Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 176 of 311
Found at i:59932588 original size:12 final size:12
Alignment explanation
Indices: 59932571--59932596 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
59932561 TTTGATGATT
59932571 ATTATGAGAGAA
1 ATTATGAGAGAA
59932583 ATTATGAGAGAA
1 ATTATGAGAGAA
59932595 AT
1 AT
59932597 AAATCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (12 bp):
ATTATGAGAGAA
Found at i:59939369 original size:31 final size:31
Alignment explanation
Indices: 59939334--59939432 Score: 83
Period size: 32 Copynumber: 3.1 Consensus size: 31
59939324 GCTTACCTCT
*
59939334 TGAACTTGTCAAAAAGTATTTAATTGGTACC
1 TGAACTTGTCAAAAAGTACTTAATTGGTACC
* * *
59939365 TGAACTTAT-ATAAAAGGTACTTAGTTGGTACT
1 TGAACTTGTCA-AAAA-GTACTTAATTGGTACC
* * * * *
59939397 TAAACTTGTCCAAAAAGAACCTAGTTGGTACT
1 TGAACTTGT-CAAAAAGTACTTAATTGGTACC
59939429 TGAA
1 TGAA
59939433 TTAATCAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
30 1 0.02
31 12 0.22
32 37 0.67
33 4 0.07
34 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (31 bp):
TGAACTTGTCAAAAAGTACTTAATTGGTACC
Found at i:59943109 original size:47 final size:47
Alignment explanation
Indices: 59943008--59943225 Score: 225
Period size: 47 Copynumber: 4.7 Consensus size: 47
59942998 TATACATGCT
* * * *
59943008 GATGCATGTCCCAAACATGTCTTACACTAGCA--CAACTCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGAGGCC
* *
59943052 GATGCGTGTCCCAGACACGTCTTACACTGGCTA-TCATCGTC-GAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TCTGAGGCC
* ** *
59943099 GATGCATGTCCCAAACATGTCTTACACTGGCACTTGTCTCTG-TGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGAGGCC
* ** *
59943145 GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCAT-AATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTGAGGCC
59943193 GATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
59943226 ACAAGAAATC
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
44 27 0.19
45 1 0.01
46 28 0.19
47 66 0.46
48 23 0.16
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGAGGCC
Found at i:59943205 original size:94 final size:92
Alignment explanation
Indices: 59942956--59943226 Score: 291
Period size: 94 Copynumber: 2.9 Consensus size: 92
59942946 GGATAAGTTA
* * * ** *
59942956 CCGATGCCATATCCCAGACATGGTCTTATACTAGCTCTCGTATATACAT-GCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTC--ATA-ATGTGGCCGATGCATGTCCC
*
59943020 AAACATGTCTTACACTAGCACAACTCTTAG
63 AAACATGTCTTACACTGGCACAACTCTTAG
* * * ** *
59943050 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTA-TCATCGTCGAGGCCGATGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTATACTGGC-ACTCATAAT-GTGGCCGATGCATGTCCCA
**
59943112 AACATGTCTTACACTGGCACTTGTCTCTGT-G
64 AACATGTCTTACACTGGCAC--AACTCT-TAG
*
59943143 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAAA
59943208 CATGTCTTACACTGGCACA
66 CATGTCTTACACTGGCACA
59943227 CAAGAAATCT
Statistics
Matches: 145, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
90 2 0.01
91 34 0.23
92 13 0.09
93 22 0.15
94 57 0.39
95 17 0.12
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
CCGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAAA
CATGTCTTACACTGGCACAACTCTTAG
Found at i:59957257 original size:102 final size:104
Alignment explanation
Indices: 59957080--59957343 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 104
59957070 AACCGTTATT
* * * *
59957080 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
59957145 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
59957183 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
59957247 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
59957286 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
59957344 TTATGTACAA
Statistics
Matches: 147, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
102 54 0.37
103 70 0.48
104 23 0.16
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:59966013 original size:39 final size:38
Alignment explanation
Indices: 59965933--59966147 Score: 233
Period size: 39 Copynumber: 5.6 Consensus size: 38
59965923 GATGATAACG
59965933 GGGCTAAGT-CCGAAGGATTTGTGCGAG-TACATAATTCC
1 GGGCTAAGTCCCGAAGGATTTGTGCGAGTTAC-TAATT-C
*
59965971 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAATTC
1 GGGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTAATTC
* *
59966010 GGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATTTC
1 GGGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTAATTC
* * *
59966049 AGGCTAAGTCCCGAAGG--TTGTGCGAGTATAATAATCC
1 GGGCTAAGTCCCGAAGGATTTGTGCGAGT-TACTAATTC
* ** *
59966086 GTGGCTAAGT-CCGAAGGCATTTGTGTGAACTACTATATCC
1 G-GGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTA-ATTC
59966126 GGGCTAAGTCCCGAAGGATTTG
1 GGGCTAAGTCCCGAAGGATTTG
59966148 AAGTGAGTAT
Statistics
Matches: 153, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
36 10 0.07
37 13 0.08
38 17 0.11
39 76 0.50
40 34 0.22
41 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (38 bp):
GGGCTAAGTCCCGAAGGATTTGTGCGAGTTACTAATTC
Found at i:59966141 original size:116 final size:114
Alignment explanation
Indices: 59965934--59966147 Score: 308
Period size: 115 Copynumber: 1.9 Consensus size: 114
59965924 ATGATAACGG
*
59965934 GGCTAAGTCCGAAGGATTTGTGCGAGTACATAATTCCGGGCTAAGTCCCGAAGGCATTTGTGTGA
1 GGCTAAGTCCGAAGGA-TTGTGCGAGTAAATAATTCCGGGCTAAGTCCCGAAGGCATTTGTGTGA
** * *
59965999 GTTACTAATTCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATTTCA
65 ACTACTAATCCGGGCTAAGTCCCGAAGG-ATTTGTGCGAGTTACTATTTCA
59966050 GGCTAAGTCCCGAAGG-TTGTGCGAGTATAATAA-TCCGTGGCTAAGT-CCGAAGGCATTTGTGT
1 GGCTAAGT-CCGAAGGATTGTGCGAGTA-AATAATTCCG-GGCTAAGTCCCGAAGGCATTTGTGT
59966112 GAACTACTATATCCGGGCTAAGTCCCGAAGGATTTG
63 GAACTACTA-ATCCGGGCTAAGTCCCGAAGGATTTG
59966148 AAGTGAGTAT
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
115 43 0.48
116 39 0.44
117 7 0.08
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (114 bp):
GGCTAAGTCCGAAGGATTGTGCGAGTAAATAATTCCGGGCTAAGTCCCGAAGGCATTTGTGTGAA
CTACTAATCCGGGCTAAGTCCCGAAGGATTTGTGCGAGTTACTATTTCA
Found at i:59972414 original size:16 final size:15
Alignment explanation
Indices: 59972393--59972426 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
59972383 AAAAAGAAGG
59972393 AAAAAGAATAATAGAT
1 AAAAAGAATAATA-AT
59972409 AAAAAGAATAATAAT
1 AAAAAGAATAATAAT
59972424 AAA
1 AAA
59972427 TAATTAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAAGAATAATAAT
Found at i:59972512 original size:16 final size:16
Alignment explanation
Indices: 59972490--59972532 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
59972480 GGAGTTTGTT
*
59972490 ATTATTTATTTACCAA
1 ATTATTTATTTACAAA
*
59972506 TTTATTTATTTACAAA
1 ATTATTTATTTACAAA
59972522 ATTATTT-TTTA
1 ATTATTTATTTA
59972533 ACGACTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATTTATTTACAAA
Found at i:59975606 original size:24 final size:25
Alignment explanation
Indices: 59975538--59975606 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
59975528 AGTTGATGAA
59975538 TAGTAAGCTC-TATCGAGCTG-GAAC
1 TAGTAAGCTCTTA-CGAGCTGAGAAC
* * *
59975562 CAGTAAGCTCTAACTAGCTGAG-AC
1 TAGTAAGCTCTTACGAGCTGAGAAC
59975586 TAGTAAGCTCTTACGAGCTGA
1 TAGTAAGCTCTTACGAGCTGA
59975607 TATATTGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 35 0.95
25 2 0.05
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (25 bp):
TAGTAAGCTCTTACGAGCTGAGAAC
Found at i:59979082 original size:24 final size:24
Alignment explanation
Indices: 59979049--59979103 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
59979039 ACATTATGTA
*
59979049 TCGACAAAGCTAAAATGCCGAAAAG
1 TCGA-AAAGCCAAAATGCCGAAAAG
*
59979074 TCGAAAAGCCGAAATGCCGAAAAG
1 TCGAAAAGCCAAAATGCCGAAAAG
*
59979098 TTGAAA
1 TCGAAA
59979104 GTTTGGCTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (24 bp):
TCGAAAAGCCAAAATGCCGAAAAG
Found at i:59979370 original size:29 final size:28
Alignment explanation
Indices: 59979313--59979424 Score: 127
Period size: 29 Copynumber: 4.0 Consensus size: 28
59979303 GTGAGCATGA
* *
59979313 ATATGAATGTGACTGGGCCT-ATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
59979340 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
59979369 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
59979398 ATATGAATATGATTGGGCTTAGTGGGC
1 ATATAAATGTGATTGGGCCTAATGGGC
59979425 TAGATACAGG
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 11 0.15
28 20 0.27
29 42 0.58
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:59979424 original size:57 final size:57
Alignment explanation
Indices: 59979326--59979435 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
59979316 TGAATGTGAC
* *
59979326 TGGGCCTATGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTATGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * * *
59979383 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAGTGGGCTAGATACAGGT
1 TGGGCCT-ATGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
59979436 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 29 0.63
58 17 0.37
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.29
Consensus pattern (57 bp):
TGGGCCTATGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:59984639 original size:40 final size:40
Alignment explanation
Indices: 59984560--59984736 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
59984550 CGGATGATAA
* * * *
59984560 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
59984600 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
59984640 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
59984680 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
59984720 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
59984737 ATGCTTGGGT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 102 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:59992793 original size:40 final size:40
Alignment explanation
Indices: 59992715--59992891 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 40
59992705 CGGATGATAA
* * *
59992715 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
59992755 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
59992795 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
59992835 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
59992875 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
59992892 ATGCTTGGGT
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 103 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:59995749 original size:14 final size:13
Alignment explanation
Indices: 59995729--59995760 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
59995719 AATATTTTAC
59995729 TTGTTCTTAATTA
1 TTGTTCTTAATTA
59995742 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
59995756 TTGTT
1 TTGTT
59995761 TTGATATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:59998902 original size:14 final size:15
Alignment explanation
Indices: 59998870--59998903 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
59998860 TGAAATTATA
*
59998870 TGTTTTAATTTTTCG
1 TGTTTTAATTTTACG
59998885 TGTTTTAATTTTAC-
1 TGTTTTAATTTTACG
59998899 TGTTT
1 TGTTT
59998904 AGATGCTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.68
Consensus pattern (15 bp):
TGTTTTAATTTTACG
Found at i:60000090 original size:56 final size:56
Alignment explanation
Indices: 60000026--60000161 Score: 166
Period size: 56 Copynumber: 2.4 Consensus size: 56
60000016 ACCATGGCAT
* * *
60000026 CGATATATGTGTGCT-AGTAAGACCACATTTAATACGTTAGCATCGATATGTGACTT
1 CGATATATGTGTG-TGAATAAGACCACATTTAATACGTTAGCATCGATATGTAACTC
* * * * *
60000082 CTATATATGTGTGTGAATAATACCACGTTTAATGCGTTGGCATCGATATGTAACTC
1 CGATATATGTGTGTGAATAAGACCACATTTAATACGTTAGCATCGATATGTAACTC
* *
60000138 CGATATATGTGTATGAGTAAGACC
1 CGATATATGTGTGTGAATAAGACC
60000162 TTGTCTAAGA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
55 1 0.01
56 66 0.99
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (56 bp):
CGATATATGTGTGTGAATAAGACCACATTTAATACGTTAGCATCGATATGTAACTC
Found at i:60005947 original size:872 final size:871
Alignment explanation
Indices: 60004267--60006882 Score: 5148
Period size: 872 Copynumber: 3.0 Consensus size: 871
60004257 TAAGCCTTAT
60004267 AATTAATTGTGACCGAATGGTAGCATAAGAAAGGATGCGGTGCAGTGGCCAGCAGTGTGTGGGGA
1 AATTAATTGTGACCGAATGGTAGCATAAGAAAGGATGCGGTGCAGTGGCCAGCAGTGTGTGGGGA
60004332 AGTAGAGTAACCTTGAGGTCTGGAATTTGAGTGGAGGCGCGCGCAAAGTGAGAATTTAATTTTGC
66 AGTAGAGTAACCTTGAGGTCTGGAATTTGAGTGGAGGCGCGCGCAAAGTGAGAATTTAATTTTGC
60004397 TACTCAAGTGCTACACAATGGAAGCAATTTGAATGCAATTCAAATTGGAATTTTTGGCTAAAATC
131 TACTCAAGTGCTACACAATGGAAGCAATTTGAATGCAATTCAAATTGGAATTTTTGGCTAAAATC
60004462 AAGGGGATTAGGATGAGGATTAAGTGTAGATATGATGGTGATAAAATTGGAGAATTTGAAGGGAA
196 AAGGGGATTAGGATGAGGATTAAGTGTAGATATGATGGTGATAAAATTGGAGAATTTGAAGGGAA
60004527 ATTATCTTGACGAGTTTAAGTTGATTGAGGAGTGTAGGTTTATTTTTTATTTATTTATTTA---T
261 ATTATCTTGACGAGTTTAAGTTGATTGAGGAGTGTAGGTTTATTTTTTATTTATTTATTTATTTT
60004589 TTTTATTATAAATATGAGTTAGTATGGGCAAGTAAGGGCATTTTTTGTTTTTGTGTGCTTCGATC
326 TTTTATTATAAATATGAGTTAGTATGGGCAAGTAAGGGCATTTTTTGTTTTTGTGTGCTTCGATC
60004654 GTATATCACCTCCTCTCTTCTTTAAGCCAAACTCTTGATATTTTCTTCCCTATTTTAATCGAATC
391 GTATATCACCTCCTCTCTTCTTTAAGCCAAACTCTTGATATTTTCTTCCCTATTTTAATCGAATC
60004719 AATCTCTTCCCTCTTCTACTTAGCCGACTGTTTCTTTTTCATTTAAAAGTCAATTCATACACTTT
456 AATCTCTTCCCTCTTCTACTTAGCCGACTGTTTCTTTTTCATTTAAAAGTCAATTCATACACTTT
60004784 TGGGGTTTGATTTCTTGTTGGCAAACAATCTTGCAATTGGTAAGTGAATTAGATCTTCTTCGGCT
521 TGGGGTTTGATTTCTTGTTGGCAAACAATCTTGCAATTGGTAAGTGAATTAGATCTTCTTCGGCT
60004849 TTTATTAAATATTTCTAAGTTCTTTCATTTCTACACTCTTAAAAGCCAACTCTTCTTTATTCTTT
586 TTTATTAAATATTTCTAAGTTCTTTCATTTCTACACTCTTAAAAGCCAACTCTTCTTTATTCTTT
60004914 CAAAAACTTTAGTTAACTTACGGTTTCTCCATTTATTTCTCTTTTTCAGTCTCATTCAAAAGTGT
651 CAAAAACTTTAGTTAACTTACGGTTTCTCCATTTATTTCTCTTTTTCAGTCTCATTCAAAAGTGT
*
60004979 GATCTCTGATGGAAAAAAGGGGTTCTAGCAGAGAGGTGGGGATAAAGGCTCCCAAGTTTAAGCGA
716 GATCTCTGATGGAAAAAGGGGGTTCTAGCAGAGAGGTGGGGATAAAGGCTCCCAAGTTTAAGCGA
60005044 TGTAAGGTGTCAGCCATTAGGGACTTTCCGCCTGGATGCGGAAGGGGGACTATGTCAGATTTCAA
781 TGTAAGGTGTCAGCCATTAGGGACTTTCCGCCTGGATGCGGAAGGGGGACTATGTCAGATTTCAA
60005109 GTTACATAGGTAGATCGTAGTCGATC
846 GTTACATAGGTAGATCGTAGTCGATC
60005135 AATTAATTGTGACCGAATGGTAGCATAAGAAAGGATGCGGTGCAGTGGCCAGCAGTGTGTGGGGA
1 AATTAATTGTGACCGAATGGTAGCATAAGAAAGGATGCGGTGCAGTGGCCAGCAGTGTGTGGGGA
60005200 AGTAGAGTAACCTTGAGGTCTGGAATTTGAGTGGAGGCGCGCGCAAAGTGAGAATTTAATTTTGC
66 AGTAGAGTAACCTTGAGGTCTGGAATTTGAGTGGAGGCGCGCGCAAAGTGAGAATTTAATTTTGC
60005265 TACTCAAGTGCTACACAATGGAAGCAATTTGAATGCAATTCAAATTGGAATTTTTGGCTAAAATC
131 TACTCAAGTGCTACACAATGGAAGCAATTTGAATGCAATTCAAATTGGAATTTTTGGCTAAAATC
60005330 AAGGGGATTAGGATGAGGATTAAGTGTAGATATGATGGTGATAAAATTGGAGAATTTGAAGGGAA
196 AAGGGGATTAGGATGAGGATTAAGTGTAGATATGATGGTGATAAAATTGGAGAATTTGAAGGGAA
60005395 ATTATCTTGACGAGTTTAAGTTGATTGAGGAGTGTAGGTTTATTTTTTATTTATTTATTTATTTT
261 ATTATCTTGACGAGTTTAAGTTGATTGAGGAGTGTAGGTTTATTTTTTATTTATTTATTTA-TTT
60005460 TTTTTATTATAAATATGAGTTAGTATGGGCAAGTAAGGGCATTTTTTGTTTTTGTGTGCTTCGAT
325 TTTTTATTATAAATATGAGTTAGTATGGGCAAGTAAGGGCATTTTTTGTTTTTGTGTGCTTCGAT
60005525 CGTATATCACCTCCTCTCTTCTTTAAGCCAAACTCTTGATATTTTCTTCCCTATTTTAATCGAAT
390 CGTATATCACCTCCTCTCTTCTTTAAGCCAAACTCTTGATATTTTCTTCCCTATTTTAATCGAAT
*
60005590 CAATCTCTTCCCTCTTCAACTTAGCCGACTGTTTCTTTTTCATTTAAAAGTCAATTCATACACTT
455 CAATCTCTTCCCTCTTCTACTTAGCCGACTGTTTCTTTTTCATTTAAAAGTCAATTCATACACTT
60005655 TTGGGGTTTGATTTCTTGTTGGCAAACAATCTTGCAATTGGTAAGTGAATTAGATCTTCTTCGGC
520 TTGGGGTTTGATTTCTTGTTGGCAAACAATCTTGCAATTGGTAAGTGAATTAGATCTTCTTCGGC
60005720 TTTTATTAAATATTTCTAAGTTCTTTCATTTCTACACTCTTAAAAGCCAACTCTTCTTTATTCTT
585 TTTTATTAAATATTTCTAAGTTCTTTCATTTCTACACTCTTAAAAGCCAACTCTTCTTTATTCTT
60005785 TCAAAAACTTTAGTTAACTTACGGTTTCTCCATTTATTTCTCTTTTTCAGTCTCATTCAAAAGTG
650 TCAAAAACTTTAGTTAACTTACGGTTTCTCCATTTATTTCTCTTTTTCAGTCTCATTCAAAAGTG
60005850 TGATCTCTGATGGAAAAAGGGGGTTCTAGCAGAGAGGTGGGGATAAAGGCTCCCAAGTTTAAGCG
715 TGATCTCTGATGGAAAAAGGGGGTTCTAGCAGAGAGGTGGGGATAAAGGCTCCCAAGTTTAAGCG
60005915 ATGTAAGGTGTCAGCCATTAGGGACTTTCCGCCTGGATGCGGAAGGGGGACTATGTCAGATTTCA
780 ATGTAAGGTGTCAGCCATTAGGGACTTTCCGCCTGGATGCGGAAGGGGGACTATGTCAGATTTCA
60005980 AGTTACATAGGTAGATCGTAGTCGATC
845 AGTTACATAGGTAGATCGTAGTCGATC
60006007 AATTAATTGTGACCGAATGGTAGCATAAGAAAGGATGCGGTGCAGTGGCCAGCAGTGTGTGGGGA
1 AATTAATTGTGACCGAATGGTAGCATAAGAAAGGATGCGGTGCAGTGGCCAGCAGTGTGTGGGGA
*
60006072 AGTAGAGTAACCTTGAGTTCTGGAATTTGAGTGGAGGCGCGCGCAAAGTGAGAATTTAATTTTGC
66 AGTAGAGTAACCTTGAGGTCTGGAATTTGAGTGGAGGCGCGCGCAAAGTGAGAATTTAATTTTGC
60006137 TACTCAAGTGCTACACAATGGAAGCAATTTGAATGCAATTCAAATTGGAATTTTTGGCTAAAATC
131 TACTCAAGTGCTACACAATGGAAGCAATTTGAATGCAATTCAAATTGGAATTTTTGGCTAAAATC
60006202 AAGGGGATTAGGATGAGGATTAAGTGTAGATATGATGGTGATAAAATTGGAGAATTTGAAGGGAA
196 AAGGGGATTAGGATGAGGATTAAGTGTAGATATGATGGTGATAAAATTGGAGAATTTGAAGGGAA
60006267 ATTATCTTGACGAGTTTAAGTTGATTGAGGAGTGTAGGTTTATTTTTTATTTATTTATTTATTTA
261 ATTATCTTGACGAGTTTAAGTTGATTGAGGAGTGTAGGTTTATTTTTTATTTATTTATTTATTT-
60006332 TTTTTATTATAAATATGAGTTAGTATGGGCAAGTAAGGGCATTTTTTGTTTTTGTGTGCTTCGAT
325 TTTTTATTATAAATATGAGTTAGTATGGGCAAGTAAGGGCATTTTTTGTTTTTGTGTGCTTCGAT
60006397 CGTATATCACCTCCTCTCTTCTTTAAGCCAAACTCTTGATATTTTCTTCCCTATTTTAATCGAAT
390 CGTATATCACCTCCTCTCTTCTTTAAGCCAAACTCTTGATATTTTCTTCCCTATTTTAATCGAAT
60006462 CAATCTCTTCCCTCTTCTACTTAGCCGACTGTTTCTTTTTCATTTAAAAGTCAATTCATACACTT
455 CAATCTCTTCCCTCTTCTACTTAGCCGACTGTTTCTTTTTCATTTAAAAGTCAATTCATACACTT
*
60006527 TTGGGGTTTGATTTCTTATTGGCAAACAATCTTGCAATTGGTAAGTGAATTAGATCTTCTTCGGC
520 TTGGGGTTTGATTTCTTGTTGGCAAACAATCTTGCAATTGGTAAGTGAATTAGATCTTCTTCGGC
60006592 TTTTATTAAATATTTCTAAGTTCTTTCATTTCTACACTCTTAAAAGCCAACTCTTCTTTATTCTT
585 TTTTATTAAATATTTCTAAGTTCTTTCATTTCTACACTCTTAAAAGCCAACTCTTCTTTATTCTT
60006657 TCAAAAACTTTAGTTAACTTACGGTTTCTCCATTTATTTCTCTTTTTCAGTCTCATTCAAAAGTG
650 TCAAAAACTTTAGTTAACTTACGGTTTCTCCATTTATTTCTCTTTTTCAGTCTCATTCAAAAGTG
*
60006722 TGATCTCTGATGGAAAAAGGGGGTTCTAGTAGAGAGGTGGGGATAAAGGCTCCCAAGTTTAAGCG
715 TGATCTCTGATGGAAAAAGGGGGTTCTAGCAGAGAGGTGGGGATAAAGGCTCCCAAGTTTAAGCG
60006787 ATGTAAGGTGTCAGCCATTAGGGACTTTCCGCCTGGATGCGGAAGGGGGACTATGTCAGATTTCA
780 ATGTAAGGTGTCAGCCATTAGGGACTTTCCGCCTGGATGCGGAAGGGGGACTATGTCAGATTTCA
60006852 AGTTACATAGGTAGATCGTAGTCGATC
845 AGTTACATAGGTAGATCGTAGTCGATC
60006879 AATT
1 AATT
60006883 TAGTCAAAGC
Statistics
Matches: 1737, Mismatches: 6, Indels: 6
0.99 0.00 0.00
Matches are distributed among these distances:
868 321 0.18
871 3 0.00
872 1413 0.81
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.37
Consensus pattern (871 bp):
AATTAATTGTGACCGAATGGTAGCATAAGAAAGGATGCGGTGCAGTGGCCAGCAGTGTGTGGGGA
AGTAGAGTAACCTTGAGGTCTGGAATTTGAGTGGAGGCGCGCGCAAAGTGAGAATTTAATTTTGC
TACTCAAGTGCTACACAATGGAAGCAATTTGAATGCAATTCAAATTGGAATTTTTGGCTAAAATC
AAGGGGATTAGGATGAGGATTAAGTGTAGATATGATGGTGATAAAATTGGAGAATTTGAAGGGAA
ATTATCTTGACGAGTTTAAGTTGATTGAGGAGTGTAGGTTTATTTTTTATTTATTTATTTATTTT
TTTTATTATAAATATGAGTTAGTATGGGCAAGTAAGGGCATTTTTTGTTTTTGTGTGCTTCGATC
GTATATCACCTCCTCTCTTCTTTAAGCCAAACTCTTGATATTTTCTTCCCTATTTTAATCGAATC
AATCTCTTCCCTCTTCTACTTAGCCGACTGTTTCTTTTTCATTTAAAAGTCAATTCATACACTTT
TGGGGTTTGATTTCTTGTTGGCAAACAATCTTGCAATTGGTAAGTGAATTAGATCTTCTTCGGCT
TTTATTAAATATTTCTAAGTTCTTTCATTTCTACACTCTTAAAAGCCAACTCTTCTTTATTCTTT
CAAAAACTTTAGTTAACTTACGGTTTCTCCATTTATTTCTCTTTTTCAGTCTCATTCAAAAGTGT
GATCTCTGATGGAAAAAGGGGGTTCTAGCAGAGAGGTGGGGATAAAGGCTCCCAAGTTTAAGCGA
TGTAAGGTGTCAGCCATTAGGGACTTTCCGCCTGGATGCGGAAGGGGGACTATGTCAGATTTCAA
GTTACATAGGTAGATCGTAGTCGATC
Found at i:60006321 original size:4 final size:4
Alignment explanation
Indices: 60006305--60006334 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
60006295 GGAGTGTAGG
60006305 TTTA TTT- TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
60006335 TTATTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTA
Found at i:60007412 original size:28 final size:28
Alignment explanation
Indices: 60007330--60007419 Score: 135
Period size: 29 Copynumber: 3.1 Consensus size: 28
60007320 TGAGCATGAC
**
60007330 TATAAATGTGAATTGGGCCTAATGGAACA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
60007359 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
60007388 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
60007416 TATA
1 TATA
60007420 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:60009002 original size:23 final size:21
Alignment explanation
Indices: 60008974--60009079 Score: 77
Period size: 23 Copynumber: 4.7 Consensus size: 21
60008964 CATAGCTCGT
60008974 AAGAGCTTACTGTTTCAGCTCA
1 AAGAGCTTACTG-TTCAGCTCA
** *
60008996 TCGGAGCTTACCGATTCAGCTCGA
1 -AAGAGCTTACTG-TTCAGCTC-A
60009020 AAGAGCTTACTGTTCAGCTCA
1 AAGAGCTTACTGTTCAGCTCA
* * * *
60009041 ATAAAACTTACCATTTTCAACTCA
1 A-AGAGCTTA-C-TGTTCAGCTCA
60009065 ATAGAGCTTACTGTT
1 A-AGAGCTTACTGTT
60009080 TATCAGCTCA
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
21 2 0.03
22 17 0.26
23 28 0.43
24 18 0.28
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (21 bp):
AAGAGCTTACTGTTCAGCTCA
Found at i:60009050 original size:22 final size:22
Alignment explanation
Indices: 60009025--60009079 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
60009015 CTCGAAAGAG
*
60009025 CTTACTGTTCAGCTCAATAAAA
1 CTTACTGTTCAACTCAATAAAA
* * *
60009047 CTTACCATTTTCAACTCAATAGAG
1 CTTA-C-TGTTCAACTCAATAAAA
60009071 CTTACTGTT
1 CTTACTGTT
60009080 TATCAGCTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
22 7 0.27
23 2 0.08
24 17 0.65
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTACTGTTCAACTCAATAAAA
Found at i:60018208 original size:245 final size:245
Alignment explanation
Indices: 60017778--60018257 Score: 960
Period size: 245 Copynumber: 2.0 Consensus size: 245
60017768 AAGTAAATCA
60017778 AAGTTTCAAACATTCCAAGTTGAGTATTTTATCACGAAAACATAGGTGTCTCCCCTTATCTAAGT
1 AAGTTTCAAACATTCCAAGTTGAGTATTTTATCACGAAAACATAGGTGTCTCCCCTTATCTAAGT
60017843 GATTACCTTTGATCAAAATATCACAGAGTTTAACATCCTCACTAAAGATTCACTCAAATCACTAA
66 GATTACCTTTGATCAAAATATCACAGAGTTTAACATCCTCACTAAAGATTCACTCAAATCACTAA
60017908 AGGTGTTTAAGGACATCAATTAAAGCACTCATTAGTCAATATGAAAAGCTATTGCCATAGGCTTG
131 AGGTGTTTAAGGACATCAATTAAAGCACTCATTAGTCAATATGAAAAGCTATTGCCATAGGCTTG
60017973 CTTGAAAATCAAATCTCCACCACTATAAATTGAGCTGATAAAAACATTCC
196 CTTGAAAATCAAATCTCCACCACTATAAATTGAGCTGATAAAAACATTCC
60018023 AAGTTTCAAACATTCCAAGTTGAGTATTTTATCACGAAAACATAGGTGTCTCCCCTTATCTAAGT
1 AAGTTTCAAACATTCCAAGTTGAGTATTTTATCACGAAAACATAGGTGTCTCCCCTTATCTAAGT
60018088 GATTACCTTTGATCAAAATATCACAGAGTTTAACATCCTCACTAAAGATTCACTCAAATCACTAA
66 GATTACCTTTGATCAAAATATCACAGAGTTTAACATCCTCACTAAAGATTCACTCAAATCACTAA
60018153 AGGTGTTTAAGGACATCAATTAAAGCACTCATTAGTCAATATGAAAAGCTATTGCCATAGGCTTG
131 AGGTGTTTAAGGACATCAATTAAAGCACTCATTAGTCAATATGAAAAGCTATTGCCATAGGCTTG
60018218 CTTGAAAATCAAATCTCCACCACTATAAATTGAGCTGATA
196 CTTGAAAATCAAATCTCCACCACTATAAATTGAGCTGATA
60018258 CATCAATCAA
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
245 235 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (245 bp):
AAGTTTCAAACATTCCAAGTTGAGTATTTTATCACGAAAACATAGGTGTCTCCCCTTATCTAAGT
GATTACCTTTGATCAAAATATCACAGAGTTTAACATCCTCACTAAAGATTCACTCAAATCACTAA
AGGTGTTTAAGGACATCAATTAAAGCACTCATTAGTCAATATGAAAAGCTATTGCCATAGGCTTG
CTTGAAAATCAAATCTCCACCACTATAAATTGAGCTGATAAAAACATTCC
Found at i:60026284 original size:16 final size:16
Alignment explanation
Indices: 60026263--60026301 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
60026253 CATTATCCAC
60026263 AATCATAGTCAATCAT
1 AATCATAGTCAATCAT
60026279 AATCATAGTCAATCAT
1 AATCATAGTCAATCAT
60026295 AATCATA
1 AATCATA
60026302 ATGTCACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (16 bp):
AATCATAGTCAATCAT
Found at i:60027402 original size:23 final size:23
Alignment explanation
Indices: 60027358--60027405 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
60027348 ATCGTAGCGT
* *
60027358 AGCTGCTAATAGTAATGCAGCAA
1 AGCTGCTAATAGGAACGCAGCAA
*
60027381 AGCTGCTAATAGGAACGTAGCAA
1 AGCTGCTAATAGGAACGCAGCAA
60027404 AG
1 AG
60027406 TTACTAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.19
Consensus pattern (23 bp):
AGCTGCTAATAGGAACGCAGCAA
Found at i:60030239 original size:68 final size:67
Alignment explanation
Indices: 60030167--60030343 Score: 184
Period size: 67 Copynumber: 2.6 Consensus size: 67
60030157 CATCATGTGT
* * * *
60030167 ACAAGAGAGCTACGAGATACTATGTGGTAGCTAGGTCACATGTGT-GATAC-GG-G-ATGTATAC
1 ACAAGAGAGCTACGAGATA--A-AT-GTAGCTAGGTCACATGCGTGGATACAGGTGAAAG-ACAC
60030228 CATGTAG
61 CATGTAG
* * * *
60030235 ACAAGAGAGCTACGGGATAAATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAAGACACCATGT
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGCGTGGATACAGGTGAAAGACACCATGT
60030300 AG
66 AG
* *
60030302 ACAAGAGAGCTACGAGATAAA-GTGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGCGTGG
60030344 TACTAAGTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
64 17 0.18
65 4 0.04
66 21 0.23
67 31 0.33
68 20 0.22
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATAAATGTAGCTAGGTCACATGCGTGGATACAGGTGAAAGACACCATGT
AG
Found at i:60037728 original size:65 final size:66
Alignment explanation
Indices: 60037645--60037791 Score: 167
Period size: 68 Copynumber: 2.2 Consensus size: 66
60037635 GAACTATGTG
* * * *
60037645 GTAGCTAGGTCACATGTGT-GATAC-GG-GATGTATACCATGTAGACAAGAGAGCTACGAGGATA
1 GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGTAGACAAAAGAGCTACGA-GATA
60037707 AA
65 AA
* * *
60037709 TGTAGCTAGGT-AGGATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAAAGAGCTACGAGAT
1 -GTAGCTAGGTCA-CATGTGTGGATACAGGTGAAGGACACCATGTAGACAAAAGAGCTACGAGAT
60037773 AAA
64 AAA
*
60037776 GTGGCTAGGTCACATG
1 GTAGCTAGGTCACATG
60037792 GGTTGTACTA
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
64 1 0.01
65 16 0.24
66 15 0.22
67 9 0.13
68 27 0.40
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (66 bp):
GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGTAGACAAAAGAGCTACGAGATAA
A
Found at i:60040280 original size:23 final size:23
Alignment explanation
Indices: 60040228--60040281 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
60040218 ATTGCAGCGT
* * *
60040228 AGCTACTAATAGTAATGTAACAA
1 AGCTGCTAATAGTAACGCAACAA
60040251 AGCTGCTAATAGTAACGCAACAA
1 AGCTGCTAATAGTAACGCAACAA
*
60040274 AGTTGCTA
1 AGCTGCTA
60040282 GTATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (23 bp):
AGCTGCTAATAGTAACGCAACAA
Found at i:60040902 original size:27 final size:27
Alignment explanation
Indices: 60040853--60040904 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
60040843 TTTACCTTAT
60040853 AGGGGTAATTTGGTAATTTTACAAATC
1 AGGGGTAATTTGGTAATTTTACAAATC
*
60040880 AGGGGTATTTTGGTAATTTTACAAA
1 AGGGGTAATTTGGTAATTTTACAAA
60040905 CTGGGGTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGGTAATTTGGTAATTTTACAAATC
Found at i:60052474 original size:50 final size:49
Alignment explanation
Indices: 60052399--60052575 Score: 246
Period size: 50 Copynumber: 3.5 Consensus size: 49
60052389 CCATGGAAAC
60052399 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGG-CAAATGA
* * * *
60052449 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGGCAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGCAAATGA
60052499 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGCAAATGA
* * * *
60052549 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
60052576 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
50 88 0.79
51 24 0.21
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (49 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGCAAATGA
Found at i:60052792 original size:31 final size:31
Alignment explanation
Indices: 60052553--60052785 Score: 369
Period size: 31 Copynumber: 7.5 Consensus size: 31
60052543 AAATGACAAC
60052553 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
60052584 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
60052615 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
60052646 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
60052677 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
60052708 TGAAAAGTGGTAGC-TCTGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTC-AGCTACCTGATCAG
* **
60052739 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
60052770 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
60052786 TGGCTACAAG
Statistics
Matches: 187, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
30 2 0.01
31 184 0.98
32 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:60056225 original size:21 final size:21
Alignment explanation
Indices: 60056199--60056242 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
60056189 CCAATACGTC
60056199 CCTTTCATCTCGAGTATTCCT
1 CCTTTCATCTCGAGTATTCCT
60056220 CCTTTCATCTCGAGTATTCCT
1 CCTTTCATCTCGAGTATTCCT
60056241 CC
1 CC
60056243 ATTTGAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.36, G:0.09, T:0.41
Consensus pattern (21 bp):
CCTTTCATCTCGAGTATTCCT
Found at i:60056522 original size:46 final size:46
Alignment explanation
Indices: 60056346--60056522 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
60056336 ATGTAACCCG
* * *
60056346 TCCATAAGTGAAATCGGACTCAACTCAACGAGCTCGGGCGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCA
* *
60056392 TCCTTAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A
* *** ** *
60056436 GTTACATCTCTCGAACTCAAACTCAACTCAACGAGTTCGGACATTCGCA
1 --TCCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCA
*
60056485 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60056523 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.63
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCA
Found at i:60067534 original size:49 final size:50
Alignment explanation
Indices: 60067401--60067548 Score: 201
Period size: 50 Copynumber: 3.0 Consensus size: 50
60067391 ATGATCTATT
* **
60067401 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTTCGTGTATTAGATG
1 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
* *
60067451 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-
1 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TG
* * *
60067501 GT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
60067549 AGCTTCGGCT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.01
49 40 0.46
50 45 0.52
51 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (50 bp):
GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG
Found at i:60077632 original size:40 final size:39
Alignment explanation
Indices: 60077580--60077783 Score: 221
Period size: 40 Copynumber: 5.1 Consensus size: 39
60077570 GCCGTCAGGT
* * *
60077580 CTTAGCCCGGATATGGTCACTAGCACAAATGTCTTCGGGA
1 CTTAGCCCGGA-ATAGTAACTAGCACAAATGCCTTCGGGA
*
60077620 CTTAACCCGGATATAGTAACTCA-CACAAATGCCTTCGGGA
1 CTTAGCCCGGA-ATAGTAACT-AGCACAAATGCCTTCGGGA
* *
60077660 CTTAGCCCGGAATTAGTAACTCGCATAAATGCCTTCGGGA
1 CTTAGCCCGGAA-TAGTAACTAGCACAAATGCCTTCGGGA
* * *
60077700 CTTAGCCTGGAATTAATAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAA-TAGTAACTAGCACAAATGCCTTCGGGA
* * * * *
60077740 TTTAGCCCAGAAATAATCACTAGCACAAATGTCTTCGGGA
1 CTTAGCCC-GGAATAGTAACTAGCACAAATGCCTTCGGGA
60077780 CTTA
1 CTTA
60077784 ACCCCGTTAG
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 138 0.97
41 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (39 bp):
CTTAGCCCGGAATAGTAACTAGCACAAATGCCTTCGGGA
Found at i:60077690 original size:80 final size:80
Alignment explanation
Indices: 60077580--60077787 Score: 267
Period size: 80 Copynumber: 2.6 Consensus size: 80
60077570 GCCGTCAGGT
* *
60077580 CTTAGCCCGG-ATATGGTCACTAGCACAAATGTCTTCGGGACTTAACCCGG-ATATAGTAACTCA
1 CTTAGCCCGGAAT-TAGTCACTAGCACAAATGTCTTCGGGACTTAACCCGGAAT-TAATAACTCA
60077643 CACAAATGCCTTCGGGA
64 CACAAATGCCTTCGGGA
* * * * * * *
60077660 CTTAGCCCGGAATTAGTAACTCGCATAAATGCCTTCGGGACTTAGCCTGGAATTAATAACTCGCA
1 CTTAGCCCGGAATTAGTCACTAGCACAAATGTCTTCGGGACTTAACCCGGAATTAATAACTCACA
60077725 CAAATGCCTTCGGGA
66 CAAATGCCTTCGGGA
* * * *
60077740 TTTAGCCCAGAAATAATCACTAGCACAAATGTCTTCGGGACTTAACCC
1 CTTAGCCCGGAATTAGTCACTAGCACAAATGTCTTCGGGACTTAACCC
60077788 CGTTAGCATC
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 103 0.96
81 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (80 bp):
CTTAGCCCGGAATTAGTCACTAGCACAAATGTCTTCGGGACTTAACCCGGAATTAATAACTCACA
CAAATGCCTTCGGGA
Found at i:60081714 original size:84 final size:83
Alignment explanation
Indices: 60081589--60081754 Score: 314
Period size: 84 Copynumber: 2.0 Consensus size: 83
60081579 CCCGTGTCTT
60081589 ATGGCCTTGTCTCTTGCTCGTGTGCTTACTACCATGCATACTGACTTGAAAAACTTAGGTGCAGG
1 ATGGCCTTGTCTCTTGCTCGTGTGCTTACTACCATGCATACTGACTTGAAAAACTTAGGTGCAGG
*
60081654 GGACACACGGCTGAGACAC
66 GGACAAACGGCTG-GACAC
60081673 ATGGCCTTGTCTCTTGCTCGTGTGCTTACTACCATGCATACTGACTTGAAAAACTTAGGTGCAGG
1 ATGGCCTTGTCTCTTGCTCGTGTGCTTACTACCATGCATACTGACTTGAAAAACTTAGGTGCAGG
60081738 GGACAAACGGCTGGACA
66 GGACAAACGGCTGGACA
60081755 ACACGCCCAT
Statistics
Matches: 81, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 4 0.05
84 77 0.95
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (83 bp):
ATGGCCTTGTCTCTTGCTCGTGTGCTTACTACCATGCATACTGACTTGAAAAACTTAGGTGCAGG
GGACAAACGGCTGGACAC
Found at i:60083703 original size:68 final size:68
Alignment explanation
Indices: 60083556--60083711 Score: 156
Period size: 68 Copynumber: 2.2 Consensus size: 68
60083546 AGCCGATTTG
* * * * *
60083556 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
60083621 TATC
65 TATA
* *
60083625 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
60083687 ATATAGTA
62 ATATA-TA
*
60083695 TCTCGTAGCTTTCTTGT
1 TCTCGTAGCTCTCTTGT
60083712 ACACATGATG
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
68 34 0.47
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:60093916 original size:11 final size:11
Alignment explanation
Indices: 60093880--60093935 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
60093870 CATGGTATGT
60093880 ATGATATGCAC
1 ATGATATGCAC
* *
60093891 ATGACATG--T
1 ATGATATGCAC
60093900 ATGATATGCAC
1 ATGATATGCAC
*
60093911 ATGATATG--T
1 ATGATATGCAC
60093920 ATGATATGCAC
1 ATGATATGCAC
60093931 ATGAT
1 ATGAT
60093936 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:60093935 original size:20 final size:20
Alignment explanation
Indices: 60093869--60093935 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
60093859 ATTTTGATAA
*
60093869 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
60093889 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
60093909 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
60093929 ACATGAT
1 ACATGAT
60093936 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:60094043 original size:24 final size:24
Alignment explanation
Indices: 60093984--60094103 Score: 163
Period size: 24 Copynumber: 5.0 Consensus size: 24
60093974 GGAGGAAGTG
*
60093984 TAAAAGGGCTTATGCCCCAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
60094008 GATAAAGGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
*
60094033 TAAAAGGGCTTATGCCCTAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
60094057 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
60094080 TAAAAGAGGC-TAGGCCTCCAGTTA
1 TAAAAG-GGCTTATGCC-CCAGTTA
60094104 AATGGTAAAG
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
23 18 0.21
24 39 0.45
25 29 0.34
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:60096531 original size:12 final size:12
Alignment explanation
Indices: 60096498--60096531 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
60096488 TTCCCTGTAA
*
60096498 AATAGTAAAAAT
1 AATAGTAAAGAT
60096510 AATAGTAAAGAT
1 AATAGTAAAGAT
60096522 AATAGTAAAG
1 AATAGTAAAG
60096532 GGGAAGTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (12 bp):
AATAGTAAAGAT
Found at i:60097469 original size:19 final size:18
Alignment explanation
Indices: 60097445--60097488 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
60097435 ATAAATAGAG
60097445 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
60097465 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
60097482 ATAATTA
1 ATAATTA
60097489 TCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:60098082 original size:9 final size:9
Alignment explanation
Indices: 60098063--60098091 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
60098053 TTAATATGAC
60098063 TTTTTTC-T
1 TTTTTTCTT
60098071 TTTTTTCTT
1 TTTTTTCTT
60098080 TTTTTTCTT
1 TTTTTTCTT
60098089 TTT
1 TTT
60098092 GTTATAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:60098406 original size:17 final size:17
Alignment explanation
Indices: 60098374--60098420 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
60098364 AATATCTGAA
60098374 AATAATAAATAATAAAAT
1 AATAATAAA-AATAAAAT
*
60098392 AATAAGAAAAATAAAAT
1 AATAATAAAAATAAAAT
*
60098409 AAAAATAAAAAT
1 AATAATAAAAAT
60098421 TGGGTTGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AATAATAAAAATAAAAT
Found at i:60101209 original size:12 final size:12
Alignment explanation
Indices: 60101176--60101209 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
60101166 TTCCTTGTAA
*
60101176 AATAGTAAAAAT
1 AATAGTAAAGAT
60101188 AATAGTAAAGAT
1 AATAGTAAAGAT
60101200 AATAGTAAAG
1 AATAGTAAAG
60101210 GGGAAGTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (12 bp):
AATAGTAAAGAT
Found at i:60102151 original size:19 final size:17
Alignment explanation
Indices: 60102129--60102172 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
60102119 GATAAATAAA
60102129 AAAATTAAAATAAAATCCT
1 AAAATTAAAAT--AATCCT
*
60102148 AAAATTTAAATAATCCT
1 AAAATTAAAATAATCCT
60102165 AATAATTA
1 AA-AATTA
60102173 TCCTAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 8 0.36
18 4 0.18
19 10 0.45
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTAAAATAATCCT
Found at i:60102540 original size:46 final size:45
Alignment explanation
Indices: 60102473--60102642 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 45
60102463 ACATATCTGT
60102473 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAG
* * * *
60102519 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TCTGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTC-ATCTCGAG
* *
60102564 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAG
*
60102612 GCCGATGCATGTCCCACACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
60102643 AGCACAAACA
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
44 1 0.01
45 13 0.12
46 57 0.53
47 25 0.23
48 8 0.07
49 3 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAG
Found at i:60102615 original size:93 final size:91
Alignment explanation
Indices: 60102472--60102645 Score: 271
Period size: 93 Copynumber: 1.9 Consensus size: 91
60102462 CACATATCTG
* *
60102472 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCACA
60102537 CATGTCTTACACTAGCTCTGTCTCAA
66 CATGTCTTACACTAGCTCTGTCTCAA
*
60102563 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGTCC
60102626 CACACATGTCTTACACTAGC
62 CACACATGTCTTACACTAGC
60102646 ACAAACACAT
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
91 8 0.11
92 14 0.18
93 52 0.68
94 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (91 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCACA
CATGTCTTACACTAGCTCTGTCTCAA
Found at i:60115893 original size:39 final size:39
Alignment explanation
Indices: 60115844--60116160 Score: 245
Period size: 39 Copynumber: 8.1 Consensus size: 39
60115834 CAAATCCAAT
*
60115844 CACCACCACAAAGCATGCGGGACTTTAAGCCCGGATAT-A
1 CACCAGCACAAAGCATGCGGGACTTT-AGCCCGGATATAA
* *
60115883 TACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAA
* * *
60115922 CACCAGCACGAATGCCTTCAGGG-C-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCATGC-GGGACTTTAGCCCGGATATAA
* * * *
60115961 CACCAGTACGAATGCCTTCGGGAC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
* * * * *
60116000 CACCAGTACGAATGCCTTCGGGAC-TTAGCCCAGATATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
* * ** *
60116039 CACCAGCACGAATGCCTTTGGGAC-TTGGCCCGGATATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
* * * * *
60116078 CACCAGCATGAATGCCTTCAGGAC-TTAGCCCGGATATAA
1 CACCAGCA-CAAAGCATGCGGGACTTTAGCCCGGATATAA
* * * *
60116117 CACCAACACGAATGCCTTCGGGAC-TTAGCCCGGATATAA
1 CACCAGCAC-AAAGCATGCGGGACTTTAGCCCGGATATAA
60116156 CACCA
1 CACCA
60116161 TTATAAAGTC
Statistics
Matches: 253, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
38 14 0.06
39 228 0.90
40 8 0.03
41 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (39 bp):
CACCAGCACAAAGCATGCGGGACTTTAGCCCGGATATAA
Found at i:60115989 original size:78 final size:78
Alignment explanation
Indices: 60115871--60116160 Score: 442
Period size: 78 Copynumber: 3.7 Consensus size: 78
60115861 CGGGACTTTA
* * *
60115871 AGCCCGGATAT-ATACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCACGAA
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACACCAGCACGAA
60115934 TGCCTTCAGGGCTT
65 TGCCTTCAGGGCTT
* *
60115948 AGCCCGGATATAACACCAGTACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGTACGAAT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
60116013 GCCTTC-GGGACTT
66 GCCTTCAGGG-CTT
* * * *
60116026 AGCCCAGATATAACACCAGCACGAATGCCTTTGGGACTTGGCCCGGATATAACACCAGCATGAAT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
*
60116091 GCCTTCAGGACTT
66 GCCTTCAGGGCTT
*
60116104 AGCCCGGATATAACACCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
60116161 TTATAAAGTC
Statistics
Matches: 193, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
77 14 0.07
78 165 0.85
79 14 0.07
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (78 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
GCCTTCAGGGCTT
Found at i:60116050 original size:117 final size:117
Alignment explanation
Indices: 60115861--60116160 Score: 444
Period size: 117 Copynumber: 2.6 Consensus size: 117
60115851 ACAAAGCATG
* * *
60115861 CGGGACTTTAAGCCCGGATAT-ATACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACA
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TTAGCCCGGATATAACA
*
60115924 CCAGCACGAATGCCTTCAGGG-CTTAGCCCGGATATAACACCAGTACGAATGCCTT
63 CCAGCACGAATGCCTT-AGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
60115979 CGGGACTTAGCCCGGATATAACACCAGTACGAATGCCTTCGGGACTTAGCCCAGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
* * *
60116044 GCACGAATGCCTTTGGGACTTGGCCCGGATATAACACCAGCATGAATGCCTT
66 GCACGAATGCCTTAGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
60116096 CAGGACTTAGCCCGGATATAACACCAACACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
60116161 TTATAAAGTC
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
116 14 0.08
117 134 0.81
118 18 0.11
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (117 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCA
GCACGAATGCCTTAGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:60118886 original size:45 final size:45
Alignment explanation
Indices: 60118768--60118925 Score: 196
Period size: 45 Copynumber: 3.6 Consensus size: 45
60118758 CGTACGGTAT
* ** *
60118768 TATTCGGGCCTTTGAGCCTAGCAGGCTACGATGCCGGAGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGAGAGATAC
* * *
60118813 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATACTGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGAGAGATAC
* * *
60118858 TATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCTGGCGAAATGA-
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGAGAGAT-AC
60118903 TATT-GGG-CTTCGAGCCTAGCAGG
1 TATTCGGGCCTTCGAGCCTAGCAGG
60118926 TGAAATGTCG
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
43 15 0.15
44 3 0.03
45 82 0.81
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.26
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGAGAGATAC
Found at i:60126919 original size:29 final size:29
Alignment explanation
Indices: 60126877--60126935 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
60126867 GCCTAACAAG
60126877 GTGACACACGGATTGCCCCATGGGCGTGT
1 GTGACACACGGATTGCCCCATGGGCGTGT
60126906 GTGACACACGGATTGCCCCATGGGCGTGT
1 GTGACACACGGATTGCCCCATGGGCGTGT
60126935 G
1 G
60126936 GTATGGCCGT
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:0.17, C:0.27, G:0.36, T:0.20
Consensus pattern (29 bp):
GTGACACACGGATTGCCCCATGGGCGTGT
Found at i:60129192 original size:15 final size:15
Alignment explanation
Indices: 60129172--60129201 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60129162 CAAATCAAAA
60129172 AGAAAAAGTTATCAT
1 AGAAAAAGTTATCAT
60129187 AGAAAAAGTTATCAT
1 AGAAAAAGTTATCAT
60129202 TTTTCTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (15 bp):
AGAAAAAGTTATCAT
Found at i:60141794 original size:15 final size:15
Alignment explanation
Indices: 60141771--60141802 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
60141761 TGAGATTGAT
*
60141771 TGTGGTAAGGTGCTA
1 TGTGATAAGGTGCTA
60141786 TGTGATAAGGTGCTA
1 TGTGATAAGGTGCTA
60141801 TG
1 TG
60141803 GTAAGAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.38, T:0.34
Consensus pattern (15 bp):
TGTGATAAGGTGCTA
Found at i:60146429 original size:12 final size:12
Alignment explanation
Indices: 60146412--60146438 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60146402 CGTGGCCAGT
60146412 GATGAATTGACG
1 GATGAATTGACG
60146424 GATGAATTGACG
1 GATGAATTGACG
60146436 GAT
1 GAT
60146439 AAGACCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.26
Consensus pattern (12 bp):
GATGAATTGACG
Found at i:60146512 original size:35 final size:35
Alignment explanation
Indices: 60146466--60146727 Score: 301
Period size: 35 Copynumber: 7.5 Consensus size: 35
60146456 GTGGCAAAGT
* * *
60146466 TATGATACGTAGGTATGGCATTGACCATACTAAGC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
60146501 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
*
60146536 TATGATACGTAGGTATGGTATCGTCCATACTGAGC
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* *
60146571 TATGATACGTAGGCATGGCATCGTCCATACTGAGT
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* * *
60146606 TATGACATGTAGGTATGGCATCGTCCATACTGAGT
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* * * * ** * *
60146641 TATGAAATGTAGTTATGGTATTTTCCATATTGAGT
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* * ** *
60146676 TATGAAACGTAGGTATGGTATTTTCCATACTAAG-
1 TATGATACGTAGGTATGGCATCGTCCATACTGAGC
* *
60146710 TATGAAATGTAGGTATGG
1 TATGATACGTAGGTATGG
60146728 TATTTCAATG
Statistics
Matches: 206, Mismatches: 21, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
34 17 0.08
35 189 0.92
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (35 bp):
TATGATACGTAGGTATGGCATCGTCCATACTGAGC
Found at i:60146627 original size:105 final size:104
Alignment explanation
Indices: 60146466--60146727 Score: 344
Period size: 105 Copynumber: 2.5 Consensus size: 104
60146456 GTGGCAAAGT
* * *
60146466 TATGATACGTAGGTATGGCATTGACCATACTAAGCTATGATACGTAGGTATGGCATCGTCCATAC
1 TATGATACGTAGGTATGGCATTGTCCATACTAAG-TATGAAATGTAGGTATGGCATCGTCCATAC
*
60146531 TGAGCTATGATACGTAGGTATGGTATCGTCCATACTGAGC
65 TGAGCTATGAAACGTAGGTATGGTATCGTCCATACTGAGC
* * * *
60146571 TATGATACGTAGGCATGGCATCGTCCATACTGAGTTATGACATGTAGGTATGGCATCGTCCATAC
1 TATGATACGTAGGTATGGCATTGTCCATACTAAG-TATGAAATGTAGGTATGGCATCGTCCATAC
* * * ** * *
60146636 TGAGTTATGAAATGTAGTTATGGTATTTTCCATATTGAGT
65 TGAGCTATGAAACGTAGGTATGGTATCGTCCATACTGAGC
* * *
60146676 TATGAAACGTAGGTATGGTATTTTCCATACTAAGTATGAAATGTAGGTATGG
1 TATGATACGTAGGTATGGCATTGTCCATACTAAGTATGAAATGTAGGTATGG
60146728 TATTTCAATG
Statistics
Matches: 135, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
104 17 0.13
105 118 0.87
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (104 bp):
TATGATACGTAGGTATGGCATTGTCCATACTAAGTATGAAATGTAGGTATGGCATCGTCCATACT
GAGCTATGAAACGTAGGTATGGTATCGTCCATACTGAGC
Found at i:60148633 original size:47 final size:48
Alignment explanation
Indices: 60148582--60148688 Score: 128
Period size: 49 Copynumber: 2.2 Consensus size: 48
60148572 GATTTCTGTA
* * *
60148582 TAAGACCATAGCTGGGCTATGG-TATCGG-TGTGATATGTGCTTCCGTT
1 TAAGACCATAGCTAGGCTATGGCT-TCGGATGTGATATGTGCTTACGTG
* * *
60148629 TAAGACCATATCTAGGCTATGGCTTCGGTATGTGATATGTGGTTATGTG
1 TAAGACCATAGCTAGGCTATGGCTTCGG-ATGTGATATGTGCTTACGTG
60148678 TAAGACCATAG
1 TAAGACCATAG
60148689 TTACACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 24 0.48
48 1 0.02
49 25 0.50
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (48 bp):
TAAGACCATAGCTAGGCTATGGCTTCGGATGTGATATGTGCTTACGTG
Found at i:60152034 original size:35 final size:35
Alignment explanation
Indices: 60151956--60152212 Score: 266
Period size: 35 Copynumber: 7.4 Consensus size: 35
60151946 CAAAGTTATT
* ** *
60151956 ATACGTAGGTATGGTATCAACCATACCGAGCT-TG
1 ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
* ***
60151990 ATAAGTAGGTATGGCATTAACCATACTGAGCTATG
1 ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
60152025 ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
1 ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
*
60152060 ATACGTAGGTATGGCATCGTCCATACTGAGTTATG
1 ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
* * *
60152095 ACATGTAGGTATGGCATCGTCCATACTGAGTTATG
1 ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
* * * ** * *
60152130 AAACGTAGTTATGGTATTTTCCATATTGAGTTATG
1 ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
* * ** *
60152165 AAACGTAGGTATGGTATTTTCCATACTAAG-TATG
1 ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
* *
60152199 AAATGTAGGTATGG
1 ATACGTAGGTATGG
60152213 TATTTCAATG
Statistics
Matches: 200, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
34 45 0.22
35 155 0.77
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (35 bp):
ATACGTAGGTATGGCATCGTCCATACTGAGCTATG
Found at i:60152137 original size:105 final size:104
Alignment explanation
Indices: 60151956--60152212 Score: 293
Period size: 105 Copynumber: 2.5 Consensus size: 104
60151946 CAAAGTTATT
* * *
60151956 ATACGTAGGTATGGTATCAACCATACCGAGCT-TGATAA-GTAGGTATGGCATTAACCATACTGA
1 ATACGTAGGTATGGTATCATCCATACTGAG-TATGA-AATGTAGGTATGGCATCAACCATACTGA
*
60152019 GCTATGATACGTAGGTATGGCATCGTCCATACTGAGCTATG
64 GCTATGAAACGTAGGTATGGCATCGTCCATACTGAGCTATG
* * * **
60152060 ATACGTAGGTATGGCATCGTCCATACTGAGTTATGACATGTAGGTATGGCATCGTCCATACTGAG
1 ATACGTAGGTATGGTATCATCCATACTGAG-TATGAAATGTAGGTATGGCATCAACCATACTGAG
* * * ** * *
60152125 TTATGAAACGTAGTTATGGTATTTTCCATATTGAGTTATG
65 CTATGAAACGTAGGTATGGCATCGTCCATACTGAGCTATG
* ** *
60152165 AAACGTAGGTATGGTATTTTCCATACTAAGTATGAAATGTAGGTATGG
1 ATACGTAGGTATGGTATCATCCATACTGAGTATGAAATGTAGGTATGG
60152213 TATTTCAATG
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
104 45 0.35
105 83 0.65
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (104 bp):
ATACGTAGGTATGGTATCATCCATACTGAGTATGAAATGTAGGTATGGCATCAACCATACTGAGC
TATGAAACGTAGGTATGGCATCGTCCATACTGAGCTATG
Found at i:60156751 original size:2 final size:2
Alignment explanation
Indices: 60156744--60156771 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
60156734 AGCGAAAACC
60156744 TA 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 TA
60156772 CTTGACACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60159615 original size:19 final size:20
Alignment explanation
Indices: 60159591--60159637 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
60159581 GTTTGGGAGG
*
60159591 AAGTAAAA-TTTTG-GAGGGA
1 AAGTAAAAGTTTTGAGA-GAA
60159610 AAGTAAAAGTTTTGAGAGAA
1 AAGTAAAAGTTTTGAGAGAA
60159630 AAGTAAAA
1 AAGTAAAA
60159638 AGAAAAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 8 0.32
20 15 0.60
21 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (20 bp):
AAGTAAAAGTTTTGAGAGAA
Found at i:60159677 original size:73 final size:74
Alignment explanation
Indices: 60159528--60159690 Score: 221
Period size: 74 Copynumber: 2.3 Consensus size: 74
60159518 ATTTTTGGGG
* *
60159528 TTTGGA-GG-AAGTAAAAGTTTTGGGGAGAAGGTAAAAAGAAAAAAGTTCTGGGAGTTTGGGAGG
1 TTTGGAGGGAAAGTAAAAGTTTTGGAGAGAAAGTAAAAAGAAAAAAGTTCTGGGAGTTTGGGAGG
60159591 AAGTAAAAT
66 AAGTAAAAT
*
60159600 TTTGGAGGGAAAGTAAAAGTTTT-GAGAGAAAAGTAAAAAGAAAAAAGTTTTGGG-GTTTGGGA-
1 TTTGGAGGGAAAGTAAAAGTTTTGGAGAG-AAAGTAAAAAGAAAAAAGTTCTGGGAGTTTGGGAG
*
60159662 GAAGTTAAATT
65 GAAG-TAAAAT
*
60159673 TTTGG-GGAAAAGTAAAAG
1 TTTGGAGGGAAAGTAAAAG
60159691 GGTATGAGTG
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
72 22 0.27
73 24 0.29
74 36 0.44
ACGTcount: A:0.42, C:0.01, G:0.33, T:0.25
Consensus pattern (74 bp):
TTTGGAGGGAAAGTAAAAGTTTTGGAGAGAAAGTAAAAAGAAAAAAGTTCTGGGAGTTTGGGAGG
AAGTAAAAT
Found at i:60161379 original size:6 final size:6
Alignment explanation
Indices: 60161368--60161393 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
60161358 GGGAAGAAGG
60161368 GGGCGT GGGCGT GGGCGT GGGCGT GG
1 GGGCGT GGGCGT GGGCGT GGGCGT GG
60161394 TCGGTATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.69, T:0.15
Consensus pattern (6 bp):
GGGCGT
Found at i:60163334 original size:15 final size:16
Alignment explanation
Indices: 60163314--60163346 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
60163304 ATATATATTT
60163314 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
60163329 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
60163346 T
1 T
60163347 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:60163406 original size:35 final size:33
Alignment explanation
Indices: 60163358--60163422 Score: 76
Period size: 35 Copynumber: 1.9 Consensus size: 33
60163348 TAACCATTTT
* *
60163358 TTATTATATTATTAATTTGTGTATTGTTTTAAGAA
1 TTATTATAGTATTAATTT-TAT-TTGTTTTAAGAA
* *
60163393 TTATTTTAGTATTACTTTTATTTGTTTTAA
1 TTATTATAGTATTAATTTTATTTGTTTTAA
60163423 TATTTGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 9 0.35
34 2 0.08
35 15 0.58
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.62
Consensus pattern (33 bp):
TTATTATAGTATTAATTTTATTTGTTTTAAGAA
Found at i:60163466 original size:26 final size:24
Alignment explanation
Indices: 60163422--60163471 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
60163412 ATTTGTTTTA
*
60163422 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
60163446 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
60163472 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:60173171 original size:104 final size:104
Alignment explanation
Indices: 60172991--60173257 Score: 455
Period size: 104 Copynumber: 2.6 Consensus size: 104
60172981 TAACCGTTAT
* **
60172991 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
60173056 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
60173095 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
60173160 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
60173199 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
60173258 TTATATACAA
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
104 153 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:60173615 original size:29 final size:29
Alignment explanation
Indices: 60173582--60173645 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
60173572 TAATCCACCA
60173582 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
60173611 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
60173641 CCCAA
1 CCCAA
60173646 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:60173619 original size:30 final size:30
Alignment explanation
Indices: 60173589--60173645 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
60173579 CCACCCAACT
60173589 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
60173618 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
60173646 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:60180649 original size:104 final size:104
Alignment explanation
Indices: 60180469--60180735 Score: 455
Period size: 104 Copynumber: 2.6 Consensus size: 104
60180459 TAACCGTTAT
* **
60180469 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
60180534 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
60180573 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
60180638 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
60180677 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
60180736 TTATATACAC
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
104 153 0.99
105 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:60181091 original size:29 final size:29
Alignment explanation
Indices: 60181058--60181121 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
60181048 TAATCCACCA
60181058 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
60181087 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
60181117 CCCAA
1 CCCAA
60181122 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:60181095 original size:30 final size:30
Alignment explanation
Indices: 60181065--60181121 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
60181055 CCACCCAACT
60181065 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
60181094 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
60181122 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:60187263 original size:71 final size:71
Alignment explanation
Indices: 60187147--60187305 Score: 291
Period size: 71 Copynumber: 2.2 Consensus size: 71
60187137 ACTTGTTATA
*
60187147 TTCGCACACTTAGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTCGTGCTCGATAC
1 TTCGCACACTTAGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTAGTGCTCGATAC
60187212 TTTTAC
66 TTTTAC
*
60187218 TTCGCACACTTAGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTAGTGCTCGATAG
1 TTCGCACACTTAGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTAGTGCTCGATAC
60187283 TTTTAC
66 TTTTAC
*
60187289 TTCTCACACTTAGTGCT
1 TTCGCACACTTAGTGCT
60187306 CGATAATTTT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 85 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (71 bp):
TTCGCACACTTAGTGCTATTATTTAACTCGCAATGCAATGAGATCGCACACTTAGTGCTCGATAC
TTTTAC
Found at i:60187306 original size:29 final size:29
Alignment explanation
Indices: 60187262--60187342 Score: 135
Period size: 29 Copynumber: 2.8 Consensus size: 29
60187252 GCAATGAGAT
* *
60187262 CGCACACTTAGTGCTCGATAGTTTTACTT
1 CGCACACTTAGTGCTCGATAATTTTACTC
*
60187291 CTCACACTTAGTGCTCGATAATTTTACTC
1 CGCACACTTAGTGCTCGATAATTTTACTC
60187320 CGCACACTTAGTGCTCGATAATT
1 CGCACACTTAGTGCTCGATAATT
60187343 CACATATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (29 bp):
CGCACACTTAGTGCTCGATAATTTTACTC
Found at i:60204549 original size:21 final size:22
Alignment explanation
Indices: 60204516--60204559 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
60204506 ATCTTCTCGA
60204516 TTTGGTCCATTTT-GTCCCTTT
1 TTTGGTCCATTTTGGTCCCTTT
*
60204537 TTTGGT-CATTTTTGGTTCCTTT
1 TTTGGTCCA-TTTTGGTCCCTTT
60204559 T
1 T
60204560 GACTCTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 10 0.50
22 8 0.40
ACGTcount: A:0.05, C:0.18, G:0.16, T:0.61
Consensus pattern (22 bp):
TTTGGTCCATTTTGGTCCCTTT
Found at i:60216130 original size:53 final size:54
Alignment explanation
Indices: 60216050--60216256 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
60216040 TTCCTTTTTA
* * * *
60216050 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
60216103 AACTCACCATTGCCATACCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
60216157 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
60216212 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
60216257 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 44 0.36
54 37 0.31
55 40 0.33
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:60216205 original size:55 final size:53
Alignment explanation
Indices: 60216062--60216256 Score: 183
Period size: 55 Copynumber: 3.6 Consensus size: 53
60216052 CTTACCATTT
* *
60216062 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
** * * * ** * *
60216115 CCATACCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATG
* * * * *
60216170 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATG
* * * *
60216224 TCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGTATCCTT
60216257 AAACCCTAAT
Statistics
Matches: 111, Mismatches: 29, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 34 0.31
54 37 0.33
55 40 0.36
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:60218950 original size:75 final size:75
Alignment explanation
Indices: 60218819--60218981 Score: 227
Period size: 75 Copynumber: 2.2 Consensus size: 75
60218809 TGTGTCTTTG
* * *
60218819 ACACGCCCGTGTCCTCAGGAAGTGTAACTTTCTATTTATGACGTTAGCATGCAAATCGAACCATA
1 ACACGCCCGTGTCCTCAGGAAGTGTAACTTTCTATTTATGACATTAGCATGAAAATCGAACCACA
*
60218884 CGATCGAGCC
66 CGACCGAGCC
* * * * *
60218894 ACACGCCCGTGTCCTCAGGACGTGTAACTTTTTCTTTATGACATTAGTATGAAAATCTAACCACA
1 ACACGCCCGTGTCCTCAGGAAGTGTAACTTTCTATTTATGACATTAGCATGAAAATCGAACCACA
* *
60218959 CGGCCGGGCC
66 CGACCGAGCC
60218969 ACACGCCCGTGTC
1 ACACGCCCGTGTC
60218982 TCCAAGTCGT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (75 bp):
ACACGCCCGTGTCCTCAGGAAGTGTAACTTTCTATTTATGACATTAGCATGAAAATCGAACCACA
CGACCGAGCC
Found at i:60219848 original size:42 final size:41
Alignment explanation
Indices: 60219799--60219998 Score: 159
Period size: 42 Copynumber: 4.7 Consensus size: 41
60219789 TTCATTTTCT
** * *
60219799 TGATGCCATAATTCAACTATGGTCTTATACATCTTCACATAA
1 TGATGCCATAACCCAACTATGGTCTTACACATATTCACAT-A
* *
60219841 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
1 TGATGCCATAACCCAACTATGGTCTTACACATATTCACATA
* * * **
60219882 TCGATGCCATAGCCTAGCTATGGTCTTACACGGA-TCACATA
1 T-GATGCCATAACCCAACTATGGTCTTACACATATTCACATA
* * *
60219923 TCAATGCCATAGCCCAGCTATGGTCTTACACTGATCACATATCACATA
1 T-GATGCCATAACCCAACTATGGTCTTACAC--AT---AT-TCACATA
* *
60219971 TCGATGCCATAGCCCAGCTATGGTCTTA
1 T-GATGCCATAACCCAACTATGGTCTTA
60219999 TACAGAAGCA
Statistics
Matches: 136, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
41 38 0.28
42 63 0.46
46 1 0.01
48 34 0.25
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (41 bp):
TGATGCCATAACCCAACTATGGTCTTACACATATTCACATA
Found at i:60219932 original size:41 final size:41
Alignment explanation
Indices: 60219843--60220004 Score: 198
Period size: 41 Copynumber: 3.8 Consensus size: 41
60219833 TCACATAATG
* *
60219843 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACAGA-TCACATATCA
* *
60219885 ATGCCATAGCCTAGCTATGGTCTTACACGGATCACATATCA
1 ATGCCATAGCCCAGCTATGGTCTTACACAGATCACATATCA
*
60219926 ATGCCATAGCCCAGCTATGGTCTTACACTGATCACATATCACATA
1 ATGCCATAGCCCAGCTATGGTCTTACACAGATCACATAT--C--A
*
60219971 TCGATGCCATAGCCCAGCTATGGTCTTATACAGA
1 ---ATGCCATAGCCCAGCTATGGTCTTACACAGA
60220005 AGCATATATC
Statistics
Matches: 105, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
41 46 0.44
42 28 0.27
43 1 0.01
45 1 0.01
48 29 0.28
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (41 bp):
ATGCCATAGCCCAGCTATGGTCTTACACAGATCACATATCA
Found at i:60220113 original size:31 final size:31
Alignment explanation
Indices: 60220067--60220182 Score: 151
Period size: 31 Copynumber: 3.7 Consensus size: 31
60220057 CTTGTCACTT
* *
60220067 GTAGCCGAAGCTACCACTATTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
60220098 GTAGTCGGAGCTACCATTTTTCACTGGTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
60220129 GTAGCCAAAGCAACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
60220160 GTAGCCGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
60220183 TTTGTCATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:60220259 original size:50 final size:51
Alignment explanation
Indices: 60220160--60220283 Score: 196
Period size: 50 Copynumber: 2.5 Consensus size: 51
60220150 CACTAATCAG
* * * *
60220160 GTAGCCGAAGCTACCACTTTTCATTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCAGTTGTCACTTGTCCTTGATCAGATAAGT
*
60220211 GTAGCCGAAGCTATCACTTATCAGTT-TCACTTGTCCTTGCTCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCAGTTGTCACTTGTCCTTGATCAGATAAGT
60220261 GTAGCCGAAGCTATCACTTATCA
1 GTAGCCGAAGCTATCACTTATCA
60220284 CTGGTTGCCA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 45 0.66
51 23 0.34
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCAGTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:60224819 original size:48 final size:48
Alignment explanation
Indices: 60224635--60224820 Score: 203
Period size: 48 Copynumber: 3.9 Consensus size: 48
60224625 ATGAATTGCT
* * * *
60224635 GATGCCATGTTCCAAACATGGTCTTATACTGGCTCACATGTCGAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGTGGCC
* * * * * * *
60224683 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACATCGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGTGGCC
* * * *
60224731 AATACCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGTGGCC
* *
60224779 GATGCCATG-TCCTAGACATGGTCTTACACTAGCACACATATC
1 GATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATATC
60224821 ACCCAAATGT
Statistics
Matches: 111, Mismatches: 26, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
47 3 0.03
48 108 0.97
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGTGGCC
Found at i:60240210 original size:17 final size:18
Alignment explanation
Indices: 60240178--60240215 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
60240168 TGAATGGTAG
60240178 ACAC-ATAAACCGAAAAC
1 ACACGATAAACCGAAAAC
60240195 ACACGATAAACC-AAAAC
1 ACACGATAAACCGAAAAC
60240212 -CACG
1 ACACG
60240216 CCATGACAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 9 0.45
18 7 0.35
ACGTcount: A:0.55, C:0.32, G:0.08, T:0.05
Consensus pattern (18 bp):
ACACGATAAACCGAAAAC
Found at i:60249691 original size:14 final size:15
Alignment explanation
Indices: 60249672--60249704 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
60249662 CTCCCTTAGG
*
60249672 AAATTTCGT-CCTTA
1 AAATTTCGTACCTGA
60249686 AAATTTCGTACCTGA
1 AAATTTCGTACCTGA
60249701 AAAT
1 AAAT
60249705 AAATACGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (15 bp):
AAATTTCGTACCTGA
Found at i:60278525 original size:40 final size:40
Alignment explanation
Indices: 60278448--60278628 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
60278438 CCCAAAGTAT
*
60278448 CTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
60278487 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
60278527 CTTCGGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
60278567 CTTCGGGACTTAGCCCGGGTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
60278607 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
60278629 CATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.10
40 113 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:60285130 original size:40 final size:40
Alignment explanation
Indices: 60285075--60285345 Score: 393
Period size: 40 Copynumber: 6.8 Consensus size: 40
60285065 GGATATAGCT
* * *
60285075 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
60285115 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
60285155 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
60285195 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
60285235 ACTCGCACAAATGCTTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
60285275 ACTCGCACAAATGCCTTCGGGACTT-GCCCGAAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
60285314 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
60285346 TTTTCATCCA
Statistics
Matches: 210, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 32 0.15
40 176 0.84
41 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:60290133 original size:40 final size:40
Alignment explanation
Indices: 60290056--60290236 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
60290046 ACCCAAGTAT
*
60290056 CTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
60290095 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
60290135 CTTCGGGATTTAGCCCGGATATAATCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
60290175 CTTCGGGACTTAGCCCGGGTATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
60290215 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
60290237 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.09
40 114 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:60293735 original size:47 final size:45
Alignment explanation
Indices: 60293681--60293807 Score: 168
Period size: 47 Copynumber: 2.8 Consensus size: 45
60293671 GATGATGATA
*
60293681 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATATGT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACATGT
*
60293726 GAGAT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGACATGT
1 --G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACATGT
* * *
60293773 GTCAGTGTAAAACC-TGTCTGGGACACGACATCGAC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
60293808 ACAGATGGAC
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
44 19 0.26
45 11 0.15
47 41 0.57
48 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGACATGT
Found at i:60302749 original size:33 final size:33
Alignment explanation
Indices: 60302707--60302790 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
60302697 ATCCAATCAG
*
60302707 ATGTTTACTATCCCAGTGGAT-TATTTCTATTCT
1 ATGTTTACTATCCCAAT-GATCTATTTCTATTCT
*
60302740 ATGTTTACTATCCTAATGATCTATTTCTATTCT
1 ATGTTTACTATCCCAATGATCTATTTCTATTCT
* * *
60302773 GTGTTTATTGTCCCAATG
1 ATGTTTACTATCCCAATG
60302791 GAAAATTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
32 3 0.07
33 41 0.93
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (33 bp):
ATGTTTACTATCCCAATGATCTATTTCTATTCT
Found at i:60306353 original size:28 final size:27
Alignment explanation
Indices: 60306268--60306357 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
60306258 GTGATAGAGT
*
60306268 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* * * *
60306297 CACCAAAACAGAT-ATATGTGGGAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
60306324 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
60306352 CACCAG
1 CACCAG
60306358 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 22 0.44
29 6 0.12
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:60306510 original size:28 final size:28
Alignment explanation
Indices: 60306463--60306527 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
60306453 AAATTAACCC
*
60306463 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
60306491 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
60306519 TAGGGGTAT
1 TAGGGGTAT
60306528 TCTAGCACAT
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:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:60307952 original size:25 final size:25
Alignment explanation
Indices: 60307919--60307967 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
60307909 TGTGAAAAGG
*
60307919 GGGTTGCTATGTACTGATTCCCCGA
1 GGGTTGCTAAGTACTGATTCCCCGA
*
60307944 GGGTTGCTAAGTGCTGATTCCCCG
1 GGGTTGCTAAGTACTGATTCCCCG
60307968 GTTCATTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (25 bp):
GGGTTGCTAAGTACTGATTCCCCGA
Found at i:60308090 original size:104 final size:103
Alignment explanation
Indices: 60307840--60308104 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 103
60307830 TTGTATATAA
** *
60307840 AGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCTT
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
60307904 TGAAATGTGAAAAGGGGGTTGCTATGTACTGATTCCCCG
65 TGAAATGTGAAAAGGGGGTTGCTATGTACTGATTCCCCG
*
60307943 AGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
1 AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
*
60308008 GAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCTG
66 GAAATGTGAAAAGGGGGTTGCTATGTACTGATTCCCC-G
** *
60308046 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 A-GGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
60308105 ATAACGGTTA
Statistics
Matches: 150, Mismatches: 9, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
102 27 0.18
103 69 0.46
104 54 0.36
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
GAAATGTGAAAAGGGGGTTGCTATGTACTGATTCCCCG
Found at i:60316674 original size:55 final size:56
Alignment explanation
Indices: 60316609--60316723 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
60316599 AGCATGGCTG
* * *
60316609 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAAATAATTTGTGGCA-TAGCCA
* * *
60316665 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAAATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAAATAATTTGTGGCATAGCCA
60316720 CCAG
1 CCAG
60316724 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 22 0.43
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAAATAATTTGTGGCATAGCCA
Found at i:60316686 original size:27 final size:27
Alignment explanation
Indices: 60316634--60316723 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
60316624 GTGACAGAGT
60316634 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
60316663 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
60316690 CACCAGAACAAATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
60316718 CACCAG
1 CACCAG
60316724 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:60316719 original size:28 final size:27
Alignment explanation
Indices: 60316634--60316723 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
60316624 GTGACAGAGT
*
60316634 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
60316663 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
60316690 CACCAGAACAAATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
60316718 CACCAG
1 CACCAG
60316724 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:60316876 original size:28 final size:28
Alignment explanation
Indices: 60316832--60316893 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
60316822 TTAACCCTAA
*
60316832 GGGTATAAAGGTCATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
*
60316860 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAAAGGTAATTTTGCATACATAG
60316888 GGGTAT
1 GGGTAT
60316894 TCTAGTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTTGCATACATAG
Found at i:60323033 original size:40 final size:41
Alignment explanation
Indices: 60322950--60323171 Score: 267
Period size: 41 Copynumber: 5.5 Consensus size: 41
60322940 ACCCAAGTAT
** *
60322950 CTTCGGGAT-TTAG-CCGGATATAACCACTT-GCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTTAGCACAAATGC
* *
60322988 CTTCGGGTCTTAGCCCGGATATGGTCAC-TAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTTAGCACAAATGC
* *
60323028 CTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTTAGCACAAATGC
* * *
60323068 CTTCGGGTTTTGGCCCGGATATAGTAACTTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTTAGCACAAATGC
* * *
60323109 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTTAGCACAAATGC
*
60323150 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
60323172 CATTCGAATA
Statistics
Matches: 156, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 14 0.09
40 63 0.40
41 66 0.42
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (41 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTTAGCACAAATGC
Found at i:60323121 original size:81 final size:81
Alignment explanation
Indices: 60322950--60323171 Score: 274
Period size: 81 Copynumber: 2.8 Consensus size: 81
60322940 ACCCAAGTAT
* ** * *
60322950 CTTCGGGATTTAG-CCGGATATAACCACTT-GCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGG
1 CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
* *
60323012 TCACTAGCATAAATGC
66 TAACTAGCACAAATGC
* * * *
60323028 CTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAATGCCTTCGGGTTTTGGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
60323092 TAACTTAGCACAAATGC
66 TAAC-TAGCACAAATGC
* *
60323109 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
60323172 CATTCGAATA
Statistics
Matches: 122, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
78 13 0.11
79 15 0.12
80 31 0.25
81 33 0.27
82 30 0.25
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
TAACTAGCACAAATGC
Found at i:60325844 original size:57 final size:56
Alignment explanation
Indices: 60325756--60325948 Score: 262
Period size: 57 Copynumber: 3.4 Consensus size: 56
60325746 ATCGTATTAC
* * * *
60325756 AGGATTACCAGTTCAAGCTAAATCCATTATGTAACGTATGCTCAAAAGAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCATTATGTGACGTACGCTCAAAA-AGCTCAATT
* * * *
60325813 AGGATTACTAGTTCAGGCTAAATCCATTATGTGATGTACGCGCATAAAAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCATTATGTGACGTACGCTCA-AAAAGCTCAATT
*
60325870 AGGATTACCAGTCCAGGCTAAATCCATAAT-TGGACGTACGCTCAAAAAAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCATTATGT-GACGTACGCTC-AAAAAGCTCAATT
60325927 AGGATTACCAGTCCAGGCTAAA
1 AGGATTACCAGTCCAGGCTAAA
60325949 CACTAATTGT
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
56 1 0.01
57 117 0.96
58 4 0.03
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (56 bp):
AGGATTACCAGTCCAGGCTAAATCCATTATGTGACGTACGCTCAAAAAGCTCAATT
Found at i:60327581 original size:15 final size:15
Alignment explanation
Indices: 60327561--60327591 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60327551 TAATTTGATG
60327561 TTTAAGAGAGGAATA
1 TTTAAGAGAGGAATA
*
60327576 TTTAAGGGAGGAATA
1 TTTAAGAGAGGAATA
60327591 T
1 T
60327592 GAATGTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
TTTAAGAGAGGAATA
Found at i:60334547 original size:300 final size:300
Alignment explanation
Indices: 60334005--60334606 Score: 1204
Period size: 300 Copynumber: 2.0 Consensus size: 300
60333995 ATGGGGATTA
60334005 TTTGGCCCACGAGAGCTGGCCCGATTCAAGGAACTATTGGAGAAGCCTGTCAGATTGAAGCCTGG
1 TTTGGCCCACGAGAGCTGGCCCGATTCAAGGAACTATTGGAGAAGCCTGTCAGATTGAAGCCTGG
60334070 TTGGCCTGATAGCGAAGATATGGCAACTTAGGCAACTATGGTAACTAATCTTTAAAAATAAAGGG
66 TTGGCCTGATAGCGAAGATATGGCAACTTAGGCAACTATGGTAACTAATCTTTAAAAATAAAGGG
60334135 AATCATATCATGTAAAGATTAGATAGGATTTGATATGGCAATATCTTGTAAAATCCCTTAAATCA
131 AATCATATCATGTAAAGATTAGATAGGATTTGATATGGCAATATCTTGTAAAATCCCTTAAATCA
60334200 TGGGATTGATTACTCTCGTCCGTCGATGTAATTGTATCTTGACCGTCGGTTTTGGGGGAGCTCAA
196 TGGGATTGATTACTCTCGTCCGTCGATGTAATTGTATCTTGACCGTCGGTTTTGGGGGAGCTCAA
60334265 GTATAAATAGAGAGCCTCCCCCTCATTTGTACTAACTCCG
261 GTATAAATAGAGAGCCTCCCCCTCATTTGTACTAACTCCG
60334305 TTTGGCCCACGAGAGCTGGCCCGATTCAAGGAACTATTGGAGAAGCCTGTCAGATTGAAGCCTGG
1 TTTGGCCCACGAGAGCTGGCCCGATTCAAGGAACTATTGGAGAAGCCTGTCAGATTGAAGCCTGG
60334370 TTGGCCTGATAGCGAAGATATGGCAACTTAGGCAACTATGGTAACTAATCTTTAAAAATAAAGGG
66 TTGGCCTGATAGCGAAGATATGGCAACTTAGGCAACTATGGTAACTAATCTTTAAAAATAAAGGG
60334435 AATCATATCATGTAAAGATTAGATAGGATTTGATATGGCAATATCTTGTAAAATCCCTTAAATCA
131 AATCATATCATGTAAAGATTAGATAGGATTTGATATGGCAATATCTTGTAAAATCCCTTAAATCA
60334500 TGGGATTGATTACTCTCGTCCGTCGATGTAATTGTATCTTGACCGTCGGTTTTGGGGGAGCTCAA
196 TGGGATTGATTACTCTCGTCCGTCGATGTAATTGTATCTTGACCGTCGGTTTTGGGGGAGCTCAA
60334565 GTATAAATAGAGAGCCTCCCCCTCATTTGTACTAACTCCG
261 GTATAAATAGAGAGCCTCCCCCTCATTTGTACTAACTCCG
60334605 TT
1 TT
60334607 CATTGTTTCA
Statistics
Matches: 302, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 302 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (300 bp):
TTTGGCCCACGAGAGCTGGCCCGATTCAAGGAACTATTGGAGAAGCCTGTCAGATTGAAGCCTGG
TTGGCCTGATAGCGAAGATATGGCAACTTAGGCAACTATGGTAACTAATCTTTAAAAATAAAGGG
AATCATATCATGTAAAGATTAGATAGGATTTGATATGGCAATATCTTGTAAAATCCCTTAAATCA
TGGGATTGATTACTCTCGTCCGTCGATGTAATTGTATCTTGACCGTCGGTTTTGGGGGAGCTCAA
GTATAAATAGAGAGCCTCCCCCTCATTTGTACTAACTCCG
Found at i:60336314 original size:96 final size:96
Alignment explanation
Indices: 60336148--60336341 Score: 325
Period size: 96 Copynumber: 2.0 Consensus size: 96
60336138 GTGTCCGAGG
* * * *
60336148 AAGTCTGTTATCGATGGGAATGATCGAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAATGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
60336213 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
*
60336244 AAGTCTGTCATCGAAGGGAATGATGGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
1 AAGTCTGTCATCGAAGGGAATGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
* *
60336309 TAAAGCCGAAGCCAAGAGGGCTAAGAGGAGC
66 AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
60336340 AA
1 AA
60336342 AAAGAAGCGA
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.35, C:0.18, G:0.35, T:0.13
Consensus pattern (96 bp):
AAGTCTGTCATCGAAGGGAATGATCGAGCAGACAAGGAGCCCAAGAAGCTTGGTTCGAGCAAGGG
AAAAGCCGAAGCCAAGAGGGCAAAGAGGAGC
Found at i:60341422 original size:9 final size:9
Alignment explanation
Indices: 60341404--60341688 Score: 168
Period size: 9 Copynumber: 32.6 Consensus size: 9
60341394 TATTTATGTA
60341404 TTATGTAAG
1 TTATGTAAG
*
60341413 TTAAGTAAG
1 TTATGTAAG
*
60341422 TTTTGTAAG
1 TTATGTAAG
*
60341431 TTTTGTAAG
1 TTATGTAAG
*
60341440 TTATGATATG
1 TTATG-TAAG
* * *
60341450 ATAT-AAAT
1 TTATGTAAG
60341458 TTATGTAAG
1 TTATGTAAG
*
60341467 GTATGTAAG
1 TTATGTAAG
60341476 TTATGTAAG
1 TTATGTAAG
60341485 TTATGTAAG
1 TTATGTAAG
*
60341494 TTATGATATG
1 TTATG-TAAG
* * *
60341504 ATATAT-AT
1 TTATGTAAG
60341512 TTATGT-A-
1 TTATGTAAG
60341519 TTATGTAAG
1 TTATGTAAG
60341528 TTATGTAAG
1 TTATGTAAG
60341537 TTATGTAAG
1 TTATGTAAG
60341546 TTAT-TACA-
1 TTATGTA-AG
* * *
60341554 TGATATATAT
1 TTATGTA-AG
60341564 TTATGT-A-
1 TTATGTAAG
60341571 TTATGTAAG
1 TTATGTAAG
*
60341580 TTATGATAAA
1 TTATG-TAAG
* * *
60341590 ATATAT-AT
1 TTATGTAAG
60341598 TTATGT-A-
1 TTATGTAAG
60341605 TTATGTAAG
1 TTATGTAAG
*
60341614 TTTTGTAAG
1 TTATGTAAG
*
60341623 TTATGTAAT
1 TTATGTAAG
60341632 TTATG-ATA-
1 TTATGTA-AG
* * *
60341640 TCATATATAT
1 TTATGTA-AG
60341650 TTATGT-A-
1 TTATGTAAG
60341657 TTATGTAAG
1 TTATGTAAG
*
60341666 TTTTGTAAG
1 TTATGTAAG
*
60341675 TTGTGTAAG
1 TTATGTAAG
60341684 TTATG
1 TTATG
60341689 ATATCATGTA
Statistics
Matches: 217, Mismatches: 41, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
7 24 0.11
8 30 0.14
9 137 0.63
10 26 0.12
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:60341466 original size:54 final size:54
Alignment explanation
Indices: 60341404--60341584 Score: 271
Period size: 52 Copynumber: 3.4 Consensus size: 54
60341394 TATTTATGTA
* * * *
60341404 TTATGTAAGTTAAGTAAGTTTTGTAAGTTTTGTAAGTTATGATATGATATAAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
60341458 TTATGTAAGGTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
* *
60341512 TTATGT-A-TTATGTAAGTTATGTAAGTTATGTAAGTTATTACATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
60341564 TTATGT-A-TTATGTAAGTTATG
1 TTATGTAAGTTATGTAAGTTATG
60341585 ATAAAATATA
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
52 63 0.53
53 1 0.01
54 55 0.46
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (54 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:60341577 original size:34 final size:34
Alignment explanation
Indices: 60341528--60341615 Score: 122
Period size: 34 Copynumber: 2.5 Consensus size: 34
60341518 ATTATGTAAG
* **
60341528 TTATGTAAGTTATGTAAGTTATTACATGATATATAT
1 TTATGT-A-TTATGTAAGTTATGACAAAATATATAT
*
60341564 TTATGTATTATGTAAGTTATGATAAAATATATAT
1 TTATGTATTATGTAAGTTATGACAAAATATATAT
60341598 TTATGTATTATGTAAGTT
1 TTATGTATTATGTAAGTT
60341616 TTGTAAGTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 41 0.85
35 1 0.02
36 6 0.12
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (34 bp):
TTATGTATTATGTAAGTTATGACAAAATATATAT
Found at i:60341594 original size:86 final size:86
Alignment explanation
Indices: 60341476--60341667 Score: 303
Period size: 86 Copynumber: 2.2 Consensus size: 86
60341466 GGTATGTAAG
**
60341476 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTAT
1 TTATGT-A-TTATGTAAGTTATGATAAAATATATATTTATGTATTATGTAAGTTATGTAAGTTAT
* *
60341541 GTAAGTTATTACATGATATATAT
64 GTAAGTTATGACATCATATATAT
*
60341564 TTATGTATTATGTAAGTTATGATAAAATATATATTTATGTATTATGTAAGTTTTGTAAGTTATGT
1 TTATGTATTATGTAAGTTATGATAAAATATATATTTATGTATTATGTAAGTTATGTAAGTTATGT
* *
60341629 AATTTATGATATCATATATAT
66 AAGTTATGACATCATATATAT
60341650 TTATGTATTATGTAAGTT
1 TTATGTATTATGTAAGTT
60341668 TTGTAAGTTG
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
86 90 0.93
87 1 0.01
88 6 0.06
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.49
Consensus pattern (86 bp):
TTATGTATTATGTAAGTTATGATAAAATATATATTTATGTATTATGTAAGTTATGTAAGTTATGT
AAGTTATGACATCATATATAT
Found at i:60341692 original size:52 final size:52
Alignment explanation
Indices: 60341571--60341695 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
60341561 TATTTATGTA
**
60341571 TTATGTAAGTTATGATAAAATATATATTTATGTATTATGTAAGTTTTGTAAG
1 TTATGTAAGTTATGATATCATATATATTTATGTATTATGTAAGTTTTGTAAG
*
60341623 TTATGTAATTTATGATATCATATATATTTATGTATTATGTAAGTTTTGTAAG
1 TTATGTAAGTTATGATATCATATATATTTATGTATTATGTAAGTTTTGTAAG
*
60341675 TTGTGTAAGTTATGATATCAT
1 TTATGTAAGTTATGATATCAT
60341696 GTATTTAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.50
Consensus pattern (52 bp):
TTATGTAAGTTATGATATCATATATATTTATGTATTATGTAAGTTTTGTAAG
Found at i:60343310 original size:42 final size:42
Alignment explanation
Indices: 60343251--60343333 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
60343241 CTCAGCTTGC
*
60343251 TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGTATA
1 TTAATTGGAGACTGAAACTAAACTTAGTAACTAAATAGTATA
60343293 TTAATTGGAGACTGAAACTAAACTTAGTAACTAAATAGTAT
1 TTAATTGGAGACTGAAACTAAACTTAGTAACTAAATAGTAT
60343334 GTTTTGAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (42 bp):
TTAATTGGAGACTGAAACTAAACTTAGTAACTAAATAGTATA
Found at i:60344361 original size:19 final size:19
Alignment explanation
Indices: 60344337--60344381 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
60344327 GGCAGCAACG
* *
60344337 GAGAGAAGAGGCTGTGACA
1 GAGAGAAGAGGATGCGACA
60344356 GAGAGAAGAGGATGCGACA
1 GAGAGAAGAGGATGCGACA
60344375 GAGAGAA
1 GAGAGAA
60344382 AAGGGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.42, T:0.07
Consensus pattern (19 bp):
GAGAGAAGAGGATGCGACA
Found at i:60344831 original size:24 final size:24
Alignment explanation
Indices: 60344804--60344855 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60344794 TTAGTAAGTC
*
60344804 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
60344828 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
60344852 AAAT
1 AAAT
60344856 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:60346799 original size:24 final size:24
Alignment explanation
Indices: 60346772--60346823 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60346762 TTAGTAAGTC
*
60346772 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
60346796 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
60346820 AAAT
1 AAAT
60346824 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:60347380 original size:115 final size:115
Alignment explanation
Indices: 60347164--60347596 Score: 403
Period size: 115 Copynumber: 3.8 Consensus size: 115
60347154 CGGTGTTTTA
* * * * ** * * * * *
60347164 AAAAAAGCCACTAAAAGT-AGATAAAAACGACAATGTTTTGAACAGTCGTAAAACATTTTTGTGG
1 AAAAACGCCACTAATAGTCAGACAAAAATGACAGCGTTTTGCACACTCTTAAAACATATTTGCGG
** * * * *
60347228 GGTTTTAAGAGAAAACGCTACTAAAGGATATCCTTTTGCGGCGTTTTAG-T
66 CATTTTTA-AGAAAACGCCACTAAAGGCTATCTTTTTGCGGCGTTTTAGTT
* * * *
60347278 AAAAACACCACTAATAGGCAGACAAAAATGACAGCGTTTTGCACACTCTTAAAATATTTTTCGCG
1 AAAAACGCCACTAATAGTCAGACAAAAATGACAGCGTTTTGCACACTCTTAAAACATATTT-GCG
*
60347343 GCATTTTATAAGAAAACGCCACTAAAGGCT-TCTTTTTGCGGCG-TTTGGTT
65 GCATTTT-TAAGAAAACGCCACTAAAGGCTATCTTTTTGCGGCGTTTTAGTT
* * * * * * * *
60347393 AAAAACGCCACTAATAGTCAGACAAAAACGACACCGATTTCCATACGCTTAAAACATATTTGTGA
1 AAAAACGCCACTAATAGTCAGACAAAAATGACAGCGTTTTGCACACTCTTAAAACATATTTGCGG
* * * * *
60347458 CTTTTTTTTTTA-AAAACGCCAC-AAAAGCTATCTGTTTGCGGCGTTTTTGTT
66 C---ATTTTTAAGAAAACGCCACTAAAGGCTATCTTTTTGCGGCGTTTTAGTT
* *
60347509 AAAAACGCCACTAATAGTTAGA-AAAAATGACAGCGTTTTGCACACTTTTAAAACATATTTGCGG
1 AAAAACGCCACTAATAGTCAGACAAAAATGACAGCGTTTTGCACACTCTTAAAACATATTTGCGG
** *
60347573 CATTTTTGTGAAAATGCCACTAAA
66 CATTTTTAAGAAAACGCCACTAAA
60347597 AACAAAGCTT
Statistics
Matches: 257, Mismatches: 51, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
112 5 0.02
113 9 0.04
114 30 0.12
115 154 0.60
116 54 0.21
117 5 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (115 bp):
AAAAACGCCACTAATAGTCAGACAAAAATGACAGCGTTTTGCACACTCTTAAAACATATTTGCGG
CATTTTTAAGAAAACGCCACTAAAGGCTATCTTTTTGCGGCGTTTTAGTT
Found at i:60347940 original size:7 final size:7
Alignment explanation
Indices: 60347925--60348010 Score: 73
Period size: 7 Copynumber: 12.0 Consensus size: 7
60347915 TTTTTAAGAT
*
60347925 TTTAAGG
1 TTTAGGG
*
60347932 TTTATGG
1 TTTAGGG
*
60347939 TTTAAGAG
1 TTT-AGGG
*
60347947 TTTAGGA
1 TTTAGGG
60347954 TTTAGGG
1 TTTAGGG
**
60347961 TTTAAAG
1 TTTAGGG
60347968 TTTAGGG
1 TTTAGGG
60347975 TTTAGGG
1 TTTAGGG
60347982 TTTAGGG
1 TTTAGGG
* **
60347989 TCTATAG
1 TTTAGGG
60347996 TTTATGGG
1 TTTA-GGG
60348004 TTTAGGG
1 TTTAGGG
60348011 GTTAAAAGTT
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
7 51 0.84
8 10 0.16
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:60347971 original size:21 final size:22
Alignment explanation
Indices: 60347917--60347985 Score: 88
Period size: 21 Copynumber: 3.2 Consensus size: 22
60347907 GAAATTTATT
* *
60347917 TTTAAGATTTTAAGG-TTTATGG
1 TTTAAGAGTTT-AGGATTTAGGG
60347939 TTTAAGAGTTTAGGATTTAGGG
1 TTTAAGAGTTTAGGATTTAGGG
*
60347961 TTTAA-AGTTTAGGGTTTAGGG
1 TTTAAGAGTTTAGGATTTAGGG
60347982 TTTA
1 TTTA
60347986 GGGTCTATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 22 0.51
22 21 0.49
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (22 bp):
TTTAAGAGTTTAGGATTTAGGG
Done.