Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 182 of 322
Found at i:59739458 original size:33 final size:32
Alignment explanation
Indices: 59739416--59739481 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 32
59739406 ATTGTTACTC
59739416 TTTCCCACTTCCATAGCGGAATTTTCACAGGT
1 TTTCCCACTTCCATAGCGGAATTTTCACAGGT
59739448 NTTTCCCACTTCCATAGCGGAATTTTCACAGGT
1 -TTTCCCACTTCCATAGCGGAATTTTCACAGGT
59739481 T
1 T
59739482 ACAGTAATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.35
Consensus pattern (32 bp):
TTTCCCACTTCCATAGCGGAATTTTCACAGGT
Found at i:59756433 original size:42 final size:42
Alignment explanation
Indices: 59756385--59756490 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
59756375 TTAGGGTTAC
*
59756385 TAAGACTAT-GTATAAGACCATATCTAGGATATGACATCTATA
1 TAAGACT-TCGTATAAGACCATATCTAGGATATGACATCGATA
* * * *
59756427 TAAGACTTCGTGTAAAACCATATCTGGGATATGGCATCGATA
1 TAAGACTTCGTATAAGACCATATCTAGGATATGACATCGATA
59756469 TGAA-ACTTCGTATAAGACCATA
1 T-AAGACTTCGTATAAGACCATA
59756491 GCTTGACTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 52 0.95
43 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (42 bp):
TAAGACTTCGTATAAGACCATATCTAGGATATGACATCGATA
Found at i:59762003 original size:80 final size:79
Alignment explanation
Indices: 59761870--59762044 Score: 239
Period size: 80 Copynumber: 2.2 Consensus size: 79
59761860 ATGATAACTG
* * * *
59761870 GGCTAAGTCCCGAAGGCATTTTTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGC
59761935 GAGTTA-CTATATCC
66 GAG-TAGCTATATCC
59761949 AGGCTAAGTCCCGAAGGCATTTGTGCGAACT-ACTATATT-CGGGCTAAGTCCCGAAGGCATTTG
1 -GGCTAAGTCCCGAAGGCATTTGTGC-AACTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTG
59762012 AGCGAGTAGCTATATCC
63 AGCGAGTAGCTATATCC
* *
59762029 GGTTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
59762045 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
79 16 0.19
80 65 0.76
81 5 0.06
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAGC
GAGTAGCTATATCC
Found at i:59762025 original size:40 final size:39
Alignment explanation
Indices: 59761869--59762044 Score: 212
Period size: 40 Copynumber: 4.4 Consensus size: 39
59761859 GATGATAACT
* *
59761869 GGGCTAAGTCCCGAAGGCATTTTTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATT-C
*
59761909 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATTC
* *
59761949 AGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATATTC
*
59761989 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATA-TC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATTC
* * *
59762028 CGGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
59762045 TACTTGGTTT
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 19 0.16
40 97 0.81
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATTC
Found at i:59766796 original size:99 final size:99
Alignment explanation
Indices: 59766605--59766805 Score: 262
Period size: 99 Copynumber: 2.0 Consensus size: 99
59766595 TATGTAGCCA
* * * *
59766605 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
*
59766670 TAGTAGCTTGCACTTAGTACTACACACA-CAACCT
66 TAGTAGCCTGCACTTAGTACTA-ACACAGCAACCT
* * * * *
59766704 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACA
59766769 CATAGTAGCCTGCACTTAGTACT-ACACATGCAACCT
64 CATAGTAGCCTGCACTTAGTACTAACACA-GCAACCT
59766805 A
1 A
59766806 GCTACATATA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
99 47 0.53
100 3 0.03
101 38 0.43
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
AACTATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
TAGTAGCCTGCACTTAGTACTAACACAGCAACCT
Found at i:59766823 original size:101 final size:99
Alignment explanation
Indices: 59766605--59766805 Score: 276
Period size: 101 Copynumber: 2.0 Consensus size: 99
59766595 TATGTAGCCA
* * * * *
59766605 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
*
59766670 TAGTAGCTTGCACTTAGTACTACACACACAACCT
66 TAGTAGCCTGCACTTAGTACTACACACACAACCT
* * * *
59766704 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACA
**
59766769 CATAGTAGCCTGCACTTAGTACTACACATGCAACCT
64 CATAGTAGCCTGCACTTAGTACTACACACACAACCT
59766805 A
1 A
59766806 GCTACATATA
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 42 0.48
100 3 0.03
101 43 0.49
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACA
TAGTAGCCTGCACTTAGTACTACACACACAACCT
Found at i:59767647 original size:30 final size:30
Alignment explanation
Indices: 59767611--59767671 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59767601 TCCTTAACTC
59767611 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * * *
59767641 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
59767671 A
1 A
59767672 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:59770702 original size:42 final size:42
Alignment explanation
Indices: 59770656--59770810 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 42
59770646 CTATGACTAT
* * *
59770656 GTGTAAGACTATATCTGGGATATGGCATCTATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCAATAGGAGACTTC
*
59770698 GTGTAAGACCATATCTGGGATATGGCATCAATAGGATACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCAATAGGAGACTTC
* * * * * * ** * *
59770740 ATGTAAGGCCATAACTTGGCTATTGGAATTGATACGAGA-TCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCAATAGGAGACT-TC
* *
59770783 ATGTAAGGCCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
59770811 TGGTATGGTA
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 61 0.66
43 31 0.34
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCAATAGGAGACTTC
Found at i:59772448 original size:28 final size:28
Alignment explanation
Indices: 59772385--59772467 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
59772375 ATATTAAGTC
* *
59772385 CGCACACTCAGTGTTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
59772412 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
59772440 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
59772468 TGATCAACTT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.40
28 31 0.60
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59772572 original size:28 final size:28
Alignment explanation
Indices: 59772530--59772627 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
59772520 ATATTAAGTC
*
59772530 CGCACACTCAG-GCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
59772557 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
59772585 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
59772614 CGCACACTTAGTGC
1 CGCACACTTAGTGC
59772628 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 10 0.16
28 35 0.55
29 19 0.30
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:59772586 original size:145 final size:145
Alignment explanation
Indices: 59772323--59772599 Score: 529
Period size: 145 Copynumber: 1.9 Consensus size: 145
59772313 CCGCTGTCCG
59772323 TGATCAACTTAATAATGTCGCACACTTAGTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGC
1 TGATCAACTTAATAATGTCGCACACTTAGTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGC
*
59772388 ACACTCAGTGTTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTG
66 ACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTG
59772453 CTACATAATCAAACT
131 CTACATAATCAAACT
59772468 TGATCAACTTAATAATGTCGCACACTTAGTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGC
1 TGATCAACTTAATAATGTCGCACACTTAGTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGC
59772533 ACACTCAG-GCTATATAATCAAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGT
66 ACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGT
59772597 GCT
130 GCT
59772600 GTACAATTTA
Statistics
Matches: 130, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
144 10 0.08
145 120 0.92
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (145 bp):
TGATCAACTTAATAATGTCGCACACTTAGTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGC
ACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTG
CTACATAATCAAACT
Found at i:59779594 original size:44 final size:44
Alignment explanation
Indices: 59779529--59779612 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 44
59779519 TTGATATGTC
* * *
59779529 AAAGTCCATGGTTGTACCATGGAAATTATGGAAGAATTGATGGG
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGATGGG
* * *
59779573 AAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGA
59779613 CAGTTAAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 3 0.09
44 30 0.91
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGATGGG
Found at i:59779810 original size:47 final size:47
Alignment explanation
Indices: 59779752--59779870 Score: 211
Period size: 47 Copynumber: 2.5 Consensus size: 47
59779742 GCATTGGCAC
*
59779752 TAAGACAAGGATACCATGTAAGGCCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
59779799 TAAGACAAGGATACAATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
59779846 TAAGACAAGGATATCATGTAAGACC
1 TAAGACAAGGATACCATGTAAGACC
59779871 TTGCCAAGGC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.24
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:59779944 original size:55 final size:53
Alignment explanation
Indices: 59779846--59779994 Score: 192
Period size: 55 Copynumber: 2.8 Consensus size: 53
59779836 TGGCATTTGG
* * * *
59779846 TAAGACAAGGATATCATGTAAGACCTTGCCAAGGCATGGCATTGATGAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATGAGTT-C-A
* *
59779901 TAAGGCAAAGG-TCCCATGTAAGACCATGTCAAGGCATGGCATTGGTGAGTTCA
1 TAAGGC-AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATGAGTTCA
* *
59779954 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGGCATGGCA
59779995 ATGGTAAGTT
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 4 0.05
53 34 0.41
54 1 0.01
55 40 0.48
56 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (53 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGATGAGTTCA
Found at i:59779980 original size:53 final size:53
Alignment explanation
Indices: 59779846--59780006 Score: 198
Period size: 53 Copynumber: 3.0 Consensus size: 53
59779836 TGGCATTTGG
* * * * *
59779846 TAAGACAAGGATATCATGTAAGACCTTGCCAAGGCATGGCATTGATGAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTGAGTT-C-A
*
59779901 TAAGGCAAAGG-TCCCATGTAAGACCATGTCAAGGCATGGCATTGGTGAGTTCA
1 TAAGGC-AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTGAGTTCA
* * * *
59779954 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTGAGTTCA
59780007 AAAAAGAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.04
53 44 0.47
54 1 0.01
55 40 0.43
56 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTGAGTTCA
Found at i:59786842 original size:47 final size:47
Alignment explanation
Indices: 59786784--59787984 Score: 2114
Period size: 47 Copynumber: 25.5 Consensus size: 47
59786774 ATTCAGCCAA
* * *
59786784 GAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
59786831 GAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTG--TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59786880 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59786927 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59786974 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787021 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787068 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787115 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787162 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787209 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787256 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787303 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787350 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787397 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787444 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787491 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787538 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787585 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787632 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * *
59787679 GAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
59787726 GAAAGAGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 G-AA-AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
59787775 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * *
59787822 GAAAGTGTATATATGTAATAAAGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * *
59787869 GAAAGTGTATATATGTGATAAGGCCTAGTGGCCGATGTGATGAATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * * *
59787916 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* **
59787963 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATGTGTGATAAG
59787985 TCCCGAAGGG
Statistics
Matches: 1122, Mismatches: 28, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
47 1031 0.92
48 4 0.00
49 87 0.08
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:59788159 original size:37 final size:37
Alignment explanation
Indices: 59788106--59788181 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
59788096 AGCTCTAAAC
* *
59788106 ACCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAG
1 ACCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAG
*
59788143 ACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAG
1 ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAG
59788180 AC
1 AC
59788182 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 34 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (37 bp):
ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAG
Found at i:59790397 original size:2 final size:2
Alignment explanation
Indices: 59790392--59790440 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
59790382 AATATATATA
59790392 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59790434 TG TG TG T
1 TG TG TG T
59790441 AATGTGATGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:59794291 original size:40 final size:40
Alignment explanation
Indices: 59794212--59794388 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
59794202 CGGATGATAA
* * * * *
59794212 CCGGACTAAGATCTGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
59794252 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
59794292 CCGGGCTAAGACCCGAAAGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
59794332 TCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
59794372 -CTGGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
59794389 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.14
40 96 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:59794656 original size:22 final size:22
Alignment explanation
Indices: 59794616--59794657 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
59794606 GAATGTGCAT
*
59794616 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
59794638 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
59794658 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:59801795 original size:40 final size:40
Alignment explanation
Indices: 59801716--59801883 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
59801706 CGGATGATAA
* * * *
59801716 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
59801756 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* * *
59801796 CCGGGCTAAGACCTGAAGGAATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
59801836 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
59801876 CC-GGCTAA
1 CCGGGCTAA
59801884 ATCCCGGAGA
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 8 0.07
40 98 0.91
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:59802204 original size:22 final size:22
Alignment explanation
Indices: 59802164--59802205 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
59802154 GAATGTGCAT
*
59802164 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
59802186 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
59802206 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:59812509 original size:37 final size:37
Alignment explanation
Indices: 59812459--59812538 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
59812449 CTTATTACGA
* *
59812459 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
59812496 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
59812533 GGTCTT
1 AGTCTT
59812539 TAGAGTCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:59812732 original size:47 final size:47
Alignment explanation
Indices: 59812668--59812919 Score: 321
Period size: 47 Copynumber: 5.4 Consensus size: 47
59812658 TTATCACATT
* * *
59812668 CATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCCTATCTCA
1 CATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA
* * *
59812713 CATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACA
1 CATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA
* * *
59812760 CATACACCTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACA
1 CATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA
59812807 CATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA
1 CATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA
* ** * * *
59812854 TATATGCATGTTCACATTGATCACATTGGCCATTCGGCCCTATTCACA
1 CATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCTCA
*
59812902 CATATACACT-TTCACATT
1 CATACACA-TGTTCACATT
59812920 TATTCAATTA
Statistics
Matches: 182, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
45 7 0.04
46 1 0.01
47 155 0.85
48 18 0.10
49 1 0.01
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.31
Consensus pattern (47 bp):
CATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCA
Found at i:59812958 original size:141 final size:140
Alignment explanation
Indices: 59812668--59812950 Score: 319
Period size: 141 Copynumber: 2.0 Consensus size: 140
59812658 TTATCACATT
59812668 CATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATT
1 CATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATT
* * *
59812731 CATCACATTGGCCACTCGGCCTTATCACACATACACCTGTTCACTTTCATCACATTGGCCATTCG
66 CATCACATTGGCCACTCGGCCCTATCACACATACACCTGTTCACTTTCATCACATTAGACATTC-
* * *
59812796 GCCTTATCACA
130 GACATACCACA
* * * * ** *
59812807 CATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATT
1 CATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATT
* * *
59812872 GATCACATTGGCCATTCGGCCCTATTCACACATATACACT-TTCACATTT-ATTCA-ATTAGAC-
66 CATCACATTGGCCACTCGGCCCTA-TCACACATACAC-CTGTTCAC-TTTCA-TCACATTAGACA
59812933 TTC-ACATACCACA
127 TTCGACATACCACA
*
59812946 TATAC
1 CATAC
59812951 CATCATGTAC
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
139 18 0.15
140 1 0.01
141 72 0.60
142 22 0.18
143 8 0.07
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.31
Consensus pattern (140 bp):
CATACACATGTTCACATTCATCACATCGGCCATTAGGCCCTATCTCACATACACATGCTCACATT
CATCACATTGGCCACTCGGCCCTATCACACATACACCTGTTCACTTTCATCACATTAGACATTCG
ACATACCACA
Found at i:59817418 original size:43 final size:42
Alignment explanation
Indices: 59817371--59817475 Score: 104
Period size: 43 Copynumber: 2.5 Consensus size: 42
59817361 TCCTAGATAG
* * *
59817371 GGTCTTACACGAAATCTTATAAT-GATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATC--ACAATAAATGCCAAAGTCCCAAACAT
* * *
59817414 GGTCTTACATGTAATCACAATACAATGCCAAAGTCCCAGACAT
1 GGTCTTACACGAAATCACAATA-AATGCCAAAGTCCCAAACAT
* *
59817457 GGTCTTACATGTAATCACA
1 GGTCTTACACGAAATCACA
59817476 TCTCGATAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
41 4 0.07
43 50 0.93
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCACAATAAATGCCAAAGTCCCAAACAT
Found at i:59819172 original size:50 final size:50
Alignment explanation
Indices: 59819088--59819353 Score: 259
Period size: 50 Copynumber: 5.3 Consensus size: 50
59819078 ATCACTCATT
* * * *
59819088 TGGCCAAATATACAAGGTCAAATATAATAGCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTACTTACCTATA
* * * *
59819138 TCGCCGAATATGCAAGATCAAATTTAATATCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTACTTACCTATA
* * * * *
59819188 TAGACGAATATGA-AAGATCAAATTTAACATCACATATGTACTTACTTATA
1 TGGCCGAATAT-ACAAGATCAAATATAATATCACATATGTACTTACCTATA
* * *
59819238 TGGCCGAATATACAA-ATTCAAATATAATATCTCATTTGTACATACCT-TCA
1 TGGCCGAATATACAAGA-TCAAATATAATATCACATATGTACTTACCTAT-A
* * * * * * *
59819288 TGGTCGAATATTCAAGATCCAATACAACATCACATATGTACATACCTATG
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTACTTACCTATA
* *
59819338 CGGCCAAATATACAAG
1 TGGCCGAATATACAAG
59819354 GTCATTTAGC
Statistics
Matches: 178, Mismatches: 32, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
49 3 0.02
50 173 0.97
51 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAATATCACATATGTACTTACCTATA
Found at i:59821895 original size:129 final size:129
Alignment explanation
Indices: 59821665--59821922 Score: 464
Period size: 129 Copynumber: 2.0 Consensus size: 129
59821655 GGATGAAAAG
59821665 TAGTACTAAAATTCAGTTTAGTACCTAATGCATCTTCGAGTTTCTTCCAAAACTGTGATGTAAAT
1 TAGTACTAAAATTCAGTTTAGTACCTAATGCATCTTCGAGTTTCTTCCAAAACTGTGATGTAAAT
* *
59821730 GTCAGATCTCTATCTGACACAATAGAAATAGGTACTCTGTGTAGTCTCACAATTTGAGAAACAT
66 GTCAGATCTCTATCTGACACAATAGAAATAGGTACTCCGTGTAGTCTCACAATCTGAGAAACAT
59821794 TAGTACTAAAATTCAGTTTAGTACCTAATGCATCTTCGAGTTTCTTCCAAAACTGTGATGTAAAT
1 TAGTACTAAAATTCAGTTTAGTACCTAATGCATCTTCGAGTTTCTTCCAAAACTGTGATGTAAAT
* *
59821859 TTC-GAATCTCTATCTGACACAGTAGAAATAGGTACTCCGTGTAGTCTCACAATCTGAGAAACAT
66 GTCAG-ATCTCTATCTGACACAATAGAAATAGGTACTCCGTGTAGTCTCACAATCTGAGAAACAT
59821923 ACAATTTAGC
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
128 1 0.01
129 123 0.99
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (129 bp):
TAGTACTAAAATTCAGTTTAGTACCTAATGCATCTTCGAGTTTCTTCCAAAACTGTGATGTAAAT
GTCAGATCTCTATCTGACACAATAGAAATAGGTACTCCGTGTAGTCTCACAATCTGAGAAACAT
Found at i:59826989 original size:50 final size:50
Alignment explanation
Indices: 59826911--59827176 Score: 266
Period size: 50 Copynumber: 5.3 Consensus size: 50
59826901 ATCACTCATT
* * *
59826911 TGGCCAAATATACAAGATCAAATATAATAGCACATATGTGCTTACCAATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
* * *
59826961 TGGCCGAATATGCAAGATCAAATTTAATATCACATATGTGCTTAACTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
* * * * * * *
59827011 TAGCCGAATATGCAAGATCAAATTTAACATCACATATGTACTTACTTAGA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
* * * *
59827061 TGGCCGAATATACAA-ATTCAAATATAATATCAAATTTGTACATACCT-TCA
1 TGGCCGAATATACAAGA-TCAAATATAATATCACATATGTGCTTACCTAT-A
* * * * * * * *
59827111 TGGCTGAATATTCAAGATCCAATACAACATCACATATGTACATACCTATG
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
*
59827161 TGGCTGAATATACAAG
1 TGGCCGAATATACAAG
59827177 GTCATTTAGC
Statistics
Matches: 182, Mismatches: 30, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 179 0.98
51 2 0.01
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
Found at i:59834068 original size:28 final size:28
Alignment explanation
Indices: 59834036--59834100 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
59834026 ATTTACTAGA
*
59834036 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
59834064 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
59834092 ATACCCCTA
1 ATACCCCTA
59834101 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:59834249 original size:28 final size:28
Alignment explanation
Indices: 59834216--59834286 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 28
59834206 CTAGTGGCTA
* *
59834216 TGCCACAACTTATCTGTTCTGGTGGCCC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
* *
59834244 TGCCAC--GTAATCTGTTCTGGTGGCAC
1 TGCCACAAATTATCTGTTCTGGTGGCAC
*
59834270 TGCCACAAAATATCTGT
1 TGCCACAAATTATCTGT
59834287 ATCTAGAGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 23 0.66
28 12 0.34
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (28 bp):
TGCCACAAATTATCTGTTCTGGTGGCAC
Found at i:59835390 original size:11 final size:10
Alignment explanation
Indices: 59835362--59835395 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
59835352 AGCCTGTAAG
59835362 TATTCTGAAT
1 TATTCTGAAT
*
59835372 TTTTCTGAAT
1 TATTCTGAAT
59835382 ATATTCTGAAT
1 -TATTCTGAAT
59835393 TAT
1 TAT
59835396 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:59846003 original size:39 final size:39
Alignment explanation
Indices: 59845956--59846126 Score: 234
Period size: 39 Copynumber: 4.4 Consensus size: 39
59845946 TATATAAGAT
* *
59845956 TGGAAATATGTCCGGACATGAGGTCTGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
59845995 TGGAAATATATCCGGACATGAGGTCCACAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
59846034 TGGAAATATATCCGGACATGAGGTCCGCAAGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * ** **
59846073 TGGAAATATATCTGGACTTGAGGTCTGCAAACTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
59846112 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
59846127 GTTAAAGACC
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:59854198 original size:40 final size:40
Alignment explanation
Indices: 59853960--59854184 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
59853950 TCGAATGATG
* * * *
59853960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
59854000 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59854040 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59854079 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59854119 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59854160 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59854185 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59854206 original size:119 final size:119
Alignment explanation
Indices: 59853960--59854217 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
59853950 TCGAATGATG
* *
59853960 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
59854025 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
59854079 TCCGGGTTAAGTCCCGAAGGCCTTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGG-CTTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
59854142 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
59854199 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59854218 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 32 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:59857920 original size:28 final size:28
Alignment explanation
Indices: 59857884--59857941 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
59857874 GTAAAGAAAG
59857884 AAATCATCAAGTTGTTAGATGCGGGTAT
1 AAATCATCAAGTTGTTAGATGCGGGTAT
*
59857912 AAATTATCAAGTTGTTAGATGCGGGTAT
1 AAATCATCAAGTTGTTAGATGCGGGTAT
59857940 AA
1 AA
59857942 TTTACCCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (28 bp):
AAATCATCAAGTTGTTAGATGCGGGTAT
Found at i:59862367 original size:40 final size:40
Alignment explanation
Indices: 59862272--59862496 Score: 197
Period size: 40 Copynumber: 5.6 Consensus size: 40
59862262 TATTCGAATG
* * *
59862272 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTCGTGCTA-GCGACT
* * * * * *
59862313 ATAACCGGACTAAGATCTGAAGGCATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAG-CGACT
* *
59862353 ATATCCGGGCTAAGACCCGAAGGCATTTC-TGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCA-TTCGTGCTAGCGACT
* * *
59862393 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAGCGACT
** * *
59862433 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTCGTGCTAGCGACT
* *
59862473 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
59862497 CTTGCGCAAG
Statistics
Matches: 154, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.02
40 119 0.77
41 31 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTCGTGCTAGCGACT
Found at i:59862452 original size:80 final size:80
Alignment explanation
Indices: 59862272--59862532 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 80
59862262 TATTCGAATG
* * * * * *
59862272 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCTGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
* *
59862337 ATTCGTGCGAGTTGTT
65 ATTCGTGCGAGTCGCT
* * * * *
59862353 ATATCCGGGCTAAGACCCGAAGGCATTTCTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
59862418 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * *
59862433 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
59862498 TT-GCGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
59862512 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59862533 ATTACTTGAG
Statistics
Matches: 151, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.09
79 13 0.09
80 93 0.62
81 31 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:59862486 original size:120 final size:121
Alignment explanation
Indices: 59862272--59862496 Score: 294
Period size: 120 Copynumber: 1.9 Consensus size: 121
59862262 TATTCGAATG
** * * *
59862272 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCTGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* ** *
59862337 ATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTCTGCTAGCGATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTCTGCTAGCGATT
* *
59862393 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
59862456 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGC
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGC
59862497 CTTGCGCAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 3 0.03
120 55 0.62
121 31 0.35
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCATTTCTGCTAGCGATT
Found at i:59864374 original size:16 final size:15
Alignment explanation
Indices: 59864347--59864385 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
59864337 ATAACTAGTA
*
59864347 TATAATTATATTTAT
1 TATAATTATATTAAT
59864362 TATAATATATATTAAT
1 TATAAT-TATATTAAT
*
59864378 TATTATTA
1 TATAATTA
59864386 ACTTTGCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:59865206 original size:25 final size:24
Alignment explanation
Indices: 59865148--59865211 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
59865138 ATTTCAATTT
*
59865148 TATTTAATTATTTAATTTTTCAAAC
1 TATTAAATTA-TTAATTTTTCAAAC
* *
59865173 TATTGAATTATTAATATTTT-ATAC
1 TATTAAATTATTAAT-TTTTCAAAC
*
59865197 TAATTAAATTTTTAA
1 T-ATTAAATTATTAA
59865212 GAAAATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTAAATTATTAATTTTTCAAAC
Found at i:59866266 original size:5 final size:5
Alignment explanation
Indices: 59866256--59866287 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
59866246 TTATGTGTTC
59866256 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
59866288 TTCACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:59866270 original size:9 final size:9
Alignment explanation
Indices: 59866256--59866286 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
59866246 TTATGTGTTC
59866256 TTTATTTTA
1 TTTATTTTA
59866265 TTTATTTTA
1 TTTATTTTA
59866274 TTTTATTTTA
1 -TTTATTTTA
59866284 TTT
1 TTT
59866287 TTTCACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:59870622 original size:5 final size:5
Alignment explanation
Indices: 59870612--59870643 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
59870602 TTGTGTGTTC
59870612 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
59870644 TTCACACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:59870626 original size:9 final size:9
Alignment explanation
Indices: 59870612--59870642 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
59870602 TTGTGTGTTC
59870612 TTTATTTTA
1 TTTATTTTA
59870621 TTTATTTTA
1 TTTATTTTA
59870630 TTTTATTTTA
1 -TTTATTTTA
59870640 TTT
1 TTT
59870643 TTTCACACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:59872938 original size:4 final size:5
Alignment explanation
Indices: 59872913--59872941 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
59872903 GCATTGGAAC
59872913 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
59872942 CTTAGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:59874833 original size:31 final size:31
Alignment explanation
Indices: 59874787--59874850 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
59874777 GATCTAGCGA
59874787 ATGGGTCAGGCAGGGGTGTTACAAAACATAT
1 ATGGGTCAGGCAGGGGTGTTACAAAACATAT
* *
59874818 ATGGGTCGGGTAGGGGTGTTACAAAACATAT
1 ATGGGTCAGGCAGGGGTGTTACAAAACATAT
59874849 AT
1 AT
59874851 TATATGAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.25
Consensus pattern (31 bp):
ATGGGTCAGGCAGGGGTGTTACAAAACATAT
Found at i:59875709 original size:21 final size:21
Alignment explanation
Indices: 59875683--59875726 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
59875673 AGGAAGATTT
* * *
59875683 GAAATGAGTAGATTATTACAA
1 GAAATGACTACATAATTACAA
59875704 GAAATGACTACATAATTACAA
1 GAAATGACTACATAATTACAA
59875725 GA
1 GA
59875727 GAGGGAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (21 bp):
GAAATGACTACATAATTACAA
Found at i:59876726 original size:2 final size:2
Alignment explanation
Indices: 59876719--59876744 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59876709 CTAGTTAGTT
59876719 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
59876745 AAGAAATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:59877107 original size:31 final size:31
Alignment explanation
Indices: 59877072--59877176 Score: 83
Period size: 33 Copynumber: 3.4 Consensus size: 31
59877062 TTTTAAAATG
* * *
59877072 TGTATATAATTGAATCAATA-TTAAAGTTTTA
1 TGTATATAATTGAACCAA-AGTCAAAGTTTCA
59877103 TGTATATATATTTGAACCAAAGTCAAAGTTTCA
1 TGTATATA-A-TTGAACCAAAGTCAAAGTTTCA
* * *
59877136 TATATATAATT-ATACCAAA-TCAAA-ATTAA
1 TGTATATAATTGA-ACCAAAGTCAAAGTTTCA
*
59877165 TGTATAAAATTG
1 TGTATATAATTG
59877177 CACATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
29 12 0.20
30 6 0.10
31 16 0.26
32 3 0.05
33 24 0.39
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.39
Consensus pattern (31 bp):
TGTATATAATTGAACCAAAGTCAAAGTTTCA
Found at i:59877767 original size:31 final size:31
Alignment explanation
Indices: 59877731--59877792 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
59877721 AAAACATTAG
59877731 ATATAGTTGGCATGCCATAGGATTTGAGTAC
1 ATATAGTTGGCATGCCATAGGATTTGAGTAC
59877762 ATATAGTTGGCATGCCATAGGATTTGAGTAC
1 ATATAGTTGGCATGCCATAGGATTTGAGTAC
59877793 TCATTTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (31 bp):
ATATAGTTGGCATGCCATAGGATTTGAGTAC
Found at i:59880589 original size:12 final size:12
Alignment explanation
Indices: 59880572--59880603 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
59880562 ACATGGGGTT
59880572 GGACACAGGCTG
1 GGACACAGGCTG
*
59880584 GGACACGGGCTG
1 GGACACAGGCTG
59880596 GGACACAG
1 GGACACAG
59880604 CCATGTGCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.44, T:0.06
Consensus pattern (12 bp):
GGACACAGGCTG
Found at i:59881544 original size:20 final size:18
Alignment explanation
Indices: 59881519--59881557 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
59881509 ACCTTGTGTG
*
59881519 TTTAAGCATGATTAATATGA
1 TTTAAGAATG-TT-ATATGA
59881539 TTTAAGAATGTTATATGA
1 TTTAAGAATGTTATATGA
59881557 T
1 T
59881558 ATATTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (18 bp):
TTTAAGAATGTTATATGA
Found at i:59890714 original size:17 final size:15
Alignment explanation
Indices: 59890678--59890707 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59890668 AATTCTTTAC
*
59890678 AAATTATAAAAATAT
1 AAATTATAAAAAAAT
59890693 AAATTATAAAAAAAT
1 AAATTATAAAAAAAT
59890708 TAAAATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTATAAAAAAAT
Found at i:59892522 original size:3 final size:3
Alignment explanation
Indices: 59892514--59892542 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
59892504 CACATAAATA
59892514 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
59892543 AAGATCACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59893436 original size:16 final size:18
Alignment explanation
Indices: 59893415--59893459 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
59893405 TGAGATAGTT
59893415 TTTAAAAATAA-TTAT-A
1 TTTAAAAATAAGTTATGA
59893431 TTTAAAAA-AAGTTATGA
1 TTTAAAAATAAGTTATGA
59893448 TTTCAAAAATAA
1 TTT-AAAAATAA
59893460 AAGATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.08
16 12 0.48
17 4 0.16
18 5 0.20
19 2 0.08
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TTTAAAAATAAGTTATGA
Found at i:59894668 original size:26 final size:25
Alignment explanation
Indices: 59894639--59894694 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
59894629 AAATTTTAAA
*
59894639 TTATTAGTGATTTTATTTAT-TATGGT
1 TTATTAGTAATTTT-TTTATATAT-GT
* *
59894665 TTATCAGTAATTTTTTTGTATATGT
1 TTATTAGTAATTTTTTTATATATGT
59894690 TTATT
1 TTATT
59894695 TTAACGGGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.23, C:0.02, G:0.12, T:0.62
Consensus pattern (25 bp):
TTATTAGTAATTTTTTTATATATGT
Found at i:59910314 original size:17 final size:17
Alignment explanation
Indices: 59910292--59910326 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
59910282 AGCCTTGTCG
59910292 CTGCCACAAGCCCATCA
1 CTGCCACAAGCCCATCA
*
59910309 CTGCCACAAGCTCATCA
1 CTGCCACAAGCCCATCA
59910326 C
1 C
59910327 CGTTGTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.46, G:0.11, T:0.14
Consensus pattern (17 bp):
CTGCCACAAGCCCATCA
Found at i:59915753 original size:17 final size:17
Alignment explanation
Indices: 59915731--59915769 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
59915721 TTTTACAATT
*
59915731 TTTTTGTATTTTCTCTA
1 TTTTTGTATTTTATCTA
* *
59915748 TTTTTGTGTTTTATGTA
1 TTTTTGTATTTTATCTA
59915765 TTTTT
1 TTTTT
59915770 AAAAATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.74
Consensus pattern (17 bp):
TTTTTGTATTTTATCTA
Found at i:59922703 original size:14 final size:14
Alignment explanation
Indices: 59922684--59922711 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59922674 CTCAAAAAAT
59922684 TATAAAAAATTATA
1 TATAAAAAATTATA
59922698 TATAAAAAATTATA
1 TATAAAAAATTATA
59922712 AAAACTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAAAAAATTATA
Found at i:59927846 original size:969 final size:969
Alignment explanation
Indices: 59925969--59927875 Score: 3796
Period size: 969 Copynumber: 2.0 Consensus size: 969
59925959 GGGTTAAAAC
59925969 AATATAATATATTATATATATTATAATAGTTAACAAATTTAAAAGTATGAAAACATATATTATAT
1 AATATAATATATTATATATATTATAATAGTTAACAAATTTAAAAGTATGAAAACATATATTATAT
59926034 AATATATGATATATGATAAAAACATAATAAATGAAATAATAAAAGTGATAAAAAGAAAGTAAGTG
66 AATATATGATATATGATAAAAACATAATAAATGAAATAATAAAAGTGATAAAAAGAAAGTAAGTG
59926099 GAAAAAGGTGGAGAGAAAGACATGCAAAATAAAAGAAAAAAGAAAATAAGGAAGGACGCACGATA
131 GAAAAAGGTGGAGAGAAAGACATGCAAAATAAAAGAAAAAAGAAAATAAGGAAGGACGCACGATA
59926164 TTAAGGGTTTTTAAGGTTAAAATTTAAATTAGTTAATCAATTTAGTCTATTTTCTTGTAATTTTT
196 TTAAGGGTTTTTAAGGTTAAAATTTAAATTAGTTAATCAATTTAGTCTATTTTCTTGTAATTTTT
59926229 ATTTTTTTGAAATTTCGGTATTTAGTACTACCAGACCTATGCTAAAATTTTAGCAATTATTAAGA
261 ATTTTTTTGAAATTTCGGTATTTAGTACTACCAGACCTATGCTAAAATTTTAGCAATTATTAAGA
59926294 TTTTAAATGTTGTTAATGTTGTATAGTTTTAGTATTAGGGATTAAATTGATAGATTTTTAAGCTA
326 TTTTAAATGTTGTTAATGTTGTATAGTTTTAGTATTAGGGATTAAATTGATAGATTTTTAAGCTA
59926359 GAAATGGGAAATGATTAAATTATAGAACAAATTGTAAATTTTGTGTAATACGGACTAACTTGTGA
391 GAAATGGGAAATGATTAAATTATAGAACAAATTGTAAATTTTGTGTAATACGGACTAACTTGTGA
59926424 AAAATTCAAATTTTAGGGGTTTAATTGGAAATAGAGAGTTAAATTTAGCTTAAAGTGAAATTAGT
456 AAAATTCAAATTTTAGGGGTTTAATTGGAAATAGAGAGTTAAATTTAGCTTAAAGTGAAATTAGT
59926489 ATAACAATATAAGATTAAATGTGAAGAATAAAAATTAGTCTTGATCTAGGGACTAAATTAGAATT
521 ATAACAATATAAGATTAAATGTGAAGAATAAAAATTAGTCTTGATCTAGGGACTAAATTAGAATT
59926554 TCAGCAAATATTAAGAAAAAATTTAAGTAGTCAATGTGAAATTGAATTGTTTCAATTAATGTATT
586 TCAGCAAATATTAAGAAAAAATTTAAGTAGTCAATGTGAAATTGAATTGTTTCAATTAATGTATT
59926619 TTAATTGTTTTAATTTCGTAGCTAACGTCGTACCGAAATCCTTAATTAAAAAAGAGAAGGAAAAA
651 TTAATTGTTTTAATTTCGTAGCTAACGTCGTACCGAAATCCTTAATTAAAAAAGAGAAGGAAAAA
59926684 ATCGACGTCGAATAGTTTGGAATCTACTGTTTGTATTTCTATAATGTGATAATGTGCAATTGTGA
716 ATCGACGTCGAATAGTTTGGAATCTACTGTTTGTATTTCTATAATGTGATAATGTGCAATTGTGA
59926749 TAATTGGATATTGGTTGTCTTTGGAAAGTGAATTGGAATCCTATTAACTGTATCAGGCTGAGTTG
781 TAATTGGATATTGGTTGTCTTTGGAAAGTGAATTGGAATCCTATTAACTGTATCAGGCTGAGTTG
59926814 CATGCCATAGGATAGAAAGAGTTCAAGGATTTCTTCGACTTCGAGTCGATGAGGCACTGGGTGCC
846 CATGCCATAGGATAGAAAGAGTTCAAGGATTTCTTCGACTTCGAGTCGATGAGGCACTGGGTGCC
*
59926879 AATTTACTTCGGTTTAACCGATGAGACACTGGGTGTCAATTTATATAATGCTGGGCGTA
911 AATTTACTTCAGTTTAACCGATGAGACACTGGGTGTCAATTTATATAATGCTGGGCGTA
59926938 AATATAATATATTATATATATTATAATAGTTAACAAATTTAAAAGTATGAAAACATATATTATAT
1 AATATAATATATTATATATATTATAATAGTTAACAAATTTAAAAGTATGAAAACATATATTATAT
59927003 AATATATGATATATGATAAAAACATAATAAATGAAATAATAAAAGTGATAAAAAGAAAGTAAGTG
66 AATATATGATATATGATAAAAACATAATAAATGAAATAATAAAAGTGATAAAAAGAAAGTAAGTG
59927068 GAAAAAGGTGGAGAGAAAGACATGCAAAATAAAAGAAAAAAGAAAATAAGGAAGGACGCACGATA
131 GAAAAAGGTGGAGAGAAAGACATGCAAAATAAAAGAAAAAAGAAAATAAGGAAGGACGCACGATA
59927133 TTAAGGGTTTTTAAGGTTAAAATTTAAATTAGTTAATCAATTTAGTCTATTTTCTTGTAATTTTT
196 TTAAGGGTTTTTAAGGTTAAAATTTAAATTAGTTAATCAATTTAGTCTATTTTCTTGTAATTTTT
59927198 ATTTTTTTGAAATTTCGGTATTTAGTACTACCAGACCTATGCTAAAATTTTAGCAATTATTAAGA
261 ATTTTTTTGAAATTTCGGTATTTAGTACTACCAGACCTATGCTAAAATTTTAGCAATTATTAAGA
59927263 TTTTAAATGTTGTTAATGTTGTATAGTTTTAGTATTAGGGATTAAATTGATAGATTTTTAAGCTA
326 TTTTAAATGTTGTTAATGTTGTATAGTTTTAGTATTAGGGATTAAATTGATAGATTTTTAAGCTA
59927328 GAAATGGGAAATGATTAAATTATAGAACAAATTGTAAATTTTGTGTAATACGGACTAACTTGTGA
391 GAAATGGGAAATGATTAAATTATAGAACAAATTGTAAATTTTGTGTAATACGGACTAACTTGTGA
59927393 AAAATTCAAATTTTAGGGGTTTAATTGGAAATAGAGAGTTAAATTTAGCTTAAAGTGAAATTAGT
456 AAAATTCAAATTTTAGGGGTTTAATTGGAAATAGAGAGTTAAATTTAGCTTAAAGTGAAATTAGT
59927458 ATAACAATATAAGATTAAATGTGAAGAATAAAAATTAGTCTTGATCTAGGGACTAAATTAGAATT
521 ATAACAATATAAGATTAAATGTGAAGAATAAAAATTAGTCTTGATCTAGGGACTAAATTAGAATT
59927523 TCAGCAAATATTAAGAAAAAATTTAAGTAGTCAATGTGAAATTGAATTGTTTCAATTAATGTATT
586 TCAGCAAATATTAAGAAAAAATTTAAGTAGTCAATGTGAAATTGAATTGTTTCAATTAATGTATT
59927588 TTAATTGTTTTAATTTCGTAGCTAACGTCGTACCGAAATCCTTAATTAAAAAAGAGAAGGAAAAA
651 TTAATTGTTTTAATTTCGTAGCTAACGTCGTACCGAAATCCTTAATTAAAAAAGAGAAGGAAAAA
59927653 ATCGACGTCGAATAGTTTGGAATCTACTGTTTGTATTTCTATAATGTGATAATGTGCAATTGTGA
716 ATCGACGTCGAATAGTTTGGAATCTACTGTTTGTATTTCTATAATGTGATAATGTGCAATTGTGA
59927718 TAATTGGATATTGGTTGTCTTTGGAAAGTGAATTGGAATCCTATTAACTGTATCAGGCTGAGTTG
781 TAATTGGATATTGGTTGTCTTTGGAAAGTGAATTGGAATCCTATTAACTGTATCAGGCTGAGTTG
59927783 CATGCCATAGGATAGAAAGAGTTCAAGGATTTCTTCGACTTCGAGTCGATGAGGCACTGGGTGCC
846 CATGCCATAGGATAGAAAGAGTTCAAGGATTTCTTCGACTTCGAGTCGATGAGGCACTGGGTGCC
*
59927848 AATTTATTTCAGTTTAACCGATGAGACA
911 AATTTACTTCAGTTTAACCGATGAGACA
59927876 TTATATGTCA
Statistics
Matches: 936, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
969 936 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.35
Consensus pattern (969 bp):
AATATAATATATTATATATATTATAATAGTTAACAAATTTAAAAGTATGAAAACATATATTATAT
AATATATGATATATGATAAAAACATAATAAATGAAATAATAAAAGTGATAAAAAGAAAGTAAGTG
GAAAAAGGTGGAGAGAAAGACATGCAAAATAAAAGAAAAAAGAAAATAAGGAAGGACGCACGATA
TTAAGGGTTTTTAAGGTTAAAATTTAAATTAGTTAATCAATTTAGTCTATTTTCTTGTAATTTTT
ATTTTTTTGAAATTTCGGTATTTAGTACTACCAGACCTATGCTAAAATTTTAGCAATTATTAAGA
TTTTAAATGTTGTTAATGTTGTATAGTTTTAGTATTAGGGATTAAATTGATAGATTTTTAAGCTA
GAAATGGGAAATGATTAAATTATAGAACAAATTGTAAATTTTGTGTAATACGGACTAACTTGTGA
AAAATTCAAATTTTAGGGGTTTAATTGGAAATAGAGAGTTAAATTTAGCTTAAAGTGAAATTAGT
ATAACAATATAAGATTAAATGTGAAGAATAAAAATTAGTCTTGATCTAGGGACTAAATTAGAATT
TCAGCAAATATTAAGAAAAAATTTAAGTAGTCAATGTGAAATTGAATTGTTTCAATTAATGTATT
TTAATTGTTTTAATTTCGTAGCTAACGTCGTACCGAAATCCTTAATTAAAAAAGAGAAGGAAAAA
ATCGACGTCGAATAGTTTGGAATCTACTGTTTGTATTTCTATAATGTGATAATGTGCAATTGTGA
TAATTGGATATTGGTTGTCTTTGGAAAGTGAATTGGAATCCTATTAACTGTATCAGGCTGAGTTG
CATGCCATAGGATAGAAAGAGTTCAAGGATTTCTTCGACTTCGAGTCGATGAGGCACTGGGTGCC
AATTTACTTCAGTTTAACCGATGAGACACTGGGTGTCAATTTATATAATGCTGGGCGTA
Found at i:59935706 original size:6 final size:6
Alignment explanation
Indices: 59935679--59935726 Score: 69
Period size: 6 Copynumber: 7.5 Consensus size: 6
59935669 TTTAGCTTTG
59935679 TTATTT ATTATTTT TTACTTT TTATTT TTATTT TTATTT TTATTT TTA
1 TTATTT -TTA-TTT TTA-TTT TTATTT TTATTT TTATTT TTATTT TTA
59935727 ATTTAGAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
6 24 0.62
7 12 0.31
8 3 0.08
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:59943996 original size:29 final size:29
Alignment explanation
Indices: 59943958--59944016 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
59943948 GGACTATATA
59943958 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
59943987 AATCGATAATGATTGAAATACATCAAAAT
1 AATCGATAATGATTGAAATACATCAAAAT
59944016 A
1 A
59944017 CATCAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (29 bp):
AATCGATAATGATTGAAATACATCAAAAT
Found at i:59944017 original size:10 final size:10
Alignment explanation
Indices: 59944002--59944035 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
59943992 ATAATGATTG
59944002 AAATACATCA
1 AAATACATCA
59944012 AAATACATCA
1 AAATACATCA
59944022 AAATACATCA
1 AAATACATCA
59944032 AAAT
1 AAAT
59944036 GAAATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATACATCA
Found at i:59944047 original size:21 final size:20
Alignment explanation
Indices: 59944002--59944047 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
59943992 ATAATGATTG
*
59944002 AAATACATCAAAATACATCA
1 AAATACATCAAAATAAATCA
*
59944022 AAATACATCAAAATGAAATTA
1 AAATACATCAAAAT-AAATCA
59944043 AAATA
1 AAATA
59944048 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATACATCAAAATAAATCA
Found at i:59949447 original size:27 final size:27
Alignment explanation
Indices: 59949417--59949594 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59949407 ATATTGAGTC
* * * *
59949417 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59949444 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59949471 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59949499 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59949526 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59949553 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59949580 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59949595 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59949556 original size:82 final size:81
Alignment explanation
Indices: 59949438--59949593 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59949428 TGCTATATAA
* *
59949438 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59949503 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59949520 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59949584 CACTTAGTGC
65 CACTTAGTGC
59949594 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59951048 original size:153 final size:150
Alignment explanation
Indices: 59950770--59951073 Score: 581
Period size: 153 Copynumber: 2.0 Consensus size: 150
59950760 TACCTCAATC
59950770 TAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGATTTTCGGTCAAAAGAGGTT
1 TAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGATTTTCGGTCAAAAGAGGTT
59950835 GAAAAAGGATGAACAAAACCTTTCTTTTCCTTCCTTTAGCTCACGGCAATGGGGTGTATGCATGA
66 GAAAAAGGATGAACAAAACCTTTCTTTTCCTTCCTTTAGCTCACGGCAATGGGGTGTATGCATGA
59950900 GACCATTATAATTTTTTTTTCTT
131 GACCA-T-T-ATTTTTTTTTCTT
59950923 TAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGATTTTCGGTCAAAAGAGGTT
1 TAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGATTTTCGGTCAAAAGAGGTT
59950988 GAAAAAGGATGAACAAAACCTTTCTTTTCCTTCCTTTAGCTCACGGCAATGGGGTGTATGCATGA
66 GAAAAAGGATGAACAAAACCTTTCTTTTCCTTCCTTTAGCTCACGGCAATGGGGTGTATGCATGA
59951053 GACCATTATTTTTTTTTCTT
131 GACCATTATTTTTTTTTCTT
59951073 T
1 T
59951074 TTTTTTCATC
Statistics
Matches: 151, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
150 14 0.09
151 1 0.01
152 1 0.01
153 135 0.89
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (150 bp):
TAGTTACATGCATGGCCAAACTTCCTCCTAATCCTCTTCCTTAGGATTTTCGGTCAAAAGAGGTT
GAAAAAGGATGAACAAAACCTTTCTTTTCCTTCCTTTAGCTCACGGCAATGGGGTGTATGCATGA
GACCATTATTTTTTTTTCTT
Found at i:59954614 original size:190 final size:190
Alignment explanation
Indices: 59954291--59954671 Score: 728
Period size: 190 Copynumber: 2.0 Consensus size: 190
59954281 TGGCGTAGTT
59954291 CCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGCAAACCCGGTAACTCTTCAGG
1 CCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGCAAACCCGGTAACTCTTCAGG
59954356 AAAAACATCCGGGTATTCACAAACCACCGGCACCGATTCGGGTTTCTTTTCTAACTCCTTGTCAT
66 AAAAACATCCGGGTATTCACAAACCACCGGCACCGATTCGGGTTTCTTTTCTAACTCCTTGTCAT
*
59954421 CAAGTACATACGCGAGGTATGCTTCGCACCCTTTCCTTACATATTTCTGGGCCAACATTG
131 CAAGTACATACGCGAGGCATGCTTCGCACCCTTTCCTTACATATTTCTGGGCCAACATTG
*
59954481 CCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGTAAACCCGGTAA-TCCTTCAG
1 CCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGCAAACCCGGTAACT-CTTCAG
59954545 GAAAAACATCCGGGTATTCACAAACCACCGGCACCGATTCGGGTTTCTTTTCTAACTCCTTGTCA
65 GAAAAACATCCGGGTATTCACAAACCACCGGCACCGATTCGGGTTTCTTTTCTAACTCCTTGTCA
59954610 TCAAGTACATACGCGAGGCATGCTTCGCACCCTTTCCTTACATATTTCTGGGCCAACATTG
130 TCAAGTACATACGCGAGGCATGCTTCGCACCCTTTCCTTACATATTTCTGGGCCAACATTG
59954671 C
1 C
59954672 TGATATTACA
Statistics
Matches: 188, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
189 1 0.01
190 187 0.99
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (190 bp):
CCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGCAAACCCGGTAACTCTTCAGG
AAAAACATCCGGGTATTCACAAACCACCGGCACCGATTCGGGTTTCTTTTCTAACTCCTTGTCAT
CAAGTACATACGCGAGGCATGCTTCGCACCCTTTCCTTACATATTTCTGGGCCAACATTG
Found at i:59956300 original size:97 final size:97
Alignment explanation
Indices: 59956134--59956327 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 97
59956124 AACAGGCGGC
* *
59956134 GTCCCTTGTGCAGGAGCAGCTGCTACGCTCTCAACATCATCCGCTAGGGTTCTTTCTTCACCGGG
1 GTCCCTTGTGCAGGAGCAGCCGCTACACTCTCAACATCATCCGCTAGGGTTCTTTCTTCACCGGG
59956199 GTCCATTTACTAATCAAAACAAAAACATTTCA
66 GTCCATTTACTAATCAAAACAAAAACATTTCA
*
59956231 GTCCCTTGTGCAGGAGCAGCCGCTACACTCTCAACGTCATCCGCTAGGGTTCTTTCTTCACCGGG
1 GTCCCTTGTGCAGGAGCAGCCGCTACACTCTCAACATCATCCGCTAGGGTTCTTTCTTCACCGGG
59956296 GTCCATTTACTAATCAAAACAAAAACATTTCA
66 GTCCATTTACTAATCAAAACAAAAACATTTCA
59956328 ACTGTCAGAA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
GTCCCTTGTGCAGGAGCAGCCGCTACACTCTCAACATCATCCGCTAGGGTTCTTTCTTCACCGGG
GTCCATTTACTAATCAAAACAAAAACATTTCA
Found at i:59957824 original size:27 final size:27
Alignment explanation
Indices: 59957794--59957971 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
59957784 ATATTGAGTC
* * * *
59957794 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
59957821 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59957848 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
59957876 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
59957903 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
59957930 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
59957957 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59957972 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:59957933 original size:82 final size:81
Alignment explanation
Indices: 59957815--59957970 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
59957805 TGCTATATAA
* *
59957815 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
59957880 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
59957897 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
59957961 CACTTAGTGC
65 CACTTAGTGC
59957971 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:59959660 original size:116 final size:116
Alignment explanation
Indices: 59959489--59959722 Score: 396
Period size: 116 Copynumber: 2.0 Consensus size: 116
59959479 GTCCTCATGC
* * *
59959489 ATTGACCTATCACATTTTAAAATTTTCTCATATAAGTCCTATTGACTAAATTCACATGCAATCGA
1 ATTGACCTATCACATTTTAAAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAAATCAA
* *
59959554 CTAAATCGAAGCTTGAAATTTTCACACATTCATGATTACATATTCTAGACA
66 CCAAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACA
**
59959605 ATTGACCTATCACATTTTTGAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAAATCAA
1 ATTGACCTATCACATTTTAAAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAAATCAA
*
59959670 CCAAATTGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACA
66 CCAAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACA
59959721 AT
1 AT
59959723 AAGTATCACA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 110 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (116 bp):
ATTGACCTATCACATTTTAAAATTTTCTCACATAAGTCCTATTGACTAAATTCACATGAAATCAA
CCAAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACA
Found at i:59960149 original size:231 final size:230
Alignment explanation
Indices: 59959746--59960193 Score: 887
Period size: 231 Copynumber: 1.9 Consensus size: 230
59959736 AAACATTTTA
59959746 GTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAATAT
1 GTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAATAT
59959811 GTGTCATTTAAATTAGCTAAGTGCAATGGCTCATGCTGGTTGATGAATTATTTTGTATATGGCCA
66 GTGTCATTTAAATTAGCTAAGTGCAATGGCTCATGCTGGTTGATGAATTATTTTGTATATGGCCA
59959876 TGAAATATGGCTCATATTTTACTATCGGGTTGTAACCCTTATAAACCATGTGTGCATGCAAAGTG
131 TGAAATATGGCTCATATTTTACTATCGGGTTGTAACCCTTATAAACCATGTGTGCATGCAAAGTG
59959941 TTCATGTTGATGTGGCTTTGGGATTATGGGTTTACG
196 TTCATGTTGATGTGGC-TTGGGATTATGGGTTTACG
59959977 GTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAATAT
1 GTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAATAT
59960042 GTGTCATTTAAATTAGCTAAGTGCAATGGCTCATGCTGGTTGATGAATTATTTTGTATATGGCCA
66 GTGTCATTTAAATTAGCTAAGTGCAATGGCTCATGCTGGTTGATGAATTATTTTGTATATGGCCA
59960107 TGAAATATGGCTCATATTTTACTATCGGGTTGTAACCCTTATAAACCATGTGTGCATGCAAAGTG
131 TGAAATATGGCTCATATTTTACTATCGGGTTGTAACCCTTATAAACCATGTGTGCATGCAAAGTG
59960172 TTCATGTTGATGTGGCTTGGGA
196 TTCATGTTGATGTGGCTTGGGA
59960194 ATGATGGATT
Statistics
Matches: 217, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
230 6 0.03
231 211 0.97
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (230 bp):
GTGACTCGGTTTAGCGGTCCCGAAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACAATAT
GTGTCATTTAAATTAGCTAAGTGCAATGGCTCATGCTGGTTGATGAATTATTTTGTATATGGCCA
TGAAATATGGCTCATATTTTACTATCGGGTTGTAACCCTTATAAACCATGTGTGCATGCAAAGTG
TTCATGTTGATGTGGCTTGGGATTATGGGTTTACG
Found at i:59960401 original size:37 final size:37
Alignment explanation
Indices: 59960360--59960434 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
59960350 ATTGAGATAG
*
59960360 TGCATGGAGGCGTTAGGGACATAATTTAATCATGGAT
1 TGCATGGAGGCGTTAAGGACATAATTTAATCATGGAT
59960397 TGCATGGAGGCGTTAAGGACATAATTTAATCATGGAT
1 TGCATGGAGGCGTTAAGGACATAATTTAATCATGGAT
59960434 T
1 T
59960435 TGGATATTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (37 bp):
TGCATGGAGGCGTTAAGGACATAATTTAATCATGGAT
Found at i:59975171 original size:40 final size:39
Alignment explanation
Indices: 59975088--59975308 Score: 256
Period size: 39 Copynumber: 5.6 Consensus size: 39
59975078 TTGAATGATG
*
59975088 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
59975126 ATCCGGAGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGG-GCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
59975167 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59975206 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59975245 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
59975284 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAG-CCCGAAGGCATT
59975309 CGAACGAGGA
Statistics
Matches: 163, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
39 96 0.59
40 55 0.34
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59975218 original size:78 final size:80
Alignment explanation
Indices: 59975088--59975308 Score: 285
Period size: 78 Copynumber: 2.8 Consensus size: 80
59975078 TTGAATGATG
*
59975088 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGAGCTAAGCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGG-GCTAAGCCCGAAGGCAT
*
59975150 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
59975167 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAGCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGCCCGAAGGCATT
*
59975229 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
59975245 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAG-CCCGAAGGCATT
59975309 CGAACGAGGA
Statistics
Matches: 126, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
78 53 0.42
79 50 0.40
80 23 0.18
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:59975342 original size:79 final size:78
Alignment explanation
Indices: 59975123--59975343 Score: 200
Period size: 78 Copynumber: 2.8 Consensus size: 78
59975113 GCTAAGTGAC
* ** * * *
59975123 AATATCCGGAGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGC
1 AATA-CCGG-GCTAAGCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCGAAGGC
59975187 ATTTGTGCGAGATACT
63 ATTTGTGCGAGATACT
* * ** *
59975203 AATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCTCGAAGGCAT
1 AATACCGGGCTAAGCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTC-CGAAGGCAT
59975268 TTGTGCGA-ATTACT
65 TTGTGCGAGA-TACT
* * *
59975282 -ATAACCGGGCTATGTCCCGAAGGCATTCGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 AAT-ACCGGGCTAAG-CCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTT-AAGTCCGAAGG
59975344 TACGTGATTT
Statistics
Matches: 122, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.37
79 45 0.37
80 31 0.25
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (78 bp):
AATACCGGGCTAAGCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCGAAGGCATT
TGTGCGAGATACT
Found at i:59975874 original size:56 final size:55
Alignment explanation
Indices: 59975801--59975911 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 55
59975791 TATAGGACTA
* *
59975801 CCCGTTTGTTGTGGGTCGTGGACCCTTTGGACTTGTATAAATTTTGGATAGCCATG
1 CCCGTTCGTTGTAGGTCGTGGACCCTTTGGACTTGTAT-AATTTTGGATAGCCATG
59975857 CCCGTTCGTTGTAGGTCGTGGACCCTTTGGACTTGTATAATTTTGGATAGCCATG
1 CCCGTTCGTTGTAGGTCGTGGACCCTTTGGACTTGTATAATTTTGGATAGCCATG
59975912 TGAAAATGGC
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
55 17 0.32
56 36 0.68
ACGTcount: A:0.16, C:0.19, G:0.28, T:0.37
Consensus pattern (55 bp):
CCCGTTCGTTGTAGGTCGTGGACCCTTTGGACTTGTATAATTTTGGATAGCCATG
Found at i:59978341 original size:17 final size:17
Alignment explanation
Indices: 59978319--59978363 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
59978309 ATTAATTGTT
*
59978319 TTGTGATGGATCAAGTG
1 TTGTGAAGGATCAAGTG
59978336 TTGTGAAGGATCAAGTG
1 TTGTGAAGGATCAAGTG
*
59978353 TTGGGAAGGAT
1 TTGTGAAGGAT
59978364 ACGTGGTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.38, T:0.31
Consensus pattern (17 bp):
TTGTGAAGGATCAAGTG
Found at i:59978773 original size:17 final size:17
Alignment explanation
Indices: 59978721--59978773 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
59978711 GATGGGTCGG
59978721 GTAGGTTCCACAGACTT
1 GTAGGTTCCACAGACTT
* *
59978738 GTAGG--CCACA-NCGT
1 GTAGGTTCCACAGACTT
59978752 GTAGGTTCCACAGACTT
1 GTAGGTTCCACAGACTT
59978769 GTAGG
1 GTAGG
59978774 CACCACTCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
16 5 0.17
17 12 0.41
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (17 bp):
GTAGGTTCCACAGACTT
Found at i:59978779 original size:17 final size:15
Alignment explanation
Indices: 59978728--59978774 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
59978718 CGGGTAGGTT
59978728 CCACAGACTTGTAGG
1 CCACAGACTTGTAGG
* *
59978743 CCACA-NCGTGTAGG
1 CCACAGACTTGTAGG
59978757 TTCCACAGACTTGTAGG
1 --CCACAGACTTGTAGG
59978774 C
1 C
59978775 ACCACTCGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 5 0.20
17 7 0.28
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.21
Consensus pattern (15 bp):
CCACAGACTTGTAGG
Found at i:59979297 original size:22 final size:22
Alignment explanation
Indices: 59979253--59979297 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
59979243 TCCCCACATG
*
59979253 GAGTGTAGGGCTGGATGGAGTA
1 GAGTGTAGGGATGGATGGAGTA
*
59979275 GAGTGTAGAGGATGGTTGG-GTA
1 GAGTGTAG-GGATGGATGGAGTA
59979297 G
1 G
59979298 GATCTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.22, C:0.02, G:0.51, T:0.24
Consensus pattern (22 bp):
GAGTGTAGGGATGGATGGAGTA
Found at i:59996106 original size:31 final size:31
Alignment explanation
Indices: 59996071--59996132 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
59996061 TTGGATACCT
59996071 GATGCTCATACAATATGGCCTAGAAAACTGA
1 GATGCTCATACAATATGGCCTAGAAAACTGA
59996102 GATGCTCATACAATATGGCCTAGAAAACTGA
1 GATGCTCATACAATATGGCCTAGAAAACTGA
59996133 CTTCTCGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (31 bp):
GATGCTCATACAATATGGCCTAGAAAACTGA
Found at i:60012885 original size:38 final size:38
Alignment explanation
Indices: 60012843--60012925 Score: 112
Period size: 38 Copynumber: 2.2 Consensus size: 38
60012833 ACACCAGCAT
*
60012843 AAAGCCTACAAGGCACAGAGCCCAAATATAATCGGCAC
1 AAAGCCTACAAGGCACAAAGCCCAAATATAATCGGCAC
* * * * *
60012881 AAAGCCTTCTAGGTACAAAGCCCGAATATCATCGGCAC
1 AAAGCCTACAAGGCACAAAGCCCAAATATAATCGGCAC
60012919 AAAGCCT
1 AAAGCCT
60012926 GAATATCACT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (38 bp):
AAAGCCTACAAGGCACAAAGCCCAAATATAATCGGCAC
Found at i:60033103 original size:27 final size:27
Alignment explanation
Indices: 60033061--60033147 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
60033051 GCGAGGCTGC
*
60033061 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGTCACCAGATA
60033088 CAGATATTGTGGCGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGTCACCAGATA
* * *
60033115 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGTCACCAGATA
60033141 CAGATAT
1 CAGATAT
60033148 ATATATGTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
26 8 0.14
27 48 0.86
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGTCACCAGATA
Found at i:60033166 original size:31 final size:27
Alignment explanation
Indices: 60033061--60033171 Score: 125
Period size: 27 Copynumber: 4.0 Consensus size: 27
60033051 GCGAGGCTGC
* *
60033061 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
*
60033088 CAGATATTGTGGCGAAGTCACCAGATA
1 CAGATATTGTGGCGAAGCCACCAGATA
* *
60033115 CAGATATTGTGGCTAGGCCACCAGA-A
1 CAGATATTGTGGCGAAGCCACCAGATA
60033141 CAGATATATATATGTGGCGAAGCCACCAGAT
1 CAG----ATAT-TGTGGCGAAGCCACCAGAT
60033172 TGAAGCGAGG
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 4 0.06
27 48 0.67
30 4 0.06
31 16 0.22
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCGAAGCCACCAGATA
Found at i:60033196 original size:71 final size:67
Alignment explanation
Indices: 60033115--60033250 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 67
60033105 TCACCAGATA
* * * *
60033115 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGAAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTAGCGAAGCCACCAGATTGAAGCGA
60033180 GGCTAC
62 GGCTAC
* * *
60033186 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTAGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCGAAGCCACCAGATTGAAGCGAGGCT
60033251 GCCAAAACGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 33 0.57
71 25 0.43
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTAGCGAAGCCACCAGATTGAAGCGAGGCT
AC
Found at i:60033908 original size:26 final size:26
Alignment explanation
Indices: 60033870--60033935 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 26
60033860 ATAGTCATTT
*
60033870 TACCCTCCAAGGGTAAATCGGTAGTCC
1 TACCCTAC-AGGGTAAATCGGTAGTCC
** * *
60033897 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACA-GGGTAAATCGGTAGTCC
*
60033924 TACCTTACAGGG
1 TACCCTACAGGG
60033936 GTATTTTGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (26 bp):
TACCCTACAGGGTAAATCGGTAGTCC
Found at i:60033917 original size:27 final size:27
Alignment explanation
Indices: 60033887--60033941 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
60033877 CAAGGGTAAA
60033887 TCGGTAGTCCTACCCTACAGGGGTATT
1 TCGGTAGTCCTACCCTACAGGGGTATT
* * *
60033914 TCGGTATTTCTACCTTACAGGGGTATT
1 TCGGTAGTCCTACCCTACAGGGGTATT
60033941 T
1 T
60033942 TGATAATTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (27 bp):
TCGGTAGTCCTACCCTACAGGGGTATT
Found at i:60043132 original size:40 final size:39
Alignment explanation
Indices: 60043095--60043186 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
60043085 GCTACTCGTT
*
60043095 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
60043135 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
60043174 CAAATGCCTTCGG
1 CAAATGCCTTCGG
60043187 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:60043166 original size:39 final size:40
Alignment explanation
Indices: 60043076--60043239 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
60043066 CGGAATTTAA
** *
60043076 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
60043116 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
60043155 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
60043195 CCGGATATGGTCACTTAGCACAAAT-CCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
60043235 CCGGA
1 CCGGA
60043240 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 57 0.54
41 13 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:60045793 original size:27 final size:27
Alignment explanation
Indices: 60045737--60045938 Score: 232
Period size: 27 Copynumber: 7.5 Consensus size: 27
60045727 TGGGCCGGAA
* *
60045737 GGTAGAATGACCGAAATACCCC-ATAG
1 GGTAAAATGACTGAAATACCCCTATAG
* *
60045763 GGTAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCTATAG
60045790 GGTAAAATGACTGAAATACCCCTATAG
1 GGTAAAATGACTGAAATACCCCTATAG
*
60045817 GGTAAAATGA-TCGAAATACCCCTATAA
1 GGTAAAATGACT-GAAATACCCCTATAG
*
60045844 GGTAAAATGAAC-GAAATACCCCTATAC
1 GGTAAAATG-ACTGAAATACCCCTATAG
* * * *
60045871 AGAAAAATGACTGTAATACCCCTGTAG
1 GGTAAAATGACTGAAATACCCCTATAG
* *
60045898 GGTAAAATGACT-ATAATACCCCTGTAA
1 GGTAAAATGACTGA-AATACCCCTATAG
*
60045925 AGTAAAATGACTGA
1 GGTAAAATGACTGA
60045939 TTTGCCCTGC
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
26 22 0.14
27 128 0.84
28 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCTATAG
Found at i:60047555 original size:57 final size:57
Alignment explanation
Indices: 60047467--60047580 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
60047457 AAATATACTA
60047467 TTATTTACATCCTTTTTACACATAACTTTAGCTTGTTTAATAGTTAAATCAAAGCAT
1 TTATTTACATCCTTTTTACACATAACTTTAGCTTGTTTAATAGTTAAATCAAAGCAT
60047524 TTATTTACATCCTTTTTACACATAACTTTAGCTTGTTTAATAGTTAAATCAAAGCAT
1 TTATTTACATCCTTTTTACACATAACTTTAGCTTGTTTAATAGTTAAATCAAAGCAT
60047581 CTTAATATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (57 bp):
TTATTTACATCCTTTTTACACATAACTTTAGCTTGTTTAATAGTTAAATCAAAGCAT
Found at i:60048145 original size:310 final size:310
Alignment explanation
Indices: 60047581--60048199 Score: 1184
Period size: 310 Copynumber: 2.0 Consensus size: 310
60047571 ATCAAAGCAT
60047581 CTTAATATATATTTAGGTTTTTATGCTTAAAGTAGTAATTTATGTTTTTTAGTAGTTTTTATTAC
1 CTTAATATATATTTAGGTTTTTATGCTTAAAGTAGTAATTTATGTTTTTTAGTAGTTTTTATTAC
60047646 ATTCTATCCTTACATAATTGTCCCAACTCCAATGCAGTATGACATGTTTTAACAATAACATAAAT
66 ATTCTATCCTTACATAATTGTCCCAACTCCAATGCAGTATGACATGTTTTAACAATAACATAAAT
*
60047711 AATACAGTAGGCATGATTTGATTATGAGATCAATTTTATCAAAAATAGTGGCATGAAGTATCATG
131 AATACAGTAGGCATGATTTGATTATGAGATCAATTTTATCAAAAATAGTGGAATGAAGTATCATG
*
60047776 CATTCAATATAACAGTATCAGTGAGCATGATTAATGATGCTTTCAATAATATTGATAACAGTAAC
196 CATTCAATATAACAGTATCAGTGAGCATGATTAATGATGCTTTCAATAATATCGATAACAGTAAC
*
60047841 CACGTTTTTAAAATGTGATTAAAATATCAGTAACAGTGTACATGGTTTAC
261 CACGTTTTTAAAATGTGATTAAAATATCAGTAACAGTGTACATAGTTTAC
60047891 CTTAATATATATTTAGGTTTTTATGCTTAAAGTAGTAATTTATGTTTTTTAGTAGTTTTTATTAC
1 CTTAATATATATTTAGGTTTTTATGCTTAAAGTAGTAATTTATGTTTTTTAGTAGTTTTTATTAC
60047956 ATTCTATCCTTACATAATTGTCCCAACTCCAATGCAGTATGACATGTTTTAACAATAACATAAAT
66 ATTCTATCCTTACATAATTGTCCCAACTCCAATGCAGTATGACATGTTTTAACAATAACATAAAT
*
60048021 AATATAGTAGGCATGATTTGATTATGAGATCAATTTTATCAAAAATAGTGGAATGAAGTATCATG
131 AATACAGTAGGCATGATTTGATTATGAGATCAATTTTATCAAAAATAGTGGAATGAAGTATCATG
*
60048086 CATTCAATATAATAGTATCAGTGAGCATGATTAATGATGCTTTCAATAATATCGATAACAGTAAC
196 CATTCAATATAACAGTATCAGTGAGCATGATTAATGATGCTTTCAATAATATCGATAACAGTAAC
*
60048151 CACGTTTTTAAAATGTGATTAAAATATCAGTAATAGTGTACATAGTTTA
261 CACGTTTTTAAAATGTGATTAAAATATCAGTAACAGTGTACATAGTTTA
60048200 TCATGTAATC
Statistics
Matches: 303, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
310 303 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (310 bp):
CTTAATATATATTTAGGTTTTTATGCTTAAAGTAGTAATTTATGTTTTTTAGTAGTTTTTATTAC
ATTCTATCCTTACATAATTGTCCCAACTCCAATGCAGTATGACATGTTTTAACAATAACATAAAT
AATACAGTAGGCATGATTTGATTATGAGATCAATTTTATCAAAAATAGTGGAATGAAGTATCATG
CATTCAATATAACAGTATCAGTGAGCATGATTAATGATGCTTTCAATAATATCGATAACAGTAAC
CACGTTTTTAAAATGTGATTAAAATATCAGTAACAGTGTACATAGTTTAC
Found at i:60052214 original size:25 final size:25
Alignment explanation
Indices: 60052186--60052255 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
60052176 CTCTTTTAAT
*
60052186 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
60052211 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
60052236 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
60052256 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:60053296 original size:27 final size:27
Alignment explanation
Indices: 60053160--60053368 Score: 138
Period size: 27 Copynumber: 7.7 Consensus size: 27
60053150 TTTCATCCTA
* * * * *
60053160 CAAGGGTGTTTTGGGAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** *
60053187 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
60053214 CAACGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
* **
60053243 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
60053270 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
60053297 TGAGGGTATTTCGATAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
60053323 CCAGTGGTA-TTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
**
60053349 CTGGGGATATTTTGGTAATT
1 CAAGGG-TATTTTGGTAATT
60053369 CTACCCTATA
Statistics
Matches: 144, Mismatches: 31, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 20 0.14
27 93 0.65
28 16 0.11
29 13 0.09
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:60053437 original size:27 final size:27
Alignment explanation
Indices: 60053405--60053491 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
60053395 TTCATACTCA
* *
60053405 AGGGTAAAACATTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
**
60053432 AGGGTAAAACAGTAATTCTGTAAATTA
1 AGGGTAAAACAGTAATTCTGTAAATCG
* * *
60053459 AGGGTAAAATAGTGATTCTATAAATCG
1 AGGGTAAAACAGTAATTCTGTAAATCG
60053486 AGGGTA
1 AGGGTA
60053492 CTTTGGTAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTCTGTAAATCG
Found at i:60059240 original size:37 final size:37
Alignment explanation
Indices: 60059199--60059312 Score: 103
Period size: 37 Copynumber: 3.1 Consensus size: 37
60059189 GCTTATTTTA
60059199 TTTATTTATTTAATATTAATATTTGTCTTCCGTAACT
1 TTTATTTATTTAATATTAATATTTGTCTTCCGTAACT
** * * * **
60059236 TTTA-TTA-GAAATAATTTA-ATTT-T-TTGCATATTTT
1 TTTATTTATTTAAT-ATTAATATTTGTCTTCCGTA-ACT
60059270 ATTTATTTATTTAATATTAATATTTGTCTTCCGTAACT
1 -TTTATTTATTTAATATTAATATTTGTCTTCCGTAACT
60059308 TTTAT
1 TTTAT
60059313 GCATGTAATA
Statistics
Matches: 55, Mismatches: 14, Indels: 16
0.65 0.16 0.19
Matches are distributed among these distances:
33 5 0.09
34 2 0.04
35 11 0.20
36 14 0.25
37 16 0.29
38 2 0.04
39 5 0.09
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (37 bp):
TTTATTTATTTAATATTAATATTTGTCTTCCGTAACT
Found at i:60059248 original size:72 final size:72
Alignment explanation
Indices: 60059168--60059312 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
60059158 AAAGTAAGGT
*
60059168 TTAGAAATAATTTAATTTTTTGCTTATTTTATTTATTTATTTAATATTAATATTTGTCTTCCGTA
1 TTAGAAATAATTTAATTTTTTGCATATTTTATTTATTTATTTAATATTAATATTTGTCTTCCGTA
60059233 ACTTTTA
66 ACTTTTA
60059240 TTAGAAATAATTTAATTTTTTGCATATTTTATTTATTTATTTAATATTAATATTTGTCTTCCGTA
1 TTAGAAATAATTTAATTTTTTGCATATTTTATTTATTTATTTAATATTAATATTTGTCTTCCGTA
60059305 ACTTTTA
66 ACTTTTA
60059312 T
1 T
60059313 GCATGTAATA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.30, C:0.07, G:0.06, T:0.58
Consensus pattern (72 bp):
TTAGAAATAATTTAATTTTTTGCATATTTTATTTATTTATTTAATATTAATATTTGTCTTCCGTA
ACTTTTA
Found at i:60059290 original size:35 final size:34
Alignment explanation
Indices: 60059175--60059290 Score: 85
Period size: 35 Copynumber: 3.3 Consensus size: 34
60059165 GGTTTAGAAA
*
60059175 TAATTTAATTTTTTGCTTATTTTATTTATTTATT
1 TAATTTAATTTTTTGCATATTTTATTTATTTATT
* * * **
60059209 TAATATTAATATTTGTCTTCCGTAACTTTTA-TTA--GAAA
1 TAAT-TT-A-ATTT-T-TTGCAT-A-TTTTATTTATTTATT
60059247 TAATTTAATTTTTTGCATATTTTATTTATTTATT
1 TAATTTAATTTTTTGCATATTTTATTTATTTATT
60059281 TAATATTAAT
1 TAAT-TTAAT
60059291 ATTTGTCTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 21
0.66 0.11 0.23
Matches are distributed among these distances:
31 5 0.08
32 4 0.07
33 4 0.07
34 10 0.16
35 11 0.18
36 2 0.03
37 6 0.10
38 6 0.10
39 4 0.07
40 4 0.07
41 5 0.08
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.60
Consensus pattern (34 bp):
TAATTTAATTTTTTGCATATTTTATTTATTTATT
Found at i:60060418 original size:32 final size:32
Alignment explanation
Indices: 60060377--60060440 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
60060367 TCCCTGCTAA
60060377 AAACTTTTGTCACTTCTCCCGTGGTGAAACAT
1 AAACTTTTGTCACTTCTCCCGTGGTGAAACAT
*
60060409 AAACTTTTGTCACTTCTTCCGTGGTGAAACAT
1 AAACTTTTGTCACTTCTCCCGTGGTGAAACAT
60060441 GGTTTGGGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (32 bp):
AAACTTTTGTCACTTCTCCCGTGGTGAAACAT
Found at i:60067061 original size:40 final size:40
Alignment explanation
Indices: 60066978--60067274 Score: 336
Period size: 40 Copynumber: 7.5 Consensus size: 40
60066968 AAGCCAAGTA
* * * * * *
60066978 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
60067017 CCTTCGGGACATAGCCCGGATATAGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
60067057 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
60067097 CCTTCGGGACTTAGCCTGGA-ACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
60067137 CCTTCGGGACTTAGCCCGAATATGGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60067177 CCTTCGGGACTTAGCCCGGATATGGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** *
60067217 CCTTCGGG-CTTAGCCC-GAAATTAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
60067256 CCTTCGAGACTTAGTCCGG
1 CCTTCGGGACTTAGCCCGG
60067275 TTATCAATCC
Statistics
Matches: 225, Mismatches: 26, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
38 3 0.01
39 41 0.18
40 179 0.80
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60068694 original size:71 final size:71
Alignment explanation
Indices: 60068578--60068720 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
60068568 CATGTTTTTT
*
60068578 AGCCATAACATTTTGTCCACCCTCATGCTCATGGCCTGCCACTACTAATTAGGGGGGGAAATTGA
1 AGCCATAACATTTTGTCCACCCTCATGCTCATGGCCTGCCACTACTAATTAGGGGGGAAAATTGA
60068643 CATGCA
66 CATGCA
60068649 AGCCATAACATTTTGTCCACCCTCATGCTCATGGCCTGCCACTACTAATTAGGGGGGAAAATTGA
1 AGCCATAACATTTTGTCCACCCTCATGCTCATGGCCTGCCACTACTAATTAGGGGGGAAAATTGA
60068714 CATGCA
66 CATGCA
60068720 A
1 A
60068721 ATCCACCCTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (71 bp):
AGCCATAACATTTTGTCCACCCTCATGCTCATGGCCTGCCACTACTAATTAGGGGGGAAAATTGA
CATGCA
Found at i:60069785 original size:78 final size:78
Alignment explanation
Indices: 60069651--60069803 Score: 252
Period size: 78 Copynumber: 2.0 Consensus size: 78
60069641 AACTATTGTT
* *
60069651 GTAAGCGAACTCAATCAAAGGTAGATACCGTTCCCATGAACCACTAAACTCAAGGATGCAGCATC
1 GTAAGCGAACTCAATCAAAGGTAAATACCGTTCCCATGAACCACTAAACTCAAGGATGCAACATC
60069716 TCAACATATCCTC
66 TCAACATATCCTC
* * * *
60069729 GTAAGCGAATTCAATCAAAGGTAAATACCGTTCCCATGAACTACTGAACTCGAGGATGCAACATC
1 GTAAGCGAACTCAATCAAAGGTAAATACCGTTCCCATGAACCACTAAACTCAAGGATGCAACATC
60069794 TCAACATATC
66 TCAACATATC
60069804 GTCAAGTATC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.22
Consensus pattern (78 bp):
GTAAGCGAACTCAATCAAAGGTAAATACCGTTCCCATGAACCACTAAACTCAAGGATGCAACATC
TCAACATATCCTC
Found at i:60072817 original size:54 final size:58
Alignment explanation
Indices: 60072758--60072881 Score: 148
Period size: 62 Copynumber: 2.1 Consensus size: 58
60072748 ACACTGGCGA
*
60072758 CCGAAGTGACTC-G-T-G-CACTCATAGGGGGTCGATCACGATCTCGTCTAGAAAAAC
1 CCGAAGTGACTCAGATCGCCACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAAC
* * *
60072812 CCGAAGTGTCTCTAGATCGGCCCCACTCACAGGGGGTCGATCGCGATCTCGTCTAGAAAAGC
1 CCGAAGTGACTC-AGATC-G--CCACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAAC
60072874 CCGAAGTG
1 CCGAAGTG
60072882 TTTCTAGATC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
54 11 0.19
56 1 0.02
57 1 0.02
59 1 0.02
62 44 0.76
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (58 bp):
CCGAAGTGACTCAGATCGCCACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAAC
Found at i:60072849 original size:62 final size:62
Alignment explanation
Indices: 60072773--60072895 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 62
60072763 GTGACTCGTG
*
60072773 CACTCATAGGGGGTCGATCACGATCTCGTCTAGAAAAACCCGAAGTGTCTCTAGATCGGCCC
1 CACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAACCCGAAGTGTCTCTAGATCGGCCC
* * *
60072835 CACTCACAGGGGGTCGATCGCGATCTCGTCTAGAAAAGCCCGAAGTGTTTCTAGATCGGCC
1 CACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAACCCGAAGTGTCTCTAGATCGGCC
60072896 TAAATCATCT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.21
Consensus pattern (62 bp):
CACTCACAGGGGGTCGATCACGATCTCGTCTAGAAAAACCCGAAGTGTCTCTAGATCGGCCC
Found at i:60074964 original size:74 final size:74
Alignment explanation
Indices: 60074871--60075017 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 74
60074861 CTTTGATAGT
*
60074871 GTGGACGATTTCGACTTCGACAATCCCGAGTCCGATAGCTGACGAACCAAAACCTATAAAACAGA
1 GTGGAAGATTTCGACTTCGACAATCCCGAGTCCGATAGCTGACGAACCAAAACCTATAAAACAGA
60074936 GAATCAAAG
66 GAATCAAAG
* *
60074945 GTGGAAGATTTTGACTTCGACAATCCCGAGTCCGATAGCTGACGAACCAAAATCTATAAAACAGA
1 GTGGAAGATTTCGACTTCGACAATCCCGAGTCCGATAGCTGACGAACCAAAACCTATAAAACAGA
60075010 GAATCAAA
66 GAATCAAA
60075018 TAAACGGAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (74 bp):
GTGGAAGATTTCGACTTCGACAATCCCGAGTCCGATAGCTGACGAACCAAAACCTATAAAACAGA
GAATCAAAG
Found at i:60075417 original size:40 final size:40
Alignment explanation
Indices: 60075373--60075481 Score: 209
Period size: 40 Copynumber: 2.7 Consensus size: 40
60075363 GCTACTTGCT
60075373 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
60075413 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
60075453 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
60075482 CATCCGAATA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:60075674 original size:141 final size:139
Alignment explanation
Indices: 60075466--60075746 Score: 490
Period size: 141 Copynumber: 2.0 Consensus size: 139
60075456 ATGCCTTCGG
* *
60075466 GACTTAGCCCGGTTATCATCCGAATATCCATGCACATATCATTAATCATGACACATCTATATTTC
1 GACTTAGCCCGGTTATCATCCGAATATCCATGCACATATCATAAATCATGACACATCAATATTTC
* *
60075531 ATTTTCATAACTAGAATTCAAACACAAGTCACTTATCAAGCATTATCATTTTCGGCTCAATAGTT
66 ATTTTCATAACTAGAATTCAAACACAAGTCACTTATCAAGCATTATCATTTTCGACTCAATAGCT
60075596 ACATACAAA
131 ACATACAAA
60075605 GACTTAGCCCGGTTATCAATCCGAATATCCATGCACATATCAATAAATCATGACACATCAATATT
1 GACTTAGCCCGGTTATC-ATCCGAATATCCATGCACATATC-ATAAATCATGACACATCAATATT
* *
60075670 TCATTTTCATAACTAGGATTCAAACACAATTCACTTATCAAGCATTATCATTTTCGACTCAATAG
64 TCATTTTCATAACTAGAATTCAAACACAAGTCACTTATCAAGCATTATCATTTTCGACTCAATAG
60075735 CTACATACAAA
129 CTACATACAAA
60075746 G
1 G
60075747 GGCATGATTT
Statistics
Matches: 134, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
139 17 0.13
140 23 0.17
141 94 0.70
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (139 bp):
GACTTAGCCCGGTTATCATCCGAATATCCATGCACATATCATAAATCATGACACATCAATATTTC
ATTTTCATAACTAGAATTCAAACACAAGTCACTTATCAAGCATTATCATTTTCGACTCAATAGCT
ACATACAAA
Found at i:60076154 original size:72 final size:72
Alignment explanation
Indices: 60076032--60076175 Score: 252
Period size: 72 Copynumber: 2.0 Consensus size: 72
60076022 TTTTTAATCA
* *
60076032 CATTGAGCAATTTAATACAATTAATCTAACATTTCCTCATGTGCACCTTTATGACCGAATACACA
1 CATTAAGCAATTTAATACAATTAATCTAACATTTCCTCATGTGCAACTTTATGACCGAATACACA
60076097 CATCATT
66 CATCATT
*
60076104 CATTAAGCAATTTAATACCATTAATCTAACATTTCCTCATGTGCAACTTTATGACCGAATACACA
1 CATTAAGCAATTTAATACAATTAATCTAACATTTCCTCATGTGCAACTTTATGACCGAATACACA
*
60076169 TATCATT
66 CATCATT
60076176 AACTCAATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (72 bp):
CATTAAGCAATTTAATACAATTAATCTAACATTTCCTCATGTGCAACTTTATGACCGAATACACA
CATCATT
Found at i:60078884 original size:27 final size:28
Alignment explanation
Indices: 60078848--60078948 Score: 143
Period size: 27 Copynumber: 3.7 Consensus size: 28
60078838 GGGAATCCTA
* *
60078848 TTGTGACAGAGTCACCAGATACAGATA-
1 TTGTGGCAGAGCCACCAGATACAGATAT
* *
60078875 TTGTGGCAGAGCCACTAGAAACAGATAT
1 TTGTGGCAGAGCCACCAGATACAGATAT
60078903 TTGTGGCAGAGCCACCAGAT-CAGATAT
1 TTGTGGCAGAGCCACCAGATACAGATAT
*
60078930 TTGTGGCAGAGCCATCAGA
1 TTGTGGCAGAGCCACCAGA
60078949 ACGCTTCCTC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 48 0.73
28 18 0.27
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (28 bp):
TTGTGGCAGAGCCACCAGATACAGATAT
Found at i:60086721 original size:27 final size:27
Alignment explanation
Indices: 60086625--60086738 Score: 92
Period size: 27 Copynumber: 4.2 Consensus size: 27
60086615 AGCATGGCTG
* *
60086625 CCAGAATAGATA-TCGT-GACAGAGTCA
1 CCAGAATAGATATTTGTCG-CAGAGCCA
* *
60086651 CCAGATACAGATATTATG--GCAAAGCCA
1 CCAGA-ATAGATATT-TGTCGCAGAGCCA
* *
60086678 CCAGAAATAGATATTTGTGGTAGAGCCA
1 CCAG-AATAGATATTTGTCGCAGAGCCA
* *
60086706 CCAGATTAGATATTTGTCGCAGAGCAA
1 CCAGAATAGATATTTGTCGCAGAGCCA
60086733 CCAGAA
1 CCAGAA
60086739 CGCTTCCTCC
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
26 7 0.10
27 48 0.69
28 14 0.20
29 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (27 bp):
CCAGAATAGATATTTGTCGCAGAGCCA
Found at i:60089990 original size:40 final size:41
Alignment explanation
Indices: 60089894--60089998 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
60089884 TGAATGATGT
*
60089894 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
60089934 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
60089974 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
60089999 AACGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:60097890 original size:40 final size:40
Alignment explanation
Indices: 60097585--60097886 Score: 439
Period size: 40 Copynumber: 7.5 Consensus size: 40
60097575 TTGAATGATG
* * * * * *
60097585 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
** *
60097625 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCAATTGTGCGAGTTACTAAA
60097665 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
60097705 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
60097745 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
60097785 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
* *
60097825 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* *
60097866 -CCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
60097887 TTTGAACGAG
Statistics
Matches: 246, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.00
40 235 0.96
41 10 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:60099664 original size:21 final size:21
Alignment explanation
Indices: 60099638--60099686 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
60099628 ACCCTTGTAG
60099638 GTGTGCCACTTTCACACGGAC
1 GTGTGCCACTTTCACACGGAC
* *
60099659 GTGTGCCTCTTTCACACGGGC
1 GTGTGCCACTTTCACACGGAC
60099680 GTGTGCC
1 GTGTGCC
60099687 CCTATGTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.33, G:0.29, T:0.27
Consensus pattern (21 bp):
GTGTGCCACTTTCACACGGAC
Found at i:60107171 original size:42 final size:43
Alignment explanation
Indices: 60107081--60107173 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
60107071 ATACCAGTCG
* *
60107081 TGGTCTTACATGTAATCAAATATCGATGCCACTGTCCAAGATA
1 TGGTCTTACATGAAATCAAATATCGATGCCACTGTCCAAGACA
*
60107124 GGGTCTTACATGAAATCAAATA-CGATGCCAAC-GTCCCAA-ACA
1 TGGTCTTACATGAAATCAAATATCGATGCC-ACTGT-CCAAGACA
60107166 TGGTCTTA
1 TGGTCTTA
60107174 TAAATAAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
42 18 0.41
43 26 0.59
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGATGCCACTGTCCAAGACA
Found at i:60107566 original size:55 final size:55
Alignment explanation
Indices: 60107482--60107592 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
60107472 TTCCCCGGTC
60107482 TAATTCCGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTAT
1 TAATTCCGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTAT
* *
60107537 TAATTCTGTTTTCTTTGGTTCTTGATCTATATAAATTTAAATTTAACTCTTTTAT
1 TAATTCCGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTAT
60107592 T
1 T
60107593 CACCAAATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.13, G:0.07, T:0.55
Consensus pattern (55 bp):
TAATTCCGTTTTCTTTGGTTCTTGATCTATATAAATTCAAATTTAACTCTTTTAT
Found at i:60121819 original size:33 final size:33
Alignment explanation
Indices: 60121794--60121860 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
60121784 TAGTTTTAGG
60121794 TTACCCTACTAAAGGTTTCAGTATAGTCTATCA
1 TTACCCTACTAAAGGTTTCAGTATAGTCTATCA
60121827 TTACCCTACTAAAGGTTTCAGTATAGTCTATCA
1 TTACCCTACTAAAGGTTTCAGTATAGTCTATCA
60121860 T
1 T
60121861 CTACGATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (33 bp):
TTACCCTACTAAAGGTTTCAGTATAGTCTATCA
Found at i:60126180 original size:43 final size:43
Alignment explanation
Indices: 60126132--60126286 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
60126122 AGCTCGTACA
* * *
60126132 ATGCCAACGTTCCAGACGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
** * *
60126175 ATGCCATTGTCCCAGATAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAACGTCCCAGA-CGTGGTCTTACACGTAATCAAATATCG
*
60126217 ATGCCAACGTCCCAGACGTGGTCTTATACGTATATCATAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTA-ATCA-AATATCG
* *
60126261 ATGCCAATGTCCC-GATGTGGTCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
60126287 GCGATAACAC
Statistics
Matches: 92, Mismatches: 15, Indels: 10
0.79 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 48 0.52
44 17 0.18
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Done.