Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 189 of 345
Found at i:53492867 original size:29 final size:29
Alignment explanation
Indices: 53492834--53492965 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
53492824 GTGACGAGAT
*
53492834 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
53492863 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
53492892 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
53492921 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
53492950 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
53492966 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:53499000 original size:40 final size:40
Alignment explanation
Indices: 53498955--53499084 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
53498945 CGGAATACAA
53498955 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
53498995 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
53499035 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
53499075 CCGGATATAA
1 CCGGATATAA
53499085 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:53499099 original size:40 final size:40
Alignment explanation
Indices: 53498971--53499122 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
53498961 ATAAGCATGT
* * *
53498971 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
53499011 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
53499051 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
53499091 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
53499123 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:53499105 original size:80 final size:80
Alignment explanation
Indices: 53498971--53499122 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
53498961 ATAAGCATGT
* *
53498971 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
53499036 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
53499051 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
53499114 CCCGGATAT
64 CCCGGATAT
53499123 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:53510847 original size:40 final size:40
Alignment explanation
Indices: 53510792--53511009 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
53510782 CGGATGATAA
* *
53510792 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
53510832 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53510872 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
53510912 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53510952 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
53510992 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53511010 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53519159 original size:40 final size:40
Alignment explanation
Indices: 53519104--53519319 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
53519094 CGGATGATAA
* *
53519104 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
53519144 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
53519184 CCGGGCT-AGTCCCG-AGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
53519222 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
53519262 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
53519302 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53519320 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 10, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
38 31 0.19
39 30 0.19
40 100 0.62
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:53519249 original size:78 final size:80
Alignment explanation
Indices: 53519100--53519319 Score: 324
Period size: 78 Copynumber: 2.8 Consensus size: 80
53519090 TATTCGGATG
* *
53519100 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
53519164 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* *
53519180 ATATCCGGGCT-AGTCCCG-AGGCATTTGTGCGAGTTACTATATCCGGGCTAGGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
53519243 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* * *
53519258 ATAACTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
53519320 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
78 64 0.50
79 31 0.24
80 32 0.25
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:53519315 original size:118 final size:118
Alignment explanation
Indices: 53519104--53519316 Score: 315
Period size: 118 Copynumber: 1.8 Consensus size: 118
53519094 CGGATGATAA
* *
53519104 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTG
* *
53519169 TGCGAGTTACTATATCCGGGCTAGTCCCGAGGCATTTGTGCGAGTTACTATAT
66 AGCGAGTTACTATATCCGGGCTAATCCCGAGGCATTTGTGCGAGTTACTATAT
* * *
53519222 CCGGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGCATTT
53519286 GAGCGAG-TAGCTATATCC-GGCTAAATCCCGA
65 GAGCGAGTTA-CTATATCCGGGCT-AATCCCGA
53519317 AGGTACTTGG
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
117 8 0.09
118 77 0.91
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (118 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTTACTATATCCGGGCTAATCCCGAGGCATTTGTGCGAGTTACTATAT
Found at i:53524714 original size:44 final size:43
Alignment explanation
Indices: 53524651--53524761 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 43
53524641 CATGTATCAT
*
53524651 ATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGCTCGC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCCGATGC-CGC
*
53524695 ATCCATAATGAACTCGGACCAACTCAACGAGCTCCGATGCCTC
1 ATCCATAATGAACTCGGACCAACTCAACGAGCTCCGATGCCGC
* *
53524738 ATACATATCATGAACCCGGACCAA
1 ATCCATA--ATGAACTCGGACCAA
53524762 TTTAATGAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 8 0.13
44 39 0.64
45 14 0.23
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.18
Consensus pattern (43 bp):
ATCCATAATGAACTCGGACCAACTCAACGAGCTCCGATGCCGC
Found at i:53527893 original size:40 final size:40
Alignment explanation
Indices: 53527816--53528033 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
53527806 AAACCAAGTA
* * *
53527816 CCTTCGGGATTTAG-CCGGATATAGCT-ACTAGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * **
53527855 CCATCGGGACTTAGCCCGGTTATAGTAACTTTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
53527895 CCTTCGGGACCTATCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53527935 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
53527975 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
53528015 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53528034 TTATCATCCG
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 146 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53536205 original size:37 final size:37
Alignment explanation
Indices: 53536155--53536240 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
53536145 TTATTACGAA
53536155 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
53536192 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53536229 GTCTCACCCGGA
1 GTCTTACCCGGA
53536241 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:53536372 original size:48 final size:48
Alignment explanation
Indices: 53536289--53536604 Score: 524
Period size: 48 Copynumber: 6.6 Consensus size: 48
53536279 ACAACATTCT
* * * * *
53536289 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * *
53536337 CATTCGCCATTCGGCTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
*
53536385 CATTAGCCATTCGGCTTTACCACATATACACATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
53536433 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
53536481 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
53536529 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
53536577 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
53536605 TACACTTTCA
Statistics
Matches: 255, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 255 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:53541002 original size:40 final size:40
Alignment explanation
Indices: 53540947--53541156 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
53540937 AACATTGGAA
53540947 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53540987 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
53541027 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
53541067 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
53541106 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
53541147 CTATATCCGG
1 ATATATCCGG
53541157 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:53549884 original size:23 final size:23
Alignment explanation
Indices: 53549858--53549904 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
53549848 CTATTATACG
53549858 AACTAACTAAGCATTAAATGCTT
1 AACTAACTAAGCATTAAATGCTT
*
53549881 AACTTACTAAGCATTAAATGCTT
1 AACTAACTAAGCATTAAATGCTT
53549904 A
1 A
53549905 CTAGGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.32
Consensus pattern (23 bp):
AACTAACTAAGCATTAAATGCTT
Found at i:53559570 original size:19 final size:19
Alignment explanation
Indices: 53559529--53559571 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
53559519 AATAAACTCA
*
53559529 TATAAGCAATTAAACACAT
1 TATAAGCAATTAAACACAG
* *
53559548 TATAAGCAATTACACATAG
1 TATAAGCAATTAAACACAG
53559567 TATAA
1 TATAA
53559572 CATAATTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.07, T:0.28
Consensus pattern (19 bp):
TATAAGCAATTAAACACAG
Found at i:53561507 original size:43 final size:43
Alignment explanation
Indices: 53561459--53561615 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
53561449 AGCTCGTACA
*
53561459 ATGCCAACGTCCCATACGTCGTCTTACATGTAATCAAATATTG
1 ATGCCAACGTCCCATACGTGGTCTTACATGTAATCAAATATTG
* * ** * *
53561502 ATGCC-ACTGTTCCAGACAAGGTCTTACATGAAATCAAATA-CG
1 ATGCCAAC-GTCCCATACGTGGTCTTACATGTAATCAAATATTG
* * * *
53561544 ATACCAATGTCCCAGT-CGTGGTCTTACACGTAAATCATAA-GTTG
1 ATGCCAACGTCCCA-TACGTGGTCTTACATGT-AATCA-AATATTG
* * *
53561588 ATGCCAACGTCCCAGATGTGGTTTTACA
1 ATGCCAACGTCCCATACGTGGTCTTACA
53561616 CGATAACACA
Statistics
Matches: 85, Mismatches: 22, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
42 23 0.27
43 37 0.44
44 25 0.29
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCATACGTGGTCTTACATGTAATCAAATATTG
Found at i:53565884 original size:46 final size:46
Alignment explanation
Indices: 53565834--53566009 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53565824 TGGTTGAGCA
53565834 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53565880 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53565925 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53565973 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53566010 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53565990 original size:93 final size:93
Alignment explanation
Indices: 53565831--53566002 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53565821 GGATGGTTGA
* *
53565831 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53565896 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53565924 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53565989 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53566003 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53570602 original size:29 final size:29
Alignment explanation
Indices: 53570560--53570618 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
53570550 GAACAGGCCA
53570560 TGTACCTCACAAGGCTTTAGACACGCCCG
1 TGTACCTCACAAGGCTTTAGACACGCCCG
53570589 TGTACCTCACAAGGCTTTAGACACGCCCG
1 TGTACCTCACAAGGCTTTAGACACGCCCG
53570618 T
1 T
53570619 ATGTCTAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.34, G:0.20, T:0.22
Consensus pattern (29 bp):
TGTACCTCACAAGGCTTTAGACACGCCCG
Found at i:53572537 original size:40 final size:39
Alignment explanation
Indices: 53572492--53572699 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
53572482 CGGAATACAA
*
53572492 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
53572532 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
53572572 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
53572612 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
53572652 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
53572692 CCGGATAT
1 CCGGATAT
53572700 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:53572632 original size:80 final size:81
Alignment explanation
Indices: 53572492--53572697 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
53572482 CGGAATACAA
* * *
53572492 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
53572556 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
53572572 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
53572635 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
53572652 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
53572698 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:53580682 original size:40 final size:40
Alignment explanation
Indices: 53580637--53580841 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
53580627 CGGAATACAA
*
53580637 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
53580677 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAG-
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
53580716 -CGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
53580755 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
** * ** * *
53580795 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAG-
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
53580834 CCGGATAT
1 CCGGATAT
53580842 CATTCAATTG
Statistics
Matches: 138, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
38 33 0.24
39 10 0.07
40 93 0.67
41 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:53580731 original size:38 final size:38
Alignment explanation
Indices: 53580638--53580754 Score: 153
Period size: 38 Copynumber: 3.0 Consensus size: 38
53580628 GGAATACAAC
* *
53580638 CGGATATAACCACATGCACGAATGCCTTCGGGTCTTAG
1 CGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
* * * *
53580676 CCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAG
1 --CGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
*
53580716 CGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
53580754 C
1 C
53580755 CCGGATGTAG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
38 34 0.51
40 33 0.49
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (38 bp):
CGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAG
Found at i:53580775 original size:78 final size:78
Alignment explanation
Indices: 53580638--53580788 Score: 216
Period size: 78 Copynumber: 1.9 Consensus size: 78
53580628 GGAATACAAC
* *
53580638 CGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGC
1 CGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGC
53580703 CTTCGGGTATTAG
66 CTTCGGGTATTAG
* * * *
53580716 CGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAATT
1 CGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAAT
53580779 GCCTTCGGGT
64 GCCTTCGGGT
53580789 CTTAACCCGG
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
76 1 0.02
77 2 0.03
78 62 0.95
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (78 bp):
CGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGC
CTTCGGGTATTAG
Found at i:53583288 original size:123 final size:123
Alignment explanation
Indices: 53583069--53583407 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
53583059 GAATTATGTG
53583069 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
53583134 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
53583192 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
53583257 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
53583315 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
53583380 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
53583408 AATTATATCC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 208 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:53583431 original size:40 final size:40
Alignment explanation
Indices: 53583376--53583539 Score: 202
Period size: 40 Copynumber: 4.1 Consensus size: 40
53583366 TGAATGATAC
* * * * *
53583376 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
* *
53583416 CCGGGTTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
* *
53583456 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
* * ** *
53583496 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
53583536 CCGG
1 CCGG
53583540 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
Found at i:53590839 original size:123 final size:123
Alignment explanation
Indices: 53590620--53590958 Score: 606
Period size: 123 Copynumber: 2.8 Consensus size: 123
53590610 GAATTATGTG
53590620 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
53590685 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
53590743 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
53590808 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
* * * * *
53590866 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
53590931 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
53590959 AATTATATCC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 208 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
Found at i:53590982 original size:40 final size:40
Alignment explanation
Indices: 53590927--53591090 Score: 202
Period size: 40 Copynumber: 4.1 Consensus size: 40
53590917 TGAATGATAC
* * * * *
53590927 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
* *
53590967 CCGGGTTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
* *
53591007 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
* * ** *
53591047 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
53591087 CCGG
1 CCGG
53591091 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTTATAT
Found at i:53599983 original size:43 final size:42
Alignment explanation
Indices: 53599824--53599984 Score: 166
Period size: 43 Copynumber: 3.8 Consensus size: 42
53599814 GATGTGTGAT
* * * *
53599824 TTTATGTAAGACCACATTTGGGACGTTGGCATCAATTTTTGA
1 TTTATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA
* * *
53599866 TTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTTGA
1 TTTA--TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA
*
53599909 TTTCATGTAAGACC-CTGTCTTGGACAG-TGGCATCGATATTTGA
1 TTT-ATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGA
*
53599952 TTATATGTAAGACCACGTCTGGGATGTTGGCAT
1 TT-TATGTAAGACCACGTCTGGGACGTTGGCAT
53599985 TGTACGAGAT
Statistics
Matches: 97, Mismatches: 13, Indels: 17
0.76 0.10 0.13
Matches are distributed among these distances:
42 29 0.30
43 41 0.42
44 27 0.28
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
TTTATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGA
Found at i:53603472 original size:20 final size:19
Alignment explanation
Indices: 53603422--53603472 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 19
53603412 TAGCTCCAAT
*
53603422 CAGCTCACTTAAGCTTCTTC
1 CAGCTCA-TTTAGCTTCTTC
53603442 CAGCTCGATTTAGCTTCTTTC
1 CAGCTC-ATTTAGCTTC-TTC
53603463 CAGCTCATTT
1 CAGCTCATTT
53603473 CTTTTTCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.18, C:0.31, G:0.12, T:0.39
Consensus pattern (19 bp):
CAGCTCATTTAGCTTCTTC
Found at i:53603481 original size:17 final size:20
Alignment explanation
Indices: 53603435--53603481 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
53603425 CTCACTTAAG
53603435 CTTC-TTCCAGCTCGATTTA
1 CTTCTTTCCAGCTCGATTTA
53603454 GCTTCTTTCCAGCTC-ATTT-
1 -CTTCTTTCCAGCTCGATTTA
53603473 CTT-TTTCCA
1 CTTCTTTCCA
53603482 TTTCAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.23
18 3 0.12
20 8 0.31
21 9 0.35
ACGTcount: A:0.13, C:0.32, G:0.09, T:0.47
Consensus pattern (20 bp):
CTTCTTTCCAGCTCGATTTA
Found at i:53612436 original size:46 final size:46
Alignment explanation
Indices: 53612380--53612558 Score: 238
Period size: 46 Copynumber: 3.9 Consensus size: 46
53612370 GGATATTTGG
53612380 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
53612426 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
53612472 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
53612519 ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53612559 GCGGGTTACA
Statistics
Matches: 115, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 70 0.61
47 33 0.29
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:53612538 original size:93 final size:93
Alignment explanation
Indices: 53612379--53612550 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
53612369 GGGATATTTG
* **
53612379 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
53612444 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53612472 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
53612537 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53612551 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53615624 original size:47 final size:47
Alignment explanation
Indices: 53615570--53615760 Score: 321
Period size: 47 Copynumber: 4.1 Consensus size: 47
53615560 CCTAACCTCT
*
53615570 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
53615617 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
53615664 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGTATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
53615711 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
53615758 TTT
1 TTT
53615761 TGCACTTCCT
Statistics
Matches: 134, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
46 22 0.16
47 90 0.67
48 22 0.16
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:53615762 original size:24 final size:24
Alignment explanation
Indices: 53615549--53615761 Score: 326
Period size: 24 Copynumber: 9.0 Consensus size: 24
53615539 GCTTTATCAT
*
53615549 ATAACTGGAGGCCTAA-CCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
53615574 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53615598 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
53615621 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
53615645 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
53615669 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
53615692 ATAACTGGGGTATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
53615715 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
53615739 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53615762 GCACTTCCTC
Statistics
Matches: 177, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 66 0.37
24 101 0.57
25 10 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:53615833 original size:9 final size:9
Alignment explanation
Indices: 53615819--53615875 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
53615809 ATCTCATGTG
53615819 CATATCATA
1 CATATCATA
*
53615828 CATATCATGTG
1 CATATCA--TA
53615839 CATATCATA
1 CATATCATA
* *
53615848 CATGTCATGTG
1 CATATCA--TA
53615859 CATATCATA
1 CATATCATA
53615868 CATATCAT
1 CATATCAT
53615876 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:53615835 original size:20 final size:20
Alignment explanation
Indices: 53615807--53615877 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
53615797 GCATTTATGA
*
53615807 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
53615827 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
53615847 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
53615867 ACATATCATGT
1 ACATATCATGT
53615878 TTATCAAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:53615842 original size:11 final size:11
Alignment explanation
Indices: 53615812--53615866 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
53615802 TATGAACATC
53615812 TCATGTGCATA
1 TCATGTGCATA
*
53615823 TCA--TACATA
1 TCATGTGCATA
53615832 TCATGTGCATA
1 TCATGTGCATA
* *
53615843 TCA--TACATG
1 TCATGTGCATA
53615852 TCATGTGCATA
1 TCATGTGCATA
53615863 TCAT
1 TCAT
53615867 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:53615941 original size:25 final size:25
Alignment explanation
Indices: 53615913--53615960 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53615903 ATGTATAAAC
* * *
53615913 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGAAAAACGGTCATTTTTA
53615938 CCTAGGGGAAAAACGGTCATTTT
1 CCTAGGGGAAAAACGGTCATTTT
53615961 CATATTATAA
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:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGAAAAACGGTCATTTTTA
Found at i:53618373 original size:44 final size:42
Alignment explanation
Indices: 53618310--53618404 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
53618300 TATGTTATCA
*
53618310 TGTAAGACCAAGTCTGGGACGTCGGAATCG-ACTTATGATTTACG
1 TGTAAGACCAAGTCTGGGACGTCAGAATCGTA-TT-TGATTT-CG
* * * *
53618354 TGTAAGACCACGTTTGGGACGTTAGCATCGTATTTGATTTCG
1 TGTAAGACCAAGTCTGGGACGTCAGAATCGTATTTGATTTCG
53618396 TGTAAGACC
1 TGTAAGACC
53618405 CTTTCTAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 11 0.24
43 6 0.13
44 27 0.60
45 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCAAGTCTGGGACGTCAGAATCGTATTTGATTTCG
Found at i:53618464 original size:42 final size:42
Alignment explanation
Indices: 53618308--53618465 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 42
53618298 TATATGTTAT
* * *
53618308 CATGTAAGACCAAGTCTGGGACGTCGGAATCG-ACTTATGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGTA-TT-TGA-TTA
* * * *
53618352 CGTGTAAGACCACGTTTGGGACGTTAGCATCGTATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTA
* * **
53618394 CGTGTAAGACC-CTTTCTAAGACAG-TGGCATCGTTATTTGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTA
53618437 CATGTAAGA-CACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
53618466 TGTACGAGAT
Statistics
Matches: 91, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.02
42 38 0.42
43 22 0.24
44 28 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTA
Found at i:53621178 original size:30 final size:30
Alignment explanation
Indices: 53621142--53621201 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
53621132 TTCCCGAGCC
*
53621142 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
53621172 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
53621202 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:53628647 original size:30 final size:30
Alignment explanation
Indices: 53628607--53628666 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
53628597 TTCCTGAGCC
*
53628607 TAGGGACAAAAGTGTAATTATGCAAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
* * *
53628637 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
53628667 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGACAAAAATGTAATTATGCAAAAGTT
Found at i:53636361 original size:42 final size:42
Alignment explanation
Indices: 53636259--53636400 Score: 160
Period size: 44 Copynumber: 3.3 Consensus size: 42
53636249 TGTGTTATCA
* * *
53636259 TGTAAGACCACGTCTGGGACATCGGCATCGAATTATGATTTACG
1 TGTAAGACCACGTTTGGGACATTGGCATCGTATT-TGATTT-CG
* *
53636303 TGTAACACCACGTTTGGGACATTAGCATCGTATTTGATTTCG
1 TGTAAGACCACGTTTGGGACATTGGCATCGTATTTGATTTCG
* * * *
53636345 TGTAAGACC-CTTTTTGGGACAGTGGCATCAGTATTTGATTACA
1 TGTAAGACCAC-GTTTGGGACATTGGCATC-GTATTTGATTTCG
53636388 TGTAAGACCACGT
1 TGTAAGACCACGT
53636401 CTAGGACGTT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 25 0.30
43 27 0.33
44 30 0.36
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTTTGGGACATTGGCATCGTATTTGATTTCG
Found at i:53643561 original size:40 final size:40
Alignment explanation
Indices: 53643478--53643644 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
53643468 AAATTGAATG
* * * ** *
53643478 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
53643518 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
53643558 ATATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
53643597 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
53643637 ATATCCGG
1 ATATCCGG
53643645 TTATATTCCG
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
38 3 0.03
39 31 0.30
40 68 0.65
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:53649167 original size:92 final size:92
Alignment explanation
Indices: 53649010--53649178 Score: 304
Period size: 92 Copynumber: 1.8 Consensus size: 92
53649000 GGATGGTTGA
*
53649010 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
53649075 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
53649102 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGTCCGAACTCGTTGAGT
53649166 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
53649179 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 61 0.82
93 13 0.18
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53649182 original size:45 final size:46
Alignment explanation
Indices: 53649013--53649183 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 46
53649003 TGGTTGAGCA
*
53649013 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
53649058 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
53649103 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
53649151 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53649184 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 63 0.58
47 29 0.27
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:53656709 original size:47 final size:46
Alignment explanation
Indices: 53656592--53656714 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 46
53656582 GGATGGTTGA
53656592 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
53656639 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
53656682 AGGCATCCGAACTCGTTGAGTTGAGTCCAAGTT
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTT
53656715 AACGCCCGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
42 3 0.04
43 5 0.07
44 1 0.01
45 30 0.45
47 28 0.42
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:53666040 original size:40 final size:40
Alignment explanation
Indices: 53665985--53666133 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 40
53665975 TGAATGATAC
* * *
53665985 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* * *
53666025 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGATTATAT
* * * ** *
53666065 CCGAGCTAAAGACCCGAAGGCAATTGTGCAAGTCACCAAAT
1 CCGGGCT-AAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* *
53666106 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
53666134 TTGTGGTTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
40 60 0.67
41 30 0.33
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
Found at i:53677130 original size:39 final size:39
Alignment explanation
Indices: 53677087--53677163 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
53677077 CCGGACATAT
* *
53677087 TTCCAGCACGTAGCCTGCAGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCAGACCCTAAGTCCAGATATAA
* *
53677126 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 TTCCAGCACATAGCCTGCAGACCCTAAGTCCAGATATA
53677164 CATCACTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCAGACCCTAAGTCCAGATATAA
Found at i:53681553 original size:28 final size:28
Alignment explanation
Indices: 53681507--53681575 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53681497 TTTAAAACCC
*
53681507 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53681534 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53681562 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53681576 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53683227 original size:20 final size:20
Alignment explanation
Indices: 53683204--53683241 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53683194 CACATCCAAA
*
53683204 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
53683224 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
53683242 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:53689561 original size:28 final size:28
Alignment explanation
Indices: 53689515--53689583 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53689505 TTTAAAACCC
*
53689515 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53689542 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53689570 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53689584 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53691224 original size:20 final size:20
Alignment explanation
Indices: 53691201--53691238 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53691191 CACATCCAAA
*
53691201 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
53691221 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
53691239 GCGNCTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:53695326 original size:28 final size:29
Alignment explanation
Indices: 53695294--53695392 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
53695284 ATAATAAGCC
*
53695294 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
53695322 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
53695350 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
53695379 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53695393 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:53703379 original size:28 final size:28
Alignment explanation
Indices: 53703308--53703381 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
53703298 ATAATAAGCC
* *
53703308 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
53703336 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
53703364 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
53703382 CAATTTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53706385 original size:28 final size:28
Alignment explanation
Indices: 53706352--53706416 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
53706342 CGTGTCTATG
53706352 GCCCGTGTCCCTCACACGGCCATGACAC
1 GCCCGTGTCCCTCACACGGCCATGACAC
*
53706380 GCCCGTGTCCCTCACACGGCTATGACAC
1 GCCCGTGTCCCTCACACGGCCATGACAC
53706408 GCCCGTGTC
1 GCCCGTGTC
53706417 TAAAAACCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.15, C:0.45, G:0.23, T:0.17
Consensus pattern (28 bp):
GCCCGTGTCCCTCACACGGCCATGACAC
Found at i:53707539 original size:46 final size:45
Alignment explanation
Indices: 53707470--53707636 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 45
53707460 GAGGCCGATT
* * * *
53707470 CATGCCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTC-GATG
1 CATGTCCCAAACATGTCTTACACTAGCT-TCATCTC-ATGGCTGATG
* * *
53707516 CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCGA-GGCTAATG
1 CATGTCCCAAACATGTCTTACACTAGCTT---CATCTC-ATGGCTGATG
* *
53707564 CATGTCCCAAACATGTCTTACACTGGCTTTCATACT-GTGGCTGATG
1 CATGTCCCAAACATGTCTTACACTAGC-TTCAT-CTCATGGCTGATG
53707610 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
53707637 ACACATATCA
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 60 0.59
47 4 0.04
48 35 0.34
49 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (45 bp):
CATGTCCCAAACATGTCTTACACTAGCTTCATCTCATGGCTGATG
Found at i:53707574 original size:48 final size:46
Alignment explanation
Indices: 53707513--53707633 Score: 188
Period size: 48 Copynumber: 2.6 Consensus size: 46
53707503 CTCAATGTCG
53707513 ATGCATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCGAGGCTA
1 ATGCATGTCCCAAACATGTCTTACACTGGCTTAAATA-CT-GAGGCTA
** * *
53707561 ATGCATGTCCCAAACATGTCTTACACTGGCTTTCATACTGTGGCTG
1 ATGCATGTCCCAAACATGTCTTACACTGGCTTAAATACTGAGGCTA
53707607 ATGCATGTCCCAAACATGTCTTACACT
1 ATGCATGTCCCAAACATGTCTTACACT
53707634 AGCACACATA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 32 0.46
47 2 0.03
48 35 0.51
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (46 bp):
ATGCATGTCCCAAACATGTCTTACACTGGCTTAAATACTGAGGCTA
Found at i:53712709 original size:93 final size:93
Alignment explanation
Indices: 53712550--53712721 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
53712540 CGCCCATAAG
* * *
53712550 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53712615 ACGAGTTCGGATGCCTAGTTACATCTTA
66 ACGAGTTCGGATGCCTAGTTACATCTTA
* *
53712643 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53712708 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
53712722 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTTA
Found at i:53712718 original size:46 final size:46
Alignment explanation
Indices: 53712543--53712718 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
53712533 TGTAACCCGC
* * * *
53712543 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
53712589 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
53712639 -C-TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
53712682 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
53712719 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:53712737 original size:46 final size:46
Alignment explanation
Indices: 53712551--53712737 Score: 147
Period size: 46 Copynumber: 4.0 Consensus size: 46
53712541 GCCCATAAGC
* ** * *
53712551 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
* *
53712597 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTTA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCTAGT
* * *
53712644 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCTAGT
53712690 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
53712736 GA
1 GA
53712738 TATGTCACTT
Statistics
Matches: 113, Mismatches: 13, Indels: 30
0.72 0.08 0.19
Matches are distributed among these distances:
44 8 0.07
45 3 0.03
46 61 0.54
47 31 0.27
48 1 0.01
49 4 0.04
50 5 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:53715775 original size:29 final size:29
Alignment explanation
Indices: 53715679--53715833 Score: 113
Period size: 29 Copynumber: 5.4 Consensus size: 29
53715669 TCTCATTTCA
* * *
53715679 CACACTTAGTGCC-CACTGACCGATCTCG
1 CACACATAGTGCCTCAATTACCGATCTCG
* ** * *
53715707 CACACATAGCG-CTCGGTTGA-AGAACTCG
1 CACACATAGTGCCTCAATT-ACCGATCTCG
*
53715735 CACACATAGTGCCTCAATTACCGATCTCA
1 CACACATAGTGCCTCAATTACCGATCTCG
** **
53715764 CACACATAGTG-CTCGGTTAAAGGAAT-TCG
1 CACACATAGTGCCTCAATT-ACCG-ATCTCG
* *
53715793 CACACACAGTGCCTCAATTACTGATCTCG
1 CACACATAGTGCCTCAATTACCGATCTCG
53715822 CACACATAGTGC
1 CACACATAGTGC
53715834 TCGGTTAAAG
Statistics
Matches: 95, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
27 1 0.01
28 35 0.37
29 52 0.55
30 7 0.07
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (29 bp):
CACACATAGTGCCTCAATTACCGATCTCG
Found at i:53715819 original size:58 final size:58
Alignment explanation
Indices: 53715697--53715865 Score: 268
Period size: 58 Copynumber: 2.9 Consensus size: 58
53715687 GTGCCCACTG
* * * *
53715697 ACCGATCTCGCACACATAGCGCTCGGTTGAA-GAACTCGCACACATAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
*
53715754 ACCGATCTCACACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
* *
53715812 ACTGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
53715866 TAATCATTCA
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 28 0.27
58 75 0.73
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:53715853 original size:29 final size:29
Alignment explanation
Indices: 53715764--53715862 Score: 103
Period size: 29 Copynumber: 3.4 Consensus size: 29
53715754 ACCGATCTCA
*
53715764 CACACATAGTGCTCGGTTAAAGGAATTCG
1 CACACACAGTGCTCGGTTAAAGGAATTCG
** **
53715793 CACACACAGTGCCTCAATT-ACTG-ATCTCG
1 CACACACAGTG-CTCGGTTAAAGGAAT-TCG
* *
53715822 CACACATAGTGCTCGGTTAAAGGAATTTG
1 CACACACAGTGCTCGGTTAAAGGAATTCG
53715851 CACACACAGTGC
1 CACACACAGTGC
53715863 CTCTAATCAT
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
28 7 0.13
29 40 0.74
30 7 0.13
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (29 bp):
CACACACAGTGCTCGGTTAAAGGAATTCG
Found at i:53716085 original size:43 final size:43
Alignment explanation
Indices: 53716031--53716322 Score: 422
Period size: 43 Copynumber: 6.8 Consensus size: 43
53716021 CACCAGCATT
* *
53716031 AAGCCTACTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
** * * * * *
53716074 AAGCCTGCTAGGCACGAAATCCTGAATACATATTACCGACACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* *
53716117 AAGCATGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* * *
53716160 AAGCCTGCTAGGCACGAAGGCCCAAATACACATTATCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* *
53716203 AAGCCTACTAGGCACGAAGGCCCGAATACACATCATCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
53716246 AAGCCTGCAAGGCACGAAGGCCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
53716289 AAGCCTGCTAGGTACGAAGGCCCGAATACACATC
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATC
53716323 CCCGAGTTTC
Statistics
Matches: 221, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 221 1.00
ACGTcount: A:0.34, C:0.32, G:0.23, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
Found at i:53719265 original size:20 final size:20
Alignment explanation
Indices: 53719240--53719277 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53719230 GTTTACTCGT
*
53719240 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
53719260 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
53719278 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:53720934 original size:28 final size:28
Alignment explanation
Indices: 53720902--53720970 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53720892 GCGTAGATCA
53720902 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
53720930 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
53720958 CGATA-TACCCCTA
1 CGAAATTACCCCTA
53720971 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:53724955 original size:40 final size:40
Alignment explanation
Indices: 53724910--53725039 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
53724900 CGGAATATAA
53724910 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
53724950 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53724990 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
53725030 CCGGATATAA
1 CCGGATATAA
53725040 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53729238 original size:20 final size:20
Alignment explanation
Indices: 53729213--53729250 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53729203 GTTTATTCGC
*
53729213 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
53729233 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
53729251 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:53730907 original size:28 final size:28
Alignment explanation
Indices: 53730875--53730943 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53730865 GCGTAGATCA
53730875 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
53730903 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
53730931 CGATA-TACCCCTA
1 CGAAATTACCCCTA
53730944 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:53743817 original size:93 final size:93
Alignment explanation
Indices: 53743705--53743876 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53743695 CGCCCATAAG
* *
53743705 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53743770 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
53743798 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
53743863 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
53743877 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:53743873 original size:46 final size:46
Alignment explanation
Indices: 53743698--53743873 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53743688 TGTAACCCGC
* * *
53743698 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
53743744 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
53743794 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
53743837 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
53743874 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:53765178 original size:27 final size:29
Alignment explanation
Indices: 53765090--53765218 Score: 97
Period size: 28 Copynumber: 4.6 Consensus size: 29
53765080 ATACTCGATT
* *
53765090 TCGCACACTTAGTGCCATA-ATTT-AAGC
1 TCGCACACTCAGTGCCATATATTTCCAGC
* * ****
53765117 CCGCACACACAGTGCCAT-GCCCTCCGAGC
1 TCGCACACTCAGTGCCATATATTTCC-AGC
* *
53765146 TCGCACAC-CAGTGCCGTATTTTTCCAGC
1 TCGCACACTCAGTGCCATATATTTCCAGC
*
53765174 T-GCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTCAGTGCCATATATTTCCAGC
* *
53765202 ACGCACACTTAGTGCCA
1 TCGCACACTCAGTGCCA
53765219 ATCTCGTCAC
Statistics
Matches: 79, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
27 22 0.28
28 29 0.37
29 28 0.35
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (29 bp):
TCGCACACTCAGTGCCATATATTTCCAGC
Found at i:53773006 original size:29 final size:29
Alignment explanation
Indices: 53772973--53773046 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
53772963 CCTTCGAGCT
53772973 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
53773002 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
53773031 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
53773047 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:53773007 original size:58 final size:58
Alignment explanation
Indices: 53772914--53773046 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
53772904 ATACTCGATT
* * * * *
53772914 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
53772972 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
53773030 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
53773047 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:53775511 original size:17 final size:18
Alignment explanation
Indices: 53775469--53775517 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
53775459 AGTTGAAAAG
53775469 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
53775488 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
53775505 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
53775518 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:53776406 original size:40 final size:40
Alignment explanation
Indices: 53776340--53776506 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53776330 AAATTGAATG
* * *
53776340 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
53776379 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
53776419 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53776459 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53776499 ATATCCGG
1 ATATCCGG
53776507 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:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53783507 original size:17 final size:18
Alignment explanation
Indices: 53783465--53783513 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
53783455 AGTTGAAAAG
53783465 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
53783484 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
53783501 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
53783514 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:53784402 original size:40 final size:40
Alignment explanation
Indices: 53784336--53784502 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53784326 AAATTGAATG
* * *
53784336 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
53784375 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
53784415 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53784455 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53784495 ATATCCGG
1 ATATCCGG
53784503 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:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53789407 original size:2 final size:2
Alignment explanation
Indices: 53789400--53789432 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
53789390 TTGGCTATGC
53789400 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53789433 TCGTAAGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53795591 original size:14 final size:14
Alignment explanation
Indices: 53795572--53795598 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53795562 TCAACAAGGT
53795572 AAATAAAAATATTA
1 AAATAAAAATATTA
53795586 AAATAAAAATATT
1 AAATAAAAATATT
53795599 TACTTCACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAAAATATTA
Found at i:53800748 original size:24 final size:23
Alignment explanation
Indices: 53800716--53800848 Score: 167
Period size: 24 Copynumber: 5.6 Consensus size: 23
53800706 ACCAAACGTT
* **
53800716 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
53800740 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
53800764 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
53800788 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
*
53800812 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
53800836 GCACACATAGTGC
1 GCACACATAGTGC
53800849 ATTTGAGATT
Statistics
Matches: 100, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
23 2 0.02
24 92 0.92
25 6 0.06
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:53800790 original size:48 final size:48
Alignment explanation
Indices: 53800716--53800848 Score: 214
Period size: 48 Copynumber: 2.8 Consensus size: 48
53800706 ACCAAACGTT
* **
53800716 GCACACATAGTGCT-TATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
53800764 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
*
53800812 GCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 GCACACATAGTGCTATAGTAAATCGCACACATAGTGC
53800849 ATTTGAGATT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
48 76 0.95
49 4 0.05
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (48 bp):
GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
Found at i:53808639 original size:24 final size:23
Alignment explanation
Indices: 53808607--53808739 Score: 167
Period size: 24 Copynumber: 5.6 Consensus size: 23
53808597 ACCAAACGTT
* **
53808607 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
53808631 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
53808655 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
53808679 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
*
53808703 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
53808727 GCACACATAGTGC
1 GCACACATAGTGC
53808740 ATTTGAGATT
Statistics
Matches: 100, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
23 2 0.02
24 92 0.92
25 6 0.06
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:53808681 original size:48 final size:48
Alignment explanation
Indices: 53808607--53808739 Score: 214
Period size: 48 Copynumber: 2.8 Consensus size: 48
53808597 ACCAAACGTT
* **
53808607 GCACACATAGTGCT-TATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
53808655 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
*
53808703 GCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 GCACACATAGTGCTATAGTAAATCGCACACATAGTGC
53808740 ATTTGAGATT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
48 76 0.95
49 4 0.05
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (48 bp):
GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATC
Found at i:53824558 original size:24 final size:24
Alignment explanation
Indices: 53824530--53824577 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
53824520 TACTTTGGTA
53824530 TCCGTGGTGCCAAGAGAAAGACTT
1 TCCGTGGTGCCAAGAGAAAGACTT
53824554 TCCGTGGTGCCAAGAGAAAGACTT
1 TCCGTGGTGCCAAGAGAAAGACTT
53824578 ACCTGGGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (24 bp):
TCCGTGGTGCCAAGAGAAAGACTT
Found at i:53831961 original size:37 final size:37
Alignment explanation
Indices: 53831911--53832118 Score: 389
Period size: 37 Copynumber: 5.6 Consensus size: 37
53831901 TTATTACGAA
53831911 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53831948 GTCTTACCCGGACATAATCTCCGCACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53831985 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGT
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
53832022 GTCTTACCCGGACATAATCTCCGCACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
53832059 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
53832096 GTCTTACCCGGACATAATCTCCA
1 GTCTTACCCGGACATAATCTCCA
53832119 AGTTTCATGT
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 165 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:53832223 original size:48 final size:48
Alignment explanation
Indices: 53832152--53833113 Score: 1420
Period size: 48 Copynumber: 20.0 Consensus size: 48
53832142 TGTTACAACA
* *
53832152 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
53832200 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * **
53832248 TTCACATTCGCCATTCGGCCTTACCACATCTACATATCACACGTATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
53832296 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
53832344 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * * * *
53832392 TTCGCATTCGCCATTCAGCCTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
53832440 TTCACATTAGCCATTCGGCTTTACCACATATAAATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
53832488 TTCACATTAGCCATTCGGCTTTACCACATAGACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
53832536 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTAATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
53832584 TTCACATTCGCCATTCGGATTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
53832632 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
53832680 TTCACATTAGCCATTTGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
53832728 TTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
53832776 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
53832824 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
53832872 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
53832920 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
53832968 TTCACATTAGCCATTCGGCTTTACCACACATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
53833016 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
53833064 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
53833112 TT
1 TT
53833114 ATTTATCTTG
Statistics
Matches: 838, Mismatches: 76, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 838 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:53834787 original size:40 final size:39
Alignment explanation
Indices: 53834729--53834920 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
53834719 GTTCAAAACA
* * ** * *
53834729 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
53834769 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
53834809 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
53834848 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
53834887 CCTTC-GGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
53834921 TTCATTCACA
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 29 0.21
39 69 0.50
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:53834905 original size:38 final size:39
Alignment explanation
Indices: 53834759--53834920 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
53834749 TATGGTAACC
* *
53834759 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
53834799 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
53834838 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
53834877 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
53834915 CGCACA
1 CGCACA
53834921 TTCATTCACA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
38 29 0.25
39 69 0.60
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:53846341 original size:40 final size:40
Alignment explanation
Indices: 53846239--53846422 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
53846229 AAATTGAATG
* * * * * *
53846239 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
53846279 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
53846319 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
53846359 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
53846399 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
53846423 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:53846447 original size:80 final size:80
Alignment explanation
Indices: 53846279--53846467 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
53846269 GCTGGAAATT
* * *
53846279 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
53846344 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
53846359 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
53846422 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
53846439 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53846468 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:53853218 original size:34 final size:34
Alignment explanation
Indices: 53853175--53853249 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
53853165 ATATATATAT
* *
53853175 ATATATATTCA-TCTTCGGTTATATCAAACCATAC
1 ATATATATTCACT-TTCGATTATACCAAACCATAC
* *
53853209 ATATGTATTCACTTTCGATTATACCAAACTATAC
1 ATATATATTCACTTTCGATTATACCAAACCATAC
53853243 ATATATA
1 ATATATA
53853250 ATTATGTACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.39
Consensus pattern (34 bp):
ATATATATTCACTTTCGATTATACCAAACCATAC
Found at i:53853948 original size:19 final size:19
Alignment explanation
Indices: 53853919--53853955 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
53853909 AGGCCGAATG
53853919 TCTTGCTTCTTTTCTATTTT
1 TCTTGCTTCTTTT-TATTTT
53853939 TCTT-CTTCTTTTTATTT
1 TCTTGCTTCTTTTTATTT
53853956 CGACAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.05, C:0.19, G:0.03, T:0.73
Consensus pattern (19 bp):
TCTTGCTTCTTTTTATTTT
Found at i:53870397 original size:49 final size:49
Alignment explanation
Indices: 53870281--53870552 Score: 385
Period size: 49 Copynumber: 5.7 Consensus size: 49
53870271 GATTCTACGC
* * *
53870281 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCC-ATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCAATGT
* *
53870329 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCAATGT
* *
53870378 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCAATGT
*
53870427 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCAATGT
* * * *
53870476 GATGAATGTGAAAGTGTAT--ATATGTGATAGGGCCGAGTGG-CAACGT
1 GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCAATGT
*
53870522 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATACATATGTGATAAG
53870553 TCCCGAAGGG
Statistics
Matches: 209, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
46 32 0.15
47 19 0.09
48 41 0.20
49 117 0.56
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATACATATGTGATAAGGCCTAATGGCCAATGT
Found at i:53877721 original size:40 final size:40
Alignment explanation
Indices: 53877676--53877841 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
53877666 CGGAATATAA
53877676 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53877716 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
53877756 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53877795 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53877834 CCGGATAT
1 CCGGATAT
53877842 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53877798 original size:39 final size:38
Alignment explanation
Indices: 53877692--53877803 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
53877682 ATAATCACGT
* * *
53877692 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
53877732 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
53877771 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
53877804 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:53877825 original size:79 final size:78
Alignment explanation
Indices: 53877692--53877841 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
53877682 ATAATCACGT
*
53877692 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
53877757 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
53877771 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
53877834 CCGGATAT
64 CCGGATAT
53877842 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:53878687 original size:17 final size:19
Alignment explanation
Indices: 53878664--53878709 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
53878654 AAGAAGCATG
53878664 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
53878682 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
53878700 AATCATGCTC
1 AATCATGCTC
53878710 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:53885704 original size:40 final size:40
Alignment explanation
Indices: 53885659--53885825 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
53885649 CGGAATATAA
53885659 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53885699 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53885739 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53885779 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53885818 CCGGATAT
1 CCGGATAT
53885826 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53885809 original size:80 final size:79
Alignment explanation
Indices: 53885675--53885825 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
53885665 ATAATCACGT
*
53885675 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
53885740 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
53885755 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
53885818 CCGGATAT
64 CCGGATAT
53885826 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:53886672 original size:17 final size:19
Alignment explanation
Indices: 53886649--53886694 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
53886639 AAGAAGCATG
53886649 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
53886667 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
53886685 AATCATGCTC
1 AATCATGCTC
53886695 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:53889230 original size:28 final size:28
Alignment explanation
Indices: 53889184--53889252 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53889174 TTTAAAACCC
*
53889184 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53889211 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53889239 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53889253 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53890903 original size:20 final size:20
Alignment explanation
Indices: 53890880--53890917 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53890870 CACATCCAAA
*
53890880 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
53890900 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
53890918 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:53897238 original size:28 final size:28
Alignment explanation
Indices: 53897192--53897260 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
53897182 TTTAAAACCC
*
53897192 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53897219 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
53897247 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
53897261 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:53898910 original size:20 final size:20
Alignment explanation
Indices: 53898887--53898924 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53898877 CACATCCAAA
*
53898887 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
53898907 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
53898925 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:53903795 original size:57 final size:58
Alignment explanation
Indices: 53903658--53903796 Score: 147
Period size: 57 Copynumber: 2.4 Consensus size: 58
53903648 CATTACAGAA
* * * *
53903658 AGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCCTCTTGAGCATATGTTATAGAT
1 AGGATTTAGCCTGGACAGGTAATCCTGATATAAGCCCTCTTAAGCATATGTTAGAAAT
*** * * *
53903716 AGGATTTAGCCCAAACGGGTAATCCTGAT-TAAGCTCT-TATAAGCATATGTTGGAAAT
1 AGGATTTAGCCTGGACAGGTAATCCTGATATAAGCCCTCT-TAAGCATATGTTAGAAAT
* *
53903773 AGGATTTAGCTTGGACAAGTAATC
1 AGGATTTAGCCTGGACAGGTAATC
53903797 TTGTTGTATG
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
56 1 0.02
57 39 0.60
58 25 0.38
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (58 bp):
AGGATTTAGCCTGGACAGGTAATCCTGATATAAGCCCTCTTAAGCATATGTTAGAAAT
Found at i:53913290 original size:42 final size:43
Alignment explanation
Indices: 53913200--53913291 Score: 98
Period size: 42 Copynumber: 2.1 Consensus size: 43
53913190 TCTAAGACGT
* * * *
53913200 TGGCATCGATTTGAGATTTATGTGTAAGACCATGTTTGGGACAT
1 TGGCATCGATTT-AGATTTATGTGTAAGACCATATATGAGACAA
* *
53913244 TGGCATCGTATTT-GATTTA-GTGTAAGACCCTATATGAGATAA
1 TGGCATCG-ATTTAGATTTATGTGTAAGACCATATATGAGACAA
53913286 TGGCAT
1 TGGCAT
53913292 TGATAACTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
42 23 0.56
43 6 0.15
44 8 0.20
45 4 0.10
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (43 bp):
TGGCATCGATTTAGATTTATGTGTAAGACCATATATGAGACAA
Found at i:53915256 original size:90 final size:90
Alignment explanation
Indices: 53915099--53915262 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
53915089 TTCCAAATCT
* * * * * * *
53915099 ATGTCCGAAACATGGTCTTACATGGGTCTACATATCGATGCCATATCCCAGATATGGTCTTATAC
1 ATGTCCCAAACATGGTATTACACGGGCCTACACATCGATGCCATATCCCAGAAATGGTCTTACAC
53915164 AAAATCTCACGTCAGTGCCGATGCC
66 AAAATCTCACGTCAGTGCCGATGCC
* *
53915189 ATGTCCCAAACATGGTATTACACGGGACCT-CACATCGGTGCCATGTCCCAGAAATGGTCTTACA
1 ATGTCCCAAACATGGTATTACACGGG-CCTACACATCGATGCCATATCCCAGAAATGGTCTTACA
53915253 CAAAATCTCA
65 CAAAATCTCA
53915263 TATCAATTCC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
90 62 0.97
91 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (90 bp):
ATGTCCCAAACATGGTATTACACGGGCCTACACATCGATGCCATATCCCAGAAATGGTCTTACAC
AAAATCTCACGTCAGTGCCGATGCC
Found at i:53915403 original size:48 final size:48
Alignment explanation
Indices: 53915324--53915449 Score: 137
Period size: 48 Copynumber: 2.6 Consensus size: 48
53915314 CGACGACATA
* * * *
53915324 TCCCAGATATGGTCTTAGACTGAC-ACACATATCAATACCGATACCATG
1 TCCCAGATATGGTCTTACACTGGCTA-TCATATCAATACCAATACCATG
* *
53915372 TCCCAGATATGGTCTTACACTGGCTATCATATCAATGCCAATGCCATG
1 TCCCAGATATGGTCTTACACTGGCTATCATATCAATACCAATACCATG
** * * *
53915420 TCTTAGACATGGTATTACACTGGCTCTCAT
1 TCCCAGATATGGTCTTACACTGGCTATCAT
53915450 TAATCATGGT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 65 0.98
49 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (48 bp):
TCCCAGATATGGTCTTACACTGGCTATCATATCAATACCAATACCATG
Found at i:53925731 original size:42 final size:42
Alignment explanation
Indices: 53925581--53925733 Score: 130
Period size: 42 Copynumber: 3.5 Consensus size: 42
53925571 AAGTTCCAAA
* * * *
53925581 GCCATGTCCCAGACATGGTCTTACATGG-GTCTACATATCGAT
1 GCCATATCCCAGACATGGTCTTACACGGAATCT-CATATCAAT
* * * *
53925623 GCCATATCCTAGATATGGTCTTATAC-GACATCTCACGTTGGTGCTAAT
1 GCCATATCCCAGACATGGTCTTACACGGA-ATCTCA---T-AT-C-AAT
*
53925671 GCCATGTCCCAGACATGGTCTTACACGGAATCTCATATCAAT
1 GCCATATCCCAGACATGGTCTTACACGGAATCTCATATCAAT
*
53925713 GCCATATCCCAGATATGGTCT
1 GCCATATCCCAGACATGGTCT
53925734 CACATCAAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 45 0.52
43 4 0.05
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
48 30 0.34
49 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTACACGGAATCTCATATCAAT
Found at i:53925882 original size:41 final size:41
Alignment explanation
Indices: 53925837--53925918 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
53925827 TCTTACACTA
53925837 GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
1 GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
53925878 GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
1 GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
53925919 TACACTGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (41 bp):
GCTATCATATCAATGCCGATGCCATGTCCCAGACATGGTCT
Found at i:53929911 original size:20 final size:20
Alignment explanation
Indices: 53929888--53929925 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53929878 AAAATGAATA
*
53929888 GTAATTGTCATGAATTATTT
1 GTAAATGTCATGAATTATTT
*
53929908 GTAAATGTTATGAATTAT
1 GTAAATGTCATGAATTAT
53929926 CCAGTAATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (20 bp):
GTAAATGTCATGAATTATTT
Found at i:53943723 original size:46 final size:46
Alignment explanation
Indices: 53943670--53943836 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 46
53943660 ATTGTGGGCT
53943670 AGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGAGAGCC
*
53943716 AGTGTAAGACCATGTCTGGGACATGGCATCG---ATATTGA-GACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCATATT-ATGA-GA--GCC
* *
53943764 AGTGTAAGACATATCTGGGACATGCATC-AGCC-TCGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CCAT--ATTATG-AGAGCC
*
53943810 AGTGTAAGACATGTCAGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
53943837 TGGCTGCAAG
Statistics
Matches: 101, Mismatches: 6, Indels: 28
0.75 0.04 0.21
Matches are distributed among these distances:
45 7 0.07
46 44 0.44
47 27 0.27
48 20 0.20
49 1 0.01
50 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGAGAGCC
Found at i:53943849 original size:46 final size:43
Alignment explanation
Indices: 53943764--53943886 Score: 122
Period size: 46 Copynumber: 2.7 Consensus size: 43
53943754 GACGAGTGCT
* *
53943764 AGTGTAAGACATATCTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTC-GGGACATGCATCAGCCTCAAGATGT-A-CC
* * *
53943810 AGTGTAAGACATGTCAGGGACATGCAT-TGGCTGCAAGATGTATC
1 AGTGTAAGACATGTC-GGGACATGCATCAGCCT-CAAGATGTACC
53943854 AGTGTAAGACCATGTTCGGGACATGCCATCAGC
1 AGTGTAAGA-CATG-TCGGGACATG-CATCAGC
53943887 ACCTTACCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
44 10 0.16
45 16 0.25
46 37 0.58
47 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCGGGACATGCATCAGCCTCAAGATGTACC
Found at i:53945543 original size:25 final size:26
Alignment explanation
Indices: 53945485--53945544 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
53945475 AATTTTTCTC
53945485 CTAA-ATTTTAATTTTATTCAATTAT
1 CTAATATTTTAATTTTATTCAATTAT
* *
53945510 ATAAT-TTTTCAA-TTTATTGAATTA-
1 CTAATATTTT-AATTTTATTCAATTAT
53945534 CTAATATTTTA
1 CTAATATTTTA
53945545 TATTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 5 0.17
25 22 0.76
26 2 0.07
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.55
Consensus pattern (26 bp):
CTAATATTTTAATTTTATTCAATTAT
Found at i:53951195 original size:27 final size:27
Alignment explanation
Indices: 53951164--53951215 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
53951154 CCTTAATTGA
53951164 TAAAATGACT-ATTATGCCCCTATGTAG
1 TAAAATGACTGATT-TGCCCCTATGTAG
* *
53951191 TAAAATGATTGATTTTCCCCTATGT
1 TAAAATGACTGATTTGCCCCTATGT
53951216 GATGTATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (27 bp):
TAAAATGACTGATTTGCCCCTATGTAG
Found at i:53958980 original size:27 final size:27
Alignment explanation
Indices: 53958948--53959000 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53958938 CTATAATTAA
*
53958948 TAAAATGACTG-TTATGCCCCTATGTGG
1 TAAAATGACTGATTA-ACCCCTATGTGG
*
53958975 TAAAATGATTGATTAACCCCTATGTG
1 TAAAATGACTGATTAACCCCTATGTG
53959001 ATGTATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (27 bp):
TAAAATGACTGATTAACCCCTATGTGG
Found at i:53959073 original size:18 final size:17
Alignment explanation
Indices: 53959050--53959083 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
53959040 GAGTACATGT
*
53959050 ATGATATTATGGCATGAC
1 ATGATATGAT-GCATGAC
53959068 ATGATATGATGCATGA
1 ATGATATGATGCATGA
53959084 TGTGTTGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (17 bp):
ATGATATGATGCATGAC
Done.