Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 265 of 378
Found at i:79559098 original size:40 final size:40
Alignment explanation
Indices: 79559025--79559272 Score: 252
Period size: 40 Copynumber: 6.2 Consensus size: 40
79559015 TAATTGAATG
* * * * * **
79559025 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTT
* * * *
79559065 ATATCCGGGTTAAGACCCAAAGGCAATTGTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG-TT
*
79559105 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGTT
*
79559145 AAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGTT
* * * *
79559185 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTT
* * *
79559225 CTATCCGGGCTAAGACCCGAAGGC-ATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGTT
79559265 ATATCCGG
1 ATATCCGG
79559273 TTGTATTCCG
Statistics
Matches: 178, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
39 5 0.03
40 169 0.95
41 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGTT
Found at i:79559240 original size:120 final size:119
Alignment explanation
Indices: 79559027--79559272 Score: 305
Period size: 120 Copynumber: 2.1 Consensus size: 119
79559017 ATTGAATGAT
* * * * *
79559027 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCAAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGACATTCATGCAAGTAATTAAATCCGGGCTAAGACCCAAAGGCAAT
* *
79559092 TGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
66 TGTGCAAGTGACTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAA
* * ** * * *
79559147 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGACATTCATGCAAGTAATTAAATCCGGGCTAAGACCCAAAGGCAAT
* * *
79559212 TGTGCAAGTCGTTCT-ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
66 TGTGCAAGT-G-ACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAA
79559267 ATCCGG
1 ATCCGG
79559273 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
120 104 0.97
121 1 0.01
122 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (119 bp):
ATCCGGGCTAAGACCCGAAGACATTCATGCAAGTAATTAAATCCGGGCTAAGACCCAAAGGCAAT
TGTGCAAGTGACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAA
Found at i:79559271 original size:80 final size:80
Alignment explanation
Indices: 79559025--79559272 Score: 286
Period size: 80 Copynumber: 3.1 Consensus size: 80
79559015 TAATTGAATG
* * * * * *
79559025 ATATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCAAAGGC
1 ATATCCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
**
79559089 AATT-GTGC-TAGTGACT
65 -ATTCGTGCAT-GTGGTT
* * * * *
79559105 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
* *
79559170 TTCGTGCAAGTTGTT
66 TTCGTGCATGTGGTT
* * *
79559185 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
79559250 TTCGTGCATGTGGTT
66 TTCGTGCATGTGGTT
79559265 ATATCCGG
1 ATATCCGG
79559273 TTGTATTCCG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.02
80 138 0.98
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCATGTGGTT
Found at i:79562635 original size:40 final size:40
Alignment explanation
Indices: 79562537--79562755 Score: 285
Period size: 40 Copynumber: 5.5 Consensus size: 40
79562527 CGAATGGTAT
* * * * * *
79562537 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
79562578 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
79562618 CCGGGTTAAGTCTCGAAGGCATTTGTGCAAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
79562658 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * *
79562698 CCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
79562738 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
79562756 ACAATCGAGC
Statistics
Matches: 158, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 134 0.85
41 24 0.15
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:79562776 original size:40 final size:40
Alignment explanation
Indices: 79562696--79562776 Score: 90
Period size: 40 Copynumber: 2.0 Consensus size: 40
79562686 GAGTTACCAA
* * * * *
79562696 AACCGGGTTAAGTCCCGAAGGCAATTGTGCGAATTACTAT
1 AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
* * *
79562736 AACCGGGCTATGTCCCGAAGACAATCGAGCGAGTCGCTAT
1 AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
79562776 A
1 A
79562777 TCCAGTTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (40 bp):
AACCGGGCTAAGTCCCGAAGACAATCGAGCGAATCACTAT
Found at i:79578125 original size:93 final size:93
Alignment explanation
Indices: 79578017--79578187 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
79578007 GCCCCTAAGT
** * * *
79578017 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATAAGTGAACTCG-GACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGAG-CTCAACTCA
*
79578081 ATAAGTTCGGATGCCTAGTTACATCTCAC
65 ACAAGTTCGGATGCCTAGTTACATCTCAC
* *
79578110 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAATGAACTCGAGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGAGCTCAACTCAA
*
79578175 CGAGTTCGGATGC
66 CAAGTTCGGATGC
79578188 TCAACCATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 67 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGAGCTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:79588081 original size:15 final size:16
Alignment explanation
Indices: 79588051--79588089 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
79588041 TAATAAAAAT
79588051 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
79588068 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
79588083 ATAATTT
1 ATAATTT
79588090 TTAAAAGGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:79588481 original size:16 final size:18
Alignment explanation
Indices: 79588457--79588497 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
79588447 TTTTAGTTTA
79588457 TAATATTTTATAT-T-ATG
1 TAAT-TTTTATATATGATG
79588474 TAATTTTTATATATGATG
1 TAATTTTTATATATGATG
79588492 TAATTT
1 TAATTT
79588498 ATAACACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 5 0.23
18 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (18 bp):
TAATTTTTATATATGATG
Found at i:79588488 original size:15 final size:17
Alignment explanation
Indices: 79588457--79588495 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 17
79588447 TTTTAGTTTA
79588457 TAATATTTTATATTATG
1 TAATATTTTATATTATG
79588474 TAAT-TTTTATATATGATG
1 TAATATTTTATAT-T-ATG
79588492 TAAT
1 TAAT
79588496 TTATAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 5 0.25
18 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (17 bp):
TAATATTTTATATTATG
Found at i:79589226 original size:5 final size:5
Alignment explanation
Indices: 79589218--79589269 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
79589208 TGAAATTTTC
* * *
79589218 TCGAA TCGAG TCGAG T-GAGA TGGAA TTCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA T-CGAA TCGAA TCGAA TCGAA TCGAA
79589269 T
1 T
79589270 ATATTTGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 2 0.05
5 33 0.80
6 6 0.15
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:79589269 original size:26 final size:26
Alignment explanation
Indices: 79589218--79589269 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
79589208 TGAAATTTTC
* * *
79589218 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
79589244 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
79589270 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:79589532 original size:15 final size:17
Alignment explanation
Indices: 79589502--79589545 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
79589492 TTAAATGTAA
79589502 AAAATGTGATTTTTAAT
1 AAAATGTGATTTTTAAT
*
79589519 AAAA-GTGATTTTAAAGAT
1 AAAATGTGATTTT-TA-AT
79589537 AAAATGTGA
1 AAAATGTGA
79589546 AATTGATACC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.35
17 5 0.22
18 6 0.26
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (17 bp):
AAAATGTGATTTTTAAT
Found at i:79589889 original size:31 final size:30
Alignment explanation
Indices: 79589854--79589913 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
79589844 GGAGGTGGGA
79589854 TGGGAAAGAAGTAAAAATTTTAGGGGGAAAG
1 TGGG-AAGAAGTAAAAATTTTAGGGGGAAAG
* * *
79589885 TGGGAGGGAGTAAAAATTTTGGGGGGAAA
1 TGGGAAGAAGTAAAAATTTTAGGGGGAAA
79589914 TAAAAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (30 bp):
TGGGAAGAAGTAAAAATTTTAGGGGGAAAG
Found at i:79590141 original size:9 final size:9
Alignment explanation
Indices: 79590127--79590163 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
79590117 TATAGTTTGA
79590127 TATTCGAAT
1 TATTCGAAT
79590136 TATTCGAAT
1 TATTCGAAT
* *
79590145 TATTTGAGT
1 TATTCGAAT
79590154 TATTCGAAT
1 TATTCGAAT
79590163 T
1 T
79590164 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:79591570 original size:44 final size:46
Alignment explanation
Indices: 79591318--79591623 Score: 162
Period size: 47 Copynumber: 6.6 Consensus size: 46
79591308 GATTTGTGCA
* * * *
79591318 CCAGTGTAAGATATGTCTGGGACATACTTCGGCCTCACTATGA-A-AG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAC-A-GAGATAG
** ** **
79591364 CCAGTAAAAGACCATGTCTGGGACATGGCATCAGTATC-CAGACGAGGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCACAGA-GATAG
* ** * * *
79591412 CTAACGTAAGACATGTCTGGGACAAGCTTCAGCCAT-ATTATGAG-T-G
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCC-TCA-CA-GAGATAG
*
79591458 CCAGAGTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTC-ACAGAGATAG
* * * *
79591505 CCAGTGTAAGACGTGTCTGGGACACGCATCAG-CT-A-AGAGTTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACAGAGAT-AG
* * * * * * *
79591549 CTAGTGTAAGACATGTTTGGGACATGCATTAGCATGCATACATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CACAGA-GATAG
* *
79591597 CTAGTATAAGACCATGTCTGGGACATG
1 CCAGTGTAAGA-CATGTCTGGGACATG
79591624 GCAATGGTAA
Statistics
Matches: 197, Mismatches: 43, Indels: 37
0.71 0.16 0.13
Matches are distributed among these distances:
43 5 0.03
44 29 0.15
45 7 0.04
46 50 0.25
47 61 0.31
48 28 0.14
49 17 0.09
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCACAGAGATAG
Found at i:79593275 original size:39 final size:40
Alignment explanation
Indices: 79593196--79593422 Score: 304
Period size: 39 Copynumber: 5.8 Consensus size: 40
79593186 GGATATAGCT
* * *
79593196 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
79593236 ACTCGCACAATTGCCTTC-GGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
79593275 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GA-TTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
79593313 ACTCACACAAATGCCTTCGGGACTTAG-CCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
79593352 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
79593391 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
79593423 TTATCATCCA
Statistics
Matches: 168, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
37 2 0.01
38 35 0.21
39 96 0.57
40 35 0.21
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:79593347 original size:77 final size:77
Alignment explanation
Indices: 79593170--79593419 Score: 292
Period size: 77 Copynumber: 3.2 Consensus size: 77
79593160 AAATCACGTA
* * * * * * *
79593170 CCTTCGGAATTTAACCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAG
1 CCTTCGGGACTTAGCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGATT--AG
* *
79593234 TAACTCGCACAATTG
63 TAACTCACACAAATG
79593249 CCTTC-GGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTAGTA
1 CCTTCGGGACTTAG-CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTAGTA
79593313 ACTCACACAAATG
65 ACTCACACAAATG
*
79593326 CCTTCGGGACTTAGCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGT
1 CCTTCGGGACTTAGCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-G-ATTAGT
* * *
79593390 CACT-AGCGCAGATG
64 AACTCA-CACAAATG
79593404 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
79593420 CGGTTATCAT
Statistics
Matches: 152, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
76 4 0.03
77 59 0.39
78 44 0.29
79 45 0.30
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (77 bp):
CCTTCGGGACTTAGCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTAGTAA
CTCACACAAATG
Found at i:79593408 original size:116 final size:117
Alignment explanation
Indices: 79593203--79593421 Score: 318
Period size: 116 Copynumber: 1.9 Consensus size: 117
79593193 GCTACTCGCT
*
79593203 CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
** *
79593268 TTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGATTAGTAACTCACA
66 ACTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGATTAGTAACTCACA
* *
79593320 CAAATGCCTTCGGGACTTAG-CCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTT-GCCCG
1 CAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAAATGCCTTC-GGACTTAGCCCG
* * *
79593382 GAACTAGTCACTAGCGCAGATGCCTTCGGGACTTAGCCCG
64 GAACTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
79593422 GTTATCATCC
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
116 64 0.70
117 27 0.30
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (117 bp):
CAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
ACTAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGATTAGTAACTCACA
Found at i:79600589 original size:30 final size:30
Alignment explanation
Indices: 79600553--79600612 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
79600543 CCTATTACAT
79600553 AGTTTCCATGATTCAACTAACCCTTTAGCA
1 AGTTTCCATGATTCAACTAACCCTTTAGCA
79600583 AGTTTCCATGATTCAACTAACCCTTTAGCA
1 AGTTTCCATGATTCAACTAACCCTTTAGCA
79600613 TATAGCACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (30 bp):
AGTTTCCATGATTCAACTAACCCTTTAGCA
Found at i:79601451 original size:39 final size:40
Alignment explanation
Indices: 79601278--79601468 Score: 269
Period size: 40 Copynumber: 4.8 Consensus size: 40
79601268 GGATATAGCT
* * *
79601278 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
79601318 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
79601358 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
79601398 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
79601437 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
79601469 TTATCATCCA
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 33 0.24
40 103 0.75
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:79605168 original size:40 final size:40
Alignment explanation
Indices: 79605112--79605211 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
79605102 GGATATAGCG
* * * *
79605112 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * **
79605152 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
79605192 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
79605212 ATCTTAGTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Found at i:79605258 original size:40 final size:40
Alignment explanation
Indices: 79605156--79605261 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
79605146 ATAATAGCTC
* * * *
79605156 GCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCAGATATGGGAACTA
* **
79605196 GCACAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTA
1 GCACAAATGCCTTCGGGA-CTTAGCCCAGATATGGGAAC-TA
79605237 GCACAAA-GCCTTCGGGACTTAGCCC
1 GCACAAATGCCTTCGGGACTTAGCCC
79605262 GGACATCATT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
39 3 0.05
40 41 0.75
41 11 0.20
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCAGATATGGGAACTA
Found at i:79612362 original size:40 final size:40
Alignment explanation
Indices: 79612318--79612429 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
79612308 ATAATAATAG
* * *
79612318 CTCGCACAAATGCTTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
* **
79612358 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAA
*
79612398 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
79612430 CATCATTCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.05
40 47 0.77
41 11 0.18
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
Found at i:79614221 original size:14 final size:14
Alignment explanation
Indices: 79614202--79614234 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
79614192 GAGAAAAGCC
79614202 TCCGGTAGACAAGA
1 TCCGGTAGACAAGA
79614216 TCCGGTAGACAAGA
1 TCCGGTAGACAAGA
79614230 TCCGG
1 TCCGG
79614235 AAGCAAGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.15
Consensus pattern (14 bp):
TCCGGTAGACAAGA
Found at i:79622926 original size:21 final size:20
Alignment explanation
Indices: 79622892--79622937 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
79622882 AATATTTAAG
79622892 TATA-TATAAAATATTATTAT
1 TATATTATAAAATATTA-TAT
*
79622912 TATATTATAATATATTATAT
1 TATATTATAAAATATTATAT
79622932 TA-ATTA
1 TATATTA
79622938 AACATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TATATTATAAAATATTATAT
Found at i:79623383 original size:43 final size:44
Alignment explanation
Indices: 79623335--79623424 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
79623325 TTTTAAGTGG
*
79623335 TAGTTGAACG-AAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
1 TAGTTGAAAGAAAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
79623378 TAGTTGAAAGAAAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
1 TAGTTGAAAGAAAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
79623422 TAG
1 TAG
79623425 ATTTGATTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 9 0.20
44 36 0.80
ACGTcount: A:0.57, C:0.01, G:0.23, T:0.19
Consensus pattern (44 bp):
TAGTTGAAAGAAAAAAAAGAAGAAAATTGTGAAGAAAATAAGGT
Found at i:79639369 original size:46 final size:45
Alignment explanation
Indices: 79639316--79639488 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 45
79639306 TGGTTGAGCA
* *
79639316 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATCGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * * * *
79639362 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--A--CG
* *
79639409 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * *
79639455 TCTGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
79639489 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAACG
Found at i:79639472 original size:93 final size:93
Alignment explanation
Indices: 79639313--79639483 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
79639303 GGATGGTTGA
* *
79639313 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATCGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCAAACGTCCGAACTCGTTGAGT
*
79639378 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * *
79639406 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGTCTGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCAAACGTCCGAACTCGTTGAGT
79639471 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
79639484 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:79646897 original size:46 final size:46
Alignment explanation
Indices: 79646847--79647008 Score: 186
Period size: 46 Copynumber: 3.5 Consensus size: 46
79646837 GCATCCACTC
*
79646847 TGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGT
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGT
* * * *
79646893 TGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAACTCGT
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCGAACTCGT
* * * *
79646940 TGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGT
1 TGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGT
79646986 TGAGTTGAGTCCGAGTTCACTTA
1 TGAGTTGAGTCCGAGTTCACTTA
79647009 GGGGCGGGTT
Statistics
Matches: 96, Mismatches: 13, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 50 0.52
47 29 0.30
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGT
Found at i:79652681 original size:40 final size:40
Alignment explanation
Indices: 79652636--79652765 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
79652626 CGGAATATAA
* *
79652636 CCGGATATAACCA-TGTGCTCAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
79652676 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
79652716 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
79652756 CCGGATATAA
1 CCGGATATAA
79652766 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 71 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:79656178 original size:40 final size:39
Alignment explanation
Indices: 79656134--79656326 Score: 233
Period size: 39 Copynumber: 4.9 Consensus size: 39
79656124 GTTCAAAACA
* * ** * *
79656134 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* * *
79656174 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTA
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
79656214 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * *
79656253 CCTTCGGGCTTAGCCCGGATATCACAATTCTCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
79656292 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
79656327 TTCATTCACA
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 96 0.71
40 39 0.29
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:79656245 original size:39 final size:39
Alignment explanation
Indices: 79656164--79656326 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
79656154 TATGGTAACC
* *
79656164 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
79656204 CGCACAATTACCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
79656243 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
79656282 CTCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
79656321 CGCACA
1 CGCACA
79656327 TTCATTCACA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 96 0.86
40 16 0.14
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:79666368 original size:12 final size:12
Alignment explanation
Indices: 79666351--79666387 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
79666341 CATACTTTTC
79666351 TCATTCATTCAA
1 TCATTCATTCAA
*
79666363 TCATTCATACAA
1 TCATTCATTCAA
79666375 TCA-TCATTCAA
1 TCATTCATTCAA
79666386 TC
1 TC
79666388 TCAATCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.38
Consensus pattern (12 bp):
TCATTCATTCAA
Found at i:79666739 original size:15 final size:13
Alignment explanation
Indices: 79666705--79666734 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
79666695 GACTTATGCA
*
79666705 ACACGGCCAAGTT
1 ACACGGCCAAGTC
79666718 ACACGGCCAAGTC
1 ACACGGCCAAGTC
79666731 ACAC
1 ACAC
79666735 ACGGCTGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.37, G:0.20, T:0.10
Consensus pattern (13 bp):
ACACGGCCAAGTC
Found at i:79667577 original size:20 final size:20
Alignment explanation
Indices: 79667523--79667585 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
79667513 TTCTCAATCA
* *
79667523 TATAAACAGTAATTCATTCG
1 TATAAACAGTACTTCATCCG
*
79667543 -AT-AATAGTAAC-TCATCCG
1 TATAAACAGT-ACTTCATCCG
79667561 TATAAACAGTACTTCATCCG
1 TATAAACAGTACTTCATCCG
79667581 TATAA
1 TATAA
79667586 CACATAGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 11 0.31
19 7 0.20
20 17 0.49
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (20 bp):
TATAAACAGTACTTCATCCG
Found at i:79667789 original size:24 final size:25
Alignment explanation
Indices: 79667746--79667850 Score: 92
Period size: 24 Copynumber: 4.2 Consensus size: 25
79667736 AGCTCCTCCT
* *
79667746 AAGCTGATGGACAGTAAGCTCTGACG
1 AAGCTGA-GAACAGTAAGCTCTTACG
*
79667772 AA-CTGAGAATAGTAAGCTCTTAC-
1 AAGCTGAGAACAGTAAGCTCTTACG
*
79667795 AAGCTGAGAACAGTAACCTCTTACG
1 AAGCTGAGAACAGTAAGCTCTTACG
* * *
79667820 -AGATGATATATCAGTAAGCTCATACG
1 AAGCTGAGA-A-CAGTAAGCTCTTACG
79667846 -AGCTG
1 AAGCTG
79667851 CGGTGAGTCC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.03
24 39 0.60
25 5 0.08
26 19 0.29
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (25 bp):
AAGCTGAGAACAGTAAGCTCTTACG
Found at i:79675592 original size:64 final size:64
Alignment explanation
Indices: 79675443--79675694 Score: 208
Period size: 68 Copynumber: 3.8 Consensus size: 64
79675433 TACAGATGGT
* ** * * *
79675443 ATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGAG--A
*
79675506 TTATG
62 -TA-A
* * *
79675511 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCTTGTAGACAAGAGAGCTACGGGATAA
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
79675575 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
79675640 AA
63 AA
* * *
79675642 ACTGT--CTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
79675695 CAAAATTATG
Statistics
Matches: 151, Mismatches: 26, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 25 0.17
65 2 0.01
66 21 0.14
67 32 0.21
68 50 0.33
69 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79679224 original size:25 final size:25
Alignment explanation
Indices: 79679194--79679271 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
79679184 TAGGATTTTA
79679194 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
79679219 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
79679241 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
79679266 TGTGAT
1 TGTGAT
79679272 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:79679246 original size:47 final size:47
Alignment explanation
Indices: 79679193--79679632 Score: 601
Period size: 47 Copynumber: 9.1 Consensus size: 47
79679183 TTAGGATTTT
*
79679193 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
79679240 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
79679287 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
79679338 ATGTGTTGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
79679385 ATGTGATGAATGTGAACCTGTATATATATATATATGAGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---------ATGCATATGTGTGATAAGGCCGAATGGCCA
79679442 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
79679489 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
79679536 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
79679583 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
79679630 ATG
1 ATG
79679633 CGAAACGTGT
Statistics
Matches: 354, Mismatches: 25, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
47 266 0.75
48 1 0.00
49 2 0.01
51 42 0.12
56 1 0.00
57 42 0.12
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:79679342 original size:24 final size:24
Alignment explanation
Indices: 79679314--79679389 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
79679304 CCGTATATAT
79679314 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
79679338 ATGTGTTGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
79679361 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
79679385 ATGTG
1 ATGTG
79679390 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:79679521 original size:151 final size:143
Alignment explanation
Indices: 79679193--79679632 Score: 629
Period size: 151 Copynumber: 3.0 Consensus size: 143
79679183 TTAGGATTTT
79679193 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
79679258 TGC--GTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTAT-ATATATGTGT
66 TACATATATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGA-ATATGTGT
79679320 GATAAGGCCGAATGGCCA
126 GATAAGGCCGAATGGCCA
*
79679338 ATGTGTTGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C
* *
79679403 TGTATATATATATATATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATG
65 -------ATACATATATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATG
79679468 TGTGATAAGGCCGAATGGCCA
123 TGTGATAAGGCCGAATGGCCA
*
79679489 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
79679554 TGCATATATGA--GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAA
66 TACATATATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATGTGTGATAA
*
79679617 GGCCGAATGGCTA
131 GGCCGAATGGCCA
79679630 ATG
1 ATG
79679633 CGAAACGTGT
Statistics
Matches: 270, Mismatches: 14, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
141 64 0.24
143 10 0.04
145 62 0.23
146 1 0.00
150 1 0.00
151 89 0.33
153 3 0.01
155 40 0.15
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (143 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TACATATATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATGTGTGATAA
GGCCGAATGGCCA
Found at i:79679674 original size:46 final size:48
Alignment explanation
Indices: 79679605--79679705 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 48
79679595 TGAACATGAA
* * * *
79679605 TATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATG-G
1 TATATATGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGTG
* * *
79679652 -ATATATGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATGTG
1 TATATATGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGTG
79679699 TATATAT
1 TATATAT
79679706 ATATATTGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 38 0.84
47 1 0.02
48 6 0.13
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
TATATATGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGTG
Found at i:79679703 original size:141 final size:141
Alignment explanation
Indices: 79679204--79679681 Score: 491
Period size: 151 Copynumber: 3.3 Consensus size: 141
79679194 TGTGATGAAT
* * * * *
79679204 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTG-
1 GTGAACATGCGTATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGA
* **
79679268 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAAT
66 GGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG-A-ATATA--TGTGATAAGGCCGAAT
* * *
79679333 GGCCAATGTGTTGAAT
127 GGCCAATGCG-AGAAC
* * * **
79679349 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATAT
1 GTGAACATGCGTATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA-C-------ATGC
* *
79679414 ATATATGAGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGC
58 ATATATGAG-GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGC
* *
79679479 CGAATGGCCAATGTGATGAAT
122 CGAATGGCCAATGCGA-GAAC
* * * *
79679500 GTGAACATGCGTATGTGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATATATGA
1 GTGAACATGCGTATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGA
* *
79679565 -GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCT
66 GGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCC
79679629 AATGCGA-AAC
131 AATGCGAGAAC
* *
79679639 GTGTATGAGATG-GATATATG-G-TAAAGCCAAATGGCTAATGTGA
1 GTG-A--ACATGCG-TATATGTGATAAAGCCAAATGGCCAATGTGA
79679682 GATATGTATG
Statistics
Matches: 293, Mismatches: 25, Indels: 35
0.83 0.07 0.10
Matches are distributed among these distances:
139 5 0.02
140 19 0.06
141 68 0.23
142 9 0.03
143 10 0.03
145 52 0.18
146 1 0.00
150 1 0.00
151 81 0.28
153 11 0.04
155 36 0.12
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
GTGAACATGCGTATATGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAACATGCATATATGA
GGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCC
AATGCGAGAAC
Found at i:79680024 original size:37 final size:37
Alignment explanation
Indices: 79679845--79680024 Score: 270
Period size: 37 Copynumber: 4.9 Consensus size: 37
79679835 AATATATTCT
*
79679845 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
** * *
79679882 GGGTAAGACTTGATGACTACGTATGGAGATTTTGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* *
79679919 GAGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
79679956 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* * *
79679993 GGGTAAGACCCGATAACTTCATGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
79680025 CGTCTGAGCT
Statistics
Matches: 127, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 127 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:79685734 original size:31 final size:31
Alignment explanation
Indices: 79685694--79685810 Score: 164
Period size: 31 Copynumber: 3.8 Consensus size: 31
79685684 TCAATCTCAG
* *
79685694 CATAT-ACTGGGCCAAAGCCTTTACATTATC
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
79685724 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * *
79685755 CATATCACTAGGCTGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
79685786 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
79685811 TGCAAACGGT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
30 4 0.05
31 72 0.95
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:79686057 original size:25 final size:25
Alignment explanation
Indices: 79686029--79686123 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
79686019 CTCTTTTAAT
*
79686029 AACTGGGGCAAATCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
79686054 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
79686079 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
79686104 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
79686124 ACACTTCCTC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:79686283 original size:25 final size:25
Alignment explanation
Indices: 79686254--79686301 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
79686244 ATTATTAAAC
* **
79686254 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
79686279 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
79686302 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:79690447 original size:20 final size:20
Alignment explanation
Indices: 79690422--79690487 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
79690412 GCCAAAACTC
79690422 TCTTAGGTCTGAAAAGGTTG
1 TCTTAGGTCTGAAAAGGTTG
* * *
79690442 TCTTAGGGC-CAAAA-CTCT-
1 TCTTAGGTCTGAAAAGGT-TG
79690460 T-TTAGGTCTGAAAAGGTTG
1 TCTTAGGTCTGAAAAGGTTG
79690479 TCTTAGGTC
1 TCTTAGGTC
79690488 ATGCTTTGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 6 0.17
18 7 0.20
19 7 0.20
20 15 0.43
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (20 bp):
TCTTAGGTCTGAAAAGGTTG
Found at i:79690453 original size:37 final size:37
Alignment explanation
Indices: 79690411--79690485 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
79690401 AAAGGACTTT
79690411 GGCCAAAACTCTCTTAGGTCTGAAAAGGTTGTCTTAG
1 GGCCAAAACTCTCTTAGGTCTGAAAAGGTTGTCTTAG
*
79690448 GGCCAAAACTCTTTTAGGTCTGAAAAGGTTGTCTTAG
1 GGCCAAAACTCTCTTAGGTCTGAAAAGGTTGTCTTAG
79690485 G
1 G
79690486 TCATGCTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (37 bp):
GGCCAAAACTCTCTTAGGTCTGAAAAGGTTGTCTTAG
Found at i:79695648 original size:93 final size:93
Alignment explanation
Indices: 79695536--79695707 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
79695526 GCCCATAAGT
*
79695536 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
79695601 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
79695629 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
79695694 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
79695708 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:79695703 original size:46 final size:46
Alignment explanation
Indices: 79695528--79695703 Score: 234
Period size: 46 Copynumber: 3.8 Consensus size: 46
79695518 TGTAACCCGC
* *
79695528 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
79695574 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCACAT
* * *
79695624 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
79695667 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
79695704 TGCCCAAATA
Statistics
Matches: 114, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 64 0.56
47 29 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
Found at i:79697664 original size:34 final size:34
Alignment explanation
Indices: 79697621--79697689 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
79697611 AAAACAGAGT
*
79697621 AAGCATTACATGCTTAGTAAGTTCGTATAACGAA
1 AAGCATTACATGCTTAATAAGTTCGTATAACGAA
*
79697655 AAGCATTACATGCTTAATTAGTTCGTATAACGAA
1 AAGCATTACATGCTTAATAAGTTCGTATAACGAA
79697689 A
1 A
79697690 CTAAACTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (34 bp):
AAGCATTACATGCTTAATAAGTTCGTATAACGAA
Found at i:79700032 original size:14 final size:15
Alignment explanation
Indices: 79700013--79700045 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
79700003 TATAAAAAAA
*
79700013 TTATAA-TATGGATT
1 TTATAATTATGAATT
79700027 TTATAATTATGAATT
1 TTATAATTATGAATT
79700042 TTAT
1 TTAT
79700046 TGATAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
TTATAATTATGAATT
Found at i:79700278 original size:20 final size:18
Alignment explanation
Indices: 79700235--79700270 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
79700225 TATATTAATA
* *
79700235 TGTATTAATATGGTGATC
1 TGTATTAATATGGCGAAC
79700253 TGTATTAATATGGCGAAC
1 TGTATTAATATGGCGAAC
79700271 AGTGTATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (18 bp):
TGTATTAATATGGCGAAC
Found at i:79700924 original size:17 final size:17
Alignment explanation
Indices: 79700904--79700977 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 17
79700894 TTATGATGGA
79700904 GCATGAATTGTTATTTT
1 GCATGAATTGTTATTTT
**
79700921 GCATGAATTGTTATTCG
1 GCATGAATTGTTATTTT
* * * *
79700938 GTATGAACTGATATTTC
1 GCATGAATTGTTATTTT
** *
79700955 ATATGAATTATTATTTT
1 GCATGAATTGTTATTTT
79700972 GCATGA
1 GCATGA
79700978 GCTGCCATTT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (17 bp):
GCATGAATTGTTATTTT
Found at i:79700961 original size:51 final size:51
Alignment explanation
Indices: 79700906--79701013 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
79700896 ATGATGGAGC
* * ** *
79700906 ATGAATTGTTATTTTGCATGAATTGTTATTCGGTATGAACTGATATTTCAT
1 ATGAATTATTATTTTGCATGAACTGCCATTCGGTAAGAACTGATATTTCAT
* * *
79700957 ATGAATTATTATTTTGCATGAGCTGCCATTTGGTAAGAACTGTTATTTCAT
1 ATGAATTATTATTTTGCATGAACTGCCATTCGGTAAGAACTGATATTTCAT
79701008 ATGAAT
1 ATGAAT
79701014 AAATGTTTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (51 bp):
ATGAATTATTATTTTGCATGAACTGCCATTCGGTAAGAACTGATATTTCAT
Found at i:79703144 original size:28 final size:28
Alignment explanation
Indices: 79703112--79703181 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
79703102 ATAGTAAGTC
79703112 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
79703140 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
79703168 CGCACACTTAGTGC
1 CGCACACTTAGTGC
79703182 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:79710936 original size:28 final size:28
Alignment explanation
Indices: 79710904--79710973 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
79710894 ATAGTAAGTC
79710904 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
79710932 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
79710960 CGCACACTTAGTGC
1 CGCACACTTAGTGC
79710974 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:79714071 original size:25 final size:26
Alignment explanation
Indices: 79714034--79714086 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
79714024 TCAAACATGC
79714034 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
79714060 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
79714086 A
1 A
79714087 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:79715587 original size:26 final size:26
Alignment explanation
Indices: 79715556--79715663 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
79715546 TGAAATGCCC
*
79715556 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
79715582 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
79715608 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
79715634 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79715660 ATCA
1 ATCA
79715664 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79717608 original size:40 final size:40
Alignment explanation
Indices: 79717500--79717709 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
79717490 CGGGATTTAA
* * * * *
79717500 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
79717540 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79717580 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79717620 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79717660 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79717700 CCGGATATAT
1 CCGGATATAT
79717710 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:79725745 original size:40 final size:40
Alignment explanation
Indices: 79725637--79725846 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
79725627 CGGGATTTAA
* * * * *
79725637 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
79725677 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79725717 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79725757 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79725797 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79725837 CCGGATATAT
1 CCGGATATAT
79725847 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:79734139 original size:26 final size:26
Alignment explanation
Indices: 79734108--79734263 Score: 240
Period size: 26 Copynumber: 6.0 Consensus size: 26
79734098 TGAAATGCCC
*
79734108 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
79734134 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
79734160 ATCATGGAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
79734186 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * *
79734212 ATCATGAAATATTTACCTAATCTATT
1 ATCATGGAACATTTACCTAACCCATT
79734238 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79734264 GTCAATTTGT
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 115 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79734187 original size:52 final size:52
Alignment explanation
Indices: 79734108--79734263 Score: 276
Period size: 52 Copynumber: 3.0 Consensus size: 52
79734098 TGAAATGCCC
* * *
79734108 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCTATTATCATGGAACATTTACCTAACCCATT
79734160 ATCATGGAATATTTACCTAATCTATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCTATTATCATGGAACATTTACCTAACCCATT
*
79734212 ATCATGAAATATTTACCTAATCTATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCTATTATCATGGAACATTTACCTAACCCATT
79734264 GTCAATTTGT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 100 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCTATTATCATGGAACATTTACCTAACCCATT
Found at i:79737409 original size:46 final size:46
Alignment explanation
Indices: 79737311--79737433 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 46
79737301 TTTGTGTGCC
* * * *
79737311 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATTGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCT
* * **
79737359 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCT
* *
79737405 AGTGTAAGACATGTGTAGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
79737434 ACATGGTTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
46 43 0.66
47 13 0.20
48 9 0.14
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCT
Found at i:79738427 original size:127 final size:127
Alignment explanation
Indices: 79738285--79738539 Score: 465
Period size: 127 Copynumber: 2.0 Consensus size: 127
79738275 TGATTATGGT
* *
79738285 TTATATATGCGGGAATTATGTTATCTTTGTTATAAGGAATTCTAGAGCGTATAGACAATAGTTTC
1 TTATATATACGGGAATTATGTTATCTTTGTTATAAGGAATTCTAGAGCGTATAGACAATAATTTC
79738350 CTTCTAGTTTTCTCTGAGGGATTTTCTGGATTATCTTTATTATTTTCTTCTAGATTATATTC
66 CTTCTAGTTTTCTCTGAGGGATTTTCTGGATTATCTTTATTATTTTCTTCTAGATTATATTC
* *
79738412 TTATATATACGGGAATTATGTTATCTTTGTTATGAGGAATTCTAGAGCGTATAGGCAATAATTTC
1 TTATATATACGGGAATTATGTTATCTTTGTTATAAGGAATTCTAGAGCGTATAGACAATAATTTC
*
79738477 CTTCTAGTTTTCTCTGAGGGATTTTCTGGATTATCTTTATTATTTTCTTCTGGATTATATTC
66 CTTCTAGTTTTCTCTGAGGGATTTTCTGGATTATCTTTATTATTTTCTTCTAGATTATATTC
79738539 T
1 T
79738540 CGGATTTCTG
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 123 1.00
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47
Consensus pattern (127 bp):
TTATATATACGGGAATTATGTTATCTTTGTTATAAGGAATTCTAGAGCGTATAGACAATAATTTC
CTTCTAGTTTTCTCTGAGGGATTTTCTGGATTATCTTTATTATTTTCTTCTAGATTATATTC
Found at i:79743234 original size:36 final size:36
Alignment explanation
Indices: 79743187--79743262 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
79743177 AAGATTGACC
*
79743187 TTGAGAAAGCTTACGATTGGGTGCGCTGGGAGTTCA
1 TTGAGAAAGCTTACGATTGGGTGCGCTAGGAGTTCA
79743223 TTGAGAAAGCTTACGATTGGGTGCGCTAGGAGTTCA
1 TTGAGAAAGCTTACGATTGGGTGCGCTAGGAGTTCA
79743259 TTGA
1 TTGA
79743263 ATCCTCACTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.29
Consensus pattern (36 bp):
TTGAGAAAGCTTACGATTGGGTGCGCTAGGAGTTCA
Found at i:79747481 original size:18 final size:18
Alignment explanation
Indices: 79747458--79747495 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
79747448 TTGTTAGGGG
79747458 TTTTCT-TTTCATTTGTTT
1 TTTTCTCTTT-ATTTGTTT
*
79747476 TTTTCTCTTTTTTTGTTT
1 TTTTCTCTTTATTTGTTT
79747494 TT
1 TT
79747496 GGGAAACGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTCTCTTTATTTGTTT
Found at i:79748420 original size:17 final size:16
Alignment explanation
Indices: 79748398--79748432 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
79748388 TTATTGGTTT
*
79748398 TGAGAATGTTTCTTATA
1 TGAGAATGTGTCTT-TA
79748415 TGAGAATGTGTCTTTA
1 TGAGAATGTGTCTTTA
79748431 TG
1 TG
79748433 TCTCAACCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (16 bp):
TGAGAATGTGTCTTTA
Found at i:79749842 original size:15 final size:16
Alignment explanation
Indices: 79749818--79749850 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
79749808 GTTTTTAAGT
79749818 TTATAATA-TTTTATA
1 TTATAATATTTTTATA
*
79749833 TTATATTATTTTTATA
1 TTATAATATTTTTATA
79749849 TT
1 TT
79749851 TGATGTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATAATATTTTTATA
Found at i:79751586 original size:20 final size:20
Alignment explanation
Indices: 79751563--79751635 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
79751553 TCCGTCCATA
79751563 TTATTATTATTTTTTTAAAT
1 TTATTATTATTTTTTTAAAT
* *
79751583 TTATTATT-TTTCCTTTAAAA
1 TTATTATTATTT-TTTTAAAT
* * *
79751603 ATATAATTATTTTGTCTAATAT
1 TTATTATTATTTT-TTTAA-AT
79751625 TTATTACTTAT
1 TTATTA-TTAT
79751636 ATGTATTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
19 3 0.08
20 20 0.51
21 7 0.18
22 5 0.13
23 4 0.10
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (20 bp):
TTATTATTATTTTTTTAAAT
Found at i:79751999 original size:25 final size:25
Alignment explanation
Indices: 79751938--79752009 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
79751928 AGCATCAATA
* *
79751938 TTATTTTTAATAATTTTT-TTGTTT
1 TTATATTTAATAATTTTTATTATTT
79751962 TCTCATATCTTTAATAATTTTTATTATTT
1 T-T-ATA--TTTAATAATTTTTATTATTT
*
79751991 TTATATTTAATTATTTTTA
1 TTATATTTAATAATTTTTA
79752010 ACCTCATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
24 1 0.03
25 14 0.35
26 2 0.05
27 3 0.08
28 14 0.35
29 6 0.15
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.68
Consensus pattern (25 bp):
TTATATTTAATAATTTTTATTATTT
Found at i:79754809 original size:63 final size:63
Alignment explanation
Indices: 79754710--79754852 Score: 196
Period size: 63 Copynumber: 2.3 Consensus size: 63
79754700 TGGTAGGCCG
* * * * **
79754710 TGTAACTCACTATTTTGGAATTAAAGACATACGGGCTAGAGACACGGGCATTTGTGCAGGTCA
1 TGTAACTCACTATTTTGGAATTAAAGACACACGGGCTAGAGACACAGGCATGTGTCCAGACCA
* * * *
79754773 TGTAACTCACTATTTTGGAATTAAGGACACACGGGCTAGAGACATAGGCGTGTGTCCAGACCG
1 TGTAACTCACTATTTTGGAATTAAAGACACACGGGCTAGAGACACAGGCATGTGTCCAGACCA
79754836 TGTAACTCACTATTTTG
1 TGTAACTCACTATTTTG
79754853 AGCCACACTA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (63 bp):
TGTAACTCACTATTTTGGAATTAAAGACACACGGGCTAGAGACACAGGCATGTGTCCAGACCA
Found at i:79758487 original size:7 final size:7
Alignment explanation
Indices: 79758475--79758503 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
79758465 TTAAAATCCG
79758475 CTATCAA
1 CTATCAA
79758482 CTATCAA
1 CTATCAA
79758489 CTATCAA
1 CTATCAA
79758496 CTATCAA
1 CTATCAA
79758503 C
1 C
79758504 CGATTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (7 bp):
CTATCAA
Found at i:79759319 original size:55 final size:55
Alignment explanation
Indices: 79759208--79759321 Score: 131
Period size: 55 Copynumber: 2.1 Consensus size: 55
79759198 TTCTAGAATT
* * *
79759208 AAAAAAATTAGGGTGTTGGAACACTAATAACCGACACCCTTTTTTCAAATTTAAA
1 AAAAAAATTAGGGTGTTGGAACACTAATAACCAACACCCTTTTTACAAATTCAAA
* * * * * *
79759263 AAAAAAATT-GAGGTGTTGGGACATTGATGACCAACACCCTTTTTACTAGTTCAAA
1 AAAAAAATTAG-GGTGTTGGAACACTAATAACCAACACCCTTTTTACAAATTCAAA
79759318 AAAA
1 AAAA
79759322 TATTTTTTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 1 0.02
55 48 0.98
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (55 bp):
AAAAAAATTAGGGTGTTGGAACACTAATAACCAACACCCTTTTTACAAATTCAAA
Found at i:79761550 original size:20 final size:20
Alignment explanation
Indices: 79761525--79761569 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
79761515 AGGGACTAAA
* *
79761525 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
79761545 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
79761565 ATGAA
1 ATGAA
79761570 TACAAGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:79763024 original size:41 final size:41
Alignment explanation
Indices: 79762973--79763053 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
79762963 TATAACCACC
* *
79762973 TATGTATGCAATGGTATGCCTTGTTAAGTGATGAATTTGCT
1 TATGCATGCAATGGTATGCCTTGTTAAATGATGAATTTGCT
79763014 TATGCATGCAATGGTATGCCTTGTTAAATGATGAATTTGC
1 TATGCATGCAATGGTATGCCTTGTTAAATGATGAATTTGC
79763054 CTACTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (41 bp):
TATGCATGCAATGGTATGCCTTGTTAAATGATGAATTTGCT
Found at i:79770665 original size:12 final size:13
Alignment explanation
Indices: 79770637--79770665 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
79770627 GGCTTACACC
79770637 AAAATCAAAACCA
1 AAAATCAAAACCA
79770650 AAAAT-AAAACCA
1 AAAATCAAAACCA
79770662 AAAA
1 AAAA
79770666 ATAATAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.76, C:0.17, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAATCAAAACCA
Found at i:79772404 original size:22 final size:22
Alignment explanation
Indices: 79772378--79772428 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
79772368 TGTTAAACTT
79772378 TATATTTTATATATATTTTAT-A
1 TATATTTT-TATATATTTTATGA
*
79772400 TATATTTTTATTTATTTTATGA
1 TATATTTTTATATATTTTATGA
*
79772422 TTTATTT
1 TATATTT
79772429 CAAATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TATATTTTTATATATTTTATGA
Found at i:79772428 original size:12 final size:11
Alignment explanation
Indices: 79772378--79772419 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
79772368 TGTTAAACTT
79772378 TATATTTTATA
1 TATATTTTATA
79772389 TATATTTTATA
1 TATATTTTATA
79772400 TATATTTT-TA
1 TATATTTTATA
*
79772410 TTTATTTTAT
1 TATATTTTAT
79772420 GATTTATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TATATTTTATA
Found at i:79774051 original size:140 final size:140
Alignment explanation
Indices: 79773794--79774083 Score: 472
Period size: 140 Copynumber: 2.1 Consensus size: 140
79773784 TGTGTGCCAG
* * * *
79773794 ACGGGCGTGTGTCTTGATCGTGTGAAACTTGCACCTAATTTTAAATTGAATTAATTAACCAGACG
1 ACGGACGTGTGTCTTGATCGTGTGAAACCTGCACCTAATTTCAAATTGAATTAATTAACCAGAAG
* *
79773859 GCCTAGCACACAGGCGTGTAGCTTGGCTGTGTGTGCAAGTCAGAGTGTTGCACGGGGTCGAACAC
66 GCCTAGCACACAGGCGTGTAGCTTGGCTATGTGTGCAAGTCAGAGTGTTGCACAGGGTCGAACAC
*
79773924 GGCCTCTAAC
131 AGCCTCTAAC
* * *
79773934 ACGGACGTGTGTCTTGGTCGTGTGAAACCTGCACCTAATTTCGAATTGAATTAATTAACTAGAAG
1 ACGGACGTGTGTCTTGATCGTGTGAAACCTGCACCTAATTTCAAATTGAATTAATTAACCAGAAG
* *
79773999 GCCTAGTACACAGGCGTGTAGCTTGGCTATGTGTGCAAGTCAGAGTGTTGCACAGGGTTGAACAC
66 GCCTAGCACACAGGCGTGTAGCTTGGCTATGTGTGCAAGTCAGAGTGTTGCACAGGGTCGAACAC
79774064 AGCCTCTAAC
131 AGCCTCTAAC
79774074 ACGGACGTGT
1 ACGGACGTGT
79774084 CCCAGGGTTA
Statistics
Matches: 138, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (140 bp):
ACGGACGTGTGTCTTGATCGTGTGAAACCTGCACCTAATTTCAAATTGAATTAATTAACCAGAAG
GCCTAGCACACAGGCGTGTAGCTTGGCTATGTGTGCAAGTCAGAGTGTTGCACAGGGTCGAACAC
AGCCTCTAAC
Found at i:79775025 original size:39 final size:38
Alignment explanation
Indices: 79774977--79775054 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 38
79774967 TTTTATTATT
* * * *
79774977 AATCTTTTTTCAAAATTTATTAGTTTGTAAATTTTTTAA
1 AATCGTTTTTCAAAATGTATGACTTTGT-AATTTTTTAA
79775016 AATCGTTTTTCAAAATGTATGACTTTGTAATTTTTTAA
1 AATCGTTTTTCAAAATGTATGACTTTGTAATTTTTTAA
79775054 A
1 A
79775055 CTATTGATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 11 0.31
39 24 0.69
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (38 bp):
AATCGTTTTTCAAAATGTATGACTTTGTAATTTTTTAA
Found at i:79779319 original size:24 final size:24
Alignment explanation
Indices: 79779290--79779336 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
79779280 ACATAATCTA
79779290 TAACATTTAACAGTTTTACAAATC
1 TAACATTTAACAGTTTTACAAATC
79779314 TAACATTTAACAGTTTTACAAAT
1 TAACATTTAACAGTTTTACAAAT
79779337 TGACCCTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (24 bp):
TAACATTTAACAGTTTTACAAATC
Found at i:79779536 original size:19 final size:19
Alignment explanation
Indices: 79779512--79779549 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
79779502 ATCTAAAGTT
79779512 TTATTTAATTTAC-ATTTTA
1 TTATTT-ATTTACTATTTTA
79779531 TTATTTATTTACTATTTTA
1 TTATTTATTTACTATTTTA
79779550 CCCTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTATTTACTATTTTA
Found at i:79783746 original size:29 final size:30
Alignment explanation
Indices: 79783691--79783758 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
79783681 TAAAACAGAT
79783691 AAAAAAAAAAGCCTGAAACAAGGCTT-AAAG
1 AAAAAAAAAAGCCTGAAACAA-GCTTAAAAG
* *
79783721 AAAAAAAAAAGAGCTGATACAA-CTTAAAAG
1 AAAAAAAAAAG-CCTGAAACAAGCTTAAAAG
*
79783751 AATAAAAA
1 AAAAAAAA
79783759 GGCTAAAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 22 0.67
31 8 0.24
ACGTcount: A:0.65, C:0.10, G:0.13, T:0.12
Consensus pattern (30 bp):
AAAAAAAAAAGCCTGAAACAAGCTTAAAAG
Found at i:79783758 original size:31 final size:32
Alignment explanation
Indices: 79783689--79783758 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 32
79783679 AATAAAACAG
79783689 ATAAAAAAAAAAGCCTGAAACAAGGCTTAAAGA
1 ATAAAAAAAAAAGCCTGAAACAA-GCTTAAAGA
* *
79783722 A-AAAAAAAAGAG-CTGATACAA-CTTAAAAGA
1 ATAAAAAAAAAAGCCTGAAACAAGCTT-AAAGA
79783752 ATAAAAA
1 ATAAAAA
79783759 GGCTAAAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 3 0.09
30 6 0.18
31 13 0.39
32 10 0.30
33 1 0.03
ACGTcount: A:0.64, C:0.10, G:0.13, T:0.13
Consensus pattern (32 bp):
ATAAAAAAAAAAGCCTGAAACAAGCTTAAAGA
Found at i:79784158 original size:28 final size:26
Alignment explanation
Indices: 79784127--79784180 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
79784117 ATTATTATAT
79784127 TATTAAATTTTAATAAAAATATAAGAAA
1 TATTAAATTTTAATAAAAA-A-AAGAAA
* *
79784155 TATTTAATTTTTATAAAAAAAAGAAA
1 TATTAAATTTTAATAAAAAAAAGAAA
79784181 AAAATTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (26 bp):
TATTAAATTTTAATAAAAAAAAGAAA
Found at i:79784579 original size:28 final size:28
Alignment explanation
Indices: 79784547--79784600 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
79784537 TCTTTCTAAG
79784547 TTTTAGTAAATTTTAA-ATATTTTTATAT
1 TTTTAGTAAATTTTAATA-ATTTTTATAT
*
79784575 TTTTATTAAATTTTAATAATTTTTAT
1 TTTTAGTAAATTTTAATAATTTTTAT
79784601 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTTAGTAAATTTTAATAATTTTTATAT
Found at i:79784584 original size:21 final size:21
Alignment explanation
Indices: 79784562--79784619 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
79784552 GTAAATTTTA
79784562 AATATTTTTAT-ATTTTTATT
1 AATATTTTTATAATTTTTATT
*
79784582 AA-ATTTTAATAATTTTTATT
1 AATATTTTTATAATTTTTATT
* *
79784602 TATTTTTTTATAATTTTT
1 AATATTTTTATAATTTTT
79784620 TGTCACATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 7 0.22
20 12 0.38
21 13 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
AATATTTTTATAATTTTTATT
Found at i:79784606 original size:19 final size:19
Alignment explanation
Indices: 79784563--79784607 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
79784553 TAAATTTTAA
*
79784563 ATATTTTTATATTTTTATT
1 ATATTTTAATATTTTTATT
*
79784582 AAATTTTAATAATTTTTATT
1 ATATTTTAAT-ATTTTTATT
79784602 -TATTTT
1 ATATTTT
79784608 TTTATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
ATATTTTAATATTTTTATT
Found at i:79791218 original size:19 final size:19
Alignment explanation
Indices: 79791196--79791236 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 19
79791186 GTGTCAAATT
79791196 AAGTTAATTAACTAAATGC
1 AAGTTAATTAACTAAATGC
79791215 AAG----TTAACTAAATGC
1 AAGTTAATTAACTAAATGC
79791230 AAGTTAA
1 AAGTTAA
79791237 CCAAATGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 8
0.69 0.00 0.31
Matches are distributed among these distances:
15 15 0.83
19 3 0.17
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (19 bp):
AAGTTAATTAACTAAATGC
Found at i:79791223 original size:15 final size:15
Alignment explanation
Indices: 79791203--79791246 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
79791193 ATTAAGTTAA
79791203 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
79791218 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
*
79791233 TTAACCAAATGCAA
1 TTAACTAAATGCAA
79791247 ATGAAATGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.25
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:79797362 original size:21 final size:23
Alignment explanation
Indices: 79797336--79797378 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
79797326 CATTGGTTTC
79797336 ATTGTTA-T-AAATATTATATGT
1 ATTGTTATTAAAATATTATATGT
79797357 ATTGTTATTAAAAATATTATAT
1 ATTGTTATT-AAAATATTATAT
79797379 AAAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 1 0.05
24 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
ATTGTTATTAAAATATTATATGT
Found at i:79798785 original size:11 final size:11
Alignment explanation
Indices: 79798769--79798793 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
79798759 AGTTACAATT
79798769 TTTGGAAAATC
1 TTTGGAAAATC
79798780 TTTGGAAAATC
1 TTTGGAAAATC
79798791 TTT
1 TTT
79798794 TATTTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (11 bp):
TTTGGAAAATC
Found at i:79802830 original size:14 final size:15
Alignment explanation
Indices: 79802806--79802846 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
79802796 AATCCAAGTC
79802806 AAATAAAATAATTAA
1 AAATAAAATAATTAA
*
79802821 AAAT-AAATAACTAA
1 AAATAAAATAATTAA
79802835 AAATAAAATAAT
1 AAATAAAATAAT
79802847 AAACCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAAATAATTAA
Found at i:79818668 original size:13 final size:14
Alignment explanation
Indices: 79818652--79818682 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
79818642 TCTAAATCCT
79818652 TTGATT-AAAAATC
1 TTGATTCAAAAATC
79818665 TTGATTCAAAAATC
1 TTGATTCAAAAATC
79818679 TTGA
1 TTGA
79818683 GAAATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (14 bp):
TTGATTCAAAAATC
Found at i:79820657 original size:27 final size:27
Alignment explanation
Indices: 79820609--79820767 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
79820599 GCGAGGCTGC
* *
79820609 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
79820636 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
79820662 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
79820689 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
79820716 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
79820743 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
79820768 GATGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:79820702 original size:54 final size:54
Alignment explanation
Indices: 79820627--79820767 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
79820617 GTGACGAAGT
*
79820627 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
79820681 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
79820735 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
79820768 GATGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:79824053 original size:39 final size:39
Alignment explanation
Indices: 79823944--79824111 Score: 203
Period size: 39 Copynumber: 4.2 Consensus size: 39
79823934 TGTGAATGAA
* *
79823944 TGTGCGAATTGTGATATCTGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
79823982 TGTGCGAATTGTGATATCCGGGCTTAGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCC--G----GGCTAAGCCCGAAGGCAAT
* *
79824027 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
79824066 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
79824106 TGTGCG
1 TGTGCG
79824112 GGTTACCATA
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
38 18 0.16
39 43 0.38
40 18 0.16
43 1 0.01
44 7 0.06
45 27 0.24
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:79825706 original size:26 final size:26
Alignment explanation
Indices: 79825676--79825747 Score: 135
Period size: 26 Copynumber: 2.8 Consensus size: 26
79825666 TGAAATTCCC
79825676 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
79825702 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
79825728 ATCATGGAACATTTACCTAA
1 ATCATGGAACATTTACCTAA
79825748 TTTACCTAAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79825751 original size:35 final size:35
Alignment explanation
Indices: 79825712--79825782 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
79825702 ATCATGGAAC
79825712 ATTTACCTAACCTATTATCATGGAACATTTACCTA
1 ATTTACCTAACCTATTATCATGGAACATTTACCTA
79825747 ATTTACCTAACCTATTATCATGGAACATTTACCTA
1 ATTTACCTAACCTATTATCATGGAACATTTACCTA
79825782 A
1 A
79825783 CCCATTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.37
Consensus pattern (35 bp):
ATTTACCTAACCTATTATCATGGAACATTTACCTA
Found at i:79825781 original size:61 final size:59
Alignment explanation
Indices: 79825686--79825844 Score: 224
Period size: 61 Copynumber: 2.8 Consensus size: 59
79825676 ATCATGGAAC
* *
79825686 ATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCT
1 ATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATTATCATAGAACATTTACCT
79825746 AATTTACCTAACCTATTATCATGGAACATTTACCTAACCCATTATCATAGAACATTTACCT
1 -ATTTACCTAACC-ATTATCATGGAACATTTACCTAACCCATTATCATAGAACATTTACCT
79825807 A---A-C---CCATTATCATGGAACATTTACCTAACCCATTATCA
1 ATTTACCTAACCATTATCATGGAACATTTACCTAACCCATTATCA
79825845 ATTTGTATCA
Statistics
Matches: 95, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
52 33 0.35
53 2 0.02
56 1 0.01
57 1 0.01
60 3 0.03
61 55 0.58
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (59 bp):
ATTTACCTAACCATTATCATGGAACATTTACCTAACCCATTATCATAGAACATTTACCT
Found at i:79825783 original size:26 final size:26
Alignment explanation
Indices: 79825747--79825844 Score: 178
Period size: 26 Copynumber: 3.8 Consensus size: 26
79825737 CATTTACCTA
*
79825747 ATTTACCTAACCTATTATCATGGAAC
1 ATTTACCTAACCCATTATCATGGAAC
*
79825773 ATTTACCTAACCCATTATCATAGAAC
1 ATTTACCTAACCCATTATCATGGAAC
79825799 ATTTACCTAACCCATTATCATGGAAC
1 ATTTACCTAACCCATTATCATGGAAC
79825825 ATTTACCTAACCCATTATCA
1 ATTTACCTAACCCATTATCA
79825845 ATTTGTATCA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.33
Consensus pattern (26 bp):
ATTTACCTAACCCATTATCATGGAAC
Found at i:79825822 original size:87 final size:87
Alignment explanation
Indices: 79825676--79825834 Score: 300
Period size: 87 Copynumber: 1.8 Consensus size: 87
79825666 TGAAATTCCC
* *
79825676 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACATT
1 ATCATGGAACATTTACCTAACCCATTATCATAGAACATTTACCTAACCCATTATCATGGAACATT
79825741 TACCTAATTTACCTAACCTATT
66 TACCTAATTTACCTAACCTATT
79825763 ATCATGGAACATTTACCTAACCCATTATCATAGAACATTTACCTAACCCATTATCATGGAACATT
1 ATCATGGAACATTTACCTAACCCATTATCATAGAACATTTACCTAACCCATTATCATGGAACATT
79825828 TACCTAA
66 TACCTAA
79825835 CCCATTATCA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (87 bp):
ATCATGGAACATTTACCTAACCCATTATCATAGAACATTTACCTAACCCATTATCATGGAACATT
TACCTAATTTACCTAACCTATT
Found at i:79828004 original size:40 final size:40
Alignment explanation
Indices: 79827927--79828144 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
79827917 AAACCAAGTA
* *
79827927 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
79827966 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
79828006 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
79828046 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
79828086 CCTTCGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
79828126 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
79828145 TTATCATCCG
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 151 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:79835894 original size:28 final size:28
Alignment explanation
Indices: 79835862--79835930 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
79835852 ACGTAGAACA
*
79835862 CGAAATTACCCTTAAAGAACAAAATTAC
1 CGAAATTACCCCTAAAGAACAAAATTAC
*
79835890 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAACAAAATTAC
*
79835918 CGATA-TACCCCTA
1 CGAAATTACCCCTA
79835931 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAACAAAATTAC
Found at i:79842225 original size:20 final size:20
Alignment explanation
Indices: 79842200--79842237 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
79842190 GTTTATTCGC
*
79842200 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
79842220 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
79842238 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:79843897 original size:28 final size:28
Alignment explanation
Indices: 79843865--79843933 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
79843855 GCGTAGATCA
79843865 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
79843893 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
79843921 CGATA-TACCCCTA
1 CGAAATTACCCCTA
79843934 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:79845925 original size:40 final size:40
Alignment explanation
Indices: 79845848--79846063 Score: 294
Period size: 40 Copynumber: 5.4 Consensus size: 40
79845838 AAACCAAGTA
* *
79845848 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
79845887 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
79845927 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
79845967 CCTTCGGGACTTAGCCCGGATAAAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
79846007 CCTTTGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
79846047 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
79846064 AGTTATCATC
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.10
40 142 0.90
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:79848571 original size:40 final size:40
Alignment explanation
Indices: 79848527--79848736 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
79848517 TCGGATTTAA
* * * * *
79848527 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
79848567 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79848607 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79848647 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79848687 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79848727 CCGGATATAT
1 CCGGATATAT
79848737 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:79856765 original size:40 final size:40
Alignment explanation
Indices: 79856657--79856866 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
79856647 CGGGATTTAA
* * * * *
79856657 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
79856697 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79856737 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79856777 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79856817 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
79856857 CCGGATATAT
1 CCGGATATAT
79856867 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:79860569 original size:6 final size:6
Alignment explanation
Indices: 79860540--79860636 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
79860530 ATAAGAAACT
* * * *
79860540 AGAATC AAAATG AGAATC AAAATC AGAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC
* *
79860588 AG-GTGAC AGAATC AGAATC A-ATATC AGGTAA-C AGAATC GGAATC AGAAT
1 AGAAT--C AGAATC AGAATC AGA-ATC A-G-AATC AGAATC AGAATC AGAAT
79860637 GTGAATGTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.85
7 4 0.06
8 2 0.03
9 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:79860600 original size:25 final size:25
Alignment explanation
Indices: 79860552--79860636 Score: 95
Period size: 25 Copynumber: 3.4 Consensus size: 25
79860542 AATCAAAATG
*
79860552 AGAATCAAAATCA-G-AATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATC
* *
79860576 AGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
79860601 AGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGA-ATCAGGTAACAGAATC
*
79860626 GGAATCAGAAT
1 AGAATCAGAAT
79860637 GTGAATGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 12 0.24
25 37 0.73
26 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:79860818 original size:27 final size:27
Alignment explanation
Indices: 79860753--79860834 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
79860743 TAGCATGGCT
* *
79860753 ACCAG-AACAGATATTGTGACAGAGTC
1 ACCAGAAACAGATATTGTGGCAGAGCC
*
79860779 ACCAGATACAGATATTGTGGCAGAGCC
1 ACCAGAAACAGATATTGTGGCAGAGCC
* * *
79860806 ACCAGAAATAGATAATGTGGCAAAGCC
1 ACCAGAAACAGATATTGTGGCAGAGCC
79860833 AC
1 AC
79860835 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.10
27 43 0.90
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (27 bp):
ACCAGAAACAGATATTGTGGCAGAGCC
Found at i:79861021 original size:22 final size:22
Alignment explanation
Indices: 79860993--79861054 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
79860983 GCAAATACGT
79860993 TTGGCACACAACCATAAT-TAGG
1 TTGGCACA-AACCATAATGTAGG
*
79861015 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAATGTAGG
*
79861037 TTGGCGCAAAGCCATAAT
1 TTGGCACAAA-CCATAAT
79861055 CAGAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (22 bp):
TTGGCACAAACCATAATGTAGG
Found at i:79861464 original size:27 final size:28
Alignment explanation
Indices: 79861402--79861465 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
79861392 CAGTCACTTG
*
79861402 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
79861430 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
79861456 CCCACAAGGG
1 CCCACAAGGG
79861466 TATCTAGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:79862053 original size:27 final size:27
Alignment explanation
Indices: 79861446--79862056 Score: 661
Period size: 27 Copynumber: 22.6 Consensus size: 27
79861436 GGGCAAAATG
* * * *
79861446 GTAATTTTACCCCACAAGGGTATCT-A
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
79861472 GGTAATTCTACCCTATAGGGGTATTTTG
1 -GTAATTCTACCCTACAGGGGTATTTCA
* * *
79861500 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
79861527 GTAATTTTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
79861554 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * * *
79861581 GTATTTTTACCCTGCAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
79861608 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
79861635 GTATTTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79861662 GTAATTCTACCCTACAGGGATATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
79861689 GTATTTCTATCCTTCAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79861715 GATAATTCTACGCTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
79861743 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
79861770 GTAATTCCACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
79861797 GTATTTCTACCTTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
** * *
79861824 GTAATTCTACTATACAGAGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79861851 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
79861878 GTAATTCTACTCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79861905 GTAATTCTACCGTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * **
79861932 GTAATTCTACTCTATAGAGGTATTTTT
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
79861959 GTATTTCTACCCTACAGGGCTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
79861986 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
79862012 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
79862040 GCAATACTAGCCTACAG
1 GTAATTCTACCCTACAG
79862057 ATATGAGATT
Statistics
Matches: 489, Mismatches: 90, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.00
27 485 0.99
28 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:79863934 original size:6 final size:6
Alignment explanation
Indices: 79863904--79864010 Score: 51
Period size: 6 Copynumber: 17.3 Consensus size: 6
79863894 AAGAAACATT
* * *
79863904 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAGTG AT-AGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA
* * * **
79863953 ATCAGA ATTAG- GTGACAGA AGCAGA ATCATT ATCAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
79864003 ATCAGA AT
1 ATCAGA AT
79864011 GTAAATGTAA
Statistics
Matches: 74, Mismatches: 16, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
5 6 0.08
6 58 0.78
7 7 0.09
8 3 0.04
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:79863956 original size:25 final size:25
Alignment explanation
Indices: 79863925--79864010 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
79863915 AATCAAAATG
* *
79863925 AGAATCAGAATCAAGTGATAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
* *
79863950 AGAATCAGAATTAGGTGACAGAAGC
1 AGAATCAGAATCAGGTGACAGAATC
** *
79863975 AGAATCATTATCAGGTAACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
79864000 AGAATCAGAAT
1 AGAATCAGAAT
79864011 GTAAATGTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGGTGACAGAATC
Found at i:79864198 original size:27 final size:27
Alignment explanation
Indices: 79864128--79864208 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
79864118 AGCATGGCTG
* *
79864128 CCAG-AACAAATATTGTGACAGAGTCA
1 CCAGAAACAAATATTGTGGCAGAGCCA
*
79864154 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGAAACAAATATTGTGGCAGAGCCA
* * *
79864181 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAAACAAATATTGTGGCAGAGCCA
79864208 C
1 C
79864209 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 4 0.09
27 43 0.91
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (27 bp):
CCAGAAACAAATATTGTGGCAGAGCCA
Done.