Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 47 of 427
Found at i:11428144 original size:7 final size:7
Alignment explanation
Indices: 11428127--11428173 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
11428117 TCTATTTCAA
11428127 AAAAAAGG
1 AAAAAA-G
11428135 AAAAAAG
1 AAAAAAG
11428142 --AAAAG
1 AAAAAAG
*
11428147 AAAAAGAA
1 AAAAA-AG
11428155 AAAAAAG
1 AAAAAAG
11428162 AAAAAAG
1 AAAAAAG
11428169 AAAAA
1 AAAAA
11428174 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
5 5 0.15
7 17 0.50
8 12 0.35
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11428156 original size:16 final size:16
Alignment explanation
Indices: 11428127--11428173 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
11428117 TCTATTTCAA
*
11428127 AAAAAAGGAAAAAAGAAA
1 AAAAAA-GAAAAAA-AAG
11428145 AGAAAAAGAAAAAAAAG
1 A-AAAAAGAAAAAAAAG
11428162 AAAAAAGAAAAA
1 AAAAAAGAAAAA
11428174 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 11 0.41
17 3 0.11
18 8 0.30
19 5 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:11429212 original size:45 final size:45
Alignment explanation
Indices: 11429163--11429627 Score: 179
Period size: 45 Copynumber: 10.9 Consensus size: 45
11429153 TAAGATAATG
* * *
11429163 AATCTTATCTCTCTGTAATGGACGAGGAGTAGATCTAAGATGACC
1 AATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATGACC
* * * *
11429208 AATCTTATCTCTCTGTATTCGAC-AGGGAGCAGATCAAAGACGTAGC
1 AATCTTATCTCTCTGTAATCGACGA-GGAGCAGATCCAAGATG-ACC
* * **
11429254 AGATCTGA---C-CT-TCAT---CG-GG-GCAGATCCAAGATGATG
1 A-ATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATGACC
* * *
11429290 GATCTTATCTCTCTGTAATGGAC-AGGGAGTAGATCCAAGATGACC
1 AATCTTATCTCTCTGTAATCGACGA-GGAGCAGATCCAAGATGACC
* * * * * *
11429335 GATCTTATCTCTCTGTATTCGACAAGGAGCAGATCAAAGACGTAGC
1 AATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATG-ACC
** * **
11429381 AGA---TATGAC-CT-TCAT---C-AGG-GCAGATCCAAGATGATG
1 A-ATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATGACC
* * * *
11429417 GATCTTATTTCTCTGTAATGGACG-GGAGTAGATCCAAGATGACC
1 AATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATGACC
* * * * *
11429461 AATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAGACGTAGC
1 AATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATG-ACC
** * **
11429507 AGATC---TGGC-CT-TCAT---CG-GG-GCAGATCCAAGATGATG
1 A-ATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATGACC
* * * *
11429543 GATCTTATCTCTCTGTAATAGACGGGGAGCAGATCTAAGATGACC
1 AATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATGACC
* * * * *
11429588 GATCTTATCTTTCTGTATTCGA-TAGGGAGCAGATCAAAGA
1 AATCTTATCTCTCTGTAATCGACGA-GGAGCAGATCCAAGA
11429628 CGTAGCAGAT
Statistics
Matches: 308, Mismatches: 70, Indels: 84
0.67 0.15 0.18
Matches are distributed among these distances:
35 9 0.03
36 3 0.01
37 36 0.12
38 14 0.05
39 10 0.03
40 9 0.03
42 6 0.02
43 12 0.04
44 46 0.15
45 145 0.47
46 9 0.03
47 9 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
AATCTTATCTCTCTGTAATCGACGAGGAGCAGATCCAAGATGACC
Found at i:11429319 original size:127 final size:126
Alignment explanation
Indices: 11429090--11429760 Score: 1011
Period size: 127 Copynumber: 5.3 Consensus size: 126
11429080 AGATTTGGCA
* * * * *
11429090 TCTCTATATTCGAC-GGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATCGGGGCAGATCT
1 TCTCTGTATTCGACAGG-GAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCC
* * *
11429154 AAGATAATGAATCTTATCTCTCTGTAATGGACGAGGAGTAGATCTAAGATGACCAATCTTATC
65 AAGATGATGGATCTTATCTCTCTGTAATGGACG-GGAGTAGATCCAAGATGACCAATCTTATC
11429217 TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCCA
1 TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCCA
*
11429282 AGATGATGGATCTTATCTCTCTGTAATGGACAGGGAGTAGATCCAAGATGACCGATCTTATC
66 AGATGATGGATCTTATCTCTCTGTAATGGAC-GGGAGTAGATCCAAGATGACCAATCTTATC
* * *
11429344 TCTCTGTATTCGACAAGGAGCAGATCAAAGACGTAGCAGATATGACCTTCATCAGGGCAGATCCA
1 TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCCA
*
11429409 AGATGATGGATCTTATTTCTCTGTAATGGACGGGAGTAGATCCAAGATGACCAATCTTATC
66 AGATGATGGATCTTATCTCTCTGTAATGGACGGGAGTAGATCCAAGATGACCAATCTTATC
* *
11429470 TCTCTGTATTCGACGGGGAGCAGATCAAAGACGTAGCAGATCTGGCCTTCATCGGGGCAGATCCA
1 TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCCA
* * * *
11429535 AGATGATGGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCTAAGATGACCGATCTTATC
66 AGATGATGGATCTTATCTCTCTGTAATGGAC-GGGAGTAGATCCAAGATGACCAATCTTATC
* * *
11429597 TTTCTGTATTCGATAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCTA
1 TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCCA
* * * **
11429662 AGATGATGGATTTTATCTCTCTGTAAGGGACGGGGAGCAGATCCAAGATGATAAATCTTATC
66 AGATGATGGATCTTATCTCTCTGTAATGGAC-GGGAGTAGATCCAAGATGACCAATCTTATC
* * * *
11429724 TCTTTGTATTTGACAGAGAGCAGATCAAAGACATAGC
1 TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGC
11429761 TGATTTGGCT
Statistics
Matches: 499, Mismatches: 42, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
126 118 0.24
127 378 0.76
128 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (126 bp):
TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCCA
AGATGATGGATCTTATCTCTCTGTAATGGACGGGAGTAGATCCAAGATGACCAATCTTATC
Found at i:11429545 original size:253 final size:253
Alignment explanation
Indices: 11429090--11429774 Score: 1048
Period size: 253 Copynumber: 2.7 Consensus size: 253
11429080 AGATTTGGCA
* * * *
11429090 TCTCTATATTCGAC-GGAGAGCAGATCGAAGACATAGCAGATTTGACCTTCATCGGGGCAGATCT
1 TCTCTGTATTCGACAGG-GAGCAGATCAAAGACGTAGCAGATATGACCTTCATCGGGGCAGATCT
* * *
11429154 AAGATAATGAATCTTATCTCTCTGTAATGGACGAGGAGTAGATCTAAGATGACCAATCTTATCTC
65 AAGATGATGGATCTTATCTCTCTGTAATGGACG-GGAGTAGATCCAAGATGACCAATCTTATCTC
*
11429219 TCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCCAAG
129 TCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGGCCTTCATCGGGGCAGATCCAAG
* *
11429284 ATGATGGATCTTATCTCTCTGTAATGGACAGGGAGTAGATCCAAGATGACCGATCTTATC
194 ATGATGGATCTTATCTCTCTGTAATAGACAGGGAGCAGATCCAAGATGACCGATCTTATC
* * *
11429344 TCTCTGTATTCGACAAGGAGCAGATCAAAGACGTAGCAGATATGACCTTCATCAGGGCAGATCCA
1 TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATATGACCTTCATCGGGGCAGATCTA
*
11429409 AGATGATGGATCTTATTTCTCTGTAATGGACGGGAGTAGATCCAAGATGACCAATCTTATCTCTC
66 AGATGATGGATCTTATCTCTCTGTAATGGACGGGAGTAGATCCAAGATGACCAATCTTATCTCTC
*
11429474 TGTATTCGACGGGGAGCAGATCAAAGACGTAGCAGATCTGGCCTTCATCGGGGCAGATCCAAGAT
131 TGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGGCCTTCATCGGGGCAGATCCAAGAT
* *
11429539 GATGGATCTTATCTCTCTGTAATAGACGGGGAGCAGATCTAAGATGACCGATCTTATC
196 GATGGATCTTATCTCTCTGTAATAGACAGGGAGCAGATCCAAGATGACCGATCTTATC
* * *
11429597 TTTCTGTATTCGATAGGGAGCAGATCAAAGACGTAGCAGATCTGACCTTCATCGGGGCAGATCTA
1 TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATATGACCTTCATCGGGGCAGATCTA
* * * **
11429662 AGATGATGGATTTTATCTCTCTGTAAGGGACGGGGAGCAGATCCAAGATGATAAATCTTATCTCT
66 AGATGATGGATCTTATCTCTCTGTAATGGAC-GGGAGTAGATCCAAGATGACCAATCTTATCTCT
* * * * * * *
11429727 TTGTATTTGACAGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCA
130 CTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGGCCTTCA
11429775 CGCGCTTACG
Statistics
Matches: 392, Mismatches: 37, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
253 236 0.60
254 155 0.40
255 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (253 bp):
TCTCTGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATATGACCTTCATCGGGGCAGATCTA
AGATGATGGATCTTATCTCTCTGTAATGGACGGGAGTAGATCCAAGATGACCAATCTTATCTCTC
TGTATTCGACAGGGAGCAGATCAAAGACGTAGCAGATCTGGCCTTCATCGGGGCAGATCCAAGAT
GATGGATCTTATCTCTCTGTAATAGACAGGGAGCAGATCCAAGATGACCGATCTTATC
Found at i:11429919 original size:87 final size:87
Alignment explanation
Indices: 11429727--11429927 Score: 264
Period size: 87 Copynumber: 2.3 Consensus size: 87
11429717 TCTTATCTCT
* * * * * *
11429727 TTGTATTTGACAGAGAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGCGCTTACGCTGACGC
1 TTGTA-TTGTCAGAGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGCGCTTACGATAAAGC
11429792 AAATCTAAGATAATTTGGCATTC
65 AAATCTAAGATAATTTGGCATTC
* *
11429815 TTGTGTT-TACA-AGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATAAAG
1 TTGTATTGT-CAGA-GAACAAATCAAAGACATAGCTGATTTGGCTTTCACGCGCTTACGATAAAG
*
11429878 CAAATCTAAGATGATTTGGCA-TC
64 CAAATCTAAGATAATTTGGCATTC
11429901 TCTGTATTGTCAGAGAACAAATCAAAG
1 T-TGTATTGTCAGAGAACAAATCAAAG
11429928 TTTGGCGTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
86 4 0.04
87 88 0.90
88 6 0.06
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (87 bp):
TTGTATTGTCAGAGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGCGCTTACGATAAAGCA
AATCTAAGATAATTTGGCATTC
Found at i:11430453 original size:207 final size:207
Alignment explanation
Indices: 11429805--11430746 Score: 1420
Period size: 207 Copynumber: 4.6 Consensus size: 207
11429795 TCTAAGATAA
* * * *
11429805 TTTGGCATTCTTGTGTTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCTTA
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA
* *
11429870 CGATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCG
66 CGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCG
* * * *
11429935 TTTCCATATTCGACGGAGGGAAAACACATAGCAGATCTGGCCTTTAGATGTTTATACTGAAGCAA
131 TCTCCATATTCGACGGAGGGAAGACACATAGCAGATCTGGCCTTCAGATGTTTATACTAAAGCAA
11430000 GATCCAAGATGG
196 GATCCAAGATGG
* *
11430012 TTTGGCACCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTA
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA
*
11430077 CGATGAAGCAAATCTAAGATAATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCG
66 CGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCG
*
11430142 TCT-CA-A----ATGGAGGGCAA-ACACATAGCAGATCTGGCCTTCAGATGTTTATACTAAAGCA
131 TCTCCATATTCGACGGAGGG-AAGACACATAGCAGATCTGGCCTTCAGATGTTTATACTAAAGCA
*
11430200 AGATCCAATATGG
195 AGATCCAAGATGG
* * * *
11430213 TTTGGCATCCTTGTGCTTACAAGGAATAAATCGAGGACATAGCTAATTTGGCTTTCACGTGTTTG
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA
* * * *
11430278 CGATGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATTGAAGTTTGGTG
66 CGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCG
11430343 TCTCCATATTCGACGGAGGGAAGACACATAGCAGATCTGGCCTTCAGATGTTTATACTAAAGCAA
131 TCTCCATATTCGACGGAGGGAAGACACATAGCAGATCTGGCCTTCAGATGTTTATACTAAAGCAA
11430408 GATCCAAGATGG
196 GATCCAAGATGG
* *
11430420 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTAATTTGGCTTTCATGTGTTTA
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA
* *
11430485 CGATGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTAGCG
66 CGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCG
* ** * * *
11430550 TCTCCATATTCGACGGA-GGACAGACATATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCA
131 TCTCCATATTCGACGGAGGGA-AGACACATAGCAGATCTGGCCTTCAGATGTTTATACTAAAGCA
11430614 A-ATCCAAGATGG
195 AGATCCAAGATGG
* * * *
11430626 TTTGGTATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCGCGTGTTTA
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA
* * * *
11430691 CGCTGAAGCAAATCTAAGATGATTTGGCA-C-CTCTATTGTCAGGGAACAAATTGAAG
66 CGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
11430747 AAGCAGATTT
Statistics
Matches: 676, Mismatches: 50, Indels: 21
0.90 0.07 0.03
Matches are distributed among these distances:
201 180 0.27
202 4 0.01
203 1 0.00
204 23 0.03
205 2 0.00
206 104 0.15
207 362 0.54
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (207 bp):
TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA
CGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCG
TCTCCATATTCGACGGAGGGAAGACACATAGCAGATCTGGCCTTCAGATGTTTATACTAAAGCAA
GATCCAAGATGG
Found at i:11431170 original size:17 final size:17
Alignment explanation
Indices: 11431150--11431248 Score: 144
Period size: 17 Copynumber: 5.6 Consensus size: 17
11431140 CAATGATATG
11431150 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
11431167 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
11431185 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
11431202 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
11431220 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
11431239 CAATCTTAGA
1 CAATCTTAGA
11431249 AGATATGATT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 31 0.42
18 31 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:11431188 original size:35 final size:35
Alignment explanation
Indices: 11431142--11431248 Score: 187
Period size: 35 Copynumber: 3.0 Consensus size: 35
11431132 ATAATCTTCA
11431142 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
11431178 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
11431213 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
11431249 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 51 0.74
36 5 0.07
37 13 0.19
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:11431190 original size:18 final size:18
Alignment explanation
Indices: 11431150--11431248 Score: 157
Period size: 18 Copynumber: 5.6 Consensus size: 18
11431140 CAATGATATG
11431150 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
11431167 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
11431185 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
11431202 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
11431220 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
11431239 CAATCTTAGA
1 CAATCTTAGA
11431249 AGATATGATT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
17 31 0.41
18 33 0.44
19 11 0.15
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:11444975 original size:26 final size:26
Alignment explanation
Indices: 11444942--11444994 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11444932 AAAATAAAAG
11444942 ATAACTCATTAATCATTAAGAATTAA
1 ATAACTCATTAATCATTAAGAATTAA
11444968 ATAACTCATTAATCATTAAGAATTAA
1 ATAACTCATTAATCATTAAGAATTAA
11444994 A
1 A
11444995 ACTAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (26 bp):
ATAACTCATTAATCATTAAGAATTAA
Found at i:11458338 original size:1 final size:1
Alignment explanation
Indices: 11458332--11458371 Score: 62
Period size: 1 Copynumber: 40.0 Consensus size: 1
11458322 TAGAGTTGGC
* *
11458332 AAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11458372 GAGGGAGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.95, C:0.03, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:11459521 original size:29 final size:30
Alignment explanation
Indices: 11459488--11459547 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
11459478 ATAAAATTTT
11459488 AATAATTTTAATG-A-TTTTAAATTTTTAAA
1 AATAATTTT-ATGAATTTTTAAATTTTTAAA
* *
11459517 AATAATTTTTTGAATTTTTGAATTTTTAAA
1 AATAATTTTATGAATTTTTAAATTTTTAAA
11459547 A
1 A
11459548 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 10 0.37
30 15 0.56
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
AATAATTTTATGAATTTTTAAATTTTTAAA
Found at i:11459949 original size:7 final size:6
Alignment explanation
Indices: 11459908--11459948 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
11459898 ATAATTTAAT
*
11459908 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
11459949 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:11459949 original size:20 final size:20
Alignment explanation
Indices: 11459911--11459950 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11459901 ATTTAATAAA
**
11459911 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
11459931 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
11459951 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:11459982 original size:9 final size:9
Alignment explanation
Indices: 11459968--11460026 Score: 100
Period size: 9 Copynumber: 6.6 Consensus size: 9
11459958 TTTATACAAA
11459968 TAATTCGGT
1 TAATTCGGT
11459977 TAATTCGGT
1 TAATTCGGT
*
11459986 TAATTCGGG
1 TAATTCGGT
11459995 TAATTCGGT
1 TAATTCGGT
*
11460004 TAATTCGAT
1 TAATTCGGT
11460013 TAATTCGGT
1 TAATTCGGT
11460022 TAATT
1 TAATT
11460027 TTATACTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:11462152 original size:12 final size:11
Alignment explanation
Indices: 11462137--11462252 Score: 54
Period size: 12 Copynumber: 9.4 Consensus size: 11
11462127 CAATAGTGAA
11462137 AATAATAAGTAT
1 AATAATAA-TAT
11462149 AATAATAAATAT
1 AATAAT-AATAT
* *
11462161 AATGATATATAAA
1 AATAATA-AT-AT
*
11462174 AATAATACTAT
1 AATAATAATAT
*
11462185 ATATAAAAAGTAT
1 A-ATAATAA-TAT
11462198 -ATATATACACGTAT
1 AATA-ATA-A--TAT
11462212 AATAATATATAT
1 AATAATA-ATAT
*
11462224 ATATACTAATATT
1 A-ATAATAATA-T
11462237 AATAATAAATAT
1 AATAAT-AATAT
11462249 AATA
1 AATA
11462253 GGGGTAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
11 6 0.07
12 40 0.49
13 24 0.30
14 8 0.10
15 3 0.04
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (11 bp):
AATAATAATAT
Found at i:11462176 original size:18 final size:17
Alignment explanation
Indices: 11462135--11462252 Score: 64
Period size: 18 Copynumber: 6.6 Consensus size: 17
11462125 AACAATAGTG
11462135 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
11462153 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
11462172 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
*
11462190 AAAA-GT-ATATATATA
1 AAAATATAATATATATA
* **
11462205 CACGTATAATAATATATA
1 AAAATATAAT-ATATATA
* *
11462223 TATATACTAATAT-TAATA
1 AAAATA-TAATATAT-ATA
11462241 ATAAATATAATA
1 A-AAATATAATA
11462253 GGGGTAAAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
15 9 0.12
16 2 0.03
17 4 0.05
18 43 0.55
19 20 0.26
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:11462205 original size:24 final size:24
Alignment explanation
Indices: 11462178--11462249 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
11462168 TATAAAAATA
11462178 ATACTATATATAA-AA-AGTATATAT
1 ATACTA-ATATAATAATA-TATATAT
*
11462202 ATAC-ACGTATAATAATATATATAT
1 ATACTA-ATATAATAATATATATAT
*
11462226 ATACTAATATTAATAATAAATATA
1 ATACTAATA-TAATAATATATATA
11462250 ATAGGGGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 6 0.15
24 19 0.47
25 15 0.38
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (24 bp):
ATACTAATATAATAATATATATAT
Found at i:11462228 original size:16 final size:16
Alignment explanation
Indices: 11462147--11462235 Score: 58
Period size: 16 Copynumber: 5.4 Consensus size: 16
11462137 AATAATAAGT
11462147 ATAATA-ATAAATATA
1 ATAATATATAAATATA
* *
11462162 ATGATATATAAAAATA
1 ATAATATATAAATATA
11462178 ATACTATATATAAA-A-A
1 ATA--ATATATAAATATA
* *
11462194 GTATATATATACACGTATA
1 ATA-ATATATA-A-ATATA
*
11462213 ATAATATATATATATA
1 ATAATATATAAATATA
*
11462229 CTAATAT
1 ATAATAT
11462236 TAATAATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
15 13 0.22
16 24 0.41
17 1 0.02
18 17 0.29
19 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAATATATAAATATA
Found at i:11462240 original size:22 final size:22
Alignment explanation
Indices: 11462186--11462229 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11462176 TAATACTATA
* *
11462186 TATAAAAAGTATATATATACACG
1 TATAATAA-TATATATATATACG
11462209 TATAATAATATATATATATAC
1 TATAATAATATATATATATAC
11462230 TAATATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
TATAATAATATATATATATACG
Found at i:11462397 original size:22 final size:21
Alignment explanation
Indices: 11462340--11462398 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
11462330 TTTAAGAATG
*
11462340 TATACATAAGATAGTATAAAAATA
1 TATACAT-A-ATA-TATAAAAACA
11462364 TATACATAATATATATAAAACA
1 TATACATAATATATA-AAAACA
11462386 TATAC--AATATATA
1 TATACATAATATATA
11462399 CATATATTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.24
21 4 0.12
22 13 0.39
23 1 0.03
24 7 0.21
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (21 bp):
TATACATAATATATAAAAACA
Found at i:11462501 original size:22 final size:24
Alignment explanation
Indices: 11462301--11462506 Score: 97
Period size: 24 Copynumber: 8.8 Consensus size: 24
11462291 TGGTATTAAA
* *
11462301 ATATATATATATATATATATA-AT
1 ATATATATATAAAAATATATACAT
* *
11462324 ATAGTAT-T-TAAGAATGTATACAT
1 ATA-TATATATAAAAATATATACAT
*
11462347 A-AGATAGTATAAAAATATATACAT
1 ATATATA-TATAAAAATATATACAT
*
11462371 A-ATATATAT-AAAACATATACAAT
1 ATATATATATAAAAATATATAC-AT
*
11462394 ATATACATATATTAGAAATGATAATA-AT
1 ATAT--ATATA-TAAAAAT-AT-ATACAT
11462422 A-ATAT-TA-AAAAA-A-A-AC-T
1 ATATATATATAAAAATATATACAT
*
11462439 AT-TAATAGTACTACATAA-ATATACAT
1 ATAT-ATA-TA-TA-AAAATATATACAT
11462465 ATATATATATTAAAAATATATACAT
1 ATATATATA-TAAAAATATATACAT
11462490 A-ATATATA-AAAAATATA
1 ATATATATATAAAAATATA
11462507 ATATTAAAAA
Statistics
Matches: 142, Mismatches: 15, Indels: 53
0.68 0.07 0.25
Matches are distributed among these distances:
17 4 0.03
18 3 0.02
20 3 0.02
21 2 0.01
22 33 0.23
23 18 0.13
24 36 0.25
25 17 0.12
26 11 0.08
27 4 0.03
28 6 0.04
29 2 0.01
30 3 0.02
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (24 bp):
ATATATATATAAAAATATATACAT
Found at i:11462509 original size:16 final size:15
Alignment explanation
Indices: 11462488--11462525 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
11462478 AAATATATAC
*
11462488 ATAATATATAAAAAAT
1 ATAATAT-TAAAAAAA
11462504 ATAATATTAAAAAAA
1 ATAATATTAAAAAAA
11462519 ATAATAT
1 ATAATAT
11462526 GCACAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATATTAAAAAAA
Found at i:11462590 original size:27 final size:25
Alignment explanation
Indices: 11462542--11462606 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 25
11462532 TATAATATTA
*
11462542 ATATATATATATGTTAAAAATAGAGT
1 ATATATATATATGTAAAAAATAGA-T
*
11462568 ATAATATATATAT-TAAAAGAATATAT
1 AT-ATATATATATGTAAAA-AATAGAT
11462594 ATATATATATATG
1 ATATATATATATG
11462607 ACATACGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 10 0.29
26 9 0.26
27 15 0.44
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (25 bp):
ATATATATATATGTAAAAAATAGAT
Found at i:11462599 original size:25 final size:23
Alignment explanation
Indices: 11462542--11462605 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 23
11462532 TATAATATTA
*
11462542 ATATATATATATGTTAAAAATAG
1 ATATATATATATATTAAAAATAG
*
11462565 AGTATAATATATATATTAAAAGAATAT
1 A-TAT-ATATATATATT-AAA-AATAG
11462592 ATATATATATATAT
1 ATATATATATATAT
11462606 GACATACGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 3 0.09
25 20 0.57
26 6 0.17
27 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (23 bp):
ATATATATATATATTAAAAATAG
Found at i:11464739 original size:87 final size:87
Alignment explanation
Indices: 11464591--11464752 Score: 252
Period size: 87 Copynumber: 1.9 Consensus size: 87
11464581 TGAGTTGATT
* * * * * * *
11464591 TTTGAAAAATATAAATTGAAAATACTTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAAACAGAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
11464656 AGTTGATTTTATAAAAATAGAA
66 AGTTGATTTTATAAAAATAGAA
*
11464678 TTTGAAAAACAGAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTTGCAATATG
1 TTTGAAAAACAGAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
11464743 AGTTGATTTT
66 AGTTGATTTT
11464753 TGAAAACAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (87 bp):
TTTGAAAAACAGAAACTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTATAAAAATAGAA
Found at i:11465634 original size:39 final size:43
Alignment explanation
Indices: 11465551--11465653 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 43
11465541 TAGAATGCCC
* * *
11465551 TTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAGACGCCCT
1 TTTCGGGTTTTCATCCTGATCATTTGTGTT-ATCAAGACACCCT
11465595 TTTCGGGTTTTCATCCTGATCATTT-T-TT-T-AAGACACCCT
1 TTTCGGGTTTTCATCCTGATCATTTGTGTTATCAAGACACCCT
*
11465634 TTTCGGGTTTTCATCTTGAT
1 TTTCGGGTTTTCATCCTGAT
11465654 TTCTCTCTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
39 28 0.51
40 1 0.02
42 2 0.04
43 1 0.02
44 23 0.42
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.47
Consensus pattern (43 bp):
TTTCGGGTTTTCATCCTGATCATTTGTGTTATCAAGACACCCT
Found at i:11473141 original size:22 final size:22
Alignment explanation
Indices: 11473113--11473157 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11473103 AATGGATGAA
11473113 TGAATAAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
11473135 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
11473157 T
1 T
11473158 AGTCATGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:11476735 original size:6 final size:7
Alignment explanation
Indices: 11476720--11476744 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11476710 TATTTACAAT
11476720 AAAAGAA
1 AAAAGAA
11476727 AAAAGAA
1 AAAAGAA
11476734 AAAAGAA
1 AAAAGAA
11476741 AAAA
1 AAAA
11476745 ATGTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:11476884 original size:12 final size:11
Alignment explanation
Indices: 11476869--11477021 Score: 55
Period size: 12 Copynumber: 13.0 Consensus size: 11
11476859 CAATAGTGAA
11476869 AATAATAAGTAT
1 AATAATAA-TAT
11476881 AATAATAAATAT
1 AATAAT-AATAT
* *
11476893 AATGATATATAAA
1 AATAATA-AT-AT
*
11476906 AATAATACTAT
1 AATAATAATAT
*
11476917 ATATAAAAAGTAT
1 A-ATAATAA-TAT
11476930 -ATATATACACGTAT
1 AATA-ATA-A--TAT
11476944 AATAA-AATAT
1 AATAATAATAT
*
11476954 ATATACTAATATT
1 A-ATAATAATA-T
11476967 AATAATAA-AT
1 AATAATAATAT
***
11476977 -ATAATAGGGGT
1 AATAATA-ATAT
*
11476988 AAAAATAGATAT
1 AATAATA-ATAT
11477000 AATAATAATAT
1 AATAATAATAT
11477011 -ATACATAATAT
1 AATA-ATAATAT
11477022 GGTATTAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 33
0.68 0.11 0.21
Matches are distributed among these distances:
9 6 0.06
10 8 0.07
11 22 0.20
12 48 0.44
13 16 0.15
14 5 0.05
15 3 0.03
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (11 bp):
AATAATAATAT
Found at i:11476908 original size:18 final size:17
Alignment explanation
Indices: 11476867--11476936 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 17
11476857 AACAATAGTG
11476867 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
11476885 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
11476904 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
11476922 AAAAGTAT-ATATATA
1 AAAA-TATAATATATA
11476937 CACGTATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 7 0.16
18 25 0.56
19 13 0.29
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:11476937 original size:24 final size:22
Alignment explanation
Indices: 11476879--11476979 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 22
11476869 AATAATAAGT
* * *
11476879 ATAATAATAAATATAATGATAT-
1 ATAA-AATATATATACTAATATA
11476901 ATAAAA-ATA-ATACTATATATA
1 ATAAAATATATATACTA-ATATA
*
11476922 A-AAAGTATATATATAC-ACGTATA
1 ATAAA--ATATATATACTA-ATATA
11476945 ATAAAATATATATACTAATATTA
1 ATAAAATATATATACTAATA-TA
11476968 ATAATAA-ATATA
1 ATAA-AATATATA
11476980 ATAGGGGTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
19 4 0.06
20 9 0.14
21 3 0.05
22 17 0.27
23 21 0.33
24 9 0.14
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (22 bp):
ATAAAATATATATACTAATATA
Found at i:11476979 original size:43 final size:40
Alignment explanation
Indices: 11476878--11476980 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 40
11476868 AAATAATAAG
*
11476878 TATAATAATAAATATAATGATATATAAAAATAATACTATA
1 TATAATAATAAATATAACGATATATAAAAATAATACTATA
*
11476918 TATAAAAAGTATATATATACACG-TATAATAAAATATATATACTA-A
1 TATAATAA-TA-A-ATATA-ACGATAT-ATAAAA-ATA-ATACTATA
11476963 TATTAATAATAAATATAA
1 TA-TAATAATAAATATAA
11476981 TAGGGGTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
40 7 0.13
41 2 0.04
42 2 0.04
43 13 0.25
44 9 0.17
45 8 0.15
46 11 0.21
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (40 bp):
TATAATAATAAATATAACGATATATAAAAATAATACTATA
Found at i:11477258 original size:43 final size:43
Alignment explanation
Indices: 11477198--11477453 Score: 413
Period size: 43 Copynumber: 5.9 Consensus size: 43
11477188 TATTGGAAAA
* *
11477198 AAGCGCCGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAG
* **
11477241 AAACGCCGCTAAAGGTCAATTCTTTTAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAG
**
11477284 AAGCGCCGCTAAAGGTCAATTCTTTTAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAG
11477327 AAGCGCCGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGGAG
11477371 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAG
1 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAG
*
11477414 AAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGCTTTGT
1 AAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCG-TTTGT
11477454 TTACAAACGC
Statistics
Matches: 201, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
43 142 0.71
44 54 0.27
45 5 0.02
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAG
Found at i:11477432 original size:130 final size:131
Alignment explanation
Indices: 11477198--11477453 Score: 417
Period size: 130 Copynumber: 2.0 Consensus size: 131
11477188 TATTGGAAAA
* **
11477198 AAGCGCCGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAATTC
1 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGC
* **
11477263 TTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAATTC-TTTTAGCGGCG-TTTGTGGGA
66 TTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGCTTTGTGGGA
11477326 G
131 G
* *
11477327 AAGCGCCGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGG
1 AAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGG
11477392 CTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGCTTTGT
65 CTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGCTTTGT
11477454 TTACAAACGC
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
129 21 0.18
130 79 0.68
131 11 0.09
132 5 0.04
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (131 bp):
AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAAGGC
TTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAACGTCAAGGCTTTTTAGCGGCGCTTTGTGGGA
G
Found at i:11477470 original size:87 final size:87
Alignment explanation
Indices: 11477198--11477453 Score: 424
Period size: 87 Copynumber: 2.9 Consensus size: 87
11477188 TATTGGAAAA
* * * **
11477198 AAGCGCCGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCAATTC
1 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGC
11477263 -TTTTAGCGGCGTTTGTGGGAG
66 TTTTTAGCGGCGTTTGTGGGAG
**
11477284 AAGCGCCGCTAAAGGTCAATTCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGC
1 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGC
11477349 TTTTTAGCGGCGTTTGTGGGAG
66 TTTTTAGCGGCGTTTGTGGGAG
*
11477371 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAACGTCAAGGC
1 AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGC
11477436 TTTTTAGCGGCGCTTTGT
66 TTTTTAGCGGCG-TTTGT
11477454 TTACAAACGC
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 58 0.37
87 95 0.60
88 5 0.03
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.26
Consensus pattern (87 bp):
AAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCAAGGC
TTTTTAGCGGCGTTTGTGGGAG
Found at i:11477557 original size:31 final size:31
Alignment explanation
Indices: 11477522--11477602 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
11477512 CTTCCTGCGT
* *
11477522 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
11477553 TAAAATGCATCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
11477584 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
11477603 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.02, T:0.17
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:11482399 original size:19 final size:20
Alignment explanation
Indices: 11482356--11482411 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
11482346 ATTGGGCCTT
11482356 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
11482376 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
11482395 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
11482412 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:11484572 original size:19 final size:18
Alignment explanation
Indices: 11484535--11484578 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11484525 ATACATACAG
11484535 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
11484552 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
11484571 TACTAATT
1 TAATAATT
11484579 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:11486824 original size:60 final size:59
Alignment explanation
Indices: 11486697--11486835 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
11486687 TTTAGTGTTA
* *
11486697 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
11486758 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
11486818 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
11486836 TAACACAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 3 0.04
60 51 0.74
61 12 0.17
62 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:11486871 original size:19 final size:20
Alignment explanation
Indices: 11486828--11486883 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
11486818 ATTGGGCCTT
11486828 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
11486848 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
11486867 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
11486884 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:11489044 original size:19 final size:18
Alignment explanation
Indices: 11489007--11489050 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
11488997 ATACATACAG
11489007 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
11489024 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
11489043 TACTAATT
1 TAATAATT
11489051 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:11491420 original size:9 final size:9
Alignment explanation
Indices: 11491406--11491649 Score: 161
Period size: 9 Copynumber: 26.6 Consensus size: 9
11491396 TATTTAAGTA
11491406 TTATGTAAG
1 TTATGTAAG
*
11491415 TTATGTAAT
1 TTATGTAAG
*
11491424 TTATGATATG
1 TTATG-TAAG
* * *
11491434 ATATAT-AT
1 TTATGTAAG
*
11491442 TTATGTAAA
1 TTATGTAAG
* *
11491451 TTATAT-AT
1 TTATGTAAG
*
11491459 TTATCTAAG
1 TTATGTAAG
*
11491468 TTATATAAG
1 TTATGTAAG
11491477 TTATGTAAG
1 TTATGTAAG
*
11491486 TTATGTAAA
1 TTATGTAAG
*
11491495 TTATGATATAAAA
1 TTATG---T-AAG
*
11491508 TATATTTAAG
1 T-TATGTAAG
11491518 TATTATGTAAG
1 --TTATGTAAG
11491529 TTATGTAAG
1 TTATGTAAG
* *
11491538 TTATAT-AT
1 TTATGTAAG
*
11491546 TTATCTAAG
1 TTATGTAAG
*
11491555 TTATATAAG
1 TTATGTAAG
*
11491564 TTATATAAG
1 TTATGTAAG
*
11491573 TTATGTATG
1 TTATGTAAG
*
11491582 TTATATAAG
1 TTATGTAAG
*
11491591 TTATGTATG
1 TTATGTAAG
*
11491600 TTATATAAG
1 TTATGTAAG
*
11491609 TTATGTATG
1 TTATGTAAG
*
11491618 TTATATAAG
1 TTATGTAAG
*
11491627 TTATATAAG
1 TTATGTAAG
*
11491636 TTATGTAAA
1 TTATGTAAG
11491645 TTATG
1 TTATG
11491650 ATATCAAATA
Statistics
Matches: 185, Mismatches: 39, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
8 16 0.09
9 145 0.78
10 7 0.04
11 8 0.04
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11491485 original size:18 final size:18
Alignment explanation
Indices: 11491406--11491649 Score: 188
Period size: 18 Copynumber: 13.3 Consensus size: 18
11491396 TATTTAAGTA
* *
11491406 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
11491424 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
11491442 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
11491459 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
11491477 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
11491495 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
11491518 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
11491538 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
11491555 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
11491573 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
11491591 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
11491609 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
* * *
11491627 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
11491645 TTATG
1 TTATG
11491650 ATATCAAATA
Statistics
Matches: 187, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
17 37 0.20
18 117 0.63
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.03
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:11491516 original size:114 final size:112
Alignment explanation
Indices: 11491382--11491669 Score: 311
Period size: 114 Copynumber: 2.6 Consensus size: 112
11491372 ACTAGTTATG
*
11491382 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATATATTTATG
1 TATGATAT-A-ATATATTTAAGTATTATGTAAGTTATGTAAATTATGATAT-ATATATATTTATG
* *
11491447 TAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
63 TAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATATAAAT
* * * * *
11491496 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATATTTATCTAAGTTATA
1 TATGATAT--AATATATTTAAGTATTATGTAAGTTATGTAAATTATGATATATATAT-ATTTATG
* * * * *
11491560 TAAGTTATATAAGTTATGTATGTTATATAAGTTATGTATGTTATATAAGT
63 TAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATATAAAT
* * * *
11491610 TATG-TAT-GT-TATATAAG--TTATATAAGTTATGTAAATTATGATATCAAATATATTTATGTA
1 TATGATATAATATATTTAAGTATTATGTAAGTTATGTAAATTATGATAT-ATATATATTTATGTA
11491670 TTATGTAAGT
Statistics
Matches: 147, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
107 20 0.14
108 11 0.07
109 10 0.07
110 1 0.01
112 4 0.03
113 21 0.14
114 79 0.54
115 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (112 bp):
TATGATATAATATATTTAAGTATTATGTAAGTTATGTAAATTATGATATATATATATTTATGTAA
ATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATATAAAT
Found at i:11491648 original size:150 final size:149
Alignment explanation
Indices: 11491406--11491680 Score: 408
Period size: 150 Copynumber: 1.8 Consensus size: 149
11491396 TATTTAAGTA
* * * * *
11491406 TTATGTAAGTTATGTAATTTATGATATGATATATATTTATGTAAATTATATATTTATCTAAGTTA
1 TTATATAAGTTATATAAGTTATGATATGATATATAGTTATGTAAATTATATAGTTATCTAAGTTA
*
11491471 TATAAGTTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTA
66 TATAAGTTATATAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTA
11491536 AGTTATATATTTATCTAAG
131 AGTTATATATTTATCTAAG
* ** * *
11491555 TTATATAAGTTATATAAGTTATG-TATGTTATATAAGTTATGTATGTTATATAAGTTATGTATGT
1 TTATATAAGTTATATAAGTTATGATATGATATAT-AGTTATGTAAATTATAT-AGTTATCTAAGT
* *
11491619 TATATAAGTTATATAAGTTATGTAAATTATGATATCAAATATATTTATGTATTATGTAAGTT
64 TATATAAGTTATATAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTT
11491681 TTTTATTTCA
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
148 9 0.08
149 34 0.31
150 68 0.61
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (149 bp):
TTATATAAGTTATATAAGTTATGATATGATATATAGTTATGTAAATTATATAGTTATCTAAGTTA
TATAAGTTATATAAGTTATGTAAATTATGATATAAAATATATTTAAGTATTATGTAAGTTATGTA
AGTTATATATTTATCTAAG
Found at i:11492000 original size:24 final size:24
Alignment explanation
Indices: 11491968--11492035 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
11491958 ACTTAAACGG
11491968 TAAAACGGACGATAATATTTGTGA
1 TAAAACGGACGATAATATTTGTGA
11491992 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
*
11492016 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
11492036 CAATAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:11493173 original size:322 final size:321
Alignment explanation
Indices: 11492127--11493254 Score: 2168
Period size: 320 Copynumber: 3.5 Consensus size: 321
11492117 GAAACATACA
*
11492127 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTGTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
*
11492192 TCGATATAAGGCAACTCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
11492257 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
11492322 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
11492387 AATATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTTG
261 AATATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTTG
11492448 AATTTTGTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTGTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
11492513 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
* *
11492578 AGATTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAATAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
11492643 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAAT
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
*
11492707 AATATAAATTAAGGTTATGTAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTTG
261 AATATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTTG
11492768 AATTTTGTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTGTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
*
11492833 TCGATATAAGGCAACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
11492898 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
11492963 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAAATAGTAATTTGAATATAA
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAAATAGTAATTTGAATATAA
11493028 TAATATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTTG
260 TAATATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTTG
11493090 AATTTTGTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTGTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
11493155 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
* *
11493220 AGGTTGGAGAGAAGGTCATCCATTGTTGTAATTTT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT
11493255 AATGGACAAG
Statistics
Matches: 793, Mismatches: 12, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
320 316 0.40
321 231 0.29
322 246 0.31
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (321 bp):
AATTTTGTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
AATATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTTG
Found at i:11493499 original size:15 final size:15
Alignment explanation
Indices: 11493479--11493507 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11493469 AGAATTTTGA
11493479 AATAAAACGTACCTT
1 AATAAAACGTACCTT
11493494 AATAAAACGTACCT
1 AATAAAACGTACCT
11493508 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:11494018 original size:183 final size:183
Alignment explanation
Indices: 11493708--11494076 Score: 675
Period size: 183 Copynumber: 2.0 Consensus size: 183
11493698 CCTAGAACAG
11493708 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
11493773 ATCAGTACCAAATATTAATTCGAAGATTAAATGGTAGCTTCAGTTGAACCAATAGCTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
*
11493838 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
*
11493891 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
* *
11493956 ATCAGTACCAAATATTAATTTGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
* *
11494021 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
11494074 ATG
1 ATG
11494077 GAACTATATC
Statistics
Matches: 179, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGCTGCAGGAGG
AGCAGGAAGCAGTAACTGAAACACATACAACATTAATTCACTAATACAGACAC
Found at i:11494166 original size:14 final size:13
Alignment explanation
Indices: 11494147--11494176 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
11494137 CAATATAATT
11494147 TTACTTCATATATA
1 TTACTTCATATA-A
11494161 TTACTTCATATAA
1 TTACTTCATATAA
11494174 TTA
1 TTA
11494177 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:11497029 original size:26 final size:26
Alignment explanation
Indices: 11496998--11497058 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
11496988 GGGTAAAAAT
*
11496998 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGGGGGAGAAGAAGTTAGGGGAAA
*
11497024 TTTGGGAGAGAAGAAGTTAGGGGAAA
1 TTTGGGGGAGAAGAAGTTAGGGGAAA
11497050 TTTGGGGGA
1 TTTGGGGGA
11497059 AATCGGGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.48, T:0.21
Consensus pattern (26 bp):
TTTGGGGGAGAAGAAGTTAGGGGAAA
Found at i:11497371 original size:28 final size:28
Alignment explanation
Indices: 11497339--11497396 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
11497329 AATCAAAACT
*
11497339 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
11497367 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
11497395 CT
1 CT
11497397 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:11497397 original size:21 final size:21
Alignment explanation
Indices: 11497373--11497416 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11497363 ATCCCTATAA
* *
11497373 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
11497394 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
11497415 CC
1 CC
11497417 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:11497650 original size:7 final size:7
Alignment explanation
Indices: 11497638--11497664 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11497628 CCCTAAGTAT
11497638 TAACCCC
1 TAACCCC
11497645 TAACCCC
1 TAACCCC
11497652 TAACCCC
1 TAACCCC
11497659 TAACCC
1 TAACCC
11497665 TTAAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.56, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:11497684 original size:21 final size:22
Alignment explanation
Indices: 11497653--11497696 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
11497643 CCTAACCCCT
*
11497653 AACCCCTAACCCTTAAATCATA
1 AACCCCTAACCCTTAAACCATA
11497675 AACCCC-AACCCTTAAACCATA
1 AACCCCTAACCCTTAAACCATA
11497696 A
1 A
11497697 TACATAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCCTTAAACCATA
Found at i:11497827 original size:41 final size:41
Alignment explanation
Indices: 11497770--11497906 Score: 199
Period size: 40 Copynumber: 3.4 Consensus size: 41
11497760 AACCCTAAAC
*
11497770 TTTTTAGCGGCGTTTTACCAAAAGCTCCGCTAATTCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATTCTCTTA
11497811 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATTCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATTCTCTTA
* * * *
11497852 -TTTTAGTGGCGTTTTACCAAAAACGCCACT-ATTGCTC-TG
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATT-CTCTTA
11497891 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
11497907 TGGTAAAACG
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
39 4 0.05
40 44 0.50
41 40 0.45
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATTCTCTTA
Found at i:11498033 original size:24 final size:23
Alignment explanation
Indices: 11498006--11498107 Score: 84
Period size: 24 Copynumber: 4.3 Consensus size: 23
11497996 AGTATTTAAG
11498006 AATATATACATAAGATAATATAAA
1 AATATATACATAA-ATAATATAAA
* *
11498030 AATATATACATGAAATAGTGTAAGA
1 AATATATACAT-AAATAATATAA-A
*
11498055 AATAAATA-ACT-AATAATATTAAA
1 AATATATACA-TAAATAATA-TAAA
*
11498078 AACATATACAT-AATATATATAAA
1 AATATATACATAAATA-ATATAAA
11498101 ACATATA
1 A-ATATA
11498108 CAATATATAC
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
23 22 0.35
24 30 0.48
25 11 0.17
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (23 bp):
AATATATACATAAATAATATAAA
Found at i:11498101 original size:22 final size:21
Alignment explanation
Indices: 11498067--11498116 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
11498057 TAAATAACTA
11498067 ATAATAT-TAAAAACATATAC
1 ATAATATATAAAAACATATAC
11498087 ATAATATATATAAAACATATAC
1 ATAATATATA-AAAACATATAC
11498109 --AATATATA
1 ATAATATATA
11498117 CATATATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 15 0.54
21 2 0.07
22 11 0.39
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAATATATAAAAACATATAC
Found at i:11498267 original size:26 final size:25
Alignment explanation
Indices: 11498231--11498287 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
11498221 GTATGTACGC
*
11498231 AATATAGTATTAAAAATACATGCAT
1 AATATAGTATTAAAAATACATACAT
*
11498256 AATATAGTTATTAAAAATATATACAT
1 AATATAG-TATTAAAAATACATACAT
11498282 AATATA
1 AATATA
11498288 ATAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (25 bp):
AATATAGTATTAAAAATACATACAT
Found at i:11498286 original size:51 final size:49
Alignment explanation
Indices: 11498056--11498344 Score: 140
Period size: 48 Copynumber: 5.9 Consensus size: 49
11498046 AGTGTAAGAA
* * * *
11498056 ATAAATAACTAATAATATTAAAAACATATACATAATATATA-TAAAACAT
1 ATAAATAA-TAATGATATTAAAAATATATACATAATATATATTAAAATAC
* * *
11498105 ATACAATATATACAT-ATATTAGAAAT-GATA-ATAATA-ATATTAAGA-A-
1 ATA-AATA-ATA-ATGATATTAAAAATATATACATAATATATATTAAAATAC
* * * * *
11498151 ATAACTATTAAT-AGTACTACATAA-ATATACAT-ATATATATTAAAATAT
1 ATAAATAATAATGA-TATTA-AAAATATATACATAATATATATTAAAATAC
* * **
11498199 ATAAATAATAATGATATTAAAAGTATGTACGCAATATAGTATTAAAAATAC
1 ATAAATAATAATGATATTAAAAATATATACATAATATA-TATT-AAAATAC
** * *
11498250 ATGCATAAT-ATAGTTATTAAAAATATATACATAATATA-A-TAAAATAT
1 ATAAATAATAAT-GATATTAAAAATATATACATAATATATATTAAAATAC
* * * *
11498297 ATGAATAAAAAT-ATATATACATAATATATA-AAAATATAATATTTAAAA
1 ATAAATAATAATGATAT-TA-AAAATATATACATAATAT-ATA-TTAAAA
11498345 AAATAATATG
Statistics
Matches: 183, Mismatches: 33, Indels: 46
0.70 0.13 0.18
Matches are distributed among these distances:
43 3 0.02
44 6 0.03
45 11 0.06
46 16 0.09
47 28 0.15
48 42 0.23
49 14 0.08
50 21 0.11
51 42 0.23
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.34
Consensus pattern (49 bp):
ATAAATAATAATGATATTAAAAATATATACATAATATATATTAAAATAC
Found at i:11498320 original size:37 final size:33
Alignment explanation
Indices: 11498268--11498337 Score: 104
Period size: 37 Copynumber: 2.0 Consensus size: 33
11498258 TATAGTTATT
11498268 AAAAATATATACATAATATAATAAAATATATGAATA
1 AAAAATATATACATAATAT-ATAAAA-ATAT-AATA
11498304 AAAATATATATACATAATATATAAAAATATAATA
1 AAAA-ATATATACATAATATATAAAAATATAATA
11498338 TTTAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 4 0.12
35 4 0.12
36 10 0.30
37 15 0.45
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (33 bp):
AAAAATATATACATAATATATAAAAATATAATA
Found at i:11498322 original size:13 final size:12
Alignment explanation
Indices: 11498272--11498334 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 12
11498262 GTTATTAAAA
11498272 ATATATACATAAT
1 ATATATA-ATAAT
11498285 ATA-ATAA-AAT
1 ATATATAATAAT
*
11498295 ATATGAATAAAAAT
1 ATAT--ATAATAAT
11498309 ATATATACATAAT
1 ATATATA-ATAAT
11498322 ATATA-AA-AAT
1 ATATATAATAAT
11498332 ATA
1 ATA
11498335 ATATTTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
10 12 0.27
11 2 0.05
12 7 0.16
13 16 0.36
14 7 0.16
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:11498335 original size:15 final size:15
Alignment explanation
Indices: 11498317--11498353 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
11498307 ATATATATAC
*
11498317 ATAATATATAAAAAT
1 ATAATATATAAAAAA
*
11498332 ATAATATTTAAAAAA
1 ATAATATATAAAAAA
11498347 ATAATAT
1 ATAATAT
11498354 GCACAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATATATAAAAAA
Found at i:11498430 original size:31 final size:30
Alignment explanation
Indices: 11498358--11498433 Score: 77
Period size: 33 Copynumber: 2.5 Consensus size: 30
11498348 TAATATGCAC
*
11498358 AATATA-ATAT-TA-ATATATATGTTAAAA
1 AATATATATATATATATATATATATTAAAA
*
11498385 ATAGAGTATAATATATATATATATATATTAAAA
1 A-ATA-TAT-ATATATATATATATATATTAAAA
11498418 GAATATATATATATAT
1 -AATATATATATATAT
11498434 GACATATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
27 1 0.03
28 2 0.05
29 2 0.05
31 12 0.31
32 5 0.13
33 16 0.41
34 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (30 bp):
AATATATATATATATATATATATATTAAAA
Found at i:11502675 original size:3 final size:3
Alignment explanation
Indices: 11502667--11502715 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
11502657 TTCTACTTTA
11502667 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11502715 A
1 A
11502716 GTGTATGCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:11502839 original size:12 final size:13
Alignment explanation
Indices: 11502822--11502885 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 13
11502812 TGTATGTTTC
11502822 TTTTATT-TTTAT
1 TTTTATTATTTAT
11502834 TTTTATTATTTAT
1 TTTTATTATTTAT
*
11502847 TTAT-TTATTTAT
1 TTTTATTATTTAT
*
11502859 TGTTAGTTATATATAT
1 TTTTA-TTAT-T-TAT
*
11502875 TTATATTATTT
1 TTTTATTATTT
11502886 CATGTATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 17 0.40
13 9 0.21
14 5 0.12
15 5 0.12
16 6 0.14
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTATTATTTAT
Found at i:11507216 original size:18 final size:18
Alignment explanation
Indices: 11507180--11507230 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
11507170 AATAATTAAT
*
11507180 AAGTAT-ATAATACAAGTA
1 AAGTATAATAATA-ATGTA
11507198 AAGTATAATAATAATGTA
1 AAGTATAATAATAATGTA
11507216 AA-TAATAATAATAAT
1 AAGT-ATAATAATAAT
11507231 TTGTAAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 1 0.03
18 23 0.77
19 6 0.20
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (18 bp):
AAGTATAATAATAATGTA
Found at i:11507228 original size:21 final size:20
Alignment explanation
Indices: 11507202--11507302 Score: 54
Period size: 21 Copynumber: 5.0 Consensus size: 20
11507192 CAAGTAAAGT
11507202 ATAATAATAATGTAAATAATA
1 ATAATAATAAT-TAAATAATA
* *
11507223 ATAATAAT-TTGTAAA-AACTG
1 ATAATAATAAT-TAAATAA-TA
11507243 AT-AT-ATAA-TAAATAATA
1 ATAATAATAATTAAATAATA
* *
11507260 ATAAAATATAATAAAATAATTA
1 ATAATA-ATAATTAAATAA-TA
11507282 GATAAT-ATAATATAAA-AATA
1 -ATAATAATAAT-TAAATAATA
11507302 A
1 A
11507303 GATTTTAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
17 7 0.11
18 5 0.08
19 5 0.08
20 15 0.24
21 21 0.34
22 5 0.08
23 4 0.06
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATAATAATTAAATAATA
Found at i:11507305 original size:21 final size:20
Alignment explanation
Indices: 11507245--11507305 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
11507235 AAAAACTGAT
* * *
11507245 ATATAATAAATAATAATAAA
1 ATATAATAAAAAATAAGATA
*
11507265 ATATAATAAAATAATTAGATA
1 ATATAATAAAA-AATAAGATA
11507286 ATATAATATAAAAATAAGAT
1 ATATAATA-AAAAATAAGAT
11507306 TTTAAAAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.29
21 21 0.62
22 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (20 bp):
ATATAATAAAAAATAAGATA
Found at i:11511939 original size:7 final size:7
Alignment explanation
Indices: 11511920--11511954 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
11511910 AGCTCATCCG
11511920 GAAGAGA
1 GAAGAGA
11511927 -AGAGAGA
1 GA-AGAGA
11511934 GAAGAGA
1 GAAGAGA
11511941 GAAGAGA
1 GAAGAGA
11511948 GAAGAGA
1 GAAGAGA
11511955 AAAAAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 24 0.92
8 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (7 bp):
GAAGAGA
Found at i:11515609 original size:18 final size:18
Alignment explanation
Indices: 11515586--11515621 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11515576 TGGGAATTTC
11515586 TGATACCGTGACTAAATG
1 TGATACCGTGACTAAATG
*
11515604 TGATACTGTGACTAAATG
1 TGATACCGTGACTAAATG
11515622 CGTTACTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
TGATACCGTGACTAAATG
Found at i:11515628 original size:18 final size:18
Alignment explanation
Indices: 11515587--11515629 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11515577 GGGAATTTCT
* *
11515587 GATACCGTGACTAAATGT
1 GATACTGTGACTAAATGC
11515605 GATACTGTGACTAAATGC
1 GATACTGTGACTAAATGC
*
11515623 GTTACTG
1 GATACTG
11515630 ATCAACTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (18 bp):
GATACTGTGACTAAATGC
Found at i:11518705 original size:30 final size:30
Alignment explanation
Indices: 11518638--11518717 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
11518628 TGGCACATGG
* * *
11518638 GCATGTGACCAGCCGGTGTGTCTCACACGA
1 GCATGTGCCCAACCCGTGTGTCTCACACGA
11518668 GCATGTGCCCAACCCGTGTGTCTCACACTG-
1 GCATGTGCCCAACCCGTGTGTCTCACAC-GA
* * *
11518698 GCGTGTGCCCAGCCCATGTG
1 GCATGTGCCCAACCCGTGTG
11518718 GAAGTGCTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 42 0.98
31 1 0.02
ACGTcount: A:0.16, C:0.34, G:0.29, T:0.21
Consensus pattern (30 bp):
GCATGTGCCCAACCCGTGTGTCTCACACGA
Found at i:11521137 original size:28 final size:27
Alignment explanation
Indices: 11521087--11521139 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
11521077 CTATCCAAAA
* *
11521087 ATCAGTGTTAACTGGGCCTTAGCCCAT
1 ATCAGTATTAACTGGGCCGTAGCCCAT
11521114 ATCAGTATTAATCTGGGCCGTAGCCC
1 ATCAGTATTAA-CTGGGCCGTAGCCC
11521140 TTTACAAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (27 bp):
ATCAGTATTAACTGGGCCGTAGCCCAT
Found at i:11528937 original size:21 final size:21
Alignment explanation
Indices: 11528913--11528967 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
11528903 AAAGTTTAGG
*
11528913 AAAAAAAATAAATAGAAAAAT
1 AAAAAAAATAAATAAAAAAAT
* * *
11528934 AAAAATAATTACTAAAAAAAT
1 AAAAAAAATAAATAAAAAAAT
*
11528955 AAAAAAATTAAAT
1 AAAAAAAATAAAT
11528968 GGACTCAATG
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAAAATAAATAAAAAAAT
Found at i:11531888 original size:60 final size:59
Alignment explanation
Indices: 11531810--11531941 Score: 178
Period size: 60 Copynumber: 2.2 Consensus size: 59
11531800 CCAACTGTGT
* *
11531810 TGATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTATGGCCCAGATTGATAC
1 TGATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTATGGCCCAGATTAATAC
* *
11531870 TGATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTATGGCCCAGATTAATAC
11531930 TGATATGGGCTA
1 TGATATGGGCTA
11531942 AGGCTCAGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
59 1 0.02
60 56 0.86
61 8 0.12
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (59 bp):
TGATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTATGGCCCAGATTAATAC
Found at i:11534209 original size:11 final size:11
Alignment explanation
Indices: 11534193--11534234 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
11534183 AACAGATAAC
11534193 AAATAATAAA-T
1 AAATAA-AAACT
11534204 AAATAAAGAACT
1 AAATAAA-AACT
*
11534216 AAATAAAAATT
1 AAATAAAAACT
11534227 AAATAAAA
1 AAATAAAA
11534235 CAAAGAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 1 0.04
11 19 0.68
12 8 0.29
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAATAAAAACT
Found at i:11540383 original size:58 final size:59
Alignment explanation
Indices: 11540291--11540408 Score: 177
Period size: 58 Copynumber: 2.0 Consensus size: 59
11540281 CAGTCCAGAC
* ** *
11540291 TCACACATATTCTTCGGGAGGGCTTATATTAGGATCA-CCAGTTCGGGCTAGATCC-TTT
1 TCACACATATTCTTCGGGAGGGCTAATACCAGGATCACCCA-TCCGGGCTAGATCCGTTT
11540349 TCACACATATTCTTCGGGAGGGCTAATACCAGGATCACCCATCCGGGCTAGATCCGTTT
1 TCACACATATTCTTCGGGAGGGCTAATACCAGGATCACCCATCCGGGCTAGATCCGTTT
11540408 T
1 T
11540409 ACTGTCAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
58 47 0.87
59 7 0.13
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (59 bp):
TCACACATATTCTTCGGGAGGGCTAATACCAGGATCACCCATCCGGGCTAGATCCGTTT
Found at i:11542218 original size:136 final size:137
Alignment explanation
Indices: 11541974--11542259 Score: 493
Period size: 136 Copynumber: 2.1 Consensus size: 137
11541964 CATTGGGCCT
** * *
11541974 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
*
11542039 AGGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
11542103 CATATGC
131 CATATGC
11542110 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
* * *
11542175 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
11542240 CATATGC
131 CATATGC
11542247 AAGCCCATTTGGG
1 AAGCCCATTTGGG
11542260 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 119 0.84
137 22 0.16
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:11542544 original size:25 final size:27
Alignment explanation
Indices: 11542507--11542560 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
11542497 TCAAACATGC
11542507 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
11542533 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
11542559 AT
1 AT
11542561 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:11544085 original size:26 final size:26
Alignment explanation
Indices: 11544047--11544182 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
11544037 CATGAAATTC
11544047 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
11544073 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
11544099 TTATCATGGAACACTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
11544125 TTATTATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
11544151 TTATTATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
11544177 TTATCA
1 TTATCA
11544183 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:11547233 original size:25 final size:25
Alignment explanation
Indices: 11547204--11547251 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11547194 AGGATTAATG
*
11547204 ATTAGTTTAAGTTAA-TTAAATTATA
1 ATTAGATTAA-TTAAGTTAAATTATA
11547229 ATTAGATTAATTAAGTTAAATTA
1 ATTAGATTAATTAAGTTAAATTA
11547252 ATTAAGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (25 bp):
ATTAGATTAATTAAGTTAAATTATA
Found at i:11553771 original size:32 final size:32
Alignment explanation
Indices: 11553735--11553831 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
11553725 TGTATGCATT
11553735 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
11553767 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
11553799 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
11553831 T
1 T
11553832 GATAAGCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:11555337 original size:26 final size:26
Alignment explanation
Indices: 11555308--11555360 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
11555298 TTTACAGTTT
11555308 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
11555334 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
11555360 T
1 T
11555361 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:11556977 original size:12 final size:12
Alignment explanation
Indices: 11556960--11556990 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
11556950 ACTCGGGGAA
11556960 GAGGCCGTGGTC
1 GAGGCCGTGGTC
11556972 GAGGCCGTGGTC
1 GAGGCCGTGGTC
11556984 GAGGCCG
1 GAGGCCG
11556991 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:11561859 original size:32 final size:32
Alignment explanation
Indices: 11561823--11561919 Score: 185
Period size: 32 Copynumber: 3.0 Consensus size: 32
11561813 TGTATGCATT
11561823 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
11561855 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
11561887 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
11561919 T
1 T
11561920 GATAAGCATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:11570703 original size:23 final size:21
Alignment explanation
Indices: 11570677--11570735 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
11570667 GATTATATGA
11570677 TAATTAACTTTAATTAATTAGTT
1 TAATTAACTTTAATT-A-TAGTT
* *
11570700 TAATTAAGTTTAATTATATTT
1 TAATTAACTTTAATTATAGTT
11570721 TAATTAACTATTAAT
1 TAATTAACT-TTAAT
11570736 CACACTTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.38
22 6 0.19
23 14 0.44
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
TAATTAACTTTAATTATAGTT
Found at i:11573590 original size:21 final size:21
Alignment explanation
Indices: 11573545--11573595 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11573535 CACATGGATG
* * *
11573545 TGTGAGCTATGGGCTAGGCCG
1 TGTGAGCTATGGGATAGACCA
11573566 TGTGAGCTATGGGATAGACCA
1 TGTGAGCTATGGGATAGACCA
*
11573587 TGTGGGCTA
1 TGTGAGCTA
11573596 CATGGGCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.25
Consensus pattern (21 bp):
TGTGAGCTATGGGATAGACCA
Found at i:11573925 original size:71 final size:71
Alignment explanation
Indices: 11573850--11573992 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
11573840 GTATACGTGC
11573850 ATGTTAATTTTGTTATACTCTATATTTGTATACTGTATCTGTATATGGGGTAGGATTTGTATATA
1 ATGTTAATTTTGTTATACTCTATATTTGTATACTGTATCTGTATATGGGGTAGGATTTGTATATA
11573915 CGGAGG
66 CGGAGG
* *
11573921 ATGTTAATTTTGTTATACTCTATATTTGTATACTGTATCTGTATATGGGGTGGGATTTGTATATG
1 ATGTTAATTTTGTTATACTCTATATTTGTATACTGTATCTGTATATGGGGTAGGATTTGTATATA
11573986 CGGAGG
66 CGGAGG
11573992 A
1 A
11573993 AGTGTTATGT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (71 bp):
ATGTTAATTTTGTTATACTCTATATTTGTATACTGTATCTGTATATGGGGTAGGATTTGTATATA
CGGAGG
Found at i:11574826 original size:20 final size:20
Alignment explanation
Indices: 11574786--11574826 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11574776 ATATATTTTG
* *
11574786 ATTTTATTTTATTCTAGTCA
1 ATTTAATTTTATTCTAATCA
*
11574806 ATTTAATTTTATTTTAATCA
1 ATTTAATTTTATTCTAATCA
11574826 A
1 A
11574827 ATTGATTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (20 bp):
ATTTAATTTTATTCTAATCA
Found at i:11574834 original size:20 final size:20
Alignment explanation
Indices: 11574791--11574834 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
11574781 TTTTGATTTT
* *
11574791 ATTTTATTCTAGTCAATTTA
1 ATTTTATTCTAATCAAATTA
* *
11574811 ATTTTATTTTAATCAAATTG
1 ATTTTATTCTAATCAAATTA
11574831 ATTT
1 ATTT
11574835 AATTGTCCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTTTATTCTAATCAAATTA
Found at i:11575701 original size:51 final size:51
Alignment explanation
Indices: 11575633--11575736 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
11575623 TGTCGGCTCT
11575633 CTTTGTCACGACATCAATGTTACATTTGCCTGGGGTTTACAACGTGTCGTC
1 CTTTGTCACGACATCAATGTTACATTTGCCTGGGGTTTACAACGTGTCGTC
11575684 CTTTGTCACGACATCAATGTTACATTTGCCTGGGGTTTACAACGTGTCGTC
1 CTTTGTCACGACATCAATGTTACATTTGCCTGGGGTTTACAACGTGTCGTC
11575735 CT
1 CT
11575737 GACAAGCCCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (51 bp):
CTTTGTCACGACATCAATGTTACATTTGCCTGGGGTTTACAACGTGTCGTC
Found at i:11577510 original size:20 final size:19
Alignment explanation
Indices: 11577476--11577527 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
11577466 TTAATTCTCT
11577476 CATA-ATTAT-TATTTTTA
1 CATATATTATATATTTTTA
*
11577493 TATATATTATCATATTTTTA
1 CATATATTAT-ATATTTTTA
11577513 CATATATTATATATT
1 CATATATTATATATT
11577528 CATTTATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 5 0.17
19 5 0.17
20 17 0.57
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
CATATATTATATATTTTTA
Found at i:11577716 original size:20 final size:20
Alignment explanation
Indices: 11577678--11577716 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11577668 CATATTACCA
*
11577678 ATTATATTATTTATGTTTAT
1 ATTATATTATTTATATTTAT
11577698 ATTATATATATTT-TATTTA
1 ATTATAT-TATTTATATTTA
11577717 AAATTTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTATATTATTTATATTTAT
Found at i:11578204 original size:2 final size:2
Alignment explanation
Indices: 11578197--11578235 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11578187 CAATACATGC
11578197 TA TA TA 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 TA TA TA T
11578236 TTGTATGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11587080 original size:48 final size:48
Alignment explanation
Indices: 11587024--11587120 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
11587014 ATGGAAGCAG
*
11587024 TGTTACCTATTGAGGTAGAAATACCTTCTCTCCGAATTTTAACAGAGA
1 TGTTACCTATTGAGGTAGAAATACCTTCTCTCCAAATTTTAACAGAGA
11587072 TGTTACCTATTGAGGTAGAAATACCTTCTCTCCAAATTTTAACAGAGA
1 TGTTACCTATTGAGGTAGAAATACCTTCTCTCCAAATTTTAACAGAGA
11587120 T
1 T
11587121 AAGGTTAGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (48 bp):
TGTTACCTATTGAGGTAGAAATACCTTCTCTCCAAATTTTAACAGAGA
Found at i:11588522 original size:83 final size:83
Alignment explanation
Indices: 11588391--11588625 Score: 344
Period size: 83 Copynumber: 2.8 Consensus size: 83
11588381 TCCAAGACGA
* * * *
11588391 TTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
***
11588456 CAAACAGGTTCAAGATGG
66 CAAACAAACTCAAGATGG
**
11588474 TTTGGCATCCTTGTGCTTATGAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
*
11588539 CAAACAAACTCCAGATGG
66 CAAACAAACTCAAGATGG
* * * *
11588557 TTTGGCATCCTTGTGCTTACAATGAACAAATCGAGGACGTTGCAGATTTGACTCTCAAACGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
11588622 CAAA
66 CAAA
11588626 AAAATAGCAG
Statistics
Matches: 136, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 136 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (83 bp):
TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
CAAACAAACTCAAGATGG
Found at i:11588926 original size:119 final size:118
Alignment explanation
Indices: 11588551--11588984 Score: 557
Period size: 119 Copynumber: 3.6 Consensus size: 118
11588541 AACAAACTCC
* * * * * * *
11588551 AGATGGTTTGGCATCCTTGTGCTTACAATG-AACAAATCGAGGACGTTGCAGATTTGACTCTCAA
1 AGATGATTTGGTATTCTTGTGTTTACAA-GAAACAAATCGAGGACATAGCAGATTTGACTCTCAG
*
11588615 ACGTTCTCAAAAAAATAGCAGATCCAAACTTCAGATGTTTATGCTGAAGTAGATCCA
65 ACGTTCTC--AAAAATAGCAGATCC-AACTTCAGATGTTTATGCTGAAGCAGATCCA
* *
11588672 AGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCAAAGACATAGCAGATTTGACTCTCAGA
1 AGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
* **
11588737 TGTTCTC-AGTATAGCAGATCCAGACTTCAGATGTTTATGCTGAAGCAGATCCA
66 CGTTCTCAAAAATAGCAGATCCA-ACTTCAGATGTTTATGCTGAAGCAGATCCA
* * *
11588790 AGATGATTTGGTAATTCTTGTGTTTACAAGAAACAAATCGAGGACACAGTAGATTGGACTCTCAG
1 AGATGATTTGGT-ATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAG
* * * *
11588855 ACATTCTCAAAAATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCA
65 ACGTTCTCAAAAATAGCAGATCCAA-CTTCAGATGTTTATGCTGAAGCAGATCCA
* * * * *
11588910 AGATGATTTGGTATTCTTGTGTTTACAAGAAATAAATCGAGGACATTGCAGATATGATTCTCAAA
1 AGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
*
11588975 TGTTCTCAAA
66 CGTTCTCAAA
11588985 CAAACTCCAG
Statistics
Matches: 273, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
117 1 0.00
118 53 0.19
119 107 0.39
120 52 0.19
121 60 0.22
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (118 bp):
AGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGA
CGTTCTCAAAAATAGCAGATCCAACTTCAGATGTTTATGCTGAAGCAGATCCA
Found at i:11589049 original size:83 final size:83
Alignment explanation
Indices: 11588908--11589244 Score: 379
Period size: 83 Copynumber: 3.9 Consensus size: 83
11588898 GAAGCAGATC
* * * * * *
11588908 CAAGATGATTTGGTATTCTTGTGTTTACAAGAAATAAATCGAGGACATTGCAGATATGATTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGGACATTGCAGATATGACTCTCA
11588973 AATGTTCTCAAACAAACT
66 AATGTTCTCAAACAAACT
* * * *
11588991 CCAGATGGTTTGGTATCCTTGTGTTTACAAGAAACAAATCAAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGGACATTGCAGATATG-------
*
11589056 AATACTCTCAAATGTTCTCAAACAGACT
59 ---ACTCTCAAATGTTCTCAAACAAACT
* * *
11589084 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCATATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGGACATTGCAGATATGACTCTCA
11589149 AATGTTCTCAAACAAACT
66 AATGTTCTCAAACAAACT
* * * * *
11589167 CTAGATGGTTTGGCATCCTTGTGCTTACAA-AGGACAAATCGAGGATATGGCAGATATAACTCTC
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGA-AACAAATCGAGGACATTGCAGATATGACTCTC
**
11589231 AAACATTCTCAAAC
65 AAATGTTCTCAAAC
11589245 GGATTCAAGT
Statistics
Matches: 218, Mismatches: 25, Indels: 22
0.82 0.09 0.08
Matches are distributed among these distances:
83 144 0.66
93 74 0.34
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAAACT
Found at i:11589129 original size:93 final size:92
Alignment explanation
Indices: 11588968--11589243 Score: 338
Period size: 93 Copynumber: 3.1 Consensus size: 92
11588958 CAGATATGAT
* * * * *
11588968 TCTCAAATGTTCTCAAACAAACTCCAGATGGTTTGGTATCCTTGTGTTTACAAGAAACAAATCAA
1 TCTCAAATGTTCTCAAACAAACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGA
*
11589033 GGACATTGCAGATATGACTCTCAAATAC
66 GGACATTGCAGATAT-ACTCTCAAACAC
*
11589061 TCTCAAATGTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGA
1 TCTCAAATGTTCTCAAACAAACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGA
* *
11589126 GGACGTTGC--ATATA---T----GAC
66 GGACATTGCAGATATACTCTCAAACAC
*
11589144 TCTCAAATGTTCTCAAACAAACTCTAGATGGTTTGGCATCCTTGTGCTTACAAAGG-ACAAATCG
1 TCTCAAATGTTCTCAAACAAACTCAAGATGGTTTGGCATCCTTGTGCTTAC-AAGGAACAAATCG
* * *
11589208 AGGATATGGCAGATATAACTCTCAAACAT
65 AGGACATTGCAGATAT-ACTCTCAAACAC
11589237 TCTCAAA
1 TCTCAAA
11589244 CGGATTCAAG
Statistics
Matches: 157, Mismatches: 15, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
83 66 0.42
84 4 0.03
85 4 0.03
86 1 0.01
87 1 0.01
89 1 0.01
90 1 0.01
91 4 0.03
93 75 0.48
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (92 bp):
TCTCAAATGTTCTCAAACAAACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGA
GGACATTGCAGATATACTCTCAAACAC
Found at i:11589206 original size:176 final size:176
Alignment explanation
Indices: 11588908--11589243 Score: 485
Period size: 176 Copynumber: 1.9 Consensus size: 176
11588898 GAAGCAGATC
* * * * *
11588908 CAAGATGATTTGGTATTCTTGTGTTTACAAGAAATAAATCGAGGACATTGCAGATATGATTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGGACATTGCAGATATGACTCTCA
* *
11588973 AATGTTCTCAAACAAACTCCAGATGGTTTGGTATCCTTGTGTTTACAAGAAACAAATCAAGGACA
66 AATGTTCTCAAACAAACTCCAGATGGTTTGGCATCCTTGTGCTTACAAGAAACAAATCAAGGACA
* * *
11589038 TTGCAGATATGACTCTCAAATACTCTCAAATGTTCTCAAACAGACT
131 TGGCAGATATAACTCTCAAACACTCTCAAATGTTCTCAAACAGACT
* * * *
11589084 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCATATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGGACATTGCAGATATGACTCTCA
* * * *
11589149 AATGTTCTCAAACAAACTCTAGATGGTTTGGCATCCTTGTGCTTACAA-AGGACAAATCGAGGAT
66 AATGTTCTCAAACAAACTCCAGATGGTTTGGCATCCTTGTGCTTACAAGA-AACAAATCAAGGAC
*
11589213 ATGGCAGATATAACTCTCAAACATTCTCAAA
130 ATGGCAGATATAACTCTCAAACACTCTCAAA
11589244 CGGATTCAAG
Statistics
Matches: 140, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
175 1 0.01
176 139 0.99
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (176 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAGAAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAAACTCCAGATGGTTTGGCATCCTTGTGCTTACAAGAAACAAATCAAGGACA
TGGCAGATATAACTCTCAAACACTCTCAAATGTTCTCAAACAGACT
Found at i:11590756 original size:16 final size:17
Alignment explanation
Indices: 11590716--11590759 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
11590706 TTTAGTCCTA
11590716 TATTTATTTTATTATTC
1 TATTTATTTTATTATTC
*
11590733 TATATATTTT-TTATT-
1 TATTTATTTTATTATTC
11590748 TGATTTATTTTA
1 T-ATTTATTTTA
11590760 ATTTTACTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 9 0.39
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTTATTTTATTATTC
Found at i:11590869 original size:20 final size:19
Alignment explanation
Indices: 11590835--11590886 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
11590825 TTAATTCTCT
11590835 CATA-ATTAT-TATTTTTA
1 CATATATTATATATTTTTA
*
11590852 TATATATTATCATATTTTTA
1 CATATATTAT-ATATTTTTA
11590872 CATATATTATATATT
1 CATATATTATATATT
11590887 CATTTATGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 5 0.17
19 5 0.17
20 17 0.57
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
CATATATTATATATTTTTA
Found at i:11596779 original size:19 final size:19
Alignment explanation
Indices: 11596737--11596773 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11596727 TTATTATCAT
*
11596737 TTTTTCATTATTTTATTTG
1 TTTTTAATTATTTTATTTG
11596756 TTTTTAATTATTTTATTT
1 TTTTTAATTATTTTATTT
11596774 TATTTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTAATTATTTTATTTG
Found at i:11607175 original size:17 final size:18
Alignment explanation
Indices: 11607153--11607187 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11607143 GATTTGGGCC
*
11607153 GTGTGGG-CTACATGGGT
1 GTGTGGGCCCACATGGGT
11607170 GTGTGGGCCCACATGGGT
1 GTGTGGGCCCACATGGGT
11607188 AAACCACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.17, G:0.46, T:0.26
Consensus pattern (18 bp):
GTGTGGGCCCACATGGGT
Found at i:11608420 original size:22 final size:22
Alignment explanation
Indices: 11608394--11608435 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11608384 GTGGTCTAAA
11608394 ATTTTT-GAAGTTTTTGTTTTTT
1 ATTTTTAG-AGTTTTTGTTTTTT
*
11608416 ATTTTTAGTGTTTTTGTTTT
1 ATTTTTAGAGTTTTTGTTTT
11608436 AGGGTTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.12, C:0.00, G:0.14, T:0.74
Consensus pattern (22 bp):
ATTTTTAGAGTTTTTGTTTTTT
Found at i:11615480 original size:26 final size:26
Alignment explanation
Indices: 11615444--11615553 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
11615434 TGATACAAAT
*
11615444 TGATAATAGGTTAAGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11615470 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11615496 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11615522 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11615548 TGATAA
1 TGATAA
11615554 GAATATCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11617583 original size:136 final size:137
Alignment explanation
Indices: 11617338--11617623 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
11617328 GAGTAGTCTC
11617338 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
11617403 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
*
11617468 ACTGTTA
131 ACTATTA
*
11617475 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
11617539 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
11617604 ACTATTA
131 ACTATTA
*
11617611 CCTAAATGGGCTT
1 CCCAAATGGGCTT
11617624 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:11624707 original size:90 final size:90
Alignment explanation
Indices: 11624562--11625072 Score: 682
Period size: 90 Copynumber: 5.7 Consensus size: 90
11624552 TTGGTGTCTT
* * * * *
11624562 TGTAATAGACGGGGAACAGAGCGAAA-ATAGCAGATCTGACATTCGTATGTTTACATCGAAGCAG
1 TGTATTAGATGGGGAGCAGATC-AAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAG
**
11624626 ATTAAAGATGACAGATTTGGCATCTC
65 ATCGAAGATGACAGATTTGGCATCTC
* * * * * * *
11624652 TATATTAGATGGGGAGTAGGTCGAAGATAGCAGATCTGATATTCATGTGTTTACATCGAAACAGA
1 TGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGA
*
11624717 TCGAAGATGACAGATTTGGCGTCTC
66 TCGAAGATGACAGATTTGGCATCTC
* * *
11624742 TGTATTAAATGGGGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGA
1 TGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGA
* *
11624807 TCGAAGATGATAGATTTGGCTTCTC
66 TCGAAGATGACAGATTTGGCATCTC
* * * *
11624832 TGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTTTGTTTGCATCGAAGTAGA
1 TGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGA
* *
11624897 TCGAAGATGACAGATTTGGCGTCTT
66 TCGAAGATGACAGATTTGGCATCTC
* * * * *
11624922 TGTATTAGATGGGGAGTAGATCGAAGATAGCAGATCTGACATTTGTGTGTTTACGTCAAAGCAGA
1 TGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGA
*
11624987 TCGAAAATGACAGATTTGGCATCTC
66 TCGAAGATGACAGATTTGGCATCTC
* * * *
11625012 TGTATTAGACGGGGAGCAGGTCAAAGATAGCAGATCTGACATTTGTGTGTTTACATTGAAG
1 TGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAG
11625073 ATAGCAGATT
Statistics
Matches: 364, Mismatches: 56, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
89 2 0.01
90 362 0.99
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (90 bp):
TGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGA
TCGAAGATGACAGATTTGGCATCTC
Found at i:11624762 original size:45 final size:45
Alignment explanation
Indices: 11624621--11625039 Score: 149
Period size: 45 Copynumber: 9.3 Consensus size: 45
11624611 TTTACATCGA
** * * *
11624621 AGCAGATTAAAGATGACAGATTTGGCATCTCTATATTAGATGGGG
1 AGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTACATGGGG
* * * *** * * *
11624666 AGTAGGTCGAAGAT-AGCAGATCTGATAT-TCATGTGTTTACAT-CGA
1 AGCAGATCGAAGATGA-CAGATTTGGCGTCTC-TGT-ATTACATGGGG
* *
11624711 AACAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAAATGGGG
1 AGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTACATGGGG
* * * * * * ***
11624756 AGCAGATCAAAAAT-AGCAGATCTGACAT-TCGTGTGTTTACAT-CAA
1 AGCAGATCGAAGATGA-CAGATTTGGCGTCTC-TGT-ATTACATGGGG
* * * *
11624801 AGCAGATCGAAGATGATAGATTTGGCTTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTACATGGGG
* * * * * * * *
11624846 AGCAGATCAAAGAT-AGCAGATCTGACATTCGTTTGT-TTGCAT-CGA
1 AGCAGATCGAAGATGA-CAGATTTGGC-GTC-TCTGTATTACATGGGG
* * *
11624891 AGTAGATCGAAGATGACAGATTTGGCGTCTTTGTATTAGATGGGG
1 AGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTACATGGGG
* * * * * * * * ***
11624936 AGTAGATCGAAGAT-AGCAGATCTGACATTTGTGTGTTTACGT-CAA
1 AGCAGATCGAAGATGA-CAGATTTGGCGTCTCTGT-ATTACATGGGG
* * * *
11624981 AGCAGATCGAAAATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTACATGGGG
* *
11625026 AGCAGGTCAAAGAT
1 AGCAGATCGAAGAT
11625040 AGCAGATCTG
Statistics
Matches: 260, Mismatches: 92, Indels: 44
0.66 0.23 0.11
Matches are distributed among these distances:
43 5 0.02
44 26 0.10
45 197 0.76
46 28 0.11
47 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (45 bp):
AGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTACATGGGG
Found at i:11624861 original size:180 final size:180
Alignment explanation
Indices: 11624549--11625067 Score: 759
Period size: 180 Copynumber: 2.9 Consensus size: 180
11624539 CGAAAAAGTG
* * * * * *
11624549 GATTTGGTGTCTTTGTAATAGACGGGGAACAGAGCGAAAATAGCAGATCTGACATTCGTATGTTT
1 GATTTGGCGTCTTTGTATTAGATGGGGAGCAGATCGAAAATAGCAGATCTGACATTCGTGTGTTT
* ** * * * *
11624614 ACATCGAAGCAGATTAAAGATGACAGATTTGGCATCTCTATATTAGATGGGGAGTAGGTCGAAGA
66 ACATCAAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGGTCAAAGA
* *
11624679 TAGCAGATCTGATATTCATGTGTTTACATCGAAACAGATCGAAGATGACA
131 TAGCAGATCTGACATTCGTGTGTTTACATCGAAACAGATCGAAGATGACA
* * *
11624729 GATTTGGCGTCTCTGTATTAAATGGGGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTGTTT
1 GATTTGGCGTCTTTGTATTAGATGGGGAGCAGATCGAAAATAGCAGATCTGACATTCGTGTGTTT
* * *
11624794 ACATCAAAGCAGATCGAAGATGATAGATTTGGCTTCTCTGTATTAGACGGGGAGCAGATCAAAGA
66 ACATCAAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGGTCAAAGA
* * **
11624859 TAGCAGATCTGACATTCGTTTGTTTGCATCGAAGTAGATCGAAGATGACA
131 TAGCAGATCTGACATTCGTGTGTTTACATCGAAACAGATCGAAGATGACA
* * *
11624909 GATTTGGCGTCTTTGTATTAGATGGGGAGTAGATCGAAGATAGCAGATCTGACATTTGTGTGTTT
1 GATTTGGCGTCTTTGTATTAGATGGGGAGCAGATCGAAAATAGCAGATCTGACATTCGTGTGTTT
* *
11624974 ACGTCAAAGCAGATCGAAAATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGGTCAAAGA
66 ACATCAAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGGTCAAAGA
*
11625039 TAGCAGATCTGACATTTGTGTGTTTACAT
131 TAGCAGATCTGACATTCGTGTGTTTACAT
11625068 TGAAGATAGC
Statistics
Matches: 300, Mismatches: 39, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
180 300 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (180 bp):
GATTTGGCGTCTTTGTATTAGATGGGGAGCAGATCGAAAATAGCAGATCTGACATTCGTGTGTTT
ACATCAAAGCAGATCGAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGGTCAAAGA
TAGCAGATCTGACATTCGTGTGTTTACATCGAAACAGATCGAAGATGACA
Found at i:11625030 original size:270 final size:270
Alignment explanation
Indices: 11624549--11625067 Score: 774
Period size: 270 Copynumber: 1.9 Consensus size: 270
11624539 CGAAAAAGTG
*
11624549 GATTTGGTGTCTTTGTAATAGACGGGGAACAGAGCGAAAATAGCAGATCTGACATTCGTATGTTT
1 GATTTGGTGTCTCTGTAATAGACGGGGAACAGAGCGAAAATAGCAGATCTGACATTCGTATGTTT
* *
11624614 ACATCGAAGCAGATTAAAGATGACAGATTTGGCATCTCTATATTAGATGGGGAGTAGGTCGAAGA
66 ACATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTAGATGGGGAGTAGATCGAAGA
* * *
11624679 TAGCAGATCTGATATTCATGTGTTTACATCGAAACAGATCGAAGATGACAGATTTGGCGTCTCTG
131 TAGCAGATCTGACATTCATGTGTTTACATCGAAACAGATCGAAAATGACAGATTTGGCATCTCTG
*
11624744 TATTAAATGGGGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATC
196 TATTAAACGGGGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATC
11624809 GAAGATGATA
261 GAAGATGATA
* * * *
11624819 GATTTGGCT-TCTCTGTATTAGACGGGGAGCAGATC-AAAGATAGCAGATCTGACATTCGTTTGT
1 GATTTGG-TGTCTCTGTAATAGACGGGGAACAGAGCGAAA-ATAGCAGATCTGACATTCGTATGT
* * * * * *
11624882 TTGCATCGAAGTAGATCGAAGATGACAGATTTGGCGTCTTTGTATTAGATGGGGAGTAGATCGAA
64 TTACATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTAGATGGGGAGTAGATCGAA
** *
11624947 GATAGCAGATCTGACATTTGTGTGTTTACGTC-AAAGCAGATCGAAAATGACAGATTTGGCATCT
129 GATAGCAGATCTGACATTCATGTGTTTACATCGAAA-CAGATCGAAAATGACAGATTTGGCATCT
* * * *
11625011 CTGTATTAGACGGGGAGCAGGTCAAAGATAGCAGATCTGACATTTGTGTGTTTACAT
193 CTGTATTAAACGGGGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTGTTTACAT
11625068 TGAAGATAGC
Statistics
Matches: 222, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
269 6 0.03
270 215 0.97
271 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (270 bp):
GATTTGGTGTCTCTGTAATAGACGGGGAACAGAGCGAAAATAGCAGATCTGACATTCGTATGTTT
ACATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTATATTAGATGGGGAGTAGATCGAAGA
TAGCAGATCTGACATTCATGTGTTTACATCGAAACAGATCGAAAATGACAGATTTGGCATCTCTG
TATTAAACGGGGAGCAGATCAAAAATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATC
GAAGATGATA
Found at i:11630895 original size:28 final size:27
Alignment explanation
Indices: 11630863--11630964 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 27
11630853 ACTTGTAATA
11630863 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
*
11630891 GGGCTAGGCCCAGTATACTCTGATACTG-TAAG
1 GGGCTAGGCCCAG---A-T-TGATACTGAT-AT
* *
11630923 GGGCTATGGCCCAGATTAATATTGATAT
1 GGGCTA-GGCCCAGATTGATACTGATAT
11630951 GGGCTAAGGCCCAG
1 GGGCT-AGGCCCAG
11630965 TTAACACTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
27 7 0.11
28 25 0.41
29 3 0.05
30 2 0.03
31 2 0.03
32 15 0.25
33 7 0.11
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (27 bp):
GGGCTAGGCCCAGATTGATACTGATAT
Found at i:11630927 original size:60 final size:60
Alignment explanation
Indices: 11630825--11630965 Score: 171
Period size: 60 Copynumber: 2.3 Consensus size: 60
11630815 CCAACTGTGT
* * *
11630825 TGATATGGGCAAGGCCCAATATATCTTGACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TGATATGGGCTAGGCCCAGTATATCTTGACTTGTAATAGGGCTACGGCCCAGATTAATAC
* * *
11630885 TGATATGGGCTAGGCCCAGTATA-CTCTGA-TACTGTAA-GGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAGGCCCAGTATATCT-TGACT--TGTAATAGGGCTACGGCCCAGATTAATAC
11630945 TGATATGGGCTAAGGCCCAGT
1 TGATATGGGCT-AGGCCCAGT
11630966 TAACACTGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
59 3 0.04
60 54 0.76
61 14 0.20
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (60 bp):
TGATATGGGCTAGGCCCAGTATATCTTGACTTGTAATAGGGCTACGGCCCAGATTAATAC
Found at i:11632240 original size:29 final size:30
Alignment explanation
Indices: 11632194--11632263 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
11632184 CCTAGAGTTT
*
11632194 TATTTT-TATTTAATTTTAATCCTT-TTTAAA
1 TATTTTATATATAATTTT-AT-CTTCTTTAAA
*
11632224 -ATTTTATATATAA-TTTATTTTCTTTAAA
1 TATTTTATATATAATTTTATCTTCTTTAAA
11632252 TATTTTATATAT
1 TATTTTATATAT
11632264 TATATATCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 2 0.06
28 8 0.23
29 19 0.54
30 6 0.17
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (30 bp):
TATTTTATATATAATTTTATCTTCTTTAAA
Found at i:11632315 original size:20 final size:19
Alignment explanation
Indices: 11632279--11632316 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11632269 ATCTTTACTA
*
11632279 TAAACATTATTTATATATG
1 TAAAAATTATTTATATATG
11632298 TAAAAATTATTATATATAT
1 TAAAAATTATT-TATATAT
11632317 TATTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAAAATTATTTATATATG
Found at i:11632356 original size:29 final size:28
Alignment explanation
Indices: 11632303--11632432 Score: 103
Period size: 29 Copynumber: 4.7 Consensus size: 28
11632293 ATATGTAAAA
**
11632303 ATTATTATATATATTATTTTTATTTATGT
1 ATTATTATATATATTATTTACATTTAT-T
11632332 ATTATTATATATATTATTTACATTTTATT
1 ATTATTATATATATTATTTACA-TTTATT
* * *
11632361 ATATATTTTAT-TA-TATATTATA-TCATT
1 AT-TATTATATATATTAT-TTACATTTATT
11632388 -TTATTATATATATTA-TT-CATTATATT
1 ATTATTATATATATTATTTACATT-TATT
* *
11632414 ATTTTTAT-TTTATTATTTA
1 ATTATTATATATATTATTTA
11632433 ATATTATGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
24 1 0.01
25 10 0.12
26 12 0.15
27 14 0.17
28 3 0.04
29 29 0.36
30 12 0.15
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTATTATATATATTATTTACATTTATT
Found at i:11632390 original size:20 final size:19
Alignment explanation
Indices: 11632305--11632429 Score: 90
Period size: 17 Copynumber: 6.9 Consensus size: 19
11632295 ATGTAAAAAT
* *
11632305 TATTATATATATTATT-TT
1 TATTATATATTTTATTATA
* *
11632323 TATT-TATGTATTATTATA
1 TATTATATATTTTATTATA
*
11632341 TA-TAT-TATTTACATT-T-
1 TATTATATATTT-TATTATA
11632357 TATTATATATTTTATTATA
1 TATTATATATTTTATTATA
11632376 TATTATATCATTTTATTATA
1 TATTATAT-ATTTTATTATA
*
11632396 TA-TAT-TA-TTCATTATA
1 TATTATATATTTTATTATA
*
11632412 TTATT-TTTATTTTATTAT
1 -TATTATATATTTTATTAT
11632430 TTAATATTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
16 10 0.11
17 25 0.29
18 21 0.24
19 18 0.21
20 13 0.15
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (19 bp):
TATTATATATTTTATTATA
Done.