Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 215 of 410
Found at i:65762881 original size:29 final size:29
Alignment explanation
Indices: 65762849--65762951 Score: 188
Period size: 29 Copynumber: 3.6 Consensus size: 29
65762839 GTGACGAGAT
65762849 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65762878 TGGCACTAAGTGTGCCTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
65762907 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65762936 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
65762952 ATTTACTATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65762961 original size:24 final size:24
Alignment explanation
Indices: 65762934--65763024 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
65762924 GCTGGAAATA
65762934 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
65762958 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
65762982 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
65763006 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
65763025 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:65763038 original size:48 final size:48
Alignment explanation
Indices: 65762933--65763046 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
65762923 TGCTGGAAAT
* * **
65762933 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
65762981 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
65763030 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
65763047 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:65767666 original size:29 final size:29
Alignment explanation
Indices: 65767634--65767764 Score: 237
Period size: 29 Copynumber: 4.6 Consensus size: 29
65767624 GTGACGAGAT
65767634 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
65767663 TGGCACTAAGTGTGCGTGCTGGAAATA-A
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65767691 TGGCACTAAGTGTGCCTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
65767720 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
65767749 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
65767765 ATTTACTATG
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
28 27 0.28
29 71 0.72
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65767722 original size:57 final size:58
Alignment explanation
Indices: 65767634--65767763 Score: 235
Period size: 57 Copynumber: 2.3 Consensus size: 58
65767624 GTGACGAGAT
*
65767634 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATA-A
1 TGGCACTAAGTGTGCCTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
65767691 TGGCACTAAGTGTGCCTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCCTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
*
65767749 TGGCACTATGTGTGC
1 TGGCACTAAGTGTGC
65767764 GATTTACTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 55 0.79
58 15 0.21
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (58 bp):
TGGCACTAAGTGTGCCTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:65767774 original size:24 final size:24
Alignment explanation
Indices: 65767747--65767837 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
65767737 GCTGGAAATA
65767747 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
65767771 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
65767795 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
65767819 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
65767838 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:65767851 original size:48 final size:48
Alignment explanation
Indices: 65767746--65767859 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
65767736 TGCTGGAAAT
* * **
65767746 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
65767794 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
65767843 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
65767860 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:65769477 original size:42 final size:42
Alignment explanation
Indices: 65769418--65769506 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
65769408 TCCTAACTGG
65769418 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
** *
65769460 GAAAATAGTTTTCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
65769502 TAAAA
1 GAAAA
65769507 ATATTCCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:65773438 original size:19 final size:18
Alignment explanation
Indices: 65773414--65773453 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
65773404 TGAGTAAAAC
65773414 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
*
65773433 TTATCTACGTAAATAAAT
1 TTATCTACCTAAATAAAT
65773451 TTA
1 TTA
65773454 AAACATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:65776157 original size:39 final size:39
Alignment explanation
Indices: 65776044--65776239 Score: 232
Period size: 40 Copynumber: 4.9 Consensus size: 39
65776034 CTCGTTCAAA
* * * * *
65776044 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 CGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCAC-AAT
*
65776085 -GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 CGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
* *
65776124 CGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
1 CGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
* * *
65776163 TGCCTTCGGGCTTAGCCCGGATATCACAATTTGCAACAAT
1 CGCCTTCGGGCTTAGCCCGGATATCACAACTCGC-ACAAT
* *
65776203 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
65776240 TCCATTCACA
Statistics
Matches: 138, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 61 0.44
40 77 0.56
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
Found at i:65776159 original size:79 final size:79
Alignment explanation
Indices: 65776044--65776228 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 79
65776034 CTCGTTCAAA
* * *
65776044 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGG-CTTAACCCGGATAT
65776109 CACAACTCGC-ACAAT
64 CACAACTCGCAACAAT
* * * *
65776124 CGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
* *
65776189 CAATTTGCAACAAT
66 CAACTCGCAACAAT
*
65776203 TGCCTTCGGGCTTAGCCCGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCA
65776229 CAATTCGCAC
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
78 21 0.22
79 63 0.67
80 10 0.11
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (79 bp):
CGCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
CAACTCGCAACAAT
Found at i:65784121 original size:39 final size:39
Alignment explanation
Indices: 65784008--65784203 Score: 232
Period size: 40 Copynumber: 4.9 Consensus size: 39
65783998 CTCGTTCAAA
* * * * *
65784008 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 CGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCAC-AAT
*
65784049 -GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 CGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
* *
65784088 CGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
1 CGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
* * *
65784127 TGCCTTCGGGCTTAGCCCGGATATCACAATTTGCAACAAT
1 CGCCTTCGGGCTTAGCCCGGATATCACAACTCGC-ACAAT
* *
65784167 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
65784204 TTCATTCACA
Statistics
Matches: 138, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 61 0.44
40 77 0.56
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
Found at i:65784123 original size:79 final size:79
Alignment explanation
Indices: 65784008--65784192 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 79
65783998 CTCGTTCAAA
* * *
65784008 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGG-CTTAACCCGGATAT
65784073 CACAACTCGC-ACAAT
64 CACAACTCGCAACAAT
* * * *
65784088 CGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
* *
65784153 CAATTTGCAACAAT
66 CAACTCGCAACAAT
*
65784167 TGCCTTCGGGCTTAGCCCGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCA
65784193 CAATTCGCAC
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
78 21 0.22
79 63 0.67
80 10 0.11
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (79 bp):
CGCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
CAACTCGCAACAAT
Found at i:65788152 original size:48 final size:48
Alignment explanation
Indices: 65787958--65788228 Score: 203
Period size: 46 Copynumber: 5.8 Consensus size: 48
65787948 AAGCCGACGC
65787958 CATGTCCCAGACATGGTCTTACACTAGCACACATATCTCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCACACATATCTCGAGGCCGATG
* * * * * * * *
65788007 CATGTCCCAAACATGTCTTACAAT-G-GCTCTTGTCTCAAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCCGATG
* * * * * * * *
65788053 CATGTCTCAGACATGTCTTGCACTGGCTCTCACA--ACGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCCGATG
* *
65788099 CATGTCCCAGACATGTGTTACACTAGCACACATATTTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCCGATG
* * * * * * ** * * *
65788147 TATGTCCTAGACATGTATTACACTGGCTCTCGCA-AT-GTGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCCGATG
* * *
65788193 CATGTTCTAGACATGTCTTACACTGGCACACATATC
1 CATGTCCCAGACATGTCTTACACTAGCACACATATC
65788229 ACCTGCACTG
Statistics
Matches: 169, Mismatches: 48, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
46 105 0.62
47 3 0.02
48 48 0.28
49 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCACACATATCTCGAGGCCGATG
Found at i:65788174 original size:94 final size:94
Alignment explanation
Indices: 65788046--65788227 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 94
65788036 TTGTCTCAAA
* *
65788046 GCCGATGCATGTCTCAGACATGTCTTGCACTGGCTCTCACAACGTGGCCGATGCATGTCCCAGAC
1 GCCGATGCATGTCTCAGACATGTATTACACTGGCTCTCACAACGTGGCCGATGCATGTCCCAGAC
*
65788111 ATGTGTTACACTAGCACACATATTTCGAG
66 ATGTCTTACACTAGCACACATATTTCGAG
* * * * * *
65788140 GCCGATGTATGTC-CTAGACATGTATTACACTGGCTCTCGCAATGTGGTCGATGCATGTTCTAGA
1 GCCGATGCATGTCTC-AGACATGTATTACACTGGCTCTCACAACGTGGCCGATGCATGTCCCAGA
*
65788204 CATGTCTTACACTGGCACACATAT
65 CATGTCTTACACTAGCACACATAT
65788228 CACCTGCACT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
93 1 0.01
94 76 0.99
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (94 bp):
GCCGATGCATGTCTCAGACATGTATTACACTGGCTCTCACAACGTGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACACATATTTCGAG
Found at i:65792205 original size:24 final size:23
Alignment explanation
Indices: 65792173--65792218 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
65792163 TTACAGGTTA
65792173 TCTATGATGCCTTTATGACGTAT
1 TCTATGATGCCTTTATGACGTAT
*
65792196 TCTATTGATGCCTTTATGGCGTA
1 TCTA-TGATGCCTTTATGACGTA
65792219 CTCAGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (23 bp):
TCTATGATGCCTTTATGACGTAT
Found at i:65798547 original size:27 final size:27
Alignment explanation
Indices: 65798517--65798888 Score: 304
Period size: 27 Copynumber: 13.8 Consensus size: 27
65798507 AAAACCCCAG
*
65798517 TTTGTAAAATTACTGAAATACCCCCGA
1 TTTGTAAAATTACCGAAATACCCCCGA
* **
65798544 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCCGA
* * *
65798571 TTTGTAAAATTACCAAAAT-GCCCCTA
1 TTTGTAAAATTACCGAAATACCCCCGA
* *
65798597 GTTTGTAAAATTACCAAAATACCCTCGA
1 -TTTGTAAAATTACCGAAATACCCCCGA
* **
65798625 TTTGTAAAATTACCAAAATACCCTTG-
1 TTTGTAAAATTACCGAAATACCCCCGA
* * **
65798651 TAGTGTAAAATTACCAAAATACCCCTAA
1 T-TTGTAAAATTACCGAAATACCCCCGA
*
65798679 TTTGTAAAATTACTGAAATACCCCCGA
1 TTTGTAAAATTACCGAAATACCCCCGA
* * **
65798706 TTTGTAAAGTTACTGAAATACCCTTG-
1 TTTGTAAAATTACCGAAATACCCCCGA
* *
65798732 TAGTGTAAAATTACCGAAATACCCTC-A
1 T-TTGTAAAATTACCGAAATACCCCCGA
* * *
65798759 GTTTGTAAAATTATCGAAATACCCTCGG
1 -TTTGTAAAATTACCGAAATACCCCCGA
* * ***
65798787 TTTGTAAAATTATCGAGATACCCCTTT
1 TTTGTAAAATTACCGAAATACCCCCGA
** **
65798814 TTTGTAAAATTAATGAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCCCGA
* * **
65798841 TTTTTCAAATTACCGAAATA-CCCTTA
1 TTTGTAAAATTACCGAAATACCCCCGA
*
65798867 TAGTGTAAAATTACCGAAATAC
1 T-TTGTAAAATTACCGAAATAC
65798889 ACTTGTAGGG
Statistics
Matches: 286, Mismatches: 49, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
26 11 0.04
27 269 0.94
28 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACCGAAATACCCCCGA
Found at i:65798602 original size:54 final size:54
Alignment explanation
Indices: 65798517--65798888 Score: 337
Period size: 54 Copynumber: 6.9 Consensus size: 54
65798507 AAAACCCCAG
* * * *
65798517 TTTGTAAAATTACTGAAATACCCC-CGATTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCTAG-TTTGTAAAATTACCGAAATACCCCTGA
* * *
65798571 TTTGTAAAATTACCAAAATGCCCCTAGTTTGTAAAATTACCAAAATA-CCCTCGA
1 TTTGTAAAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCT-GA
* * * * *
65798625 TTTGTAAAATTACCAAAATA-CCCTTGTAGTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCGAAATACCCCTAGT-TTGTAAAATTACCGAAATACCCCTGA
* * * * *
65798679 TTTGTAAAATTACTGAAATACCCC-CGATTTGTAAAGTTACTGAAATACCCTTG-
1 TTTGTAAAATTACCGAAATACCCCTAG-TTTGTAAAATTACCGAAATACCCCTGA
* * *
65798732 TAGTGTAAAATTACCGAAATA-CCCTCAGTTTGTAAAATTATCGAAATA-CCCTCGG
1 T-TTGTAAAATTACCGAAATACCCCT-AGTTTGTAAAATTACCGAAATACCCCT-GA
* * ** ** *
65798787 TTTGTAAAATTATCGAGATACCCCTTTTTTGTAAAATTAATGAAATACCCTTGA
1 TTTGTAAAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCTGA
* * * *
65798841 TTTTTCAAATTACCGAAATACCCTTA-TAGTGTAAAATTACCGAAATAC
1 TTTGTAAAATTACCGAAATACCCCTAGT-TTGTAAAATTACCGAAATAC
65798889 ACTTGTAGGG
Statistics
Matches: 261, Mismatches: 43, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
53 18 0.07
54 225 0.86
55 18 0.07
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCTGA
Found at i:65798658 original size:81 final size:80
Alignment explanation
Indices: 65798507--65798904 Score: 410
Period size: 81 Copynumber: 5.0 Consensus size: 80
65798497 TTGGGTCGTT
* * * *
65798507 AAAA-CCCC-AGTTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATTACCAAAATACCCCT-
1 AAAATCCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTG
* *
65798569 AATTTGTAAAATTACC
66 TA-GTGTAAAATTACC
* *
65798585 AAAATGCCCCTAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTT
1 AAAAT-CCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTT
65798650 GTAGTGTAAAATTACC
65 GTAGTGTAAAATTACC
* * * * *
65798666 AAAATACCCCTAATTTGTAAAATTACTGAAATACCCCCGATTTGTAAAGTTACTGAAATACCCTT
1 AAAAT-CCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTT
65798731 GTAGTGTAAAATTACC
65 GTAGTGTAAAATTACC
* * * * * *
65798747 GAAATACCCTCAGTTTGTAAAATTATCGAAATACCCTCGGTTTGTAAAATTATCGAGATACCCCT
1 AAAATCCCCT-AGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATA-CCCT
** **
65798812 T-TTTTGTAAAATTAAT
64 TGTAGTGTAAAATTACC
* * * * * * * *
65798828 GAAATACCCTTGATTTTTCAAATTACCGAAATACCCT-TATAGTGTAAAATTACCGAAATACACT
1 AAAATCCCCTAG-TTTGTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCT
*
65798892 TGTAGGGTAAAAT
64 TGTAGTGTAAAAT
65798905 GACTATTTTG
Statistics
Matches: 269, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
78 4 0.01
80 14 0.05
81 245 0.91
82 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (80 bp):
AAAATCCCCTAGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTTG
TAGTGTAAAATTACC
Found at i:65798901 original size:27 final size:27
Alignment explanation
Indices: 65798847--65798904 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
65798837 TTGATTTTTC
* *
65798847 AAATTACCGAAATACCCTTATAGTGTA
1 AAATTACCGAAATACACTTATAGGGTA
*
65798874 AAATTACCGAAATACACTTGTAGGGTA
1 AAATTACCGAAATACACTTATAGGGTA
65798901 AAAT
1 AAAT
65798905 GACTATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.28
Consensus pattern (27 bp):
AAATTACCGAAATACACTTATAGGGTA
Found at i:65813460 original size:40 final size:40
Alignment explanation
Indices: 65813405--65813652 Score: 365
Period size: 40 Copynumber: 6.2 Consensus size: 40
65813395 TGAATGATAC
* * *
65813405 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
65813445 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
65813485 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
65813525 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
65813565 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * ** *
65813605 CCGGGTTAAGACCCGAAAGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
65813645 CC-GGCTAA
1 CCGGGCTAA
65813653 ATTCCGAAGA
Statistics
Matches: 191, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 5 0.03
40 184 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:65816886 original size:26 final size:26
Alignment explanation
Indices: 65816850--65816903 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
65816840 TAATGTCTAA
65816850 TCCCTAGATTGAATGATTGAGACTTT
1 TCCCTAGATTGAATGATTGAGACTTT
65816876 TCCCTAGATTGAATGATTGAGACTTT
1 TCCCTAGATTGAATGATTGAGACTTT
65816902 TC
1 TC
65816904 TCTAATTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (26 bp):
TCCCTAGATTGAATGATTGAGACTTT
Found at i:65823812 original size:79 final size:80
Alignment explanation
Indices: 65823670--65823851 Score: 276
Period size: 79 Copynumber: 2.3 Consensus size: 80
65823660 GGCTAATTCA
* *
65823670 GGGCTAAGTCCCGAAGGCATTTGTGTGAGCTACTACATCCGGGCTAAGTCCCGAAGGCGTTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTG
* * *
65823735 CGAGCTATTATATCC
66 CAAGCTACTATAACC
* * *
65823750 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTG
*
65823814 CAAGTTACTATAACC
66 CAAGCTACTATAACC
65823829 GGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
65823852 AGCTAGTGGC
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 60 0.65
80 33 0.35
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTG
CAAGCTACTATAACC
Found at i:65823865 original size:40 final size:40
Alignment explanation
Indices: 65823624--65823874 Score: 246
Period size: 40 Copynumber: 6.3 Consensus size: 40
65823614 TGTTCGGATG
* *
65823624 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGACT
* *
65823664 A-ATTCAGGGCTAAGTCCCGAAGGCATTTGTG-TGAGCT-ACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACT
* * * * *
65823704 ACATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCT-ATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* * * *
65823744 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
65823784 AT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
65823823 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
65823863 ATATCC-GGCTAA
1 ATAACCGGGCTAA
65823875 ACTCCGAAGG
Statistics
Matches: 185, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
39 45 0.24
40 136 0.74
41 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:65823884 original size:79 final size:79
Alignment explanation
Indices: 65823670--65823874 Score: 263
Period size: 79 Copynumber: 2.6 Consensus size: 79
65823660 GGCTAATTCA
* *
65823670 GGGCTAAGTCCCGAAGGCATTTGTG-TGAGCTACTACATCCGGGCTAAGTCCCGAAGGCGTTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
* * *
65823734 GCGAGCTATTATATCC
64 GCAAGCTACTATAACC
* *
65823750 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
*
65823814 CAAGTTACTATAACC
65 CAAGCTACTATAACC
* *
65823829 GGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGT-ACTATATCCGGGCTAA
65823875 ACTCCGAAGG
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 74 0.68
80 34 0.31
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
AAGCTACTATAACC
Found at i:65838418 original size:40 final size:40
Alignment explanation
Indices: 65838352--65838517 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
65838342 CGGAATACAA
65838352 CCGGATA-TAACCACGT-GCACAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACCAC-TAGCACAATGCCTTCGGGTCTTAGC
* *
65838391 CCGGATAG-AACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACCACTAGCAC-AATGCCTTCGGGTCTTAGC
* *
65838431 CCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAGTAACCACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * * *
65838471 CCGGATA-TAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATAGTAACCACTAGCA-CAATGCCTTCGGGTCTTAGC
65838511 CCGGATA
1 CCGGATA
65838518 TCATTCAATT
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 19 0.18
40 84 0.79
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATAGTAACCACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:65838501 original size:80 final size:79
Alignment explanation
Indices: 65838368--65838516 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 79
65838358 ATAACCACGT
* * *
65838368 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GCACAATGCCTTCGGGTCTTAACCCGGATAGAACGACTCGCACAAATGCCTTCGGGACTTAGCCC
65838433 GGATGTAGCCACTA
66 GGATGTAGCCACTA
* *** * *
65838447 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATAAATGTCTTCGGGACTTAGC
1 GCACAA-TGCCTTCGGGTCTTAACCCGGATAGAACGACTC-GCACAAATGCCTTCGGGACTTAGC
65838511 CCGGAT
64 CCGGAT
65838517 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 7 0.12
80 52 0.88
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (79 bp):
GCACAATGCCTTCGGGTCTTAACCCGGATAGAACGACTCGCACAAATGCCTTCGGGACTTAGCCC
GGATGTAGCCACTA
Found at i:65842655 original size:45 final size:45
Alignment explanation
Indices: 65842600--65842722 Score: 194
Period size: 45 Copynumber: 2.7 Consensus size: 45
65842590 ATTTCACTGA
* *
65842600 CATTATAGCCTACTAGGCTCGAAA-GCCCAAATAGTATCTCACCGG
1 CATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATCTCACCGG
*
65842645 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGG
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
*
65842690 CATTATAACCTGCTAGGCTCAAAGGCCCGAATA
1 CATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
65842723 ATACTGTGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 3 0.04
45 70 0.96
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
CATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGG
Found at i:65842661 original size:88 final size:89
Alignment explanation
Indices: 65842551--65842722 Score: 208
Period size: 90 Copynumber: 1.9 Consensus size: 89
65842541 CTGAATTCAT
* * * * *
65842551 TCACCAGCATTTCGCCTGCTAGGCTCGAA-G-CCTAATA-TCATTTCACTGACATTATAGCCTAC
1 TCACCAGCATTTAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACTGACATTATAACCTAC
65842613 TAGGCTCGAAA-GCCCAAATAGTATC
65 TAGGCTC-AAAGGCCCAAATAGTATC
* * *
65842638 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAACCTGC
1 TCACCAGCATT-TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGACATTATAACCTAC
*
65842703 TAGGCTCAAAGGCCCGAATA
65 TAGGCTCAAAGGCCCAAATA
65842723 ATACTGTGCG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
87 10 0.14
88 16 0.23
89 4 0.06
90 40 0.56
91 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (89 bp):
TCACCAGCATTTAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGACATTATAACCTACT
AGGCTCAAAGGCCCAAATAGTATC
Found at i:65846955 original size:20 final size:20
Alignment explanation
Indices: 65846932--65846987 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
65846922 TCCTCTATTT
*
65846932 GCACTTCAGTGCCTTTGATC
1 GCACTTCAGTGCCTCTGATC
* *
65846952 GCACATTCA-TGCCTCTGTTT
1 GCAC-TTCAGTGCCTCTGATC
*
65846972 GCACTTCGGTGCCTCT
1 GCACTTCAGTGCCTCT
65846988 ATTATGCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.12, C:0.32, G:0.20, T:0.36
Consensus pattern (20 bp):
GCACTTCAGTGCCTCTGATC
Found at i:65848589 original size:40 final size:40
Alignment explanation
Indices: 65848523--65848726 Score: 132
Period size: 40 Copynumber: 5.1 Consensus size: 40
65848513 CGGAGTTTAA
** *
65848523 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* * *
65848563 CCGG-TCATAGTAACTCGCACAGATGCCTTCGAGACTTAAC
1 CCGGAT-ATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * **
65848603 CCGGATTTAGTAACTCGCACAAAT-CCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CATAAC
* * ** * **
65848642 CTGGATTTAGTAACTCGCATGAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CATAAC
* * * *
65848682 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACATAAC
65848722 CCGGA
1 CCGGA
65848727 CATCATTCGA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.24
40 92 0.68
41 10 0.07
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:65848648 original size:39 final size:40
Alignment explanation
Indices: 65848570--65848726 Score: 169
Period size: 40 Copynumber: 4.0 Consensus size: 40
65848560 AGCCCGGTCA
* **
65848570 TAGTAACTCGCACAGATGCCTTCGAGA-CTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCG-GATCTTAGTCCGGATT
*
65848610 TAGTAACTCGCACAAAT-CCTTCGGATCTTAGTCTGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
** *
65848649 TAGTAACTCGCATGAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
65848689 TAGTCACTTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTC-GGATCTTAGTCCGGA
65848727 CATCATTCGA
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.31
40 58 0.58
41 9 0.09
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:65863257 original size:22 final size:20
Alignment explanation
Indices: 65863215--65863265 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
65863205 TAACATAGAA
65863215 ATTTTTT-TTTTACTTTTTT
1 ATTTTTTGTTTTACTTTTTT
*
65863234 ATGTTTTTGTTTTATTTTTCTT
1 AT-TTTTTGTTTTACTTTT-TT
65863256 ATTATTTTGT
1 ATT-TTTTGT
65863266 ATGCTTGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 5 0.19
21 10 0.37
22 10 0.37
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.78
Consensus pattern (20 bp):
ATTTTTTGTTTTACTTTTTT
Found at i:65866247 original size:40 final size:40
Alignment explanation
Indices: 65866123--65866249 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 40
65866113 CTGGAAATTC
* * * * *
65866123 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
* * * ** *
65866163 CATCCGGGCTAAGACCCGAAGGCATTCGTACGAGA-CATTC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
65866203 TATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTTA
65866243 TATCCGG
1 TATCCGG
65866250 TTATGTTCCG
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 65 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTTA
Found at i:65873764 original size:29 final size:29
Alignment explanation
Indices: 65873732--65873809 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
65873722 ATACCCTCCG
** *
65873732 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
65873761 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
65873790 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
65873810 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:65877104 original size:40 final size:39
Alignment explanation
Indices: 65877019--65877169 Score: 132
Period size: 40 Copynumber: 3.8 Consensus size: 39
65877009 ATTTGAATGA
* * * *
65877019 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-AGACA-TAC
* *
65877059 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-A--GACATAC
*
65877100 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCAGACATAC
*
65877138 TATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCA
65877170 CATGGTTATA
Statistics
Matches: 93, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
37 2 0.02
38 2 0.02
39 31 0.33
40 56 0.60
41 1 0.01
42 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCAGACATAC
Found at i:65882125 original size:20 final size:20
Alignment explanation
Indices: 65882100--65882150 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
65882090 ATTTTGATAA
*
65882100 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
65882120 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
65882140 ACATGAGATGT
1 ACATGACATGT
65882151 TCATAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:65882252 original size:24 final size:24
Alignment explanation
Indices: 65882195--65882408 Score: 310
Period size: 24 Copynumber: 9.0 Consensus size: 24
65882185 GGAGGAAGTG
65882195 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
65882219 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
65882242 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
65882266 CAAAAGGGCTCATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
65882290 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
65882313 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
65882337 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
65882360 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
65882384 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
65882409 ATGATAAAGC
Statistics
Matches: 174, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
23 65 0.37
24 98 0.56
25 11 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:65882264 original size:47 final size:47
Alignment explanation
Indices: 65882196--65882408 Score: 313
Period size: 47 Copynumber: 4.5 Consensus size: 47
65882186 GAGGAAGTGC
*
65882196 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
65882242 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTCATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
*
65882290 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
* * *
65882337 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
*
65882385 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
65882409 ATGATAAAGC
Statistics
Matches: 154, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
47 112 0.73
48 31 0.20
49 11 0.07
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:65882311 original size:71 final size:71
Alignment explanation
Indices: 65882195--65882408 Score: 342
Period size: 71 Copynumber: 3.0 Consensus size: 71
65882185 GGAGGAAGTG
65882195 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
65882260 AGTTAT
66 AGTTAT
*
65882266 CAAAAGGGCTCATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
65882331 AGTTAT
66 AGTTAT
* * * *
65882337 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCC
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC
65882400 TCCAGTTAT
64 -CCAGTTAT
65882409 ATGATAAAGC
Statistics
Matches: 134, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
70 22 0.16
71 101 0.75
72 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:65882689 original size:31 final size:31
Alignment explanation
Indices: 65882601--65882695 Score: 154
Period size: 31 Copynumber: 3.1 Consensus size: 31
65882591 CGTTTACAGT
*
65882601 AAAGGCTTCGGCCCAGTAATATGAAACTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
65882632 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
** *
65882663 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
65882694 AA
1 AA
65882696 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATTTGA
Found at i:65885174 original size:59 final size:59
Alignment explanation
Indices: 65885102--65885301 Score: 134
Period size: 59 Copynumber: 3.3 Consensus size: 59
65885092 ATTATGCTAG
* * *
65885102 TGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
1 TGATATATGTGTGTATGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
** * * * *** *** * * * * *
65885161 TGATATATGTGTGTATGAGTATTTG-AATGGTACCCGGGCTAAGTCCGAAG-GCAATTATGCTAG
1 TGATATATGTGTGTATGAGCCTTAGTAA-CGAAAATGAAAT-A-T-GGATGTGTAATGAT--TAT
* * *
65885224 TGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
1 TGATATATGTGTGTATGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
65885283 TGATATATGTGTGTATGAG
1 TGATATATGTGTGTATGAG
65885302 TATTTGAATG
Statistics
Matches: 92, Mismatches: 41, Indels: 16
0.62 0.28 0.11
Matches are distributed among these distances:
58 2 0.02
59 41 0.45
60 4 0.04
61 14 0.15
62 4 0.04
63 25 0.27
64 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (59 bp):
TGATATATGTGTGTATGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
Found at i:65885424 original size:123 final size:123
Alignment explanation
Indices: 65885010--65885470 Score: 834
Period size: 123 Copynumber: 3.8 Consensus size: 123
65885000 GAATTATGTG
*
65885010 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
65885075 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
65885133 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
65885198 GCTAAGT-CCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
65885255 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
65885320 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
65885378 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
65885443 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
65885471 AATTATATCC
Statistics
Matches: 328, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
122 122 0.37
123 206 0.63
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:65885442 original size:245 final size:246
Alignment explanation
Indices: 65885010--65885470 Score: 834
Period size: 245 Copynumber: 1.9 Consensus size: 246
65885000 GAATTATGTG
65885010 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
65885075 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGAAAATGAA
* * * *
65885140 ATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGGGCTAAGT
131 ATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
*
65885205 -CCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
196 CCCGAAGACAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
*
65885255 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
65885320 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGAAAATGAA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGAAAATGAA
*
65885385 ATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
131 ATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
*
65885450 CCCGAAGACATTTATGCTAGT
196 CCCGAAGACAATTATGCTAGT
65885471 AATTATATCC
Statistics
Matches: 206, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
245 188 0.91
246 18 0.09
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (246 bp):
AAATGAAATATGGATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGAAAATGAA
ATATGGATGTGTAATGATTATTGATATATGTGTGCATGAGCAATTGAATGATACCCGGGCTAAGT
CCCGAAGACAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:65885636 original size:40 final size:40
Alignment explanation
Indices: 65885439--65885642 Score: 237
Period size: 40 Copynumber: 5.1 Consensus size: 40
65885429 TGAATGATAC
* * * * **
65885439 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * * **
65885479 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
65885519 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* *
65885559 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
* * **
65885599 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
65885639 CCGG
1 CCGG
65885643 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGGTTATAT
Found at i:65892659 original size:59 final size:59
Alignment explanation
Indices: 65892587--65892786 Score: 134
Period size: 59 Copynumber: 3.3 Consensus size: 59
65892577 ATTATGCTAG
* * *
65892587 TGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
1 TGATATATGTGTGTATGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
** * * * *** *** * * * * *
65892646 TGATATATGTGTGTATGAGTATTTG-AATGGTACCCGGGCTAAGTCCGAAG-GCAATTATGCTAG
1 TGATATATGTGTGTATGAGCCTTAGTAA-CGAAAATGAAAT-A-T-GGATGTGTAATGAT--TAT
* * *
65892709 TGATATGTTTGTGTTTGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
1 TGATATATGTGTGTATGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
65892768 TGATATATGTGTGTATGAG
1 TGATATATGTGTGTATGAG
65892787 TATTTGAATG
Statistics
Matches: 92, Mismatches: 41, Indels: 16
0.62 0.28 0.11
Matches are distributed among these distances:
58 2 0.02
59 41 0.45
60 4 0.04
61 14 0.15
62 4 0.04
63 25 0.27
64 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (59 bp):
TGATATATGTGTGTATGAGCCTTAGTAACGAAAATGAAATATGGATGTGTAATGATTAT
Found at i:65892909 original size:123 final size:123
Alignment explanation
Indices: 65892498--65892955 Score: 807
Period size: 123 Copynumber: 3.8 Consensus size: 123
65892488 GAATTATGTG
*
65892498 AAATGAAATAT-GATGTGTAATGATTATTGACATATGTGTGTATGAGTATTTGAATGGTA-CC-G
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
65892560 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
65892618 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
65892683 GCTAAGT-CCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
65892740 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
*
65892805 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTCGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
* * * * *
65892863 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGCATGAGCAATTGAATGATACCCGG
1 AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
* *
65892928 GCTAAGTCCCGAAGACATTTATGCTAGT
66 GCTAAGTCCCGAAGGCAATTATGCTAGT
65892956 AATTATATCC
Statistics
Matches: 325, Mismatches: 9, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
120 11 0.03
121 47 0.14
122 124 0.38
123 143 0.44
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTGTAATGATTATTGATATATGTGTGTATGAGTATTTGAATGGTACCCGG
GCTAAGTCCCGAAGGCAATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
Found at i:65893058 original size:80 final size:80
Alignment explanation
Indices: 65892924--65893071 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 80
65892914 TGAATGATAC
* *
65892924 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAATTG
65892989 TGCTAGTGACTATAT
66 TGCTAGTGACTATAT
* * ** * *
65893004 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAATACCCGAAGGCATTT
1 CCGGGCTAAGT-CCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAATT
65893068 GTGC
65 GTGC
65893072 AAGTCGTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGACATTTATGCAAGTAATTATATCCGGGCTAAGACCCGAAGGCAATTG
TGCTAGTGACTATAT
Found at i:65893072 original size:40 final size:40
Alignment explanation
Indices: 65892924--65893083 Score: 189
Period size: 40 Copynumber: 4.0 Consensus size: 40
65892914 TGAATGATAC
* * * **
65892924 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * *
65892964 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG-TTATAT
65893004 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
65893044 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
65893084 AGTTTATATC
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:65897959 original size:93 final size:93
Alignment explanation
Indices: 65897847--65898018 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
65897837 CGCCCATAAG
* *
65897847 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65897912 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
65897940 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65898005 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65898019 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:65898015 original size:46 final size:46
Alignment explanation
Indices: 65897840--65898015 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
65897830 TGTAACCCGC
* * *
65897840 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
65897886 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
65897936 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65897979 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
65898016 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65910926 original size:53 final size:53
Alignment explanation
Indices: 65910828--65910932 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 53
65910818 ATAAACTACG
* * * *
65910828 ATAAGGCAAGGATCCGATGTAAGACCATGCCAAGGCATGGAAATGGTGAGTTC
1 ATAAGGCAAGGATCCGACGTAAGACCATGCCAAGACATCGAAATGGTAAGTTC
*
65910881 ATAAGGCAAGGATACC-ACGTAAGACCATGTCAAGACA-CGATAATGGTAAGTT
1 ATAAGGCAAGGAT-CCGACGTAAGACCATGCCAAGACATCGA-AATGGTAAGTT
65910933 TAAAAAGGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
52 2 0.04
53 41 0.91
54 2 0.04
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (53 bp):
ATAAGGCAAGGATCCGACGTAAGACCATGCCAAGACATCGAAATGGTAAGTTC
Found at i:65916859 original size:17 final size:17
Alignment explanation
Indices: 65916837--65916878 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
65916827 CTAAGGAATA
65916837 AAAGTATTGCACTTGTG
1 AAAGTATTGCACTTGTG
65916854 AAAGTATTGCACTTGTG
1 AAAGTATTGCACTTGTG
65916871 AAAGTATT
1 AAAGTATT
65916879 ATGTAATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (17 bp):
AAAGTATTGCACTTGTG
Found at i:65918318 original size:55 final size:53
Alignment explanation
Indices: 65918244--65918389 Score: 157
Period size: 53 Copynumber: 2.7 Consensus size: 53
65918234 TTTTACAAGC
* * * *
65918244 CAAGGAAATCATGTTAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGG
* * * * * *
65918299 CAAGGATCCCATGTAAGACCATGCCAAGGCATGGCAATGATGATTTCATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGG
** *
65918352 CAAGGATACCACATAAGACCATGTCAAGACATGACAAT
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAAT
65918390 TGTAAGTTTA
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
53 38 0.51
54 3 0.04
55 34 0.45
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (53 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGG
Found at i:65927054 original size:36 final size:36
Alignment explanation
Indices: 65926977--65927046 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
65926967 ATAATTATTA
** * *
65926977 TCACATGGCATGAATGACATACCCACATATTTACCG
1 TCACATGGCATGAACAACACACCCACATATTCACCG
* *
65927013 TCACATGTCATGAACAACACACCCTCATATTCAC
1 TCACATGGCATGAACAACACACCCACATATTCAC
65927047 TTTCACATCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.24
Consensus pattern (36 bp):
TCACATGGCATGAACAACACACCCACATATTCACCG
Found at i:65936072 original size:37 final size:37
Alignment explanation
Indices: 65936019--65936118 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
65936009 CGAATAGTCC
*
65936019 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* * *
65936056 CCACACGTAGTCATCGGGCCTTACCCGGATATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
65936093 CCACACGTAGTCAACGGGTCTTACCC
1 CCACACGTAGTCATCGGGTCTTACCC
65936119 AGAATATATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:65936322 original size:48 final size:48
Alignment explanation
Indices: 65936262--65936739 Score: 794
Period size: 48 Copynumber: 9.9 Consensus size: 48
65936252 ATATACACAC
*
65936262 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
65936310 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
65936358 ATCTCATATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
65936408 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65936456 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
65936504 ATCTCATACATATCTCACATTAGCCATTCGGCTTTACCACAAATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
65936552 ATCTCATACATATTTAACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65936600 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
65936648 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATAC--A-T
*
65936699 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
65936740 CACATATATA
Statistics
Matches: 404, Mismatches: 21, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
48 317 0.78
50 46 0.11
51 41 0.10
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:65940021 original size:28 final size:28
Alignment explanation
Indices: 65939990--65940089 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
65939980 CTGACTGATT
* *
65939990 TCGCATACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
65940018 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
65940047 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
65940075 TCGCACACATAGTGC
1 TCGCACACATAGTGC
65940090 CTCAGCTACT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.02
28 35 0.58
29 23 0.38
30 1 0.02
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:65940050 original size:29 final size:29
Alignment explanation
Indices: 65940017--65940116 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
65940007 GATTAAAGAA
65940017 CTCGCACACATAGTGCCTCAATTACCAAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
* **
65940046 CTCGCACACATAGTG-CTCGATTGAAGAA-
1 CTCGCACACATAGTGCCTCAATT-ACCAAT
** **
65940074 CTCGCACACATAGTGCCTCAGCTACTGAT
1 CTCGCACACATAGTGCCTCAATTACCAAT
*
65940103 CTGGCACACATAGT
1 CTCGCACACATAGT
65940117 ACTCAGTTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 23 0.40
29 35 0.60
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCAATTACCAAT
Found at i:65940058 original size:57 final size:57
Alignment explanation
Indices: 65939990--65940150 Score: 207
Period size: 57 Copynumber: 2.8 Consensus size: 57
65939980 CTGACTGATT
* * * *
65939990 TCGCATACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* **
65940047 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAGCTACTGATC
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * *
65940104 TGGCACACATAGTACTC-AGTTGAAGAACTTGCACACACAGTGCCTCA
1 TCGCACACATAGTGCTCGA-TTGAAGAACTCGCACACATAGTGCCTCA
65940151 TAACTCCAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 1 0.01
57 91 0.99
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.22
Consensus pattern (57 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:65940137 original size:28 final size:28
Alignment explanation
Indices: 65940012--65940140 Score: 93
Period size: 28 Copynumber: 4.5 Consensus size: 28
65940002 CGCTCGATTA
* *
65940012 AAGAACTCGCACACATAGTGCCTCAATT-
1 AAGAACTCGCACACATAGT-ACTCAGTTG
** *
65940040 ACCAATCTCGCACACATAGTGCTC-GATTG
1 AAGAA-CTCGCACACATAGTACTCAG-TTG
* *
65940069 AAGAACTCGCACACATAGTGCCTCAGCT-
1 AAGAACTCGCACACATAGT-ACTCAGTTG
* * *
65940097 ACTGATCTGGCACACATAGTACTCAGTTG
1 A-AGAACTCGCACACATAGTACTCAGTTG
*
65940126 AAGAACTTGCACACA
1 AAGAACTCGCACACA
65940141 CAGTGCCTCA
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
28 40 0.51
29 37 0.47
30 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.22
Consensus pattern (28 bp):
AAGAACTCGCACACATAGTACTCAGTTG
Found at i:65940550 original size:40 final size:40
Alignment explanation
Indices: 65940178--65940545 Score: 499
Period size: 40 Copynumber: 9.2 Consensus size: 40
65940168 CCTTTGAGGT
* * *
65940178 TTAGCCCGGCTATATCACTAGCACAAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
65940218 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * *
65940258 TTAGCCCGAATACATCACTAGCACGAATGCTTTTCGAAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
65940298 TTAGCCCGGATACATCACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
65940338 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
65940378 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * *
65940418 TTAGCCCGGATATAACA-TCAGCA-GAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGAAC
* * *
65940457 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCAGG-AC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GGAAC
* * * * * *
65940497 TTAGCTCGGCTATAACACCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
65940537 TTAGCCCGG
1 TTAGCCCGG
65940546 CTATATAACT
Statistics
Matches: 303, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
39 40 0.13
40 261 0.86
41 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:65941394 original size:37 final size:37
Alignment explanation
Indices: 65941341--65941443 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
65941331 CGAATAGTCC
* *
65941341 CCACACATAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
65941378 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
65941415 CCACACGTAGTCATCGGGTCTTACTCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
65941444 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:65941612 original size:46 final size:47
Alignment explanation
Indices: 65941560--65941746 Score: 133
Period size: 48 Copynumber: 3.9 Consensus size: 47
65941550 TTCACATTTG
* *
65941560 GTCATTCGGC-CACAATATACACACATCTCCTACATATTTCACACTA
1 GTCATTCGGCTCACAACATACACACATCTCATACATATTTCACACTA
* * * * *
65941606 GTCATTCGGCTTTACCACATATACATATCTCATTCATATTTCACACTA
1 GTCATTCGGC-TCACAACATACACACATCTCATACATATTTCACACTA
* * * * * * *
65941654 GCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACAGTA
1 GTCATTCGGC-TCACAACATACACACATCTC--ATACATATTTCACACTA
* * * * * * *
65941704 GCCGTTCGGCTTTACCATATATACATATCTCATACATATTTCA
1 GTCATTCGGC-TCACAACATACACACATCTCATACATATTTCA
65941747 TACCACATAT
Statistics
Matches: 123, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
46 10 0.08
48 70 0.57
50 43 0.35
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (47 bp):
GTCATTCGGCTCACAACATACACACATCTCATACATATTTCACACTA
Found at i:65941640 original size:28 final size:28
Alignment explanation
Indices: 65941607--65941686 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 28
65941597 TTCACACTAG
65941607 TCATTCGGCTTTACCACATATACATATC
1 TCATTCGGCTTTACCACATATACATATC
*** *
65941635 TCATTCATATTT--CAC----AC-TAGC
1 TCATTCGGCTTTACCACATATACATATC
65941656 -CATTCGGCTTTACCACATATACATATC
1 TCATTCGGCTTTACCACATATACATATC
65941683 TCAT
1 TCAT
65941687 ATATATATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 16
0.60 0.13 0.27
Matches are distributed among these distances:
20 8 0.22
21 3 0.08
22 5 0.14
26 5 0.14
27 3 0.08
28 12 0.33
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.36
Consensus pattern (28 bp):
TCATTCGGCTTTACCACATATACATATC
Found at i:65941644 original size:48 final size:48
Alignment explanation
Indices: 65941592--65941746 Score: 238
Period size: 48 Copynumber: 3.2 Consensus size: 48
65941582 ACATCTCCTA
*
65941592 CATATTTCACACTAGTCATTCGGCTTTACCACATATACATATCTCATT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
65941640 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAT-T
* * * * *
65941689 ATATATTTCACAGTAGCCGTTCGGCTTTACCATATATACATATCTCATA
1 -CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
65941738 CATATTTCA
1 CATATTTCA
65941747 TACCACATAT
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
48 54 0.55
49 1 0.01
50 43 0.44
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (48 bp):
CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATT
Found at i:65941716 original size:50 final size:50
Alignment explanation
Indices: 65941593--65941742 Score: 232
Period size: 50 Copynumber: 3.0 Consensus size: 50
65941583 CATCTCCTAC
* *
65941593 ATATTTCACACTAGTCATTCGGCTTTACCACATATACATATCTCAT-T-C
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
65941641 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* * * *
65941691 ATATTTCACAGTAGCCGTTCGGCTTTACCATATATACATATCTCATACAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
65941741 AT
1 AT
65941743 TTCATACCAC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 45 0.48
49 1 0.01
50 48 0.51
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:65941740 original size:11 final size:11
Alignment explanation
Indices: 65941724--65941773 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
65941714 TTTACCATAT
65941724 ATACATATCTC
1 ATACATATCTC
*
65941735 ATACATATTTC
1 ATACATATCTC
*
65941746 ATAC-CA-CAT-
1 ATACATATC-TC
65941755 ATACATATCTC
1 ATACATATCTC
65941766 ATACATAT
1 ATACATAT
65941774 TTCACACTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
9 4 0.13
10 4 0.13
11 23 0.74
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (11 bp):
ATACATATCTC
Found at i:65941751 original size:31 final size:31
Alignment explanation
Indices: 65941716--65941777 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
65941706 CGTTCGGCTT
*
65941716 TACCATATATACATATCTCATACATATTTCA
1 TACCACATATACATATCTCATACATATTTCA
65941747 TACCACATATACATATCTCATACATATTTCA
1 TACCACATATACATATCTCATACATATTTCA
65941778 CACTAGCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (31 bp):
TACCACATATACATATCTCATACATATTTCA
Found at i:65941795 original size:79 final size:80
Alignment explanation
Indices: 65941666--65941921 Score: 262
Period size: 96 Copynumber: 3.0 Consensus size: 80
65941656 CATTCGGCTT
* * * * *
65941666 TACCACATATACATATCTCATATATATATTTCACAGTAGCCGTTCGGCTTTACCATATATACATA
1 TACCACATATACATATCTCA-ATACATATTTCACACTAGCCATTCAGCTTTACCACATATACATA
65941731 TCTCATACATATTTCA
65 TCTCATACATATTTCA
65941747 TACCACATATACATATCTC-ATACATATTTCACACTAGCCATTCAGCTTTACCACATATACATAT
1 TACCACATATACATATCTCAATACATATTTCACACTAGCCATTCAGCTTTACCACATATACATAT
65941811 CTCATACATATTTCACA
66 CTCATACATATTT--CA
* * ** *
65941828 CTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTA
1 -TA-CCA-----C-ATA-TACATAT-CTCA----ATACATATTTCACACTAGCCATTCAGCTTTA
65941893 CCACATATACATATCTCATACATATTTCA
52 CCACATATACATATCTCATACATATTTCA
65941922 CACTAGCCAT
Statistics
Matches: 148, Mismatches: 10, Indels: 21
0.83 0.06 0.12
Matches are distributed among these distances:
79 53 0.36
81 21 0.14
82 2 0.01
83 3 0.02
88 1 0.01
89 2 0.01
90 6 0.04
91 1 0.01
94 2 0.01
96 57 0.39
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (80 bp):
TACCACATATACATATCTCAATACATATTTCACACTAGCCATTCAGCTTTACCACATATACATAT
CTCATACATATTTCA
Found at i:65941803 original size:48 final size:48
Alignment explanation
Indices: 65941747--65941993 Score: 467
Period size: 48 Copynumber: 5.1 Consensus size: 48
65941737 ACATATTTCA
*
65941747 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCAGCTT
1 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
65941795 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
1 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
65941843 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
1 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
65941891 TACCACATATACATATCTCATACATATTTCACACTAGCCATTTGGCTT
1 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
*
65941939 TACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTT
1 TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
65941987 TACCACA
1 TACCACA
65941994 CACATATATA
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 195 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
TACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
Found at i:65941900 original size:127 final size:128
Alignment explanation
Indices: 65941619--65941876 Score: 401
Period size: 129 Copynumber: 2.0 Consensus size: 128
65941609 ATTCGGCTTT
* ** *
65941619 ACCACATATACATATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
1 ACCACATATACAGATCTCACACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCT
* * * * *
65941684 CATATATATATTTCACAGTAGCCGTTCGGCTTTACCATATATACATATCTCATACATATTTCAT
66 CA-ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
* *
65941748 ACCACATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCT
1 ACCACATATACAGATCTCACACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCT
65941813 C-ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
66 CAATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
65941875 AC
1 AC
65941877 TAGCCATTCG
Statistics
Matches: 122, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
127 58 0.48
129 64 0.52
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (128 bp):
ACCACATATACAGATCTCACACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCT
CAATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
Found at i:65945549 original size:41 final size:41
Alignment explanation
Indices: 65945491--65945653 Score: 118
Period size: 42 Copynumber: 3.9 Consensus size: 41
65945481 AGCTCGTACA
* * * *
65945491 ATGCCAACGTCCCAGACA-TTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCAAGACAGGTCTTACACGAAATCAAATA-CG
65945532 ATGCC-ACTGTCCAAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAAC-GTCCAAGACA-GGTCTTACACGAAATCAAATACG
** * *
65945574 ATGCTGATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAACGTCCAAGACA-GGTCTTACACG-AAA--TCAAATACG
* * *
65945618 ATCCCAACGTCCCAA-ACGTGGTCTTACACAAAATCA
1 ATGCCAACGT-CCAAGAC-AGGTCTTACACGAAATCA
65945654 CATATCGGAA
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
40 2 0.02
41 17 0.17
42 26 0.27
43 24 0.24
44 20 0.20
45 9 0.09
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (41 bp):
ATGCCAACGTCCAAGACAGGTCTTACACGAAATCAAATACG
Found at i:65945591 original size:42 final size:43
Alignment explanation
Indices: 65945510--65945660 Score: 125
Period size: 43 Copynumber: 3.5 Consensus size: 43
65945500 TCCCAGACAT
* *
65945510 TCTTACATGTAATCAAATATCGATGCCACTGTCCAAGACAGGG
1 TCTTACACGAAATCAAATATCGATGCCACTGTCCAAGACAGGG
* * *
65945553 TCTTACACGAAATCAAATA-CGATGCTGA-TGTCCCAGACATGG
1 TCTTACACGAAATCAAATATCGATGC-CACTGTCCAAGACAGGG
* *
65945595 TCTTACACGTAAATCTCAA-ATCGATCCCAAC-GTCCCAA-AC-GTGG
1 TCTTACACG-AAATC-AAATATCGATGCC-ACTGT-CCAAGACAG-GG
* *
65945639 TCTTACACAAAATCACATATCG
1 TCTTACACGAAATCAAATATCG
65945661 GAATCCTATG
Statistics
Matches: 86, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
42 28 0.33
43 33 0.38
44 22 0.26
45 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (43 bp):
TCTTACACGAAATCAAATATCGATGCCACTGTCCAAGACAGGG
Found at i:65950678 original size:39 final size:39
Alignment explanation
Indices: 65950624--65950740 Score: 227
Period size: 39 Copynumber: 3.0 Consensus size: 39
65950614 GCAAGAAAAA
65950624 TATTCGACTAGGCTTGGGTAACTTAGAAATTTCATGCAT
1 TATTCGACTAGGCTTGGGTAACTTAGAAATTTCATGCAT
65950663 TATTCGACTAGGCTTGGGTAACTTAGAAATTTCATGCAT
1 TATTCGACTAGGCTTGGGTAACTTAGAAATTTCATGCAT
65950702 TATTCGACTAGGCTTGGGTAACTTAGAAA-TTCATGCAT
1 TATTCGACTAGGCTTGGGTAACTTAGAAATTTCATGCAT
65950740 T
1 T
65950741 TCATTATACG
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
38 10 0.13
39 68 0.87
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (39 bp):
TATTCGACTAGGCTTGGGTAACTTAGAAATTTCATGCAT
Found at i:65959129 original size:50 final size:50
Alignment explanation
Indices: 65959059--65959181 Score: 174
Period size: 50 Copynumber: 2.5 Consensus size: 50
65959049 TGCGAAATTT
* * *
65959059 TTCCAAAGAATTCGCCACAAAGGTGTTCCAGAGTATTCACCACAAAGGCT
1 TTCCAGAGAATTCGCCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
* * *
65959109 TTTCAGAGAATTAGCCACAAAGGTGTTCCAGAGAATTCGCCACAAAGGCG
1 TTCCAGAGAATTCGCCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
* *
65959159 TTCCAGAGTATTCTCCACAAAGG
1 TTCCAGAGAATTCGCCACAAAGG
65959182 CTTTTCAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (50 bp):
TTCCAGAGAATTCGCCACAAAGGTGTTCCAGAGAATTCACCACAAAGGCG
Found at i:65959148 original size:75 final size:75
Alignment explanation
Indices: 65959059--65959206 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 75
65959049 TGCGAAATTT
* *
65959059 TTCCAAAGAATTCGCCACAAAGGTGTTCCAGAGTATTCACCACAAAGGCTTTTCAGAGAAT-TAG
1 TTCCAAAGAATTCGCCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGT-G
65959123 CCACAAAGGTG
65 CCACAAAGGTG
* * *
65959134 TTCCAGAGAATTCGCCACAAAGGCGTTCCAGAGTATTCTCCACAAAGGCTTTTCAAATAATGTGC
1 TTCCAAAGAATTCGCCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGTGC
65959199 CACAAAGG
66 CACAAAGG
65959207 CATTTCAAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
75 66 0.99
76 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (75 bp):
TTCCAAAGAATTCGCCACAAAGGCGTTCCAGAGTATTCACCACAAAGGCTTTTCAAAGAATGTGC
CACAAAGGTG
Found at i:65959182 original size:25 final size:25
Alignment explanation
Indices: 65959059--65959182 Score: 158
Period size: 25 Copynumber: 5.0 Consensus size: 25
65959049 TGCGAAATTT
* *
65959059 TTCCAAAGAATTCGCCACAAAGGTG
1 TTCCAGAGAATTCGCCACAAAGGCG
* * *
65959084 TTCCAGAGTATTCACCACAAAGGCT
1 TTCCAGAGAATTCGCCACAAAGGCG
* * *
65959109 TTTCAGAGAATTAGCCACAAAGGTG
1 TTCCAGAGAATTCGCCACAAAGGCG
65959134 TTCCAGAGAATTCGCCACAAAGGCG
1 TTCCAGAGAATTCGCCACAAAGGCG
* *
65959159 TTCCAGAGTATTCTCCACAAAGGC
1 TTCCAGAGAATTCGCCACAAAGGC
65959183 TTTTCAAATA
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 83 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (25 bp):
TTCCAGAGAATTCGCCACAAAGGCG
Found at i:65968186 original size:16 final size:17
Alignment explanation
Indices: 65968167--65968212 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
65968157 ACAAATAGAT
65968167 AAAAAT-TATAGAA-ATA
1 AAAAATATATA-AATATA
65968183 AAAAATATATAAATTATA
1 AAAAATATATAAA-TATA
65968201 AAAAATATATAA
1 AAAAATATATAA
65968213 TGATATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.30
17 4 0.15
18 15 0.56
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAAATATATAAATATA
Found at i:65974424 original size:39 final size:39
Alignment explanation
Indices: 65974250--65974408 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
65974240 TGTGAATATA
* * * *
65974250 TATATGCGAGAATTATATCTGGACTTCAGGTCCGTAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
* * *
65974289 TATAAGCGAGAATTATATCCAGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
65974328 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
* *
65974367 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAAGC
1 TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
65974406 TAT
1 TAT
65974409 GTGCTGGACA
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTTATGTCCGCAGGC
Found at i:65978364 original size:93 final size:93
Alignment explanation
Indices: 65978257--65978427 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
65978247 GCCCCTAAGT
*
65978257 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
65978321 ACGAGTTTGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
65978350 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65978415 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65978428 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:65978423 original size:46 final size:47
Alignment explanation
Indices: 65978252--65978424 Score: 205
Period size: 46 Copynumber: 3.7 Consensus size: 47
65978242 AACCCGCCCC
* *
65978252 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
* * *
65978298 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCA
* *
65978346 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
65978391 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65978425 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 58 0.55
47 30 0.28
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCA
Found at i:65980849 original size:15 final size:15
Alignment explanation
Indices: 65980823--65980878 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
65980813 CAAGGAAACC
65980823 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
65980838 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
65980853 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
65980868 GAATAAAGAAA
1 GAATAAAGAAA
65980879 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:65983953 original size:93 final size:93
Alignment explanation
Indices: 65983846--65984016 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
65983836 GCCCCTAAGT
* *
65983846 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65983911 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
65983939 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65984004 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65984017 TCAACCATCC
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:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:65984013 original size:46 final size:46
Alignment explanation
Indices: 65983841--65984013 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
65983831 AACCCGCCCC
* * *
65983841 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
65983887 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
65983935 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
65983980 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65984014 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:65987690 original size:40 final size:40
Alignment explanation
Indices: 65987607--65987759 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
65987597 TCGAATGATG
* *
65987607 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
65987647 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
65987687 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
65987728 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
65987760 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:65992319 original size:22 final size:22
Alignment explanation
Indices: 65992291--65992332 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
65992281 TGGCTCTGTT
65992291 GATTATGAGCTTGTCATTGAAA
1 GATTATGAGCTTGTCATTGAAA
65992313 GATTATGAGCTTGTCATTGA
1 GATTATGAGCTTGTCATTGA
65992333 CTATCACCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (22 bp):
GATTATGAGCTTGTCATTGAAA
Found at i:65995699 original size:40 final size:40
Alignment explanation
Indices: 65995616--65995768 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
65995606 TCGAATGATG
* *
65995616 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
65995656 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
65995696 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
65995737 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
65995769 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:65997940 original size:26 final size:25
Alignment explanation
Indices: 65997909--65997960 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
65997899 ATTTATTATT
*
65997909 ATTTTAATAAAATATATTTAACAATA
1 ATTTTAATAAAATATA-ATAACAATA
* *
65997935 ATTTTATTAAAATTTAATAACAATA
1 ATTTTAATAAAATATAATAACAATA
65997960 A
1 A
65997961 CACTAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTTAATAAAATATAATAACAATA
Found at i:66000068 original size:14 final size:14
Alignment explanation
Indices: 66000049--66000086 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
66000039 GTTTGTCAGT
*
66000049 AAAATGTTTTCCAG
1 AAAATGATTTCCAG
*
66000063 AAAATGATTTCTAG
1 AAAATGATTTCCAG
66000077 AAAATGATTT
1 AAAATGATTT
66000087 ACTTTTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCAG
Found at i:66000102 original size:19 final size:20
Alignment explanation
Indices: 66000070--66000113 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
66000060 CAGAAAATGA
66000070 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
66000090 TTTCTAG-AAATGATTTACT
1 TTTCTAGAAAATGATTTACT
66000109 TTTCT
1 TTTCT
66000114 GGTGTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:66000220 original size:28 final size:28
Alignment explanation
Indices: 66000189--66000249 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
66000179 AGAAAAGTTG
* *
66000189 TTTTTACAGATATTTATATTTTAAATTAT
1 TTTTTA-AGAAATTTATACTTTAAATTAT
* *
66000218 TTTTTAATAAATTTATACTTTAAATTGT
1 TTTTTAAGAAATTTATACTTTAAATTAT
66000246 TTTT
1 TTTT
66000250 ATATATATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTTAAGAAATTTATACTTTAAATTAT
Found at i:66002898 original size:40 final size:40
Alignment explanation
Indices: 66002824--66002965 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
66002814 CCGCACCAAG
* * * * * *
66002824 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
66002864 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
66002904 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
66002944 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
66002966 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:66011007 original size:40 final size:40
Alignment explanation
Indices: 66010933--66011074 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
66010923 CCGCACCAAG
* * * * * *
66010933 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
66010973 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
66011013 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
66011053 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
66011075 GTAATTTTCA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:66011093 original size:40 final size:40
Alignment explanation
Indices: 66010965--66011116 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
66010955 ATCACGATTT
* * * * *
66010965 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
66011005 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * * **
66011045 GCACAATTGCCTTCGGGTCTTAACCCGGATGTA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
66011085 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
66011117 CATTCAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.04
40 89 0.94
41 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:66015360 original size:13 final size:13
Alignment explanation
Indices: 66015342--66015367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66015332 AAGATTATCC
66015342 TATCCTAATAATA
1 TATCCTAATAATA
66015355 TATCCTAATAATA
1 TATCCTAATAATA
66015368 AATTTGAGTT
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TATCCTAATAATA
Found at i:66017690 original size:17 final size:17
Alignment explanation
Indices: 66017664--66017699 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
66017654 TTATTAATAG
*
66017664 AATTGTAGCAAACAACA
1 AATTGCAGCAAACAACA
66017681 AATTGCAGCAAACAACA
1 AATTGCAGCAAACAACA
66017698 AA
1 AA
66017700 CAGAGGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.19, G:0.11, T:0.14
Consensus pattern (17 bp):
AATTGCAGCAAACAACA
Found at i:66029681 original size:21 final size:21
Alignment explanation
Indices: 66029657--66029699 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
66029647 TTTGTAATGT
66029657 AAAAAATTATCAAGAAAAAGA
1 AAAAAATTATCAAGAAAAAGA
66029678 AAAAAATTATCAAGAAAAAGA
1 AAAAAATTATCAAGAAAAAGA
66029699 A
1 A
66029700 TAAACATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (21 bp):
AAAAAATTATCAAGAAAAAGA
Found at i:66029847 original size:3 final size:3
Alignment explanation
Indices: 66029839--66029883 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
66029829 TTTTGCCCCA
66029839 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
66029884 CATCTAGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66032130 original size:161 final size:161
Alignment explanation
Indices: 66031863--66032155 Score: 469
Period size: 161 Copynumber: 1.8 Consensus size: 161
66031853 TCACTAGGAG
* * *
66031863 ATCAAAATCTTTCTTTCTTCTCAACGATGTTTATTCTTTACCATGAGGCATCTGCATTCAATTCA
1 ATCAAAATCTTTATTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
** * *
66031928 AAATCAAACCAAGCGAATATTAAACCCTACAATGTTCCCTTTTAATCAGACTCTTTATTTTATAT
66 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
66031993 AAAGAAATAAATCCAACAAATCATTGTAAAC
131 AAAGAAATAAATCCAACAAATCATTGTAAAC
* *
66032024 ATCAAAATCTTTATTTCTTCTCAACAATGTTTATTCTTTACCTTGAGGTATCTACATTCAATTCA
1 ATCAAAATCTTTATTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
* * * *
66032089 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTATTCATATTCTTTATTTTCTAT
66 AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
66032154 AA
131 AA
66032156 TGAAGGATGA
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
161 119 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (161 bp):
ATCAAAATCTTTATTTCTTCTCAACAATGTTTATTCTTTACCATGAGGCATCTACATTCAATTCA
AAATCAAACCAAGAAAATATTAAACCCTAAAATGATCCCTTTTAATCAGACTCTTTATTTTATAT
AAAGAAATAAATCCAACAAATCATTGTAAAC
Found at i:66033499 original size:18 final size:17
Alignment explanation
Indices: 66033470--66033505 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
66033460 TCAAAAATTA
66033470 TATAAAATATAAATAAT
1 TATAAAATATAAATAAT
66033487 TATAAACATATAAATAAT
1 TATAAA-ATATAAATAAT
66033505 T
1 T
66033506 CAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAAAATATAAATAAT
Found at i:66034005 original size:15 final size:16
Alignment explanation
Indices: 66033985--66034017 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66033975 GTTTAGTGCC
66033985 TAGGG-TTTATGGGTT
1 TAGGGTTTTATGGGTT
*
66034000 TAGGGTTTTATGGTTT
1 TAGGGTTTTATGGGTT
66034016 TA
1 TA
66034018 AGATTTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (16 bp):
TAGGGTTTTATGGGTT
Found at i:66034527 original size:26 final size:26
Alignment explanation
Indices: 66034498--66034550 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
66034488 TGAAAAATGC
*
66034498 AGTTTGTACAAATATATTTAAAAAAT
1 AGTTTGTACAAATATATTAAAAAAAT
66034524 AGTTTGTACAAATATATTAAAAAAAT
1 AGTTTGTACAAATATATTAAAAAAAT
66034550 A
1 A
66034551 AATACATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (26 bp):
AGTTTGTACAAATATATTAAAAAAAT
Found at i:66034659 original size:21 final size:21
Alignment explanation
Indices: 66034633--66034674 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
66034623 CAGCTTTCGA
66034633 CAGGGGTTGTGGTTGCTCTGG
1 CAGGGGTTGTGGTTGCTCTGG
*
66034654 CAGGGGTTGTGGTTGTTCTGG
1 CAGGGGTTGTGGTTGCTCTGG
66034675 TTGTGGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.12, G:0.48, T:0.36
Consensus pattern (21 bp):
CAGGGGTTGTGGTTGCTCTGG
Found at i:66038356 original size:46 final size:46
Alignment explanation
Indices: 66038289--66038463 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
66038279 TGTAACCCGC
* * *
66038289 CCATAAGCGAACTTGGACTCAACTCAACCAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
66038335 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
66038385 CTC-T---TGAACTCGGACTCAACTCAATGAGTTCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
66038428 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
66038464 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 60 0.57
47 26 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:66038483 original size:46 final size:44
Alignment explanation
Indices: 66038340--66038483 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
66038330 CGCATCCATA
* *
66038340 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
66038389 --TGAACTCGGACTCAACTCAATGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
66038432 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
66038479 AGTGA
1 AGTGA
66038484 CATGTCACTT
Statistics
Matches: 75, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 1 0.01
46 31 0.41
47 26 0.35
48 5 0.07
49 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:66048916 original size:40 final size:40
Alignment explanation
Indices: 66048860--66049084 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
66048850 TATTCAGATG
*
66048860 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
66048900 ATATCCAGGCTGAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
66048940 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
66048983 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
66049023 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
66049063 ATAT-CTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
66049085 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 15 0.09
40 108 0.68
43 35 0.22
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:66049103 original size:83 final size:79
Alignment explanation
Indices: 66048860--66049084 Score: 333
Period size: 83 Copynumber: 2.8 Consensus size: 79
66048850 TATTCAGATG
* *
66048860 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCAGGCTGAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT-CAGGCTAAGTCCCGAAGGCA
66048925 TTTGTGCTAGTGACT
65 TTTGTGCTAGTGACT
* * *
66048940 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATA-TCAGGCTAAGTCCCGAAG
66049005 GCATTTGTGCTAGTGACT
62 GCATTTGTGCTAGTGACT
* * *
66049023 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCTGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCAGGCTAAGTCCCGAAGG
66049085 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.12
80 41 0.31
81 1 0.01
82 1 0.01
83 72 0.55
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCAGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTGACT
Found at i:66056381 original size:28 final size:28
Alignment explanation
Indices: 66056312--66056386 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
66056302 TACATATATG
* *
66056312 TGGCACTTAGTGTGCGAAATATTGAGAA
1 TGGCACTTAGTGTGCGAGATATTAAGAA
* *
66056340 TGACACTT-GCTGTGCGAGATATTAATTAA
1 TGGCACTTAG-TGTGCGAGATATTAA-GAA
*
66056369 -GGCACTTAGTGTGTGAGA
1 TGGCACTTAGTGTGCGAGA
66056387 CAGCGAAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 34 0.89
29 3 0.08
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAGATATTAAGAA
Found at i:66059585 original size:15 final size:16
Alignment explanation
Indices: 66059555--66059599 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
66059545 TTTTTAAATT
66059555 TTATATAAATAATATA
1 TTATATAAATAATATA
*
66059571 TTATA-AAATAGTATAA
1 TTATATAAATAATAT-A
*
66059587 TTTTATAAATAAT
1 TTATATAAATAAT
66059600 TCAAATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 8 0.33
16 10 0.42
17 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TTATATAAATAATATA
Found at i:66060017 original size:14 final size:14
Alignment explanation
Indices: 66059994--66060037 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
66059984 AGGTTCATGT
*
66059994 TTTAGTGTTTAAGG
1 TTTAGGGTTTAAGG
*
66060008 TTTAGGGTTTAAGA
1 TTTAGGGTTTAAGG
* *
66060022 TTTAGGATTTAGGG
1 TTTAGGGTTTAAGG
66060036 TT
1 TT
66060038 CAAGGTTTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTAAGG
Found at i:66060047 original size:21 final size:20
Alignment explanation
Indices: 66060000--66060048 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
66059990 ATGTTTTAGT
*
66060000 GTTTAAGGTTTAGGGTTTAAG
1 GTTT-AGGTTTAGGGTTCAAG
*
66060021 ATTTAGGATTTAGGGTTCAAG
1 GTTTAGG-TTTAGGGTTCAAG
66060042 GTTTAGG
1 GTTTAGG
66060049 GTAAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.41
Consensus pattern (20 bp):
GTTTAGGTTTAGGGTTCAAG
Found at i:66061876 original size:36 final size:36
Alignment explanation
Indices: 66061829--66061901 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
66061819 ACCACTTTTA
66061829 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
1 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
66061865 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
1 AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
66061901 A
1 A
66061902 TATACTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.16
Consensus pattern (36 bp):
AGGTGTCGCCCCGTAGGACTGGAAACACAAAAATAT
Found at i:66064111 original size:47 final size:47
Alignment explanation
Indices: 66064039--66064400 Score: 161
Period size: 46 Copynumber: 7.7 Consensus size: 47
66064029 GTATAATGCG
* ** *
66064039 GATGCCATGTCCCAGTCATACTCTTACACTAGCTCATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCC
* * * * *
66064086 GATGCCATGTCCCAAACATGGTCTTACA-GA-CT-ATCGAAATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CA-TCAAGCC
* * **
66064133 GACGCCATATCCCATGACATGGTCTTACACTAGCTC-TCACATATCCGTGCC
1 GATGCCATGTCCCA-GACATGGTCTTACACTAGCTCATC-C--AT-CAAGCC
* * * * *
66064184 AATGCCATGTCCCATACATGGTCTTACACT-GACACAT-C-TCGTAGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCCATC-AAGCC
* * * * *
66064230 GATG-TATGTCCCAAACAT-GTCTTACACTGGTTTACAT-C-TCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CT-CATCCATC-AAGCC
* *
66064276 GATG-CATGTCCCAAACAT-GTCTTACGCTAGCTC-TCGTC-TCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATCAA-GCC
* *
66064322 GATGCCATGTCCTAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAA----GCC
66064370 GATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
66064401 ACATAGATAA
Statistics
Matches: 244, Mismatches: 46, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 14 0.06
45 21 0.09
46 67 0.27
47 65 0.27
48 34 0.14
49 4 0.02
50 22 0.09
51 16 0.07
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGCC
Found at i:66064285 original size:46 final size:45
Alignment explanation
Indices: 66064189--66064397 Score: 181
Period size: 46 Copynumber: 4.5 Consensus size: 45
66064179 GTGCCAATGC
* * * *
66064189 CATGTCCCATACATGGTCTTACACT-GACACATCTCGTA-GCTGATG
1 CATGTCCCAAACAT-GTCTTACACTGGTCTCATCTCG-AGGCCGATG
* *
66064234 TATGTCCCAAACATGTCTTACACTGGTTTACATCTCGAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTGGTCT-CATCTCGAGGCCGATG
* * * * *
66064280 CATGTCCCAAACATGTCTTACGCTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACT-GGTCTCATCTCGAGGCCGATG
* * * *
66064326 CCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAAACAT-GTCTTACACTGG-TCTCAT-CTCGAGGCCGATG
*
66064374 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
66064398 AGCACATAGA
Statistics
Matches: 133, Mismatches: 23, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
44 10 0.08
45 14 0.11
46 58 0.44
47 29 0.22
48 21 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
CATGTCCCAAACATGTCTTACACTGGTCTCATCTCGAGGCCGATG
Found at i:66068561 original size:39 final size:39
Alignment explanation
Indices: 66068507--66068669 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
66068497 TGTGTATGAA
*
66068507 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
66068546 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66068585 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
66068624 TGTGCGAGATGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
66068664 TGTGCG
1 TGTGCG
66068670 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66068685 original size:40 final size:39
Alignment explanation
Indices: 66068507--66068700 Score: 244
Period size: 39 Copynumber: 4.9 Consensus size: 39
66068497 TGTGTATGAA
* *
66068507 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
66068546 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
66068585 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
66068624 TGTGCGAGATGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
66068664 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
66068701 GTTTGAACGA
Statistics
Matches: 137, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 97 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:66077081 original size:43 final size:43
Alignment explanation
Indices: 66077020--66077105 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
66077010 GTTACATGAA
* *
66077020 TCGCATCCATTATGAACTCGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
66077063 TCGCATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
66077106 AACATATATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCTCTCAACAAGCTCGGATGC
Found at i:66077135 original size:42 final size:43
Alignment explanation
Indices: 66077033--66077185 Score: 130
Period size: 43 Copynumber: 3.6 Consensus size: 43
66077023 CATCCATTAT
* * * ** ** * *
66077033 GAACTCGGACCTCTCAACGAGCTCGGATGCTCGCATCCATAAT
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* *
66077076 GAACTCGGACCTCTCAACAAGCTCGGATGC-AACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* * * *
66077118 GAACTTGGACCACTCAACAAGTTCAGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
* *
66077161 GAACTCGAACCGCTCAA-AGAGCTCA
1 GAACTCGGACCACTCAACA-AGCTCA
66077186 AATTTATAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 32 0.35
43 59 0.65
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (43 bp):
GAACTCGGACCACTCAACAAGCTCAGATGCTAACATATATCAC
Found at i:66081218 original size:32 final size:32
Alignment explanation
Indices: 66081177--66081240 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
66081167 AAAGTCTAGG
66081177 GGTAAAATGGTCAT-TTTGCCAAAGTATAAATT
1 GGTAAAATGGTCATGTTT-CCAAAGTATAAATT
66081209 GGTAAAATGGTCATGTTTCCAAAGTATAAATT
1 GGTAAAATGGTCATGTTTCCAAAGTATAAATT
66081241 ATGGAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 28 0.90
33 3 0.10
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (32 bp):
GGTAAAATGGTCATGTTTCCAAAGTATAAATT
Done.