Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 136 of 318
Found at i:41649317 original size:46 final size:46
Alignment explanation
Indices: 41649266--41649486 Score: 188
Period size: 47 Copynumber: 4.8 Consensus size: 46
41649256 ATGGTTGAGC
*
41649266 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--AATG-GAACTAG
* * *
41649313 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAATGGAACTA-G
* * *
41649358 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAATGGAACTA-G
* *
41649405 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC--G
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--AATG-GAACTAG
* * *
41649453 -CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41649487 GGGGCAGGTT
Statistics
Matches: 152, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
45 3 0.02
46 59 0.39
47 75 0.49
48 3 0.02
50 3 0.02
51 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAATGGAACTAG
Found at i:41649382 original size:47 final size:47
Alignment explanation
Indices: 41649313--41649435 Score: 237
Period size: 47 Copynumber: 2.6 Consensus size: 47
41649303 GATGCGAATG
41649313 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
41649360 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
*
41649407 TCCGAACTTGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
41649436 ACTTATGGAT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:41651492 original size:20 final size:20
Alignment explanation
Indices: 41651467--41651505 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41651457 AAAATTTCAA
41651467 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
41651487 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
41651506 AATAACCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:41655354 original size:2 final size:2
Alignment explanation
Indices: 41655347--41655374 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
41655337 ATCGGGTATG
41655347 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41655375 AGTATGCCCA
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):
TA
Found at i:41655851 original size:48 final size:48
Alignment explanation
Indices: 41655799--41655931 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 48
41655789 TATCTCAAAT
* *
41655799 GCACTATGTGTGCAATTTATTAATGCACTATGTGTGCAATTTATTATA
1 GCACTATGTGTGCAATTTAATAATGCACTATGTGTGCAATTTACTATA
* * * * *
41655847 GCACTATGTGTGCGATTTACT-ATGGCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCAATTTAATAAT-GCACTATGTGTGCAATTTACTATA
**
41655895 GCACTATGTGTGCGAACATAATAA-GCACTATGTGTGC
1 GCACTATGTGTGC-AATTTAATAATGCACTATGTGTGC
41655932 CACATTCAGT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.03
48 65 0.90
49 4 0.06
50 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (48 bp):
GCACTATGTGTGCAATTTAATAATGCACTATGTGTGCAATTTACTATA
Found at i:41655908 original size:24 final size:24
Alignment explanation
Indices: 41655799--41655909 Score: 152
Period size: 24 Copynumber: 4.6 Consensus size: 24
41655789 TATCTCAAAT
* *
41655799 GCACTATGTGTGCAATTTATTAAT-
1 GCACTATGTGTGCGATTTACT-ATG
* * *
41655823 GCACTATGTGTGCAATTTATTATA
1 GCACTATGTGTGCGATTTACTATG
41655847 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
41655871 GCACTATGTGTGCGATTTGCTATG
1 GCACTATGTGTGCGATTTACTATG
41655895 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
41655910 ACATAATAAG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
23 2 0.02
24 80 0.98
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:41657905 original size:29 final size:29
Alignment explanation
Indices: 41657872--41657973 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
41657862 GTGACGAGAT
*
41657872 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
41657901 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
41657930 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
41657959 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
41657974 GAGCTCGAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:41657989 original size:29 final size:29
Alignment explanation
Indices: 41657872--41658033 Score: 107
Period size: 29 Copynumber: 5.6 Consensus size: 29
41657862 GTGACGAGAT
* **
41657872 TGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
* * **
41657901 TGGCACTGAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
* **
41657930 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
**
41657959 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCTCGAAACGTA
** * * *
41657988 TGGCACTGTGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAA-CGTA
41658017 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
41658034 AATCGAGTAT
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
28 2 0.02
29 111 0.97
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTCGAAACGTA
Found at i:41658002 original size:58 final size:59
Alignment explanation
Indices: 41657868--41657994 Score: 179
Period size: 58 Copynumber: 2.2 Consensus size: 59
41657858 TACGGTGACG
* * *
41657868 AGAT-TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
*
41657925 ATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
* *
41657983 GGGTATGGCACT
1 AGATATGGCACT
41657995 GTGTGTGCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 3 0.05
58 57 0.93
59 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (59 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:41665610 original size:29 final size:29
Alignment explanation
Indices: 41665576--41665736 Score: 186
Period size: 29 Copynumber: 5.6 Consensus size: 29
41665566 TAATCGATCA
*
41665576 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
41665605 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
41665634 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
41665663 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
41665692 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
41665721 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
41665737 ATCTTGTCAC
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 110 0.93
31 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:41673640 original size:29 final size:29
Alignment explanation
Indices: 41673607--41673766 Score: 107
Period size: 29 Copynumber: 5.5 Consensus size: 29
41673597 AATCGATCAT
* * * *
41673607 GCACACTTGGTGCCATGTGATTTAAGCTC
1 GCACACTTAGTGCCATATAATTTAAACTC
* * *
41673636 GCACACATAGTGCCGTATAATTTAAATTC
1 GCACACTTAGTGCCATATAATTTAAACTC
* *
41673665 GCACACTTAGTGCCATACT--TTTCAAGCTT
1 GCACACTTAGTGCCATA-TAATTT-AAACTC
* *
41673694 GCACACTTAGTGCCATACT--TTTCAAGCTT
1 GCACACTTAGTGCCATA-TAATTT-AAACTC
* *
41673723 GCACACTTAGTGCCATACT--TTTCAAGCTT
1 GCACACTTAGTGCCATA-TAATTT-AAACTC
41673752 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
41673767 ATCTTGTCAC
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
28 3 0.03
29 113 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (29 bp):
GCACACTTAGTGCCATATAATTTAAACTC
Found at i:41673692 original size:58 final size:58
Alignment explanation
Indices: 41673630--41673766 Score: 190
Period size: 58 Copynumber: 2.4 Consensus size: 58
41673620 CATGTGATTT
* *
41673630 AAGCTCGCACACATAGTGCCGTATA-ATTT-AA-ATTCGCACACTTAGTGCCATACTTTTC
1 AAGCTTGCACACTTAGTGCC--ATACATTTCAAGATT-GCACACTTAGTGCCATACTTTTC
* *
41673688 AAGCTTGCACACTTAGTGCCATACTTTTCAAGCTTGCACACTTAGTGCCATACTTTTC
1 AAGCTTGCACACTTAGTGCCATACATTTCAAGATTGCACACTTAGTGCCATACTTTTC
41673746 AAGCTTGCACACTTAGTGCCA
1 AAGCTTGCACACTTAGTGCCA
41673767 ATCTTGTCAC
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
56 3 0.04
57 3 0.04
58 64 0.89
59 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (58 bp):
AAGCTTGCACACTTAGTGCCATACATTTCAAGATTGCACACTTAGTGCCATACTTTTC
Found at i:41677191 original size:29 final size:29
Alignment explanation
Indices: 41677129--41677229 Score: 177
Period size: 29 Copynumber: 3.5 Consensus size: 29
41677119 GTGACGAGAT
*
41677129 TGGCACTAAGTGTGCATGCT-GAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
41677157 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
41677186 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
41677215 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
41677230 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
28 19 0.28
29 50 0.72
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:41677245 original size:29 final size:29
Alignment explanation
Indices: 41677129--41677289 Score: 107
Period size: 29 Copynumber: 5.6 Consensus size: 29
41677119 GTGACGAGAT
**
41677129 TGGCACTAAGTGTGC-ATGCT-GAAAAATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
* * **
41677157 TGGCACTGAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
* **
41677186 TGGCACTAAGTGTGC-ATGCTGGAAATATA
1 TGGCACTAAGTGTGCGA-GCTCGAAACGTA
**
41677215 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGAGCTCGAAACGTA
** * * *
41677244 TGGCACTGTGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAA-CGTA
41677273 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
41677290 AATCGAGTAT
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
28 21 0.19
29 91 0.81
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTCGAAACGTA
Found at i:41677257 original size:58 final size:58
Alignment explanation
Indices: 41677125--41677289 Score: 174
Period size: 58 Copynumber: 2.9 Consensus size: 58
41677115 TACGGTGACG
* * *
41677125 AGAT-TGGCACTAAGTGTGCATGCTGAAAAATATGGCACTGAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAATATATGGCACTAAGTGTGCGATGCTCGAA
*
41677181 ATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCT-GAAATATATGGCACTAAGTGTGCGATGCTCGAA
* * ** ** * **
41677239 GGGTATGGCACTGTGTGTGCGGGCTTAAATCGCATGGCACTAAGTGTGCGA
1 AGATATGGCACTAAGTGTGCATGCTGAAAT-ATATGGCACTAAGTGTGCGA
41677290 AATCGAGTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
56 3 0.03
57 24 0.26
58 63 0.69
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGAAATATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:41684943 original size:32 final size:32
Alignment explanation
Indices: 41684905--41684967 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
41684895 CTTAGGCTAT
41684905 TTTCCAAGCCTGCATGTTACCCATAAACCCTA
1 TTTCCAAGCCTGCATGTTACCCATAAACCCTA
*
41684937 TTTCCAAGCCTTCATGTTACCCATAAACCCT
1 TTTCCAAGCCTGCATGTTACCCATAAACCCT
41684968 TACAAACTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.35, G:0.08, T:0.30
Consensus pattern (32 bp):
TTTCCAAGCCTGCATGTTACCCATAAACCCTA
Found at i:41689420 original size:80 final size:80
Alignment explanation
Indices: 41689336--41689484 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
41689326 TATGGTAACC
* * * *
41689336 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
41689400 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
41689416 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
41689481 CCGG
66 CCGG
41689485 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:41689426 original size:40 final size:38
Alignment explanation
Indices: 41689377--41689484 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
41689367 ATCACGATTT
*
41689377 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
41689417 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
41689457 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
41689485 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:41698342 original size:40 final size:40
Alignment explanation
Indices: 41698276--41698442 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
41698266 AAATTGAATG
* * *
41698276 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
41698315 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
41698355 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
41698395 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
41698435 ATATCCGG
1 ATATCCGG
41698443 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:41706346 original size:40 final size:40
Alignment explanation
Indices: 41706287--41706428 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
41706277 AAATTGAATG
* * *
41706287 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
41706327 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
41706367 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
41706407 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
41706429 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:41706429 original size:40 final size:39
Alignment explanation
Indices: 41706326--41706454 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
41706316 TGCTGGAAAT
* * *
41706326 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
41706366 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
41706406 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
41706446 TATATCCGG
1 TATATCCGG
41706455 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:41710645 original size:23 final size:25
Alignment explanation
Indices: 41710595--41710647 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
41710585 ATGTCATAAA
*
41710595 CATAACTTCATCATATAACTTATAC
1 CATAACTTCATCATATAACCTATAC
41710620 CATAAC-TCATTCATA-AACCTAT-C
1 CATAACTTCA-TCATATAACCTATAC
41710643 CATAA
1 CATAA
41710648 TCAAGCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 9 0.35
25 11 0.42
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (25 bp):
CATAACTTCATCATATAACCTATAC
Found at i:41711335 original size:44 final size:42
Alignment explanation
Indices: 41711256--41711358 Score: 107
Period size: 44 Copynumber: 2.4 Consensus size: 42
41711246 TCCTAGACAG
** * *
41711256 GGTCTTACACAAAATTAGATACGATGCCGATGTCCCAAACAT
1 GGTCTTACACAAAAACAGATACGATGCCAACGTCCCAAACAT
* * *
41711298 GGTCTTACACATAAAACAGAATTCGATGCCAACGTCCCAGACGT
1 GGTCTTACACA-AAAACAG-ATACGATGCCAACGTCCCAAACAT
* *
41711342 GGTTTTACACGAAAACA
1 GGTCTTACACAAAAACA
41711359 CATATCGGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
42 11 0.22
43 11 0.22
44 28 0.56
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (42 bp):
GGTCTTACACAAAAACAGATACGATGCCAACGTCCCAAACAT
Found at i:41711740 original size:8 final size:8
Alignment explanation
Indices: 41711727--41711751 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
41711717 AAACTAGCCC
41711727 TCACATTT
1 TCACATTT
41711735 TCACATTT
1 TCACATTT
41711743 TCACATTT
1 TCACATTT
41711751 T
1 T
41711752 GACACTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:41712190 original size:30 final size:30
Alignment explanation
Indices: 41712156--41712218 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
41712146 TAATTTATAC
* *
41712156 ATATATTTATATTA-TAATATAATTAAAATA
1 ATATATGT-TATTAGTAATATAATAAAAATA
**
41712186 ATATATGTTATTAGTGTTATAATAAAAATA
1 ATATATGTTATTAGTAATATAATAAAAATA
41712216 ATA
1 ATA
41712219 AAATAAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (30 bp):
ATATATGTTATTAGTAATATAATAAAAATA
Found at i:41714030 original size:40 final size:40
Alignment explanation
Indices: 41713975--41714151 Score: 293
Period size: 40 Copynumber: 4.4 Consensus size: 40
41713965 TGTGCATAGT
*
41713975 ATTCGTGCGGGTTATTGTAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
41714015 ATTCGTGCGGGTTATTATAACCGAGG-TAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCG-GGTTAAGTCCCGAAGGC
*
41714055 ATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
* *
41714095 ATTCATGCGGGTTATTATAACCAGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
41714135 ATTCGTGCTGGTTATTA
1 ATTCGTGCGGGTTATTA
41714152 AATCCGAGCC
Statistics
Matches: 129, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
39 2 0.02
40 125 0.97
41 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
Found at i:41714171 original size:80 final size:80
Alignment explanation
Indices: 41713975--41714171 Score: 263
Period size: 80 Copynumber: 2.5 Consensus size: 80
41713965 TGTGCATAGT
* * ** * *
41713975 ATTCGTGCGGGTTATTGTAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAACCGAG
1 ATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAGGCATTCATGCGGGTTATTATAACCGAG
41714040 GTAAGTCCCGAAGGC
66 GTAAGTCCCGAAGGC
* * *
41714055 ATTCGTGCGGGTTATTATAACCGGGCTAAGTCCCGAAGGCATTCATGCGGGTTATTATAACC-AG
1 ATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAGGCATTCATGCGGGTTATTATAACCGAG
41714119 GTTAAGTCCCGAAGGC
66 G-TAAGTCCCGAAGGC
* *
41714135 ATTCGTGCTGGTTATTA-AATCCGAGCCAAATTCCGAA
1 ATTCGTGCGGGTTATTATAA-CCGAGCCAAATCCCGAA
41714172 AGTATATATG
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 5 0.05
80 102 0.95
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
ATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAGGCATTCATGCGGGTTATTATAACCGAG
GTAAGTCCCGAAGGC
Found at i:41721710 original size:46 final size:46
Alignment explanation
Indices: 41721647--41721850 Score: 158
Period size: 46 Copynumber: 4.5 Consensus size: 46
41721637 GTCGATGCCG
*
41721647 TGTCCCAGACA-GATCTTACACTGACACATGTAACCGT-GCCGATGCA
1 TGTCCCAGACATG-TCTTACACTGACACATCTAA-CGTAGCCGATGCA
* * *
41721693 TGTCCTAAACATGTCTTACACT-AGCACATCT--CGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGA-CACATCTAACGTAGCCGATGCA
* * *
41721737 TGTCCCAGACATGTCTGACACTGGCTAACATCTCAA-G--GCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAC--ACATCT-AACGTAGCCGATGCA
* * * *
41721783 TGTCCCAGACATGTCTTACACTGGCTC-TC-ATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGACACATCTA-AC-GTAGCCGATGCA
*
41721829 TGTCCTAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
41721851 AGCCCTCGTC
Statistics
Matches: 131, Mismatches: 13, Indels: 28
0.76 0.08 0.16
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 5 0.04
44 30 0.23
45 1 0.01
46 91 0.69
47 1 0.01
48 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.26
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTGACACATCTAACGTAGCCGATGCA
Found at i:41721863 original size:92 final size:91
Alignment explanation
Indices: 41721684--41721901 Score: 242
Period size: 92 Copynumber: 2.4 Consensus size: 91
41721674 ATGTAACCGT
* *
41721684 GCCGATGCATGTCCTAAACATGTCTTACACTAG-CACATCTCGTAGCCGACGCATGTCCCAGACA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACA
* *
41721748 TGTCTGACACTGGCTAACATCTCAAG
66 TGTCTGACACTAGCCAACATCTCAAG
* * * * * * *
41721774 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCTAGA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGC-CACAT-CTCGTAGCCGACGCATGTCCCAGA
* ** * *
41721838 CATGTCTTACACTAGCCCTCGTCTCAAT
64 CATGTCTGACACTAGCCAACATCTCAAG
41721866 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGC
41721902 ACACGAATCT
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
90 29 0.28
92 48 0.46
93 15 0.14
94 13 0.12
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (91 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACA
TGTCTGACACTAGCCAACATCTCAAG
Found at i:41721873 original size:46 final size:44
Alignment explanation
Indices: 41721683--41721898 Score: 168
Period size: 46 Copynumber: 4.7 Consensus size: 44
41721673 CATGTAACCG
* *
41721683 TGCCGATGCATGTCCTAAACATGTCTTACACTAGCACATC-TCGTA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGC-CATCATC-TA
* * * * *
41721728 -GCCGACGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGCCATCATCT--A
* * * *
41721773 GGCTGATGCATGTCCCAGACATGTCTTACACTGGCTC-TCATACTG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTAGC-CATCAT-CTA
* * * *
41721818 TGGCTGATGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTCAA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTAGCCATCATCT--A
*
41721865 TGCCGATGCCATGTCCCAAACATGGTCTTACACT
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACT
41721899 GGCACACGAA
Statistics
Matches: 138, Mismatches: 21, Indels: 21
0.77 0.12 0.12
Matches are distributed among these distances:
43 3 0.02
44 31 0.22
45 4 0.03
46 75 0.54
47 15 0.11
48 10 0.07
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (44 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTAGCCATCATCTA
Found at i:41725262 original size:40 final size:40
Alignment explanation
Indices: 41725135--41725264 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
41725125 ATGCTGGAAA
* *
41725135 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
41725175 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
41725215 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
41725255 TTATATCCGG
1 TTATATCCGG
41725265 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:41730445 original size:41 final size:41
Alignment explanation
Indices: 41730400--41730517 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
41730390 TGAAAGATAA
41730400 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
41730441 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41730471 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41730512 ATGTAG
1 ATGTAG
41730518 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:41730456 original size:71 final size:71
Alignment explanation
Indices: 41730368--41730531 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41730358 GAGATGTATC
41730368 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41730433 AGGACA
66 AGGACA
41730439 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41730504 AGGACA
66 AGGACA
41730510 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41730532 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41737836 original size:41 final size:41
Alignment explanation
Indices: 41737791--41737908 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
41737781 TGAAAGATAA
41737791 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
41737832 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41737862 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
41737903 ATGTAG
1 ATGTAG
41737909 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:41737847 original size:71 final size:71
Alignment explanation
Indices: 41737759--41737922 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
41737749 GAGATGTATC
41737759 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41737824 AGGACA
66 AGGACA
41737830 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
41737895 AGGACA
66 AGGACA
41737901 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
41737923 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:41744244 original size:46 final size:46
Alignment explanation
Indices: 41744177--41744351 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
41744167 TGTAACCCGC
** * *
41744177 CCATAAGCGAACTCACACTCAACTCAATGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * *
41744223 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * * * * *
41744273 -C-TCA-CGAACTAGGACTCAACTCAACGAGTTCGGACATTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* *
41744316 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
41744352 ATGCCTAGTT
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:41744295 original size:47 final size:47
Alignment explanation
Indices: 41744231--41744403 Score: 201
Period size: 47 Copynumber: 3.7 Consensus size: 47
41744221 ATCCATAAGT
*
41744231 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * *
41744278 GAACTAGGACTCAACTCAACGAGTTCGGA--CATTCGTATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGT-TACATCTCA-C
41744324 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
41744371 AAACTCGGATTCAACTCAACGAGTTCAGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
41744404 CAAATATCCG
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.03
46 34 0.33
47 63 0.61
48 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:41744394 original size:93 final size:93
Alignment explanation
Indices: 41744193--41744396 Score: 318
Period size: 93 Copynumber: 2.2 Consensus size: 93
41744183 GCGAACTCAC
* * * * * *
41744193 ACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCG
1 ACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCG
*
41744258 GATGCCTAGTTACATCTCACGAACTAGG
66 GATGCCTAGTTACATCTCACAAACTAGG
*
41744286 ACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 ACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCG
*
41744351 GATGCCTAGTTACATCTCACAAACTCGG
66 GATGCCTAGTTACATCTCACAAACTAGG
*
41744379 ATTCAACTCAACGAGTTC
1 ACTCAACTCAACGAGTTC
41744397 AGATGCCCAA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 101 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (93 bp):
ACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCG
GATGCCTAGTTACATCTCACAAACTAGG
Found at i:41746574 original size:43 final size:42
Alignment explanation
Indices: 41746508--41746597 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 42
41746498 TAACATATAA
*
41746508 CACATCCATAATGAACTCAGACCTCTCAATGAGCTCGGATGC
1 CACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
*
41746550 TCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 -CACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
41746593 CACAT
1 CACAT
41746598 ATCTGACGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 5 0.11
43 40 0.89
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (42 bp):
CACATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
Found at i:41759700 original size:43 final size:43
Alignment explanation
Indices: 41759653--41759753 Score: 109
Period size: 43 Copynumber: 2.3 Consensus size: 43
41759643 TACTAGATAG
* * *
41759653 GGTCTTAAACGTAATC-GATTAACGATGCC-AATGTCCCAGACAT
1 GGTCTTAAACGTAATCACAAT-ACAATGCCAAAT-TCCCAGACAT
* *
41759696 GGTCTTACACGTAATCACAATACAATGCCAAATTCCTAGACAT
1 GGTCTTAAACGTAATCACAATACAATGCCAAATTCCCAGACAT
41759739 GGTCTTACAA-GTAAT
1 GGTCTTA-AACGTAAT
41759754 TTCATCTCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 43 0.88
44 6 0.12
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTAAACGTAATCACAATACAATGCCAAATTCCCAGACAT
Found at i:41760273 original size:29 final size:28
Alignment explanation
Indices: 41760236--41760301 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
41760226 TTTTCATCTA
* *
41760236 TTTCACAATTTAAC-CCCTCAATTTACATT
1 TTTCTCAATTT-ACTCCCT-AATATACATT
*
41760265 TTTCTCAATTTACTCCCTAATATGCATT
1 TTTCTCAATTTACTCCCTAATATACATT
41760293 TTTACTCAA
1 TTT-CTCAA
41760302 AATCACTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.44
Consensus pattern (28 bp):
TTTCTCAATTTACTCCCTAATATACATT
Found at i:41768342 original size:14 final size:14
Alignment explanation
Indices: 41768323--41768351 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
41768313 CCCATTCGTA
41768323 TTGTTATCCATGTT
1 TTGTTATCCATGTT
41768337 TTGTTATCCATGTT
1 TTGTTATCCATGTT
41768351 T
1 T
41768352 AGAATACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (14 bp):
TTGTTATCCATGTT
Found at i:41768444 original size:27 final size:27
Alignment explanation
Indices: 41768414--41768687 Score: 308
Period size: 27 Copynumber: 10.2 Consensus size: 27
41768404 AAAGTACTCC
41768414 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTATCGTTTTACCCT
*
41768441 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTATCGTTTTACCCT
**
41768468 CGATTTTTA-AATTATCGTTTTACCCT
1 CGATTTACAGAATTATCGTTTTACCCT
*
41768494 TGATTTACAGAATTA-CTGTTTTACCCT
1 CGATTTACAGAATTATC-GTTTTACCCT
*
41768521 C-AGTTTATAGAATTA-CTGTTTTACCCT
1 CGA-TTTACAGAATTATC-GTTTTACCCT
*
41768548 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTATCGTTTTACCCT
** * *
41768575 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTATCGTTTTACCCT
* *
41768602 TGATTTACAGAATTACTAG-TTTACCCT
1 CGATTTACAGAATTA-TCGTTTTACCCT
*
41768629 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTATCGTTTTACCCT
* * *
41768656 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTATCGTTTTACCCT
*
41768683 TGATT
1 CGATT
41768688 GTGAAATTAC
Statistics
Matches: 212, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
26 27 0.13
27 181 0.85
28 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
CGATTTACAGAATTATCGTTTTACCCT
Found at i:41768598 original size:81 final size:80
Alignment explanation
Indices: 41768414--41768687 Score: 356
Period size: 81 Copynumber: 3.4 Consensus size: 80
41768404 AAAGTACTCC
* * * *
41768414 CGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAA
41768479 TTATCGTTTTACCCT
66 TTATCGTTTTACCCT
* * * *
41768494 TGATTTACAGAATTACTGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTATAG
1 CGATTTATAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACTGTTTTACCCTCGATTTATA-
41768558 AATTATCGTTTTACCCT
64 AATTATCGTTTTACCCT
* * * *
41768575 CGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTAG-TTTACCCTC-AGTTTACA
1 CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACT-GTTTTACCCTCGA-TTTA-T
41768638 AAATTATCGTTTTACCCT
63 AAATTATCGTTTTACCCT
* *
41768656 CGATTTATAGAATTACCATTTTACCCTTGATT
1 CGATTTATAGAATTACCGTTTTACCCTCGATT
41768688 GTGAAATTAC
Statistics
Matches: 171, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 56 0.33
81 111 0.65
82 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (80 bp):
CGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAA
TTATCGTTTTACCCT
Found at i:41768722 original size:27 final size:27
Alignment explanation
Indices: 41768692--41768887 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
41768682 TTGATTGTGA
*
41768692 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41768719 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
41768746 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41768773 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41768800 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41768827 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
41768854 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
41768881 AATTACC
1 AATTACC
41768888 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:41769124 original size:27 final size:26
Alignment explanation
Indices: 41769086--41769168 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
41769076 CGGAGGAAGC
*
41769086 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
41769113 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
41769139 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
41769166 GTT
1 GTT
41769169 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:41769525 original size:27 final size:26
Alignment explanation
Indices: 41769479--41769552 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
41769469 TAGGTGGGTT
* * *
41769479 TGCCACATTATTTGATTCTGGTGGCTC
1 TGCCACAATATCTG-TTCTGGTGACTC
*
41769506 TGCCACAATATCTGTATCTGGTGACTT
1 TGCCACAATATCTGT-TCTGGTGACTC
* *
41769533 TGTCACGATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
41769553 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:41769679 original size:6 final size:6
Alignment explanation
Indices: 41769670--41769877 Score: 128
Period size: 6 Copynumber: 34.2 Consensus size: 6
41769660 TTGCATTCAC
41769670 ATTCTG ATTCTG ATTCTG --TCATG TAATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG --ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
41769719 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * * * *
41769767 ATTCTG -TCACCTA ATTATG ATTCTG ATTCTG ATTCTG -TCACCTA ATTTTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * *
41769817 ATTCTG ATTCTG -TTACTA ATAT-TG ATTTTG ATTCTG ATTCTG -TTATTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
41769865 ATTCTG ATTCTG A
1 ATTCTG ATTCTG A
41769878 CTCTCATTTT
Statistics
Matches: 156, Mismatches: 25, Indels: 42
0.70 0.11 0.19
Matches are distributed among these distances:
4 2 0.01
5 13 0.08
6 125 0.80
7 9 0.06
8 5 0.03
9 2 0.01
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:41769705 original size:31 final size:31
Alignment explanation
Indices: 41769670--41769828 Score: 199
Period size: 31 Copynumber: 5.4 Consensus size: 31
41769660 TTGCATTCAC
**
41769670 ATTCTGATTCTGATTCTGTCATGTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
* *
41769701 ATTCTGATTCTGATTCTGTTA-CTAATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
41769731 ATTCTGATTCTGATTCTGTTA-CTAA---T-
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
41769757 A--CTGATTCTGATTCTGTCACCTAATTATG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
41769786 ATTCTGATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
41769817 ATTCTGATTCTG
1 ATTCTGATTCTG
41769829 TTACTAATAT
Statistics
Matches: 116, Mismatches: 5, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
24 17 0.15
25 4 0.03
26 1 0.01
27 1 0.01
28 1 0.01
29 1 0.01
30 32 0.28
31 59 0.51
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:41769734 original size:30 final size:30
Alignment explanation
Indices: 41769670--41769877 Score: 208
Period size: 30 Copynumber: 7.2 Consensus size: 30
41769660 TTGCATTCAC
* * *
41769670 ATTCTGATTCTGATTCTGTCATGTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
41769701 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
41769731 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
41769761 ATTCTGATTCTG--TC----ACCTAATTA-TG
1 ATTCTGATTCTGATTCTGTTA-CTAA-TACTG
*
41769786 ATTCTGATTCTGATTCTGTCACCT-A-A-T-
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
41769813 -TT-TGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * * *
41769841 ATTTTGATTCTGATTCTGTTATTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
41769871 ATTCTGA
1 ATTCTGA
41769878 CTCTCATTTT
Statistics
Matches: 154, Mismatches: 9, Indels: 29
0.80 0.05 0.15
Matches are distributed among these distances:
24 3 0.02
25 35 0.23
26 5 0.03
27 3 0.02
28 4 0.03
29 2 0.01
30 78 0.51
31 24 0.16
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:41775794 original size:37 final size:37
Alignment explanation
Indices: 41775735--41775843 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
41775725 AGCTTAGACG
** *
41775735 AAATCTCCACACAAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41775772 AAATCTCCACACGTAGTCATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
41775809 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
41775844 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:41775959 original size:48 final size:48
Alignment explanation
Indices: 41775888--41776414 Score: 856
Period size: 48 Copynumber: 11.0 Consensus size: 48
41775878 TGTTACAACA
* * * *
41775888 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
41775936 TTCACATTCGCCATCCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
41775984 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * * *
41776032 TTCATATTAGCTATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
41776080 TTCACATTGGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
41776128 TTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
41776176 TTCACATTGGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
41776224 TTCATATTAGCCATTCGGCTTTACCACATATACATAGCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
41776272 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
41776320 TTCATATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
41776368 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATA
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATA
41776415 CTCATTTATC
Statistics
Matches: 439, Mismatches: 40, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 439 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:41784250 original size:28 final size:28
Alignment explanation
Indices: 41784166--41784255 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 28
41784156 TGAGCATGAC
*
41784166 TATAAATGTGAATTAGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* *
41784195 TATAAATTTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
*
41784224 TATAAATGTGATTGGGCCTAGTTGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
41784252 TATA
1 TATA
41784256 CAGGTATTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 20 0.38
29 33 0.62
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:41786154 original size:11 final size:11
Alignment explanation
Indices: 41786138--41786163 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
41786128 TGCTTTGATC
41786138 ACCTCTCAAAA
1 ACCTCTCAAAA
41786149 ACCTCTCAAAA
1 ACCTCTCAAAA
41786160 ACCT
1 ACCT
41786164 TAATAGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.19
Consensus pattern (11 bp):
ACCTCTCAAAA
Found at i:41786320 original size:39 final size:39
Alignment explanation
Indices: 41786265--41786422 Score: 208
Period size: 39 Copynumber: 4.1 Consensus size: 39
41786255 CCATATTACA
* * *
41786265 CATATAATCACCTAACATACAAGCATATGTCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * *
41786304 CATATAATCTCATAACATTTAAGCATATGTCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * *
41786343 CGTATAATCACATAACATTCAAGCATATACCACCATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
* * *
41786382 CATATAATCACATAACCTTTAAACATATATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
41786421 CA
1 CA
41786423 AAAACATCTT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 103 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.28
Consensus pattern (39 bp):
CATATAATCACATAACATTCAAGCATATATCACAATACT
Found at i:41786381 original size:78 final size:78
Alignment explanation
Indices: 41786267--41786421 Score: 229
Period size: 78 Copynumber: 2.0 Consensus size: 78
41786257 ATATTACACA
* ** * *
41786267 TATAATCACCTAACATACAAGCATATGTCACAATACTCATATAATCTCATAACATTTAAGCATAT
1 TATAATCACATAACATACAAGCATATACCACAATACTCATATAATCACATAACATTTAAACATAT
*
41786332 GTCACAATACTCG
66 ATCACAATACTCG
* * *
41786345 TATAATCACATAACATTCAAGCATATACCACCATACTCATATAATCACATAACCTTTAAACATAT
1 TATAATCACATAACATACAAGCATATACCACAATACTCATATAATCACATAACATTTAAACATAT
41786410 ATCACAATACTC
66 ATCACAATACTC
41786422 AAAAACATCT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.29
Consensus pattern (78 bp):
TATAATCACATAACATACAAGCATATACCACAATACTCATATAATCACATAACATTTAAACATAT
ATCACAATACTCG
Found at i:41788654 original size:40 final size:40
Alignment explanation
Indices: 41788609--41788776 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
41788599 CGGAATATAA
41788609 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41788649 CCGGATAAAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
41788689 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
41788729 CCGGATAAAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
41788769 CCGGATAT
1 CCGGATAT
41788777 CATTCAATTT
Statistics
Matches: 99, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41796663 original size:40 final size:40
Alignment explanation
Indices: 41796618--41796784 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
41796608 CGGAATATAA
41796618 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41796658 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
41796698 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
41796738 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
41796777 CCGGATAT
1 CCGGATAT
41796785 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:41796768 original size:80 final size:79
Alignment explanation
Indices: 41796634--41796782 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
41796624 ATAATCACGT
* *
41796634 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
41796699 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
41796714 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
41796777 CCGGAT
64 CCGGAT
41796783 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:41802388 original size:24 final size:24
Alignment explanation
Indices: 41802361--41802459 Score: 189
Period size: 24 Copynumber: 4.1 Consensus size: 24
41802351 GCTTATTATG
*
41802361 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41802385 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41802409 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41802433 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41802457 ATC
1 ATC
41802460 TTCTACCCCT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.18
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:41808460 original size:40 final size:38
Alignment explanation
Indices: 41808322--41808465 Score: 146
Period size: 40 Copynumber: 3.7 Consensus size: 38
41808312 CCGCACCAAG
* * * *
41808322 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTTGCAC-AAT
* *
41808362 GCCTTCGGGTCTTAGCCC-GATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTTGCAC-AAT
* * *
41808401 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACTTGCACAA-T
41808441 GCCTTCGGGTCTTAACCCGGATATA
1 GCCTTCGGGTCTTAACCCGGATATA
41808466 ATTTTCAGCA
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 37 0.42
40 52 0.58
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTTGCACAAT
Found at i:41808481 original size:40 final size:40
Alignment explanation
Indices: 41808354--41808504 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
41808344 ATCACGATTT
* * * * *
41808354 GCACAAATGCCTTCGGGTCTTAGCCC-GATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
41808393 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
41808433 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
41808473 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
41808505 CATTCAATTT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 27 0.28
40 69 0.72
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:41813497 original size:24 final size:24
Alignment explanation
Indices: 41813470--41813616 Score: 285
Period size: 24 Copynumber: 6.1 Consensus size: 24
41813460 GCTTATTATG
*
41813470 ATCGCACACATAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41813494 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41813518 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41813542 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41813566 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41813590 ATCGCACACACAGTGCCATAGTAA
1 ATCGCACACACAGTGCCATAGTAA
41813614 ATC
1 ATC
41813617 TTCTACCCCT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 122 1.00
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (24 bp):
ATCGCACACACAGTGCCATAGTAA
Found at i:41817341 original size:16 final size:15
Alignment explanation
Indices: 41817311--41817359 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
41817301 TAACCTCCGC
41817311 TTCTTTT-CTTTATT
1 TTCTTTTACTTTATT
41817325 TTCTTTTACTGTTATT
1 TTCTTTTACT-TTATT
*
41817341 TTATTTTATCCTTTATT
1 TTCTTTTA--CTTTATT
41817358 TT
1 TT
41817360 AGTTTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.23
15 2 0.07
16 12 0.40
17 7 0.23
18 2 0.07
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.73
Consensus pattern (15 bp):
TTCTTTTACTTTATT
Found at i:41817358 original size:17 final size:15
Alignment explanation
Indices: 41817314--41817365 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
41817304 CCTCCGCTTC
*
41817314 TTTT-CTTTATTTTC
1 TTTTACTTTATTTTA
41817328 TTTTACTGTTATTTTA
1 TTTTACT-TTATTTTA
41817344 TTTTATCCTTTATTTTA
1 TTTTA--CTTTATTTTA
*
41817361 GTTTA
1 TTTTA
41817366 ATTTTATCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 12 0.38
17 12 0.38
18 2 0.06
ACGTcount: A:0.15, C:0.10, G:0.04, T:0.71
Consensus pattern (15 bp):
TTTTACTTTATTTTA
Found at i:41817434 original size:37 final size:39
Alignment explanation
Indices: 41817392--41817465 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 39
41817382 TCTTCCTTTG
41817392 TTTATT-CAT-CACTTGAATATATGATTCTTATTTATTT
1 TTTATTACATGCACTTGAATATATGATTCTTATTTATTT
41817429 TTTATTCACATGCACTTGAATATATGATTCTTATTTA
1 TTTATT-ACATGCACTTGAATATATGATTCTTATTTA
41817466 GTTTAGCCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 6 0.18
39 3 0.09
40 25 0.74
ACGTcount: A:0.28, C:0.12, G:0.07, T:0.53
Consensus pattern (39 bp):
TTTATTACATGCACTTGAATATATGATTCTTATTTATTT
Found at i:41821143 original size:30 final size:30
Alignment explanation
Indices: 41821108--41821165 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
41821098 TAGGCAGTTC
*
41821108 CACACGGGTA-ATCCACATGTCCGTGTGTGG
1 CACACGGGTAGA-CCACATGCCCGTGTGTGG
41821138 CACACGGGTAGACCACATGCCCGTGTGT
1 CACACGGGTAGACCACATGCCCGTGTGT
41821166 CATGGTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (30 bp):
CACACGGGTAGACCACATGCCCGTGTGTGG
Found at i:41828985 original size:27 final size:28
Alignment explanation
Indices: 41828925--41828986 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
41828915 CATATATATC
* * *
41828925 ATAT-GGGTATATCAGTCATTTTACCTG
1 ATATGGGGTATAACAGTCATTTCACCTA
*
41828952 ATA-GGGGTATAACAGTCATTTCATC-A
1 ATATGGGGTATAACAGTCATTTCACCTA
41828978 ATATGGGGT
1 ATATGGGGT
41828987 CTAGGTGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (28 bp):
ATATGGGGTATAACAGTCATTTCACCTA
Found at i:41831056 original size:93 final size:93
Alignment explanation
Indices: 41830897--41831066 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
41830887 GGATGGTTGA
* *
41830897 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
41830962 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
41830990 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
41831055 TGAGTCCGAGTT
66 TGAGTCCGAGTT
41831067 CACTTAGGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:41831071 original size:46 final size:46
Alignment explanation
Indices: 41830901--41831072 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
41830891 GGTTGAGCAT
* * *
41830901 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
41830947 CCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---GC
41830992 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
41831040 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41831073 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
45 2 0.02
46 57 0.53
47 25 0.23
48 3 0.03
50 4 0.04
51 7 0.07
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:41831332 original size:19 final size:20
Alignment explanation
Indices: 41831295--41831332 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41831285 ATAAGGTGGT
41831295 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
41831315 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
41831333 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:41836744 original size:79 final size:81
Alignment explanation
Indices: 41836608--41836790 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
41836598 TCGAATGATG
* *
41836608 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
41836672 TGTGCGAGTTGCTA-A
66 TGTGCGAGTTACTATA
* * **
41836687 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
41836749 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
41836767 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41836791 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:41836806 original size:40 final size:39
Alignment explanation
Indices: 41836609--41836792 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
41836599 CGAATGATGT
* * *
41836609 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
41836649 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTGCTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
41836689 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41836727 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41836768 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41836793 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41836814 original size:79 final size:79
Alignment explanation
Indices: 41836661--41836825 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
41836651 GGACTAAGAT
* * **
41836661 CCGAAGGCATTTGTGCGAGTTGCTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
41836726 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
41836740 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* * *
41836803 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
41836819 CCGAAGG
1 CCGAAGG
41836826 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.67
80 22 0.30
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:41843080 original size:27 final size:27
Alignment explanation
Indices: 41842952--41843069 Score: 191
Period size: 27 Copynumber: 4.4 Consensus size: 27
41842942 GGGGCATTTT
*
41842952 AGTCATTTTACCACATAAGGGCAAAAT
1 AGTCATTTTACCACATAAGGGCAAAAC
* *
41842979 AGTCATTTTACCACATAAGAGAAAAAC
1 AGTCATTTTACCACATAAGGGCAAAAC
*
41843006 AGTCATTTTACCATATAAGGGCAAAAC
1 AGTCATTTTACCACATAAGGGCAAAAC
*
41843033 AGTCATTTTACAACATAAGGGCAAAAC
1 AGTCATTTTACCACATAAGGGCAAAAC
41843060 AGTCATTTTA
1 AGTCATTTTA
41843070 ATCAATCAGG
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (27 bp):
AGTCATTTTACCACATAAGGGCAAAAC
Found at i:41845936 original size:20 final size:19
Alignment explanation
Indices: 41845892--41845936 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
41845882 TATTTCTTCC
41845892 TTTTTCTTCATCTCATTTT
1 TTTTTCTTCATCTCATTTT
41845911 TCTTTTCTTCAT-TCAAGTTTT
1 T-TTTTCTTCATCTC-A-TTTT
41845932 TTTTT
1 TTTTT
41845937 TTTGCTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.13
20 15 0.65
21 5 0.22
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTCTTCATCTCATTTT
Found at i:41860572 original size:79 final size:81
Alignment explanation
Indices: 41860463--41860645 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
41860453 TACTCGTTCA
* *
41860463 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
41860526 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
41860543 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
*
41860606 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
41860622 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
41860646 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:41860645 original size:40 final size:40
Alignment explanation
Indices: 41860442--41860645 Score: 247
Period size: 40 Copynumber: 5.1 Consensus size: 40
41860432 CGGAATTTAA
** *
41860442 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41860482 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
41860522 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
41860561 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
41860601 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
41860641 CCGGA
1 CCGGA
41860646 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 95 0.67
41 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:41868560 original size:40 final size:39
Alignment explanation
Indices: 41868523--41868706 Score: 230
Period size: 40 Copynumber: 4.7 Consensus size: 39
41868513 GCTACTCGTT
* *
41868523 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
41868563 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
* *
41868603 CCAATGCCTTCGGG-CTTAGCCCGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* * *
41868641 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
41868682 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41868707 CATCATTCGA
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
37 2 0.02
38 23 0.18
39 19 0.15
40 70 0.56
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:41868651 original size:78 final size:80
Alignment explanation
Indices: 41868525--41868704 Score: 233
Period size: 78 Copynumber: 2.3 Consensus size: 80
41868515 TACTCGTTCA
* **
41868525 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
41868589 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
**
41868605 AATGCCTTCGGG-CTTAGCCCGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
41868668 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
41868683 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
41868705 GACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 3 0.03
78 51 0.58
79 22 0.25
80 12 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:41871257 original size:27 final size:27
Alignment explanation
Indices: 41871218--41871274 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
41871208 TCATGTGAAA
* *
41871218 TTGAATGGCAAATTATTGTTACATGAG
1 TTGAATGGCAAATTACTATTACATGAG
** *
41871245 TTGAATGTTAAATTACTATTACATGGG
1 TTGAATGGCAAATTACTATTACATGAG
41871272 TTG
1 TTG
41871275 TATGAATTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
TTGAATGGCAAATTACTATTACATGAG
Found at i:41883525 original size:39 final size:40
Alignment explanation
Indices: 41883456--41883623 Score: 207
Period size: 39 Copynumber: 4.2 Consensus size: 40
41883446 AACATTGGAA
41883456 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
41883496 ATATATCCGGGCTAA-ACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
41883535 ATATATCCGGGCTAAGA-CCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
41883573 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
41883614 CTATATCCGG
1 ATATATCCGG
41883624 TTAAATCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
38 2 0.02
39 67 0.63
40 38 0.36
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:41883594 original size:79 final size:79
Alignment explanation
Indices: 41883456--41883623 Score: 205
Period size: 79 Copynumber: 2.1 Consensus size: 79
41883446 AACATTGGAA
* * * *
41883456 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTCACAAATCCGGGCTAAACCCGAAGGC
* *
41883521 ATTCGTGCGAGTTG
66 AATCGTGCGAGTCG
* * * *
41883535 ATATATCCGGGCTAAGA-CCGAAGGCCTTTGTGCAAG-TCACCAAATCCGGGTTATGACCCGAAG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTCA-CAAATCCGGGCTA-AACCCGAAG
41883598 GCAATCGTGCGAGTCG
64 GCAATCGTGCGAGTCG
*
41883614 CTATATCCGG
1 ATATATCCGG
41883624 TTAAATCCCG
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
77 2 0.03
78 26 0.34
79 48 0.63
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (79 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTCACAAATCCGGGCTAAACCCGAAGGC
AATCGTGCGAGTCG
Found at i:41886555 original size:9 final size:10
Alignment explanation
Indices: 41886520--41886557 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 10
41886510 TGTTAAGCTC
41886520 AATGAGCTAG
1 AATGAGCTAG
*
41886530 GATGAGCTATG
1 AATGAGCTA-G
41886541 AATGAGCTA-
1 AATGAGCTAG
41886550 AATGAGCT
1 AATGAGCT
41886558 TCTGGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 8 0.32
11 9 0.36
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (10 bp):
AATGAGCTAG
Found at i:41887006 original size:20 final size:19
Alignment explanation
Indices: 41886987--41887024 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41886977 ATTTTTTGGA
*
41886987 AAATGATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
*
41887006 ATATAATTTACTTTTCTGG
1 AAATAATTTACTTTTCTGG
41887025 TGTTTGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (19 bp):
AAATAATTTACTTTTCTGG
Found at i:41890341 original size:24 final size:25
Alignment explanation
Indices: 41890314--41890403 Score: 67
Period size: 25 Copynumber: 3.6 Consensus size: 25
41890304 GTACATGTAT
* *
41890314 GCTTATACGAGCTGTA-AACGGTAA
1 GCTTATACGAGCTGAATAACGGGAA
* *
41890338 GCTTCTCCGAGCTGAATAACGGGAA
1 GCTTATACGAGCTGAATAACGGGAA
* * * *
41890363 GCTCATGCGAG-TGAGTATCGAGGAA
1 GCTTATACGAGCTGAATAACG-GGAA
* *
41890388 GCTCATAAGAGCTGAA
1 GCTTATACGAGCTGAA
41890404 ATCGGTGACT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
24 20 0.39
25 28 0.55
26 3 0.06
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (25 bp):
GCTTATACGAGCTGAATAACGGGAA
Found at i:41890373 original size:25 final size:26
Alignment explanation
Indices: 41890345--41890403 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
41890335 TAAGCTTCTC
*
41890345 CGAGCTGAATAACG-GGAAGCTCATG
1 CGAGCTGAATAACGAGGAAGCTCATA
* *
41890370 CGAG-TGAGTATCGAGGAAGCTCATA
1 CGAGCTGAATAACGAGGAAGCTCATA
*
41890395 AGAGCTGAA
1 CGAGCTGAA
41890404 ATCGGTGACT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 7 0.26
25 17 0.63
26 3 0.11
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (26 bp):
CGAGCTGAATAACGAGGAAGCTCATA
Found at i:41895607 original size:30 final size:30
Alignment explanation
Indices: 41895571--41895630 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
41895561 CATGTGACTA
*
41895571 AATCTTATTCATGAAATATATAATATATAT
1 AATCTTATTCATGAAACATATAATATATAT
41895601 AATCTTATTCATGAAACATATAATATATAT
1 AATCTTATTCATGAAACATATAATATATAT
41895631 CAATACTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (30 bp):
AATCTTATTCATGAAACATATAATATATAT
Found at i:41906539 original size:19 final size:19
Alignment explanation
Indices: 41906512--41906548 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
41906502 CTAAATTGAT
41906512 AAACATATAAAAATTTCAG
1 AAACATATAAAAATTTCAG
* *
41906531 AAACTTATAGAAATTTCA
1 AAACATATAAAAATTTCA
41906549 ATGTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
AAACATATAAAAATTTCAG
Found at i:41908345 original size:38 final size:35
Alignment explanation
Indices: 41908286--41908403 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
41908276 TCAATCATGC
*
41908286 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
41908325 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
*
41908356 ACTGGGCCGATGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
41908387 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
41908404 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 47 0.62
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:41908347 original size:31 final size:31
Alignment explanation
Indices: 41908309--41908403 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
41908299 CCTTTTCATA
*
41908309 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
41908340 TTTCATATTTCATATTACTGGGCCGATGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
41908371 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
41908402 TT
1 TT
41908404 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:41908646 original size:24 final size:24
Alignment explanation
Indices: 41908595--41908713 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
41908585 ACTTTATCAT
*
41908595 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
41908620 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
41908644 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
41908667 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
41908691 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41908714 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:41908674 original size:47 final size:48
Alignment explanation
Indices: 41908595--41908713 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
41908585 ACTTTATCAT
*
41908595 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
41908644 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
41908691 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41908714 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:41908788 original size:20 final size:20
Alignment explanation
Indices: 41908763--41908823 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
41908753 TTATGATTAC
41908763 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
41908783 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
41908803 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
41908823 A
1 A
41908824 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:41908898 original size:25 final size:25
Alignment explanation
Indices: 41908866--41908913 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41908856 ATACATAAAC
* * *
41908866 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41908891 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
41908914 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41910158 original size:27 final size:27
Alignment explanation
Indices: 41910058--41910141 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
41910048 GGGCATATTC
* *
41910058 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
41910085 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41910112 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41910139 GTC
1 GTC
41910142 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:41910230 original size:26 final size:27
Alignment explanation
Indices: 41910201--41910251 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
41910191 GGTAAATCAC
41910201 AAACCAA-AGTATTTC-AGTAATTTTGT
1 AAACCAATAGTATTTCTA-TAATTTTGT
*
41910227 AAACCAATGGTATTTCTATAATTTT
1 AAACCAATAGTATTTCTATAATTTT
41910252 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 14 0.64
28 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (27 bp):
AAACCAATAGTATTTCTATAATTTTGT
Found at i:41910348 original size:54 final size:54
Alignment explanation
Indices: 41910290--41910429 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
41910280 TGTAAATCAG
*
41910290 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAGCCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
41910344 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
41910398 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
41910430 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:41910427 original size:27 final size:27
Alignment explanation
Indices: 41910209--41910456 Score: 144
Period size: 27 Copynumber: 9.1 Consensus size: 27
41910199 ACAAACCAAA
* * *
41910209 GTATTTCAGTAATTTTGTAAACCAATG
1 GTATTTTAGTAATTTTGTAAATCAAGG
41910236 GTATTTCTA-TAATTTT-TAGAAAGTCAAGG
1 GTATTT-TAGTAATTTTGT--AAA-TCAAGG
* *
41910265 GTATTTCT-GTAACTTTGTAAATCAGGG
1 GTATTT-TAGTAATTTTGTAAATCAAGG
* ** **
41910292 GTATTTTGGTAATTTTACAAATTGAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
** *** **
41910319 GTATTTCGGTAATTTCACAAGCCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
* ** *
41910346 GTATTTTGGTAATTTTACAAA-CTAGGG
1 GTATTTTAGTAATTTTGTAAATC-AAGG
* ** *
41910373 GTATTTTGGTAATTTTACAAACCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
*
41910400 GTATTTTAGTAATTTTGTAAATCGAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
*** *
41910427 GTAAAATAGTAATTCTGTAAATCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
41910454 GTA
1 GTA
41910457 AAATAGTAAT
Statistics
Matches: 180, Mismatches: 32, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.02
27 150 0.83
28 8 0.04
29 18 0.10
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GTATTTTAGTAATTTTGTAAATCAAGG
Found at i:41910618 original size:81 final size:81
Alignment explanation
Indices: 41910409--41910690 Score: 351
Period size: 81 Copynumber: 3.5 Consensus size: 81
41910399 GGTATTTTAG
* * *
41910409 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTTATAAA
1 TAATTTAGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTATAAA
* *
41910474 TCGACGGTAAAAC-GA
66 TCAAGGGTAAAACAGA
*
41910489 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTTAGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATT-TATAA
41910554 ATCAAGGGTAAAACAG-
65 ATCAAGGGTAAAACAGA
* * * *
41910570 TAATTTAGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC-GATAATTATGTA
1 TAATTTAGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAG-TAATT-TATA
* *
41910634 AATCAGGGGTAAAA-TGA
64 AATCAAGGGTAAAACAGA
* *
41910651 TAA-TTATGTAAAT-TAGGGGTAAAACGGTAATTCTGTAAAT
1 TAATTTA-GTAAATCGA-GGGTAAAACAGTAATTCTGTAAAT
41910691 TGAGGGTACT
Statistics
Matches: 182, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
80 63 0.35
81 118 0.65
82 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.21, T:0.29
Consensus pattern (81 bp):
TAATTTAGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTTATAAA
TCAAGGGTAAAACAGA
Found at i:41910697 original size:27 final size:27
Alignment explanation
Indices: 41910407--41910698 Score: 319
Period size: 27 Copynumber: 10.9 Consensus size: 27
41910397 AGGGTATTTT
* *
41910407 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
41910434 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
41910461 AGTAATT-TATAAATCGACGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
41910487 -GATAATTTTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
41910514 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
41910541 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
41910568 AGTAATT-TAGTAAATCGAGGGTAAAAC
1 AGTAATTCT-GTAAATCGAGGGTAAAAC
* *
41910595 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
41910622 -GATAATTATGTAAATC-AGGGGTAAAA-
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
41910648 TGATAATTATGTAAAT-TAGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* *
41910676 GGTAATTCTGTAAATTGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
41910699 CTTTGGTAAT
Statistics
Matches: 234, Mismatches: 20, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
25 1 0.00
26 23 0.10
27 206 0.88
28 4 0.02
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:41910725 original size:27 final size:27
Alignment explanation
Indices: 41910695--41910793 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
41910685 GTAAATTGAG
*
41910695 GGTACTTT-GGTAATTTTACAAGTCGAA
1 GGTA-TTTCGGTAATTTTACAAATCGAA
* *
41910722 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAA
* * *
41910749 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCGGTAATTTTACAAATCGAA
41910775 GGGTATTTCGGTAATTTTA
1 -GGTATTTCGGTAATTTTA
41910794 GTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAA
Found at i:41910733 original size:54 final size:53
Alignment explanation
Indices: 41910687--41910791 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
41910677 GTAATTCTGT
* * *
41910687 AAATTGAGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGT-AATTTAC
* *
41910741 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTT
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTT
41910792 TAGTAAACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.25
54 33 0.75
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (53 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAATTTAC
Found at i:41910807 original size:27 final size:27
Alignment explanation
Indices: 41910704--41910808 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
41910694 GGGTACTTTG
* * *
41910704 GTAATTTTACAAGTCGAAG-GTATTTCG
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
41910731 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
41910758 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
41910785 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
41910809 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:41913559 original size:38 final size:35
Alignment explanation
Indices: 41913500--41913617 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
41913490 TCAATCATGC
*
41913500 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
41913539 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
*
41913570 ACTGGGCCGATGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
41913601 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
41913618 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 47 0.62
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:41913561 original size:31 final size:31
Alignment explanation
Indices: 41913523--41913617 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
41913513 CCTTTTCATA
*
41913523 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
*
41913554 TTTCATATTTCATATTACTGGGCCGATGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
41913585 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
41913616 TT
1 TT
41913618 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:41913860 original size:24 final size:24
Alignment explanation
Indices: 41913809--41913927 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
41913799 GCTTTATCAT
*
41913809 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
41913834 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
41913858 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
41913881 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
41913905 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41913928 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:41913888 original size:47 final size:48
Alignment explanation
Indices: 41913809--41913927 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
41913799 GCTTTATCAT
*
41913809 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
41913858 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
41913905 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41913928 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:41914002 original size:20 final size:20
Alignment explanation
Indices: 41913977--41914037 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
41913967 TTATGATTAC
41913977 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
41913997 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
41914017 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
41914037 A
1 A
41914038 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:41915375 original size:27 final size:27
Alignment explanation
Indices: 41915284--41915364 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
41915274 GGGCATATTC
* *
41915284 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
41915311 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41915338 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
41915365 ATCTTTTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:41915459 original size:27 final size:27
Alignment explanation
Indices: 41915429--41915480 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
41915419 GTAAATCTAC
41915429 AAACCAAAAGTATTTC-AGTAATTTTGT
1 AAACCAAAAGTATTTCTA-TAATTTTGT
**
41915456 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAAGTATTTCTATAATTTT
41915481 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (27 bp):
AAACCAAAAGTATTTCTATAATTTTGT
Found at i:41915577 original size:54 final size:54
Alignment explanation
Indices: 41915519--41915658 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
41915509 TGTAAATCAG
*
41915519 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAGCCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
41915573 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* ** *
41915627 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
41915659 AAATAGTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:41915656 original size:27 final size:27
Alignment explanation
Indices: 41915438--41915685 Score: 144
Period size: 27 Copynumber: 9.1 Consensus size: 27
41915428 CAAACCAAAA
* * *
41915438 GTATTTCAGTAATTTTGTAAACCAATG
1 GTATTTTAGTAATTTTGTAAATCAAGG
41915465 GTATTTCTA-TAATTTT-TAGAAAGTCAAGG
1 GTATTT-TAGTAATTTTGT--AAA-TCAAGG
* *
41915494 GTATTTCT-GTAACTTTGTAAATCAGGG
1 GTATTT-TAGTAATTTTGTAAATCAAGG
* ** **
41915521 GTATTTTGGTAATTTTACAAATTGAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
** *** **
41915548 GTATTTCGGTAATTTCACAAGCCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
* ** *
41915575 GTATTTTGGTAATTTTACAAA-CTAGGG
1 GTATTTTAGTAATTTTGTAAATC-AAGG
* ** *
41915602 GTATTTTGGTAATTTTACAAACCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
*
41915629 GTATTTTAGTAATTTTGTAAATCGAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
*** *
41915656 GTAAAATAGTAATTCTGTAAATCAAGG
1 GTATTTTAGTAATTTTGTAAATCAAGG
41915683 GTA
1 GTA
41915686 ACATAGTAAT
Statistics
Matches: 180, Mismatches: 32, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.02
27 150 0.83
28 8 0.04
29 18 0.10
30 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GTATTTTAGTAATTTTGTAAATCAAGG
Found at i:41915668 original size:54 final size:54
Alignment explanation
Indices: 41915610--41915926 Score: 235
Period size: 54 Copynumber: 5.9 Consensus size: 54
41915600 GGGTATTTTG
* * ***
41915610 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATA
* * * * * * *
41915664 GTAATTCTGTAAATCAAGGGTAACATAGTAATTCTATAAATCGACGGTAAAA-C
1 GTAATTTTATAAATCAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATA
* * * * * *
41915717 GATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 G-TAATTTTATAAATCAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATA
* * * **
41915772 GTAATTCTATAAATCAAGGGTAAAACAGTAATTTAGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATA
* * * * * * **
41915826 GTAATTCTGTAAGTCGAGGGTAAAA-CGATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTTTATAAATCAAGGGTAAAATAG-TAATTTTGTAAATCGA-GGGTAAAATA
* * * * ** * *
41915880 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATTGAGGG
1 GTAATTTTATAAATCAAGGGTAAAATAGTAATTTTGTAAATCGAGGG
41915927 CACTTTGGTA
Statistics
Matches: 217, Mismatches: 40, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
53 3 0.01
54 211 0.97
55 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (54 bp):
GTAATTTTATAAATCAAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATA
Found at i:41915686 original size:27 final size:27
Alignment explanation
Indices: 41915636--41915920 Score: 324
Period size: 27 Copynumber: 10.6 Consensus size: 27
41915626 AGGGTATTTT
* * *
41915636 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
41915663 AGTAATTCTGTAAATCAAGGGTAACAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
41915690 AGTAATTCTATAAATCGACGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
41915717 -GATAATTTTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
41915744 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
41915771 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
41915798 AGTAATT-TAGTAAATCGAGGGTAAAAC
1 AGTAATTCT-GTAAATCAAGGGTAAAAC
* * *
41915825 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
41915852 -GATAATTATGTAAATCAGGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * * *
41915879 GGTAATTATGTAAATTAGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
41915906 GGTAATTCTGTAAAT
1 AGTAATTCTGTAAAT
41915921 TGAGGGCACT
Statistics
Matches: 228, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.01
27 222 0.97
28 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:41915963 original size:27 final size:27
Alignment explanation
Indices: 41915933--41916000 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
41915923 AGGGCACTTT
*
41915933 GGTAATTTTACAAGTCGAAT-GTATTTC
1 GGTAATTTTACAAATCG-ATGGTATTTC
*
41915960 GGTAAATTTACAAATCGATGGTATTTC
1 GGTAATTTTACAAATCGATGGTATTTC
* *
41915987 AGTATTTTTACAAA
1 GGTAATTTTACAAA
41916001 CTAAGGGTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATCGATGGTATTTC
Found at i:41923711 original size:27 final size:27
Alignment explanation
Indices: 41923681--41923859 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
41923671 TTAGTTTACC
41923681 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
41923708 AAATTACCAAAATACCCCCGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
41923735 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
41923762 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
41923789 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
41923816 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
41923843 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
41923860 TCGACCTGTG
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:41923813 original size:81 final size:81
Alignment explanation
Indices: 41923681--41923932 Score: 281
Period size: 81 Copynumber: 3.1 Consensus size: 81
41923671 TTAGTTTACC
* * ** *
41923681 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCCGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
*
41923746 ATACCCTTGGTTTATA
66 ATACCCTTGATTTATA
41923762 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
* * *
41923827 ATACCCCTGATTTGTG
66 ATACCCTTGATTTATA
** * *** * ** * *
41923843 AAATTACTGAAATACCCTCGACCTGTGAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACCAA
* * *
41923907 AGTACCCTTAATTTACA
65 AATACCCTTGATTTATA
41923924 AAATTACCA
1 AAATTACCA
41923933 TTTTACCCTC
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
80 5 0.04
81 137 0.96
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCTTGATTTATA
Found at i:41923912 original size:27 final size:27
Alignment explanation
Indices: 41923681--41923967 Score: 238
Period size: 27 Copynumber: 10.6 Consensus size: 27
41923671 TTAGTTTACC
*
41923681 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
41923708 AAATTACCAAAATACCCCCGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
41923735 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
41923762 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
41923789 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
41923816 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** ** *
41923843 AAATTACTGAAATACCCTCGACCTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
41923870 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* ** **
41923897 AAATTACCAAAGTACCCTTAATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*** **
41923924 AAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
41923951 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
41923968 CTGTAGGGTA
Statistics
Matches: 218, Mismatches: 38, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
27 215 0.99
28 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:41923982 original size:27 final size:27
Alignment explanation
Indices: 41923952--41924308 Score: 493
Period size: 27 Copynumber: 13.3 Consensus size: 27
41923942 CGATTTACAA
41923952 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41923979 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
41924006 AATTATCGAAATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
41924033 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41924060 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
41924087 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
41924114 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
41924141 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
41924168 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
41924195 AATTACTGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
41924222 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
41924249 AATTACTAAAATACCCCTGTAAGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
41924276 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
41924302 AATTACC
1 AATTACC
41924309 ATTTTGCCCC
Statistics
Matches: 290, Mismatches: 38, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
26 15 0.05
27 274 0.94
28 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Done.