Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 130 of 425
Found at i:38856803 original size:31 final size:31
Alignment explanation
Indices: 38856768--38856835 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
38856758 AAATGATAGC
*
38856768 AATTTATAAAAATTA-ACATAAAAAATA-TAAA
1 AATTTATAAAAAGTATA-A-AAAAAATAGTAAA
* *
38856799 AATTTATCAAAAGTATAAAAAAAGTAGTAAA
1 AATTTATAAAAAGTATAAAAAAAATAGTAAA
38856830 AATTTA
1 AATTTA
38856836 AAATATACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 7 0.22
31 24 0.75
32 1 0.03
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (31 bp):
AATTTATAAAAAGTATAAAAAAAATAGTAAA
Found at i:38857166 original size:15 final size:16
Alignment explanation
Indices: 38857146--38857177 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38857136 AAAATTTTAA
38857146 AAAGTTA-TAAAAATT
1 AAAGTTATTAAAAATT
38857161 AAAGTTATTAAAAATT
1 AAAGTTATTAAAAATT
38857177 A
1 A
38857178 TTAAATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
AAAGTTATTAAAAATT
Found at i:38858643 original size:25 final size:27
Alignment explanation
Indices: 38858588--38858644 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
38858578 AAAAAATTTA
* *
38858588 TTTATAAAATTATAAATTACATTAATG
1 TTTATAAAATTATAAATTAAAATAATG
* *
38858615 TTTATAAAATT-T-AATTAAAATGATT
1 TTTATAAAATTATAAATTAAAATAATG
38858640 TTTAT
1 TTTAT
38858645 GACGACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 14 0.54
26 1 0.04
27 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (27 bp):
TTTATAAAATTATAAATTAAAATAATG
Found at i:38860701 original size:13 final size:13
Alignment explanation
Indices: 38860683--38860725 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
38860673 TCAAGCTGTT
38860683 ACACGGTCTAGTG
1 ACACGGTCTAGTG
38860696 ACACGGTCTAGTG
1 ACACGGTCTAGTG
*
38860709 ACACAGTCTAGTG
1 ACACGGTCTAGTG
38860722 ACAC
1 ACAC
38860726 AGTTGTGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (13 bp):
ACACGGTCTAGTG
Found at i:38861927 original size:48 final size:47
Alignment explanation
Indices: 38861852--38862024 Score: 141
Period size: 48 Copynumber: 3.6 Consensus size: 47
38861842 AGATCCCGTA
* *
38861852 TAAGACCATATCTGGGATATGGGATTGGCATTGGTATGTGTTATCATG
1 TAAGACCATATCTGGGACATGGCATTGGCATTGGTATG-GTTATCATG
* * * * * **
38861900 TAAGACCATGTTTGGGACATGGCATTGGCATCGACATATGAGATCCCATG
1 TAAGACCATATCTGGGACATGGCATTGGCATTG--GTATG-GTTATCATG
* * * * * *
38861950 TAAGACCATGTTTGGGACATGTCATTGGCA-TCGTTTGGTGATCCTATG
1 TAAGACCATATCTGGGACATGGCATTGGCATTGGTATGGTTAT-C-ATG
*
38861998 TAAGACCATATCTGGGATATGGCATTG
1 TAAGACCATATCTGGGACATGGCATTG
38862025 ACATCTTACT
Statistics
Matches: 98, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
46 1 0.01
47 4 0.04
48 54 0.55
50 39 0.40
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (47 bp):
TAAGACCATATCTGGGACATGGCATTGGCATTGGTATGGTTATCATG
Found at i:38861958 original size:50 final size:48
Alignment explanation
Indices: 38861896--38862029 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 48
38861886 TATGTGTTAT
38861896 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCGACATAT-GAGATCC
1 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCG---TATGGAGATCC
* * *
38861946 CATGTAAGACCATGTTTGGGACATGTCATTGGCATCGTTTGGTGATCC
1 CATGTAAGACCATGTTTGGGACATGGCATTGGCATCGTATGGAGATCC
* * * * *
38861994 TATGTAAGACCATATCTGGGATATGGCATTGACATC
1 CATGTAAGACCATGTTTGGGACATGGCATTGGCATC
38862030 TTACTATGTG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 2 0.03
48 36 0.49
50 36 0.49
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (48 bp):
CATGTAAGACCATGTTTGGGACATGGCATTGGCATCGTATGGAGATCC
Found at i:38862284 original size:32 final size:33
Alignment explanation
Indices: 38862261--38862323 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
38862251 TGAGGTAGGG
38862261 TAACTACAATGATTATTGAGAATGA-GACGAGA
1 TAACTACAATGATTATTGAGAATGAGGACGAGA
*
38862293 TGACTACAATGATTATTGAGAATGA-GACGAG
1 TAACTACAATGATTATTGAGAATGAGGACGAG
38862324 TCAAGTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (33 bp):
TAACTACAATGATTATTGAGAATGAGGACGAGA
Found at i:38872884 original size:76 final size:76
Alignment explanation
Indices: 38872803--38872956 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
38872793 TATATATTAT
* * *
38872803 ATATATGTATGCATGTGTCAATGCCTTGTTAGTGATGTAGTTTATTAATGCTTGGCAAATGGTTG
1 ATATATGCATGCATGTGTCAATGCCTTGTGAGTGATGTAGTTTATTAATGCTTGACAAATGGTTG
*
38872868 AGTGTGGCTTA
66 AGTATGGCTTA
38872879 ATATATGCATGCATGTGTCAATGCCTTGTGAGTGATGTAGTTTATTAATGCTTGACAAATGGTTG
1 ATATATGCATGCATGTGTCAATGCCTTGTGAGTGATGTAGTTTATTAATGCTTGACAAATGGTTG
38872944 AGTATGGCTTA
66 AGTATGGCTTA
38872955 AT
1 AT
38872957 GGGTTGTTGA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (76 bp):
ATATATGCATGCATGTGTCAATGCCTTGTGAGTGATGTAGTTTATTAATGCTTGACAAATGGTTG
AGTATGGCTTA
Found at i:38879119 original size:47 final size:47
Alignment explanation
Indices: 38879060--38879500 Score: 693
Period size: 47 Copynumber: 9.4 Consensus size: 47
38879050 GATGTACAAG
* ** *
38879060 GTGTGTATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
38879107 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
38879154 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
38879201 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
38879248 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
38879295 GTGTATGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
38879342 GTATATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
38879389 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
38879436 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
38879483 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
38879501 TCCCGAAGGG
Statistics
Matches: 366, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 366 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:38886287 original size:78 final size:80
Alignment explanation
Indices: 38886199--38886345 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 80
38886189 ATAGCGACTT
* * * *
38886199 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CTTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
38886261 CCGGAGTTATTAACTC
65 CCGGAGTTATTAACTC
** *
38886277 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
38886342 CGGA
66 CGGA
38886346 CATCATTCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.51
79 15 0.25
80 11 0.19
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGAGTTATTAACTC
Found at i:38886345 original size:40 final size:39
Alignment explanation
Indices: 38886164--38886345 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 39
38886154 GACTCGCTCA
** * **
38886164 AATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
38886203 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* *
38886243 AATGCCTTCGGG-CTTAGCCCGGAGT-TATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTGCAC
* * *
38886281 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCAC
*
38886322 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38886346 CATCATTCGA
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 64 0.55
41 7 0.06
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
Found at i:38890088 original size:39 final size:40
Alignment explanation
Indices: 38889980--38890133 Score: 222
Period size: 39 Copynumber: 3.9 Consensus size: 40
38889970 TGTTCAAACA
* * * * * *
38889980 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTG
*
38890020 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTG
38890060 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTG
*
38890099 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGACTTAGCCCGGATATCACAACTCGCACA
38890134 TTCATACACA
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 64 0.61
40 41 0.39
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:38890093 original size:79 final size:79
Alignment explanation
Indices: 38889980--38890133 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 79
38889970 TGTTCAAACA
* * *
38889980 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
1 CCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGG-CTTAACCCGGATATCA
38890045 CAACTCGCACAATTG
65 CAACTCGCACAATTG
* * * *
38890060 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCAC
*
38890124 AATTCGCACA
66 AACTCGCACA
38890134 TTCATACACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
78 25 0.38
79 33 0.50
80 8 0.12
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACATAGCCCGGATATCACAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCAC
AACTCGCACAATTG
Found at i:38893207 original size:28 final size:28
Alignment explanation
Indices: 38893146--38893243 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
38893136 TCACAAATTG
** * *
38893146 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
38893175 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
38893203 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
38893231 GCACTAAGTGTGC
1 GCACTAAGTGTGC
38893244 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:38900887 original size:28 final size:28
Alignment explanation
Indices: 38900826--38900923 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
38900816 TCACAAATTG
** * *
38900826 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
38900855 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
38900883 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
38900911 GCACTAAGTGTGC
1 GCACTAAGTGTGC
38900924 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:38907990 original size:40 final size:39
Alignment explanation
Indices: 38907809--38907990 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 39
38907799 GACTCGCTCA
** * **
38907809 AATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
38907848 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* *
38907888 AATGCCTTCGGG-CTTAGCCCGGAGT-TATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTGCAC
* * * *
38907926 GAATGCCTTC-GAATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCAC
*
38907967 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38907991 CATCATTCGA
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
38 21 0.18
39 23 0.20
40 64 0.56
41 6 0.05
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
Found at i:38911746 original size:39 final size:40
Alignment explanation
Indices: 38911615--38911752 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 40
38911605 GGATATAACG
* * * **
38911615 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCC-GGTTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGGTT-TAGTA
*
38911655 ACTTGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
* * *
38911695 ACTTGCAC-AATGCCTTCGGG-CTTAGCCCGGAG-TTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGG-GTTTAGTA
38911733 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
38911753 ATCCTAGTCC
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
38 21 0.25
39 24 0.28
40 34 0.40
41 6 0.07
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
Found at i:38913831 original size:42 final size:42
Alignment explanation
Indices: 38913778--38913928 Score: 171
Period size: 42 Copynumber: 3.6 Consensus size: 42
38913768 CTAACACTAT
38913778 GTGTAAGACCATATCTGGGATATGACATCTATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGACATCTATATGAGACTTC
* * **
38913820 GTGTAACACCATATCTGAGATACAACAT-TGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGACATCT-ATATGAGACTTC
* * * * *
38913862 GTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGA-TTAC
1 GTGTAAGACCATATCTGGGATA-TGACATCTATATGAGACTT-C
*
38913905 ATGTAAGACCATATCTGGGATATG
1 GTGTAAGACCATATCTGGGATATG
38913929 GAATTGGTAT
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 58 0.65
43 30 0.34
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGACATCTATATGAGACTTC
Found at i:38915498 original size:42 final size:42
Alignment explanation
Indices: 38915434--38915557 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
38915424 CGACTTATGA
* * * *
38915434 TTTACGTGTAAAAACACATCTGGGATGTTGGCATTGTATTTG
1 TTTACATGTAAGACCACGTCTGGGATGTTGGCATTGTATTTG
* ** ***
38915476 ATTT-CGTGTAAGACCTTGTCTGGGACAATGGCATTGATATTTG
1 -TTTACATGTAAGACCACGTCTGGGATGTTGGCATTG-TATTTG
38915519 TTTACATGTAAGACCACGTCTGGGATGTTGGCATTGTAT
1 TTTACATGTAAGACCACGTCTGGGATGTTGGCATTGTAT
38915558 GAGCTTTCTA
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (42 bp):
TTTACATGTAAGACCACGTCTGGGATGTTGGCATTGTATTTG
Found at i:38929457 original size:48 final size:48
Alignment explanation
Indices: 38929395--38929606 Score: 167
Period size: 48 Copynumber: 4.4 Consensus size: 48
38929385 GTGAGTATTT
* * * * *
38929395 AGATCCCATATAAGACCATATTTAGGATATGGCATCGACATCAAAATG
1 AGATCCCGTGTAAGACCATATCTAGGACATGGCATCGACATCAATATG
* * * *
38929443 AGATCTCGTGTAAGACCATATCT-GAGACATGGCATTGGCATCAGTATG
1 AGATCCCGTGTAAGACCATATCTAG-GACATGGCATCGACATCAATATG
* * * * * * *
38929491 AGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATG
1 AGATCCCGTGTAAGACCATATCTAGGACATGGCATCGACATCAATATG
* ** * * * *
38929539 AGGTCCCGTCCAAGATCATGTCTAGGACATGGCATCGACACCATTATG
1 AGATCCCGTGTAAGACCATATCTAGGACATGGCATCGACATCAATATG
**
38929587 AGA-CTTTGTGTAAGACCATA
1 AGATC-CCGTGTAAGACCATA
38929607 GCTGGGCTGT
Statistics
Matches: 125, Mismatches: 36, Indels: 6
0.75 0.22 0.04
Matches are distributed among these distances:
47 2 0.02
48 122 0.98
49 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (48 bp):
AGATCCCGTGTAAGACCATATCTAGGACATGGCATCGACATCAATATG
Found at i:38929568 original size:96 final size:96
Alignment explanation
Indices: 38929395--38929573 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 96
38929385 GTGAGTATTT
* **
38929395 AGATCCCATATAAGACCATATTTAGGATATGGCATCGACATCAAAATGAGATCTCGTGTAAGACC
1 AGATCCCATATAAGACCATATTTAGGATATGGCATCGACATCAAAATGAGATCCCGTCCAAGACC
38929460 ATATCTGAGACATGGCATTGGCATCAGTATG
66 ATATCTGAGACATGGCATTGGCATCAGTATG
* * * * * * * *
38929491 AGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATGAGGTCCCGTCCAAGATC
1 AGATCCCATATAAGACCATATTTAGGATATGGCATCGACATCAAAATGAGATCCCGTCCAAGACC
*
38929556 ATGTCT-AGGACATGGCAT
66 ATATCTGA-GACATGGCAT
38929574 CGACACCATT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 69 0.99
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (96 bp):
AGATCCCATATAAGACCATATTTAGGATATGGCATCGACATCAAAATGAGATCCCGTCCAAGACC
ATATCTGAGACATGGCATTGGCATCAGTATG
Found at i:38942575 original size:39 final size:39
Alignment explanation
Indices: 38942401--38942559 Score: 246
Period size: 39 Copynumber: 4.1 Consensus size: 39
38942391 TGTGAATATA
**
38942401 TATATGCGAGAATTATATCCGGACTTCAGGTCCATAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* * *
38942440 TATAAGCGAGAATTATATCCGCACTTCAAGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
38942479 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
38942518 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
38942557 TAT
1 TAT
38942560 GTGCTGGACA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:38948192 original size:26 final size:26
Alignment explanation
Indices: 38948152--38948205 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
38948142 CGAATACCCT
*
38948152 CTGTAGATGCTACATGTCCAAGAAAA
1 CTGTAGATGCAACATGTCCAAGAAAA
* *
38948178 CTGTGGATGCAACATGTCCAAGGAAA
1 CTGTAGATGCAACATGTCCAAGAAAA
38948204 CT
1 CT
38948206 AACTTCTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CTGTAGATGCAACATGTCCAAGAAAA
Found at i:38953997 original size:71 final size:71
Alignment explanation
Indices: 38953913--38954076 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
38953903 CGATTTGTCT
38953913 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38953978 CTTTCA
66 CTTTCA
38953984 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
38954049 CTTTCA
66 CTTTCA
38954055 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
38954077 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:38954114 original size:71 final size:70
Alignment explanation
Indices: 38953913--38954110 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
38953903 CGATTTGTCT
* * * *
38953913 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38953978 CTTTCA
65 CTTTCA
* * * *
38953984 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
38954049 CTTTCA
65 CTTTCA
* *
38954055 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
38954111 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:38962039 original size:40 final size:40
Alignment explanation
Indices: 38961902--38962116 Score: 298
Period size: 39 Copynumber: 5.5 Consensus size: 40
38961892 AAGCCAAGTA
* * *
38961902 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
38961940 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38961980 CCTT-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38962019 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
38962059 CCTTC-GGACTGAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
38962098 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38962117 TTATCATCCA
Statistics
Matches: 161, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
38 13 0.08
39 88 0.55
40 60 0.37
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38962046 original size:79 final size:78
Alignment explanation
Indices: 38961916--38962116 Score: 298
Period size: 79 Copynumber: 2.6 Consensus size: 78
38961906 CGGGATTTAA
* *
38961916 CCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
38961980 CCTTGGGACTTAGC
65 CCTTCGGACTGAGC
38961994 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38962059 CCTTCGGACTGAGC
65 CCTTCGGACTGAGC
* *
38962073 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCGG
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
38962117 TTATCATCCA
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
77 1 0.01
78 18 0.16
79 94 0.83
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (78 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
CTTCGGACTGAGC
Found at i:38970160 original size:40 final size:40
Alignment explanation
Indices: 38970098--38970315 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
38970088 AAGCCAAGTA
* * * * *
38970098 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
38970137 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38970177 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38970217 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
38970257 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
38970297 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38970316 TTATCATACA
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 150 0.92
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38974253 original size:38 final size:38
Alignment explanation
Indices: 38974211--38974287 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
38974201 AAATGACGAG
** *
38974211 ATAGATTCAGTCTCAGTTTACTCCATAAACATAACACA
1 ATAGATTCAGTCTCAGTTTACAACATAAACAAAACACA
*
38974249 ATAGATTCAGTCTCGGTTTACAACATAAACAAAACACA
1 ATAGATTCAGTCTCAGTTTACAACATAAACAAAACACA
38974287 A
1 A
38974288 CCTGACACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (38 bp):
ATAGATTCAGTCTCAGTTTACAACATAAACAAAACACA
Found at i:38975515 original size:11 final size:11
Alignment explanation
Indices: 38975495--38975524 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
38975485 ACCTTATTTT
38975495 ATGATTTTTAA
1 ATGATTTTTAA
*
38975506 ATGGTTTTTAA
1 ATGATTTTTAA
38975517 ATGATTTT
1 ATGATTTT
38975525 AAAGCCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (11 bp):
ATGATTTTTAA
Found at i:38977012 original size:40 final size:39
Alignment explanation
Indices: 38976968--38977096 Score: 111
Period size: 40 Copynumber: 3.3 Consensus size: 39
38976958 GACTCGCTCA
*
38976968 AATGCCTTCGGGAC-GAAGCCC-GGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTGAA-CCCGGGTT-TAGCAACTTGCAC
* *
38977007 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
* * * * ** *
38977047 AAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCGCAC
1 AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
38977085 GAATGCCTTCGG
1 -AATGCCTTCGG
38977097 ATCCTAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
38 21 0.27
39 22 0.29
40 28 0.36
41 6 0.08
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTGAACCCGGGTTTAGCAACTTGCAC
Found at i:38977096 original size:78 final size:80
Alignment explanation
Indices: 38977003--38977149 Score: 210
Period size: 78 Copynumber: 1.9 Consensus size: 80
38976993 ATAGCGACTT
* * *
38977003 GCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAAAGCCTTCGGGA-TTAGC
1 GCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGC
38977065 CCGGATTTATTAACTC
65 CCGGATTTATTAACTC
** *
38977081 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
38977146 CGGA
66 CGGA
38977150 CATCATTCGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
77 3 0.05
78 30 0.50
79 17 0.28
80 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
GCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCC
CGGATTTATTAACTC
Found at i:38977133 original size:40 final size:37
Alignment explanation
Indices: 38976984--38977149 Score: 125
Period size: 40 Copynumber: 4.2 Consensus size: 37
38976974 TTCGGGACGA
* ** *
38976984 AGCCCGGTTATAGCGACTTGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTC-GGA-TT
* * *
38977024 AACCCGGGTTTAGTAACTTGCACAAAGCCTTCGGGATT
1 AGCCCGGATATAGTAACTTGCACAAAGCCTTC-GGATT
* * * *
38977062 AGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCT
1 AGCCCGGATATAGTAACTTGCAC-AAAGCCTTCGGAT--T
* *
38977102 AGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTT-GCACAAAGCCTTC-GGA-TT
38977142 AGCCCGGA
1 AGCCCGGA
38977150 CATCATTCGA
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 25 0.25
39 20 0.20
40 49 0.48
41 7 0.07
42 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (37 bp):
AGCCCGGATATAGTAACTTGCACAAAGCCTTCGGATT
Found at i:38984328 original size:29 final size:29
Alignment explanation
Indices: 38984286--38984345 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
38984276 TTTATGCTGT
38984286 TATAGGCCACAGTGAAATGCTTGATTAAG
1 TATAGGCCACAGTGAAATGCTTGATTAAG
*
38984315 TATAGGCCTCAGTGAAATGCTTGATTAAG
1 TATAGGCCACAGTGAAATGCTTGATTAAG
38984344 TA
1 TA
38984346 AAATCATGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (29 bp):
TATAGGCCACAGTGAAATGCTTGATTAAG
Found at i:38987899 original size:2 final size:2
Alignment explanation
Indices: 38987892--38987927 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
38987882 CCACCAGAAC
38987892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38987928 GTGGCGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38988008 original size:27 final size:26
Alignment explanation
Indices: 38987960--38988011 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
38987950 ACGAGGCTGC
*
38987960 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
38987986 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
38988012 TTGTAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38994342 original size:39 final size:39
Alignment explanation
Indices: 38994263--38994374 Score: 170
Period size: 39 Copynumber: 2.8 Consensus size: 39
38994253 TGGTAACCCA
* *
38994263 CACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCG
1 CACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCG
* *
38994303 CACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCG
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
*
38994342 CACAATTGCCTTCGGGGTTAGCCCGGATATCAC
1 CACAATTGCCTTCGGGCTTAGCCCGGATATCAC
38994375 TCGAACATTC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 51 0.77
40 15 0.23
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCG
Found at i:38996567 original size:16 final size:16
Alignment explanation
Indices: 38996546--38996576 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38996536 TTATATCATA
38996546 TATTTTAACTTATTAT
1 TATTTTAACTTATTAT
*
38996562 TATTTTACCTTATTA
1 TATTTTAACTTATTA
38996577 ACATTTACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTTTAACTTATTAT
Found at i:39001910 original size:12 final size:12
Alignment explanation
Indices: 39001893--39001917 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39001883 TGCATGGCTT
39001893 AAACTATCATCA
1 AAACTATCATCA
39001905 AAACTATCATCA
1 AAACTATCATCA
39001917 A
1 A
39001918 CATGGCTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
AAACTATCATCA
Found at i:39005892 original size:25 final size:25
Alignment explanation
Indices: 39005864--39006047 Score: 179
Period size: 25 Copynumber: 7.4 Consensus size: 25
39005854 AATAATATCA
**
39005864 GCACAAAGCCATTGATAACAGATCG
1 GCACAAAGCCATCAATAACAGATCG
* * *
39005889 GCACATAGCCATCAATATCATATCG
1 GCACAAAGCCATCAATAACAGATCG
39005914 GCACAAAGCCATCAATAACAGATCG
1 GCACAAAGCCATCAATAACAGATCG
* * * *
39005939 ACACATAGCCATCAATATCATATCG
1 GCACAAAGCCATCAATAACAGATCG
* * *
39005964 GCACAAAGCCGTCAATAACATACCG
1 GCACAAAGCCATCAATAACAGATCG
* * * * *
39005989 GCACGAAGCCTTCAATAGCATATCA
1 GCACAAAGCCATCAATAACAGATCG
* * * *
39006014 GCACAAAGCCTTCAATAGCATATTG
1 GCACAAAGCCATCAATAACAGATCG
39006039 GCACAAAGC
1 GCACAAAGC
39006048 TATAATCAGA
Statistics
Matches: 134, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 134 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (25 bp):
GCACAAAGCCATCAATAACAGATCG
Found at i:39005932 original size:50 final size:50
Alignment explanation
Indices: 39005858--39006030 Score: 231
Period size: 50 Copynumber: 3.5 Consensus size: 50
39005848 TACAATAATA
**
39005858 ATATCAGCACAAAGCCATTGATAACAGATCGGCACATAGCCATCAATATC
1 ATATCAGCACAAAGCCATCAATAACAGATCGGCACATAGCCATCAATATC
* *
39005908 ATATCGGCACAAAGCCATCAATAACAGATCGACACATAGCCATCAATATC
1 ATATCAGCACAAAGCCATCAATAACAGATCGGCACATAGCCATCAATATC
* * * * * *
39005958 ATATCGGCACAAAGCCGTCAATAACATACCGGCACGA-AGCCTTCAATAGC
1 ATATCAGCACAAAGCCATCAATAACAGATCGGCAC-ATAGCCATCAATATC
*
39006008 ATATCAGCACAAAGCCTTCAATA
1 ATATCAGCACAAAGCCATCAATA
39006031 GCATATTGGC
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
50 109 0.99
51 1 0.01
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (50 bp):
ATATCAGCACAAAGCCATCAATAACAGATCGGCACATAGCCATCAATATC
Found at i:39005964 original size:75 final size:75
Alignment explanation
Indices: 39005860--39006047 Score: 216
Period size: 75 Copynumber: 2.5 Consensus size: 75
39005850 CAATAATAAT
** * * * * *
39005860 ATCAGCACAAAGCCATTGATAACAGATCGGCACATAGCCATCAATATCATATCGGCACAAAGCCA
1 ATCAGCACAAAGCCATCAATAGCATATCGGCACAAAGCCATCAATAACATACCGGCACAAAGCCA
39005925 TCAATAACAG
66 TCAATAACAG
* * * *
39005935 ATC-GACACATAGCCATCAATATCATATCGGCACAAAGCCGTCAATAACATACCGGCACGAAGCC
1 ATCAG-CACAAAGCCATCAATAGCATATCGGCACAAAGCCATCAATAACATACCGGCACAAAGCC
* * *
39005999 TTCAATAGCAT
65 ATCAATAACAG
* *
39006010 ATCAGCACAAAGCCTTCAATAGCATATTGGCACAAAGC
1 ATCAGCACAAAGCCATCAATAGCATATCGGCACAAAGC
39006048 TATAATCAGA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
74 1 0.01
75 92 0.98
76 1 0.01
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (75 bp):
ATCAGCACAAAGCCATCAATAGCATATCGGCACAAAGCCATCAATAACATACCGGCACAAAGCCA
TCAATAACAG
Found at i:39006331 original size:26 final size:26
Alignment explanation
Indices: 39006302--39006388 Score: 131
Period size: 26 Copynumber: 3.3 Consensus size: 26
39006292 AAAACGTCAT
*
39006302 TTTACCATATAGGGGTATTTCT-ATAA
1 TTTACCCTATAGGGGTATTT-TGATAA
*
39006328 TTTACCCTACAGGGGTATTTTGATAA
1 TTTACCCTATAGGGGTATTTTGATAA
*
39006354 TTTACCCTATAGGGGTATTTTGGTAA
1 TTTACCCTATAGGGGTATTTTGATAA
39006380 TTTACCCTA
1 TTTACCCTA
39006389 AAAGGATATT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
25 1 0.02
26 55 0.98
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.41
Consensus pattern (26 bp):
TTTACCCTATAGGGGTATTTTGATAA
Found at i:39006398 original size:26 final size:26
Alignment explanation
Indices: 39006302--39006408 Score: 108
Period size: 26 Copynumber: 4.1 Consensus size: 26
39006292 AAAACGTCAT
* * *
39006302 TTTACCATATAGGGGTATTTCT-ATAA
1 TTTACCCTAAAGGGGTATTT-TGGTAA
* *
39006328 TTTACCCTACAGGGGTATTTTGATAA
1 TTTACCCTAAAGGGGTATTTTGGTAA
*
39006354 TTTACCCTATAGGGGTATTTTGGTAA
1 TTTACCCTAAAGGGGTATTTTGGTAA
* * **
39006380 TTTACCCTAAAAGGATATTTCAGTAA
1 TTTACCCTAAAGGGGTATTTTGGTAA
39006406 TTT
1 TTT
39006409 TACAAACTGG
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 1 0.01
26 70 0.99
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (26 bp):
TTTACCCTAAAGGGGTATTTTGGTAA
Found at i:39006407 original size:52 final size:52
Alignment explanation
Indices: 39006302--39006408 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 52
39006292 AAAACGTCAT
* * * *
39006302 TTTACCATATAGGGGTATTTCTATAATTTACCCTACAGGGGTATTTTGATAA
1 TTTACCATATAGGGGTATTTCTATAATTTACCCTAAAAGGATATTTAGATAA
* *
39006354 TTTACCCTATAGGGGTATTT-TGGTAATTTACCCTAAAAGGATATTTCAG-TAA
1 TTTACCATATAGGGGTATTTCT-ATAATTTACCCTAAAAGGATATTT-AGATAA
39006406 TTT
1 TTT
39006409 TACAAACTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 1 0.02
52 45 0.96
53 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (52 bp):
TTTACCATATAGGGGTATTTCTATAATTTACCCTAAAAGGATATTTAGATAA
Found at i:39010058 original size:18 final size:19
Alignment explanation
Indices: 39010020--39010059 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
39010010 AAGCTTACAG
*
39010020 TTTCATATACAATATATAC
1 TTTCATATACAATATAAAC
*
39010039 TTTCATATA-TATATAAAC
1 TTTCATATACAATATAAAC
39010057 TTT
1 TTT
39010060 ATCTTGGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTCATATACAATATAAAC
Found at i:39010496 original size:43 final size:43
Alignment explanation
Indices: 39010445--39010541 Score: 142
Period size: 43 Copynumber: 2.3 Consensus size: 43
39010435 TCCTAGACGT
*
39010445 GGTCTTACATC-TAATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACA-CGTAATCACATATCGATGCCAATGTCCCAGACAG
* * *
39010488 GGTCTTACACGTAATCACTTATCGATGCCAATGTCCTAGACAT
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
39010531 GGTCTTACACG
1 GGTCTTACACG
39010542 AGAACACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.02
43 48 0.98
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
Found at i:39017321 original size:40 final size:40
Alignment explanation
Indices: 39017227--39017371 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
39017217 TACTCGAATG
*
39017227 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
39017268 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
39017308 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
39017348 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
39017372 CTTGTGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:39022632 original size:29 final size:29
Alignment explanation
Indices: 39022468--39022631 Score: 247
Period size: 29 Copynumber: 5.7 Consensus size: 29
39022458 GCTTGGAAGG
39022468 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
39022497 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
39022526 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * *
39022555 TATGGCACTAAGTGCGCAAACTTAAATAA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
39022584 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
39022613 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
39022632 GATCGTTTAT
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 122 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:39030740 original size:29 final size:29
Alignment explanation
Indices: 39030547--39030739 Score: 314
Period size: 29 Copynumber: 6.7 Consensus size: 29
39030537 GCTTGGAAGG
39030547 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
39030576 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
39030605 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
39030634 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* *
39030663 TATGGCACTAAGTGTCCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
39030692 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
39030721 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
39030740 GATCGTTTAT
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 152 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:39037290 original size:11 final size:11
Alignment explanation
Indices: 39037274--39037298 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39037264 CTCAATTTGC
39037274 AAAAAAGAGAG
1 AAAAAAGAGAG
39037285 AAAAAAGAGAG
1 AAAAAAGAGAG
39037296 AAA
1 AAA
39037299 GTAGTAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAG
Found at i:39041142 original size:40 final size:40
Alignment explanation
Indices: 39040970--39041133 Score: 249
Period size: 40 Copynumber: 4.1 Consensus size: 40
39040960 AACCCAAGTA
* ** **
39040970 CCTTCGGGATTTAG-CCGGATATAACAACTCTTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39041009 CCTTCGGGACTTAGCCCGGATATAGTAACTCGAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39041049 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39041089 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39041129 CCTTC
1 CCTTC
39041134 AGATCTTAGT
Statistics
Matches: 116, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 103 0.89
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39041893 original size:68 final size:68
Alignment explanation
Indices: 39041814--39041949 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
39041804 ATCAATCTAT
39041814 GTATTCATTCATGTGGTCGAATATACATATTCCAATATGATATCATTTCCATTTCATTTAACACT
1 GTATTCATTCATGTGGTCGAATATACATATTCCAATATGATATCATTTCCATTTCATTTAACACT
39041879 TAA
66 TAA
39041882 GTATTCATTCATGTGGTCGAATATACATATTCCAATATGATATCATTTCCATTTCATTTAACACT
1 GTATTCATTCATGTGGTCGAATATACATATTCCAATATGATATCATTTCCATTTCATTTAACACT
39041947 TAA
66 TAA
39041950 CATTTACCAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (68 bp):
GTATTCATTCATGTGGTCGAATATACATATTCCAATATGATATCATTTCCATTTCATTTAACACT
TAA
Found at i:39048887 original size:40 final size:40
Alignment explanation
Indices: 39048842--39048982 Score: 246
Period size: 40 Copynumber: 3.5 Consensus size: 40
39048832 CGTATATAAC
*
39048842 AACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAGT
1 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
39048882 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
39048922 AACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* *
39048962 CACTAGCACAAATGCCTTCGG
1 AACTCGCACAAATGCCTTCGG
39048983 ATCTTAGTCC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
Found at i:39048989 original size:80 final size:80
Alignment explanation
Indices: 39048817--39048994 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 80
39048807 AACCCAAGTA
* *
39048817 CCTTCAGGAT-TTAGCCGTATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAG
1 CCTTCAGGATCTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
39048881 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* ** *
39048896 CCTTCGGGA-CTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCAGGATCTTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
39048960 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
39048976 CCTTC-GGATCTTAGTCCGG
1 CCTTCAGGATCTTAG-CCGG
39048995 TTATCATCCG
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
79 15 0.17
80 72 0.83
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCAGGATCTTAGCCGGATATAACAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:39050845 original size:19 final size:21
Alignment explanation
Indices: 39050802--39050845 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
39050792 AATGTGTTTG
*
39050802 AATTTGAATAATGTTTATTTGA
1 AATTTGAATAATG-TTATGTGA
39050824 AATTTGAA-AATG-TATGTGA
1 AATTTGAATAATGTTATGTGA
39050843 AAT
1 AAT
39050846 AAATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (21 bp):
AATTTGAATAATGTTATGTGA
Found at i:39051457 original size:20 final size:20
Alignment explanation
Indices: 39051429--39051469 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
39051419 GCAATCGAGA
39051429 ACGCCTGTGTGCATTAGGAC
1 ACGCCTGTGTGCATTAGGAC
* * *
39051449 ACGCTTGTGTGTATTGGGAC
1 ACGCCTGTGTGCATTAGGAC
39051469 A
1 A
39051470 TGCCCGTGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (20 bp):
ACGCCTGTGTGCATTAGGAC
Found at i:39057741 original size:41 final size:41
Alignment explanation
Indices: 39057683--39057911 Score: 191
Period size: 41 Copynumber: 5.6 Consensus size: 41
39057673 GAGCTTGGTC
*
39057683 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGCTAATAACCGAACTTAGTT
* * *
39057724 TCGAAGGGCTTTAGAGCCAGTG-TCATAATCGGACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
39057764 CCGAAGGGCCTTCGAGCCAGTGATCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTAGAGCCAGTG--CTAATAACCGAACTTAGTT
* *
39057805 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGCTTTAGAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
39057845 CCGAAGGGCCTTCGAGCCAGTGATCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTAGAGCCAGTG--CTAATAACCGAACTTAGTT
* * *
39057886 TAGAAGGGCTTTTGAGCCACTGCTAA
1 TCGAAGGGCTTTAGAGCCAGTGCTAA
39057912 GAATCGGGCT
Statistics
Matches: 146, Mismatches: 34, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
38 3 0.02
39 4 0.03
40 61 0.42
41 72 0.49
43 6 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
TCGAAGGGCTTTAGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:39057771 original size:40 final size:41
Alignment explanation
Indices: 39057684--39057874 Score: 212
Period size: 40 Copynumber: 4.7 Consensus size: 41
39057674 AGCTTGGTCT
* * * * * *
39057684 CGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTTT
1 CGAAGGGCTTTAGAGCCAGTGATCATAATCGGACTTAGTTC
39057725 CGAAGGGCTTTAGAGCCAGTG-TCATAATCGGACTTAGTTC
1 CGAAGGGCTTTAGAGCCAGTGATCATAATCGGACTTAGTTC
* * * *
39057765 CGAAGGGCCTTCGAGCCAGTGATC-TAATCCGAGCTT-GGTC
1 CGAAGGGCTTTAGAGCCAGTGATCATAATCGGA-CTTAGTTC
*
39057805 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGGACTTAGTTC
1 -CGAAGGGCTTTAGAGCCAGTGATCATAATCGGACTTAGTTC
* *
39057846 CGAAGGGCCTTCGAGCCAGTGATC-TAATC
1 CGAAGGGCTTTAGAGCCAGTGATCATAATC
39057875 CGAGCTTGGT
Statistics
Matches: 127, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
40 72 0.57
41 55 0.43
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
CGAAGGGCTTTAGAGCCAGTGATCATAATCGGACTTAGTTC
Found at i:39057819 original size:81 final size:81
Alignment explanation
Indices: 39057684--39057904 Score: 338
Period size: 81 Copynumber: 2.7 Consensus size: 81
39057674 AGCTTGGTCT
* * * * *
39057684 CGAAGGGCTTTTGAGCCAGTG--CTAATAACCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTGT
1 CGAAGGGCCTTCGAGCCAGTGATCTAAT--CCGAGCTTGGTCTCGAAGGGCTTTAGAGCCAGTGT
*
39057747 CATAATCGGACTTAGTTC
64 CATAACCGGACTTAGTTC
39057765 CGAAGGGCCTTCGAGCCAGTGATCTAATCCGAGCTTGGTCTCGAAGGGCTTTAGAGCCAGTGTCA
1 CGAAGGGCCTTCGAGCCAGTGATCTAATCCGAGCTTGGTCTCGAAGGGCTTTAGAGCCAGTGTCA
39057830 TAACCGGACTTAGTTC
66 TAACCGGACTTAGTTC
* *
39057846 CGAAGGGCCTTCGAGCCAGTGATCTAATCCGAGCTTGGTCTAGAAGGGCTTTTGAGCCA
1 CGAAGGGCCTTCGAGCCAGTGATCTAATCCGAGCTTGGTCTCGAAGGGCTTTAGAGCCA
39057905 CTGCTAAGAA
Statistics
Matches: 130, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
81 125 0.96
83 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
CGAAGGGCCTTCGAGCCAGTGATCTAATCCGAGCTTGGTCTCGAAGGGCTTTAGAGCCAGTGTCA
TAACCGGACTTAGTTC
Found at i:39065872 original size:41 final size:41
Alignment explanation
Indices: 39065814--39065961 Score: 185
Period size: 41 Copynumber: 3.6 Consensus size: 41
39065804 GAGCTTGGTC
39065814 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
39065855 TCGAAGGGCTTTAGAGCCAGTG-TCATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
39065895 CCGAAGGGCCTTCGAGCCAGTGATCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGTG--CTAATAACCGAACTTAGTT
39065936 TCGAAGGGCTTTTGAGCCAGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
39065962 GAATCGGGCT
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.04
40 36 0.39
41 49 0.53
43 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:39069490 original size:41 final size:40
Alignment explanation
Indices: 39069441--39069684 Score: 234
Period size: 41 Copynumber: 6.0 Consensus size: 40
39069431 AGCCCGATTC
*
39069441 TTAG-CACTGACTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
39069480 TTAGATCACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
*
39069520 TTATGACACTGGCTCTAAAGCCCTTCGAGACCAAGCTCGGA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
39069561 TTAGATCACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * *
39069601 TTATGACACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
39069644 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
39069683 TT
1 TT
39069685 TAAACCCCGA
Statistics
Matches: 171, Mismatches: 17, Indels: 34
0.77 0.08 0.15
Matches are distributed among these distances:
39 7 0.04
40 67 0.39
41 93 0.54
42 1 0.01
43 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:39069545 original size:81 final size:81
Alignment explanation
Indices: 39069445--39069668 Score: 353
Period size: 81 Copynumber: 2.8 Consensus size: 81
39069435 CGATTCTTAG
* *
39069445 CACTGACTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGATCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCTAAAGCCCTTCGAGACCAAGCTCGGATTAGATCACTGGCTCGAAGGCCCTTCGGAA
39069510 CTAAGTCCGGTTATGA
66 CTAAGTCCGGTTATGA
39069526 CACTGGCTCTAAAGCCCTTCGAGACCAAGCTCGGATTAGATCACTGGCTCGAAGGCCCTTCGGAA
1 CACTGGCTCTAAAGCCCTTCGAGACCAAGCTCGGATTAGATCACTGGCTCGAAGGCCCTTCGGAA
39069591 CTAAGTCCGGTTATGA
66 CTAAGTCCGGTTATGA
* * * * *
39069607 CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTATTAG--CACTGGCTCAAAAGCCCTTCG
1 CACTGGCTCTAAAGCCCTTCGAGACCAAGCTCGG--ATTAGATCACTGGCTCGAAGGCCCTTCG
39069669 AGACCAAGCT
Statistics
Matches: 134, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
81 129 0.96
83 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (81 bp):
CACTGGCTCTAAAGCCCTTCGAGACCAAGCTCGGATTAGATCACTGGCTCGAAGGCCCTTCGGAA
CTAAGTCCGGTTATGA
Found at i:39083331 original size:40 final size:39
Alignment explanation
Indices: 39083234--39083369 Score: 100
Period size: 40 Copynumber: 3.5 Consensus size: 39
39083224 GAATCGCGTA
* * * * * *
39083234 CCTTCGGAAATTAA-CCGGATATAACGACTCGCTCAAATG
1 CCTTCGGGACTTAACCCGGTTATAGCGACTTGCAC-AATG
* *
39083273 CCTTCAGGAC-GAAGCCCGGTTATAGCGACTTGCACGAATG
1 CCTTCGGGACTTAA-CCCGGTTATAGCGACTTGCAC-AATG
**
39083313 CCTTCGGGACTTAACCCGGGTT-TAGTAACTTGCACAATG
1 CCTTCGGGACTTAACCC-GGTTATAGCGACTTGCACAATG
* *
39083352 CCTACGGG-CTTAGCCCGG
1 CCTTCGGGACTTAACCCGG
39083370 AGTTATTAAC
Statistics
Matches: 78, Mismatches: 15, Indels: 10
0.76 0.15 0.10
Matches are distributed among these distances:
37 2 0.03
38 9 0.12
39 18 0.23
40 43 0.55
41 6 0.08
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGTTATAGCGACTTGCACAATG
Found at i:39083380 original size:38 final size:40
Alignment explanation
Indices: 39083300--39083393 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 40
39083290 GGTTATAGCG
*
39083300 ACTTGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTTGCACGAATGCCTACGGGACTTAACCCGGGTTTAGTA
* *
39083340 ACTTGCAC-AATGCCTACGGG-CTTAGCCCGGAG-TTATTA
1 ACTTGCACGAATGCCTACGGGACTTAACCCGG-GTTTAGTA
* *
39083378 ACTCGCAGGAATGCCT
1 ACTTGCACGAATGCCT
39083394 TCGGATCCTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 20 0.43
39 19 0.40
40 8 0.17
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
ACTTGCACGAATGCCTACGGGACTTAACCCGGGTTTAGTA
Found at i:39083450 original size:40 final size:39
Alignment explanation
Indices: 39083269--39083450 Score: 145
Period size: 40 Copynumber: 4.6 Consensus size: 39
39083259 GACTCGCTCA
* ** * **
39083269 AATGCCTTCAGGACGAAGCCCGGTTATAGCGACTTGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
39083308 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * * *
39083348 AATGCCTACGGG-CTTAGCCCGGAGT-TATTAACTCGCAGG
1 AATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTTGCA-C
* * *
39083387 AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 AATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCAC
*
39083427 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39083451 CATCATTCGA
Statistics
Matches: 111, Mismatches: 24, Indels: 14
0.74 0.16 0.09
Matches are distributed among these distances:
38 21 0.19
39 21 0.19
40 63 0.57
41 6 0.05
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
Found at i:39087649 original size:40 final size:38
Alignment explanation
Indices: 39087468--39087649 Score: 150
Period size: 40 Copynumber: 4.6 Consensus size: 38
39087458 GACTCGCTCA
** * **
39087468 AATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCAC
1 AATGCCTTC-GGACTTAGCCCGGATATAGTAACTTGCAC
* * *
39087507 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTC-GGACTTAGCCCGGATATAGTAACTTGCAC
* * *
39087547 AATGCCTTCGGGCTTAGCCCGGAGT-TATTAACTCGCAC
1 AATGCCTTCGGACTTAGCCCGGA-TATAGTAACTTGCAC
* * *
39087585 GAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGA-CTTAGCCCGGATATAGTAACTT-GCAC
*
39087626 AAAGCCTTCGGCACTTAGCCCGGA
1 AATGCCTTCGG-ACTTAGCCCGGA
39087650 CATCATTCGA
Statistics
Matches: 115, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 22 0.19
39 22 0.19
40 66 0.57
41 5 0.04
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (38 bp):
AATGCCTTCGGACTTAGCCCGGATATAGTAACTTGCAC
Found at i:39095981 original size:13 final size:13
Alignment explanation
Indices: 39095965--39096010 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
39095955 TGGCACACGA
39095965 GCGTGTCACATGG
1 GCGTGTCACATGG
*
39095978 GCGTGTCATATGG
1 GCGTGTCACATGG
*
39095991 GCGTGTCACACGG
1 GCGTGTCACATGG
39096004 GCGTGTC
1 GCGTGTC
39096011 CCTATCGAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.13, C:0.24, G:0.39, T:0.24
Consensus pattern (13 bp):
GCGTGTCACATGG
Found at i:39101962 original size:6 final size:6
Alignment explanation
Indices: 39101941--39101980 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
39101931 GTTTAAGAAC
* *
39101941 TTTTTA TTTATTA TTTTTA TTTTTA CTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
39101981 ATCTTCTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:39104841 original size:45 final size:44
Alignment explanation
Indices: 39104791--39104964 Score: 199
Period size: 45 Copynumber: 3.8 Consensus size: 44
39104781 TGTAACCCGC
* * *
39104791 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTC-CAT
*
39104836 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCC-A--T
* * *
39104882 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTC-CAT
39104929 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
39104965 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 36 0.33
46 31 0.28
47 31 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCCAT
Found at i:39104957 original size:93 final size:92
Alignment explanation
Indices: 39104799--39104968 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
39104789 GCCCATAAGT
*
39104799 GAACTCGGACTCAACTCAACAAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACAAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
39104864 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
* * *
39104891 GAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39104956 CGAGTTCGGATGC
65 CGAGTTCGGATGC
39104969 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 26 0.36
93 47 0.64
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACAAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:39109093 original size:28 final size:28
Alignment explanation
Indices: 39109056--39109162 Score: 142
Period size: 28 Copynumber: 3.8 Consensus size: 28
39109046 GCAATCAAAT
* *
39109056 ATGGTACTTAGTGTATGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
39109084 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
39109112 ATGGCACTTAGTGTGCGAGATATAGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
39109140 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
39109163 CGAATGATTC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:39111170 original size:28 final size:28
Alignment explanation
Indices: 39111139--39111321 Score: 168
Period size: 28 Copynumber: 6.5 Consensus size: 28
39111129 GTGAACATAG
* **
39111139 GCACTGTGTGTGTGAGTTCCGTAATTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
39111167 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * *
39111195 GGCACTGTGTGTACGAGTTCTGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
39111224 GCACTGTGTGTGCGAGTTCCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* * ****
39111252 GCACTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCCGTAACCGA
* *
39111280 GGCACTGTGTGTGCGCGTTCCGTAACCAA
1 -GCACTGTGTGTGCGAGTTCCGTAACCGA
39111309 GCACTGTGTGTGC
1 GCACTGTGTGTGC
39111322 AAGATCGGTT
Statistics
Matches: 123, Mismatches: 30, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
28 83 0.67
29 40 0.33
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGA
Found at i:39111282 original size:85 final size:85
Alignment explanation
Indices: 39111139--39111321 Score: 312
Period size: 85 Copynumber: 2.2 Consensus size: 85
39111129 GTGAACATAG
* **
39111139 GCACTGTGTGTGTGAGTTCCGTAATTGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTG
1 GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTG
*
39111204 TGTACGAGTTCTGTAACCAA
66 TGTACGAGTTCCGTAACCAA
39111224 GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTG
1 GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTG
* *
39111289 TGTGCGCGTTCCGTAACCAA
66 TGTACGAGTTCCGTAACCAA
39111309 GCACTGTGTGTGC
1 GCACTGTGTGTGC
39111322 AAGATCGGTT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.30
Consensus pattern (85 bp):
GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTGTG
TGTACGAGTTCCGTAACCAA
Found at i:39111285 original size:57 final size:57
Alignment explanation
Indices: 39111224--39111351 Score: 202
Period size: 57 Copynumber: 2.2 Consensus size: 57
39111214 CTGTAACCAA
* *
39111224 GCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAG
* *
39111281 GCACTGTGTGTGCGCGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGGG
1 GCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAG
39111338 GCACTAAGTGTGTG
1 GCACT--GTGTGTG
39111352 AAATGAGATC
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
57 58 0.89
59 7 0.11
ACGTcount: A:0.16, C:0.20, G:0.36, T:0.28
Consensus pattern (57 bp):
GCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGAG
Found at i:39113713 original size:29 final size:29
Alignment explanation
Indices: 39113680--39113840 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
39113670 GTGACAAGAT
39113680 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
39113709 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
39113738 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
39113767 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
39113796 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
39113825 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39113841 AAATCGAGTA
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 110 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:39115599 original size:66 final size:68
Alignment explanation
Indices: 39115523--39115709 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
39115513 TAGTACCACT
*
39115523 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
39115585 CACG
65 CACG
39115589 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
39115654 ATCACG
63 ATCACG
39115660 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
39115710 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:39115634 original size:71 final size:71
Alignment explanation
Indices: 39115546--39115709 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
39115536 CGATTTGTCT
39115546 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
39115611 CTTTCA
66 CTTTCA
39115617 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
39115682 CTTTCA
66 CTTTCA
39115688 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
39115710 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:39115747 original size:71 final size:70
Alignment explanation
Indices: 39115546--39115743 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
39115536 CGATTTGTCT
* * *
39115546 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
39115611 CTTTCA
65 CTTTCA
* * *
39115617 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
39115682 CTTTCA
65 CTTTCA
* *
39115688 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
39115744 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:39123163 original size:66 final size:68
Alignment explanation
Indices: 39123087--39123273 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
39123077 TAGTACCACT
*
39123087 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
39123149 CACG
65 CACG
39123153 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
39123218 ATCACG
63 ATCACG
39123224 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
39123274 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:39123198 original size:71 final size:71
Alignment explanation
Indices: 39123110--39123273 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
39123100 CGATTTGTCT
39123110 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
39123175 CTTTCA
66 CTTTCA
39123181 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
39123246 CTTTCA
66 CTTTCA
39123252 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
39123274 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:39123311 original size:71 final size:70
Alignment explanation
Indices: 39123110--39123307 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
39123100 CGATTTGTCT
* * *
39123110 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
39123175 CTTTCA
65 CTTTCA
* * *
39123181 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
39123246 CTTTCA
65 CTTTCA
* *
39123252 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
39123308 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:39130993 original size:39 final size:40
Alignment explanation
Indices: 39130911--39131077 Score: 137
Period size: 39 Copynumber: 4.2 Consensus size: 40
39130901 GAAATGAATG
* * * ** *
39130911 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
39130951 ATATCCGGGTTAAGACCCGAA-GCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
39130990 ATATCCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
39131029 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
39131069 AATATCCGG
1 -ATATCCGG
39131078 TTATATTCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
38 8 0.08
39 49 0.48
40 36 0.35
41 9 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:39140062 original size:27 final size:28
Alignment explanation
Indices: 39140024--39140084 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
39140014 GTACCTAGAC
39140024 CCCCTA-ATTGATAAAATGACTGAAATG
1 CCCCTATATTGATAAAATGACTGAAATG
**
39140051 CCCCTATA-TGATAAAATGACTGTTATG
1 CCCCTATATTGATAAAATGACTGAAATG
39140078 CCCCTAT
1 CCCCTAT
39140085 GAGATGTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (28 bp):
CCCCTATATTGATAAAATGACTGAAATG
Found at i:39141139 original size:21 final size:20
Alignment explanation
Indices: 39141109--39141148 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
39141099 TTTTCAAAAT
*
39141109 AAAGTGTTTTGAAATGATTTG
1 AAAGTATTTTGAAAT-ATTTG
39141130 AAAGTATTTTGAAATATTT
1 AAAGTATTTTGAAATATTT
39141149 TTACTGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (20 bp):
AAAGTATTTTGAAATATTTG
Found at i:39143353 original size:29 final size:29
Alignment explanation
Indices: 39143315--39143415 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
39143305 ATTGATCTCC
* *
39143315 CACACTTAGTGCCATGTGATTTAAGCTCG
1 CACACTTAGTGCCATATAATTTAAGCTCG
* *
39143344 CACACATAGTGCCATATAATTTAAGTTCG
1 CACACTTAGTGCCATATAATTTAAGCTCG
** *
39143373 CACACTTAGTGCCATA-CCTTTCAAGCCCG
1 CACACTTAGTGCCATATAATTT-AAGCTCG
39143402 CACACTTAGTGCCA
1 CACACTTAGTGCCA
39143416 ATCTTGTCAC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 3 0.05
29 59 0.95
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
CACACTTAGTGCCATATAATTTAAGCTCG
Found at i:39150596 original size:40 final size:39
Alignment explanation
Indices: 39150431--39150614 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
39150421 AAATTGAATG
* * *
39150431 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
39150471 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
39150511 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
39150551 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
39150590 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
39150615 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:39150639 original size:80 final size:81
Alignment explanation
Indices: 39150471--39150659 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
39150461 GCTGGAAATT
* * * *
39150471 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
39150536 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
39150552 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
39150615 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
39150631 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
39150660 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:39152151 original size:48 final size:47
Alignment explanation
Indices: 39152089--39152463 Score: 179
Period size: 46 Copynumber: 7.9 Consensus size: 47
39152079 ACCACATTAT
* * *
39152089 GAGAGCCAGCGTAAGACCATGTTTGGGACATGGCATCGACATTGAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA
* * *
39152136 CGAGAGCTAGTGTAAGA-CATATCTGGGACAT-GCATC-AGCCTCGAGA
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGAGA
* * *
39152182 G-GTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCGTCGAC-TAG-GA
1 GAG--AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA
* * *
39152226 GATGTG-TCAGAGTAAGACCATGTCTGGGACATGGCATTGGCACATAT-AGA
1 GA-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCA-TCG-ACAT-TGAGA
* * * **
39152276 G-GAG-TCAGCGTAAGTCCATGTTTGGGACATGGCATCGACACGGATGTA
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-G-A
* * * * * * *
39152324 CGAGAGCTAGTGTAAGACCATTTCTGGGACATGGCGTTGGCCTCG-GTTTT
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAG---A
* * * * * *
39152374 GATTATC-AGTGTAATACCATGTTTGGGACTTGGCATCAAC-TTGATG-
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-GA
* *
39152420 GACGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT
39152464 ATACCCTGTG
Statistics
Matches: 247, Mismatches: 53, Indels: 54
0.70 0.15 0.15
Matches are distributed among these distances:
44 13 0.05
45 18 0.07
46 52 0.21
47 46 0.19
48 51 0.21
49 29 0.12
50 37 0.15
51 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGA
Found at i:39159929 original size:47 final size:45
Alignment explanation
Indices: 39159861--39160125 Score: 141
Period size: 47 Copynumber: 5.7 Consensus size: 45
39159851 GTTGTGCGCT
* *
39159861 AGTGTAAGACATGTCGGGGACATGCATCAGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C-CATTGACGAGAGCC
* *
39159907 AGTGTATGACTATGTCTGGGACATGGCATCAG-CATTGAGACGAGAGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCATT--GACGAGAGCC
* * * * *
39159955 AGTGTAAGACATGTTTGGGACATGCATCAGCTA-CGA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATTGACGA-GAGCC
* ** * * **
39159999 AGAGTAAGACCATGTCTGGGACATGGCATTGGCACATAT-A-GGGTGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CAT-TGACGAGAGCC
* * * *
39160046 AGTGTAAGACCATGTCCGGAACATGGCATC-GAC-TTGATGGAAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATTGA-CG-AGAGCC
39160093 AGTGTAAGACCATGTCTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
39160126 ATTATACCCT
Statistics
Matches: 171, Mismatches: 31, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
43 3 0.02
44 14 0.08
45 18 0.11
46 24 0.14
47 86 0.50
48 26 0.15
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATTGACGAGAGCC
Found at i:39176855 original size:29 final size:28
Alignment explanation
Indices: 39176817--39176917 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 28
39176807 GTGACGAGAT
* *
39176817 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
39176846 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
39176875 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
39176904 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
39176918 TGTGATCAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:39178567 original size:27 final size:27
Alignment explanation
Indices: 39178517--39178569 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
39178507 ACCCCCAAAT
*
39178517 TGATAAAATGACTGAAATGTCCCTATA
1 TGATAAAATGACTGAAATGCCCCTATA
**
39178544 TGATAAAATGACTGTTATGCCCCTAT
1 TGATAAAATGACTGAAATGCCCCTAT
39178570 GAGATGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (27 bp):
TGATAAAATGACTGAAATGCCCCTATA
Found at i:39183310 original size:39 final size:39
Alignment explanation
Indices: 39183226--39183380 Score: 238
Period size: 39 Copynumber: 3.9 Consensus size: 39
39183216 ATTATAGTAG
* * *
39183226 CTCGCATAAATGCCTTCGGGACTTAACCCGGATATCACAT
1 CTCGCACAATTGCCTTCGGG-CTTAACCCGGATATCACAA
* *
39183266 TTCGCACAATTGCCTTCGGGCTTAACCCGGATACCACAA
1 CTCGCACAATTGCCTTCGGGCTTAACCCGGATATCACAA
*
39183305 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGGCTTAACCCGGATATCACAA
*
39183344 CTCGCACAATTGCCTTCGGGCTTAACCAGGATATCAC
1 CTCGCACAATTGCCTTCGGGCTTAACCCGGATATCAC
39183381 CCGAACATTC
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CTCGCACAATTGCCTTCGGGCTTAACCCGGATATCACAA
Found at i:39191306 original size:39 final size:39
Alignment explanation
Indices: 39191220--39191374 Score: 229
Period size: 39 Copynumber: 3.9 Consensus size: 39
39191210 GTTATAGTAG
* * * *
39191220 CTCGCATAAATGCCTTCGTGACTTAACCCGGATATCACAA
1 CTCGCACAATTGCCTTCG-GGCTTAGCCCGGATATCACAA
* * * *
39191260 TTTGCACAATTGCCTTCGGGCTTAGCCCAGATACCACAA
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
39191299 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
39191338 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
39191375 CCGAACATTC
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 89 0.86
40 14 0.14
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (39 bp):
CTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
Found at i:39193626 original size:33 final size:30
Alignment explanation
Indices: 39193556--39193643 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 30
39193546 AGTGCATAAC
* *
39193556 ACAGTCTGGGCCTAAGCCCAAATCA--ATA
1 ACAGTCTGGGCCTAAGCCCTATTCAGTATA
39193584 ACAGTCTGGGCCTAAGCCCTATTCAGTATCA
1 ACAGTCTGGGCCTAAGCCCTATTCAGTAT-A
* *
39193615 GTACAGTCTGGG-CTTAGCCCTATACAGTA
1 --ACAGTCTGGGCCTAAGCCCTATTCAGTA
39193644 ATAGTGTGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
28 23 0.45
30 2 0.04
31 1 0.02
32 15 0.29
33 10 0.20
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (30 bp):
ACAGTCTGGGCCTAAGCCCTATTCAGTATA
Found at i:39194058 original size:27 final size:27
Alignment explanation
Indices: 39194025--39194303 Score: 423
Period size: 27 Copynumber: 10.3 Consensus size: 27
39194015 GGCATAATCA
* * * *
39194025 TCATTTTACCATATAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
39194052 TCATTTTACCCTACAGGGGCATTACAG
1 TCATTTTACCCTACAGGGGCATTACGG
*
39194079 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
39194106 TCATTTTACCCTACAGGGGCATTACGT
1 TCATTTTACCCTACAGGGGCATTACGG
*
39194133 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
39194160 TCATTTTATCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
39194187 TTATTTTACACTACAGGGACATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
39194214 TCATTTTACCCTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
39194241 TCGTTTTACCCTACAAGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
39194268 TCATTTTACCCTACAAGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
39194295 TCATTTTAC
1 TCATTTTAC
39194304 TTATTTTGGG
Statistics
Matches: 229, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 229 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:39203344 original size:86 final size:85
Alignment explanation
Indices: 39203239--39203398 Score: 191
Period size: 86 Copynumber: 1.9 Consensus size: 85
39203229 ATATGTGTTA
* * * *
39203239 TCGTGTAAGACCACATCTGGGA-TGTTGGCATCGAT-TTGTGATTTACGTGTAAGGCCATGTCT-
1 TCGTGTAAGACCACATCTGGGACAG-TGGCATCGATATT-TGA-TTACATGTAAGACCACGTCTA
39203301 GAGACATTGGCATCGTATATGATT
63 G-GACATTGGCATCGTATATGATT
***
39203325 TCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCACGTCTAGGA
1 TCGTGTAAGACCACATCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCACGTCTAGGA
*
39203390 CGTTGGCAT
66 CATTGGCAT
39203399 TGTACGATCT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 27 0.43
86 33 0.52
87 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (85 bp):
TCGTGTAAGACCACATCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCACGTCTAGGA
CATTGGCATCGTATATGATT
Found at i:39203397 original size:43 final size:43
Alignment explanation
Indices: 39203240--39203398 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
39203230 TATGTGTTAT
* *
39203240 CGTGTAAGACCACATCTGGGATGTTGGCATCGAT-TTGTGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTA
* * * * * *
39203284 CGTGTAAGGCCATGTCTGAGACATTGGCATCG-TATATGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
**
39203326 CGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATTTGATTA
* *
39203369 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
39203399 TGTACGATCT
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 30 0.32
43 36 0.39
44 27 0.29
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:39205430 original size:31 final size:31
Alignment explanation
Indices: 39205389--39205454 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
39205379 CCTTTTCATA
*
39205389 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
39205420 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
39205451 TTTC
1 TTTC
39205455 TATAAACGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:39205695 original size:23 final size:24
Alignment explanation
Indices: 39205646--39205809 Score: 257
Period size: 23 Copynumber: 7.0 Consensus size: 24
39205636 GCTTTATCAT
*
39205646 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
39205671 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39205694 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
39205717 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39205741 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39205764 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39205787 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39205810 GCACTTCCTC
Statistics
Matches: 132, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
23 86 0.65
24 38 0.29
25 8 0.06
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39205745 original size:70 final size:70
Alignment explanation
Indices: 39205646--39205810 Score: 271
Period size: 70 Copynumber: 2.3 Consensus size: 70
39205636 GCTTTATCAT
* *
39205646 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAA
39205709 GCCCTTTA
63 GCCCTTTA
39205717 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
39205782 CTTTA
66 CTTTA
39205787 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
39205811 CACTTCCTCC
Statistics
Matches: 90, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
70 72 0.80
71 18 0.20
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
CTTTA
Found at i:39205746 original size:47 final size:47
Alignment explanation
Indices: 39205667--39205808 Score: 261
Period size: 47 Copynumber: 3.1 Consensus size: 47
39205657 CCTAGCCTCT
39205667 TTTAATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
39205713 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
39205760 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
39205806 TTT
1 TTT
39205809 TGCACTTCCT
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
46 41 0.44
47 52 0.56
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:39205892 original size:19 final size:20
Alignment explanation
Indices: 39205855--39205924 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
39205845 GCATTTATGA
* *
39205855 ACATCTCATGTTCATATCAT
1 ACATATCATGTGCATATCAT
39205875 ACATATCATGTG-ATATCAT
1 ACATATCATGTGCATATCAT
*
39205894 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
39205914 ACATATCATGT
1 ACATATCATGT
39205925 TTATCAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.40
20 27 0.60
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:39206003 original size:25 final size:24
Alignment explanation
Indices: 39205961--39206008 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
39205951 ATATATAAAC
* * *
39205961 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
39205986 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39206009 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:39207254 original size:26 final size:26
Alignment explanation
Indices: 39207156--39207238 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
39207146 GGGCATATTC
* * *
39207156 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCCTACAGGGCT-TTACG
39207183 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACA-GGGCTTTACG
39207210 GTCACTTTACCCTACAGGGCTTTACG
1 GTCACTTTACCCTACAGGGCTTTACG
39207236 GTC
1 GTC
39207239 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 13 0.25
27 35 0.67
28 4 0.08
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (26 bp):
GTCACTTTACCCTACAGGGCTTTACG
Found at i:39207342 original size:27 final size:25
Alignment explanation
Indices: 39207300--39207528 Score: 98
Period size: 27 Copynumber: 8.5 Consensus size: 25
39207290 GTAAATCTAC
39207300 AAACCAAGGGTATTTTAGTAATTTTT
1 AAACCAAGGGTATTTTA-TAATTTTT
*
39207326 AAACCAATGGTATTTTTATAATTTTT
1 AAACCAAGGGTA-TTTTATAATTTTT
* * * *
39207352 AGAAAGTCAAGGATATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTT-TATAA-TTTTT
* * * *
39207382 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTT-ATAATTTT-T
** ** **
39207409 AAATTAAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTT-TATAATTT-TT
* *
39207436 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTT-ATAATTTT-T
* * * *
39207463 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTT-ATAATTTT-T
39207490 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTA-TAATTTT-T
* *
39207517 AAATCGAGGGTA
1 AAACCAAGGGTA
39207529 AAACAGTAAT
Statistics
Matches: 163, Mismatches: 27, Indels: 25
0.76 0.13 0.12
Matches are distributed among these distances:
26 23 0.14
27 117 0.72
28 9 0.06
29 10 0.06
30 4 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (25 bp):
AAACCAAGGGTATTTTATAATTTTT
Found at i:39207527 original size:81 final size:79
Alignment explanation
Indices: 39207277--39207528 Score: 224
Period size: 81 Copynumber: 3.1 Consensus size: 79
39207267 TTTCATCCTA
* * * * * * *
39207277 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTT-TAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTA-TT
39207341 TTA-TAATTTTTAGAAAGT
64 TTAGTAATTTTT--AAA-T
* * **
39207359 CAAGGATATTTCT-GTAACTTTGTA-AATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTAT
1 CAAGGGTATTT-TGGTAA-TTT-TACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
** ** *
39207422 TTCGGTAATTTCACAAAC
63 TTTAGTAATTT-TTAAAT
39207440 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
39207505 TAGTAATTTTGTAAAT
65 TAGTAATTTT-TAAAT
*
39207521 CGAGGGTA
1 CAAGGGTA
39207529 AAACAGTAAT
Statistics
Matches: 134, Mismatches: 26, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
79 2 0.01
80 7 0.05
81 66 0.49
82 38 0.28
83 19 0.14
84 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTTAAAT
Found at i:39207528 original size:54 final size:54
Alignment explanation
Indices: 39207277--39207528 Score: 215
Period size: 54 Copynumber: 4.6 Consensus size: 54
39207267 TTTCATCCTA
* * * * * * *
39207277 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTT-TAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAAC
* * * * ** *
39207330 CAATGGTATTTTTA-TAATTTTTAGAAAGTCAAGGATATTTCT-GTAACTTTGTAAAT
1 CAAGGGTA-TTTTAGTAA-TTTTACAAA-TCAAGGGTATTT-TGGTAATTTTACAAAC
* * * * *
39207386 CAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAAC
* *
39207440 CAAGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAATC-AAGGGTATTTTGGTAATTTTACAAAC
** *
39207494 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTA
39207529 AAACAGTAAT
Statistics
Matches: 158, Mismatches: 32, Indels: 17
0.76 0.15 0.08
Matches are distributed among these distances:
53 9 0.06
54 105 0.66
55 30 0.19
56 14 0.09
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAAC
Found at i:39207538 original size:54 final size:54
Alignment explanation
Indices: 39207389--39207593 Score: 160
Period size: 54 Copynumber: 3.8 Consensus size: 54
39207379 TGTAAATCAG
* * * *** * *
39207389 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCAAGGGTAAAACAGTAATTTTACAAACCAA
* * * *****
39207443 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATC-AAGGGTAAAACAGTAATTTTACAAACCAA
* * ** *
39207497 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCAAGGGTAAAACAGTAATTTTACAAACCAA
**** *
39207551 GGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATT
1 GGGTATTTTAGTAATTTTATAAATCAAGGGTAAAACAGTAATT
39207594 CAGTAAATCG
Statistics
Matches: 125, Mismatches: 24, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
54 124 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.35
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTATAAATCAAGGGTAAAACAGTAATTTTACAAACCAA
Found at i:39207555 original size:81 final size:81
Alignment explanation
Indices: 39207372--39207755 Score: 220
Period size: 81 Copynumber: 4.7 Consensus size: 81
39207362 GGATATTTCT
* * * * *
39207372 GTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCA-C
1 GTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTT-AGT
* * ****
39207436 AAACCAAGGGTATTTTG
65 AAATCGAGGGTAAAACG
** * * * *
39207453 GTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGT
1 GTAATTTTGTAAATC-AAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTAGT
*
39207517 AAATCGAGGGTAAAACA
65 AAATCGAGGGTAAAACG
***** * * *** *
39207534 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCAGTA
1 GTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTAGTA
39207599 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * **** * * ** * *** *
39207615 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAGGGGTAAAACGGTAA-TTATGT
1 GTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTA-GT
* *
39207679 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAACG
* * * * *
39207696 GTAATTCTGTAAATC-GGAGGTACTTTGGTAATTTTACAAGT-AGAGGGCATTTCAGTAATT
1 GTAATTTTGTAAATCAAG-GGTATTTTGGTAATTTTACAAATCA-AGGGTATTTCAGTAATT
39207756 GGTAAACTAA
Statistics
Matches: 233, Mismatches: 63, Indels: 13
0.75 0.20 0.04
Matches are distributed among these distances:
80 5 0.02
81 226 0.97
82 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (81 bp):
GTAATTTTGTAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTAGTA
AATCGAGGGTAAAACG
Found at i:39207717 original size:27 final size:27
Alignment explanation
Indices: 39207507--39207711 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
39207497 GGGTATTTTA
* *
39207507 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
39207534 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
39207561 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
39207588 GTAATTCAGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
39207615 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
39207642 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* * *
39207669 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
39207696 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
39207712 GAGGTACTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 159 0.99
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:39210430 original size:31 final size:31
Alignment explanation
Indices: 39210389--39210454 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
39210379 CCTTTTCATA
*
39210389 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
39210420 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
39210451 TTTC
1 TTTC
39210455 TATAAACGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:39210720 original size:23 final size:23
Alignment explanation
Indices: 39210666--39210854 Score: 308
Period size: 23 Copynumber: 8.1 Consensus size: 23
39210656 CCTAGCCTCT
*
39210666 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
39210689 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
39210713 TTTAATAACTGGGGCATAATCCC
1 TTTAATAACTGGGGCATAAGCCC
39210736 TTTTAATAACT-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
39210759 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
39210782 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
39210806 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
39210829 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
39210852 TTT
1 TTT
39210855 TGCACTTCCT
Statistics
Matches: 156, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.06
23 92 0.59
24 54 0.35
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:39210770 original size:93 final size:93
Alignment explanation
Indices: 39210666--39210854 Score: 335
Period size: 93 Copynumber: 2.0 Consensus size: 93
39210656 CCTAGCCTCT
39210666 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
*
39210731 ATCCCTTTTAATAACT-GGGCATAAGCCC
66 AGCCC-TTTAATAACTAGGGCATAAGCCC
* *
39210759 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
1 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
39210824 AGCCCTTTAATAACTAGGGCATAAGCCC
66 AGCCCTTTAATAACTAGGGCATAAGCCC
39210852 TTT
1 TTT
39210855 TGCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 10 0.11
93 82 0.89
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (93 bp):
TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATA
AGCCCTTTAATAACTAGGGCATAAGCCC
Found at i:39210926 original size:9 final size:9
Alignment explanation
Indices: 39210912--39210968 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
39210902 ATCTCATGTG
39210912 CATATCATA
1 CATATCATA
*
39210921 CATATCATGTG
1 CATATCA--TA
39210932 CATATCATA
1 CATATCATA
* *
39210941 CATGTCATGTG
1 CATATCA--TA
39210952 CATATCATA
1 CATATCATA
39210961 CATATCAT
1 CATATCAT
39210969 GTTTATTAAA
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:39210928 original size:20 final size:20
Alignment explanation
Indices: 39210900--39210970 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
39210890 GCATTTATGA
*
39210900 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
39210920 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
39210940 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
39210960 ACATATCATGT
1 ACATATCATGT
39210971 TTATTAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:39210935 original size:11 final size:11
Alignment explanation
Indices: 39210905--39210959 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39210895 TATGAACATC
39210905 TCATGTGCATA
1 TCATGTGCATA
*
39210916 TCA--TACATA
1 TCATGTGCATA
39210925 TCATGTGCATA
1 TCATGTGCATA
* *
39210936 TCA--TACATG
1 TCATGTGCATA
39210945 TCATGTGCATA
1 TCATGTGCATA
39210956 TCAT
1 TCAT
39210960 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39211049 original size:25 final size:24
Alignment explanation
Indices: 39211007--39211054 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
39210997 ATATATAAAC
* * *
39211007 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
39211032 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39211055 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:39212302 original size:27 final size:27
Alignment explanation
Indices: 39212202--39212285 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
39212192 GGGCATATTC
* *
39212202 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
39212229 GTCACTTT-CCCTTACAGGGGCTTTACG
1 GTCACTTTACCC-TACAGGGGCTTTACG
39212256 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
39212283 GTC
1 GTC
39212286 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 2 0.04
27 46 0.88
28 4 0.08
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:39212365 original size:27 final size:27
Alignment explanation
Indices: 39212330--39212560 Score: 205
Period size: 27 Copynumber: 8.5 Consensus size: 27
39212320 CTACAAGGTG
* *
39212330 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* ** *
39212357 TTTTAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* * *
39212384 TTTCT-ATAATTTTTAGAAAGTCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-CCAAGGGTA
* ** * *
39212413 TTTCT-GTAACTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTACAAACCAAGGGTA
* ***
39212440 TTTTGATAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* *
39212467 TTTCGGTAATTTCACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* *
39212494 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
39212521 TTTTGGTAATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
*
39212548 TTTTAGTAATTTT
1 TTTTGGTAATTTT
39212561 GTAAATCGAG
Statistics
Matches: 164, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 134 0.82
28 14 0.09
29 15 0.09
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAAGGGTA
Done.