Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 69 of 292
Found at i:20879026 original size:37 final size:37
Alignment explanation
Indices: 20878973--20879044 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
20878963 GAAATATATT
*
20878973 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
* *
20879010 CCGGGTAAGACTCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
20879045 TCGAGCTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.24
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:20885918 original size:43 final size:43
Alignment explanation
Indices: 20885849--20885954 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
20885839 TCCTAGATAT
*
20885849 GGTCTTACATGTTATCACATATCAATGCCACTAT-TC-CAAACAG
1 GGTCTTACATGTAATCACATATCAATGCCA--ATGTCTCAAACAG
* * *
20885892 GGTCTTACATGTAATCTCA-ATACAATGCCAATGTCTCAGACAT
1 GGTCTTACATGTAATCACATAT-CAATGCCAATGTCTCAAACAG
20885935 GGTCTTACATGTAATCACAT
1 GGTCTTACATGTAATCACAT
20885955 CTCGATAACC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 2 0.04
42 4 0.07
43 48 0.89
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCAATGCCAATGTCTCAAACAG
Found at i:20893809 original size:93 final size:93
Alignment explanation
Indices: 20893677--20893851 Score: 271
Period size: 93 Copynumber: 1.9 Consensus size: 93
20893667 TGCCCATAAG
* **
20893677 CGAACTCGGACTCAACTCAATGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAAACTCAACTCA
20893742 ACAAGCTCGGATGCCTAGTTGCATCTCA
66 ACAAGCTCGGATGCCTAGTTGCATCTCA
* *
20893770 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCAAACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCAAACTCAACTC
* *
20893834 AACGAGTTCGGATGCCTA
65 AACAAGCTCGGATGCCTA
20893852 AATATCCTAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCAAACTCAACTCA
ACAAGCTCGGATGCCTAGTTGCATCTCA
Found at i:20893840 original size:46 final size:46
Alignment explanation
Indices: 20893670--20893845 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
20893660 TGTAACCTGC
* *
20893670 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCAT
* * *
20893716 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
20893766 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* ** *
20893809 CCATAAGTGAACTCAAACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
20893846 TGCCTAAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 7 0.06
44 2 0.02
45 4 0.04
46 58 0.54
47 27 0.25
48 2 0.02
49 2 0.02
50 6 0.06
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:20899252 original size:40 final size:40
Alignment explanation
Indices: 20899193--20899400 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
20899183 CAATTGAATG
* * * * *
20899193 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * **
20899233 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACCT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGT-AGTT
* * *
20899274 -CATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * * *
20899313 AAATCCGGGCTAATACCCGAAGGCGTTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
* * * *
20899353 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
20899393 ATATCCGG
1 ATATCCGG
20899401 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.02
40 131 0.95
41 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTT
Found at i:20899331 original size:80 final size:80
Alignment explanation
Indices: 20899194--20899400 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
20899184 AATTGAATGA
* * ** * * *
20899194 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCA
*
20899259 TTGTGCTAGT-GACC
66 TTGTGCAAGTCGACC
* * * *
20899273 TCATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCG
1 T-ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCC
* **
20899338 TTTGTGCAAGTCGTTC
65 ATTGTGCAAGTCGACC
* *
20899354 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
20899401 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 1 0.01
80 104 0.96
81 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCCA
TTGTGCAAGTCGACC
Found at i:20907298 original size:40 final size:40
Alignment explanation
Indices: 20907239--20907446 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
20907229 CAATTGAATG
* * * *
20907239 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
20907279 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20907319 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20907359 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
20907399 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
20907439 ATATCCGG
1 ATATCCGG
20907447 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:20907377 original size:80 final size:80
Alignment explanation
Indices: 20907240--20907446 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
20907230 AATTGAATGA
* * ** * * *
20907240 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
20907305 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
20907318 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
20907383 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
20907400 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
20907447 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:20919400 original size:28 final size:28
Alignment explanation
Indices: 20919339--20919436 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
20919329 TCACAAATTG
** * *
20919339 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
20919368 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
20919396 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
20919424 GCACTAAGTGTGC
1 GCACTAAGTGTGC
20919437 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:20927074 original size:28 final size:28
Alignment explanation
Indices: 20927013--20927110 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
20927003 TCACAAATTG
** * *
20927013 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
20927042 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
20927070 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
20927098 GCACTAAGTGTGC
1 GCACTAAGTGTGC
20927111 GGGCTTATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:20940292 original size:40 final size:40
Alignment explanation
Indices: 20940233--20940440 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
20940223 CAATTGAATG
* * * *
20940233 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
20940273 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20940313 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20940353 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
20940393 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
20940433 ATATCCGG
1 ATATCCGG
20940441 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:20940371 original size:80 final size:80
Alignment explanation
Indices: 20940234--20940440 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
20940224 AATTGAATGA
* * ** * * *
20940234 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
20940299 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
20940312 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
20940377 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
20940394 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
20940441 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:20948378 original size:40 final size:40
Alignment explanation
Indices: 20948319--20948525 Score: 216
Period size: 40 Copynumber: 5.2 Consensus size: 40
20948309 CAATTGAATG
* * * *
20948319 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
20948359 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20948399 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
20948439 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
20948479 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
20948519 ATATCCG
1 ATATCCG
20948526 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:20948457 original size:80 final size:80
Alignment explanation
Indices: 20948320--20948525 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
20948310 AATTGAATGA
* * ** * * *
20948320 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
20948385 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
20948398 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
20948463 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
20948480 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCG
20948526 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 104 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:20965423 original size:40 final size:40
Alignment explanation
Indices: 20965358--20965581 Score: 304
Period size: 40 Copynumber: 5.8 Consensus size: 40
20965348 CGGATGATAA
*
20965358 CGGGCTAAGTCCC-AAGGCATTTGTGCTAGTGACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
*
20965397 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
*
20965437 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
*
20965476 CGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TC
* *
20965515 CGGGCTAAGTCCCGAAGGCA-TTGTACGA---ACTACTATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TC
*
20965552 CGGGCTAAGT-CCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
20965582 AGCTATATCC
Statistics
Matches: 172, Mismatches: 6, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
36 12 0.07
37 22 0.13
38 15 0.09
39 60 0.35
40 63 0.37
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC
Found at i:20965491 original size:39 final size:39
Alignment explanation
Indices: 20965358--20965581 Score: 296
Period size: 39 Copynumber: 5.8 Consensus size: 39
20965348 CGGATGATAA
* *
20965358 CGGGCTAAGTCCC-AAGGCATTTGTGCTAGTGACTAATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
20965396 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
20965436 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
20965476 CGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
* ** *
20965515 CGGGCTAAGTCCCGAAGGCA-TTGTACGAACTACT-ATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
20965552 CGGGCTAAGT-CCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
20965582 AGCTATATCC
Statistics
Matches: 172, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
36 9 0.05
37 19 0.11
38 15 0.09
39 66 0.38
40 63 0.37
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:20965605 original size:39 final size:39
Alignment explanation
Indices: 20965358--20965607 Score: 295
Period size: 39 Copynumber: 6.5 Consensus size: 39
20965348 CGGATGATAA
*
20965358 CGGGCTAAGTCCC-AAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TC
*
20965397 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TC
*
20965437 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATC
20965476 CGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATC
*
20965515 CGGGCTAAGTCCCGAAGGCA-TTGTACGA--ACTACTATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTA-TATC
*
20965552 CGGGCTAAGT-CCGAAGGCATTTGAGCGAGTAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATC
* *
20965591 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
20965608 TACTTGGTTT
Statistics
Matches: 194, Mismatches: 8, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
36 13 0.07
37 20 0.10
38 21 0.11
39 76 0.39
40 63 0.32
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATC
Found at i:20973470 original size:40 final size:39
Alignment explanation
Indices: 20973415--20973669 Score: 322
Period size: 40 Copynumber: 6.4 Consensus size: 39
20973405 GATGATAACG
*
20973415 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
20973455 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTAATTCC
*
20973495 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
*
20973535 GGGCTAAGTCCCGAAGGCATATGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-TCC
*
20973575 GGGCTAAGTCCCGAAGGCA-TTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTAAT-TCC
*
20973614 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAT-TCC
* *
20973654 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
20973670 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
39 54 0.27
40 144 0.72
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATTCC
Found at i:20975997 original size:9 final size:9
Alignment explanation
Indices: 20975985--20976034 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
20975975 GTTAATACTT
20975985 TAATTCGGG
1 TAATTCGGG
*
20975994 TAATTCGAG
1 TAATTCGGG
* *
20976003 TAATTCAGT
1 TAATTCGGG
*
20976012 TAATTCAGG
1 TAATTCGGG
*
20976021 TAATTCGGT
1 TAATTCGGG
20976030 TAATT
1 TAATT
20976035 TGATTAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:20975997 original size:17 final size:17
Alignment explanation
Indices: 20975961--20975997 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
20975951 GTAGTGATTC
*
20975961 AATACTTTAATTCAGTT
1 AATACTTTAATTCAGGT
*
20975978 AATACTTTAATTCGGGT
1 AATACTTTAATTCAGGT
20975995 AAT
1 AAT
20975998 TCGAGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
AATACTTTAATTCAGGT
Found at i:20976008 original size:18 final size:18
Alignment explanation
Indices: 20975985--20976034 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
20975975 GTTAATACTT
*
20975985 TAATTCGGGTAATTC-GAG
1 TAATTCGGTTAATTCAG-G
*
20976003 TAATTCAGTTAATTCAGG
1 TAATTCGGTTAATTCAGG
20976021 TAATTCGGTTAATT
1 TAATTCGGTTAATT
20976035 TGATTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (18 bp):
TAATTCGGTTAATTCAGG
Found at i:20976042 original size:18 final size:18
Alignment explanation
Indices: 20975985--20976043 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
20975975 GTTAATACTT
* *
20975985 TAATTCGGGTAATTCGAG
1 TAATTCGGTTAATTTGAG
* *
20976003 TAATTCAGTTAA-TTCAGG
1 TAATTCGGTTAATTTGA-G
*
20976021 TAATTCGGTTAATTTGAT
1 TAATTCGGTTAATTTGAG
20976039 TAATT
1 TAATT
20976044 TTTATATGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 27 0.84
19 3 0.09
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (18 bp):
TAATTCGGTTAATTTGAG
Found at i:20977865 original size:41 final size:41
Alignment explanation
Indices: 20977765--20977910 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 41
20977755 TTGACAACAA
* *
20977765 TTAGACTATGTATGGCACTTAGTGTGCGA-TTCAGAATAAC
1 TTAGGCTATGTATGGCACTTAGTGTGCGAGATCAGAATAAC
* * *
20977805 TTCGGCTATATATGGCACTTAGTGTGCGAGATC-GAGATAGC
1 TTAGGCTATGTATGGCACTTAGTGTGCGAGATCAGA-ATAAC
** * * *
20977846 TTAGGCTATGTAAAGCACTTAGTGTGCGAGATTAAAATAGC
1 TTAGGCTATGTATGGCACTTAGTGTGCGAGATCAGAATAAC
20977887 TTCA-GCTATGTATTGGCACTTAGT
1 TT-AGGCTATGTA-TGGCACTTAGT
20977911 TTACGTGATA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 28 0.32
41 49 0.56
42 11 0.12
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (41 bp):
TTAGGCTATGTATGGCACTTAGTGTGCGAGATCAGAATAAC
Found at i:20982832 original size:40 final size:39
Alignment explanation
Indices: 20982788--20982993 Score: 207
Period size: 40 Copynumber: 5.1 Consensus size: 39
20982778 TCAGGACATT
* * *
20982788 GCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTA
1 GCCCGGTT-TAGTAACTCGCACAAATGCCTTCGGGAATTA
* *
20982828 GCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTA
1 GCCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* * * *
20982868 ACCCGGTTTTGGTAACTCGCAGAAATGCCTTCGGGACTTA
1 GCCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* *
20982908 ACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATT-
1 GCCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* * * *
20982947 GACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 G-CCCGG-TTTAGTAAC-TCGCACAAATGCCTTCGGGAATTA
20982989 GCCCG
1 GCCCG
20982994 AACACCATTC
Statistics
Matches: 143, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
40 116 0.81
41 26 0.18
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCCCGGTTTAGTAACTCGCACAAATGCCTTCGGGAATTA
Found at i:20982874 original size:80 final size:79
Alignment explanation
Indices: 20982789--20982993 Score: 239
Period size: 80 Copynumber: 2.5 Consensus size: 79
20982779 CAGGACATTG
* * * *
20982789 CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAAT
1 CCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
*
20982854 GCCTTCGGGACTTAA
65 GCCTTCGGGAATTAA
* * * * * *
20982869 CCCGGTTTTGGTAACTCGCAGAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAAT
1 CCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
*
20982934 GCCTTCGGGAATTGA
65 GCCTTCGGGAATTAA
* * *
20982949 CCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 CCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
20982994 AACACCATTC
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 75 0.73
81 28 0.27
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
CCTTCGGGAATTAA
Found at i:20990986 original size:40 final size:40
Alignment explanation
Indices: 20990902--20991092 Score: 240
Period size: 40 Copynumber: 4.8 Consensus size: 40
20990892 TTATAGTGAT
* * *
20990902 TCGCACAATTGCCTTCGGGAATT-AGCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
20990941 TCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* *
20990981 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
20991021 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
* * *
20991061 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGGACTTAACCCGGA
20991093 CACCATTCGA
Statistics
Matches: 133, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 20 0.15
40 87 0.65
41 26 0.20
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC
Found at i:20993050 original size:27 final size:28
Alignment explanation
Indices: 20992994--20993063 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
20992984 AAATTTGTAC
20992994 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
20993022 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
20993049 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
20993064 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:20997897 original size:35 final size:37
Alignment explanation
Indices: 20997844--20997938 Score: 108
Period size: 37 Copynumber: 2.6 Consensus size: 37
20997834 CTCGCACGAA
*
20997844 TGCCTTCGGGACTT-ACCCGGTTA-ACTCCAGCA-AAT
1 TGCCTTCGGG-CTTAACCCGGATATACTCCAGCACAAT
**
20997879 TGCCTTCGGGCTTAACCCGGATATTTTCCAGCATCAAT
1 TGCCTTCGGGCTTAACCCGGATATACTCCAGCA-CAAT
*
20997917 TG-CTTCGGGCTTAGCCCGGATA
1 TGCCTTCGGGCTTAACCCGGATA
20997939 GTCATTCAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
34 3 0.06
35 18 0.35
36 7 0.13
37 19 0.37
38 5 0.10
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.28
Consensus pattern (37 bp):
TGCCTTCGGGCTTAACCCGGATATACTCCAGCACAAT
Found at i:20998779 original size:17 final size:19
Alignment explanation
Indices: 20998756--20998801 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
20998746 AAGAAGCATG
20998756 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
20998774 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
20998792 AATCATGCTC
1 AATCATGCTC
20998802 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:21002673 original size:7 final size:7
Alignment explanation
Indices: 21002661--21002685 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21002651 GTTGTCTTCT
21002661 TGTTTGA
1 TGTTTGA
21002668 TGTTTGA
1 TGTTTGA
21002675 TGTTTGA
1 TGTTTGA
21002682 TGTT
1 TGTT
21002686 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:21002977 original size:2 final size:2
Alignment explanation
Indices: 21002965--21002996 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
21002955 AGTATAGTTG
21002965 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A
21002997 GTATGCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21009585 original size:40 final size:39
Alignment explanation
Indices: 21009541--21009746 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 39
21009531 TCAGGACATT
* * *
21009541 GCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTA
1 GCCCGGTT-TAGTAACTCGCACAAATGCCTTCGGGAATTA
* *
21009581 GCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTA
1 GCCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* * *
21009621 ACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTA
1 GCCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* *
21009661 ACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATT-
1 GCCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGAATTA
* * * *
21009700 GACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTA
1 G-CCCGG-TTTAGTAAC-TCGCACAAATGCCTTCGGGAATTA
21009742 GCCCG
1 GCCCG
21009747 ACACCATTCG
Statistics
Matches: 145, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
40 118 0.81
41 26 0.18
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (39 bp):
GCCCGGTTTAGTAACTCGCACAAATGCCTTCGGGAATTA
Found at i:21009627 original size:80 final size:79
Alignment explanation
Indices: 21009542--21009746 Score: 248
Period size: 80 Copynumber: 2.5 Consensus size: 79
21009532 CAGGACATTG
* * * *
21009542 CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAAT
1 CCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
*
21009607 GCCTTCGGGACTTAA
65 GCCTTCGGGAATTAA
* * * * *
21009622 CCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAAT
1 CCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAAT
*
21009687 GCCTTCGGGAATTGA
65 GCCTTCGGGAATTAA
* * *
21009702 CCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 CCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
21009747 ACACCATTCG
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
80 76 0.72
81 29 0.28
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
CCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
CCTTCGGGAATTAA
Found at i:21017692 original size:40 final size:39
Alignment explanation
Indices: 21017648--21017864 Score: 231
Period size: 40 Copynumber: 5.4 Consensus size: 39
21017638 CGTCGATTGT
* * *
21017648 CTTCGGGACATT-GCCCGGTTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGTT-TAGTAACTCGCACAAATGC
* * *
21017688 CTTCGGGAATTAGCCCGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
* *
21017727 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* *
21017767 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
21017807 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
21017848 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
21017865 ACACCATTCG
Statistics
Matches: 153, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.21
40 96 0.63
41 24 0.16
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:21017823 original size:80 final size:80
Alignment explanation
Indices: 21017648--21017864 Score: 258
Period size: 79 Copynumber: 2.7 Consensus size: 80
21017638 CGTCGATTGT
* * * * *
21017648 CTTCGGGACATTG-CCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCC-GATTTAG
1 CTTCGGGA-ATTGACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
*
21017711 TAACTCGCACGAATGC
65 TAACTCGCACAAATGC
* * * * * *
21017727 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGAATTGACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
21017792 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* * * *
21017807 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 CTTCGGGAATTGACCCGGTTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
21017865 ACACCATTCG
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 2 0.02
79 44 0.38
80 43 0.37
81 26 0.23
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
CTTCGGGAATTGACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
AACTCGCACAAATGC
Found at i:21027993 original size:27 final size:27
Alignment explanation
Indices: 21027963--21028252 Score: 373
Period size: 27 Copynumber: 10.7 Consensus size: 27
21027953 ACTAAAGTAA
21027963 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
21027990 CCTCGATTTATAAAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
21028017 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
21028044 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
21028071 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
21028098 CCTCGATTTACAGAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
21028125 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
21028152 CCTCGACTTACAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
21028179 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * * ***
21028206 CCTTGATTTACAAAATTACTGAAATAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
21028233 CCTTGATTTACAAAATTACC
1 CCTCGATTTACAGAATTACC
21028253 AAAATACCCT
Statistics
Matches: 236, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 236 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:21028257 original size:27 final size:27
Alignment explanation
Indices: 21028176--21028453 Score: 256
Period size: 27 Copynumber: 10.3 Consensus size: 27
21028166 ATTACTGTTT
* * * ***
21028176 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTTGATTTATAAAATTACCAAAA
* **
21028203 TACCCTTGATTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
*
21028230 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
21028257 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAA
* * * *
21028284 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
21028311 TACCCCT-AGTTTGTAAAATTACTAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
21028338 TACCCTT-AGTTTATAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* * *
21028365 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
21028392 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * * *
21028419 TACCCCTGATTTGTGAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
21028446 TACCCTTG
1 TACCCTTG
21028454 TAGGGTAGAA
Statistics
Matches: 212, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 209 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:21028261 original size:81 final size:80
Alignment explanation
Indices: 21027987--21028423 Score: 250
Period size: 81 Copynumber: 5.4 Consensus size: 80
21027977 ATTACCGTTT
* **** * *
21027987 TACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTTGATT
* ***
21028052 TATAGAATTACCATTT
66 TATAAAATTA-CAAAA
* * ***** * * * *
21028068 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTTGATT
* ***
21028133 TATAGAATTACCATTT
66 TATAAAATTA-CAAAA
* * ***** *
21028149 TACCCTCGACTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTTGATT
* *
21028214 TACAAAATTACTGAAA
66 TATAAAATTAC-AAAA
* * * *** * *
21028230 TACCCTTGATTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAATACCCCTGGT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTA-CAAAATTACCATTTTACCCTTGAT
*
21028294 TTGTAAAATTACTAAAA
65 TTATAAAATTAC-AAAA
* ** * * * *** * *
21028311 TACCC-CTAGTTTGTAAAATTACTAAAATACCCT-TAGTTTATAAAATTACCAAAATACCCCTGG
1 TACCCTCGA-TTTACAAAATTACCAAAATACCCTCGA-TTTACAAAATTACCATTTTACCCTTGA
*
21028374 TTTGTAAAATTACCAAAA
64 TTTATAAAATTA-CAAAA
* *
21028392 TACCCTTGGTTTACAAAATTACCAAAATACCC
1 TACCCTCGATTTACAAAATTACCAAAATACCC
21028424 CTGATTTGTG
Statistics
Matches: 300, Mismatches: 49, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
80 5 0.02
81 292 0.97
82 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACCATTTTACCCTTGATT
TATAAAATTACAAAA
Found at i:21028438 original size:81 final size:80
Alignment explanation
Indices: 21028217--21028450 Score: 315
Period size: 81 Copynumber: 2.9 Consensus size: 80
21028207 CTTGATTTAC
* * **
21028217 AAAATTACTGAAATACCCTTGATTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCT-GATTTGTAAAATTACCAA
21028282 AATACCCCTGGTTTGT
65 AATACCCCTGGTTTGT
* * ** * * *
21028298 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTGA-TTTGTAAAATTACCAA
21028363 AATACCCCTGGTTTGT
65 AATACCCCTGGTTTGT
* * *
21028379 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAA
1 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTGATTTGTAAAATTACCAA
21028444 AATACCC
65 AATACCC
21028451 TTGTAGGGTA
Statistics
Matches: 130, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 124 0.95
82 5 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTGATTTGTAAAATTACCAAA
ATACCCCTGGTTTGT
Found at i:21028473 original size:27 final size:27
Alignment explanation
Indices: 21028443--21028495 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
21028433 GAAATTACTA
*
21028443 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAAATACCG
*
21028470 AAATACCCCTGTAGGGTAGAATTACC
1 AAATACCCCTGTAGGGTAGAAATACC
21028496 ATTTTGCCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAAATACCG
Found at i:21028480 original size:54 final size:56
Alignment explanation
Indices: 21028185--21028456 Score: 285
Period size: 54 Copynumber: 5.0 Consensus size: 56
21028175 TTACCCTCGA
* *** * ** *
21028185 TTTACAGAATTACCATTTTACCCTTGATTTACAAAATTACTGAAATACCCTTG-A-
1 TTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGTAG
** * *
21028239 TTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCAAAATACCCCTG--G
1 TTTACAAAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCTTGTAG
** *
21028293 TTTGTAAAATTACTAAAATACCCCT-AGTTTGTAAAATTACTAAAATACCC-T-TAG
1 TTTACAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCTTGTAG
* * *
21028347 TTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG--G
1 TTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGTAG
*
21028401 TTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTTGTAG
1 TTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGTAG
21028457 GGTAGAAATA
Statistics
Matches: 181, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
53 5 0.03
54 170 0.94
55 5 0.03
56 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (56 bp):
TTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGTAG
Found at i:21028734 original size:25 final size:25
Alignment explanation
Indices: 21028700--21028769 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
21028690 AGGAAGTGCT
**
21028700 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
21028725 AAAAGGGCTTTGCCCTAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
21028750 AAAAGGGCTTTTCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
21028770 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:21029890 original size:2 final size:2
Alignment explanation
Indices: 21029878--21029912 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
21029868 TCACATTTCC
21029878 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21029913 CATTAAACCG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21030690 original size:43 final size:43
Alignment explanation
Indices: 21030544--21030692 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 43
21030534 ATATCGTACA
** *
21030544 ATGCCAACGTCCCAGATGTGGTCTTACAT-GAAATCACATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
* * * *
21030587 ATGCC-ACTGTCTCAGATAGGGTCTTACACG-AATCACA-ATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACTCGAAATCACATA-T-CG
* * * *
21030630 ATGTCGATGTCCTAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
21030673 ATGCCAACGTCCCAGACATG
1 ATGCCAACGTCCCAGACATG
21030693 ATTTTACACA
Statistics
Matches: 83, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
42 10 0.12
43 63 0.76
44 9 0.11
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
Found at i:21034036 original size:3 final size:3
Alignment explanation
Indices: 21034028--21034313 Score: 83
Period size: 3 Copynumber: 95.3 Consensus size: 3
21034018 TCAACCCCTA
* *
21034028 TAT TAT TAT TAT TAT ATAT ATAT T-T TA- TAT TGT TAT T-T GTTT TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * ** * *
21034073 TTT TAA CCT TAT TTT TA- TAT TAT ATAT TA- TAT AAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* *
21034116 TAT ATAT TAT T-T ATAT TAT TAT TAT T-T T-T TAT ATAT TAT TTT TCACA
1 TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-A-T
* *
21034163 AAT TAT TAT TAT T-T TA- CAT TAT TATT TAT ATAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT
21034207 TA- TAT GT-T TAT TAAT TA- TAT ATAT TAT ATAT TACT T-T T-T TAT
1 TAT TAT -TAT TAT T-AT TAT TAT -TAT TAT -TAT TA-T TAT TAT TAT
* * * *
21034249 ATAT ATAC TCT TA- TAT TAT ATGT TAT AAT TAT T-T TA- TAT TAT TAT
1 -TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
21034294 GTCAT TTT TA- TAT TAT TAT T
1 -T-AT TAT TAT TAT TAT TAT T
21034314 GTAACGCCCC
Statistics
Matches: 212, Mismatches: 33, Indels: 76
0.66 0.10 0.24
Matches are distributed among these distances:
2 38 0.18
3 125 0.59
4 47 0.22
5 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:21034119 original size:14 final size:15
Alignment explanation
Indices: 21034026--21034291 Score: 121
Period size: 16 Copynumber: 17.6 Consensus size: 15
21034016 AATCAACCCC
21034026 TATATTATTATTATTA
1 TATATTATT-TTATTA
21034042 TATATATATTTTA-TA
1 TATAT-TATTTTATTA
* *
21034057 T-TGTTATTTGTTTTA
1 TATATTATTT-TATTA
* ** *
21034072 T-TTTTAACCTTATTTT
1 TATATT-ATTTTA-TTA
*
21034088 TATATTA-TATATTA
1 TATATTATTTTATTA
21034102 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
21034118 TATATTATTTATATTA
1 TATATTATTT-TATTA
21034134 T-TATTATTTT-TTA
1 TATATTATTTTATTA
*
21034147 TATATTATTTT-TCA
1 TATATTATTTTATTA
* * *
21034161 CAAATTATTATTATTT
1 TATATTATT-TTATTA
* *
21034177 TACATTATTAT-TTA
1 TATATTATTTTATTA
21034191 TATATTA--TTATTA
1 TATATTATTTTATTA
21034204 TAT-TATATGTTTA-T-
1 TATAT-TAT-TTTATTA
*
21034218 TA-ATTATATATATTA
1 TATATTAT-TTTATTA
21034233 TATATTACTTTT-TTA
1 TATATTA-TTTTATTA
21034248 TATATATACTCTTATATTA
1 TATAT-TA-T-TT-TATTA
* * *
21034267 TATGTTATAATTATTT
1 TATATTAT-TTTATTA
21034283 TATATTATT
1 TATATTATT
21034292 ATGTCATTTT
Statistics
Matches: 192, Mismatches: 32, Indels: 53
0.69 0.12 0.19
Matches are distributed among these distances:
12 2 0.01
13 23 0.12
14 39 0.20
15 45 0.23
16 61 0.32
17 12 0.06
18 3 0.02
19 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:21034123 original size:30 final size:30
Alignment explanation
Indices: 21034088--21034239 Score: 103
Period size: 30 Copynumber: 5.2 Consensus size: 30
21034078 ACCTTATTTT
21034088 TATATTATATATTATATAATTATTTTATTA
1 TATATTATATATTATATAATTATTTTATTA
21034118 TATATTATTTATATTAT-T-ATTATTTT-TTA
1 TATATTA--TATATTATATAATTATTTTATTA
* * *
21034147 TATATTAT-TTTTCACA-AATTATTATTATTT
1 TATATTATATATT-ATATAATTATT-TTATTA
*
21034177 TACATTAT-TATT-TAT-A-TA--TTATTA
1 TATATTATATATTATATAATTATTTTATTA
* *
21034201 TTATATTATATGTT-TATTAATTATATATATTA
1 -TATATTATATATTATA-TAATTAT-TTTATTA
21034233 TATATTA
1 TATATTA
21034240 CTTTTTTATA
Statistics
Matches: 96, Mismatches: 10, Indels: 31
0.70 0.07 0.23
Matches are distributed among these distances:
24 5 0.05
25 7 0.07
26 8 0.08
27 5 0.05
28 9 0.09
29 14 0.15
30 27 0.28
31 8 0.08
32 13 0.14
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (30 bp):
TATATTATATATTATATAATTATTTTATTA
Found at i:21035977 original size:40 final size:39
Alignment explanation
Indices: 21035923--21036089 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 39
21035913 AGCCCGATTC
* *
21035923 TTAG-CACTAGCTCAAAAGCCCTTCGAACCGAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAACCAAGCTCGGA
* *
21035961 TTAGACCACTGGCTCAAAGGCCCTTCGGAACTAAG-TCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTC-GAACCAAGCT-CGGA
* * *
21036001 TTATGACACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCG-AACCAAGCTCGG--A
*
21036044 TTAG-TACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGA-ACCAAGCTCGGA
21036083 TTTAGAC
1 -TTAGAC
21036090 CTCGATTAGC
Statistics
Matches: 105, Mismatches: 11, Indels: 23
0.76 0.08 0.17
Matches are distributed among these distances:
38 4 0.04
39 2 0.02
40 55 0.52
41 40 0.38
42 1 0.01
43 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAACCAAGCTCGGA
Found at i:21044117 original size:41 final size:41
Alignment explanation
Indices: 21044072--21044236 Score: 129
Period size: 41 Copynumber: 4.0 Consensus size: 41
21044062 CCTTCGGAAT
* * *
21044072 CAAGCCCGATTCTTAGCACTGGCTCAAAAACCCTTCGAGAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
* * * *
21044113 CAAGCTCGGATTA-GACCGCTGGCTCAAAGGCCCTTCG-GAAC
1 CAAGC-CCGATTATGAGCACTGGCTCAAAAGCCCTTCGAG-AC
* * * * *
21044154 TAAGTCCGGTTATGA-CACTGGCTCTAAAGCCCTTCGAAAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
* ** * * *
21044194 TAAGTTCGGTTATTAGTACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
21044235 CA
1 CA
21044237 TGCTCGGATT
Statistics
Matches: 98, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
40 39 0.40
41 54 0.55
42 5 0.05
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (41 bp):
CAAGCCCGATTATGAGCACTGGCTCAAAAGCCCTTCGAGAC
Found at i:21044186 original size:40 final size:40
Alignment explanation
Indices: 21044086--21044231 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 40
21044076 CCCGATTCTT
* * *
21044086 AGCACTGGCTCAAAAACCCTTCGAGACCAAG-CTCGGATTA-G
1 AGCACTGGCTC-AAAGCCCTTCGAAACTAAGTC-CGG-TTATG
* * *
21044127 ACCGCTGGCTCAAAGGCCCTTCGGAACTAAGTCCGGTTATG
1 AGCACTGGCTCAAA-GCCCTTCGAAACTAAGTCCGGTTATG
* *
21044168 A-CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTATT
1 AGCACTGGCTC-AAAGCCCTTCGAAACTAAGTCCGGTTATG
*
21044208 AGTACTGGCTCAAAAGCCCTTCGA
1 AGCACTGGCTC-AAAGCCCTTCGA
21044232 GACCATGCTC
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
40 38 0.43
41 49 0.56
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
AGCACTGGCTCAAAGCCCTTCGAAACTAAGTCCGGTTATG
Found at i:21047617 original size:15 final size:16
Alignment explanation
Indices: 21047591--21047625 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
21047581 CCTCAAACTT
21047591 TAGAACCAACCTCATA
1 TAGAACCAACCTCATA
21047607 TAGAA-CAACCTCATA
1 TAGAACCAACCTCATA
21047622 TAGA
1 TAGA
21047626 GTTAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (16 bp):
TAGAACCAACCTCATA
Found at i:21049931 original size:15 final size:15
Alignment explanation
Indices: 21049895--21049944 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
21049885 CGATATCCTT
21049895 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
21049909 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
21049925 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
21049938 TTTGCAT
1 TTTGCAT
21049945 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:21057364 original size:12 final size:12
Alignment explanation
Indices: 21057347--21057379 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
21057337 AGGATCTAAC
21057347 TTCTATCTTGTT
1 TTCTATCTTGTT
21057359 TTCTATCTTGTT
1 TTCTATCTTGTT
*
21057371 TGCTATCTT
1 TTCTATCTT
21057380 TAGATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.64
Consensus pattern (12 bp):
TTCTATCTTGTT
Found at i:21058371 original size:205 final size:205
Alignment explanation
Indices: 21058018--21058499 Score: 712
Period size: 205 Copynumber: 2.3 Consensus size: 205
21058008 AGATCTGGCA
21058018 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATCCTTGTGCTTACAAGGAACAAA
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTTGTGCTTACAAGGAACAAA
* * * *
21058083 TCAAAGACATAGCTGATTTGGCTTTCATGTGTTTACAATGAAGCAAATCTAAGATGATTTATCAT
65 TCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATTTAGCAT
* *
21058148 CTCTGTATTGTCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGGGAGCAGATACATAG
130 CTCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACATAG
*
21058213 TAGATCCCACC
195 CAGATCCCACC
* * * * *
21058224 TTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTAGCATCCTTGTGCCTACATGGAGCAAAT
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
* ** *
21058289 CGAAGACATGGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATC
66 CGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATTTAGCATC
* * * **
21058354 TCTGTATTATCAGAGAACGAATCGAAGTCTAGCTTCTTCACTTTGATGGAGAGCAGATACATAGC
131 TCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACATAGC
*
21058419 AGATCTCACC
196 AGATCCCACC
* * * * *
21058429 TTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGTGTTTACAAGGAACAAAT
1 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
21058494 CGAAGA
66 CGAAGA
21058500 AGCAGATTTG
Statistics
Matches: 244, Mismatches: 32, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
205 208 0.85
206 36 0.15
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAAT
CGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATTTAGCATC
TCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACATAGC
AGATCCCACC
Found at i:21060198 original size:3 final size:3
Alignment explanation
Indices: 21060190--21060400 Score: 74
Period size: 3 Copynumber: 69.7 Consensus size: 3
21060180 TATATATTTA
* * *
21060190 TAT TAT TAT TAT T-T T-T TAT ATAT TAT TTT TCACA AAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT T-A-T TAT TAT TAT TAT
*
21060236 T-T TA- CAT TAT TAT T-T ATAT TAT TAT TA- TAT TA- TAT GT-T TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* *
21060277 TAAT TA- TAT ATAT TAT ATAT TACT T-T T-T TAT ATAT ATAC TCT TA-
1 T-AT TAT TAT -TAT TAT -TAT TA-T TAT TAT TAT -TAT -TAT TAT TAT
* *
21060321 TAT TAT ATAT TAT AAT TAT T-T TA- TAT TAT TAT GTCAT TTT TA- TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT
* *
21060366 TAT TAT ATAT TTT TAT CTAT ATAT TAT TAT CAT TA
1 TAT TAT -TAT TAT TAT -TAT -TAT TAT TAT TAT TA
21060401 AAGGTTTTAA
Statistics
Matches: 159, Mismatches: 21, Indels: 56
0.67 0.09 0.24
Matches are distributed among these distances:
2 27 0.17
3 93 0.58
4 37 0.23
5 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:21060256 original size:28 final size:27
Alignment explanation
Indices: 21060155--21060263 Score: 78
Period size: 28 Copynumber: 3.7 Consensus size: 27
21060145 CTTATTTTTA
21060155 TATTATATATTATATAATTA-TTTCA-TAT
1 TATT-TATATTAT-T-ATTATTTTCATTAT
*
21060183 ATATTTATATTATTATTATTTTTTATATAT
1 -TATTTATATTATTATTA-TTTTCAT-TAT
*
21060213 TATTTTTCACAAATTATTATTATTTTACATTAT
1 TA--TTT---ATATTATTATTATTTT-CATTAT
21060246 TATTTATATTATTATTAT
1 TATTTATATTATTATTAT
21060264 ATTATATGTT
Statistics
Matches: 66, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
26 4 0.06
27 1 0.02
28 24 0.36
29 6 0.09
30 3 0.05
31 6 0.09
33 9 0.14
34 13 0.20
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (27 bp):
TATTTATATTATTATTATTTTCATTAT
Found at i:21060332 original size:101 final size:100
Alignment explanation
Indices: 21060146--21060400 Score: 219
Period size: 104 Copynumber: 2.6 Consensus size: 100
21060136 ATTTTTAACC
*
21060146 TTATT-TTTATATTATATATTATATAATTATTTCATATATATTTATATTATTATTATTTTTTATA
1 TTATTATTTATATTATATATTATATAATTATTTCATATATATATATATTATTATTATTTTTTATA
* *
21060210 TATTATTTTTCACAAATTA-T-T-ATTATTTTACA
66 TATTACTCTTCACAAATTATTATAATTATTTTACA
* *
21060242 TTATTATTTATATTAT-TATTATATTA-TATGTTTAT-TAATTATATATATTATATATTACTTTT
1 TTATTATTTATATTATATATTATATAATTAT-TTCATAT-A-TATATATATTAT-TATTA-TTTT
* * *
21060304 TTATATATATACTCTT-ATATTATATATTATAATTATTTTATA
61 TTATATAT-TACTCTTCACA-AAT-TATTATAATTATTTTACA
* * * *
21060346 TTATTATGTCAT-TTTTATATTATTATATATT-TTT-ATCTATATAT-TATTATCATTA
1 TTATTAT-TTATATTATATATTA-TATA-ATTATTTCATATATATATATATTATTATTA
21060401 AAGGTTTTAA
Statistics
Matches: 129, Mismatches: 12, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
95 4 0.03
96 19 0.15
97 21 0.16
98 5 0.04
99 14 0.11
100 7 0.05
101 2 0.02
102 5 0.04
103 7 0.05
104 25 0.19
105 11 0.09
106 6 0.05
107 2 0.02
108 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (100 bp):
TTATTATTTATATTATATATTATATAATTATTTCATATATATATATATTATTATTATTTTTTATA
TATTACTCTTCACAAATTATTATAATTATTTTACA
Found at i:21060365 original size:76 final size:75
Alignment explanation
Indices: 21060246--21060389 Score: 170
Period size: 76 Copynumber: 1.9 Consensus size: 75
21060236 TTTACATTAT
*
21060246 TATTTATATTATTATTATATTATATGTTTATTAATTATATATATTA-TATATTACTTTTT-TATA
1 TATTTATATTATAATTATATTATATGTTTATTAATTATATATATTATTATA-TA-TTTTTATATA
21060309 TATATACTCTTA
64 TATATACTCTTA
* * * *
21060321 TATTATATATTATAATTATTTTATAT-TATTATGTCATT-TTTATATTATTATATATTTTTATCT
1 TATT-TATATTATAATTATATTATATGT-TTAT-TAATTATATATATTATTATATATTTTTATAT
21060384 ATATAT
63 ATATAT
21060390 TATTATCATT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
75 10 0.17
76 41 0.69
77 8 0.14
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (75 bp):
TATTTATATTATAATTATATTATATGTTTATTAATTATATATATTATTATATATTTTTATATATA
TATACTCTTA
Found at i:21060388 original size:14 final size:14
Alignment explanation
Indices: 21060153--21060396 Score: 57
Period size: 13 Copynumber: 17.9 Consensus size: 14
21060143 ACCTTATTTT
21060153 TATATTATATAT-TA
1 TATATTAT-TATCTA
21060167 TATAATTATT-TCATA
1 TAT-ATTATTATC-TA
21060182 TATATT-TATAT-TA
1 TATATTAT-TATCTA
* *
21060195 T-TATTATTTTTTA
1 TATATTATTATCTA
* *
21060208 TATATTATTTTTCACA
1 TATATTA-TTATC-TA
* *
21060224 AATTATTATTAT-TT
1 TA-TATTATTATCTA
* *
21060238 TACATTATTATTTA
1 TATATTATTATCTA
*
21060252 TATTATTATTATAT-
1 TA-TATTATTATCTA
21060266 TATATGT-TTAT-TA
1 TATAT-TATTATCTA
21060279 -AT-TATATATAT-TA
1 TATAT-TAT-TATCTA
* *
21060292 TATATTACTTTTTTA
1 TATATTA-TTATCTA
21060307 TATA-TA-TACTCT-
1 TATATTATTA-TCTA
21060319 TATATTATATAT-TA
1 TATATTAT-TATCTA
21060333 TA-ATTATT-T-TA
1 TATATTATTATCTA
21060344 TATTATTATGTCAT-T-
1 TA-TATTAT-T-ATCTA
*
21060359 TTTA-TATTAT-TA
1 TATATTATTATCTA
*
21060371 TATATTTTTATCTA
1 TATATTATTATCTA
21060385 TATATTATTATC
1 TATATTATTATC
21060397 ATTAAAGGTT
Statistics
Matches: 176, Mismatches: 20, Indels: 68
0.67 0.08 0.26
Matches are distributed among these distances:
11 10 0.06
12 20 0.11
13 52 0.30
14 47 0.27
15 35 0.20
16 7 0.04
17 5 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (14 bp):
TATATTATTATCTA
Found at i:21062503 original size:41 final size:40
Alignment explanation
Indices: 21062427--21062561 Score: 146
Period size: 41 Copynumber: 3.3 Consensus size: 40
21062417 TTTTAGTAAA
** *
21062427 AAAACGCCGCTAAAAATAGAACATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAACCAGAGCATTAGCGGCGCTTTCGGT
* * *
21062467 AAAACGCCGCTAAATACCAGAGCATTAGCGGTGCTTTTGAT
1 AAAACGCCGCTAAA-ACCAGAGCATTAGCGGCGCTTTCGGT
* * *
21062508 AAAACACCGCTAAAGACCATAGCATTAGCGGCGCATTCGG-
1 AAAACGCCGCTAAA-ACCAGAGCATTAGCGGCGCTTTCGGT
*
21062548 AAAAGCGTCGCTAA
1 AAAA-CGCCGCTAA
21062562 TGCCGCTAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 18 0.23
41 60 0.77
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAACCAGAGCATTAGCGGCGCTTTCGGT
Found at i:21062918 original size:27 final size:28
Alignment explanation
Indices: 21062873--21062929 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
21062863 AATTATGGGT
* *
21062873 TTAGGGATTATGATTTAAGGTTTAGGGG
1 TTAGGGATTATGATTTAAGGTGTAAGGG
21062901 TTAGGG-TTA-GAGTTTAAGGTGTAAGGG
1 TTAGGGATTATGA-TTTAAGGTGTAAGGG
21062928 TT
1 TT
21062930 TGGGGTTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 2 0.08
27 18 0.69
28 6 0.23
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.39
Consensus pattern (28 bp):
TTAGGGATTATGATTTAAGGTGTAAGGG
Found at i:21063033 original size:2 final size:2
Alignment explanation
Indices: 21063026--21063053 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21063016 GTCCCTTGTA
21063026 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21063054 TTAGGGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21063879 original size:80 final size:80
Alignment explanation
Indices: 21063746--21063893 Score: 235
Period size: 80 Copynumber: 1.9 Consensus size: 80
21063736 GGCGTTTATT
* *
21063746 AAAAATGCCGAAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGGATATTTAGGAGA
1 AAAAAAGCCGAAAAAACAAAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGGATATTTAGGAGA
21063811 GTAGCGGCATTTTTG
66 GTAGCGGCATTTTTG
* * *
21063826 AAAAAAGCCGCAAAAAA-AAAGCAGTTTAACGAAAACGGCGTCGTTTTTATTGGATTTTTAGGGG
1 AAAAAAGCCG-AAAAAACAAAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGGATATTTAGGAG
21063890 AGTA
65 AGTA
21063894 CCGGTGTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
80 56 0.90
81 6 0.10
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (80 bp):
AAAAAAGCCGAAAAAACAAAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGGATATTTAGGAGA
GTAGCGGCATTTTTG
Found at i:21064891 original size:76 final size:77
Alignment explanation
Indices: 21064799--21064969 Score: 254
Period size: 76 Copynumber: 2.2 Consensus size: 77
21064789 AAGGGATTAG
* ** *
21064799 AAAAAACGCCGTAAAAAATTAAAATAGTAAACGGCATCATTTTTAATGGATATTTAGGGGATTAG
1 AAAAAACGCCGAAAAAAATTAAAATAGTAAACAACAGCATTTTTAATGGATATTTAGGGGATTAG
21064864 CGGCG-TTTTTA
66 CGGCGTTTTTTA
* * *
21064875 AAAAAATGCCGCAAAAAATTAAAATAGTAAACAACAGCGTTTTTAATGGATATTTAGGGGATTAG
1 AAAAAACGCCGAAAAAAATTAAAATAGTAAACAACAGCATTTTTAATGGATATTTAGGGGATTAG
* *
21064940 CGTCGTTTTTTT
66 CGGCGTTTTTTA
21064952 AAAAAACGCCGAAAAAAA
1 AAAAAACGCCGAAAAAAA
21064970 CATAATTATT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
76 63 0.75
77 21 0.25
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (77 bp):
AAAAAACGCCGAAAAAAATTAAAATAGTAAACAACAGCATTTTTAATGGATATTTAGGGGATTAG
CGGCGTTTTTTA
Found at i:21065502 original size:22 final size:22
Alignment explanation
Indices: 21065474--21065516 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
21065464 ATTAATGTTT
*
21065474 TGTTAGCTTTGTGATTATTGCG
1 TGTTAGCTTCGTGATTATTGCG
21065496 TGTTAGCTTCGTGATTATTGC
1 TGTTAGCTTCGTGATTATTGC
21065517 TTGATCTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.12, G:0.26, T:0.49
Consensus pattern (22 bp):
TGTTAGCTTCGTGATTATTGCG
Found at i:21068904 original size:40 final size:40
Alignment explanation
Indices: 21068796--21068905 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
21068786 ATTGAATGAT
* * * * *
21068796 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
21068836 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
21068876 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
21068906 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:21068920 original size:40 final size:39
Alignment explanation
Indices: 21068796--21068945 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
21068786 ATTGAATGAT
* * * * * * *
21068796 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
21068836 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
21068876 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
21068916 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
21068946 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:21076956 original size:40 final size:40
Alignment explanation
Indices: 21076851--21076956 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 40
21076841 TGAATGATAT
* * * * * *
21076851 CGGGCTAAGTCCCGAAGACATTTATACTGGTAATTACATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTACATC
* * *
21076891 CGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGACTACATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTACATC
21076930 CGGGCTAAGACCCGAAGGCATTTGTGC
1 CGGGCTAAGACCCGAAGGCATTTGTGC
21076957 AAATTGTGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 31 0.57
40 23 0.43
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTACATC
Found at i:21079169 original size:241 final size:241
Alignment explanation
Indices: 21078742--21079228 Score: 888
Period size: 241 Copynumber: 2.0 Consensus size: 241
21078732 ATGAATTAAT
21078742 TTTATTACAATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACAATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
21078807 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
21078872 CTGTAAGATAAAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAACAAATTC
131 CTGTAAGATAAAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATTC
*
21078937 AAAAAGACTT-GAAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTAG-AAAAAGTTCTATCAATCTCATTTACTATTGAATA
*
21078983 TTTATTACCATGTAGCTTGCTTGT-TCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCT
1 TTTATTACAATGTAGCTTGCTTGTCT-ATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCT
21079047 TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
65 TATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
* *
21079112 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
130 GCTGTAAGATAAAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATT
21079177 CAAAAAGACTTAGAAAAAGTTCTATCAATCTCATTTACTATTGAATA
195 CAAAAAGACTTAGAAAAAGTTCTATCAATCTCATTTACTATTGAATA
21079224 TTTAT
1 TTTAT
21079229 ATAACCTTAA
Statistics
Matches: 238, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
240 1 0.00
241 236 0.99
242 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (241 bp):
TTTATTACAATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATAAAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATTC
AAAAAGACTTAGAAAAAGTTCTATCAATCTCATTTACTATTGAATA
Found at i:21079431 original size:9 final size:9
Alignment explanation
Indices: 21079408--21079573 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
21079398 ATTGATCATT
*
21079408 ACTTAAATA
1 ACTTACATA
*
21079417 AATTACATA
1 ACTTACATA
21079426 ACTTACATA
1 ACTTACATA
* *
21079435 ACTCATATA
1 ACTTACATA
21079444 ACTTACATA
1 ACTTACATA
*
21079453 ATTTACATAACA
1 ACTTACAT---A
21079465 ACTTACATA
1 ACTTACATA
*
21079474 ACTCACATA
1 ACTTACATA
21079483 ACTTACATA
1 ACTTACATA
21079492 A-TTACATAACA
1 ACTTACAT---A
21079503 ACTTACATA
1 ACTTACATA
*
21079512 ACTCACATA
1 ACTTACATA
*
21079521 AATTACATA
1 ACTTACATA
*
21079530 ATTTACATA
1 ACTTACATA
*
21079539 ACTCACATA
1 ACTTACATA
*
21079548 ACGTACATAACA
1 ACTTACAT---A
21079560 ACTTACATA
1 ACTTACATA
21079569 ACTTA
1 ACTTA
21079574 ACTAATACAT
Statistics
Matches: 127, Mismatches: 20, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.05
9 97 0.76
11 2 0.02
12 22 0.17
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:21079477 original size:39 final size:39
Alignment explanation
Indices: 21079425--21079540 Score: 207
Period size: 38 Copynumber: 3.0 Consensus size: 39
21079415 TAAATTACAT
*
21079425 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
21079464 AACTTACATAACTCACATAACTTACATAA-TTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
21079502 AACTTACATAACTCACATAAATTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
21079541 TCACATAACG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
38 37 0.50
39 37 0.50
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:21085935 original size:20 final size:20
Alignment explanation
Indices: 21085889--21085935 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
21085879 TTTTATTAAG
* *
21085889 TTTTAATTTTATAAAATATT
1 TTTTTATTTTATAAAATATA
*
21085909 TTTTTATTTTTTAAAATATA
1 TTTTTATTTTATAAAATATA
21085929 TTTTTAT
1 TTTTTAT
21085936 GTACTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTATTTTATAAAATATA
Found at i:21091492 original size:47 final size:45
Alignment explanation
Indices: 21091253--21091493 Score: 123
Period size: 47 Copynumber: 5.1 Consensus size: 45
21091243 TTACCGCTGC
* * *
21091253 CATGTCCCAGACATGGTCTTACACTGGCTATCTC-CATCGAGACCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-A-CTCACCTCTAG-CCGATG
* *** * *
21091301 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATATGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCACCTCTA---GCCGATG
* * ** *
21091351 CATGTCTCAGGCATGTCTTACACTAG-ACGAAACT-TAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTAGCCGATG
* * * ** *
21091394 CATGTCTCAGACACGTCTTACACTAGCTAACATCA--TCAAGGTTGGTG
1 CATGTCCCAGACATGTCTTACACTAGC--AC-TCACCTCTA-GCCGATG
*
21091441 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTA-GCCGATG
21091487 CCATGTC
1 -CATGTC
21091494 TTAAACGTGG
Statistics
Matches: 147, Mismatches: 32, Indels: 28
0.71 0.15 0.14
Matches are distributed among these distances:
43 30 0.20
44 3 0.02
45 3 0.02
46 12 0.08
47 40 0.27
48 14 0.10
49 39 0.27
50 5 0.03
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTAGCCGATG
Found at i:21091849 original size:18 final size:18
Alignment explanation
Indices: 21091826--21091863 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21091816 TTGACTAGTC
21091826 GGCTTAATCAAATTGCTT
1 GGCTTAATCAAATTGCTT
* *
21091844 GGCTTAATTAGATTGCTT
1 GGCTTAATCAAATTGCTT
21091862 GG
1 GG
21091864 TTTTGCCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (18 bp):
GGCTTAATCAAATTGCTT
Found at i:21092719 original size:15 final size:15
Alignment explanation
Indices: 21092699--21092730 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21092689 GCAATCGGGC
21092699 TTGAAAATATTAAAA
1 TTGAAAATATTAAAA
21092714 TTGAAAATATTAAAA
1 TTGAAAATATTAAAA
21092729 TT
1 TT
21092731 AGCTCACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
TTGAAAATATTAAAA
Found at i:21098143 original size:46 final size:46
Alignment explanation
Indices: 21097968--21098143 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
21097958 TGTAACCCGC
* *
21097968 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * * *
21098014 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
21098064 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
21098107 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
21098144 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.28
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:21098143 original size:93 final size:93
Alignment explanation
Indices: 21097975--21098146 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
21097965 CGCCCATAAG
* * *
21097975 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
21098040 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
*
21098068 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
21098133 ATGAGCTCGGATGC
66 ACGAGCTCGGATGC
21098147 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:21098162 original size:46 final size:45
Alignment explanation
Indices: 21097976--21098162 Score: 116
Period size: 46 Copynumber: 4.0 Consensus size: 45
21097966 GCCCATAAGC
** * *
21097976 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCAT-C-TA-GT
* * *
21098022 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATCT-AGT
* * * * *
21098069 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCTAGT
*
21098115 GAACTCGGACTCAACTCAATGAGCTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCAT-CTAGT
21098161 GA
1 GA
21098163 CATATCACTT
Statistics
Matches: 111, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 59 0.53
47 31 0.28
48 1 0.01
49 5 0.05
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCTAGT
Found at i:21106052 original size:21 final size:21
Alignment explanation
Indices: 21106002--21106059 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
21105992 CGTATGAAAG
* * *
21106002 AAGGCACACGACCATGTGGCC
1 AAGGCACATGCCCATGTGACC
21106023 AAGGCACATGCCCATGTGACC
1 AAGGCACATGCCCATGTGACC
* * *
21106044 TAGGGACATGGCCATG
1 AAGGCACATGCCCATG
21106060 CGATCCGACC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.14
Consensus pattern (21 bp):
AAGGCACATGCCCATGTGACC
Found at i:21107953 original size:30 final size:29
Alignment explanation
Indices: 21107907--21107970 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
21107897 CAAGTAACCG
21107907 AAGCTAGTTAAATCGCACACCTAGTGCCA
1 AAGCTAGTTAAATCGCACACCTAGTGCCA
* *
21107936 AAGCTAGTTTGAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACCTAGTGCCA
21107966 AAGCT
1 AAGCT
21107971 TCTGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACCTAGTGCCA
Found at i:21109288 original size:11 final size:12
Alignment explanation
Indices: 21109261--21109294 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
21109251 CAAAAAAATA
*
21109261 ATTAAATGTTAT
1 ATTATATGTTAT
21109273 ATTATATGTT-T
1 ATTATATGTTAT
21109284 ATTATATGTTA
1 ATTATATGTTA
21109295 AATTGCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (12 bp):
ATTATATGTTAT
Found at i:21111495 original size:45 final size:45
Alignment explanation
Indices: 21111429--21111644 Score: 278
Period size: 45 Copynumber: 4.9 Consensus size: 45
21111419 TATTGTACAG
*
21111429 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
21111474 TACTATTCGGGCCTTTAAGCCTGGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
21111519 TACTATTCAGGCCTTTGAGCCTAGTAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
21111564 TACTATTCGGGCCTTCGAGCTTAGCAAGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
21111609 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCG
21111645 ATGGATGAAT
Statistics
Matches: 152, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 7 0.05
43 16 0.11
44 5 0.03
45 123 0.81
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:21115322 original size:31 final size:31
Alignment explanation
Indices: 21115284--21115345 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
21115274 AATCACGTAT
21115284 GGAAAATAAGCTTCACAACCCTTTCTAACAA
1 GGAAAATAAGCTTCACAACCCTTTCTAACAA
21115315 GGAAAATAAGCTTCACAACCCTTTCTAACAA
1 GGAAAATAAGCTTCACAACCCTTTCTAACAA
21115346 TACTCAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.26, G:0.10, T:0.23
Consensus pattern (31 bp):
GGAAAATAAGCTTCACAACCCTTTCTAACAA
Found at i:21118514 original size:30 final size:29
Alignment explanation
Indices: 21118468--21118531 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
21118458 CAAGTAACCG
21118468 AAGCTAGTTAAATCGCACACCTAGTGCCA
1 AAGCTAGTTAAATCGCACACCTAGTGCCA
* *
21118497 AAGCTAGTTTGAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACCTAGTGCCA
21118527 AAGCT
1 AAGCT
21118532 TCTGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACCTAGTGCCA
Found at i:21119762 original size:6 final size:6
Alignment explanation
Indices: 21119740--21119773 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
21119730 AAAGGAAACA
21119740 AAAATT -AAATT -AAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
21119774 TTCAACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAAATT
Found at i:21121391 original size:93 final size:93
Alignment explanation
Indices: 21121276--21121447 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
21121266 GCCCATAAGT
* * *
21121276 GAACTCGAACTCAAATGAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
21121341 CGAGCTCGGATGCCTAGTTACATCTTTC
66 CGAGCTCAGATGCCTAGTTACATCTTTC
* * * *
21121369 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGAACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
21121434 CGAGTTCAGATGCC
66 CGAGCTCAGATGCC
21121448 CAAATATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTTTC
Found at i:21121440 original size:46 final size:45
Alignment explanation
Indices: 21121268--21121437 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
21121258 TGTGACCCGC
* * * *
21121268 CCATAAGTGAACTCGAACTCAAATGAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
21121314 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
21121360 ACATCTTTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
21121407 CCATAAGTGAACTCGGGCTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
21121438 TTCAGATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 58 0.57
47 32 0.32
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:21123883 original size:15 final size:15
Alignment explanation
Indices: 21123835--21123914 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
21123825 CAAAGATAAC
*
21123835 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
21123849 AAGAAATCCA-AGGTA
1 AAGAAATCCAGA-ATA
* *
21123864 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
21123879 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
21123894 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
21123909 AAGAAA
1 AAGAAA
21123915 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.19, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:21123923 original size:15 final size:15
Alignment explanation
Indices: 21123846--21123923 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
21123836 AGAAAACCGA
21123846 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
21123861 GTAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
21123875 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
21123890 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
21123906 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
21123921 ATA
1 ATA
21123924 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:21127002 original size:93 final size:93
Alignment explanation
Indices: 21126897--21127068 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
21126887 GCCCATAAGT
* * * *
21126897 GAACTCGAACTCAACTCAACGAGCTCAGGA-GTTCGTATCCATAAGTGAACTTGGACACAACTCA
1 GAACTCGAACTCAACTCAACGAGCTC-GAACATTCGCATCCATAAGTGAACTCGGACACAACTCA
21126961 ACAAGCTCGGATGCCTAGTTACATCTCTC
65 ACAAGCTCGGATGCCTAGTTACATCTCTC
* * * *
21126990 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
* *
21127055 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
21127069 CAAATATCCT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACACAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:21142501 original size:39 final size:38
Alignment explanation
Indices: 21142411--21142525 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
21142401 TCAGTGATGT
*
21142411 TTAT-CCG-GACTTAGGGTACGCAGGCTATGTGCTAGAA
1 TTATACCGAGACTTAGGGT-CGCAGGCTATGTGCTGGAA
* *
21142448 TTATATCTAGACTTAGGGTCGGCAGGCTATGTGCTGGAA
1 TTATACCGAGACTTAGGGTC-GCAGGCTATGTGCTGGAA
* * *
21142487 TTATAACCGA-ACTTAAGGTCTGCAGGCTACGTGTTGGAA
1 TTAT-ACCGAGACTTAGGGTC-GCAGGCTATGTGCTGGAA
21142526 ATACGTCCGG
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
37 4 0.06
38 2 0.03
39 56 0.86
40 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (38 bp):
TTATACCGAGACTTAGGGTCGCAGGCTATGTGCTGGAA
Found at i:21158457 original size:42 final size:42
Alignment explanation
Indices: 21158337--21158543 Score: 267
Period size: 43 Copynumber: 4.9 Consensus size: 42
21158327 TACCATACCA
*
21158337 ATGCCATATCCCAGATATGGTCTTACATAG-GATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-AGAAATCTCATATCG
* *
21158379 ATGCCAATAGCCCA-ACTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACAAGAAATCTCATATCG
*
21158422 ATGCCATATCCCAGATATGGTCTTACATAG-GATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-AGAAATCTCATATCG
* * *
21158464 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
* *
21158507 ATGCCATATCCCAGATATGGTCTTACACGGAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCA
21158544 ACTAACCCTA
Statistics
Matches: 145, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
42 72 0.50
43 73 0.50
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
Found at i:21158543 original size:85 final size:85
Alignment explanation
Indices: 21158337--21158533 Score: 385
Period size: 85 Copynumber: 2.3 Consensus size: 85
21158327 TACCATACCA
21158337 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAACTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAACTATGGTC
21158402 TTACACGAAATCTCATATCG
66 TTACACGAAATCTCATATCG
*
21158422 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAACTATGGTC
21158487 TTACACGAAATCTCATATCG
66 TTACACGAAATCTCATATCG
21158507 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
21158534 CGGAATCTCA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 111 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (85 bp):
ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAACTATGGTC
TTACACGAAATCTCATATCG
Found at i:21162325 original size:40 final size:40
Alignment explanation
Indices: 21162280--21162446 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
21162270 CGGAATATAA
*
21162280 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
21162320 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
21162360 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
21162400 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
21162439 CCGGATAT
1 CCGGATAT
21162447 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:21162430 original size:80 final size:79
Alignment explanation
Indices: 21162296--21162446 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
21162286 ATAACCATGT
*
21162296 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
21162361 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
21162376 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
21162439 CCGGATAT
64 CCGGATAT
21162447 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:21170326 original size:40 final size:40
Alignment explanation
Indices: 21170281--21170410 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
21170271 CGGAATATAA
21170281 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
21170321 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
21170361 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
21170401 CCGGATATAA
1 CCGGATATAA
21170411 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:21170425 original size:40 final size:39
Alignment explanation
Indices: 21170297--21170447 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
21170287 ATAACCATGT
* * *
21170297 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
21170337 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
21170377 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
21170416 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
21170448 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:21170431 original size:80 final size:79
Alignment explanation
Indices: 21170281--21170447 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
21170271 CGGAATATAA
*
21170281 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
21170346 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
21170361 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
21170423 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
21170440 CCGGATAT
1 CCGGATAT
21170448 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:21172443 original size:40 final size:40
Alignment explanation
Indices: 21172369--21172579 Score: 248
Period size: 40 Copynumber: 5.3 Consensus size: 40
21172359 TCTTCGAGAT
** * *
21172369 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
21172407 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
21172447 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
21172487 TTAGCCCGAATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
21172527 TTAGTCCAGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
21172567 TTAGCCCGGATAT
1 TTAGCCCGGATAT
21172580 CATTCGAATA
Statistics
Matches: 144, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 123 0.85
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:21176803 original size:15 final size:15
Alignment explanation
Indices: 21176783--21176811 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21176773 TTAGGGGTGT
21176783 AACACCCCTAACCTA
1 AACACCCCTAACCTA
21176798 AACACCCCTAACCT
1 AACACCCCTAACCT
21176812 GTATCCTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (15 bp):
AACACCCCTAACCTA
Found at i:21178364 original size:43 final size:43
Alignment explanation
Indices: 21178306--21178562 Score: 342
Period size: 43 Copynumber: 6.0 Consensus size: 43
21178296 TATATAGCTC
* * * *
21178306 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCTC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * * *
21178347 ATATCGATGCCAATATCCCA-ACTATGGTCTTACACGAAATCAC-
1 ATA-CAATGCCAATGTCCCAGAC-ATGGTCTTACATGTAATCACA
*
21178390 ATAACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
21178434 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * *
21178477 ATACAATGCCAATGTCCTAGACATGGTCTTGCACGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
*
21178520 ATACAATACCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
21178563 TCTTAGTAAT
Statistics
Matches: 193, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
41 3 0.02
42 7 0.04
43 178 0.92
44 5 0.03
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
Found at i:21187680 original size:29 final size:29
Alignment explanation
Indices: 21187618--21187720 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
21187608 GTGACGAGAT
* * *
21187618 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
21187647 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
21187676 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
21187705 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21187721 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:21190255 original size:33 final size:33
Alignment explanation
Indices: 21190213--21190278 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
21190203 TCACTGTTGG
21190213 TAAACTATTTAAATCATCTGACTCAATCTGGAT
1 TAAACTATTTAAATCATCTGACTCAATCTGGAT
* *
21190246 TAAACTATTTAAATTATCTGACTCAATTTGGAT
1 TAAACTATTTAAATCATCTGACTCAATCTGGAT
21190279 AATCTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (33 bp):
TAAACTATTTAAATCATCTGACTCAATCTGGAT
Found at i:21193628 original size:43 final size:43
Alignment explanation
Indices: 21193600--21193749 Score: 196
Period size: 43 Copynumber: 3.5 Consensus size: 43
21193590 TAGCCCAACT
21193600 ATGGTCTTACACGAAATCAC-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCACAAT-ACGATGCCAATGTCCCAGAC
*
21193643 ATGGTCTTACAC-ATAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGA-AATCACAATACGATGCCAATGTCCCAGAC
* * * * *
21193686 ATGGTCTTACAAGTAATCACAATACAATGCCAATCTCCTAGAC
1 ATGGTCTTACACGAAATCACAATACGATGCCAATGTCCCAGAC
* *
21193729 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACACGAAATCACA
21193750 TCTCGGTAAT
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
42 1 0.01
43 95 0.97
44 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACAATACGATGCCAATGTCCCAGAC
Found at i:21194387 original size:19 final size:20
Alignment explanation
Indices: 21194365--21194402 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21194355 TTAAGCATTC
*
21194365 ATCAATGGC-ACTTCAAAAA
1 ATCAATGACAACTTCAAAAA
*
21194384 ATCATTGACAACTTCAAAA
1 ATCAATGACAACTTCAAAA
21194403 GTTAAGGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.24
Consensus pattern (20 bp):
ATCAATGACAACTTCAAAAA
Found at i:21197372 original size:46 final size:46
Alignment explanation
Indices: 21197314--21197494 Score: 215
Period size: 46 Copynumber: 3.9 Consensus size: 46
21197304 TAGGATGGTT
*
21197314 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
21197360 GAGCGTCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* *
21197406 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * * *
21197453 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21197495 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 15, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 69 0.61
47 32 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:21197475 original size:93 final size:93
Alignment explanation
Indices: 21197316--21197487 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
21197306 GGATGGTTGA
* * *
21197316 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21197381 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
21197409 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
21197474 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
21197488 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:21201098 original size:108 final size:109
Alignment explanation
Indices: 21200902--21201125 Score: 290
Period size: 108 Copynumber: 2.1 Consensus size: 109
21200892 AGGTATTTAA
* * * * *
21200902 ATGGCCTGGCACACGAGCGTGTGGCATGGCCGTGTGACCCAACTTCAAAAGTTATACAGGCACGG
1 ATGGCCTAGCACACGAGCATGTGGCATGGCCATGTGACCCAACTTCAAAAGTTACACAGGCACAG
* * *
21200967 ACATGGGTTGGGACACAGTCGTGTGTCCCTATTTTGATTGTTAC
66 ACATGGGCTGGGACACAGCCGTGTGTCCCTATTTGGATTGTTAC
* * * ** *
21201011 ATGGCCTAGCATACGGGCATGTGGCTTGGCCATGTGACCCAACTT-TGAAGTTACACGGGCACAG
1 ATGGCCTAGCACACGAGCATGTGGCATGGCCATGTGACCCAACTTCAAAAGTTACACAGGCACAG
21201075 ACATGGGCTGGGACAC-GACCGTGTGTCCCTATTTGGATTGTTAC
66 ACATGGGCTGGGACACAG-CCGTGTGTCCCTATTTGGATTGTTAC
*
21201119 ACGGCCT
1 ATGGCCT
21201126 GAGACACAGG
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
107 1 0.01
108 59 0.60
109 39 0.39
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.25
Consensus pattern (109 bp):
ATGGCCTAGCACACGAGCATGTGGCATGGCCATGTGACCCAACTTCAAAAGTTACACAGGCACAG
ACATGGGCTGGGACACAGCCGTGTGTCCCTATTTGGATTGTTAC
Found at i:21201155 original size:108 final size:109
Alignment explanation
Indices: 21200934--21201155 Score: 243
Period size: 108 Copynumber: 2.0 Consensus size: 109
21200924 GGCATGGCCG
* * * *
21200934 TGTGACCCAACTTCAAAAGTTATACAGGCACGGACATGGGTTGGGACACAGTCGTGTGTCCCTAT
1 TGTGACCCAACTTCAAAAGTTACACAGGCACAGACATGGGCTGGGACACAGCCGTGTGTCCCTAT
* * * * * **
21200999 TTTGATTGTTACATGGCCTAGCATACGGGCATGTGGCTTGGCCA
66 TTGGATTGTTACACGGCCTAGCACACAGGCATATGGCTCAGCCA
** *
21201043 TGTGACCCAACTT-TGAAGTTACACGGGCACAGACATGGGCTGGGACAC-GACCGTGTGTCCCTA
1 TGTGACCCAACTTCAAAAGTTACACAGGCACAGACATGGGCTGGGACACAG-CCGTGTGTCCCTA
* * * *
21201106 TTTGGATTGTTACACGGCCTGAG-ACACAGGCGTATGTCTCATCCC
65 TTTGGATTGTTACACGGCCT-AGCACACAGGCATATGGCTCAGCCA
21201151 TGTGA
1 TGTGA
21201156 GTCACATTGT
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
107 1 0.01
108 77 0.83
109 15 0.16
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (109 bp):
TGTGACCCAACTTCAAAAGTTACACAGGCACAGACATGGGCTGGGACACAGCCGTGTGTCCCTAT
TTGGATTGTTACACGGCCTAGCACACAGGCATATGGCTCAGCCA
Found at i:21206511 original size:40 final size:40
Alignment explanation
Indices: 21206452--21206593 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
21206442 AAATTGAATG
* * *
21206452 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
21206492 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
21206532 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
21206572 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
21206594 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:21206594 original size:40 final size:39
Alignment explanation
Indices: 21206491--21206619 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
21206481 TGCTGGAAAT
* * *
21206491 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
21206531 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
21206571 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
21206611 TATATCCGG
1 TATATCCGG
21206620 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:21215235 original size:49 final size:49
Alignment explanation
Indices: 21215179--21215391 Score: 394
Period size: 49 Copynumber: 4.4 Consensus size: 49
21215169 TACATATATG
21215179 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
21215228 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
21215277 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
21215326 TGTGATAAGGCC-AATGGCCGATGTGGTGAATGTGAAAGTGT-TGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
21215373 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
21215392 TAATGCAAGA
Statistics
Matches: 160, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
47 18 0.11
48 34 0.21
49 108 0.68
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:21215446 original size:96 final size:96
Alignment explanation
Indices: 21215179--21215439 Score: 330
Period size: 98 Copynumber: 2.7 Consensus size: 96
21215169 TACATATATG
* * * *
21215179 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCAATGTCAAGAATATG-AAGTGTATGTATATGTGATAAGGCC-AAT
21215244 GGCCGATGTGGTGAATGTGAAAGTGTATGTATA
64 GGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* * * *
21215277 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCAATG
1 TGTGATAAGGCCTAATGGCCAATGTCAAGAATATG-AAGTGTATGTATATGTGATAAGGCCAATG
21215342 GCCGATGTGGTGAATGTGAAAGTGT-TGTATA
65 GCCGATGTGGTGAATGTGAAAGTGTATGTATA
* * * * *
21215373 TGTGATAAGGCCTAATGGCTAATG-CAAGATATATG-TGTGATATGCATATGTGGTAAAGCCGAA
1 TGTGATAAGGCCTAATGGCCAATGTCAAGA-ATATGAAGTG-TATGTATATGTGATAAGGCC-AA
21215436 TGGC
63 TGGC
21215440 TAATGTGAAT
Statistics
Matches: 151, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
94 3 0.02
95 20 0.13
96 38 0.25
97 29 0.19
98 61 0.40
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCAATGTCAAGAATATGAAGTGTATGTATATGTGATAAGGCCAATGG
CCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:21215564 original size:36 final size:37
Alignment explanation
Indices: 21215493--21215613 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
21215483 GGAATATGTT
*
21215493 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
21215530 CCGGGTAAGACCCGATGACTACG-GTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
21215566 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
21215603 CCGGGTAAGAC
1 CCGGGTAAGAC
21215614 TTCTTTTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
36 36 0.44
37 45 0.56
ACGTcount: A:0.26, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:21217732 original size:29 final size:29
Alignment explanation
Indices: 21217693--21218092 Score: 739
Period size: 29 Copynumber: 13.8 Consensus size: 29
21217683 CAAATTCCGT
21217693 TAATCGA-GCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
21217721 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
21217750 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
21217779 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
21217808 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
21217837 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
21217866 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
21217895 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
21217924 TAATCGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
21217953 TAATTGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
21217982 TAATCAAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
21218011 TAATCAAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
*
21218040 TAATTGAGGCACTATGTGTGCGAGATCAG
1 TAATCGAGGCACTATGTGTGCGAGATCAG
* *
21218069 TAATTGAGGCACTGTGTGTGCGAG
1 TAATCGAGGCACTATGTGTGCGAG
21218093 TTTTTCAACA
Statistics
Matches: 365, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
28 7 0.02
29 358 0.98
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
TAATCGAGGCACTATGTGTGCGAGATCAG
Found at i:21221718 original size:49 final size:49
Alignment explanation
Indices: 21221662--21221876 Score: 403
Period size: 49 Copynumber: 4.4 Consensus size: 49
21221652 TACATATATG
21221662 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
21221711 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
21221760 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
21221809 TGTGATAAGGCCCAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
21221858 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
21221877 TAATGCAAGA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 161 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:21222028 original size:37 final size:37
Alignment explanation
Indices: 21221978--21222099 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
21221968 GGAATATGTT
*
21221978 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
21222015 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
21222052 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
21222089 CCGGGTAAGAC
1 CCGGGTAAGAC
21222100 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:21245409 original size:43 final size:42
Alignment explanation
Indices: 21245350--21245509 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 42
21245340 AACTCACACA
* * *
21245350 ATGCC-ATATCCTAGATATGGTCTTACATGTTATCATATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCATA-ATCG
* * * * * *
21245392 ATGCCACTATCCCAGATAGGGTGTTACATGAAATCATAAATAG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCAT-AATCG
* ** * * *
21245435 ATGCCAATGTCCCAGACATGACCTTACACGTAATCACAATACA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCATAAT-CG
* *
21245478 ATGCCAATGTCCCATACATGGTCTTACATGTA
1 ATGCCAATATCCCAGACATGGTCTTACATGTA
21245510 GTCACATCTC
Statistics
Matches: 92, Mismatches: 23, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 8 0.09
43 83 0.90
44 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCATAATCG
Found at i:21249211 original size:45 final size:45
Alignment explanation
Indices: 21249119--21249203 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
21249109 TACATCTCAC
* *
21249119 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
21249165 GAACTC-GACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
21249204 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 9 0.25
45 21 0.58
46 6 0.17
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:21251616 original size:15 final size:15
Alignment explanation
Indices: 21251590--21251645 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
21251580 CAAGGAAACC
21251590 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
21251605 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
21251620 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
21251635 GAATAAAGAAA
1 GAATAAAGAAA
21251646 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Done.