Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 241 of 290
Found at i:83295982 original size:81 final size:81
Alignment explanation
Indices: 83295887--83296083 Score: 306
Period size: 81 Copynumber: 2.4 Consensus size: 81
83295877 TACTGAAATG
* *
83295887 CCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
83295952 AAAATTACCGCTTTAC
66 AAAATTACCGCTTTAC
* *
83295968 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
**
83296033 AAAATTACCTTTTTAC
66 AAAATTACCGCTTTAC
* *
83296049 CCTC-AGTTTATAAAATTACCGTTTTACCCTCGATT
1 CCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
83296084 GTGAAATTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
80 1 0.01
81 106 0.99
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (81 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCGCTTTAC
Found at i:83296105 original size:27 final size:26
Alignment explanation
Indices: 83296075--83296216 Score: 90
Period size: 27 Copynumber: 5.3 Consensus size: 26
83296065 TACCGTTTTA
**
83296075 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* *
83296102 CCCT-ATAGGGTAGAATTACCAAAATA-
1 CCCTGATTGTG-A-AATTACCAAAATAC
* *
83296128 CCCTTAGTTGTAAAATTACCAAAATAC
1 CCCTGA-TTGTGAAATTACCAAAATAC
* * *
83296155 CACTGGTTTGTGAAATTACCGAAATAC
1 CCCT-GATTGTGAAATTACCAAAATAC
* * * *
83296182 CCTTAATTTTTAAAATTACCAAAATAC
1 CCCTGA-TTGTGAAATTACCAAAATAC
*
83296209 CTCTGATT
1 CCCTGATT
83296217 TACAAAATTA
Statistics
Matches: 86, Mismatches: 22, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
25 4 0.05
26 20 0.23
27 60 0.70
28 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
CCCTGATTGTGAAATTACCAAAATAC
Found at i:83296209 original size:54 final size:54
Alignment explanation
Indices: 83296115--83296295 Score: 202
Period size: 54 Copynumber: 3.3 Consensus size: 54
83296105 TATAGGGTAG
* * * ***
83296115 AATTACCAAAATACCCTT-AGTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTTAATTTTTAAAATTACCAAAATACCACTGGTTTACAA
* *
83296168 AATTACCGAAATACCCTTAATTTTTAAAATTACCAAAATACCTCTGATTTACAA
1 AATTACCGAAATACCCTTAATTTTTAAAATTACCAAAATACCACTGGTTTACAA
* * ** *
83296222 AATTACAGAAATACCCTTAACTTTCTAAAAATTATAAAAATACCATTGGTTTACAA
1 AATTACCGAAATACCCTTAA-TTT-TTAAAATTACCAAAATACCACTGGTTTACAA
**
83296278 AATTAATGAAATACCCTT
1 AATTACCGAAATACCCTT
83296296 GGTTTGTAGA
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
53 17 0.16
54 47 0.44
55 3 0.03
56 41 0.38
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (54 bp):
AATTACCGAAATACCCTTAATTTTTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:83296217 original size:27 final size:26
Alignment explanation
Indices: 83296115--83296238 Score: 124
Period size: 27 Copynumber: 4.7 Consensus size: 26
83296105 TATAGGGTAG
* *
83296115 AATTACCAAAATACCCTTAGTTGTAA
1 AATTACCAAAATACCCTGATTTGTAA
* *
83296141 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACC-CTGATTTGTAA
* * *
83296168 AATTACCGAAATACCCTTAATTTTTAA
1 AATTACCAAAATACCC-TGATTTGTAA
**
83296195 AATTACCAAAATACCTCTGATTTACAA
1 AATTACCAAAATACC-CTGATTTGTAA
83296222 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
83296239 TAACTTTCTA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 20 0.25
27 60 0.74
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGTAA
Found at i:83297479 original size:42 final size:42
Alignment explanation
Indices: 83297420--83297553 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
83297410 TAGTCTCCCC
83297420 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
83297462 AAATGGGCTTGCATACATTCATTGGCATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
83297504 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
83297546 AAATGGGC
1 AAATGGGC
83297554 CTAAGGGCCA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 89 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:83297612 original size:31 final size:31
Alignment explanation
Indices: 83297577--83297659 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 31
83297567 CGTTTACAGT
83297577 AAAGGCTTCGGCCCAGTGATATAATTTATGA
1 AAAGGCTTCGGCCCAGTGATATAATTTATGA
* * * *
83297608 AAAGGCTTTGGCCTAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATAATTTATGA
83297639 AAAGGCTTCGGCCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
83297660 GTCAAGATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 4 0.09
31 42 0.91
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATAATTTATGA
Found at i:83302658 original size:34 final size:34
Alignment explanation
Indices: 83302615--83302683 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
83302605 ATAAAGTAGA
83302615 GTAAGAATTACATGCTTAGTAAGTTCGTATAACG
1 GTAAGAATTACATGCTTAGTAAGTTCGTATAACG
83302649 GTAAGAATTACATGCTTAGTAAGTTCGTATAACG
1 GTAAGAATTACATGCTTAGTAAGTTCGTATAACG
83302683 G
1 G
83302684 AAACTAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (34 bp):
GTAAGAATTACATGCTTAGTAAGTTCGTATAACG
Found at i:83306087 original size:45 final size:45
Alignment explanation
Indices: 83306014--83306104 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
83306004 GAATTATATA
* *
83306014 ATCTGAACTCATTGAGTTATGGTGTGAGTCCATGATAAATGTGAC
1 ATCTGAACTCATTAAGTTATGGTCTGAGTCCATGATAAATGTGAC
* * * *
83306059 ATCTGAACTCATTAAGTTGTGGTCTGAGTTCGTGATATATGTGAC
1 ATCTGAACTCATTAAGTTATGGTCTGAGTCCATGATAAATGTGAC
83306104 A
1 A
83306105 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (45 bp):
ATCTGAACTCATTAAGTTATGGTCTGAGTCCATGATAAATGTGAC
Found at i:83309353 original size:79 final size:80
Alignment explanation
Indices: 83309202--83309406 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 80
83309192 AAATCACGTA
* ** * *
83309202 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTAT
1 CCTTCGG-ATCTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACATAACCCGGATAT
83309264 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
*
83309281 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGA-ATT
1 CCTTC-GGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATA-T
83309343 AGTATA-TCGCACAAATG
64 AGTA-ACTCGCACAAATG
** *
83309360 CCTTCGGATCTTAGTCCGGATTTAGTATCTCGCACAAATGCCTTCGG
1 CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
83309407 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 9, Indels: 14
0.83 0.07 0.11
Matches are distributed among these distances:
78 4 0.04
79 75 0.68
80 31 0.28
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATATAG
TAACTCGCACAAATG
Found at i:83309407 original size:40 final size:39
Alignment explanation
Indices: 83309235--83309459 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 39
83309225 GCTACTCGTT
*
83309235 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
*
83309275 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* * *
83309315 CAAATGCCTTCGGGCTTAACCCGGAATTAGTATA-TCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTA-ACTCGCA
* *
83309354 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
83309394 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
83309435 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
83309460 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 37 0.23
40 114 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:83309419 original size:119 final size:120
Alignment explanation
Indices: 83309235--83309459 Score: 289
Period size: 119 Copynumber: 1.9 Consensus size: 120
83309225 GCTACTCGTT
83309235 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
83309300 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAACCCGGAATTAGTATATCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGAATTAGTATATCGCA
* * * **
83309354 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* * *
83309416 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
83309460 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 6 0.07
119 65 0.71
120 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGAATTAGTATATCGCA
Found at i:83311748 original size:71 final size:67
Alignment explanation
Indices: 83311608--83311749 Score: 167
Period size: 71 Copynumber: 2.1 Consensus size: 67
83311598 GAGGAAGCGT
* * * * *
83311608 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCTATATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCTATATATATATGTTCTGGTGACCTAGCCACAA
83311673 TA
66 TA
* * * *
83311675 TCTGGCAACCTCGTTGTAATCTGGTGGCTTCGCCACATATATATATATGTTCTGGTGGCCTAGCC
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCTCG---C-TATATATATATGTTCTGGTGACCTAGCC
83311740 ACAATA
62 ACAATA
83311746 TCTG
1 TCTG
83311750 TATCTGGTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
67 28 0.45
70 1 0.02
71 33 0.53
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (67 bp):
TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCTATATATATATGTTCTGGTGACCTAGCCACAA
TA
Found at i:83311755 original size:27 final size:26
Alignment explanation
Indices: 83311717--83311776 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
83311707 CCACATATAT
* *
83311717 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
83311743 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
83311770 ATATCTG
1 ATATCTG
83311777 GCAGCTTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:83320322 original size:34 final size:34
Alignment explanation
Indices: 83320253--83320322 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
83320243 GGTCATTTTG
* *
83320253 GGTAAGTTTGTGGTAAGTGCTTATTCTGGAGTTT
1 GGTAAGTTTGTGGTAAGTGATTATTCTGGAATTT
* * *
83320287 GGTAAGTTTTTGGTATGTGATTAAT-TGTGAATTT
1 GGTAAGTTTGTGGTAAGTGATTATTCTG-GAATTT
83320321 GG
1 GG
83320323 AAAGAATGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 2 0.07
34 28 0.93
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (34 bp):
GGTAAGTTTGTGGTAAGTGATTATTCTGGAATTT
Found at i:83323080 original size:73 final size:72
Alignment explanation
Indices: 83322943--83323134 Score: 262
Period size: 73 Copynumber: 2.6 Consensus size: 72
83322933 CTTTATCATC
* * * *
83322943 TAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGACAAAAGCCC-TTTTAATAATTGGGGCTTAA
1 TAACTGG-GGCATAAGCC-CTTTTAATAACTGGG-CATAAGCCCTTTTTAATAACTGGGGCATAA
83323006 GCCCTTTTGA
63 GCCCTTTTGA
83323016 TAACTGGGGCATAAGCCCTTTTAATAACTGGAGCATAAGCCCTTTTTAATAACTGGGGCATAAGC
1 TAACTGGGGCATAAGCCCTTTTAATAACTGG-GCATAAGCCCTTTTTAATAACTGGGGCATAAGC
83323081 CCTTTTGA
65 CCTTTTGA
* * *
83323089 TAACTAGGGCATAAGCCTTTTTGATAACTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCCCTTTT
83323135 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
72 26 0.24
73 80 0.74
74 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (72 bp):
TAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCC
CTTTTGA
Found at i:83323135 original size:24 final size:24
Alignment explanation
Indices: 83322943--83323134 Score: 251
Period size: 24 Copynumber: 7.9 Consensus size: 24
83322933 CTTTATCATC
*
83322943 TAACTGGAGGCCT-AGCCTCTTTTAA
1 TAACTGG-GGCATAAGCC-CTTTTAA
* *
83322968 TAACTGGGACAAAAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
* * *
83322992 TAATTGGGGCTTAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTAA
83323016 TAACTGGGGCATAAGCCCTTTTAA
1 TAACTGGGGCATAAGCCCTTTTAA
*
83323040 TAACTGGAGCATAAGCCCTTTTTAA
1 TAACTGGGGCATAAGCCC-TTTTAA
*
83323065 TAACTGGGGCATAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTAA
* * *
83323089 TAACTAGGGCATAAGCCTTTTTGA
1 TAACTGGGGCATAAGCCCTTTTAA
83323113 TAACTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTT
83323135 GCACTTCCTC
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
24 113 0.77
25 34 0.23
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTAA
Found at i:83323205 original size:16 final size:16
Alignment explanation
Indices: 83323184--83323235 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
83323174 TTATGAATAC
83323184 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
83323200 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
*
83323216 A-CATGT-CATGTGCAT
1 ATCATGTGCATAT-CAT
83323231 ATCAT
1 ATCAT
83323236 ACATACCATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 4 0.12
15 9 0.27
16 20 0.61
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (16 bp):
ATCATGTGCATATCAT
Found at i:83323246 original size:20 final size:18
Alignment explanation
Indices: 83323180--83323239 Score: 88
Period size: 20 Copynumber: 3.3 Consensus size: 18
83323170 GCATTTATGA
83323180 ATACATCATGTGCATATC
1 ATACATCATGTGCATATC
83323198 AT--ATCATGTGCATATC
1 ATACATCATGTGCATATC
83323214 ATACATGTCATGTGCATATC
1 ATACA--TCATGTGCATATC
83323234 ATACAT
1 ATACAT
83323240 ACCATGTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
16 16 0.42
18 4 0.11
20 18 0.47
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (18 bp):
ATACATCATGTGCATATC
Found at i:83330477 original size:40 final size:40
Alignment explanation
Indices: 83330383--83330607 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
83330373 TATTCGAATG
*
83330383 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
83330424 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
83330464 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
83330504 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
83330544 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
83330584 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
83330608 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:83330563 original size:80 final size:80
Alignment explanation
Indices: 83330383--83330643 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
83330373 TATTCGAATG
* * * *
83330383 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
83330448 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
83330464 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
83330529 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
83330544 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
83330609 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
83330623 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
83330644 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:83330597 original size:120 final size:120
Alignment explanation
Indices: 83330383--83330643 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
83330373 TATTCGAATG
* * *
83330383 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
83330448 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
83330504 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
83330567 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
83330623 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
83330644 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:83338507 original size:39 final size:40
Alignment explanation
Indices: 83338412--83338634 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
83338402 TTGAATGATG
*
83338412 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
83338450 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
83338491 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
83338530 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
83338569 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
83338608 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
83338635 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:83338598 original size:79 final size:81
Alignment explanation
Indices: 83338412--83338634 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
83338402 TTGAATGATG
* * *
83338412 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
83338473 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
83338491 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
83338553 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
83338569 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
83338633 TG
66 TG
83338635 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:83338656 original size:79 final size:79
Alignment explanation
Indices: 83338412--83338667 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
83338402 TTGAATGATG
* * * *
83338412 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
83338473 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
83338491 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
83338555 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
83338569 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
83338633 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
83338649 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
83338668 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:83346617 original size:40 final size:40
Alignment explanation
Indices: 83346523--83346747 Score: 228
Period size: 40 Copynumber: 5.6 Consensus size: 40
83346513 TATTCGAATG
*
83346523 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
83346564 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
** *
83346604 ATATCCGGGCTAAGA-CTCGAAGGCATTTGTGCTACCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
* *
83346644 ATATCCGGGCTAA-AACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTAGTGACT
* *
83346684 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
83346724 ACATCCGGGCTAAGA-CCTGAAGGC
1 ATATCCGGGCTAAGATCC-GAAGGC
83346748 CTTGTGCAAG
Statistics
Matches: 155, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
39 6 0.04
40 117 0.75
41 31 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:83346705 original size:80 final size:80
Alignment explanation
Indices: 83346523--83346783 Score: 278
Period size: 80 Copynumber: 3.3 Consensus size: 80
83346513 TATTCGAATG
* * * *
83346523 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCC-GAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAA-AACCTGAAGG
*
83346587 CATTCGTGCGAGTTGCT
64 CATTCGTGCGAGTCGCT
* * ** *
83346604 ATATCCGGGCTAAGACTCGAAGGCATTTGTGCTACCGATTATATCCGGGCTAAAACCTGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCTGAAGGCA
* *
83346669 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
83346684 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCTGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCTGAAGGCA
* * *
83346749 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
83346763 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
83346784 ATTACTTAAG
Statistics
Matches: 151, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
78 14 0.09
79 17 0.11
80 89 0.59
81 31 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAACCTGAAGGCA
TTCGTGCGAGTCGCT
Found at i:83346737 original size:120 final size:121
Alignment explanation
Indices: 83346523--83346747 Score: 287
Period size: 120 Copynumber: 1.9 Consensus size: 121
83346513 TATTCGAATG
** * *
83346523 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
83346588 ATTCGTGCGAGTTGCTATATCCGGGCTAAGA-CTCGAAGGCATTTGTGCTACCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCT-GAAGGCATTTGTGCTACCGATT
* * *
83346644 ATATCCGGGCTAAAACCTGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
83346707 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCTGAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCTGAAGGC
83346748 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
119 3 0.03
120 54 0.61
121 32 0.36
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCTGAAGGCATTTGTGCTACCGATT
Found at i:83350826 original size:60 final size:60
Alignment explanation
Indices: 83350733--83350851 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
83350723 CTCTATATGA
*
83350733 GCTAAAGTGTTGAACGCCCTTATATTGGACTGAGCTTAGAGAGGGTCAAATTTACGGGGG
1 GCTAAAGTGTCGAACGCCCTTATATTGGACTGAGCTTAGAGAGGGTCAAATTTACGGGGG
*
83350793 GCTAAAGTGTCGAACGCCCTTATATTGGACTGAGCTTAGAGAGGGTCAGATTTACGGGG
1 GCTAAAGTGTCGAACGCCCTTATATTGGACTGAGCTTAGAGAGGGTCAAATTTACGGGG
83350852 CCAAATTAGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (60 bp):
GCTAAAGTGTCGAACGCCCTTATATTGGACTGAGCTTAGAGAGGGTCAAATTTACGGGGG
Found at i:83362150 original size:79 final size:82
Alignment explanation
Indices: 83362039--83362224 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 82
83362029 GCTACTCGTT
* *
83362039 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
83362102 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
83362119 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
83362182 GATATAGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
83362199 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83362225 TATCATTCGA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
78 3 0.03
79 48 0.52
80 30 0.33
81 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:83362153 original size:39 final size:41
Alignment explanation
Indices: 83362039--83362224 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
83362029 GCTACTCGTT
* *
83362039 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
83362079 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
*
83362119 CCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* * *
83362158 CAAATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTAAC-TCGCA
*
83362199 CAAAAGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83362225 TATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 66 0.52
41 23 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:83371107 original size:18 final size:18
Alignment explanation
Indices: 83371065--83371107 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
83371055 GCACATTCCG
*
83371065 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
83371083 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
83371101 AAGTATG
1 AAGTATG
83371108 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:83371571 original size:28 final size:28
Alignment explanation
Indices: 83371503--83371600 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
83371493 GTTGATCTCG
* * * *
83371503 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
83371532 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
83371560 GCACTAAGTGTGAGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
83371587 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
83371601 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:83371614 original size:29 final size:27
Alignment explanation
Indices: 83371531--83371614 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
83371521 TAAATTGTAC
* * *
83371531 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGAGA-CTTAATTATAT
* *
83371559 AGCACTAAGTGTGAGAGTTGATTATAT
1 AGCACTAAGTGTGAGACTTAATTATAT
* *
83371586 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTG-AGACTTAAT-TATAT
83371615 TTTTGAATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 22 0.46
28 21 0.44
29 5 0.10
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGAGACTTAATTATAT
Found at i:83375700 original size:56 final size:56
Alignment explanation
Indices: 83375632--83375738 Score: 205
Period size: 56 Copynumber: 1.9 Consensus size: 56
83375622 GTTCTGGCCC
83375632 TGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCATATGATCGTTTTGTTG
1 TGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCATATGATCGTTTTGTTG
*
83375688 TGTCTCATGAGAACCTGAATATCTCTTAACATACTGTCCATATGATCGTTT
1 TGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCATATGATCGTTT
83375739 CGTTACTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (56 bp):
TGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCATATGATCGTTTTGTTG
Found at i:83376064 original size:73 final size:73
Alignment explanation
Indices: 83375977--83376122 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 73
83375967 CGTTACCAAC
83375977 ATTTCCATACCTCTCGACGGACAACATACAAAACAATTATAATGCTATGATCAAAGGATATTTAA
1 ATTTCCATACCTCTCGACGGACAACATACAAAACAATTATAATGCTATGATCAAAGGATATTTAA
83376042 GCCATTTT
66 GCCATTTT
** *
83376050 ATTTCCATACCTCTCGACGGACAACATACAAAATGATTATAATGCTATGATCAAAGTATATTTAA
1 ATTTCCATACCTCTCGACGGACAACATACAAAACAATTATAATGCTATGATCAAAGGATATTTAA
*
83376115 TCCATTTT
66 GCCATTTT
83376123 TGCATGACTA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (73 bp):
ATTTCCATACCTCTCGACGGACAACATACAAAACAATTATAATGCTATGATCAAAGGATATTTAA
GCCATTTT
Found at i:83376697 original size:40 final size:40
Alignment explanation
Indices: 83376627--83376794 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
83376617 CGGGGTTTAG
** * *
83376627 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
83376666 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
83376706 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
** * * * * *
83376746 CCGGATGCAGTCGCTTAGCACAAAAGCCTTCAGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
83376787 CCGGATAT
1 CCGGATAT
83376795 CATTCAAGTA
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 15 0.14
40 62 0.60
41 27 0.26
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:83376785 original size:41 final size:39
Alignment explanation
Indices: 83376650--83376793 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
83376640 CTCGCACAAG
* * ** * *
83376650 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTC-GGACTTAGCCCGGATACAGTCGCTAGCACAAAT
*
83376690 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCGGATACAGTCGCTAGCACAAAT
* * *
83376730 GCCTTCGGATCTTAGTCCGGATGCAGTCGCTTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCGGATACAGTCGC-TAGCACAAAT
83376771 GCCTTCAGGACTTAGCCCGGATA
1 GCCTTC-GGACTTAGCCCGGATA
83376794 TCATTCAAGT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCGGATACAGTCGCTAGCACAAAT
Found at i:83383852 original size:42 final size:43
Alignment explanation
Indices: 83383744--83383852 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
83383734 AGCTCGTACA
* * *
83383744 ATGCCAACATCCCAGACATGGCCTTACATGTAATCAAATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGAAATCAAATATCG
* * * *
83383787 ATGCCACTATCCCTGACAGGGTCTTAC-TCGAAATCATATA-CG
1 ATGCCAATATCCCAGACATGGTCTTACAT-GAAATCAAATATCG
*
83383829 ATGCCAATGTCCCAGACATGGTCT
1 ATGCCAATATCCCAGACATGGTCT
83383853 ACACGTTAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 23 0.43
43 31 0.57
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGAAATCAAATATCG
Found at i:83392567 original size:16 final size:16
Alignment explanation
Indices: 83392548--83392583 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
83392538 TCGAAAAGTC
*
83392548 GAAATGTCAAAAAGCT
1 GAAATGCCAAAAAGCT
*
83392564 GAAATGCCGAAAAGCT
1 GAAATGCCAAAAAGCT
83392580 GAAA
1 GAAA
83392584 AGCCGAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.22, T:0.14
Consensus pattern (16 bp):
GAAATGCCAAAAAGCT
Found at i:83392588 original size:16 final size:16
Alignment explanation
Indices: 83392557--83392591 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
83392547 CGAAATGTCA
*
83392557 AAAAGCTGAAATGCCG
1 AAAAGCTGAAAAGCCG
83392573 AAAAGCTGAAAAGCCG
1 AAAAGCTGAAAAGCCG
83392589 AAA
1 AAA
83392592 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCTGAAAAGCCG
Found at i:83392846 original size:28 final size:29
Alignment explanation
Indices: 83392804--83392890 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 29
83392794 ACCATGACTG
83392804 TAAATGTGATTTGGGCCTAGT-GGCCATA
1 TAAATGTGATTTGGGCCTAGTGGGCCATA
* * *
83392832 TGAATGTGATTTGGGTCT-GATGGGCCACA
1 TAAATGTGATTTGGGCCTAG-TGGGCCATA
* *
83392861 TAAATGTGA-ATGGGCCTAATGGGCCATA
1 TAAATGTGATTTGGGCCTAGTGGGCCATA
83392889 TA
1 TA
83392891 TATATAGGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
27 1 0.02
28 33 0.69
29 14 0.29
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
TAAATGTGATTTGGGCCTAGTGGGCCATA
Found at i:83407516 original size:13 final size:13
Alignment explanation
Indices: 83407498--83407535 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
83407488 AATGGCTTGG
83407498 ACCCACACGGGCT
1 ACCCACACGGGCT
*
83407511 ACCCACACAGGCT
1 ACCCACACGGGCT
83407524 ACCCACACGGGC
1 ACCCACACGGGC
83407536 GTGTGACTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.47, G:0.21, T:0.05
Consensus pattern (13 bp):
ACCCACACGGGCT
Found at i:83410320 original size:42 final size:43
Alignment explanation
Indices: 83410230--83410381 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 43
83410220 GCCTTAGACG
* * * * * *
83410230 TGGTCTTACATGTAATCAAATATCGATGCC-ACTATCCCAGACA
1 TGGTCTTACACGAAACCATATATCGATGCCAAC-GTCCCAAACA
* * *
83410273 GGGTCTTACACGAAACCATATAT-GATGCCAATGTGCCAAACA
1 TGGTCTTACACGAAACCATATATCGATGCCAACGTCCCAAACA
* * * * *
83410315 TGGTCTTACACGTAAATCACAAATCGATGCCAACGTCCCAGACG
1 TGGTCTTACACG-AAACCATATATCGATGCCAACGTCCCAAACA
83410359 TGGTCTTACACGATAACACATAT
1 TGGTCTTACACGA-AAC-CATAT
83410382 CAAAATCCTA
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
42 24 0.29
43 28 0.33
44 29 0.35
45 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
TGGTCTTACACGAAACCATATATCGATGCCAACGTCCCAAACA
Found at i:83410363 original size:44 final size:43
Alignment explanation
Indices: 83410225--83410370 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 43
83410215 CCAACGCCTT
* *
83410225 AGACGTGGTCTTACATGT-AATCAAATATCGATGCC-ACTATCCC
1 AGACGTGGTCTTACACGTAAATCAAA-ATCGATGCCAAC-GTCCC
* * * *
83410268 AGACAG-GGTCTTACACG-AAACCATATAT-GATGCCAATGTGCC
1 AGAC-GTGGTCTTACACGTAAATCA-AAATCGATGCCAACGTCCC
* *
83410310 AAACATGGTCTTACACGTAAATCACAAATCGATGCCAACGTCCC
1 AGACGTGGTCTTACACGTAAATCA-AAATCGATGCCAACGTCCC
83410354 AGACGTGGTCTTACACG
1 AGACGTGGTCTTACACG
83410371 ATAACACATA
Statistics
Matches: 81, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
42 23 0.28
43 29 0.36
44 29 0.36
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
AGACGTGGTCTTACACGTAAATCAAAATCGATGCCAACGTCCC
Found at i:83412077 original size:30 final size:30
Alignment explanation
Indices: 83412016--83412127 Score: 145
Period size: 30 Copynumber: 3.8 Consensus size: 30
83412006 TCATCAATGA
* ** *
83412016 ATGAAAAGGGATAGTTTCAACTATC-AATT
1 ATGAAAAGGGATGGTGACAACCATCAAATT
83412045 ATGAAAAGGGATGGTGACAACCATCAAATT
1 ATGAAAAGGGATGGTGACAACCATCAAATT
** *
83412075 ATGAAAAGGGATGGTGACGTCCACCAAATT
1 ATGAAAAGGGATGGTGACAACCATCAAATT
*
83412105 ATGAAAAGGGATGGTGACCACCA
1 ATGAAAAGGGATGGTGACAACCA
83412128 CTGTAACACT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
29 21 0.29
30 52 0.71
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACAACCATCAAATT
Found at i:83412858 original size:31 final size:31
Alignment explanation
Indices: 83412823--83412885 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
83412813 CCTTTTCATA
83412823 TTTCATATCTCAAAACACTGGGCCGAAGCCT
1 TTTCATATCTCAAAACACTGGGCCGAAGCCT
* * **
83412854 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATCTCAAAACACTGGGCCGAAGCCT
83412885 T
1 T
83412886 CACTATAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (31 bp):
TTTCATATCTCAAAACACTGGGCCGAAGCCT
Found at i:83413135 original size:24 final size:25
Alignment explanation
Indices: 83413108--83413174 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
83413098 CTCTTTTAAT
83413108 AACTGGGGCAAAGCCCTATT-GATA
1 AACTGGGGCAAAGCCCTATTCGATA
* *
83413132 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTATTCGATA
* *
83413158 AACGGGGGCATAGCCCT
1 AACTGGGGCAAAGCCCT
83413175 TTTTGCACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 9 0.24
25 17 0.46
26 11 0.30
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.19
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTATTCGATA
Found at i:83413166 original size:26 final size:24
Alignment explanation
Indices: 83413095--83413177 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 24
83413085 CTGGAGGCCT
* *
83413095 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACGGGGGCAA
* *
83413119 AGCCCTATTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACGGGGGC-AA
* *
83413144 AGCCCTTTTCGGTAAACGGGGGCAT
1 AGCCCTTTT-GATAAACGGGGGCAA
83413169 AGCCCTTTT
1 AGCCCTTTT
83413178 TGCACTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 6 0.12
24 13 0.26
25 20 0.40
26 11 0.22
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
AGCCCTTTTGATAAACGGGGGCAA
Found at i:83413250 original size:9 final size:9
Alignment explanation
Indices: 83413236--83413292 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
83413226 ACATCATGTG
83413236 CATATCATA
1 CATATCATA
*
83413245 CATATCATGTG
1 CATATCA--TA
*
83413256 CATATCGTA
1 CATATCATA
*
83413265 CATATCATGTG
1 CATATCA--TA
83413276 CATATCATA
1 CATATCATA
83413285 CATATCAT
1 CATATCAT
83413293 GTATATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:83413253 original size:20 final size:20
Alignment explanation
Indices: 83413228--83413294 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
83413218 TTATGAATAC
83413228 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
83413248 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
83413268 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
83413288 ATCATGT
1 ATCATGT
83413295 ATATCAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:83413259 original size:11 final size:11
Alignment explanation
Indices: 83413228--83413283 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
83413218 TTATGAATAC
83413228 ATCATGTGCAT
1 ATCATGTGCAT
*
83413239 ATCA--TACAT
1 ATCATGTGCAT
83413248 ATCATGTGCAT
1 ATCATGTGCAT
*
83413259 ATC--GTACAT
1 ATCATGTGCAT
83413268 ATCATGTGCAT
1 ATCATGTGCAT
83413279 ATCAT
1 ATCAT
83413284 ACATATCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:83420963 original size:31 final size:31
Alignment explanation
Indices: 83420928--83420990 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
83420918 CCTTTTCGTA
83420928 TTTCATATCTCATAACACTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTGGGCCGAAGCCT
* **
83420959 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTGGGCCGAAGCCT
83420990 T
1 T
83420991 CACTATAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTCATATCTCATAACACTGGGCCGAAGCCT
Found at i:83421280 original size:25 final size:24
Alignment explanation
Indices: 83421198--83421279 Score: 96
Period size: 24 Copynumber: 3.4 Consensus size: 24
83421188 CTGGAGGACT
*
83421198 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
83421222 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
* *
83421247 AGCCCTTTTCG-TAAACTAGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
83421271 AGCCCTTTT
1 AGCCCTTTT
83421280 TGCACTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 7 0.13
24 23 0.44
25 21 0.40
26 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:83421332 original size:9 final size:9
Alignment explanation
Indices: 83421318--83421374 Score: 69
Period size: 9 Copynumber: 5.9 Consensus size: 9
83421308 ACATCATGTG
83421318 CATATCATA
1 CATATCATA
*
83421327 CATATCATGTG
1 CATATCA--TA
83421338 CATATCATA
1 CATATCATA
83421347 CATATCATA
1 CATATCATA
83421356 TGCATATCATA
1 --CATATCATA
83421367 CATATCAT
1 CATATCAT
83421375 GTATATCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 25 0.60
11 17 0.40
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:83421335 original size:20 final size:20
Alignment explanation
Indices: 83421310--83421376 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
83421300 CATAACCCAC
83421310 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
83421330 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
83421350 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
83421370 ATCATGT
1 ATCATGT
83421377 ATATCAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:83421341 original size:11 final size:10
Alignment explanation
Indices: 83421310--83421374 Score: 55
Period size: 9 Copynumber: 6.5 Consensus size: 10
83421300 CATAACCCAC
83421310 ATCATGTGCAT
1 ATCAT-TGCAT
*
83421321 ATCA-TACAT
1 ATCATTGCAT
83421330 ATCATGTGCAT
1 ATCAT-TGCAT
*
83421341 ATCA-TACAT
1 ATCATTGCAT
83421350 ATCATATGCAT
1 ATCAT-TGCAT
*
83421361 ATCA-TACAT
1 ATCATTGCAT
83421370 ATCAT
1 ATCAT
83421375 GTATATCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
9 24 0.55
11 20 0.45
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (10 bp):
ATCATTGCAT
Found at i:83426517 original size:48 final size:47
Alignment explanation
Indices: 83426448--83426625 Score: 230
Period size: 48 Copynumber: 3.7 Consensus size: 47
83426438 TATGTCGAGA
* * * *
83426448 CCATGTCCTAGACATGGTCTTACACGAAATCACATATAGATGCCAATG
1 CCATATCC-AGACATGGTCTTACATGAGATCACATATCGATGCCAATG
* *
83426496 CCATATACCAGATATGGTCTTACATGGGATCACATATCGATGCCAATG
1 CCATAT-CCAGACATGGTCTTACATGAGATCACATATCGATGCCAATG
* * *
83426544 GCATATCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATT
1 CCATAT-CCAGACATGGTCTTACATGAGATCACATATCGATGCCAATG
*
83426592 CCATGTCCTAGACATGGTCTTACATGAGATCACA
1 CCATATCC-AGACATGGTCTTACATGAGATCACA
83426626 CATAACCCTA
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 2 0.02
48 111 0.97
49 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (47 bp):
CCATATCCAGACATGGTCTTACATGAGATCACATATCGATGCCAATG
Found at i:83431592 original size:41 final size:41
Alignment explanation
Indices: 83431547--83431629 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
83431537 TGGAGAGGAG
83431547 GAGGAGGAAAAATAAATATATGTGGAATACATGGAAACTAT
1 GAGGAGGAAAAATAAATATATGTGGAATACATGGAAACTAT
83431588 GAGGAGGAAAAATAAATATATGTGGAATACATGGAAACTAT
1 GAGGAGGAAAAATAAATATATGTGGAATACATGGAAACTAT
83431629 G
1 G
83431630 GTATATGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.48, C:0.05, G:0.25, T:0.22
Consensus pattern (41 bp):
GAGGAGGAAAAATAAATATATGTGGAATACATGGAAACTAT
Found at i:83437107 original size:30 final size:29
Alignment explanation
Indices: 83437073--83437148 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
83437063 TGGCTAACAC
* *
83437073 ATCCCTTTTCGTAATTCGATAACAGAAGTT
1 ATCCCTTTTCATAATT-GATAACAGAAGCT
* * *
83437103 ATCCCTTTTCATAGCTTGATAGCCGAAGCT
1 ATCCCTTTTCATA-ATTGATAACAGAAGCT
83437133 ATCCCTTTTCATAATT
1 ATCCCTTTTCATAATT
83437149 TAATGGTCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 2 0.05
30 35 0.90
31 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATAACAGAAGCT
Found at i:83449739 original size:40 final size:40
Alignment explanation
Indices: 83449680--83449824 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
83449670 CTTGCACAAG
* * * * *
83449680 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
83449720 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
83449760 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
83449801 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
83449825 GATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:83451053 original size:38 final size:38
Alignment explanation
Indices: 83451011--83451086 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
83451001 CAAGAACTCC
83451011 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
83451049 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
83451087 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:83453424 original size:50 final size:50
Alignment explanation
Indices: 83453369--83453466 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
83453359 ATATTAGCTA
*
83453369 AACTTAAATTATGGCATGTGTAGGCTGGATTATATTTTGGGAATGCCGCT
1 AACTTAAATTATGGCATGTATAGGCTGGATTATATTTTGGGAATGCCGCT
* * * *
83453419 AACTTAAATTGTGGCATGTATAGGCTTGATTCTATTTTGTGAATGCCG
1 AACTTAAATTATGGCATGTATAGGCTGGATTATATTTTGGGAATGCCG
83453467 ATTGTTGGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (50 bp):
AACTTAAATTATGGCATGTATAGGCTGGATTATATTTTGGGAATGCCGCT
Found at i:83458042 original size:93 final size:93
Alignment explanation
Indices: 83457930--83458102 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
83457920 CGCCCATAAG
* * *
83457930 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTGAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
83457995 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
83458023 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
83458088 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
83458103 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:83458098 original size:46 final size:46
Alignment explanation
Indices: 83457923--83458098 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
83457913 TGTAACCCGC
* *
83457923 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
83457969 CCATAAGTGAACTCGGACTGAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
83458019 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
83458062 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
83458099 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:83458117 original size:46 final size:45
Alignment explanation
Indices: 83457974--83458117 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
83457964 CGCATCCATA
* * * *
83457974 AGTGAACTCGGACTGAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
83458022 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
83458067 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
83458113 AGTGA
1 AGTGA
83458118 TATGTCACTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.49
47 29 0.38
48 5 0.07
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:83460533 original size:30 final size:30
Alignment explanation
Indices: 83460489--83460577 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
83460479 CAAAGATAAC
*
83460489 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
83460518 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* *
83460548 AAGAAATCCAGG-ATAAAGAAACCCAAGATA
1 AAGAAA-CCCGGAATAAAGAAATCCAAGATA
83460578 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 36 0.71
31 6 0.12
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:83460537 original size:15 final size:14
Alignment explanation
Indices: 83460489--83460571 Score: 67
Period size: 15 Copynumber: 5.6 Consensus size: 14
83460479 CAAAGATAAC
*
83460489 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
83460503 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
83460518 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
83460533 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* *
83460548 AAGAAATCCAGGATA
1 AAGAAA-CCCGAATA
83460563 AAGAAACCC
1 AAGAAACCC
83460572 AAGATACGAT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
14 11 0.19
15 43 0.75
16 3 0.05
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:83460577 original size:15 final size:15
Alignment explanation
Indices: 83460500--83460577 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
83460490 AGAAAACCGA
83460500 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
83460515 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
83460529 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
83460544 AATAAAGAAATCCAGG
1 -ATAAAGAAATCCAAG
*
83460560 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
83460575 ATA
1 ATA
83460578 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 3 0.06
15 46 0.88
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:83463610 original size:93 final size:93
Alignment explanation
Indices: 83463498--83463670 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
83463488 CGCCCATAAG
* * *
83463498 CGAACTCGGACTCAACTCAACGAGCTCGGGCG-TTCGCATCCATAAGTGAACTCGGACTGAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTT-GCATCCATAAGTGAACTAGGACTCAACTC
83463562 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
*
83463591 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTTGCATCCATAAGTGAACTAGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTTGCATCCATAAGTGAACTAGGACTCAACTCA
*
83463656 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
83463671 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTTGCATCCATAAGTGAACTAGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:83463666 original size:46 final size:46
Alignment explanation
Indices: 83463491--83463666 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
83463481 TGTAACCCGC
*
83463491 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCG-TTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTT-GCAT
* * * *
83463537 CCATAAGTGAACTCGGACTGAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-C---TTGCAT
* *
83463587 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTTGCAT
* * *
83463630 CCATAAGTGAACTAGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
83463667 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 64 0.59
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTTGCAT
Found at i:83465386 original size:31 final size:31
Alignment explanation
Indices: 83465343--83465421 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
83465333 TTTAACGGTT
83465343 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
*
83465374 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
* *
83465405 ATTGGGTTGAAGCCTTT
1 ACTGGGCTGAAGCCTTT
83465422 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (31 bp):
ACTGGGCTGAAGCCTTTTCATAAATCATATC
Found at i:83465752 original size:52 final size:51
Alignment explanation
Indices: 83465627--83465769 Score: 220
Period size: 52 Copynumber: 2.8 Consensus size: 51
83465617 CTGGAGGCCT
83465627 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCGA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCGA
* *
83465676 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGC-GA
*
83465728 AGCCCTTTTCAATAAACGGGGGCATAAGCCCTTTTCGGTAAA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAA
83465770 TTTTCAATAA
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
48 5 0.06
49 7 0.08
50 9 0.10
51 24 0.28
52 41 0.48
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCGA
Found at i:83465769 original size:26 final size:26
Alignment explanation
Indices: 83465640--83465769 Score: 183
Period size: 26 Copynumber: 5.1 Consensus size: 26
83465630 CTCTTTTAAT
83465640 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
83465665 AACTGGGGC-GAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
83465690 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
83465716 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
83465742 AACGGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
83465768 AA
1 AA
83465770 TTTTCAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
25 30 0.33
26 61 0.67
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:83466628 original size:27 final size:27
Alignment explanation
Indices: 83466598--83466662 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
83466588 GGGCATATTT
83466598 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
83466625 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
83466652 GTCTTTTTACC
1 GTCATTTTACC
83466663 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:83466664 original size:26 final size:28
Alignment explanation
Indices: 83466620--83466671 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
83466610 TACAAGGGTA
83466620 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
83466647 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
83466672 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:83466746 original size:27 final size:27
Alignment explanation
Indices: 83466720--83466849 Score: 106
Period size: 27 Copynumber: 4.7 Consensus size: 27
83466710 ATCTACAAAC
*
83466720 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
83466747 CAATGGTATTTCTA-TAATTTT-TAAAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
83466776 CAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTATTTC-AGTAATTTTGTAAAT
* ** **
83466803 CAGGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTCAGTAATTTTGTAAA-T
*
83466831 C-AGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
83466850 CACAATCGAG
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.01
27 55 0.64
28 9 0.10
29 20 0.23
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:83466821 original size:56 final size:55
Alignment explanation
Indices: 83466720--83466849 Score: 149
Period size: 56 Copynumber: 2.4 Consensus size: 55
83466710 ATCTACAAAC
*
83466720 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAAAAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTTTAAAAAGT
* * * * *
83466776 CAAGGGTATTTCTA-TAATTTTGTAAATCAGGGGTATTT-TGGTAATTTTACAAATT
1 CAAGGGTATTTC-AGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTTTAAAAAGT
*
83466831 C-AGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
83466850 CACAATCGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
54 16 0.25
55 11 0.17
56 36 0.56
57 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (55 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTAAAAAGT
Found at i:83466871 original size:26 final size:25
Alignment explanation
Indices: 83466842--83466969 Score: 103
Period size: 27 Copynumber: 4.8 Consensus size: 25
83466832 AGGGTATTTC
*
83466842 GGTAATTTCACAATCGAGGGTAAAAT
1 GGTAATTTTA-AATCGAGGGTAAAAT
* *
83466868 GGTAATTTTGTAAGTTGAGGGTAAAAT
1 GGTAA-TTT-TAAATCGAGGGTAAAAT
83466895 GGTAATTTTGTAAATCGAGGGTAAAAT
1 GGTAA-TTT-TAAATCGAGGGTAAAAT
** ***
83466922 AATAATTCTATAAATCGAGGGTACTTT
1 GGTAATT-T-TAAATCGAGGGTAAAAT
83466949 GGTAATTTTACAAGTCGAGGG
1 GGTAATTTTA-AA-TCGAGGG
83466970 CATTTCAATA
Statistics
Matches: 84, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
25 2 0.02
26 10 0.12
27 71 0.85
28 1 0.01
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (25 bp):
GGTAATTTTAAATCGAGGGTAAAAT
Found at i:83466889 original size:53 final size:52
Alignment explanation
Indices: 83466814--83466969 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 52
83466804 AGGGGTATTT
* * *
83466814 TGGTAATTTTACAAATTCAGGGTATTTCGGTAATTTCACAATCGAGGGTAAAA
1 TGGTAATTTTATAAATTGAGGGTATTT-GGTAATTTTACAATCGAGGGTAAAA
* * **
83466867 TGGTAATTTTGTAAGTTGAGGGTAAAATGGTAATTTTGTA-AATCGAGGGTAAAA
1 TGGTAATTTTATAAATTGAGGGT-ATTTGGTAA-TTT-TACAATCGAGGGTAAAA
** * *
83466921 TAATAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGG
1 TGGTAATTTTATAAATTGAGGGTA-TTTGGTAATTTTACAA-TCGAGGG
83466970 CATTTCAATA
Statistics
Matches: 82, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
52 2 0.02
53 30 0.37
54 49 0.60
55 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.35
Consensus pattern (52 bp):
TGGTAATTTTATAAATTGAGGGTATTTGGTAATTTTACAATCGAGGGTAAAA
Found at i:83466891 original size:27 final size:27
Alignment explanation
Indices: 83466853--83466944 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
83466843 GTAATTTCAC
83466853 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
83466880 AGTTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
** * *
83466907 AATCGAGGGTAAAATAATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
83466934 AATCGAGGGTA
1 AATCGAGGGTA
83466945 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:83469246 original size:31 final size:31
Alignment explanation
Indices: 83469209--83469279 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
83469199 TTACGAGGCT
83469209 GAAGCCTTTTCATAAATCATATCACTCGGCC
1 GAAGCCTTTTCATAAATCATATCACTCGGCC
* *
83469240 GAAGCCTTTTCATAAATCATATCATTGGGCC
1 GAAGCCTTTTCATAAATCATATCACTCGGCC
83469271 GAAGCCTTT
1 GAAGCCTTT
83469280 ACTGTAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (31 bp):
GAAGCCTTTTCATAAATCATATCACTCGGCC
Found at i:83469569 original size:26 final size:26
Alignment explanation
Indices: 83469498--83469672 Score: 264
Period size: 26 Copynumber: 6.8 Consensus size: 26
83469488 CTCTTTTAAT
* *
83469498 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
83469523 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
83469548 AACTAGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
83469574 AACTGGGGCATAAGCCCTTTTCCATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* * *
83469600 AACTGGTGCATAAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
83469626 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
83469652 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
83469673 ACACTTCCTC
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
25 32 0.24
26 104 0.76
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:83470500 original size:27 final size:27
Alignment explanation
Indices: 83470470--83470534 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
83470460 GGGCATATTT
83470470 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
83470497 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
83470524 GTCTTTTTACC
1 GTCATTTTACC
83470535 TATTAGGGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:83470618 original size:27 final size:27
Alignment explanation
Indices: 83470588--83470721 Score: 85
Period size: 27 Copynumber: 4.9 Consensus size: 27
83470578 GTAAATCTAC
*
83470588 AAACTAAGGGCATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTGT
* *
83470615 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTTC-AGTAATTTTGT
* *
83470641 AAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAACT-AAGGGTATTTCAGTAATTTTGT
* ** **
83470671 AAA-TCAGGGGTATTTTGGTAATTTTAC
1 AAACT-AAGGGTATTTCAGTAATTTTGT
* * *
83470698 AAATTGAGGGTATTTCGGTAATTT
1 AAACTAAGGGTATTTCAGTAATTT
83470722 CACAATCGAG
Statistics
Matches: 85, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
26 1 0.01
27 58 0.68
28 8 0.09
29 17 0.20
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AAACTAAGGGTATTTCAGTAATTTTGT
Found at i:83470693 original size:56 final size:54
Alignment explanation
Indices: 83470593--83470721 Score: 134
Period size: 56 Copynumber: 2.4 Consensus size: 54
83470583 TCTACAAACT
* *
83470593 AAGGGCATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAAAAAGTC
1 AAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTTTAAAAA-TC
* * * * * *
83470649 AAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTTTAAAAATC
* *
83470703 GAGGGTATTTCGGTAATTT
1 AAGGGTATTTCAGTAATTT
83470722 CACAATCGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 18 0.29
55 9 0.15
56 35 0.56
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTTTAAAAATC
Found at i:83470726 original size:27 final size:26
Alignment explanation
Indices: 83470678--83470735 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
83470668 TGTAAATCAG
* * *
83470678 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTCAC-AATCGA
83470705 GGGTATTTCGGTAATTTCACAATCGA
1 GGGTATTTCGGTAATTTCACAATCGA
83470731 GGGTA
1 GGGTA
83470736 AAACGGTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.38
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTCACAATCGA
Found at i:83470789 original size:27 final size:27
Alignment explanation
Indices: 83470687--83470816 Score: 102
Period size: 27 Copynumber: 4.9 Consensus size: 27
83470677 GGGGTATTTT
* * ***
83470687 GGTAATTTTACAAATTGAGGGTATTTC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* *
83470714 GGTAATTTCA-CAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
* * * *
83470740 GGTAATTTTGTAAA-CTTATGGTAAAAT
1 GGTAATTTTATAAATC-GAGGGTAAAAC
*
83470767 GGTAATTTTTTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAAAAC
** *
83470794 AATAATTCTATAAATCGAGGGTA
1 GGTAATTTTATAAATCGAGGGTA
83470817 CTTTGGTAAT
Statistics
Matches: 80, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
26 20 0.25
27 59 0.74
28 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTTTATAAATCGAGGGTAAAAC
Found at i:83475694 original size:34 final size:33
Alignment explanation
Indices: 83475637--83475700 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
83475627 GTGTTTACAT
83475637 ACTGTACTAAAATGGGCTAAGGCCCAGACTGCC
1 ACTGTACTAAAATGGGCTAAGGCCCAGACTGCC
* * *
83475670 ACTGATACTGAAATGGGCTCAGGCCTAGACT
1 ACTG-TACTAAAATGGGCTAAGGCCCAGACT
83475701 ATTATTGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (33 bp):
ACTGTACTAAAATGGGCTAAGGCCCAGACTGCC
Found at i:83476361 original size:60 final size:60
Alignment explanation
Indices: 83476294--83476433 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 60
83476284 GGGTGTTACA
* *
83476294 ATCCCTTTTCATAATATGATAGCT-G-AAGCCATACTTTTTCATAATTTGGTGGTCGTCACC
1 ATCCCTTTTCATAAT-TGATAGCTCGTAA-CCATACCTTTTCATAATTTGATGGTCGTCACC
* * *
83476354 ATCCCTTTTCATAATTTGAT-GGTCGTCACCATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAA-TTGATAGCTCGTAACCATACCTTTTCATAATTTGATGGTCGTCACC
*
83476414 TTCCCTTTTCATAATTGATA
1 ATCCCTTTTCATAATTGATA
83476434 ATTAAAACTA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
59 7 0.10
60 61 0.87
61 2 0.03
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.41
Consensus pattern (60 bp):
ATCCCTTTTCATAATTGATAGCTCGTAACCATACCTTTTCATAATTTGATGGTCGTCACC
Found at i:83476363 original size:30 final size:30
Alignment explanation
Indices: 83476329--83476429 Score: 184
Period size: 30 Copynumber: 3.4 Consensus size: 30
83476319 AAGCCATACT
*
83476329 TTTTCATAATTTGGTGGTCGTCACCATCCC
1 TTTTCATAATTTGATGGTCGTCACCATCCC
83476359 TTTTCATAATTTGATGGTCGTCACCATCCC
1 TTTTCATAATTTGATGGTCGTCACCATCCC
*
83476389 TTTTCATAATTTGATGGTCGTCACCTTCCC
1 TTTTCATAATTTGATGGTCGTCACCATCCC
83476419 TTTTCATAATT
1 TTTTCATAATT
83476430 GATAATTAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.44
Consensus pattern (30 bp):
TTTTCATAATTTGATGGTCGTCACCATCCC
Found at i:83478249 original size:24 final size:24
Alignment explanation
Indices: 83478221--83478270 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
83478211 CAACATGTTA
83478221 TGTTGTGCATAAAAAGGATGTTTT
1 TGTTGTGCATAAAAAGGATGTTTT
83478245 TGTTGTGCATAAAAAGGATGTTTT
1 TGTTGTGCATAAAAAGGATGTTTT
83478269 TG
1 TG
83478271 ATTGGTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (24 bp):
TGTTGTGCATAAAAAGGATGTTTT
Found at i:83482857 original size:18 final size:18
Alignment explanation
Indices: 83482810--83482859 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
83482800 AACAAAGGTT
83482810 AAAATAATAA-TT-AATAA
1 AAAATAA-AATTTAAATAA
*
83482827 ATAAATATTAATTTAAATAA
1 A-AAATA-AAATTTAAATAA
83482847 AAAATAAAATTTA
1 AAAATAAAATTTA
83482860 CGCTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.04
18 13 0.48
19 7 0.26
20 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATAAAATTTAAATAA
Found at i:83483638 original size:15 final size:15
Alignment explanation
Indices: 83483606--83483634 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
83483596 AATTTCTGTG
83483606 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
83483621 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
83483635 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:83484800 original size:43 final size:42
Alignment explanation
Indices: 83484753--83484912 Score: 153
Period size: 43 Copynumber: 3.8 Consensus size: 42
83484743 ATGTGTGCAA
* *
83484753 GTAAGACCATGTCTGGGACGTTGGCATTGATATGTGATTATGT
1 GTAAGACCATATCTGGGACGTTGGCATTG-TATGTGATTACGT
* * * * * *
83484796 GTAAGACCATATGTAGGACATTGACATCGTATTTGATT-CGT
1 GTAAGACCATATCTGGGACGTTGGCATTGTATGTGATTACGT
* * * *
83484837 GTAAGACCCTGTCTGAGACAG-TGGCATTGATATGTGATTACAT
1 GTAAGACCATATCTGGGAC-GTTGGCATTG-TATGTGATTACGT
* *
83484880 GTAAGACCACATTTGGGACGTTGGCATTGTATG
1 GTAAGACCATATCTGGGACGTTGGCATTGTATG
83484913 ATATGTGATT
Statistics
Matches: 90, Mismatches: 23, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
41 22 0.24
42 21 0.23
43 47 0.52
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (42 bp):
GTAAGACCATATCTGGGACGTTGGCATTGTATGTGATTACGT
Found at i:83493575 original size:93 final size:93
Alignment explanation
Indices: 83493466--83493637 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
83493456 GCCCATAAGT
* * *
83493466 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
83493531 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
83493559 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
83493624 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
83493638 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:83493633 original size:46 final size:46
Alignment explanation
Indices: 83493458--83493633 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
83493448 TGTAACCAGC
* * *
83493458 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
83493504 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
83493554 CTC-T---CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
83493597 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
83493634 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.58
47 27 0.25
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:83498098 original size:27 final size:27
Alignment explanation
Indices: 83498068--83498235 Score: 183
Period size: 27 Copynumber: 6.2 Consensus size: 27
83498058 CAATTTGTAA
**
83498068 AATTACCAAAGTACCCTCGATTTACAG
1 AATTACCAATTTACCCTCGATTTACAG
**
83498095 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAATTTACCCTCGATTTACAG
** * *
83498122 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCAATTTACCCTCGATTTACAG
* * *
83498149 AATTACCATTTTACCTTCAATTTACAG
1 AATTACCAATTTACCCTCGATTTACAG
* * *
83498176 AATTATCGATTTACCCTCGATTTACAA
1 AATTACCAATTTACCCTCGATTTACAG
** *
83498203 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCAATTTACCCTCGATTTACAG
83498230 AATTAC
1 AATTAC
83498236 TAAAATACCC
Statistics
Matches: 124, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (27 bp):
AATTACCAATTTACCCTCGATTTACAG
Found at i:83498126 original size:54 final size:54
Alignment explanation
Indices: 83498068--83498263 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
83498058 CAATTTGTAA
* *
83498068 AATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
*** * * * * * *
83498122 AATTACCGTTTTACCCTCAATTTATAGAATTACCATTTTACCTTCAATTTACAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
* * * *
83498176 AATTATCGATTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
* * *
83498230 AATTACTAAAATACCCT-TAGTTTACAAAATTACC
1 AATTACCAAATTACCCTCGA-TTTACAAAATTACC
83498264 AAAATACCCC
Statistics
Matches: 117, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
53 1 0.01
54 116 0.99
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (54 bp):
AATTACCAAATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAG
Found at i:83498172 original size:81 final size:81
Alignment explanation
Indices: 83498055--83498263 Score: 265
Period size: 81 Copynumber: 2.6 Consensus size: 81
83498045 ACTAAAATGT
* * *
83498055 CCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTAC
1 CCTCAATTTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACCGATTTACCCTCGATTTAC
*
83498120 AGAATTACCGTTTTAC
66 AAAATTACCGTTTTAC
* *** * *
83498136 CCTCAATTTATAGAATTACCATTTTACCTTCAATTTACAGAATTATCGATTTACCCTCGATTTAC
1 CCTCAATTTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACCGATTTACCCTCGATTTAC
83498201 AAAATTACCGTTTTAC
66 AAAATTACCGTTTTAC
* * * * * * *
83498217 CCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACC
1 CCTCAATTTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACC
83498264 AAAATACCCC
Statistics
Matches: 106, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 106 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.36
Consensus pattern (81 bp):
CCTCAATTTATAAAATTACCAAAGTACCCTCAATTTACAGAATTACCGATTTACCCTCGATTTAC
AAAATTACCGTTTTAC
Found at i:83498244 original size:27 final size:27
Alignment explanation
Indices: 83498034--83498354 Score: 146
Period size: 27 Copynumber: 11.9 Consensus size: 27
83498024 AATACTTTAG
* * ** *
83498034 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
83498061 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
83498088 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* **** *
83498115 TTTACAGAATTACCGTTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *** * *
83498142 TTTATAGAATTACCATTTTACCTTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* * * **
83498169 TTTACAGAATTATCGATTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
****
83498196 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *
83498223 TTTACAAAATTACTAAAATACCCT-TA
1 TTTACAAAATTACCAAAATACCCTCGA
*
83498249 GTTTACAAAATTACCAAAATACCC-CTA
1 -TTTACAAAATTACCAAAATACCCTCGA
** *
83498276 GTTTGTAAAATTACCAAAATACCACT-GG
1 -TTTACAAAATTACCAAAATACC-CTCGA
*** * *
83498304 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
**
83498331 TTTGTAAAATTA-CAGAAATACCCT
1 TTTACAAAATTACCA-AAATACCCT
83498355 TAACTTTCTA
Statistics
Matches: 243, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.02
27 238 0.98
28 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:83498272 original size:54 final size:54
Alignment explanation
Indices: 83498196--83498416 Score: 146
Period size: 54 Copynumber: 4.1 Consensus size: 54
83498186 TTACCCTCGA
****
83498196 TTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACTAAAATACCCTTAG
* ** * *
83498250 TTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACCCTCGA-TTTACAAAATTACTAAAATACC-CTTAG
*** * * ** *
83498304 TTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTAC-AGAAATACCCTTAAC
1 TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACTA-AAATACCCTT-AG
* * * * *
83498359 TTT-CTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAATACCCTTGG
1 TTTAC--AAAATTACCA-AAATACCCTCGATTTACAAAATTACTAAAATACCCTTAG
83498414 TTT
1 TTT
83498417 GTAGATTTAC
Statistics
Matches: 129, Mismatches: 28, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
53 4 0.03
54 80 0.62
55 9 0.07
56 35 0.27
57 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (54 bp):
TTTACAAAATTACCAAAATACCCTCGATTTACAAAATTACTAAAATACCCTTAG
Found at i:83498405 original size:27 final size:27
Alignment explanation
Indices: 83498223--83498416 Score: 135
Period size: 27 Copynumber: 7.1 Consensus size: 27
83498213 TTACCCTCGA
*
83498223 TTTACAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCTTAG
*
83498250 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTAG
** *
83498277 TTTGTAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTAG
*** * * *
83498304 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTAG
** *
83498331 TTTGTAAAATTA-CAGAAATACCCTTAAC
1 TTTACAAAATTACCA-AAATACCCTT-AG
* * *
83498359 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACCA-AAATACCCTTAG
* *
83498387 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTAG
83498414 TTT
1 TTT
83498417 GTAGATTTAC
Statistics
Matches: 139, Mismatches: 20, Indels: 16
0.79 0.11 0.09
Matches are distributed among these distances:
26 2 0.01
27 108 0.78
28 10 0.07
29 19 0.14
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTAG
Found at i:83498475 original size:137 final size:137
Alignment explanation
Indices: 83498228--83498476 Score: 306
Period size: 137 Copynumber: 1.8 Consensus size: 137
83498218 CTCGATTTAC
*
83498228 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCATTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
* ** * * **
83498293 AATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACAGAAATACCCTTAA
66 AACACCACTGGTAGGTGAAATGACCAAAATACCCTCAATAGGTAAAATTACAGAAATACCCTTAA
83498358 CTTTCTA
131 CTTTCTA
* * * * * *
83498365 AAAATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAATACCCTTGGTTTGTAGATTTACCA
1 AAAATTACTA-AAATACCATTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
* *
83498429 AAACACC-CTTGTAGGATGAAATGACTAAAATACCC-CTAATAGGTAAAA
65 AAACACCACTGGTAGG-TGAAATGACCAAAATACCCTC-AATAGGTAAAA
83498477 AGACCGTAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
136 8 0.09
137 85 0.91
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (137 bp):
AAAATTACTAAAATACCATTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
AACACCACTGGTAGGTGAAATGACCAAAATACCCTCAATAGGTAAAATTACAGAAATACCCTTAA
CTTTCTA
Found at i:83498500 original size:27 final size:27
Alignment explanation
Indices: 83498470--83498530 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
83498460 ACCCCTAATA
83498470 GGTAAAAAGACCGTAA-AGCCCCTGCAG
1 GGTAAAAAGACCGTAATA-CCCCTGCAG
** * *
83498497 GGTAAAGTGACCGTAATACCCCTGTAT
1 GGTAAAAAGACCGTAATACCCCTGCAG
83498524 GGTAAAA
1 GGTAAAA
83498531 TAACGAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGCAG
Found at i:83499658 original size:31 final size:30
Alignment explanation
Indices: 83499608--83499690 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
83499598 CGCTTACAGT
*
83499608 AAAGGCTTCGACCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
83499638 AAAGGCTTCGGCTCAGTGATATGATTTATGA
1 AAAGGCTTCGGC-CAGTGATATGATTTATGA
83499669 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
83499691 TCAAGACTGA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 16 0.32
31 33 0.66
32 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:83502391 original size:16 final size:15
Alignment explanation
Indices: 83502358--83502386 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
83502348 ATTTTCTATG
83502358 TTTATTGTGTGTGAA
1 TTTATTGTGTGTGAA
83502373 TTTA-TGTGTGTGAA
1 TTTATTGTGTGTGAA
83502387 AATTTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TTTATTGTGTGTGAA
Found at i:83507036 original size:20 final size:20
Alignment explanation
Indices: 83507011--83507049 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
83507001 TGCCAATAGG
83507011 GTTTGCACTTTGGTACCTCT
1 GTTTGCACTTTGGTACCTCT
* *
83507031 GTTTGCAGTTTGGTGCCTC
1 GTTTGCACTTTGGTACCTC
83507050 AATTAACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.23, G:0.26, T:0.44
Consensus pattern (20 bp):
GTTTGCACTTTGGTACCTCT
Found at i:83509822 original size:27 final size:26
Alignment explanation
Indices: 83509778--83509829 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
83509768 CTTGCTGCAA
*
83509778 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
83509805 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
83509830 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:83519506 original size:27 final size:27
Alignment explanation
Indices: 83519468--83519523 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
83519458 AAGAGGTAAA
83519468 AGATGACACAAAAAAGGAGTGTGGTGT
1 AGATGACACAAAAAAGGAGTGTGGTGT
83519495 AGATGACACAAAAAAGGAGTGTGGTGT
1 AGATGACACAAAAAAGGAGTGTGGTGT
83519522 AG
1 AG
83519524 TGGCAAGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.34, T:0.18
Consensus pattern (27 bp):
AGATGACACAAAAAAGGAGTGTGGTGT
Found at i:83520418 original size:27 final size:26
Alignment explanation
Indices: 83520374--83520425 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
83520364 CTCGCTGCAA
*
83520374 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
83520401 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
83520426 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:83520479 original size:31 final size:32
Alignment explanation
Indices: 83520441--83520502 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
83520431 CTCGCTGCAA
* *
83520441 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
83520472 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
83520503 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:83528934 original size:20 final size:20
Alignment explanation
Indices: 83528906--83528944 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
83528896 ATAAAATTTA
83528906 TTTAGAATATATAAACTATAT
1 TTTAGAATATATAAA-TATAT
*
83528927 TTTA-AATATTTAAATATA
1 TTTAGAATATATAAATATA
83528945 ACCATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTTAGAATATATAAATATAT
Found at i:83531179 original size:21 final size:21
Alignment explanation
Indices: 83531153--83531195 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
83531143 AATATCCCTT
*
83531153 ATACGGGACTACGAGGCCCAA
1 ATACGGGACTAAGAGGCCCAA
*
83531174 ATACGGGCCTAAGAGGCCCAA
1 ATACGGGACTAAGAGGCCCAA
83531195 A
1 A
83531196 ACATACATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.28, G:0.28, T:0.09
Consensus pattern (21 bp):
ATACGGGACTAAGAGGCCCAA
Found at i:83532885 original size:73 final size:73
Alignment explanation
Indices: 83532766--83532910 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
83532756 CCAATCTGTG
83532766 TACTAGTCGTTTTAAAAATCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCC
1 TACTAGTCGTTTTAAAAATCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCC
83532831 CAGAAACA
66 CAGAAACA
*
83532839 TACTAGTCGTTTTAAAAATCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCT
1 TACTAGTCGTTTTAAAAATCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCC
83532904 CAGAAAC
66 CAGAAAC
83532911 TAGACTCATG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (73 bp):
TACTAGTCGTTTTAAAAATCATATCTTGAGTTTCGTAACTCGAAAATCAGTTTCGTAATTTTTCC
CAGAAACA
Found at i:83540376 original size:27 final size:27
Alignment explanation
Indices: 83540346--83540523 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
83540336 ATATTGAGTC
* *
83540346 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
83540373 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
83540400 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** * *
83540428 CGCACACTTAGTGCCGCATGGTCTATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
83540455 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
83540482 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
83540509 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83540524 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:83540485 original size:82 final size:81
Alignment explanation
Indices: 83540372--83540522 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
83540362 TATAATCAAC
* *
83540372 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
83540437 AGTGCCGCATGGTCTAT
65 AGTGCCGCATGGTCTAT
* **
83540454 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
83540518 AGTGC
65 AGTGC
83540523 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCTAT
Found at i:83543877 original size:169 final size:168
Alignment explanation
Indices: 83543598--83543934 Score: 579
Period size: 169 Copynumber: 2.0 Consensus size: 168
83543588 AAATAAAATT
*
83543598 AAAATTAAAAATTAAGAGAGACTAGGTCTTTCCACTTTTTTTTGTAAAAATATAAGAACTCTAGA
1 AAAATTAAAAATTAAGAGAGACTAGGTCTTACCACTTTTTTTTGTAAAAATATAAGAACTCTAGA
*
83543663 AATTAATAATAATAATGAAGAAAATGATGAGAATTAAAAAGAAGAG-TTGGAGGGTTTGTGGCTT
66 AATTAATAATAATAATGAAGAAAAAGATGAGAATTAAAAAGAAGAGCTT-GAGGGTTTGTGGCTT
*
83543727 AAGGTGGATTGAAGAGGAATACCGCACAAGCAGCTAGGG
130 AAGGTGGATGGAAGAGGAATACCGCACAAGCAGCTAGGG
83543766 NAAAATTAAAAAATTAAGAGAGACTAGGTCTTACCAC-TTTTTTTGTAAAAATATAAGAACTCTA
1 -AAAATT-AAAAATTAAGAGAGACTAGGTCTTACCACTTTTTTTTGTAAAAATATAAGAACTCTA
*
83543830 GAAATTAATAATAATAATGAAGAAAAAGATGAGAATTTAAAAGAAGAGCTTGAGGGTTTGTGGCT
64 GAAATTAATAATAATAATGAAGAAAAAGATGAGAATTAAAAAGAAGAGCTTGAGGGTTTGTGGCT
* *
83543895 TAGGGTGGATGGAAGAGGAATGCCGCACAAGCAGCTAGGG
129 TAAGGTGGATGGAAGAGGAATACCGCACAAGCAGCTAGGG
83543935 TGTGCGGGCG
Statistics
Matches: 160, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
169 130 0.81
170 30 0.19
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (168 bp):
AAAATTAAAAATTAAGAGAGACTAGGTCTTACCACTTTTTTTTGTAAAAATATAAGAACTCTAGA
AATTAATAATAATAATGAAGAAAAAGATGAGAATTAAAAAGAAGAGCTTGAGGGTTTGTGGCTTA
AGGTGGATGGAAGAGGAATACCGCACAAGCAGCTAGGG
Found at i:83546022 original size:39 final size:40
Alignment explanation
Indices: 83545968--83546107 Score: 187
Period size: 39 Copynumber: 3.5 Consensus size: 40
83545958 TAATGGAGAA
*
83545968 TTATATCCGAGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
*
83546007 TTATATCCGGGCT-AAGTCCCGGAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
83546046 TTATATCCGTGCTAAAGTCCCGTAGGC-TTTGTGCTAGTA
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
83546085 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-TAAAGTCCCG
83546108 CATGCTTTGT
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 69 0.76
40 22 0.24
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (40 bp):
TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:83549182 original size:28 final size:28
Alignment explanation
Indices: 83549136--83549233 Score: 72
Period size: 28 Copynumber: 3.5 Consensus size: 28
83549126 TCTTCGATGT
* * *
83549136 CTCGTACACTATGTACTATACTCGATAC
1 CTCGCACACTAAGTGCTATACTCGATAC
* * **
83549164 CTCGCACACTAAGTGCTATTCTGGATGT
1 CTCGCACACTAAGTGCTATACTCGATAC
* * *
83549192 TTCGCACACTAAGTG-TCATCCTTGATAC
1 CTCGCACACTAAGTGCT-ATACTCGATAC
* *
83549220 TTTGCACACTAAGT
1 CTCGCACACTAAGT
83549234 TCCATTTATA
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 1 0.02
28 55 0.98
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (28 bp):
CTCGCACACTAAGTGCTATACTCGATAC
Found at i:83549313 original size:40 final size:40
Alignment explanation
Indices: 83549248--83549421 Score: 181
Period size: 40 Copynumber: 4.2 Consensus size: 40
83549238 TTTATATATA
*
83549248 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCACTTT
* * * *
83549288 TAGCCGAAGCTATTTCGAATCGCACACTAAGTGCCATTTATATATAT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCC----A-CT-T-T
83549335 ATAGCCGAAGCTATCTCAAA-CTGCACACCAAGTGCCACTTT
1 -TAGCCGAAGCTATCTCAAATC-GCACACCAAGTGCCACTTT
* * *
83549376 TAGCCGAAGCTATTTCAAACCGCACACTAAGTGCCA-TTT
1 TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCACTTT
83549415 TAGCCGA
1 TAGCCGA
83549422 TAATGTGACA
Statistics
Matches: 113, Mismatches: 11, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
39 10 0.09
40 63 0.56
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 1 0.01
46 1 0.01
47 2 0.02
48 30 0.27
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAATCGCACACCAAGTGCCACTTT
Done.