Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 309 of 345
Found at i:92984653 original size:17 final size:16
Alignment explanation
Indices: 92984631--92984665 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
92984621 TTTTTTTTGC
*
92984631 TAAAATAATATAAAAAA
1 TAAAATAAGA-AAAAAA
92984648 TAAAATAAGAAAAAAA
1 TAAAATAAGAAAAAAA
92984664 TA
1 TA
92984666 TATTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
TAAAATAAGAAAAAAA
Found at i:92984991 original size:15 final size:14
Alignment explanation
Indices: 92984932--92984995 Score: 51
Period size: 15 Copynumber: 4.4 Consensus size: 14
92984922 ATTTTTTGCT
92984932 AAAATAATATA-AA
1 AAAATAATATAGAA
*
92984945 AAAATAAAATAGGAA
1 AAAATAATATA-GAA
**
92984960 AATAAT-ATATTTTAA
1 AA-AATAATA-TAGAA
92984975 AAAATAATATACGAA
1 AAAATAATATA-GAA
92984990 AAAATA
1 AAAATA
92984996 TGAATAAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 10 0.26
14 4 0.10
15 21 0.54
16 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.25
Consensus pattern (14 bp):
AAAATAATATAGAA
Found at i:92985050 original size:21 final size:22
Alignment explanation
Indices: 92985026--92985067 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
92985016 GGGTTATTTA
92985026 TTAAA-AAAATATTTAAAACAC
1 TTAAATAAAATATTTAAAACAC
*
92985047 TTAAATAATATATTTAAAACA
1 TTAAATAAAATATTTAAAACA
92985068 TTATGTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAATAAAATATTTAAAACAC
Found at i:92985140 original size:13 final size:12
Alignment explanation
Indices: 92985122--92985151 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
92985112 AATATATTTA
92985122 AAAAAAAGATACG
1 AAAAAAA-ATACG
92985135 AAAAAAAATACG
1 AAAAAAAATACG
92985147 AAAAA
1 AAAAA
92985152 GTGTCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.77, C:0.07, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAAAAATACG
Found at i:92985170 original size:148 final size:150
Alignment explanation
Indices: 92984651--92985233 Score: 549
Period size: 155 Copynumber: 3.9 Consensus size: 150
92984641 TAAAAAATAA
* * *
92984651 AATAAGAAAAAAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTAAAATCA
1 AATACGAAAATAATATATTTTAAAAAATAAGATACG-AAAAAATACGAATAAAGTGCTAAAATCA
* * * * *
92984716 GGGATATTTATTGAAAAAATATAAAAAATA-TTGA-AATAATACATTTGAAACATTATGTACTAA
65 GGGTTATTTATTAAAAAAATATAAAAAACACTTAATAATAATACATTTAAAACATT-TGTACTAA
* * *
92984779 AATAA---TATGAAGAAAT-AA-
129 AATAAGGGTTTTAA-AATTAAAT
* *
92984797 AATACGAAAATAATATATTTTAAAAAATAAGATACAAAAAAATACGAAAAAAGTG-TCAAAATCA
1 AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACGAATAAAGTGCT-AAAATCA
** * *
92984861 GGGTTATTTATTAAATTAGTATAAAAAAACACTTACATAATATACATAATACATTTGAAACATTT
65 GGGTTATTTATTAAAAAAATAT-AAAAAACAC-T---T-A-ATA-ATAATACATTTAAAACA-TT
* * *
92984926 TTTGCTAAAATAA----TATAAAA--AAAT
121 TGTACTAAAATAAGGGTTTTAAAATTAAAT
* * *
92984950 AAAATAGGAAAATAATATATTTTAAAAAATAATATACGAAAAAATATGAATAAAGTGCTAAAATC
1 --AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACGAATAAAGTGCTAAAATC
** *
92985015 AGGGTTATTTATTAAAAAAATATTTAAAACACTT-A-AATAATATATTTAAAACATTATGTACTA
64 AGGGTTATTTATTAAAAAAATATAAAAAACACTTAATAATAATACATTTAAAACATT-TGTACTA
92985078 AAATAAGGGTTTTAAAATTAAAT
128 AAATAAGGGTTTTAAAATTAAAT
*
92985101 AATACGAAAGTAATATA-TTTAAAAAA-AAGATACGAAAAAAAATACGAA-AAAGTG-TCAAAAT
1 AATACGAAAATAATATATTTTAAAAAATAAGATACG--AAAAAATACGAATAAAGTGCT-AAAAT
* ** * * *
92985162 CAGTGTTATTTATTAAATTAATATAAAAAATACTTACATAATAATACATTTAAAACATTTTTGCT
63 CAGGGTTATTTATTAAAAAAATATAAAAAACACTTA-ATAATAATACATTTAAAACATTTGTACT
92985227 AAAATAA
127 AAAATAA
92985234 TATAAAAAAT
Statistics
Matches: 362, Mismatches: 45, Indels: 56
0.78 0.10 0.12
Matches are distributed among these distances:
144 3 0.01
145 68 0.19
146 40 0.11
147 9 0.02
148 50 0.14
149 32 0.09
150 13 0.04
151 24 0.07
152 2 0.01
153 4 0.01
154 10 0.03
155 104 0.29
156 3 0.01
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.30
Consensus pattern (150 bp):
AATACGAAAATAATATATTTTAAAAAATAAGATACGAAAAAATACGAATAAAGTGCTAAAATCAG
GGTTATTTATTAAAAAAATATAAAAAACACTTAATAATAATACATTTAAAACATTTGTACTAAAA
TAAGGGTTTTAAAATTAAAT
Found at i:92985244 original size:12 final size:12
Alignment explanation
Indices: 92985227--92985256 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
92985217 CATTTTTGCT
92985227 AAAATAATATAA
1 AAAATAATATAA
*
92985239 AAAATAATATAC
1 AAAATAATATAA
92985251 AAAATA
1 AAAATA
92985257 TTTTACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:92987245 original size:71 final size:72
Alignment explanation
Indices: 92987124--92987263 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 72
92987114 AGTCCGAGCG
*
92987124 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACTATTTC-CGG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACAATTTCTCGG
92987188 GCTCGTC
66 GCTCGTC
* * * *
92987195 ATCGCATTCACTTTCGGCTGATACTTCTTATCATCCGGATTTTGCGGGCAATGACAATTTCTCGG
1 ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACAATTTCTCGG
92987260 GCTC
66 GCTC
92987264 ATCGGGGGGC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 56 0.89
72 7 0.11
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (72 bp):
ATCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACAATTTCTCGG
GCTCGTC
Found at i:92987357 original size:33 final size:32
Alignment explanation
Indices: 92987311--92987383 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
92987301 GGGTCGTACA
92987311 CACCGCAGCATAGCACCT-CTCCCGGCCCATATC
1 CACCGCAGCATAGCA-CTGC-CCCGGCCCATATC
** *
92987344 CACCGCATTATAGCACTGCCCCGGCCCGTATC
1 CACCGCAGCATAGCACTGCCCCGGCCCATATC
*
92987376 CACTGCAG
1 CACCGCAG
92987384 TACTCCACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 20 0.59
33 14 0.41
ACGTcount: A:0.21, C:0.45, G:0.18, T:0.16
Consensus pattern (32 bp):
CACCGCAGCATAGCACTGCCCCGGCCCATATC
Found at i:92991423 original size:15 final size:16
Alignment explanation
Indices: 92991404--92991465 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 16
92991394 TACCTTCTTT
92991404 TTTTCTTCTCCTTCT-
1 TTTTCTTCTCCTTCTA
*
92991419 TTTTCTTCCTTCTCTTCTC
1 TTTTCTT-C-TC-CTTCTA
* *
92991438 CTTTCTT-TCCTTTTA
1 TTTTCTTCTCCTTCTA
92991453 TTTTCTTCTCCTT
1 TTTTCTTCTCCTT
92991466 ACTGCTGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 17 0.45
16 8 0.21
17 2 0.05
18 5 0.13
19 6 0.16
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTCTTCTCCTTCTA
Found at i:92994003 original size:22 final size:21
Alignment explanation
Indices: 92993977--92994019 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
92993967 TATAATTTTT
*
92993977 TTTTTATTTTTTTAGTTTTTTAG
1 TTTTT-TTTTGTTA-TTTTTTAG
92994000 TTTTTTTTTGTTATTTTTTA
1 TTTTTTTTTGTTATTTTTTA
92994020 CAAATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.81
Consensus pattern (21 bp):
TTTTTTTTTGTTATTTTTTAG
Found at i:92997267 original size:2 final size:2
Alignment explanation
Indices: 92997260--92997293 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
92997250 ATCATGAATC
*
92997260 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92997294 CAAAAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:92997756 original size:41 final size:41
Alignment explanation
Indices: 92997699--92997780 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
92997689 AATTAAAAAG
* *
92997699 AATGTGCAAACGGGGAGGACTATATGCGCAAATCTCCCATT
1 AATGTGCAAACAGGGAGGACTATACGCGCAAATCTCCCATT
*
92997740 AATGTGCAAACAGGGAGGACTATACGTGCAAATCTCCCATT
1 AATGTGCAAACAGGGAGGACTATACGCGCAAATCTCCCATT
92997781 TGGTGTACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (41 bp):
AATGTGCAAACAGGGAGGACTATACGCGCAAATCTCCCATT
Found at i:93001922 original size:80 final size:81
Alignment explanation
Indices: 93001789--93001945 Score: 264
Period size: 80 Copynumber: 2.0 Consensus size: 81
93001779 CCCTACACTT
* *
93001789 TTATTGGAAGTAAATTAAAAATATTTTAAACTAATAAGGCTAAAGGGTCAAAAAG-GCTTAGTAA
1 TTATTGGAAGTAAATTAAAAATATTTTAAACTAATAAGGCTAAAGAGTCAAAAAGACCTTAGTAA
93001853 CAAATTAAAAAATCAA
66 CAAATTAAAAAATCAA
*
93001869 TTATTGGAAGTAAATT-AAAATATTTTAAACTAATAGAGGTTAAAGAGTCAAAAAGACCTTAGTA
1 TTATTGGAAGTAAATTAAAAATATTTTAAACTAATA-AGGCTAAAGAGTCAAAAAGACCTTAGTA
93001933 ACAAATTAAAAAA
65 ACAAATTAAAAAA
93001946 AATCAACTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
79 19 0.26
80 33 0.46
81 20 0.28
ACGTcount: A:0.52, C:0.07, G:0.13, T:0.28
Consensus pattern (81 bp):
TTATTGGAAGTAAATTAAAAATATTTTAAACTAATAAGGCTAAAGAGTCAAAAAGACCTTAGTAA
CAAATTAAAAAATCAA
Found at i:93001968 original size:79 final size:77
Alignment explanation
Indices: 93001795--93001968 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 77
93001785 ACTTTTATTG
* * *
93001795 GAAGTAAATTAAAAATATTTTAAACTAATAAGGCTAAAGGGTCAAAAAGGCTTAGTAACAAATTA
1 GAAGCAAATT-AAAATATTTTAAACTAATAAGGCTAAAGAGTCAAAAAGCCTTAGTAACAAATTA
* *
93001860 AAAAATCAATTATT
65 AAAAA-CAATAACT
* *
93001874 GGAAGTAAATTAAAATATTTTAAACTAATAGAGGTTAAAGAGTCAAAAAGACCTTAGTAACAAAT
1 -GAAGCAAATTAAAATATTTTAAACTAATA-AGGCTAAAGAGTCAAAAAG-CCTTAGTAACAAAT
93001939 TAAAAAA-AATCAACT
63 TAAAAAACAAT-AACT
*
93001954 -AAGCACTATTAAAAT
1 GAAGCA-AATTAAAAT
93001969 TTTAAAAATT
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
78 4 0.05
79 30 0.36
80 29 0.35
81 20 0.24
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (77 bp):
GAAGCAAATTAAAATATTTTAAACTAATAAGGCTAAAGAGTCAAAAAGCCTTAGTAACAAATTAA
AAAACAATAACT
Found at i:93002784 original size:21 final size:22
Alignment explanation
Indices: 93002740--93002793 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
93002730 TTTTTTGTTA
*
93002740 TTTTAATTTGATATTTGAACATT
1 TTTTAATTTAATATTTG-ACATT
*
93002763 TTTTAATTTAATATTTG-TATT
1 TTTTAATTTAATATTTGACATT
*
93002784 TTTTTATTTA
1 TTTTAATTTA
93002794 TCTGAATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 12 0.43
23 16 0.57
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (22 bp):
TTTTAATTTAATATTTGACATT
Found at i:93006086 original size:2 final size:2
Alignment explanation
Indices: 93006079--93006130 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
93006069 AAATTCTTTC
*
93006079 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
93006121 AT AT AA AT AT
1 AT AT AT AT AT
93006131 GCATCATGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:93010166 original size:21 final size:21
Alignment explanation
Indices: 93010141--93010186 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
93010131 GTTCGACAAG
93010141 ACTTACTTTTAAAGCCAATGA
1 ACTTACTTTTAAAGCCAATGA
93010162 ACTTACTTTTAAAGCCAATGA
1 ACTTACTTTTAAAGCCAATGA
93010183 ACTT
1 ACTT
93010187 GCTAAGCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ACTTACTTTTAAAGCCAATGA
Found at i:93013166 original size:28 final size:27
Alignment explanation
Indices: 93013111--93013222 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 27
93013101 AGCATGGCTG
* *
93013111 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
93013137 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
93013165 CCAGA-ACAAATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* * *
93013192 CCAGAT-CAGATATTTATGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
93013219 CCAG
1 CCAG
93013223 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.07
27 51 0.70
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:93013212 original size:54 final size:54
Alignment explanation
Indices: 93013111--93013222 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
93013101 AGCATGGCTG
* * * *
93013111 CCAGAACAGATAATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
* * * *
93013165 CCAGAACAAATATATGTGGCAGAGCCACCAGAT-CAGATATTTATGGCATAGCCA
1 CCAGAACAAATA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
93013219 CCAG
1 CCAG
93013223 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (54 bp):
CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCATGGCAGAGCCA
Found at i:93016998 original size:44 final size:46
Alignment explanation
Indices: 93016948--93017040 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
93016938 AGTTACCTTT
* * *
93016948 TTAGCCATCAACATAT-TTAAGCTAGTTTTTAGGGATTTGTTT-TC
1 TTAGCCAGCAACATATCTTAAGCTAGCTTTTAAGGATTTGTTTCTC
* *
93016992 TTAGCCAGCAACATTTCCTTAGGCTAGCTTTTAAGGATTTGTTTCTC
1 TTAGCCAGCAACATAT-CTTAAGCTAGCTTTTAAGGATTTGTTTCTC
93017039 TT
1 TT
93017041 TTTTAGCTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
44 14 0.34
46 23 0.56
47 4 0.10
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (46 bp):
TTAGCCAGCAACATATCTTAAGCTAGCTTTTAAGGATTTGTTTCTC
Found at i:93023300 original size:20 final size:20
Alignment explanation
Indices: 93023272--93023311 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
93023262 ATTTAGATTA
*
93023272 TTTTGAGTTTAGATTTTTTT
1 TTTTAAGTTTAGATTTTTTT
93023292 TTTTAAGTTTAGATTTTTTT
1 TTTTAAGTTTAGATTTTTTT
93023312 AGGTTCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.70
Consensus pattern (20 bp):
TTTTAAGTTTAGATTTTTTT
Found at i:93023512 original size:13 final size:14
Alignment explanation
Indices: 93023491--93023527 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
93023481 TCCAAGTCAG
93023491 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
93023505 AT-AAATAACTAAA
1 ATAAAATAATTAAA
93023518 ATAAAATAAT
1 ATAAAATAAT
93023528 AAATCAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:93023750 original size:100 final size:100
Alignment explanation
Indices: 93023618--93023819 Score: 368
Period size: 100 Copynumber: 2.0 Consensus size: 100
93023608 AAACACGAAG
* *
93023618 AATCCACAACCCCTTCAAGCGGCTCTAATTTCCTTTCCAAGATAGAAACATTGGCAAGAAAAAGT
1 AATCCACAACCCCTTCAAGCGGCTCTAATTTCCCTCCCAAGATAGAAACATTGGCAAGAAAAAGT
93023683 TTGAAGATGATCCCTACAATCTAAAAAAATTGTTA
66 TTGAAGATGATCCCTACAATCTAAAAAAATTGTTA
*
93023718 AATCCACAACCCCTTCAAGCGGCTCTAATTTCCCTCCCAAGATAGAAACCTTGGCAAGAAAAAGT
1 AATCCACAACCCCTTCAAGCGGCTCTAATTTCCCTCCCAAGATAGAAACATTGGCAAGAAAAAGT
*
93023783 TTGAAGATGATTCCTACAATCTAAAAAAATTGTTA
66 TTGAAGATGATCCCTACAATCTAAAAAAATTGTTA
93023818 AA
1 AA
93023820 ACTCTTCTAA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (100 bp):
AATCCACAACCCCTTCAAGCGGCTCTAATTTCCCTCCCAAGATAGAAACATTGGCAAGAAAAAGT
TTGAAGATGATCCCTACAATCTAAAAAAATTGTTA
Found at i:93023841 original size:11 final size:11
Alignment explanation
Indices: 93023827--93023859 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
93023817 AAAACTCTTC
93023827 TAAAAGAAACT
1 TAAAAGAAACT
93023838 TAAAAGAAACT
1 TAAAAGAAACT
93023849 TAAAAGAAACT
1 TAAAAGAAACT
93023860 ATTGAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.18
Consensus pattern (11 bp):
TAAAAGAAACT
Found at i:93025806 original size:12 final size:11
Alignment explanation
Indices: 93025775--93025813 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
93025765 CGTGCCAAGG
93025775 TCCTTTTATTT
1 TCCTTTTATTT
*
93025786 TCATTTTATTT
1 TCCTTTTATTT
93025797 TCTCTTTTATTT
1 TC-CTTTTATTT
93025809 TCCTT
1 TCCTT
93025814 GTTCGAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (11 bp):
TCCTTTTATTT
Found at i:93026470 original size:3 final size:3
Alignment explanation
Indices: 93026462--93026594 Score: 105
Period size: 3 Copynumber: 44.0 Consensus size: 3
93026452 TTTGGCTACT
*
93026462 TTA TTA TTA -AA TTAA TTAA TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
93026507 TTG TCT- TTA CTA TTA TTA TTA TTA TTA TTAA TGTA TTA TTA TTA TTCT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TT-A
* * * *
93026555 TTA TT- TTA -TG TTA ATA TTA TTA TCA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93026595 AACTATTTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
2 7 0.07
3 83 0.79
4 14 0.13
5 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:93026572 original size:26 final size:26
Alignment explanation
Indices: 93026490--93026588 Score: 85
Period size: 26 Copynumber: 3.8 Consensus size: 26
93026480 ATTTTATTAT
** * *
93026490 TATTATTATTATTATTATTGTCTTTAC
1 TATTATTATTATTATTATT-AATGTAA
*
93026517 TATTATTATTATTATTATTAATGTAT
1 TATTATTATTATTATTATTAATGTAA
*
93026543 TATTATTATTCTTTATT-TT-ATGTTAA
1 TATTATTATT-ATTATTATTAATG-TAA
* *
93026569 TATTATTATCATTGTTATTA
1 TATTATTATTATTATTATTA
93026589 TTATTAAACT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
25 7 0.12
26 28 0.47
27 24 0.41
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TATTATTATTATTATTATTAATGTAA
Found at i:93030640 original size:16 final size:17
Alignment explanation
Indices: 93030608--93030641 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
93030598 TCATGAAATA
93030608 ATATGGCCACGTGACAG
1 ATATGGCCACGTGACAG
*
93030625 ATATGG-CACTTGACAG
1 ATATGGCCACGTGACAG
93030641 A
1 A
93030642 ATCACATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (17 bp):
ATATGGCCACGTGACAG
Found at i:93037953 original size:143 final size:142
Alignment explanation
Indices: 93037686--93038105 Score: 527
Period size: 143 Copynumber: 2.9 Consensus size: 142
93037676 AAGATGGCGG
* *
93037686 ATCTTATCTTCCTGAAGTTGTAGTAGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
1 ATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* * * ** * *
93037751 AGCGGAGCAGACTGAAGACAGTGAATCTTATTTCCATGATGTTACAGTGGAACAAATTAAAGCTA
66 AGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGA-ATTGTAGTGGAATAGATTAAAGCTA
* *
93037816 CAAATTTTGGCAA
130 CAAATTATAGCAA
* *
93037829 ATCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTAC
1 ATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
* ** * *
93037894 AGCGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGACATTGTAGTAGAATAGATTAAAGTTA
66 AGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGA-ATTGTAGTGGAATAGATTAAAGCTA
*
93037959 CAAATTATAGCTA
130 CAAATTATAGCAA
* *
93037972 ATCTTAT-TTTTCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTG
1 ATCTTATCTTCT-TGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTG
** * * * * * *
93038036 CAATAGGAGCAGCCTGAAGATAGTGGATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTGAAGC
65 C-AGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAA-TTGTAGTGGAATAGATTAAAGC
93038101 TACAA
128 TACAA
93038106 GTTACAACTC
Statistics
Matches: 237, Mismatches: 37, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
142 3 0.01
143 181 0.76
144 53 0.22
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (142 bp):
ATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGC
AGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAATTGTAGTGGAATAGATTAAAGCTAC
AAATTATAGCAA
Found at i:93038885 original size:2 final size:2
Alignment explanation
Indices: 93038878--93038904 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93038868 TATTTGTATG
93038878 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
93038905 TAAAATATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93039495 original size:3 final size:3
Alignment explanation
Indices: 93039487--93039591 Score: 74
Period size: 3 Copynumber: 34.7 Consensus size: 3
93039477 TTTGGCTACT
* *
93039487 TTA TTA TTA -AA TTAA TTAA TT- TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
93039532 TTA TTAA TGTA TTA TTA TTCT TTA TT- TTA -TG TTA ATA TTA TTA TCA
1 TTA TT-A T-TA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
93039578 TTG TTA TTA TTA TT
1 TTA TTA TTA TTA TT
93039592 TTTAAACTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 16
0.73 0.13 0.15
Matches are distributed among these distances:
2 6 0.08
3 60 0.75
4 13 0.16
5 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:93039548 original size:23 final size:21
Alignment explanation
Indices: 93039518--93039591 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 21
93039508 TTATTATTAC
93039518 TATTATTATTATTATTATTAATG
1 TATTATTATTATTATT-TT-ATG
*
93039541 TATTATTATTCTTTATTTTATG
1 TATTATTATT-ATTATTTTATG
* *
93039563 TTAATATTATTATCATTGTTAT-
1 -TATTATTATTATTATT-TTATG
93039585 TATTATT
1 TATTATT
93039592 TTTAAACTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.14
22 7 0.16
23 25 0.58
24 5 0.12
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (21 bp):
TATTATTATTATTATTTTATG
Found at i:93039667 original size:16 final size:16
Alignment explanation
Indices: 93039642--93039678 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
93039632 ACTGTTAGGT
93039642 TCTA-TTATTCTTTTA
1 TCTATTTATTCTTTTA
*
93039657 TTTATTTATTCTTTTA
1 TCTATTTATTCTTTTA
93039673 TCTATT
1 TCTATT
93039679 ATTTTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTATTTATTCTTTTA
Found at i:93042582 original size:327 final size:327
Alignment explanation
Indices: 93041988--93042648 Score: 1295
Period size: 327 Copynumber: 2.0 Consensus size: 327
93041978 TAATCTATTT
93041988 GAAATGTTTCTTTGGACCATACCATCAGTATTTGAGCTGAAGAACACAGTTGATTTCACATAATT
1 GAAATGTTTCTTTGGACCATACCATCAGTATTTGAGCTGAAGAACACAGTTGATTTCACATAATT
93042053 AAGGCATTGCCCTGAGCAACTTTCATATTTTTTTAAAAAAATTGTTCGAAAATTCCTGTACCTTC
66 AAGGCATTGCCCTGAGCAACTTTCATATTTTTTTAAAAAAATTGTTCGAAAATTCCTGTACCTTC
*
93042118 TTTAGAAGCTTTCCCAAAAATAATACAATTGTCAGCAAAAAGGAGATGAGTAATTTGGGGACTTC
131 TTCAGAAGCTTTCCCAAAAATAATACAATTGTCAGCAAAAAGGAGATGAGTAATTTGGGGACTTC
93042183 TTCTGCTAGCTTTAATTCCTCTCAAAATCCCTTCCTCTCTTGCAAGTCTGAATAAGGTAGATAAA
196 TTCTGCTAGCTTTAATTCCTCTCAAAATCCCTTCCTCTCTTGCAAGTCTGAATAAGGTAGATAAA
*
93042248 CCCTCACTACAGATAAGGAATAAAAAAAGTCTCAATAGATCTCCTTGACGCAATCCTCTCGTCAG
261 CCCTCACTACAGATAAGGAATAAAAAAAGTCTCAACAGATCTCCTTGACGCAATCCTCTCGTCAG
93042313 AA
326 AA
*
93042315 GAAATGTTTCTTTGGACCATACCATCAGTATTTGAGCTGAAGAACACAGTTGATTTCGCATAATT
1 GAAATGTTTCTTTGGACCATACCATCAGTATTTGAGCTGAAGAACACAGTTGATTTCACATAATT
93042380 AAGGCATTGCCCTGAGCAACTTTCATATTTTTTTAAAAAAATTGTTCGAAAATTCCTGTACCTTC
66 AAGGCATTGCCCTGAGCAACTTTCATATTTTTTTAAAAAAATTGTTCGAAAATTCCTGTACCTTC
93042445 TTCAGAAGCTTTCCCAAAAATAATACAATTGTCAGCAAAAAGGAGATGAGTAATTTGGGGACTTC
131 TTCAGAAGCTTTCCCAAAAATAATACAATTGTCAGCAAAAAGGAGATGAGTAATTTGGGGACTTC
93042510 TTCTGCTAGCTTTAATTCCTCTCAAAATCCCTTCCTCTCTTGCAAGTCTGAATAAGGTAGATAAA
196 TTCTGCTAGCTTTAATTCCTCTCAAAATCCCTTCCTCTCTTGCAAGTCTGAATAAGGTAGATAAA
93042575 CCCTCACTACAGATAAGGAATAAAAAAAGTCTCAACAGATCTCCTTGACGCAATCCTCTCGTCAG
261 CCCTCACTACAGATAAGGAATAAAAAAAGTCTCAACAGATCTCCTTGACGCAATCCTCTCGTCAG
93042640 AA
326 AA
93042642 GAAATGT
1 GAAATGT
93042649 CTTTCCTATT
Statistics
Matches: 331, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
327 331 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (327 bp):
GAAATGTTTCTTTGGACCATACCATCAGTATTTGAGCTGAAGAACACAGTTGATTTCACATAATT
AAGGCATTGCCCTGAGCAACTTTCATATTTTTTTAAAAAAATTGTTCGAAAATTCCTGTACCTTC
TTCAGAAGCTTTCCCAAAAATAATACAATTGTCAGCAAAAAGGAGATGAGTAATTTGGGGACTTC
TTCTGCTAGCTTTAATTCCTCTCAAAATCCCTTCCTCTCTTGCAAGTCTGAATAAGGTAGATAAA
CCCTCACTACAGATAAGGAATAAAAAAAGTCTCAACAGATCTCCTTGACGCAATCCTCTCGTCAG
AA
Found at i:93053791 original size:2 final size:2
Alignment explanation
Indices: 93053784--93053809 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93053774 TCAATCGTTG
93053784 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
93053810 GAATGTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93063326 original size:29 final size:29
Alignment explanation
Indices: 93063215--93063327 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 29
93063205 TACAAAGTTT
* *
93063215 CATCGAGGTGCAATCAT-AGAATAGAGTGG
1 CATCGAAGTGC-ATTATCAGAATAGAGTGG
* * ****
93063244 CATCGAAGTGCAATATTAGAATAGAACAA
1 CATCGAAGTGCATTATCAGAATAGAGTGG
* *
93063273 CATCGAAGTGCTTTATCAAAATAGAGTGG
1 CATCGAAGTGCATTATCAGAATAGAGTGG
* *
93063302 CATCGAAGTGCATTAACAGATTAGAG
1 CATCGAAGTGCATTATCAGAATAGAG
93063328 AGTGCGTTGA
Statistics
Matches: 64, Mismatches: 19, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
28 3 0.05
29 61 0.95
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (29 bp):
CATCGAAGTGCATTATCAGAATAGAGTGG
Found at i:93076333 original size:32 final size:32
Alignment explanation
Indices: 93076295--93076359 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
93076285 ATAGAGCATT
93076295 ATAAGAACTTTCAGAACATTTTTAGATAATTC
1 ATAAGAACTTTCAGAACATTTTTAGATAATTC
93076327 ATAAGAACTTTCAGAACATTTTTAGATAATTC
1 ATAAGAACTTTCAGAACATTTTTAGATAATTC
93076359 A
1 A
93076360 AACATGTGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (32 bp):
ATAAGAACTTTCAGAACATTTTTAGATAATTC
Found at i:93080773 original size:49 final size:49
Alignment explanation
Indices: 93080652--93080939 Score: 483
Period size: 49 Copynumber: 5.9 Consensus size: 49
93080642 GTATGAGATG
*
93080652 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TA
93080703 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
93080752 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG-GAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
93080800 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
93080847 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
93080896 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
93080940 CATATGTGTG
Statistics
Matches: 226, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
47 43 0.19
48 47 0.21
49 90 0.40
51 46 0.20
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:93080912 original size:144 final size:148
Alignment explanation
Indices: 93080652--93080939 Score: 485
Period size: 144 Copynumber: 2.0 Consensus size: 148
93080642 GTATGAGATG
* *
93080652 TATATATGTGATACGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATATGTGATAA
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAG-GTATATATATATGTGATAA
93080717 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATG
65 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATG
93080782 TGATGAATG-GAAAGTGTA
130 TGATGAATGTGAAAGTGTA
*
93080800 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA-G-A-GTATATATGTGATAAG
1 TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTATATATATATGTGATAAG
* * *
93080862 GCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
66 GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
93080927 GATGAATGTGAAA
131 GATGAATGTGAAA
93080940 CATATGTGTG
Statistics
Matches: 133, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
144 85 0.64
145 5 0.04
146 1 0.01
148 42 0.32
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (148 bp):
TATACATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGGTATATATATATGTGATAAG
GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGT
GATGAATGTGAAAGTGTA
Found at i:93081026 original size:18 final size:18
Alignment explanation
Indices: 93081003--93081038 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
93080993 GTGTGATATG
*
93081003 TATATGTGGTAAAGCCTA
1 TATATGTGATAAAGCCTA
*
93081021 TATATGTGATAAGGCCTA
1 TATATGTGATAAAGCCTA
93081039 ATGGCCGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (18 bp):
TATATGTGATAAAGCCTA
Found at i:93081026 original size:123 final size:123
Alignment explanation
Indices: 93080896--93081141 Score: 456
Period size: 123 Copynumber: 2.0 Consensus size: 123
93080886 TGAAGGTGTA
*
93080896 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACATATGTGTGATATGTATATG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAACATATGTGTGATATGTATATG
*
93080961 TGGTAAAGCCGAATGGCTAAAGTGAAACATATGTGTGATATGTATATGTGGTAAAGCC
66 TGGTAAAGCCAAATGGCTAAAGTGAAACATATGTGTGATATGTATATGTGGTAAAGCC
93081019 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAACATATGTGTGATATGTATATG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAACATATGTGTGATATGTATATG
* *
93081084 TGGTAAAGCCAAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCC
66 TGGTAAAGCCAAATGGCTAAAGTGAAACATATGTGTGATATGTATATGTGGTAAAGCC
93081142 GAAGGGCTAA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 119 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.32
Consensus pattern (123 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAACATATGTGTGATATGTATATG
TGGTAAAGCCAAATGGCTAAAGTGAAACATATGTGTGATATGTATATGTGGTAAAGCC
Found at i:93081042 original size:66 final size:71
Alignment explanation
Indices: 93080955--93081093 Score: 171
Period size: 75 Copynumber: 2.0 Consensus size: 71
93080945 GTGTGATATG
* *
93080955 TATATGTGGTAAAGCCGAATGG-C-T-A-AA-GTGAAACATATGTGTGATATGTATATGTGGTAA
1 TATATGTGATAAAGCCGAATGGCCGTGAGAATATGAAACATATGTGTGATATGTATATGTGGTAA
93081015 AGCCTA
66 AGCCTA
* *
93081021 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAACATATGTGTGATATGTATATGTG
1 TATATGTGATAAAGCCGAATGGCC---GTGA-GAATATGAAACATATGTGTGATATGTATATGTG
93081086 GTAAAGCC
62 GTAAAGCC
93081094 AAATGGCTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
66 19 0.32
67 1 0.02
71 1 0.02
72 1 0.02
74 2 0.03
75 36 0.60
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (71 bp):
TATATGTGATAAAGCCGAATGGCCGTGAGAATATGAAACATATGTGTGATATGTATATGTGGTAA
AGCCTA
Found at i:93081116 original size:48 final size:48
Alignment explanation
Indices: 93081058--93081253 Score: 356
Period size: 48 Copynumber: 4.1 Consensus size: 48
93081048 GTGATGAATA
* *
93081058 TGAAACATATGTGTGATATGTATATGTGGTAAAGCCAAATGGCTAATG
1 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATG
*
93081106 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAAGGGCTAATG
1 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATG
93081154 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATG
1 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATG
*
93081202 TGAAATATATGTGTGATATGTATGTGTGGTAAAGCCGAATGGCTAATG
1 TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATG
93081250 TGAA
1 TGAA
93081254 TGTTGTAACA
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 143 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
TGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATG
Found at i:93081347 original size:37 final size:37
Alignment explanation
Indices: 93081293--93081383 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
93081283 AACTTGGAAA
*
93081293 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
93081331 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
93081368 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
93081384 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:93086080 original size:35 final size:34
Alignment explanation
Indices: 93086041--93086117 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
93086031 GAAGAGGATG
* *
93086041 AGGAAAAAGAA-TAAAAAA-AAATGAAGAAAGAATTA
1 AGGAAAAAAAAGTAAAAAAGAAAT-AA-AAAGAA-AA
93086076 AGGAAAGAAAAAGTAAAAAAGAAATAAAAAGAAAA
1 AGGAAA-AAAAAGTAAAAAAGAAATAAAAAGAAAA
93086111 AGGAAAA
1 AGGAAAA
93086118 TATGTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
34 1 0.03
35 13 0.35
36 10 0.27
37 9 0.24
38 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (34 bp):
AGGAAAAAAAAGTAAAAAAGAAATAAAAAGAAAA
Found at i:93086119 original size:18 final size:18
Alignment explanation
Indices: 93086078--93086116 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
93086068 AAGAATTAAG
*
93086078 GAAAGAAAAAGTAAAAAA
1 GAAATAAAAAGTAAAAAA
*
93086096 GAAATAAAAAG-AAAAAG
1 GAAATAAAAAGTAAAAAA
93086113 GAAA
1 GAAA
93086117 ATATGTGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (18 bp):
GAAATAAAAAGTAAAAAA
Found at i:93089391 original size:17 final size:17
Alignment explanation
Indices: 93089369--93089402 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93089359 CACTAAACCA
*
93089369 GTAAGTTATTGAAAACT
1 GTAAGTTATTAAAAACT
93089386 GTAAGTTATTAAAAACT
1 GTAAGTTATTAAAAACT
93089403 AAGACATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (17 bp):
GTAAGTTATTAAAAACT
Found at i:93092223 original size:26 final size:26
Alignment explanation
Indices: 93092187--93092270 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
93092177 TGATACAAAT
93092187 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
93092213 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
93092239 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
93092265 TGATAA
1 TGATAA
93092271 GAATATCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
26 53 0.95
27 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:93093787 original size:26 final size:26
Alignment explanation
Indices: 93093736--93093809 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
93093726 CTATGTATGG
* *
93093736 AAAATTACTGTTATA-CCCTAAGTGC
1 AAAATTACCGTTATACCCCTAGGTGC
93093761 AAAATTACCGTTATACCCCTAGGTGC
1 AAAATTACCGTTATACCCCTAGGTGC
93093787 AAAATTACCGTTATACCCCTAGG
1 AAAATTACCGTTATACCCCTAGG
93093810 GTTAATTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 14 0.30
26 32 0.70
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (26 bp):
AAAATTACCGTTATACCCCTAGGTGC
Found at i:93093953 original size:27 final size:27
Alignment explanation
Indices: 93093912--93094038 Score: 164
Period size: 27 Copynumber: 4.7 Consensus size: 27
93093902 GAGGAAGCGT
*
93093912 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
93093939 TCTGGTGGCTCTGCCACAAATATCTAA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
93093966 TTTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
93093993 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* *
93094021 TCTGGTGACTCTGTCACA
1 TCTGGTGGCTCTGCCACA
93094039 TTATTTGTTC
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 70 0.82
28 15 0.18
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:93101927 original size:31 final size:31
Alignment explanation
Indices: 93101879--93101971 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
93101869 AATGAATTTA
* *
93101879 ATATTAAATTTAGTTTAATATTTATCTAGAT
1 ATATTAAATTAACTTTAATATTTATCTAGAT
** * * * *
93101910 AGTATTTTATTCA-TTTAATATTAATAT-GAG
1 A-TATTAAATTAACTTTAATATTTATCTAGAT
93101940 ATATTAAATTAACTTTAATATTTATCTAGAT
1 ATATTAAATTAACTTTAATATTTATCTAGAT
93101971 A
1 A
93101972 ATGTCGAAAC
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
29 8 0.17
30 15 0.32
31 16 0.34
32 8 0.17
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.49
Consensus pattern (31 bp):
ATATTAAATTAACTTTAATATTTATCTAGAT
Found at i:93103127 original size:26 final size:27
Alignment explanation
Indices: 93103098--93103152 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
93103088 AATTTTAAAT
* * *
93103098 TACATAGTTTATGA-ATAATAACATAA
1 TACATAATTTATGATAAAATAAAATAA
93103124 TACATAATTTATGATAAAATAAAATAA
1 TACATAATTTATGATAAAATAAAATAA
93103151 TA
1 TA
93103153 TATGGAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (27 bp):
TACATAATTTATGATAAAATAAAATAA
Found at i:93103190 original size:12 final size:12
Alignment explanation
Indices: 93103175--93103199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93103165 TATAAAAATG
93103175 TATAATATATAA
1 TATAATATATAA
93103187 TATAATATATAA
1 TATAATATATAA
93103199 T
1 T
93103200 GGTATATAAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATAATATATAA
Found at i:93103220 original size:12 final size:11
Alignment explanation
Indices: 93103145--93103228 Score: 58
Period size: 10 Copynumber: 8.3 Consensus size: 11
93103135 TGATAAAATA
93103145 AAATAATATAT
1 AAATAATATAT
*
93103156 GGAATAATATAT
1 -AAATAATATAT
*
93103168 AAA-AATGTAT
1 AAATAATATAT
93103178 -AAT-ATATA-
1 AAATAATATAT
*
93103186 ATATAATATAT
1 AAATAATATAT
**
93103197 -AATGGTATAT
1 AAATAATATAT
93103207 -AAT-A-ATAT
1 AAATAATATAT
93103215 AAATAATATAT
1 AAATAATATAT
93103226 AAA
1 AAA
93103229 GAAAAATAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
8 4 0.07
9 11 0.20
10 22 0.39
11 9 0.16
12 10 0.18
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (11 bp):
AAATAATATAT
Found at i:93103237 original size:29 final size:28
Alignment explanation
Indices: 93103144--93103243 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 28
93103134 ATGATAAAAT
*
93103144 AAAATAATATATGGAATAATATATAAA-A
1 AAAATAATATAT-AAATAATATATAAAGA
** * *
93103172 ATGTATAATATATAATATAATATATAATGG
1 A-AAATAATATATAA-ATAATATATAAAGA
* *
93103202 TATATAATAATATAAATAATATATAAAGA
1 AAAATAAT-ATATAAATAATATATAAAGA
93103231 AAAATAATATATA
1 AAAATAATATATA
93103244 CTATTTTACA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
28 7 0.12
29 44 0.77
30 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (28 bp):
AAAATAATATATAAATAATATATAAAGA
Found at i:93104813 original size:44 final size:44
Alignment explanation
Indices: 93104765--93105214 Score: 613
Period size: 44 Copynumber: 10.2 Consensus size: 44
93104755 CAAATGTCAG
93104765 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
* *
93104809 ATCTGCTATCTTCTATCTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
* * * *
93104853 ATCCGCTATCTTCAATCTACTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
* *
93104897 ATCTGCTACCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
* *
93104941 ATCTG-TCATCTTCGATCTGCTCTCTTTCAATACAGAGAAGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
*
93104985 ATCTG-TCAT-TTCTGATCTGCTCTCTATCAATACAGAGATGCCAA
1 ATCTGCT-ATCTTC-GATCTGCTCTCTGTCAATACAGAGATGCCAA
* * *
93105029 ATCTG-TCATCTTTGATCTGCTCTCTATCAATACAGAGACGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
**
93105073 ATCTG-TCATCTTCGATCTGCTCTCAATCAATACAGAGATGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
* * *
93105117 ATCTGTTATCTTCGATCTGCTCTCTATCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
* * * *
93105161 ACCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
93105205 ATCTGCTATC
1 ATCTGCTATC
93105215 GGTGATCTAT
Statistics
Matches: 375, Mismatches: 27, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
43 4 0.01
44 368 0.98
45 3 0.01
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAA
Found at i:93117291 original size:21 final size:20
Alignment explanation
Indices: 93117192--93117293 Score: 68
Period size: 21 Copynumber: 5.0 Consensus size: 20
93117182 AAAATAATAC
* * *
93117192 ATAATTTATGATAAAATAAAA
1 ATAATATAT-ATAATATATAA
93117213 ATAATATATGGAATAATATAT-A
1 ATAATATAT---ATAATATATAA
*
93117235 A-AA-ATGTATAATATATAA
1 ATAATATATATAATATATAA
**
93117253 TATAATATATATGGTATAT-A
1 -ATAATATATATAATATATAA
*
93117273 ATAATATAAATAATATATAA
1 ATAATATATATAATATATAA
93117293 A
1 A
93117294 GAAAAATAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
17 9 0.14
18 1 0.02
19 16 0.25
20 8 0.13
21 20 0.32
22 2 0.03
23 7 0.11
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (20 bp):
ATAATATATATAATATATAA
Found at i:93128331 original size:19 final size:19
Alignment explanation
Indices: 93128307--93128345 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
93128297 CGAAATAGTG
93128307 TCTGAAGGTGTTGTTTTGA
1 TCTGAAGGTGTTGTTTTGA
93128326 TCTGAAGGTGTTGTTTTGA
1 TCTGAAGGTGTTGTTTTGA
93128345 T
1 T
93128346 GGGAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.31, T:0.49
Consensus pattern (19 bp):
TCTGAAGGTGTTGTTTTGA
Found at i:93132266 original size:24 final size:22
Alignment explanation
Indices: 93132239--93132282 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
93132229 TATTTTTTAA
93132239 AAATAATGAATGTAAAAATAATAT
1 AAATAATGAAT-T-AAAATAATAT
93132263 AAATAATGAATTAAAATAAT
1 AAATAATGAATTAAAATAAT
93132283 GAAATGTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 1 0.05
24 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
AAATAATGAATTAAAATAATAT
Found at i:93132281 original size:13 final size:13
Alignment explanation
Indices: 93132238--93132285 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
93132228 ATATTTTTTA
93132238 AAAATAATGAATGT
1 AAAATAATGAAT-T
93132252 -AAA-AAT-AA-T
1 AAAATAATGAATT
93132261 ATAAATAATGAATT
1 A-AAATAATGAATT
93132275 AAAATAATGAA
1 AAAATAATGAA
93132286 ATGTGTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
9 1 0.03
11 5 0.17
12 6 0.21
13 15 0.52
14 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (13 bp):
AAAATAATGAATT
Found at i:93134917 original size:9 final size:9
Alignment explanation
Indices: 93134903--93134929 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
93134893 TGGAGACCGG
93134903 ATTCAAGGA
1 ATTCAAGGA
93134912 ATTCAAGGA
1 ATTCAAGGA
93134921 ATTCAAGGA
1 ATTCAAGGA
93134930 TGATTTCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (9 bp):
ATTCAAGGA
Found at i:93137752 original size:8 final size:8
Alignment explanation
Indices: 93137712--93137751 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
93137702 TTTTATGTTT
93137712 ATGTTAAA
1 ATGTTAAA
93137720 ATGTTAAA
1 ATGTTAAA
93137728 ATGTTAAA
1 ATGTTAAA
**
93137736 ATAATAAA
1 ATGTTAAA
93137744 A-GTTAAA
1 ATGTTAAA
93137751 A
1 A
93137752 ATATAAGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (8 bp):
ATGTTAAA
Found at i:93137879 original size:27 final size:27
Alignment explanation
Indices: 93137849--93137901 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
93137839 TTAAACTTGC
93137849 ATCGAAGTCTATTTTCACTCGTTTTTA
1 ATCGAAGTCTATTTTCACTCGTTTTTA
93137876 ATCGAAGTCTATTTTCACTCGTTTTT
1 ATCGAAGTCTATTTTCACTCGTTTTT
93137902 CATGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (27 bp):
ATCGAAGTCTATTTTCACTCGTTTTTA
Found at i:93140673 original size:75 final size:75
Alignment explanation
Indices: 93140554--93140725 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
93140544 CATGGCAAAG
** *
93140554 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATC
*
93140614 CATACTGAGC
66 CATACCGAGC
*
93140624 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTTC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATC
*
93140689 CATACCGAGT
66 CATACCGAGC
***
93140699 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
93140726 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
75 47 0.54
76 18 0.21
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTATC
CATACCGAGC
Found at i:93140691 original size:35 final size:35
Alignment explanation
Indices: 93140557--93140722 Score: 179
Period size: 35 Copynumber: 4.6 Consensus size: 35
93140547 GGCAAAGTGT
** **
93140557 GAAATGTAGGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTTTCCATACTGAGTTAA
* * **
93140592 GAAATGTAGGTATGGTATTATCCATACTGAGCTGT
1 GAAATGTAGGTATGGTATTTTCCATACTGAGTTAA
93140627 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-T----TCCATACTGAGTTAA
* *
93140667 GAAATGTAGGTATGGCATTTTCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTTCCATACTGAGTT-AA
*
93140703 AAAATGTAGGTATGGTATTT
1 GAAATGTAGGTATGGTATTT
93140723 CAATGAGGAA
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
35 64 0.56
36 20 0.17
39 1 0.01
40 30 0.26
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTTCCATACTGAGTTAA
Found at i:93144986 original size:33 final size:33
Alignment explanation
Indices: 93144944--93145015 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
93144934 CACTTTTTTA
93144944 TTAG-AAGATAAATTATTATTTTAGATGATTTG
1 TTAGAAAGATAAATTATTATTTTAGATGATTTG
93144976 TTAGAAAGATAAATTATTATTTTAGATGATTTG
1 TTAGAAAGATAAATTATTATTTTAGATGATTTG
93145009 TTAGAAA
1 TTAGAAA
93145016 ATACTTACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.44
Consensus pattern (33 bp):
TTAGAAAGATAAATTATTATTTTAGATGATTTG
Found at i:93145861 original size:27 final size:27
Alignment explanation
Indices: 93145810--93145861 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
93145800 GTTAATTAAA
*
93145810 TTCTCTTTGAGTTTTCTTTTTAAGAAT
1 TTCTCTTTGAGTTTTCTTTTGAAGAAT
93145837 TTCTC-TTGAGTTTTCTTTTAGAAGA
1 TTCTCTTTGAGTTTTCTTTT-GAAGA
93145862 GTTTTAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.19, C:0.12, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTCTTTGAGTTTTCTTTTGAAGAAT
Found at i:93147064 original size:17 final size:16
Alignment explanation
Indices: 93147038--93147109 Score: 65
Period size: 17 Copynumber: 4.4 Consensus size: 16
93147028 TTCTCATGCG
93147038 ATGTATCTTCAAGTAC
1 ATGTATCTTCAAGTAC
*
93147054 ATGTATCCTTCAAGTTC
1 ATGTAT-CTTCAAGTAC
* * * *
93147071 ATGAATCCTCCTA-TGC
1 ATGTAT-CTTCAAGTAC
93147087 AATGTATCTTCAAGTAC
1 -ATGTATCTTCAAGTAC
93147104 ATGTAT
1 ATGTAT
93147110 GATAATTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
16 18 0.41
17 26 0.59
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (16 bp):
ATGTATCTTCAAGTAC
Found at i:93149723 original size:18 final size:17
Alignment explanation
Indices: 93149697--93149736 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
93149687 CAGTCAAATG
*
93149697 AAAAAAAAACATTGAAA
1 AAAAAAAAACACTGAAA
*
93149714 AAAAAGAAAAGACTGAAA
1 AAAAA-AAAACACTGAAA
93149732 AAAAA
1 AAAAA
93149737 TTAAAAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (17 bp):
AAAAAAAAACACTGAAA
Found at i:93151072 original size:42 final size:42
Alignment explanation
Indices: 93150965--93151087 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
93150955 ATATGTGTTA
* *
93150965 TCGTGTAAGACCAC-GTTTGGGACGTTGGCATCGATTTGAGATT
1 TCGTGTAAGACC-CTGTTTGGGACATTGGCATCGATAT-AGATT
* *
93151008 TAAGTGTAAGACCATGTTTGGGACATTGGCATCG-TATATGATT
1 T-CGTGTAAGACCCTGTTTGGGACATTGGCATCGATATA-GATT
* * *
93151051 TCGTGTAAGACCCTGTCTGGGACAGTGGCATTGATAT
1 TCGTGTAAGACCCTGTTTGGGACATTGGCATCGATAT
93151088 TTGATTACAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 28 0.42
43 11 0.16
44 28 0.42
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCCTGTTTGGGACATTGGCATCGATATAGATT
Found at i:93151113 original size:43 final size:42
Alignment explanation
Indices: 93151012--93151128 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 42
93151002 GAGATTTAAG
* * * * * *
93151012 TGTAAGACCATGTTTGGGACATTGGCATCGTATATGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATTGTATATGATTACA
*
93151054 TGTAAGACC-CTGTCTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATTG-TATATGATTACA
* *
93151097 TGTAGGACCACGTCTGGAAC-GTTGGCATTGTA
1 TGTAAGACCACGTCTGGGACAG-TGGCATTGTA
93151129 CGATCTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
42 28 0.45
43 33 0.53
44 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATTGTATATGATTACA
Found at i:93151469 original size:24 final size:23
Alignment explanation
Indices: 93151442--93151488 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
93151432 CTAATTTGGC
93151442 TATATGAAAATGTGAATTAAATAA
1 TATATGAAAAT-TGAATTAAATAA
* *
93151466 TATATGAGAATTGAATTGAATAA
1 TATATGAAAATTGAATTAAATAA
93151489 GCTTGTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (23 bp):
TATATGAAAATTGAATTAAATAA
Found at i:93155755 original size:5 final size:5
Alignment explanation
Indices: 93155745--93155901 Score: 82
Period size: 5 Copynumber: 31.0 Consensus size: 5
93155735 TTTATGTGTG
* *
93155745 TATGT TATGTT TACTAT TATTT TATG- TATGT TATG- TACTGT TATG-
1 TATGT TATG-T TA-TGT TATGT TATGT TATGT TATGT TA-TGT TATGT
* *
93155790 CATG- TATGT TATGTT TAATGT TATGT T-TGT ATATTT GTATGT TATGT
1 TATGT TATGT TATG-T T-ATGT TATGT TATGT -TATGT -TATGT TATGT
*
93155837 TATG- TATTGT TCTG- TATG- TATGT TATGTT TACTGT TATGT T-TGT
1 TATGT TA-TGT TATGT TATGT TATGT TATG-T TA-TGT TATGT TATGT
*
93155881 ATATTT GTATG- TATGT TATGT
1 -TATGT -TATGT TATGT TATGT
93155902 ACTATTATGT
Statistics
Matches: 121, Mismatches: 13, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
4 31 0.26
5 54 0.45
6 30 0.25
7 6 0.05
ACGTcount: A:0.20, C:0.03, G:0.18, T:0.58
Consensus pattern (5 bp):
TATGT
Found at i:93155788 original size:10 final size:9
Alignment explanation
Indices: 93155743--93155925 Score: 96
Period size: 9 Copynumber: 19.9 Consensus size: 9
93155733 TGTTTATGTG
93155743 TGTATGTTA
1 TGTATGTTA
* **
93155752 TGTTTACTA
1 TGTATGTTA
*
93155761 T-TATTTTA
1 TGTATGTTA
93155769 TGTATGTTA
1 TGTATGTTA
93155778 TGTACTGTTA
1 TGTA-TGTTA
*
93155788 TGCATG-TA
1 TGTATGTTA
93155796 TGTTATGTTTAA
1 TG-TATG-TT-A
93155808 TGTTATGTT-
1 TG-TATGTTA
*
93155817 TGTATATT-
1 TGTATGTTA
93155825 TGTATGTTA
1 TGTATGTTA
93155834 TGTTATG-TA
1 TG-TATGTTA
*
93155843 TTGT-TCTGTA
1 -TGTATGT-TA
93155853 TGTATGTTA
1 TGTATGTTA
93155862 TGTTTACTGTTA
1 TG--TA-TGTTA
*
93155874 TGTTTGTATA
1 TGTATGT-TA
93155884 T-T-TG-TA
1 TGTATGTTA
93155890 TGTATGTTA
1 TGTATGTTA
*
93155899 TGTACTATTA
1 TGTA-TGTTA
*
93155909 TGTATATTA
1 TGTATGTTA
93155918 TGTATGTT
1 TGTATGTT
93155926 TGTCATGTGT
Statistics
Matches: 138, Mismatches: 16, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
6 3 0.02
7 1 0.01
8 26 0.19
9 58 0.42
10 30 0.22
11 5 0.04
12 15 0.11
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.57
Consensus pattern (9 bp):
TGTATGTTA
Found at i:93155797 original size:49 final size:48
Alignment explanation
Indices: 93155713--93155928 Score: 145
Period size: 49 Copynumber: 4.3 Consensus size: 48
93155703 AATGTATGTC
* ** *
93155713 TGTTATGTATGTTTCTTTACTGTTTATGTGTGTATGTTATGTTTACTATTA
1 TGTTATGTATG-TT-TGTACTG-TTATGCATGTATGTTATGTTTAATATTA
* *
93155764 TTTTATGTATGTTATGTACTGTTATGCATGTATGTTATGTTTAATGTTA
1 TGTTATGTATGTT-TGTACTGTTATGCATGTATGTTATGTTTAATATTA
* * * *
93155813 TGTT-TGTATATTTGTA-TGTTATGTTATGTATTGTTCTGTATGT-ATGTTA
1 TGTTATGTATGTTTGTACTGTTATG-CATGTA-TGTTATGT-T-TAATATTA
* * * *
93155862 TGTTTACTGTTATGTTTGTA-TATT-TGTATGTATGTTATGTACTATTATGTA
1 TG-TTA-TG-TATGTTTGTACTGTTATGCATGTATGTTATGT-TTAATAT-TA
*
93155913 TATTATGTATGTTTGT
1 TGTTATGTATGTTTGT
93155929 CATGTGTTAT
Statistics
Matches: 137, Mismatches: 18, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
46 7 0.05
47 9 0.07
48 23 0.17
49 39 0.28
50 24 0.18
51 19 0.14
52 4 0.03
53 12 0.09
ACGTcount: A:0.20, C:0.04, G:0.19, T:0.58
Consensus pattern (48 bp):
TGTTATGTATGTTTGTACTGTTATGCATGTATGTTATGTTTAATATTA
Found at i:93155830 original size:28 final size:28
Alignment explanation
Indices: 93155799--93155892 Score: 93
Period size: 26 Copynumber: 3.2 Consensus size: 28
93155789 GCATGTATGT
93155799 TATGTTTAATGTTATGTTTGTATATTTG
1 TATGTTTAATGTTATGTTTGTATATTTG
*
93155827 TATG-TT-ATGTTATGTATTGTTCTGTATGTATG
1 TATGTTTAATGTTATGT-TTG---TATAT-T-TG
*
93155859 TTATGTTTACTGTTATGTTTGTATATTTG
1 -TATGTTTAATGTTATGTTTGTATATTTG
93155888 TATGT
1 TATGT
93155893 ATGTTATGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
26 9 0.17
27 5 0.09
28 9 0.17
29 2 0.04
30 5 0.09
31 5 0.09
32 2 0.04
33 4 0.07
34 5 0.09
35 8 0.15
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.60
Consensus pattern (28 bp):
TATGTTTAATGTTATGTTTGTATATTTG
Found at i:93155920 original size:61 final size:60
Alignment explanation
Indices: 93155746--93155926 Score: 249
Period size: 61 Copynumber: 3.0 Consensus size: 60
93155736 TTATGTGTGT
* *
93155746 ATGTTATGTTTACTATTATTT-TATGTATGTTATGTACTGTTATGCATGTATGTTATGTTTA
1 ATGTTATGTTT-GTA-TATTTGTATGTATGTTATGTACTGTTATGTATGTATGTTATGTTTA
* *
93155807 ATGTTATGTTTGTATATTTGTATGTTATGTTATGTATTGTTCTGTATGTATGTTATGTTTA
1 ATGTTATGTTTGTATATTTGTATG-TATGTTATGTACTGTTATGTATGTATGTTATGTTTA
* * *
93155868 CTGTTATGTTTGTATATTTGTATGTATGTTATGTACTATTATGTATATTATG-TATGTTT
1 ATGTTATGTTTGTATATTTGTATGTATGTTATGTACTGTTATGTAT-GTATGTTATGTTT
93155927 GTCATGTGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
59 5 0.05
60 32 0.30
61 71 0.66
ACGTcount: A:0.22, C:0.03, G:0.18, T:0.57
Consensus pattern (60 bp):
ATGTTATGTTTGTATATTTGTATGTATGTTATGTACTGTTATGTATGTATGTTATGTTTA
Found at i:93162442 original size:19 final size:18
Alignment explanation
Indices: 93162418--93162460 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
93162408 ATAAATTTCG
93162418 GAATTTGTATAAA-TATTTT
1 GAATTT-TA-AAACTATTTT
93162437 GAATTTTAAAACTTATTTT
1 GAATTTTAAAAC-TATTTT
93162456 GAATT
1 GAATT
93162461 ATTTTGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 2 0.09
19 17 0.77
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (18 bp):
GAATTTTAAAACTATTTT
Found at i:93162635 original size:14 final size:14
Alignment explanation
Indices: 93162616--93162645 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
93162606 TGACTCGAAT
93162616 AATTCGAATAACTC
1 AATTCGAATAACTC
*
93162630 AATTCGATTAACTC
1 AATTCGAATAACTC
93162644 AA
1 AA
93162646 AAATCGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (14 bp):
AATTCGAATAACTC
Found at i:93162667 original size:22 final size:21
Alignment explanation
Indices: 93162637--93162677 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
93162627 CTCAATTCGA
93162637 TTAACTCAAAAATCGATTTTTTT
1 TTAACTC--AAATCGATTTTTTT
93162660 TTAA-TCAAATCGATTTTT
1 TTAACTCAAATCGATTTTT
93162678 ACTCACTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
22 2 0.11
23 4 0.22
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (21 bp):
TTAACTCAAATCGATTTTTTT
Found at i:93163015 original size:3 final size:3
Alignment explanation
Indices: 93163007--93163042 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
93162997 ACTAAAAACC
93163007 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
93163043 GAGCCCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:93163351 original size:8 final size:9
Alignment explanation
Indices: 93163331--93163365 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
93163321 AAAATAACTC
93163331 AAAATTATA
1 AAAATTATA
93163340 AAAATTATAA
1 AAAATTAT-A
93163350 AAATATTATA
1 AAA-ATTATA
93163360 AAAATT
1 AAAATT
93163366 CAAAAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 11 0.46
10 8 0.33
11 5 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:93164966 original size:43 final size:43
Alignment explanation
Indices: 93164912--93165055 Score: 236
Period size: 43 Copynumber: 3.3 Consensus size: 43
93164902 TTTATTAGAA
* **
93164912 AAAAACGCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTTGTGGTG
1 AAAAGCGCCGCTAAAGGTCAAGCCTTTTAGCGGCGTTTGTGG-G
93164956 -AAAGCGCCGCTAAAGGTCAAGCCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGCCTTTTAGCGGCGTTTGTGGG
*
93164998 AAAAGCGCCACTAAAGGTCAAGCCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGCCTTTTAGCGGCGTTTGTGGG
93165041 AAAAGCGCCGCTAAA
1 AAAAGCGCCGCTAAA
93165056 TTTGGCAGAT
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.01
43 93 0.99
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGCCTTTTAGCGGCGTTTGTGGG
Found at i:93165142 original size:31 final size:31
Alignment explanation
Indices: 93165107--93165189 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
93165097 CTTCCTGCAT
* *
93165107 TAAAAT-CTAACCAAATACAACAAATATAATA
1 TAAAATGC-AACCAAAAACAACAAATATAACA
* *
93165138 TAAAATGCAACCAAAAACAGCAAATTTAACA
1 TAAAATGCAACCAAAAACAACAAATATAACA
*
93165169 TAAAAAATACAACCAAAAACA
1 T--AAAATGCAACCAAAAACA
93165190 TTAATTCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
31 26 0.59
32 1 0.02
33 17 0.39
ACGTcount: A:0.63, C:0.18, G:0.02, T:0.17
Consensus pattern (31 bp):
TAAAATGCAACCAAAAACAACAAATATAACA
Found at i:93166914 original size:20 final size:20
Alignment explanation
Indices: 93166889--93166928 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
93166879 GATCTTGCAG
*
93166889 GGGATCATATAAGCATCAAA
1 GGGATCACATAAGCATCAAA
93166909 GGGATCACATAAGCATCAAA
1 GGGATCACATAAGCATCAAA
93166929 TCAGCCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (20 bp):
GGGATCACATAAGCATCAAA
Found at i:93168804 original size:15 final size:15
Alignment explanation
Indices: 93168784--93168815 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
93168774 AAATAATAAT
*
93168784 TTATATATATTTATC
1 TTATATACATTTATC
93168799 TTATATACATTTATC
1 TTATATACATTTATC
93168814 TT
1 TT
93168816 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:93169277 original size:18 final size:18
Alignment explanation
Indices: 93169254--93169303 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
93169244 TTACACCCTA
93169254 AATATATATTATAA-TCTT
1 AATATATATTATAAGT-TT
*
93169272 AATATATATTAGAAGTTT
1 AATATATATTATAAGTTT
93169290 AATATATATATATA
1 AATATATAT-TATA
93169304 TAACAAGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (18 bp):
AATATATATTATAAGTTT
Found at i:93169704 original size:40 final size:40
Alignment explanation
Indices: 93169645--93169736 Score: 141
Period size: 40 Copynumber: 2.3 Consensus size: 40
93169635 CCTCGACCTA
93169645 TAGCGGCGTTTTGGCCAAAAACGCCGCTATTGCTCAG-TTT
1 TAGCGGCG-TTTGGCCAAAAACGCCGCTATTGCTCAGTTTT
* *
93169685 TAGCGGCGTTTGGATCAAAAACGCCGCTATTGCTCTGTTTT
1 TAGCGGCGTTTGG-CCAAAAACGCCGCTATTGCTCAGTTTT
93169726 TAGCGGCGTTT
1 TAGCGGCGTTT
93169737 TATTGAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
39 5 0.10
40 29 0.60
41 14 0.29
ACGTcount: A:0.18, C:0.23, G:0.26, T:0.33
Consensus pattern (40 bp):
TAGCGGCGTTTGGCCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:93170946 original size:2 final size:2
Alignment explanation
Indices: 93170935--93170971 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
93170925 AATACAAAAA
*
93170935 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93170972 ATCTAGATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:93171180 original size:22 final size:22
Alignment explanation
Indices: 93171122--93171181 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
93171112 AATTTAATTT
*
93171122 TTAACATTTGTATTTTTTGTTAAA
1 TTAA-ATTTG-ATTTTTTCTTAAA
** * *
93171146 TTAGTTTTTATTTTTTCTTTAA
1 TTAAATTTGATTTTTTCTTAAA
93171168 TTAAATTTGATTTT
1 TTAAATTTGATTTT
93171182 AACCATTCAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
22 22 0.79
23 3 0.11
24 3 0.11
ACGTcount: A:0.25, C:0.03, G:0.07, T:0.65
Consensus pattern (22 bp):
TTAAATTTGATTTTTTCTTAAA
Found at i:93183162 original size:2 final size:2
Alignment explanation
Indices: 93183157--93183197 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
93183147 TAAATACTAT
* *
93183157 TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93183198 TAAATACCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:93183838 original size:75 final size:75
Alignment explanation
Indices: 93183715--93183856 Score: 284
Period size: 75 Copynumber: 1.9 Consensus size: 75
93183705 TCGATTTAAT
93183715 ATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCGTCGGCTTGTGTTAAAAAACGGGACA
1 ATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCGTCGGCTTGTGTTAAAAAACGGGACA
93183780 CCCTTTCTAA
66 CCCTTTCTAA
93183790 ATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCGTCGGCTTGTGTTAAAAAACGGGACA
1 ATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCGTCGGCTTGTGTTAAAAAACGGGACA
93183855 CC
66 CC
93183857 TAAAAAATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (75 bp):
ATTAAGCCATCGATTTCATCGCTATGTTGGGTGAAATTCGTCGGCTTGTGTTAAAAAACGGGACA
CCCTTTCTAA
Found at i:93185231 original size:12 final size:12
Alignment explanation
Indices: 93185214--93185249 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
93185204 ATTCATTTGA
93185214 CATTCATGCATT
1 CATTCATGCATT
*
93185226 CATTCATGCATC
1 CATTCATGCATT
*
93185238 CATTCATTCATT
1 CATTCATGCATT
93185250 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:93185243 original size:16 final size:17
Alignment explanation
Indices: 93185222--93185253 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
93185212 GACATTCATG
93185222 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
93185238 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
93185254 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:93193441 original size:75 final size:74
Alignment explanation
Indices: 93193263--93193554 Score: 345
Period size: 72 Copynumber: 3.9 Consensus size: 74
93193253 TTTTTAAGGG
*
93193263 AAATCAATTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
93193328 TTTTC--AA
66 TTTTCAAAA
* * * * * *
93193335 AATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAAAACACGTTGAGGTATTTTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
93193400 TCTTTCAAAA
66 T-TTTCAAAA
* * * * *
93193410 AAATCAACTCATACTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
*
93193475 TTGTCAAAA
66 TTTTCAAAA
* * * ** * ** *
93193484 AAATCAACTCGTAGTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAG--ACACGTTGAGGTAATTTCAATTTC
93193549 TGTTTT
64 TGTTTT
93193555 TCAATTTCTG
Statistics
Matches: 188, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
72 59 0.31
73 4 0.02
74 41 0.22
75 57 0.30
76 27 0.14
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (74 bp):
AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG
TTTTCAAAA
Found at i:93193557 original size:14 final size:14
Alignment explanation
Indices: 93193538--93193564 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93193528 CGCCGAGGTA
93193538 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
93193552 TTTTCAATTTCTG
1 TTTTCAATTTCTG
93193565 CCTTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:93193633 original size:93 final size:93
Alignment explanation
Indices: 93193480--93193650 Score: 236
Period size: 93 Copynumber: 1.8 Consensus size: 93
93193470 TTCTGTTGTC
* * * *
93193480 AAAAAAATCAACTCGTAGTGTGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACGCATAGTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
*
93193545 TTTCTGTTTTTCAATTTCTGCCTTTAAA
66 TTTCTGTCTTTCAATTTCTGCCTTTAAA
* * * * *
93193573 AAAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACGCATAGTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCA
93193637 ATTTCTGTCTTTCA
65 ATTTCTGTCTTTCA
93193651 GAAAAATCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
92 2 0.03
93 65 0.97
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (93 bp):
AAAAAAATCAACGCATAGTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAA
TTTCTGTCTTTCAATTTCTGCCTTTAAA
Found at i:93193757 original size:78 final size:75
Alignment explanation
Indices: 93193574--93194629 Score: 271
Period size: 77 Copynumber: 13.5 Consensus size: 75
93193564 GCCTTTAAAA
* * * * *
93193574 AAAAAATCAACGCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAAT
* *
93193639 TTCTGTCTTTC
65 TTATATCTTTC
*
93193650 AGAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCAGATCACACACTGAAG-TATTTTTT
1 A-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATCACACACTG-AGCTA---TTT
*
93193714 TCAATTTATATTTTTC
60 TCAATTTATATCTTTC
* * *
93193730 -AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTT-GAGTCACATA-TCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGA-TCACACACT-GAGCTATTTTC-
**
93193792 AAATCTACTTTTCAAGTTAAGTTTC
62 --A---A--TTT--A--TATCTTTC
* * * * * *
93193817 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTTGGCTCACGCGCTGAGCTAATTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC-TTAGATCACACACTGAGCTATTTTCAAT
* *
93193881 TTCTAT-TGTC
65 TTATATCTTTC
* * * * * * *
93193891 AAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAA
** *
93193956 TTTCCATTTTTC
64 TTTATATCTTTC
**** *** * * * * * * * ** * *
93193968 AATTTCTGCCTTTAAAAAAAATCGACTCATATTGCGAGAGGTGAG-TTGAGCCTTGGCTCAC-GC
1 AAAAAAT--C---AACTCATATTG-C-GAGA--G-GTGAGTTGAGCTT-AG--ATCACACACTGA
** *
93194031 GCTGA-GCT-AATTTCAATTTCTGTTTTC
53 GCT-ATTTTCAATTT--ATATC---TTTC
* * ** * * *
93194058 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGACACGCTGAGGTAATTTCAA--
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCACACACTGAGCTATTTTCAATT
* *
93194119 TCTGT-TTTC
66 TATATCTTTC
* ** * * * * * *
93194128 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCA-A-GACACATTGAGGTAATTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTAGATCACACACTGAGCTATTTTCAAT
* *
93194190 TTCTGT-TTTC
65 TTATATCTTTC
* ** * * ** *
93194200 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAAT
* *
93194262 TTCTGT-TTTC
65 TTATATCTTTC
* ** * ** *
93194272 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAAT
* *
93194337 TTCTGTCTTTC
65 TTATATCTTTC
*
93194348 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATCACACACTGAGCTA-------
*
93194413 TTACTTCAATTTATATTTTTC
57 TT--TTCAATTTATATCTTTC
* *
93194434 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GAGTCACATA-TCGAGTTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGA-TCACACACT-GAGCTATTTTC-
**
93194496 AAATCTGCTTTTCAAGTTAAGTTTC
62 -AA------TTT--A--TATCTTTC
* * * *
93194521 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACATTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAAT
* * *
93194583 TTCTGTGTTTC
65 TTATATCTTTC
*
93194594 AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGA
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
93194630 ACCTCAAGAC
Statistics
Matches: 756, Mismatches: 132, Indels: 184
0.71 0.12 0.17
Matches are distributed among these distances:
70 52 0.07
71 3 0.00
72 76 0.10
73 40 0.05
74 5 0.01
75 35 0.05
76 108 0.14
77 111 0.15
78 47 0.06
79 15 0.02
80 18 0.02
81 7 0.01
82 3 0.00
83 14 0.02
84 55 0.07
85 27 0.04
86 28 0.04
87 104 0.14
88 2 0.00
89 2 0.00
90 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCACACACTGAGCTATTTTCAATT
TATATCTTTC
Found at i:93193948 original size:163 final size:162
Alignment explanation
Indices: 93193652--93194118 Score: 537
Period size: 165 Copynumber: 2.8 Consensus size: 162
93193642 TGTCTTTCAG
** * * * *
93193652 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCAGATCACACACTGAAG-TATTTTTTTC
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTTGGCTCACGCGCTG-AGCTA---ATTTC
* * * ***
93193716 AATTTATATTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGAGTCACATATCG
62 AATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GTCACACGCCG
* *
93193781 AGGTATTTTCAAAATCTACTTTTCAAGTTAAG-TTT-C
125 AGGTATTTTCAAAATCCACTTTTCAAGTTAAGCTTTAA
93193817 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTTGGCTCACGCGCTGAGCTAATTTCAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTTGGCTCACGCGCTGAGCTAATTTCAATT
* * *
93193882 TCTATTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
66 TCTATTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACACGCCGAGG
** * * **
93193947 TATTTTCAATTTCCATTTTTCAATTTCTGCCTTTAAA
128 TATTTTCAAAATCCACTTTTCAAGTTAAG-CTTT-AA
* * *
93193984 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTAATTTCAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTTGGCTCACGCGCTGAGCTAATTTCAATT
* * * *
93194049 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACGCTGAGGTAA
66 TCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGCCGAGGTAT
93194113 TTTCAA
131 TTTCAA
93194119 TCTGTTTTCA
Statistics
Matches: 261, Mismatches: 33, Indels: 18
0.84 0.11 0.06
Matches are distributed among these distances:
161 4 0.02
162 11 0.04
163 85 0.33
164 5 0.02
165 87 0.33
167 69 0.26
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (162 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTTGGCTCACGCGCTGAGCTAATTTCAATT
TCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACACGCCGAGGTAT
TTTCAAAATCCACTTTTCAAGTTAAGCTTTAA
Found at i:93194202 original size:142 final size:145
Alignment explanation
Indices: 93193983--93194635 Score: 501
Period size: 142 Copynumber: 4.3 Consensus size: 145
93193973 CTGCCTTTAA
* ** * ** ** *
93193983 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT-CACGCGCTGAGCTAATTTCAA
1 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAG-TACAC-ATCTGAGGTAATTTCAA
**
93194047 TTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
64 TTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
93194112 ATTTCAA-TCTGTTTTC
129 ATTTCAATTCTGTTTTC
*
93194128 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAG-ACACAT-TGAGGTAATTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTC-AGTACACATCTGAGGTAATTTCAAT
* ** * *
93194190 TTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAT
65 TTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAA
93194255 TTTCAATTTCTGTTTTC
130 TTTCAA-TTCTGTTTTC
* ** * * * *
93194272 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAGTACACAT-CTGAGGTAATTTCAAT
* * *
93194337 TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGA
65 TTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACGCTGA
* * *
93194402 GGTATTTTTTTTTACTTCAATTTATATTTTTC
125 GGTA---------ATTTCAA-TTCT-GTTTTC
** * * * * *
93194434 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGT-CACATATCGAGTTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACC-TCAGTACACATCT-GAGGTAATTTC--
*
93194497 AATCTGCTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
62 AA------TTTC-TG-T---TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
** *
93194562 ACACATTGAGGTATTTTCAATTTCTGTGTTTC
116 ACACGCTGAGGTAATTTCAA-TTCTGT-TTTC
* **
93194594 AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA
1 --AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCA
93194636 AGACGCTGAG
Statistics
Matches: 414, Mismatches: 53, Indels: 65
0.78 0.10 0.12
Matches are distributed among these distances:
142 78 0.19
144 45 0.11
145 39 0.09
147 20 0.05
148 4 0.01
150 35 0.08
151 1 0.00
152 11 0.03
159 1 0.00
160 14 0.03
161 59 0.14
162 10 0.02
163 36 0.09
169 16 0.04
170 2 0.00
171 39 0.09
173 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (145 bp):
AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAGTACACATCTGAGGTAATTTCAATT
TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAAT
TTCAATTCTGTTTTC
Found at i:93194220 original size:72 final size:72
Alignment explanation
Indices: 93193984--93194669 Score: 592
Period size: 72 Copynumber: 9.0 Consensus size: 72
93193974 TGCCTTTAAA
* ** * ** * *
93193984 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTAATTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACATTGAGGTATTTTCAAT
93194048 TTCTGTTTTC
63 TTCTGTTTTC
** ** *
93194058 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAA--TC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
93194121 TGTTTTC
66 TGTTTTC
* ** * *
93194128 AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACATTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
93194193 TGTTTTC
66 TGTTTTC
* ** *
93194200 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
93194265 TGTTTTC
66 TGTTTTC
* * *
93194272 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACAT--TGAGGTATTTTCAA
93194336 TTTCTGTCTTTC
62 TTTCTGT-TTTC
* * *
93194348 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-A-GACACATTGAGGTA-------
* *
93194413 TTACTTCAATTTATATTTTTC
55 TT--TTCAATTTCT-GTTTTC
** * *
93194434 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATCGAGTTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACAT-T-GAGGTATTTTC--AA
*
93194499 TCTGCTTTTCAAGTTAAGTTTC
62 ------TTTC-TG-T---TTTC
93194521 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
93194586 TGTGTTTC
66 TGT-TTTC
* * * * *
93194594 AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGC--TGAGGTGTTTTCCAT
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAAT
93194657 TTCTGTTCTTC
63 TTCTGTT-TTC
93194668 AA
1 AA
93194670 TTTCTGTGTT
Statistics
Matches: 520, Mismatches: 51, Indels: 85
0.79 0.08 0.13
Matches are distributed among these distances:
70 62 0.12
71 3 0.01
72 97 0.19
73 45 0.09
74 57 0.11
75 25 0.05
76 47 0.09
77 52 0.10
79 4 0.01
82 4 0.01
83 7 0.01
84 44 0.08
85 10 0.02
86 14 0.03
87 49 0.09
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
TGTTTTC
Found at i:93194479 original size:84 final size:83
Alignment explanation
Indices: 93194350--93194578 Score: 243
Period size: 84 Copynumber: 2.7 Consensus size: 83
93194340 TGTCTTTCAA
* **
93194350 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTT-TTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAG-TCACACA-TGAGGTATTTTAAAT
* * *
93194413 TTAC-TTCAATTTATATTTTTC
64 CTACTTTCAAGTTA-A-GTTTC
* * *
93194434 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATCGAGTTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCACACAT-GAGGTATTTT--AAA
*
93194499 TCTGCTTTTCAAGTTAAGTTTC
63 TCTAC-TTTCAAGTTAAGTTTC
*
93194521 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACATTGAGGTATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCACACA-TGAGGTATTTT
93194579 CAATTTCTGT
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
83 1 0.01
84 49 0.40
85 18 0.15
86 1 0.01
87 46 0.37
88 1 0.01
89 8 0.06
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (83 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCACACATGAGGTATTTTAAATCT
ACTTTCAAGTTAAGTTTC
Found at i:93194552 original size:87 final size:85
Alignment explanation
Indices: 93194350--93195157 Score: 459
Period size: 87 Copynumber: 9.3 Consensus size: 85
93194340 TGTCTTTCAA
* **
93194350 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTT----
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TCACATTC-GAGGTATTTTCAAA
*
93194410 TT-T-TTACTTCAATTTATATTTTTC
64 TTCTGTT--TTCAA-TT-TATGTTTC
* *
93194434 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATATCGAGTTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACAT-TCGAGGTATTTTCAAAT
* *
93194499 TCTGCTTTTCAAGTTAAGTTTC
65 TCTG-TTTTCAATTTATGTTTC
** * *
93194521 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATT-GAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATTCGAGGTATTTTCAAATT
93194585 CTGTGTTTCAA---A------
66 CTGT-TTTCAATTTATGTTTC
* * ** ** * * *
93194597 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCT-GAGGTGTTTTCCATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATTCGAGGTATTTTCAAATT
*
93194659 CTGTTCTTCAATTTCTGTGTTTC
66 CTGTT-TTCAA-TT-TATGTTTC
* * * * **
93194682 AAAAAAATCAGCTCATATTACGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATTC-GAGGTATTTTCAA
93194747 ATTCTGTTTTTCAAAATTT-TGTTTTTCC
63 ATTCTG-TTTTC--AATTTATG--TTT-C
* * * *
93194775 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCC-TCAG-GACATGCTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATTC-GAGGTATTTTCA
* *
93194838 ATTTCTTTTTTTTTTCAATTTATGTTTGTC
62 AATTC----TGTTTTCAATTTATG-TT-TC
* * * * **
93194868 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGTC-TCAGGTCACACGCCGAGGTATTTTC-
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGA-GTCACA-TTCGAGGTATTTTCA
* **
93194931 AATTGATGTTTTTTTTATTTATGCTTTGC
62 AATT-CTG--TTTTCAATTTATG-TTT-C
* * *
93194960 AAAAATCAACTCATATTACGAGAGGTGAGTTGAG-CTTCGGGTCGCATATCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GAGTCACAT-TCGAGGTATTTTCAAA
* *
93195024 ATCTGTTTTACAAATTT-TGTTTT
64 TTCTGTTTT-C-AATTTATGTTTC
* * * * *
93195047 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTG-GCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TCACATTC-GAGGTATTTTCAAA
* *
93195111 TTCTGTTTTTAATGTCTA-GTTTT
64 TTCTGTTTTCAAT-T-TATGTTTC
* *
93195134 AAAGAGTCAATTCATATTGCGAGA
1 AAA-AATCAACTCATATTGCGAGA
93195158 AATGAGTTAA
Statistics
Matches: 585, Mismatches: 78, Indels: 118
0.75 0.10 0.15
Matches are distributed among these distances:
73 1 0.00
74 26 0.04
76 39 0.07
82 1 0.00
84 49 0.08
85 31 0.05
86 4 0.01
87 151 0.26
88 30 0.05
89 12 0.02
90 58 0.10
91 26 0.04
92 81 0.14
93 18 0.03
94 51 0.09
95 6 0.01
96 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (85 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATTCGAGGTATTTTCAAATT
CTGTTTTCAATTTATGTTTC
Found at i:93194669 original size:74 final size:75
Alignment explanation
Indices: 93194521--93194662 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 75
93194511 GTTAAGTTTC
*
93194521 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACA-TGAGGTATTTTCAATTTC
93194586 TGTGTTTCAAA
65 TGTGTTTCAAA
* * * *
93194597 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGC-TGAGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATGAGGTATTTTCAATTTCT
93194661 GT
66 GT
93194663 TCTTCAATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 19 0.31
76 42 0.69
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATGAGGTATTTTCAATTTCT
GTGTTTCAAA
Found at i:93194777 original size:16 final size:15
Alignment explanation
Indices: 93194740--93194778 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
93194730 CGCTGAGGTA
93194740 TTTTC-AAATTCTGT
1 TTTTCAAAATTCTGT
*
93194754 TTTTCAAAATTTTGT
1 TTTTCAAAATTCTGT
93194769 TTTTCCAAAA
1 TTTT-CAAAA
93194779 AAAATCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (15 bp):
TTTTCAAAATTCTGT
Found at i:93194917 original size:186 final size:181
Alignment explanation
Indices: 93194580--93194932 Score: 442
Period size: 186 Copynumber: 1.9 Consensus size: 181
93194570 AGGTATTTTC
* *
93194580 AATTTCTGTGTTTCAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGA
1 AATTTCTGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAGACGCTGA
* * * * * *
93194645 GGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTACGAGTGGT
66 GGTATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTACAAGAGGT
* * *
93194710 GAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAA
131 GAGTTAAGCCTAGACTCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAA
* * *
93194761 AATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACATGC
1 AATTTCTGTGTTT-CAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAGAC--GC
* * *
93194825 TGAGGTATTTTCAATTTCTTTTTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGC
63 TGAGGTATTTTCAATTTC---TGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATATTAC
* *
93194889 AAGAGGTGAGTTAAGTCTCAG-GTCACACGCCGAGGTATTTTCAA
124 AAGAGGTGAGTTAAGCCT-AGACTCACACGCCGAGGTATTTTCAA
93194933 TTGATGTTTT
Statistics
Matches: 145, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
180 6 0.04
181 48 0.33
183 18 0.12
185 2 0.01
186 70 0.48
187 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (181 bp):
AATTTCTGTGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAGACGCTGA
GGTATTTTCAATTTCTGTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTACAAGAGGT
GAGTTAAGCCTAGACTCACACGCCGAGGTATTTTCAAATTCTGTTTTTCAA
Found at i:93195013 original size:90 final size:87
Alignment explanation
Indices: 93194778--93195120 Score: 286
Period size: 90 Copynumber: 3.8 Consensus size: 87
93194768 TTTTTCCAAA
* * *
93194778 AAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG--ACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGTCACAT-CCGAGGTATTTTCAA-T
*
93194841 TCTTTTTTTTTTCAATTTATGTTTGTC
64 TCTGTTTTTTTT--ATTTATGTTTG-C
* * *
93194868 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTAAG-TCTCAGGTCACACGCCGAGGTATTTTCA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCT-TCAGGTCACA-TCCGAGGTATTTTCA
*
93194932 ATTGATGTTTTTTTTATTTATGCTTTGC
62 ATT-CTGTTTTTTTTATTTATG-TTTGC
* * * * *
93194960 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCGCATATCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGTCACAT-CCGAGGTATTTTC-AAT
**** *
93195025 TCTGTTTTACAAATTT-TGTTT-T
64 TCTGTTTTTTTTATTTATGTTTGC
* * * *
93195047 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT--GGCTCACGTGCTGAGCTATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGG-TCACAT-CCGAGGTATTTTCAA
93195110 TTTCTGTTTTT
63 -TTCTGTTTTT
93195121 AATGTCTAGT
Statistics
Matches: 208, Mismatches: 31, Indels: 29
0.78 0.12 0.11
Matches are distributed among these distances:
86 4 0.02
87 54 0.26
88 6 0.03
89 2 0.01
90 61 0.29
91 4 0.02
92 45 0.22
93 6 0.03
94 26 0.12
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGTCACATCCGAGGTATTTTCAATTC
TGTTTTTTTTATTTATGTTTGC
Found at i:93195822 original size:23 final size:23
Alignment explanation
Indices: 93195796--93195846 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
93195786 AAGCCCCCCT
93195796 AAAAAAAAAACCTAACCCAAAAA
1 AAAAAAAAAACCTAACCCAAAAA
* **
93195819 AAAAGAAAAACCTAACCCCCAAA
1 AAAAAAAAAACCTAACCCAAAAA
93195842 AAAAA
1 AAAAA
93195847 CCAAGAAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.71, C:0.24, G:0.02, T:0.04
Consensus pattern (23 bp):
AAAAAAAAAACCTAACCCAAAAA
Found at i:93195827 original size:25 final size:24
Alignment explanation
Indices: 93195796--93195846 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
93195786 AAGCCCCCCT
93195796 AAAAA-AAAAACCTAA-CCCAAAA
1 AAAAAGAAAAACCTAACCCCAAAA
*
93195818 AAAAAGAAAAACCTAACCCCCAAA
1 AAAAAGAAAAACCTAACCCCAAAA
93195842 AAAAA
1 AAAAA
93195847 CCAAGAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
24 11 0.42
ACGTcount: A:0.71, C:0.24, G:0.02, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAAACCTAACCCCAAAA
Found at i:93205131 original size:2 final size:2
Alignment explanation
Indices: 93205118--93205152 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
93205108 TCTGTTTGGA
93205118 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93205153 GCAGTGAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93205288 original size:18 final size:18
Alignment explanation
Indices: 93205248--93205282 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93205238 TGCAATTAAG
93205248 AAATAGAATAAAAAAGGA
1 AAATAGAATAAAAAAGGA
93205266 AAATAGAATAAAAAAGG
1 AAATAGAATAAAAAAGG
93205283 GCAATACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.11
Consensus pattern (18 bp):
AAATAGAATAAAAAAGGA
Found at i:93208741 original size:29 final size:29
Alignment explanation
Indices: 93208706--93208772 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
93208696 AATTAAAATC
* *
93208706 AATAAAAGTAATAAAAATTA-TTAAACTTT
1 AATAAAAAT-ATAAAAAATATTTAAACTTT
*
93208735 AATAAAAATATAAAAAATATTTAAATTTT
1 AATAAAAATATAAAAAATATTTAAACTTT
*
93208764 ACTAAAAAT
1 AATAAAAAT
93208773 TAGAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 9 0.27
29 24 0.73
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (29 bp):
AATAAAAATATAAAAAATATTTAAACTTT
Found at i:93208800 original size:18 final size:18
Alignment explanation
Indices: 93208777--93208811 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93208767 AAAAATTAGA
93208777 ATAAAAAATTATAAAATC
1 ATAAAAAATTATAAAATC
*
93208795 ATAAAAAATTGTAAAAT
1 ATAAAAAATTATAAAAT
93208812 TTTATAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
ATAAAAAATTATAAAATC
Found at i:93209091 original size:9 final size:9
Alignment explanation
Indices: 93209077--93209144 Score: 61
Period size: 9 Copynumber: 7.3 Consensus size: 9
93209067 CTTTATAAAA
93209077 TTTTATATT
1 TTTTATATT
93209086 TTTTATA-T
1 TTTTATATT
*
93209094 TTCTATATAT
1 TTTTATAT-T
93209104 TTTTA-ATT
1 TTTTATATT
93209112 TTTTATGATT
1 TTTTAT-ATT
93209122 TTTCTAATATT
1 TTT-T-ATATT
93209133 TTTCTA-ATT
1 TTT-TATATT
93209142 TTT
1 TTT
93209145 AATAAAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
8 13 0.25
9 15 0.29
10 12 0.24
11 9 0.18
12 2 0.04
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (9 bp):
TTTTATATT
Found at i:93209112 original size:17 final size:15
Alignment explanation
Indices: 93209075--93209113 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 15
93209065 GACTTTATAA
93209075 AATTTTATATTTTTT
1 AATTTTATATTTTTT
93209090 ATATTTCTATATATTTTT
1 A-ATTT-TATAT-TTTTT
93209108 AATTTT
1 AATTTT
93209114 TTATGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.05
16 5 0.24
17 9 0.43
18 6 0.29
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
AATTTTATATTTTTT
Found at i:93209203 original size:30 final size:28
Alignment explanation
Indices: 93209126--93209205 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 28
93209116 ATGATTTTTC
*
93209126 TAATATTTTTCTAATTTTTAATAAAAATT
1 TAATATTTTTAT-ATTTTTAATAAAAATT
*
93209155 TAAATATTTCTTATATTTTTAATTAAAATT
1 T-AATATTT-TTATATTTTTAATAAAAATT
93209185 TAATATTTTTATTGATTTTTA
1 TAATATTTTTA-T-ATTTTTA
93209206 TTTTTTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 3 0.07
29 9 0.20
30 30 0.67
31 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (28 bp):
TAATATTTTTATATTTTTAATAAAAATT
Found at i:93209221 original size:10 final size:9
Alignment explanation
Indices: 93209077--93209222 Score: 52
Period size: 9 Copynumber: 15.4 Consensus size: 9
93209067 CTTTATAAAA
93209077 TTTT-ATAT
1 TTTTAATAT
*
93209085 TTTTTATAT
1 TTTTAATAT
*
93209094 TTCTATATAT
1 TTTTA-ATAT
93209104 TTTTAAT-T
1 TTTTAATAT
93209112 TTTT-ATGATT
1 TTTTAAT-A-T
93209122 TTTCTAATATT
1 TTT-TAATA-T
93209133 TTTCTAAT-T
1 TTT-TAATAT
* *
93209142 TTTAATAAAAA
1 TTT--TAATAT
*
93209153 TTTAAATAT
1 TTTTAATAT
93209162 TTCTT-ATAT
1 TT-TTAATAT
*
93209171 TTTTAATTAAA
1 TTTTAA-T-AT
*
93209182 ATTTAATAT
1 TTTTAATAT
*
93209191 TTTTATTGAT
1 TTTTAAT-AT
*
93209201 TTTT-ATTT
1 TTTTAATAT
93209209 TTTTAATCAT
1 TTTTAAT-AT
93209219 TTTT
1 TTTT
93209223 TGCCACATGT
Statistics
Matches: 104, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
7 2 0.02
8 16 0.15
9 34 0.33
10 29 0.28
11 21 0.20
12 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:93210055 original size:46 final size:48
Alignment explanation
Indices: 93210003--93210092 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 48
93209993 CCTTATGACA
* *
93210003 CCTTTTTTACACGATAAAATAATGATTAAATTTCA-G-TTTAATCTTT
1 CCTTTTTGACACGATAAAATAATGATTAAACTTCACGATTTAATCTTT
* ** *
93210049 CCTTTTTGAGATTATATAATAATGATTAAACTTCACGATTTAAT
1 CCTTTTTGACACGATAAAATAATGATTAAACTTCACGATTTAAT
93210093 TTATATACTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 29 0.81
47 1 0.03
48 6 0.17
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (48 bp):
CCTTTTTGACACGATAAAATAATGATTAAACTTCACGATTTAATCTTT
Found at i:93210628 original size:2 final size:2
Alignment explanation
Indices: 93210621--93210657 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
93210611 TCATTAAATC
93210621 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93210658 TAATCTAGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:93211946 original size:26 final size:26
Alignment explanation
Indices: 93211910--93211960 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
93211900 TCTAATTTAC
*
93211910 AACAACAAATTATTATTATTATTATA
1 AACAAAAAATTATTATTATTATTATA
93211936 AACAAAAAATTATTATTATTATTAT
1 AACAAAAAATTATTATTATTATTAT
93211961 TATAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
AACAAAAAATTATTATTATTATTATA
Done.