Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 119 of 770
Found at i:34391444 original size:23 final size:25
Alignment explanation
Indices: 34391418--34391468 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
34391408 CCAACACATC
34391418 AATA-ACT-CAGCAAAGCTGCCAGT
1 AATATACTGCAGCAAAGCTGCCAGT
* *
34391441 AATATTATTGCAGCAAAGCTGCTAGT
1 AATA-TACTGCAGCAAAGCTGCCAGT
34391467 AA
1 AA
34391469 CAGAATTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
25 2 0.09
26 17 0.74
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (25 bp):
AATATACTGCAGCAAAGCTGCCAGT
Found at i:34391454 original size:26 final size:26
Alignment explanation
Indices: 34391425--34391489 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
34391415 ATCAATAACT
* **
34391425 CAGCAAAGCTGCCAGTAATATTATTG
1 CAGCAAAGCTGCCAGTAACAGAATTG
*
34391451 CAGCAAAGCTGCTAGTAACAGAATTG
1 CAGCAAAGCTGCCAGTAACAGAATTG
*
34391477 CAGTAAAGCTGCC
1 CAGCAAAGCTGCC
34391490 GGTATCAGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGAATTG
Found at i:34395096 original size:40 final size:39
Alignment explanation
Indices: 34395052--34395194 Score: 187
Period size: 39 Copynumber: 3.6 Consensus size: 39
34395042 GTTCAAAACA
* * ** * *
34395052 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
34395092 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
34395132 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
34395171 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
34395195 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 52 0.57
40 40 0.43
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:34403141 original size:40 final size:39
Alignment explanation
Indices: 34403097--34403239 Score: 187
Period size: 39 Copynumber: 3.6 Consensus size: 39
34403087 GTTCAAAACA
* * ** * *
34403097 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
34403137 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
34403177 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
34403216 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
34403240 CTCGAACATT
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 52 0.57
40 40 0.43
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:34407048 original size:101 final size:101
Alignment explanation
Indices: 34406916--34407098 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 101
34406906 CCAACAATTT
* * *
34406916 GGTACACATAGTAGCCTACACTTAGTACTACACACATGACGTAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTACACTTAATACTACACACACGACCTAACCATCTGATACACGTAGTAGC
*
34406981 CTGCACTTAGTACTACATACATGATCGAAGTTGTCA
66 CTACACTTAGTACTACATACATGATCGAAGTTGTCA
* * ** * * *
34407017 GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCTAACTATCTGGTACATGTAGTAGC
1 GGTACACATAGTAGCCTACACTTAATACTACACACACGACCTAACCATCTGATACACGTAGTAGC
34407082 CTACACTTAGTACTACA
66 CTACACTTAGTACTACA
34407099 CACGTGACCT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
GGTACACATAGTAGCCTACACTTAATACTACACACACGACCTAACCATCTGATACACGTAGTAGC
CTACACTTAGTACTACATACATGATCGAAGTTGTCA
Found at i:34407108 original size:50 final size:50
Alignment explanation
Indices: 34406868--34407110 Score: 245
Period size: 50 Copynumber: 4.9 Consensus size: 50
34406858 AAGCTATTTA
* * * * *
34406868 GTACGCATAGTAGTCTGCACTTAGTACTACACATGTGACC-AACAATTTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG
* * * *
34406917 GTACACATAGTAGCCTACACTTAGTACTACACACATGACGTAACCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG
* * * * * * * * *
34406967 ATACACGTAGTAGCCTGCACTTAGTACTACATACATGATCGAAGTTGTCAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTG
* * * *
34407018 GTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCTAACTATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG
** *
34407068 GTACATGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
34407111 AACCATCTTA
Statistics
Matches: 153, Mismatches: 39, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
49 34 0.22
50 83 0.54
51 36 0.24
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTG
Found at i:34409861 original size:15 final size:15
Alignment explanation
Indices: 34409843--34409878 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
34409833 CAAGAAAACT
* *
34409843 AAGATTAAGAAGTCC
1 AAGATAAAGAAATCC
34409858 AAGATAAAGAAATCC
1 AAGATAAAGAAATCC
34409873 AAGATA
1 AAGATA
34409879 CAATATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.17
Consensus pattern (15 bp):
AAGATAAAGAAATCC
Found at i:34412571 original size:18 final size:18
Alignment explanation
Indices: 34412548--34412583 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34412538 TCATAAAAGC
34412548 ATCTATCATAAAACTAAG
1 ATCTATCATAAAACTAAG
34412566 ATCTATCATAAAACTAAG
1 ATCTATCATAAAACTAAG
34412584 TCCCTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
ATCTATCATAAAACTAAG
Found at i:34414802 original size:15 final size:15
Alignment explanation
Indices: 34414782--34414812 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34414772 AAGGCTGATG
34414782 TTGGATATACCACAA
1 TTGGATATACCACAA
34414797 TTGGATATACCACAA
1 TTGGATATACCACAA
34414812 T
1 T
34414813 CTATGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (15 bp):
TTGGATATACCACAA
Found at i:34427211 original size:101 final size:99
Alignment explanation
Indices: 34427036--34427267 Score: 268
Period size: 101 Copynumber: 2.3 Consensus size: 99
34427026 CTGGTACGCA
* * *
34427036 TAGTAGCCTGCACTTAGTACTACACATGTGACAAACAATCCGGTACACTTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAACAATCCGGTACACATAATAGCCTGCACTTA
* ** *
34427101 GTACTACACACGTGATGTAACCAT-TTGATACACG
66 GTACTACACACGCGACCTAACCATCTAG-TACACG
* * *** * *
34427135 TCGTAGCCTGCACTTTGTACTACACACGTGATCAAAGTTGTCGGGTACGCATAATAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-CAATCCGGTACACATAATAGCCTGCACT
* *
34427200 TAGTACTACACATGCGACCTAACTATCTAGTACACG
64 TAGTACTACACACGCGACCTAACCATCTAGTACACG
* *
34427236 TAGTAGCCTGCACTTAGTACTAAACACATGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
34427268 CTAAAACCAT
Statistics
Matches: 110, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
99 28 0.25
100 5 0.05
101 75 0.68
102 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAACAATCCGGTACACATAATAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTAGTACACG
Found at i:34427269 original size:50 final size:50
Alignment explanation
Indices: 34427022--34427271 Score: 241
Period size: 50 Copynumber: 5.0 Consensus size: 50
34427012 GTAACTAAAG
* * *
34427022 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * **
34427071 CAATCCGGTACACTTAGTAGCCTGCACTTAGTACTACACACGTGATGTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * * * *
34427121 CCATTTGATACACGTCGTAGCCTGCACTTTGTACTACACACGTGATCAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * * * * *
34427171 GTTGTCGGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
* * * *
34427222 CTATCTAGTACACGTAGTAGCCTGCACTTAGTACTAAACACATGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
34427272 AACCATATTA
Statistics
Matches: 157, Mismatches: 42, Indels: 3
0.78 0.21 0.01
Matches are distributed among these distances:
49 40 0.25
50 82 0.52
51 35 0.22
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
Found at i:34436818 original size:27 final size:26
Alignment explanation
Indices: 34436770--34436827 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
34436760 GCAAAGCTGC
*
34436770 CAGATATTGTGACGAAGTCACCAGACA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
34436797 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
34436823 CAGAT
1 CAGAT
34436828 CTATATACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:34438984 original size:21 final size:22
Alignment explanation
Indices: 34438933--34438984 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
34438923 AATAAAAATT
34438933 ATTAATAATTCAATGAATTAAA
1 ATTAATAATTCAATGAATTAAA
* *
34438955 A-AAATAATTCATTGAA-TAAA
1 ATTAATAATTCAATGAATTAAA
*
34438975 ATTAAGAATT
1 ATTAATAATT
34438985 AAGAGAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 5 0.20
21 19 0.76
22 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (22 bp):
ATTAATAATTCAATGAATTAAA
Found at i:34446183 original size:46 final size:46
Alignment explanation
Indices: 34446122--34446250 Score: 188
Period size: 46 Copynumber: 2.8 Consensus size: 46
34446112 TAACTAGGCA
*
34446122 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
* * * *
34446168 TCCGAACTCGTTGAGTTGAGTACGAGTTCAGTTATGGATACGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
*
34446214 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TC-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34446251 GTGGGTTACA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 72 0.99
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACG
Found at i:34452535 original size:37 final size:36
Alignment explanation
Indices: 34452485--34452571 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
34452475 TACAAAGTCT
34452485 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
34452521 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
34452558 TCACCCGGAACATA
1 T-ACCCGG-ACATA
34452572 TTTCCAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:34452712 original size:49 final size:49
Alignment explanation
Indices: 34452654--34453042 Score: 697
Period size: 49 Copynumber: 7.9 Consensus size: 49
34452644 AGATATACGC
*
34452654 TTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
*
34452703 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATATACAT
*
34452754 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
*
34452803 TTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
34452852 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
34452901 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
34452950 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
* *
34452999 TTTCACGTTCATCACATCGGCCATTAGGCCTTATATACATATAT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTAT-CACATATAT
34453043 TATTATGTAC
Statistics
Matches: 330, Mismatches: 7, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
49 275 0.83
50 8 0.02
51 47 0.14
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
Found at i:34455617 original size:46 final size:46
Alignment explanation
Indices: 34455555--34455683 Score: 179
Period size: 46 Copynumber: 2.8 Consensus size: 46
34455545 TAACTAGGCA
*
34455555 TCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* *
34455601 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATACTAACG
1 TCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * *
34455647 -CTCGAGCTTGTTGAGTTGATTCCGAGTTCGCTTATGG
1 TC-CGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGG
34455684 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 73 0.99
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (46 bp):
TCCGAGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:34463005 original size:48 final size:48
Alignment explanation
Indices: 34462934--34463205 Score: 309
Period size: 48 Copynumber: 5.7 Consensus size: 48
34462924 GATATGTACA
* *
34462934 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCTACATTATAAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAGAG
* ** *
34462982 CTAGTGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATCTAT--GCG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TACAT-TATGAGAG
* * *
34463030 CTAGTGTAAGACCATGTTTGGGACATGGGATCGGCCACATTATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAGAG
* ** *
34463078 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GATGAGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TACATTATGAGAG
* ** *
34463126 CTAGTGTAAGACCATGTCTGGGACACGGCATCGGCCT-CAACATGTGAG
1 CTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACATTATGAGAG
* *
34463174 CCAGTGTAAGACCATGTCTGGGATATGGCATC
1 CTAGTGTAAGACCATGTCTGGGACATGGCATC
34463206 AACATTTTAC
Statistics
Matches: 190, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
46 3 0.02
47 3 0.02
48 176 0.93
49 5 0.03
50 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAGAG
Found at i:34463098 original size:96 final size:96
Alignment explanation
Indices: 34462934--34463211 Score: 387
Period size: 96 Copynumber: 2.9 Consensus size: 96
34462924 GATATGTACA
* * *
34462934 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCTACATTATAAGAGCTAGTGTAAGACCATGT
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
* ** *
34462999 CTGGGACATGGCATCAGCGTTGATCT-ATGCG
66 CTGGGACATGGCATCAGCATTGAGATGA-GAG
*
34463030 CTAGTGTAAGACCATGTTTGGGACATGGGATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
*
34463095 CTGGGACATGGCATCGGCATTGAGATGAGAG
66 CTGGGACATGGCATCAGCATTGAGATGAGAG
* * * ** *
34463126 CTAGTGTAAGACCATGTCTGGGACACGGCATCGGCCTCAACATGTGAGCCAGTGTAAGACCATGT
1 CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
* *
34463191 CTGGGATATGGCATCAACATT
66 CTGGGACATGGCATCAGCATT
34463212 TTACCTTCTT
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
96 161 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (96 bp):
CTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCAGCATTGAGATGAGAG
Found at i:34463196 original size:144 final size:144
Alignment explanation
Indices: 34462936--34463201 Score: 365
Period size: 144 Copynumber: 1.8 Consensus size: 144
34462926 TATGTACACT
* *
34462936 AGTGTAAGACCATGTTTGGGACATGGCATCGGCTACATTATAAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACATGATAAGAGCTAGTGTAAGACCATGTCT
* * * * * * *
34463001 GGGACATGGCATCAGCGTTGATCTATGCGCTAGTGTAAGACCATGTTTGGGACATGGGATCGGCC
66 GGGACACGGCATCAGCGCTCAACTATGAGCCAGTGTAAGACCATGTCTGGGACATGGGATCGGCC
34463066 ACATTATGAGAGCC
131 ACATTATGAGAGCC
** *
34463080 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GATGAGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TACATGATAAGAGCTAGTGTAAGACCATGTC
* * *
34463144 TGGGACACGGCATCGGC-CTCAACATGTGAGCCAGTGTAAGACCATGTCTGGGATATGG
65 TGGGACACGGCATCAGCGCTCAAC-TATGAGCCAGTGTAAGACCATGTCTGGGACATGG
34463202 CATCAACATT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
143 3 0.03
144 100 0.95
145 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTACATGATAAGAGCTAGTGTAAGACCATGTCT
GGGACACGGCATCAGCGCTCAACTATGAGCCAGTGTAAGACCATGTCTGGGACATGGGATCGGCC
ACATTATGAGAGCC
Found at i:34464124 original size:49 final size:49
Alignment explanation
Indices: 34464052--34464151 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
34464042 ATTAGGAGAT
34464052 GATTAATTTTTAGTGAAGAAGAGTTGAAACTGTCGAACAACAGAACAAG
1 GATTAATTTTTAGTGAAGAAGAGTTGAAACTGTCGAACAACAGAACAAG
* *
34464101 GATTAATTTTTAGTGAAGAAGAGTTGAAACTGTCGAACAGCAGAACCAG
1 GATTAATTTTTAGTGAAGAAGAGTTGAAACTGTCGAACAACAGAACAAG
34464150 GA
1 GA
34464152 AGAGTTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (49 bp):
GATTAATTTTTAGTGAAGAAGAGTTGAAACTGTCGAACAACAGAACAAG
Found at i:34470974 original size:64 final size:64
Alignment explanation
Indices: 34470859--34470999 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 64
34470849 CATCAATTAT
* *
34470859 ATATGTACTTACCATACATGCAATATTATAGCAGTTAAAATATGGCACATATTGCATAATTTGC
1 ATATGAACTTACCATACATGCAATATTATAGCAGTTAAAATATGGCACATATTGCATAACTTGC
* * *** *
34470923 ATATGAACTTATCATACATGCAATATT-TAAGCATTTAAAATA-GATTTCATATTGCATTACTTG
1 ATATGAACTTACCATACATGCAATATTAT-AGCAGTTAAAATATG-GCACATATTGCATAACTTG
34470986 C
64 C
**
34470987 ATACAAACTTACC
1 ATATGAACTTACC
34471000 TCGATACCAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.03
64 62 0.97
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.35
Consensus pattern (64 bp):
ATATGAACTTACCATACATGCAATATTATAGCAGTTAAAATATGGCACATATTGCATAACTTGC
Found at i:34474360 original size:42 final size:41
Alignment explanation
Indices: 34474313--34474415 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 41
34474303 TATGAGTTTA
* * *
34474313 CGTGTAAAACCATATCTGGGATATGACATC-ATTATGAGATTT
1 CGTGTAAGACCATATCTGGGACATGACATCGA-TATGAGA-AT
* * * *
34474355 TGTGTAAGACCATGTCAGGGACATGGCATCGATATGAGAAT
1 CGTGTAAGACCATATCTGGGACATGACATCGATATGAGAAT
*
34474396 CGTGTAAGACCATAGCTGGG
1 CGTGTAAGACCATATCTGGG
34474416 CTATTAGCAT
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 17 0.35
42 31 0.63
43 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (41 bp):
CGTGTAAGACCATATCTGGGACATGACATCGATATGAGAAT
Found at i:34481871 original size:38 final size:38
Alignment explanation
Indices: 34481801--34481914 Score: 120
Period size: 38 Copynumber: 2.9 Consensus size: 38
34481791 ATTTGATGTG
* *
34481801 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTAGTGCTGGTAAAA
* * **
34481841 TATCCGGGTTAAATCCCGCAAGCTTTGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAAAA
* * *
34481879 TATCCAGGATAATATCCCGCAGGCCTAGTGCTGGTA
1 TATCCGGGTTAA-ATCCCGCAGGCTTAGTGCTGGTA
34481915 TTATATTCGG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
38 30 0.48
39 25 0.40
40 8 0.13
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAAAA
Found at i:34481910 original size:39 final size:38
Alignment explanation
Indices: 34481817--34481920 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
34481807 GGCTTAAAGA
* ** * *
34481817 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCAGGATAAAT
* *
34481855 CCCGCAAGCTTTGTGCTGGTATTATATCCAGGATAATAT
1 CCCGCAGGCTTAGTGCTGGTATTATATCCAGGATAA-AT
*
34481894 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTAGTGCTGGTATTATAT
34481921 TCGGGCCTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 30 0.54
39 26 0.46
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTAGTGCTGGTATTATATCCAGGATAAAT
Found at i:34482042 original size:43 final size:43
Alignment explanation
Indices: 34481918--34482024 Score: 205
Period size: 43 Copynumber: 2.5 Consensus size: 43
34481908 GCTGGTATTA
*
34481918 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
34481961 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
34482004 TATTCGGGCCTTCGTGCCTAG
1 TATTCGGGCCTTCGTGCCTAG
34482025 TAGACGTAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.10, C:0.26, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:34482428 original size:45 final size:45
Alignment explanation
Indices: 34482361--34482487 Score: 122
Period size: 45 Copynumber: 2.9 Consensus size: 45
34482351 TTGATTTGAT
* * *
34482361 TATTCGGGCCTTT-GAGCTTAGCAGACTATAATGTCGGT-AAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGACTATAAAGCCGGTGAA-ATGA
*
34482405 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGCCGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGACTATAAAGCCGGTGAAATGA
* * *
34482451 TA-TCGGGC-CTCGAGCCTAGCAGACGA-AATGCCGGTGA
1 TATTCGGGCTTTCGAGCCTAGCAGACTATAAAGCCGGTGA
34482488 TTTGAGAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 10 0.14
43 15 0.21
44 10 0.14
45 33 0.46
46 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGACTATAAAGCCGGTGAAATGA
Found at i:34485044 original size:164 final size:165
Alignment explanation
Indices: 34484744--34485073 Score: 556
Period size: 164 Copynumber: 2.0 Consensus size: 165
34484734 GGTGATTAAC
* * * * *
34484744 TTTCAATATCAAAATTGGTTTTAAAAATCAAAATTTCCTCCTATCATCACATATGCTTATAAACA
1 TTTCAATATCAAAATTGGTTTTAAAAATAAAAATTTCATCCCATCACCACACATGCTTATAAACA
*
34484809 CTAATACATTAACAGCCATAAGTGCTAATGAAAAAAATATCCTCATCATATTTTTATCTGATTAA
66 CTAATACATTAACAGCCATAAGTGCCAATGAAAAAAATATCCTCATCATATTTTTATCTGATTAA
*
34484874 TCCAAAATTCTAAAAAATGACTCAAATTGTTCACT
131 TCCAAAATTCTAAAAAATGACTCAAACTGTTCACT
34484909 TTTCAATAT-AAAATTGGTTTTAAAAATAAAAATTTCATCCCATCACCACACATGCTTATAAACA
1 TTTCAATATCAAAATTGGTTTTAAAAATAAAAATTTCATCCCATCACCACACATGCTTATAAACA
* *
34484973 CTAATACATTAATAGCCATAAGTGCCAATG-AAAAAATATCTTCATCATATTTTTATCTGATTAA
66 CTAATACATTAACAGCCATAAGTGCCAATGAAAAAAATATCCTCATCATATTTTTATCTGATTAA
34485037 GTCCAAAATTCTAAAAAATGACTCAAACTGTTCACT
131 -TCCAAAATTCTAAAAAATGACTCAAACTGTTCACT
34485073 T
1 T
34485074 ATGACATTCC
Statistics
Matches: 155, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
163 33 0.21
164 113 0.73
165 9 0.06
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (165 bp):
TTTCAATATCAAAATTGGTTTTAAAAATAAAAATTTCATCCCATCACCACACATGCTTATAAACA
CTAATACATTAACAGCCATAAGTGCCAATGAAAAAAATATCCTCATCATATTTTTATCTGATTAA
TCCAAAATTCTAAAAAATGACTCAAACTGTTCACT
Found at i:34491448 original size:40 final size:40
Alignment explanation
Indices: 34491377--34491482 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
34491367 TACCAACTCG
* * *
34491377 TAGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCA-GA
*
34491417 -AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCAGA
*
34491456 TAGCCTGCGGGTCTTTAAGCCCAGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
34491483 CAATTCCTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 15 0.25
40 44 0.75
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCAGA
Found at i:34496871 original size:47 final size:47
Alignment explanation
Indices: 34496753--34496925 Score: 189
Period size: 47 Copynumber: 3.7 Consensus size: 47
34496743 GGATGGTTGA
* *
34496753 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
34496801 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* * *
34496846 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
*
34496893 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
34496926 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.06
45 32 0.30
46 30 0.28
47 34 0.31
48 1 0.01
49 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:34496922 original size:92 final size:93
Alignment explanation
Indices: 34496753--34496922 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
34496743 GGATGGTTGA
* *
34496753 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34496818 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
34496846 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34496910 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34496923 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 40 0.55
93 33 0.45
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34504341 original size:46 final size:46
Alignment explanation
Indices: 34504291--34504463 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
34504281 TGGTTGAGCA
*
34504291 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
34504337 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
34504384 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
34504430 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
34504464 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:34504447 original size:93 final size:93
Alignment explanation
Indices: 34504288--34504458 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
34504278 GGATGGTTGA
* *
34504288 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34504353 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
34504381 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
34504446 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34504459 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34504724 original size:19 final size:20
Alignment explanation
Indices: 34504687--34504724 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
34504677 ATAAGGTGGT
34504687 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
34504707 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
34504725 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:34509143 original size:2 final size:2
Alignment explanation
Indices: 34509136--34509162 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34509126 CATCCACACG
34509136 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34509163 TTTAATACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34509480 original size:40 final size:40
Alignment explanation
Indices: 34509425--34509521 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
34509415 TCTAGCACGA
*
34509425 AGCCTGCGGGCCTTTAAGCCCAGATAACATTCCAACATAT
1 AGCCTGCGGGTCTTTAAGCCCAGATAACATTCCAACATAT
* * *
34509465 AGCCTGTGGGTCTTTAAGCCCGGATAACATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCAGATAACATTCCAACATAT
*
34509505 AGCCTACGGGTCTTTAA
1 AGCCTGCGGGTCTTTAA
34509522 TTCCGGATAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCAGATAACATTCCAACATAT
Found at i:34516372 original size:42 final size:42
Alignment explanation
Indices: 34516320--34516483 Score: 177
Period size: 42 Copynumber: 3.9 Consensus size: 42
34516310 TAGGGTTATG
*
34516320 TGTGATTTCGTGTAAGACCATATCTGGGATATGGAATCAATA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
* * *
34516362 TGTGATTTCGTGTAAGACCATGTCTGGGACATGGCATCAACA
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
* ** * * *
34516404 TGAGACATCGTGTACA-ACCATAGCTAGGATATCGGCATCGATA
1 TGTGATTTCGTGTA-AGACCATATCTGGGATAT-GGCATCAATA
* ** *
34516447 TGTGGTCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGTGATTTCGTGTAAGACCATATCTGGGATATGGCAT
34516484 TGGCATCTTA
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 67 0.68
43 31 0.32
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTGATTTCGTGTAAGACCATATCTGGGATATGGCATCAATA
Found at i:34527416 original size:47 final size:46
Alignment explanation
Indices: 34527066--34527435 Score: 267
Period size: 47 Copynumber: 7.8 Consensus size: 46
34527056 AACATAGGGT
*
34527066 ATAA-TGCCGATACCATGTCCCAGACATGGTCTTACACTGGCTCATCC
1 ATAAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-C
* * * *
34527113 ATCAAGT--CAATGCCATGTCCCAGACATGATCTTACACTGACTTTC
1 AT-AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* * * *
34527158 AAAATCATGGCCGATGCCATGTCCGAGACATGGTCTTACACTAGCTCGTAC
1 ATAA--GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-C
* * * * *
34527209 ATATTCGTGCTGATGCCATGTCCCAGGCATGGTCTTACACTGACACCTC
1 ATA--AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTC
* * * * **
34527258 TATACGTGTCGATGCCGTGTCCCAAACATGGTCTTACACTAACACATCTC
1 -ATAAGTGCCGATGCCATGTCCCAGACATGGTCTTACACT--GGC-TCTC
* *
34527308 AT-A--GCCGATG-CATGTCCCAGACAT-GTCTTACTCTAGCTCTC
1 ATAAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
*
34527349 GTCTCAA-TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
1 --AT-AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
*
34527397 ATAATGTGGCCGGTG-CATGTCCCAGACAT-GTCTTACACT
1 ATAA-GT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
34527436 AGCAGACAAA
Statistics
Matches: 257, Mismatches: 41, Indels: 51
0.74 0.12 0.15
Matches are distributed among these distances:
41 4 0.02
42 1 0.00
43 1 0.00
44 11 0.04
45 17 0.07
46 26 0.10
47 62 0.24
48 54 0.21
49 34 0.13
50 42 0.16
51 5 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
ATAAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
Found at i:34530926 original size:28 final size:28
Alignment explanation
Indices: 34530894--34530962 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
34530884 GCGTAGATCA
34530894 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
34530922 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
34530950 CGATA-TACCCCTA
1 CGAAATTACCCCTA
34530963 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:34537242 original size:20 final size:20
Alignment explanation
Indices: 34537217--34537254 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34537207 GTTTATTCGC
*
34537217 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
34537237 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
34537255 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:34538909 original size:27 final size:28
Alignment explanation
Indices: 34538863--34538930 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
34538853 GCGTAGATCA
34538863 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
34538891 CGAAATTA-CCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
34538918 CGATA-TACCCCTA
1 CGAAATTACCCCTA
34538931 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 2 0.05
27 28 0.74
28 8 0.21
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:34546329 original size:49 final size:50
Alignment explanation
Indices: 34546081--34546438 Score: 271
Period size: 46 Copynumber: 7.6 Consensus size: 50
34546071 TTTGTGTGCC
* * * * *
34546081 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGAGAGCT
* * * * * *
34546127 AGTGTAAGATCATGTCTGGGACATGGTATCAACATTGAGA--CGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGAGAGCT
* * * * * * *
34546175 AGTGTAATA-CAAGTTTGGGACAT-GCATCTG-CCTCGAGATGT-A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACATAGATATGTGAGAGCT
* * * *
34546221 AGTGTAAGA-CATGTCTGAGACAT-GTATC-AGC-TACGAGATGT----GTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CATA-GATATGTGAGAGCT
* *
34546265 AGTGTAAGACCATGTCTAGGACATGGCATCGACACAGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGAGAGCT
34546315 AGTGTAA-ACCATGTCTGGGACATGGCATCGACATAGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGAGAGCT
* *
34546364 AGTGTAA-ACCATGTCTGGGACATGGCATCGAC-TTG--ATG-GATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGA-GAGCT
34546410 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
34546439 TAGCATTATA
Statistics
Matches: 256, Mismatches: 36, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 78 0.30
47 50 0.20
48 21 0.08
49 73 0.29
50 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGTGAGAGCT
Found at i:34547727 original size:38 final size:38
Alignment explanation
Indices: 34547685--34547773 Score: 169
Period size: 38 Copynumber: 2.3 Consensus size: 38
34547675 CCAAATATGT
34547685 TGGCTTATATTGAGTTATATGTATATGGCCGTGAGATG
1 TGGCTTATATTGAGTTATATGTATATGGCCGTGAGATG
34547723 TGGCTTATATTGAGTTATATGTATATGGCCGTGAGATG
1 TGGCTTATATTGAGTTATATGTATATGGCCGTGAGATG
*
34547761 TGGCTCATATTGA
1 TGGCTTATATTGA
34547774 TTTTGGCTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.24, C:0.09, G:0.28, T:0.39
Consensus pattern (38 bp):
TGGCTTATATTGAGTTATATGTATATGGCCGTGAGATG
Found at i:34548381 original size:19 final size:18
Alignment explanation
Indices: 34548353--34548388 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
34548343 TACACGGCCT
34548353 AAGGACACGGGCGTGCCA
1 AAGGACACGGGCGTGCCA
34548371 AAGGCACACGGGCGTGCC
1 AAGG-ACACGGGCGTGCC
34548389 CCTATGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.25, C:0.31, G:0.39, T:0.06
Consensus pattern (18 bp):
AAGGACACGGGCGTGCCA
Found at i:34554482 original size:47 final size:47
Alignment explanation
Indices: 34554424--34554755 Score: 450
Period size: 47 Copynumber: 7.1 Consensus size: 47
34554414 TTAGGATTTT
** ** *
34554424 ATGTGATGAATGTGAATGTATATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34554471 ATGTGACGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34554518 ATGTGATAAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
34554565 ATGTGGTGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34554612 ATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
34554659 ATGCGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
34554706 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCAAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
34554753 ATG
1 ATG
34554756 CGAAATGCGA
Statistics
Matches: 254, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 251 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:34554710 original size:22 final size:22
Alignment explanation
Indices: 34554590--34554712 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
34554580 ACATGCACAT
*
34554590 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
34554612 ATGTGATGAATGTG-A-ACAT-GCACA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
*
34554636 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
* *
34554659 ATGCGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
34554683 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
34554706 ATGTGAT
1 ATGTGAT
34554713 GAACGTGGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 36
0.64 0.06 0.30
Matches are distributed among these distances:
22 22 0.29
23 20 0.26
24 19 0.25
25 15 0.20
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:34555610 original size:50 final size:46
Alignment explanation
Indices: 34555556--34555675 Score: 150
Period size: 48 Copynumber: 2.5 Consensus size: 46
34555546 ACGCCATCTG
* *
34555556 CCAGACATGGTCTTACACTAACTCTCAGATATCCGTGTCGATGCCATGTC
1 CCAGACATGGTCTTACACTAAC-CTC---TATACGAGTCGATGCCATGTC
*
34555606 CCAGACATGGTCTTAAACTGACACCTCTATACGAGTCGATGCCATGTC
1 CCAGACATGGTCTTACACT-A-ACCTCTATACGAGTCGATGCCATGTC
*
34555654 CTAGACATGGTCTTACACTAAC
1 CCAGACATGGTCTTACACTAAC
34555676 ACATCTTGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
46 2 0.03
47 1 0.02
48 36 0.57
50 18 0.29
51 4 0.06
52 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (46 bp):
CCAGACATGGTCTTACACTAACCTCTATACGAGTCGATGCCATGTC
Found at i:34566228 original size:2 final size:2
Alignment explanation
Indices: 34566221--34566261 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
34566211 CAACCATTTA
34566221 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34566262 AAGCTAGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34567827 original size:20 final size:21
Alignment explanation
Indices: 34567790--34567828 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
34567780 AGTTTATTTA
34567790 TGTTATAATTGTTGTAAAAAG
1 TGTTATAATTGTTGTAAAAAG
* *
34567811 TGTT-TAATTTTTTTAAAA
1 TGTTATAATTGTTGTAAAA
34567829 TCTATTTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (21 bp):
TGTTATAATTGTTGTAAAAAG
Found at i:34579217 original size:29 final size:29
Alignment explanation
Indices: 34579174--34579300 Score: 159
Period size: 29 Copynumber: 4.3 Consensus size: 29
34579164 GAAAGCATGT
34579174 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
34579203 GTATGAATGTGATTTGGGCCTAATGGGCGGC
1 ATATGAATGTGATTTGGGCCTAATGGGC--C
*
34579234 TATATGAATATGATTTGGG-CTAATGGGCC
1 -ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
34579263 ATATGAATGAGA-TTGGGCCTAGTAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
34579291 ATATGCATGT
1 ATATGAATGT
34579301 ATGTAGACTT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
27 5 0.06
28 26 0.31
29 28 0.33
31 10 0.12
32 16 0.19
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:34582059 original size:27 final size:29
Alignment explanation
Indices: 34582028--34582087 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
34582018 GAATTTTTCA
34582028 TGAA-TTTGAGTAATT-TGGGCT-AAATTG
1 TGAATTTTG-GTAATTGTGGGCTCAAATTG
* *
34582055 TGAATTTTGTTAATTGTGGGGTCAAATTG
1 TGAATTTTGGTAATTGTGGGCTCAAATTG
34582084 TGAA
1 TGAA
34582088 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 9 0.32
28 9 0.32
29 10 0.36
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.42
Consensus pattern (29 bp):
TGAATTTTGGTAATTGTGGGCTCAAATTG
Found at i:34582754 original size:42 final size:43
Alignment explanation
Indices: 34582697--34582795 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
34582687 TGTGATTTAT
* *
34582697 GTGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGATTTC
1 GTGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTAC
* *
34582739 GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTAC
*
34582782 ATGTAAGACCATGT
1 GTGTAAGACCATGT
34582796 TTGGGGCATT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 28 0.56
43 22 0.44
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTAC
Found at i:34584990 original size:55 final size:53
Alignment explanation
Indices: 34584783--34584990 Score: 175
Period size: 55 Copynumber: 3.8 Consensus size: 53
34584773 TTCCTTTTTA
* * * *
34584783 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
34584836 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
** * ** * * * *
34584890 TAGTTTATCAATGCCATATCTTGACATGGACTTGCATGATTTCCTTGCCTTGGCATG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTT---ATG
* * *
34584947 -ACTTACCAATGCCATGCCTTGGCATGGTCATACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
34584991 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 33, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
53 45 0.38
54 1 0.01
55 68 0.58
57 1 0.01
58 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:34589800 original size:30 final size:30
Alignment explanation
Indices: 34589764--34589850 Score: 156
Period size: 30 Copynumber: 2.9 Consensus size: 30
34589754 ACTAAGTCTG
34589764 ACAAATTCACGTTCATATTCAGTCACTCTA
1 ACAAATTCACGTTCATATTCAGTCACTCTA
*
34589794 ACAAATTCACGTTCATATTCAGTCACTCTG
1 ACAAATTCACGTTCATATTCAGTCACTCTA
*
34589824 GCAAATTCACGTTCATATTCAGTCACT
1 ACAAATTCACGTTCATATTCAGTCACT
34589851 GTCATCTTAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (30 bp):
ACAAATTCACGTTCATATTCAGTCACTCTA
Found at i:34591929 original size:53 final size:53
Alignment explanation
Indices: 34591866--34591968 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
34591856 TTCCTTTTTA
* * ** * *
34591866 AACTTACCATTTCCATGTTTTGACATGGTCTTACGTGGTATCCTTGCCTTGTG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTGTG
* *
34591919 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTT
34591969 ATAGTAGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTGTG
Found at i:34597168 original size:15 final size:15
Alignment explanation
Indices: 34597136--34597164 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34597126 ATTTTCTATG
34597136 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
34597151 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
34597165 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:34597699 original size:15 final size:15
Alignment explanation
Indices: 34597679--34597709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34597669 AAATATGAAA
34597679 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
34597694 GATATGTTTTGTATT
1 GATATGTTTTGGATT
34597709 G
1 G
34597710 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:34598310 original size:45 final size:45
Alignment explanation
Indices: 34598259--34598480 Score: 231
Period size: 45 Copynumber: 5.0 Consensus size: 45
34598249 AGGATTATGC
*
34598259 TATGTGTTTTCGTGTAAGACCACGTCTGGAACATTGGCATCCATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
* * * *
34598304 TATGTGTTTTCATGTAAGACCGCGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
* *
34598349 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
* * * * *
34598394 TATATGGTTAT-GAGTAAGACCATGTCTGGGACATCGGCAT-CATA
1 TATGT-GTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
* * * * *
34598438 T-T-TGATTT-ATGTAAGACC-CTGTCTGGGATAGTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCCATA
34598480 T
1 T
34598481 GAGATAGCTT
Statistics
Matches: 151, Mismatches: 23, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
41 25 0.17
42 5 0.03
43 1 0.01
44 4 0.03
45 112 0.74
46 4 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
Found at i:34598530 original size:131 final size:134
Alignment explanation
Indices: 34598272--34598517 Score: 308
Period size: 129 Copynumber: 1.9 Consensus size: 134
34598262 GTGTTTTCGT
* * *
34598272 GTAAGACCACGTCTGGAACATTGGCATCCATATATGTGTTTTCATGTAAGACCGCGTCTGGGACG
1 GTAAGACCACGTCTGGAACATCGGCATCCATATATGTGATTTCATGTAAGACCGCGTCTGGGAAG
* * ** *
34598337 TTGGCATCGATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATGGT
66 TTGGCATCGA-ATATGAGATAGCGTGTAAGACCACATCTGGGACGTTGGCATCGATATATATGGT
34598402 TATGA
130 TATGA
* *
34598407 GTAAGACCATGTCTGGGACATCGGCAT-CATAT-T-TGATTT-ATGTAAGACC-CTGTCTGGGAT
1 GTAAGACCACGTCTGGAACATCGGCATCCATATATGTGATTTCATGTAAGACCGC-GTCTGGGA-
* *
34598467 AG-TGGCATCG-ATATGAGATAGCTTGTAAGATCACATCTGGGACGTTGGCAT
64 AGTTGGCATCGAATATGAGATAGCGTGTAAGACCACATCTGGGACGTTGGCAT
34598518 TGTTCTATAT
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
129 34 0.35
130 1 0.01
131 26 0.27
132 6 0.06
133 1 0.01
134 5 0.05
135 24 0.25
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (134 bp):
GTAAGACCACGTCTGGAACATCGGCATCCATATATGTGATTTCATGTAAGACCGCGTCTGGGAAG
TTGGCATCGAATATGAGATAGCGTGTAAGACCACATCTGGGACGTTGGCATCGATATATATGGTT
ATGA
Found at i:34603240 original size:25 final size:25
Alignment explanation
Indices: 34603212--34603259 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34603202 TTATACCATG
* * *
34603212 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34603237 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34603260 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34603328 original size:20 final size:20
Alignment explanation
Indices: 34603303--34603361 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
34603293 TAAATATGGT
*
34603303 ATGTATGAGATGCACATGAC
1 ATGTATGATATGCACATGAC
*
34603323 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
34603343 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34603362 GGTAATCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:34603443 original size:23 final size:23
Alignment explanation
Indices: 34603413--34603603 Score: 310
Period size: 24 Copynumber: 8.1 Consensus size: 23
34603403 AGGAAGTGCA
34603413 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
34603436 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
34603459 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
34603483 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
34603507 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
34603531 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
34603554 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
34603577 GAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
34603601 AAA
1 AAA
34603604 AGAGGCTAGG
Statistics
Matches: 163, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
23 71 0.44
24 92 0.56
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:34603504 original size:47 final size:47
Alignment explanation
Indices: 34603413--34603603 Score: 321
Period size: 47 Copynumber: 4.1 Consensus size: 47
34603403 AGGAAGTGCA
*
34603413 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
34603459 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-T
34603507 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
34603554 AAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
34603601 AAA
1 AAA
34603604 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
46 22 0.16
47 69 0.50
48 46 0.34
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:34603850 original size:31 final size:31
Alignment explanation
Indices: 34603815--34603878 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34603805 CGGTTACAGT
34603815 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
34603846 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34603877 AA
1 AA
34603879 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34606130 original size:44 final size:44
Alignment explanation
Indices: 34606067--34606207 Score: 164
Period size: 44 Copynumber: 3.3 Consensus size: 44
34606057 TATGTGTTAT
* *
34606067 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATTTTTGATTTA
1 CGTGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTTA
* *
34606111 CGTGTAAGACCATGTCTAGGACATTGGCATCG-TATATGATTT-
1 CGTGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTTA
* * * *
34606153 CTTGTAAGACCGTGTCTGGGACAG-TGGCATCTATATTTGA-TTA
1 CGTGTAAGACCATGTCTAGGAC-GTTGGCATCGATATTTGATTTA
*
34606196 CATGTAAGACCA
1 CGTGTAAGACCA
34606208 CACTGAGATG
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
42 28 0.34
43 24 0.29
44 30 0.37
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTTA
Found at i:34609668 original size:30 final size:30
Alignment explanation
Indices: 34609632--34609718 Score: 156
Period size: 30 Copynumber: 2.9 Consensus size: 30
34609622 ACTAAGTCTG
34609632 ACAAATTCACGTTCATATTCAGTCACTCTA
1 ACAAATTCACGTTCATATTCAGTCACTCTA
*
34609662 ACAAATTCACGTTCATATTCAGTCACTCTG
1 ACAAATTCACGTTCATATTCAGTCACTCTA
*
34609692 GCAAATTCACGTTCATATTCAGTCACT
1 ACAAATTCACGTTCATATTCAGTCACT
34609719 GTCATCTTAC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (30 bp):
ACAAATTCACGTTCATATTCAGTCACTCTA
Found at i:34611798 original size:53 final size:53
Alignment explanation
Indices: 34611735--34611837 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
34611725 TTCCTTTTTA
* * ** * *
34611735 AACTTACCATTTCCATGTTTTGACATGGTCTTACGTGGTATCCTTGCCTTGTG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTGTG
* *
34611788 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTT
34611838 ATAGTAGTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTGTG
Found at i:34617040 original size:15 final size:15
Alignment explanation
Indices: 34617008--34617036 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34616998 ATTTTCTATG
34617008 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
34617023 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
34617037 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:34617571 original size:15 final size:15
Alignment explanation
Indices: 34617551--34617581 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34617541 AAATATGAAA
34617551 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
34617566 GATATGTTTTGTATT
1 GATATGTTTTGGATT
34617581 G
1 G
34617582 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:34618182 original size:45 final size:45
Alignment explanation
Indices: 34618131--34618352 Score: 231
Period size: 45 Copynumber: 5.0 Consensus size: 45
34618121 AGGATTATGC
*
34618131 TATGTGTTTTCGTGTAAGACCACGTCTGGAACATTGGCATCCATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
* * * *
34618176 TATGTGTTTTCATGTAAGACCGCGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
* *
34618221 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
* * * * *
34618266 TATATGGTTAT-GAGTAAGACCATGTCTGGGACATCGGCAT-CATA
1 TATGT-GTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
* * * * *
34618310 T-T-TGATTT-ATGTAAGACC-CTGTCTGGGATAGTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCCATA
34618352 T
1 T
34618353 GAGATAGCTT
Statistics
Matches: 151, Mismatches: 23, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
41 25 0.17
42 5 0.03
43 1 0.01
44 4 0.03
45 112 0.74
46 4 0.03
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCCATA
Found at i:34618402 original size:131 final size:134
Alignment explanation
Indices: 34618144--34618389 Score: 308
Period size: 129 Copynumber: 1.9 Consensus size: 134
34618134 GTGTTTTCGT
* * *
34618144 GTAAGACCACGTCTGGAACATTGGCATCCATATATGTGTTTTCATGTAAGACCGCGTCTGGGACG
1 GTAAGACCACGTCTGGAACATCGGCATCCATATATGTGATTTCATGTAAGACCGCGTCTGGGAAG
* * ** *
34618209 TTGGCATCGATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATATGGT
66 TTGGCATCGA-ATATGAGATAGCGTGTAAGACCACATCTGGGACGTTGGCATCGATATATATGGT
34618274 TATGA
130 TATGA
* *
34618279 GTAAGACCATGTCTGGGACATCGGCAT-CATAT-T-TGATTT-ATGTAAGACC-CTGTCTGGGAT
1 GTAAGACCACGTCTGGAACATCGGCATCCATATATGTGATTTCATGTAAGACCGC-GTCTGGGA-
* *
34618339 AG-TGGCATCG-ATATGAGATAGCTTGTAAGATCACATCTGGGACGTTGGCAT
64 AGTTGGCATCGAATATGAGATAGCGTGTAAGACCACATCTGGGACGTTGGCAT
34618390 TGTTCTATAT
Statistics
Matches: 97, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
129 34 0.35
130 1 0.01
131 26 0.27
132 6 0.06
133 1 0.01
134 5 0.05
135 24 0.25
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (134 bp):
GTAAGACCACGTCTGGAACATCGGCATCCATATATGTGATTTCATGTAAGACCGCGTCTGGGAAG
TTGGCATCGAATATGAGATAGCGTGTAAGACCACATCTGGGACGTTGGCATCGATATATATGGTT
ATGA
Found at i:34623111 original size:25 final size:25
Alignment explanation
Indices: 34623083--34623130 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34623073 TTATACCATG
* * *
34623083 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34623108 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34623131 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34623199 original size:20 final size:20
Alignment explanation
Indices: 34623174--34623232 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
34623164 TAAATATGGT
34623174 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
34623194 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
34623214 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
34623233 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:34623214 original size:11 final size:11
Alignment explanation
Indices: 34623178--34623232 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34623168 TATGGTATGT
34623178 ATGATATGCAC
1 ATGATATGCAC
* *
34623189 ATGACATG--T
1 ATGATATGCAC
34623198 ATGATATGCAC
1 ATGATATGCAC
*
34623209 ATGATATG--T
1 ATGATATGCAC
34623218 ATGATATGCAC
1 ATGATATGCAC
34623229 ATGA
1 ATGA
34623233 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34623362 original size:24 final size:24
Alignment explanation
Indices: 34623282--34623495 Score: 310
Period size: 24 Copynumber: 9.0 Consensus size: 24
34623272 AGAGGAAGTG
34623282 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
34623306 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
34623329 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
34623352 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
34623376 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
34623400 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
34623424 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
** *
34623447 TGAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
34623471 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
34623496 ATGATAAAGC
Statistics
Matches: 178, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 67 0.38
24 100 0.56
25 11 0.06
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:34623375 original size:47 final size:47
Alignment explanation
Indices: 34623284--34623474 Score: 321
Period size: 47 Copynumber: 4.1 Consensus size: 47
34623274 AGGAAGTGCA
*
34623284 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
34623330 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-T
34623378 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
34623425 AAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
34623472 AAA
1 AAA
34623475 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
46 22 0.16
47 69 0.50
48 46 0.34
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:34623722 original size:31 final size:31
Alignment explanation
Indices: 34623687--34623750 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34623677 CGGTTACAGT
34623687 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
34623718 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34623749 AA
1 AA
34623751 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34625986 original size:44 final size:44
Alignment explanation
Indices: 34625937--34626079 Score: 150
Period size: 44 Copynumber: 3.3 Consensus size: 44
34625927 TATGTGTTAT
*
34625937 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATTTTTGATTTA
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTTA
* * * *
34625981 CGTGTAAGACCATGTCTAGCACATTGGCATCG-TATATGATTT-
1 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTTA
* ** * *
34626023 CTTGTAAGACCGTGTCTGGGACAG-TGGCATCTATATTTGA-TTA
1 CGTGTAAGACCACGTCTAGGAC-GTTGGCATCGATATTTGATTTA
*
34626066 CATGTAAGACCACG
1 CGTGTAAGACCACG
34626080 ACTGAGATGT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
42 27 0.33
43 25 0.31
44 29 0.36
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATTTGATTTA
Found at i:34626051 original size:42 final size:42
Alignment explanation
Indices: 34625939--34626077 Score: 129
Period size: 42 Copynumber: 3.2 Consensus size: 42
34625929 TGTGTTATCG
* * * *
34625939 TGTAAGACCACGTCTAGGAC-GTTGGCATCGATTTTTGATTTACG
1 TGTAAGACCATGTCTAGGACAG-TGGCATCG-TATATGATTT-CA
* * *
34625983 TGTAAGACCATGTCTAGCACATTGGCATCGTATATGATTTCT
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTATATGATTTCA
* * *
34626025 TGTAAGACCGTGTCTGGGACAGTGGCATC-TATATTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGTATA--TGATTTCA
34626068 TGTAAGACCA
1 TGTAAGACCA
34626078 CGACTGAGAT
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.05
42 26 0.33
43 23 0.29
44 26 0.33
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGTATATGATTTCA
Found at i:34629726 original size:43 final size:44
Alignment explanation
Indices: 34629625--34629726 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 44
34629615 TGGGACGTCA
* * *
34629625 GCATCGAT-TTGTGATTTATGTGTAAAACCATGTCTGGGACATTG
1 GCATCGATATT-TGATTTACGTGTAAAACCATGTATGGGACAGTG
* * * *
34629669 GCATC-ATATATGATTT-CGTGTAAGACCCTGTATGGGATAGTG
1 GCATCGATATTTGATTTACGTGTAAAACCATGTATGGGACAGTG
34629711 GCATCGATATTTGATT
1 GCATCGATATTTGATT
34629727 ACATGTACGA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
42 25 0.52
43 17 0.35
44 6 0.12
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (44 bp):
GCATCGATATTTGATTTACGTGTAAAACCATGTATGGGACAGTG
Found at i:34634496 original size:40 final size:40
Alignment explanation
Indices: 34634452--34634619 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
34634442 CGGAATATAA
*
34634452 CCGGATATAATCACGT-GCACAAATGCCTTCGAGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34634492 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
34634532 CCGGATATAGCCACTAGCACAATTGTCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
34634572 CCGGATATAATTTCCAGCATAATTGTCC-TCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATG-CCTTCGGGTCTTAGC
34634612 CCGGATAT
1 CCGGATAT
34634620 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 102 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34647090 original size:50 final size:49
Alignment explanation
Indices: 34647026--34647246 Score: 180
Period size: 50 Copynumber: 4.4 Consensus size: 49
34647016 TTAGTCACGT
*
34647026 GTGTACTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTGCAC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTT-CAC
* ** * * * *
34647076 GTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAGCTT-CGATCAC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTTCAC
* * * * *
34647125 GTTTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAGG-TCATGT
1 G--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTCA--C
* *
34647177 GTGTAATACTAAGTTCAGGCTACTACGTGTA-CAGGATTGTTAGG-TCAC
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATTGTTAGGTTCAC
* *
34647225 ATGTGTGGTAGTAAGTGCAGGC
1 --GTGTAGTACTAAGTGCAGGC
34647247 AACCATGCGT
Statistics
Matches: 134, Mismatches: 28, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
49 6 0.04
50 94 0.70
51 33 0.25
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTCAC
Found at i:34647150 original size:101 final size:100
Alignment explanation
Indices: 34647020--34647201 Score: 249
Period size: 101 Copynumber: 1.8 Consensus size: 100
34647010 CGATTTTTAG
* * *
34647020 TCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTGCA-CGTGTAGTA
1 TCACGTGTGTACTACTAAATGCAGGCTACTACGTGTACCAGATGGTTAGG-T-CAGCGTGTAATA
34647084 CTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
64 CTAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
* * * * *
34647121 TCACGTTTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAATAC
1 TCACGTGTGTACTACTAAATGCAGGCTACTACGTGTACCAGATGGTTAGGTCA-GCGTGTAATAC
*
34647186 TAAGTTCAGGCTACTA
65 TAAGTGCAGGCTACTA
34647202 CGTGTACAGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
99 2 0.03
100 1 0.01
101 67 0.96
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTACTACTAAATGCAGGCTACTACGTGTACCAGATGGTTAGGTCAGCGTGTAATACT
AAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
Found at i:34655349 original size:16 final size:16
Alignment explanation
Indices: 34655328--34655359 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34655318 TATTTTTAAC
34655328 ATAATTTAATTATTTT
1 ATAATTTAATTATTTT
34655344 ATAATTTAATTATTTT
1 ATAATTTAATTATTTT
34655360 TTTGACAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTAATTATTTT
Found at i:34658914 original size:20 final size:20
Alignment explanation
Indices: 34658889--34658928 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34658879 ATAAAGATTA
34658889 ATATATAAATAGA-TATAATT
1 ATATATAAA-AGATTATAATT
*
34658909 ATATATTAAAGATTATAATT
1 ATATATAAAAGATTATAATT
34658929 GTATTATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
ATATATAAAAGATTATAATT
Found at i:34668945 original size:38 final size:38
Alignment explanation
Indices: 34668900--34668981 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
34668890 AAACAAGATC
34668900 ATATTATCCTTATTACGGACCTACAATGTCCAAAACAT
1 ATATTATCCTTATTACGGACCTACAATGTCCAAAACAT
34668938 ATATTATCCTTATTACGGACCTACAATGTCCAAAACAT
1 ATATTATCCTTATTACGGACCTACAATGTCCAAAACAT
*
34668976 ACATTA
1 ATATTA
34668982 AAAGAAATCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (38 bp):
ATATTATCCTTATTACGGACCTACAATGTCCAAAACAT
Found at i:34672137 original size:40 final size:40
Alignment explanation
Indices: 34672029--34672318 Score: 456
Period size: 40 Copynumber: 7.2 Consensus size: 40
34672019 CGGGATTTAA
* * * * *
34672029 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
34672069 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34672109 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
34672149 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34672189 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34672229 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34672269 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
34672309 CCGGATATAT
1 CCGGATATAT
34672319 TTCCAATGTT
Statistics
Matches: 231, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
39 1 0.00
40 230 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:34680335 original size:40 final size:40
Alignment explanation
Indices: 34680256--34680434 Score: 309
Period size: 40 Copynumber: 4.7 Consensus size: 40
34680246 TTACGAAAAG
34680256 GCCTTCGGGT-TTAGCCCGGATAT-T----TCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
34680290 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
34680330 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
34680370 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
34680410 GCCTTC-GGTCTTAGCCCGGATATAT
1 GCCTTCGGGTCTTAGCCCGGATATAT
34680435 TTCCAATGTT
Statistics
Matches: 139, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
34 10 0.07
35 13 0.09
36 1 0.01
39 19 0.14
40 96 0.69
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAAT
Found at i:34683939 original size:17 final size:18
Alignment explanation
Indices: 34683897--34683945 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
34683887 AGTTGAAAAG
34683897 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
34683916 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
34683933 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
34683946 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:34684833 original size:40 final size:40
Alignment explanation
Indices: 34684767--34684933 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34684757 AAATTGAATG
* * *
34684767 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
34684806 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
34684846 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34684886 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34684926 ATATCCGG
1 ATATCCGG
34684934 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34691944 original size:17 final size:18
Alignment explanation
Indices: 34691902--34691950 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
34691892 AGTTGAAAAG
34691902 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
34691921 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
34691938 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
34691951 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:34692838 original size:40 final size:40
Alignment explanation
Indices: 34692772--34692938 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34692762 AAATTGAATG
* * *
34692772 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
34692811 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
34692851 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34692891 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34692931 ATATCCGG
1 ATATCCGG
34692939 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34698142 original size:16 final size:16
Alignment explanation
Indices: 34698101--34698134 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34698091 TGTCGTCAAC
34698101 CAACTTTTTCGACTTTT
1 CAAC-TTTTCGACTTTT
*
34698118 CAACCTTTCGACTTTT
1 CAACTTTTCGACTTTT
34698134 C
1 C
34698135 GGCTTTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (16 bp):
CAACTTTTCGACTTTT
Found at i:34701661 original size:39 final size:40
Alignment explanation
Indices: 34701540--34701731 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 40
34701530 GGATATAACG
* **
34701540 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
34701580 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
34701620 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * * * *
34701659 ACTCCCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * *
34701699 ACTTAGCACAAA-GCGTTCGAGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
34701732 CATCATTCAA
Statistics
Matches: 125, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 83 0.66
41 10 0.08
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:34704291 original size:40 final size:40
Alignment explanation
Indices: 34704247--34704454 Score: 170
Period size: 40 Copynumber: 5.2 Consensus size: 40
34704237 CAATTGAATG
* * *
34704247 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATT
* * * * **
34704287 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGG-CATTTGTGCAAGTAATT
* * **
34704327 ACATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGT-CCCGAAGGCATTTGTGCAAGTAATT
* **
34704367 AAATCCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGT-CCCGAAGGCATTTGTGCAAGTAATT
* * * * **
34704407 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATT
34704447 ATATCCGG
1 ATATCCGG
34704455 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATT
Found at i:34704385 original size:80 final size:80
Alignment explanation
Indices: 34704249--34704454 Score: 220
Period size: 80 Copynumber: 2.6 Consensus size: 80
34704239 ATTGAATGAT
* ** * * *
34704249 ATCCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 ATCCGGGCTAA-TACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
34704313 -TTGTGCTAGT-GACCAC
64 TTTGTGCAAGTCGACC-C
* * *
34704329 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
34704394 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* * *
34704409 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
34704455 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAATACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:34709553 original size:29 final size:29
Alignment explanation
Indices: 34709511--34709583 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
34709501 GTGACAAGAT
34709511 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
34709540 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
*
34709569 TGCCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34709584 GAATTTAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:34709604 original size:29 final size:29
Alignment explanation
Indices: 34709572--34709642 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
34709562 AAAAGTATGC
* * *
34709572 CACTAAGTGTGCGAATTTAAATTATAAGG
1 CACTAAGTGTGCGAACTTAAATCACAAGG
* * *
34709601 CACTATGTGTGCGAGCTTAAATCACATGG
1 CACTAAGTGTGCGAACTTAAATCACAAGG
34709630 CACTAAGTGTGCG
1 CACTAAGTGTGCG
34709643 TGATCGATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (29 bp):
CACTAAGTGTGCGAACTTAAATCACAAGG
Found at i:34715046 original size:40 final size:40
Alignment explanation
Indices: 34714976--34715183 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
34714966 CAATTGAATG
* * * *
34714976 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* * * * * *
34715016 ATATCCTGGTTAAGACCCAAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* **
34715056 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
* * * **
34715096 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
* **
34715136 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAATT
34715176 ATATCCGG
1 ATATCCGG
34715184 TTGTAATCCG
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
39 5 0.04
40 133 0.95
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAATT
Found at i:34715126 original size:80 final size:80
Alignment explanation
Indices: 34714978--34715183 Score: 243
Period size: 80 Copynumber: 2.6 Consensus size: 80
34714968 ATTGAATGAT
* * * * * * *
34714978 ATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTAATTATATCCTGGTTAAGACCCAAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCAAAGGCAAT
*
34715043 TGTGCTAGT-GACTAC
66 TGTGCAAGTCG-CTAC
* * * * *
34715058 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCAAAGGCAAT
* *
34715123 TGTGCAAGTCGTTAT
66 TGTGCAAGTCGCTAC
* *
34715138 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
34715184 TTGTAATCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCAAAGGCAAT
TGTGCAAGTCGCTAC
Found at i:34719410 original size:79 final size:80
Alignment explanation
Indices: 34719302--34719493 Score: 212
Period size: 79 Copynumber: 2.4 Consensus size: 80
34719292 GGATATAACG
* * ** * *
34719302 ACTCGCTCAAATGCCTTTGGGACAAAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGA-C
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAACGCCTTC-AGATC
* *
34719365 TTAACCCGGGTTTAGTA
64 TTAACCCGGATATAGTA
*
34719382 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAACGCCTTCAGATCTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAACGCCTTCAGATCTT
** *
34719446 AGTCCGGATATAGTC
66 AACCCGGATATAGTA
*
34719461 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
34719494 CATCATTCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 53 0.56
80 40 0.42
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAACGCCTTCAGATCTT
AACCCGGATATAGTA
Found at i:34719493 original size:40 final size:39
Alignment explanation
Indices: 34719302--34719493 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
34719292 GGATATAACG
* * ** *
34719302 ACTCGCTCAAATGCCTTTGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34719342 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
34719382 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34719421 ACTCGCACGAACGCCTTC-AGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
34719461 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
34719494 CATCATTCAA
Statistics
Matches: 123, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.25
40 82 0.67
41 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:34727864 original size:48 final size:48
Alignment explanation
Indices: 34727799--34728043 Score: 445
Period size: 48 Copynumber: 5.1 Consensus size: 48
34727789 GCTGAAATTG
* *
34727799 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
34727847 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
*
34727895 ATGTATGAGACATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
*
34727943 ATGCATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
*
34727991 ATGTATGAGATATGTATATGCGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
34728039 ATGTA
1 ATGTA
34728044 GGCGATGTGC
Statistics
Matches: 190, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 190 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
Found at i:34728298 original size:37 final size:37
Alignment explanation
Indices: 34728190--34728298 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
34728180 GGAAATATAT
*
34728190 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
34728227 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
34728264 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
34728299 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:34735591 original size:43 final size:43
Alignment explanation
Indices: 34735471--34735603 Score: 173
Period size: 43 Copynumber: 3.1 Consensus size: 43
34735461 TTAGGAATAG
34735471 CTGGGATAGTGGCATTGATATGTGATTACATGTAAGACCATGT
1 CTGGGATAGTGGCATTGATATGTGATTACATGTAAGACCATGT
* * ** * * *
34735514 TTGGGACA-TCGGCACCG-TATTTGATT-CGTGTAAGACCCTGT
1 CTGGGATAGT-GGCATTGATATGTGATTACATGTAAGACCATGT
34735555 CTGGGATAGTGGCATTGATATGTGATTACATGTAAGACCATGT
1 CTGGGATAGTGGCATTGATATGTGATTACATGTAAGACCATGT
34735598 CTGGGA
1 CTGGGA
34735604 CGTTGGCATT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
41 24 0.33
42 18 0.25
43 30 0.42
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.32
Consensus pattern (43 bp):
CTGGGATAGTGGCATTGATATGTGATTACATGTAAGACCATGT
Found at i:34735611 original size:43 final size:42
Alignment explanation
Indices: 34735480--34735618 Score: 156
Period size: 43 Copynumber: 3.3 Consensus size: 42
34735470 GCTGGGATAG
* *
34735480 TGGCATTGATATGTGATTACATGTAAGACCATGTTTGGGACAT
1 TGGCATTG-TATGTGATTACATGTAAGACCATGTCTGGGACGT
* ** * * * *
34735523 CGGCACCGTATTTGATT-CGTGTAAGACCCTGTCTGGGATAG-
1 TGGCATTGTATGTGATTACATGTAAGACCATGTCTGGGA-CGT
34735564 TGGCATTGATATGTGATTACATGTAAGACCATGTCTGGGACGT
1 TGGCATTG-TATGTGATTACATGTAAGACCATGTCTGGGACGT
34735607 TGGCATTGTATG
1 TGGCATTGTATG
34735619 ATATGTGTGA
Statistics
Matches: 76, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
41 23 0.30
42 21 0.28
43 32 0.42
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (42 bp):
TGGCATTGTATGTGATTACATGTAAGACCATGTCTGGGACGT
Found at i:34735815 original size:18 final size:19
Alignment explanation
Indices: 34735781--34735818 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
34735771 GATGCAAATT
34735781 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
34735800 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
34735818 A
1 A
34735819 GTACATTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:34740714 original size:48 final size:47
Alignment explanation
Indices: 34740611--34740724 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 47
34740601 GGGTCATTGT
* ** *
34740611 GAGCTAGTGTGAGA-CATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACAAGACGA
* *
34740657 GAGCCAGTGTAAGACCTTGTCTGGGACATAGCATCGG-CATCAAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCA-CAAGACGA
*
34740705 GTGCTAGTGTAAGA-CATGTC
1 GAGCTAGTGTAAGACCATGTC
34740725 CTGTAGCACC
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
46 12 0.21
47 20 0.36
48 24 0.43
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCACAAGACGA
Found at i:34742132 original size:49 final size:50
Alignment explanation
Indices: 34742058--34742255 Score: 177
Period size: 50 Copynumber: 4.0 Consensus size: 50
34742048 AGCCGAAGCT
* * * *
34742058 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGA-C-CAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTCAAC
* * *
34742106 AGTCTGGTACACGTAGTAGCCCGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTCAAC
** * * * * **
34742157 ATCTAATACACGTAGCAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTCAAC
* * * *
34742207 TTTTGG-GCACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTCA
1 ATCTGGTACACG--TAGTAGCCTGCACTTAGTACTACACACGCGACCTCA
34742256 CAATAGATCA
Statistics
Matches: 120, Mismatches: 25, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 40 0.33
50 44 0.37
51 35 0.29
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTCAAC
Found at i:34752053 original size:41 final size:41
Alignment explanation
Indices: 34751996--34752077 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
34751986 CTTGTTTAGC
* *
34751996 TATATCATAAGCTAATCATTACGAAGTATTCACCTGTCATT
1 TATATCATAAGCTAATCATTACCAAGTATTCACCTGCCATT
*
34752037 TATATTATAAGCTAATCATTACCAAGTATTCACCTGCCATT
1 TATATCATAAGCTAATCATTACCAAGTATTCACCTGCCATT
34752078 CTACACACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (41 bp):
TATATCATAAGCTAATCATTACCAAGTATTCACCTGCCATT
Found at i:34752486 original size:53 final size:55
Alignment explanation
Indices: 34752423--34752557 Score: 148
Period size: 53 Copynumber: 2.5 Consensus size: 55
34752413 TTTACACTTG
* * * *
34752423 CCATTGCCATGTCTTGACATGGTCTTATGTCGTATCCTTGCCTTGT-GAAG-TCA
1 CCATTGCCATGTCTTGACATGGTCTTATATAGGATCCTTGCCTTATCGAAGTTCA
* * * * *
34752476 CCATTGCCATGCCTTGGCATGGTCTTATATAGGATCTTTGCCTTATCGTAGTTTA
1 CCATTGCCATGTCTTGACATGGTCTTATATAGGATCCTTGCCTTATCGAAGTTCA
** *
34752531 TGAATGCCATGTCTTGACATGGTCTTA
1 CCATTGCCATGTCTTGACATGGTCTTA
34752558 CATGATTTCC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
53 39 0.59
54 3 0.05
55 24 0.36
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.39
Consensus pattern (55 bp):
CCATTGCCATGTCTTGACATGGTCTTATATAGGATCCTTGCCTTATCGAAGTTCA
Found at i:34753519 original size:24 final size:23
Alignment explanation
Indices: 34753491--34753535 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
34753481 TAGATTTTAT
*
34753491 AAATAATTATAATTTATTACTTAA
1 AAATAATTAAAATTTA-TACTTAA
*
34753515 AAATATTTAAAATTTATACTT
1 AAATAATTAAAATTTATACTT
34753536 CATATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
AAATAATTAAAATTTATACTTAA
Found at i:34757362 original size:17 final size:17
Alignment explanation
Indices: 34757331--34757363 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34757321 AGTCAGTGAC
34757331 GGATCTGAAACAGGTCG
1 GGATCTGAAACAGGTCG
34757348 GGATCATGAAA-AGGTC
1 GGATC-TGAAACAGGTC
34757364 CCTTGCGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.18
Consensus pattern (17 bp):
GGATCTGAAACAGGTCG
Found at i:34774498 original size:29 final size:29
Alignment explanation
Indices: 34774463--34774535 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
34774453 GTTGTGAGAT
* *
34774463 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
34774492 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
34774521 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34774536 ATGGTTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:34799903 original size:31 final size:31
Alignment explanation
Indices: 34799868--34799934 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
34799858 TATTTAGACA
34799868 GGTTTGTGGTGGTATTTATAGATGATATTTT
1 GGTTTGTGGTGGTATTTATAGATGATATTTT
*
34799899 GGTTTGTGGTTGTATTTATAGATGATATTTT
1 GGTTTGTGGTGGTATTTATAGATGATATTTT
34799930 GGTTT
1 GGTTT
34799935 ACTTTCGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (31 bp):
GGTTTGTGGTGGTATTTATAGATGATATTTT
Found at i:34805240 original size:18 final size:18
Alignment explanation
Indices: 34805217--34805253 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34805207 ATTATCGATC
34805217 AATCACAACATAATTCAT
1 AATCACAACATAATTCAT
34805235 AATCACAACATAATTCAT
1 AATCACAACATAATTCAT
34805253 A
1 A
34805254 CAAATACACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (18 bp):
AATCACAACATAATTCAT
Found at i:34807664 original size:54 final size:54
Alignment explanation
Indices: 34807403--34807663 Score: 330
Period size: 54 Copynumber: 4.9 Consensus size: 54
34807393 TTTCCTTTTT
* * * * * *
34807403 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * ** *
34807456 -AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTGTA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
34807509 TTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 -GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* *
34807564 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTACCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
34807618 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
34807664 ATCTTACCAA
Statistics
Matches: 183, Mismatches: 20, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
51 2 0.01
52 42 0.23
54 95 0.52
55 42 0.23
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:34807750 original size:48 final size:47
Alignment explanation
Indices: 34807688--34807806 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 47
34807678 CATGTTCCAA
*
34807688 ACATGGTCTTACATGGTATCCTT-GTCTTAGTGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTTAGTC--AATGCCAATGCCACATCTTG
** ** **
34807736 ATGTGGTCTTACATGG-AGTCCTTAGTCAATGCTGATGCCATGTCTTG
1 ACATGGTCTTACATGGTA-TCCTTAGTCAATGCCAATGCCACATCTTG
34807783 ACATGGTCTTACATGGTATCCTTA
1 ACATGGTCTTACATGGTATCCTTA
34807807 ACCGTCAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
47 36 0.61
48 20 0.34
49 3 0.05
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTAGTCAATGCCAATGCCACATCTTG
Found at i:34812719 original size:43 final size:42
Alignment explanation
Indices: 34812616--34812720 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
34812606 GAGATGCACG
* ** ***
34812616 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTTG
1 TGTAAGACCACGTCTGGGACAGAGGCATCGTATCTGATTACA
34812658 TGTAAGACC-CTGTCTGGGACAGAGGCATCGATAT-TGAATTACA
1 TGTAAGACCAC-GTCTGGGACAGAGGCATCG-TATCTG-ATTACA
34812701 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTCTGGGAC
34812721 GTTGGCATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
42 28 0.53
43 24 0.45
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGAGGCATCGTATCTGATTACA
Found at i:34812728 original size:43 final size:42
Alignment explanation
Indices: 34812616--34812728 Score: 106
Period size: 43 Copynumber: 2.7 Consensus size: 42
34812606 GAGATGCACG
* * * ***
34812616 TGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTTG
1 TGTAAGACCACGTCTGGGACGTAGGCATCGTATCTGATTACA
34812658 TGTAAGACC-CTGTCTGGGACAG-AGGCATCGATAT-TGAATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTAGGCATCG-TATCTG-ATTACA
*
34812701 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTAGGCAT
34812729 TGTACTTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
42 28 0.48
43 29 0.50
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTAGGCATCGTATCTGATTACA
Done.