Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 236 of 276
Found at i:78044218 original size:17 final size:15
Alignment explanation
Indices: 78044185--78044223 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
78044175 GCAAAACAGG
*
78044185 AGCAAAAAAAGAGAA
1 AGCAAAAAAAAAGAA
78044200 AGCAAAAAAGAAAGCAA
1 AGCAAAAAA-AAAG-AA
78044217 AGCAAAA
1 AGCAAAA
78044224 CAGTAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.72, C:0.10, G:0.18, T:0.00
Consensus pattern (15 bp):
AGCAAAAAAAAAGAA
Found at i:78046537 original size:127 final size:126
Alignment explanation
Indices: 78046326--78046622 Score: 382
Period size: 127 Copynumber: 2.3 Consensus size: 126
78046316 AATGTTTGAT
* * *
78046326 GTTTGAAAATTTGGGAAATCGTGCCCTACCGTGCTGGGTTTCGATTTCCTGTTTGCTCAAAACAA
1 GTTTGGAAATTCGGGGAATCGTGCCCTA-CGTGCTGGGTTTCGATTTCCTGTTTGCTCAAAACAA
* *
78046391 TCGAATATTCCTTTAGAATTTCACACGTGTT-TTCCAAATTCTAAAACAAGGCAATGCTCAAG
65 TCGAATATTCCTTTAGAATTTCACACGTATTCTT-CAAATTCTAAAACAAAGCAATGCTCAAG
* *
78046453 GTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGATTT-CTCGTTTGTTCAAAATA
1 GTTTGGAAATTCGGGGAATCGTGCCCTA-CGTGCTGGGTTTCGATTTCCT-GTTTGCTCAAAACA
* ** * * *
78046517 ATCGAATATTCTTTTAGAATTTCATTCGTATTCTTTAAATTCTAAAACAAAGCAATGTTCAAT
64 ATCGAATATTCCTTTAGAATTTCACACGTATTCTTCAAATTCTAAAACAAAGCAATGCTCAAG
* * **
78046580 GTTTAGAAGTTCGAAGAATCGTGCCCTACAGTGCTGGGTTTCG
1 GTTTGGAAATTCGGGGAATCGTGCCCTAC-GTGCTGGGTTTCG
78046623 GTTTTTTTGT
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
126 3 0.02
127 144 0.97
128 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (126 bp):
GTTTGGAAATTCGGGGAATCGTGCCCTACGTGCTGGGTTTCGATTTCCTGTTTGCTCAAAACAAT
CGAATATTCCTTTAGAATTTCACACGTATTCTTCAAATTCTAAAACAAAGCAATGCTCAAG
Found at i:78058088 original size:44 final size:44
Alignment explanation
Indices: 78057974--78058226 Score: 144
Period size: 44 Copynumber: 5.6 Consensus size: 44
78057964 AATTACGGCG
* * *
78057974 AATCTTATCTTCCTAAAGTTGCAGTGAAGCAGATTAAAATCATC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATC
* * **
78058018 AATCTTATCTCCCTG-AGATTGCAGTGGAGCAGGTTGAAATTGT-
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAATCATC
* ** * *
78058061 AGATCTTATCTCCCTGAAGTTGTAGTGGAATAGATCAAAAAT-AGC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAATCATC
* * * *
78058106 AAATCTTATTTCCCTGAAGTTTCAGTGAAACAGATTGAAGCTATAT-ACTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA---A-ATCA-T-C
* * *
78058157 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCACG-TCAAAA-CA--
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAATCATC
* *
78058199 AGTCTTATTTCCCTGAAGTTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
78058227 ACGGATTGAA
Statistics
Matches: 160, Mismatches: 33, Indels: 35
0.70 0.14 0.15
Matches are distributed among these distances:
41 23 0.14
42 1 0.01
43 3 0.02
44 59 0.37
45 36 0.22
46 3 0.02
47 1 0.01
48 1 0.01
49 3 0.02
50 3 0.02
51 26 0.16
52 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATC
Found at i:78058217 original size:41 final size:41
Alignment explanation
Indices: 78058160--78058318 Score: 111
Period size: 41 Copynumber: 3.6 Consensus size: 41
78058150 ATACTACAGA
*
78058160 TCTTATCTCTCTGAAGTTGCAGTAGAGCACGTCAAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCACGTCAAAACAAG
* * * * *
78058201 TCTTATTTCCCTGAAGTTGCAGTGGAACGGATTGAAACTATAAACTACAG
1 TCTTATCTCCCTGAAGTTGCAGTAG-A-GCA-CG--TC-A-AAAC-A-AG
* * * * *
78058251 ATCCTATCTCTCTGAAGTTGCAGTAGAACAGGTCAAAACAAA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAGCACGTCAAAACAAG
* *
78058293 TCTTGTTTCCCTGAAGTTGCAGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTAGA
78058319 ATAGATTGAA
Statistics
Matches: 89, Mismatches: 19, Indels: 20
0.70 0.15 0.16
Matches are distributed among these distances:
41 44 0.49
42 2 0.02
43 3 0.03
44 5 0.06
45 1 0.01
46 2 0.02
47 1 0.01
48 5 0.06
49 2 0.02
50 3 0.03
51 21 0.24
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (41 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCACGTCAAAACAAG
Found at i:78058234 original size:92 final size:91
Alignment explanation
Indices: 78058109--78058421 Score: 394
Period size: 92 Copynumber: 3.4 Consensus size: 91
78058099 AAATAGCAAA
* * *
78058109 TCTTATTTCCCTGAAGTTTCAGTGAAACAGATTGAAGCTATATACTACAGATCTTATCTCTCTGA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATA-ACTACAGATCCTATCTCTCTGA
*
78058174 AGTTGCAGTAGAGCACGTCAAAACAAG
65 AGTTGCAGTAGAGCAGGTCAAAACAAG
* *
78058201 TCTTATTTCCCTGAAGTTGCAGTGGAACGGATTGAAACTATAAACTACAGATCCTATCTCTCTGA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT-AACTACAGATCCTATCTCTCTGA
* *
78058266 AGTTGCAGTAGAACAGGTCAAAACAAA
65 AGTTGCAGTAGAGCAGGTCAAAACAAG
* * *
78058293 TCTTGTTTCCCTGAAGTTGCAGTAGAATAGATTGAAGCTATAAGCTACAGATCCTATCTCTCTGA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA-CTACAGATCCTATCTCTCTGA
** * *
78058358 AGTTGTTGTAGGGTAGGTCAAAACAAG
65 AGTTGCAGTAGAGCAGGTCAAAACAAG
* * * * * *
78058385 CCTTATCTCTCT-AATGTTGTAGTGGAGCAGACTGAAG
1 TCTTATTTCCCTGAA-GTTGCAGTGGAACAGATTGAAG
78058422 ATAGCAAATC
Statistics
Matches: 190, Mismatches: 28, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
91 4 0.02
92 185 0.97
93 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (91 bp):
TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAACTACAGATCCTATCTCTCTGAA
GTTGCAGTAGAGCAGGTCAAAACAAG
Found at i:78059004 original size:14 final size:14
Alignment explanation
Indices: 78058982--78059022 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
78058972 CTAGGCCTGC
*
78058982 AAAACAGAAGCAAA
1 AAAAGAGAAGCAAA
78058996 AAAAGAGAAAGC-AA
1 AAAAGAG-AAGCAAA
78059010 AAAAGA-AAGCAAA
1 AAAAGAGAAGCAAA
78059023 GCAAAACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 2 0.08
14 14 0.58
15 4 0.17
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAGAAGCAAA
Found at i:78059023 original size:17 final size:15
Alignment explanation
Indices: 78058989--78059028 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
78058979 TGCAAAACAG
*
78058989 AAGCAAAAAAAGAGA
1 AAGCAAAAAAAAAGA
78059004 AAGCAAAAAAGAAAGCA
1 AAGCAAAAAA-AAAG-A
78059021 AAGCAAAA
1 AAGCAAAA
78059029 CAGTAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
16 3 0.14
17 9 0.41
ACGTcount: A:0.72, C:0.10, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGCAAAAAAAAAGA
Found at i:78061297 original size:127 final size:127
Alignment explanation
Indices: 78061128--78061416 Score: 384
Period size: 127 Copynumber: 2.3 Consensus size: 127
78061118 AGTGTTTGAT
* * *
78061128 GTTTGGAAATTCGGGAAATCGTGCCCTACCGTGCTGGGTTTCGATTTC-CTGTTTGTTCAAAACA
1 GTTTGGAAATTCGGGGAATCGTGCCTTACCGTGCTGGATTTCGATTTCTC-GTTTGTTCAAAACA
* *
78061192 ATCGAATATTCCTTTAGAATTTCACACGTGTT-TTTCAAATTCTAAAACAAGGCAATGCTCAAG
65 ATCGAATATTCCTTTAGAATTTCACACGTATTCTTT-AAATTCTAAAACAAAGCAATGCTCAAG
* * *
78061255 GTTTGGAAATTCGGGGAATCGTGCCTTATCGTGTTGGATTTCGATTTCTCGTTTGTTCAAAATAA
1 GTTTGGAAATTCGGGGAATCGTGCCTTACCGTGCTGGATTTCGATTTCTCGTTTGTTCAAAACAA
* **** * *
78061320 TCGAATATTCTTTTAGAATTTCGTTTGTATTCTTTAAATTCTAAAACAAAGCAATGTTCAAT
66 TCGAATATTCCTTTAGAATTTCACACGTATTCTTTAAATTCTAAAACAAAGCAATGCTCAAG
* **
78061382 GTTTGGAAGTTCGAAGAATCGTGCCTTACCGTGCT
1 GTTTGGAAATTCGGGGAATCGTGCCTTACCGTGCT
78061417 AGGTTTCAGT
Statistics
Matches: 140, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
127 136 0.97
128 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (127 bp):
GTTTGGAAATTCGGGGAATCGTGCCTTACCGTGCTGGATTTCGATTTCTCGTTTGTTCAAAACAA
TCGAATATTCCTTTAGAATTTCACACGTATTCTTTAAATTCTAAAACAAAGCAATGCTCAAG
Found at i:78062165 original size:16 final size:16
Alignment explanation
Indices: 78062144--78062174 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78062134 GTTACAAAAT
*
78062144 AATATGTAAAGCTTAA
1 AATATGTAAAACTTAA
78062160 AATATGTAAAACTTA
1 AATATGTAAAACTTA
78062175 TATTAATAGC
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:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
AATATGTAAAACTTAA
Found at i:78081967 original size:56 final size:55
Alignment explanation
Indices: 78081902--78082009 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 55
78081892 TTATAGATTG
*
78081902 CAAATTAATTATTCATGAA-CACTATTCAAATTAAAAATGATGATTTATCATCTTA
1 CAAATTAATTATTCAT-AAGCACTATTCAAATTAAAAATGATAATTTATCATCTTA
*
78081957 CAAATTTAATTATTCATAAGCACTATTCAAATTAAAAGTGATAATTTATCATC
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAATGATAATTTATCATC
78082010 CAATGGATAC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
55 6 0.12
56 43 0.88
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.38
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAATGATAATTTATCATCTTA
Found at i:78083719 original size:20 final size:20
Alignment explanation
Indices: 78083694--78083749 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
78083684 ATGTACTTGG
78083694 CTTAAAGTATTGATACATTC
1 CTTAAAGTATTGATACATTC
* ** * *
78083714 CTTAAAGAATCAATACCTTT
1 CTTAAAGTATTGATACATTC
*
78083734 TTTAAAGTATTGATAC
1 CTTAAAGTATTGATAC
78083750 TTTTATTTGG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (20 bp):
CTTAAAGTATTGATACATTC
Found at i:78091566 original size:20 final size:18
Alignment explanation
Indices: 78091534--78091580 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
78091524 AACAATCTCC
78091534 AAAAGAAACCACACAATTT
1 AAAA-AAACCACACAATTT
78091553 AAAAAAACCACACAATTT
1 AAAAAAACCACACAATTT
*
78091571 AACAAAACCA
1 AAAAAAACCA
78091581 TATTTACCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.62, C:0.23, G:0.02, T:0.13
Consensus pattern (18 bp):
AAAAAAACCACACAATTT
Found at i:78092506 original size:32 final size:33
Alignment explanation
Indices: 78092470--78092557 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 33
78092460 TTCCCCTTTA
78092470 TATATATATTTATATTTTCTTTTAA-ATCTATT
1 TATATATATTTATATTTTCTTTTAAGATCTATT
*
78092502 TATATATAATT-TA-TTTCTTTTAAAGATCTATT
1 TATATATATTTATATTTTCTTTT-AAGATCTATT
* *
78092534 T-TACTAAATATATATTTT-TTTTAA
1 TATA-TATATTTATATTTTCTTTTAA
78092558 CACTTTCTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
30 8 0.17
31 6 0.13
32 24 0.51
33 6 0.13
34 3 0.06
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (33 bp):
TATATATATTTATATTTTCTTTTAAGATCTATT
Found at i:78093133 original size:24 final size:24
Alignment explanation
Indices: 78093105--78093151 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
78093095 GCTCATTACC
78093105 TTTGAAAAGTTTTTTGT-TTCATTG
1 TTTGAAAAGTTTTTT-TATTCATTG
*
78093129 TTTGAATAGTTTTTTTATTCATT
1 TTTGAAAAGTTTTTTTATTCATT
78093152 AGTCTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.21, C:0.04, G:0.13, T:0.62
Consensus pattern (24 bp):
TTTGAAAAGTTTTTTTATTCATTG
Found at i:78094965 original size:130 final size:130
Alignment explanation
Indices: 78094802--78095050 Score: 367
Period size: 130 Copynumber: 1.9 Consensus size: 130
78094792 GCATGAGTGG
*
78094802 AATTCTAAAGGAATATTCGATTGTTTTGAACAAACAGG-AAATCG-AACCCAGCACGATAGGGCA
1 AATTCCAAAGGAATATTCGATTGTTTTGAACAAA-AGGAAAATCGTAACCCAGCACGATAGGGCA
*
78094865 CAATTCTCCGAATTGCCAAACATCAAACATTACCTTCGTTTTGAAGAATTTTTAAAGACATAAGC
65 CAATTC-CCGAATTGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAAGACATAAGC
78094930 AA
129 AA
* *
78094932 AATTCCAAAGGAGTATTCGATTGTTTTGAACAAATGGAAAATCGTAACCCAGCACGATAGGGCAC
1 AATTCCAAAGGAATATTCGATTGTTTTGAACAAAAGGAAAATCGTAACCCAGCACGATAGGGCAC
* * * ** * *
78094997 GATTCCCGAATTTCCAAACATCGAGTATTGCCTTTGTTTTAAAGAATTTTTAAA
66 AATTCCCGAATTGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAA
78095051 TGAATAATTG
Statistics
Matches: 106, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
129 2 0.02
130 80 0.75
131 24 0.23
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (130 bp):
AATTCCAAAGGAATATTCGATTGTTTTGAACAAAAGGAAAATCGTAACCCAGCACGATAGGGCAC
AATTCCCGAATTGCCAAACATCAAACATTACCTTCGTTTTAAAGAATTTTTAAAGACATAAGCAA
Found at i:78095934 original size:31 final size:32
Alignment explanation
Indices: 78095899--78095981 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
78095889 CTTCCTGCAT
* *
78095899 TAAAATCCAACCAAATACAACAAATATA-ATA
1 TAAAATACAACCAAAAACAACAAATATACATA
* * *
78095930 TAAAATGCAGCCAAAAACAACAAATTTAGCATA
1 TAAAATACAACCAAAAACAACAAATATA-CATA
*
78095963 AAAAATACAACCAAAAACA
1 TAAAATACAACCAAAAACA
78095982 TTAATTCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 24 0.56
33 19 0.44
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (32 bp):
TAAAATACAACCAAAAACAACAAATATACATA
Found at i:78103608 original size:9 final size:9
Alignment explanation
Indices: 78103594--78103721 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
78103584 ATGTATTAGT
78103594 TAAGTTATG
1 TAAGTTATG
78103603 TAAGTTGTTATG
1 TAA---GTTATG
*
78103615 TACGTTATG
1 TAAGTTATG
*
78103624 TGAGTTATG
1 TAAGTTATG
*
78103633 TAAATTATG
1 TAAGTTATG
78103642 TAAGTTATG
1 TAAGTTATG
*
78103651 TGAGTTATG
1 TAAGTTATG
78103660 TAAGTTGTTATG
1 TAA---GTTATG
*
78103672 TAAATTATG
1 TAAGTTATG
*
78103681 TAAGTTATA
1 TAAGTTATG
*
78103690 TGAGTTATG
1 TAAGTTATG
78103699 TAAGTTATG
1 TAAGTTATG
* *
78103708 TAATTTATT
1 TAAGTTATG
78103717 TAAGT
1 TAAGT
78103722 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:78103721 original size:57 final size:57
Alignment explanation
Indices: 78103594--78103721 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 57
78103584 ATGTATTAGT
** * *
78103594 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
78103651 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
78103708 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
78103722 AATGATCAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:78104326 original size:241 final size:240
Alignment explanation
Indices: 78103843--78104327 Score: 837
Period size: 241 Copynumber: 2.0 Consensus size: 240
78103833 AATATAGTAA
78103843 TTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
1 TTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
78103908 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
66 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
*
78103973 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATAT
131 GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATAT
* *** * **
78104038 TCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTTAT
196 TCAATAGTAAATAAGCTCGATAGAAC-TTTAAAAAGTATGATTTAT
*
78104084 TTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTTGGGAGGATCCATTATATCTTACAGCTC
1 TTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
* *
78104149 GATATAAGGCAACCCGTCAGGTTTCTAGTCTATATACTTTGAATCTTTAAAATATTTAAAAAAAA
66 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTT-AAAAAAA
78104214 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATA
130 GGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATA
78104279 TTCAATAGTAAATAAGCTCGATAGAAC-TTAAAAAGGTATGATTTAT
195 TTCAATAGTAAATAAGCTCGATAGAACTTTAAAAA-GTATGATTTAT
78104325 TTT
1 TTT
78104328 GAATAAAAAG
Statistics
Matches: 231, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
240 4 0.02
241 130 0.56
242 97 0.42
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (240 bp):
TTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAAAG
GTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAATAT
TCAATAGTAAATAAGCTCGATAGAACTTTAAAAAGTATGATTTAT
Found at i:78104390 original size:24 final size:24
Alignment explanation
Indices: 78104349--78104408 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
78104339 TTAACTTAAA
* * * *
78104349 TGATAAAATGAACGATAATATTTG
1 TGATAAAACGGACAATAACATTTG
78104373 TGATAAAACGGACAATAACATTTG
1 TGATAAAACGGACAATAACATTTG
78104397 TGATAAAACGGA
1 TGATAAAACGGA
78104409 AGAGAATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (24 bp):
TGATAAAACGGACAATAACATTTG
Found at i:78104419 original size:24 final size:24
Alignment explanation
Indices: 78104365--78104419 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
78104355 AATGAACGAT
*
78104365 AATATTTGTGATAAAACGGACAAT
1 AATATTTGTGATAAAACGGACAAG
*
78104389 AACATTTGTGATAAAACGGA-AGAG
1 AATATTTGTGATAAAACGGACA-AG
78104413 AATATTT
1 AATATTT
78104420 CAATAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (24 bp):
AATATTTGTGATAAAACGGACAAG
Found at i:78104556 original size:64 final size:64
Alignment explanation
Indices: 78104467--78104600 Score: 214
Period size: 64 Copynumber: 2.1 Consensus size: 64
78104457 ATATTTTATT
* *
78104467 AAATATTTGTATATTAGATGGGACATATTATATTAACAAATAAATTTATCAAAAATCATGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAACAAATAAATTTATCAAAAATCATGATAG
* * * *
78104531 AAATATTTTTATATTAGATGAGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAACAAATAAATTTATCAAAAATCATGATAG
78104595 AAATAT
1 AAATAT
78104601 AGAAATATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGAGACATATTATATCAACAAATAAATTTATCAAAAATCATGATAG
Found at i:78105364 original size:7 final size:7
Alignment explanation
Indices: 78105352--78105381 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
78105342 AAGCAGATTA
78105352 AAAAAGC
1 AAAAAGC
78105359 AAAAAGC
1 AAAAAGC
78105366 AAAAAGC
1 AAAAAGC
78105373 AAAAAGC
1 AAAAAGC
78105380 AA
1 AA
78105382 CTGTTACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.73, C:0.13, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAGC
Found at i:78107968 original size:41 final size:40
Alignment explanation
Indices: 78107925--78108072 Score: 156
Period size: 41 Copynumber: 3.6 Consensus size: 40
78107915 CGTTTTCTTA
*
78107925 AAAAACGCCGCTATTACTCAGTTTTAGTGGCGTTTGGACT
1 AAAAACGCCGCTATTACTCAGTTTTAGAGGCGTTTGGACT
* *
78107965 AAAAACGCCGCTATTTCT-ATGTTTTTAGAGGCGTTTGGACC
1 AAAAACGCCGCTATTACTCA-G-TTTTAGAGGCGTTTGGACT
* * *
78108006 AAAAAGGCCGCTATTACTCAGTTTTTTAGCGGCGTTTTTG-CT
1 AAAAACGCCGCTATTACTCAG--TTTTAGAGGCG-TTTGGACT
** *
78108048 CCAAACGCCACTATTACTCAGTTTT
1 AAAAACGCCGCTATTACTCAGTTTT
78108073 TTAGCGGCGT
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 22 0.24
41 34 0.37
42 30 0.33
43 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (40 bp):
AAAAACGCCGCTATTACTCAGTTTTAGAGGCGTTTGGACT
Found at i:78108073 original size:83 final size:82
Alignment explanation
Indices: 78107925--78108084 Score: 191
Period size: 83 Copynumber: 1.9 Consensus size: 82
78107915 CGTTTTCTTA
* * *
78107925 AAAAACGCCGCTATTACTCAGTTTTAGTGGCGTTTGGACTAAAAACGCCGCTATTTCTATG-TTT
1 AAAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGACTAAAAACGCCACTATTACTATGTTTT
78107989 TTAGAGGCGTTTGGACC
66 TTAGAGGCGTTTGGACC
* * **
78108006 AAAAAGGCCGCTATTACTCAGTTTTTTAGCGGCGTTTTTG-CTCCAAACGCCACTATTACTCA-G
1 AAAAACGCCGCTATTACTCAG--TTTTAGCGGCG-TTTGGACTAAAAACGCCACTATTACT-ATG
*
78108069 TTTTTTAGCGGCGTTT
62 TTTTTTAGAGGCGTTT
78108085 TTGTGCAAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
81 20 0.30
83 27 0.41
84 19 0.29
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (82 bp):
AAAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGACTAAAAACGCCACTATTACTATGTTTT
TTAGAGGCGTTTGGACC
Found at i:78108094 original size:41 final size:42
Alignment explanation
Indices: 78108016--78108097 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
78108006 AAAAAGGCCG
78108016 CTATTACTCAGTTTTTTAGCGGCGTTTTTGCTCCAAACGCCA
1 CTATTACTCAGTTTTTTAGCGGCGTTTTTGCTCCAAACGCCA
*
78108058 CTATTACTCAGTTTTTTAGCGGCGTTTTTG-TGCAAACGCC
1 CTATTACTCAGTTTTTTAGCGGCGTTTTTGCTCCAAACGCC
78108098 GCTAATGCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 9 0.23
42 30 0.77
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (42 bp):
CTATTACTCAGTTTTTTAGCGGCGTTTTTGCTCCAAACGCCA
Found at i:78114901 original size:64 final size:64
Alignment explanation
Indices: 78114698--78114969 Score: 305
Period size: 64 Copynumber: 4.2 Consensus size: 64
78114688 CATAATTTTG
* * * *
78114698 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGAGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
* * * * * *
78114761 GCTCTCTTGTTTACATGGTGTACTTCATCTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTGTAC-ACA--TAGTACCACCCATGCGACCTAGCTACATTTATCTCG
78114826 TA
63 TA
* * * * *
78114828 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGATACATATATCCCATA
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
* *
78114892 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT--T--TATCTC
78114957 GTA
62 GTA
78114960 GCTCTCTTGT
1 GCTCTCTTGT
78114970 ACACATGATG
Statistics
Matches: 174, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
63 20 0.11
64 83 0.48
66 22 0.13
67 33 0.19
68 16 0.09
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATTTATCTCGTA
Found at i:78120316 original size:9 final size:9
Alignment explanation
Indices: 78120303--78120388 Score: 81
Period size: 9 Copynumber: 9.6 Consensus size: 9
78120293 GATATGAGAT
78120303 AAAAAAGATC
1 AAAAAA-ATC
78120313 -AAAAAATC
1 AAAAAAATC
78120321 AAAAAAATC
1 AAAAAAATC
*
78120330 AAAAAAATAA
1 AAAAAAAT-C
78120340 AAAAAAATC
1 AAAAAAATC
*
78120349 AAAAAAATT
1 AAAAAAATC
*
78120358 TAAAAAAT-
1 AAAAAAATC
78120366 AATAAAAAT-
1 AA-AAAAATC
78120375 AATAAAAAT-
1 AA-AAAAATC
78120384 AAAAA
1 AAAAA
78120389 TAAAGAAAGA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
8 7 0.10
9 53 0.78
10 8 0.12
ACGTcount: A:0.79, C:0.05, G:0.01, T:0.15
Consensus pattern (9 bp):
AAAAAAATC
Found at i:78120344 original size:28 final size:29
Alignment explanation
Indices: 78120313--78120382 Score: 99
Period size: 28 Copynumber: 2.4 Consensus size: 29
78120303 AAAAAAGATC
78120313 AAAAAATCAAAAAAATCAAAAAAATAA-A
1 AAAAAATCAAAAAAATCAAAAAAATAATA
**
78120341 AAAAAATCAAAAAAATTTAAAAAATAATA
1 AAAAAATCAAAAAAATCAAAAAAATAATA
78120370 AAAATAAT-AAAAA
1 AAAA-AATCAAAAA
78120383 TAAAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 25 0.66
29 10 0.26
30 3 0.08
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (29 bp):
AAAAAATCAAAAAAATCAAAAAAATAATA
Found at i:78121837 original size:135 final size:134
Alignment explanation
Indices: 78121590--78121978 Score: 500
Period size: 135 Copynumber: 2.9 Consensus size: 134
78121580 AAGACAAGTT
*
78121590 CCTGAGATAGCAGTGGAGCAGATCAAAGACGGCGAATCTTATCTT-TCCGAGGTAGCA-AGGGAG
1 CCTGAGATAGCAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCT-CGAGGTAGCAGA-GGAG
* *
78121653 CAGATTTAAGCCACTAGCCTTATCTT-CTTAGGGTAGCAAGGGAGCAGGCTGAATATT-CACATT
64 CAGATTTAAGCCACTAGCCTTATCTTCCTGA-GGTAGCAAGGGAGCAGGCTGAAGATTGCACA--
**
78121716 TCTTGTCTC
126 TCTCATCTC
* * ** *
78121725 TCTGAGATAGCAGTGGAACAGATCAAAGACAATGAATCTTATCTTCTCGAGGTAACAGAGGAGCA
1 CCTGAGATAGCAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCTCGAGGTAGCAGAGGAGCA
* * * *
78121790 GATTTAAGCCACTAGGCTTATCTTCCTGAGGTAGCAAGGGAGAAGGCTGAAGATTGTAGATCTCA
66 GATTTAAGCCACTAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGCACATCTCA
78121855 TCTC
131 TCTC
* * * * * *
78121859 CCTGAGATAGTAGTGTAGCAGATCAAAGA-TGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCA
1 CCTGAGATAGCAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCTCGAGGTAGCAGAGGAGCA
* *
78121923 AATTTAAGCCACTAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTG
66 GATTTAAGCCACTAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTG
78121979 TAGTCTTATC
Statistics
Matches: 221, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
133 80 0.36
134 32 0.14
135 102 0.46
136 7 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (134 bp):
CCTGAGATAGCAGTGGAGCAGATCAAAGACAGCGAATCTTATCTTCTCGAGGTAGCAGAGGAGCA
GATTTAAGCCACTAGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGCACATCTCA
TCTC
Found at i:78121987 original size:44 final size:44
Alignment explanation
Indices: 78121806--78122203 Score: 225
Period size: 44 Copynumber: 9.0 Consensus size: 44
78121796 AGCCACTAGG
* *
78121806 CTTATCTTCCTGAGGTAGCAAGGGAGAAGGCTGAAGATTGTAGAT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* * * * * * * *
78121851 CTCATCTCCCTGAGATAG-TAGTGTAGCAGA-TCAAAGA-TGCGAAT
1 CTTATCTTCCTGAGGTAGCAAG-GGAGCAGACT-GAAGATTG-TAGT
* * * * * * **** *
78121895 CTTATCTTCCCGAGGTAGTAGGGGAGCAAATTTAAGCCACTAGC
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* *
78121939 CTTATCTTCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* * *
78121983 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTATAGAT
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG-T
* * * * * * *
78122028 TTTGTC-TCCTCGAGATAGC-AGTGGGGCAGA-TCGAAGATGGAAAAT
1 CTTATCTTCCT-GAGGTAGCAAG-GGAGCAGACT-GAAGATTG-TAGT
* * * ** **** *
78122073 CTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGC
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* * *
78122117 CTTATC-TCTCTGAGGTAGGAAGGGAACAGGCTGAAGATTGTAGT
1 CTTATCTTC-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
* *
78122161 CTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGACTGTAG
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAG
78122204 ATTTTTTCTC
Statistics
Matches: 251, Mismatches: 86, Indels: 33
0.68 0.23 0.09
Matches are distributed among these distances:
43 2 0.01
44 170 0.68
45 73 0.29
46 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGT
Found at i:78122000 original size:177 final size:176
Alignment explanation
Indices: 78121806--78122367 Score: 640
Period size: 177 Copynumber: 3.2 Consensus size: 176
78121796 AGCCACTAGG
* * * *
78121806 CTTATCTTCCTGAGGTAGCAAGGGAGAAGGCTGAAGATTGTAGATCTCATCTCCCTGAGATAGTA
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTATCTCCCTGAGATAGTA
* *
78121871 GTGTAGCAGATCAAAGATGCGAATCTTATCTTCCCGAGGTAGTAGGGGAGCAAATTTAAGCCACT
66 GTG-AGCAGATCAAAGATGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTAAGCCACT
*
78121936 AGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGT
130 AGCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGT
* * * * *
78121983 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGATTATAGATTTTGTCT-CCTCGAGATAGC
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTATCTCCCT-GAGATAGT
* * *
78122047 AGTGGGGCAGATCGAAGATG-GAAAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCC
65 AGT-GAGCAGATCAAAGATGCG--AATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTAAGCC
* *
78122111 ACTAGCCTTATC-TCTCTGAGGTAGGAAGGGAACAGGCTGAAGATTGTAGT
127 ACTAGCCTTATCTTC-CTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGT
* * *
78122161 CTTATCTTCCTAAGGTAGCAAGGGAGCAGACTGAAGACTGTAGATTTTTTCTCCCTGAGCATCAG
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTATCTCCCTGAG-AT-AG
* * * * *
78122226 T-G-GAGCAAATCGAATACA-GCGAATCTTATC-TCCTTGAGGTAGCAAGGGAGCAGATTCAAGC
64 TAGTGAGCAGATC-AA-AGATGCGAATCTTATCTTCC-CGAGGTAGCAGGGGAGCAGATTTAAGC
* * * *
78122287 CACTAGCCTTATATCCCTGA-GTAACGATA-GGAGCAGTCTGAAGATTGTAGAT
126 CACTAGCCTTATCTTCCTGAGGTAGC-A-AGGGAGCAGGCTGAAGATTGTAG-T
* * *
78122339 CTTATCTCCCTGA-GCAGCAATGGAGCAGA
1 CTTATCTTCCTGAGGTAGCAAGGGAGCAGA
78122368 TCGAAGACGA
Statistics
Matches: 327, Mismatches: 42, Indels: 32
0.82 0.10 0.08
Matches are distributed among these distances:
176 10 0.03
177 158 0.48
178 148 0.45
179 9 0.03
180 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (176 bp):
CTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATTTTATCTCCCTGAGATAGTA
GTGAGCAGATCAAAGATGCGAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTAAGCCACTA
GCCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGT
Found at i:78122322 original size:133 final size:129
Alignment explanation
Indices: 78122183--78122520 Score: 380
Period size: 133 Copynumber: 2.6 Consensus size: 129
78122173 AGGTAGCAAG
* * * *
78122183 GGAGCAGACTGAAGACTGTAGATTTTTTCTCCCTGAGCATCAGTGGAGCAAATCGAATACAGCGA
1 GGAGCAGACTGAAGATTGTAGATTTTTTCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACAGCGA
*
78122248 ATCTTATC-TCCTTGAGGTAGCAAGGGAGCAGATTCAAGCCACTAGCCTTATATCCCTGAGTAAC
66 ATCTTATCTTCC-TGAGGTAGCAAGGGAGC--ATT-AAGCCACTAGCCTTATATCCCTGAGCAAC
78122312 -GAT
127 AG-T
* * * *
78122315 AGGAGCAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAGCAATGGAGCAGATCGAAGAC-GAC
1 -GGAGCAGACTGAAGATTGTAGATTTTTTCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACAG-C
* * * * *
78122379 GAATCCTATCTTCCTGAGGTAGCAATGGAGCATTAAGCCACTAGCCTTGTCTCCCTGAGCAGCAG
64 GAATCTTATCTTCCTGAGGTAGCAAGGGAGCATTAAGCCACTAGCCTTATATCCCTGAGCAACAG
78122444 T
129 T
* * * * * * *
78122445 GGAGTATACTAAAGATTATAGATCTTATT-TCCCTGAGCAGCAGTGGAGCAGATCAAAGATAGCG
1 GGAGCAGACTGAAGATTGTAGAT-TTTTTCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACAGCG
78122509 AATCTTAT-TTCC
65 AATCTTATCTTCC
78122521 CTGAAGTTAC
Statistics
Matches: 174, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
128 4 0.02
129 55 0.32
130 29 0.17
131 4 0.02
132 1 0.01
133 78 0.45
134 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (129 bp):
GGAGCAGACTGAAGATTGTAGATTTTTTCTCCCTGAGCAGCAGTGGAGCAGATCGAAGACAGCGA
ATCTTATCTTCCTGAGGTAGCAAGGGAGCATTAAGCCACTAGCCTTATATCCCTGAGCAACAGT
Found at i:78122364 original size:44 final size:44
Alignment explanation
Indices: 78122316--78122495 Score: 115
Period size: 44 Copynumber: 4.2 Consensus size: 44
78122306 AGTAACGATA
78122316 GGAGCAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAGCAAT
1 GGAGCAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAGCAAT
* * * *
78122360 GGAGCAGATC-GAAGA-CG-ACGAATCCTATCTTCCTGAGGTAGCAAT
1 GGAGCAG-TCTGAAGATTGTA-G-ATCTTATCTCCCTGA-GCAGCAAT
**** * * *
78122405 GGAGCA-T-T-AAGCCACTAG-CCTTGTCTCCCTGAGCAGCAGT
1 GGAGCAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAGCAAT
* * * * *
78122445 GGAGTA-TACTAAAGATTATAGATCTTATTTCCCTGAGCAGCAGT
1 GGAGCAGT-CTGAAGATTGTAGATCTTATCTCCCTGAGCAGCAAT
78122489 GGAGCAG
1 GGAGCAG
78122496 ATCAAAGATA
Statistics
Matches: 102, Mismatches: 22, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
40 12 0.12
41 10 0.10
42 5 0.05
43 10 0.10
44 50 0.49
45 15 0.15
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (44 bp):
GGAGCAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAGCAAT
Found at i:78122503 original size:44 final size:44
Alignment explanation
Indices: 78122430--78122524 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
78122420 TAGCCTTGTC
* * *
78122430 TCCCTGAGCAGCAGTGGAGTATACTAAAGATTATAG-ATCTTATT
1 TCCCTGAGCAGCAGTGGAGCAGACTAAAGA-TAGAGAATCTTATT
*
78122474 TCCCTGAGCAGCAGTGGAGCAGA-TCAAAGATAGCGAATCTTATT
1 TCCCTGAGCAGCAGTGGAGCAGACT-AAAGATAGAGAATCTTATT
78122518 TCCCTGA
1 TCCCTGA
78122525 AGTTACAGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 4 0.09
44 41 0.91
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
TCCCTGAGCAGCAGTGGAGCAGACTAAAGATAGAGAATCTTATT
Found at i:78122655 original size:45 final size:44
Alignment explanation
Indices: 78122598--78122894 Score: 187
Period size: 45 Copynumber: 6.6 Consensus size: 44
78122588 AGCAAAAATA
*
78122598 AGCAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGAT
1 AGCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAT
* * * * *
78122643 AGCAGATCTTATCTTCTTGAAGTCGCAGTGGAGGAGA-TCGAA-ACC
1 AGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-GAAGA-T
* * * * * *
78122688 A-CAATCCTTCTCTCTCTAAAGTTGCAGTAGAGCAAGAC-GAAAAT
1 AGCAAT-CTTATCTCCCTGAAGTTGCAGTGGAG-TAGACTGAAGAT
** *
78122732 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGGCTGAAGAT
1 -AGCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAT
**
78122778 AATAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TCGAA-AT
1 AGCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-GAAGAT
* * * * * *
78122822 CA-TAATCCTTCTCTCTCTAAAGTTGCAGTAGAGTAGGA-TGAAAAT
1 -AGCAAT-CTTATCTCCCTGAAGTTGCAGTGGAGTA-GACTGAAGAT
*
78122867 ACGCAAGTCTTATCTCCTTGAAGTTGCA
1 A-GCAA-TCTTATCTCCCTGAAGTTGCA
78122895 AACTGAAGAT
Statistics
Matches: 195, Mismatches: 37, Indels: 39
0.72 0.14 0.14
Matches are distributed among these distances:
43 4 0.02
44 59 0.30
45 80 0.41
46 50 0.26
47 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGCAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGAT
Found at i:78122763 original size:135 final size:135
Alignment explanation
Indices: 78122592--78122894 Score: 453
Period size: 135 Copynumber: 2.2 Consensus size: 135
78122582 TGGTAGAGCA
* * *
78122592 AAAATAAGCAAGTCTTATCTCCCTGAAGTTACAGTGGAGTAGACTGAAGATAGCAGATCTTATCT
1 AAAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAGATCTTATCT
* *
78122657 TCTTGAAGTCGCAGTGGAGGAGATCGAAACCACAATCCTTCTCTCTCTAAAGTTGCAGTAGAGCA
66 CCCTGAAGTCGCAGTGGAGGAGATCGAAACCACAATCCTTCTCTCTCTAAAGTTGCAGTAGAGCA
78122722 AGACG
131 AGACG
* * *
78122727 AAAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGGCTGAAGATAATAGATCTTATCT
1 AAAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAGATCTTATCT
* * * * *
78122792 CCCTGAAGTTGCAGTGGAGTAGATCGAAATCATAATCCTTCTCTCTCTAAAGTTGCAGTAGAGTA
66 CCCTGAAGTCGCAGTGGAGGAGATCGAAACCACAATCCTTCTCTCTCTAAAGTTGCAGTAGAGCA
* *
78122857 GGATG
131 AGACG
* *
78122862 AAAATACGCAAGTCTTATCTCCTTGAAGTTGCA
1 AAAATAAGCAAGTCTTATCTCCCTGAAGTTGCA
78122895 AACTGAAGAT
Statistics
Matches: 151, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
135 151 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (135 bp):
AAAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAGATCTTATCT
CCCTGAAGTCGCAGTGGAGGAGATCGAAACCACAATCCTTCTCTCTCTAAAGTTGCAGTAGAGCA
AGACG
Found at i:78132899 original size:76 final size:70
Alignment explanation
Indices: 78132768--78132915 Score: 233
Period size: 76 Copynumber: 2.0 Consensus size: 70
78132758 ATTTGAAAAA
78132768 TACTTTAAAAAAATGAAAAATACTTCATAGAAAAAATATGGTTAAAAAGTTTTCACATTAAAAGG
1 TACTTTAAAAAAATGAAAAATACTTCATAGAAAAAATATGGTTAAAAAGTTTTCACATTAAAAGG
78132833 CAATT
66 CAATT
*
78132838 TACTTTAAAACAATGAAAAATACTTCATATTTGAAGAAAAAATATGGTTAAAAAGTTTTCACATT
1 TACTTTAAAAAAATGAAAAATACTTC--A--T--AGAAAAAATATGGTTAAAAAGTTTTCACATT
78132903 AAAAGGCAATT
60 AAAAGGCAATT
78132914 TA
1 TA
78132916 ATTGGAGTGA
Statistics
Matches: 71, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
70 25 0.35
72 1 0.01
74 1 0.01
76 44 0.62
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (70 bp):
TACTTTAAAAAAATGAAAAATACTTCATAGAAAAAATATGGTTAAAAAGTTTTCACATTAAAAGG
CAATT
Found at i:78138003 original size:39 final size:39
Alignment explanation
Indices: 78137949--78138027 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
78137939 TGGATTCAGG
78137949 TTAGAAGTATCACATTTCATACTCATTCACTAGTAAAAC
1 TTAGAAGTATCACATTTCATACTCATTCACTAGTAAAAC
78137988 TTAGAAGTATCACATTTCATACTCATTCACTAGTAAAAC
1 TTAGAAGTATCACATTTCATACTCATTCACTAGTAAAAC
78138027 T
1 T
78138028 ATCTCAGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (39 bp):
TTAGAAGTATCACATTTCATACTCATTCACTAGTAAAAC
Found at i:78142186 original size:85 final size:85
Alignment explanation
Indices: 78142043--78142212 Score: 304
Period size: 85 Copynumber: 2.0 Consensus size: 85
78142033 GATAACAAAG
78142043 TAAGCTATAAAGCTTAGTAAGTTCGTATGAAATAAACTCAATGTATTCACATAAATATAATTCAA
1 TAAGCTATAAAGCTTAGTAAGTTCGTATGAAATAAACTCAATGTATTCACATAAATATAATTCAA
*
78142108 TAATTTCAATACGTCAATAT
66 TAATTTCAATACATCAATAT
* *
78142128 TAAGCTATAAAGCTTAGTAAGTTCGTTTGAAATAAACTCAATGTATTCACATAAATATAATTTAA
1 TAAGCTATAAAGCTTAGTAAGTTCGTATGAAATAAACTCAATGTATTCACATAAATATAATTCAA
*
78142193 TAATTTCAATATATCAATAT
66 TAATTTCAATACATCAATAT
78142213 GTACTTTCCT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.36
Consensus pattern (85 bp):
TAAGCTATAAAGCTTAGTAAGTTCGTATGAAATAAACTCAATGTATTCACATAAATATAATTCAA
TAATTTCAATACATCAATAT
Found at i:78142579 original size:21 final size:21
Alignment explanation
Indices: 78142553--78142602 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
78142543 ATAACTTGCA
**
78142553 CCCGAAGTGCCAATATCATGG
1 CCCGAAGCACCAATATCATGG
78142574 CCCGAAGCACCAATATCATGG
1 CCCGAAGCACCAATATCATGG
78142595 CCCGAAGC
1 CCCGAAGC
78142603 CAACACAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.34, G:0.22, T:0.14
Consensus pattern (21 bp):
CCCGAAGCACCAATATCATGG
Found at i:78143646 original size:69 final size:68
Alignment explanation
Indices: 78143573--78143798 Score: 229
Period size: 69 Copynumber: 3.3 Consensus size: 68
78143563 CAAAGCTATC
* * *
78143573 AGCTATTACATTAAGGCTCATAGGTGAAGAGTTGCAGCCTCAAACATAGTTAGTAAAAGCAAAGC
1 AGCTATCACATTAAGGCTCA-AGGTGAAGAGTCGCAGCCTCAAACATAGTTAGCAAAAGCAAAGC
78143638 TCCT
65 TCCT
* * * * * * *
78143642 AGCTAGCACATGAAGGCTCACAGGTGAAAAGTCGCAGCCTCCAACACAGTTAGCGAAAGGAAAGC
1 AGCTATCACATTAAGGCTCA-AGGTGAAGAGTCGCAGCCTCAAACATAGTTAGCAAAAGCAAAGC
78143707 TCCT
65 TCCT
* * * * * * *
78143711 AACTGTGACATTAAGGCTTTCAA-GTGAAGAGTCGCAGCCTCTAACATAGTTAACAAGACCAAAG
1 AGCTATCACATTAAGGC--TCAAGGTGAAGAGTCGCAGCCTCAAACATAGTTAGCAAAAGCAAAG
*
78143775 CTCCC
64 CTCCT
* *
78143780 AGCTGTCACACTAAGGCTC
1 AGCTATCACATTAAGGCTC
78143799 GTAGATTCAG
Statistics
Matches: 127, Mismatches: 28, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
67 2 0.02
69 121 0.95
70 1 0.01
71 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (68 bp):
AGCTATCACATTAAGGCTCAAGGTGAAGAGTCGCAGCCTCAAACATAGTTAGCAAAAGCAAAGCT
CCT
Found at i:78148817 original size:18 final size:19
Alignment explanation
Indices: 78148794--78148835 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
78148784 TTTTTATTGC
78148794 ATTTTATTTTTGTTTT-TA
1 ATTTTATTTTTGTTTTCTA
78148812 ATTTTATTTTTGTTTTCTA
1 ATTTTATTTTTGTTTTCTA
78148831 ATTTT
1 ATTTT
78148836 TCTTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (19 bp):
ATTTTATTTTTGTTTTCTA
Found at i:78154483 original size:6 final size:6
Alignment explanation
Indices: 78154467--78154516 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
78154457 AGTCTATTTG
* *
78154467 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
78154514 TTT
1 TTT
78154517 CTTAGACTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:78158271 original size:40 final size:40
Alignment explanation
Indices: 78158216--78158338 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
78158206 CGCTCGGGCA
78158216 AAAAACGCCGCTAAAGGTCAAGCATTAGCGGCGCTTTTAT-
1 AAAAACGCCGCTAAAGGTCAAGCATTAGCGGCGCTTTT-TG
78158256 AAAAACGCCGCTAAAGGTCAAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTAAAGGTCAAGCATTAGCGGCGCTTTTTG
* ** *
78158296 GAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTTG
1 AAAAACGCCGCTAAAGGTCAAGCATTAGCGGCGCTTTTTG
78158335 AAAA
1 AAAA
78158339 GCGACGCAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
39 24 0.31
40 53 0.69
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGGTCAAGCATTAGCGGCGCTTTTTG
Found at i:78158429 original size:41 final size:41
Alignment explanation
Indices: 78158384--78158463 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
78158374 TTTGGGTTTT
*
78158384 GGGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
78158425 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
78158464 CCGTTTTTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.16, C:0.24, G:0.34, T:0.26
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:78158913 original size:14 final size:15
Alignment explanation
Indices: 78158886--78158914 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78158876 AATGTTTATA
78158886 GATTATGAGATTAGG
1 GATTATGAGATTAGG
78158901 GATTATG-GATTAGG
1 GATTATGAGATTAGG
78158915 AATTCTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (15 bp):
GATTATGAGATTAGG
Found at i:78159081 original size:74 final size:75
Alignment explanation
Indices: 78158998--78159139 Score: 207
Period size: 74 Copynumber: 1.9 Consensus size: 75
78158988 TTCAGTGTCA
* *
78158998 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTCTAA-TT-TATATTGAATAAGGTGTAGGGG
1 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGT-TTCTAATTTATATATTAAATAAGATGTAGGGG
78159061 TTAGGGATTTG
65 TTAGGGATTTG
* * * *
78159072 GGTTAGGGTTTAGGGTTTAGTTTCATTAGTGTTTTTAATTTATATATTAAATAAGATTTAGGGGT
1 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTCTAATTTATATATTAAATAAGATGTAGGGGT
78159137 TAG
66 TAG
78159140 TAGTTATGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
73 5 0.08
74 32 0.53
75 23 0.38
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (75 bp):
GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTTTCTAATTTATATATTAAATAAGATGTAGGGGT
TAGGGATTTG
Found at i:78163985 original size:43 final size:43
Alignment explanation
Indices: 78163924--78164014 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
78163914 CTTTGAGTTC
* * *
78163924 ATTA-CAAGATTTCTTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTCTTTGATTAAGAAAATGCATTATATATTTT
*
78163966 ATTACCAAGATTTAC-TTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTT-CTTTGATTAAGAAAATGCATTATATATTTT
78164009 ATTACC
1 ATTACC
78164015 TTGCATATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.09
43 38 0.88
44 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTCTTTGATTAAGAAAATGCATTATATATTTT
Found at i:78164357 original size:43 final size:43
Alignment explanation
Indices: 78164287--78164471 Score: 246
Period size: 43 Copynumber: 4.3 Consensus size: 43
78164277 AAGATATATT
* ** *
78164287 TTTAACGGCGTTTGTGTAAAAAGCGCCGCTAAAGGT-CTATTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
* *
78164329 TATAGCGGCGTTTGTGGGAAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTCCTAGTC
* * *
78164373 TTTCGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTCCTAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
* * *
78164416 TTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
78164459 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
78164472 ATTTATAAAA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 14 0.11
43 90 0.73
44 20 0.16
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
Found at i:78164384 original size:86 final size:86
Alignment explanation
Indices: 78164287--78164493 Score: 272
Period size: 86 Copynumber: 2.4 Consensus size: 86
78164277 AAGATATATT
* * *
78164287 TTTAACGGCGTTTGTGTAAAAAGCGCCGCTAAAGGT-CTATTCTATAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCCTAGTCTATAGCGGCGTTTGTAGG-AAA
*
78164351 AGCGCCGCTAAAGGTCCTGGTC
65 AGCGCCGCTAAAGGTCATGGTC
* ** * * *
78164373 TTTCGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTCCTAGTCTTTAGCGGCGTTTGTAGGAAAA
1 TTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCCTAGTCTATAGCGGCGTTTGTAGGAAAA
78164438 GCGCCGCTAAAGGTCATGGTC
66 GCGCCGCTAAAGGTCATGGTC
* * *
78164459 TTTAGCGGCGTTTATTTATAAAAACGCCGCTAAAG
1 TTTAGCGGCGTTTGTGTA-AAAAGCGCCGCTAAAG
78164494 TTAGCGACGC
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
86 67 0.66
87 34 0.34
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGTAAAAAGCGCCGCTAAAGGTCCTAGTCTATAGCGGCGTTTGTAGGAAAA
GCGCCGCTAAAGGTCATGGTC
Found at i:78168778 original size:18 final size:18
Alignment explanation
Indices: 78168755--78168793 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
78168745 GTGACCTTTA
78168755 TTTTCC-AAATTTTCATGT
1 TTTTCCAAAATTTT-ATGT
78168773 TTTTCCAAAATTTTATGT
1 TTTTCCAAAATTTTATGT
78168791 TTT
1 TTT
78168794 GTTTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTCCAAAATTTTATGT
Found at i:78173004 original size:8 final size:8
Alignment explanation
Indices: 78172991--78173026 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
78172981 AATCATGATT
*
78172991 AAAATTCG
1 AAAATTTG
*
78172999 AAAATTTA
1 AAAATTTG
78173007 AAAATTTG
1 AAAATTTG
78173015 AAAATTTG
1 AAAATTTG
78173023 AAAA
1 AAAA
78173027 GAATAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (8 bp):
AAAATTTG
Found at i:78180341 original size:34 final size:35
Alignment explanation
Indices: 78180301--78180373 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
78180291 TTTTTAAGGT
78180301 TTTAAAGGTTAGGATT-TTGCTAAAATAATTTA-GG
1 TTTAAAGGTTAGG-TTATTGCTAAAATAATTTAGGG
* *
78180335 TTTAAAGTTTAGGTTATTGTTAAAATAATTTAGGG
1 TTTAAAGGTTAGGTTATTGCTAAAATAATTTAGGG
78180370 TTTA
1 TTTA
78180374 GGGTTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 2 0.06
34 27 0.77
35 6 0.17
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.45
Consensus pattern (35 bp):
TTTAAAGGTTAGGTTATTGCTAAAATAATTTAGGG
Found at i:78180488 original size:34 final size:34
Alignment explanation
Indices: 78180416--78180517 Score: 118
Period size: 34 Copynumber: 3.0 Consensus size: 34
78180406 TTTAGTGTTA
* * **
78180416 TTTTATAA-AAATTAATTAAATTAGGGTTTATGAT
1 TTTTA-AATAAATTAAATAAATTAGGGTTTAAGGG
*
78180450 TTTTAAATAAATTAAGTAAATTAGGGTTTAAGGG
1 TTTTAAATAAATTAAATAAATTAGGGTTTAAGGG
* *
78180484 TTTTAAATAAATAAAATAAATTAGGGATT-AGGG
1 TTTTAAATAAATTAAATAAATTAGGGTTTAAGGG
78180517 T
1 T
78180518 CTAGGGTCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
33 7 0.12
34 53 0.88
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (34 bp):
TTTTAAATAAATTAAATAAATTAGGGTTTAAGGG
Found at i:78180873 original size:127 final size:126
Alignment explanation
Indices: 78180599--78180975 Score: 531
Period size: 127 Copynumber: 3.0 Consensus size: 126
78180589 TTTACCCCGC
* * *
78180599 AAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTATCAAAAATGCTTCAAGCAGGATGCACA
1 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA-A
* * * *
78180664 -GTCAACAAAATTACTGAAAGAAAGCTCCCACGTGGATGCTCTTTTTTCTACAGTAGTTCTTGA
65 TGTCAACAAAATTTCT-AAAAAAAGCTCCCACGTGGACGCTC-TTTTTCTACAGTAGTTCCTGA
* * * * *
78180727 AAAAATAATTTTGAGAAGACATTTCTGAACAAATAATGCCAGAAACGCTTCAAGCAGGACGCAAT
1 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAAT
* *
78180792 ATCAACAAAATTTCTAAAAAAAGCTCCCACGTGGGCGCTCTTTTTCTACAGTAGTTCCTGAA
66 GTCAACAAAATTTCTAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTG-A
* **
78180854 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAATATGCAAT
1 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAAT
* * *
78180919 GTCAGCAAAATTTCTGAAAAAAGCTCCCACGTGGACTCTCTTTTTCTACAGTAGTTC
66 GTCAACAAAATTTCTAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
78180976 ATGTTTGGCC
Statistics
Matches: 220, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
126 19 0.09
127 133 0.60
128 68 0.31
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (126 bp):
AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAAT
GTCAACAAAATTTCTAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGA
Found at i:78183775 original size:289 final size:289
Alignment explanation
Indices: 78183252--78183836 Score: 753
Period size: 289 Copynumber: 2.0 Consensus size: 289
78183242 CACAAGTATA
* * * *
78183252 TGAC-GACGGCCTATGATATGGTCATATGACCATAAACCTAGCTGAAAGCATAATTTCTGTTCTA
1 TGACAGACGGCCTACGATATGGTCATATGACCACAAACCTAGCTGAAAGCATAAATTCTGTTATA
* * * * * *
78183316 AAAGGAATACGTCATTTGTCGACAACCTCAGTTGTATGAGAGACATATTTTTGTTTGGCTATACT
66 AAAGGAACACGTCATTTGCCGACAACCTCAGTTGTACGAGAAACATATTTTCGTTTGGCTACACT
*** * * * * *
78183381 ATTTCCAATGTGAGTAGCAAGTCGTAAAGGCTAAATGCAAGGAGGTCATGTATGGTTCCAGAAGG
131 ATTTCCAAAACGAGCAGCAAGTCGTAAAGGCCAAATACAAGGAAGTCATGTATAGTTCCAGAAGG
* *
78183446 TATGGCAAGAAATTAACAAGGCGAAGGTGCGGGCCAACACCATGCACACAGTGTGTCACGACCAC
196 TATGGCAAGAAATTAACAAGGCGAAAGCGCGGGCCAACACCATGCACACAGTGTGTCACGACCAC
*
78183511 GACAA-CATATGGTTTTGTGTGATAGAGTT
261 GACAAGC-TATGGTTTTGTGTGACAGAGTT
* *
78183540 TGACAGACGGCCTACGATATGGTCATATGACCACAAGCCTGGCTGAAAGCATAAATTCTGTTATA
1 TGACAGACGGCCTACGATATGGTCATATGACCACAAACCTAGCTGAAAGCATAAATTCTGTTATA
* * ** * *
78183605 AAAGGAACGCGTCATTTGCCGATAACCTTGGTTGTGCGAGAAATATATTTTCGTTTGG-TGACAC
66 AAAGGAACACGTCATTTGCCGACAACCTCAGTTGTACGAGAAACATATTTTCGTTTGGCT-ACAC
** * * * **
78183669 TATTTCCAAAACGAGCAGTGAGTTGTAAAGGCCAAATACAGGGAAGTCATTTATAGTTCTGGAAG
130 TATTTCCAAAACGAGCAGCAAGTCGTAAAGGCCAAATACAAGGAAGTCATGTATAGTTCCAGAAG
* * * * * *
78183734 GTATTGTAAGAAATTAATAAGGCGAAAGCGCGGGCCAACACCATGCACATAGTGTGTCACGATCG
195 GTATGGCAAGAAATTAACAAGGCGAAAGCGCGGGCCAACACCATGCACACAGTGTGTCACGACCA
78183799 CGACAAGCTATGGTTTTGTGTGACAGAGTT
260 CGACAAGCTATGGTTTTGTGTGACAGAGTT
78183829 TGACAGAC
1 TGACAGAC
78183837 CGAACTAATA
Statistics
Matches: 252, Mismatches: 42, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
288 5 0.02
289 246 0.98
290 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (289 bp):
TGACAGACGGCCTACGATATGGTCATATGACCACAAACCTAGCTGAAAGCATAAATTCTGTTATA
AAAGGAACACGTCATTTGCCGACAACCTCAGTTGTACGAGAAACATATTTTCGTTTGGCTACACT
ATTTCCAAAACGAGCAGCAAGTCGTAAAGGCCAAATACAAGGAAGTCATGTATAGTTCCAGAAGG
TATGGCAAGAAATTAACAAGGCGAAAGCGCGGGCCAACACCATGCACACAGTGTGTCACGACCAC
GACAAGCTATGGTTTTGTGTGACAGAGTT
Found at i:78184553 original size:21 final size:21
Alignment explanation
Indices: 78184510--78184555 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
78184500 CCGATGGGGT
*
78184510 TTGTGGTTGCTCCGGTGGAGG
1 TTGTGGTTGCTCCAGTGGAGG
* *
78184531 TTGTGGTTGCTCCAGTTGTGG
1 TTGTGGTTGCTCCAGTGGAGG
78184552 TTGT
1 TTGT
78184556 TAGGAGGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.13, G:0.41, T:0.41
Consensus pattern (21 bp):
TTGTGGTTGCTCCAGTGGAGG
Found at i:78184640 original size:24 final size:24
Alignment explanation
Indices: 78184596--78184641 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
78184586 GAATGTGGAG
* *
78184596 GTGTTTGCATCACCTACGGCGAAT
1 GTGTTTGAATCACCTAAGGCGAAT
78184620 GTGTTTGAATC-CCATAAGGCGA
1 GTGTTTGAATCACC-TAAGGCGA
78184642 TAGGGATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (24 bp):
GTGTTTGAATCACCTAAGGCGAAT
Found at i:78184818 original size:18 final size:18
Alignment explanation
Indices: 78184791--78184828 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
78184781 GGAAAATGAA
* *
78184791 ACATATAAGGGTTAGGAT
1 ACATAGAAGGGCTAGGAT
78184809 ACATAGAAGGGCTAGGAT
1 ACATAGAAGGGCTAGGAT
78184827 AC
1 AC
78184829 GCACCTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (18 bp):
ACATAGAAGGGCTAGGAT
Found at i:78185440 original size:21 final size:22
Alignment explanation
Indices: 78185416--78185458 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
78185406 TTATACACAT
*
78185416 AATACTAAATATTAAAT-ACTA
1 AATACTAAATATGAAATGACTA
78185437 AATACTAAATATGAAATGACTA
1 AATACTAAATATGAAATGACTA
78185459 TTTTATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (22 bp):
AATACTAAATATGAAATGACTA
Found at i:78185453 original size:7 final size:7
Alignment explanation
Indices: 78185416--78185447 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
78185406 TTATACACAT
78185416 AATACTA
1 AATACTA
*
78185423 AATATTA
1 AATACTA
78185430 AATACTA
1 AATACTA
78185437 AATACTA
1 AATACTA
78185444 AATA
1 AATA
78185448 TGAAATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:78186632 original size:21 final size:21
Alignment explanation
Indices: 78186599--78186648 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
78186589 TAAAGAAAGC
* *
78186599 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAGATTTAAGGAGAAA
* *
78186620 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAGATTTAAGGAGAAA
*
78186641 TTTTAGAG
1 TTTGAGAG
78186649 TTTTTTGCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (21 bp):
TTTGAGAGATTTAAGGAGAAA
Found at i:78188165 original size:4 final size:4
Alignment explanation
Indices: 78188156--78188180 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
78188146 TCTTTTTAGT
78188156 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
78188181 GTTAATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:78193961 original size:40 final size:40
Alignment explanation
Indices: 78193908--78194018 Score: 150
Period size: 40 Copynumber: 2.8 Consensus size: 40
78193898 TTTATGTTTC
*
78193908 TCGAGCATCAGTGGCGCTTTTTGAAAAACGCAGCTATAGA
1 TCGAGCATTAGTGGCGCTTTTTGAAAAACGCAGCTATAGA
* * * *
78193948 TCGAGCATTAGTGGCGCTTTTTAAAAAACACCGCTATAGG
1 TCGAGCATTAGTGGCGCTTTTTGAAAAACGCAGCTATAGA
* * *
78193988 TCGACCATTAGCGGCGCTATTTGAAAAACGC
1 TCGAGCATTAGTGGCGCTTTTTGAAAAACGC
78194019 CACAAAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (40 bp):
TCGAGCATTAGTGGCGCTTTTTGAAAAACGCAGCTATAGA
Found at i:78194175 original size:21 final size:21
Alignment explanation
Indices: 78194151--78194237 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
78194141 ATTAATTTAA
*
78194151 TTTATGGGTTATGGTTTAGGG
1 TTTATGGTTTATGGTTTAGGG
**
78194172 TTTATGGTTTAAAGTTTAGGG
1 TTTATGGTTTATGGTTTAGGG
*
78194193 CTTA-GAGTTTATGGTTT-GGG
1 TTTATG-GTTTATGGTTTAGGG
*
78194213 ATTTATGGTTTA-GGATTTGGGG
1 -TTTATGGTTTATGG-TTTAGGG
78194235 TTT
1 TTT
78194238 GAAGGTTGGG
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
20 6 0.11
21 44 0.81
22 4 0.07
ACGTcount: A:0.17, C:0.01, G:0.33, T:0.48
Consensus pattern (21 bp):
TTTATGGTTTATGGTTTAGGG
Found at i:78194176 original size:14 final size:14
Alignment explanation
Indices: 78194159--78194226 Score: 75
Period size: 14 Copynumber: 4.9 Consensus size: 14
78194149 AATTTATGGG
78194159 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
**
78194173 TTATGGTTTAAAGT
1 TTATGGTTTAGGGT
* * *
78194187 TTAGGGCTTAGAGT
1 TTATGGTTTAGGGT
78194201 TTATGGTTT-GGGAT
1 TTATGGTTTAGGG-T
78194215 TTATGGTTTAGG
1 TTATGGTTTAGG
78194227 ATTTGGGGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
13 2 0.05
14 40 0.91
15 2 0.05
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:78194180 original size:7 final size:7
Alignment explanation
Indices: 78194151--78194224 Score: 53
Period size: 7 Copynumber: 10.6 Consensus size: 7
78194141 ATTAATTTAA
78194151 TTTATGG
1 TTTATGG
*
78194158 GTTATGG
1 TTTATGG
*
78194165 TTTAGGG
1 TTTATGG
78194172 TTTATGG
1 TTTATGG
**
78194179 TTTAAAG
1 TTTATGG
*
78194186 TTTAGGG
1 TTTATGG
*
78194193 CTTA-GAG
1 TTTATG-G
78194200 TTTATGG
1 TTTATGG
*
78194207 TTT-GGG
1 TTTATGG
78194213 ATTTATGG
1 -TTTATGG
78194221 TTTA
1 TTTA
78194225 GGATTTGGGG
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
6 3 0.06
7 45 0.88
8 3 0.06
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:78195354 original size:17 final size:18
Alignment explanation
Indices: 78195332--78195365 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78195322 TATTTATTTT
78195332 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
78195349 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
78195366 TTGAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:78198284 original size:35 final size:34
Alignment explanation
Indices: 78198245--78198310 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
78198235 TAATTGTGTT
*
78198245 ATTAATTTATTAT-TTTAGGTTCTAAATTTAAATTC
1 ATTAATTT-TTATATTTA-GTTCTAAAGTTAAATTC
*
78198280 ATTAATTTTTATATTTAGTTTTAAAGTTAAA
1 ATTAATTTTTATATTTAGTTCTAAAGTTAAA
78198311 ATTTTAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (34 bp):
ATTAATTTTTATATTTAGTTCTAAAGTTAAATTC
Found at i:78198313 original size:35 final size:35
Alignment explanation
Indices: 78198245--78198313 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
78198235 TAATTGTGTT
*
78198245 ATTAATTTATTATTTTAGGTTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAGGTTCTAAATTAAAATTC
*
78198280 ATTAATTT-TTATATTTA-GTTTTAAAGTTAAAATT
1 ATTAATTTATTAT-TTTAGGTTCTAAA-TTAAAATT
78198314 TTAATAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (35 bp):
ATTAATTTATTATTTTAGGTTCTAAATTAAAATTC
Found at i:78198604 original size:43 final size:43
Alignment explanation
Indices: 78198442--78198673 Score: 218
Period size: 43 Copynumber: 5.4 Consensus size: 43
78198432 AATATTTTTT
* * * *
78198442 TAAAGGTCATGTTCTTTAGCGGTGTTTATGGGAAAAGCGCCGC
1 TAAAGGCCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * **
78198485 TAAAGGTCTAT-TT-TATAGTGGCGTTTGTGAAAAAAGCGCCGC
1 TAAAGG-CCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
** * * * *
78198527 TAAAGG-TTTGTTATATAGTGGCGTTTGTGGGAAAAGTGCTGC
1 TAAAGGCCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
78198569 TAAAGGCCATGTTCTTTAGCGGTGTTTGTGGGAAAAGCGCCGC
1 TAAAGGCCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * *
78198612 TAAAGGCCATGTTTTCTAACGGCATTTGTTGTAAAAGCGCCGC
1 TAAAGGCCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
78198655 TAAATGTCATGTTCTATAG
1 TAAAGGCCATGTTCTATAG
78198674 TAGCGTTTTT
Statistics
Matches: 152, Mismatches: 33, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 60 0.39
43 86 0.57
44 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
TAAAGGCCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:78199152 original size:72 final size:73
Alignment explanation
Indices: 78199031--78199180 Score: 196
Period size: 72 Copynumber: 2.1 Consensus size: 73
78199021 GACGCCGTCT
* * * * *
78199031 TATTTCTCTCCCTCCAATTTCCTCTTCTTTCCCGATTTCCTTTTCTTTCTCAGCCATTCTCAGCC
1 TATTTCACTCCCTCCAATTCCCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAACA
78199096 TGTTCCTC
66 TGTTCCTC
* * *
78199104 TATTTCACTCCC-CCGATTCCCTTTTCTTTCCCAATTTCCATTTT-TTTCTCAGCCTTTCTCAAC
1 TATTTCACTCCCTCCAATTCCCTCTTCTTTCCCAATTTCC-TTTTCTTTCTCAGCCATTCTCAAC
*
78199167 ATGTTCTTC
65 ATGTTCCTC
78199176 TATTT
1 TATTT
78199181 TATACCCGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
72 52 0.78
73 15 0.22
ACGTcount: A:0.12, C:0.35, G:0.05, T:0.48
Consensus pattern (73 bp):
TATTTCACTCCCTCCAATTCCCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAACA
TGTTCCTC
Found at i:78199437 original size:61 final size:63
Alignment explanation
Indices: 78199368--78199496 Score: 183
Period size: 63 Copynumber: 2.1 Consensus size: 63
78199358 CTTCCTTTAA
78199368 TTTTCAATCGTCTTA-AAAT-TTTAGA-AATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
1 TTTTCAATCGTCTTAGAAATATTT-GATAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
** ** *
78199429 TTTTCAATCGTCTTAGAAATATTTGATTTTTTTTGTTTGGGTTTTTTATTTCTATTATATTAG
1 TTTTCAATCGTCTTAGAAATATTTGATAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
78199492 TTTTC
1 TTTTC
78199497 TAGTTTCCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
61 15 0.25
62 6 0.10
63 39 0.65
ACGTcount: A:0.23, C:0.08, G:0.11, T:0.58
Consensus pattern (63 bp):
TTTTCAATCGTCTTAGAAATATTTGATAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
Found at i:78202958 original size:23 final size:23
Alignment explanation
Indices: 78202880--78202956 Score: 136
Period size: 23 Copynumber: 3.3 Consensus size: 23
78202870 GTTGCTGGTG
78202880 TTTAAATGCTGTAAATTGAAGTA
1 TTTAAATGCTGTAAATTGAAGTA
78202903 TTTAAATGCTGTAAATTGAAGTA
1 TTTAAATGCTGTAAATTGAAGTA
* *
78202926 TTTAAATGTTGTAAATTGAAGTG
1 TTTAAATGCTGTAAATTGAAGTA
78202949 TTTAAATG
1 TTTAAATG
78202957 TTCTTTGTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.42
Consensus pattern (23 bp):
TTTAAATGCTGTAAATTGAAGTA
Found at i:78203565 original size:42 final size:42
Alignment explanation
Indices: 78203438--78203615 Score: 137
Period size: 43 Copynumber: 4.2 Consensus size: 42
78203428 ATTTGATATG
** * *
78203438 GTCTTTAGTGGCGTTTTTTGGGGAAAGCGTCACTAAAGGTCAT
1 GTCTTTAACGGCG-TTTTTGAGGAAAGCGCCACTAAAGGTCAT
* * ** **
78203481 GTCTTTAAC-G-ATGTTTGAGGAGAAAGCGCCGTTAAAAATCAT
1 GTCTTTAACGGCGTTTTTGA-G-GAAAGCGCCACTAAAGGTCAT
* *
78203523 GTATTTAACGGCGTTTTTGAGGAAAGCACCACTAAAGGTCAT
1 GTCTTTAACGGCGTTTTTGAGGAAAGCGCCACTAAAGGTCAT
* * **
78203565 GTTCTTTAGCGGCTTTTTTTGA-GAAAGCGCCGGTAAAGGTCAT
1 G-TCTTTAACGGC-GTTTTTGAGGAAAGCGCCACTAAAGGTCAT
78203608 GTTCTTTA
1 G-TCTTTA
78203616 GTAACGCCGC
Statistics
Matches: 105, Mismatches: 24, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
40 5 0.05
41 1 0.01
42 42 0.40
43 44 0.42
44 13 0.12
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (42 bp):
GTCTTTAACGGCGTTTTTGAGGAAAGCGCCACTAAAGGTCAT
Found at i:78218509 original size:43 final size:43
Alignment explanation
Indices: 78218337--78218553 Score: 147
Period size: 43 Copynumber: 4.9 Consensus size: 43
78218327 TTTATGTAAA
* * **
78218337 AAACGCCGTTAAAGAATGTGA-CTTTCAATGGCGCTTTCTTG-A-
1 AAACGCCGCTAAAGAACGTGACCTTT-AGCGGCGCTTT-TTGTAC
* *
78218379 AAACGTCGCTAAAAAACGTGACCTTTAGCGGCGCTTTTTTGTACAAGCAC
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGC-TTTTTGT------AC
* * ***
78218429 AAAGCGCCGCTAAAGAACATGGCCTTTAGCAATGCTTTTTGTAC
1 AAA-CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTAC
* * *
78218473 AAACGCTGCTAAAGAACGTGACCTTTAGTGGCGCTTTTAT-CAC
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTT-TGTAC
* * *
78218516 AAATGCCGCTAAAGAATGT-ACTTTTAGCGGCGCTTTTT
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTT
78218554 TTGCAAATAC
Statistics
Matches: 137, Mismatches: 26, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
41 1 0.01
42 42 0.31
43 53 0.39
44 6 0.04
49 1 0.01
50 10 0.07
51 24 0.18
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGTAC
Found at i:78218740 original size:47 final size:47
Alignment explanation
Indices: 78218663--78218756 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
78218653 AATCCTTCCT
*
78218663 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATATTTCAA
1 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
* *
78218710 GCAATATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
78218757 AAATTCAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.21
Consensus pattern (47 bp):
GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
Found at i:78219391 original size:13 final size:14
Alignment explanation
Indices: 78219365--78219393 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
78219355 ACTACCGACG
78219365 AATTAAACCATTAT
1 AATTAAACCATTAT
78219379 AATTAAA-CATTAT
1 AATTAAACCATTAT
78219392 AA
1 AA
78219394 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:78224610 original size:9 final size:9
Alignment explanation
Indices: 78224593--78224695 Score: 102
Period size: 9 Copynumber: 11.6 Consensus size: 9
78224583 TATTTAAGTA
78224593 TTATGTAAG
1 TTATGTAAG
*
78224602 TTATTTAAG
1 TTATGTAAG
*
78224611 TTATGATATG
1 TTATG-TAAG
* * *
78224621 ATATAT-AT
1 TTATGTAAG
78224629 TTATGTAAG
1 TTATGTAAG
78224638 TTATGTAAG
1 TTATGTAAG
* *
78224647 TTATAT-AT
1 TTATGTAAG
*
78224655 TTATCTAAG
1 TTATGTAAG
*
78224664 TTATATAAG
1 TTATGTAAG
78224673 TTATGTAAG
1 TTATGTAAG
78224682 TTATGTAAG
1 TTATGTAAG
78224691 TTATG
1 TTATG
78224696 ATATGATATA
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
8 10 0.13
9 59 0.79
10 6 0.08
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:78224617 original size:43 final size:45
Alignment explanation
Indices: 78224544--78224650 Score: 128
Period size: 43 Copynumber: 2.4 Consensus size: 45
78224534 TATGTATTAT
* * *
78224544 GTAAGTTAAGTAAAGCTATGTAAGATATGATAGGATAAATATTTAA
1 GTAAGTTATGT-AAGTTATTTAAGATATGATAGGATAAATATTTAA
* * * *
78224590 GT-A-TTATGTAAGTTATTTAAGTTATGATATGATATATATTTAT
1 GTAAGTTATGTAAGTTATTTAAGATATGATAGGATAAATATTTAA
78224633 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
78224651 ATATTTATCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
43 30 0.58
44 6 0.12
45 14 0.27
46 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (45 bp):
GTAAGTTATGTAAGTTATTTAAGATATGATAGGATAAATATTTAA
Found at i:78224658 original size:26 final size:27
Alignment explanation
Indices: 78224602--78224711 Score: 125
Period size: 26 Copynumber: 4.1 Consensus size: 27
78224592 ATTATGTAAG
* *
78224602 TTATTTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGATAAGATATATAT
*
78224629 TTATGTAAGTTATG-TAAGTTATATAT
1 TTATGTAAGTTATGATAAGATATATAT
* * * *
78224655 TTATCTAAGTTAT-ATAAGTTATGTAAG
1 TTATGTAAGTTATGATAAGATATAT-AT
*
78224682 TTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGATAAGATATATAT
78224709 TTA
1 TTA
78224712 ACATTAAGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 31 0.45
27 30 0.43
28 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (27 bp):
TTATGTAAGTTATGATAAGATATATAT
Found at i:78224677 original size:35 final size:36
Alignment explanation
Indices: 78224593--78224707 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 36
78224583 TATTTAAGTA
* *
78224593 TTATGTAAGTTATTTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAG
* *
78224629 TTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATGTAAGTTAT-GA--TA--T--GATATAT-AG
78224673 TTATGTAAGTTATGTAAGTTATGATATGATATATA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATA
78224708 TTTAACATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
36 22 0.34
37 7 0.11
39 3 0.05
41 3 0.05
43 7 0.11
44 23 0.35
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.48
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAG
Found at i:78225185 original size:22 final size:20
Alignment explanation
Indices: 78225146--78225185 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
78225136 AAAACATTAA
*
78225146 AAATATTAAATATTAAAATC
1 AAATATTAAATATAAAAATC
78225166 AAATATTATTAATATAAAAA
1 AAATATTA--AATATAAAAA
78225186 ATTAGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATTAAATATAAAAATC
Found at i:78228625 original size:20 final size:20
Alignment explanation
Indices: 78228564--78228617 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
78228554 TAAATGCGAG
*
78228564 CTCAAACGAGCTGAATCAAA
1 CTCAAGCGAGCTGAATCAAA
78228584 CTCAAGCGAGCTGAATCAAA
1 CTCAAGCGAGCTGAATCAAA
78228604 CTCAAGCGAGCTGA
1 CTCAAGCGAGCTGA
78228618 TGGAAACTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (20 bp):
CTCAAGCGAGCTGAATCAAA
Found at i:78231929 original size:20 final size:20
Alignment explanation
Indices: 78231868--78231921 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
78231858 TAAATGCGAG
*
78231868 CTCAAACGAGCTGAATCAAA
1 CTCAAGCGAGCTGAATCAAA
78231888 CTCAAGCGAGCTGAATCAAA
1 CTCAAGCGAGCTGAATCAAA
78231908 CTCAAGCGAGCTGA
1 CTCAAGCGAGCTGA
78231922 TGGAAACTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (20 bp):
CTCAAGCGAGCTGAATCAAA
Found at i:78239067 original size:207 final size:207
Alignment explanation
Indices: 78238712--78239125 Score: 828
Period size: 207 Copynumber: 2.0 Consensus size: 207
78238702 ATCAATACCG
78238712 TAAATTTTATTCTCACTGAGCTCAGACCAGTATAACAGAGTTCTACACTTTCTACCATATAAGGC
1 TAAATTTTATTCTCACTGAGCTCAGACCAGTATAACAGAGTTCTACACTTTCTACCATATAAGGC
78238777 TTCATACGGTGCCATTTTAAGGCTCGATTGAAAACTGTTATTATAAGTGAATTTAATTAAATGTA
66 TTCATACGGTGCCATTTTAAGGCTCGATTGAAAACTGTTATTATAAGTGAATTTAATTAAATGTA
78238842 AGTATTGTTCCCACGTACCTTCAAACTCAAGAATACAACATCTCAACATATGCTCGAGTATCTGA
131 AGTATTGTTCCCACGTACCTTCAAACTCAAGAATACAACATCTCAACATATGCTCGAGTATCTGA
78238907 ATAGTCCGTTCA
196 ATAGTCCGTTCA
78238919 TAAATTTTATTCTCACTGAGCTCAGACCAGTATAACAGAGTTCTACACTTTCTACCATATAAGGC
1 TAAATTTTATTCTCACTGAGCTCAGACCAGTATAACAGAGTTCTACACTTTCTACCATATAAGGC
78238984 TTCATACGGTGCCATTTTAAGGCTCGATTGAAAACTGTTATTATAAGTGAATTTAATTAAATGTA
66 TTCATACGGTGCCATTTTAAGGCTCGATTGAAAACTGTTATTATAAGTGAATTTAATTAAATGTA
78239049 AGTATTGTTCCCACGTACCTTCAAACTCAAGAATACAACATCTCAACATATGCTCGAGTATCTGA
131 AGTATTGTTCCCACGTACCTTCAAACTCAAGAATACAACATCTCAACATATGCTCGAGTATCTGA
78239114 ATAGTCCGTTCA
196 ATAGTCCGTTCA
78239126 GATTGACCAT
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 207 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (207 bp):
TAAATTTTATTCTCACTGAGCTCAGACCAGTATAACAGAGTTCTACACTTTCTACCATATAAGGC
TTCATACGGTGCCATTTTAAGGCTCGATTGAAAACTGTTATTATAAGTGAATTTAATTAAATGTA
AGTATTGTTCCCACGTACCTTCAAACTCAAGAATACAACATCTCAACATATGCTCGAGTATCTGA
ATAGTCCGTTCA
Found at i:78247139 original size:3 final size:3
Alignment explanation
Indices: 78247133--78247173 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
78247123 TATTTAATAA
78247133 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
78247174 ATCATAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:78257101 original size:20 final size:18
Alignment explanation
Indices: 78257064--78257114 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
78257054 CTACAGCAAC
78257064 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
78257081 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
78257101 TTACAACTTTACAA
1 TCACAA-TTTACAA
78257115 AATAACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:78258662 original size:44 final size:44
Alignment explanation
Indices: 78258593--78258681 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
78258583 ATATCAAATG
*
78258593 TAATCTCTACGAATATTCTAATTTCAACCAAAAGTTATTATTAT
1 TAATCTCTACAAATATTCTAATTTCAACCAAAAGTTATTATTAT
* * *
78258637 TAATCTTTACAAATGTTCTATTTTCAACCAAAAGTTATTATTAT
1 TAATCTCTACAAATATTCTAATTTCAACCAAAAGTTATTATTAT
78258681 T
1 T
78258682 TTAAACGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (44 bp):
TAATCTCTACAAATATTCTAATTTCAACCAAAAGTTATTATTAT
Found at i:78263091 original size:43 final size:42
Alignment explanation
Indices: 78262995--78263112 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
78262985 AATTTGAGAT
*
78262995 TTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGA
* * * *
78263037 TTTCGTTTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGGCATCG-TATTTGA
* *
78263080 TTACATGTAAGACCAAGTCTAGGAC-GTTGGCAT
1 TTACGTGTAAGACCATGTCTAGGACAG-TGGCAT
78263113 TGTACAAGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGA
Found at i:78267370 original size:11 final size:11
Alignment explanation
Indices: 78267354--78267384 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
78267344 ACTTTAGCTT
78267354 TAAGAATTAAA
1 TAAGAATTAAA
78267365 TAAGAATTAAA
1 TAAGAATTAAA
*
78267376 TGAGAATTA
1 TAAGAATTA
78267385 CTTATCAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
TAAGAATTAAA
Found at i:78270053 original size:78 final size:78
Alignment explanation
Indices: 78269949--78270102 Score: 272
Period size: 78 Copynumber: 2.0 Consensus size: 78
78269939 AGGGGGCCCA
* *
78269949 GGGCCTCTGCCGGCCCCGTATATATATATTGCACCTATTTTCTCACTTCATCTTCATCTTCATCA
1 GGGCCTCTGCCAGCCCCGTAAATATATATTGCACCTATTTTCTCACTTCATCTTCATCTTCATCA
78270014 ACCACTTGTTTCT
66 ACCACTTGTTTCT
* *
78270027 GGGCCTCTGCCAGCCCTGTAAATATATATTGCACCTATTTTCTCTCTTCATCTTCATCTTCATCA
1 GGGCCTCTGCCAGCCCCGTAAATATATATTGCACCTATTTTCTCACTTCATCTTCATCTTCATCA
78270092 ACCACTTGTTT
66 ACCACTTGTTT
78270103 TTCTTTCTCT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.19, C:0.31, G:0.11, T:0.39
Consensus pattern (78 bp):
GGGCCTCTGCCAGCCCCGTAAATATATATTGCACCTATTTTCTCACTTCATCTTCATCTTCATCA
ACCACTTGTTTCT
Found at i:78272939 original size:40 final size:40
Alignment explanation
Indices: 78272841--78273143 Score: 389
Period size: 40 Copynumber: 7.6 Consensus size: 40
78272831 TCCTCGTTCA
* * * ** *
78272841 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
78272880 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
78272920 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
78272960 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
78273000 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
78273040 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
78273080 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
78273120 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
78273144 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:78282592 original size:27 final size:27
Alignment explanation
Indices: 78282562--78282739 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
78282552 ATATTGAGTC
* *
78282562 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
78282589 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
78282616 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
78282644 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
78282671 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
78282698 CGCACACTTAGTG-TAACATAGTCAAAT
1 CGCACACTTAGTGCT-ACATAATCAACT
78282725 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
78282740 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:78282701 original size:82 final size:81
Alignment explanation
Indices: 78282583--78282738 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
78282573 TGCTATATAA
*
78282583 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCT-ACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTG-TAACATAGTCAAA-TCGC
78282647 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
78282665 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGTAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCA
78282729 CACTTAGTGC
65 CACTTAGTGC
78282739 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGTAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:78295450 original size:31 final size:31
Alignment explanation
Indices: 78295412--78295470 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
78295402 GTCGTGTGGG
* *
78295412 CCACACGGGTATGT-GGACCCATACGAGTGAA
1 CCACACGGGCATGTAGG-CCCACACGAGTGAA
78295443 CCACACGGGCATGTAGGCCCACACGAGT
1 CCACACGGGCATGTAGGCCCACACGAGT
78295471 TATAACACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 23 0.92
32 2 0.08
ACGTcount: A:0.27, C:0.31, G:0.29, T:0.14
Consensus pattern (31 bp):
CCACACGGGCATGTAGGCCCACACGAGTGAA
Found at i:78309697 original size:19 final size:19
Alignment explanation
Indices: 78309673--78309709 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78309663 CACATAGCCG
*
78309673 TGTGCCCCGGCCATGTGGA
1 TGTGCCCAGGCCATGTGGA
*
78309692 TGTGCCCAGGCCGTGTGG
1 TGTGCCCAGGCCATGTGG
78309710 GGGGTCTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.30, G:0.41, T:0.22
Consensus pattern (19 bp):
TGTGCCCAGGCCATGTGGA
Found at i:78314362 original size:15 final size:15
Alignment explanation
Indices: 78314307--78314363 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
78314297 TTTATATTAC
*
78314307 AAAATATTTGTTATT
1 AAAATATTTATTATT
* *
78314322 AATATATTTATAATTGT
1 AAAATATTTATTA-T-T
78314339 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
78314356 AAAATATT
1 AAAATATT
78314364 AGTATTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 2 0.06
17 2 0.06
18 2 0.06
19 10 0.30
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:78314427 original size:13 final size:14
Alignment explanation
Indices: 78314396--78314437 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
78314386 ATGTGAAGAA
78314396 TATTATTTAAAATTAT
1 TATT-TTTAAAA-TAT
78314412 TATTTTTAAAAT-T
1 TATTTTTAAAATAT
*
78314425 TATTGTTAAAATA
1 TATTTTTAAAATA
78314438 AAATTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
15 7 0.29
16 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TATTTTTAAAATAT
Found at i:78314588 original size:18 final size:18
Alignment explanation
Indices: 78314527--78314592 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
78314517 TTAAATATAT
*
78314527 ATATATTTAATAATATTAA
1 ATAT-TTTAATAATTTTAA
* * *
78314546 AAATTATAATATTTTTATTA
1 ATATTTTAATAATTTTA--A
78314566 ATATTTTAATAATTTTAA
1 ATATTTTAATAATTTTAA
78314584 ATATTTTAA
1 ATATTTTAA
78314593 AAAATAAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 20 0.53
19 3 0.08
20 15 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTTTAATAATTTTAA
Found at i:78314775 original size:19 final size:20
Alignment explanation
Indices: 78314729--78314775 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
78314719 AAAAATAATT
78314729 TATTTTCTATTGACCTGTAAGC
1 TATTTTCTATTGACC--TAAGC
78314751 TATTTTCTATTGACC-AAGC
1 TATTTTCTATTGACCTAAGC
*
78314770 TGTTTT
1 TATTTT
78314776 TTTTTTGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
22 15 0.62
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (20 bp):
TATTTTCTATTGACCTAAGC
Found at i:78317705 original size:14 final size:15
Alignment explanation
Indices: 78317676--78317705 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
78317666 CAAAATTAAG
78317676 ACATGATACTTTCAC
1 ACATGATACTTTCAC
78317691 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
78317705 A
1 A
78317706 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:78321541 original size:18 final size:19
Alignment explanation
Indices: 78321506--78321544 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
78321496 ATATATAGCT
*
78321506 AAAATTTTAGAAAGTTAAA
1 AAAATTTGAGAAAGTTAAA
*
78321525 AAAATTTGA-AAATTTAAA
1 AAAATTTGAGAAAGTTAAA
78321543 AA
1 AA
78321545 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (19 bp):
AAAATTTGAGAAAGTTAAA
Found at i:78321551 original size:24 final size:24
Alignment explanation
Indices: 78321521--78321570 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
78321511 TTTAGAAAGT
**
78321521 TAAAAAA-ATTTGAAAATTTAAAAA
1 TAAAAAATATTT-AAAAAATAAAAA
78321545 TAAAAAATATTTAAAAAATAAAAA
1 TAAAAAATATTTAAAAAATAAAAA
78321569 TA
1 TA
78321571 TATATTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (24 bp):
TAAAAAATATTTAAAAAATAAAAA
Found at i:78321556 original size:17 final size:19
Alignment explanation
Indices: 78321536--78321573 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
78321526 AAATTTGAAA
78321536 ATTT-AAAAATAAAAA-AT
1 ATTTAAAAAATAAAAATAT
78321553 ATTTAAAAAATAAAAATAT
1 ATTTAAAAAATAAAAATAT
78321572 AT
1 AT
78321574 ATTTTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTTAAAAAATAAAAATAT
Found at i:78321743 original size:26 final size:27
Alignment explanation
Indices: 78321714--78321774 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
78321704 TATTTTGAAC
*
78321714 TTTCTTAAATTTTTA-T-ATTTTTTTA
1 TTTCTTAAAATTTTACTAATTTTTTTA
78321739 TTT-TCTAAAATTTTACCTAATTTTTTTA
1 TTTCT-TAAAATTTTA-CTAATTTTTTTA
78321767 TTTCTTAA
1 TTTCTTAA
78321775 CTTATTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 1 0.03
25 12 0.40
27 1 0.03
28 15 0.50
29 1 0.03
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (27 bp):
TTTCTTAAAATTTTACTAATTTTTTTA
Found at i:78332709 original size:15 final size:15
Alignment explanation
Indices: 78332689--78332722 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
78332679 GGTTCATGAT
78332689 TGTTCCTCTCAATAA
1 TGTTCCTCTCAATAA
*
78332704 TGTTCCTTTCAATAA
1 TGTTCCTCTCAATAA
78332719 TGTT
1 TGTT
78332723 TTTTCCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.47
Consensus pattern (15 bp):
TGTTCCTCTCAATAA
Found at i:78337706 original size:38 final size:37
Alignment explanation
Indices: 78337664--78337736 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 37
78337654 TCTCAACAGT
* *
78337664 TAGATTCTGGTTCTGTCAAATCGTAACATTTTAAAAGC
1 TAGATTCTGATTCTGTCAAATCGTAAC-TGTTAAAAGC
* * *
78337702 TAGATTTTGATTTTGTCAAATTGTAACTGTTAAAA
1 TAGATTCTGATTCTGTCAAATCGTAACTGTTAAAA
78337737 AATATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 7 0.23
38 23 0.77
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (37 bp):
TAGATTCTGATTCTGTCAAATCGTAACTGTTAAAAGC
Found at i:78342113 original size:26 final size:26
Alignment explanation
Indices: 78342056--78342106 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
78342046 CCTTCGAACA
* * *
78342056 ACTCAAAGTCAAAGGTCCTCGGACCC
1 ACTCAAACTCAAAAGACCTCGGACCC
*
78342082 ACTCAAACTCAAAAGACCTCTGACC
1 ACTCAAACTCAAAAGACCTCGGACC
78342107 ATCTCAACCC
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:0.35, G:0.14, T:0.16
Consensus pattern (26 bp):
ACTCAAACTCAAAAGACCTCGGACCC
Found at i:78343790 original size:16 final size:16
Alignment explanation
Indices: 78343769--78343803 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
78343759 TCCCATGCAT
78343769 AATACTACCTTAGCCG
1 AATACTACCTTAGCCG
78343785 AATACTACCTTAGCCG
1 AATACTACCTTAGCCG
78343801 AAT
1 AAT
78343804 GCTCCCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (16 bp):
AATACTACCTTAGCCG
Found at i:78349754 original size:38 final size:38
Alignment explanation
Indices: 78349703--78349775 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
78349693 CTCAATAGCC
* *
78349703 AGATTCTGGTTTTGTCAAATCGTAACCGTTTAAAAGTT
1 AGATTCTGATTTTGTCAAATCATAACCGTTTAAAAGTT
* **
78349741 AGATTCTGATTTTGTTAAATCATAATTGTTTAAAA
1 AGATTCTGATTTTGTCAAATCATAACCGTTTAAAA
78349776 ATATTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (38 bp):
AGATTCTGATTTTGTCAAATCATAACCGTTTAAAAGTT
Found at i:78355310 original size:22 final size:22
Alignment explanation
Indices: 78355283--78355353 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
78355273 TTTGATGAGA
78355283 ATTTAAATTTCACCATATGTAT
1 ATTTAAATTTCACCATATGTAT
** ***
78355305 ATTTAAATTAAAGTTTGATGTGA-
1 ATTTAAATTTCACCAT-ATGT-AT
*
78355328 GTTTAAATTTCACCATATGTAT
1 ATTTAAATTTCACCATATGTAT
78355350 ATTT
1 ATTT
78355354 TTATCTGTTT
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
21 1 0.03
22 18 0.53
23 14 0.41
24 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (22 bp):
ATTTAAATTTCACCATATGTAT
Found at i:78355313 original size:45 final size:45
Alignment explanation
Indices: 78355263--78355353 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
78355253 AGTTGAATGG
78355263 TAAATTAAAATTTGATGAGAATTTAAATTTCACCATATGTATATT
1 TAAATTAAAATTTGATGAGAATTTAAATTTCACCATATGTATATT
* * *
78355308 TAAATTAAAGTTTGATGTGAGTTTAAATTTCACCATATGTATATT
1 TAAATTAAAATTTGATGAGAATTTAAATTTCACCATATGTATATT
78355353 T
1 T
78355354 TTATCTGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (45 bp):
TAAATTAAAATTTGATGAGAATTTAAATTTCACCATATGTATATT
Found at i:78363315 original size:42 final size:42
Alignment explanation
Indices: 78363258--78363343 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
78363248 TCTAAAACTA
78363258 AAAAACATCTCCACTTGATAATAATAGTATTGTTATGGACCT
1 AAAAACATCTCCACTTGATAATAATAGTATTGTTATGGACCT
78363300 AAAAACATCTCCACTTGATAATAATAGTATTGTTATGGACCT
1 AAAAACATCTCCACTTGATAATAATAGTATTGTTATGGACCT
78363342 AA
1 AA
78363344 CTTTAATGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (42 bp):
AAAAACATCTCCACTTGATAATAATAGTATTGTTATGGACCT
Found at i:78363428 original size:26 final size:26
Alignment explanation
Indices: 78363399--78363484 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
78363389 GACTAATTAT
78363399 AAAATTAAAATATAAAGATTGAATTG
1 AAAATTAAAATATAAAGATTGAATTG
* ** ** *
78363425 AAAA-TAGAAATTTAATCATTTTTATGTAA
1 AAAATTA-AAATATAAAGA-TTGAAT-T-G
78363454 AAAATTAAAATATAAAGATTGAATTG
1 AAAATTAAAATATAAAGATTGAATTG
78363480 AAAAT
1 AAAAT
78363485 AGAAATTTAA
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 2 0.05
26 17 0.40
27 5 0.12
28 5 0.12
29 12 0.28
30 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (26 bp):
AAAATTAAAATATAAAGATTGAATTG
Found at i:78387867 original size:27 final size:25
Alignment explanation
Indices: 78387837--78387913 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 25
78387827 ATTAAATCTT
78387837 TTTAATAATTAATAAATTATTTGTAAA
1 TTTAATAATTAATAAA-TATTT-TAAA
*
78387864 TTTAATTA-TACATGAAATATTTTAAA
1 TTTAATAATTA-AT-AAATATTTTAAA
* *
78387890 TATAATAATAAAT-AATA-TTTAAA
1 TTTAATAATTAATAAATATTTTAAA
78387913 T
1 T
78387914 AATTTAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 7 0.16
24 4 0.09
26 14 0.33
27 15 0.35
28 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (25 bp):
TTTAATAATTAATAAATATTTTAAA
Found at i:78392053 original size:173 final size:173
Alignment explanation
Indices: 78391764--78392110 Score: 694
Period size: 173 Copynumber: 2.0 Consensus size: 173
78391754 TGTTTTGGCT
78391764 CATTAAAGGTAAGGTCCTTATGATGAAATAAATCCAATTATATGATAGTGGAATAAATGGTTTGG
1 CATTAAAGGTAAGGTCCTTATGATGAAATAAATCCAATTATATGATAGTGGAATAAATGGTTTGG
78391829 CATAATGGTTAATATGGTTATTTTAAAGGGTGGTTAGGTAAATGGTTTATTAATGTATATTATAA
66 CATAATGGTTAATATGGTTATTTTAAAGGGTGGTTAGGTAAATGGTTTATTAATGTATATTATAA
78391894 TAAAACCAAAGCATAAAACATTTCTATTATGCTTCATCTTTAA
131 TAAAACCAAAGCATAAAACATTTCTATTATGCTTCATCTTTAA
78391937 CATTAAAGGTAAGGTCCTTATGATGAAATAAATCCAATTATATGATAGTGGAATAAATGGTTTGG
1 CATTAAAGGTAAGGTCCTTATGATGAAATAAATCCAATTATATGATAGTGGAATAAATGGTTTGG
78392002 CATAATGGTTAATATGGTTATTTTAAAGGGTGGTTAGGTAAATGGTTTATTAATGTATATTATAA
66 CATAATGGTTAATATGGTTATTTTAAAGGGTGGTTAGGTAAATGGTTTATTAATGTATATTATAA
78392067 TAAAACCAAAGCATAAAACATTTCTATTATGCTTCATCTTTAA
131 TAAAACCAAAGCATAAAACATTTCTATTATGCTTCATCTTTAA
78392110 C
1 C
78392111 GAAAATTAGA
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 174 1.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (173 bp):
CATTAAAGGTAAGGTCCTTATGATGAAATAAATCCAATTATATGATAGTGGAATAAATGGTTTGG
CATAATGGTTAATATGGTTATTTTAAAGGGTGGTTAGGTAAATGGTTTATTAATGTATATTATAA
TAAAACCAAAGCATAAAACATTTCTATTATGCTTCATCTTTAA
Found at i:78392964 original size:43 final size:41
Alignment explanation
Indices: 78392910--78393029 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
78392900 ATCTGAGATA
* * *
78392910 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGAT-TGATATT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGATCTG--ATT
78392952 TACGTATAAGACCATGTCTGGGACATC-GGCATCGTATCTGATT
1 T-CGTATAAGACCATGTCTGGGACA-CAGGCATCG-ATCTGATT
* * *
78392995 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTATAAGACCATGTCTGGGACACAGGCATCGAT
78393030 ATTAAATTAC
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
41 2 0.03
42 29 0.43
43 31 0.46
44 3 0.04
45 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGTATAAGACCATGTCTGGGACACAGGCATCGATCTGATT
Found at i:78394255 original size:11 final size:11
Alignment explanation
Indices: 78394241--78394296 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
78394231 AGATAAATAT
78394241 TATTTTATTAA
1 TATTTTATTAA
*
78394252 TATTTTAATAAGA
1 TATTTT-ATTA-A
* *
78394265 TATTTTGTTAT
1 TATTTTATTAA
*
78394276 TATTTTATTAT
1 TATTTTATTAA
78394287 TATTTTATTA
1 TATTTTATTA
78394297 GTATATAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 26 0.68
12 5 0.13
13 7 0.18
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Done.