Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 169 of 297
Found at i:56852880 original size:37 final size:36
Alignment explanation
Indices: 56852818--56852919 Score: 114
Period size: 37 Copynumber: 2.8 Consensus size: 36
56852808 TTTCAGTTTG
* *
56852818 AAAACTAAGACGTTTCTTCTCCTTTTTTTCATGCTGA
1 AAAACTAAGACGCTTCTTCTTCTTTTTTTCATGCT-A
* *
56852855 GAAACTAAGACGCTTCTTCTTCTTTTCTTTTATGCTA
1 AAAACTAAGACGCTTCTTCTTCTTTT-TTTCATGCTA
* * *
56852892 AAAATCGAAGGCGCTTCTTCTTCATTTT
1 AAAA-CTAAGACGCTTCTTCTTCTTTTT
56852920 ACGCCGAACG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 28 0.51
38 27 0.49
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.43
Consensus pattern (36 bp):
AAAACTAAGACGCTTCTTCTTCTTTTTTTCATGCTA
Found at i:56854116 original size:36 final size:36
Alignment explanation
Indices: 56854069--56854140 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
56854059 TCGTGTCTCA
56854069 GCCTGTGTGGCCAACACTTAGGCTATTTTCCAAGCC
1 GCCTGTGTGGCCAACACTTAGGCTATTTTCCAAGCC
56854105 GCCTGTGTGGCCAACACTTAGGCTATTTTCCAAGCC
1 GCCTGTGTGGCCAACACTTAGGCTATTTTCCAAGCC
56854141 TTTATGTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.31, G:0.22, T:0.28
Consensus pattern (36 bp):
GCCTGTGTGGCCAACACTTAGGCTATTTTCCAAGCC
Found at i:56855989 original size:49 final size:49
Alignment explanation
Indices: 56855888--56856152 Score: 176
Period size: 49 Copynumber: 5.6 Consensus size: 49
56855878 CATCAAATTA
* * *
56855888 GATGCTATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCC
* * * *
56855937 GATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCC
* * * * * * ** *
56855986 GATGCCATATGCCAGATAGGTCTTACACTAACACACA-A-A---AAACT
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCC
* * * * *
56856030 AATGCCATGTCCCAGATAGGTCTTACAAT-AGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCGAGGCC
* * * *
56856079 GATG-CATGTCCCAGACATGTCTTACATTGGCTCTCATA-AT-GTGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCC
* *
56856125 GATG-CATGTCCCAGACATGCCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
56856153 AGCACACATA
Statistics
Matches: 164, Mismatches: 41, Indels: 25
0.71 0.18 0.11
Matches are distributed among these distances:
43 1 0.01
44 27 0.16
45 1 0.01
46 31 0.19
47 2 0.01
48 27 0.16
49 75 0.46
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGAGGCC
Found at i:56858124 original size:48 final size:47
Alignment explanation
Indices: 56858053--56858148 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 47
56858043 CTGACCAGAC
56858053 ACTCTTTAAAATAAGTAAGGGTAAGTTTCCTAAAGAAGCATTTAAAA
1 ACTCTTTAAAATAAGTAAGGGTAAGTTTCCTAAAGAAGCATTTAAAA
* *
56858100 NACTCTTTCAAATAAGTAAGGGTAAGTTTCTTAAAGAAGCATTTAAAA
1 -ACTCTTTAAAATAAGTAAGGGTAAGTTTCCTAAAGAAGCATTTAAAA
56858148 A
1 A
56858149 ATTCGAATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 1 0.02
48 45 0.98
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.30
Consensus pattern (47 bp):
ACTCTTTAAAATAAGTAAGGGTAAGTTTCCTAAAGAAGCATTTAAAA
Found at i:56865072 original size:9 final size:9
Alignment explanation
Indices: 56865058--56865083 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
56865048 ATAATAATGG
56865058 AAACAAAAC
1 AAACAAAAC
56865067 AAACAAAAC
1 AAACAAAAC
56865076 AAACAAAA
1 AAACAAAA
56865084 AAATATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (9 bp):
AAACAAAAC
Found at i:56865687 original size:11 final size:11
Alignment explanation
Indices: 56865673--56865697 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56865663 TTTTCTCTTC
56865673 TTTTTTATTTA
1 TTTTTTATTTA
56865684 TTTTTTATTTA
1 TTTTTTATTTA
56865695 TTT
1 TTT
56865698 AATATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATTTA
Found at i:56866776 original size:87 final size:85
Alignment explanation
Indices: 56866685--56867007 Score: 238
Period size: 86 Copynumber: 3.8 Consensus size: 85
56866675 ACCATTTTTT
* * *
56866685 ATCTGCTCCACTATTGCTTAGGGAGGTAAGATCTATAAATTCAGCCTGTTA-CCTTCTGCTTAGG
1 ATCTGTTCC-CTATTGCTTAGGGAGATAAGATCT-TAAATTCAGCCTGTTACCCTACTGCTTAGG
* * * *
56866749 GGTTTAAGGCTCTTTTACCTTCG
64 GGTTTAAGAC-CTATCACATTCG
* ** * * ** * * *
56866772 ATCTGTTTCTCTGCTACTGAGGGAGATAAGATCTGCAATTCTGTCTGTTACCCTACTCCTTAGGG
1 ATCTG-TTCCCTATTGCTTAGGGAGATAAGATCTTAAATTCAGCCTGTTACCCTACTGCTTAGGG
*
56866837 GTTTAAGACCTATCGCATTCG
65 GTTTAAGACCTATCACATTCG
* * *
56866858 ATCTGTTTCCCCATTGCTTAGGGTGATAAGATCTTCAAAATTCAGCTTGTTACCCTACTGCTTAG
1 ATCTG-TTCCCTATTGCTTAGGGAGATAAGATCTT--AAATTCAGCCTGTTACCCTACTGCTTAG
* *
56866923 GGG-TTAA-AGC--TCGAC-CT-G
63 GGGTTTAAGACCTATC-ACATTCG
* * * *
56866941 -T-T-TT-CCTACTGCTTAGGG-GTTTAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGG
1 ATCTGTTCCCTATTGCTTAGGGAGATAAGATCT-TAAATTCAGCCTGTTACCCTACTGCTTAGGG
56867001 GTTTAAG
65 GTTTAAG
56867008 GTTTGAAAAT
Statistics
Matches: 188, Mismatches: 40, Indels: 25
0.74 0.16 0.10
Matches are distributed among these distances:
76 29 0.15
77 12 0.06
78 13 0.07
79 2 0.01
81 1 0.01
82 1 0.01
83 1 0.01
84 3 0.02
85 1 0.01
86 49 0.26
87 48 0.26
88 28 0.15
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (85 bp):
ATCTGTTCCCTATTGCTTAGGGAGATAAGATCTTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
TTTAAGACCTATCACATTCG
Found at i:56867032 original size:43 final size:42
Alignment explanation
Indices: 56866936--56867044 Score: 119
Period size: 43 Copynumber: 2.6 Consensus size: 42
56866926 TTAAAGCTCG
** *
56866936 ACCTGTTTTCCTACTGCTTAGGGGTTTAGATCTGTAAATTCA
1 ACCTGTTACCCTACTGCTTAGGGGTTTAGATCTGAAAATTCA
* * **
56866978 ACCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGAAAATTTG
1 ACCTGTTACCCTACTGCTTAGGGGTTT-AGATCTGAAAATTCA
* * *
56867021 GCTTGTTACCCTATTGCTTAGGGG
1 ACCTGTTACCCTACTGCTTAGGGG
56867045 GTTGAAGCCC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 25 0.45
43 31 0.55
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (42 bp):
ACCTGTTACCCTACTGCTTAGGGGTTTAGATCTGAAAATTCA
Found at i:56878464 original size:9 final size:9
Alignment explanation
Indices: 56878450--56878475 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
56878440 ATAATAATGG
56878450 AAACAAAAC
1 AAACAAAAC
56878459 AAACAAAAC
1 AAACAAAAC
56878468 AAACAAAA
1 AAACAAAA
56878476 AAATATATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (9 bp):
AAACAAAAC
Found at i:56880887 original size:42 final size:43
Alignment explanation
Indices: 56880818--56880915 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 43
56880808 TTTTGTACAT
*
56880818 AAACGCCGCTAAAGAACATGACTTTTAGCGGCGCTTTCAAGA-
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCAAGAC
* ***
56880860 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTGGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCAAGAC
56880903 AAACGCCGCTAAA
1 AAACGCCGCTAAA
56880916 AATATATGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 37 0.74
43 13 0.26
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCAAGAC
Found at i:56880956 original size:44 final size:44
Alignment explanation
Indices: 56880894--56881002 Score: 166
Period size: 44 Copynumber: 2.5 Consensus size: 44
56880884 TTAGCGGCGC
* *
56880894 TTTTTGGACAAACGCCGCTAAAAATATATGTTCTTTTACGGTAT
1 TTTTTGTACAAACGCCGCTAAAAATATATGTTCTTTTACGGAAT
*
56880938 TTTTTGTACAAACGCCGCTAAAAATATATGTTCTTTTGCGGAAT
1 TTTTTGTACAAACGCCGCTAAAAATATATGTTCTTTTACGGAAT
*
56880982 TTTTTGTGA-AAACGCCACTAA
1 TTTTTGT-ACAAACGCCGCTAA
56881003 TTTTAGCATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 59 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (44 bp):
TTTTTGTACAAACGCCGCTAAAAATATATGTTCTTTTACGGAAT
Found at i:56881106 original size:47 final size:47
Alignment explanation
Indices: 56881052--56881144 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
56881042 ATCCTTCCTA
*
56881052 CAACATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAAG
1 CAACATCAAATCCAACCAATAACAGCAAATCTAAATGATAATTCAAG
56881099 CAACATCAAATCCAACCAATAACAGCAAATCTAAATGATAATTCAA
1 CAACATCAAATCCAACCAATAACAGCAAATCTAAATGATAATTCAA
56881145 AAATTCAATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.51, C:0.25, G:0.05, T:0.19
Consensus pattern (47 bp):
CAACATCAAATCCAACCAATAACAGCAAATCTAAATGATAATTCAAG
Found at i:56881779 original size:13 final size:14
Alignment explanation
Indices: 56881753--56881781 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
56881743 ACTAACGACG
56881753 AATTAAACCATTAT
1 AATTAAACCATTAT
56881767 AATTAAA-CATTAT
1 AATTAAACCATTAT
56881780 AA
1 AA
56881782 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:56885199 original size:88 final size:84
Alignment explanation
Indices: 56885045--56885451 Score: 343
Period size: 88 Copynumber: 4.8 Consensus size: 84
56885035 TGCGGCGTTT
* *** *
56885045 ATCCCTTAAATCTCCAATTAAAACGACGATGTTTTCATTAAACTATTATGTTTTTTGCGGCTTTT
1 ATCCCTTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATGTTTTTTGCGGCATTT
56885110 TTAAAAAAATTTAAAAACGCCTA
66 TTAAAAAAA---AAAAACG-CTA
* *
56885133 ATCCCCTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATGTTTTTTGCGGCGTTT
1 ATCCCTTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATGTTTTTTGCGGCATTT
** * ***
56885198 TT-TCAAGAAACGCCGCTA
66 TTAAAAAAAAAAAACGCTA
* * * * *
56885216 ATCCCTTAAATCTCCAACTAAAACGATGCCATTTTCGTTAAACTACTAGGTTTTTTTGAGGCATT
1 ATCCCTTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATG-TTTTTTGCGGCATT
***
56885281 TTT-------AACGCCGCTA
65 TTTAAAAAAAAAAAACGCTA
*
56885294 AT-CCTCTAAATCTCCAATTAAAACGATGCTGC-TTTT-GTTAAACTATTATG-TTTTTGCAGCG
1 ATCCCT-TAAATCTCCAATTAAAACGATGC--CATTTTCATTAAACTATTATGTTTTTTGC-G-G
**
56885355 TTTTTTATAAAAATATAAAAAACGCCGCTA
61 CATTTT-TAAAAA-A-AAAAAA---CGCTA
* * *
56885385 ATCCCCTAAATCTCCAATTAAAACGACGCCATTTTCGTTAAACTATTATGTTTTTTGCGGCATTT
1 ATCCCTTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATGTTTTTTGCGGCATTT
56885450 TT
66 TT
56885452 CAAGAAACGC
Statistics
Matches: 264, Mismatches: 32, Indels: 45
0.77 0.09 0.13
Matches are distributed among these distances:
76 6 0.02
77 4 0.02
78 51 0.19
79 5 0.02
80 1 0.00
83 48 0.18
84 19 0.07
87 3 0.01
88 63 0.24
89 2 0.01
90 9 0.03
91 44 0.17
92 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (84 bp):
ATCCCTTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATGTTTTTTGCGGCATTT
TTAAAAAAAAAAAACGCTA
Found at i:56885334 original size:78 final size:79
Alignment explanation
Indices: 56885130--56885348 Score: 268
Period size: 78 Copynumber: 2.7 Consensus size: 79
56885120 TTAAAAACGC
* *
56885130 CTAATCCCCTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATG-TTTTTTGCGGC
1 CTAAT-CCCTAAATCTCCAATTAAAACGATGCCATTTTCGTTAAACTATTATGTTTTTTTGAGGC
*
56885194 GTTTTTTCAAGAAACGCCG
65 GATTTTT----AAACGCCG
* * *
56885213 CTAATCCCTTAAATCTCCAACTAAAACGATGCCATTTTCGTTAAACTACTAGGTTTTTTTGAGGC
1 CTAATCCC-TAAATCTCCAATTAAAACGATGCCATTTTCGTTAAACTATTATGTTTTTTTGAGGC
56885278 -ATTTTT-AACGCCG
65 GATTTTTAAACGCCG
56885291 CTAATCCTCTAAATCTCCAATTAAAACGATGCTGC-TTTT-GTTAAACTATTATGTTTTT
1 CTAATCC-CTAAATCTCCAATTAAAACGATGC--CATTTTCGTTAAACTATTATGTTTTT
56885349 GCAGCGTTTT
Statistics
Matches: 122, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 53 0.43
79 5 0.04
80 1 0.01
82 3 0.02
83 50 0.41
84 10 0.08
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (79 bp):
CTAATCCCTAAATCTCCAATTAAAACGATGCCATTTTCGTTAAACTATTATGTTTTTTTGAGGCG
ATTTTTAAACGCCG
Found at i:56885425 original size:169 final size:160
Alignment explanation
Indices: 56885130--56885451 Score: 416
Period size: 169 Copynumber: 2.0 Consensus size: 160
56885120 TTAAAAACGC
*
56885130 CTAATCCCCTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATGTTTTTTGCGGCG
1 CTAATCCCCTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATGTTTTTTGCAGCG
* * *
56885195 TTTTTTCAAGAAACGCCGCTAATCCCTTAAATCTCCAACTAAAACGATGCCATTTTCGTTAAACT
66 TTTTTTCAAAAAACGCCGCTAATCCCCTAAATCTCCAACTAAAACGACGCCATTTTCGTTAAACT
56885260 ACTAGGTTTTTTTGAGGCATTTTTAACGCCG
131 ACTAGG-TTTTTTGAGGCATTTTTAACGCCG
* *
56885291 CTAATCCTCTAAATCTCCAATTAAAACGATGCTGC-TTTT-GTTAAACTATTATG-TTTTTGCAG
1 CTAATCCCCTAAATCTCCAATTAAAACGATGC--CATTTTCATTAAACTATTATGTTTTTTGCAG
* *
56885353 CGTTTTTTATAAAAATATAAAAAACGCCGCTAATCCCCTAAATCTCCAATTAAAACGACGCCATT
64 CG--TTTT-T-----T-CAAAAAACGCCGCTAATCCCCTAAATCTCCAACTAAAACGACGCCATT
* * *
56885418 TTCGTTAAACTATTATGTTTTTTGCGGCATTTTT
120 TTCGTTAAACTACTAGGTTTTTTGAGGCATTTTT
56885452 CAAGAAACGC
Statistics
Matches: 139, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
160 10 0.07
161 44 0.32
162 8 0.06
163 2 0.01
168 17 0.12
169 58 0.42
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (160 bp):
CTAATCCCCTAAATCTCCAATTAAAACGATGCCATTTTCATTAAACTATTATGTTTTTTGCAGCG
TTTTTTCAAAAAACGCCGCTAATCCCCTAAATCTCCAACTAAAACGACGCCATTTTCGTTAAACT
ACTAGGTTTTTTGAGGCATTTTTAACGCCG
Found at i:56885644 original size:19 final size:18
Alignment explanation
Indices: 56885620--56885655 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56885610 TGATTTTAAT
56885620 TATTAATACTAATGATAAA
1 TATTAATA-TAATGATAAA
*
56885639 TATTAATATGATGATAA
1 TATTAATATAATGATAA
56885656 GTTATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (18 bp):
TATTAATATAATGATAAA
Found at i:56886052 original size:7 final size:7
Alignment explanation
Indices: 56886040--56886183 Score: 69
Period size: 7 Copynumber: 20.1 Consensus size: 7
56886030 ACTAATTAAT
56886040 CTAAACC
1 CTAAACC
56886047 CTAAACC
1 CTAAACC
**
56886054 TCTAGCCC
1 -CTAAACC
*
56886062 CT-ATCC
1 CTAAACC
*
56886068 CATAAACA
1 C-TAAACC
*
56886076 CTAAACT
1 CTAAACC
*
56886083 ATAAACC
1 CTAAACC
56886090 CTAAACC
1 CTAAACC
* *
56886097 TTGAACC
1 CTAAACC
*
56886104 CTTAACCC
1 C-TAAACC
56886112 CT-AACC
1 CTAAACC
* *
56886118 CTTAGACT
1 C-TAAACC
56886126 CTAAACC
1 CTAAACC
*
56886133 ATAAACC
1 CTAAACC
56886140 TCT-AACC
1 -CTAAACC
*
56886147 CTTAACC
1 CTAAACC
*
56886154 CTTAACCC
1 C-TAAACC
*
56886162 CTAACCC
1 CTAAACC
56886169 CTAAACC
1 CTAAACC
*
56886176 TTAAACC
1 CTAAACC
56886183 C
1 C
56886184 CAACTGTTAA
Statistics
Matches: 101, Mismatches: 27, Indels: 18
0.69 0.18 0.12
Matches are distributed among these distances:
6 9 0.09
7 70 0.69
8 22 0.22
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:56886113 original size:50 final size:50
Alignment explanation
Indices: 56886039--56886182 Score: 157
Period size: 50 Copynumber: 2.9 Consensus size: 50
56886029 TACTAATTAA
* * * * *
56886039 TCTAAACCCTAAACCTCTAGCCCCTATCCCATAAACACTAAACTATAAACC
1 TCTAAACCTTAACCCT-TAACCCCTAACCCATAAACACTAAACCATAAACC
* * *
56886090 -CTAAACCTTGAACCCTTAACCCCTAACCCTTAGACTCTAAACCATAAACC
1 TCTAAACCTT-AACCCTTAACCCCTAACCCATAAACACTAAACCATAAACC
* *
56886140 TCTAACCCTTAACCCTTAACCCCTAACCCCTAAAC-CTTAAACC
1 TCTAAACCTTAACCCTTAACCCCTAACCCATAAACAC-TAAACC
56886183 CCAACTGTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
49 1 0.01
50 65 0.82
51 13 0.16
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.22
Consensus pattern (50 bp):
TCTAAACCTTAACCCTTAACCCCTAACCCATAAACACTAAACCATAAACC
Found at i:56886173 original size:43 final size:43
Alignment explanation
Indices: 56886084--56886182 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
56886074 CACTAAACTA
* * *
56886084 TAAACCCTAAACCTTGAACCCTTAACCCCTAACCCTTAGACTC
1 TAAACCATAAACCTTGAACCCTTAACCCCTAACCCCTAGACCC
*
56886127 TAAACCATAAACCTCT-AACCCTTAACCCTTAACCCCTA-ACCCC
1 TAAACCATAAACCT-TGAACCCTTAACCCCTAACCCCTAGA-CCC
*
56886170 TAAACCTTAAACC
1 TAAACCATAAACC
56886183 CCAACTGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 47 0.96
44 1 0.02
ACGTcount: A:0.35, C:0.40, G:0.02, T:0.22
Consensus pattern (43 bp):
TAAACCATAAACCTTGAACCCTTAACCCCTAACCCCTAGACCC
Found at i:56886263 original size:14 final size:14
Alignment explanation
Indices: 56886246--56886293 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
56886236 AATAGTAACT
*
56886246 CCTAAATCTTAAAC
1 CCTAAATCATAAAC
* *
56886260 CCTAAGTCATATAC
1 CCTAAATCATAAAC
*
56886274 CCTAAACCATAAAC
1 CCTAAATCATAAAC
56886288 CCTAAA
1 CCTAAA
56886294 CTATAATGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.44, C:0.31, G:0.02, T:0.23
Consensus pattern (14 bp):
CCTAAATCATAAAC
Found at i:56886294 original size:14 final size:14
Alignment explanation
Indices: 56886255--56886299 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
56886245 TCCTAAATCT
**
56886255 TAAACCCTAAGTCA
1 TAAACCCTAAACCA
*
56886269 TATACCCTAAACCA
1 TAAACCCTAAACCA
*
56886283 TAAACCCTAAACTA
1 TAAACCCTAAACCA
56886297 TAA
1 TAA
56886300 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:56886658 original size:40 final size:42
Alignment explanation
Indices: 56886562--56886658 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 42
56886552 GCGCTTTTTG
* * **
56886562 AAAAA-CGCCGCTAAT-ACTCGATATATAGCGGGGTTTTTCA
1 AAAAAGCGCCGCTAATGACTCAATATATAGCAGCATTTTTCA
* *
56886602 AAAAAGCGTCGGTAATGA-TCAATATATAGCAGCATTTTT-A
1 AAAAAGCGCCGCTAATGACTCAATATATAGCAGCATTTTTCA
*
56886642 TAAAAGCGCCGCTAATG
1 AAAAAGCGCCGCTAATG
56886659 GTGGACCTCT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 20 0.43
41 25 0.54
42 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (42 bp):
AAAAAGCGCCGCTAATGACTCAATATATAGCAGCATTTTTCA
Found at i:56886771 original size:40 final size:39
Alignment explanation
Indices: 56886550--56886765 Score: 148
Period size: 40 Copynumber: 5.4 Consensus size: 39
56886540 TACTTTTTTA
*
56886550 CGGCGCTTTTTGAAAAA-CGCCGCTAATACTCGATATATAG
1 CGGCG-TTTTT-AAAAAGCGCCGCTAATACTCGATCTATAG
* * * * *
56886590 CGGGGTTTTTCAAAAAAGCGTCGGTAATGA-TCAATATATAG
1 CGGCGTTTTT--AAAAAGCGCCGCTAAT-ACTCGATCTATAG
* * ** * * *
56886631 CAGCATTTTTATAAAAGCGCCGCTAATGGTGGACCTCTAG
1 CGGCGTTTTTA-AAAAGCGCCGCTAATACTCGATCTATAG
* * * *
56886671 TGGCATTTTTAAAAATGCGCCGCTAATGCTCGATCTTTAG
1 CGGCGTTTTTAAAAA-GCGCCGCTAATACTCGATCTATAG
* * * * *
56886711 TGTCGTTCTTCAATAAGCACCGCTAATACTCGATCTATAG
1 CGGCGTT-TTTAAAAAGCGCCGCTAATACTCGATCTATAG
56886751 CGGCGTTTTTAAAAA
1 CGGCGTTTTTAAAAA
56886766 TGCACCACTA
Statistics
Matches: 136, Mismatches: 33, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
39 16 0.12
40 88 0.65
41 31 0.23
42 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (39 bp):
CGGCGTTTTTAAAAAGCGCCGCTAATACTCGATCTATAG
Found at i:56887140 original size:20 final size:21
Alignment explanation
Indices: 56887111--56887157 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
56887101 ATACAATTAC
* *
56887111 ATAATTTTAA-ATTCTAAAAA
1 ATAATATTAATATTATAAAAA
56887131 ATAATATTAATTATTATAAAAA
1 ATAATATTAA-TATTATAAAAA
56887153 ATAAT
1 ATAAT
56887158 CAATAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
22 14 0.61
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATATTAATATTATAAAAA
Found at i:56887443 original size:45 final size:45
Alignment explanation
Indices: 56887359--56887444 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
56887349 ATTGCTCAAG
* * * *
56887359 TATAAATAATTAATAATAAATGCTATATAGTTTAGTTAAATTTAA
1 TATAAATAATTAATAATAAATACTATATAATTCAATTAAATTTAA
** *
56887404 TATAAATAATTTGTAATAAATACTATGTAATTCAATTAAAT
1 TATAAATAATTAATAATAAATACTATATAATTCAATTAAAT
56887445 ATTTCATAGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (45 bp):
TATAAATAATTAATAATAAATACTATATAATTCAATTAAATTTAA
Found at i:56888548 original size:12 final size:12
Alignment explanation
Indices: 56888531--56888557 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
56888521 TTAACAAAGG
56888531 AACTAAACCAAA
1 AACTAAACCAAA
56888543 AACTAAACCAAA
1 AACTAAACCAAA
56888555 AAC
1 AAC
56888558 ATGAGTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.26, G:0.00, T:0.07
Consensus pattern (12 bp):
AACTAAACCAAA
Found at i:56893429 original size:30 final size:30
Alignment explanation
Indices: 56893395--56893474 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
56893385 CGTTTAATAG
*
56893395 AGCCACAAAGGCTTTCACATATCTAATTAC
1 AGCCACAAAGGCTTTCACATATCTAATAAC
** *
56893425 AGCCACAAATACTTTCACATATCTAATAAT
1 AGCCACAAAGGCTTTCACATATCTAATAAC
* *
56893455 AGCCATAAAGGTTTTCACAT
1 AGCCACAAAGGCTTTCACAT
56893475 TTCGATAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.29
Consensus pattern (30 bp):
AGCCACAAAGGCTTTCACATATCTAATAAC
Found at i:56894446 original size:34 final size:34
Alignment explanation
Indices: 56894403--56894469 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
56894393 ATAGGCAGAG
* *
56894403 AATACTTCCTGAAGAAGTAATGTGCAATTCCCAA
1 AATACTTCCTGAAGAAGTAATGCGCAACTCCCAA
*
56894437 AATACTTCCTGATGAAGTAATGCGCAACTCCCA
1 AATACTTCCTGAAGAAGTAATGCGCAACTCCCA
56894470 GCACTTATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (34 bp):
AATACTTCCTGAAGAAGTAATGCGCAACTCCCAA
Found at i:56901449 original size:7 final size:8
Alignment explanation
Indices: 56901425--56901454 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
56901415 TTGTATTTAA
*
56901425 TTAATTTT
1 TTAAATTT
56901433 TTAAATTT
1 TTAAATTT
56901441 TTAAATTT
1 TTAAATTT
56901449 TTAAAT
1 TTAAAT
56901455 ATTAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TTAAATTT
Found at i:56901509 original size:19 final size:19
Alignment explanation
Indices: 56901487--56901536 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
56901477 ATTTATACAT
56901487 TTTTAACAATTTT-AATAAA
1 TTTTAA-AATTTTAAATAAA
*
56901506 TTTT-AAATTTTAAAATAAT
1 TTTTAAAATTTT-AAATAAA
56901525 TTTTAAAATTTT
1 TTTTAAAATTTT
56901537 TTAAAACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.22
18 1 0.04
19 13 0.48
20 7 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAAAATTTTAAATAAA
Found at i:56901872 original size:3 final size:3
Alignment explanation
Indices: 56901864--56901898 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
56901854 AGATTTTAGA
*
56901864 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56901899 ATTTAGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:56903445 original size:51 final size:51
Alignment explanation
Indices: 56903390--56903509 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
56903380 GATTGACCTT
* * * *
56903390 TGCCCATGTGGCCCACACAGCCTGGCCCAATGTCTACACGCCCGTGTGTCA
1 TGCCCATGTGGCCCACACAGCCTGGCCCAAAGACCACACGCCCGTGTATCA
*
56903441 TGCCCATGTGGCCCACACAGCCTGGCCCAAAGACCACACGCCCTTGTATCA
1 TGCCCATGTGGCCCACACAGCCTGGCCCAAAGACCACACGCCCGTGTATCA
*
56903492 TGCCCGTGTGGCCCACAC
1 TGCCCATGTGGCCCACAC
56903510 GGCCACACTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.19, C:0.41, G:0.23, T:0.17
Consensus pattern (51 bp):
TGCCCATGTGGCCCACACAGCCTGGCCCAAAGACCACACGCCCGTGTATCA
Found at i:56911440 original size:20 final size:21
Alignment explanation
Indices: 56911415--56911454 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56911405 CACTTGAAGT
56911415 AGGGC-ACACGCCC-GTGTGGA
1 AGGGCAACAC-CCCTGTGTGGA
56911435 AGGGCAACACCCCTGTGTGG
1 AGGGCAACACCCCTGTGTGG
56911455 CTATTAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGCAACACCCCTGTGTGGA
Found at i:56912769 original size:46 final size:44
Alignment explanation
Indices: 56912683--56912799 Score: 128
Period size: 46 Copynumber: 2.6 Consensus size: 44
56912673 ACATATCCGT
* *
56912683 GCCGATGCCATGTCCCAGCCATGGTCTTACATTGACACATCTCGTA-
1 GCCGATG-CATATCCCAGACAT-GTCTTACATTGACACATCTCG-AG
* *
56912729 GCCGATGCATATCCCGGACATGTCTTACATTGGCTTACATCTCGAG
1 GCCGATGCATATCCCAGACATGTCTTACATTGAC--ACATCTCGAG
* *
56912775 GCTGATGCATATCCCAAACATGTCT
1 GCCGATGCATATCCCAGACATGTCT
56912800 AACACTAGCT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
44 12 0.20
45 12 0.20
46 37 0.61
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCGATGCATATCCCAGACATGTCTTACATTGACACATCTCGAG
Found at i:56919604 original size:31 final size:31
Alignment explanation
Indices: 56919562--56919624 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
56919552 GAGAATCAGT
56919562 TGGCTAAAGAATGAGGAAGATGACAACCATC
1 TGGCTAAAGAATGAGGAAGATGACAACCATC
* *
56919593 TGGCTAGAGAATGAGGAAGATGACAACTATC
1 TGGCTAAAGAATGAGGAAGATGACAACCATC
56919624 T
1 T
56919625 TCATCTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (31 bp):
TGGCTAAAGAATGAGGAAGATGACAACCATC
Found at i:56920462 original size:27 final size:27
Alignment explanation
Indices: 56920426--56920515 Score: 80
Period size: 28 Copynumber: 3.4 Consensus size: 27
56920416 TCATAACAAA
56920426 AAAAAT-TAAAAA-AATAAAAATCAAT
1 AAAAATATAAAAATAATAAAAATCAAT
* * * *
56920451 AAAAGTTATAAAAATATTAAAATTTAAT
1 AAAA-ATATAAAAATAATAAAAATCAAT
*
56920479 AAAAATATAAAAATATATTAAAAAT-TAT
1 AAAAATATAAAAATA-A-TAAAAATCAAT
56920507 AAAAA-ATAA
1 AAAAATATAA
56920516 CAAAATTGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
25 4 0.08
26 1 0.02
27 20 0.38
28 21 0.40
29 6 0.12
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.28
Consensus pattern (27 bp):
AAAAATATAAAAATAATAAAAATCAAT
Found at i:56920471 original size:9 final size:9
Alignment explanation
Indices: 56920424--56920514 Score: 51
Period size: 10 Copynumber: 9.8 Consensus size: 9
56920414 TGTCATAACA
*
56920424 AAAAAAATT
1 AAAAATATT
*
56920433 AAAAA-AAT
1 AAAAATATT
*
56920441 AAAAATCAAT
1 AAAAAT-ATT
*
56920451 AAAAGT-TAT
1 AAAAATAT-T
56920460 AAAAATATT
1 AAAAATATT
* *
56920469 AAAATTTAAT
1 AAAA-ATATT
*
56920479 AAAAATATA
1 AAAAATATT
56920488 AAAATATATT
1 AAAA-ATATT
*
56920498 AAAAATTATA
1 AAAAA-TATT
56920508 AAAAATA
1 AAAAATA
56920515 ACAAAATTGT
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
8 7 0.11
9 25 0.39
10 32 0.50
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAATATT
Found at i:56920471 original size:18 final size:18
Alignment explanation
Indices: 56920438--56920547 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 18
56920428 AAATTAAAAA
56920438 AATAAAAATCAATAAAAGTT
1 AATAAAAAT--ATAAAAGTT
*
56920458 -ATAAAAATATTAAAATTT
1 AATAAAAATA-TAAAAGTT
*
56920476 AATAAAAATATAAAAATAT
1 AATAAAAATATAAAAGT-T
* **
56920495 ATTAAAAATTATAAAAAAT
1 AATAAAAA-TATAAAAGTT
* * * *
56920514 AACAAAATTGTAAAATTT
1 AATAAAAATATAAAAGTT
*
56920532 TATAAAAATCATAAAA
1 AATAAAAAT-ATAAAA
56920548 AATTATAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
17 1 0.01
18 26 0.37
19 36 0.51
20 8 0.11
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (18 bp):
AATAAAAATATAAAAGTT
Found at i:56920512 original size:10 final size:10
Alignment explanation
Indices: 56920469--56920557 Score: 62
Period size: 10 Copynumber: 9.2 Consensus size: 10
56920459 TAAAAATATT
56920469 AAAATT-TAA
1 AAAATTATAA
*
56920478 TAAAAATAT-A
1 -AAAATTATAA
*
56920488 AAAATATATTA
1 AAAAT-TATAA
56920499 AAAATTATAA
1 AAAATTATAA
*
56920509 AAAA-TA-AC
1 AAAATTATAA
*
56920517 AAAATTGTAA
1 AAAATTATAA
**
56920527 AATTTTAT-A
1 AAAATTATAA
*
56920536 AAAATCATAA
1 AAAATTATAA
56920546 AAAATTATAA
1 AAAATTATAA
56920556 AA
1 AA
56920558 TGAAAAAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
8 5 0.08
9 13 0.22
10 35 0.58
11 7 0.12
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.30
Consensus pattern (10 bp):
AAAATTATAA
Found at i:56920549 original size:29 final size:28
Alignment explanation
Indices: 56920460--56920558 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 28
56920450 TAAAAGTTAT
*
56920460 AAAAATATTAAAATTTAATAAAAATATA
1 AAAAATATTAAAATTTTATAAAAATATA
*
56920488 AAAATATATTAAAA-ATTATAAAAA-ATA
1 AAAA-ATATTAAAATTTTATAAAAATATA
56920515 ACAAAAT-TGTAAAATTTTATAAAAATCATA
1 A-AAAATAT-TAAAATTTTATAAAAAT-ATA
56920545 AAAAAT-TATAAAAT
1 AAAAATAT-TAAAAT
56920559 GAAAAAAAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 11 0.18
28 24 0.39
29 21 0.34
30 4 0.07
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (28 bp):
AAAAATATTAAAATTTTATAAAAATATA
Found at i:56920557 original size:9 final size:9
Alignment explanation
Indices: 56920426--56920557 Score: 87
Period size: 9 Copynumber: 14.4 Consensus size: 9
56920416 TCATAACAAA
56920426 AAAAATTA-
1 AAAAATTAT
56920434 AAAAA--AT
1 AAAAATTAT
*
56920441 AAAAATCAAT
1 AAAAAT-TAT
*
56920451 AAAAGTTAT
1 AAAAATTAT
56920460 AAAAA-TATT
1 AAAAATTA-T
*
56920469 AAAATTTAAT
1 AAAAATT-AT
56920479 AAAAA-TAT
1 AAAAATTAT
56920487 AAAAATATATT
1 AAAAAT-TA-T
56920498 AAAAATTAT
1 AAAAATTAT
*
56920507 AAAAAATA-
1 AAAAATTAT
*
56920515 ACAAAATTGT
1 A-AAAATTAT
*
56920525 AAAATTTTAT
1 AAAA-ATTAT
*
56920535 AAAAATCAT
1 AAAAATTAT
56920544 AAAAAATTAT
1 -AAAAATTAT
56920554 AAAA
1 AAAA
56920558 TGAAAAAAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
6 1 0.01
7 5 0.05
8 15 0.15
9 35 0.36
10 33 0.34
11 8 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:56920763 original size:20 final size:20
Alignment explanation
Indices: 56920738--56920852 Score: 81
Period size: 20 Copynumber: 5.5 Consensus size: 20
56920728 TTAATATAAT
56920738 AATTTTATAATTTTTTTATG
1 AATTTTATAATTTTTTTATG
* **
56920758 AATTTTAT-ATTTATTTACA
1 AATTTTATAATTTTTTTATG
*
56920777 AATTTTATAATTTTCTTATG
1 AATTTTATAATTTTTTTATG
* * *
56920797 ACTTTAGAAAATTTTACATTTCTAT-
1 AATTT-TATAA-TTT---TTT-TATG
56920822 ATATTTTATAATTTTTTTATG
1 A-ATTTTATAATTTTTTTATG
*
56920843 ATTTTTATAA
1 AATTTTATAA
56920853 AATTTTACAA
Statistics
Matches: 71, Mismatches: 15, Indels: 18
0.68 0.14 0.17
Matches are distributed among these distances:
19 16 0.23
20 30 0.42
21 7 0.10
22 3 0.04
24 3 0.04
25 6 0.08
26 6 0.08
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.59
Consensus pattern (20 bp):
AATTTTATAATTTTTTTATG
Found at i:56920774 original size:19 final size:19
Alignment explanation
Indices: 56920738--56920785 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
56920728 TTAATATAAT
* **
56920738 AATTTTATAATTTTTTTATG
1 AATTTTAT-ATTTATTTACA
56920758 AATTTTATATTTATTTACA
1 AATTTTATATTTATTTACA
56920777 AATTTTATA
1 AATTTTATA
56920786 ATTTTCTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTATATTTATTTACA
Found at i:56920837 original size:9 final size:9
Alignment explanation
Indices: 56920825--56920918 Score: 53
Period size: 9 Copynumber: 9.7 Consensus size: 9
56920815 TTTCTATATA
56920825 TTTTATAATTT
1 TTTTATAA--T
*
56920836 TTTTATGAT
1 TTTTATAAT
*
56920845 TTTTATAAAA
1 TTTTAT-AAT
*
56920855 TTTTACAACT
1 TTTTATAA-T
56920865 TTTTATAAATT
1 TTTTAT-AA-T
*
56920876 TTTTAAAATT
1 TTTTATAA-T
*
56920886 TTTTAAAAT
1 TTTTATAAT
* *
56920895 TTTAATATT
1 TTTTATAAT
*
56920904 TTTTATAGT
1 TTTTATAAT
56920913 TTTTAT
1 TTTTAT
56920919 TAAAATTTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
9 29 0.43
10 23 0.34
11 15 0.22
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:56920838 original size:10 final size:10
Alignment explanation
Indices: 56920825--56920916 Score: 64
Period size: 10 Copynumber: 9.3 Consensus size: 10
56920815 TTTCTATATA
56920825 TTTTATAATTT
1 TTTTATAA-TT
*
56920836 TTTTATGA-T
1 TTTTATAATT
**
56920845 TTTTATAAAA
1 TTTTATAATT
* *
56920855 TTTTACAACT
1 TTTTATAATT
56920865 TTTTATAAATT
1 TTTTAT-AATT
*
56920876 TTTTAAAATT
1 TTTTATAATT
*
56920886 TTTTA-AAAT
1 TTTTATAATT
*
56920895 TTTAAT-ATT
1 TTTTATAATT
*
56920904 TTTTATAGTT
1 TTTTATAATT
56920914 TTT
1 TTT
56920917 ATTAAAATTT
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
9 22 0.35
10 26 0.41
11 15 0.24
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:56920858 original size:20 final size:20
Alignment explanation
Indices: 56920825--56920910 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
56920815 TTTCTATATA
** *
56920825 TTTTATAATTTTTTTATGAT
1 TTTTATAAAATTTTTATAAT
*
56920845 TTTTATAAAA-TTTTACAACT
1 TTTTATAAAATTTTTATAA-T
* *
56920865 TTTTATAAATTTTTTAAAAT
1 TTTTATAAAATTTTTATAAT
* *
56920885 TTTT-TAAAATTTTAATATT
1 TTTTATAAAATTTTTATAAT
56920904 TTTTATA
1 TTTTATA
56920911 GTTTTTATTA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 21 0.40
20 25 0.47
21 7 0.13
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (20 bp):
TTTTATAAAATTTTTATAAT
Found at i:56920924 original size:30 final size:29
Alignment explanation
Indices: 56920884--56920940 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
56920874 TTTTTTAAAA
56920884 TTTTTTAAAATTTTAATA-TTTTTTATAGT
1 TTTTTTAAAA-TTTAATAGTTTTTTATAGT
56920913 TTTTATTAAAATTTAATAGTTTTTTATA
1 TTTT-TTAAAATTTAATAGTTTTTTATA
56920941 ACATTTATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (29 bp):
TTTTTTAAAATTTAATAGTTTTTTATAGT
Found at i:56920954 original size:20 final size:21
Alignment explanation
Indices: 56920908--56920956 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
56920898 AATATTTTTT
56920908 ATAG-TTTTTATTAAAATTTA
1 ATAGTTTTTTATTAAAATTTA
*
56920928 ATAGTTTTTTA-TAACATTTA
1 ATAGTTTTTTATTAAAATTTA
* *
56920948 TTGGTTTTT
1 ATAGTTTTT
56920957 GTTATTTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (21 bp):
ATAGTTTTTTATTAAAATTTA
Found at i:56921838 original size:17 final size:18
Alignment explanation
Indices: 56921806--56921839 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56921796 AAAGAAATTT
*
56921806 CTTTTACCTTCCCCAAAA
1 CTTTTACCTACCCCAAAA
56921824 CTTTTA-CTACCCCAAA
1 CTTTTACCTACCCCAAA
56921840 CCTCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.32
Consensus pattern (18 bp):
CTTTTACCTACCCCAAAA
Found at i:56921873 original size:55 final size:54
Alignment explanation
Indices: 56921803--56921916 Score: 158
Period size: 55 Copynumber: 2.1 Consensus size: 54
56921793 AAAAAAGAAA
56921803 TTTCTTTTACCTTCCCCAAAACTTTTACTAC-CCCAAACCTCCCAAAACTTTTTCT
1 TTTCTTTTACCTTCCCCAAAACTTTTACTACTCCCAAACC-CCCAAAACTTTTT-T
* * * *
56921858 TTTCTTTTGCTTTCCCCAAAACTTTTACTTCTTCCTAAACCCCCAAAACTTTTTT
1 TTTCTTTTACCTTCCCCAAAACTTTTACTAC-TCCCAAACCCCCAAAACTTTTTT
56921913 TTTC
1 TTTC
56921917 GAATTTATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
55 33 0.62
56 13 0.25
57 7 0.13
ACGTcount: A:0.23, C:0.33, G:0.01, T:0.43
Consensus pattern (54 bp):
TTTCTTTTACCTTCCCCAAAACTTTTACTACTCCCAAACCCCCAAAACTTTTTT
Found at i:56922668 original size:16 final size:15
Alignment explanation
Indices: 56922647--56922694 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
56922637 GATGTGAATA
56922647 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
56922663 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
56922678 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
56922694 A
1 A
56922695 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:56922670 original size:24 final size:24
Alignment explanation
Indices: 56922643--56922698 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
56922633 TAATGATGTG
*
56922643 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
56922667 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
56922691 AATAATAA
1 AATAATAA
56922699 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:56922677 original size:8 final size:8
Alignment explanation
Indices: 56922643--56922694 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
56922633 TAATGATGTG
*
56922643 AATAATAA
1 AATATTAA
56922651 AATATATAA
1 AATAT-TAA
56922660 AATA-TAA
1 AATATTAA
56922667 AATATTAA
1 AATATTAA
*
56922675 AATATCAA
1 AATATTAA
*
56922683 AATATTAG
1 AATATTAA
56922691 AATA
1 AATA
56922695 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:56931329 original size:158 final size:158
Alignment explanation
Indices: 56931041--56931355 Score: 603
Period size: 158 Copynumber: 2.0 Consensus size: 158
56931031 CATGAGACTC
56931041 ACAAAAACTGTGACCTTTTGCATCTTTTCCTTCGAATACTCCGTCAAGACGATAGAGCAACTCTT
1 ACAAAAACTGTGACCTTTTGCATCTTTTCCTTCGAATACTCCGTCAAGACGATAGAGCAACTCTT
*
56931106 TTTCAACTAGTACCTCCCAGATTTTCTGCAGAGGTGTTCTTATTTCAGAAACCCATCTTCTACTT
66 TTTCAACTAGTACCTCCCAGATTTTCTGCAGAGGTGTTCTTATTTCAGAAACCCATATTCTACTT
56931171 TGCCGTTCATTTTCCTCTCCTACTGCGT
131 TGCCGTTCATTTTCCTCTCCTACTGCGT
56931199 ACAAAAACTGTGACCTTTTGCATCTTTTCCTTCGAATACTCCGTCAAGACGATAGAGCAACTCTT
1 ACAAAAACTGTGACCTTTTGCATCTTTTCCTTCGAATACTCCGTCAAGACGATAGAGCAACTCTT
*
56931264 TTTCAACTAGTACCTCCCAGATTTTCTGCAGAGGTGTTCTTATTTCAGAAACCCATATTTTACTT
66 TTTCAACTAGTACCTCCCAGATTTTCTGCAGAGGTGTTCTTATTTCAGAAACCCATATTCTACTT
*
56931329 TTCCGTTCATTTTCCTCTCCTACTGCG
131 TGCCGTTCATTTTCCTCTCCTACTGCG
56931356 CTCACATTCC
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 154 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (158 bp):
ACAAAAACTGTGACCTTTTGCATCTTTTCCTTCGAATACTCCGTCAAGACGATAGAGCAACTCTT
TTTCAACTAGTACCTCCCAGATTTTCTGCAGAGGTGTTCTTATTTCAGAAACCCATATTCTACTT
TGCCGTTCATTTTCCTCTCCTACTGCGT
Found at i:56935490 original size:18 final size:18
Alignment explanation
Indices: 56935439--56935491 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
56935429 GGAGTTGGTG
*
56935439 GTGGAAAAGGAGTGGCTA
1 GTGGAAAAGGTGTGGCTA
56935457 GTGG---A-GT-TGG-TA
1 GTGGAAAAGGTGTGGCTA
56935469 GTGGAAAAGGTGTGGCTA
1 GTGGAAAAGGTGTGGCTA
56935487 GTGGA
1 GTGGA
56935492 GTTGGTGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 12
0.68 0.02 0.29
Matches are distributed among these distances:
12 6 0.21
13 3 0.11
14 1 0.04
15 2 0.07
16 2 0.07
17 3 0.11
18 11 0.39
ACGTcount: A:0.26, C:0.04, G:0.47, T:0.23
Consensus pattern (18 bp):
GTGGAAAAGGTGTGGCTA
Found at i:56935494 original size:30 final size:30
Alignment explanation
Indices: 56935344--56935524 Score: 222
Period size: 30 Copynumber: 6.0 Consensus size: 30
56935334 TAGGTACAAG
* *
56935344 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
56935374 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
56935404 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
56935434 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
56935464 TGGTAGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
56935494 TGGTGGTGGAAAAGGAGTGGCTAGTTGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
56935524 T
1 T
56935525 CAATTTTACA
Statistics
Matches: 133, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
29 2 0.02
30 131 0.98
ACGTcount: A:0.22, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:56936483 original size:20 final size:20
Alignment explanation
Indices: 56936460--56936500 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56936450 ATTCAATCCC
*
56936460 TTTACTTTTAATTTCAAAAT
1 TTTACTTTTAATTTAAAAAT
* *
56936480 TTTAGTTTTGATTTAAAAAT
1 TTTACTTTTAATTTAAAAAT
56936500 T
1 T
56936501 AAAGTCCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTTTAATTTAAAAAT
Found at i:56939299 original size:42 final size:42
Alignment explanation
Indices: 56939240--56939326 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
56939230 TAATTCCATT
56939240 TCAAAACCACTTGAATTGTTTGATTCACCATCATCATTATCA
1 TCAAAACCACTTGAATTGTTTGATTCACCATCATCATTATCA
*
56939282 TCAAAACCAGTTGAATTGTTTGATTCACCATCATCATTATCA
1 TCAAAACCACTTGAATTGTTTGATTCACCATCATCATTATCA
56939324 TCA
1 TCA
56939327 TCACTTTCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (42 bp):
TCAAAACCACTTGAATTGTTTGATTCACCATCATCATTATCA
Found at i:56941486 original size:21 final size:19
Alignment explanation
Indices: 56941454--56941492 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
56941444 TTGAGAGTTG
*
56941454 AAAAAAGAATAAAGAATAT
1 AAAAAAGAATAAAAAATAT
56941473 AAAAAAGACTATAAAAAATA
1 AAAAAAGA--ATAAAAAATA
56941493 CAATGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.74, C:0.03, G:0.08, T:0.15
Consensus pattern (19 bp):
AAAAAAGAATAAAAAATAT
Found at i:56946259 original size:47 final size:45
Alignment explanation
Indices: 56946188--56946448 Score: 199
Period size: 47 Copynumber: 5.6 Consensus size: 45
56946178 TGATTTGTGC
*
56946188 GCCAGTGTAAGACATGTCTGGGACATGCTTTGGTCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGG-CACATTATGAGA
* * * ** *
56946234 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCACA-TTATGAGA
* * *
56946282 GCCAGAGTAAGACATGTCTGAGACATGCATTGGC-C-TTGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCACATT-A-TGAG--A
* * * * *
56946329 GCCAGTGTAAGACGTGTCTGGGACACGCATTGGCTA-A-GA-GTCGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGGC-ACATTATG-AGA
* **
56946373 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCA--CAT-TATGAGA
56946421 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
56946449 GCATCCACAA
Statistics
Matches: 165, Mismatches: 32, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.01
44 30 0.18
45 4 0.02
46 20 0.12
47 60 0.36
48 34 0.21
49 16 0.10
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATTGGCACATTATGAGA
Found at i:56946398 original size:91 final size:94
Alignment explanation
Indices: 56946188--56946453 Score: 280
Period size: 94 Copynumber: 2.8 Consensus size: 94
56946178 TGATTTGTGC
* *
56946188 GCCAGTGTAAGACATGTCTGGGACATGCTTTGGTCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGGTCACATTAAGAGAGCCAGTGTAAGACCATGTC
*
56946253 TGGGACATGGCATCGGTATAGAGATGAGT
66 TGGGACATCGCATCGGTATAGAGATGAGT
* * *
56946282 GCCAGAGTAAGACATGTCTGAGACATGCATTGG-C-C-TTGACAGAGATAGCCAGTGTAAGA-CG
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGGTCACATT-A-AGAG--AGCCAGTGTAAGACCA
* *
56946343 TGTCTGGGACA-CGCATTGGCTA-AGAG-T-CGT
62 TGTCTGGGACATCGCATCGG-TATAGAGATGAGT
* ** *
56946373 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGCATATATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATTGGTCA--CAT-TAAGAGAGCCAGTGTAAGACCAT
*
56946437 GTCTGGGACATGGCATC
63 GTCTGGGACATCGCATC
56946454 CACAATACAT
Statistics
Matches: 143, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
91 33 0.23
92 16 0.11
93 26 0.18
94 52 0.36
95 15 0.10
96 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATTGGTCACATTAAGAGAGCCAGTGTAAGACCATGTC
TGGGACATCGCATCGGTATAGAGATGAGT
Found at i:56961372 original size:21 final size:21
Alignment explanation
Indices: 56961347--56961395 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
56961337 AAAATATAGT
56961347 TTAAAAATAATTTAATATTAA-A
1 TTAAAAATAA-TT-ATATTAATA
56961369 -TAAAAATAATTATATTAATA
1 TTAAAAATAATTATATTAATA
56961389 TTAAAAA
1 TTAAAAA
56961396 AACCCCTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.28
20 3 0.12
21 15 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAATAATTATATTAATA
Found at i:56961976 original size:26 final size:24
Alignment explanation
Indices: 56961922--56961977 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
56961912 TAAAAAAAAC
* *
56961922 AATATTAATATAATTATTTTATTT
1 AATATTAATATAAATATTTTAATT
56961946 AATATTAATATAAAAATATTTTTAATT
1 AATATTAATAT--AAATA-TTTTAATT
56961973 -ATATT
1 AATATT
56961978 TCAATGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 11 0.41
26 9 0.33
27 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
AATATTAATATAAATATTTTAATT
Found at i:56972342 original size:20 final size:20
Alignment explanation
Indices: 56972317--56972363 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
56972307 GTTTTAATAT
56972317 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
56972337 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56972357 ACATGAT
1 ACATGAT
56972364 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56972439 original size:26 final size:26
Alignment explanation
Indices: 56972411--56972506 Score: 135
Period size: 25 Copynumber: 3.8 Consensus size: 26
56972401 AGGAAGTGCA
*
56972411 AAAAGGGC-TATGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
* **
56972436 AAAAGGGCTTTTGCCCTAGTTTA-TT
1 AAAAGGGCTTTTGCCCCAGTTTACCG
56972461 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
56972487 AAAAGGGC-TTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
56972507 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
25 42 0.68
26 20 0.32
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:56972486 original size:51 final size:49
Alignment explanation
Indices: 56972411--56972519 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 49
56972401 AGGAAGTGCA
*
56972411 AAAAGGGC-TATGCCCCAGTTTACCGAAAAGGGCTTTTGCCCTAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGC-TTTGCCCCAG-TTATT
*
56972461 AAAAGGGCTTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
56972510 AAAAGAGGCT
1 AAAAG-GGCT
56972520 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
49 10 0.18
50 21 0.38
51 24 0.44
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
Found at i:56972791 original size:7 final size:7
Alignment explanation
Indices: 56972779--56972820 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
56972769 GGCCTAGTGT
56972779 TATGAAA
1 TATGAAA
56972786 TATGAAA
1 TATGAAA
56972793 TATGAAA
1 TATGAAA
56972800 TATGAAA
1 TATGAAA
56972807 TATGAAA
1 TATGAAA
56972814 TATGAAA
1 TATGAAA
56972821 AGGCTTCGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:56981425 original size:28 final size:28
Alignment explanation
Indices: 56981337--56981427 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
56981327 ATCCATACTT
* * *
56981337 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
56981366 ATTCATATGGCCCATT-GGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* * *
56981393 TTTCATATGGCCCGTTAGGCCTAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
56981421 ATTCATA
1 ATTCATA
56981428 GTCATGCAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 24 0.44
28 21 0.39
29 9 0.17
ACGTcount: A:0.23, C:0.31, G:0.14, T:0.32
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:56987460 original size:19 final size:19
Alignment explanation
Indices: 56987433--56987469 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56987423 NNNNNNNNNN
* *
56987433 CACATATATATATATATTA
1 CACACATATACATATATTA
56987452 CACACATATACATATATT
1 CACACATATACATATATT
56987470 CGCACATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:56993978 original size:9 final size:9
Alignment explanation
Indices: 56993950--56993999 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
56993940 GTTATCGTGG
*
56993950 AATTTAATA
1 AATTTAATT
*
56993959 AAATT-ATT
1 AATTTAATT
56993967 AATTTAATT
1 AATTTAATT
*
56993976 AATTTAATG
1 AATTTAATT
*
56993985 AAATT-ATT
1 AATTTAATT
56993993 AATTTAA
1 AATTTAA
56994000 ATCAAGAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
8 12 0.38
9 20 0.62
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (9 bp):
AATTTAATT
Found at i:56993982 original size:26 final size:26
Alignment explanation
Indices: 56993950--56993999 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
56993940 GTTATCGTGG
56993950 AATTTAATAAAATTATTAATTTAATT
1 AATTTAATAAAATTATTAATTTAATT
*
56993976 AATTTAATGAAATTATTAATTTAA
1 AATTTAATAAAATTATTAATTTAA
56994000 ATCAAGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTTAATAAAATTATTAATTTAATT
Found at i:56995487 original size:22 final size:26
Alignment explanation
Indices: 56995443--56995492 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
56995433 TTACATTGTA
56995443 TGCCCATTGGAGTTTCTTCATTCATC
1 TGCCCATTGGAGTTTCTTCATTCATC
** *
56995469 TGCCCATTGGTTTTTATTCATTCA
1 TGCCCATTGGAGTTTCTTCATTCA
56995493 CATCATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (26 bp):
TGCCCATTGGAGTTTCTTCATTCATC
Found at i:56996972 original size:20 final size:20
Alignment explanation
Indices: 56996923--56996979 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
56996913 AGTTTATGTG
* * *
56996923 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
56996943 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
56996963 AAGTAAATGGAGTGGTA
1 AAGTAAATGGAATGGTA
56996980 CATAGTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:57003194 original size:48 final size:48
Alignment explanation
Indices: 57003139--57003307 Score: 225
Period size: 48 Copynumber: 3.6 Consensus size: 48
57003129 TGATATGTGT
* * *
57003139 GCTAGTGTAAGATATGTCTGGGACATGCATCGGCCTCGAGATATACCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAA
* * * * *
57003187 GCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACA-A-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAA
* *
57003233 GCTAGTGTAAGACATGTCTAGGACATGCATCGATCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAA
*
57003281 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
57003308 GCGTCAGCTT
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
46 38 0.37
47 2 0.02
48 63 0.61
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACAA
Found at i:57003395 original size:49 final size:49
Alignment explanation
Indices: 57003331--57003454 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
57003321 GTGTATCAAT
* *
57003331 GTAAGACTTGTCTGGGACATGGCATC-GACATCGATAGATGAGAGCCAGC
1 GTAAGACCTGTCTGGGACATGGCATCGGAC-TCGATAGATGAAAGCCAGC
* * * * *
57003380 GTAAGACCTGTCTGGGACACGGCATCGGTCTCGATATATGAAAGTCAGT
1 GTAAGACCTGTCTGGGACATGGCATCGGACTCGATAGATGAAAGCCAGC
* *
57003429 GTAAGACCTGTCTAGGACATGACATC
1 GTAAGACCTGTCTGGGACATGGCATC
57003455 AACTTTGATG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 62 0.97
50 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
GTAAGACCTGTCTGGGACATGGCATCGGACTCGATAGATGAAAGCCAGC
Found at i:57003405 original size:142 final size:138
Alignment explanation
Indices: 57003192--57003495 Score: 342
Period size: 142 Copynumber: 2.1 Consensus size: 138
57003182 TACCAGCCAG
* * *
57003192 TGTAAGACATGTCTGGGACATGCATCGACATTGAGACAAGAGCTAGTGTAAGACATGTCTAGGAC
1 TGTAAGACATGTCTGGGACATGCATCGACATCGAGACAAGAGCCAGCGTAAGACATGTCTAGGAC
* *
57003257 ATGCATCGATCTCGAGATAT-ACAAG-CTAGTGTAAGACCTGTCTGGGACATGGCGTCAGCTTGT
66 AGGCATCGATCTCGAGATATGA-AAGTC-AGTGTAAGACCTGTCTAGGACATGGCGTCAGCTTGT
57003320 TGTGTATCAA
129 TGTGTATCAA
* ** * *
57003330 TGTAAGACTTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGCGTAAGACCTGTCTGG
1 TGTAAGACATGTCTGGGACAT-GCATCGACATCG--AGACAAGAGCCAGCGTAAGACATGTCTAG
* * * * *
57003395 GACACGGCATCGGTCTCGATATATGAAAGTCAGTGTAAGACCTGTCTAGGACATGACATCAACTT
63 GACA-GGCATCGATCTCGAGATATGAAAGTCAGTGTAAGACCTGTCTAGGACATGGCGTCAGC-T
* *
57003460 TGATGTGCTAACCAA
126 TGTTGTG-T-ATCAA
*
57003475 TGTAAGACCATGTCTAGGACA
1 TGTAAGA-CATGTCTGGGACA
57003496 AGGCGTCGGC
Statistics
Matches: 137, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
138 20 0.15
139 11 0.08
141 27 0.20
142 47 0.34
143 9 0.07
144 1 0.01
145 11 0.08
146 11 0.08
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (138 bp):
TGTAAGACATGTCTGGGACATGCATCGACATCGAGACAAGAGCCAGCGTAAGACATGTCTAGGAC
AGGCATCGATCTCGAGATATGAAAGTCAGTGTAAGACCTGTCTAGGACATGGCGTCAGCTTGTTG
TGTATCAA
Found at i:57009645 original size:13 final size:13
Alignment explanation
Indices: 57009627--57009653 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57009617 TGAATTAGTA
57009627 TGTGTGAAAATTT
1 TGTGTGAAAATTT
57009640 TGTGTGAAAATTT
1 TGTGTGAAAATTT
57009653 T
1 T
57009654 ATCGTTTGTG
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:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:57010804 original size:44 final size:42
Alignment explanation
Indices: 57010742--57010872 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
57010732 ATCCGATATG
* * *
57010742 TGATTTCATGTACGACCATGTCTTGG-ACGTTGGCATCG-ACTT
1 TGATTTCGTGTAAGACCATGTC-TGGTACATTGGCATCGTA-TT
57010784 ATGATTTACGTGTAAGACCATGTCTGGTACATTGGCATCGTATT
1 -TGATTT-CGTGTAAGACCATGTCTGGTACATTGGCATCGTATT
* * *
57010828 TGATTTCGTGTAAGACCCTATCTGAG-ACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTG-GTACATTGGCATCG-TATT
57010871 TG
1 TG
57010873 GTTACATCTA
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
42 27 0.35
43 22 0.29
44 27 0.35
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGTACATTGGCATCGTATT
Found at i:57011459 original size:23 final size:24
Alignment explanation
Indices: 57011433--57011478 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
57011423 TGCCATGTGA
* *
57011433 TATGGCTTGGTTTTTGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
57011456 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
57011479 AATGTGATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.17, C:0.02, G:0.26, T:0.54
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:57016247 original size:48 final size:48
Alignment explanation
Indices: 57016138--57016451 Score: 230
Period size: 46 Copynumber: 6.6 Consensus size: 48
57016128 GTGATTGTGT
* * * *
57016138 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACTAG--AT-GAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATGGA-A
* * **
57016184 GCTAGTGTAAAACATGTTTGGGACATGCATAGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATGGAA
* * ** * * * *
57016232 GCCAGTGTAAGACATGTCTGGGACATGCATCGGTATTG-GGT-CGGGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATGGAA
* * *
57016278 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGCGATA-GACAA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATG-GAA
* * * * *
57016326 GCTAGTGTAAGACCTATTTGGGACATGGCATCGACAC-CGATAGAT-GAGA
1 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGC-CTCGAGATATGGA-A
* * * * ** *
57016375 GCCAGTGTAAGACCTATCTGGGACATGGCATCGGCCTCGCTATATGAAA
1 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCTCGAGATATGGAA
57016424 GCTAGTGTAAGACCATGTTTGGGACATG
1 GCTAGTGTAAGA-CATGTTTGGGACATG
57016452 GCGTCGGCAT
Statistics
Matches: 209, Mismatches: 46, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
46 67 0.32
47 5 0.02
48 61 0.29
49 63 0.30
50 13 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATGGAA
Found at i:57016302 original size:94 final size:94
Alignment explanation
Indices: 57016141--57016451 Score: 288
Period size: 94 Copynumber: 3.3 Consensus size: 94
57016131 ATTGTGTGCT
57016141 AGTGTAAGACATGTCTGGGACATGCATCGACCACTAGATGAGAGCTAGTGTAAAACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACTAGATGAGAGCTAGTGTAAAACATGTTTGGG
***
57016206 ACATGCAT-AGGCCTCGAGATATTTAAGCC
66 ACATGCATCA-GCCTCGAGATAGACAAGCC
** * * * * *
57016235 AGTGTAAGACATGTCTGGGACATGCATCG-GTATTGGGTCGGGAGCTAGTGTAAGACATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACTAGAT-GAGAGCTAGTGTAAAACATGTTTGG
* *
57016299 GACATGCATCAGCCTCGCGATAGACAAGCT
65 GACATGCATCAGCCTCGAGATAGACAAGCC
* * * * * * * *
57016329 AGTGTAAGACCTATTTGGGACATGGCATCGA-CACCGATAGATGAGAGCCAGTGTAAGACCTATC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACCA-C--TAGATGAGAGCTAGTGTAAAACATGTT
* ** *
57016393 TGGGACATGGCATCGGCCTCGCTATATGA-AAGCT
62 TGGGACAT-GCATCAGCCTCGAGATA-GACAAGCC
*
57016427 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
57016452 GCGTCGGCAT
Statistics
Matches: 179, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
93 4 0.02
94 95 0.53
95 8 0.04
97 25 0.14
98 33 0.18
99 14 0.08
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACTAGATGAGAGCTAGTGTAAAACATGTTTGGG
ACATGCATCAGCCTCGAGATAGACAAGCC
Found at i:57016386 original size:49 final size:49
Alignment explanation
Indices: 57016276--57016453 Score: 184
Period size: 49 Copynumber: 3.6 Consensus size: 49
57016266 ATTGGGTCGG
* * * *
57016276 GAGCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGCGATAGA-CA
1 GAGCTAGTGTAAGACCTATTTGGGACATGGCATC-GAC-CGCGATAGATGA
57016325 -AGCTAGTGTAAGACCTATTTGGGACATGGCATCGACAC-CGATAGATGA
1 GAGCTAGTGTAAGACCTATTTGGGACATGGCATCGAC-CGCGATAGATGA
* * * * * *
57016373 GAGCCAGTGTAAGACCTATCTGGGACATGGCATCGGCCTCGCTATATGA
1 GAGCTAGTGTAAGACCTATTTGGGACATGGCATCGACCGCGATAGATGA
* *
57016422 AAGCTAGTGTAAGACCATGTTTGGGACATGGC
1 GAGCTAGTGTAAGACC-TATTTGGGACATGGC
57016454 GTCGGCATCT
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
47 7 0.06
48 30 0.27
49 60 0.55
50 13 0.12
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCTATTTGGGACATGGCATCGACCGCGATAGATGA
Found at i:57019593 original size:94 final size:94
Alignment explanation
Indices: 57019432--57019619 Score: 340
Period size: 94 Copynumber: 2.0 Consensus size: 94
57019422 GAATGGGCCC
57019432 ACATATATCACCTTGAATACGTTCCAGAAATGTAGGAGATTCAATCCCAACTTTAGTCGATGATG
1 ACATATATCACCTTGAATACGTTCCAGAAATGTAGGAGATTCAATCCCAACTTTAGTCGATGATG
57019497 ATCTAATAATCAATTTTCCTTGAGAATAA
66 ATCTAATAATCAATTTTCCTTGAGAATAA
* * * *
57019526 ACATATATTACCTTGAATACGTTTCAGAAATGTAGGAGATTCAATGCCAACTTTAGTCGGTGATG
1 ACATATATCACCTTGAATACGTTCCAGAAATGTAGGAGATTCAATCCCAACTTTAGTCGATGATG
57019591 ATCTAATAATCAATTTTCCTTGAGAATAA
66 ATCTAATAATCAATTTTCCTTGAGAATAA
57019620 GAAACACAAG
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (94 bp):
ACATATATCACCTTGAATACGTTCCAGAAATGTAGGAGATTCAATCCCAACTTTAGTCGATGATG
ATCTAATAATCAATTTTCCTTGAGAATAA
Found at i:57028968 original size:133 final size:133
Alignment explanation
Indices: 57028730--57028995 Score: 532
Period size: 133 Copynumber: 2.0 Consensus size: 133
57028720 ACACTTATTA
57028730 AATACTAGAACTCATAACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTGTTTTTG
1 AATACTAGAACTCATAACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTGTTTTTG
57028795 GATTTTCGGGGTCTAGTTTTTTATCTCCATCTTTTGTACTATTCGTTCTTTTGCCATTATAGTAA
66 GATTTTCGGGGTCTAGTTTTTTATCTCCATCTTTTGTACTATTCGTTCTTTTGCCATTATAGTAA
57028860 AAT
131 AAT
57028863 AATACTAGAACTCATAACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTGTTTTTG
1 AATACTAGAACTCATAACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTGTTTTTG
57028928 GATTTTCGGGGTCTAGTTTTTTATCTCCATCTTTTGTACTATTCGTTCTTTTGCCATTATAGTAA
66 GATTTTCGGGGTCTAGTTTTTTATCTCCATCTTTTGTACTATTCGTTCTTTTGCCATTATAGTAA
57028993 AAT
131 AAT
57028996 TATCTTTGCC
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 133 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (133 bp):
AATACTAGAACTCATAACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTGTTTTTG
GATTTTCGGGGTCTAGTTTTTTATCTCCATCTTTTGTACTATTCGTTCTTTTGCCATTATAGTAA
AAT
Found at i:57033812 original size:17 final size:17
Alignment explanation
Indices: 57033762--57033812 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 17
57033752 TGGAAACATG
*
57033762 ATCTTCGAAGATATGCA
1 ATCTTAGAAGATATGCA
*
57033779 ATCTTAGATATGATATGTA
1 ATCTTAGA-A-GATATGCA
57033798 ATCTTAGAAGATATG
1 ATCTTAGAAGATATG
57033813 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
ATCTTAGAAGATATGCA
Found at i:57033812 original size:22 final size:23
Alignment explanation
Indices: 57033784--57033828 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
57033774 ATGCAATCTT
57033784 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
57033806 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
57033829 GAATTGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:57046945 original size:21 final size:22
Alignment explanation
Indices: 57046891--57046946 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
57046881 ATACAATCTT
* *
57046891 AGATATGATATGTAATCTTAGA
1 AGATATGATTTGTAATCTAAGA
57046913 AGATATGA-TTGTAATCTAAG-
1 AGATATGATTTGTAATCTAAGA
*
57046933 AGATTTGATTTGTA
1 AGATATGATTTGTA
57046947 GATACCCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 15 0.50
22 8 0.27
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.39
Consensus pattern (22 bp):
AGATATGATTTGTAATCTAAGA
Found at i:57048750 original size:10 final size:10
Alignment explanation
Indices: 57048715--57048751 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
57048705 TTGTTTTATT
57048715 TTGTTCAATT-
1 TTGTT-AATTG
57048725 TTGTTAATTG
1 TTGTTAATTG
57048735 TTGTTAATTG
1 TTGTTAATTG
57048745 TTGTTAA
1 TTGTTAA
57048752 CTTTATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.22, C:0.03, G:0.16, T:0.59
Consensus pattern (10 bp):
TTGTTAATTG
Found at i:57049657 original size:172 final size:172
Alignment explanation
Indices: 57049316--57049660 Score: 532
Period size: 171 Copynumber: 2.0 Consensus size: 172
57049306 TCCAGCAGGT
57049316 TAAAACTTCATTATCTCGTTTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAATTC
1 TAAAACTTCATTATCTCGTTTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAATTC
* * *
57049381 TCTTATAAACGTACTCGTTGAAATTATTTTTAATGAAAACCTCAAACTTAATTGCAGTGACAATT
66 TCTTATAAACGTACCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAATTACAGTGACAATT
* *
57049446 ACTTGAAAACTTAAAGTTTCATTTTGGTCTTTTTAGGAAGAA
131 AATTGAAAACTTAAAGTTTCATTTTGGTCTTTATAGGAAGAA
* * * * *
57049488 TAAAACTTTATTGTCTCCTTTTTAAAAGAAAA-A-TTCAAATATGTCAAAATATCAAGTTAAATT
1 TAAAACTTCATTATCT-CGTTTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAATT
*
57049551 CTCTTATAAATGTACCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAATTTACAGTGACAA
65 CTCTTATAAACGTACCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAA-TTACAGTGACAA
* **
57049616 TTAATTGAGAACTTAAAGTTTTGTTTTGGTCTTTATAGGAAGAA
129 TTAATTGAAAACTTAAAGTTTCATTTTGGTCTTTATAGGAAGAA
57049660 T
1 T
57049661 TATTTATAAA
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
171 78 0.50
172 66 0.42
173 13 0.08
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.37
Consensus pattern (172 bp):
TAAAACTTCATTATCTCGTTTTAAAAAAAAACATTTCAAACATGTCAAAATATCAAGTTAAATTC
TCTTATAAACGTACCCGCTGAAATTATTTTTAATGAAAACCTCAAACTTAATTACAGTGACAATT
AATTGAAAACTTAAAGTTTCATTTTGGTCTTTATAGGAAGAA
Found at i:57051134 original size:5 final size:5
Alignment explanation
Indices: 57051117--57051155 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
57051107 CTCTTGACTC
*
57051117 TTTTG TTTCG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
57051156 TTGCAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.03, G:0.18, T:0.79
Consensus pattern (5 bp):
TTTTG
Found at i:57052229 original size:28 final size:29
Alignment explanation
Indices: 57052168--57052236 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
57052158 TTCGGGTCAG
*
57052168 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
*
57052197 ATGGGCCATTTGAATGAGA-TTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGGGCCTA
*
57052225 GTGGGCCATATG
1 ATGGGCCATATG
57052237 CATGTATGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.29
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGGGCCTA
Found at i:57055810 original size:16 final size:16
Alignment explanation
Indices: 57055789--57055819 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57055779 CAACAAATCC
57055789 CGAAATGCTAAAAAGT
1 CGAAATGCTAAAAAGT
*
57055805 CGAAATGCTGAAAAG
1 CGAAATGCTAAAAAG
57055820 CCAAAAGTCT
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:0.48, C:0.13, G:0.23, T:0.16
Consensus pattern (16 bp):
CGAAATGCTAAAAAGT
Found at i:57056083 original size:29 final size:30
Alignment explanation
Indices: 57056042--57056132 Score: 129
Period size: 29 Copynumber: 3.2 Consensus size: 30
57056032 ACATTGCTTG
57056042 GAAT-TGATTTGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
57056070 GAATGTGATTTGGGCCTA-ATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
57056099 GAATGTGA-TTGGGCCTAG-CGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
57056127 GCATGT
1 GAATGT
57056133 ATGTAGACTT
Statistics
Matches: 58, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
28 27 0.47
29 30 0.52
30 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:57059698 original size:16 final size:16
Alignment explanation
Indices: 57059674--57059704 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57059664 CGGCAAATCC
57059674 CGAAATGCCGAAAAGT
1 CGAAATGCCGAAAAGT
*
57059690 CGAAGTGCCGAAAAG
1 CGAAATGCCGAAAAG
57059705 CTGAAAGTCT
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:0.42, C:0.19, G:0.29, T:0.10
Consensus pattern (16 bp):
CGAAATGCCGAAAAGT
Found at i:57059963 original size:29 final size:28
Alignment explanation
Indices: 57059927--57060017 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
57059917 ACATGGCTTG
*
57059927 GAAT-TGATTCGGGCC-ACATGGGCTATAT
1 GAATGTGATT-GGGCCTA-ATGGGCCATAT
57059955 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGA-TTGGGCCTAATGGGCCATAT
* *
57059984 GAATGAGATTGGGCCTAGTGGGCCATAT
1 GAATGTGATTGGGCCTAATGGGCCATAT
*
57060012 GCATGT
1 GAATGT
57060018 ATGTAGACTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
28 27 0.49
29 25 0.45
30 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (28 bp):
GAATGTGATTGGGCCTAATGGGCCATAT
Found at i:57063598 original size:10 final size:10
Alignment explanation
Indices: 57063583--57063608 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
57063573 CCTAGCCAAT
57063583 AAGAGAGAGA
1 AAGAGAGAGA
57063593 AAGAGAGAGA
1 AAGAGAGAGA
57063603 AAGAGA
1 AAGAGA
57063609 ACTTGGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
AAGAGAGAGA
Found at i:57070838 original size:42 final size:42
Alignment explanation
Indices: 57070786--57070903 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
57070776 AATTAAGAAG
* * ** *
57070786 TCTGAACTCGTTGAGTGGTCCAGGTTTGTGAT-ATATGTGGCA
1 TCTGAGCTCGTTGAGTGGTCCAAGTTCATGATGATATG-AGCA
* *
57070828 TCTGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATATGAGCA
1 TCTGAGCTCGTTGAGTGGTCCAAGTTCATGAT-GATATGAGCA
*
57070871 TCTGAGCTCGTTGAGTGGTCCGAGTTCATGATG
1 TCTGAGCTCGTTGAGTGGTCCAAGTTCATGATG
57070904 GATGCGATAC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 27 0.42
43 32 0.50
44 5 0.08
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (42 bp):
TCTGAGCTCGTTGAGTGGTCCAAGTTCATGATGATATGAGCA
Found at i:57077482 original size:47 final size:47
Alignment explanation
Indices: 57077359--57077709 Score: 603
Period size: 47 Copynumber: 7.4 Consensus size: 47
57077349 ATTGATGTAC
* * * * *
57077359 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
57077406 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
57077455 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
57077502 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
57077549 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
57077596 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
57077643 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
57077690 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
57077710 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 250 0.85
49 43 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:57082191 original size:42 final size:43
Alignment explanation
Indices: 57082128--57082232 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
57082118 GAAGTCCGCC
* * * *
57082128 CTCGTTAAGTGGTCTGGGTTTG-TGATATATGTG-GCATCCGAG
1 CTCGTTAAGTGGTCCGAGTTTGCT-ATAGATGCGAGCATCCGAG
* * *
57082170 CTCGTTAAGAGGTCCGAGTTTGCTATGGATGCGAGCATCTGAG
1 CTCGTTAAGTGGTCCGAGTTTGCTATAGATGCGAGCATCCGAG
*
57082213 CTCGTTGAGTGGTCCGAGTT
1 CTCGTTAAGTGGTCCGAGTT
57082233 CATGATGGAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 25 0.48
43 27 0.52
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.32
Consensus pattern (43 bp):
CTCGTTAAGTGGTCCGAGTTTGCTATAGATGCGAGCATCCGAG
Found at i:57084628 original size:19 final size:19
Alignment explanation
Indices: 57084593--57084637 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
57084583 AAAACTATCA
* *
57084593 AAAAAT-TATTTATATTAC
1 AAAAATATATCTAAATTAC
57084611 AAAAATATATCTAAATTAC
1 AAAAATATATCTAAATTAC
57084630 AACAAATA
1 AA-AAATA
57084638 AAAAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 12 0.52
20 5 0.22
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATATATCTAAATTAC
Found at i:57084727 original size:17 final size:17
Alignment explanation
Indices: 57084684--57084716 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
57084674 ACAAGTAAAC
57084684 AAATAATAACATAATAA
1 AAATAATAACATAATAA
57084701 AAATAATAACATAATA
1 AAATAATAACATAATA
57084717 GTAATCATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAATAACATAATAA
Found at i:57084992 original size:15 final size:15
Alignment explanation
Indices: 57084972--57085018 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
57084962 ATCTTTATTA
*
57084972 AAAATAATATATAAT
1 AAAATAATAAATAAT
*
57084987 AAAAT-ATAAATTAT
1 AAAATAATAAATAAT
57085001 AAACATAA-AAATAAT
1 AAA-ATAATAAATAAT
57085016 AAA
1 AAA
57085019 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.37
15 16 0.59
16 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:57088915 original size:31 final size:31
Alignment explanation
Indices: 57088877--57088942 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
57088867 CTCATTTCAT
57088877 ACATTTCAAATAGGTACCTATACCACTCACA
1 ACATTTCAAATAGGTACCTATACCACTCACA
*
57088908 ACATTTCAAATAGGTACTTATACCACTCACA
1 ACATTTCAAATAGGTACCTATACCACTCACA
57088939 ACAT
1 ACAT
57088943 GGTTATACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.27
Consensus pattern (31 bp):
ACATTTCAAATAGGTACCTATACCACTCACA
Found at i:57089205 original size:91 final size:93
Alignment explanation
Indices: 57089091--57089260 Score: 238
Period size: 91 Copynumber: 1.8 Consensus size: 93
57089081 CTATTAAATT
* *
57089091 GATGCCATGTCCTAGACATGGTCTTACACTGACAC-ATC-TTGTAGCCGATGCATGT-CCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACTA-CAATGTAGCCGATGCATGTCCCAGACA
57089153 TGTCTTACACTAGCTCTCGTCTCAATGCC
65 TGTCTTACACTAGCTCTCGTCTCAATGCC
** * * *
57089182 GATGCCATGTCCCAGACATGGTCTTATGCTGGCTCTCACAATGTGGCCGATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACT-ACAATGTAGCCGATGCATGTCCCAGACA
57089247 TGTCTTACACTAGC
65 TGTCTTACACTAGC
57089261 ACACAAATAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 30 0.44
92 1 0.01
93 16 0.24
94 21 0.31
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACTACAATGTAGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATGCC
Found at i:57093609 original size:39 final size:39
Alignment explanation
Indices: 57093565--57093801 Score: 447
Period size: 39 Copynumber: 6.1 Consensus size: 39
57093555 ATTATATTAT
* *
57093565 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
57093604 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
57093643 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
57093682 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
57093721 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
57093760 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
57093799 CAG
1 CAG
57093802 TGTCTTGCAT
Statistics
Matches: 194, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 194 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:57098221 original size:47 final size:47
Alignment explanation
Indices: 57098131--57098395 Score: 194
Period size: 47 Copynumber: 5.7 Consensus size: 47
57098121 GGGTAAGGTA
* * * *
57098131 CCGATGCCATATCCCAGACATGGTCTTAGACTGGCTCGT-ATCTCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCAAG
* * *
57098178 TCGATGCCATGTCTCAGACATGGTCTTACACTGACTATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC-AAG
* * * ***
57098226 CCGATG-CATGTCCCGGACAT-ATCTTACACTGGCT-TACATCTTGGGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTAT-CATC-TCAAG
*
57098272 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-A-CGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCAA-G
* ***
57098318 CCGATGCCATGTCCCAGACATGGTCTTACACT-AGCT-TCCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTAT-CAT-CTCAAG
57098366 CCGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
57098396 AGCACACACA
Statistics
Matches: 176, Mismatches: 27, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
45 3 0.02
46 67 0.38
47 78 0.44
48 27 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCAAG
Found at i:57098275 original size:46 final size:46
Alignment explanation
Indices: 57098179--57098398 Score: 212
Period size: 46 Copynumber: 4.7 Consensus size: 46
57098169 TATCTCAAGT
* *
57098179 CGATGCCATGTCTCAGACATGGTCTTACACT-GAC-TATCATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTA-CATCTTG-AGGC
* * * *
57098227 CGATGCATGTCCCGGACATATCTTACACTGGCTTACATCTTGGGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTTGAGGC
** * ** *
57098273 CGATGCATGTCCCAGACATGTCTTACACTAGCACACGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTTGAGGC
* ** *
57098319 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTTGAGGC
57098367 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
57098399 ACACACAAGT
Statistics
Matches: 142, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
46 72 0.51
47 43 0.30
48 27 0.19
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTTGAGGC
Found at i:57098376 original size:94 final size:92
Alignment explanation
Indices: 57098225--57098402 Score: 275
Period size: 94 Copynumber: 1.9 Consensus size: 92
57098215 TCATCTCGTA
* * **
57098225 GCCGATGCATGTCCCGGACATATCTTACACTGGCTTACATCTTGGGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCCCAGACATATCTTACACTAGCTTACATAATGGGGCCGATGCATGTCCCAGAC
57098290 ATGTCTTACACTAGCACACGTCTCAAT
66 ATGTCTTACACTAGCACACGTCTCAAT
* * *
57098317 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-ATCTTACACTAGCTTACATAATGGGGCCGATGCATGTCCCAG
57098382 ACATGTCTTACACTAGCACAC
64 ACATGTCTTACACTAGCACAC
57098403 ACAAGTGACC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 7 0.09
93 13 0.17
94 57 0.74
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATATCTTACACTAGCTTACATAATGGGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACACGTCTCAAT
Found at i:57103679 original size:47 final size:45
Alignment explanation
Indices: 57103608--57103827 Score: 203
Period size: 47 Copynumber: 4.7 Consensus size: 45
57103598 TGGGTAAGGT
*
57103608 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-ATATCTCAA
* * * *
57103655 GTCGATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTAT-ATCTC-AA
*
57103703 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGC-TATATCTCAA
* * * * *
57103748 GGCCGATGCATGTCCCAAACA-AGTCTTACACTAGC-ACTCGTCTCAGT
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTA-T-ATCTCA-A
* *
57103795 GCCGATGTGATGTCGCAGACATGGTCTTACACT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACT
57103828 AGCTTCCATA
Statistics
Matches: 146, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 62 0.42
47 65 0.45
48 17 0.12
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTATATCTCAA
Found at i:57103745 original size:46 final size:48
Alignment explanation
Indices: 57103608--57103882 Score: 216
Period size: 46 Copynumber: 5.9 Consensus size: 48
57103598 TGGGTAAGGT
* * * * *
57103608 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
* *
57103655 GTCGATGCCATGTCCTAGACATGGTCTTACACT-GAC-TATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTA-CATCTCGTA
* *
57103703 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
* * * *
57103748 GGCCGATG-CATGTCCCAAACA-AGTCTTACACTAGCACT-CGTCTCAGT-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TTACATCTC-GTA
** * * * *
57103795 GCCGATGTGATGTCGCAGACATGGTCTTACACTAGCTTCCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACAT-CTCGTA
* *
57103843 GCCGATG-CATGTCCCAGAAAT-GTCTTACACTAGCATACAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACAT
57103883 AAGTGACCCA
Statistics
Matches: 189, Mismatches: 24, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
45 1 0.01
46 79 0.42
47 79 0.42
48 29 0.15
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
Found at i:57104243 original size:29 final size:30
Alignment explanation
Indices: 57104201--57104258 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
57104191 TTTTACATCT
*
57104201 TTGGTAAAATGACCATTTT-CCCCTAGGCC
1 TTGGCAAAATGACCATTTTGCCCCTAGGCC
57104230 TTGGCAAAATGACCATTTTGCCCCTAGGC
1 TTGGCAAAATGACCATTTTGCCCCTAGGC
57104259 TCGAAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (30 bp):
TTGGCAAAATGACCATTTTGCCCCTAGGCC
Found at i:57110668 original size:42 final size:42
Alignment explanation
Indices: 57110609--57110688 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
57110599 CCATGATTCA
* *
57110609 TCACACTATCCCAGTTCATAAATATGGCATGTATAGCTAGAC
1 TCACACTATACCAGTTCATAAATATGCCATGTATAGCTAGAC
*
57110651 TCACACTATAGCAGTTCATAAATATGCCATGTATAGCT
1 TCACACTATACCAGTTCATAAATATGCCATGTATAGCT
57110689 CTGATACCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (42 bp):
TCACACTATACCAGTTCATAAATATGCCATGTATAGCTAGAC
Found at i:57111781 original size:3 final size:3
Alignment explanation
Indices: 57111773--57111797 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
57111763 TGTTTATGAA
57111773 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
57111798 GTAATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:57114142 original size:26 final size:25
Alignment explanation
Indices: 57114063--57114133 Score: 115
Period size: 26 Copynumber: 2.8 Consensus size: 25
57114053 GAGGAAGTGC
*
57114063 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
57114088 AAAAGGGCTTTTGCCCTAGTTTACCA
1 AAAAGGGC-TTTGCCCCAGTTTACCA
57114114 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
57114134 ATTAAAAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 19 0.45
26 23 0.55
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:57114390 original size:31 final size:31
Alignment explanation
Indices: 57114352--57114455 Score: 190
Period size: 31 Copynumber: 3.4 Consensus size: 31
57114342 TTGTTGTAGT
57114352 AAAGGCTTCGGCCCAATGATATGAATAATGA
1 AAAGGCTTCGGCCCAATGATATGAATAATGA
*
57114383 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAATGATATGAATAATGA
*
57114414 AAAGGCTTCGGCCCAATGATATGAATAATGT
1 AAAGGCTTCGGCCCAATGATATGAATAATGA
57114445 AAAGGCTTCGG
1 AAAGGCTTCGG
57114456 ACCAGTATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGAATAATGA
Found at i:57115944 original size:43 final size:42
Alignment explanation
Indices: 57115873--57115966 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
57115863 CAAAACGCTC
* ** * * * *
57115873 ATACTATGCCAACGTCCCAGACGTGGTCTTACATGTAATCGA
1 ATACGATGCCAACGTCCCAGACAAGGTCTGACACGAAATCAA
57115915 ATATCGATGCC-ACTGTCCCAGACAAGGTCTGACACGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACAAGGTCTGACACGAAATCAA
57115958 ATACGATGC
1 ATACGATGC
57115967 TGATGTCCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 11 0.26
43 32 0.74
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACAAGGTCTGACACGAAATCAA
Found at i:57120332 original size:23 final size:23
Alignment explanation
Indices: 57120302--57120456 Score: 129
Period size: 23 Copynumber: 6.8 Consensus size: 23
57120292 TGATGGACAA
*
57120302 TAAGCTCTAATGAGCTGAAACGG
1 TAAGCTCTAATGAGCTGAAACAG
* * * *
57120325 TAAACTCTATTAAGCTG-AATAG
1 TAAGCTCTAATGAGCTGAAACAG
* *
57120347 TAAGCTCT-ATCGAGTTGAATCAG
1 TAAGCTCTAAT-GAGCTGAAACAG
*
57120370 TAAGCTCCAATGAGCTGAAACAG
1 TAAGCTCTAATGAGCTGAAACAG
* ** *
57120393 TAAGATCTTGTGAGCT-AAATCGG
1 TAAGCTCTAATGAGCTGAAA-CAG
*
57120416 TAAGCT-TCAATGAGTTGAAACAG
1 TAAGCTCT-AATGAGCTGAAACAG
*
57120439 TAAGCTCTTATGAGCTGA
1 TAAGCTCTAATGAGCTGA
57120457 GTCGATAAGC
Statistics
Matches: 99, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
21 1 0.01
22 18 0.18
23 74 0.75
24 6 0.06
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (23 bp):
TAAGCTCTAATGAGCTGAAACAG
Found at i:57120440 original size:69 final size:68
Alignment explanation
Indices: 57120302--57120456 Score: 181
Period size: 68 Copynumber: 2.3 Consensus size: 68
57120292 TGATGGACAA
* * * *
57120302 TAAGCTCTAATGAGCTGAAACGGTAAACTCTATTAAGCTGAATAGTAAGCTCTATCGAGTTGAAT
1 TAAGCTCTAATGAGCTGAAACAGTAAACTCTATTAAGCTAAATAGTAAGCTCAATCGAGTTGAAA
57120367 CAG
66 CAG
* * *
57120370 TAAGCTCCAATGAGCTGAAACAGTAAGA-TCT-TGTGAGCTAAATCGGTAAGCTTCAAT-GAGTT
1 TAAGCTCTAATGAGCTGAAACAGTAA-ACTCTAT-TAAGCTAAAT-AGTAAGC-TCAATCGAGTT
57120432 GAAACAG
62 GAAACAG
*
57120439 TAAGCTCTTATGAGCTGA
1 TAAGCTCTAATGAGCTGA
57120457 GTCGATAAGC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
67 1 0.01
68 35 0.47
69 34 0.46
70 4 0.05
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (68 bp):
TAAGCTCTAATGAGCTGAAACAGTAAACTCTATTAAGCTAAATAGTAAGCTCAATCGAGTTGAAA
CAG
Found at i:57120466 original size:46 final size:46
Alignment explanation
Indices: 57120302--57120468 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 46
57120292 TGATGGACAA
* * * * * * *
57120302 TAAGCTCTAATGAGCTGAAACGGTAAAC-TCTATTAAGCTG-AATAG
1 TAAGCTCTTATGAGCTGAATCGATAAGCTTC-AATGAGCTGAAACAG
* *
57120347 TAAGCTC-TATCGAGTTGAATC-AGTAAGCTCCAATGAGCTGAAACAG
1 TAAGCTCTTAT-GAGCTGAATCGA-TAAGCTTCAATGAGCTGAAACAG
* * * * *
57120393 TAAGATCTTGTGAGCTAAATCGGTAAGCTTCAATGAGTTGAAACAG
1 TAAGCTCTTATGAGCTGAATCGATAAGCTTCAATGAGCTGAAACAG
*
57120439 TAAGCTCTTATGAGCTGAGTCGATAAGCTT
1 TAAGCTCTTATGAGCTGAATCGATAAGCTT
57120469 ATACGAGCTG
Statistics
Matches: 95, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
44 2 0.02
45 26 0.27
46 65 0.68
47 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (46 bp):
TAAGCTCTTATGAGCTGAATCGATAAGCTTCAATGAGCTGAAACAG
Done.