Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 76 of 297
Found at i:27154125 original size:204 final size:204
Alignment explanation
Indices: 27153775--27154187 Score: 817
Period size: 204 Copynumber: 2.0 Consensus size: 204
27153765 CATTCTATAT
27153775 TTATATAAAGAACAGCTTTTTTAAAATCATAGACCCTAATATAGTAATATAATATTACTAATATT
1 TTATATAAAGAACAGCTTTTTTAAAATCATAGACCCTAATATAGTAATATAATATTACTAATATT
27153840 ACTGAATTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTACATCTAAATTATATAGAAAAA
66 ACTGAATTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTACATCTAAATTATATAGAAAAA
27153905 TTTTTATATAGATTTCATGTAATCGATCGATTTAATAGATTTAATATAGATTAAATTTATTTTGA
131 TTTTTATATAGATTTCATGTAATCGATCGATTTAATAGATTTAATATAGATTAAATTTATTTTGA
27153970 ATAGATTTA
196 ATAGATTTA
27153979 TTATATAAAGAACAGCTTTTTTAAAATCATAGACCCTAATATAGTAATATAATATTACTAATATT
1 TTATATAAAGAACAGCTTTTTTAAAATCATAGACCCTAATATAGTAATATAATATTACTAATATT
27154044 ACTGAATTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTACATCTAAATTATATAGAAAAA
66 ACTGAATTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTACATCTAAATTATATAGAAAAA
27154109 TTTTTATATAGATTTCATGTAATCGATCGATTTAATAGATTTAATATAGATTAAATTTATTTTGA
131 TTTTTATATAGATTTCATGTAATCGATCGATTTAATAGATTTAATATAGATTAAATTTATTTTGA
27154174 ATAGATTTA
196 ATAGATTTA
*
27154183 ATATA
1 TTATA
27154188 GATTAAATTT
Statistics
Matches: 208, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 208 1.00
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (204 bp):
TTATATAAAGAACAGCTTTTTTAAAATCATAGACCCTAATATAGTAATATAATATTACTAATATT
ACTGAATTTATTTTCTAGTTTATTTTATATTTTAGTATATTTTACATCTAAATTATATAGAAAAA
TTTTTATATAGATTTCATGTAATCGATCGATTTAATAGATTTAATATAGATTAAATTTATTTTGA
ATAGATTTA
Found at i:27154177 original size:31 final size:31
Alignment explanation
Indices: 27154142--27154201 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
27154132 CGATCGATTT
27154142 AATAGATTTAATATAGATTAAATTTATTTTG
1 AATAGATTTAATATAGATTAAATTTATTTTG
27154173 AATAGATTTAATATAGATTAAATTTATTT
1 AATAGATTTAATATAGATTAAATTTATTT
27154202 CTATTTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.48
Consensus pattern (31 bp):
AATAGATTTAATATAGATTAAATTTATTTTG
Found at i:27154661 original size:17 final size:17
Alignment explanation
Indices: 27154632--27154669 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
27154622 CGTAGAAAAA
*
27154632 TTTATTTTCTAGTTTAT
1 TTTATTTTCTAGTATAT
27154649 TTTATATTT-TAGTATAT
1 TTTAT-TTTCTAGTATAT
27154666 TTTA
1 TTTA
27154670 CATCTAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTATTTTCTAGTATAT
Found at i:27163646 original size:168 final size:167
Alignment explanation
Indices: 27163369--27163704 Score: 618
Period size: 168 Copynumber: 2.0 Consensus size: 167
27163359 GTTCTGTGGA
*
27163369 TTCTTTTGACTGTAATAGTAGTTGGGGATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATATA
1 TTCTTTTGACTGTAATAATAGTTGGGGATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATATA
* *
27163434 ATATTATAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCTA
66 ATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCTA
*
27163499 CTTGTTCTTCACAAATGTTTGCACACCTATCCCGCTT
131 CTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
*
27163536 TTCTTTTGACTGTAATAATAGGTTGGGTATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATAT
1 TTCTTTTGACTGTAATAATA-GTTGGGGATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATAT
27163601 AATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCT
65 AATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCT
27163666 ACTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
130 ACTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
27163704 T
1 T
27163705 CAGCATAAAG
Statistics
Matches: 163, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
167 19 0.12
168 144 0.88
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (167 bp):
TTCTTTTGACTGTAATAATAGTTGGGGATTTTCTAGTAGTAAAAGAACTTCAAGAAAATAATATA
ATACTACAAAAGTGCTTTCTTAAAAAGTTTAAGGTTTTCAGAAATTTTATAAAACTGATGTTCTA
CTTGTTCTTCACAAATGTTTGCACACCTATCCAGCTT
Found at i:27165355 original size:39 final size:39
Alignment explanation
Indices: 27165305--27165386 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
27165295 ATTTTTACAA
* *
27165305 AGTATTTGGTTACAAAGTTGTGTTTCCAATAGGAATTTT
1 AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
*
27165344 AGTATTTGGTTACAAAATTGGGTTTCCGATAGGAATTTT
1 AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
27165383 AGTA
1 AGTA
27165387 ATAGTTATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (39 bp):
AGTATTTGGTTACAAAATTGGGTTTCCAATAGGAATTTT
Found at i:27167134 original size:93 final size:93
Alignment explanation
Indices: 27167026--27167241 Score: 396
Period size: 93 Copynumber: 2.3 Consensus size: 93
27167016 CGCCCATAAG
* *
27167026 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
27167091 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
27167119 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
27167184 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
27167212 CGAACTCGGACTCAACTTAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGCTCGGA
27167242 TGCCCAAATA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 119 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:27167137 original size:47 final size:47
Alignment explanation
Indices: 27167073--27167245 Score: 230
Period size: 47 Copynumber: 3.7 Consensus size: 47
27167063 ATCCATAAGT
27167073 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * *
27167120 GAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
27167166 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* *
27167213 GAACTCGGACTCAACTTAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCC
27167246 CAAATATCCT
Statistics
Matches: 109, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 29 0.27
47 60 0.55
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:27167194 original size:46 final size:46
Alignment explanation
Indices: 27167019--27167194 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
27167009 TGTAACCCGC
* *
27167019 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
27167065 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
*
27167115 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
27167158 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
27167195 TGCCTAGTTA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:27177127 original size:30 final size:30
Alignment explanation
Indices: 27177093--27177154 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
27177083 TATTTATTAC
27177093 ATGACATAAAATCTAGTATTTCAACATATA
1 ATGACATAAAATCTAGTATTTCAACATATA
27177123 ATGACATAAAATCTAGTATTTCAACATATA
1 ATGACATAAAATCTAGTATTTCAACATATA
27177153 AT
1 AT
27177155 AACCACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (30 bp):
ATGACATAAAATCTAGTATTTCAACATATA
Found at i:27190651 original size:31 final size:31
Alignment explanation
Indices: 27190613--27190682 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
27190603 AATAAAAATA
**
27190613 TTCATTTTAGGCA-TCATGATCAAAAACTATT
1 TTCATTTTAGGCACT-ACCATCAAAAACTATT
*
27190644 TTCATTTTAGGCACTACCATTAAAAACTATT
1 TTCATTTTAGGCACTACCATCAAAAACTATT
*
27190675 CTCATTTT
1 TTCATTTT
27190683 GGTCACCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (31 bp):
TTCATTTTAGGCACTACCATCAAAAACTATT
Found at i:27191292 original size:31 final size:31
Alignment explanation
Indices: 27191227--27191293 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
27191217 ATAAGTGATC
* * *
27191227 AAAATAAAAATATTTTTTAACGACAGTGCAT
1 AAAATAAAAATAGTTTTTAACAACAATGCAT
* *
27191258 AAAATAAAAATAGTTTTTAACAATAATGCTT
1 AAAATAAAAATAGTTTTTAACAACAATGCAT
27191289 AAAAT
1 AAAAT
27191294 GAAATTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (31 bp):
AAAATAAAAATAGTTTTTAACAACAATGCAT
Found at i:27193962 original size:16 final size:17
Alignment explanation
Indices: 27193932--27193983 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
27193922 GGCCCCTAAA
27193932 ATAATTTTTT-T-ATTT
1 ATAATTTTTTATAATTT
27193947 A-AATTTTTTATAATTT
1 ATAATTTTTTATAATTT
* *
27193963 ATAATATTTTA-AATTA
1 ATAATTTTTTATAATTT
27193979 ATAAT
1 ATAAT
27193984 GATAAAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 14 0.44
17 8 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTTTATAATTT
Found at i:27194966 original size:24 final size:24
Alignment explanation
Indices: 27194939--27194990 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27194929 TTAGTAAGTC
*
27194939 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
27194963 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
27194987 AAAT
1 AAAT
27194991 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:27196936 original size:24 final size:24
Alignment explanation
Indices: 27196909--27196960 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27196899 TTAGTAAGTC
*
27196909 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
27196933 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
27196957 AAAT
1 AAAT
27196961 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:27197926 original size:19 final size:19
Alignment explanation
Indices: 27197904--27197947 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
27197894 AAATTACAAA
* *
27197904 AAAAATTAAAATAATTTTT
1 AAAAATTAAAAAAATTTAT
27197923 AAAAA-TAAAAAAATTTAT
1 AAAAATTAAAAAAATTTAT
27197941 AAAAATT
1 AAAAATT
27197948 TCATAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTAAAAAAATTTAT
Found at i:27199795 original size:27 final size:27
Alignment explanation
Indices: 27199765--27199840 Score: 73
Period size: 29 Copynumber: 2.7 Consensus size: 27
27199755 CTATATACAT
* *
27199765 TATTGT-TTTTATATTATTTTATGTAAA
1 TATTGTCTTTTAAATT-TATTATGTAAA
*
27199792 TATTTTCTTTTAAATTTATTATGTATATA
1 TATTGTCTTTTAAATTTATTATGTA-A-A
* *
27199821 TATTCTCTTTAAAATTTATT
1 TATTGTCTTTTAAATTTATT
27199841 TATGCATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 13 0.32
28 9 0.22
29 19 0.46
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
TATTGTCTTTTAAATTTATTATGTAAA
Found at i:27199802 original size:28 final size:27
Alignment explanation
Indices: 27199783--27199840 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
27199773 TTATATTATT
*
27199783 TTATGTAAATATTTTCTTTTAAATTTA
1 TTATGTAAATATATTCTTTTAAATTTA
*
27199810 TTATGTATATATATTCTCTTTAAAATTTA
1 TTATGTAAATATATTCT-TTT-AAATTTA
27199839 TT
1 TT
27199841 TATGCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 15 0.56
28 3 0.11
29 9 0.33
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (27 bp):
TTATGTAAATATATTCTTTTAAATTTA
Found at i:27199810 original size:29 final size:31
Alignment explanation
Indices: 27199778--27199841 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
27199768 TGTTTTTATA
* *
27199778 TTATTTTATGTA-A-ATATTTTCTTTTAAAT
1 TTATTTTATGTATATATATTCTCTTTAAAAT
27199807 TTA--TTATGTATATATATTCTCTTTAAAAT
1 TTATTTTATGTATATATATTCTCTTTAAAAT
27199836 TTATTT
1 TTATTT
27199842 ATGCATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 7 0.24
28 1 0.03
29 20 0.69
31 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (31 bp):
TTATTTTATGTATATATATTCTCTTTAAAAT
Found at i:27200619 original size:127 final size:129
Alignment explanation
Indices: 27200467--27200702 Score: 368
Period size: 130 Copynumber: 1.8 Consensus size: 129
27200457 ATTTTCATCT
* * *
27200467 CGTGTTTTGGAAATCATGAGGTGATCTC-A-GTTTTTGGAGGCTTAAAATATCGTGTCCTAACGT
1 CGTGTTTTGGAAATCATGAAGTGATCTCAATGTTTTTGGAAGCTTAAAATATCGTATCCTAACGT
* * *
27200530 GCTGGATGTGGTATTTTATTCCTTTGGGACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
66 GCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
* * *
27200594 CGTGTTTTGGAAATCATGAAGTGATCTCAATTTTTTTTGGAAGTTTAAAATATCGTATCCTAATG
1 CGTGTTTTGGAAATCATGAAGTGATCTCAA-TGTTTTTGGAAGCTTAAAATATCGTATCCTAACG
27200659 TGCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAA
65 TGCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAA
27200703 CAAACTCGAA
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
127 27 0.28
128 1 0.01
130 69 0.71
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (129 bp):
CGTGTTTTGGAAATCATGAAGTGATCTCAATGTTTTTGGAAGCTTAAAATATCGTATCCTAACGT
GCTGGATGTGGTATTTAATTCCTTTAGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
Found at i:27211350 original size:79 final size:81
Alignment explanation
Indices: 27211241--27211423 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
27211231 TACTCGTTCA
* *
27211241 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
27211304 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
27211321 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
27211384 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
27211400 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
27211424 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:27211423 original size:40 final size:40
Alignment explanation
Indices: 27211220--27211423 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
27211210 CGGAATTTAA
** *
27211220 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27211260 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27211300 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27211339 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
27211379 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27211419 CCGGA
1 CCGGA
27211424 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27215435 original size:132 final size:132
Alignment explanation
Indices: 27215218--27215508 Score: 456
Period size: 132 Copynumber: 2.2 Consensus size: 132
27215208 AAATGGCAAG
* * * * *
27215218 TCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
* * *
27215283 AGGGAGCAAGTTGAAGATACAGGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAGTTACA
66 AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
27215348 GA
131 GA
* * *
27215350 TCTTATCTACATGTATCGATTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTGAGGTAACA
1 TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
* * *
27215415 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGACTGAAAATTATA
66 AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
27215480 GA
131 GA
27215482 TCTTATCTCCATGTATCGACTATGGAG
1 TCTTATCTCCATGTATCGACTATGGAG
27215509 TAGATCAAAA
Statistics
Matches: 143, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 143 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGACTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTAAGGTAACA
AGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTACA
GA
Found at i:27215784 original size:177 final size:176
Alignment explanation
Indices: 27215350--27215756 Score: 589
Period size: 177 Copynumber: 2.3 Consensus size: 176
27215340 AAGTTACAGA
* ** *
27215350 TCTTATCTACATGTATCGATTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTGAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
** *
27215415 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGACTGAAAATTATA
65 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* * *
27215480 GATCTTATCTCCATGTATCGACTATGGAGTAGATCAAAAATGGCGAG
130 GATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
* * * *
27215527 TCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCATCCTTATCACTGTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
* * *
27215592 AGAGAGCGGGTTGAAGGTACAGGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
65 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* **
27215657 GATCTTATCTCCATGTGTCGGTTATGGAGCAAATAAAAAATGGCGAG
130 GATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
* *
27215704 TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCATCAACCTTATCTC
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTT-AGCCACCAACCTTATCTC
27215757 CCTAAAGTTG
Statistics
Matches: 203, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
176 3 0.01
177 200 0.99
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (176 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAGCCACCAACCTTATCTCTCTGAGGTAGCAA
GAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACAG
ATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
Found at i:27215801 original size:177 final size:174
Alignment explanation
Indices: 27215350--27215811 Score: 575
Period size: 177 Copynumber: 2.6 Consensus size: 174
27215340 AAGTTACAGA
* ** *
27215350 TCTTATCTACATGTATCGATTATGGAGCAGACTTTAGCCACCAACCTTATCTCTCTGAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
** *
27215415 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGTAGTTGCAGGAAGCAGACTGAAAATTATA
65 AGAGAGCAGGTTGAAG-TACAA-TCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* * *
27215480 GATCTTATCTCCATGTATCGACTATGGAGTAGATCAAAAATGGCGAG
128 GATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
* * * *
27215527 TCTTATCTCCATGTATCGGCTATGGAGTAGATTTTAGCCACCATCCTTATCACTGTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGA-TTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
* *
27215592 AGAGAGCGGGTTGAAGGTACAGGTCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
65 AGAGAGCAGGTTGAA-GTACA-ATCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACA
* **
27215657 GATCTTATCTCCATGTGTCGGTTATGGAGCAAATAAAAAATGGCGAG
128 GATCTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
* * * * * *
27215704 TCTTATCCCCATGTATCGGCTATGGAGCAGATTTAAGCCATCAACCTTATCTCCCTAAAGTTGC-
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTT-AGCCACCAACCTTATCTCTCTGAGGTAGCA
* * *
27215768 AGTGGAGCAGGTTGAAGTCACAAACAGTATCTTCCTAAAGTTGC
65 AG-AGAGCAGGTTGAAGT-ACAATC-TTATCTTCCTAAAGTTGC
27215812 TGAAAGACTA
Statistics
Matches: 244, Mismatches: 35, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
176 8 0.03
177 235 0.96
178 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (174 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTAGCCACCAACCTTATCTCTCTGAGGTAGCAA
GAGAGCAGGTTGAAGTACAATCTTATCTTCCTAAAGTTGCAGGAAGCAGACTGAAAATTACAGAT
CTTATCTCCATGTATCGACTATGGAGCAAATAAAAAATGGCGAG
Found at i:27217288 original size:27 final size:30
Alignment explanation
Indices: 27217257--27217323 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
27217247 TTCATATTAT
* *
27217257 TTTATGTA-A-ATATTTTCTTTTAAATTTA
1 TTTATGTATATATATTCTCTTTAAAATTTA
27217285 -TTATGTATATATATTCTCTTTAAAATTTA
1 TTTATGTATATATATTCTCTTTAAAATTTA
27217314 TTTATGTATA
1 TTTATGTATA
27217324 ATTTGGGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 17 0.50
30 9 0.26
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TTTATGTATATATATTCTCTTTAAAATTTA
Found at i:27218137 original size:377 final size:377
Alignment explanation
Indices: 27217443--27218197 Score: 1492
Period size: 377 Copynumber: 2.0 Consensus size: 377
27217433 ATTAGTCACA
27217443 TCAATTTGTTTTACTTGAAATTATGTTATACACTATTTATTTCGAATTTCTTCTTGTATATTATA
1 TCAATTTGTTTTACTTGAAATTATGTTATACACTATTTATTTCGAATTTCTTCTTGTATATTATA
27217508 TGTTTTAATAATTGTTTATGTATTATCGGTTTTTGTGTACATATTAGTTATGTTGAATTTTAACA
66 TGTTTTAATAATTGTTTATGTATTATCGGTTTTTGTGTACATATTAGTTATGTTGAATTTTAACA
*
27217573 TGTGTTATTCCTTTATATATTTTTCATACGGGTTTTTGAATTGTTTTGCTATGGTTCCTGGTTTT
131 TGTGTTATTCCTTTATATATTTTTCATACGGGTTTTTGAATTGTTTTGCTATGGTTCCTGATTTT
27217638 CATATGGTCTTATGTATTATGAGTTTTTTTTCCATAATTTATTGTTTTATACATATAATTATATT
196 CATATGGTCTTATGTATTATGAGTTTTTTTTCCATAATTTATTGTTTTATACATATAATTATATT
27217703 TCTATTTCTTATTGTTATATCATGATTATAATTCTCATATCCACTTAATATCGATTGTCCTTTAT
261 TCTATTTCTTATTGTTATATCATGATTATAATTCTCATATCCACTTAATATCGATTGTCCTTTAT
27217768 TTCAAACAAATCAAGTAAGTATATTTTGACTCGGTTTTTGTAATCGCTTATT
326 TTCAAACAAATCAAGTAAGTATATTTTGACTCGGTTTTTGTAATCGCTTATT
27217820 TCAATTTGTTTTACTTGAAATTATGTTATACACTATTTATTTCGAATTTCTTCTTGTATATTATA
1 TCAATTTGTTTTACTTGAAATTATGTTATACACTATTTATTTCGAATTTCTTCTTGTATATTATA
27217885 TGTTTTAATAATTGTTTATGTATTATCGGTTTTTGTGTACATATTAGTTATGTTGAATTTTAACA
66 TGTTTTAATAATTGTTTATGTATTATCGGTTTTTGTGTACATATTAGTTATGTTGAATTTTAACA
27217950 TGTGTTATTCCTTTATATATTTTTCATACGGGTTTTTGAATTGTTTTGCTATGGTTCCTGATTTT
131 TGTGTTATTCCTTTATATATTTTTCATACGGGTTTTTGAATTGTTTTGCTATGGTTCCTGATTTT
27218015 CATATGGTCTTATGTATTATGAGTTTTTTTTCCATAATTTATTGTTTTATACATATAATTATATT
196 CATATGGTCTTATGTATTATGAGTTTTTTTTCCATAATTTATTGTTTTATACATATAATTATATT
27218080 TCTATTTCTTATTGTTATATCATGATTATAATTCTCATATCCACTTAATATCGATTGTCCTTTAT
261 TCTATTTCTTATTGTTATATCATGATTATAATTCTCATATCCACTTAATATCGATTGTCCTTTAT
*
27218145 TTCAAACAAATCAAGTAAGTATATTTTGACTCGGTTTTTGTAATTGCTTATT
326 TTCAAACAAATCAAGTAAGTATATTTTGACTCGGTTTTTGTAATCGCTTATT
27218197 T
1 T
27218198 GAAATTTCAC
Statistics
Matches: 376, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
377 376 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (377 bp):
TCAATTTGTTTTACTTGAAATTATGTTATACACTATTTATTTCGAATTTCTTCTTGTATATTATA
TGTTTTAATAATTGTTTATGTATTATCGGTTTTTGTGTACATATTAGTTATGTTGAATTTTAACA
TGTGTTATTCCTTTATATATTTTTCATACGGGTTTTTGAATTGTTTTGCTATGGTTCCTGATTTT
CATATGGTCTTATGTATTATGAGTTTTTTTTCCATAATTTATTGTTTTATACATATAATTATATT
TCTATTTCTTATTGTTATATCATGATTATAATTCTCATATCCACTTAATATCGATTGTCCTTTAT
TTCAAACAAATCAAGTAAGTATATTTTGACTCGGTTTTTGTAATCGCTTATT
Found at i:27218467 original size:126 final size:127
Alignment explanation
Indices: 27218320--27218554 Score: 355
Period size: 130 Copynumber: 1.8 Consensus size: 127
27218310 ATTTTTGTCT
* * *
27218320 CGTGTTTTTGAAATCATGAGGTGATCTCA-TTTTTGGAGGCTTAAAATATCGTGTCCTAACGTGC
1 CGTGTTTTGGAAATCATGAGGTGATCTCATTTTTTAGAAGCTTAAAATATCGTGTCCTAACGTGC
* * * *
27218384 TGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
66 TGGATGTGGCATTTAACTCATTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
* *
27218446 CGTGTTTTGGAAATCGTGAGGTGATCTCAGTTTTTTTTAGAAGTTTAAAATATCGTGTCCTAACG
1 CGTGTTTTGGAAATCATGAGGTGATCTCA---TTTTTTAGAAGCTTAAAATATCGTGTCCTAACG
27218511 TGCTGGATGTGGCATTTAACTCATTTGGAACGAGTGAATCTTAA
63 TGCTGGATGTGGCATTTAACTCATTTGGAACGAGTGAATCTTAA
27218555 CAAACTCGAA
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
126 27 0.28
130 69 0.72
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (127 bp):
CGTGTTTTGGAAATCATGAGGTGATCTCATTTTTTAGAAGCTTAAAATATCGTGTCCTAACGTGC
TGGATGTGGCATTTAACTCATTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTCG
Found at i:27219551 original size:6 final size:6
Alignment explanation
Indices: 27219536--27219578 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
27219526 ATGTTACTTT
* * * *
27219536 TATATG TATATA TATACA TATATA TATACA TATACA TATATA T
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA T
27219579 CATTAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (6 bp):
TATATA
Found at i:27219557 original size:12 final size:12
Alignment explanation
Indices: 27219542--27219575 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
27219532 CTTTTATATG
27219542 TATATATATACA
1 TATATATATACA
27219554 TATATATATACA
1 TATATATATACA
*
27219566 TATACATATA
1 TATATATATA
27219576 TATCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATATATACA
Found at i:27219563 original size:18 final size:18
Alignment explanation
Indices: 27219536--27219578 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
27219526 ATGTTACTTT
* *
27219536 TATATGTATATATATACA
1 TATATATATACATATACA
27219554 TATATATATACATATACA
1 TATATATATACATATACA
27219572 TATATAT
1 TATATAT
27219579 CATTAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (18 bp):
TATATATATACATATACA
Found at i:27219832 original size:13 final size:13
Alignment explanation
Indices: 27219816--27219841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27219806 CTATTAAACT
27219816 ACCCCACTAAATC
1 ACCCCACTAAATC
27219829 ACCCCACTAAATC
1 ACCCCACTAAATC
27219842 CATCATCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCCCACTAAATC
Found at i:27220008 original size:28 final size:28
Alignment explanation
Indices: 27219968--27220024 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
27219958 AAATAAAGAC
27219968 TTTCAATACAAGAAATACACGAGATTAA
1 TTTCAATACAAGAAATACACGAGATTAA
27219996 TTTCAATACAAGAAATACACGAGATTAA
1 TTTCAATACAAGAAATACACGAGATTAA
27220024 T
1 T
27220025 AAAAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (28 bp):
TTTCAATACAAGAAATACACGAGATTAA
Found at i:27220167 original size:3 final size:3
Alignment explanation
Indices: 27220159--27220505 Score: 72
Period size: 3 Copynumber: 112.3 Consensus size: 3
27220149 GGGGAAAGTG
* *
27220159 TTA TTA TTA TTA TTA TT- TTA TTA TTA CTT- TTA CCTTT TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA --TTA TTA TTA TTA
* * * ** * *
27220205 TTA TTA TTT TTA TTA ATA -TA ATA TTA TT- TCC TT- TTT TTA TATG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* ** * * *
27220248 TTG TTA TTA TTA TTA GCA CGTA -TA TTA TTA TTA TTAA TGTA TCA TTG
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TT-A T-TA TTA TTA
* * *
27220295 TTA TTT TCTA TT- TTA GTA TTA CTT- TTA TTA TTA TTG TT- TCTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA
* * *
27220340 TTA TTA TT- TTCA TTA CTTCCA TTA TTA TTA TCA TCA TTT TCTA TTA
1 TTA TTA TTA TT-A TTA -TT--A TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * *
27220386 TCA TTA ATA TGTCA TGTG TTCA TTA TTA TTA TT- TTT TTA ATA CTA TTA
1 TTA TTA TTA T-T-A T-TA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * **
27220434 TCA TCA TTA TATA TTTA CTT- TTT TTA ATA TTA TTA CCA TTA TATA TT-
1 TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * *
27220481 TTT TTA TTA CTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
27220506 CTGTCCTACT
Statistics
Matches: 256, Mismatches: 54, Indels: 68
0.68 0.14 0.18
Matches are distributed among these distances:
2 24 0.09
3 187 0.73
4 34 0.13
5 10 0.04
6 1 0.00
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:27220465 original size:32 final size:34
Alignment explanation
Indices: 27220405--27220485 Score: 102
Period size: 32 Copynumber: 2.5 Consensus size: 34
27220395 TGTCATGTGT
27220405 TCATTAT-TA-TTATTTTTTTAATACTATTATCA
1 TCATTATATATTTATTTTTTTAATACTATTATCA
*
27220437 TCATTATATATTTACTTTTTTTAATATTATTA-C-
1 TCATTATATATTTA-TTTTTTTAATACTATTATCA
27220470 -CATTATATATTT-TTTT
1 TCATTATATATTTATTTT
27220486 ATTACTATTA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
30 4 0.09
32 19 0.42
33 2 0.04
34 4 0.09
35 16 0.36
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.62
Consensus pattern (34 bp):
TCATTATATATTTATTTTTTTAATACTATTATCA
Found at i:27226043 original size:44 final size:44
Alignment explanation
Indices: 27225995--27226445 Score: 176
Period size: 44 Copynumber: 10.2 Consensus size: 44
27225985 ATAGTGGCAA
* * *
27225995 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGTAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
27226039 TGGAGCAGCTTTAAGATACAAGTCTTATCTCCCTAAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * * * ** * * ** *
27226083 TGGAGTAGACTGAAAATTGC-AGATCTTATCTTCCT-AAGCAGTAG
1 TGGAGCAGATTTAAGA-CACAAG-CCTTATCTCCCTAAAGTTGCAG
** ** * ** ** *
27226127 TGGAGCAGATCGAAGACGGA-AAATCTTATCTCCATGTAGCGGCAA
1 TGGAGCAGATTTAAGAC--ACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
27226172 TGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * * * * ** * *
27226216 CGGAACAGGTTCAAGATACAATTCTTATCACCCTGAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * * * * * ** *
27226260 TGGAGCAGACTAAAAATTAC-AGATCTTATCTTCCT-AAGCAGTAG
1 TGGAGCAGATTTAAGA-CACAAG-CCTTATCTCCCTAAAGTTGCAG
** ** * * ** * *
27226304 TGGAGCAGATCGAAGACGGA-AAATCTTACCTCCATGTAGTGGCAA
1 TGGAGCAGATTTAAGAC--ACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
27226349 TAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * * * * * *
27226393 CGGAGCAGGTTCAAGATACAAGTCTTATCACCCTGAAGTTGCAG
1 TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
27226437 TGGAGCAGA
1 TGGAGCAGA
27226446 CTGAAAATTG
Statistics
Matches: 292, Mismatches: 101, Indels: 28
0.69 0.24 0.07
Matches are distributed among these distances:
43 2 0.01
44 225 0.77
45 65 0.22
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
TGGAGCAGATTTAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
Found at i:27226234 original size:177 final size:177
Alignment explanation
Indices: 27225925--27226557 Score: 960
Period size: 177 Copynumber: 3.6 Consensus size: 177
27225915 GGTGAATTTA
* * * * * * * *
27225925 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATCAAAGACAGCAAATCTTATTTCTATATAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
* * * *
27225990 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGTAGTGGAGCAGCTTTAAGA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
* *
27226055 TACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAAATTG
131 TACAAGTCTTATCACCCTAAAGTTGCAGTGGAGCAGACTGAAAATTG
*
27226102 CAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
* *
27226167 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGCGGAACAGGTTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
* * * *
27226232 TACAATTCTTATCACCCTGAAGTTGCAGTGGAGCAGACTAAAAATTA
131 TACAAGTCTTATCACCCTAAAGTTGCAGTGGAGCAGACTGAAAATTG
* * *
27226279 CAGATCTTATCTTCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTACCTCCATGTAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
*
27226344 GGCAATAGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
*
27226409 TACAAGTCTTATCACCCTGAAGTTGCAGTGGAGCAGACTGAAAATTG
131 TACAAGTCTTATCACCCTAAAGTTGCAGTGGAGCAGACTGAAAATTG
* * * * *
27226456 CAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATTTCCATGTAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
* * *
27226521 GACAATGGAGCAGACTTAAGCCACCATCCTTATCTCC
66 GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCC
27226558 TTGAGTAGTA
Statistics
Matches: 415, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 415 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (177 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTCCATGTAGC
GGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGA
TACAAGTCTTATCACCCTAAAGTTGCAGTGGAGCAGACTGAAAATTG
Found at i:27226483 original size:44 final size:44
Alignment explanation
Indices: 27226415--27226617 Score: 114
Period size: 44 Copynumber: 4.6 Consensus size: 44
27226405 AAGATACAAG
* * *
27226415 TCTTATCACCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGA
1 TCTTATCTCCCT-AAGTAGTAGTGGAGCAGACTGAAAATTGCAGA
* * * *
27226460 TCTTATCTCCCTAAGTAGTAGTGGAGTAGA-TCGAAGATGGCAAA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGACT-GAAAATTGCAGA
* * * * * *
27226504 TCTTAT-TTCC-ATGTAGCGACAATGGAGCAGACT--TAA--GCCACCA
1 TCTTATCTCCCTAAGTA--G-TAGTGGAGCAGACTGAAAATTG-CA-GA
* * * * *
27226547 TCCTTATCTCCTTGAGTAGTAGTGGAGCAGGCTGAAGATTACAGA
1 T-CTTATCTCCCTAAGTAGTAGTGGAGCAGACTGAAAATTGCAGA
*
27226592 TCTTATCTCCCTAAGAAGTAGTGGAG
1 TCTTATCTCCCTAAGTAGTAGTGGAG
27226618 TAGATCGAAG
Statistics
Matches: 115, Mismatches: 29, Indels: 29
0.66 0.17 0.17
Matches are distributed among these distances:
41 1 0.01
42 6 0.05
43 18 0.16
44 59 0.51
45 25 0.22
46 6 0.05
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTAAGTAGTAGTGGAGCAGACTGAAAATTGCAGA
Found at i:27226596 original size:132 final size:131
Alignment explanation
Indices: 27226433--27227019 Score: 652
Period size: 132 Copynumber: 4.5 Consensus size: 131
27226423 CCCTGAAGTT
* * * * *
27226433 GCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGAT
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
* * * * *
27226498 GGCAAATCTTAT-TTCCATGTAGCG-ACAATGG-AGCAGACTTAAGCCACCATCCTTATCTC-CT
66 GGCGAATCTTATCTTCC-CG-AG-GTA-AAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTC-
*
27226559 TGAGTA
126 TGAGCA
* *
27226565 GTAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGAC
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
* * * * * * *
27226630 GGTGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTTTCTAAG
66 GGCGAATCTTATCTTCCCGAGGTA-AAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAG
27226695 CA
130 CA
* * ** * *
27226697 GCAGT-GAGTAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAATAGTGGAGTAGATCGAAGAC
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
* * * * *
27226761 GGCGAATCTTCTCTTCCCGAGGTAGTAA-GGAAGCAGATTTAAGCCATCAACGTTATCTCTATGA
66 GGCGAATCTTATCTTCCCGAGGTA--AAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGA
27226825 GCA
129 GCA
* *
27226828 GCAGTGGAGCAGGCTGAAGATTACAAATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
* * * *
27226893 GGTGAATCTTATTTTCCC-AGGTAGTAGGGAAG-AGATTTAAGCCACTAGCCTTATCTCTCTGAG
66 GGCGAATCTTATCTTCCCGAGGTA-AAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAG
27226956 CA
130 CA
* ** * *
27226958 GCAGT-GAGCAGGCCGAAGATTTTAGATCTTATCTCCCTAAGCATTAGCGGAGTAGATCGAAG
1 GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAG
27227020 CTACAAATCT
Statistics
Matches: 382, Mismatches: 66, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
129 50 0.13
130 35 0.09
131 125 0.33
132 167 0.44
133 5 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (131 bp):
GCAGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC
GGCGAATCTTATCTTCCCGAGGTAAAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGC
A
Found at i:27227095 original size:261 final size:263
Alignment explanation
Indices: 27226567--27227069 Score: 678
Period size: 261 Copynumber: 1.9 Consensus size: 263
27226557 CTTGAGTAGT
*
27226567 AGTGGAGCAGGCTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGG
1 AGTGGAGCAGGCTGAAGATTACAAATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGG
*
27226632 TGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTTTCTAAGCA
66 TGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTCTCTAAGCA
* * * * *
27226697 GCAGTGAGTAGTCTGAAGATTGTAGATCTTATCTCCCTGAGCAATAGTGGAGTAGATCGAAGACG
131 GCAGTGAGCAGGCCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCGGAGTAGATCGAAGACG
* * * ** ** ** * * *
27226762 GCGAATCTTCTCTTCCCGAGGTAGTAAGGAAGCAGATTTAAGCCATCAACGTTATCTCTATGAGC
196 ACAAATCTTCTCTTCCCAAAATAACAAGGAAGCAGATCAAAGCCACCAACGCTAACTCTATGAGC
27226827 AGC
261 AGC
* *
27226830 AGTGGAGCAGGCTGAAGATTACAAATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGG
1 AGTGGAGCAGGCTGAAGATTACAAATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGG
* * *
27226895 TGAATCTTATTTTCCC-AGGTAGTAGGGAAG-AGATTTAAGCCACTAGCCTTATCTCTCTGAGCA
66 TGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTCTCTAAGCA
* * *
27226958 GCAGTGAGCAGGCCGAAGATTTTAGATCTTATCTCCCTAAGCATTAGCGGAGTAGATCGAAG-CT
131 GCAGTGAGCAGGCCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCGGAGTAGATCGAAGACG
*
27227022 ACAAATC-TCT-TCTCCCTAAAATAACATTGG-AGCAGATCAAAG-CACCAA
196 ACAAATCTTCTCT-TCCC-AAAATAACA-AGGAAGCAGATCAAAGCCACCAA
27227070 TTCCTACACT
Statistics
Matches: 211, Mismatches: 26, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
258 1 0.00
259 12 0.06
260 20 0.09
261 88 0.42
262 14 0.07
263 76 0.36
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (263 bp):
AGTGGAGCAGGCTGAAGATTACAAATCTTATCTCCCTAAGAAGTAGTGGAGTAGATCGAAGACGG
TGAATCTCATCTTCCCGAGGTAGTAGGGAAGTAGATTTAAGCCACTAGCCTTATCTCTCTAAGCA
GCAGTGAGCAGGCCGAAGATTGTAGATCTTATCTCCCTAAGCAATAGCGGAGTAGATCGAAGACG
ACAAATCTTCTCTTCCCAAAATAACAAGGAAGCAGATCAAAGCCACCAACGCTAACTCTATGAGC
AGC
Found at i:27227326 original size:25 final size:26
Alignment explanation
Indices: 27227296--27227344 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
27227286 GCCCAATTAA
27227296 CACCCCACTAAACCAAC-TACTAAAC
1 CACCCCACTAAACCAACTTACTAAAC
*
27227321 CACCCCACTAAACCACCTTACTAA
1 CACCCCACTAAACCAACTTACTAA
27227345 CTCCATCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (26 bp):
CACCCCACTAAACCAACTTACTAAAC
Found at i:27227332 original size:13 final size:13
Alignment explanation
Indices: 27227296--27227337 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
27227286 GCCCAATTAA
27227296 CACCCCACTAAAC
1 CACCCCACTAAAC
* *
27227309 CA-ACTACTAAAC
1 CACCCCACTAAAC
27227321 CACCCCACTAAAC
1 CACCCCACTAAAC
27227334 CACC
1 CACC
27227338 TTACTAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.40, C:0.50, G:0.00, T:0.10
Consensus pattern (13 bp):
CACCCCACTAAAC
Found at i:27227343 original size:13 final size:12
Alignment explanation
Indices: 27227302--27227344 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
27227292 TTAACACCCC
*
27227302 ACTAAACCAACT
1 ACTAAACCACCT
*
27227314 ACTAAACCACCCC
1 ACTAAACCA-CCT
27227327 ACTAAACCACCTT
1 ACTAAACCACC-T
27227340 ACTAA
1 ACTAA
27227345 CTCCATCACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (12 bp):
ACTAAACCACCT
Found at i:27227643 original size:3 final size:3
Alignment explanation
Indices: 27227635--27227678 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
27227625 GGGGAGAGTG
*
27227635 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTT- TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
27227679 CTATATACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:27227987 original size:25 final size:25
Alignment explanation
Indices: 27227949--27227996 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27227939 TATATTTACC
27227949 TTTTTTAATATTATTACCATTATAG
1 TTTTTTAATATTATTACCATTATAG
* * *
27227974 TTTTTTATTTTTATTACTATTAT
1 TTTTTTAATATTATTACCATTAT
27227997 TTTTATTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTTTAATATTATTACCATTATAG
Found at i:27228397 original size:125 final size:125
Alignment explanation
Indices: 27228173--27228398 Score: 276
Period size: 125 Copynumber: 1.8 Consensus size: 125
27228163 CAAGTAAATG
* * *
27228173 CAATATTCGGTATTTGGAAATTCGAGAAATCGTGTCCTAACGTACTGGGTTTCAGTTTTTCGTTT
1 CAATATTCGGTATTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAGTTTTCCGTTT
* *** **
27228238 GATCTAAGTAACCAATTATCCTTTTAAATTAAAATACATGAGTTTTAAATAAAACAAAGA
66 GATCTAAATAACCAATTATCCCACTAAAGGAAAATACATGAGTTTTAAATAAAACAAAGA
* * * *
27228298 CAATATTCTGTATTTAGAAATTCGAGTAGTCGTGCCCTAACGTACTGGGTTT-TGATTTTCCGTT
1 CAATATTCGGTATTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAG-TTTTCCGTT
* * *
27228362 TGATCTAAATATCCGAA-TGTCCCACTACAGGAAAATA
65 TGATCTAAATAACC-AATTATCCCACTAAAGGAAAATA
27228399 GGGCTTTAGC
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
124 1 0.01
125 80 0.96
126 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (125 bp):
CAATATTCGGTATTTAGAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCAGTTTTCCGTTT
GATCTAAATAACCAATTATCCCACTAAAGGAAAATACATGAGTTTTAAATAAAACAAAGA
Found at i:27228524 original size:41 final size:41
Alignment explanation
Indices: 27228449--27228567 Score: 152
Period size: 41 Copynumber: 2.9 Consensus size: 41
27228439 ATCAAACACG
* * *
27228449 GAGCAATAGCGGCGTTTTACCA-AAAAC-CCTGCTAAAAACCA
1 GAGCATTAGCGGCGCTTT-CGATAAAACGCC-GCTAAAAACCA
* * *
27228490 GAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAAACCA
1 GAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCA
27228531 GAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
1 GAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
27228568 GTCATATAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 65 0.97
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACCA
Found at i:27228652 original size:15 final size:16
Alignment explanation
Indices: 27228622--27228655 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27228612 ACTAATCTAT
27228622 AACCCCTAAAACACTA
1 AACCCCTAAAACACTA
*
27228638 AACCCTTAAAA-ACTA
1 AACCCCTAAAACACTA
27228653 AAC
1 AAC
27228656 TATAACCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (16 bp):
AACCCCTAAAACACTA
Found at i:27228659 original size:37 final size:37
Alignment explanation
Indices: 27228607--27228677 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
27228597 CAAAAAATAA
* *
27228607 TAAACACTAATCTATAACCCCTAAAACACTAAACCCT
1 TAAAAACTAAACTATAACCCCTAAAACACTAAACCCT
*
27228644 TAAAAACTAAACTATAACCCCTAAAACCCTAAAC
1 TAAAAACTAAACTATAACCCCTAAAACACTAAAC
27228678 TCCAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (37 bp):
TAAAAACTAAACTATAACCCCTAAAACACTAAACCCT
Found at i:27228686 original size:37 final size:37
Alignment explanation
Indices: 27228612--27228686 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
27228602 AATAATAAAC
* *
27228612 ACTAATCTATAACCCCTAAAACACTAAACCCTTAAAA
1 ACTAAACTATAACCCCTAAAACACTAAACCCTAAAAA
*
27228649 ACTAAACTATAACCCCTAAAACCCTAAACTCC-AAAAA
1 ACTAAACTATAACCCCTAAAACACTAAAC-CCTAAAAA
27228686 A
1 A
27228687 TATCATATGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.19
Consensus pattern (37 bp):
ACTAAACTATAACCCCTAAAACACTAAACCCTAAAAA
Found at i:27228805 original size:113 final size:113
Alignment explanation
Indices: 27228665--27228871 Score: 378
Period size: 113 Copynumber: 1.8 Consensus size: 113
27228655 CTATAACCCC
* *
27228665 TAAAACCCTAAACTCCAAAAAATATCATATGGATGTTGATGTGTATATACATAGATATTAATGTA
1 TAAAACCCTAAACCCCAAAAAACATCATATGGATGTTGATGTGTATATACATAGATATTAATGTA
*
27228730 AAAGCTTATGTTCATAATAAATTATGGAATTAAAACTGAAAGGGGTTT
66 AAAGCTTATGTTCATAATAAATTACGGAATTAAAACTGAAAGGGGTTT
*
27228778 TAAAACCTTAAACCCCAAAAAACATCATATGGATGTTGATGTGTATATACATAGATATTAATGTA
1 TAAAACCCTAAACCCCAAAAAACATCATATGGATGTTGATGTGTATATACATAGATATTAATGTA
27228843 AAAGCTTATGTTCATAATAAATTACGGAA
66 AAAGCTTATGTTCATAATAAATTACGGAA
27228872 GCAATACTTA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
113 90 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (113 bp):
TAAAACCCTAAACCCCAAAAAACATCATATGGATGTTGATGTGTATATACATAGATATTAATGTA
AAAGCTTATGTTCATAATAAATTACGGAATTAAAACTGAAAGGGGTTT
Found at i:27229413 original size:19 final size:20
Alignment explanation
Indices: 27229378--27229422 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
27229368 TTAGATTTAA
*
27229378 AAAAACATTGATAAATAAAT
1 AAAAATATTGATAAATAAAT
27229398 AAAAATATTGAT-AATAAAT
1 AAAAATATTGATAAATAAAT
27229417 AAAAAT
1 AAAAAT
27229423 GAAATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAAATATTGATAAATAAAT
Found at i:27231903 original size:22 final size:23
Alignment explanation
Indices: 27231852--27231904 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
27231842 AGAAAACCAT
27231852 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
*
27231874 TTTA-GGTGTTAAATGCTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
27231895 TTTATGGTGT
1 TTTATGGTGT
27231905 CTGAAAGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:27233719 original size:43 final size:42
Alignment explanation
Indices: 27233655--27233884 Score: 248
Period size: 43 Copynumber: 5.4 Consensus size: 42
27233645 TTTTTGAAGT
*
27233655 TCATGATTTTTAGCGGTGTTTGTGAGAAAAGCGCCGCTAAAAG
1 TCATG-TTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
* * * * *
27233698 TCATGTTCTTTAGTGGAGTTTGTGGGAAAAGTGTCGCTAAAAG
1 TCATGTT-TTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
*
27233741 TCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAG
1 TCATG-TTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
* * *
27233784 T-ATGATCTTTAGCGGCGTTTTTG-GAAAAGCGCCGCTAAAGG
1 TCATG-TTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
* * * * *
27233825 TCATGGTTTTTAGCGGCGTTTATAAAAAAAGCGTCGTTAAAAG
1 TCAT-GTTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
*
27233868 TCATGGTCTTTAGCGGC
1 TCAT-GTTTTTAGCGGC
27233885 ATTTTTTTAA
Statistics
Matches: 162, Mismatches: 20, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
41 18 0.11
42 39 0.24
43 103 0.64
44 2 0.01
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (42 bp):
TCATGTTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAG
Found at i:27233842 original size:84 final size:85
Alignment explanation
Indices: 27233655--27233890 Score: 303
Period size: 84 Copynumber: 2.8 Consensus size: 85
27233645 TTTTTGAAGT
* * * *
27233655 TCATGATTTTTAGCGGTGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGTTCTTTAGTGGAGTTTG
1 TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTT-
* * *
27233720 TGGGAAAAGTGTCGCTAAAAG
65 TTGGAAAAGCGCCGCTAAAAG
*
27233741 TCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGT-ATGATCTTTAGCGGCGTTTT
1 TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTT
*
27233805 TGGAAAAGCGCCGCTAAAGG
66 TGGAAAAGCGCCGCTAAAAG
* * * * * * * *
27233825 TCATGGTTTTTAGCGGCGTTTATAAAAAAAGCGTCGTTAAAAGTCATGGTCTTTAGCGGCATTTT
1 TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTT
27233890 T
66 T
27233891 TTAAATAAAC
Statistics
Matches: 131, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 54 0.41
85 35 0.27
86 42 0.32
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.33
Consensus pattern (85 bp):
TCATGATTTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTTTAGCGGCGTTTT
TGGAAAAGCGCCGCTAAAAG
Found at i:27235980 original size:12 final size:10
Alignment explanation
Indices: 27235956--27235989 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
27235946 AAGCATTATA
27235956 TTTCTTTTTT
1 TTTCTTTTTT
*
27235966 TTCCTTTTCTT
1 TTTCTTTT-TT
27235977 TTTCTTTTTT
1 TTTCTTTTTT
27235987 TTT
1 TTT
27235990 GCCATATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:27241229 original size:18 final size:19
Alignment explanation
Indices: 27241206--27241243 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
27241196 TTGAAAAGTA
27241206 TATTATGTGA-TGTGATGT
1 TATTATGTGATTGTGATGT
*
27241224 TATTATTTGATTGTGATGT
1 TATTATGTGATTGTGATGT
27241243 T
1 T
27241244 TGTGCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (19 bp):
TATTATGTGATTGTGATGT
Found at i:27241510 original size:22 final size:22
Alignment explanation
Indices: 27241482--27241533 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
27241472 AGGATGAAGA
*
27241482 TATGTGG-CAGTTTATCTACAAT
1 TATGTGGTC-GTTTATCGACAAT
*
27241504 TATGTGGTCGTTTATCGATAAT
1 TATGTGGTCGTTTATCGACAAT
27241526 TATGTGGT
1 TATGTGGT
27241534 GGCTTGTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.44
Consensus pattern (22 bp):
TATGTGGTCGTTTATCGACAAT
Found at i:27256446 original size:21 final size:21
Alignment explanation
Indices: 27256382--27256446 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
27256372 CAGAAGCAGT
*
27256382 ATACGACACATAAAGTGCCTG
1 ATACGACACATATAGTGCCTG
* * ** *
27256403 AAATGACACACGTGGTGCCTG
1 ATACGACACATATAGTGCCTG
27256424 ATACGACACATATAGTGCCTG
1 ATACGACACATATAGTGCCTG
27256445 AT
1 AT
27256447 CAGCAAAGCC
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (21 bp):
ATACGACACATATAGTGCCTG
Found at i:27257315 original size:12 final size:12
Alignment explanation
Indices: 27257298--27257331 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
27257288 AAAACCTTAG
27257298 TTTTTCCTTTTC
1 TTTTTCCTTTTC
27257310 TTTTT-CTTTTC
1 TTTTTCCTTTTC
27257321 TTCTTTCCTTT
1 TT-TTTCCTTT
27257332 CCCCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:27257453 original size:13 final size:13
Alignment explanation
Indices: 27257413--27257453 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
27257403 ATGTATTAGT
27257413 TAATAATAATAATA
1 TAAT-ATAATAATA
* *
27257427 CATTATAATAATA
1 TAATATAATAATA
27257440 TAATATAATAATA
1 TAATATAATAATA
27257453 T
1 T
27257454 TTAATTCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
13 21 0.91
14 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATATAATAATA
Found at i:27257643 original size:24 final size:23
Alignment explanation
Indices: 27257592--27257645 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
27257582 AATAATAATA
27257592 ATTTAATAATTTAATATAAAGCT
1 ATTTAATAATTTAATATAAAGCT
*
27257615 A--TAATAATTATAATA-AATATCT
1 ATTTAATAATT-TAATATAA-AGCT
27257637 ATTTAATAA
1 ATTTAATAA
27257646 CAAATACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.38
22 9 0.35
23 1 0.04
24 6 0.23
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTTAATAATTTAATATAAAGCT
Found at i:27259851 original size:45 final size:45
Alignment explanation
Indices: 27259786--27259876 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
27259776 CCAAAACATG
27259786 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCAGA
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCAGA
** * *
27259831 TGTCACATATATCATTAACTCATACCACAACTCAATGAGTTTAGA
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCAGA
27259876 T
1 T
27259877 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.27
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:27271755 original size:45 final size:45
Alignment explanation
Indices: 27271705--27271795 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
27271695 CCAAAACATG
* * *
27271705 TGTCACATACATCTTGAACTCAGACCACAACTCAGTGAGTTCAGA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
*
27271750 TGTCACATATATCATGAACTCAAACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
27271795 T
1 T
27271796 CACATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGA
Found at i:27277731 original size:26 final size:26
Alignment explanation
Indices: 27277695--27277753 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
27277685 AACATGTCAG
*
27277695 GAAATGAAAGCCTTTGTACCGTATCT
1 GAAATGAAAGCCTTCGTACCGTATCT
* ***
27277721 GAAATGGAAGCCTTCGTGGTGTATCT
1 GAAATGAAAGCCTTCGTACCGTATCT
27277747 GAAATGA
1 GAAATGA
27277754 GAGCTTTCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (26 bp):
GAAATGAAAGCCTTCGTACCGTATCT
Found at i:27280438 original size:34 final size:38
Alignment explanation
Indices: 27280365--27280448 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 38
27280355 TAAAAGTTAC
*
27280365 ATTAATAGTTATAAAATATATTACTATGTTATATCTAT
1 ATTAATAGTTATAAAATATATTACTATGTTATATATAT
**
27280403 ATTAATAGTTAT-AGTTATA-TA-TATG-TATATATAT
1 ATTAATAGTTATAAAATATATTACTATGTTATATATAT
*
27280437 ATTAACAGTTAT
1 ATTAATAGTTAT
27280449 GTTGTTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 19 0.45
35 4 0.10
36 2 0.05
37 5 0.12
38 12 0.29
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.48
Consensus pattern (38 bp):
ATTAATAGTTATAAAATATATTACTATGTTATATATAT
Found at i:27282583 original size:22 final size:21
Alignment explanation
Indices: 27282553--27282594 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27282543 CTAAGGTCCC
27282553 TTCCCTTCTCATTTTCCTTTCT
1 TTCCCTTCTC-TTTTCCTTTCT
*
27282575 TTCCTTTCTCTTTTCCTTTC
1 TTCCCTTCTCTTTTCCTTTC
27282595 CAAAAACTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (21 bp):
TTCCCTTCTCTTTTCCTTTCT
Found at i:27288387 original size:12 final size:12
Alignment explanation
Indices: 27288370--27288411 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
27288360 GGGACATGCC
27288370 CGTGTTGGAGGT
1 CGTGTTGGAGGT
* **
27288382 CGTGTTCGAGCC
1 CGTGTTGGAGGT
27288394 CGTGTTGGAGGT
1 CGTGTTGGAGGT
27288406 CGTGTT
1 CGTGTT
27288412 CGACCCCGTG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.07, C:0.17, G:0.43, T:0.33
Consensus pattern (12 bp):
CGTGTTGGAGGT
Found at i:27288399 original size:24 final size:24
Alignment explanation
Indices: 27288367--27288422 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
27288357 CTTGGGACAT
27288367 GCCCGTGTTGGAGGTCGTGTTCGA
1 GCCCGTGTTGGAGGTCGTGTTCGA
27288391 GCCCGTGTTGGAGGTCGTGTTCGA
1 GCCCGTGTTGGAGGTCGTGTTCGA
*
27288415 CCCCGTGT
1 GCCCGTGT
27288423 AACTCTCTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.07, C:0.25, G:0.39, T:0.29
Consensus pattern (24 bp):
GCCCGTGTTGGAGGTCGTGTTCGA
Found at i:27288694 original size:41 final size:43
Alignment explanation
Indices: 27288648--27288771 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 43
27288638 CATACGGCCT
* * * **
27288648 AACCACGTGCCCATGTTACCAGG-TTTATGTCATACATTG-TC
1 AACCACATGCCCATGTTACCAGGCTGTATGTCACACACGGTTC
* * *
27288689 AACCACAAGCCCATG-TACCAGGCTGTGTGTCACACACGGTTT
1 AACCACATGCCCATGTTACCAGGCTGTATGTCACACACGGTTC
** *
27288731 AACCACATGCCCATGTTACCAGGCCATGTGTCACACACGGT
1 AACCACATGCCCATGTTACCAGGCTGTATGTCACACACGGT
27288772 CTAGATACAT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 7 0.10
41 24 0.35
42 15 0.22
43 23 0.33
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
AACCACATGCCCATGTTACCAGGCTGTATGTCACACACGGTTC
Found at i:27288744 original size:42 final size:43
Alignment explanation
Indices: 27288689--27288771 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
27288679 ATACATTGTC
**
27288689 AACCACAAGCCCATG-TACCAGGCTGTGTGTCACACACGGTTT
1 AACCACAAGCCCATGTTACCAGGCCATGTGTCACACACGGTTT
*
27288731 AACCACATGCCCATGTTACCAGGCCATGTGTCACACACGGT
1 AACCACAAGCCCATGTTACCAGGCCATGTGTCACACACGGT
27288772 CTAGATACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 14 0.38
43 23 0.62
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (43 bp):
AACCACAAGCCCATGTTACCAGGCCATGTGTCACACACGGTTT
Found at i:27289506 original size:19 final size:20
Alignment explanation
Indices: 27289474--27289511 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
27289464 TCATATCATC
27289474 TCAAGACTTCCATG-CCATG
1 TCAAGACTTCCATGTCCATG
* *
27289493 TCAAGAGTTTCATGTCCAT
1 TCAAGACTTCCATGTCCAT
27289512 TGAATCATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (20 bp):
TCAAGACTTCCATGTCCATG
Found at i:27290376 original size:20 final size:20
Alignment explanation
Indices: 27290335--27290379 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
27290325 AGCACATGTA
* *
27290335 TTCATAAATTTTCAGAATTT
1 TTCATAAATTTTCACAACTT
27290355 TTCATCAAATTTT-ACAACTT
1 TTCAT-AAATTTTCACAACTT
27290375 TTCAT
1 TTCAT
27290380 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAATTTTCACAACTT
Found at i:27291425 original size:13 final size:14
Alignment explanation
Indices: 27291398--27291430 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
27291388 AGGCGAAATT
27291398 ATATACATGGAATA
1 ATATACATGGAATA
27291412 ATATACAT-GAATA
1 ATATACATGGAATA
*
27291425 AAATAC
1 ATATAC
27291431 TCTACAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (14 bp):
ATATACATGGAATA
Found at i:27292090 original size:33 final size:32
Alignment explanation
Indices: 27292027--27292106 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 32
27292017 AATAGGGTCC
*
27292027 TTAAAAGAAACAAATTATATACATAAATAAAT
1 TTAAAAGAAAAAAATTATATACATAAATAAAT
*
27292059 TTAAAAGAAAAAAATATATATATATACATAAATAGAT
1 TTAAAAG--AAAAA-A-AT-TATATACATAAATAAAT
27292096 TTAAAAGAAAA
1 TTAAAAGAAAA
27292107 TATTTACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 7 0.17
34 4 0.10
35 5 0.12
36 2 0.05
37 23 0.56
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.28
Consensus pattern (32 bp):
TTAAAAGAAAAAAATTATATACATAAATAAAT
Found at i:27293118 original size:15 final size:14
Alignment explanation
Indices: 27293085--27293119 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
27293075 GCAACAAGAT
27293085 AAAAAATTAAAGGA
1 AAAAAATTAAAGGA
*
27293099 GAAAAATTAAAGGA
1 AAAAAATTAAAGGA
27293113 AAAAAAT
1 AAAAAAT
27293120 AGCCATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAAATTAAAGGA
Found at i:27294028 original size:45 final size:44
Alignment explanation
Indices: 27293979--27294071 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 44
27293969 AGATTCGCTG
* * * * *
27293979 TCTTTGATCTGC-TCCACTGCTATCTCAGGGAGATAAGATCTACAA
1 TCTTTAATCTGCTTCC-CTGCTACCACAGGAAGATAA-AACTACAA
*
27294024 TCTTTAATCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAA
1 TCTTTAATCTGCTTCCCTGCTACCACAGGAAGATAAAACTACAA
27294068 TCTT
1 TCTT
27294072 CAACCTGTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 11 0.27
45 27 0.66
46 3 0.07
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTTTAATCTGCTTCCCTGCTACCACAGGAAGATAAAACTACAA
Found at i:27294091 original size:44 final size:45
Alignment explanation
Indices: 27294004--27294091 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
27293994 ACTGCTATCT
* * * * *
27294004 CAGGGAGATAAGATCTACAATCTTTAATCTGCTTCCTTGCTACCA
1 CAGGAAGATAAGAACTACAATCTTCAACCTGCTTCCTTACTACCA
27294049 CAGGAAGATAA-AACTACAATCTTCAACCTG-TTCTCTTACTACC
1 CAGGAAGATAAGAACTACAATCTTCAACCTGCTTC-CTTACTACC
27294092 TCTAAAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 3 0.08
44 24 0.65
45 10 0.27
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (45 bp):
CAGGAAGATAAGAACTACAATCTTCAACCTGCTTCCTTACTACCA
Found at i:27294244 original size:177 final size:177
Alignment explanation
Indices: 27294031--27294363 Score: 456
Period size: 177 Copynumber: 1.9 Consensus size: 177
27294021 CAATCTTTAA
27294031 TCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAATCTTCAACCTGTTCTCTTACTACCTCTA
1 TCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAATCTTCAACCTGTTCTCTTACTA-C-CTA
** * * * *
27294096 A-A-AGATAAGGTTGGTGGCTAAAATTTGA-TCCCCTGCTACTTCTGGAAGATAAGAGTCGCCAT
64 AGAGAGATAAGACTGGTGGCTAAAATCT-ACTCCCATGCTACCTCGGGAAGATAAGAGTCGCCAT
* *
27294158 CTTCTATCTGCTCCACTACTGCTTAGGGAAATAATAAATATGATCTTCAG
128 CTTCGATCTGCTCCACTAATGCTTAGGGAAATAATAAATATGATCTTCAG
* * * *
27294208 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACTTGTTCTCTTGCTACCTAAG
1 TCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAATCTTCAACCTGTTCTCTTACTACCTAAG
* * * *
27294273 AGAGATAAGACTGGTGGCTAAAATCTACTCTCATGTTACCTCGGGAAGATAAGATTTGCCATCTT
66 AGAGATAAGACTGGTGGCTAAAATCTACTCCCATGCTACCTCGGGAAGATAAGAGTCGCCATCTT
* *
27294338 CGATCTGCTCTATTAATGCTTAGGGA
131 CGATCTGCTCCACTAATGCTTAGGGA
27294364 GGCAAAATCT
Statistics
Matches: 135, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
175 4 0.03
176 3 0.02
177 128 0.95
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (177 bp):
TCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAATCTTCAACCTGTTCTCTTACTACCTAAG
AGAGATAAGACTGGTGGCTAAAATCTACTCCCATGCTACCTCGGGAAGATAAGAGTCGCCATCTT
CGATCTGCTCCACTAATGCTTAGGGAAATAATAAATATGATCTTCAG
Found at i:27307851 original size:50 final size:50
Alignment explanation
Indices: 27307770--27307877 Score: 171
Period size: 50 Copynumber: 2.2 Consensus size: 50
27307760 TAAATGACCA
*
27307770 TGTATATTTGGCCACATAGGTATGGACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGGACATATGTGATGTTATATTTGATCT
* * *
27307820 TGTATATTCGGCCATATAGGTATGTATATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGGACATATGTGATGTTATATTTGATCT
*
27307870 TGTGTATT
1 TGTATATT
27307878 TGGCTAAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.45
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGGACATATGTGATGTTATATTTGATCT
Found at i:27311293 original size:32 final size:33
Alignment explanation
Indices: 27311257--27311332 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
27311247 GATAAGGCCC
*
27311257 TTAAAAGAAACAAAT-TATATACATAAATAAAT
1 TTAAAAGAAAAAAATATATATACATAAATAAAT
*
27311289 TTAAAAGAAAAAAATATATATACATAAATAGAT
1 TTAAAAGAAAAAAATATATATACATAAATAAAT
27311322 TTAAAAGAAAA
1 TTAAAAGAAAA
27311333 TATTTACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 14 0.34
33 27 0.66
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.26
Consensus pattern (33 bp):
TTAAAAGAAAAAAATATATATACATAAATAAAT
Found at i:27311616 original size:23 final size:22
Alignment explanation
Indices: 27311590--27311643 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
27311580 AATTACAAAG
27311590 AAAAAAAACAT-AAGCTGAAATAA
1 AAAAAAAAC-TCAA-CTGAAATAA
*
27311613 AAAAAAAACTCAATTGAAATAA
1 AAAAAAAACTCAACTGAAATAA
*
27311635 AAATAAAAC
1 AAAAAAAAC
27311644 CAAAGAGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.70, C:0.09, G:0.06, T:0.15
Consensus pattern (22 bp):
AAAAAAAACTCAACTGAAATAA
Found at i:27313550 original size:3 final size:3
Alignment explanation
Indices: 27313542--27313576 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27313532 GAAGTTGAAG
27313542 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27313577 TTTGATAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:27316626 original size:23 final size:26
Alignment explanation
Indices: 27316596--27316660 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
27316586 AATACCCCTA
27316596 CTCATTCTC-CATT-TCAATCATC-T
1 CTCATTCTCTCATTCTCAATCATCAT
27316619 CTCATTCTTCTCATCTCTCAATCATCAT
1 CTCATTC-TCTCAT-TCTCAATCATCAT
27316647 -TCATTCTCTCATTC
1 CTCATTCTCTCATTC
27316661 CCTCTTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
23 7 0.19
24 2 0.05
25 5 0.14
26 7 0.19
27 15 0.41
28 1 0.03
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (26 bp):
CTCATTCTCTCATTCTCAATCATCAT
Found at i:27332770 original size:12 final size:12
Alignment explanation
Indices: 27332755--27332784 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
27332745 TTGAGATTCA
27332755 AGATTTACATCG
1 AGATTTACATCG
27332767 AGATTTACATCG
1 AGATTTACATCG
27332779 AGATTT
1 AGATTT
27332785 TGGAGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (12 bp):
AGATTTACATCG
Found at i:27336783 original size:32 final size:32
Alignment explanation
Indices: 27336746--27336809 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
27336736 AACCTTGGAA
*
27336746 ATCAAAATGATGGACAAGGAAATAGAGCCAAT
1 ATCAAAATGACGGACAAGGAAATAGAGCCAAT
*
27336778 ATCAAATTGACGGACAAGGAAATAGAGCCAAT
1 ATCAAAATGACGGACAAGGAAATAGAGCCAAT
27336810 CATATGCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.16
Consensus pattern (32 bp):
ATCAAAATGACGGACAAGGAAATAGAGCCAAT
Found at i:27340765 original size:59 final size:58
Alignment explanation
Indices: 27340652--27340767 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 58
27340642 ATTTTTTAAT
*
27340652 AAAAATTATAAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGAAATATAG
1 AAAAAATATAAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGAAATATAG
* * *
27340710 AAAAAATAT-AAAATTTTATAA-ATTCGTAAGAAAATGATAAAATATATAAAGAAATATA
1 AAAAAATATAAAAATATTATAATAATCGTAAAAAAAT-AT-AAA-ATATAAAGAAATATA
27340768 AAATTCATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 12 0.24
57 13 0.25
58 11 0.22
59 15 0.29
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (58 bp):
AAAAAATATAAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGAAATATAG
Found at i:27340778 original size:57 final size:54
Alignment explanation
Indices: 27340649--27340788 Score: 140
Period size: 57 Copynumber: 2.5 Consensus size: 54
27340639 TTAATTTTTT
27340649 AATA-AAAATTATAAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGA
1 AATATAAAATTAT-AAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGA
* * * *
27340703 AATATAGAAAAAATATAAAATTTTATAA-ATTCGTAAGAAAATGATAAAATATATAAAGA
1 AATAT---AAAATTATAAAATATTATAATAATCGTAAAAAAAT-AT-AAA-ATATAAAGA
*
27340762 AATATAAAATTCATAAAAGAATTATAA
1 AATATAAAATT-ATAAAA-TATTATAA
27340789 AAATTATCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
54 4 0.06
56 17 0.24
57 19 0.27
58 16 0.23
59 14 0.20
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (54 bp):
AATATAAAATTATAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGA
Found at i:27340809 original size:17 final size:17
Alignment explanation
Indices: 27340787--27340821 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27340777 AAAGAATTAT
27340787 AAAAATTATCATACCAA
1 AAAAATTATCATACCAA
27340804 AAAAATTATCATACCAA
1 AAAAATTATCATACCAA
27340821 A
1 A
27340822 GGGAGCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAATTATCATACCAA
Found at i:27341001 original size:21 final size:22
Alignment explanation
Indices: 27340976--27341020 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
27340966 TTAAATGGCC
* *
27340976 TTTTTGATG-TATTT-TATAAT
1 TTTTTTATGATATTTATAAAAT
27340996 TTTTTTATGATATTTATAAAAT
1 TTTTTTATGATATTTATAAAAT
27341018 TTT
1 TTT
27341021 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTTTATGATATTTATAAAAT
Found at i:27345105 original size:16 final size:17
Alignment explanation
Indices: 27345069--27345107 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
27345059 ATATTTTTAA
27345069 AAAATAAATAAAACTTT
1 AAAATAAATAAAACTTT
*
27345086 -AAATAAAT-AAATTTT
1 AAAATAAATAAAACTTT
27345101 AAAATAA
1 AAAATAA
27345108 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAAATAAAACTTT
Found at i:27345333 original size:27 final size:27
Alignment explanation
Indices: 27345301--27345352 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
27345291 TGTTAAATTT
*
27345301 ATTTAAGGA-ATAAAAAGTACATATTAA
1 ATTTAA-GATATAAAAAATACATATTAA
27345328 ATTTAAGATATAAAAAATACATATT
1 ATTTAAGATATAAAAAATACATATT
27345353 TAAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (27 bp):
ATTTAAGATATAAAAAATACATATTAA
Found at i:27349238 original size:42 final size:42
Alignment explanation
Indices: 27349121--27349284 Score: 202
Period size: 42 Copynumber: 3.9 Consensus size: 42
27349111 TACCATACCA
* * * * *
27349121 ATGCCATTTCCCAGATATGGTCTTACATGTAATCTCGTGTCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
27349163 ATGCCAATAGCCCAGCTATGATCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
27349206 TTGCCATATCCCAGATATGGTTTTACAAGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
27349248 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
27349285 GTAACCCTAA
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 69 0.68
43 33 0.32
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:27355861 original size:45 final size:48
Alignment explanation
Indices: 27355712--27355887 Score: 208
Period size: 45 Copynumber: 3.8 Consensus size: 48
27355702 TCACTTGTGT
27355712 GAGCCAGTGTAAGA-CATGTCT-GGACAT-GCATCGGCCATATTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCCATATTATGA
* * *
27355757 GAGCCATTGTAAGACCATGTCTAGGACATAGTATCGG-CAT-TGA-GA
1 GAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCCATATTATGA
*
27355802 CGAGTGCTAGTGTAAGA-CATGTCT-GGACAT-GCATCGGCCATATTATGA
1 -GA--GCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCCATATTATGA
* *
27355850 GAGCCATTGTAAGACCATGTCTAGGACATAGTATCGGC
1 GAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGC
27355888 ATTGAGACGA
Statistics
Matches: 109, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
45 31 0.28
46 27 0.25
47 26 0.24
48 25 0.23
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATAGCATCGGCCATATTATGA
Found at i:27355876 original size:93 final size:93
Alignment explanation
Indices: 27355717--27355927 Score: 413
Period size: 93 Copynumber: 2.3 Consensus size: 93
27355707 TGTGTGAGCC
27355717 AGTGTAAGACATGTCTGGACATGCATCGGCCATATTATGAGAGCCATTGTAAGACCATGTCTAGG
1 AGTGTAAGACATGTCTGGACATGCATCGGCCATATTATGAGAGCCATTGTAAGACCATGTCTAGG
27355782 ACATAGTATCGGCATTGAGACGAGTGCT
66 ACATAGTATCGGCATTGAGACGAGTGCT
27355810 AGTGTAAGACATGTCTGGACATGCATCGGCCATATTATGAGAGCCATTGTAAGACCATGTCTAGG
1 AGTGTAAGACATGTCTGGACATGCATCGGCCATATTATGAGAGCCATTGTAAGACCATGTCTAGG
27355875 ACATAGTATCGGCATTGAGACGAGTGCT
66 ACATAGTATCGGCATTGAGACGAGTGCT
27355903 AGTGTAAGACATGTCTGGGACATGC
1 AGTGTAAGACATGTCT-GGACATGC
27355928 TTCTGGCTCG
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 109 0.93
94 8 0.07
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCCATATTATGAGAGCCATTGTAAGACCATGTCTAGG
ACATAGTATCGGCATTGAGACGAGTGCT
Found at i:27355952 original size:46 final size:44
Alignment explanation
Indices: 27355717--27356024 Score: 189
Period size: 46 Copynumber: 6.7 Consensus size: 44
27355707 TGTGTGAGCC
** * *
27355717 AGTGTAAGACATGTCT-GGACATGCATCGGCCATATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TACGA-GACGTGCT
* * * *
27355762 ATTGTAAGACCATGTCTAGGACATAGTATCGGC-ATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGAC--GTGCT
** * *
27355810 AGTGTAAGACATGTCT-GGACATGCATCGGCCATATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TACGA-GACGTGCT
* * * *
27355855 ATTGTAAGACCATGTCTAGGACATAGTATCGGC-ATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGAC--GTGCT
*
27355903 AGTGTAAGACATGTCTGGGACATGCTTCTGGCT-CGAGACGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGACGT--GCT
* * *
27355949 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGCT
*
27355993 AGTGTAAGACCATGTCTAGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
27356025 TACAGATATG
Statistics
Matches: 213, Mismatches: 25, Indels: 49
0.74 0.09 0.17
Matches are distributed among these distances:
44 13 0.06
45 48 0.23
46 76 0.36
47 39 0.18
48 37 0.17
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGCT
Found at i:27355962 original size:93 final size:93
Alignment explanation
Indices: 27355717--27356024 Score: 371
Period size: 93 Copynumber: 3.3 Consensus size: 93
27355707 TGTGTGAGCC
* * *
27355717 AGTGTAAGACATGTCTGGACATGCATCGGCCATATTATGAGAGCCATTGTAAGACCATGTCTAGG
1 AGTGTAAGACATGTCTGGACATGCATCGGCCAGATCATGAGAGCCAGTGTAAGACCATGTCTAGG
27355782 ACATAGTATCGGCATTGAGACGAGTGCT
66 ACATAGTATCGGCATTGAGACGAGTGCT
* * *
27355810 AGTGTAAGACATGTCTGGACATGCATCGGCCATATTATGAGAGCCATTGTAAGACCATGTCTAGG
1 AGTGTAAGACATGTCTGGACATGCATCGGCCAGATCATGAGAGCCAGTGTAAGACCATGTCTAGG
27355875 ACATAGTATCGGCATTGAGACGAGTGCT
66 ACATAGTATCGGCATTGAGACGAGTGCT
* * *
27355903 AGTGTAAGACATGTCTGGGACATGCTTCTGGCTCGAGA-CGT-A-AGCTAGTGTAAGA-CATGTC
1 AGTGTAAGACATGTCT-GGACATGCATC-GGC-C-AGATCATGAGAGCCAGTGTAAGACCATGTC
* * * *
27355964 TGGGACAT-GCATCGGC-TATGAGA--TGTGTT
62 TAGGACATAGTATCGGCAT-TGAGACGAGTGCT
27355993 AGTGTAAGACCATGTCTAGGACATGGCATCGG
1 AGTGTAAGA-CATGTCT-GGACAT-GCATCGG
27356025 TACAGATATG
Statistics
Matches: 196, Mismatches: 12, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
90 13 0.07
91 16 0.08
92 16 0.08
93 122 0.62
94 21 0.11
95 4 0.02
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGACATGCATCGGCCAGATCATGAGAGCCAGTGTAAGACCATGTCTAGG
ACATAGTATCGGCATTGAGACGAGTGCT
Found at i:27360947 original size:41 final size:40
Alignment explanation
Indices: 27360820--27360964 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
27360810 CTCGCACAAG
* * * * * * *
27360820 GCCTTCGGGTCTTAACCCGGATATGGTCACTAACATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAA
*
27360860 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAA
* * *
27360900 GCCTTC-GGATCTTAGTCCGGATGTAGTCGTTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCG-CTAGCACAAAA
27360941 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27360965 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAA
Found at i:27361177 original size:41 final size:40
Alignment explanation
Indices: 27361066--27361194 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
27361056 ATTTACGATT
* *
27361066 CCGGATAT-GATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TCGCTAGCACAAATGCCTTCGGGACTTAGC
*
27361106 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTCGCTAGCACAAATGCCTTCGGGA-CTTAGC
* *
27361146 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCGC-TAGCACAAATGCCTTCGGGACTTAGC
27361187 CCGGATAT
1 CCGGATAT
27361195 CATTCGAGTA
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
39 3 0.04
40 44 0.56
41 28 0.36
42 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCGCTAGCACAAATGCCTTCGGGACTTAGC
Found at i:27361239 original size:230 final size:230
Alignment explanation
Indices: 27360836--27361291 Score: 876
Period size: 230 Copynumber: 2.0 Consensus size: 230
27360826 GGGTCTTAAC
*
27360836 CCGGATATGGTCACTAACATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCGGATATGATCACTAACATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
*
27360901 CCTTCGGATCTTAGTCCGGATGTAGTCGTTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATC
66 CCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATC
27360966 ATTCGAGTAACCACGCACATATATCAATAAATCATGACACATTCATATTTCATTTTCATTACCAA
131 ATTCGAGTAACCACGCACATATATCAATAAATCATGACACATTCATATTTCATTTTCATTACCAA
27361031 AGCTCAAACACAAGACACTTATCACATTTACGATT
196 AGCTCAAACACAAGACACTTATCACATTTACGATT
*
27361066 CCGGATATGATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
1 CCGGATATGATCACTAACATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
27361131 CCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATC
66 CCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATC
*
27361196 ATTCGAGTAACCATGCACATATATCAATAAATCATGACACATTCATATTTCATTTTCATTACCAA
131 ATTCGAGTAACCACGCACATATATCAATAAATCATGACACATTCATATTTCATTTTCATTACCAA
27361261 AGCTCAAACACAAGACACTTATCACATTTAC
196 AGCTCAAACACAAGACACTTATCACATTTAC
27361292 AATTTCGGCT
Statistics
Matches: 222, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
230 222 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (230 bp):
CCGGATATGATCACTAACATAAATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATG
CCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATC
ATTCGAGTAACCACGCACATATATCAATAAATCATGACACATTCATATTTCATTTTCATTACCAA
AGCTCAAACACAAGACACTTATCACATTTACGATT
Found at i:27368430 original size:41 final size:40
Alignment explanation
Indices: 27368303--27368447 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
27368293 CTCGCACAAG
* * * * * * * *
27368303 GCCTTCGGGTCTTAACTCGGATATGGTCACTAACATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAA
*
27368343 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAA
* * *
27368383 GCCTTC-GGATCTTAGTCCGGATGTAGTCGTTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCG-CTAGCACAAAA
27368424 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27368448 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAA
Found at i:27376567 original size:80 final size:80
Alignment explanation
Indices: 27376340--27376621 Score: 351
Period size: 80 Copynumber: 3.5 Consensus size: 80
27376330 GAAATTTAAT
** *
27376340 CGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC-AAT
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAAT
**
27376402 GCCTTCGGGA-CTTAACC
64 GCCTTC-GGATCTTAGTC
* * * *
27376419 CGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
27376483 CTTCGGATCTTAGTC
66 CTTCGGATCTTAGTC
* *
27376498 CGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
*
27376563 CTTCGGATCTAAGTC
66 CTTCGGATCTTAGTC
* * *
27376578 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
27376622 CATCATTCGA
Statistics
Matches: 176, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
78 25 0.14
79 70 0.40
80 73 0.41
81 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
CTTCGGATCTTAGTC
Found at i:27376621 original size:40 final size:40
Alignment explanation
Indices: 27376340--27376621 Score: 317
Period size: 40 Copynumber: 7.1 Consensus size: 40
27376330 GAAATTTAAT
** *
27376340 CGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCC
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
27376380 CGGTTATAGTAACTCGCAC-AATGCCTTCGGGACTTAACC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
27376419 CGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* *
27376458 CGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCC
* *
27376498 CGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
* * *
27376538 CGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTAAGTC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCC
* * *
27376578 CGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
27376618 CGGA
1 CGGA
27376622 CATCATTCGA
Statistics
Matches: 205, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 70 0.34
40 118 0.58
41 15 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
Found at i:27378024 original size:30 final size:31
Alignment explanation
Indices: 27377988--27378048 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
27377978 GGCCGGCCAC
27377988 TACTCATTA-GGGGGGGAATTTGACATGCAA
1 TACTCATTAGGGGGGGGAATTTGACATGCAA
27378018 TACTCATTAGGGGGGGGAATTTGACATGCAA
1 TACTCATTAGGGGGGGGAATTTGACATGCAA
27378049 GTCCCCCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (31 bp):
TACTCATTAGGGGGGGGAATTTGACATGCAA
Found at i:27386301 original size:36 final size:36
Alignment explanation
Indices: 27386250--27386322 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
27386240 ACCACTTTTA
* *
27386250 AGGTGTTGCCTCGTAGGACTGGAAACACAAAAATAT
1 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
27386286 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
1 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
27386322 A
1 A
27386323 TATACTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (36 bp):
AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
Found at i:27388516 original size:47 final size:47
Alignment explanation
Indices: 27388444--27388805 Score: 188
Period size: 46 Copynumber: 7.7 Consensus size: 47
27388434 GTATAATGCG
* ** *
27388444 GATGCCATGTCCCAGTCATACTCTTACACTAGCTCATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCC
* * * *
27388491 GATGCCATGTCCCAAACATGGTCTTACA-GA-CT-ATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATC-AAGCC
* * **
27388538 GACGCCATATCCCATGACATGGTCTTACACTAGCTC-TCACATATCCGTGCC
1 GATGCCATGTCCCA-GACATGGTCTTACACTAGCTCATC-C--AT-CAAGCC
* * * * *
27388589 AATGCCATGTCCCATACATGGTCTTACACT-GACACAT-C-TCGTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCCATC-AAGCC
* * * *
27388635 GATG-TATGTCCCAGACAT-GTCTTACACTGGTTTACAT-C-TCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CT-CATCCATC-AAGCC
* *
27388681 GATG-CATGTCCCAAACAT-GTCTTACGCTAGCTC-TCGTC-TCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATCAA-GCC
*
27388727 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAA----GCC
27388775 GATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
27388806 ACATAGATAA
Statistics
Matches: 247, Mismatches: 43, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 14 0.06
45 21 0.09
46 68 0.28
47 66 0.27
48 34 0.14
49 4 0.02
50 21 0.09
51 17 0.07
52 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCC
Found at i:27388690 original size:46 final size:45
Alignment explanation
Indices: 27388594--27388802 Score: 199
Period size: 46 Copynumber: 4.5 Consensus size: 45
27388584 GTGCCAATGC
* * * *
27388594 CATGTCCCATACATGGTCTTACACT-GACACATCTCGTA-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGTCTCATCTCG-AGGCCGATG
* *
27388639 TATGTCCCAGACATGTCTTACACTGGTTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGTCT-CATCTCGAGGCCGATG
* * * * * *
27388685 CATGTCCCAAACATGTCTTACGCTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GGTCTCATCTCGAGGCCGATG
* *
27388731 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGG-TCTCAT-CTCGAGGCCGATG
27388779 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
27388803 AGCACATAGA
Statistics
Matches: 134, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.07
45 14 0.10
46 57 0.43
47 31 0.23
48 21 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGTCTCATCTCGAGGCCGATG
Found at i:27391476 original size:65 final size:65
Alignment explanation
Indices: 27391401--27391550 Score: 228
Period size: 65 Copynumber: 2.3 Consensus size: 65
27391391 TGCGGACTAC
* **
27391401 CGCAGCTCTTTCTAAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGGGGACACAAA
1 CGCAGCTCTTTCTGAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAA
* *
27391466 CGCAGCTCTTTCTGAGCGTCCTGTTATATGATCGGTTGTGATCCTGCATATGTTGCAGACACAAA
1 CGCAGCTCTTTCTGAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAA
* * *
27391531 TGCATCTCTTTGTGAGTGTC
1 CGCAGCTCTTTCTGAGTGTC
27391551 TTACTATGGC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (65 bp):
CGCAGCTCTTTCTGAGTGTCCTGTTATATGATCGGTTGTGATCCTGCATATATTGCAGACACAAA
Found at i:27392007 original size:17 final size:16
Alignment explanation
Indices: 27391969--27392008 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27391959 ATATCTGCCT
27391969 GAAATACATGAAAATG
1 GAAATACATGAAAATG
* *
27391985 GTAATACATGATATATG
1 GAAATACATGA-AAATG
27392002 GAAATAC
1 GAAATAC
27392009 GAGATAATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.25
Consensus pattern (16 bp):
GAAATACATGAAAATG
Found at i:27398444 original size:43 final size:43
Alignment explanation
Indices: 27398383--27398468 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
27398373 GTTACATGAA
* *
27398383 TCGCATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
27398426 TCGCATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
27398469 AACATATATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
Found at i:27398498 original size:42 final size:43
Alignment explanation
Indices: 27398396--27398548 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 43
27398386 CATCCATTAT
* * * ** ** * *
27398396 GAACTCGGACCTCTCAACGAGCTCGGATGCTCGCATCCATAAT
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* *
27398439 GAACTCGGACCTCTCAACAAGCTCGGATGC-AACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* * * *
27398481 GAACTTGGACCACTCAACAAGTTCAGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* * *
27398524 GAACTCGAACCGCTCAACGAGCTCA
1 GAACTCGGACCACTCAACAAGCTCA
27398549 AATTTCTAAA
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 31 0.34
43 60 0.66
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (43 bp):
GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
Found at i:27402541 original size:32 final size:32
Alignment explanation
Indices: 27402500--27402563 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
27402490 AAAGTCTAGG
27402500 GGTAAAATGGTCAT-TTTGCCAAAGTATAAATT
1 GGTAAAATGGTCATGTTT-CCAAAGTATAAATT
27402532 GGTAAAATGGTCATGTTTCCAAAGTATAAATT
1 GGTAAAATGGTCATGTTTCCAAAGTATAAATT
27402564 ATGGAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 28 0.90
33 3 0.10
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (32 bp):
GGTAAAATGGTCATGTTTCCAAAGTATAAATT
Found at i:27409222 original size:43 final size:43
Alignment explanation
Indices: 27409132--27409225 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
27409122 TGTGGTTACG
* * * *
27409132 TGTAAGACCGTGCCTGGGACATTGGCATCGATAATCGACTATG
1 TGTAAGACCCTGCCTGGGACAGTGGCATCGATAATCGAATATA
*
27409175 TGTAAGACCCTGTCTGGGACAGTGGCATCGAT-AT-GTAATAATA
1 TGTAAGACCCTGCCTGGGACAGTGGCATCGATAATCG-AAT-ATA
27409218 TGTAAGAC
1 TGTAAGAC
27409226 TATATCTGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.02
42 4 0.09
43 39 0.89
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (43 bp):
TGTAAGACCCTGCCTGGGACAGTGGCATCGATAATCGAATATA
Found at i:27411184 original size:27 final size:25
Alignment explanation
Indices: 27411125--27411185 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
27411115 AGTTTTCTCC
*
27411125 TAAATTTTAATTTGTTTTAATTATT
1 TAAATTTTAATTTGTTTTAATTAGT
*
27411150 TAACTTTTCAATTTGTTTTGAATT-GT
1 TAAATTTT-AATTTGTTTT-AATTAGT
27411176 TAATATTTTA
1 TAA-ATTTTA
27411186 GACTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 7 0.23
26 15 0.50
27 8 0.27
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.61
Consensus pattern (25 bp):
TAAATTTTAATTTGTTTTAATTAGT
Found at i:27418375 original size:22 final size:23
Alignment explanation
Indices: 27418349--27418394 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
27418339 CAACCAAACC
27418349 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
27418371 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
27418394 A
1 A
27418395 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:27418400 original size:23 final size:23
Alignment explanation
Indices: 27418356--27418400 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27418346 ACCAATTCAA
*
27418356 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
27418379 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
27418401 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:27426645 original size:23 final size:23
Alignment explanation
Indices: 27426598--27426651 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
27426588 GTAGTAGGGG
* ***
27426598 ACAGTGGTTTTGGTAAAATTGGA
1 ACAGTGGTTTTGATAAAACCAGA
27426621 ACAGTGGTTTTGATAAAACCAGA
1 ACAGTGGTTTTGATAAAACCAGA
27426644 ACAGTGGT
1 ACAGTGGT
27426652 CTCGGGACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (23 bp):
ACAGTGGTTTTGATAAAACCAGA
Found at i:27432236 original size:28 final size:29
Alignment explanation
Indices: 27432182--27432236 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
27432172 ACAGGGGTTT
*
27432182 TCACACGGCCAAGCACACCCACGTGTCCC
1 TCACACGGCCAAGCACACACACGTGTCCC
* *
27432211 TCACACGGCCATG-ACACACTCGTGTC
1 TCACACGGCCAAGCACACACACGTGTC
27432237 GTAGCCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.24, C:0.44, G:0.18, T:0.15
Consensus pattern (29 bp):
TCACACGGCCAAGCACACACACGTGTCCC
Found at i:27434235 original size:50 final size:50
Alignment explanation
Indices: 27434160--27434292 Score: 205
Period size: 50 Copynumber: 2.7 Consensus size: 50
27434150 ATCTATTCTG
* **
27434160 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
27434210 AGGTCACGTGTGTAGGACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
27434260 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
27434293 TGCGTACTAG
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
49 30 0.39
50 46 0.61
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:27436105 original size:46 final size:46
Alignment explanation
Indices: 27436038--27436210 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
27436028 AACCTGCCCC
* * *
27436038 TAAGTGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* * * * * * * *
27436084 TAAGTGAGCTCGGACTCAACTCAATGAGTTCGAATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA
* * *
27436130 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
27436177 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27436211 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 2 0.02
46 63 0.64
47 31 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:27436152 original size:93 final size:93
Alignment explanation
Indices: 27436043--27436213 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
27436033 GCCCCTAAGT
* * * *
27436043 GAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAGCTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27436108 TGAGTTCGAATGCCTAGTTACATTTCAC
66 CGAGTTCGAATGCCTAGTTACATTTCAC
*
27436136 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27436201 CGAGTTCGGATGC
66 CGAGTTCGAATGC
27436214 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATTTCAC
Done.