Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 234 of 332
Found at i:77593875 original size:96 final size:96
Alignment explanation
Indices: 77593762--77594504 Score: 1264
Period size: 96 Copynumber: 7.8 Consensus size: 96
77593752 AGTATATGTG
* *
77593762 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
77593827 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
*
77593858 GAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
77593921 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
77593952 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
77594017 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
*
77594048 GAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
77594111 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
77594142 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
77594207 ATATGTGATAAGGCCGAATGGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
77594238 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
77594303 ATATGTGATAAGGCCGAATGGCCAATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
*
77594334 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
77594399 ATATGTGATAAGGCCTAATAGCCGATGTGAT
66 ATATGTGATAAGGCCTAATAGCCGATGTGAT
* * * * * * * * *
77594430 GAATGTGAAAGTG--TATGTATGTGACAGGGCCGAGTGGCCAACGTGATGGACGTGAAAGTGTAT
1 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
77594493 AAATGTGATAAG
66 ATATGTGATAAG
77594505 TCCCGAAGGG
Statistics
Matches: 619, Mismatches: 24, Indels: 10
0.95 0.04 0.02
Matches are distributed among these distances:
94 236 0.38
96 383 0.62
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCTAATAGCCGATGTGAT
Found at i:77593923 original size:143 final size:141
Alignment explanation
Indices: 77593762--77594504 Score: 1207
Period size: 143 Copynumber: 5.2 Consensus size: 141
77593752 AGTATATGTG
* *
77593762 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
77593827 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
77593892 TGGCCGATGTGAT
129 TGGCCGATGTGAT
*
77593905 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
77593970 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
*
77594035 TAGCCGATGTGAT
129 TGGCCGATGTGAT
*
77594048 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
77594113 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAA
77594178 TGGCCGATGTGAT
129 TGGCCGATGTGAT
*
77594191 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
77594256 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
*
77594321 TGGCCAATGTGAT
129 TGGCCGATGTGAT
*
77594334 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * *
77594399 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATGTGACAGGGCCGAG
64 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
* *
77594464 TGGCCAACGTGAT
129 TGGCCGATGTGAT
* * *
77594477 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
77594505 TCCCGAAGGG
Statistics
Matches: 570, Mismatches: 22, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
141 108 0.19
143 371 0.65
145 91 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCGATGTGAT
Found at i:77602951 original size:6 final size:6
Alignment explanation
Indices: 77602921--77602950 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
77602911 AGGAGCCCTA
*
77602921 TAGGAG TAGGAG TAGGAG TAGGAG CAGGAG
1 TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG
77602951 CTCTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.50, T:0.13
Consensus pattern (6 bp):
TAGGAG
Found at i:77607405 original size:23 final size:22
Alignment explanation
Indices: 77607375--77607419 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
77607365 ATAGCATTGT
77607375 TTTTTTTTTGGGTACAAAAAACA
1 TTTTTTTTT-GGTACAAAAAACA
77607398 TTTTTTTTTGGTACAAAAAACA
1 TTTTTTTTTGGTACAAAAAACA
77607420 ATCATGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (22 bp):
TTTTTTTTTGGTACAAAAAACA
Found at i:77613216 original size:47 final size:47
Alignment explanation
Indices: 77613165--77613297 Score: 180
Period size: 46 Copynumber: 2.9 Consensus size: 47
77613155 GAATTATGAG
* *
77613165 GCATCTGAACTCGTTGAGTTGCGTTCCGAGTTCACTTATGGATG-CAA
1 GCATCCGAACTCGTTGAGTTGCGTTCTGAGTTCA-TTATGGATGTCAA
* * *
77613212 GCATCCGAACTCGTTGAGTTGTGTTCTGAGTTTATTATGGATGTGAA
1 GCATCCGAACTCGTTGAGTTGCGTTCTGAGTTCATTATGGATGTCAA
* *
77613259 -CACCCGAGCTCGTTGAGTTGCGTTCTGAGTTCATTATGG
1 GCATCCGAACTCGTTGAGTTGCGTTCTGAGTTCATTATGG
77613298 GTGAAAATAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 44 0.58
47 32 0.42
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGCGTTCTGAGTTCATTATGGATGTCAA
Found at i:77617745 original size:37 final size:37
Alignment explanation
Indices: 77617695--77617773 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
77617685 TTATTACGAA
* *
77617695 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
77617732 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
77617769 GTCTT
1 GTCTT
77617774 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:77617978 original size:47 final size:47
Alignment explanation
Indices: 77617891--77618301 Score: 615
Period size: 47 Copynumber: 8.6 Consensus size: 47
77617881 CCCTTCGGGA
* * ** * * *
77617891 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
77617938 CCTGTCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77617985 CTTATCACATATATACACTCTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77618032 CTTATCACATATATATATACACTTTCACATTCATCACATCGGACATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77618083 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77618130 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
77618177 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77618224 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77618275 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
77618302 TATTCAAATA
Statistics
Matches: 333, Mismatches: 23, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
47 243 0.73
51 90 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77618165 original size:145 final size:141
Alignment explanation
Indices: 77617891--77618301 Score: 597
Period size: 145 Copynumber: 2.9 Consensus size: 141
77617881 CCCTTCGGGA
* * * ** * * * * * * *
77617891 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGCCCTGTCACGTATATACAC
1 CTTATCACATATATACACTCTCACATTCATCACATCGGACATTAGGCCTTATCACATATATACAC
* *
77617956 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCGCATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
77618021 GGCCATTAGGC
131 GGCCATTAGGC
*
77618032 CTTATCACATATATATATACACTTTCACATTCATCACATCGGACATTAGGCCTTATCACATATAT
1 CTTATCAC----ATATATACACTCTCACATTCATCACATCGGACATTAGGCCTTATCACATATAT
*
77618097 ACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
77618162 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
*
77618177 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTCTCACATTCATCACATCGGACATTAGGCCTTATCAC----ATATAT
77618242 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
77618302 TATTCAAATA
Statistics
Matches: 245, Mismatches: 17, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
141 53 0.22
145 192 0.78
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTCTCACATTCATCACATCGGACATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:77618218 original size:192 final size:192
Alignment explanation
Indices: 77617891--77618301 Score: 705
Period size: 192 Copynumber: 2.1 Consensus size: 192
77617881 CCCTTCGGGA
* * ** * * * *
77617891 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGCCCTGTCACGTATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
77617956 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCGCATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
77618021 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGACATTAGGC
131 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGACATTAGGC
* * *
77618083 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
77618148 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
*
77618213 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGACATTAGGC
77618275 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
77618302 TATTCAAATA
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
192 205 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (192 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATCGGACATTAGGC
Found at i:77620015 original size:24 final size:24
Alignment explanation
Indices: 77619974--77620019 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
77619964 TCCATAGCTA
77619974 CAATGACCGAAAGATCTAGACATCT
1 CAATGACCGAAAGATCTA-ACATCT
**
77619999 CAAT-ACCGAAATTTCTAACAT
1 CAATGACCGAAAGATCTAACAT
77620020 GGGTTGCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 11 0.58
25 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (24 bp):
CAATGACCGAAAGATCTAACATCT
Found at i:77623161 original size:22 final size:22
Alignment explanation
Indices: 77623133--77623176 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
77623123 TCAAATCTCA
*
77623133 GTGTTCAGCTAACAATGGATGG
1 GTGTTCAACTAACAATGGATGG
77623155 GTGTTCAACTAACAATGGATGG
1 GTGTTCAACTAACAATGGATGG
77623177 ATGCTACTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (22 bp):
GTGTTCAACTAACAATGGATGG
Found at i:77626887 original size:44 final size:46
Alignment explanation
Indices: 77626833--77626922 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
77626823 AATATCTATC
* *
77626833 CCATTCAACCAAATAAAAGAA-TACT-ATTACAGCTTTATTCCATT
1 CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
**
77626877 CCATTCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATT
1 CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
77626923 ACAGCTCTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.45
45 4 0.10
46 18 0.45
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (46 bp):
CCATTCAACCAAACAAAAGAATTACTGATTACAGCTCTATTCCATT
Found at i:77626925 original size:16 final size:16
Alignment explanation
Indices: 77626904--77626958 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
77626894 TGAATTACTG
77626904 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
77626920 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
77626936 ATTATAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
77626952 ATTACAG
1 ATTACAG
77626959 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:77632938 original size:16 final size:17
Alignment explanation
Indices: 77632912--77632951 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
77632902 TGTGTCTCTC
*
77632912 CTTTCTTCTTTCTTTCT
1 CTTTCTTCTTTATTTCT
*
77632929 CTTT-TTCTTTATTTTT
1 CTTTCTTCTTTATTTCT
77632945 CTTTCTT
1 CTTTCTT
77632952 AATTTTGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
CTTTCTTCTTTATTTCT
Found at i:77648111 original size:14 final size:14
Alignment explanation
Indices: 77648080--77648118 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
77648070 ATATTACATA
* *
77648080 TAATTATTTGATTC
1 TAATTTTTTTATTC
*
77648094 TAATTTTTTTATTT
1 TAATTTTTTTATTC
77648108 TAATTTTTTTA
1 TAATTTTTTTA
77648119 CTCATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (14 bp):
TAATTTTTTTATTC
Found at i:77655813 original size:2 final size:2
Alignment explanation
Indices: 77655806--77655838 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
77655796 GTAAATCATA
77655806 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
77655839 AGGTTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:77656741 original size:7 final size:7
Alignment explanation
Indices: 77656729--77656760 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
77656719 AATATTTTCT
77656729 AAAAATG
1 AAAAATG
77656736 AAAAATG
1 AAAAATG
77656743 AAAAATG
1 AAAAATG
77656750 AAAAATG
1 AAAAATG
77656757 AAAA
1 AAAA
77656761 TAGAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:77656766 original size:14 final size:14
Alignment explanation
Indices: 77656730--77656767 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
77656720 ATATTTTCTA
77656730 AAAAT-GAAAAATG
1 AAAATAGAAAAATG
77656743 AAAA-ATGAAAAATG
1 AAAATA-GAAAAATG
77656757 AAAATAGAAAA
1 AAAATAGAAAA
77656768 TATTTTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 4 0.18
14 17 0.77
15 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAATAGAAAAATG
Found at i:77657323 original size:24 final size:25
Alignment explanation
Indices: 77657296--77657343 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
77657286 TTTTATAATT
77657296 ATTTTACATTTTA-ATAA-ATTTTAA
1 ATTTT-CATTTTAGATAATATTTTAA
*
77657320 ATTTTTATTTTAGATAATATTTTA
1 ATTTTCATTTTAGATAATATTTTA
77657344 TGATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 9 0.43
25 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTCATTTTAGATAATATTTTAA
Found at i:77657351 original size:27 final size:25
Alignment explanation
Indices: 77657280--77657353 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 25
77657270 TTGGAATTTG
77657280 TAATAATTTTATAATTATTTTACATTTTAA
1 TAAT-ATTTTAT-ATT-TTTT--ATTTTAA
*
77657310 TAA-ATTTTA-AATTTTTATTTTAGA
1 TAATATTTTATATTTTTTATTTTA-A
77657334 TAATATTTTATGATTTTTTA
1 TAATATTTTAT-ATTTTTTA
77657354 ATAATCACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
23 6 0.16
24 4 0.11
25 10 0.26
26 2 0.05
27 7 0.18
28 6 0.16
30 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (25 bp):
TAATATTTTATATTTTTTATTTTAA
Found at i:77664288 original size:20 final size:20
Alignment explanation
Indices: 77664263--77664300 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
77664253 GTCGAAGTTG
77664263 ATCTTGCTTACACCCGAAAC
1 ATCTTGCTTACACCCGAAAC
77664283 ATCTTGCTTACACCCGAA
1 ATCTTGCTTACACCCGAA
77664301 TTATCACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.34, G:0.11, T:0.26
Consensus pattern (20 bp):
ATCTTGCTTACACCCGAAAC
Found at i:77664844 original size:27 final size:27
Alignment explanation
Indices: 77664814--77664873 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
77664804 TATTGTGCTT
*
77664814 TGTTGCCCGACAAAGCTTACAGTACAA
1 TGTTGCCCGACAAAGCTCACAGTACAA
* *
77664841 TGTTGCCTGACAAAGCTCACGGTACAA
1 TGTTGCCCGACAAAGCTCACAGTACAA
77664868 TGTTGC
1 TGTTGC
77664874 TAATACTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (27 bp):
TGTTGCCCGACAAAGCTCACAGTACAA
Found at i:77672959 original size:19 final size:19
Alignment explanation
Indices: 77672917--77672960 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
77672907 ATATTTTAAA
77672917 TTTATTTAGGTAGATGAAT
1 TTTATTTAGGTAGATGAAT
*
77672936 CTTATTTAGGTAGAT-AAGT
1 TTTATTTAGGTAGATGAA-T
77672955 TTTATT
1 TTTATT
77672961 CATATTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (19 bp):
TTTATTTAGGTAGATGAAT
Found at i:77673036 original size:42 final size:42
Alignment explanation
Indices: 77672977--77673065 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
77672967 CTAGGAATAT
* *
77672977 TTTTATTTTATCTTTTAGTAGTTTATTAGAAGAAGCGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
* *
77673019 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
77673061 TTTTC
1 TTTTC
77673066 CTAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAAGAAGCGAACTA
Found at i:77676917 original size:19 final size:19
Alignment explanation
Indices: 77676871--77676918 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
77676861 GTATATATTT
77676871 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
77676889 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
77676908 TAAGTTTTATT
1 TAAATTTTATT
77676919 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:77677485 original size:18 final size:18
Alignment explanation
Indices: 77677462--77677509 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
77677452 AATGCTAGTA
77677462 TTATATACATA-ATCATGT
1 TTATATACATATATC-TGT
*
77677480 TTATATATATATATCTGT
1 TTATATACATATATCTGT
* *
77677498 GTATATATATAT
1 TTATATACATAT
77677510 CTATTGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
TTATATACATATATCTGT
Found at i:77678519 original size:31 final size:30
Alignment explanation
Indices: 77678458--77678518 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
77678448 ATGTGTCAGA
*
77678458 TGACATCACTTTTAAAAAAAATAAATTTTT
1 TGACATCAATTTTAAAAAAAATAAATTTTT
*
77678488 TGACATCAATTTTTAAAAAAATAAATTTTT
1 TGACATCAATTTTAAAAAAAATAAATTTTT
77678518 T
1 T
77678519 TCTTACCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (30 bp):
TGACATCAATTTTAAAAAAAATAAATTTTT
Found at i:77678806 original size:26 final size:28
Alignment explanation
Indices: 77678771--77678831 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
77678761 TATTTTGGTA
77678771 AAAAGAA-CCC-CTCTTACGGAGTAGTT
1 AAAAGAACCCCTCTCTTACGGAGTAGTT
77678797 AAAAGAACCCCTCTCTTACGGAGTAGTT
1 AAAAGAACCCCTCTCTTACGGAGTAGTT
77678825 AAAAGAA
1 AAAAGAA
77678832 ATTAAAATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 7 0.21
27 3 0.09
28 23 0.70
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (28 bp):
AAAAGAACCCCTCTCTTACGGAGTAGTT
Found at i:77679655 original size:2 final size:2
Alignment explanation
Indices: 77679648--77679677 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77679638 ATAAAAAGAA
77679648 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
77679678 GTTTATTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:77679731 original size:14 final size:14
Alignment explanation
Indices: 77679712--77679751 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
77679702 TGGTTCAACT
77679712 ATCTTATCATTTTC
1 ATCTTATCATTTTC
77679726 ATCTTATCATTTTC
1 ATCTTATCATTTTC
77679740 A--TTATCATTTTC
1 ATCTTATCATTTTC
77679752 TTGTTCTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 11 0.42
14 15 0.58
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (14 bp):
ATCTTATCATTTTC
Found at i:77684619 original size:14 final size:12
Alignment explanation
Indices: 77684600--77684636 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
77684590 ACGTTGGTCT
77684600 TTATCATTTTCA
1 TTATCATTTTCA
77684612 TCTTATCATTTTCA
1 --TTATCATTTTCA
77684626 TTATCATTTTC
1 TTATCATTTTC
77684637 TTGTTCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
14 12 0.52
ACGTcount: A:0.22, C:0.19, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATCATTTTCA
Found at i:77695308 original size:21 final size:22
Alignment explanation
Indices: 77695278--77695318 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
77695268 GAACGTATTG
*
77695278 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
77695300 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
77695319 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:77700224 original size:40 final size:40
Alignment explanation
Indices: 77700169--77700286 Score: 218
Period size: 40 Copynumber: 3.0 Consensus size: 40
77700159 TGGAAAAAAA
77700169 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
77700209 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
77700249 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
77700287 GTTACATCCG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:77708552 original size:26 final size:25
Alignment explanation
Indices: 77708523--77708573 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
77708513 ATGTGAAAGG
*
77708523 GGGTTGCTATGTGCTGATGTCCCCGA
1 GGGTTGCTAAGTGCTGAT-TCCCCGA
*
77708549 GGGTTGCTAAGTGCTTATTCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCGA
77708574 TTTCATTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTGCTGATTCCCCGA
Found at i:77763595 original size:25 final size:25
Alignment explanation
Indices: 77763566--77763615 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
77763556 ACCAATGAAA
*
77763566 TCGGGGAATCAGCACTTAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
77763591 TCGGGGAATCAGCACATAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
77763616 CCTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (25 bp):
TCGGGGAATCAGCACATAGCAACCC
Found at i:77770955 original size:26 final size:26
Alignment explanation
Indices: 77770925--77770976 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
77770915 CACCACTGAA
*
77770925 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
77770951 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
77770977 CTTTTATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:77771121 original size:103 final size:102
Alignment explanation
Indices: 77770894--77771254 Score: 574
Period size: 99 Copynumber: 3.6 Consensus size: 102
77770884 TAACCGTTAT
* *
77770894 TGGTGGAT-CCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
77770958 ATCAGCACATAGCAACCCCCTTTT-ATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
77770994 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
77771059 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
77771097 TGGTGGATATCGCACTTAGCACCACC----AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
77771158 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
77771196 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
77771255 TTTATATACA
Statistics
Matches: 246, Mismatches: 6, Indels: 15
0.92 0.02 0.06
Matches are distributed among these distances:
98 28 0.11
99 66 0.27
100 9 0.04
101 49 0.20
102 29 0.12
103 65 0.26
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:77771160 original size:26 final size:27
Alignment explanation
Indices: 77771108--77771176 Score: 97
Period size: 26 Copynumber: 2.6 Consensus size: 27
77771098 GGTGGATATC
77771108 GCACTTAGC-ACCACCAATCGGGGAATCA
1 GCACTTAGCAACC-CC-ATCGGGGAATCA
77771136 GCACTTAGCAACCCC-TCGGGGAATCA
1 GCACTTAGCAACCCCATCGGGGAATCA
*
77771162 GCACATAGCAACCCC
1 GCACTTAGCAACCCC
77771177 CTTTCACATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 25 0.64
28 11 0.28
29 3 0.08
ACGTcount: A:0.30, C:0.36, G:0.20, T:0.13
Consensus pattern (27 bp):
GCACTTAGCAACCCCATCGGGGAATCA
Found at i:77771189 original size:99 final size:99
Alignment explanation
Indices: 77770894--77771254 Score: 532
Period size: 103 Copynumber: 3.6 Consensus size: 99
77770884 TAACCGTTAT
* *
77770894 TGGTGGAT-CCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACC-C-AAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
77770958 ATCAGCACATAGCAACCCCCTTTTATTTCAAAGATA
64 ATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
*
77770994 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCCA--AATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
77771059 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
63 AATCAGCACATAGCAACCCCC-TTTCATTTCAAAGATA
77771097 TGGTGGATATCGCACTTAGCACCA-CC-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGAAT
1 TGGTGGATATCGCACTTAGCACCACCCAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGAAT
77771160 CAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 CAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
* **
77771196 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCC--AAATCGGGGAATCAGCACTTAGCAACCCCT
77771255 TTTATATACA
Statistics
Matches: 241, Mismatches: 8, Indels: 21
0.89 0.03 0.08
Matches are distributed among these distances:
97 3 0.01
98 25 0.10
99 64 0.27
100 11 0.05
101 46 0.19
102 26 0.11
103 66 0.27
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (99 bp):
TGGTGGATATCGCACTTAGCACCACCCAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGAAT
CAGCACATAGCAACCCCCTTTCATTTCAAAGATA
Found at i:77771616 original size:29 final size:29
Alignment explanation
Indices: 77771583--77771646 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
77771573 TAATCCACCA
77771583 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
77771612 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
77771642 CCCAA
1 CCCAA
77771647 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:77771620 original size:30 final size:30
Alignment explanation
Indices: 77771590--77771646 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
77771580 CCACCCAACT
77771590 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
77771619 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
77771647 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:77783189 original size:25 final size:25
Alignment explanation
Indices: 77783161--77783210 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
77783151 CATTATCTTA
77783161 CCATTTC-ATAATAT-ACATATATCAT
1 CCATTTCAAT-ATATCA-ATATATCAT
77783186 CCATTTCAATATATCAATATATCAT
1 CCATTTCAATATATCAATATATCAT
77783211 GTACCACCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (25 bp):
CCATTTCAATATATCAATATATCAT
Found at i:77783882 original size:17 final size:18
Alignment explanation
Indices: 77783842--77783883 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
77783832 GATCTAAATT
* *
77783842 AATAATTTCATTCAATAT
1 AATAATTTCATACAATAA
*
77783860 ATTAATTT-ATACAATAA
1 AATAATTTCATACAATAA
77783877 AATAATT
1 AATAATT
77783884 CATTTCATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
AATAATTTCATACAATAA
Found at i:77783893 original size:22 final size:22
Alignment explanation
Indices: 77783855--77783896 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
77783845 AATTTCATTC
77783855 AATATATTAATTTATACAATAA
1 AATATATTAATTTATACAATAA
*
77783877 AATA-ATTCATTTCATACAAT
1 AATATATTAATTT-ATACAAT
77783897 TTGGTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
AATATATTAATTTATACAATAA
Found at i:77790943 original size:38 final size:38
Alignment explanation
Indices: 77790892--77790968 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
77790882 GATGAGAATG
77790892 AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
1 AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
77790930 AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
1 AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
77790968 A
1 A
77790969 TGGGGTGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (38 bp):
AATCATTGTCTCTGAATCCTATCCTAGAGAAGTTGGTT
Found at i:77792617 original size:14 final size:14
Alignment explanation
Indices: 77792598--77792653 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
77792588 AACTTTCAAC
*
77792598 TTAAAATATAAAAT
1 TTAAAAAATAAAAT
*
77792612 TTAAAAAATCAAAT
1 TTAAAAAATAAAAT
77792626 TTATAAAAATAAGAAT
1 TTA-AAAAATAA-AAT
* *
77792642 ATAAAAATTAAA
1 TTAAAAAATAAA
77792654 TTTCAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 16 0.46
15 14 0.40
16 5 0.14
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (14 bp):
TTAAAAAATAAAAT
Found at i:77795148 original size:14 final size:13
Alignment explanation
Indices: 77795105--77795167 Score: 54
Period size: 14 Copynumber: 4.5 Consensus size: 13
77795095 TTAAGGATTC
77795105 CTTTGTTTTATTTT
1 CTTT-TTTTATTTT
* *
77795119 CTTTCTTTCTTCTT
1 CTTTTTTTATT-TT
77795133 CTTTTTTTATATTT
1 CTTTTTTTAT-TTT
*
77795147 CTTTTCTTTATATT
1 CTTTT-TTTATTTT
*
77795161 ATTTTTT
1 CTTTTTT
77795168 ATCTTTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
13 7 0.17
14 27 0.68
15 6 0.15
ACGTcount: A:0.10, C:0.13, G:0.02, T:0.76
Consensus pattern (13 bp):
CTTTTTTTATTTT
Found at i:77795400 original size:22 final size:22
Alignment explanation
Indices: 77795372--77795427 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
77795362 AAACATTTTT
77795372 ATTTTTTAAAATAATTATTATA
1 ATTTTTTAAAATAATTATTATA
77795394 ATTTTTTAAAATAATTATTATA
1 ATTTTTTAAAATAATTATTATA
*
77795416 GTTTTTTAAAAT
1 ATTTTTTAAAAT
77795428 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTTTTAAAATAATTATTATA
Found at i:77795556 original size:11 final size:11
Alignment explanation
Indices: 77795540--77795608 Score: 60
Period size: 11 Copynumber: 6.8 Consensus size: 11
77795530 TAAAACACAC
77795540 AAATTAAAAAA
1 AAATTAAAAAA
77795551 AAATT-AAAAA
1 AAATTAAAAAA
* *
77795561 AGA-T-GAAAA
1 AAATTAAAAAA
77795570 AAA-TAAAAAA
1 AAATTAAAAAA
*
77795580 AAACT--AAAA
1 AAATTAAAAAA
*
77795589 TAATTAAAAAA
1 AAATTAAAAAA
77795600 AAATTAAAA
1 AAATTAAAA
77795609 TCTCACTACT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 15 0.32
10 14 0.30
11 18 0.38
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (11 bp):
AAATTAAAAAA
Found at i:77795569 original size:19 final size:19
Alignment explanation
Indices: 77795547--77795601 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
77795537 CACAAATTAA
*
77795547 AAAAAAATTAAAAAAGA-T
1 AAAAAAATTAAAAAAAACT
*
77795565 GAAAAAAATAAAAAAAAACT
1 -AAAAAAATTAAAAAAAACT
*
77795585 AAAATAATTAAAAAAAA
1 AAAAAAATTAAAAAAAA
77795602 ATTAAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAAAAATTAAAAAAAACT
Found at i:77795598 original size:29 final size:29
Alignment explanation
Indices: 77795544--77795601 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
77795534 ACACACAAAT
* *
77795544 TAAAAAAAAATTAAAAAAGATGAAAAAAA
1 TAAAAAAAAACTAAAAAAGATAAAAAAAA
*
77795573 TAAAAAAAAACTAAAATAA-TTAAAAAAAA
1 TAAAAAAAAACTAAAA-AAGATAAAAAAAA
77795602 ATTAAAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (29 bp):
TAAAAAAAAACTAAAAAAGATAAAAAAAA
Found at i:77795608 original size:9 final size:9
Alignment explanation
Indices: 77795547--77795600 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
77795537 CACAAATTAA
77795547 AAAAAAATT
1 AAAAAAATT
*
77795556 AAAAAAGATG
1 AAAAAA-ATT
*
77795566 AAAAAAATAA
1 AAAAAAAT-T
*
77795576 AAAAAAACT
1 AAAAAAATT
*
77795585 AAAATAATT
1 AAAAAAATT
77795594 AAAAAAA
1 AAAAAAA
77795601 AATTAAAATC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 21 0.58
10 15 0.42
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.15
Consensus pattern (9 bp):
AAAAAAATT
Found at i:77795950 original size:20 final size:19
Alignment explanation
Indices: 77795927--77795976 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
77795917 ATTACAAAAT
77795927 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-AAA
* *
77795947 AATTCAAAATCATTTTTAA
1 AATTCAAAATAATTTTAAA
77795966 AATTCAAAATA
1 AATTCAAAATA
77795977 TTTATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:77799515 original size:29 final size:29
Alignment explanation
Indices: 77799473--77799554 Score: 92
Period size: 30 Copynumber: 2.8 Consensus size: 29
77799463 GCTGGCATAT
*
77799473 AGGCGTGTGTCCAGCCCGTGTGGTTACAC
1 AGGCGTGTGCCCAGCCCGTGTGGTTACAC
* * *
77799502 AGGCGTGTGCCCAGCCTGTATAGGTTACAT
1 AGGCGTGTGCCCAGCCCGTGT-GGTTACAC
* * *
77799532 GGGTGTGTGCCCAGCCCATGTGG
1 AGGCGTGTGCCCAGCCCGTGTGG
77799555 CTCTTGAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
29 20 0.47
30 23 0.53
ACGTcount: A:0.15, C:0.26, G:0.35, T:0.24
Consensus pattern (29 bp):
AGGCGTGTGCCCAGCCCGTGTGGTTACAC
Found at i:77800447 original size:15 final size:15
Alignment explanation
Indices: 77800427--77800456 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
77800417 AAATCAAATC
77800427 TCAATAAAAAGGGAA
1 TCAATAAAAAGGGAA
*
77800442 TCAATAAAATGGGAA
1 TCAATAAAAAGGGAA
77800457 AAAGTCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.17
Consensus pattern (15 bp):
TCAATAAAAAGGGAA
Found at i:77802996 original size:22 final size:21
Alignment explanation
Indices: 77802962--77803017 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
77802952 ACATAACAAA
* *
77802962 AATAAAAATAATA-AACATAAT
1 AATAAAAAAAATAGAA-AGAAT
77802983 AATAAAAACAAATAGAAAGAAT
1 AATAAAAA-AAATAGAAAGAAT
77803005 AATAAGAAAAAAT
1 AATAA-AAAAAAT
77803018 GTTAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 8 0.27
22 17 0.57
23 5 0.17
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (21 bp):
AATAAAAAAAATAGAAAGAAT
Found at i:77803043 original size:10 final size:10
Alignment explanation
Indices: 77803024--77803081 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 10
77803014 AAATGTTAAT
77803024 AAATAGAATAA
1 AAATA-AATAA
77803035 AAATAAATAA
1 AAATAAATAA
77803045 TAAA-AAATAA
1 -AAATAAATAA
* *
77803055 TAAT-AATTA
1 AAATAAATAA
77803064 AAATAAAATAA
1 AAAT-AAATAA
77803075 AAATAAA
1 AAATAAA
77803082 GAGCAAGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
9 9 0.23
10 14 0.36
11 16 0.41
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (10 bp):
AAATAAATAA
Found at i:77803051 original size:35 final size:34
Alignment explanation
Indices: 77802960--77803081 Score: 104
Period size: 35 Copynumber: 3.4 Consensus size: 34
77802950 TAACATAACA
*
77802960 AAAATAAA-AATAATAAACATAATAATAAAAACAAAT
1 AAAATAAATAATAA-AAA-ATAATAATAAATA-AAAT
* * ** *
77802996 AGAAAGAATAATAAGAAAAAATGTTAATAAATAGAAT
1 A-AAA-TA-AATAATAAAAAATAATAATAAATAAAAT
*
77803033 AAAAATAAATAATAAAAAATAATAATAATTAAAAT
1 -AAAATAAATAATAAAAAATAATAATAAATAAAAT
77803068 AAAATAAA-AATAAA
1 AAAATAAATAATAAA
77803082 GAGCAAGGGT
Statistics
Matches: 69, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
33 6 0.09
34 8 0.12
35 23 0.33
36 2 0.03
37 9 0.13
38 12 0.17
39 5 0.07
40 4 0.06
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (34 bp):
AAAATAAATAATAAAAAATAATAATAAATAAAAT
Found at i:77812798 original size:24 final size:22
Alignment explanation
Indices: 77812765--77812852 Score: 74
Period size: 24 Copynumber: 3.8 Consensus size: 22
77812755 AACACAAAAA
77812765 AAAGAAAATAAACAAAAATAAAT
1 AAAGAAAATAAA-AAAAATAAAT
*
77812788 AAAGTAAAAT-ACAAAAATAAAGT
1 AAAG-AAAATAAAAAAAATAAA-T
77812811 GAAA-ATAAA-AATAAAAAATAACAAT
1 -AAAGA-AAATAA-AAAAAAT-A-AAT
77812836 AAAGAAAATAAAAAAAA
1 AAAGAAAATAAAAAAAA
77812853 GAAAAACAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
22 10 0.19
23 10 0.19
24 26 0.49
25 5 0.09
26 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (22 bp):
AAAGAAAATAAAAAAAATAAAT
Found at i:77812803 original size:22 final size:22
Alignment explanation
Indices: 77812776--77812851 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 22
77812766 AAGAAAATAA
77812776 ACAAAAATAAATAAAGTAAAAT
1 ACAAAAATAAATAAAGTAAAAT
*
77812798 ACAAAAATAAAGTGAAAATAAAAAT
1 ACAAAAATAAA-T-AAAGT-AAAAT
77812823 A-AAAAATAACAATAAAG-AAAAT
1 ACAAAAAT-A-AATAAAGTAAAAT
*
77812845 AAAAAAA
1 ACAAAAA
77812852 AGAAAAACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
22 17 0.37
23 6 0.13
24 13 0.28
25 8 0.17
26 2 0.04
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.14
Consensus pattern (22 bp):
ACAAAAATAAATAAAGTAAAAT
Found at i:77812807 original size:18 final size:17
Alignment explanation
Indices: 77812784--77812825 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
77812774 AAACAAAAAT
77812784 AAATAAAGT-AAAATACAA
1 AAATAAAGTGAAAAT--AA
77812802 AAATAAAGTGAAAATAA
1 AAATAAAGTGAAAATAA
77812819 AAATAAA
1 AAATAAA
77812826 AAATAACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 9 0.39
19 5 0.22
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (17 bp):
AAATAAAGTGAAAATAA
Found at i:77812822 original size:17 final size:17
Alignment explanation
Indices: 77812784--77812850 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 17
77812774 AAACAAAAAT
77812784 AAATAAAGTAAAATACAA
1 AAATAAAGTAAAATA-AA
77812802 AAATAAAGTGAAAAT-AA
1 AAATAAAGT-AAAATAAA
77812819 AAAT-AA--AAAAT-AA
1 AAATAAAGTAAAATAAA
*
77812832 CAATAAAG-AAAATAAA
1 AAATAAAGTAAAATAAA
77812848 AAA
1 AAA
77812851 AAGAAAAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 10 0.23
14 2 0.05
15 5 0.12
16 6 0.14
17 6 0.14
18 9 0.21
19 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (17 bp):
AAATAAAGTAAAATAAA
Found at i:77821584 original size:12 final size:13
Alignment explanation
Indices: 77821569--77821601 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
77821559 TTTGTAATAT
77821569 TTTTATTTTTC-A
1 TTTTATTTTTCTA
77821581 TTTTATTTTTCTA
1 TTTTATTTTTCTA
*
77821594 TTTAATTT
1 TTTTATTT
77821602 CTAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTTTTCTA
Found at i:77825968 original size:32 final size:32
Alignment explanation
Indices: 77825927--77825990 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
77825917 ACTTACTGAG
77825927 AAGGTGCCCTCACCATGGATTATCGCTTTGGC
1 AAGGTGCCCTCACCATGGATTATCGCTTTGGC
*
77825959 AAGGTGCCCTCACCATGGGTTATCGCTTTGGC
1 AAGGTGCCCTCACCATGGATTATCGCTTTGGC
77825991 TACAGGTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.28
Consensus pattern (32 bp):
AAGGTGCCCTCACCATGGATTATCGCTTTGGC
Found at i:77835154 original size:18 final size:21
Alignment explanation
Indices: 77835131--77835168 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
77835121 TGGGTGTAAA
77835131 TTTAGG-TTT-TA-TTAAATT
1 TTTAGGATTTGTAGTTAAATT
77835149 TTTAGGATTTGTAGTTAAAT
1 TTTAGGATTTGTAGTTAAAT
77835169 CGTGGACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 2 0.12
21 6 0.35
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTAGGATTTGTAGTTAAATT
Found at i:77836146 original size:27 final size:26
Alignment explanation
Indices: 77836116--77836175 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
77836106 AGTGGGCCAA
* *
77836116 AGCCCATTACA-ATATCATTTGGGTCAT
1 AGCCCATAACAGA-ATCAATTGGG-CAT
*
77836143 AGCCCATAACAGAATCAATTGGGCCT
1 AGCCCATAACAGAATCAATTGGGCAT
77836169 AGCCCAT
1 AGCCCAT
77836176 CTCATTAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 19 0.66
28 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (26 bp):
AGCCCATAACAGAATCAATTGGGCAT
Found at i:77836989 original size:27 final size:27
Alignment explanation
Indices: 77836945--77837006 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
77836935 CAAAACAATC
* * * *
77836945 ATTTTACCCTATAGGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCGATA
77836972 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
77836999 ATTTTACA
1 ATTTTACA
77837007 AGCTGGGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:77837016 original size:27 final size:27
Alignment explanation
Indices: 77836958--77837041 Score: 80
Period size: 27 Copynumber: 3.1 Consensus size: 27
77836948 TTACCCTATA
* * *
77836958 GGGGTATTTCGGTAATTTTACACTAC-A
1 GGGGTATTTCGATAATTTTACA-AACTG
* *
77836985 AGGGTATTTCGATAATTTTACAAGCTG
1 GGGGTATTTCGATAATTTTACAAACTG
* * *
77837012 GGGGTATTTTGGTAGTTTTACAAACTG
1 GGGGTATTTCGATAATTTTACAAACTG
77837039 GGG
1 GGG
77837042 TCTTAACGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (27 bp):
GGGGTATTTCGATAATTTTACAAACTG
Found at i:77843832 original size:26 final size:26
Alignment explanation
Indices: 77843802--77843853 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
77843792 AATAGTAGTT
77843802 AAATGTTA-AATATATATGTTGTTATG
1 AAATGTTAGAATATATAT-TTGTTATG
*
77843828 AAATGTTAGAATTTATATTTGTTATG
1 AAATGTTAGAATATATATTTGTTATG
77843854 GTCGAATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (26 bp):
AAATGTTAGAATATATATTTGTTATG
Found at i:77855362 original size:29 final size:29
Alignment explanation
Indices: 77855299--77855406 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 29
77855289 TTCACATACC
* * * *
77855299 TGTATTTGGCCCATTAGGCCC-ATTCATA
1 TGTATATGACCCATTAGGCCCAAATCACA
* * *
77855327 T-TCATATGACCTATTAGGGCCAAATCACC
1 TGT-ATATGACCCATTAGGCCCAAATCACA
*
77855356 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGACCCATTAGGCCCAAATCACA
* *
77855385 TTTATATGACCCGTTAGGCCCA
1 TGTATATGACCCATTAGGCCCA
77855407 GTCACATTCA
Statistics
Matches: 63, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
27 1 0.02
28 15 0.24
29 46 0.73
30 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (29 bp):
TGTATATGACCCATTAGGCCCAAATCACA
Found at i:77857550 original size:28 final size:27
Alignment explanation
Indices: 77857483--77857552 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
77857473 AGAATATGAT
* *
77857483 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
77857510 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
77857538 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
77857553 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:77857568 original size:55 final size:53
Alignment explanation
Indices: 77857428--77857579 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
77857418 TAAATTGTAC
* *
77857428 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
77857481 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
77857536 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
77857580 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:77857584 original size:27 final size:27
Alignment explanation
Indices: 77857429--77857584 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
77857419 AAATTGTACA
* *
77857429 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
77857456 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
77857483 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
77857510 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
77857538 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
77857565 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
77857585 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:77861248 original size:28 final size:27
Alignment explanation
Indices: 77861181--77861250 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
77861171 AGAATATGAT
* *
77861181 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
77861208 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
77861236 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
77861251 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:77861266 original size:55 final size:53
Alignment explanation
Indices: 77861126--77861277 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
77861116 TAAATTGTAC
* *
77861126 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
77861179 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
77861234 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
77861278 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:77861282 original size:27 final size:27
Alignment explanation
Indices: 77861127--77861282 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
77861117 AAATTGTACA
* *
77861127 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
77861154 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
77861181 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
77861208 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
77861236 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
77861263 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
77861283 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:77869308 original size:28 final size:27
Alignment explanation
Indices: 77869241--77869310 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 27
77869231 AGAATATGAT
* *
77869241 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTAACCATGCA
* *
77869268 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TAACCATGCA
*
77869296 GCACTAAGGGTGCGA
1 GCACTAAGTGTGCGA
77869311 TTTGATTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 17 0.46
28 20 0.54
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTAACCATGCA
Found at i:77869326 original size:55 final size:53
Alignment explanation
Indices: 77869186--77869337 Score: 178
Period size: 55 Copynumber: 2.8 Consensus size: 53
77869176 TAAATTGTAC
* *
77869186 AGCACTAAGTGTGCGATTCGATTATGTTGCACTAAGTGTGCGAAAAGAATATG
1 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
* ** * ***
77869239 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAATCTAACTATG
1 A-GCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAA-TATG
* *
77869294 TAGCACTAAGGGTGCGATTTGATTACGTGGCACTAAGTGTGCGA
1 -AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGA
77869338 GTTGAGTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 39 0.48
55 40 0.49
56 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAAAAGAATATG
Found at i:77869342 original size:27 final size:27
Alignment explanation
Indices: 77869187--77869342 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
77869177 AAATTGTACA
* *
77869187 GCACTAAGTGTGCG-ATTCGATTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
** *
77869214 GCACTAAGTGTGCGAAAAGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
77869241 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
77869268 GCACTAAGTGTGCGAATCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * * *
77869296 GCACTAAGGGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
77869323 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
77869343 GTGAATAGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
27 82 0.78
28 23 0.22
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:77872275 original size:13 final size:13
Alignment explanation
Indices: 77872259--77872284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77872249 ACCTACACCA
77872259 CAATTCAAAGCAT
1 CAATTCAAAGCAT
77872272 CAATTCAAAGCAT
1 CAATTCAAAGCAT
77872285 AATAGGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
CAATTCAAAGCAT
Found at i:77878325 original size:7 final size:7
Alignment explanation
Indices: 77878315--77878345 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
77878305 TTCTCTTTTA
77878315 TTAGGTT
1 TTAGGTT
77878322 TTAGGTT
1 TTAGGTT
77878329 TTAGGTT
1 TTAGGTT
*
77878336 TTAGATT
1 TTAGGTT
77878343 TTA
1 TTA
77878346 TTTTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (7 bp):
TTAGGTT
Found at i:77888283 original size:59 final size:58
Alignment explanation
Indices: 77888206--77888401 Score: 178
Period size: 59 Copynumber: 3.3 Consensus size: 58
77888196 TTTTAGATAC
* * *
77888206 CCAACAAAGGTTTTCCTTTCATATATTTGCCACAAATGAATCCCTTTCTTTCAGTACTCA
1 CCAA-AAAGGCTTTCCTTTCAAATATTTGCCACAAA-GAATCCTTTTCTTTCAGTACTCA
* ** * * * **
77888266 CCAAAAAAGCTTTCCTTTCGGATATTCGCGACAAACACATCCTTTTCTTTCAGTACTTG
1 CCAAAAAGGCTTTCCTTTCAAATATTTGCCACAAAGA-ATCCTTTTCTTTCAGTACTCA
* * * * * * *
77888325 CCATAAAGGCTTTCCTTTCAAAAATTTACTATGAAAGCATCCTTTTGATTT-AGTACTCA
1 CCAAAAAGGCTTTCCTTTCAAATATTTGCCA-CAAAGAATCCTTTT-CTTTCAGTACTCA
77888384 CCAAAAAGGCTTTCCTTT
1 CCAAAAAGGCTTTCCTTT
77888402 TAGAGATTTT
Statistics
Matches: 108, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
58 1 0.01
59 97 0.90
60 10 0.09
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (58 bp):
CCAAAAAGGCTTTCCTTTCAAATATTTGCCACAAAGAATCCTTTTCTTTCAGTACTCA
Found at i:77899533 original size:55 final size:54
Alignment explanation
Indices: 77899406--77899538 Score: 155
Period size: 53 Copynumber: 2.5 Consensus size: 54
77899396 CTTACCATTA
* *
77899406 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAAAGT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAAAGT
* * * * *
77899460 -CATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAATAACTCATC-AATT
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT--GAACTCACCAAAGT
77899514 CCATGTCTTGACATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
77899539 ATATCTTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.03
53 32 0.48
54 3 0.05
55 29 0.44
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAAAGT
Found at i:77899565 original size:46 final size:45
Alignment explanation
Indices: 77899509--77899779 Score: 184
Period size: 47 Copynumber: 5.8 Consensus size: 45
77899499 AATAACTCAT
* * *
77899509 CAATTCCATGTCTTGACATGGTCTTACATGATATCTTTATCTTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGTCTTAC
*** * *
77899554 CGAATGCCATGTTCCAAACATGGTCTTAGATGGTATCCTTGTCTTAC
1 C-AATGCCATG-TCTTGACATGGTCTTACATGATATCCTTGTCTTAC
* * *** *
77899601 CAAAGTCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCTTAGTGC
1 CAATGCCATG-TCTTGACATGGTCTTACATGATATCCTTGTCTTA---C
* ** ** * * * **
77899650 TAATGCCACATCTTGATGTGGTCTTACATGGA-GTCCTTAATCAATGT
1 CAATGCCATGTCTTGACATGGTCTTACAT-GATATCCTT-GTC-TTAC
* * ** * *
77899697 CGATGCCATGTCTTGACATAGTCTTACACAAGATCCTTGCCTTAC
1 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGTCTTAC
77899742 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
1 CAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
77899780 AACCGTTAAT
Statistics
Matches: 170, Mismatches: 47, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
45 35 0.21
46 51 0.30
47 55 0.32
48 19 0.11
49 9 0.05
50 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (45 bp):
CAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGTCTTAC
Found at i:77899599 original size:47 final size:46
Alignment explanation
Indices: 77899524--77899645 Score: 181
Period size: 46 Copynumber: 2.6 Consensus size: 46
77899514 CCATGTCTTG
* * * *
77899524 ACATGGTCTTACATGATATCTTTATCTTACCGAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACC-AAAGCCATGTTCCAA
* *
77899571 ACATGGTCTTAGATGGTATCCTTGTCTTACCAAAGTCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAAGCCATGTTCCAA
77899617 ACATGGTCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
77899646 GTGCTAATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
46 41 0.60
47 27 0.40
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (46 bp):
ACATGGTCTTACATGGTATCCTTGTCTTACCAAAGCCATGTTCCAA
Found at i:77905764 original size:54 final size:54
Alignment explanation
Indices: 77905581--77905774 Score: 203
Period size: 55 Copynumber: 3.6 Consensus size: 54
77905571 TTACCATTGT
* * * * *
77905581 CATGTCTTGACATGGTCTTACGTGGTATCCTCGCCTTAT-GAACTCACCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
* ** ** *
77905634 CTTGCCTTGGTATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGC
* * * *
77905689 CATGTCTTGACATGGTTTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
* *
77905743 CATACCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGACATGGTCTTACATGATATCCTT
77905775 ATCTTACCAA
Statistics
Matches: 113, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 2 0.02
53 28 0.25
54 40 0.35
55 41 0.36
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
Found at i:77905807 original size:47 final size:47
Alignment explanation
Indices: 77905753--77905874 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
77905743 CATACCTTGG
*
77905753 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
77905800 CATGGTCTTACATGGTATCCTTTTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
77905847 CATGGTCTTACATGGGATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
77905875 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:77913265 original size:23 final size:23
Alignment explanation
Indices: 77913235--77913281 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
77913225 AGAACAACAT
77913235 TCTTCCCAGAATTATGAATTTAA
1 TCTTCCCAGAATTATGAATTTAA
77913258 TCTTCCCAGAATTATGAATTTAA
1 TCTTCCCAGAATTATGAATTTAA
77913281 T
1 T
77913282 ATACTTATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (23 bp):
TCTTCCCAGAATTATGAATTTAA
Found at i:77916698 original size:30 final size:30
Alignment explanation
Indices: 77916638--77916699 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
77916628 GCCTTTTGAA
* * *
77916638 AATATTTACAAAAAGATGCATCTAATTTTT
1 AATATTTACAAAAAGATGCACCAAAGTTTT
77916668 AATATTTACAAAAAGA-GCAACCAAAGTTTT
1 AATATTTACAAAAAGATGC-ACCAAAGTTTT
77916698 AA
1 AA
77916700 AAATAGTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGATGCACCAAAGTTTT
Found at i:77919121 original size:20 final size:21
Alignment explanation
Indices: 77919083--77919127 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
77919073 AACAAGTATC
*
77919083 GATACTTTTTAAATGAGTACT
1 GATACTTTTTAAATAAGTACT
* *
77919104 GATATTTTTTAAA-AAGTATT
1 GATACTTTTTAAATAAGTACT
77919124 GATA
1 GATA
77919128 AAACAGTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (21 bp):
GATACTTTTTAAATAAGTACT
Found at i:77919526 original size:37 final size:38
Alignment explanation
Indices: 77919452--77919528 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
77919442 CTCCAACTAA
77919452 TTGCATATGAGAGACATTTAAATAAGTTGTTCATGCTT
1 TTGCATATGAGAGACATTTAAATAAGTTGTTCATGCTT
*
77919490 TTGCATATGAGAGCCATTTAAAT-AGTTGTTCATGCTT
1 TTGCATATGAGAGACATTTAAATAAGTTGTTCATGCTT
77919527 TT
1 TT
77919529 TCAAACAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 16 0.42
38 22 0.58
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.42
Consensus pattern (38 bp):
TTGCATATGAGAGACATTTAAATAAGTTGTTCATGCTT
Found at i:77929758 original size:28 final size:28
Alignment explanation
Indices: 77929726--77929827 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
77929716 CAAATATGGT
*
77929726 ACTTAGTGTACGAAATATTGAGAATGGC
1 ACTTAGTGTACGAAATATTGAGAATGAC
77929754 ACTTAGTGTACGAAATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
77929782 ACTTAGTGTGCGAGATATTGAGAATGAC
1 ACTTAGTGTACGAAATATTGAGAATGAC
* *
77929810 ACTTAGTGTGCAAAATAT
1 ACTTAGTGTACGAAATAT
77929828 CGAATGATTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTTAGTGTACGAAATATTGAGAATGAC
Found at i:77940330 original size:7 final size:7
Alignment explanation
Indices: 77940318--77940345 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
77940308 TTTAAATGAT
77940318 CACATTC
1 CACATTC
77940325 CACATTC
1 CACATTC
77940332 CACATTC
1 CACATTC
77940339 CACATTC
1 CACATTC
77940346 GCTCCAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (7 bp):
CACATTC
Found at i:77966748 original size:34 final size:33
Alignment explanation
Indices: 77966695--77966765 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 33
77966685 ATGCATATCA
*
77966695 GATACTGTACTGAATTGGGCTAAGGC-CCACACT
1 GATACTGTACTGAATTGGGC-AAAGCTCCACACT
77966728 GATACTGTTACTGTAA-TGGGCAAAGCTCCACACT
1 GATACTG-TACTG-AATTGGGCAAAGCTCCACACT
77966762 GATA
1 GATA
77966766 TTGCCACTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
33 11 0.32
34 21 0.62
35 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (33 bp):
GATACTGTACTGAATTGGGCAAAGCTCCACACT
Found at i:77969837 original size:16 final size:16
Alignment explanation
Indices: 77969790--77969838 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
77969780 AATATTCCAG
**
77969790 CACAAAGCCTGCTAGG
1 CACAAAGCCTGCTATA
77969806 CACAAAGCCTGCTATA
1 CACAAAGCCTGCTATA
*
77969822 CACAAAGCCTGATATA
1 CACAAAGCCTGCTATA
77969838 C
1 C
77969839 TACACCACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.37, C:0.31, G:0.16, T:0.16
Consensus pattern (16 bp):
CACAAAGCCTGCTATA
Found at i:77970086 original size:46 final size:45
Alignment explanation
Indices: 77970017--77970129 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 45
77970007 GGATGTCATG
* * * *
77970017 GTGTCTTTCAACCATTGTTTTATTCATTTCCTGTCGTGTTGCTATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTCAT-TCGTGATGCTATA
* ** *
77970063 GTGTCTTTCAACTATGGTCTTATTTGTTTGATTCGTGATGCTATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTCATTCGTGATGCTATA
* *
77970108 GCGTCTTTCAGCCATGGTCTTA
1 GTGTCTTTCAACCATGGTCTTA
77970130 CTAAATAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
45 31 0.55
46 25 0.45
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.47
Consensus pattern (45 bp):
GTGTCTTTCAACCATGGTCTTATTCATTTCATTCGTGATGCTATA
Found at i:77970222 original size:45 final size:45
Alignment explanation
Indices: 77970065--77970223 Score: 167
Period size: 45 Copynumber: 3.5 Consensus size: 45
77970055 TTGCTATAGT
* * * * * * *
77970065 GTCTTTCAACTATGGTCTTATTTGTTTG-ATTCGTGATGCTATAGC
1 GTCTTTCAGCTATGGTCTTACTCGATAGAATT-GTGATGCCATAAC
* ** * * *
77970110 GTCTTTCAGCCATGGTCTTACTAAATAAAATCGTGATGCGATAAC
1 GTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAAC
* *
77970155 ATCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAAT
1 GTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAAC
77970200 GTCTTTCAGCTATGGTCTTACTCG
1 GTCTTTCAGCTATGGTCTTACTCG
77970224 TTTCTAGTAT
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
45 91 0.98
46 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (45 bp):
GTCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAAC
Found at i:77970240 original size:45 final size:44
Alignment explanation
Indices: 77970156--77970262 Score: 115
Period size: 45 Copynumber: 2.4 Consensus size: 44
77970146 TGCGATAACA
* * *
77970156 TCTTTCAGCTATGGTCTTACTCGATAGAATTGTGATGCCATAATG
1 TCTTTCAGCTATGGTCTTACTCGATACAAGTATGATGCCAT-ATG
* * * * *
77970201 TCTTTCAGCTATGGTCTTACTCGTTTCTAGTATGGTGCCATGTG
1 TCTTTCAGCTATGGTCTTACTCGATACAAGTATGATGCCATATG
* *
77970245 TCTTTCAACTACGGTCTT
1 TCTTTCAGCTATGGTCTT
77970263 TTTTTTATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
44 18 0.35
45 34 0.65
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.41
Consensus pattern (44 bp):
TCTTTCAGCTATGGTCTTACTCGATACAAGTATGATGCCATATG
Found at i:77979351 original size:74 final size:74
Alignment explanation
Indices: 77979212--77979353 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 74
77979202 AGGACTAACT
* *
77979212 AAATAGAAGTTTGAACCCCTTTAGACTTAATAAATATTTCGTAATTTTTCATACCTAAGTCAAAA
1 AAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTCGTAATTTTTCATACCTAAGTCAAAA
77979277 AGACTATTC
66 AGACTATTC
* * *
77979286 AAATAGAAGTTTAAACCCCTTTAGACTAAATAACTATTTTTC-TAGTTTTTCATACCTAAGTAAA
1 AAATAGAAGTTTAAACCCCTTTAGACTAAATAA--ATATTTCGTAATTTTTCATACCTAAGTCAA
77979350 AAAG
64 AAAG
77979354 GGGTATCTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
74 31 0.51
75 24 0.39
76 6 0.10
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (74 bp):
AAATAGAAGTTTAAACCCCTTTAGACTAAATAAATATTTCGTAATTTTTCATACCTAAGTCAAAA
AGACTATTC
Found at i:77981855 original size:6 final size:6
Alignment explanation
Indices: 77981844--77981877 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
77981834 AGGATTGCAA
* *
77981844 ATTTCC ATTTCC GTTTTC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
77981878 TTAGAAACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:77981867 original size:18 final size:18
Alignment explanation
Indices: 77981844--77981878 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77981834 AGGATTGCAA
*
77981844 ATTTCCATTTCCGTTTTC
1 ATTTCCATTTCCATTTTC
77981862 ATTTCCATTTCCATTTT
1 ATTTCCATTTCCATTTT
77981879 TAGAAACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.26, G:0.03, T:0.57
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTC
Found at i:77981978 original size:37 final size:37
Alignment explanation
Indices: 77981937--77982008 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
77981927 AAAACCATAA
77981937 CATTCCTGAATGTTTCCCATTTCTCTTTTTCTATTAC
1 CATTCCTGAATGTTTCCCATTTCTCTTTTTCTATTAC
*
77981974 CATTCCTGAATGTTTCCTATTTCTCTTTTTCTATT
1 CATTCCTGAATGTTTCCCATTTCTCTTTTTCTATT
77982009 CATTTTGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.15, C:0.25, G:0.06, T:0.54
Consensus pattern (37 bp):
CATTCCTGAATGTTTCCCATTTCTCTTTTTCTATTAC
Found at i:77989384 original size:31 final size:30
Alignment explanation
Indices: 77989335--77989420 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 30
77989325 TCAAACTCAG
*
77989335 CATATACTGGGCCGAAGCCTTTACATTACT
1 CATATACTAGGCCGAAGCCTTTACATTACT
* * *
77989365 CATATCACTAGGCCAAAGCCTTTTCATTATT
1 CATAT-ACTAGGCCGAAGCCTTTACATTACT
* *
77989396 CATGTAACTCGGCCGAAGCCTTTAC
1 CATAT-ACTAGGCCGAAGCCTTTAC
77989421 TATAACAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 5 0.11
31 41 0.89
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (30 bp):
CATATACTAGGCCGAAGCCTTTACATTACT
Found at i:77989653 original size:25 final size:25
Alignment explanation
Indices: 77989625--77989684 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
77989615 CTGGAGGCCT
77989625 AGCCTCTTTTAAT-AACTGGAGCAAA
1 AGCC-CTTTTAATAAACTGGAGCAAA
* *
77989650 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGAGCAAA
77989676 AGCCCTTTT
1 AGCCCTTTT
77989685 CGGTAAACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.03
25 14 0.45
26 16 0.52
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGAGCAAA
Found at i:77989702 original size:25 final size:26
Alignment explanation
Indices: 77989638--77989732 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
77989628 CTCTTTTAAT
* *
77989638 AACTGGAGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTTGGTA
*
77989664 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTTGGTA
77989690 AACTGGGGC-AAAG-CCTTTTTGGT-
1 AACTGGGGCAAAAGCCCTTTTTGGTA
*
77989713 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
77989733 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
23 12 0.19
24 15 0.24
25 4 0.06
26 32 0.51
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTTGGTA
Found at i:77994789 original size:17 final size:17
Alignment explanation
Indices: 77994767--77994804 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
77994757 CTAAAGAGTT
77994767 TATCTACCTTAACCGAG
1 TATCTACCTTAACCGAG
77994784 TATCTACCTTAACCGAG
1 TATCTACCTTAACCGAG
77994801 TATC
1 TATC
77994805 CTAAAGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (17 bp):
TATCTACCTTAACCGAG
Found at i:77997424 original size:31 final size:31
Alignment explanation
Indices: 77997381--77997466 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
77997371 TCAATCTTAG
77997381 CATAT-ACTGGGCCGAAGCCTTTACATTACT
1 CATATCACTGGGCCGAAGCCTTTACATTACT
* *
77997411 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTACT
*
77997442 CATATCATTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
77997467 TGTAACAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTACT
Found at i:77997779 original size:24 final size:25
Alignment explanation
Indices: 77997684--77997761 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 25
77997674 CTCTTTTAAT
* * *
77997684 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTAGGGC-AAAGCCCTTTTCGGTA
* *
77997710 AACTAGGGAAAAATCCCTTTTCGGTA
1 AACTAGGG-CAAAGCCCTTTTCGGTA
77997736 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGGTA
77997761 A
1 A
77997762 TTGAGGCATA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 16 0.36
26 28 0.64
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGGTA
Found at i:77997915 original size:25 final size:25
Alignment explanation
Indices: 77997887--77997959 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
77997877 CATAATTAAC
* *
77997887 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
*
77997912 CCTAGGGGCAAAACAGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
77997937 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
77997960 CATATTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:78005336 original size:13 final size:13
Alignment explanation
Indices: 78005298--78005327 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
78005288 CATGCAAATT
*
78005298 AAAAGAAAGGAAG
1 AAAAGAAAGAAAG
78005311 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
78005324 AAAA
1 AAAA
78005328 TAGAGAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:78006521 original size:19 final size:18
Alignment explanation
Indices: 78006445--78006527 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 18
78006435 TTTGAAAAAT
*
78006445 ATGAGAAATGAATATGAG
1 ATGAGAAATGAATATGAA
78006463 ATGAGAAAATATTGAA-ATGGAA
1 ATGAG--AA-A-TGAATAT-GAA
*
78006485 AGGTGAGAAATGAATATGAG
1 A--TGAGAAATGAATATGAA
78006505 ATGAGAAATGAAATATGAA
1 ATGAGAAATG-AATATGAA
78006524 ATGA
1 ATGA
78006528 TTAAATGAGA
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
18 14 0.26
19 11 0.21
20 9 0.17
21 6 0.11
22 9 0.17
24 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.22
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:78015810 original size:46 final size:46
Alignment explanation
Indices: 78015758--78015930 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
78015748 TTGGGCATCT
*
78015758 GAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * * *
78015804 GAGCTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* **
78015851 GAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATACCC
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * **
78015897 AAGCTCGTTGAGTTGAGTCTGAGTTTGCTTATGG
1 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78015931 GTGAGTTACA
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 55 0.54
47 27 0.27
48 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:78015910 original size:93 final size:93
Alignment explanation
Indices: 78015751--78015921 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
78015741 AGGATATTTG
* * ** *
78015751 GGCATCTGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGCCCAAGTTCACTTATGGATGCGAATACCCAAGCTCGTTGAG
78015816 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCGTGAGATGTAACTA
*
78015844 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATACCCAAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGCCCAAGTTCACTTATGGATGCGAATACCCAAGCTCGTTGAG
78015909 TTGAGTCTGAGTT
66 TTGAGTCTGAGTT
78015922 TGCTTATGGG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGCCCAAGTTCACTTATGGATGCGAATACCCAAGCTCGTTGAG
TTGAGTCTGAGTTCGTGAGATGTAACTA
Found at i:78019436 original size:68 final size:69
Alignment explanation
Indices: 78019288--78019445 Score: 171
Period size: 68 Copynumber: 2.3 Consensus size: 69
78019278 CTAGCCAATT
* * *
78019288 TATCTCATAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTATA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGCGACCTAGCTATA
**
78019353 TTTA
66 CATA
* * *
78019357 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-T-GTATCACACATGTGACCTAGCT
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGGAATCACACATGCGACCTAGCT
78019418 ACTACATA
63 A-TACATA
78019426 GTATCTCGTAGCTCTCTTGT
1 -TATCTCGTAGCTCTCTTGT
78019446 ACACATGATG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
68 35 0.47
69 9 0.12
70 6 0.08
71 25 0.33
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (69 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGCGACCTAGCTATA
CATA
Found at i:78021532 original size:46 final size:46
Alignment explanation
Indices: 78021480--78021646 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
78021470 TATTTAGGCA
78021480 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * * *
78021526 TCTGAGCTCGTTGTGTTGAGTCCGAGTT--CGT-GAGATG-TAACTCGG
1 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-T--G
* * *
78021571 CATCTGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 --TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* *
78021619 -CTCGAGCTCATTGAGTTGAGTCTGAGTT
1 TCT-GAGCTCGTTGAGTTGAGTCCGAGTT
78021647 TGCTTATGGG
Statistics
Matches: 97, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 2 0.02
45 3 0.03
46 49 0.51
47 26 0.27
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (46 bp):
TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
Found at i:78021637 original size:93 final size:93
Alignment explanation
Indices: 78021476--78021646 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
78021466 AGGATATTTA
* * * *
78021476 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCTGAGCTCGTTGTG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGTCTGAGCTCATTGAG
78021541 TTGAGTCCGAGTTCGTGAGATGTAACTC
66 TTGAGTCCGAGTTCGTGAGATGTAACTC
*
78021569 GGCATCTGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG-CTCGAGCTCATTGA
1 GGCATCTGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGTCT-GAGCTCATTGA
*
78021633 GTTGAGTCTGAGTT
65 GTTGAGTCCGAGTT
78021647 TGCTTATGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.32
Consensus pattern (93 bp):
GGCATCTGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATAGATGCGAACGTCTGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTC
Found at i:78028566 original size:38 final size:38
Alignment explanation
Indices: 78028524--78028648 Score: 241
Period size: 38 Copynumber: 3.3 Consensus size: 38
78028514 ATAGACATGC
78028524 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
*
78028562 ATGTTCGACCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
78028600 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
78028638 ATGTTCGGCCA
1 ATGTTCGGCCA
78028649 TAGGTAAGCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 85 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (38 bp):
ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
Found at i:78029336 original size:40 final size:41
Alignment explanation
Indices: 78029242--78029466 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 41
78029232 TATTCGAATG
* * *
78029242 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
* * * * * *
78029283 ATAACCGGACTAAGATCTGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
* *
78029323 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
*
78029363 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
* * *
78029403 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAG-TGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
*
78029443 ATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
78029467 CTTGTCAAGT
Statistics
Matches: 157, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 29 0.18
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGACT
Found at i:78029422 original size:80 final size:80
Alignment explanation
Indices: 78029242--78029466 Score: 315
Period size: 80 Copynumber: 2.8 Consensus size: 80
78029232 TATTCGAATG
* * * * *
78029242 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCTGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
78029307 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTGGCT
* * *
78029323 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
78029388 TTTGTGCTAGTGGCT
66 TTCGTGCGAGTGGCT
* * *
78029403 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC
78029467 CTTGTCAAGT
Statistics
Matches: 127, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
80 95 0.75
81 32 0.25
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTGGCT
Found at i:78029458 original size:120 final size:121
Alignment explanation
Indices: 78029242--78029466 Score: 314
Period size: 120 Copynumber: 1.9 Consensus size: 121
78029232 TATTCGAATG
* * *
78029242 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
*
78029307 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* * *
78029363 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGGCTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGTGACTATAACCGGACTAAGAT-CCGAAGG
* *
78029426 CA-TCTGTGCTAG-TGACCATATCTGGGCTAAGACCCGAAGGC
65 CATTC-GTGCGAGTTG-CCATATCCGGGCTAAGACCCGAAGGC
78029467 CTTGTCAAGT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
119 5 0.05
120 55 0.60
121 32 0.35
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Done.