Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 113 of 253
Found at i:35563170 original size:40 final size:39
Alignment explanation
Indices: 35563111--35563212 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 39
35563101 ACTTGAAACC
*
35563111 AATTACCAGCACAAGCCTGCGGAAATTTAAACCCGGACAT
1 AATT-CCAGCACTAGCCTGCGGAAATTTAAACCCGGACAT
* * * ** *
35563151 ATTTCCAGCACGTAGCCTGCAG-ACTTTAAGTCCGGATAT
1 AATTCCAGCAC-TAGCCTGCGGAAATTTAAACCCGGACAT
35563190 AATTCCAGCACATAGCCTGCGGA
1 AATTCCAGCAC-TAGCCTGCGGA
35563213 CCCTAAGTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
39 39 0.78
40 11 0.22
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (39 bp):
AATTCCAGCACTAGCCTGCGGAAATTTAAACCCGGACAT
Found at i:35563220 original size:39 final size:39
Alignment explanation
Indices: 35563143--35563229 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
35563133 AAATTTAAAC
* * * **
35563143 CCGGACATATTTCCAGCACGTAGCCTGCAGACTTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCAGACCCTAAGT
*
35563182 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCAGACCCTAAGT
35563221 CCGGATATA
1 CCGGATATA
35563230 CATCACTGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCAGACCCTAAGT
Found at i:35564226 original size:49 final size:49
Alignment explanation
Indices: 35564164--35564287 Score: 203
Period size: 49 Copynumber: 2.5 Consensus size: 49
35564154 CTGGTATGCA
*
35564164 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
* * *
35564213 TAGTAGCCGGCACTTAGTACTACACATGCGACCAATTATCCGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
*
35564262 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
35564288 AGTGACCTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
Found at i:35566418 original size:27 final size:27
Alignment explanation
Indices: 35566381--35566495 Score: 153
Period size: 27 Copynumber: 4.3 Consensus size: 27
35566371 AGCGTGGCTG
* *
35566381 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
35566407 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
* *
35566434 CCAGAACAGTTATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
35566461 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
35566489 CCAGAAC
1 CCAGAAC
35566496 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
26 11 0.14
27 44 0.54
28 26 0.32
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:35571159 original size:21 final size:21
Alignment explanation
Indices: 35571135--35571177 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
35571125 CAATGTCACC
35571135 ACAAAACCATCCCGTTGAACA
1 ACAAAACCATCCCGTTGAACA
35571156 ACAAAACCATCCCGTTGAACA
1 ACAAAACCATCCCGTTGAACA
35571177 A
1 A
35571178 TTCGGATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.33, G:0.09, T:0.14
Consensus pattern (21 bp):
ACAAAACCATCCCGTTGAACA
Found at i:35575761 original size:28 final size:27
Alignment explanation
Indices: 35575704--35575855 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
35575694 TAAATTGTGC
*
35575704 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
35575731 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
35575759 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
35575786 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
35575814 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
35575841 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35575856 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:35575768 original size:55 final size:55
Alignment explanation
Indices: 35575704--35575855 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
35575694 TAAATTGTGC
*
35575704 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
35575759 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
35575814 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
35575856 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:35577782 original size:79 final size:81
Alignment explanation
Indices: 35577646--35577828 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
35577636 TCGAATGATG
* *
35577646 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGGTCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGGTCCGAAGGCATT
35577710 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
35577725 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAA-GTCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGGT-CCGAAGGCA
35577787 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
35577805 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
35577829 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.64
80 30 0.33
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGGTCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:35577844 original size:40 final size:40
Alignment explanation
Indices: 35577647--35577830 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
35577637 CGAATGATGT
* * * *
35577647 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
35577687 CCGGACTAAGGT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
35577727 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35577765 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35577806 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35577831 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 36 0.29
40 79 0.63
41 11 0.09
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35577852 original size:79 final size:79
Alignment explanation
Indices: 35577699--35577863 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
35577689 GGACTAAGGT
* **
35577699 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
35577764 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35577778 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
35577841 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35577857 CCGAAGG
1 CCGAAGG
35577864 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35585739 original size:39 final size:40
Alignment explanation
Indices: 35585645--35585825 Score: 214
Period size: 39 Copynumber: 4.7 Consensus size: 40
35585635 TCGAATGATG
* *
35585645 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TACCAA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
35585683 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
35585723 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
35585762 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
** *
35585801 AACGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35585826 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 33 0.27
39 57 0.46
40 34 0.27
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:35588654 original size:79 final size:81
Alignment explanation
Indices: 35588518--35588700 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
35588508 TCGAATGATG
* *
35588518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35588582 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
35588597 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
35588659 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
35588677 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
35588701 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:35588716 original size:40 final size:40
Alignment explanation
Indices: 35588519--35588702 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
35588509 CGAATGATGT
* * * *
35588519 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
35588559 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
35588599 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35588637 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35588678 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35588703 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35588724 original size:79 final size:79
Alignment explanation
Indices: 35588571--35588735 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
35588561 GGACTAAGAT
* **
35588571 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
35588636 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35588650 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
35588713 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35588729 CCGAAGG
1 CCGAAGG
35588736 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35590249 original size:27 final size:26
Alignment explanation
Indices: 35590211--35590325 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
35590201 AGCATGGCTG
* * *
35590211 CCAGAATAGATATTGTGAAAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
35590237 CCAGATACAGATATTGTGTCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
35590264 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* *
35590291 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGACAGAGCCA
35590319 CCAGAAC
1 CCAGAAC
35590326 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 12 0.15
27 41 0.51
28 27 0.34
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:35590308 original size:28 final size:28
Alignment explanation
Indices: 35590235--35590324 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
35590225 GTGAAAGAGT
* * *
35590235 CACCAGATACAGATA-TTGTGTCAGAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
35590262 CACCAG-AACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
35590289 CACCAGAAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATATTTGTGGCATAGC
35590317 CACCAGAA
1 CACCAGAA
35590325 CGCTTCCTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
26 7 0.12
27 22 0.38
28 29 0.50
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (28 bp):
CACCAGAAACAGATATTTGTGGCATAGC
Found at i:35597751 original size:43 final size:43
Alignment explanation
Indices: 35597686--35597796 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 43
35597676 TATACAATGC
* * *
35597686 CAAC-ATCCCAGAC-GTGGCCTTACATGCAATCAAACATCGATG-
1 CAACTATCCCAGACAG-GGTCTTACACGAAATCAAACA-CGATGT
* *
35597728 CAACTATCCCAGACAGGGTCTTACACGAAATCAGATACGATGT
1 CAACTATCCCAGACAGGGTCTTACACGAAATCAAACACGATGT
* *
35597771 CGA-TATCCCAGACATGGTCTTACACG
1 CAACTATCCCAGACAGGGTCTTACACG
35597797 TAAAATAGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 31 0.53
43 27 0.46
44 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (43 bp):
CAACTATCCCAGACAGGGTCTTACACGAAATCAAACACGATGT
Found at i:35606946 original size:47 final size:46
Alignment explanation
Indices: 35606874--35607044 Score: 161
Period size: 47 Copynumber: 3.6 Consensus size: 46
35606864 GTAAGGTGCC
*
35606874 GATGCCATGTCCCAGACATGTTCTTACACTGGCTCATATCTCAAGTC-
1 GATGCCATGTCCCAAACATG-TCTTACACTGGCTCATATCTC-AGTCT
* **
35606921 GATGCCATGTCCCAAACATGATCTTACACTGACT-ATCAT-TTTGTAGCT
1 GATGCCATGTCCCAAACATG-TCTTACACTGGCTCAT-ATCTCAGT--CT
* * * *
35606969 GATG-CATGTCCCAGACATGTCTTACACTAGCACTTATCTCAGTGCT
1 GATGCCATGTCCCAAACATGTCTTACACTGGCTCATATCTCAGT-CT
*
35607015 GATGCCATGTCCCAAACATGGTTTTACACT
1 GATGCCATGTCCCAAACAT-GTCTTACACT
35607045 AGCATCCATA
Statistics
Matches: 102, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 22 0.22
47 65 0.64
48 13 0.13
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (46 bp):
GATGCCATGTCCCAAACATGTCTTACACTGGCTCATATCTCAGTCT
Found at i:35607042 original size:94 final size:93
Alignment explanation
Indices: 35606871--35607096 Score: 296
Period size: 94 Copynumber: 2.4 Consensus size: 93
35606861 TGGGTAAGGT
* *
35606871 GCCGATGCCATGTCCCAGACATGTTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAA
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAGCACATATCTCAAGTCGATGCCATGTCCCAA
**
35606936 ACATGATCTTACACT-GACTAT-CATTTTGTA
64 ACATGATCTTACACTAG-C-ATCCATAATGTA
* *
35606966 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTTATCTC-AGTGCTGATGCCATGTCCCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATATCTCAAGT-C-GATGCCATGTCCCAA
* * *
35607030 ACATGGTTTTACACTAGCATCCATAATGTG
64 ACATGATCTTACACTAGCATCCATAATGTA
35607060 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACA
35607097 CACAAGTGTC
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
92 3 0.03
93 21 0.18
94 85 0.73
95 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTCCCAAAC
ATGATCTTACACTAGCATCCATAATGTA
Found at i:35607769 original size:12 final size:12
Alignment explanation
Indices: 35607752--35607776 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35607742 CCAAAAATGT
35607752 AAAATCATCAAG
1 AAAATCATCAAG
35607764 AAAATCATCAAG
1 AAAATCATCAAG
35607776 A
1 A
35607777 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:35616796 original size:43 final size:42
Alignment explanation
Indices: 35616745--35616842 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
35616735 CCAATGTCTC
* * *
35616745 AGATATGGTCTTATATGTAA-TCTCGCATCGATTCCAATAGCCT
1 AGATATGGTCTTATACG-AAGTCTCACATCGATGCC-ATAGCCT
* * *
35616788 AGCTATGGTCTTATACGAAGTCTCATATCGATGCCATATCCT
1 AGATATGGTCTTATACGAAGTCTCACATCGATGCCATAGCCT
35616830 AGATATGGTCTTA
1 AGATATGGTCTTA
35616843 CACGTAAACT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 20 0.43
43 27 0.57
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (42 bp):
AGATATGGTCTTATACGAAGTCTCACATCGATGCCATAGCCT
Found at i:35618069 original size:31 final size:31
Alignment explanation
Indices: 35618026--35618089 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
35618016 CTAAAATTGG
* *
35618026 GTTGTTATAAATCATCTCTCCATTTAATTTA
1 GTTGTTACAAATCATCTCTCCATTCAATTTA
*
35618057 GTTGTTACAAATCATCTCTTCATTCAATTTA
1 GTTGTTACAAATCATCTCTCCATTCAATTTA
35618088 GT
1 GT
35618090 CCAAAATTCA
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:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (31 bp):
GTTGTTACAAATCATCTCTCCATTCAATTTA
Found at i:35619931 original size:25 final size:27
Alignment explanation
Indices: 35619903--35619952 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
35619893 AGTTTAGCCA
35619903 ATTTAAACCCT-AGGGGT-ATTTCGGT
1 ATTTAAACCCTGAGGGGTAATTTCGGT
**
35619928 ATTTATGCCCTGAGGGGTAATTTCG
1 ATTTAAACCCTGAGGGGTAATTTCG
35619953 TACTTACGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 6 0.29
27 6 0.29
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (27 bp):
ATTTAAACCCTGAGGGGTAATTTCGGT
Found at i:35622034 original size:56 final size:56
Alignment explanation
Indices: 35621935--35622043 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
35621925 TGTGCTTGAA
* *
35621935 AGCTAAAATTCTTACAAACTTAAAGAAGACAAGTTATAAATAGGGCACAATCATAT
1 AGCTAAAATTCTTACAAACGTAAAGAAGACAAGCTATAAATAGGGCACAATCATAT
* * *
35621991 AGCTAAAATTTTTACAAACGTAAAGAAGATAAGCTATAGATAGGGCACAATCA
1 AGCTAAAATTCTTACAAACGTAAAGAAGACAAGCTATAAATAGGGCACAATCA
35622044 CAGATTGGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.24
Consensus pattern (56 bp):
AGCTAAAATTCTTACAAACGTAAAGAAGACAAGCTATAAATAGGGCACAATCATAT
Found at i:35624329 original size:46 final size:48
Alignment explanation
Indices: 35624225--35624489 Score: 147
Period size: 49 Copynumber: 5.6 Consensus size: 48
35624215 CCACATTATA
35624225 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATG
* * * * * * *
35624273 AGAGCTAGTGTAGGA-CATGTTTGGTACAT-GCATCGGCCTCGAGATG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATG
* * * * *
35624319 TA-AGCCAGTGTAA-AACATGTCTGAGACAT-GTAT-----TGAATATG
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATG
* * * ** *
35624360 AGATGTATCAATGTAAGACCATGTCTGGGACATGGTATCGGCATGGATATG
1 AGA-G--CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATG
* * * ***
35624411 CAAGAGCTAGTG-AAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTTG
1 --AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC-AAAATG
* **
35624461 ATAGTTAGTGTAAGACCATGTCTGGGACA
1 AGAGCCAGTGTAAGACCATGTCTGGGACA
35624490 GGGGATCACT
Statistics
Matches: 167, Mismatches: 33, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
40 1 0.01
41 6 0.04
42 1 0.01
44 7 0.04
45 15 0.09
46 41 0.25
47 13 0.08
48 21 0.13
49 45 0.27
50 6 0.04
51 7 0.04
52 1 0.01
53 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATG
Found at i:35637739 original size:68 final size:65
Alignment explanation
Indices: 35637620--35637881 Score: 207
Period size: 68 Copynumber: 4.0 Consensus size: 65
35637610 GATTGGATGA
* ** * ** * *
35637620 TACAGATA-GTATGTAGCTAGGTCACATGTATGGTGCTGGGTGCACATCATGT-GTACAAGAGAG
1 TACAGATATATATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAG
35637683 C
65 C
* *
35637684 TACAAGATATTATTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAG
1 TAC-AGATA-TA-TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAG
35637749 AGC
63 AGC
** * * * * *
35637752 TAC-GGGATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAG
1 TACAGATATATATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAG
35637816 AGC
63 AGC
* *
35637819 TACGAGATA-A-AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAG
1 TAC-AGATATATATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAG
35637879 AGC
63 AGC
35637882 CGAACTATAT
Statistics
Matches: 158, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 28 0.18
65 7 0.04
66 24 0.15
67 28 0.18
68 48 0.30
69 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (65 bp):
TACAGATATATATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGC
Found at i:35649650 original size:40 final size:40
Alignment explanation
Indices: 35649565--35649652 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
35649555 TTAAGTCCGG
* * * * *
35649565 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACGCGGAT
1 ATATATTAACAGCACGAAGCCTACGGGATTTAACCCGGAT
35649605 ATATATTAACAGCACGAAGCCTACGGGATTTAACCCGGAT
1 ATATATTAACAGCACGAAGCCTACGGGATTTAACCCGGAT
35649645 ATATATTA
1 ATATATTA
35649653 TATCGAGAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (40 bp):
ATATATTAACAGCACGAAGCCTACGGGATTTAACCCGGAT
Found at i:35654996 original size:19 final size:19
Alignment explanation
Indices: 35654974--35655011 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35654964 TTTTACCATC
*
35654974 TCTTTCTTT-TTTTCTTTTT
1 TCTTT-TTTCTTTTATTTTT
35654993 TCTTTTTTCTTTTATTTTT
1 TCTTTTTTCTTTTATTTTT
35655012 GCCACAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (19 bp):
TCTTTTTTCTTTTATTTTT
Found at i:35654998 original size:6 final size:7
Alignment explanation
Indices: 35654976--35655005 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
35654966 TTACCATCTC
35654976 TTTCTTTT
1 TTTC-TTT
35654984 TTTCTTT
1 TTTCTTT
35654991 TTTCTTT
1 TTTCTTT
35654998 TTTCTTT
1 TTTCTTT
35655005 T
1 T
35655006 ATTTTTGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTCTTT
Found at i:35656827 original size:15 final size:16
Alignment explanation
Indices: 35656807--35656836 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35656797 AAGATCTTAT
35656807 AATCAT-ACCTTACTC
1 AATCATAACCTTACTC
35656822 AATCATAACCTTACT
1 AATCATAACCTTACT
35656837 GAGGGTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCATAACCTTACTC
Found at i:35657118 original size:42 final size:42
Alignment explanation
Indices: 35657002--35657161 Score: 169
Period size: 42 Copynumber: 3.8 Consensus size: 42
35656992 CATAGGACTG
* *
35657002 TACCAATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCG
1 TACCAATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
* * * * *
35657044 TATCGATACCAATAGCCCAGCTATGGTCTTACACGAAGTCTCA
1 TACCAATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCA
* *
35657087 TACCAATGCCATATCCCAAATATGGTCTTACACGTAGTCTCA
1 TACCAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCA
*** **
35657129 TATTGATGCCATATCCCCTATATGGTCTTACAC
1 TACCAATGCCATATCCCAGATATGGTCTTACAC
35657162 ATAGTCTTAA
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 65 0.67
43 32 0.33
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (42 bp):
TACCAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCA
Found at i:35661315 original size:46 final size:46
Alignment explanation
Indices: 35661262--35661437 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
35661252 TATTTGGGCA
35661262 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
35661308 TCCGAACTCGTTTAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
35661353 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
35661401 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35661438 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 59 0.56
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35661418 original size:93 final size:93
Alignment explanation
Indices: 35661258--35661430 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
35661248 GGGATATTTG
* * *
35661258 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTTAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
35661323 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
*
35661351 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCGTTGA
35661415 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
35661431 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:35667177 original size:42 final size:42
Alignment explanation
Indices: 35667060--35667221 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
35667050 TACCGTACCA
* *
35667060 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAGTCTCGTATCG
* * * *
35667102 ATGTCAATAGCCCAGTTATGGTCTTACATGTAGTCTCATATCG
1 ATG-CCATATCCCAGATATGGTCTTACATGTAGTCTCGTATCG
* * *
35667145 ATGCCATATCCCATATATGGTCTTACACGTAGTCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAGTCTCGTATCG
* * *
35667187 ATGTCATATCCCCGATATGGTCTTACATATAGTCT
1 ATGCCATATCCCAGATATGGTCTTACATGTAGTCT
35667222 TAATAACCCT
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 65 0.64
43 36 0.36
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAGTCTCGTATCG
Found at i:35670621 original size:40 final size:40
Alignment explanation
Indices: 35670364--35670621 Score: 295
Period size: 40 Copynumber: 6.7 Consensus size: 40
35670354 GCTCCTCGTT
* *
35670364 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35670404 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35670444 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
35670484 CAAATGCCTTC-GGACTTATCCCGG--ATAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35670520 C-AATAGCCTTC-GGA-TTAGTCCGG--ATAGTATCTCGCA
1 CAAAT-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
35670556 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
35670597 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35670622 CATCATTCAA
Statistics
Matches: 195, Mismatches: 14, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
35 15 0.08
36 33 0.17
37 7 0.04
38 9 0.05
39 12 0.06
40 108 0.55
41 11 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:35678360 original size:40 final size:40
Alignment explanation
Indices: 35678316--35678578 Score: 308
Period size: 39 Copynumber: 6.7 Consensus size: 40
35678306 GCTCCTCGTT
* *
35678316 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35678356 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
35678396 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
35678435 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* *
35678474 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
35678513 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
35678554 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35678579 CATCATTCAA
Statistics
Matches: 204, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 110 0.54
40 80 0.39
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:35678518 original size:78 final size:78
Alignment explanation
Indices: 35678316--35678578 Score: 327
Period size: 79 Copynumber: 3.3 Consensus size: 78
35678306 GCTCCTCGTT
* * * **
35678316 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
*
35678380 GATTTAGTAACTCGCA
64 GATAT-GTAACTCGCA
*
35678396 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGACTTAGCCCGGATA-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
*
35678460 ATATGTATCTCGCA
65 ATATGTAACTCGCA
*
35678474 CAAATGCCTTCGGATCTTAGTCCGGATAT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
* *
35678538 ATATGGTCACTTAGCA
65 ATAT-GTAAC-TCGCA
35678554 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
35678579 CATCATTCAA
Statistics
Matches: 162, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
78 65 0.40
79 74 0.46
80 23 0.14
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
TATGTAACTCGCA
Found at i:35678562 original size:118 final size:118
Alignment explanation
Indices: 35678316--35678578 Score: 313
Period size: 118 Copynumber: 2.2 Consensus size: 118
35678306 GCTCCTCGTT
* * *
35678316 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATAT-GTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
35678381 ATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
65 ATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
* **
35678435 CAAATGCCTTC-GGATCTTAGTCCGGATATGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * * *
35678498 GATAT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
64 GATATAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGT-ATC-TAGCA
35678554 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35678579 CATCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
117 27 0.22
118 63 0.51
119 34 0.27
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (118 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:35681631 original size:43 final size:43
Alignment explanation
Indices: 35681583--35681725 Score: 189
Period size: 43 Copynumber: 3.3 Consensus size: 43
35681573 ACCGAGATGA
*
35681583 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TACTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATA-TGT
* * *
35681626 GATTACATGTAAGACCATGTCTGGGACATAGGCATCGTTATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGT
* * * *
35681669 GATTTCGTGTAAGACCATGTCTGGGACAATGGCATCGATATGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGT
*
35681712 GATAACATGTAAGA
1 GATTACATGTAAGA
35681726 TTATATCTGG
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 84 0.98
44 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATGT
Found at i:35681735 original size:43 final size:42
Alignment explanation
Indices: 35681579--35681753 Score: 185
Period size: 43 Copynumber: 4.1 Consensus size: 42
35681569 GATTACCGAG
* *
35681579 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGT
*
35681621 ACTGTGATTACATGTAAGACCATGTCTGGGAC-ATAGGCATCGTT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACAAT-GGCATCG-T
* *
35681665 AT-ATGATTTCGTGTAAGACCATGTCTGGGACAATGGCATCGAT
1 ATGA-GATTACATGTAAGACCATGTCTGGGACAATGGCATCG-T
* ** * * *
35681708 ATGAGATAACATGTAAGATTATATCTGGGA-TATGGCATTGT
1 ATGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGT
35681749 ATGAG
1 ATGAG
35681754 CTTTATGTGA
Statistics
Matches: 112, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
41 6 0.05
42 10 0.09
43 91 0.81
44 5 0.04
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGT
Found at i:35684412 original size:43 final size:43
Alignment explanation
Indices: 35684263--35684421 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 43
35684253 GATTACCGAG
*
35684263 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
1 ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * *
35684305 ACTGTGATTACGTGTAAGACCATGTCTGGGACATAGGCATC-AT
1 A-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * *
35684348 -TGTATGATTTCGTGTAAGACCATGTTTGGGACATTGGCATCGAT
1 ATG-A-GATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
35684392 ATGAGATAACATTTATGACCATATCTGGGA
1 ATGAGATTACATGTAAGACCATGTCTGGGA
35684422 TATGGTATTG
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 88 0.92
44 3 0.03
45 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
ATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:35685276 original size:13 final size:13
Alignment explanation
Indices: 35685258--35685283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35685248 ATGATTTATG
35685258 ATTGATTTGTAAT
1 ATTGATTTGTAAT
35685271 ATTGATTTGTAAT
1 ATTGATTTGTAAT
35685284 TTGCCTTGAA
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:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
ATTGATTTGTAAT
Found at i:35690888 original size:46 final size:46
Alignment explanation
Indices: 35690838--35691013 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
35690828 TGGTTGAGCA
35690838 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35690884 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35690929 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
35690977 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35691014 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35690994 original size:93 final size:93
Alignment explanation
Indices: 35690835--35691004 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
35690825 GGATGGTTGA
* *
35690835 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35690900 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35690928 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35690993 TGAGTCCGAGTT
66 TGAGTCCGAGTT
35691005 TGCTTATGGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35697095 original size:46 final size:46
Alignment explanation
Indices: 35697045--35697220 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35697035 TGGTTGAGCA
35697045 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35697091 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35697136 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35697184 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35697221 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35697201 original size:93 final size:93
Alignment explanation
Indices: 35697042--35697213 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35697032 GGATGGTTGA
* *
35697042 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35697107 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35697135 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35697200 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35697214 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35702532 original size:9 final size:9
Alignment explanation
Indices: 35702481--35702530 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
35702471 TAATGTTTAC
35702481 AATTTAAAA
1 AATTTAAAA
*
35702490 AATTCAAAA
1 AATTTAAAA
*
35702499 AATATAAAA
1 AATTTAAAA
35702508 AATATT--AA
1 AAT-TTAAAA
*
35702516 AATTTATAA
1 AATTTAAAA
35702525 AATTTA
1 AATTTA
35702531 TAGAAAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 2 0.06
8 5 0.15
9 26 0.76
10 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AATTTAAAA
Found at i:35709716 original size:3 final size:3
Alignment explanation
Indices: 35709708--35709757 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
35709698 AACACCAAAT
35709708 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
35709754 TTA T
1 TTA T
35709758 ACTACTTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:35713379 original size:23 final size:20
Alignment explanation
Indices: 35713351--35713403 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
35713341 TCATATAAAA
*
35713351 ATTAAATTTTTAATAATATAAT
1 ATTAAATTATTAA-AATAT-AT
35713373 ATGTAAA-TATTAAAATATAT
1 AT-TAAATTATTAAAATATAT
35713393 ATTAAATTATT
1 ATTAAATTATT
35713404 CATATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 8 0.29
21 5 0.18
22 7 0.25
23 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTAAATTATTAAAATATAT
Found at i:35714085 original size:24 final size:24
Alignment explanation
Indices: 35714056--35714109 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
35714046 TATATTTTAA
* *
35714056 ATATTTAGTATTTATTGGTATAAT
1 ATATTTAGTATTTATTAGCATAAT
*
35714080 ATATTTATTATTTATTAGCATAAT
1 ATATTTAGTATTTATTAGCATAAT
*
35714104 TTATTT
1 ATATTT
35714110 GACTTATGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
ATATTTAGTATTTATTAGCATAAT
Found at i:35718809 original size:26 final size:27
Alignment explanation
Indices: 35718753--35718812 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
35718743 TGGAGGAAGC
35718753 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
*
35718780 GTTCTGGTGGCTCTGCCAC-AATATCT
1 GTTCTGGTGGCTATGCCACAAATATCT
35718806 GTTCTGG
1 GTTCTGG
35718813 CACCCATGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (27 bp):
GTTCTGGTGGCTATGCCACAAATATCT
Found at i:35726397 original size:28 final size:28
Alignment explanation
Indices: 35726320--35726397 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
35726310 GAGACCTCAG
* **
35726320 AGGGT-AAAATGACCAAAATACCCCTAA
1 AGGGTAAAAATGACTATTATACCCCTAA
* *
35726347 AGGGTAAAAATTACTATTCTACCCCTAA
1 AGGGTAAAAATGACTATTATACCCCTAA
* ** *
35726375 TGGGTGGAAATGACTGTTATACC
1 AGGGTAAAAATGACTATTATACC
35726398 GTAGAGGTAG
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 5 0.13
28 34 0.87
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (28 bp):
AGGGTAAAAATGACTATTATACCCCTAA
Found at i:35726564 original size:27 final size:27
Alignment explanation
Indices: 35726534--35726597 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
35726524 TACTGTTCTG
35726534 GTGGCTTTGCCACGTATT-CTGATATTA
1 GTGGCTTTGCCACGT-TTACTGATATTA
* *
35726561 GTGGCTATGCCACGTTTACTGCTATTA
1 GTGGCTTTGCCACGTTTACTGATATTA
**
35726588 GCAGCTTTGC
1 GTGGCTTTGC
35726598 TGCGTTACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (27 bp):
GTGGCTTTGCCACGTTTACTGATATTA
Found at i:35727168 original size:23 final size:23
Alignment explanation
Indices: 35727140--35727184 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
35727130 CCATTTTTAG
*
35727140 CTCGTTGGAGCTTATTGTTTCAA
1 CTCGTTGGAGCTTACTGTTTCAA
35727163 CTCGTTGGAGCTTACTGTTTCA
1 CTCGTTGGAGCTTACTGTTTCA
35727185 GCTCATAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (23 bp):
CTCGTTGGAGCTTACTGTTTCAA
Found at i:35727247 original size:23 final size:23
Alignment explanation
Indices: 35727147--35727248 Score: 98
Period size: 23 Copynumber: 4.4 Consensus size: 23
35727137 TAGCTCGTTG
* * ** *
35727147 GAGCTTATTGTTTCAACTCGTTG
1 GAGCTTACTGTTTCAGCTCAATA
35727170 GAGCTTACTGTTTCAGCTC-ATAA
1 GAGCTTACTGTTTCAGCTCAAT-A
* * **
35727193 GAGTTTAATGTTTTCAGCTCAGCA
1 GAGCTTACTG-TTTCAGCTCAATA
35727217 GAGCTTACTGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
35727240 GAGCTTACT
1 GAGCTTACT
35727249 ATCCATCAAC
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.70
24 18 0.28
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:35727429 original size:20 final size:20
Alignment explanation
Indices: 35727390--35727474 Score: 118
Period size: 20 Copynumber: 4.3 Consensus size: 20
35727380 GACATAGAAT
*
35727390 CTATTTAAATGGAT-AAATA
1 CTATTTATATGGATGAAATA
*
35727409 CTGTTTATATGGATGAAATA
1 CTATTTATATGGATGAAATA
35727429 CTATTTATATGGATGAAATA
1 CTATTTATATGGATGAAATA
* **
35727449 TTATTTATATGGATGAGCTA
1 CTATTTATATGGATGAAATA
35727469 CTATTT
1 CTATTT
35727475 GCAAATGGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
19 12 0.21
20 46 0.79
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.42
Consensus pattern (20 bp):
CTATTTATATGGATGAAATA
Found at i:35730466 original size:46 final size:45
Alignment explanation
Indices: 35730408--35730577 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 45
35730398 GGACTATTGT
*
35730408 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCACATGACGA
* *
35730454 GAGCCAGTGTAAGACCATGT-TCGGGACATGGCATCG--ATAGTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCT-GGGACAT-GCATCGCCACA-T--GACGA
* *
35730502 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCAC-ATGACG-A
35730549 -AGCTAGTGTAAGACATGTCTGGGACATGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGC
35730578 GTTGGCTACG
Statistics
Matches: 105, Mismatches: 7, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
45 2 0.02
46 52 0.50
47 27 0.26
48 23 0.22
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGCCACATGACGA
Found at i:35734891 original size:39 final size:39
Alignment explanation
Indices: 35734842--35734948 Score: 126
Period size: 40 Copynumber: 2.7 Consensus size: 39
35734832 TAGCTCCTCG
* * *
35734842 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATA-AAACTCA
* *
35734882 TTCAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAAAACTCA
*
35734921 TACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
35734949 ATTAGTATCT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
39 26 0.44
40 33 0.56
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAAAACTCA
Found at i:35734937 original size:40 final size:40
Alignment explanation
Indices: 35734885--35735068 Score: 162
Period size: 40 Copynumber: 4.6 Consensus size: 40
35734875 TAACTCATTC
* * *
35734885 AATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGTACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAGAAACTCGCACA
* *
35734925 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
*
35734965 AAGGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAGA-AACTCGCACA
* * ** ** *
35735005 AATACCTT-TGGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAGAAAC-TCGCACA
*
35735046 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35735069 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
39 8 0.07
40 98 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAGAAACTCGCACA
Found at i:35735000 original size:80 final size:80
Alignment explanation
Indices: 35734888--35735068 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 80
35734878 CTCATTCAAT
* * * *
35734888 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGTACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTT-GGGATCTTAACCCGGATA-
*
35734951 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
* **
35734967 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTTGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTGGGATCTTAACCCGGATA
35735031 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
35735048 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
35735069 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 69 0.79
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTGGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:35746025 original size:40 final size:40
Alignment explanation
Indices: 35745988--35746171 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
35745978 GCTACTCGTT
*
35745988 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
35746028 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
35746068 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* ** * * *
35746107 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
35746148 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
35746172 ACATCATTCA
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 75 0.61
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:35746099 original size:79 final size:82
Alignment explanation
Indices: 35745988--35746172 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
35745978 GCTACTCGTT
* *
35745988 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
35746051 GGATTTAGTAAC-TCGCA
65 GAATATAGTAACTTAGCA
* **
35746068 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35746131 AATATGGTCACTTAGCA
66 AATATAGTAACTTAGCA
35746148 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35746173 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
AATATAGTAACTTAGCA
Found at i:35750751 original size:29 final size:29
Alignment explanation
Indices: 35750679--35750765 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
35750669 AAGTCTACAT
* *
35750679 ACATGCGTATGGCCCACTAGGCCC-AATC
1 ACATCCGTATGGCCCATTAGGCCCAAATC
* * *
35750707 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATCCGTATGGCCCATTAGGCCCAAATC
*
35750736 ACATCCGTATGTCCCATTAGGCCCAAATC
1 ACATCCGTATGGCCCATTAGGCCCAAATC
35750765 A
1 A
35750766 TATTCGTAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 20 0.40
29 30 0.60
ACGTcount: A:0.28, C:0.33, G:0.16, T:0.23
Consensus pattern (29 bp):
ACATCCGTATGGCCCATTAGGCCCAAATC
Found at i:35751010 original size:16 final size:16
Alignment explanation
Indices: 35750989--35751026 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35750979 CAAACTTTTA
35750989 GCTTTTCGACA-TTTCG
1 GCTTTTCGACACTTT-G
*
35751005 GCTTTTCGGCACTTTG
1 GCTTTTCGACACTTTG
35751021 GCTTTT
1 GCTTTT
35751027 ACCGATCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.08, C:0.24, G:0.21, T:0.47
Consensus pattern (16 bp):
GCTTTTCGACACTTTG
Found at i:35754835 original size:15 final size:16
Alignment explanation
Indices: 35754810--35754839 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
35754800 AACCTAGCTA
35754810 TCATCTTTTCTTTCTT
1 TCATCTTTTCTTTCTT
35754826 TCAT-TTTTCTTTCT
1 TCATCTTTTCTTTCT
35754840 CCAACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (16 bp):
TCATCTTTTCTTTCTT
Found at i:35755700 original size:46 final size:46
Alignment explanation
Indices: 35755643--35755765 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 46
35755633 GGACTATTGT
* * *
35755643 GAGCTAGTGTAAGACATGTCTGGGAGAT-GTATCGGCCACAT-TACAA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CA-ATAGACAA
* *
35755689 GAGCCAGTGTAAGACCATGT-TCGGGACATGGCATCGGCAATGAGACGA
1 GAGCTAGTGTAAGA-CATGTCT-GGGACATGGCATCGGCAAT-AGACAA
35755737 GAGCTAGTGTAAGACATGTCTGGGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATG
35755766 AATCAGCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
46 16 0.25
47 26 0.40
48 23 0.35
ACGTcount: A:0.29, C:0.18, G:0.32, T:0.21
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCAATAGACAA
Found at i:35755796 original size:46 final size:44
Alignment explanation
Indices: 35755738--35755856 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 44
35755728 ATGAGACGAG
*
35755738 AGCTAGTGTAAGACATGTCTGGGACATGAATC-AGCCTCGAGATGTA
1 AGCTAGTGTAAGACATGTCTGGGACATGAATCGAGCAT-GAG-T-TA
** * *
35755784 AGCTAGTGTAAGACATGTCAAGGACATGCATCGAGTATGAGTTA
1 AGCTAGTGTAAGACATGTCTGGGACATGAATCGAGCATGAGTTA
35755828 AGCTAGTGTAAGACCATGT-TCGGGACATG
1 AGCTAGTGTAAGA-CATGTCT-GGGACATG
35755857 GCATCGGTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 15 0.24
45 13 0.21
46 32 0.51
47 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (44 bp):
AGCTAGTGTAAGACATGTCTGGGACATGAATCGAGCATGAGTTA
Found at i:35762688 original size:10 final size:10
Alignment explanation
Indices: 35762673--35762697 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35762663 GAAGGTATGA
35762673 ATTTTGTTCG
1 ATTTTGTTCG
35762683 ATTTTGTTCG
1 ATTTTGTTCG
35762693 ATTTT
1 ATTTT
35762698 TATGTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (10 bp):
ATTTTGTTCG
Found at i:35763099 original size:20 final size:20
Alignment explanation
Indices: 35763076--35763123 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
35763066 GTGTGGTCAC
*
35763076 ACACGCCCATGTGGTTTGGG
1 ACACGCCCATGTGGCTTGGG
35763096 ACACGCCCATGTGGCTTGGG
1 ACACGCCCATGTGGCTTGGG
35763116 ACACGCCC
1 ACACGCCC
35763124 GTGTCCTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (20 bp):
ACACGCCCATGTGGCTTGGG
Found at i:35767626 original size:27 final size:27
Alignment explanation
Indices: 35767596--35767800 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
35767586 ATATTAAGTC
* *
35767596 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
35767623 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
35767651 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
35767678 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
35767705 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
35767732 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
35767759 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
35767786 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35767801 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35767735 original size:54 final size:54
Alignment explanation
Indices: 35767596--35767799 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
35767586 ATATTAAGTC
* * * **
35767596 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
35767651 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
35767705 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
35767759 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
35767800 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:35767765 original size:81 final size:81
Alignment explanation
Indices: 35767650--35767799 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
35767640 ATAATCAAAC
* * * * * *
35767650 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
35767715 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
35767731 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
35767796 GTGC
66 GTGC
35767800 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:35775723 original size:27 final size:27
Alignment explanation
Indices: 35775693--35775897 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
35775683 ATATTAAGTC
* *
35775693 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
35775720 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
35775748 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
35775775 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
35775802 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
35775829 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
35775856 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
35775883 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35775898 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35775832 original size:54 final size:54
Alignment explanation
Indices: 35775693--35775896 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
35775683 ATATTAAGTC
* * * **
35775693 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
35775748 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
35775802 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
35775856 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
35775897 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:35775862 original size:81 final size:81
Alignment explanation
Indices: 35775747--35775896 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
35775737 ATAATCAAAC
* * * * * *
35775747 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
35775812 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
35775828 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
35775893 GTGC
66 GTGC
35775897 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:35784602 original size:46 final size:46
Alignment explanation
Indices: 35784403--35784670 Score: 224
Period size: 46 Copynumber: 5.7 Consensus size: 46
35784393 GTATAATGCT
* *
35784403 AATGCCATGTCCCAGACATTGTCTTACAATGGCT-CATCCATCAAGTC
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT--ATCAAGTC
* * * * *
35784450 AATGCCATGTCCCAGACATGGTCTTACATTGACTATCGAAATCGAGGCC
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCTA-C-ATATC-AAGTC
* * * * *
35784499 AACGCCATGCCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGTC
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATC-AAGTC
35784545 AATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATATCAAGGTC
1 AATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATATCAA-GTC
* * * * * * *
35784591 GATG-CATGTCCCAAACAT-GTCTTACACTAGTTCCCATCTCATTGTC
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCT-ACATATCA-AGTC
*
35784637 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCT
35784671 CACAAATAAC
Statistics
Matches: 181, Mismatches: 29, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.07
45 15 0.08
46 58 0.32
47 45 0.25
48 16 0.09
49 34 0.19
50 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
AATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATCAAGTC
Found at i:35791626 original size:48 final size:48
Alignment explanation
Indices: 35791568--35791886 Score: 290
Period size: 48 Copynumber: 6.7 Consensus size: 48
35791558 TATGTGCGCT
** *
35791568 AGTGTAAGACCATGTCTACGACATGGCATTGGCCATGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* * * * ** * *
35791616 AGTGTAAGACCATATTTGGAACATGGCATCGACGTTGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
* * *
35791664 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAT-TTATAAGTGCAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGC-C
* *
35791711 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGGGAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGA-TATGAGAGCC
* * * *
35791760 AGTGTAAGACTATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCC
* * ** * * *
35791808 AGTGTTATACCATGTCTGGGGTATGGCATCAGCC-TCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAT-GATATGAGAGCC
* *
35791856 AGTGTAA-ACCATGTTTGGAACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
35791887 TAATTCACCC
Statistics
Matches: 216, Mismatches: 46, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
46 7 0.03
47 24 0.11
48 174 0.81
49 5 0.02
50 6 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCC
Found at i:35791810 original size:96 final size:96
Alignment explanation
Indices: 35791568--35791886 Score: 322
Period size: 96 Copynumber: 3.3 Consensus size: 96
35791558 TATGTGCGCT
** * * * * *
35791568 AGTGTAAGACCATGTCTACGACATGGCATTGGCCA-TGATATGAGAGCCAGTGTAAGACCATATT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATAAGAGAGCTAGTGTAAGACCATGTC
* * * ** *
35791632 TGGAACATGGCATCGACGTTGTTGTGAGAGCC
65 TGGGACATGGCATCGGCCTCATTATGAGAGCC
* *
35791664 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTATAAGTGCA-CTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAG-AGCTAGTGTAAGACCATGTC
* *
35791728 TGGGACATGGCATCGGCCACATTATGGGAGCC
65 TGGGACATGGCATCGGCCTCATTATGAGAGCC
* * * * *
35791760 AGTGTAAGACTATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTTATACCATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGAGCTAGTGTAAGACCATGTCT
** * * *
35791825 GGGGTATGGCATCAGCCTCGA-CATGTGAGCC
66 GGGACATGGCATCGGCCTC-ATTATGAGAGCC
* *
35791856 AGTGTAA-ACCATGTTTGGAACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
35791887 TAATTCACCC
Statistics
Matches: 186, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
95 24 0.13
96 160 0.86
97 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGAGCTAGTGTAAGACCATGTCT
GGGACATGGCATCGGCCTCATTATGAGAGCC
Found at i:35791826 original size:144 final size:144
Alignment explanation
Indices: 35791561--35791837 Score: 351
Period size: 144 Copynumber: 1.9 Consensus size: 144
35791551 TCAGTGATAT
* * *
35791561 GTGCGCTAGTGTAAGACCATGTCTACGACATGGCATTGGCCATGATATGAGAGCCAGTGTAAGAC
1 GTGCACTAGTGTAAGACCATGTCTACGACATGGCATCGGCCATCATATGAGAGCCAGTGTAAGAC
* * * *
35791626 CATATTTGGAACATGGCATCGACGTTGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
66 CATATCTGGAACATGGCATCGACATTGTAGCGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
35791691 ATCGGCATTTATAA
131 ATCGGCATTTATAA
** *
35791705 GTGCACTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGGGAGCCAGTGTAAGA
1 GTGCACTAGTGTAAGACCATGTCTACGACATGGCATCGGCCATCA-TATGAGAGCCAGTGTAAGA
* * * * * * * **
35791769 CTATGTCTGGGACATGGCATCGGCATTG-AGACGAGAGCTAGTGTTATACCATGTCTGGGGTATG
65 CCATATCTGGAACATGGCATCGACATTGTAG-CGAGAGCCAGTGTAAGACCATGTCTGGGACATG
35791833 GCATC
129 GCATC
35791838 AGCCTCGACA
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
143 2 0.02
144 110 0.98
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (144 bp):
GTGCACTAGTGTAAGACCATGTCTACGACATGGCATCGGCCATCATATGAGAGCCAGTGTAAGAC
CATATCTGGAACATGGCATCGACATTGTAGCGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
ATCGGCATTTATAA
Found at i:35791860 original size:144 final size:144
Alignment explanation
Indices: 35791559--35791886 Score: 349
Period size: 144 Copynumber: 2.3 Consensus size: 144
35791549 TTTCAGTGAT
* ** * *
35791559 ATGTGCGCTAGTGTAAGACCATGTCTACGACATGGCATTGGCCATGATATGAGAGCCAGTGTAAG
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATCATATGAGAGCCAGTGTAAG
* * * *
35791624 ACCATATTTGGAACATGGCATCGACGTTGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATG
66 ACCATATCTGGAACATGGCATCGACATTGTAGCGAGAGCCAGTGTAAGACCATGTCTGGGACATG
* ** *
35791689 GCATCGGCATTTAT
131 GCATCAGCATCGAC
* *
35791703 AAGTGCA-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGGGAGCCAGTGTA
1 ATGTG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATCA-TATGAGAGCCAGTGTA
* * * * * * * **
35791766 AGACTATGTCTGGGACATGGCATCGGCATTG-AGACGAGAGCTAGTGTTATACCATGTCTGGGGT
64 AGACCATATCTGGAACATGGCATCGACATTGTAG-CGAGAGCCAGTGTAAGACCATGTCTGGGAC
*
35791830 ATGGCATCAGCCTCGAC
128 ATGGCATCAGCATCGAC
* * *
35791847 ATGTGAGCCAGTGTAA-ACCATGTTTGGAACATGGCATCGG
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
35791887 TAATTCACCC
Statistics
Matches: 151, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
143 25 0.17
144 126 0.83
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (144 bp):
ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATCATATGAGAGCCAGTGTAAG
ACCATATCTGGAACATGGCATCGACATTGTAGCGAGAGCCAGTGTAAGACCATGTCTGGGACATG
GCATCAGCATCGAC
Found at i:35805280 original size:49 final size:49
Alignment explanation
Indices: 35805202--35805447 Score: 262
Period size: 49 Copynumber: 5.0 Consensus size: 49
35805192 GTAGCCGAAG
* * *
35805202 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
35805251 TTATCCGGTACATGTAGTAGCCTTG-ACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCC-TGCACTTAGTACTACACACGCGACC-AA
* * * * *
35805301 CCATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
35805351 GTTAT-TAGGTACGCATAGTAACCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
35805401 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
35805448 TCACAATAGC
Statistics
Matches: 161, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
49 77 0.48
50 49 0.30
51 35 0.22
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:35805434 original size:100 final size:99
Alignment explanation
Indices: 35805204--35805446 Score: 301
Period size: 100 Copynumber: 2.4 Consensus size: 99
35805194 AGCCGAAGCT
* * * * * * **
35805204 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCAGGTACACATAGT
* * *
35805269 AGCCTTGACTTAGTACTACACACGTGACCTAACC
66 AACCTTGACTTAGTACTACACACGCGACCTAACA
* * * *
35805303 ATCTGATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATTAGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCAGGTACACATA
*
35805368 GTAACC-TGCACTTAGTACTACACATGCGACC-AACA
64 GTAACCTTG-ACTTAGTACTACACACGCGACCTAACA
35805403 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
35805447 CTCACAATAG
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 38 0.31
100 49 0.40
101 36 0.29
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCAGGTACACATAGT
AACCTTGACTTAGTACTACACACGCGACCTAACA
Found at i:35808012 original size:46 final size:48
Alignment explanation
Indices: 35807971--35808097 Score: 124
Period size: 47 Copynumber: 2.7 Consensus size: 48
35807961 CGTCTCGAGA
**
35807971 CCGATG-CATGTCTTAGACAT-GTCTTACACTAGCCCTTGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCTTGTCTCAATG
* * *
35808017 CCGATGCCATGTCCCCGACATGGTCTTACACTAG--C-TCTCATAATATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCTTGTC-TCA-AT-G
*
35808065 CCAATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
35808098 TCACATAAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
45 3 0.04
46 21 0.31
47 26 0.38
48 18 0.26
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCTTGTCTCAATG
Found at i:35811139 original size:48 final size:48
Alignment explanation
Indices: 35811083--35811349 Score: 290
Period size: 48 Copynumber: 5.6 Consensus size: 48
35811073 TGCTAATGTT
* *
35811083 AGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCCAGTGAA
1 AGACCATGTCTGGGACATGGCATCGG-CATTGATATGAGAGCCAGTGTA
* * * * *
35811131 AGACCATGT-TTGGACATTGCATCGACGA-TGTTATGAGAGCCAATGTA
1 AGACCATGTCTGGGACATGGCATCGGC-ATTGATATGAGAGCCAGTGTA
* * * * *
35811178 AGACCATGTCTGGGACATGGCATCGGTATTAATATGTGCGCTAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCCAGTGTA
* * *
35811226 AGACCATTTCTGGGACATGGCATCGGCATTGAGACGAGAGCCAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCCAGTGTA
* * * * *
35811274 AGGCCATGTCTGGGGCATGGCATCGGCATTGACAAGTGAGCCAGTGTA
1 AGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCCAGTGTA
*
35811322 AGACCATG-CTTGGAACATGGCATCGGCA
1 AGACCATGTC-TGGGACATGGCATCGGCA
35811350 ATTCACCCTA
Statistics
Matches: 181, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
46 1 0.01
47 40 0.22
48 140 0.77
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
AGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCCAGTGTA
Found at i:35812884 original size:48 final size:48
Alignment explanation
Indices: 35812777--35813008 Score: 186
Period size: 48 Copynumber: 5.1 Consensus size: 48
35812767 GGGGTGTTAC
* * *
35812777 ATCACATATCAATGCCAATGCCATGTCCCAAACATGGTCTTACATGGG
1 ATCACATGTCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
** * *
35812825 ATCGTAGGTCGATGCCAATGCCATGTCCCCGACATGGTCTTACATGGG
1 ATCACATGTCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
* *
35812873 ATCACATGTCGATGCCGAT---A-G-CCCAG-CTTGGTCTTACATGGG
1 ATCACATGTCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
* **
35812915 ATCACATGTCGATG-C--TG--ATAG-CCTAG-CTATGGTCTTACATGAA
1 ATCACATGTCGATGCCAATGCCAT-GTCCCAGAC-ATGGTCTTACATGGG
* * * * *
35812958 ATTACATAAT-GATGCCAAAGCCATGTCCTAGACATGGTCTTATATGGG
1 ATCACAT-GTCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
35813006 ATC
1 ATC
35813009 GCACATAACC
Statistics
Matches: 148, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 1 0.01
42 35 0.24
43 26 0.18
44 3 0.02
45 1 0.01
46 1 0.01
47 1 0.01
48 77 0.52
49 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (48 bp):
ATCACATGTCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG
Found at i:35812921 original size:42 final size:43
Alignment explanation
Indices: 35812858--35812955 Score: 171
Period size: 42 Copynumber: 2.3 Consensus size: 43
35812848 TGTCCCCGAC
35812858 ATGGTCTTACATGGGATCACATGTCGATGCCGATAGCCCAGCT
1 ATGGTCTTACATGGGATCACATGTCGATGCCGATAGCCCAGCT
* *
35812901 -TGGTCTTACATGGGATCACATGTCGATGCTGATAGCCTAGCT
1 ATGGTCTTACATGGGATCACATGTCGATGCCGATAGCCCAGCT
35812943 ATGGTCTTACATG
1 ATGGTCTTACATG
35812956 AAATTACATA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
42 40 0.77
43 12 0.23
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (43 bp):
ATGGTCTTACATGGGATCACATGTCGATGCCGATAGCCCAGCT
Found at i:35812972 original size:43 final size:42
Alignment explanation
Indices: 35812859--35812973 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
35812849 GTCCCCGACA
** *
35812859 TGGTCTTACATGGGATCACATGTCGATGCCGATAGCCCAGCT
1 TGGTCTTACATGAAATCACATATCGATGCCGATAGCCCAGCT
** * * *
35812901 TGGTCTTACATGGGATCACATGTCGATGCTGATAGCCTAGCT
1 TGGTCTTACATGAAATCACATATCGATGCCGATAGCCCAGCT
*
35812943 ATGGTCTTACATGAAATTACATAAT-GATGCC
1 -TGGTCTTACATGAAATCACAT-ATCGATGCC
35812974 AAAGCCATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
42 40 0.62
43 23 0.36
44 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (42 bp):
TGGTCTTACATGAAATCACATATCGATGCCGATAGCCCAGCT
Found at i:35816968 original size:15 final size:15
Alignment explanation
Indices: 35816944--35816983 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
35816934 TCCTTTAATT
35816944 CTAT-CGGAGCCATC
1 CTATACGGAGCCATC
35816958 CTATACGGAGCCATC
1 CTATACGGAGCCATC
35816973 CTATACGGAGC
1 CTATACGGAGC
35816984 AATCAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (15 bp):
CTATACGGAGCCATC
Found at i:35822118 original size:24 final size:24
Alignment explanation
Indices: 35822080--35822153 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
35822070 CGTATGTTGA
* *
35822080 CATTCAAATCAGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
*
35822104 TATTCAACTCCGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
* * *
35822128 CATACTACACCGCACACATAGTGC
1 CATTCAACTCCGCACACATAGTGC
35822152 CA
1 CA
35822154 ATGTACACTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (24 bp):
CATTCAACTCCGCACACATAGTGC
Found at i:35826547 original size:40 final size:40
Alignment explanation
Indices: 35826466--35826563 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
35826456 GATTTGGATA
* **
35826466 TATATATGGCACTTAGTGTGTAATTCGAGAAAGCTTTGGC
1 TATATATGGCACTTAGTGTGCAATTCGAGAAAGCTACGGC
* *
35826506 TATATATGGCATTTAGTGTGCAATTTGA-AATAGCTACGGC
1 TATATATGGCACTTAGTGTGCAATTCGAGAA-AGCTACGGC
35826546 TATA-AGTGGCACTTAGTG
1 TATATA-TGGCACTTAGTG
35826564 GGCGAGACCA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.06
40 47 0.94
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCAATTCGAGAAAGCTACGGC
Found at i:35832696 original size:48 final size:48
Alignment explanation
Indices: 35832635--35832843 Score: 176
Period size: 47 Copynumber: 4.6 Consensus size: 48
35832625 CGGTTATACG
* * *
35832635 TGTAACGTTGTGCTAAATGGATATACCACGATTACACATATTGAAACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGAAACA
* * **
35832683 TGTAACGTGGTGCTAAGTGAATATGCCAC-AGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGA-TTACATATATTGAAACA
* * *
35832731 T-TAATGTTGTGCTAAGTGGATATACCACG---------GTT-AAACA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGAAACA
* * * **
35832768 TGT-ACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGAAACA
35832815 T-TAACGTGGTGCTAAGTGGATATACCACG
1 TGTAACGTGGTGCTAAGTGGATATACCACG
35832844 GTTAAATACG
Statistics
Matches: 124, Mismatches: 23, Indels: 29
0.70 0.13 0.16
Matches are distributed among these distances:
37 26 0.21
38 3 0.02
46 3 0.02
47 52 0.42
48 40 0.32
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (48 bp):
TGTAACGTGGTGCTAAGTGGATATACCACGATTACATATATTGAAACA
Found at i:35832783 original size:84 final size:85
Alignment explanation
Indices: 35832678--35832885 Score: 330
Period size: 84 Copynumber: 2.5 Consensus size: 85
35832668 ACACATATTG
* * *
35832678 AAACATGTAACGTGGTGCTAAGTGAATATGCCACAGTTACATATATTGATTCATTAATGTTGTGC
1 AAACATGTAACGTGGTGCTAAGTGAATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
35832743 TAAGTGGATATACCACGGTT
66 TAAGTGGATATACCACGGTT
* *
35832763 AAACATGT-ACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGC
1 AAACATGTAACGTGGTGCTAAGTGAATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
35832827 TAAGTGGATATACCACGGTT
66 TAAGTGGATATACCACGGTT
* *
35832847 AAATACGTAACGTGGTGCTAAGT-AGATATGCCACGGTTA
1 AAACATGTAACGTGGTGCTAAGTGA-ATATGCCACGGTTA
35832886 TACATGTTAA
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
84 77 0.69
85 35 0.31
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (85 bp):
AAACATGTAACGTGGTGCTAAGTGAATATGCCACGGTTACATATATTGATTCATTAACGTGGTGC
TAAGTGGATATACCACGGTT
Found at i:35832913 original size:84 final size:83
Alignment explanation
Indices: 35832678--35832916 Score: 239
Period size: 84 Copynumber: 2.8 Consensus size: 83
35832668 ACACATATTG
* * * * * * * *
35832678 AAACATGTAACGTGGTGCTAAGT-GAATATGCCACAGTTACATATATTGATTCATTAATGTTGTG
1 AAACACGT-ACGTGGTGCTAAGTAG-ATATGCCACGGTTACACATATTAATT-ATAAAAGTGGCG
35832742 CTAAGTGGATATACCACGGTT
63 CTAAGTGGATATACCACGGTT
* * * * * * * *
35832763 AAACATGTACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGCT
1 AAACACGTACGTGGTGCTAAGTAGATATGCCACGGTTACACATATTAATT-ATAAAAGTGGCGCT
35832828 AAGTGGATATACCACGGTT
65 AAGTGGATATACCACGGTT
* * *
35832847 AAATACGTAACGTGGTGCTAAGTAGATATGCCACGGTTATACATGTTAATT-TGAAAAGTGGCGC
1 AAACACGT-ACGTGGTGCTAAGTAGATATGCCACGGTTACACATATTAATTAT-AAAAGTGGCGC
35832911 TAAGTG
64 TAAGTG
35832917 CGTATGCCAC
Statistics
Matches: 136, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
83 1 0.01
84 90 0.66
85 45 0.33
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (83 bp):
AAACACGTACGTGGTGCTAAGTAGATATGCCACGGTTACACATATTAATTATAAAAGTGGCGCTA
AGTGGATATACCACGGTT
Found at i:35841972 original size:13 final size:13
Alignment explanation
Indices: 35841954--35841980 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35841944 GCTCGGTAGG
35841954 GACATGCCCATGT
1 GACATGCCCATGT
35841967 GACATGCCCATGT
1 GACATGCCCATGT
35841980 G
1 G
35841981 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (13 bp):
GACATGCCCATGT
Found at i:35844293 original size:17 final size:19
Alignment explanation
Indices: 35844261--35844295 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
35844251 ATGTTTGGGC
35844261 ACTAAATTTAGTAAAAAGG
1 ACTAAATTTAGTAAAAAGG
35844280 ACTAAA-TT-GTAAAAAG
1 ACTAAATTTAGTAAAAAG
35844296 TGCAAAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (19 bp):
ACTAAATTTAGTAAAAAGG
Found at i:35845858 original size:27 final size:27
Alignment explanation
Indices: 35845622--35846268 Score: 655
Period size: 27 Copynumber: 24.0 Consensus size: 27
35845612 AAAGTACTCC
*
35845622 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
35845649 CGATTTACAGAATTACAGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
35845676 CGATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
35845703 C-AGTTTACAGAATTAATGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
35845730 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
35845757 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
35845784 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
35845811 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
35845838 CGATTTACAGAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * ** *
35845864 CCAGTTTACAAAATTACTATTTTACCTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
35845892 C-AGTGTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
35845919 CGATTTATAGAA-TACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
35845945 CAATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
35845972 TGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
35845999 C-AGTTTACAAAATTACTATTTTACTCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
35846026 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
35846053 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
35846080 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
35846107 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
35846134 CGATTTATAGAATTACCGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
35846161 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
35846188 TGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
35846215 C-AGTTTACAAAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
35846242 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
35846269 TATTTGTGAA
Statistics
Matches: 527, Mismatches: 77, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
26 28 0.05
27 491 0.93
28 8 0.02
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:35846473 original size:27 final size:27
Alignment explanation
Indices: 35846278--35846473 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
35846268 TTATTTGTGA
* *
35846278 AATTACTGAGATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
35846305 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
35846332 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35846359 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35846386 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35846413 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
35846440 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
35846467 AATTACC
1 AATTACC
35846474 ATTTTGCCCC
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:35846710 original size:27 final size:26
Alignment explanation
Indices: 35846672--35846758 Score: 93
Period size: 27 Copynumber: 3.3 Consensus size: 26
35846662 CGGAGGAAGC
*
35846672 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGACAC-AATATCT
*
35846699 GTTCTGGTGGCTCTGACACAATATCT
1 GTTCTGGTGGCTATGACACAATATCT
* * * *
35846725 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGACACAATATCT
*
35846752 ATTCTGG
1 GTTCTGG
35846759 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGACACAATATCT
Found at i:35846885 original size:6 final size:6
Alignment explanation
Indices: 35846876--35847019 Score: 120
Period size: 6 Copynumber: 23.8 Consensus size: 6
35846866 TTGCATTCAC
* * *
35846876 ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
35846924 -TTACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TTACTA
1 ATT-CTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
*
35846973 ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCAG ATTCTG ATTCT
1 AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
35847020 CATTTTGGTT
Statistics
Matches: 111, Mismatches: 14, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
5 10 0.09
6 91 0.82
7 8 0.07
8 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:35846906 original size:24 final size:24
Alignment explanation
Indices: 35846879--35847014 Score: 150
Period size: 24 Copynumber: 5.6 Consensus size: 24
35846869 CATTCACATT
35846879 CTGATTCTGATTCTGTTACTAATA
1 CTGATTCTGATTCTGTTACTAATA
* **
35846903 CTGATTCTGATTTTGATT-CTGTTA
1 CTGATTCTGATTCTG-TTACTAATA
* *
35846927 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTTA-CTAATA
35846952 CTGATTCTGATTCTGTTACTAATA
1 CTGATTCTGATTCTGTTACTAATA
* **
35846976 TTGATTCTGATTCTGATT-CTGTTA
1 CTGATTCTGATTCTG-TTACTAATA
*
35847000 CTGATTCAGATTCTG
1 CTGATTCTGATTCTG
35847015 ATTCTCATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.01
24 68 0.73
25 24 0.26
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.48
Consensus pattern (24 bp):
CTGATTCTGATTCTGTTACTAATA
Found at i:35846995 original size:73 final size:73
Alignment explanation
Indices: 35846876--35847014 Score: 251
Period size: 73 Copynumber: 1.9 Consensus size: 73
35846866 TTGCATTCAC
* *
35846876 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTTTGATTCTGTTACTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCAGATTCT
35846941 GTCACCTA
66 GTCACCTA
*
35846949 ATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTGATTCTGTTACTGATTCAGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCAGATTCT
35847014 G
66 G
35847015 ATTCTCATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (73 bp):
ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTGTTACTGATTCAGATTCT
GTCACCTA
Found at i:35848550 original size:47 final size:47
Alignment explanation
Indices: 35848452--35848662 Score: 271
Period size: 47 Copynumber: 4.7 Consensus size: 47
35848442 GTTATACGTG
* * * *
35848452 TAACGTGGTGCTAAGT-GATATACCATGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
35848498 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
35848546 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
35848584 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
35848631 TAACGTGATGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
35848663 AACATGTAAC
Statistics
Matches: 143, Mismatches: 11, Indels: 20
0.82 0.06 0.11
Matches are distributed among these distances:
38 31 0.22
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 77 0.54
48 25 0.17
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:35848588 original size:85 final size:85
Alignment explanation
Indices: 35848494--35848697 Score: 390
Period size: 85 Copynumber: 2.4 Consensus size: 85
35848484 ACATATTGAT
*
35848494 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTA
35848559 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
35848579 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTA
35848644 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
35848664 ACATGTAACATGGTGCTAAGTGGATATGCCACGG
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGG
35848698 CTATACATGT
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 117 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGATGCTA
AGTGGATATACCACGGTTAA
Found at i:35848658 original size:132 final size:132
Alignment explanation
Indices: 35848418--35848662 Score: 375
Period size: 132 Copynumber: 1.9 Consensus size: 132
35848408 ATAAAAAAAT
* * *
35848418 GTGGTACTAAGTGAATATACCACGGTTATACGTGTAACGTGGTGCTAAGTGATATACCATGATTA
1 GTGGTACTAAGTGAATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGATATACCACGATTA
* *
35848483 CACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTA
66 CACATATTGATACATGTAACGTGATGCTAAGTGGATATACCACGGTTACATATATTGATTCATTA
35848548 AC
131 AC
* * * *
35848550 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACGGTT
1 GTGGTACTAAGTGAATATACCACGGTTAAACATGTAACGTGGTGCTAAGT-GATATACCACGATT
* *
35848615 ACATATATTGATTCAT-TAACGTGATGCTAAGTGGATATACCACGGTTA
65 ACACATATTGATACATGTAACGTGATGCTAAGTGGATATACCACGGTTA
35848663 AACATGTAAC
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
132 76 0.75
133 25 0.25
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (132 bp):
GTGGTACTAAGTGAATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGATATACCACGATTA
CACATATTGATACATGTAACGTGATGCTAAGTGGATATACCACGGTTACATATATTGATTCATTA
AC
Found at i:35852228 original size:27 final size:27
Alignment explanation
Indices: 35852126--35852283 Score: 106
Period size: 27 Copynumber: 5.9 Consensus size: 27
35852116 AATACTTTAG
* * * *
35852126 TTTACCAAATTACTGAAATGCCCTCAA
1 TTTACAAAATTACCGAAATACCCTCGA
** *
35852153 TTTGTAAAATTACC-AAAGTACCATCGA
1 TTTACAAAATTACCGAAA-TACCCTCGA
* ***
35852180 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* *
35852207 TTTACAAAATTACTGAAATACCCT-TA
1 TTTACAAAATTACCGAAATACCCTCGA
* *
35852233 GTTTACAAAATTACCAAAATACCCTTGA
1 -TTTACAAAATTACCGAAATACCCTCGA
* * *
35852261 -TCAGTAAAATTACCAAAATACCC
1 TTTA-CAAAATTACCGAAATACCC
35852284 CTGGTTTGTA
Statistics
Matches: 101, Mismatches: 25, Indels: 10
0.74 0.18 0.07
Matches are distributed among these distances:
26 6 0.06
27 94 0.93
28 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTCGA
Found at i:35852256 original size:54 final size:54
Alignment explanation
Indices: 35852198--35852310 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
35852188 ATTACCGTTT
* ** *
35852198 TACCCTCGATTTA-CAAAATTACTGAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TCAGCAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAA
* * * ** *
35852252 TACCCTTGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATCAGCAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAA
35852306 TACCC
1 TACCC
35852311 CTGGTTTGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (54 bp):
TACCCTCGATCAGCAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAA
Found at i:35852294 original size:27 final size:27
Alignment explanation
Indices: 35852212--35852419 Score: 199
Period size: 27 Copynumber: 7.8 Consensus size: 27
35852202 CTCGATTTAC
** * * **
35852212 AAAATTACTGAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
35852239 AAAATTACCAAAATACCCTTGATCAGT
1 AAAATTACCAAAATACCCCTGGTTTGT
35852266 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
35852293 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
35852320 AAAATTACC-AAATAACCCCTGGCTTGT
1 AAAATTACCAAAAT-ACCCCTGGTTTGT
* *
35852347 AAAATTACCAAAAT-GCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
35852373 GAAATTATCAAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
35852400 AAAA-TATCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
35852420 TAGGGTAGGA
Statistics
Matches: 153, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
26 39 0.25
27 110 0.72
28 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:35853197 original size:26 final size:27
Alignment explanation
Indices: 35853168--35853227 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
35853158 CCACATATAT
*
35853168 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
35853194 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
35853221 ATATCTG
1 ATATCTG
35853228 GCAGCCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:35856730 original size:42 final size:42
Alignment explanation
Indices: 35856532--35856719 Score: 295
Period size: 42 Copynumber: 4.5 Consensus size: 42
35856522 TGATATTTAA
*
35856532 GTGTAAGACCATGTCTGGGACATCGGTATCGTATCTGATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
* * * * *
35856574 GTGTAAGACCATGTTTAGGACATTGGCATCGAATCTAATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
*
35856616 GTGTAAGACCATGTCTGTGACATCGGCATCGTATCTGATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
*
35856658 GTGTAAGACCATGTCTGGGACACCGGCATCGTATCTGATTTC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
*
35856700 GTGTAAGACCCTGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
35856720 TAGAGGCATC
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 131 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTC
Found at i:35856730 original size:84 final size:83
Alignment explanation
Indices: 35856486--35856719 Score: 297
Period size: 84 Copynumber: 2.8 Consensus size: 83
35856476 ATCTGAGATA
* * * * *
35856486 TCGTGTAAGACCGTGTCTGGGACACAAGCCTCGATTTGATATTTAAGTGTAAGACCATGTCTGGG
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCTG--ATTT-CGTGTAAGACCATGTCTGGG
*
35856551 ACATCGGTATCGTATCTGATT
63 ACATCGGCATCGTATCTGATT
* * ** * *
35856572 TCGTGTAAGACCATGTTTAGGACATTGGCATCGAATCTAATTTCGTGTAAGACCATGTCTGTGAC
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCTGATTTCGTGTAAGACCATGTCTGGGAC
35856637 ATCGGCATCGTATCTGATT
65 ATCGGCATCGTATCTGATT
* *
35856656 TCGTGTAAGACCATGTCTGGGACACCGGCATCGTATCTGATTTCGTGTAAGACCCTGTCTGGGA
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCG-ATCTGATTTCGTGTAAGACCATGTCTGGGA
35856720 TAGAGGCATC
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 94 0.74
85 4 0.03
86 26 0.20
87 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (83 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATCTGATTTCGTGTAAGACCATGTCTGGGACA
TCGGCATCGTATCTGATT
Found at i:35858720 original size:122 final size:122
Alignment explanation
Indices: 35858503--35858746 Score: 470
Period size: 122 Copynumber: 2.0 Consensus size: 122
35858493 GGAATAGGTG
35858503 GGGGTGGAAGAGATTGACTGTTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
1 GGGGTGGAAGAGATTGACTGTTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
*
35858568 TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAATGGTCACGGGTCTA
66 TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAACGGTCACGGGTCTA
35858625 GGGGTGGAAGAGATTGACTGTTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
1 GGGGTGGAAGAGATTGACTGTTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
*
35858690 TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTTCCTGATTAACGGTCACGGGTCTA
66 TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAACGGTCACGGGTCTA
35858747 CTCTCAACCA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (122 bp):
GGGGTGGAAGAGATTGACTGTTCGGGTTCATTCGAATGAACTTCGTATACCAGGAATTCATCATA
TGGAGAAAGGCTTCCCTAGCCTCATCTCCTCCTCCCTGATTAACGGTCACGGGTCTA
Found at i:35862583 original size:27 final size:27
Alignment explanation
Indices: 35862553--35862839 Score: 253
Period size: 27 Copynumber: 10.7 Consensus size: 27
35862543 TAATAAAGAG
*
35862553 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35862580 AAATTA-TCGAAATACCCCCGATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * * *
35862607 AAATTACCGAAATATCC-CGATTTATG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35862633 AAATTACTGAAACACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
35862660 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35862687 AAATTA-TCGAAACACCCTTGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* **
35862714 AAATTTCCAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
35862741 GAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * ** *
35862768 AAATTACCAAAACACTTTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35862795 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
35862822 AAATTA-TCGAAATACCCT
1 AAATTACT-GAAATACCCT
35862840 TGTAGTGTAA
Statistics
Matches: 211, Mismatches: 42, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
26 23 0.11
27 188 0.89
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:35862685 original size:80 final size:80
Alignment explanation
Indices: 35862552--35862782 Score: 284
Period size: 81 Copynumber: 2.9 Consensus size: 80
35862542 ATAATAAAGA
* * *
35862552 GAAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTACCGA
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGA
*
35862617 AATATCCC-GATTTAT
66 AACA-CCCTGATTTAT
* * * * * *
35862632 GAAATTACTGAAACACCCTTGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCGA
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGA
*
35862697 AACACCCTTGATTTGT
66 AACACCC-TGATTTAT
* * * * * *
35862713 AAAATTTCCAAAATACCCTCGATTTGTAGAATTACTGAAATACCCTCGATTTGTAAAATTACCAA
1 GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGA
35862778 AACAC
66 AACAC
35862783 TTTCGACTTG
Statistics
Matches: 126, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 3 0.02
80 59 0.47
81 64 0.51
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (80 bp):
GAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGA
AACACCCTGATTTAT
Found at i:35862707 original size:54 final size:54
Alignment explanation
Indices: 35862553--35862839 Score: 312
Period size: 54 Copynumber: 5.3 Consensus size: 54
35862543 TAATAAAGAG
** ** *
35862553 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
* * * *
35862607 AAATTACCGAAATATCC-CGATTTATGAAATTA-CTGAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTTGATTTGTA
* * *
35862660 AAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
* * * *
35862714 AAATTTCCAAAATACCCTCGATTTGTAGAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTTGATTTGTA
* * ** * *
35862768 AAATTACCAAAACACTTTCGACTTGTAAAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGAT-TTGTA
*
35862822 AAATTATCGAAATACCCT
1 AAATTACCGAAATACCCT
35862840 TGTAGTGTAA
Statistics
Matches: 193, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
52 1 0.01
53 45 0.23
54 145 0.75
55 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTTGATTTGTA
Found at i:35862746 original size:81 final size:81
Alignment explanation
Indices: 35862561--35862839 Score: 280
Period size: 81 Copynumber: 3.5 Consensus size: 81
35862551 AGAAATTACT
* * * *
35862561 AAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTACCGAAATATCCC-
1 AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACA-CCCT
* * * *
35862625 -GATTTATGAAATTACT
65 TGATTTGTAAAATTTCC
* * * * * *
35862641 GAAACACCCTTGATTTGTAAAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTT
1 AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTT
35862706 GATTTGTAAAATTTCC
66 GATTTGTAAAATTTCC
* * * *
35862722 AAAATACCCTCGATTTGTAGAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAACA-CTTT
1 AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTT
*
35862786 CGACTTGTAAAATTAT-C
66 -GATTTGTAAAATT-TCC
* * * *
35862803 GAAATACCCTTG-TAGTGTAAAATTATCGAAATACCCT
1 AAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCT
35862840 TGTAGTGTAA
Statistics
Matches: 163, Mismatches: 31, Indels: 9
0.80 0.15 0.04
Matches are distributed among these distances:
79 3 0.02
80 54 0.33
81 105 0.64
82 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (81 bp):
AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTT
GATTTGTAAAATTTCC
Found at i:35862840 original size:27 final size:27
Alignment explanation
Indices: 35862791--35862879 Score: 133
Period size: 27 Copynumber: 3.3 Consensus size: 27
35862781 ACTTTCGACT
35862791 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
35862818 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * * *
35862845 TGTAAAGTGACCGACATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
35862872 GGTAAAAT
1 TGTAAAAT
35862880 GACTATTTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:35871854 original size:23 final size:23
Alignment explanation
Indices: 35871836--35871890 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
35871826 ACAGCATAGT
35871836 TGCTAATAGTAACGAAGCAAAGC
1 TGCTAATAGTAACGAAGCAAAGC
* *
35871859 TACTAATAGTAACGCAGCAAAGC
1 TGCTAATAGTAACGAAGCAAAGC
35871882 TGCTAATAG
1 TGCTAATAG
35871891 CGGTAAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (23 bp):
TGCTAATAGTAACGAAGCAAAGC
Found at i:35873605 original size:41 final size:41
Alignment explanation
Indices: 35873530--35873607 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
35873520 ATAGTGATAT
*
35873530 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTGGA
1 TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTGGA
* * *
35873571 TCGGGCTTTGTGCCTAGC-AGGCTTATTGCCGGTGAAT
1 TCGGGCTTTGAGCCTAGCAAGCCTT-GTGCCGGTGAAT
35873608 AAATAAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (41 bp):
TCGGGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATTGGA
Found at i:35877593 original size:40 final size:40
Alignment explanation
Indices: 35877511--35877774 Score: 336
Period size: 40 Copynumber: 6.5 Consensus size: 40
35877501 ACCCAAGTAT
* * *
35877511 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATAC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
35877550 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
35877590 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
35877630 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCACACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
35877673 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
35877713 CTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
35877753 CTTCGGAACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
35877775 CATCCGAATA
Statistics
Matches: 202, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 12 0.06
40 155 0.77
41 1 0.00
43 34 0.17
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:35877764 original size:123 final size:123
Alignment explanation
Indices: 35877536--35877770 Score: 371
Period size: 123 Copynumber: 1.9 Consensus size: 123
35877526 GGATATAGCA
* * * * *
35877536 ACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGCCTTCGGGACTT
1 ACTCACACAAATACCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTT
* * *
35877601 AGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACT
66 AGCCCGAATATAGTAACTAGCACAAATGCCTTCGGAACTTAGCCCGGGTATAGCAACT
* *
35877659 ACTCACACAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTCACACAAATACCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTT
*
35877724 AGCCCGAATATAGTAACTTGCACAAATGCCTTCGGAACTTAGCCCGG
66 AGCCCGAATATAGTAACTAGCACAAATGCCTTCGGAACTTAGCCCGG
35877771 ATATCATCCG
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
123 101 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (123 bp):
ACTCACACAAATACCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTT
AGCCCGAATATAGTAACTAGCACAAATGCCTTCGGAACTTAGCCCGGGTATAGCAACT
Done.