTCAACCATGGTCTTACTC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCT
*
84254772 TATTCATTTTCTCGTCAGGTTGCCATGGT
65 TATTCA-TTTCTCATCAGGTTGCCATGGT
*
84254801 ATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTT
84254866 ATTCA-TT-TCAT-A-GTTGCCATGGT
66 ATTCATTTCTCATCAGGTTGCCATGGT
* *
84254889 ATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTT
84254954 A
66 A
84254955 CACATGGGAT
Statistics
Matches: 143, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
88 74 0.52
89 1 0.01
90 3 0.02
91 2 0.01
92 4 0.03
93 59 0.41
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (92 bp):
ATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTT
ATTCATTTCTCATCAGGTTGCCATGGT
Found at i:84257344 original size:12 final size:13
Alignment explanation
Indices: 84257327--84257355 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
84257317 GAGATTCAAA
84257327 ATTTATTTA-TTT
1 ATTTATTTATTTT
84257339 ATTTATTTATTTT
1 ATTTATTTATTTT
84257352 ATTT
1 ATTT
84257356 TTACTAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:84258455 original size:14 final size:13
Alignment explanation
Indices: 84258436--84258489 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 13
84258426 ATTCCCCCTC
84258436 TTTCTTTCTTTTTT
1 TTTCTTT-TTTTTT
*
84258450 TTTC-TTTCTTTT
1 TTTCTTTTTTTTT
* *
84258462 CTTCTCTTTTTCTT
1 TTTCT-TTTTTTTT
84258476 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
84258489 T
1 T
84258490 CAAACACTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
12 8 0.25
13 10 0.31
14 14 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:84258466 original size:22 final size:23
Alignment explanation
Indices: 84258436--84258483 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
84258426 ATTCCCCCTC
*
84258436 TTTCTTTCT-TTTTTTTTCTTTCT
1 TTTCTTTCTCTTTTTCTT-TTTCT
84258459 TTTC-TTCTCTTTTTCTTTTTCT
1 TTTCTTTCTCTTTTTCTTTTTCT
84258481 TTT
1 TTT
84258484 TTTTTTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTCTTTCTCTTTTTCTTTTTCT
Found at i:84258477 original size:26 final size:23
Alignment explanation
Indices: 84258436--84258490 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 23
84258426 ATTCCCCCTC
84258436 TTTCTTTCTTTTTTTTTCTTTCT
1 TTTCTTTCTTTTTTTTTCTTTCT
84258459 TTTCTTCTCTTTTTCTTTTTCTTT-T
1 TTTCTT-TC-TTTT-TTTTTCTTTCT
84258484 TTT-TTTC
1 TTTCTTTC
84258491 AAACACTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 8 0.28
24 4 0.14
25 8 0.28
26 9 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTCTTTCTTTTTTTTTCTTTCT
Found at i:84259583 original size:46 final size:46
Alignment explanation
Indices: 84259507--84259955 Score: 674
Period size: 46 Copynumber: 9.8 Consensus size: 46
84259497 TGATGTCATA
* * * * * *
84259507 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATG
** * *
84259553 GTATCTTTCAACCATGGTCTTATTCATTTTC-TCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCAT-ATCAGGTTGCCATG
* *
84259600 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
** *
84259646 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
84259692 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
84259738 GTATCTTTCAACCATGGT-TTATACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
84259783 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
84259829 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCAT-
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
84259874 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG-CATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
*
84259919 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
84259956 AGAGCACACT
Statistics
Matches: 381, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
44 3 0.01
45 120 0.31
46 218 0.57
47 40 0.10
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
Found at i:84259756 original size:25 final size:25
Alignment explanation
Indices: 84259728--84259800 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 25
84259718 TTTCATATCA
84259728 GGTTGCCATGGTATCTTTCAACCAT
1 GGTTGCCATGGTATCTTTCAACCAT
* *
84259753 GGTT----T-ATA-CATTTCATATCA-
1 GGTTGCCATGGTATC-TTTCA-ACCAT
84259773 GGTTGCCATGGTATCTTTCAACCAT
1 GGTTGCCATGGTATCTTTCAACCAT
84259798 GGT
1 GGT
84259801 CTTACACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 18
0.61 0.07 0.32
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 4 0.11
24 4 0.11
25 14 0.40
26 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (25 bp):
GGTTGCCATGGTATCTTTCAACCAT
Found at i:84259802 original size:137 final size:138
Alignment explanation
Indices: 84259507--84259954 Score: 665
Period size: 137 Copynumber: 3.3 Consensus size: 138
84259497 TGATGTCATA
* * * * * *
84259507 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGT
** * * *
84259571 CTTATTCATTTTC-TCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGT
65 CTTACACA-TTTCAT-ATCACGTTGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATAT
84259634 CAGGTTGCCATG
127 CAGGTTGCCATG
**
84259646 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
*
84259711 TTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGT-TTATACATTTCATATCAGG
66 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGG
84259775 TTGCCATG
131 TTGCCATG
*
84259783 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
*
84259848 TTACACATTTCATATCACGTTGCCAT-GTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
66 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGG
84259912 TTG-CATG
131 TTGCCATG
*
84259919 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCA
84259955 GAGAGCACAC
Statistics
Matches: 288, Mismatches: 17, Indels: 11
0.91 0.05 0.03
Matches are distributed among these distances:
136 58 0.20
137 132 0.46
138 38 0.13
139 60 0.21
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (138 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAGG
TTGCCATG
Found at i:84259806 original size:91 final size:92
Alignment explanation
Indices: 84259507--84259954 Score: 690
Period size: 91 Copynumber: 4.9 Consensus size: 92
84259497 TGATGTCATA
* * * * * *
84259507 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGT
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGT
* * *
84259571 CTTATTCATTTTC-TCGTCATGTTGCCATG
65 CTTATACA-TTTCAT-ATCACGTTGCCATG
* *
84259600 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
*
84259665 TTATTCATTTCATATCACGTTGCCATG
66 TTATACATTTCATATCACGTTGCCATG
84259692 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGT-
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
*
84259756 TTATACATTTCATATCAGGTTGCCATG
66 TTATACATTTCATATCACGTTGCCATG
84259783 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
*
84259848 TTACACATTTCATATCACGTTGCCAT-
66 TTATACATTTCATATCACGTTGCCATG
84259874 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG-CATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
* *
84259938 TTACACATTCCATATCA
66 TTATACATTTCATATCA
84259955 GAGAGCACAC
Statistics
Matches: 339, Mismatches: 13, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
90 39 0.12
91 130 0.38
92 106 0.31
93 64 0.19
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (92 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTC
TTATACATTTCATATCACGTTGCCATG
Found at i:84263361 original size:22 final size:21
Alignment explanation
Indices: 84263336--84263391 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
84263326 GTTTTTTTAT
*
84263336 TTTTTAATATTTTATTTTTAA-A
1 TTTTTAA-ATTTT-TTTTGAAGA
84263358 -TTTTAAATTTTTTTTGAAGA
1 TTTTTAAATTTTTTTTGAAGA
*
84263378 TTTTTAAAATTTTT
1 TTTTTAAATTTTTT
84263392 AAAATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.20
20 6 0.20
21 18 0.60
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTTTAAATTTTTTTTGAAGA
Found at i:84263382 original size:21 final size:20
Alignment explanation
Indices: 84263336--84263405 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 20
84263326 GTTTTTTTAT
*
84263336 TTTTTAATATTTTATTTTTAAA
1 TTTTTAA-ATTTT-TTTTGAAA
84263358 -TTTTAAATTTTTTTTGAAGA
1 TTTTTAAATTTTTTTTGAA-A
* *
84263378 TTTTTAAA--ATTTTTAAAA
1 TTTTTAAATTTTTTTTGAAA
84263396 TTTTTAAATT
1 TTTTTAAATT
84263406 AACATATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 9 0.22
19 13 0.32
20 6 0.15
21 13 0.32
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTAAATTTTTTTTGAAA
Found at i:84263389 original size:9 final size:9
Alignment explanation
Indices: 84263377--84263403 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
84263367 TTTTTTGAAG
84263377 ATTTTTAAA
1 ATTTTTAAA
84263386 ATTTTTAAA
1 ATTTTTAAA
84263395 ATTTTTAAA
1 ATTTTTAAA
84263404 TTAACATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:84263390 original size:18 final size:18
Alignment explanation
Indices: 84263369--84263403 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84263359 TTTAAATTTT
*
84263369 TTTTGAAGATTTTTAAAA
1 TTTTGAAAATTTTTAAAA
*
84263387 TTTTTAAAATTTTTAAA
1 TTTTGAAAATTTTTAAA
84263404 TTAACATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTGAAAATTTTTAAAA
Found at i:84264167 original size:21 final size:21
Alignment explanation
Indices: 84264143--84264185 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
84264133 ACCTTAAAAA
84264143 CCTAACACTT-AACCCCTAACC
1 CCTAACACTTAAACCCC-AACC
**
84264164 CCTAAGTCTTAAACCCCAACC
1 CCTAACACTTAAACCCCAACC
84264185 C
1 C
84264186 TTAAACCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.19
Consensus pattern (21 bp):
CCTAACACTTAAACCCCAACC
Found at i:84264233 original size:22 final size:21
Alignment explanation
Indices: 84264184--84264282 Score: 67
Period size: 22 Copynumber: 4.6 Consensus size: 21
84264174 AAACCCCAAC
*
84264184 CCTTAAACCATAAACCATAAT
1 CCTTAAACCATAAACCATAAA
* *
84264205 CCCTAAACCCATAATCCATAAA
1 CCTTAAA-CCATAAACCATAAA
*
84264227 CCTTAAA--ATAGTAACTCATACA
1 CCTTAAACCATA--AAC-CATAAA
* * *
84264249 CTTTAAACCCTAAATCATAAA
1 CCTTAAACCATAAACCATAAA
* *
84264270 CCCTAAACTATAA
1 CCTTAAACCATAA
84264283 TGATAATTAA
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
19 3 0.05
21 22 0.38
22 31 0.53
24 2 0.03
ACGTcount: A:0.46, C:0.28, G:0.01, T:0.24
Consensus pattern (21 bp):
CCTTAAACCATAAACCATAAA
Found at i:84264400 original size:7 final size:7
Alignment explanation
Indices: 84264376--84264483 Score: 76
Period size: 7 Copynumber: 15.1 Consensus size: 7
84264366 ACTAATTAAA
84264376 CTAAACC
1 CTAAACC
*
84264383 TTAAACTC
1 CTAAAC-C
*
84264391 CTAATCC
1 CTAAACC
84264398 CTAAACC
1 CTAAACC
84264405 CTAAACC
1 CTAAACC
* *
84264412 ATAAATC
1 CTAAACC
*
84264419 CTAAAAC
1 CTAAACC
*
84264426 ATAAACC
1 CTAAACC
84264433 CTAAACC
1 CTAAACC
* *
84264440 ATGAACCC
1 CT-AAACC
84264448 CT-AACC
1 CTAAACC
*
84264454 CTTAACC
1 CTAAACC
84264461 C-ATAACAC
1 CTA-AAC-C
84264469 CTAAACC
1 CTAAACC
*
84264476 TTAAACC
1 CTAAACC
84264483 C
1 C
84264484 CAACCATTAA
Statistics
Matches: 77, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
6 5 0.06
7 56 0.73
8 15 0.19
9 1 0.01
ACGTcount: A:0.43, C:0.37, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:84264430 original size:28 final size:29
Alignment explanation
Indices: 84264376--84264451 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 29
84264366 ACTAATTAAA
* ** *
84264376 CTAAACCTTAAACTCCTAATCCCTAAACC
1 CTAAACCATAAACTCCTAAAACATAAACC
84264405 CTAAACCATAAA-TCCTAAAACATAAACC
1 CTAAACCATAAACTCCTAAAACATAAACC
* *
84264433 CTAAACCATGAACCCCTAA
1 CTAAACCATAAACTCCTAA
84264452 CCCTTAACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 24 0.60
29 16 0.40
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (29 bp):
CTAAACCATAAACTCCTAAAACATAAACC
Found at i:84264524 original size:15 final size:15
Alignment explanation
Indices: 84264502--84264536 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
84264492 AAACCACCCT
*
84264502 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
84264516 TAAACCCATAATCCA
1 TAAACCCATAATCCA
84264531 TAAACC
1 TAAACC
84264537 TTAAAATAGT
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:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:84264628 original size:315 final size:303
Alignment explanation
Indices: 84263973--84264686 Score: 929
Period size: 303 Copynumber: 2.3 Consensus size: 303
84263963 TTACATAATT
* * * * *
84263973 TAAACTATAATCATAATT--TT-AATATATTAAAATTAGTATTATCTCTTTTACAATTATATAAT
1 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
* * * * * *
84264035 AAATTATTTAAT-ATATAAATTACAAAACATTAATTAATCTAAGCCTTAAACCCCTAACCCTTAC
66 AAAATATTT-ATCATATAAATTAAAAAACACTAATTAAACTAAACCTTAAACCCCTAACCCTTAA
* * * * * * *
84264099 CCCCTAAACCCTAAATCATAAACATAATCTATAAACCTTAAAAACCTAACACTTAACCCCTAACC
130 ACCCTAAACCATAAATCATAAACATAAACCATAAACCATAAAAACCTAACACTTAACCCATAACA
** *
84264164 CCTAAGTCTTAAACCCCAACCCTTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACC
195 CCTAAACCTTAAACCCCAACCATTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACC
* *
84264229 TTAAAATAGTAACTCATACACTTTAAACCCTAAATCATAAACCC
260 TTAAAATAGTAACTCATAAACATTAAACCCTAAATCATAAACCC
* *
84264273 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTATAATTGTATAAG
1 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
*
84264338 AAAATATTTATCATATAAATTAAAAAACACTAATTAAACTAAACCTTAAACTCCTAATCCC-TAA
66 AAAATATTTATCATATAAATTAAAAAACACTAATTAAACTAAACCTTAAACCCCTAA-CCCTTAA
* * * ** *
84264402 ACCCTAAACCATAAATCCTAAAACATAAACCCTAAACCATGAACCCCTAACCCTTAACCCATAAC
130 ACCCTAAACCATAAATCAT-AAACATAAACCATAAACCATAAAAACCTAACACTTAACCCATAAC
84264467 ACCTAAACCTTAAACCCCAACCATTAAACCACCCTTAAACCATAATCCCTAAACCCATAATCCAT
194 ACCTAAACCTTAAACCCCAACCATTAAACCA----TAAACCATAATCCCTAAACCCATAATCCAT
*
84264532 AAACCTTAAAATAGTAACTCATAAACATTAAACCCTTCACCATATACCGTAAACCC
255 AAACCTTAAAATAGTAACTCATAAACATTAAACCC-T-A--A-AT--CATAAACCC
* *
84264588 TAAACTATAATGATAATTAATTCAACATTTTAAAATTAATACTATCTCTTTTACAATTATATGAG
1 TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
*
84264653 AAAATATTTAACATATAAATTAAAAAA-AC-AATTA
66 AAAATATTTATCATATAAATTAAAAAACACTAATTA
84264687 GTCATATACC
Statistics
Matches: 359, Mismatches: 38, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
300 17 0.05
302 4 0.01
303 102 0.28
304 66 0.18
308 63 0.18
309 1 0.00
310 1 0.00
312 1 0.00
313 7 0.02
314 2 0.01
315 95 0.26
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (303 bp):
TAAACTATAATGATAATTAATTCAATATTTTAAAATTAATACTATCTCTTTTACAATTATATAAG
AAAATATTTATCATATAAATTAAAAAACACTAATTAAACTAAACCTTAAACCCCTAACCCTTAAA
CCCTAAACCATAAATCATAAACATAAACCATAAACCATAAAAACCTAACACTTAACCCATAACAC
CTAAACCTTAAACCCCAACCATTAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCT
TAAAATAGTAACTCATAAACATTAAACCCTAAATCATAAACCC
Found at i:84264832 original size:40 final size:40
Alignment explanation
Indices: 84264751--84264848 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
84264741 TTCATTTTTT
* *
84264751 GTGGCATTTTTCAAAAAACGCCGCTAATGATCGAGCATTA
1 GTGGCATTTTTTAAAAAACGCCGCTAATGATCAAGCATTA
** * *
84264791 GTGGCATTTTTTAAAACGCGCCGCTAAT-ACTCAATCTTTA
1 GTGGCATTTTTTAAAAAACGCCGCTAATGA-TCAAGCATTA
*
84264831 GTGGCGTTTTTTAAAAAA
1 GTGGCATTTTTTAAAAAA
84264849 ACCACTAAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
39 1 0.02
40 47 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (40 bp):
GTGGCATTTTTTAAAAAACGCCGCTAATGATCAAGCATTA
Found at i:84265330 original size:20 final size:20
Alignment explanation
Indices: 84265292--84265335 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
84265282 TGATATTAAT
* *
84265292 TTTTAGTTATTAATATTTTG
1 TTTTAGGTATTAATATTTTC
* *
84265312 TTTTAGGTATTAGTTTTTTC
1 TTTTAGGTATTAATATTTTC
84265332 TTTT
1 TTTT
84265336 GTAAATTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.68
Consensus pattern (20 bp):
TTTTAGGTATTAATATTTTC
Found at i:84267675 original size:17 final size:17
Alignment explanation
Indices: 84267655--84267689 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
84267645 TATTACATAA
84267655 ATAATACAATCACAAAT
1 ATAATACAATCACAAAT
* *
84267672 ATAATATAATTACAAAT
1 ATAATACAATCACAAAT
84267689 A
1 A
84267690 CAAATTCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAATACAATCACAAAT
Found at i:84267686 original size:23 final size:21
Alignment explanation
Indices: 84267651--84267694 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
84267641 TTATTATTAC
84267651 ATAAATAATAC-AATCACAAAT
1 ATAAATAATACAAAT-ACAAAT
84267672 ATAATATAATTACAAATACAAAT
1 ATAA-ATAA-TACAAATACAAAT
84267695 TCGAACCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 4 0.20
23 9 0.45
24 3 0.15
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAATAATACAAATACAAAT
Found at i:84268079 original size:5 final size:5
Alignment explanation
Indices: 84268069--84268100 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
84268059 ATTTATGTTC
84268069 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
84268101 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:84268081 original size:9 final size:9
Alignment explanation
Indices: 84268059--84268099 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
84268049 TCCACGTAAA
*
84268059 ATTTATGTT
1 ATTTATTTT
*
84268068 CTTTATTTT
1 ATTTATTTT
84268077 ATTTATTTT
1 ATTTATTTT
84268086 ATTTTATTTT
1 A-TTTATTTT
84268096 ATTT
1 ATTT
84268100 TTCACAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (9 bp):
ATTTATTTT
Done.