Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 193 of 345
Found at i:65141356 original size:51 final size:51
Alignment explanation
Indices: 65141191--65141567 Score: 273
Period size: 50 Copynumber: 7.6 Consensus size: 51
65141181 ATCTGTTATG
* **
65141191 CATAGTAGCCTGTACTTAGTACTACACATGCT-ACC-AA--CAATCCAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATG-TGACCTAAGTC-ATCGGGTACA
* * * * *
65141240 CGTAGTAGCCTACACTTAGTACTA-ACACGTGACCTAAG-CATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGTCATCGGGTACA
* ** *
65141289 CATAGTAGCCTGCACTTAGTACTACACATGTGA-TTGAAGTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AAGTCATCGGGTACA
* * *
65141340 CATAGTAGCCTACACTTAGTACTACACATGTGACCTAA-CCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGTCATCGGGTACA
** * * * * ** *
65141390 TGTAGTAGCCTGCACTTAGTACTATACATATGATCGAAGTTGTCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGTCATCGGGTACA
* * *
65141441 CATAGTAGCCTGC-CTTAGTACTACACATGCGACCTAA-CCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGTCATCGGGTACA
* * ** *****
65141490 CGTAGTA----GC-C-TAGTACTACACACGTGACCTAAAACTATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGTC-ATCGGGTACA
*
65141536 CATAGTAGCCTGCACATAGTACTACACATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
65141568 TTGTAATATC
Statistics
Matches: 255, Mismatches: 57, Indels: 29
0.75 0.17 0.09
Matches are distributed among these distances:
44 20 0.08
45 4 0.02
46 12 0.05
47 1 0.00
48 7 0.03
49 66 0.26
50 70 0.27
51 59 0.23
52 16 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAGTCATCGGGTACA
Found at i:65141398 original size:101 final size:101
Alignment explanation
Indices: 65141242--65141500 Score: 414
Period size: 101 Copynumber: 2.6 Consensus size: 101
65141232 CCAGTACACG
* * * *
65141242 TAGTAGCCTACACTTAGTACTA-ACACGTGACCTAAGCATCTGATACACATAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCTGCACTT
* *
65141306 AGTACTACACATGTGATTGAAGTTGTCGGGTACGCA
66 AGTACTACACATATGATCGAAGTTGTCGGGTACGCA
*
65141342 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACATGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCTGCACTT
*
65141407 AGTACTATACATATGATCGAAGTTGTCGGGTACGCA
66 AGTACTACACATATGATCGAAGTTGTCGGGTACGCA
* *
65141443 TAGTAGCCTGC-CTTAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCT
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCT
65141501 AGTACTACAC
Statistics
Matches: 147, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
100 67 0.46
101 80 0.54
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGGTACACGTAGTAGCCTGCACTT
AGTACTACACATATGATCGAAGTTGTCGGGTACGCA
Found at i:65143173 original size:46 final size:45
Alignment explanation
Indices: 65143006--65143180 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
65142996 TGTAACCCGC
* * *
65143006 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65143052 CCATAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAATGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
65143101 -C-TCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
65143144 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGA
65143181 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 30 0.27
46 35 0.32
47 31 0.28
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAATGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65145578 original size:15 final size:15
Alignment explanation
Indices: 65145549--65145598 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
65145539 CAAAGATAAC
*
65145549 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65145563 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
65145578 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
65145593 AAGAAA
1 AAGAAA
65145599 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65145607 original size:15 final size:15
Alignment explanation
Indices: 65145560--65145607 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
65145550 AGAAAACCGA
65145560 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
65145574 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
65145590 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
65145605 ATA
1 ATA
65145608 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65148579 original size:46 final size:45
Alignment explanation
Indices: 65148512--65148684 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 45
65148502 TGTAACCCGC
*
65148512 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * *
65148558 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* ** *
65148604 ACAT-TCTCGAACTCGGACTCAACTCAA-GAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
65148649 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
65148685 ATGCCAACAT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 32 0.30
46 67 0.63
47 2 0.02
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:65148676 original size:91 final size:92
Alignment explanation
Indices: 65148520--65148689 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 92
65148510 GCCCATAAGT
* *
65148520 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65148585 CGAGTTCGGATGCCTAGTTACATTCTC
66 CGAGTTCGGATGCCTAGTTACATTCTC
*
65148612 GAACTCGGACTCAACTCAA-GAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65148676 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
65148690 AACATCCTAG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 56 0.75
92 19 0.25
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCTC
Found at i:65151177 original size:46 final size:46
Alignment explanation
Indices: 65151127--65151302 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
65151117 GGTTGAGCAT
* *
65151127 CCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGC
* * *
65151173 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--GC
* * *
65151218 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGC
*
65151266 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
65151303 CGGGTTACAT
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.56
47 27 0.25
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGC
Found at i:65151282 original size:93 final size:93
Alignment explanation
Indices: 65151123--65151293 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
65151113 GGATGGTTGA
** * * *
65151123 GCATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65151188 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
65151216 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65151281 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65151294 ACTTATGGAC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:65155296 original size:41 final size:42
Alignment explanation
Indices: 65155171--65155304 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 42
65155161 AATTATGCTT
*
65155171 GGCACTT-AGTGTGCGTATC-GAGATAGCTTCGGCTATATAA
1 GGCACTTAAGTGTGCGAATCGGAGATAGCTTCGGCTATATAA
* * * *
65155211 AGCACTT-AGTGTGTGAATCGGAAAT-GCTTCGGCTATATAT
1 GGCACTTAAGTGTGCGAATCGGAGATAGCTTCGGCTATATAA
*
65155251 GGCACTTAAG-GTGCGAGA-CTGAGATAGCTTCGGCTATGA-AA
1 GGCACTTAAGTGTGCGA-ATCGGAGATAGCTTCGGCTAT-ATAA
65155292 GGCACTT-AGTGTG
1 GGCACTTAAGTGTG
65155305 AGAGATTATA
Statistics
Matches: 78, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
40 48 0.62
41 29 0.37
42 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (42 bp):
GGCACTTAAGTGTGCGAATCGGAGATAGCTTCGGCTATATAA
Found at i:65157269 original size:25 final size:25
Alignment explanation
Indices: 65157241--65157299 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
65157231 AGTAGCTTAT
*
65157241 AAGAGCCATAATTGGGAAATTCACA
1 AAGAACCATAATTGGGAAATTCACA
* * *
65157266 AAGAACC-TTATTGGGAAGTTCATA
1 AAGAACCATAATTGGGAAATTCACA
65157290 AAGAACCATA
1 AAGAACCATA
65157300 TCGGAAAGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (25 bp):
AAGAACCATAATTGGGAAATTCACA
Found at i:65157352 original size:24 final size:24
Alignment explanation
Indices: 65157297--65157354 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
65157287 ATAAAGAACC
*
65157297 ATATCGGAAAGCTCCGGATAGCCA
1 ATATCGGGAAGCTCCGGATAGCCA
65157321 ATATCGGGAAGCTCCGGATAGCCA
1 ATATCGGGAAGCTCCGGATAGCCA
65157345 ATATCGGGAA
1 ATATCGGGAA
65157355 ATTCAAGCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (24 bp):
ATATCGGGAAGCTCCGGATAGCCA
Found at i:65157905 original size:21 final size:21
Alignment explanation
Indices: 65157881--65157921 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65157871 AAATTTAACA
*
65157881 TCAATTTAATCCATTTCATAC
1 TCAATTTAATCCAATTCATAC
*
65157902 TCAATTTAATTCAATTCATA
1 TCAATTTAATCCAATTCATA
65157922 TCTGAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTTAATCCAATTCATAC
Found at i:65162487 original size:48 final size:48
Alignment explanation
Indices: 65162412--65162548 Score: 123
Period size: 48 Copynumber: 2.9 Consensus size: 48
65162402 ACATGGTAGG
* * * * **
65162412 ATGCCAATTCCATATCCTGGATATGGTCTTACATGGGATCATCTATCA
1 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCATAGATCA
** * *
65162460 ATGCCAATGCCATGTCCTAGACATGGTCTTATGTGGGATCGTAGATCC
1 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCATAGATCA
* ** * *
65162508 TTGCCAATGTTATGTTGC-AGACATGGTCTTACATAGGATCA
1 ATGCCAATGCCATG-TCCTAGACATGGTCTTACATGGGATCA
65162549 CATATTGATG
Statistics
Matches: 70, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
48 68 0.97
49 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCATAGATCA
Found at i:65170298 original size:48 final size:48
Alignment explanation
Indices: 65170223--65170350 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 48
65170213 CACATGGTAG
* * **
65170223 GATGCCAATGCCATATCACAGATATGGTCTTACATGGGATCACCTATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
* * **
65170271 GATGCCAATGCCATCTCCCAGACATGGTCTTACGTGGGATCGTAGATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
* *
65170319 GATGCAAATGCCATGTCCCAGACATGGTCTTA
1 GATGCCAATGCCATATCCCAGACATGGTCTTA
65170351 TATTGATGCC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACAGATC
Found at i:65175106 original size:56 final size:56
Alignment explanation
Indices: 65175020--65175133 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
65175010 AATAGTTTTG
65175020 CTTGATCACATTGCATGATTTTGTTAAATTGTAAATTTTTTAACTATTGCTTATTA
1 CTTGATCACATTGCATGATTTTGTTAAATTGTAAATTTTTTAACTATTGCTTATTA
*
65175076 CTTGATCGCATTGCATGATTTTGTTAAATTGTAAATTTTTTAACTATTGCTTATTA
1 CTTGATCACATTGCATGATTTTGTTAAATTGTAAATTTTTTAACTATTGCTTATTA
65175132 CT
1 CT
65175134 GTGCTAACTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (56 bp):
CTTGATCACATTGCATGATTTTGTTAAATTGTAAATTTTTTAACTATTGCTTATTA
Found at i:65196768 original size:30 final size:30
Alignment explanation
Indices: 65196732--65196792 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65196722 GTCTTAACTC
65196732 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65196762 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65196792 A
1 A
65196793 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65204137 original size:53 final size:54
Alignment explanation
Indices: 65204052--65204257 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 54
65204042 TTCCTTTTTA
** * * * *
65204052 AACTTACCTTTGCCATGTCTTGACTTGATCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
65204105 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
65204159 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
65204214 AAATTACCAATGCCATGCCTTGCCATGGTCTTACTTGGTATCCT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCT
65204258 CAAACCCTAA
Statistics
Matches: 122, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 43 0.35
54 37 0.30
55 42 0.34
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:65204190 original size:55 final size:54
Alignment explanation
Indices: 65204062--65204257 Score: 205
Period size: 55 Copynumber: 3.6 Consensus size: 54
65204052 AACTTACCTT
* * * * * * *
65204062 TGCCATGTCTTGACTTGATCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATTACCAA
* * * ** *
65204115 TGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AAATTACCAA
* * * *
65204170 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAAATTACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATTACCAA
* *
65204224 TGCCATGCCTTGCCATGGTCTTACTTGGTATCCT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCT
65204258 CAAACCCTAA
Statistics
Matches: 114, Mismatches: 27, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 35 0.31
54 37 0.32
55 42 0.37
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATTACCAA
Found at i:65212749 original size:15 final size:15
Alignment explanation
Indices: 65212708--65212770 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
65212698 GAAAACTAGA
*
65212708 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
* * *
65212723 ACAGAGGAATCCAAG
1 ATAAAGAAATCCAAG
*
65212738 ATAAAGATATCCAACG
1 ATAAAGAAATCCAA-G
*
65212754 -TACAGAAATCCAAG
1 ATAAAGAAATCCAAG
65212768 ATA
1 ATA
65212771 TCATATCATA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.51, C:0.17, G:0.16, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65221475 original size:55 final size:53
Alignment explanation
Indices: 65221336--65221531 Score: 171
Period size: 53 Copynumber: 3.6 Consensus size: 53
65221326 TTCCTTTTTA
* * * * * * *
65221336 AACTTACCATTGTCATGTCTTGACACGGTCTTACGTGGTATCCTTGCCTTA-CG
1 AACTTACCAATGCCATGTCTTGGCATGGTCTTACATGATAT-CTTGCCTTATGG
* * * * *
65221389 AACTCACCATTGCGATGCCTTGGCATGGTCTTACATGGGATAT-TTGCCTTATAGT
1 AACTTACCAATGCCATGTCTTGGCATGGTCTTACAT--GATATCTTGCCTTAT-GG
** * * * *
65221444 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTGG
1 AACTTACCAATGCCATGTCTTGGCATGGTCTTACATGATAT-CTTGCCTTATGG
65221498 AACTTACCAATGCCATGTCTTGGCATGGTCTTAC
1 AACTTACCAATGCCATGTCTTGGCATGGTCTTAC
65221532 TTGGTATCCT
Statistics
Matches: 112, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
53 41 0.37
54 31 0.28
55 40 0.36
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGGCATGGTCTTACATGATATCTTGCCTTATGG
Found at i:65223213 original size:47 final size:45
Alignment explanation
Indices: 65223139--65223450 Score: 209
Period size: 47 Copynumber: 6.6 Consensus size: 45
65223129 GATTTCTTGT
*
65223139 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACA-GATGA
* * *** *
65223185 GTGCCAGTGGAAGACCATGTCTGGGACATGGCAGCGGTGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GACCACAGATGA
* * *
65223233 GTGCCAGTGTAAGACATTTCTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCAC-A-GATGA
* * * * *
65223280 -TAGCCAGTGTAAGACGTGTCTGGGATATGCATCGGCTA-AGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAGATG-A
* ** * * *
65223324 GTGCTAGTGTAAGACATGTCCAGGACATGCATCAGTACGTATATATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC-G-AC-CACAGATGA
* * * * *
65223372 GAGCTAGTATAAGACCATGTCTGGGACATGCCATCGCCCTC-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGACCACAGATGA
65223418 GGATAGCCAGTGTAAGACCATGTCTGGGACATG
1 -G-T-GCCAGTGTAAGA-CATGTCTGGGACATG
65223451 GCATGGGCAA
Statistics
Matches: 207, Mismatches: 41, Indels: 33
0.74 0.15 0.12
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
45 4 0.02
46 24 0.12
47 66 0.32
48 36 0.17
49 44 0.21
50 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAGATGA
Found at i:65227680 original size:40 final size:40
Alignment explanation
Indices: 65227629--65227860 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
65227619 ATAACCACAA
* * * *
65227629 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
65227669 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
65227709 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
65227749 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
65227789 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
65227829 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
65227861 CATTCAAATG
Statistics
Matches: 182, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 177 0.97
41 4 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:65233559 original size:20 final size:21
Alignment explanation
Indices: 65233534--65233577 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
65233524 TAGTTGATAA
*
65233534 AGTTTGCTAAAACTGT-CTTT
1 AGTTTGCAAAAACTGTCCTTT
*
65233554 AGTTTGCAAAAATTGTCCTTT
1 AGTTTGCAAAAACTGTCCTTT
65233575 AGT
1 AGT
65233578 GACTCCGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (21 bp):
AGTTTGCAAAAACTGTCCTTT
Found at i:65239515 original size:28 final size:28
Alignment explanation
Indices: 65239484--65239537 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
65239474 CAGAGATAGC
65239484 CATAGAAGCTTTCCTTCCAAAGTCTCAT
1 CATAGAAGCTTTCCTTCCAAAGTCTCAT
* * *
65239512 CATAGAGGCTTTCCTTCTAGAGTCTC
1 CATAGAAGCTTTCCTTCCAAAGTCTC
65239538 GCCACAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (28 bp):
CATAGAAGCTTTCCTTCCAAAGTCTCAT
Found at i:65239571 original size:29 final size:29
Alignment explanation
Indices: 65239538--65239665 Score: 120
Period size: 29 Copynumber: 4.6 Consensus size: 29
65239528 CTAGAGTCTC
* * * *
65239538 GCCACAAATGCATCCTTTTAATACAGATT
1 GCCACAAAGGCTTCCTTTTAATAAAGATA
* * *
65239567 GCCAC-AAGGCTTCCTTCTAATAGATATA
1 GCCACAAAGGCTTCCTTTTAATAAAGATA
* *
65239595 GCCATAAAGGCTTCCTTTTAACAAAGATA
1 GCCACAAAGGCTTCCTTTTAATAAAGATA
* * *
65239624 GCCACAAAGGCTTCCTTATGA-AAA-CTA
1 GCCACAAAGGCTTCCTTTTAATAAAGATA
65239651 -CCACAAAGGCTTCCT
1 GCCACAAAGGCTTCCT
65239666 AACGAAAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
26 15 0.18
27 2 0.02
28 24 0.29
29 42 0.51
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (29 bp):
GCCACAAAGGCTTCCTTTTAATAAAGATA
Found at i:65239661 original size:26 final size:26
Alignment explanation
Indices: 65239625--65239686 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
65239615 ACAAAGATAG
* *
65239625 CCACAAAGGCTTCCTTATGAAAACTA
1 CCACAAAGGCTTCCTAACGAAAACTA
* *
65239651 CCACAAAGGCTTCCTAACGAAAATTG
1 CCACAAAGGCTTCCTAACGAAAACTA
65239677 CCACAAAGGC
1 CCACAAAGGC
65239687 ACTTCTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.18
Consensus pattern (26 bp):
CCACAAAGGCTTCCTAACGAAAACTA
Found at i:65243881 original size:13 final size:13
Alignment explanation
Indices: 65243863--65243892 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
65243853 AAAGATGCCT
65243863 TGTGATATTTTGA
1 TGTGATATTTTGA
65243876 TGTGATATTTTGA
1 TGTGATATTTTGA
65243889 TGTG
1 TGTG
65243893 TTAAAATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (13 bp):
TGTGATATTTTGA
Found at i:65254756 original size:39 final size:39
Alignment explanation
Indices: 65254657--65254781 Score: 153
Period size: 39 Copynumber: 3.2 Consensus size: 39
65254647 TAGAAATATA
* * *
65254657 GTGATTATTTGGGCTATGTGCCTAGCAGGCTGTATGCT-
1 GTGATTATTAGGGCTATGTGCCTAGCAGGCTGTGTACTG
* * * *
65254695 GTGATTATTCGGGCTATATGCCTAGTAGGCTATGTACTG
1 GTGATTATTAGGGCTATGTGCCTAGCAGGCTGTGTACTG
* * *
65254734 GTGATTATTAGGGCTGTGTGCCTAACAGGCTGTGTACCG
1 GTGATTATTAGGGCTATGTGCCTAGCAGGCTGTGTACTG
65254773 GTGATTATT
1 GTGATTATT
65254782 TAGCCTATCT
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
38 32 0.44
39 41 0.56
ACGTcount: A:0.18, C:0.15, G:0.30, T:0.36
Consensus pattern (39 bp):
GTGATTATTAGGGCTATGTGCCTAGCAGGCTGTGTACTG
Found at i:65261067 original size:27 final size:27
Alignment explanation
Indices: 65261037--65261214 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65261027 ATATTAAGTC
* * *
65261037 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
65261064 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
65261092 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
65261119 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
65261146 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
65261173 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
65261200 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65261215 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.80
28 26 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:65261121 original size:55 final size:54
Alignment explanation
Indices: 65261037--65261214 Score: 232
Period size: 54 Copynumber: 3.3 Consensus size: 54
65261027 ATATTAAGTC
* * *
65261037 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAA-T
* * * *
65261092 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
* ** *
65261146 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
65261200 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65261215 GTACAATTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:65261203 original size:81 final size:82
Alignment explanation
Indices: 65261058--65261213 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
65261048 TGCTATATAA
* *
65261058 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
65261123 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
65261140 TCAATTCGCACACTTAGTG-CATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
65261203 ACACTTAGTGC
65 ACACTTAGTGC
65261214 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 43 0.64
82 24 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:65267958 original size:40 final size:40
Alignment explanation
Indices: 65267904--65268061 Score: 194
Period size: 40 Copynumber: 4.0 Consensus size: 40
65267894 GGATTTAACT
* * *
65267904 GGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
65267944 GGATATAGTAACTCGCACCAATGCCTTCGGGACTTAACCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
65267984 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * * * *
65268024 GGA-ACTAGTCACTAGCGCAAATTCCTTCGGTACTTAGC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
65268062 TCGGTTATCA
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 103 0.98
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:65270203 original size:6 final size:6
Alignment explanation
Indices: 65270173--65270365 Score: 83
Period size: 6 Copynumber: 31.3 Consensus size: 6
65270163 AAGAAACATT
* * *
65270173 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAGA ATCA-A
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * * * *
65270220 GTGACAGA ATCAAA ATCAAA ATCAGA ATTAGA ATTAGGTA A-GAGA ATTAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * *
65270271 ATCAGT GTCAGGTA A-CAGA ATCAGA ATTAGA ACCAGA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
65270322 A-CAGA ATCAGA ATCGGT ATCAGGTA AT-AGA ATTAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
65270366 GTGAATGCAA
Statistics
Matches: 141, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
5 12 0.09
6 109 0.77
7 12 0.09
8 8 0.06
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:65270272 original size:25 final size:25
Alignment explanation
Indices: 65270239--65270302 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
65270229 TCAAAATCAA
* *
65270239 AATCAGAATTAGAATTAGGTAAGAG
1 AATCAGAATTAGAATCAGGTAACAG
* * **
65270264 AATTAGAATCAGTGTCAGGTAACAG
1 AATCAGAATTAGAATCAGGTAACAG
65270289 AATCAGAATTAGAA
1 AATCAGAATTAGAA
65270303 CCAGAATCAG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.23
Consensus pattern (25 bp):
AATCAGAATTAGAATCAGGTAACAG
Found at i:65270293 original size:62 final size:62
Alignment explanation
Indices: 65270199--65270353 Score: 184
Period size: 62 Copynumber: 2.5 Consensus size: 62
65270189 AAATGAGAAT
* * * * * *
65270199 CAGAATCAAAATCAGAATCAAGTGACAGAATCAAAATCAAAATCAGAATTAGAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAACCAGAATCAGAATTAGGTAA
* * * * * *
65270261 GAGAATTAGAATCAGTGTCAGGTAACAGAATCAGAATTAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAACCAGAATCAGAATTAGGTAA
* *
65270323 CAGAATCAGAATCGGTATCAGGTAATAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
65270354 TAGAATCAGA
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 76 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAACCAGAATCAGAATTAGGTAA
Found at i:65270332 original size:25 final size:25
Alignment explanation
Indices: 65270299--65270365 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
65270289 AATCAGAATT
* *
65270299 AGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* * *
65270324 AGAATCAGAATCGGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGGTAAC
*
65270349 AGAATTAGAATCAGAAT
1 AGAATCAGAATCAGAAT
65270366 GTGAATGCAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:65270532 original size:27 final size:26
Alignment explanation
Indices: 65270485--65270535 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
65270475 CGAGGCTGCT
*
65270485 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
65270511 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
65270536 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:65270830 original size:27 final size:27
Alignment explanation
Indices: 65270780--65271244 Score: 599
Period size: 27 Copynumber: 17.3 Consensus size: 27
65270770 GGGGTAAAAT
* * * *
65270780 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65270807 GGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65270834 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65270861 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65270888 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65270915 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65270942 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65270969 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65270996 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65271023 GGTATTTC-ACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
65271049 GATAATTCTACCCTATAGGGGTTTTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65271076 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65271103 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
65271130 AGTAATTCTAGCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65271157 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
65271184 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
65271211 AGTAATTCTTCCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65271238 GGTAATT
1 GGTAATT
65271245 TTGTAAATTG
Statistics
Matches: 379, Mismatches: 58, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
26 22 0.06
27 357 0.94
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65270904 original size:81 final size:81
Alignment explanation
Indices: 65270784--65271244 Score: 710
Period size: 81 Copynumber: 5.7 Consensus size: 81
65270774 TAAAATGGTA
* * * *
65270784 ATTT-TACCCCACAAGGGTATCTCGGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
65270848 ACAGGGGTATTTCAGT
66 ACAGGGGTATTTCGGT
65270864 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
65270929 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * *
65270945 AATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
65271010 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * * *
65271026 ATTTC-ACCCTACAAGGATATTTCGATAATTCTACCCTATAGGGGTTTTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
65271090 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * *
65271106 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTAGCTTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
65271171 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* * * *
65271187 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTTCCCTACAGGGTTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
65271245 TTGTAAATTG
Statistics
Matches: 352, Mismatches: 27, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
80 80 0.23
81 272 0.77
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:65271371 original size:27 final size:27
Alignment explanation
Indices: 65271293--65271358 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
65271283 GGGTACTTTG
65271293 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
* *
65271320 ATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAGGGTATTTCA
65271347 GTAATTTTACAA
1 GTAATTTTACAA
65271359 ACCAGGGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAGGGTATTTCA
Found at i:65272270 original size:19 final size:17
Alignment explanation
Indices: 65272248--65272297 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
65272238 ATAATATAAG
65272248 ATAATATTAATAATAATT
1 ATAATATTAA-AATAATT
65272266 AATAAT-TATAAAATAATT
1 -ATAATAT-TAAAATAATT
65272284 -TAATATTAAAATAA
1 ATAATATTAAAATAA
65272298 ATATCTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 12 0.41
17 1 0.03
18 8 0.28
19 8 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATATTAAAATAATT
Found at i:65278128 original size:9 final size:9
Alignment explanation
Indices: 65278114--65278230 Score: 64
Period size: 9 Copynumber: 13.0 Consensus size: 9
65278104 TAAGTATAAT
65278114 TAAGTTATG
1 TAAGTTATG
65278123 TAAGTTATG
1 TAAGTTATG
* * *
65278132 ATATGATATA
1 -TAAGTTATG
*
65278142 T-ATTTATG
1 TAAGTTATG
65278150 T-A-TTATG
1 TAAGTTATG
65278157 TAAGTTATG
1 TAAGTTATG
*
65278166 TAAATTATG
1 TAAGTTATG
*
65278175 TAAGATATGATA
1 TAAG-T-T-ATG
*
65278187 TATATTTATG
1 TA-AGTTATG
*
65278197 T-A-TTTTG
1 TAAGTTATG
65278204 TAAGTTATG
1 TAAGTTATG
*
65278213 TAAATTATG
1 TAAGTTATG
*
65278222 TAAGATATG
1 TAAGTTATG
65278231 ATATATATTT
Statistics
Matches: 82, Mismatches: 17, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
7 11 0.13
8 8 0.10
9 45 0.55
10 10 0.12
11 2 0.02
12 5 0.06
13 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:65278163 original size:43 final size:45
Alignment explanation
Indices: 65278114--65278244 Score: 194
Period size: 47 Copynumber: 2.9 Consensus size: 45
65278104 TAAGTATAAT
*
65278114 TAAGTTATGTAAGTTA-T-GATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTAGTAGATATGATATATATTTATGTATTATG
*
65278157 TAAGTTATGTAAATTATGTAAGATATGATATATATTTATGTATTTTG
1 TAAGTTATGTAAATTA-GT-AGATATGATATATATTTATGTATTATG
65278204 TAAGTTATGTAAATTATGTAAGATATGATATATATTTATGT
1 TAAGTTATGTAAATTA-GT-AGATATGATATATATTTATGT
65278245 TGATGGGATT
Statistics
Matches: 82, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
43 15 0.18
45 1 0.01
47 66 0.80
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (45 bp):
TAAGTTATGTAAATTAGTAGATATGATATATATTTATGTATTATG
Found at i:65278174 original size:18 final size:16
Alignment explanation
Indices: 65278118--65278230 Score: 79
Period size: 18 Copynumber: 6.9 Consensus size: 16
65278108 TATAATTAAG
65278118 TTATGTAAGTTATGATA
1 TTATGTAAGTTATG-TA
* * *
65278135 TGATATATATTTATGTA
1 TTATGTA-AGTTATGTA
65278152 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
*
65278170 TTATGTAAGATATG-A
1 TTATGTAAGTTATGTA
* *
65278185 -TATAT-ATTTATGTA
1 TTATGTAAGTTATGTA
*
65278199 TTTTGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
*
65278217 TTATGTAAGATATG
1 TTATGTAAGTTATG
65278231 ATATATATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 15
0.71 0.15 0.15
Matches are distributed among these distances:
13 5 0.07
14 5 0.07
15 4 0.05
16 14 0.19
17 12 0.16
18 33 0.45
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:65278194 original size:47 final size:47
Alignment explanation
Indices: 65278131--65278244 Score: 219
Period size: 47 Copynumber: 2.4 Consensus size: 47
65278121 TGTAAGTTAT
65278131 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAA
*
65278178 GATATGATATATATTTATGTATTTTGTAAGTTATGTAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAA
65278225 GATATGATATATATTTATGT
1 GATATGATATATATTTATGT
65278245 TGATGGGATT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (47 bp):
GATATGATATATATTTATGTATTATGTAAGTTATGTAAATTATGTAA
Found at i:65278626 original size:104 final size:103
Alignment explanation
Indices: 65278503--65278856 Score: 575
Period size: 104 Copynumber: 3.4 Consensus size: 103
65278493 AAATAATTAA
** *
65278503 AAATACAATTTAATTTAATTAGGTAATTTACCAATAAAATAAAAGTAAAAAAATATTTTTCGTGA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTCGTGA
*
65278568 TTAAATTAAAATAAAATAAAATAATTAAAATAAAACTTT
66 TTAAAATAAAATAAAATAAAAT-ATTAAAATAAAACTTT
*
65278607 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTAGTGA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTCGTGA
65278672 TTAAAATAAAATAAAATAAAATATTTAAAATAAAACTTT
66 TTAAAATAAAATAAAATAAAATA-TTAAAATAAAACTTT
* * *
65278711 AAAAATAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAATATTTTTCGTGA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTCGTGA
* * *
65278776 TTAAAATAAAATAAAATAACAT-TCAAAATAAACCTTT
66 TTAAAATAAAATAAAATAAAATATTAAAATAAAACTTT
*
65278813 AAATACTATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
65278857 TATTTAAAAA
Statistics
Matches: 234, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
102 54 0.23
103 1 0.00
104 179 0.76
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.34
Consensus pattern (103 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAAAAATATTTTTCGTGA
TTAAAATAAAATAAAATAAAATATTAAAATAAAACTTT
Found at i:65280204 original size:5 final size:5
Alignment explanation
Indices: 65280194--65280269 Score: 152
Period size: 5 Copynumber: 15.2 Consensus size: 5
65280184 TGTTTGATGC
65280194 AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT
1 AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT AGTAT
65280244 AGTAT AGTAT AGTAT AGTAT AGTAT A
1 AGTAT AGTAT AGTAT AGTAT AGTAT A
65280270 AGGACAAAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 71 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (5 bp):
AGTAT
Found at i:65281800 original size:123 final size:122
Alignment explanation
Indices: 65281660--65281898 Score: 361
Period size: 123 Copynumber: 2.0 Consensus size: 122
65281650 AAATGACGCT
* * *
65281660 GTTTCCATTCAACTTCTCATATTTTTAGTGGCGTTTTCTAATAAGCTCCGCTAATGCTGATCTAT
1 GTTTCCATTCAACTTCTCATATTTTTAGCGGCGTTTTCTAATAAGCACCGCCAATGCTGATCTAT
* *
65281725 TGCTGCATTTATTACATAACGCCACTAATTCCACTACCCCGCCAACTAAAACGAAGCC
66 TGCGGCATTTATTACATAACGCCACTAATTCCACTA-CCCACCAACTAAAACGAAGCC
* * *
65281783 GTTTCCATTCAATTTCTCATATTTTTAGCGGCGTTTTCTAATAAGCACCTCCAATTCTGATCTAT
1 GTTTCCATTCAACTTCTCATATTTTTAGCGGCGTTTTCTAATAAGCACCGCCAATGCTGATCTAT
* * * *
65281848 TGCGGCGTTTATTGCCTAGCGCCACTAATTCCACTACCCACCAACTAAAAC
66 TGCGGCATTTATTACATAACGCCACTAATTCCACTACCCACCAACTAAAAC
65281899 AACGTTGTTT
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
122 14 0.13
123 90 0.87
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (122 bp):
GTTTCCATTCAACTTCTCATATTTTTAGCGGCGTTTTCTAATAAGCACCGCCAATGCTGATCTAT
TGCGGCATTTATTACATAACGCCACTAATTCCACTACCCACCAACTAAAACGAAGCC
Found at i:65282165 original size:14 final size:14
Alignment explanation
Indices: 65282142--65282175 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
65282132 AACCAATAGA
65282142 CCAA-ACCCTAAAC
1 CCAATACCCTAAAC
*
65282155 CTAATACCCTAAAC
1 CCAATACCCTAAAC
65282169 CCAATAC
1 CCAATAC
65282176 TCGAAACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (14 bp):
CCAATACCCTAAAC
Found at i:65282168 original size:21 final size:21
Alignment explanation
Indices: 65282160--65282212 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
65282150 TAAACCTAAT
* *
65282160 ACCCTAAACCCAATACTCGAA
1 ACCCTAAACCTAATACCCGAA
*
65282181 ACCCTAAACCTAATACCCTAA
1 ACCCTAAACCTAATACCCGAA
**
65282202 ACTTTAAACCT
1 ACCCTAAACCT
65282213 TAACCCCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.21
Consensus pattern (21 bp):
ACCCTAAACCTAATACCCGAA
Found at i:65282183 original size:35 final size:35
Alignment explanation
Indices: 65282127--65282203 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
65282117 TATAATTAAG
*
65282127 CCCTAAA-CCAATAGACCAAACCCTAAACCTAATA
1 CCCTAAACCCAATACACCAAACCCTAAACCTAATA
* *
65282161 CCCTAAACCCAATACTCGAAACCCTAAACCTAATA
1 CCCTAAACCCAATACACCAAACCCTAAACCTAATA
65282196 CCCTAAAC
1 CCCTAAAC
65282204 TTTAAACCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 7 0.18
35 32 0.82
ACGTcount: A:0.44, C:0.38, G:0.03, T:0.16
Consensus pattern (35 bp):
CCCTAAACCCAATACACCAAACCCTAAACCTAATA
Found at i:65283205 original size:41 final size:41
Alignment explanation
Indices: 65283128--65283208 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
65283118 CAGCGTTTGT
* *
65283128 AACAGAAACACTGCTATTACTTAGTTTTTAGTGGTGTTTTC
1 AACAAAAACACTGCTATTACTTAGTTTTTAGCGGTGTTTTC
*
65283169 AACAAAAACACTGCTATT-GTTCAGTTTTTTA-CGGTGTTTT
1 AACAAAAACACTGCTATTACTT-AG-TTTTTAGCGGTGTTTT
65283209 ATTTCAAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 2 0.06
41 27 0.77
42 6 0.17
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (41 bp):
AACAAAAACACTGCTATTACTTAGTTTTTAGCGGTGTTTTC
Found at i:65297988 original size:85 final size:85
Alignment explanation
Indices: 65297845--65298023 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
65297835 GGCCGGCCAT
65297845 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
65297910 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
65297930 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
65297995 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
65298015 GGGCATGGG
1 GAGCATGGG
65298024 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:65300356 original size:47 final size:47
Alignment explanation
Indices: 65300269--65300680 Score: 653
Period size: 47 Copynumber: 8.6 Consensus size: 47
65300259 GTATATTTGA
65300269 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
65300318 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65300365 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
65300414 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
65300461 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
65300510 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
65300557 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
65300604 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
65300651 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
65300681 TCCCGAAGGG
Statistics
Matches: 339, Mismatches: 20, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
47 235 0.69
49 104 0.31
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:65300379 original size:96 final size:96
Alignment explanation
Indices: 65300269--65300680 Score: 724
Period size: 96 Copynumber: 4.3 Consensus size: 96
65300259 GTATATTTGA
65300269 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
65300334 ATATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
65300365 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
65300430 ATATATGTGATAAGGCCGAATGGCCAATGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
*
65300461 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
65300526 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
65300557 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * * *
65300620 ATATATGTGACAGGGCCGAGTGGCCAACGTG
66 ATATATGTGATAAGGCCGAATGGCCAATGTG
*
65300651 ATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGAATGTGAAAGTGTATATATATGTGATAAG
65300681 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
94 96 0.32
95 1 0.00
96 206 0.68
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:65300452 original size:143 final size:143
Alignment explanation
Indices: 65300269--65300680 Score: 670
Period size: 143 Copynumber: 2.9 Consensus size: 143
65300259 GTATATTTGA
65300269 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
65300334 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
64 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
65300399 CTAATGGCCGATGTG
129 CTAATGGCCGATGTG
* *
65300414 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
* * *
65300479 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
64 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
65300542 CTAATGGCCGATGTG
129 CTAATGGCCGATGTG
65300557 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * *
65300622 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
65300681 TCCCGAAGGG
Statistics
Matches: 248, Mismatches: 15, Indels: 12
0.90 0.05 0.04
Matches are distributed among these distances:
141 49 0.20
142 1 0.00
143 139 0.56
145 59 0.24
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
AATGGCCGATGTG
Found at i:65300851 original size:37 final size:37
Alignment explanation
Indices: 65300799--65300943 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
65300789 CTGAGCTCTA
* *
65300799 AAGACCCGATAACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
* *
65300836 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
*
65300873 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
* * *
65300910 AAGACCCGATAATTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATAACTACGTGTGGAGATTTTGTCCG
65300944 AGCTAAAGGT
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTTTGTCCGGGT
Found at i:65306161 original size:42 final size:42
Alignment explanation
Indices: 65306102--65306265 Score: 188
Period size: 42 Copynumber: 3.9 Consensus size: 42
65306092 TTAGGGTTAC
*
65306102 TGAGATTACGTGCAAGACTATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACTATATCTGGGATATGGCATCGATA
65306144 TGAGACTT-CGTGTAAGAC-AGTATCTGGGATATGGCATCGATA
1 TGAGA-TTACGTGTAAGACTA-TATCTGGGATATGGCATCGATA
* * * ** * *
65306186 TGATATTTCGTGTAAGACTATAGCTAAGCTATTGGCATCTATA
1 TGAGATTACGTGTAAGACTATATCTGGGATA-TGGCATCGATA
* * *
65306229 CGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACTATATCTGGGATATGGCAT
65306266 TGGTAAGGTA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
41 3 0.03
42 63 0.62
43 35 0.35
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACTATATCTGGGATATGGCATCGATA
Found at i:65308042 original size:221 final size:222
Alignment explanation
Indices: 65307658--65308104 Score: 844
Period size: 221 Copynumber: 2.0 Consensus size: 222
65307648 TTATACACAT
*
65307658 ACTTAATAAAAGAAAGCATACATCATTTAATTTCATAAAAAATGAAATATTCCGTAATAGCATTT
1 ACTTAATAAAAGAAAGCATACATCATTTAATTTCATAAAAAATGAAATATTCCATAATAGCATTT
65307723 GTTACCTAAAAACAACATTTGCATATCATACATGAATATAAATATGTCATCAACTCAAACAATTA
66 GTTACCTAAAAACAACATTTGCATATCATACATGAATATAAATATGTCATCAACTCAAACAATTA
65307788 AACCACTCATATGAACTAATCAAAATTTCCAAACAGTTTGCCATTTTAATCCGACTCAAGTACCA
131 AACCACTCATATGAACTAATCAAAATTTCCAAACAGTTTGCCATTTTAATCCGACTCAAGTACCA
65307853 CATTCATAAATCAGCTTTCATTGCCCA
196 CATTCATAAATCAGCTTTCATTGCCCA
*
65307880 ACTTAATAAAAGCAAA-CATACTTCATTTAATTTCAT-AAAAATGAAATATTCCATAATAGCATT
1 ACTTAATAAAAG-AAAGCATACATCATTTAATTTCATAAAAAATGAAATATTCCATAATAGCATT
65307943 TGTTACCTAAAAACAACATTTGCATATCATACATGAATATAAATATGTCATCAACTCAAACAATT
65 TGTTACCTAAAAACAACATTTGCATATCATACATGAATATAAATATGTCATCAACTCAAACAATT
*
65308008 AAACCACTCATATGAACTAATCAAAATTTCCAAACAGTTTGCCATTTTAATCTGACTCAAGTACC
130 AAACCACTCATATGAACTAATCAAAATTTCCAAACAGTTTGCCATTTTAATCCGACTCAAGTACC
65308073 ACATTCATAAATCAGCTTTCATTGCCCA
195 ACATTCATAAATCAGCTTTCATTGCCCA
65308101 ACTT
1 ACTT
65308105 TATCCACAAA
Statistics
Matches: 221, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
221 187 0.85
222 31 0.14
223 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (222 bp):
ACTTAATAAAAGAAAGCATACATCATTTAATTTCATAAAAAATGAAATATTCCATAATAGCATTT
GTTACCTAAAAACAACATTTGCATATCATACATGAATATAAATATGTCATCAACTCAAACAATTA
AACCACTCATATGAACTAATCAAAATTTCCAAACAGTTTGCCATTTTAATCCGACTCAAGTACCA
CATTCATAAATCAGCTTTCATTGCCCA
Found at i:65308130 original size:16 final size:16
Alignment explanation
Indices: 65308109--65308139 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65308099 CAACTTTATC
*
65308109 CACAAATATTCAATAG
1 CACAAATATTAAATAG
65308125 CACAAATATTAAATA
1 CACAAATATTAAATA
65308140 AGACATAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.03, T:0.26
Consensus pattern (16 bp):
CACAAATATTAAATAG
Found at i:65308817 original size:9 final size:9
Alignment explanation
Indices: 65308803--65308827 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
65308793 CAAGTCCATA
65308803 TATTTCATT
1 TATTTCATT
65308812 TATTTCATT
1 TATTTCATT
65308821 TATTTCA
1 TATTTCA
65308828 CATTTTAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTTCATT
Found at i:65314743 original size:42 final size:42
Alignment explanation
Indices: 65314696--65314808 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 42
65314686 AGTATTTGAC
* * *
65314696 TTCGTGTAAGACTATATATGGGATATGGAATCGATATGAGAT
1 TTCGTGTAAGACTATATCTGGGATATGGAATCGACACGAGAT
* * * *
65314738 TTCGTGTAACA-TCATAGCTGGGCTATTGGCATCGACACGAGAT
1 TTCGTGTAAGACT-ATATCTGGGATA-TGGAATCGACACGAGAT
* * *
65314781 TACATGTAAGACCATATCTGGGATATGG
1 TTCGTGTAAGACTATATCTGGGATATGG
65314809 CATTGGTATG
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.02
42 22 0.40
43 32 0.58
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (42 bp):
TTCGTGTAAGACTATATCTGGGATATGGAATCGACACGAGAT
Found at i:65316882 original size:27 final size:27
Alignment explanation
Indices: 65316829--65316882 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
65316819 CATTGTAGAA
* * *
65316829 GTTGGTGAGGTTGTACAGCGCTGAGAT
1 GTTGGTGAGGTTCTACAGCACTAAGAT
*
65316856 GTTGGTGAGGTTCTACATCACTAAGAT
1 GTTGGTGAGGTTCTACAGCACTAAGAT
65316883 TGTGAGACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.33, T:0.31
Consensus pattern (27 bp):
GTTGGTGAGGTTCTACAGCACTAAGAT
Found at i:65318008 original size:39 final size:39
Alignment explanation
Indices: 65317954--65318031 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
65317944 ATTTTTAGCA
*
65317954 TGTGCTAGCTAGCCTTTCCGTCCACCTATGTTGCCATAT
1 TGTGCTAGCTAGCCTTGCCGTCCACCTATGTTGCCATAT
*
65317993 TGTGCTAGCTAGCCTTGCTGTCCACCTATGTTGCCATAT
1 TGTGCTAGCTAGCCTTGCCGTCCACCTATGTTGCCATAT
65318032 AGGGAGGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.36
Consensus pattern (39 bp):
TGTGCTAGCTAGCCTTGCCGTCCACCTATGTTGCCATAT
Found at i:65320519 original size:13 final size:13
Alignment explanation
Indices: 65320499--65320531 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
65320489 TTATCTAGCC
65320499 TTAT-TAAACTAA
1 TTATCTAAACTAA
65320511 TTATCTAAACTAA
1 TTATCTAAACTAA
*
65320524 TTAACTAA
1 TTATCTAA
65320532 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:65324119 original size:28 final size:29
Alignment explanation
Indices: 65324088--65324147 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
65324078 GATTTTGTGT
*
65324088 AAAAATGTATATT-AGG-GATTAAATTGAG
1 AAAAATGTAAATTGAGGAG-TTAAATTGAG
* *
65324116 AAAAGTGTAAATTGAGGAGTTAAATTGTG
1 AAAAATGTAAATTGAGGAGTTAAATTGAG
65324145 AAA
1 AAA
65324148 TAAATGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 11 0.41
29 15 0.56
30 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAAATGTAAATTGAGGAGTTAAATTGAG
Found at i:65332053 original size:48 final size:48
Alignment explanation
Indices: 65331989--65332307 Score: 397
Period size: 48 Copynumber: 6.6 Consensus size: 48
65331979 TGTTCCGGTA
* * *
65331989 TAAGACCATTTCTGGGACATGGCATTGGTATTGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
* * * *
65332037 TAAGACCATGTATGGGACATGTCATCGGCATTATTATGTGAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
* ** * *
65332085 TAAGACCATGTCTGGGACATGGCATCGGCGTTGCCATGTGAGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
* * * *
65332133 TAAGACCATGACTGGGACATGGCATCAG-AGTTTTTATCTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCA-TTGTTATGTGAGCCAGTG
* * * * * *
65332181 TAAGACCATGTTTGGGACATGGCATCAGCGTTTTTGTGTGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
* *
65332229 TAAGACCATGTCTGGGACATGGCATCGACATCGTTATGTGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
*
65332277 TATGACCATGTCTGGGACATGGCATCGGCAT
1 TAAGACCATGTCTGGGACATGGCATCGGCAT
65332308 GAGGCATCAT
Statistics
Matches: 228, Mismatches: 41, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
48 228 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTG
Found at i:65336773 original size:40 final size:40
Alignment explanation
Indices: 65336711--65336968 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
65336701 AAGCCAAGTA
* * * *
65336711 CCTTCGGGAGTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
65336750 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65336790 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
65336830 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
65336870 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
65336910 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
65336950 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
65336969 TTATCATCCA
Statistics
Matches: 204, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
39 13 0.06
40 191 0.94
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:65339364 original size:49 final size:48
Alignment explanation
Indices: 65339309--65339439 Score: 156
Period size: 49 Copynumber: 2.7 Consensus size: 48
65339299 TTGAATTTTA
* * **
65339309 AAAACTCTTTTAAATAATAATTTAAATTCTATTTAATTGTCT-TTTATTT
1 AAAACTCTTTTAAATAATAA-TTAAATTATATTTAATTAT-TATTTACCT
* *
65339358 AAAACTCTTTTAAATAATAATTAAATTTTGTTCTAATTATTATTTACCT
1 AAAACTCTTTTAAATAATAATTAAATTATATT-TAATTATTATTTACCT
* *
65339407 GAAACTCTTTTAAATAATAACTAAATTATATTT
1 AAAACTCTTTTAAATAATAATTAAATTATATTT
65339440 TCTTATTTGA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
48 12 0.17
49 59 0.83
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (48 bp):
AAAACTCTTTTAAATAATAATTAAATTATATTTAATTATTATTTACCT
Found at i:65339550 original size:93 final size:93
Alignment explanation
Indices: 65339391--65339561 Score: 236
Period size: 93 Copynumber: 1.8 Consensus size: 93
65339381 AATTTTGTTC
* * * * *
65339391 TAATTATTATTTACCTGAAACTCTTTTAAATAATAACTAAATTATATTTTCTTATTTGATACGGA
1 TAATTATTATTTACCTAAAACTCTTTTAAATAATAACTAAATTACATTTCCTTATTAGATAAGGA
*
65339456 ATATATTAAATCCTTTTGATTTAAATTT
66 ATATATCAAATCCTTTTGATTTAAATTT
* * * *
65339484 TAATTATTATTTATCTAAAACTCTTTTAAATAATAATTGAATTCCATTTCCTTATCTAG-TAAGG
1 TAATTATTATTTACCTAAAACTCTTTTAAATAATAACTAAATTACATTTCCTTAT-TAGATAAGG
65339548 AATATATCAAATCC
65 AATATATCAAATCC
65339562 CATTTTTATC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
93 65 0.97
94 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (93 bp):
TAATTATTATTTACCTAAAACTCTTTTAAATAATAACTAAATTACATTTCCTTATTAGATAAGGA
ATATATCAAATCCTTTTGATTTAAATTT
Found at i:65340679 original size:23 final size:24
Alignment explanation
Indices: 65340627--65340686 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 24
65340617 CATGGTAAGA
65340627 TAGATTTCATGAATATATCACATTTGT
1 TAGATTTCATGAATATATCACA--T-T
65340654 TAGATTTCATGAATATATCACA-T
1 TAGATTTCATGAATATATCACATT
*
65340677 TAGAGTTCAT
1 TAGATTTCAT
65340687 ACTTTCTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 10 0.31
27 22 0.69
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
TAGATTTCATGAATATATCACATT
Found at i:65350011 original size:19 final size:17
Alignment explanation
Indices: 65349987--65350029 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
65349977 TGGGCCATTC
*
65349987 TGGGCCGAACTGGGTCGTG
1 TGGGCCCAA-TGGG-CGTG
*
65350006 TGGGCCCAATGGGCTTG
1 TGGGCCCAATGGGCGTG
65350023 TGGGCCC
1 TGGGCCC
65350030 CACAAGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 8 0.36
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (17 bp):
TGGGCCCAATGGGCGTG
Found at i:65354088 original size:47 final size:47
Alignment explanation
Indices: 65353991--65354099 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 47
65353981 AAGGTGGAAG
* * * *
65353991 TTATTGGCAATTTATTTGCAATTTTGGAGGCTTGTCCACGATTTATA
1 TTATTGGCAGTTTATCTACAATTTTGGAGGCTTGTCCACAATTTATA
* *
65354038 TTATTGGCAGTTTATCTATAATTTT-GATGGCTTGTCCATAATTT-TGA
1 TTATTGGCAGTTTATCTACAATTTTGGA-GGCTTGTCCACAATTTAT-A
* *
65354085 TTATTAGTAGTTTAT
1 TTATTGGCAGTTTAT
65354100 TTGCATTACT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
46 3 0.06
47 49 0.94
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (47 bp):
TTATTGGCAGTTTATCTACAATTTTGGAGGCTTGTCCACAATTTATA
Found at i:65360931 original size:29 final size:29
Alignment explanation
Indices: 65360891--65360990 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 29
65360881 AATGTGACTA
*
65360891 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
65360920 GGCCTAATGGGCCATATACAA-GTGGTTTG
1 GGCCTAATGGGCCATATA-AATGTGATTTG
* *
65360949 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
65360977 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
65360991 AATACAGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
28 18 0.29
29 43 0.68
30 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:65360986 original size:28 final size:28
Alignment explanation
Indices: 65360876--65360990 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 28
65360866 GTGAGCATGA
* * * *
65360876 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
* *
65360904 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATATGA-TTGGGCCTAATGGGCC
*
65360933 ATAT-ACA-AGTGGTTTGGGCCTAATGGGCC
1 ATATGA-ATA-T-GATTGGGCCTAATGGGCC
*
65360962 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
65360990 A
1 A
65360991 AATACAGGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
28 29 0.40
29 41 0.56
30 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATATGATTGGGCCTAATGGGCC
Found at i:65370524 original size:93 final size:93
Alignment explanation
Indices: 65370395--65370566 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
65370385 CGCCCATAAG
* *** *
65370395 CGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCTATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65370460 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
65370488 CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAATTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65370553 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65370567 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65370563 original size:46 final size:46
Alignment explanation
Indices: 65370388--65370563 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
65370378 TGTAACCCGC
* * ***
65370388 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
65370434 CTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
65370484 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65370527 CCATAAGTGAATTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65370564 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65370582 original size:46 final size:44
Alignment explanation
Indices: 65370439--65370582 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
65370429 CGCATCTATA
65370439 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
65370486 CA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
65370532 AGTGAATTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
65370578 AGTGA
1 AGTGA
65370583 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 31 0.40
47 30 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:65378022 original size:46 final size:45
Alignment explanation
Indices: 65377929--65378014 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
65377919 TACATCTCAC
* *
65377929 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
65377975 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
65378015 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:65384359 original size:47 final size:47
Alignment explanation
Indices: 65384251--65384420 Score: 151
Period size: 45 Copynumber: 3.7 Consensus size: 47
65384241 CCCCCTAAGT
* * * **
65384251 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
*
65384297 GAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
65384344 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
65384389 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
65384421 TCAACCATCC
Statistics
Matches: 103, Mismatches: 8, Indels: 24
0.76 0.06 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 26 0.25
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:65384361 original size:93 final size:92
Alignment explanation
Indices: 65384251--65384420 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
65384241 CCCCCTAAGT
* *
65384251 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AATGAACTCGAACTCAACTCAA
65384316 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
65384344 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGAACTCAACTCAAC
65384409 GAGTTCGGATGC
66 GAGTTCGGATGC
65384421 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 33 0.46
93 39 0.54
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGAACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65392113 original size:13 final size:13
Alignment explanation
Indices: 65392095--65392121 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65392085 TTAGAGGCTG
65392095 AATGAGATACTAA
1 AATGAGATACTAA
65392108 AATGAGATACTAA
1 AATGAGATACTAA
65392121 A
1 A
65392122 TTAAAGCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (13 bp):
AATGAGATACTAA
Found at i:65396236 original size:47 final size:48
Alignment explanation
Indices: 65396167--65396285 Score: 156
Period size: 47 Copynumber: 2.5 Consensus size: 48
65396157 TAAGGTACTG
*
65396167 ATGCCATGTCCCAGACATGGTCTTACAGTGGCTCAT-ATCTC-AAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACAGTGACT-ATCATCTCGAAGTCA
* * **
65396214 ATGCCATGTGCCAGACATGGTCTTACAGTGACTATCATCTCGTAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACAGTGACTATCATCTCGAAGTCA
65396262 ATG-CATGTCCCAGACAT-GTCTTAC
1 ATGCCATGTCCCAGACATGGTCTTAC
65396286 GCCGCTTTAC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 9 0.14
47 49 0.77
48 6 0.09
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACAGTGACTATCATCTCGAAGTCA
Found at i:65403295 original size:40 final size:40
Alignment explanation
Indices: 65403240--65403471 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
65403230 ATAACCACAA
* * *
65403240 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
65403280 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
65403320 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
65403360 GCACAAATGCCTTCGGGTCTTAGCCCAGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
65403400 GCACAAATGCCTTCGGGTCTTAGCTCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
65403440 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
65403472 CATTAAATGC
Statistics
Matches: 176, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 171 0.97
41 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:65407083 original size:27 final size:27
Alignment explanation
Indices: 65407069--65407243 Score: 246
Period size: 27 Copynumber: 6.5 Consensus size: 27
65407059 TACTCCACAA
*
65407069 GGGTATCTCGATAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
* * * *
65407096 GGGTATTTTGGTATTTCTACCCTACAA
1 GGGTATTTCGATAATTCTACCCTACAG
*
65407123 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGATAATTCTACCCTACAG
65407150 GGGTATTTC-AGTAATTCTACCCTACAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
65407177 GGGTATTTC-AGTAATTCTACCCTACAG
1 GGGTATTTCGA-TAATTCTACCCTACAG
* *
65407204 GGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTCGATAATTCTACCCTACAG
65407231 GGGTATTTCGATA
1 GGGTATTTCGATA
65407244 TTTTACAAAT
Statistics
Matches: 134, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGATAATTCTACCCTACAG
Found at i:65407098 original size:54 final size:54
Alignment explanation
Indices: 65407040--65407243 Score: 141
Period size: 54 Copynumber: 3.8 Consensus size: 54
65407030 TTAACACCCT
65407040 AGGGGCAAAATGCTAATTT-TACTCC-ACAAGGGTATCTCGATAATTCTACCCTAC
1 AGGGGCAAAATGCT-ATTTCTAC-CCTACAAGGGTATCTCGATAATTCTACCCTAC
* *** * * *
65407094 AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
1 AGGGGCAAAATGCTATTTCTACCCTACAAGGGTATCTCGATAATTCTACCCTAC
* * * * * *
65407148 AGGGG--TATTTCAGTAATTCTACCCTACAGGGGTATTTC-AGTAATTCTACCCTAC
1 AGGGGCAAAATGC--TATTTCTACCCTACAAGGGTATCTCGA-TAATTCTACCCTAC
* ** * * *
65407202 AGGGG-TATTTCGGTAATTCTACCCTACAAGGGTATTTCGATA
1 AGGGGCAAAAT-GCTATTTCTACCCTACAAGGGTATCTCGATA
65407244 TTTTACAAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
52 3 0.02
53 6 0.05
54 112 0.90
55 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (54 bp):
AGGGGCAAAATGCTATTTCTACCCTACAAGGGTATCTCGATAATTCTACCCTAC
Found at i:65407195 original size:81 final size:81
Alignment explanation
Indices: 65407065--65407239 Score: 280
Period size: 81 Copynumber: 2.2 Consensus size: 81
65407055 ATTTTACTCC
* ** *
65407065 ACAAGGGTATCTC-GATAATTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTAT
1 ACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTAT
65407129 TTCGGTAATTCTACCCT
65 TTCGGTAATTCTACCCT
* *
65407146 ACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
65407211 TCGGTAATTCTACCCT
66 TCGGTAATTCTACCCT
65407227 ACAAGGGTATTTC
1 ACAAGGGTATTTC
65407240 GATATTTTAC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 85 0.99
82 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (81 bp):
ACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
TCGGTAATTCTACCCT
Found at i:65407269 original size:26 final size:27
Alignment explanation
Indices: 65407233--65407463 Score: 163
Period size: 27 Copynumber: 8.6 Consensus size: 27
65407223 CCCTACAAGG
*
65407233 GTATTTCGAT-ATTTTACAAATC-GAGA
1 GTATTTTGATAATTTTACAAATCAG-GA
** *
65407259 GTATTTTGATAATTTCGCAAATCAGGG
1 GTATTTTGATAATTTTACAAATCAGGA
* ** *
65407286 GTATTTTGTTAATTTTACAAGCCAGGG
1 GTATTTTGATAATTTTACAAATCAGGA
* *
65407313 GTATTTTGGTAATTTTACAAA-CTAGGG
1 GTATTTTGATAATTTTACAAATC-AGGA
* *
65407340 GTATTTT-AGTTATTTTACAAA-CTAGGG
1 GTATTTTGA-TAATTTTACAAATC-AGGA
* *
65407367 GTATTTTGGTAATTTTACAAA-CTAGGG
1 GTATTTTGATAATTTTACAAATC-AGGA
* *
65407394 GTATTTT-AGTAATTTTACAAATTAGGG
1 GTATTTTGA-TAATTTTACAAATCAGGA
* **
65407421 GTATTTTGGTAATTTTACTGATCGAGG-
1 GTATTTTGATAATTTTACAAATC-AGGA
*
65407448 GTATTTTGGTAATTTT
1 GTATTTTGATAATTTT
65407464 GTAAACCAAG
Statistics
Matches: 175, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.06
27 161 0.92
28 4 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
GTATTTTGATAATTTTACAAATCAGGA
Found at i:65407504 original size:27 final size:27
Alignment explanation
Indices: 65407259--65407490 Score: 270
Period size: 27 Copynumber: 8.6 Consensus size: 27
65407249 CAAATCGAGA
* **
65407259 GTATTTTGATAATTTCGCAAA-TCAGGG
1 GTATTTTGGTAATTTTACAAACT-AGGG
* * *
65407286 GTATTTTGTTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
65407313 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
* *
65407340 GTATTTTAGTTATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
65407367 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
* *
65407394 GTATTTTAGTAATTTTACAAATTAGGG
1 GTATTTTGGTAATTTTACAAACTAGGG
** *
65407421 GTATTTTGGTAATTTTACTGA-TCGAGG
1 GTATTTTGGTAATTTTACAAACTAG-GG
** * *
65407448 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTGGTAATTTTACAAACTAGGG
*
65407475 GTATTTTAGTAATTTT
1 GTATTTTGGTAATTTT
65407491 GTAAATCGAG
Statistics
Matches: 176, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 174 0.99
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACTAGGG
Found at i:65407512 original size:54 final size:54
Alignment explanation
Indices: 65407419--65407572 Score: 143
Period size: 54 Copynumber: 2.9 Consensus size: 54
65407409 TACAAATTAG
* * *** *
65407419 GGGTATTTTGGTAATTTTACT-GATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTA-TAAATCGAGGGTAAAATGGTAATTTTATAAACCAA
* * *
65407473 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAACCAA
** * *
65407527 GGGTA--AAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTTTA
1 GGGTATTTTA-G-TAATTTTATAAATCGAGGGTAAAATGGTAATTTTA
65407573 CAAATTGAGG
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 79 0.96
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTATAAACCAA
Found at i:65407512 original size:81 final size:81
Alignment explanation
Indices: 65407284--65407515 Score: 218
Period size: 81 Copynumber: 2.9 Consensus size: 81
65407274 CGCAAATCAG
* * * * *** *
65407284 GGGTATTTTGTTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-TGAGGGGTAAAATG
* * * *
65407348 GTTATTTTAC-AAACTA
65 GTAATTTTACTGATCGA
* * * ***
65407364 GGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTG
1 -GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATGAGGGGTAAAATG
65407429 GTAATTTTACTGATCGA
65 GTAATTTTACTGATCGA
** **
65407446 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGA-GGGTAAAATG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAT-GAGGGGTAAAATG
65407510 GTAATT
65 GTAATT
65407516 CTATAAATCA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 124 0.96
82 4 0.03
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.42
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATGAGGGGTAAAATGG
TAATTTTACTGATCGA
Found at i:65407513 original size:27 final size:27
Alignment explanation
Indices: 65407454--65407577 Score: 113
Period size: 27 Copynumber: 4.6 Consensus size: 27
65407444 GAGGGTATTT
* * ***
65407454 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTTTATAAATCAAGGGTAAAA
* * *
65407481 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCAAGGGTAAAA
*
65407508 TGGTAATTCTATAAATCAAGGGTAAAA
1 TGGTAATTTTATAAATCAAGGGTAAAA
* * * *
65407535 CGATAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTTTATAAATCAAGGGTAAAA
* *
65407562 CGGTAATTTTACAAAT
1 TGGTAATTTTATAAAT
65407578 TGAGGGCATT
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (27 bp):
TGGTAATTTTATAAATCAAGGGTAAAA
Found at i:65407582 original size:27 final size:27
Alignment explanation
Indices: 65407483--65407583 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
65407473 GGGTATTTTA
* * *
65407483 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
65407510 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
65407537 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
65407564 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
65407584 CATTTCAGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:65409035 original size:17 final size:17
Alignment explanation
Indices: 65409013--65409047 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
65409003 TTTAACTATT
65409013 CGTTATTCACTT-TAAAA
1 CGTTATT-ACTTATAAAA
65409030 CGTTATTACTTATAAAA
1 CGTTATTACTTATAAAA
65409047 C
1 C
65409048 CCTGTTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (17 bp):
CGTTATTACTTATAAAA
Found at i:65409606 original size:26 final size:26
Alignment explanation
Indices: 65409572--65409648 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
65409562 ACACCAATAT
*
65409572 CACATCAAAGCTGCCAGTATCAGTAA
1 CACAACAAAGCTGCCAGTATCAGTAA
* * * *
65409598 CGCAACAAAGCTGCCAGTAGCAATAT
1 CACAACAAAGCTGCCAGTATCAGTAA
* *
65409624 CACAGCAAAGCTGCCAATATCAGTA
1 CACAACAAAGCTGCCAGTATCAGTA
65409649 TATATGTGGC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.39, C:0.27, G:0.17, T:0.17
Consensus pattern (26 bp):
CACAACAAAGCTGCCAGTATCAGTAA
Found at i:65409982 original size:29 final size:29
Alignment explanation
Indices: 65409936--65410003 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
65409926 CCTAACAGTG
65409936 CAAATGGGCCAAAGGCCTATTTTGCGGCC
1 CAAATGGGCCAAAGGCCTATTTTGCGGCC
*
65409965 CAAGTGGGCCAAAGGCCTATTTTGCGGCC
1 CAAATGGGCCAAAGGCCTATTTTGCGGCC
*
65409994 TAAATGGGCC
1 CAAATGGGCC
65410004 CACATGCCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (29 bp):
CAAATGGGCCAAAGGCCTATTTTGCGGCC
Found at i:65417332 original size:26 final size:26
Alignment explanation
Indices: 65417282--65417332 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
65417272 ACACCAATAT
* * **
65417282 TGCAGTAAAGCTGCTAGTATTAGTAA
1 TGCAGCAAAGCAGCTAGTAGCAGTAA
65417308 TGCAGCAAAGCAGCTAGTAGCAGTA
1 TGCAGCAAAGCAGCTAGTAGCAGTA
65417333 TCTCAACAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (26 bp):
TGCAGCAAAGCAGCTAGTAGCAGTAA
Found at i:65418872 original size:24 final size:26
Alignment explanation
Indices: 65418818--65418875 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
65418808 AAATCTCTTT
*
65418818 TTCTCTCCCCTTATCCCTCTCCTAAA
1 TTCTCTCCCCTAATCCCTCTCCTAAA
* **
65418844 ATCTCTCCCC-AAT-CCTCTCCTTGA
1 TTCTCTCCCCTAATCCCTCTCCTAAA
65418868 TTCTCTCC
1 TTCTCTCC
65418876 ACATAACACT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 16 0.59
25 2 0.07
26 9 0.33
ACGTcount: A:0.14, C:0.47, G:0.02, T:0.38
Consensus pattern (26 bp):
TTCTCTCCCCTAATCCCTCTCCTAAA
Found at i:65433008 original size:40 final size:39
Alignment explanation
Indices: 65432929--65433096 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 39
65432919 TGGAAGATAA
* * * *
65432929 CCGGACTAAGATCTGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
65432969 CCGGGCTATGTCTCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGAC-CGAAGGCATTTGTGCGAGTTG-TTATAT
*
65433009 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGTTATAT
65433049 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACC-GAAGGCATTTGTGCGAGTTGTTATAT
65433089 CC-GGCTAA
1 CCGGGCTAA
65433097 ATCCCGAAGA
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
39 11 0.10
40 95 0.87
41 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (39 bp):
CCGGGCTAAGACCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:65433067 original size:80 final size:80
Alignment explanation
Indices: 65432929--65433105 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
65432919 TGGAAGATAA
* * * * *
65432929 CCGGACTAAGATCTGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCTCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGCCTCGAAGGCATTTA
*
65432994 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
*
65433009 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCT-GAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAG-CCTCGAAGGCATTT
*
65433073 GTGCGAGTTGTTATAT
65 ATGCGAGTTGTTATAT
65433089 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
65433106 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 68 0.79
81 4 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGCCTCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:65440824 original size:40 final size:40
Alignment explanation
Indices: 65440762--65440939 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
65440752 AAGCCAAGTA
* * * *
65440762 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
65440801 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65440841 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
65440881 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
65440921 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
65440940 TTATCATCCA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.10
40 113 0.90
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:65444362 original size:40 final size:40
Alignment explanation
Indices: 65444283--65444459 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
65444273 CGGATGATAA
* * * *
65444283 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
65444323 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
65444363 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
65444403 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
65444443 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
65444460 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 102 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:65445938 original size:21 final size:19
Alignment explanation
Indices: 65445912--65445950 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
65445902 ATGCAAATAA
65445912 TAATCAACATAAATTACTCAT
1 TAATC-ACATAAA-TACTCAT
*
65445933 TAATCATATAAATACTCA
1 TAATCACATAAATACTCA
65445951 ACAAAAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATCACATAAATACTCAT
Found at i:65452028 original size:28 final size:28
Alignment explanation
Indices: 65451996--65452065 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
65451986 AATGAGATTG
*
65451996 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
65452024 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
65452052 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
65452066 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:65454838 original size:25 final size:25
Alignment explanation
Indices: 65454810--65454908 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 25
65454800 CGGATACTCC
65454810 ATAGCTCGTGAGAGCATACCGATTT
1 ATAGCTCGTGAGAGCATACCGATTT
* * **
65454835 ATAGCTCATGAGATCATACTAATTT
1 ATAGCTCGTGAGAGCATACCGATTT
* * * *
65454860 ATAGCTCGTGGGAGTATACTGATCT
1 ATAGCTCGTGAGAGCATACCGATTT
* *
65454885 ACAGCTCGT-ATGGGCATACCGATT
1 ATAGCTCGTGA-GAGCATACCGATT
65454909 CACAGCTCCT
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (25 bp):
ATAGCTCGTGAGAGCATACCGATTT
Found at i:65456842 original size:21 final size:21
Alignment explanation
Indices: 65456818--65456858 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65456808 AGTTGATTTA
65456818 TGAAAACCATAAATTACCATT
1 TGAAAACCATAAATTACCATT
* *
65456839 TGAATATCATAAATTACCAT
1 TGAAAACCATAAATTACCAT
65456859 ATTAGAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (21 bp):
TGAAAACCATAAATTACCATT
Found at i:65459262 original size:46 final size:47
Alignment explanation
Indices: 65459212--65459338 Score: 147
Period size: 47 Copynumber: 2.7 Consensus size: 47
65459202 TTGAGCATCT
65459212 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACTAGATCC
* * *
65459258 GAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTA-G-ATCC
65459305 GAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
65459339 GCGGGTTACA
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.03
43 5 0.07
45 3 0.04
46 26 0.38
47 29 0.43
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACTAGATCC
Found at i:65466537 original size:41 final size:41
Alignment explanation
Indices: 65466410--65466595 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
65466400 CTTGCACAAG
* * * * * *
65466410 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
65466450 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
65466490 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
65466531 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
65466572 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
65466596 CATTCGAGTA
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.44
41 68 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:65466544 original size:81 final size:82
Alignment explanation
Indices: 65466410--65466593 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 82
65466400 CTTGCACAAG
* * * * * * *
65466410 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
65466474 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
65466490 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
65466554 TAGTCGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
65466572 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
65466594 ATCATTCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.23
81 38 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:65474399 original size:39 final size:40
Alignment explanation
Indices: 65474354--65474562 Score: 125
Period size: 41 Copynumber: 5.2 Consensus size: 40
65474344 CGGGGTTTAG
* * *
65474354 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
65474393 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
65474433 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
65474473 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
65474514 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
65474555 CCGGATAT
1 CCGGATAT
65474563 CATTCGAGTA
Statistics
Matches: 150, Mismatches: 16, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 18 0.12
40 61 0.41
41 68 0.45
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:65474504 original size:41 final size:41
Alignment explanation
Indices: 65474377--65474562 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
65474367 CTCGCACAAG
* * * * * *
65474377 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
65474417 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
65474457 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
65474498 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
65474539 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
65474563 CATTCGAGTA
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 59 0.44
41 68 0.51
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:65474511 original size:81 final size:82
Alignment explanation
Indices: 65474377--65474560 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 82
65474367 CTCGCACAAG
* * * * * * *
65474377 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
*
65474441 AGTCGC-TAGCACAAAT
66 AGTCGCTTAGCACAAAA
*
65474457 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
1 GCCTTCGGGA-CTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATA
65474521 TAGTCGCTTAGCACAAAA
65 TAGTCGCTTAGCACAAAA
65474539 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
65474561 ATCATTCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.02
80 21 0.23
81 38 0.42
82 26 0.29
83 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (82 bp):
GCCTTCGGGACTTAGCCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
AGTCGCTTAGCACAAAA
Found at i:65486343 original size:43 final size:43
Alignment explanation
Indices: 65486284--65486398 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 43
65486274 ATCTCATATT
*
65486284 GATGCCAATGTTCCAGACATGGTCTTACACGAAATCAT-ATAAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAAT-AC
* *
65486327 GATGCCAATGTCCCAGACATGGTCTTACACGTAATTATAATAC
1 GATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATAC
* *
65486370 AATGCCAATGTCCTAGACATGGTCTTACA
1 GATGCCAATGTCCCAGACATGGTCTTACA
65486399 TGTAATCACA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
43 64 0.97
44 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATAC
Found at i:65493542 original size:28 final size:28
Alignment explanation
Indices: 65493479--65493657 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
65493469 ATATTAAGTC
* *
65493479 CGCACACTCAATGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
65493506 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
65493534 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
65493562 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
65493590 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
65493618 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
65493647 CGCACACTTAG
1 CGCACACTTAG
65493658 CGCCAATCTC
Statistics
Matches: 144, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 21 0.15
28 107 0.74
29 16 0.11
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65501582 original size:28 final size:28
Alignment explanation
Indices: 65501519--65501669 Score: 232
Period size: 28 Copynumber: 5.4 Consensus size: 28
65501509 ATATTAAGTC
* *
65501519 CGCACACTCAATGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
65501546 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
65501574 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
65501602 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
65501630 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
65501659 CGCACACTTAG
1 CGCACACTTAG
65501670 CGCCAATCTC
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
27 21 0.18
28 79 0.68
29 16 0.14
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:65503837 original size:29 final size:29
Alignment explanation
Indices: 65503805--65503910 Score: 169
Period size: 29 Copynumber: 3.7 Consensus size: 29
65503795 AATCATATTC
65503805 ATATGGCCCATTAGGCCCAAATCACTTGT
1 ATATGGCCCATTAGGCCCAAATCACTTGT
* * *
65503834 ATATGGCCCATTATGCCCAAATAACCTGT
1 ATATGGCCCATTAGGCCCAAATCACTTGT
65503863 ATATGGCCCATTAGGCCCAAATCACATT-T
1 ATATGGCCCATTAGGCCCAAATCAC-TTGT
65503892 ATATGGCCCATTAGGCCCA
1 ATATGGCCCATTAGGCCCA
65503911 GTCACATTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
29 69 0.99
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACTTGT
Found at i:65505590 original size:256 final size:256
Alignment explanation
Indices: 65505135--65505642 Score: 998
Period size: 256 Copynumber: 2.0 Consensus size: 256
65505125 ATCTCCTTGC
65505135 TAGCTACTAACGCCACCCCCTACTCCCTATGTGGCGTCACTTAGCCACTCCTCCACAAGGCTTTT
1 TAGCTACTAACGCCACCCCCTACTCCCTATGTGGCGTCACTTAGCCACTCCTCCACAAGGCTTTT
*
65505200 TGATGCTATTTTTCCCCTATTTTTATTTAAAAGCCCAGCTACTTGCCAACCCTGATTCTTTTAAT
66 TGATGCTATTTTTCCCCTATTTTTATTTAAAAGCCCACCTACTTGCCAACCCTGATTCTTTTAAT
65505265 AATTAAACTATAATTTCATTTATTACTAGGTTTGAACTCAAACCTTAAAGACCTACTATAATTAT
131 AATTAAACTATAATTTCATTTATTACTAGGTTTGAACTCAAACCTTAAAGACCTACTATAATTAT
65505330 CACATGGCTAGGAACATAAAACACAATTTTTATCAAAACCAAAAACAAAGAATGTTTTTGG
196 CACATGGCTAGGAACATAAAACACAATTTTTATCAAAACCAAAAACAAAGAATGTTTTTGG
65505391 TAGCTACTAACGCCACCCCCTACTCCCTATGTGGCGTCACTTAGCCACTCCTCCACAAGGCTTTT
1 TAGCTACTAACGCCACCCCCTACTCCCTATGTGGCGTCACTTAGCCACTCCTCCACAAGGCTTTT
65505456 TGATGCTATTTTTCCCCTATTTTTATTTAAAAGCCCACCTACTTGCCAACCCTGATTCTTTTAAT
66 TGATGCTATTTTTCCCCTATTTTTATTTAAAAGCCCACCTACTTGCCAACCCTGATTCTTTTAAT
65505521 AATTAAACTATAATTTCATTTATTACTAGGTTTGAACTCAAACCTTAAAGACCTACTATAATTAT
131 AATTAAACTATAATTTCATTTATTACTAGGTTTGAACTCAAACCTTAAAGACCTACTATAATTAT
*
65505586 CACATGGCTAGGAACATAAAACACAATTTTTATCAAAACCAAAAATAAAGAATGTTT
196 CACATGGCTAGGAACATAAAACACAATTTTTATCAAAACCAAAAACAAAGAATGTTT
65505643 GGGATTTCAG
Statistics
Matches: 250, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
256 250 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.33
Consensus pattern (256 bp):
TAGCTACTAACGCCACCCCCTACTCCCTATGTGGCGTCACTTAGCCACTCCTCCACAAGGCTTTT
TGATGCTATTTTTCCCCTATTTTTATTTAAAAGCCCACCTACTTGCCAACCCTGATTCTTTTAAT
AATTAAACTATAATTTCATTTATTACTAGGTTTGAACTCAAACCTTAAAGACCTACTATAATTAT
CACATGGCTAGGAACATAAAACACAATTTTTATCAAAACCAAAAACAAAGAATGTTTTTGG
Found at i:65510711 original size:46 final size:46
Alignment explanation
Indices: 65510661--65510830 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
65510651 AGCATCTGAG
* *
65510661 CTCGTTGAGTTGAGTTCAAGTTCACTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA
* * *
65510707 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGC-AACTAGGCATCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCGAA
* * * *
65510754 CTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA
*
65510800 CTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65510831 GTGGGTTACA
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 54 0.53
47 29 0.29
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAA
Found at i:65510811 original size:93 final size:93
Alignment explanation
Indices: 65510652--65510823 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
65510642 GGATGGTTGA
* * * * * *
65510652 GCATCTGAGCTCGTTGAGTTGAGTTCAAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
65510717 TGAGTCCGAGTTCGTGAAATGCAACTAG
66 TGAGTCCGAGTTCGTGAAATGCAACTAG
* *
65510745 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
65510810 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
65510824 CTTATGGGTG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGCAACTAG
Done.