Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 245 of 279
Found at i:79666912 original size:21 final size:21
Alignment explanation
Indices: 79666886--79666935 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
79666876 TGTATTAAAA
79666886 TTTGGTTAAGAAATCTTACCG
1 TTTGGTTAAGAAATCTTACCG
*
79666907 TTTGGTTAAGAAATCTTATCG
1 TTTGGTTAAGAAATCTTACCG
79666928 TTTGGTTA
1 TTTGGTTA
79666936 GTTAATTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (21 bp):
TTTGGTTAAGAAATCTTACCG
Found at i:79668030 original size:43 final size:43
Alignment explanation
Indices: 79667978--79668064 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
79667968 AGTGCCCTTG
79667978 AATACATAAAAAAGTAATGAAATTATGTTTACTTCCTAGTTGA
1 AATACATAAAAAAGTAATGAAATTATGTTTACTTCCTAGTTGA
*
79668021 AATACATAAAAAAGTAATGAAATTATGTTTACTTCCTGGTTGA
1 AATACATAAAAAAGTAATGAAATTATGTTTACTTCCTAGTTGA
79668064 A
1 A
79668065 CATAGTAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (43 bp):
AATACATAAAAAAGTAATGAAATTATGTTTACTTCCTAGTTGA
Found at i:79668186 original size:20 final size:20
Alignment explanation
Indices: 79668163--79668218 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
79668153 TTGCTCTTCA
*
79668163 GTGCCTCTGTTTGCATTTTG
1 GTGCCTCTGTTTGCATTTCG
*
79668183 GTGCCTCTGTTTGCAGTTCG
1 GTGCCTCTGTTTGCATTTCG
* *
79668203 GTGCCTTTGATTGCAT
1 GTGCCTCTGTTTGCAT
79668219 ATTCATGCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.07, C:0.21, G:0.27, T:0.45
Consensus pattern (20 bp):
GTGCCTCTGTTTGCATTTCG
Found at i:79670169 original size:113 final size:113
Alignment explanation
Indices: 79670039--79670272 Score: 387
Period size: 113 Copynumber: 2.1 Consensus size: 113
79670029 ACTAAAAATG
* * *
79670039 GGCTTAGGCCTAGACTGTGATTATCTGTATGCTATTTGTTTGTTTGCATGGGGATTACATACTGA
1 GGCTTAGGCCCAGACTGTGATTATCTGTATGCTATTTGTTTGTTTGCATGGCGATTACACACTGA
* * * *
79670104 GTTTATGTAAACTCACCCTTTCTGTTTTATCTGTACAGGTAATCCGTA
66 GTTTACGTAAACTCACCCCTTCTGTTTTATCTATACAGGTAATCCCTA
*
79670152 GGCTTAGGCCCAGACTGTGATTATCTGTATGTTATTTGTTTGTTTGCATGGCGATTACACACTGA
1 GGCTTAGGCCCAGACTGTGATTATCTGTATGCTATTTGTTTGTTTGCATGGCGATTACACACTGA
*
79670217 GTTTGCGTAAACTCACCCCTTCTGTTTTATCTATACAGGTAATCCCTA
66 GTTTACGTAAACTCACCCCTTCTGTTTTATCTATACAGGTAATCCCTA
79670265 GGCTTAGG
1 GGCTTAGG
79670273 TGGATCGGAG
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 112 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (113 bp):
GGCTTAGGCCCAGACTGTGATTATCTGTATGCTATTTGTTTGTTTGCATGGCGATTACACACTGA
GTTTACGTAAACTCACCCCTTCTGTTTTATCTATACAGGTAATCCCTA
Found at i:79688888 original size:26 final size:26
Alignment explanation
Indices: 79688859--79688911 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
79688849 CGCAGCAATG
79688859 TCGCAGCAAAGCTGCCAGTAACAGTA
1 TCGCAGCAAAGCTGCCAGTAACAGTA
* *
79688885 TCGCAGCAAAGCTGGCAGTATCAGTA
1 TCGCAGCAAAGCTGCCAGTAACAGTA
79688911 T
1 T
79688912 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (26 bp):
TCGCAGCAAAGCTGCCAGTAACAGTA
Found at i:79692887 original size:28 final size:27
Alignment explanation
Indices: 79692830--79692981 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
79692820 TAAATTGTGC
*
79692830 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
79692857 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
79692885 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
79692912 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
79692940 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
79692967 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79692982 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:79692895 original size:55 final size:55
Alignment explanation
Indices: 79692830--79692981 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
79692820 TAAATTGTGC
*
79692830 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
79692885 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
79692940 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
79692982 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:79701062 original size:28 final size:27
Alignment explanation
Indices: 79701005--79701156 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
79700995 TAAATTGTGC
* *
79701005 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
79701032 AGCACTAAGTGTGCGATTTTGACTATGT
1 AGCACTAAGTGTGCGA-GTTGACTATGT
79701060 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
79701087 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
79701115 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
79701142 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79701157 GACTTAATAA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 66 0.56
28 51 0.44
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:79701070 original size:55 final size:55
Alignment explanation
Indices: 79701005--79701156 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
79700995 TAAATTGTGC
* * *
79701005 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGATTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
79701060 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
79701115 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
79701157 GACTTAATAA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:79704282 original size:26 final size:27
Alignment explanation
Indices: 79704245--79704316 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
79704235 TATTACAGCT
* *
79704245 AAGCTACCAGTATCAGTATATGTGGTA
1 AAGCCACCAGTATCAGTATATGTGGCA
* *
79704272 AAGCCA-TAGTAACAGTATATGTGGCA
1 AAGCCACCAGTATCAGTATATGTGGCA
79704298 AAGCCACCAGTAT-AGTATA
1 AAGCCACCAGTATCAGTATA
79704317 CTTCCTCCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 29 0.76
27 9 0.24
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
AAGCCACCAGTATCAGTATATGTGGCA
Found at i:79709027 original size:93 final size:93
Alignment explanation
Indices: 79708914--79709084 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
79708904 GCCCATAAGT
* * *
79708914 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
79708979 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
79709007 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
79709072 CGAGTTCGGATGC
66 CGAGCTCGGATGC
79709085 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:79709081 original size:46 final size:46
Alignment explanation
Indices: 79708906--79709081 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
79708896 TGTAACCCGC
* *
79708906 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
79708952 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
79708998 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
79709045 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
79709082 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:79720729 original size:27 final size:27
Alignment explanation
Indices: 79720690--79720758 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
79720680 CAGTATCACA
** *
79720690 GCAAAGCTGCCAGTATCAGCATATGTG
1 GCAAAGCCACCAGTAACAGCATATGTG
79720717 GCAAAGCCACCAGTAACAGCATATGTG
1 GCAAAGCCACCAGTAACAGCATATGTG
** *
79720744 TTAAAGCCACTAGTA
1 GCAAAGCCACCAGTA
79720759 CAATATACTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGCATATGTG
Found at i:79724569 original size:26 final size:26
Alignment explanation
Indices: 79724498--79724576 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
79724488 CACACCAATG
* *
79724498 TCGCAGCAACGCTGCCAGTAATAATA
1 TCGCAGCAACGCTGCCAGTAACAGTA
* * * * * *
79724524 ACACATCAAAGCTACTAGTAACAGTA
1 TCGCAGCAACGCTGCCAGTAACAGTA
*
79724550 TCGCAGCAACGCTGCCAGTATCAGTA
1 TCGCAGCAACGCTGCCAGTAACAGTA
79724576 T
1 T
79724577 ATATGGCAAA
Statistics
Matches: 38, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (26 bp):
TCGCAGCAACGCTGCCAGTAACAGTA
Found at i:79734079 original size:51 final size:52
Alignment explanation
Indices: 79733948--79734079 Score: 182
Period size: 50 Copynumber: 2.6 Consensus size: 52
79733938 GCTATCTGGC
*
79733948 ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATAT
1 ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATCTGATAT
* ** *
79734000 ACG--TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATC-GA-GT
1 ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAA-CCATCTGATAT
79734049 ACGCATAGTAGCCTGCACTTAGTACTACACA
1 ACGCATAGTAGCCTGCACTTAGTACTACACA
79734080 TACGACCTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
49 4 0.06
50 36 0.50
51 29 0.40
52 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (52 bp):
ACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCGAACCATCTGATAT
Found at i:79737299 original size:48 final size:48
Alignment explanation
Indices: 79737223--79737546 Score: 255
Period size: 48 Copynumber: 6.8 Consensus size: 48
79737213 TGATACGTGT
* *
79737223 GCCATTGTAAGACCATGTCTAGG-ACATGGCATCGGCCACGATATGAGA
1 GCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCCACGATATGAGA
* ** * *
79737271 GCCAGTGTAAGACCATGTTTGGAACATGGGATCAACAATG-TAATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGAT-ATGAGA
* *** *
79737319 GCCAGTGTAAGGCCATGTTTGGAACATGGCATCGATAATG-TAATGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGAT-ATGAGA
* * * * * * *
79737367 GCCAGTGTATGACCATGTCTGGGACATTGCATC-GACATTGATATGTGCA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCA-CGATATGAG-A
* * * * *
79737416 -CTAGTGTAAGACCATGTTAGGGACATGGCATCAGCCAC-ATTAAGAGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGA-TATGAGA
* * * * * *
79737463 GCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCCTCGACATGTGA
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGA
* * *
79737511 GCCAATGTAAGACCATATTTGGAACATGGTATCGGC
1 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
79737547 AATTCACCCT
Statistics
Matches: 223, Mismatches: 44, Indels: 18
0.78 0.15 0.06
Matches are distributed among these distances:
47 7 0.03
48 210 0.94
49 6 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCACGATATGAGA
Found at i:79737422 original size:96 final size:97
Alignment explanation
Indices: 79737223--79737539 Score: 285
Period size: 96 Copynumber: 3.3 Consensus size: 97
79737213 TGATACGTGT
* * *
79737223 GCCATTGTAAGACCATGTCTAGG-ACATGGCATCGGCCACGA-T-ATGAGAGCCAGTGTAAGACC
1 GCCAGTGTAAGACCATGT-TAGGAACATGGCATCAGACAC-ATTAATGAGAGCCAGTGTAAGACC
* * * *
79737285 ATGTTTGGAACATGGGATCAACAATGTAATGAGA
64 ATGTCTGGGACATGGCATCGACAATGTAATGAGA
* * * *
79737319 GCCAGTGTAAGGCCATGTTTGGAACATGGCATC-GATA-ATGTAATGAGAGCCAGTGTATGACCA
1 GCCAGTGTAAGACCATGTTAGGAACATGGCATCAGACACAT-TAATGAGAGCCAGTGTAAGACCA
* * *
79737382 TGTCTGGGACATTGCATCGACATTG-ATATGTGCA
65 TGTCTGGGACATGGCATCGACAATGTA-ATGAG-A
* * * *
79737416 -CTAGTGTAAGACCATGTTAGGGACATGGCATCAGCCACATTAA-GAGAGCCAGTGTAAAACCAT
1 GCCAGTGTAAGACCATGTTAGGAACATGGCATCAGACACATTAATGAGAGCCAGTGTAAGACCAT
* * *
79737479 GTCTGGGACATGGCATCGGC-CTCG-ACATGTGA
66 GTCTGGGACATGGCATCGACAAT-GTA-ATGAGA
* * *
79737511 GCCAATGTAAGACCATATTTGGAACATGG
1 GCCAGTGTAAGACCATGTTAGGAACATGG
79737540 TATCGGCAAT
Statistics
Matches: 181, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
93 1 0.01
95 9 0.05
96 163 0.90
97 6 0.03
98 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (97 bp):
GCCAGTGTAAGACCATGTTAGGAACATGGCATCAGACACATTAATGAGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGACAATGTAATGAGA
Found at i:79759753 original size:23 final size:24
Alignment explanation
Indices: 79759715--79759759 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
79759705 TTTGCTCTTC
*
79759715 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
79759739 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
79759760 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:79760023 original size:55 final size:53
Alignment explanation
Indices: 79759833--79760087 Score: 254
Period size: 55 Copynumber: 4.8 Consensus size: 53
79759823 ACACGGGTAC
* * * *
79759833 CTTACCATTGCCATGACTTGTCATGGTCTTACATGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* *
79759882 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
79759935 CTCACCAATGCCATGCCTTGCCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AA
* * * * *
79759990 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA
*
79760043 CTTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 C-TTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
79760088 AAACCCTAAT
Statistics
Matches: 173, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
49 36 0.21
52 2 0.01
53 48 0.28
54 13 0.08
55 72 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:79760024 original size:108 final size:110
Alignment explanation
Indices: 79759880--79760080 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
79759870 ATCCTTTTGA
* *
79759880 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AAC-TCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACTTCACCAA
79759943 -TGCCATGCCTTGCCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGCCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
79759988 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACTTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACTTCACCAAT
*
79760053 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGCCATGGTCTTACATGG
79760081 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 50 0.60
109 6 0.07
110 27 0.32
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACTTCACCAAT
TGCCATGCCTTGCCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:79762134 original size:48 final size:48
Alignment explanation
Indices: 79762013--79762396 Score: 388
Period size: 48 Copynumber: 8.0 Consensus size: 48
79762003 GGCATTTGAG
* * * * *
79762013 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGC-TCGGCCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAA
* * *
79762060 CGATATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACAA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAA
*
79762108 TG-TAATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAA
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAA
*
79762156 TG-TAATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAA
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAA
* * ** ** *
79762204 TG-TAATGAGAGCCAATGTAAGACCATGTCTGGGACATGGTGTCGGTAT
1 TGAT-ATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAA
* * * * *
79762252 TGATATGTA-TGCTAGTGTAAGACCATGTCTGGGACATGGCAT-TAGCAT
1 TGATATG-AGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGA-CAA
* * * * * *
79762300 TGAGATGAGAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGGC-C
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAA
*
79762347 TCGATATGTA-AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAA
1 T-GATATG-AGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAA
79762396 T
1 T
79762397 TCACCTTCTT
Statistics
Matches: 288, Mismatches: 39, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
47 37 0.13
48 247 0.86
49 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACAA
Found at i:79762186 original size:96 final size:96
Alignment explanation
Indices: 79762023--79762396 Score: 465
Period size: 96 Copynumber: 3.9 Consensus size: 96
79762013 TGATATGTGT
* * *
79762023 GCCAGTGTAAGACCATGTCTGGGACATGGC-TCGGCCACGATATG-AGAGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGTA-AGCCAGTGTAAGACCAT
79762086 GTTTGGAACATGGCATCGACAATGTAATGAGA
65 GTTTGGAACATGGCATCGACAATGTAATGAGA
* * *
79762118 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATG-TAATG-AGAGCCAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGAT-ATGTA-AGCCAGTGTAAGACCA
79762181 TGTTTGGAACATGGCATCGACAATGTAATGAGA
64 TGTTTGGAACATGGCATCGACAATGTAATGAGA
* ** * * * *
79762214 GCCAATGTAAGACCATGTCTGGGACATGGTGTCGGTATTGATATGTATGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGTAAGCCAGTGTAAGACCATG
* * * *
79762279 TCTGGGACATGGCAT-TAGCATTG-AGATGAGA
66 TTTGGAACATGGCATCGA-CAATGTA-ATGAGA
* * *
79762310 GCTAGTGTAAGACCATGCCTGGGACATGGCATCGGC-CTCGATATGTAAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT-GATATGTAAGCCAGTGTAAGACCAT
79762374 GTTTGGAACATGGCATCGACAAT
65 GTTTGGAACATGGCATCGACAAT
79762397 TCACCTTCTT
Statistics
Matches: 238, Mismatches: 33, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
95 32 0.13
96 203 0.85
97 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATGTAAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCGACAATGTAATGAGA
Found at i:79762361 original size:144 final size:144
Alignment explanation
Indices: 79762023--79762396 Score: 431
Period size: 144 Copynumber: 2.6 Consensus size: 144
79762013 TGATATGTGT
* *
79762023 GCCAGTGTAAGACCATGTCTGGGACATGGC-TCGGCCACGATATGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAGTGTAAGACCATG
* *
79762087 TTTGGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
66 TTTGGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATAG
79762152 ACAATGTAATGAGA
131 ACAATGTAATGAGA
* * * * *
79762166 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAAT-G-TAATGAGAGCCAATGTAAGACCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-ATGAGAGCCAGTGTAAGACCA
* * ** ** * * * *
79762229 TGTCTGGGACATGGTGTCGGTATTG-ATATGTA-TGCTAGTGTAAGACCATGTCTGGGACATGGC
64 TGTTTGGAACATGGCATCGACAATGTA-ATG-AGAGCCAGTGTAAGACCATGTCTGGAACATGGC
*
79762292 ATTAG-CATTG-AGATGAGA
127 A-TAGACAATGTA-ATGAGA
* *
79762310 GCTAGTGTAAGACCATGCCTGGGACATGGCATCGGCCTCGATATGTA-AGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATG-AGAGCCAGTGTAAGACCAT
79762374 GTTTGGAACATGGCATCGACAAT
65 GTTTGGAACATGGCATCGACAAT
79762397 TCACCTTCTT
Statistics
Matches: 187, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
143 32 0.17
144 150 0.80
145 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (144 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCGACAATGTAATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATAG
ACAATGTAATGAGA
Found at i:79768097 original size:40 final size:39
Alignment explanation
Indices: 79768016--79768106 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 39
79768006 TGTCAGTGTA
***
79768016 TATTTTTTTAAAAAATTGTTTTCAAAAATCATTGGTATG
1 TATTTTTTTAAAAAATTGTTTTCAAAAATCATCAATATG
* * * *
79768055 TATTTTTTTCAAAAATCTGTTTTCAAAATTTATCAATTTG
1 TATTTTTTTAAAAAAT-TGTTTTCAAAAATCATCAATATG
79768095 TATTTTTTTAAA
1 TATTTTTTTAAA
79768107 TGTTTTCCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 15 0.35
40 28 0.65
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.53
Consensus pattern (39 bp):
TATTTTTTTAAAAAATTGTTTTCAAAAATCATCAATATG
Found at i:79770597 original size:73 final size:73
Alignment explanation
Indices: 79770483--79770619 Score: 220
Period size: 73 Copynumber: 1.9 Consensus size: 73
79770473 TCACACACGG
* * *
79770483 GCGTGTCCCTGTCGAGCCCAAGTTTACTCCAATTCGAAAAAGGCCAATTTTGAGGGTTCTTAGGG
1 GCGTGTCCCTGTCGAGCACAAATTGACTCCAATTCGAAAAAGGCCAATTTTGAGGGTTCTTAGGG
79770548 TCACACTA
66 TCACACTA
* * *
79770556 GCGTGTCCCTGTCGAGCACAAATTGAGTCCAATTTGGAAAAGGCCAATTTTGAGGGTTCTTAGG
1 GCGTGTCCCTGTCGAGCACAAATTGACTCCAATTCGAAAAAGGCCAATTTTGAGGGTTCTTAGG
79770620 CATTCTAAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 58 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (73 bp):
GCGTGTCCCTGTCGAGCACAAATTGACTCCAATTCGAAAAAGGCCAATTTTGAGGGTTCTTAGGG
TCACACTA
Found at i:79773756 original size:49 final size:49
Alignment explanation
Indices: 79773696--79773790 Score: 163
Period size: 49 Copynumber: 1.9 Consensus size: 49
79773686 TATAATTCGA
*
79773696 CCAACAAATAATATGGACCAAAATTGATTTACATATAAAAAAATAAAAT
1 CCAACAAATAATATGGACCAAAATTGATTTACAGATAAAAAAATAAAAT
* *
79773745 CCAACAAATAATATGGACCAACATTGATTTACAGATACAAAAATAA
1 CCAACAAATAATATGGACCAAAATTGATTTACAGATAAAAAAATAA
79773791 TACGAACATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (49 bp):
CCAACAAATAATATGGACCAAAATTGATTTACAGATAAAAAAATAAAAT
Found at i:79780135 original size:15 final size:16
Alignment explanation
Indices: 79780117--79780151 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
79780107 TGTTTTAATT
*
79780117 TTTTTTATTT-TTTTA
1 TTTTTTATTTGGTTTA
79780132 TTTTTTATTTGGTTTA
1 TTTTTTATTTGGTTTA
79780148 TTTT
1 TTTT
79780152 AGGTTGGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTTTATTTGGTTTA
Found at i:79780381 original size:16 final size:16
Alignment explanation
Indices: 79780356--79780386 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79780346 ATTTATTGGA
79780356 TTTGGGTTTTGGGTAT
1 TTTGGGTTTTGGGTAT
*
79780372 TTTGGTTTTTGGGTA
1 TTTGGGTTTTGGGTA
79780387 GGAATTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.00, G:0.35, T:0.58
Consensus pattern (16 bp):
TTTGGGTTTTGGGTAT
Found at i:79794386 original size:27 final size:27
Alignment explanation
Indices: 79794213--79794582 Score: 196
Period size: 27 Copynumber: 13.7 Consensus size: 27
79794203 CCTCAAATTG
*
79794213 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ****
79794240 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *****
79794267 CAAAATTACTTTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *** **
79794294 TAGAATTACTATTTTACCCTTAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *****
79794321 CAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* **
79794348 CAAAATTACCAAAATACCCTCGATCAA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
79794375 TAAAATTACCAAAATACCCTAG-TCTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * * *
79794401 TAAAATTGCTAAAATACCC-CTGGTTTG
1 TAAAATTACCAAAATACCCTC-GATTTA
* * * *
79794428 TAAAATTACCGAAATACCTTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* *
79794455 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* *
79794482 TAAAATTACCAAAATATCAC-C-AGTTTG
1 TAAAATTACCAAAATA-CCCTCGA-TTTA
* * * *
79794509 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
79794536 TAAAATTACCAAAATACCC-CTGATTTA
1 TAAAATTACCAAAATACCCTC-GATTTA
* *
79794563 CAAAGTTA-CAGAAATACCCT
1 TAAAATTACCA-AAATACCCT
79794583 TGACTTTCTA
Statistics
Matches: 280, Mismatches: 53, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
26 28 0.10
27 247 0.88
28 5 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:79794393 original size:54 final size:54
Alignment explanation
Indices: 79794335--79794665 Score: 208
Period size: 54 Copynumber: 6.1 Consensus size: 54
79794325 ATTACTGTTT
* ***
79794335 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAA
* * * * * *
79794389 TACCCTAG-TCTATAAAATTGCTAAAATACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAA
* * * *
79794442 TACCTTCAATTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAAAA
* * * * *
79794496 TATCAC-C-AGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TA-CCCTCGA-TTTATAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAA
* * * * ***
79794550 TACCC-CTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCTAAAAATTATGGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAATACCCTCGA-TTTGT-AAAATTACCAAAA
* * * * ** * * * *
79794606 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAA
*
79794660 CACCCT
1 TACCCT
79794666 TGTAGGATGA
Statistics
Matches: 212, Mismatches: 52, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
52 1 0.00
53 44 0.21
54 118 0.56
55 12 0.06
56 37 0.17
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAA
Found at i:79794517 original size:81 final size:81
Alignment explanation
Indices: 79794349--79794556 Score: 276
Period size: 81 Copynumber: 2.6 Consensus size: 81
79794339 CTCGATTTAC
* * *** * *
79794349 AAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATA-CCCTAGTCTATAAAATTGCTAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTATAAAATTACCAA
* *
79794413 AATACCCCTGGTTTGT
66 AATACACCTAGTTTGT
* * *
79794429 AAAATTACCGAAATACCTTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTATAAAATTACCAA
79794494 AATATCACC-AGTTTGT
66 AATA-CACCTAGTTTGT
*
79794510 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
79794557 GATTTACAAA
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 36 0.32
81 73 0.65
82 3 0.03
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (81 bp):
AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTATAAAATTACCAA
AATACACCTAGTTTGT
Found at i:79794632 original size:27 final size:27
Alignment explanation
Indices: 79794593--79794644 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
79794583 TGACTTTCTA
79794593 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
79794620 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
79794645 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:79794721 original size:27 final size:27
Alignment explanation
Indices: 79794689--79794757 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
79794679 GACTAAAATA
79794689 CCCCTATTA-GGTAAAAAGACCGTAAAG
1 CCCCTA-TAGGGTAAAAAGACCGTAAAG
*
79794716 CCCCTATAGGGTAAAGAGACCGTAAAG
1 CCCCTATAGGGTAAAAAGACCGTAAAG
*
79794743 CCCCTGTAGGGTAAA
1 CCCCTATAGGGTAAA
79794758 GTGATCGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:79794758 original size:27 final size:27
Alignment explanation
Indices: 79794698--79794784 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
79794688 ACCCCTATTA
* *
79794698 GGTAAAAAGACCGTAAAGCCCCTATAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
79794725 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
* * *
79794752 GGTAAAGTGATCGTAATA-CCCCTGTAT
1 GGTAAAGAGACCGTAA-AGCCCCTGTAG
79794779 GGTAAA
1 GGTAAA
79794785 TTGACGAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAGAGACCGTAAAGCCCCTGTAG
Found at i:79795687 original size:25 final size:26
Alignment explanation
Indices: 79795590--79795687 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
79795580 GAGGAAGTGC
79795590 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
79795616 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
79795642 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
79795668 AAAATGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
79795688 ATTAAAGAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:79795891 original size:42 final size:42
Alignment explanation
Indices: 79795832--79795923 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
79795822 TAGTCTCCCC
* *** * *
79795832 AAATGGGCTTGCATACATTCATTGGTTTTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
79795874 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
79795916 AAATGGGC
1 AAATGGGC
79795924 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
Found at i:79796024 original size:31 final size:31
Alignment explanation
Indices: 79795947--79796025 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
79795937 CGTTTATAGT
*
79795947 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
79795978 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
79796009 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
79796026 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:79798321 original size:24 final size:24
Alignment explanation
Indices: 79798284--79798330 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
79798274 TAGCTTAACC
*
79798284 TAAATTAATAAAATAAAATAAATAA
1 TAAATTAACAAAATAAAA-AAATAA
79798309 TAAA-TAACAAAATAAAAAAATA
1 TAAATTAACAAAATAAAAAAATA
79798331 TCTTCCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (24 bp):
TAAATTAACAAAATAAAAAAATAA
Found at i:79800396 original size:42 final size:43
Alignment explanation
Indices: 79800277--79800448 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
79800267 ACATAGGATC
* * * * *
79800277 CGATATGTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCAT
1 CGATATTTGTTTACATGTAAGACCACGTCTGGGACGTTGGCAT
* ** * *
79800320 CGACT-TATGAGCTACATGTAAGACCACGTTTGGGACGTTAGCAT
1 CGA-TATTTG-TTTACATGTAAGACCACGTCTGGGACGTTGGCAT
**
79800364 CG-TATTTGATTT-CATGTAAGACCTTGTCTGGGACAG-TGGCAT
1 CGATATTTG-TTTACATGTAAGACCACGTCTGGGAC-GTTGGCAT
* *
79800406 CGATATTTGTTTACATGTAAGACCAGGTCTGGGATGTTGGCAT
1 CGATATTTGTTTACATGTAAGACCACGTCTGGGACGTTGGCAT
79800449 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
42 31 0.30
43 43 0.42
44 29 0.28
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATTTGTTTACATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:79807304 original size:24 final size:22
Alignment explanation
Indices: 79807260--79807306 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
79807250 AAGCACGACT
79807260 TATGAAAAATTAGTTTAATCAA
1 TATGAAAAATTAGTTTAATCAA
79807282 TATGACAAAATT-GTGTTAGATCAA
1 TATGA-AAAATTAGT-TTA-ATCAA
79807306 T
1 T
79807307 CACATTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (22 bp):
TATGAAAAATTAGTTTAATCAA
Found at i:79810466 original size:27 final size:25
Alignment explanation
Indices: 79810431--79810542 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 25
79810421 AGCATGGCTG
*
79810431 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAG-CA
79810457 CCAGATACAGATAATCGTGGCAGAGCTA
1 CCAGA-ACAGATAAT-GTGGCAGAGC-A
*
79810485 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAG-CA
* *
79810512 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAG-CA
79810539 CCAG
1 CCAG
79810543 GAGGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (25 bp):
CCAGAACAGATAATGTGGCAGAGCA
Found at i:79810523 original size:54 final size:54
Alignment explanation
Indices: 79810431--79810542 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
79810421 AGCATGGCTG
* * *
79810431 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCTA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
79810485 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
79810539 CCAG
1 CCAG
79810543 GAGGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:79817400 original size:78 final size:77
Alignment explanation
Indices: 79817282--79817469 Score: 186
Period size: 78 Copynumber: 2.4 Consensus size: 77
79817272 ACTTGAAACC
** **
79817282 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGGTATAATACCAGC-TCGA-AGCCTGCGGG
1 AATT-CCAGCACATAGCCTGC-GGACCTTAAGTCCGGTATAATACCAGCAT--ATAGCCTGC-GG
*
79817344 A-CTTTAGCCCAGACAT
61 ACCTTAAGCCCAGACAT
* * * *
79817360 ATTTCTAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCATATAGCCTGCGGACCT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGG-TATAATACCAGCATATAGCCTGCGGACCT
* *
79817425 TAAGTCCAGATAT
65 TAAGCCCAGACAT
*
79817438 AATTCCAGCATATAGCCTGCGGACCTTAAGTC
1 AATTCCAGCACATAGCCTGCGGACCTTAAGTC
79817470 TGGATAAACA
Statistics
Matches: 90, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
77 21 0.23
78 68 0.76
79 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (77 bp):
AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGTATAATACCAGCATATAGCCTGCGGACCTT
AAGCCCAGACAT
Found at i:79817415 original size:39 final size:39
Alignment explanation
Indices: 79817372--79817469 Score: 178
Period size: 39 Copynumber: 2.5 Consensus size: 39
79817362 TTCTAGCACG
* *
79817372 TAGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCATA
1 TAGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCATA
79817411 TAGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCATA
1 TAGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCATA
79817450 TAGCCTGCGGACCTTAAGTC
1 TAGCCTGCGGACCTTAAGTC
79817470 TGGATAAACA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCATA
Found at i:79829604 original size:13 final size:13
Alignment explanation
Indices: 79829586--79829611 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79829576 TAGATTTTAT
79829586 CTAAGAAAATTAA
1 CTAAGAAAATTAA
79829599 CTAAGAAAATTAA
1 CTAAGAAAATTAA
79829612 AAGGTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
CTAAGAAAATTAA
Found at i:79831569 original size:51 final size:51
Alignment explanation
Indices: 79831512--79831613 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
79831502 TTATCCGATG
*
79831512 AGTGATGATAAAGCTCACTTTTATGTTTCATAGCTTAAGTGCCAAATTATC
1 AGTGATGATAAAGCTCACTTTTATGTTTCACAGCTTAAGTGCCAAATTATC
79831563 AGTGATGATAAAGCTCACTTTTATGTTTCACAGCTTAAGTGCCAAATTATC
1 AGTGATGATAAAGCTCACTTTTATGTTTCACAGCTTAAGTGCCAAATTATC
79831614 TTAAAATGTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (51 bp):
AGTGATGATAAAGCTCACTTTTATGTTTCACAGCTTAAGTGCCAAATTATC
Found at i:79831951 original size:22 final size:21
Alignment explanation
Indices: 79831926--79831989 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
79831916 ACTAATCATA
79831926 ACATATTATAAACATATCACAT
1 ACATATTA-AAACATATCACAT
* *
79831948 ACATAGTTAACACATTATCAAAT
1 ACATA-TTAAAACA-TATCACAT
79831971 -CATATTCAAAACAT-TCACA
1 ACATATT-AAAACATATCACA
79831990 ATGTCCCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.11
21 3 0.09
22 18 0.51
23 10 0.29
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (21 bp):
ACATATTAAAACATATCACAT
Found at i:79832611 original size:21 final size:24
Alignment explanation
Indices: 79832580--79832635 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
79832570 CCAATAAATT
79832580 TCATACTCAATTTCAT-AACGAA-A
1 TCATAC-CAATTTCATGAACGAATA
*
79832603 -CATACCAATTTCATGAACTAATA
1 TCATACCAATTTCATGAACGAATA
79832626 TCATACCAAT
1 TCATACCAAT
79832636 CTATTTGTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 9 0.31
22 10 0.34
23 1 0.03
24 9 0.31
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (24 bp):
TCATACCAATTTCATGAACGAATA
Found at i:79839584 original size:22 final size:21
Alignment explanation
Indices: 79839559--79839622 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
79839549 ACTAATCATA
79839559 ACATATTATAAACATATCACAT
1 ACATATTA-AAACATATCACAT
* *
79839581 ACATAGTTAACACATTATCAAAT
1 ACATA-TTAAAACA-TATCACAT
79839604 -CATATTCAAAACAT-TCACA
1 ACATATT-AAAACATATCACA
79839623 ATGTCCCTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.11
21 3 0.09
22 18 0.51
23 10 0.29
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (21 bp):
ACATATTAAAACATATCACAT
Found at i:79840890 original size:50 final size:50
Alignment explanation
Indices: 79840806--79841020 Score: 177
Period size: 50 Copynumber: 4.3 Consensus size: 50
79840796 ACCACTCATT
* * *
79840806 TGGCCAAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
1 TGGCCAAATATACAAGATCAAATATAACAACACATATGTACTTACCTATA
* *
79840856 TGGCCAAATATGA-AAGATCAAATTTAACAACACATATGTACTTACTTATA
1 TGGCCAAATAT-ACAAGATCAAATATAACAACACATATGTACTTACCTATA
* * ** * * * * *
79840906 TCGTCGGATATACAA-ATTC-AATATAATATCACATTTGTGCATACCT-TCA
1 TGGCCAAATATACAAGA-TCAAATATAACAACACATATGTACTTACCTAT-A
* * * * * * *
79840955 TGGCCGAATATTCAAGATCCAATACAACATCACATATGTACGTACCTATG
1 TGGCCAAATATACAAGATCAAATATAACAACACATATGTACTTACCTATA
*
79841005 TGGCCGAATATACAAG
1 TGGCCAAATATACAAG
79841021 GTCATTTAGC
Statistics
Matches: 131, Mismatches: 27, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
48 1 0.01
49 36 0.27
50 92 0.70
51 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (50 bp):
TGGCCAAATATACAAGATCAAATATAACAACACATATGTACTTACCTATA
Found at i:79841016 original size:99 final size:100
Alignment explanation
Indices: 79840806--79841020 Score: 247
Period size: 99 Copynumber: 2.2 Consensus size: 100
79840796 ACCACTCATT
* *
79840806 TGGCCAAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCAAATATGAAA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATATGGCCAAATATGAAA
** * *
79840871 GATCAAATTTAACAACACATATGTACTTACTTATA
66 GATCAAATACAACAACACATATGTACGTACCTATA
* * * * * **
79840906 TCGTCGGATATACAA-ATTC-AATATAATATCACATTTGTGCATACCT-TCATGGCCGAATATTC
1 TGGCCGAATATACAAGA-TCAAATATAATATCACATATGTGCATACCTAT-ATGGCCAAATATGA
* * *
79840968 AAGATCCAATACAACATCACATATGTACGTACCTATG
64 AAGATCAAATACAACAACACATATGTACGTACCTATA
79841005 TGGCCGAATATACAAG
1 TGGCCGAATATACAAG
79841021 GTCATTTAGC
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
98 1 0.01
99 79 0.85
100 13 0.14
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (100 bp):
TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATATGGCCAAATATGAAA
GATCAAATACAACAACACATATGTACGTACCTATA
Found at i:79846072 original size:22 final size:22
Alignment explanation
Indices: 79846047--79846155 Score: 83
Period size: 22 Copynumber: 5.0 Consensus size: 22
79846037 CTACGATATT
* * *
79846047 TACGGCCTTTAGTTGTCCTGTC
1 TACGACCTTGAGTCGTCCTGTC
*
79846069 TACGACGTTGAGTCGTCCTGTC
1 TACGACCTTGAGTCGTCCTGTC
* * * *
79846091 TACGACGTTAAGTCATCCTATC
1 TACGACCTTGAGTCGTCCTGTC
*** *
79846113 TACGGTGTTGAGCCGTCCTGTC
1 TACGACCTTGAGTCGTCCTGTC
* * *
79846135 CACGACGTTGAGCCGTCCTGT
1 TACGACCTTGAGTCGTCCTGT
79846156 TTACAACGTT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.15, C:0.28, G:0.25, T:0.32
Consensus pattern (22 bp):
TACGACCTTGAGTCGTCCTGTC
Found at i:79846164 original size:22 final size:22
Alignment explanation
Indices: 79846119--79846178 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
79846109 TATCTACGGT
* *
79846119 GTTGAGCCGTCCTGTCCACGAC
1 GTTGAGCCGTCCTGTTCACAAC
*
79846141 GTTGAGCCGTCCTGTTTACAAC
1 GTTGAGCCGTCCTGTTCACAAC
*
79846163 GTTAAGCCGTCCTGTT
1 GTTGAGCCGTCCTGTT
79846179 AACTTAGTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.15, C:0.30, G:0.25, T:0.30
Consensus pattern (22 bp):
GTTGAGCCGTCCTGTTCACAAC
Found at i:79847981 original size:44 final size:43
Alignment explanation
Indices: 79847909--79848068 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 43
79847899 TGGTATTGAC
**
79847909 CTGAA-TTATCGTGTAAGACTGTGTCTGGGACACAGGCATCGAT
1 CTGAATTTA-CGTGTAAGACCATGTCTGGGACACAGGCATCGAT
*
79847952 TTGAAATTTACGTGTAAGACCATGTCTGGGACATC-GGCATCGTAT
1 CTG-AATTTACGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT
* * * *
79847997 CTG--TTTTCGTATAAGACCCTGTCTGGGACAGAGGCATCGAT
1 CTGAATTTACGTGTAAGACCATGTCTGGGACACAGGCATCGAT
* * *
79848038 ACTGAA-TTACATGTAAGACCACGTTTGGGAC
1 -CTGAATTTACGTGTAAGACCATGTCTGGGAC
79848069 GTCGGTATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.02
42 34 0.36
43 21 0.22
44 30 0.32
45 8 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
CTGAATTTACGTGTAAGACCATGTCTGGGACACAGGCATCGAT
Found at i:79848545 original size:12 final size:13
Alignment explanation
Indices: 79848528--79848559 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
79848518 GCAAATGTTA
79848528 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
79848540 AGTTTTGATGCAT
1 AGTTTTGATGCAT
79848553 -GTTTTGA
1 AGTTTTGA
79848560 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:79855669 original size:13 final size:13
Alignment explanation
Indices: 79855644--79855675 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
79855634 GCAAATGTTA
79855644 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
79855656 AGTTTTGATGCAT
1 AGTTTTGATGCAT
79855669 A-TTTTGA
1 AGTTTTGA
79855676 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:79858716 original size:114 final size:114
Alignment explanation
Indices: 79858492--79858708 Score: 337
Period size: 114 Copynumber: 1.9 Consensus size: 114
79858482 ATTTATAATC
** * * *
79858492 TAAGCAAGGCAAAATTGCATAGTAGCCTGTCTAGCTCAATCGGTAGAGTGTAAGGCTCTTAACCT
1 TAAGCAAGGCAAAATAACATAGTAGCCCGTCTAGCTCAATCGGTAGAGCGCAAGGCTCTTAACCT
*
79858557 TGTGGTTGTGGGTTTGAGCCCCATGGTGGGCGCATTTTTAATTTTCTAA
66 TGTGGTTGTGGGTTTGAGCCCCACGGTGGGCGCATTTTTAATTTTCTAA
* * * *
79858606 TAAGGAAGGCAAAATAACGTAGTAGCCCGTCTAGCTCAGTTGGTAGAGCGCAAGGCTCTTAACCT
1 TAAGCAAGGCAAAATAACATAGTAGCCCGTCTAGCTCAATCGGTAGAGCGCAAGGCTCTTAACCT
79858671 TGTGGTTGTGGGTTTGAGCCCCACGGTGGGCGC-TTTTT
66 TGTGGTTGTGGGTTTGAGCCCCACGGTGGGCGCATTTTT
79858709 CTATTTTCGT
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 5 0.05
114 88 0.95
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (114 bp):
TAAGCAAGGCAAAATAACATAGTAGCCCGTCTAGCTCAATCGGTAGAGCGCAAGGCTCTTAACCT
TGTGGTTGTGGGTTTGAGCCCCACGGTGGGCGCATTTTTAATTTTCTAA
Found at i:79865775 original size:34 final size:36
Alignment explanation
Indices: 79865687--79865824 Score: 163
Period size: 36 Copynumber: 3.8 Consensus size: 36
79865677 TAAAAAATAC
79865687 ATTAGGGTTTAGAATTTTTTAAAAAAAATTAATTAA
1 ATTAGGGTTTAGAATTTTTTAAAAAAAATTAATTAA
* * ** **
79865723 TTTAGGTTTTAG-GGTTTTT-AAGTAAATTAATTAA
1 ATTAGGGTTTAGAATTTTTTAAAAAAAATTAATTAA
*
79865757 ATTAGGGTTTAGAATTTTTTTTAAAAAAAATTAGTTAA
1 ATTAGGGTTTAGAA--TTTTTTAAAAAAAATTAATTAA
* *
79865795 ATTAGGGTTTAGGATTTTTTAAAAATAATT
1 ATTAGGGTTTAGAATTTTTTAAAAAAAATT
79865825 TTGTGTTTAG
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
34 23 0.28
35 5 0.06
36 25 0.30
37 5 0.06
38 25 0.30
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (36 bp):
ATTAGGGTTTAGAATTTTTTAAAAAAAATTAATTAA
Found at i:79866035 original size:125 final size:126
Alignment explanation
Indices: 79865902--79866545 Score: 846
Period size: 126 Copynumber: 5.1 Consensus size: 126
79865892 AGAATGATTT
* * * *
79865902 TTTTTCTATAGTAGTTTCTGAAAAATTAATTTTGAGAAAACGGTTCTGAAAAAATAGTGACAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * *
79865967 ACGTTTCAAGCAAGATGCACTGTCAGCAAAAGTACTG-AAAAAGCTCCTACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
* * * * * *
79866027 TTTTTCTATAGTAATTTTTGAAAAAATAA-TTTGAGAAGACAGTTCTGAAAAATTAATGTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * *
79866091 ACGCTTCAAGCAGTATGCACTGTTAGCAAAAGTATTGAAAAAAGCTCCCACGTGGATGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
*
79866152 TTTTTCTACAGTA-ATTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* * * * * *
79866216 AGCGCTTCAAGTAGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACACTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
* * *
79866278 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* *
79866343 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTATTGAAAAAAGCTCCTACATGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
* * * * *
79866404 TTTTTCTACAGTAGTTCCTG-AAAAATAATTGTGAAAAGACAGTTTTGAAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTG-AAAAAATAGTGTCAAA
* ** * * *
79866468 AACGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTTTGCATGGACACTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
*
79866530 TTTTTCTACAATAGTT
1 TTTTTCTACAGTAGTT
79866546 CGTGCTTGGC
Statistics
Matches: 456, Mismatches: 58, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
124 64 0.14
125 93 0.20
126 296 0.65
127 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTC
Found at i:79868158 original size:46 final size:44
Alignment explanation
Indices: 79868072--79868200 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 44
79868062 AGGGTATAAT
79868072 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CACATCTCG-AG
**
79868118 GCCGATGCATGTCTTAGACATGTCTTACACTAGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCGAG
79868164 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACA
79868201 CAAATAGCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
44 14 0.19
45 14 0.19
46 47 0.63
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCGAG
Found at i:79891408 original size:42 final size:42
Alignment explanation
Indices: 79891332--79891438 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 42
79891322 TATATGAGTT
*
79891332 TTCA-TTTAACCCTAATGGGTTTCAATTCAACTCTTTTGAGC
1 TTCAGTTTAACCCTAATGGGTTTCAATTCAACTCTTATGAGC
* * **
79891373 TTCAGTTTAACCTTTATGGGTTTCTGTT-AAGCTCTTATGAGC
1 TTCAGTTTAACCCTAATGGGTTTCAATTCAA-CTCTTATGAGC
* * * *
79891415 TTCCGTTCAACCCTCACGGGTTTC
1 TTCAGTTTAACCCTAATGGGTTTC
79891439 CGTTTAGCAC
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 6 0.11
42 48 0.89
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (42 bp):
TTCAGTTTAACCCTAATGGGTTTCAATTCAACTCTTATGAGC
Found at i:79898611 original size:46 final size:48
Alignment explanation
Indices: 79898539--79898636 Score: 128
Period size: 46 Copynumber: 2.1 Consensus size: 48
79898529 GACAGGATAG
* * * *
79898539 GACAGAAATGAGCCATGTACGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
* *
79898585 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGAAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
79898633 GACA
1 GACA
79898637 AGATAAATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
46 26 0.59
47 1 0.02
48 17 0.39
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (48 bp):
GACAGAAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:79907180 original size:15 final size:16
Alignment explanation
Indices: 79907155--79907184 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
79907145 TATAAAATCG
79907155 ATGATATGAGGTTTAC
1 ATGATATGAGGTTTAC
79907171 ATGA-ATGAGGTTTA
1 ATGATATGAGGTTTA
79907185 TCAAGGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (16 bp):
ATGATATGAGGTTTAC
Found at i:79910764 original size:23 final size:21
Alignment explanation
Indices: 79910738--79910781 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
79910728 TCAAGTTAGA
*
79910738 TGTTAGAGTTGGCTTGGTTATAT
1 TGTTAGAATTGG-TTGG-TATAT
*
79910761 TGTTTGAATTGGTTGGTATAT
1 TGTTAGAATTGGTTGGTATAT
79910782 GTTTGCAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 10 0.53
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (21 bp):
TGTTAGAATTGGTTGGTATAT
Found at i:79914214 original size:13 final size:13
Alignment explanation
Indices: 79914196--79914222 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79914186 GTTTAATCAG
79914196 TTAATTAGTTTAA
1 TTAATTAGTTTAA
79914209 TTAATTAGTTTAA
1 TTAATTAGTTTAA
79914222 T
1 T
79914223 AAACAACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTAATTAGTTTAA
Found at i:79921314 original size:20 final size:20
Alignment explanation
Indices: 79921291--79921333 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
79921281 TTTATCTGTA
* *
79921291 TCAATAGTAATTCATTCATT
1 TCAACAGTAATTCATCCATT
*
79921311 TCAACATTAATTCATCCATT
1 TCAACAGTAATTCATCCATT
79921331 TCA
1 TCA
79921334 GCATAGCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (20 bp):
TCAACAGTAATTCATCCATT
Found at i:79921558 original size:22 final size:23
Alignment explanation
Indices: 79921530--79921581 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
79921520 GCTGAAATGG
*
79921530 TAAGCTC-TATCGAGCTAAA-CAA
1 TAAGCTCATAT-GAGCGAAATCAA
*
79921552 TAAGCTCATATGAGCGAAATCAG
1 TAAGCTCATATGAGCGAAATCAA
79921575 TAAGCTC
1 TAAGCTC
79921582 CAATAAGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (23 bp):
TAAGCTCATATGAGCGAAATCAA
Found at i:79921580 original size:23 final size:24
Alignment explanation
Indices: 79921494--79921708 Score: 130
Period size: 23 Copynumber: 9.2 Consensus size: 24
79921484 GCTCCTCCTA
* *
79921494 AGCTGATAAACAGTAAGCT-TTATTG
1 AGCTGA-AATCAGTAAGCTCATA-TG
*
79921519 AGCTGAAAT-GGTAAGCTC-TATCG
1 AGCTGAAATCAGTAAGCTCATAT-G
*
79921542 AGCT-AAA-CAATAAGCTCATATG
1 AGCTGAAATCAGTAAGCTCATATG
*
79921564 AGC-GAAATCAGTAAGCTCCA-ATA
1 AGCTGAAATCAGTAAGCT-CATATG
* *
79921587 AGCTAAAAAT-AGTAAGCTCTTATG
1 AGCT-GAAATCAGTAAGCTCATATG
*
79921611 AGCTG-AATCGGTAAGCTCCA-ATG
1 AGCTGAAATCAGTAAGCT-CATATG
* * * *
79921634 AGCTAAAAACAGTAAGCTCTTACG
1 AGCTGAAATCAGTAAGCTCATATG
**
79921658 AGCT-AAATTGGTAAGCTCCA-ATG
1 AGCTGAAATCAGTAAGCT-CATATG
* * *
79921681 AGCTGAAAACAGTAAGCTCTTTTG
1 AGCTGAAATCAGTAAGCTCATATG
79921705 AGCT
1 AGCT
79921709 TATATATCGA
Statistics
Matches: 146, Mismatches: 27, Indels: 35
0.70 0.13 0.17
Matches are distributed among these distances:
22 21 0.14
23 63 0.43
24 52 0.36
25 10 0.07
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (24 bp):
AGCTGAAATCAGTAAGCTCATATG
Found at i:79921625 original size:47 final size:48
Alignment explanation
Indices: 79921501--79921708 Score: 252
Period size: 47 Copynumber: 4.5 Consensus size: 48
79921491 CTAAGCTGAT
*
79921501 AAACAGTAAGCT-TTATTGAGCTGAAAT-GGTAAGCT-CTATCGAGCT--
1 AAACAGTAAGCTCTTA-TGAGCTGAAATCGGTAAGCTCCAAT-GAGCTAA
* * * *
79921546 AAACAATAAGCTCATATGAGC-GAAATCAGTAAGCTCCAATAAGCTAA
1 AAACAGTAAGCTCTTATGAGCTGAAATCGGTAAGCTCCAATGAGCTAA
*
79921593 AAATAGTAAGCTCTTATGAGCTG-AATCGGTAAGCTCCAATGAGCTAA
1 AAACAGTAAGCTCTTATGAGCTGAAATCGGTAAGCTCCAATGAGCTAA
* * *
79921640 AAACAGTAAGCTCTTACGAGCT-AAATTGGTAAGCTCCAATGAGCTGA
1 AAACAGTAAGCTCTTATGAGCTGAAATCGGTAAGCTCCAATGAGCTAA
*
79921687 AAACAGTAAGCTCTTTTGAGCT
1 AAACAGTAAGCTCTTATGAGCT
79921709 TATATATCGA
Statistics
Matches: 140, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
44 5 0.04
45 27 0.19
46 5 0.04
47 102 0.73
48 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (48 bp):
AAACAGTAAGCTCTTATGAGCTGAAATCGGTAAGCTCCAATGAGCTAA
Found at i:79928462 original size:20 final size:20
Alignment explanation
Indices: 79928403--79928491 Score: 85
Period size: 20 Copynumber: 4.5 Consensus size: 20
79928393 TGTATAAACT
*
79928403 GTAATTCATTCATAT-AACCA
1 GTAATTCATTCATATCAA-TA
*
79928423 GTAGTTCA-TCAATAAT-AATA
1 GTAATTCATTC-AT-ATCAATA
*
79928443 GTAATTCATTCGTATCAATA
1 GTAATTCATTCATATCAATA
* *
79928463 GTAATTCATTCATTTCAACA
1 GTAATTCATTCATATCAATA
79928483 GTAATTCAT
1 GTAATTCAT
79928492 CTATTTCAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
19 4 0.07
20 48 0.83
21 6 0.10
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (20 bp):
GTAATTCATTCATATCAATA
Found at i:79928497 original size:20 final size:20
Alignment explanation
Indices: 79928442--79928502 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
79928432 CAATAATAAT
* * *
79928442 AGTAATTCATTCGTATCAAT
1 AGTAATTCATTCATTTCAAC
79928462 AGTAATTCATTCATTTCAAC
1 AGTAATTCATTCATTTCAAC
79928482 AGTAATTCA-TCTATTTCAAC
1 AGTAATTCATTC-ATTTCAAC
79928502 A
1 A
79928503 TAGCTTATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 2 0.05
20 35 0.95
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (20 bp):
AGTAATTCATTCATTTCAAC
Found at i:79928771 original size:24 final size:24
Alignment explanation
Indices: 79928658--79928821 Score: 88
Period size: 24 Copynumber: 6.9 Consensus size: 24
79928648 AAGCTCCTCC
* *
79928658 TGAGCTGATAAACAGTAAGGCCCTAT
1 TGAGCTGA-AAACAGTAA-GCTCTAA
** *
79928684 TGAGCTG-AAATGGTAAGCTCT-T
1 TGAGCTGAAAACAGTAAGCTCTAA
* *
79928706 TCGAGCT--AAACAGTAAGCTTTTA
1 T-GAGCTGAAAACAGTAAGCTCTAA
* ***
79928729 CGAGCTGAATTGA-TAAAGCTCTAA
1 TGAGCTGAAAACAGT-AAGCTCTAA
*
79928753 TGAGCTGAAAACAGTAAGCTCTTA
1 TGAGCTGAAAACAGTAAGCTCTAA
* * * *
79928777 CGAGCTG-AATCGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTAA
* *
79928800 TAAGCTGAAAATAGTAAGCTCT
1 TGAGCTGAAAACAGTAAGCTCT
79928822 TTCGAGCTGA
Statistics
Matches: 102, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
22 18 0.18
23 27 0.26
24 49 0.48
25 1 0.01
26 7 0.07
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAA
Found at i:79928816 original size:47 final size:48
Alignment explanation
Indices: 79928713--79928831 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 48
79928703 CTTTCGAGCT
* * * *
79928713 AAACAGTAAGCTTTTACGAGCTGAATTGATAAAGCTCTAATGAGCTGA
1 AAACAGTAAGCTCTTACGAGCTGAATCGATAAAGCTCCAATAAGCTGA
*
79928761 AAACAGTAAGCTCTTACGAGCTGAATCGGT-AAGCTCCAATAAGCTGA
1 AAACAGTAAGCTCTTACGAGCTGAATCGATAAAGCTCCAATAAGCTGA
* *
79928808 AAATAGTAAGCTCTTTCGAGCTGA
1 AAACAGTAAGCTCTTACGAGCTGA
79928832 TATATCCATA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 37 0.58
48 27 0.42
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (48 bp):
AAACAGTAAGCTCTTACGAGCTGAATCGATAAAGCTCCAATAAGCTGA
Found at i:79928829 original size:24 final size:23
Alignment explanation
Indices: 79928685--79928831 Score: 90
Period size: 24 Copynumber: 6.3 Consensus size: 23
79928675 AGGCCCTATT
*
79928685 GAGCTGAAATGGTAAGCTCTTTC
1 GAGCTGAAATAGTAAGCTCTTTC
*
79928708 GAGCT-AAACAGTAAGCT-TTTAC
1 GAGCTGAAATAGTAAGCTCTTT-C
* *
79928730 GAGCTG-AATTGATAAAGCTCTAAT-
1 GAGCTGAAATAG-T-AAGCTCT-TTC
* *
79928754 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTG-AAATAGTAAGCTCTTTC
* **
79928778 GAGCTG-AATCGGTAAGCTCCAAT-
1 GAGCTGAAAT-AGTAAGCT-CTTTC
*
79928801 AAGCTGAAAATAGTAAGCTCTTTC
1 GAGCTG-AAATAGTAAGCTCTTTC
79928825 GAGCTGA
1 GAGCTGA
79928832 TATATCCATA
Statistics
Matches: 91, Mismatches: 19, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
21 3 0.03
22 21 0.23
23 21 0.23
24 37 0.41
25 5 0.05
26 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (23 bp):
GAGCTGAAATAGTAAGCTCTTTC
Found at i:79930041 original size:22 final size:22
Alignment explanation
Indices: 79930016--79930059 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
79930006 AATTATTAAC
*
79930016 ATAATGAATTTTAAATAATTTT
1 ATAATAAATTTTAAATAATTTT
* *
79930038 ATAATAAATTTTTATTAATTTT
1 ATAATAAATTTTAAATAATTTT
79930060 GATCGTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATAAATTTTAAATAATTTT
Found at i:79932626 original size:97 final size:97
Alignment explanation
Indices: 79932452--79932638 Score: 225
Period size: 97 Copynumber: 1.9 Consensus size: 97
79932442 CATGGGATAA
* *
79932452 GATGTCGACGCCATGTCCCAAACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTC
1 GATGTCGACGCCATGTCCCAAACATGGTCTTACACTAGCTAGCACATCAAAGGCGATGCCATGTC
* * *
79932517 CCAGACAGGTCTTGCACTGGCTCTTATCTATT
66 CCAAACAGGTCTTACACTAGCTCTTATCTATT
* * * * * * *
79932549 GATGTCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTTGTATATCTCAAGGCTGATG-TATG
1 GATGTCGACGCCATGTCCCAAACATGGTCTTACACTAGCTAGCACATC-AAAGGC-GATGCCATG
*
79932612 TCCCAAACATGTCTTACACTAGCTCTT
64 TCCCAAACAGGTCTTACACTAGCTCTT
79932639 GTCTCAAAGC
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
96 19 0.25
97 52 0.69
98 4 0.05
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (97 bp):
GATGTCGACGCCATGTCCCAAACATGGTCTTACACTAGCTAGCACATCAAAGGCGATGCCATGTC
CCAAACAGGTCTTACACTAGCTCTTATCTATT
Found at i:79932627 original size:48 final size:46
Alignment explanation
Indices: 79932463--79932726 Score: 158
Period size: 46 Copynumber: 5.6 Consensus size: 46
79932453 ATGTCGACGC
* *** *
79932463 CATGTCCCAAACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGATG
1 CATGTCCCAAACAT-GTCTTACACTAGCTCTTATC-TCAAAGCCGATG
* * * * * *
79932510 CCATGTCCCAGACAGGTCTTGCACTGGCTCTTATCT-ATTGATGTCGATG
1 -CATGTCCCAAACATGTCTTACACTAGCTCTTATCTCA---AAGCCGATG
* * * * *
79932559 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCTGATG
1 -CATGTCCCAAACATGTCTTACACTAGC-TCT-TATCTCAAAGCCGATG
* *
79932608 TATGTCCCAAACATGTCTTACACTAGCTCTTGTCTCAAAGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTCTTATCTCAAAGCCGATG
* * * * *** *
79932654 CATGTCCCCGAA-ATGTCTTACACTGGCTCTCATAAT-GTGGCAGATG
1 CATGT-CCCAAACATGTCTTACACTAGCTCTTAT-CTCAAAGCCGATG
*
79932700 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
79932727 ATATATATCA
Statistics
Matches: 173, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
45 4 0.02
46 61 0.35
47 23 0.13
48 37 0.21
49 40 0.23
50 2 0.01
51 5 0.03
52 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTTATCTCAAAGCCGATG
Found at i:79952339 original size:12 final size:11
Alignment explanation
Indices: 79952317--79952351 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
79952307 TCAATGGATA
79952317 TTGAATTTTTT
1 TTGAATTTTTT
79952328 TTGAATTTTTT
1 TTGAATTTTTT
79952339 TTGAAATTTTTT
1 TTG-AATTTTTT
79952351 T
1 T
79952352 CAAATTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (11 bp):
TTGAATTTTTT
Found at i:79952356 original size:11 final size:11
Alignment explanation
Indices: 79952317--79952357 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
79952307 TCAATGGATA
*
79952317 TTGAATTTTTT
1 TTGAAATTTTT
*
79952328 TTGAATTTTTT
1 TTGAAATTTTT
79952339 TTGAAATTTTT
1 TTGAAATTTTT
*
79952350 TTCAAATT
1 TTGAAATT
79952358 ACAATACCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (11 bp):
TTGAAATTTTT
Found at i:79954186 original size:47 final size:46
Alignment explanation
Indices: 79954123--79954222 Score: 114
Period size: 47 Copynumber: 2.2 Consensus size: 46
79954113 GTCTTAAATA
*
79954123 TGCCTTAAGTCTATTAATGCATG-T-TAATTAGTACAGCATTTTAATG
1 TGCCTTAAGTCTATTAAT--ATGTTATAATAAGTACAGCATTTTAATG
* * *
79954169 TGCCTTAAGTTTAATTAATATGTTATAATAAGTATAGCTTTTTAATG
1 TGCCTTAAGTCT-ATTAATATGTTATAATAAGTACAGCATTTTAATG
*
79954216 TGTCTTA
1 TGCCTTA
79954223 GATTAAGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.07
46 12 0.26
47 31 0.67
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (46 bp):
TGCCTTAAGTCTATTAATATGTTATAATAAGTACAGCATTTTAATG
Found at i:79955630 original size:17 final size:18
Alignment explanation
Indices: 79955608--79955641 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79955598 CACATTGAAG
79955608 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
79955625 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
79955642 CTTCCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:79956334 original size:28 final size:28
Alignment explanation
Indices: 79956302--79956378 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 28
79956292 ACATACATGT
* *
79956302 ATATGGCCCACTAGGCCCAATCTCATTC
1 ATATGGCCCATTAGGCCCAATCACATTC
* *
79956330 ATATGACCCATTGGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
*
79956359 GTATGGCCCATTAGGCCCAA
1 ATATGGCCCATTAGGCCCAA
79956379 ATCGCATACA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 17 0.41
29 24 0.59
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:79956363 original size:29 final size:29
Alignment explanation
Indices: 79956302--79956390 Score: 99
Period size: 29 Copynumber: 3.1 Consensus size: 29
79956292 ACATACATGT
* * *
79956302 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGACCCATTAGGCCCAAATCACATTC
*
79956330 ATATGACCCATTGGGCCCAAATCACATTC
1 ATATGACCCATTAGGCCCAAATCACATTC
* * * *
79956359 GTATGGCCCATTAGGCCCAAATCGCATAC
1 ATATGACCCATTAGGCCCAAATCACATTC
79956388 ATA
1 ATA
79956391 GTCATGCTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 15 0.30
29 35 0.70
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
ATATGACCCATTAGGCCCAAATCACATTC
Found at i:79956462 original size:33 final size:33
Alignment explanation
Indices: 79956424--79956488 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
79956414 ATCACTTAGT
79956424 ATCAAGTTGCCAATTTTACCTATTATGGGCCCG
1 ATCAAGTTGCCAATTTTACCTATTATGGGCCCG
* *
79956457 ATCAAGTTGCCAATTTTGCCTGTTATGGGCCC
1 ATCAAGTTGCCAATTTTACCTATTATGGGCCC
79956489 TACAACCCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (33 bp):
ATCAAGTTGCCAATTTTACCTATTATGGGCCCG
Found at i:79957562 original size:38 final size:38
Alignment explanation
Indices: 79957475--79957640 Score: 242
Period size: 38 Copynumber: 4.3 Consensus size: 38
79957465 AAACCCAAAC
* * * *
79957475 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
79957515 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
79957553 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
79957591 ATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
*
79957629 ATAATTCCAGCA
1 ATAATACCAGCA
79957641 TATAGTCTGC
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
38 90 0.78
39 3 0.03
40 22 0.19
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:79967646 original size:27 final size:27
Alignment explanation
Indices: 79967615--79967792 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
79967605 TAAATTGTAC
79967615 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
79967642 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79967668 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
79967696 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
79967724 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79967751 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
79967778 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79967793 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:79967729 original size:82 final size:81
Alignment explanation
Indices: 79967616--79967771 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
79967606 AAATTGTACA
* *
79967616 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
79967680 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
79967697 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
79967762 TGCGAGTTGA
65 TGCGAATTGA
79967772 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79967783 original size:82 final size:81
Alignment explanation
Indices: 79967612--79967792 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
79967602 GATTAAATTG
* *
79967612 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
79967677 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
79967693 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
79967757 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
79967775 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
79967793 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79976997 original size:27 final size:27
Alignment explanation
Indices: 79976966--79977143 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
79976956 TAAATTGTAC
79976966 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
79976993 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79977019 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
79977047 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
79977075 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79977102 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
79977129 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79977144 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:79977080 original size:82 final size:81
Alignment explanation
Indices: 79976967--79977122 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
79976957 AAATTGTACA
* *
79976967 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
79977031 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
79977048 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
79977113 TGCGAGTTGA
65 TGCGAATTGA
79977123 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79977134 original size:82 final size:81
Alignment explanation
Indices: 79976963--79977143 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
79976953 GATTAAATTG
* *
79976963 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
79977028 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
79977044 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
79977108 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
79977126 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
79977144 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79980743 original size:29 final size:29
Alignment explanation
Indices: 79980685--79980762 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
79980675 TATGGCCCAT
*
79980685 TGGCCCATTAGGCCC-AATCTCATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
79980713 TGGCCCATTGGGCCCAAATCACATTCGTA
1 TGGCCCATTAGGCCCAAATCACATTCATA
79980742 TGGCCCATTAGGCCCAAATCA
1 TGGCCCATTAGGCCCAAATCA
79980763 AATACATAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 14 0.31
29 31 0.69
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:79981007 original size:16 final size:16
Alignment explanation
Indices: 79980988--79981019 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
79980978 AAAATTTTGA
79980988 CTTTTCGGTATTTCAG
1 CTTTTCGGTATTTCAG
79981004 CTTTTCGGTATTTCAG
1 CTTTTCGGTATTTCAG
79981020 GATTTACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (16 bp):
CTTTTCGGTATTTCAG
Found at i:79984477 original size:14 final size:15
Alignment explanation
Indices: 79984461--79984490 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
79984451 ACCTATTTAC
79984461 TATCATATTCATACTA
1 TATCATATTCATAC-A
79984477 TATCATATTCATAC
1 TATCATATTCATAC
79984491 CATTCGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (15 bp):
TATCATATTCATACA
Found at i:79986181 original size:41 final size:40
Alignment explanation
Indices: 79986118--79986194 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
79986108 CATGCTATCA
* * *
79986118 CATATCGATTCCATTGTCCCAGATAGGGTCTTACACAAAT
1 CATATCGATGCCAATGTCCCAGACAGGGTCTTACACAAAT
*
79986158 CATATACGATGCCAATGTCCCAGACATGGTCTTACAC
1 CATAT-CGATGCCAATGTCCCAGACAGGGTCTTACAC
79986195 GTTTCACACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (40 bp):
CATATCGATGCCAATGTCCCAGACAGGGTCTTACACAAAT
Found at i:79991121 original size:13 final size:13
Alignment explanation
Indices: 79991103--79991129 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
79991093 AGAAATTCTA
79991103 TGCATAAAGTGCT
1 TGCATAAAGTGCT
79991116 TGCATAAAGTGCT
1 TGCATAAAGTGCT
79991129 T
1 T
79991130 AATTTGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TGCATAAAGTGCT
Found at i:79992605 original size:50 final size:49
Alignment explanation
Indices: 79992484--79992670 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
79992474 TGAGGTCGCA
* * * *
79992484 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
79992535 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
79992585 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
79992634 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
79992671 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 43 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:79999831 original size:30 final size:30
Alignment explanation
Indices: 79999796--79999856 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
79999786 TCCTTAACCC
79999796 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
79999826 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
79999856 A
1 A
79999857 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:80019524 original size:46 final size:46
Alignment explanation
Indices: 80019474--80019649 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
80019464 TGGTTGAGCA
80019474 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
80019520 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
80019565 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
80019613 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80019650 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:80019630 original size:93 final size:93
Alignment explanation
Indices: 80019471--80019641 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
80019461 GGATGGTTGA
* *
80019471 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80019536 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
80019564 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80019629 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
80019642 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:80029659 original size:26 final size:26
Alignment explanation
Indices: 80029560--80029661 Score: 107
Period size: 26 Copynumber: 3.9 Consensus size: 26
80029550 ACTAATATTG
* *
80029560 CAGCAAAGCTGCCAGTAATAATATCA
1 CAGCAAAGCTGCCAGTAATAGTAACA
* *
80029586 CAGCAAAGCTGCCAGTAACAGTAACG
1 CAGCAAAGCTGCCAGTAATAGTAACA
* * *
80029612 TAACAGAGCTGCTC-GTAATAGTAACA
1 CAGCAAAGCTGC-CAGTAATAGTAACA
* *
80029638 CAGCTAAGCTGCCAGTATTAGTAA
1 CAGCAAAGCTGCCAGTAATAGTAA
80029662 ATGTGGCAAA
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
25 1 0.02
26 58 0.97
27 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAGTAACA
Found at i:80031187 original size:24 final size:25
Alignment explanation
Indices: 80031135--80031187 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
80031125 ACACCCTCAA
* *
80031135 ACTCCCTGATTTTCTCCTAATATCT
1 ACTCCCTGATTCTCTCCTAAAATCT
80031160 -CTCCCTGATTCTCTCC-ACAAAT-T
1 ACTCCCTGATTCTCTCCTA-AAATCT
80031183 ACTCC
1 ACTCC
80031188 AAGATCCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 22 0.92
ACGTcount: A:0.21, C:0.38, G:0.04, T:0.38
Consensus pattern (25 bp):
ACTCCCTGATTCTCTCCTAAAATCT
Found at i:80032328 original size:18 final size:18
Alignment explanation
Indices: 80032305--80032367 Score: 108
Period size: 18 Copynumber: 3.5 Consensus size: 18
80032295 AGCATTGTTG
80032305 GATATTCACACACATCCA
1 GATATTCACACACATCCA
* *
80032323 GATATTCACACACATTCG
1 GATATTCACACACATCCA
80032341 GATATTCACACACATCCA
1 GATATTCACACACATCCA
80032359 GATATTCAC
1 GATATTCAC
80032368 TTTCAGTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.37, C:0.30, G:0.08, T:0.25
Consensus pattern (18 bp):
GATATTCACACACATCCA
Found at i:80034537 original size:29 final size:29
Alignment explanation
Indices: 80034474--80034541 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
80034464 TAATCAACCG
80034474 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
80034503 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
80034532 CGCACACTTA
1 CGCACACTTA
80034542 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:80034653 original size:174 final size:174
Alignment explanation
Indices: 80034363--80034690 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
80034353 AACTCAAGGT
* *
80034363 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
80034428 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
80034493 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
80034537 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
80034602 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
80034667 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
80034691 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:80034682 original size:29 final size:30
Alignment explanation
Indices: 80034643--80034721 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
80034633 CTTAATAATC
80034643 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
80034673 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
80034702 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
80034722 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:80043073 original size:28 final size:28
Alignment explanation
Indices: 80043010--80043275 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
80043000 ATATTAAGTC
*
80043010 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
80043037 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
80043065 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
80043093 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
80043121 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
80043149 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
80043177 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
80043205 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
80043233 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
80043262 CGCACACTTAGTGC
1 CGCACACTTAGTGC
80043276 CAATCTCATG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.10
28 187 0.82
29 19 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:80043743 original size:14 final size:14
Alignment explanation
Indices: 80043724--80043753 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
80043714 TGGGCATACT
*
80043724 TATGTATATGTATA
1 TATGTATATATATA
80043738 TATGTATATATATA
1 TATGTATATATATA
80043752 TA
1 TA
80043754 CTTCGGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:80063020 original size:25 final size:26
Alignment explanation
Indices: 80062929--80063035 Score: 119
Period size: 27 Copynumber: 4.1 Consensus size: 26
80062919 TACACTACAA
* * *
80062929 GGGTATTTTAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAATC-T
* *
80062956 GGGTATTTTGATAATTTTACAAATCGG
1 GGGTATTTTGGTAATTTTACAAATC-T
* *
80062983 GGGTGTTTCGGTAATTTTACAAAT-T
1 GGGTATTTTGGTAATTTTACAAATCT
80063008 GGGTATTTTGGTAATTTTACAAA-CT
1 GGGTATTTTGGTAATTTTACAAATCT
80063033 GGG
1 GGG
80063036 ATGTTAACGA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
25 25 0.37
27 43 0.63
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAATCT
Found at i:80066196 original size:283 final size:282
Alignment explanation
Indices: 80065690--80066256 Score: 1064
Period size: 283 Copynumber: 2.0 Consensus size: 282
80065680 TGTATGATAA
*
80065690 TAATTACTTTGTAAAATCTCTTTTCAGTTGCGGAAGCTTTATTTAAAACAAATGATCTATGAAAA
1 TAATTACTTTGTAAAATCTCTTTTCAGTTGCGAAAGCTTTATTTAAAACAAATGATCTATGAAAA
80065755 CTTTCCATTTAAAAATTGAGTTGCGGAAACGTAGTATTTAAAAACAGTTATGGTTTTAAGAAAAC
66 CTTTCCATTTAAAAATTGAGTTGCGGAAACGTAGTATTTAAAAACAGTTATGGTTTTAAGAAAAC
80065820 CATGTTCTACTTCCAGCAAATATAAAGCATAATAATAAATATAATCGTAATTTGAATAATAGCCA
131 CATGTTCTACTTCCAGCAAATATAAAGCATAATAATAAATATAATCGTAATTTGAATAATAGCCA
80065885 GAGGAAAGGCCTTATTACATTCTGGACTGAAATAACTTTAAATACTAGAAATTATAGGCTTAAGA
196 GAGGAAAGGCCTTATTACATTCTGGACTGAAATAACTTTAAATACTAGAAATTATAGGCTTAAGA
80065950 AAAGAAGTCCAAGTCATCTTGC
261 AAAGAAGTCCAAGTCATCTTGC
* * *
80065972 TAATTACTTTGTAAAATCTCTTTTCAGTTGCGAAAGCTTTATTTAGAACATATGATTTTATGAAA
1 TAATTACTTTGTAAAATCTCTTTTCAGTTGCGAAAGCTTTATTTAAAACAAATGA-TCTATGAAA
*
80066037 ACTTGT-CATTTAAAAATTGAGTTGCGGAAATGTAGTATTTAAAAACAGTTATGGTTTTAAGAAA
65 ACTT-TCCATTTAAAAATTGAGTTGCGGAAACGTAGTATTTAAAAACAGTTATGGTTTTAAGAAA
80066101 ACCATGTTCTACTTCCAGCAAATATAAAGCATAATAATAAATATAATCGTAATTTGAATAATAGC
129 ACCATGTTCTACTTCCAGCAAATATAAAGCATAATAATAAATATAATCGTAATTTGAATAATAGC
80066166 CAGAGGAAAGGCCTTATTACATTCTGGACTGAAATAACTTTAAATACTAGAAATTATAGGCTTAA
194 CAGAGGAAAGGCCTTATTACATTCTGGACTGAAATAACTTTAAATACTAGAAATTATAGGCTTAA
80066231 GAAAAGAAGTCCAAGTCATCTTGC
259 GAAAAGAAGTCCAAGTCATCTTGC
80066255 TA
1 TA
80066257 GCTGGCCACC
Statistics
Matches: 278, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
282 52 0.19
283 225 0.81
284 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (282 bp):
TAATTACTTTGTAAAATCTCTTTTCAGTTGCGAAAGCTTTATTTAAAACAAATGATCTATGAAAA
CTTTCCATTTAAAAATTGAGTTGCGGAAACGTAGTATTTAAAAACAGTTATGGTTTTAAGAAAAC
CATGTTCTACTTCCAGCAAATATAAAGCATAATAATAAATATAATCGTAATTTGAATAATAGCCA
GAGGAAAGGCCTTATTACATTCTGGACTGAAATAACTTTAAATACTAGAAATTATAGGCTTAAGA
AAAGAAGTCCAAGTCATCTTGC
Found at i:80070725 original size:28 final size:28
Alignment explanation
Indices: 80070625--80070727 Score: 134
Period size: 28 Copynumber: 3.7 Consensus size: 28
80070615 TGGCCCCTTT
* *
80070625 AGGCCCAATCTCATTTATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
80070653 GGGCCCAACCACATTCGTATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
80070681 AGGCCCAATCACTTTCATATGACCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
80070709 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
80070728 GTCATGCAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:80075129 original size:40 final size:40
Alignment explanation
Indices: 80075051--80075187 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
80075041 CGGATGATAA
* * **
80075051 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * * *
80075091 TCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATAT
* *
80075131 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
80075171 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
80075188 ATACTTGGGT
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 15 0.19
40 62 0.77
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
Found at i:80075455 original size:22 final size:22
Alignment explanation
Indices: 80075415--80075456 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
80075405 GAATGTGCAT
*
80075415 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
80075437 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
80075457 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:80077442 original size:27 final size:27
Alignment explanation
Indices: 80077407--80077468 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
80077397 GCATAATCGC
* * * *
80077407 CATTCTACCATATAGGGGTATTATGGT
1 CATTTTACCATACAGGGGCATTACGGT
*
80077434 CATTTTACCTTACAGGGGCATTACGGT
1 CATTTTACCATACAGGGGCATTACGGT
80077461 CATTTTAC
1 CATTTTAC
80077469 ACTACATGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
CATTTTACCATACAGGGGCATTACGGT
Found at i:80077543 original size:53 final size:53
Alignment explanation
Indices: 80077476--80077636 Score: 209
Period size: 54 Copynumber: 3.0 Consensus size: 53
80077466 TACACTACAT
* **
80077476 GGGTATTTTGGTAATTTCACAAA-TCGAGGGTATTTCAAAAATTTTACAAACT-A
1 GGGTATTTTGGTAATTTTACAAACT-G-GGGTATTTCAGTAATTTTACAAACTGA
* *
80077529 GGGTATTTTGGTAATTTTACAAACTGGGGATATTTTAGTAATTTTACAAACTGG
1 GGGTATTTTGGTAATTTTACAAACTGGGG-TATTTCAGTAATTTTACAAACTGA
* *
80077583 GGGTATTTCGATAATTTTACAAACTGGGGGTATTTCAGTAATTTTACAAACTGA
1 GGGTATTTTGGTAATTTTACAAACT-GGGGTATTTCAGTAATTTTACAAACTGA
80077637 AGTCTTAACG
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
52 3 0.03
53 42 0.44
54 46 0.48
55 4 0.04
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTGGGGTATTTCAGTAATTTTACAAACTGA
Found at i:80077634 original size:27 final size:27
Alignment explanation
Indices: 80077476--80077635 Score: 182
Period size: 27 Copynumber: 6.0 Consensus size: 27
80077466 TACACTACAT
** * *
80077476 GGGTATTTTGGTAATTTCACAAA-TCGA
1 GGGTATTTCAGTAATTTTACAAACT-GG
** *
80077503 GGGTATTTCAAAAATTTTACAAACT-A
1 GGGTATTTCAGTAATTTTACAAACTGG
**
80077529 GGGTATTTTGGTAATTTTACAAACTGG
1 GGGTATTTCAGTAATTTTACAAACTGG
* *
80077556 GGATATTTTAGTAATTTTACAAACTGG
1 GGGTATTTCAGTAATTTTACAAACTGG
80077583 GGGTATTTC-GATAATTTTACAAACTGG
1 GGGTATTTCAG-TAATTTTACAAACTGG
80077610 GGGTATTTCAGTAATTTTACAAACTG
1 GGGTATTTCAGTAATTTTACAAACTG
80077636 AAGTCTTAAC
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.20
27 90 0.78
28 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAACTGG
Found at i:80087208 original size:11 final size:11
Alignment explanation
Indices: 80087192--80087230 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
80087182 CATGATTGAT
80087192 ATGATATGCAC
1 ATGATATGCAC
*
80087203 ATGATATG--T
1 ATGATATGCAC
80087212 ATGATATGCAC
1 ATGATATGCAC
80087223 ATGATATG
1 ATGATATG
80087231 TATGAAGTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:80087247 original size:20 final size:20
Alignment explanation
Indices: 80087173--80087235 Score: 96
Period size: 20 Copynumber: 3.2 Consensus size: 20
80087163 ATGCGCGGAA
80087173 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
80087190 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
80087211 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
80087231 TATGA
1 TATGA
80087236 AGTGCTTATG
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.19
20 32 0.76
21 2 0.05
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.37
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:80087375 original size:52 final size:51
Alignment explanation
Indices: 80087297--80087432 Score: 215
Period size: 52 Copynumber: 2.7 Consensus size: 51
80087287 GAGGAAGTGC
*
80087297 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGTCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
80087349 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
80087400 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
80087433 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 24 0.30
52 35 0.43
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:80087394 original size:25 final size:26
Alignment explanation
Indices: 80087297--80087432 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
80087287 GAGGAAGTGC
80087297 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
80087323 AAAAGGTCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
80087349 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
80087375 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
80087400 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
80087423 AAAAGAGGCT
1 AAAAG-GGCT
80087433 AGGCCTCCAG
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 29 0.30
26 56 0.58
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Done.