Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 181 of 433
Found at i:56927623 original size:50 final size:50
Alignment explanation
Indices: 56927404--56927633 Score: 216
Period size: 50 Copynumber: 4.6 Consensus size: 50
56927394 ATCTGATACG
* * * **
56927404 CATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAATAATCCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACTCAACAGTATGGTACA
** * * *
56927453 CATAGTAGCCTGCACTTAGTACTACACACATGACCTCACCA-TCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-CTCAACAGTATGGTACA
* * * * * *
56927503 CGTAGTAGCCTGCACTTAGGAATACACACGTGA-TCGA-AGTCATTGAGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACTCAACAGT-A-TG-GTACA
* *
56927554 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACTCAACAGTATGGTACA
* *
56927604 CGTAGTCGCCTGCACTTAGTACTACACACG
1 CATAGTAGCCTGCACTTAGTACTACACACG
56927634 TGTACTCACA
Statistics
Matches: 146, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 30 0.21
50 70 0.48
51 36 0.25
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACTCAACAGTATGGTACA
Found at i:56929481 original size:30 final size:31
Alignment explanation
Indices: 56929447--56929510 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
56929437 GATGCAAAAT
* *
56929447 TAAAATATAAACTAAT-TAAATTAATTAACC
1 TAAAAAATAAACTAATGGAAATTAATTAACC
* *
56929477 TAAAAAATAACCTAATGGAATTTAATTAACC
1 TAAAAAATAAACTAATGGAAATTAATTAACC
56929508 TAA
1 TAA
56929511 GATAACCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (31 bp):
TAAAAAATAAACTAATGGAAATTAATTAACC
Found at i:56929527 original size:29 final size:30
Alignment explanation
Indices: 56929447--56929528 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 30
56929437 GATGCAAAAT
* *
56929447 TAAAATATAAACTAAT-TAAATTAATTAACC
1 TAAAA-ATAACCTAATGTAATTTAATTAACC
*
56929477 TAAAAAATAACCTAATGGAATTTAATTAACC
1 T-AAAAATAACCTAATGTAATTTAATTAACC
*
56929508 T-AAGATAACCTAATGTAATTT
1 TAAAAATAACCTAATGTAATTT
56929529 CCTTTTCCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 18 0.40
30 10 0.22
31 17 0.38
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (30 bp):
TAAAAATAACCTAATGTAATTTAATTAACC
Found at i:56932719 original size:39 final size:39
Alignment explanation
Indices: 56932671--56932802 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
56932661 GGCGAACCCG
* *
56932671 AAGTTCGAATATGATTCCCGCATATAGCCTACGGACCTT
1 AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
**
56932710 AAGTCCGAATATAATTCCCGCATATAGCCTACATACCTT
1 AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
* *
56932749 AAGTCTGGATATAATTCCCGCATATAGCCTACGGACCTT
1 AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
* *
56932788 AAGTCTGGATATAAT
1 AAGTCCGAATATAAT
56932803 CGCCATATAT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (39 bp):
AAGTCCGAATATAATTCCCGCATATAGCCTACGGACCTT
Found at i:56935757 original size:3 final size:3
Alignment explanation
Indices: 56935749--56935774 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56935739 CATTTACTCT
56935749 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
56935775 TAAGAGAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:56938805 original size:3 final size:3
Alignment explanation
Indices: 56938799--56938851 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
56938789 TAATAATGCG
56938799 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56938847 ATA AT
1 ATA AT
56938852 TCATTAATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:56945034 original size:20 final size:20
Alignment explanation
Indices: 56945009--56945048 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
56944999 CTACATAGAG
56945009 TCCTAAATATAATATTCATC
1 TCCTAAATATAATATTCATC
56945029 TCCTAAATATAATATTCATC
1 TCCTAAATATAATATTCATC
56945049 ACTCAGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (20 bp):
TCCTAAATATAATATTCATC
Found at i:56946087 original size:19 final size:19
Alignment explanation
Indices: 56946063--56946101 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
56946053 TTTTATTTTA
56946063 TTTTTCATATTATTATTGT
1 TTTTTCATATTATTATTGT
56946082 TTTTTCATATTATTATTGT
1 TTTTTCATATTATTATTGT
56946101 T
1 T
56946102 GAAAAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTTCATATTATTATTGT
Found at i:56948531 original size:30 final size:30
Alignment explanation
Indices: 56948495--56948554 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56948485 TTCCCGAGCC
*
56948495 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
56948525 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
56948555 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:56956649 original size:15 final size:15
Alignment explanation
Indices: 56956629--56956658 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56956619 GCAGGCTATT
56956629 GAGTTTGTCTAGCTG
1 GAGTTTGTCTAGCTG
56956644 GAGTTTGTCTAGCTG
1 GAGTTTGTCTAGCTG
56956659 CGGGTATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.33, T:0.40
Consensus pattern (15 bp):
GAGTTTGTCTAGCTG
Found at i:56958094 original size:16 final size:17
Alignment explanation
Indices: 56958063--56958095 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56958053 TTCATAAGTA
56958063 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
56958080 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
56958096 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:56958617 original size:137 final size:138
Alignment explanation
Indices: 56958381--56958698 Score: 431
Period size: 137 Copynumber: 2.3 Consensus size: 138
56958371 TTTGACATGA
* * * ** * * *
56958381 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTATCATGTTGTCATGGTATCTTTCAAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
** * * ** *
56958446 CATGGTCTTATTCATTTCATGTCACGCTGGCATGGTATCTTTCAACCATGGTCTTATTCATTTCC
66 CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
* *
56958511 TGTCATGT
131 TATCAGGT
*
56958519 TG-CATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
* * *
56958583 CATGGTCTTACACATTTCATATGAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
56958648 TATCAGGT
131 TATCAGGT
*
56958656 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
56958699 GAGAGCACAC
Statistics
Matches: 156, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
137 116 0.74
138 40 0.26
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGT
Found at i:56958699 original size:46 final size:46
Alignment explanation
Indices: 56958381--56958699 Score: 424
Period size: 46 Copynumber: 7.0 Consensus size: 46
56958371 TTTGACATGA
* * * ** *
56958381 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * * * * *
56958427 TGTCATGGTATCTTTCAAGCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * * * *
56958473 TGGCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
56958519 TG-CATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
56958564 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATGAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
56958610 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
56958656 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
56958700 AGAGCACACT
Statistics
Matches: 248, Mismatches: 24, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
45 42 0.17
46 206 0.83
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:56972593 original size:48 final size:48
Alignment explanation
Indices: 56972519--56972668 Score: 142
Period size: 48 Copynumber: 3.1 Consensus size: 48
56972509 TCTTACAGGC
* * * *
56972519 CTTACACTGGCTCACAAGTCGAGGCCGATGCCATGTCCCAGAAATGGT
1 CTTACACTAGCTCTCATGTCGAGGCCGATGCCATGTCCTAGAAATGGT
* ** * *
56972567 CTTACACTAGCTCTCATGTCAAGGCCGATGTTATGTCCTAGAGACGGT
1 CTTACACTAGCTCTCATGTCGAGGCCGATGCCATGTCCTAGAAATGGT
* * * * *
56972615 CTTATA-TTGACTCTCATAG-GGTGGCCGATGCCATGTCCTAGACATGGT
1 CTTACACTAG-CTCTCAT-GTCGAGGCCGATGCCATGTCCTAGAAATGGT
56972663 CTTACA
1 CTTACA
56972669 GTAGTACACA
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
47 2 0.02
48 78 0.96
49 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (48 bp):
CTTACACTAGCTCTCATGTCGAGGCCGATGCCATGTCCTAGAAATGGT
Found at i:56986580 original size:66 final size:68
Alignment explanation
Indices: 56986504--56986690 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
56986494 TAGTACCACT
*
56986504 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
56986566 CACG
65 CACG
56986570 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
56986635 ATCACG
63 ATCACG
56986641 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
56986691 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:56986615 original size:71 final size:71
Alignment explanation
Indices: 56986527--56986690 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56986517 CGATTTGTCT
56986527 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56986592 CTTTCA
66 CTTTCA
56986598 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56986663 CTTTCA
66 CTTTCA
56986669 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
56986691 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:56986728 original size:71 final size:70
Alignment explanation
Indices: 56986527--56986724 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
56986517 CGATTTGTCT
* * *
56986527 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
56986592 CTTTCA
65 CTTTCA
* * *
56986598 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
56986663 CTTTCA
65 CTTTCA
* *
56986669 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
56986725 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:56994149 original size:66 final size:68
Alignment explanation
Indices: 56994073--56994259 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
56994063 TAGTACCACT
*
56994073 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
56994135 CACG
65 CACG
56994139 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
56994204 ATCACG
63 ATCACG
56994210 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
56994260 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:56994184 original size:71 final size:71
Alignment explanation
Indices: 56994096--56994259 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56994086 CGATTTGTCT
56994096 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56994161 CTTTCA
66 CTTTCA
56994167 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56994232 CTTTCA
66 CTTTCA
56994238 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
56994260 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:56994297 original size:71 final size:70
Alignment explanation
Indices: 56994096--56994293 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
56994086 CGATTTGTCT
* * *
56994096 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
56994161 CTTTCA
65 CTTTCA
* * *
56994167 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
56994232 CTTTCA
65 CTTTCA
* *
56994238 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
56994294 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:56995810 original size:18 final size:18
Alignment explanation
Indices: 56995787--56995821 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56995777 TGGCGGACGC
56995787 ATAAACCGAGAAC-ACACG
1 ATAAACC-AGAACTACACG
56995805 ATAAACCAGAACTACAC
1 ATAAACCAGAACTACAC
56995822 TAGAACGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.51, C:0.29, G:0.11, T:0.09
Consensus pattern (18 bp):
ATAAACCAGAACTACACG
Found at i:56996903 original size:23 final size:23
Alignment explanation
Indices: 56996872--56996918 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
56996862 CACTCTTTTG
*
56996872 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACAATGC
*
56996895 TCATTCCCATGCCATTACAATGC
1 TCATACCCATGCCATTACAATGC
56996918 T
1 T
56996919 TATGTCATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.32
Consensus pattern (23 bp):
TCATACCCATGCCATTACAATGC
Found at i:57002100 original size:29 final size:29
Alignment explanation
Indices: 57002067--57002198 Score: 219
Period size: 29 Copynumber: 4.6 Consensus size: 29
57002057 CCTTCGAGCT
** * *
57002067 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
57002096 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
57002125 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
57002154 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
57002183 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
57002199 ATCTCGTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:57002101 original size:58 final size:58
Alignment explanation
Indices: 57002038--57002198 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 58
57002028 AATTTAAGCC
* * * * * *
57002038 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
57002096 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
57002154 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
57002199 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 91 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:57002129 original size:87 final size:87
Alignment explanation
Indices: 57002038--57002198 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
57002028 AATTTAAGCC
* * * * * *
57002038 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCATGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
57002103 TTAGTGCCATATATTTCCAGCA
66 TTAGTGCCATATATTTCCAGCA
* * * **
57002125 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
57002190 TTAGTGCCA
66 TTAGTGCCA
57002199 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCATATATTTCCAGCA
Found at i:57004840 original size:49 final size:49
Alignment explanation
Indices: 57004768--57005180 Score: 594
Period size: 49 Copynumber: 8.4 Consensus size: 49
57004758 ATCAAGATTC
* * *
57004768 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
57004817 GTGAAAATGTATATATATGTGATGAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
57004866 GCGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGCGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
57004915 G-GAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
57004963 GGGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
57005012 GTGAAAGTATATGTATGTATATGTGGTAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAG----TGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
57005065 GTGAAAGTATATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
57005114 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
57005163 GTGAAAGTGTATATATAT
1 GTGAAAGTGTATGTATAT
57005181 ATATGTGGTA
Statistics
Matches: 343, Mismatches: 16, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
48 43 0.13
49 253 0.74
53 47 0.14
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:57005014 original size:31 final size:31
Alignment explanation
Indices: 57004979--57005068 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 31
57004969 GTATATGTAT
57004979 ATGTGATAAGGCCTAATGGCCGATGTGGTGA
1 ATGTGATAAGGCCTAATGGCCGATGTGGTGA
* *
57005010 ATGTGA-AA-G--TATAT-G--TATGT-AT--
1 ATGTGATAAGGCCTA-ATGGCCGATGTGGTGA
*
57005032 ATGTGGTAAGGCCTAATGGCCGATGTGGTGA
1 ATGTGATAAGGCCTAATGGCCGATGTGGTGA
57005063 ATGTGA
1 ATGTGA
57005069 AAGTATATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 22
0.60 0.09 0.31
Matches are distributed among these distances:
22 5 0.12
23 2 0.05
24 2 0.05
25 6 0.14
26 3 0.07
27 3 0.07
28 6 0.14
29 2 0.05
30 2 0.05
31 11 0.26
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (31 bp):
ATGTGATAAGGCCTAATGGCCGATGTGGTGA
Found at i:57005113 original size:151 final size:150
Alignment explanation
Indices: 57004781--57005202 Score: 645
Period size: 151 Copynumber: 2.8 Consensus size: 150
57004771 AAAATGTATA
* * * * *
57004781 TATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATGAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCC
* * *
57004846 TAATGGCCGATGCGATGAATGCG-AA--A-ATGTATATATATGTGATAAGGCCTAATGGCCGATG
66 TAATGGCCGATGTGATGAATGTGAAAGTATATGTATATATATGTGGTAAGGCCTAATGGCCGATG
57004907 CGATGAATGGAAAGTATATG
131 CGATGAATGGAAAGTATATG
* *
57004927 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGGGAAAGTATATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCC
* *
57004992 TAATGGCCGATGTGGTGAATGTGAAAGTATATGTATGTATATGTGGTAAGGCCTAATGGCCGATG
66 TAATGGCCGATGTGATGAATGTGAAAGTATATGTATATATATGTGGTAAGGCCTAATGGCCGATG
* *
57005057 TGGTGAATGTGAAAGTATATG
131 CGATGAATG-GAAAGTATATG
57005078 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCC
1 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCC
* * * *
57005143 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATATGTGGTAAAGCCGAATGGC
66 TAATGGCCGATGTGATGAATGTGAAAGTATATGTATATATATGTGGTAAGGCCTAATGGC
57005203 TAATGTGAAT
Statistics
Matches: 249, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
146 78 0.31
147 2 0.01
149 1 0.00
150 40 0.16
151 128 0.51
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (150 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTATATGTATATATATGTGGTAAGGCCTAATGGCCGATG
CGATGAATGGAAAGTATATG
Found at i:57005306 original size:37 final size:36
Alignment explanation
Indices: 57005251--57005337 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
57005241 AACTTGGAAA
57005251 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
57005289 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
57005326 TATGTCCGGGTA
1 TATGTCCGGGTA
57005338 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:57007760 original size:19 final size:18
Alignment explanation
Indices: 57007724--57007781 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 18
57007714 AGAATGAACA
*
57007724 CTTT-TTTTT-TTCTTTT
1 CTTTGTTTTTCTTCATTT
57007740 CTTTGTTTTTCTTCATATT
1 CTTTGTTTTTCTTCAT-TT
* *
57007759 CTCTTTTTTTTTTTCATTT
1 CT-TTGTTTTTCTTCATTT
57007778 CTTT
1 CTTT
57007782 ATTCTTCCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 6 0.17
19 8 0.23
20 12 0.34
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.78
Consensus pattern (18 bp):
CTTTGTTTTTCTTCATTT
Found at i:57010053 original size:48 final size:48
Alignment explanation
Indices: 57009999--57010182 Score: 219
Period size: 48 Copynumber: 3.8 Consensus size: 48
57009989 GGTGAATTTA
*
57009999 CCGATGCCATGTCCCAGACATGGTTTTACACTAGCTCACAAGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAAGTCGAGG
* * * *
57010047 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATGTCAAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAAGTCGAGG
* * * * * * *
57010095 CCAATGCCATGTCCCAAACACGGTCTTACTCTGGCTCTCATAAG--GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACAAGTCGAGG
*
57010143 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACA
57010183 TATCACCCAA
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
46 4 0.04
48 102 0.92
50 5 0.05
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAAGTCGAGG
Found at i:57013480 original size:40 final size:40
Alignment explanation
Indices: 57013296--57013480 Score: 144
Period size: 40 Copynumber: 4.5 Consensus size: 40
57013286 CATTCAAATA
* * *
57013296 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATT-TAGTAACTAGCACGAAAG
* * * *
57013336 CCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCGAAAG
1 CCTTCGGGACTTAGCCCGGATTTAGTAACTAGCACGAAAG
* * * *
57013376 CCTTC-GGATCTTAGTCCAGATTTAGTAACTCGCACGCACGTATG
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAACT---A-GCACGAAAG
* * *
57013420 CCGTC-GGATCTTAGTCCGGATTTAGTCACTTAGCAC-AAAG
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TAGCACGAAAG
57013460 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
57013481 ATCATTCGAA
Statistics
Matches: 117, Mismatches: 20, Indels: 16
0.76 0.13 0.10
Matches are distributed among these distances:
39 3 0.03
40 71 0.61
41 9 0.08
42 1 0.01
44 32 0.27
45 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATTTAGTAACTAGCACGAAAG
Found at i:57021972 original size:8 final size:8
Alignment explanation
Indices: 57021959--57021984 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
57021949 CACAACCACA
57021959 ATCACATC
1 ATCACATC
57021967 ATCACATC
1 ATCACATC
57021975 ATCACATC
1 ATCACATC
57021983 AT
1 AT
57021985 ATGCATGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (8 bp):
ATCACATC
Found at i:57022487 original size:28 final size:28
Alignment explanation
Indices: 57022454--57022510 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
57022444 TCACCCCTTT
*
57022454 TACGCTGTCCAATAGTTCTGACCTTTAC
1 TACGCTGTCCAATAGTTCTGACCCTTAC
57022482 TACGCTGTCCAATAGTTCTGACCCTTAC
1 TACGCTGTCCAATAGTTCTGACCCTTAC
57022510 T
1 T
57022511 CACTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (28 bp):
TACGCTGTCCAATAGTTCTGACCCTTAC
Found at i:57024906 original size:35 final size:34
Alignment explanation
Indices: 57024821--57024982 Score: 114
Period size: 35 Copynumber: 4.6 Consensus size: 34
57024811 TACATTCGAG
* * * *
57024821 GTGTAGCTCCGTAGAGCCTGTAGATCATTTACAC-
1 GTGTCGCTCCGAAGAGCTTGTA-ACCATTTACACA
* **
57024855 GATGTCAG-TCCAAAGAGCTTGTAAGCCATTTACTTA
1 G-TGTC-GCTCCGAAGAGCTTGTAA-CCATTTACACA
* *
57024891 GTGTCGCTCCGAAGAGCCTGTAAACTATTTACACA
1 GTGTCGCTCCGAAGAGCTTGT-AACCATTTACACA
* * * *
57024926 GTTTCACTTCGAAGAGCCTATG-GACCATTTACACA
1 GTGTCGCTCCGAAGAG-CT-TGTAACCATTTACACA
*
57024961 GTGTCGCTCCTAAGAGCTTGTA
1 GTGTCGCTCCGAAGAGCTTGTA
57024983 GATAACCATT
Statistics
Matches: 96, Mismatches: 23, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
33 2 0.02
34 5 0.05
35 82 0.85
36 5 0.05
37 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (34 bp):
GTGTCGCTCCGAAGAGCTTGTAACCATTTACACA
Found at i:57027827 original size:50 final size:49
Alignment explanation
Indices: 57027752--57027853 Score: 159
Period size: 50 Copynumber: 2.1 Consensus size: 49
57027742 AAACATGGTA
** * *
57027752 GTTATAATTCTTTTTGGAAAGAATATAATGTTTTTTAATACTTTTCATAT
1 GTTATAATTCTTTTTGGAAAGAATATAA-CATGTTTAATACTTTCCATAT
57027802 GTTATAATTCTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATAT
1 GTTATAATTCTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATAT
57027851 GTT
1 GTT
57027854 CTCTATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
49 20 0.42
50 28 0.58
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (49 bp):
GTTATAATTCTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATAT
Found at i:57029691 original size:17 final size:17
Alignment explanation
Indices: 57029665--57029699 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
57029655 CAAACCCCTA
57029665 AGATTAAATAAGAAAAC
1 AGATTAAATAAGAAAAC
* *
57029682 AGATTTAATAAGATAAC
1 AGATTAAATAAGAAAAC
57029699 A
1 A
57029700 TTTAACCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (17 bp):
AGATTAAATAAGAAAAC
Found at i:57040533 original size:67 final size:64
Alignment explanation
Indices: 57040462--57040668 Score: 186
Period size: 67 Copynumber: 3.2 Consensus size: 64
57040452 CATCATGTGT
57040462 ACAAGAGAGCTACAAGAATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
1 ACAAGAGAGCTACAAG-A-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
57040527 AG
63 AG
*** * * * * * *
57040529 ACAAGAGAGCTATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
57040594 AG
63 AG
* * * * * *
57040596 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATATA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
57040658 TACAAGAGAGC
1 -ACAAGAGAGC
57040669 CGAACTATAT
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 21 0.18
65 11 0.10
66 17 0.15
67 43 0.38
68 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:57044113 original size:21 final size:22
Alignment explanation
Indices: 57044084--57044124 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
57044074 TGTAGTTCTT
* *
57044084 TTGTTGATTGTAATT-CCCTTA
1 TTGTGGATTATAATTGCCCTTA
57044105 TTGTGGATTATAATTGCCCT
1 TTGTGGATTATAATTGCCCT
57044125 GAGTAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.49
Consensus pattern (22 bp):
TTGTGGATTATAATTGCCCTTA
Found at i:57054219 original size:25 final size:25
Alignment explanation
Indices: 57054185--57054261 Score: 154
Period size: 25 Copynumber: 3.1 Consensus size: 25
57054175 CCAAAACATA
57054185 GCTTATATACTGACTTATTCCCACG
1 GCTTATATACTGACTTATTCCCACG
57054210 GCTTATATACTGACTTATTCCCACG
1 GCTTATATACTGACTTATTCCCACG
57054235 GCTTATATACTGACTTATTCCCACG
1 GCTTATATACTGACTTATTCCCACG
57054260 GC
1 GC
57054262 CAATAGACAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (25 bp):
GCTTATATACTGACTTATTCCCACG
Found at i:57059204 original size:6 final size:6
Alignment explanation
Indices: 57059193--57059217 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57059183 TATTCGAAAT
57059193 TCAGAA TCAGAA TCAGAA TCAGAA T
1 TCAGAA TCAGAA TCAGAA TCAGAA T
57059218 TACACTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TCAGAA
Found at i:57063812 original size:43 final size:43
Alignment explanation
Indices: 57063757--57063862 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
57063747 CAATGCCGAC
* *
57063757 GTCCCAGGCATGGTCTTACATGT-AAT-TCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATGTAAATCTC-A-ATCGAGGCCTCT
* *
57063800 GTCCCAGACATGGTCTTATATGTAAATCTCAATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACATGTAAATCTCAATCGAGGCCTCT
*
57063843 GTCCCAGACACGGTCTTACA
1 GTCCCAGACATGGTCTTACA
57063863 CGATGTCTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 49 0.89
44 4 0.07
45 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAAATCTCAATCGAGGCCTCT
Found at i:57065627 original size:14 final size:15
Alignment explanation
Indices: 57065596--57065628 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
57065586 CAGCCGGGGC
57065596 ATTTATCAATGCAAT
1 ATTTATCAATGCAAT
*
57065611 ATTTATC-ATGCATT
1 ATTTATCAATGCAAT
57065625 ATTT
1 ATTT
57065629 CAAAACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (15 bp):
ATTTATCAATGCAAT
Found at i:57068783 original size:15 final size:15
Alignment explanation
Indices: 57068765--57068804 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
57068755 GGTGTGTTTA
57068765 AACCCTAGGATTGAT
1 AACCCTAGGATTGAT
57068780 AACCCTAGGATTGAT
1 AACCCTAGGATTGAT
57068795 AACCCTAGGA
1 AACCCTAGGA
57068805 AGTTCTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (15 bp):
AACCCTAGGATTGAT
Found at i:57069442 original size:2 final size:2
Alignment explanation
Indices: 57069435--57069459 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57069425 TACCAATTGC
57069435 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
57069460 GTGTGTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57070880 original size:70 final size:70
Alignment explanation
Indices: 57070801--57070945 Score: 281
Period size: 70 Copynumber: 2.1 Consensus size: 70
57070791 TTTGAAAACT
57070801 AGAGACATTAAATTTATGAATATAAATGTAAGGAAACTAAATTCTAAATATACAAAATGTATAAA
1 AGAGACATTAAATTTATGAATATAAATGTAAGGAAACTAAATTCTAAATATACAAAATGTATAAA
57070866 AACCA
66 AACCA
*
57070871 AGAGACATTAAATTTATGAATATAAATGTAAGGAGACTAAATTCTAAATATACAAAATGTATAAA
1 AGAGACATTAAATTTATGAATATAAATGTAAGGAAACTAAATTCTAAATATACAAAATGTATAAA
57070936 AACCA
66 AACCA
57070941 AGAGA
1 AGAGA
57070946 ATATTTAAAC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.26
Consensus pattern (70 bp):
AGAGACATTAAATTTATGAATATAAATGTAAGGAAACTAAATTCTAAATATACAAAATGTATAAA
AACCA
Found at i:57071323 original size:17 final size:17
Alignment explanation
Indices: 57071303--57071344 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
57071293 ATTTTGAAAC
57071303 TAAAAAT-AAAAAATATA
1 TAAAAATCAAAAAA-ATA
*
57071320 TAAAATTCAAAAAAATA
1 TAAAAATCAAAAAAATA
*
57071337 TGAAAATC
1 TAAAAATC
57071345 TTTATTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (17 bp):
TAAAAATCAAAAAAATA
Found at i:57073345 original size:18 final size:19
Alignment explanation
Indices: 57073318--57073353 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
57073308 AAAAATAAAA
57073318 ATATACTTTTAT-ATTAAT
1 ATATACTTTTATAATTAAT
*
57073336 ATATATTTTTATAATTAA
1 ATATACTTTTATAATTAA
57073354 ATTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATACTTTTATAATTAAT
Found at i:57076286 original size:12 final size:12
Alignment explanation
Indices: 57076271--57076295 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57076261 TGTTAAAGGG
57076271 TAACTTAAGTTA
1 TAACTTAAGTTA
57076283 TAACTTAAGTTA
1 TAACTTAAGTTA
57076295 T
1 T
57076296 CTCACACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TAACTTAAGTTA
Found at i:57080160 original size:279 final size:279
Alignment explanation
Indices: 57079660--57080213 Score: 763
Period size: 279 Copynumber: 2.0 Consensus size: 279
57079650 AAAAATCTCA
*
57079660 GTTTGAAAATGGTTTTCTTACACAACAGAAAATTAAAATTTTGAAAATCAACCCAATTGGTGATA
1 GTTTGAAAATGATTTTCTTACACAACAGAAAATTAAAATTTTGAAAATCAACCCAATTGGTGATA
* **
57079725 TTTATAGCAATAAACCTTAACCAAATTCATACATCAGTTTTTGACTTAGCAAAAGTTCATTGTTC
66 TTTATAGCAATAAACATTAACCAAATTCATACATCAGTTTTCAACTTAGCAAAAGTTCATTGTTC
* * * **
57079790 TCTATTTTCAACCAAACGATCTTCTCCGCTATTCTCGTACCACAAACTGCTTCAAGTGTGGGTTT
131 TCTACTTTCAACCAAACAATCTTCTCCGCTATTCTCGTACCACAAACTGCTTCAAGTGTGAGTCC
* *
57079855 GAACCAATTAAATTGAAACACAAAACTAGAAAAAGTTTTCTCTCCATTTGGGGTGAAAACGAAAG
196 GAACCAATTAAATCGAAACACAAAACTAGAAAAAGTTTTCTCTCCATTTGGGGTGAAAACGAAAA
57079920 TTCTCTCTTTTTAATCCTG
261 TTCTCTCTTTTTAATCCTG
* * * * *
57079939 GTTTGAAAATGATTTTCTTGCACAGCGGAAAATTAAAATTTTGAAAATCAA-CCAGGTTTGTGAT
1 GTTTGAAAATGATTTTCTTACACAACAGAAAATTAAAATTTTGAAAATCAACCCA-ATTGGTGAT
* * * ** * * *
57080003 ATTTATAGCAATAAACATTAACCGAATTCGTACCTGTGTTTTCAACTTAGCGGACA-TTCGTTGT
65 ATTTATAGCAATAAACATTAACCAAATTCATACATCAGTTTTCAACTTAGC-AAAAGTTCATTGT
* ** *
57080067 TC-CTAACTTTCAACCAAACAATCTTCTCCGCTATTCTCGTACTATGAACTGCTTCGAGTGTGAG
129 TCTCT-ACTTTCAACCAAACAATCTTCTCCGCTATTCTCGTACCACAAACTGCTTCAAGTGTGAG
* ** *
57080131 TCCGAACCAATTGAATCGAAACACAAAACTAGAAAAAGTTTTCTCTCTTTTTGGGGTGAAAATGA
193 TCCGAACCAATTAAATCGAAACACAAAACTAGAAAAAGTTTTCTCTCCATTTGGGGTGAAAACGA
*
57080196 AAATTCTTTCTTTTTAAT
258 AAATTCTCTCTTTTTAAT
57080214 AAAAACCGGT
Statistics
Matches: 239, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
278 5 0.02
279 232 0.97
280 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (279 bp):
GTTTGAAAATGATTTTCTTACACAACAGAAAATTAAAATTTTGAAAATCAACCCAATTGGTGATA
TTTATAGCAATAAACATTAACCAAATTCATACATCAGTTTTCAACTTAGCAAAAGTTCATTGTTC
TCTACTTTCAACCAAACAATCTTCTCCGCTATTCTCGTACCACAAACTGCTTCAAGTGTGAGTCC
GAACCAATTAAATCGAAACACAAAACTAGAAAAAGTTTTCTCTCCATTTGGGGTGAAAACGAAAA
TTCTCTCTTTTTAATCCTG
Found at i:57082896 original size:2 final size:2
Alignment explanation
Indices: 57082889--57082918 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57082879 TATGGATCAT
57082889 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
57082919 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:57082923 original size:2 final size:2
Alignment explanation
Indices: 57082918--57082947 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
57082908 ACACACACAC
57082918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57082948 CATAGTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:57085847 original size:11 final size:9
Alignment explanation
Indices: 57085814--57085838 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57085804 TACATTATAT
57085814 ATTTTTAAA
1 ATTTTTAAA
57085823 ATTTTTAAA
1 ATTTTTAAA
57085832 ATTTTTA
1 ATTTTTA
57085839 TACAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:57086322 original size:12 final size:12
Alignment explanation
Indices: 57086288--57086326 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
57086278 GACCGTATTA
*
57086288 AATTTTTTATATT
1 AATTTTTAATA-T
57086301 AATATTTTAATAT
1 AAT-TTTTAATAT
57086314 AATTTTTAATAT
1 AATTTTTAATAT
57086326 A
1 A
57086327 TATATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 10 0.42
13 7 0.29
14 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
AATTTTTAATAT
Found at i:57087940 original size:31 final size:31
Alignment explanation
Indices: 57087851--57087940 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
57087841 TGAGACCCAT
* *
57087851 TATTAACTTT-ATTTAATTATATCATATAATA
1 TATTAA-TTTAATTTAATTACATAATATAATA
* * *
57087882 TTTTAATTTAATTTAATCACATTATATAATA
1 TATTAATTTAATTTAATTACATAATATAATA
*
57087913 -ATTAGTTTAATTTAATTACCATAATATA
1 TATTAATTTAATTTAATTA-CATAATATA
57087941 CACCTCACTA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 18 0.37
31 31 0.63
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (31 bp):
TATTAATTTAATTTAATTACATAATATAATA
Found at i:57089570 original size:29 final size:29
Alignment explanation
Indices: 57089528--57089604 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
57089518 TCGGTTATCG
*
57089528 AAATATGAAAAGGGATGGTGATGACCATC
1 AAATATGAAAAGGGATGGTGACGACCATC
* *
57089557 AACA-ATGAAAAGGGATGGTGGCGACCATT
1 AA-ATATGAAAAGGGATGGTGACGACCATC
57089586 AAATTATGAAAAGGGATGG
1 AAA-TATGAAAAGGGATGG
57089605 CTTCGGCTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 1 0.02
29 26 0.62
30 15 0.36
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.19
Consensus pattern (29 bp):
AAATATGAAAAGGGATGGTGACGACCATC
Found at i:57089624 original size:30 final size:30
Alignment explanation
Indices: 57089587--57089842 Score: 243
Period size: 30 Copynumber: 8.6 Consensus size: 30
57089577 GCGACCATTA
*
57089587 AATTATGAAAAGGGATGGCTTCGGCTATCG
1 AATTATGAAAAGGGATAGCTTCGGCTATCG
* *
57089617 AACTATGAAAAGGGATAACTTCGGCTATCG
1 AATTATGAAAAGGGATAGCTTCGGCTATCG
* * * *
57089647 AAATATGAAAAAGGATAGCTTTGGCTATTGG
1 AATTATGAAAAGGGATAGCTTCGGCTA-TCG
* *
57089678 AA-TATGAAAAGGGATAGCTTCGCCTATCA
1 AATTATGAAAAGGGATAGCTTCGGCTATCG
* *
57089707 AAATATGAAAAGAGATAGCTTCGGCTATCG
1 AATTATGAAAAGGGATAGCTTCGGCTATCG
* * *
57089737 AATTATGAAAAGGGAT-GGTGAT-GACCATC-
1 AATTATGAAAAGGGATAGCT--TCGGCTATCG
* * * * ** *
57089766 AACTATGAAAAAGGAT-GGTGACAACAATCG
1 AATTATGAAAAGGGATAGCT-TCGGCTATCG
*
57089796 AATTATGAAAAGGGATAGCTTTGGCTATCG
1 AATTATGAAAAGGGATAGCTTCGGCTATCG
57089826 AATTATGAAAAGGGATA
1 AATTATGAAAAGGGATA
57089843 CCTTTACTAT
Statistics
Matches: 184, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
29 27 0.15
30 150 0.82
31 7 0.04
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.25
Consensus pattern (30 bp):
AATTATGAAAAGGGATAGCTTCGGCTATCG
Found at i:57089767 original size:60 final size:59
Alignment explanation
Indices: 57089561--57089752 Score: 201
Period size: 60 Copynumber: 3.2 Consensus size: 59
57089551 ACCATCAACA
* * * * * *
57089561 ATGAAAAGGGAT-GGTGGCGACCATTAAATTATGAAAAGGGATGGCTTCGGCTATCGAACT
1 ATGAAAAGGGATAGCT-TCGACCATCAAAATATGAAAAGAGATAGCTTCGGCTATCGAA-T
* * * * * *
57089621 ATGAAAAGGGATAACTTCGGCTATCGAAATATGAAAA-AGGATAGCTTTGGCTATTGGAAT
1 ATGAAAAGGGATAGCTTCGACCATCAAAATATGAAAAGA-GATAGCTTCGGCTA-TCGAAT
57089681 ATGAAAAGGGATAGCTTCG-CCTATCAAAATATGAAAAGAGATAGCTTCGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCGACC-ATCAAAATATGAAAAGAGATAGCTTCGGCTATCGAA-T
57089741 ATGAAAAGGGAT
1 ATGAAAAGGGAT
57089753 GGTGATGACC
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
59 5 0.05
60 98 0.90
61 6 0.06
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (59 bp):
ATGAAAAGGGATAGCTTCGACCATCAAAATATGAAAAGAGATAGCTTCGGCTATCGAAT
Found at i:57089778 original size:90 final size:88
Alignment explanation
Indices: 57089561--57089841 Score: 285
Period size: 90 Copynumber: 3.1 Consensus size: 88
57089551 ACCATCAACA
** * *
57089561 ATGAAAAGGGATGGTGGCGACCATTAAATTATGAAAAGGGATGGCTTCGGCTATCGAACTATGAA
1 ATGAAAAGGGATGGTGATGACCATTAAA-TATGAAAAGGGAT-GCTTCGACTATCGAAATATGAA
* *
57089626 AAGGGATAACTTCGGCTATCGAAAT
64 AAGGGATAGCTTCGGCTATCGAATT
* * * * * * * *
57089651 ATGAAAAAGGATAGCT-TTGGCTATTGGAATATGAAAAGGGATAGCTTCGCCTATCAAAATATGA
1 ATGAAAAGGGAT-GGTGATGACCATT-AAATATGAAAAGGGAT-GCTTCGACTATCGAAATATGA
*
57089715 AAAGAGATAGCTTCGGCTATCGAATT
63 AAAGGGATAGCTTCGGCTATCGAATT
* * * * * * * *
57089741 ATGAAAAGGGATGGTGATGACCATCAACTATGAAAAAGGATGGTGACAACAATCGAATTATGAAA
1 ATGAAAAGGGATGGTGATGACCATTAAATATGAAAAGGGATGCT-TCGACTATCGAAATATGAAA
*
57089806 AGGGATAGCTTTGGCTATCGAATT
65 AGGGATAGCTTCGGCTATCGAATT
57089830 ATGAAAAGGGAT
1 ATGAAAAGGGAT
57089842 ACCTTTACTA
Statistics
Matches: 155, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
88 2 0.01
89 63 0.41
90 86 0.55
91 4 0.03
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (88 bp):
ATGAAAAGGGATGGTGATGACCATTAAATATGAAAAGGGATGCTTCGACTATCGAAATATGAAAA
GGGATAGCTTCGGCTATCGAATT
Found at i:57089806 original size:29 final size:29
Alignment explanation
Indices: 57089733--57089808 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
57089723 AGCTTCGGCT
** *
57089733 ATCGAATTATGAAAAGGGATGGTGATGACC
1 ATCGAATTATGAAAA-GGATGGTGACAACA
*
57089763 ATC-AACTATGAAAAAGGATGGTGACAACA
1 ATCGAATTATG-AAAAGGATGGTGACAACA
57089792 ATCGAATTATGAAAAGG
1 ATCGAATTATGAAAAGG
57089809 GATAGCTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (29 bp):
ATCGAATTATGAAAAGGATGGTGACAACA
Found at i:57089908 original size:28 final size:29
Alignment explanation
Indices: 57089854--57089909 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
57089844 CTTTACTATT
*
57089854 AATTATGAAAAGGAATGGTGATAACCATC
1 AATTATGAAAAGGAATGGTGACAACCATC
* *
57089883 AATTATG-AAAGGGATGGTGACGACCAT
1 AATTATGAAAAGGAATGGTGACAACCAT
57089910 TGTGATACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (29 bp):
AATTATGAAAAGGAATGGTGACAACCATC
Found at i:57095269 original size:15 final size:16
Alignment explanation
Indices: 57095230--57095269 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
57095220 TTTTTATGTA
*
57095230 ATTTTT-TTAAAAAAT
1 ATTTTTCTTTAAAAAT
57095245 ATTTTTCTTTAAAAAT
1 ATTTTTCTTTAAAAAT
57095261 -TTTTTCTTT
1 ATTTTTCTTT
57095270 GATTCGTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTCTTTAAAAAT
Found at i:57095787 original size:23 final size:24
Alignment explanation
Indices: 57095756--57095805 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
57095746 ATTCAAAAAA
*
57095756 AAATCAAGTTGATCCGATTAACTC
1 AAATCAAGTTGATCCGAATAACTC
* *
57095780 AAAT-AAGTTGATTCGAATAATTC
1 AAATCAAGTTGATCCGAATAACTC
57095803 AAA
1 AAA
57095806 ATTAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (24 bp):
AAATCAAGTTGATCCGAATAACTC
Found at i:57099499 original size:43 final size:43
Alignment explanation
Indices: 57099440--57099555 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
57099430 CATTCACTGA
* * *
57099440 CATT-TAGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGG
1 CATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCACCAG
* *
57099482 CATTATAGCCTGGTAGGCTCGAAGCCCGATATTATCTCACCAG
1 CATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCACCAG
*
57099525 CATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 CATTATAGCCTGCTAGGCTCGAAGCCCGATA
57099556 ATATTATTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
42 4 0.06
43 62 0.94
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (43 bp):
CATTATAGCCTGCTAGGCTCGAAGCCCGATATCATCTCACCAG
Found at i:57099595 original size:43 final size:46
Alignment explanation
Indices: 57099445--57099596 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 46
57099435 ACTGACATTT
** * *
57099445 AGCCTGCTAGGCTTGAAGCCCGAT-ATCA-T-T-TCACCGGCATTAT
1 AGCCTGCTAGGCCCGAAGCCCGATAAT-ATTATCTCACCAGCATTAA
* * *
57099488 AGCCTGGTAGGCTCGAAGCCCG---ATATTATCTCACCAGCATTAT
1 AGCCTGCTAGGCCCGAAGCCCGATAATATTATCTCACCAGCATTAA
57099531 AGCCTGCTAGGCCCGAAGCCCGATAATATTAT-TCACCAGC-TTAA
1 AGCCTGCTAGGCCCGAAGCCCGATAATATTATCTCACCAGCATTAA
* * *
57099575 AGCTTTCTAGG-CCGAGGCCCGA
1 AGCCTGCTAGGCCCGAAGCCCGA
57099597 ATATCACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 62 0.66
44 12 0.13
45 8 0.09
46 7 0.07
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (46 bp):
AGCCTGCTAGGCCCGAAGCCCGATAATATTATCTCACCAGCATTAA
Found at i:57099595 original size:86 final size:85
Alignment explanation
Indices: 57099440--57099596 Score: 185
Period size: 86 Copynumber: 1.8 Consensus size: 85
57099430 CATTCACTGA
** * * *
57099440 CATTTAGCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAGCCTGGTAGGCTCGAA
1 CATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGCATTAAAGCCTGCTAGGCTCGAA
57099505 GCCCGATATTATCTCACCAG
66 GCCCGATATTATCTCACCAG
* *
57099525 CATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATTATTCACCAGC-TTAAAGCTTTCTAGGC-
1 CATT-TAGCCTGCTAGGCCCGAAGCCCGAT-ATCA-T-TTCACCAGCATTAAAGCCTGCTAGGCT
*
57099587 CGAGGCCCGA
62 CGAAGCCCGA
57099597 ATATCACATT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
85 4 0.07
86 33 0.55
87 15 0.25
88 8 0.13
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (85 bp):
CATTTAGCCTGCTAGGCCCGAAGCCCGATATCATTTCACCAGCATTAAAGCCTGCTAGGCTCGAA
GCCCGATATTATCTCACCAG
Found at i:57104678 original size:16 final size:17
Alignment explanation
Indices: 57104659--57104696 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
57104649 TGTTAATTTT
*
57104659 AATGTTAAA-TGATTAA
1 AATGTTAAAGTGATAAA
57104675 AATGTTAAAGTGATAAA
1 AATGTTAAAGTGATAAA
57104692 AATGT
1 AATGT
57104697 AAGGACTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (17 bp):
AATGTTAAAGTGATAAA
Found at i:57105350 original size:40 final size:40
Alignment explanation
Indices: 57105282--57105383 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 40
57105272 CAAACAAACG
* ** * *
57105282 ATACCTATTGAATCTACAT-AAATGTATGCACT-TTCGAGTC
1 ATACCTATTGAATCTA-TTGAAACATATGCACTCTT-AAGCC
*
57105322 ATACCTATTGAATCTATTGAAACATATGCGCTCTTAAGCC
1 ATACCTATTGAATCTATTGAAACATATGCACTCTTAAGCC
*
57105362 ATACCTACTGAATCTATTGAAA
1 ATACCTATTGAATCTATTGAAA
57105384 TGAATGCTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.02
40 50 0.94
41 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (40 bp):
ATACCTATTGAATCTATTGAAACATATGCACTCTTAAGCC
Found at i:57113471 original size:46 final size:46
Alignment explanation
Indices: 57113406--57113679 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
57113396 TTATCTTTGA
* * * *
57113406 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
**
57113452 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
** * * * *
57113498 CACATTGCCATGATATCTTTTAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
57113544 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
57113590 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
57113636 CATGTTGCCATGGTATCATTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
57113680 TTTAGAAAGC
Statistics
Matches: 200, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.02
46 196 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:57113661 original size:138 final size:138
Alignment explanation
Indices: 57113411--57113679 Score: 385
Period size: 138 Copynumber: 1.9 Consensus size: 138
57113401 TTTGACATGA
* * * *
57113411 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
*** * * * **
57113476 CATGGTCTTGTTCATTTCATGTCACATTGCCATGATATCTTTTAACCATGGTCTTATTCATTTCA
66 CATGGTCTTACACATTTCATATCACATTGCCATGATATCATTCAACCATGGTCTTACACATTTCA
57113541 TATCACGC
131 TATCACGC
* *
57113549 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
** *
57113614 CATGGTCTTACACATTTCATATCATGTTGCCATGGTATCATTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCACATTGCCATGATATCATTCAACCATGGTCTTACACATTTCA
57113679 T
131 T
57113680 TTTAGAAAGC
Statistics
Matches: 114, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 114 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (138 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACATTGCCATGATATCATTCAACCATGGTCTTACACATTTCA
TATCACGC
Found at i:57114106 original size:18 final size:18
Alignment explanation
Indices: 57114083--57114121 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
57114073 TTTCAAGTAT
57114083 TTAAAAATATAATTCAAG
1 TTAAAAATATAATTCAAG
57114101 TTAAAAATATAATTCAAG
1 TTAAAAATATAATTCAAG
57114119 TTA
1 TTA
57114122 TACGAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (18 bp):
TTAAAAATATAATTCAAG
Found at i:57115526 original size:11 final size:11
Alignment explanation
Indices: 57115510--57115557 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
57115500 CTTTATATAC
57115510 TAATAAAATAA
1 TAATAAAATAA
*
57115521 TAATAAAATATCT
1 TAATAAAATA--A
* *
57115534 TATTAAAATAT
1 TAATAAAATAA
57115545 TAATAAAATAA
1 TAATAAAATAA
57115556 TA
1 TA
57115558 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:57116348 original size:21 final size:20
Alignment explanation
Indices: 57116293--57116336 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
57116283 AAAAGGCCCT
57116293 TTGACTGTTAATTTTAATAG
1 TTGACTGTTAATTTTAATAG
57116313 TTGACTGTTAATTTTAATAG
1 TTGACTGTTAATTTTAATAG
57116333 TTGA
1 TTGA
57116337 TCGTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.50
Consensus pattern (20 bp):
TTGACTGTTAATTTTAATAG
Found at i:57118714 original size:13 final size:13
Alignment explanation
Indices: 57118696--57118729 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
57118686 CGGGCCCAAT
57118696 TCGGTAAGAACCC
1 TCGGTAAGAACCC
57118709 TCGGTAAGAACCC
1 TCGGTAAGAACCC
57118722 TCGGTAAG
1 TCGGTAAG
57118730 TGTTTCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (13 bp):
TCGGTAAGAACCC
Found at i:57120650 original size:51 final size:51
Alignment explanation
Indices: 57120574--57120675 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
57120564 GGATACTCAG
57120574 GAGTCCCGTACACATGGTACTATACCAATGCCATATCCCAGATATGGTCTT
1 GAGTCCCGTACACATGGTACTATACCAATGCCATATCCCAGATATGGTCTT
57120625 GAGTCCCGTACACATGGTACTATACCAATGCCATATCCCAGATATGGTCTT
1 GAGTCCCGTACACATGGTACTATACCAATGCCATATCCCAGATATGGTCTT
57120676 ACATGTAAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (51 bp):
GAGTCCCGTACACATGGTACTATACCAATGCCATATCCCAGATATGGTCTT
Found at i:57120771 original size:42 final size:42
Alignment explanation
Indices: 57120652--57120771 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 42
57120642 TACTATACCA
* ** **
57120652 ATGCCATATCCCAGATATGGTCTTACATGTAAACTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
* * * *
57120694 ATGCCAATAGCCCAGCTATGGTCTTACAGGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
57120737 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
57120772 TAGAACCCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:57125000 original size:13 final size:13
Alignment explanation
Indices: 57124982--57125018 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
57124972 AGATAATTAG
57124982 CAAATCATACATA
1 CAAATCATACATA
57124995 CAAATCATACATA
1 CAAATCATACATA
*
57125008 TAAATTCATAC
1 CAAA-TCATAC
57125019 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:57126118 original size:27 final size:28
Alignment explanation
Indices: 57126086--57126138 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
57126076 AATATAACCA
*
57126086 TCAAATTT-TTATCATTTTA-CCATAATT
1 TCAAATTTCTT-TCAATTTAGCCATAATT
57126113 TCAAATTTCTTTCAATTTAGCCATAA
1 TCAAATTTCTTTCAATTTAGCCATAA
57126139 ACTCAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.47
Consensus pattern (28 bp):
TCAAATTTCTTTCAATTTAGCCATAATT
Found at i:57126144 original size:28 final size:27
Alignment explanation
Indices: 57126086--57126145 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
57126076 AATATAACCA
* **
57126086 TCAAATTTTTATCATTTTACCATAATT
1 TCAAATTTTTATCAATTTACCATAAAC
57126113 TCAAATTTCTT-TCAATTTAGCCATAAAC
1 TCAAATTT-TTATCAATTTA-CCATAAAC
57126141 TCAAA
1 TCAAA
57126146 ACTTATAGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.37, C:0.18, G:0.02, T:0.43
Consensus pattern (27 bp):
TCAAATTTTTATCAATTTACCATAAAC
Found at i:57126644 original size:3 final size:3
Alignment explanation
Indices: 57126616--57126680 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
57126606 CTATCTCAAT
*
57126616 TAA TAGA TAA -AA T-A TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57126660 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
57126681 GTAAATATAT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:57133879 original size:7 final size:7
Alignment explanation
Indices: 57133867--57133891 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57133857 ATAAAAATAA
57133867 AATATTT
1 AATATTT
57133874 AATATTT
1 AATATTT
57133881 AATATTT
1 AATATTT
57133888 AATA
1 AATA
57133892 AAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATATTT
Found at i:57133909 original size:10 final size:10
Alignment explanation
Indices: 57133891--57133940 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
57133881 AATATTTAAT
57133891 AAAAA-TATA
1 AAAAATTATA
57133900 AAAAATTAT-
1 AAAAATTATA
*
57133909 AAAAATCATA
1 AAAAATTATA
57133919 AAAAATTATA
1 AAAAATTATA
* *
57133929 ATAAATTGTA
1 AAAAATTATA
57133939 AA
1 AA
57133941 TTTTTATTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 13 0.38
10 21 0.62
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:57133919 original size:19 final size:18
Alignment explanation
Indices: 57133889--57133934 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 18
57133879 TTAATATTTA
57133889 ATAAAAATATAAAAAATT
1 ATAAAAATATAAAAAATT
57133907 ATAAAAATCATAAAAAATT
1 ATAAAAAT-ATAAAAAATT
57133926 ATAATAAAT
1 ATAA-AAAT
57133935 TGTAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 8 0.31
19 14 0.54
20 4 0.15
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAATATAAAAAATT
Found at i:57134256 original size:19 final size:19
Alignment explanation
Indices: 57134232--57134284 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
57134222 TAAAGGGCCT
57134232 TTTTTTATGCA-TTTTATAA
1 TTTTTTATG-ATTTTTATAA
57134251 TTTTTTATGATTTTTATAA
1 TTTTTTATGATTTTTATAA
**
57134270 AATTTTAT-ATTTTTA
1 TTTTTTATGATTTTTA
57134285 CGATTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTTTATGATTTTTATAA
Found at i:57134300 original size:29 final size:29
Alignment explanation
Indices: 57134242--57134298 Score: 91
Period size: 27 Copynumber: 2.0 Consensus size: 29
57134232 TTTTTTATGC
*
57134242 ATTTTATAATTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTTACGATTTTTATAAA
57134271 ATTTTAT-A-TTTTTACGATTTTTATAAA
1 ATTTTATAATTTTTTACGATTTTTATAAA
57134298 A
1 A
57134299 AAATTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 19 0.70
28 1 0.04
29 7 0.26
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (29 bp):
ATTTTATAATTTTTTACGATTTTTATAAA
Found at i:57134308 original size:27 final size:27
Alignment explanation
Indices: 57134252--57134309 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
57134242 ATTTTATAAT
* **
57134252 TTTTTATGATTTTTATAAAATTTTATA
1 TTTTTACGATTTTTATAAAAAATTATA
57134279 TTTTTACGATTTTTATAAAAAAATTA-A
1 TTTTTACGATTTTTAT-AAAAAATTATA
57134306 TTTT
1 TTTT
57134310 AATATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTTTACGATTTTTATAAAAAATTATA
Found at i:57138920 original size:21 final size:20
Alignment explanation
Indices: 57138896--57138934 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57138886 CTACCCAATT
57138896 CATGGTATAGAAAATTTTCGA
1 CATGGTAT-GAAAATTTTCGA
* *
57138917 CATGTTATGACAATTTTC
1 CATGGTATGAAAATTTTC
57138935 ACAAAAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
CATGGTATGAAAATTTTCGA
Found at i:57141975 original size:20 final size:21
Alignment explanation
Indices: 57141958--57142000 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57141948 ATTTTTAATA
57141958 CTTTTTATAATTTATTAAAAC
1 CTTTTTATAATTTATTAAAAC
*
57141979 CTTTTTAGAATTATTATTAAAA
1 CTTTTTATAA-T-TTATTAAAA
57142001 ATAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 1 0.05
23 9 0.47
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (21 bp):
CTTTTTATAATTTATTAAAAC
Found at i:57142471 original size:36 final size:36
Alignment explanation
Indices: 57142427--57142508 Score: 164
Period size: 36 Copynumber: 2.3 Consensus size: 36
57142417 CATTTTTTGG
57142427 AAAACGCTTCGAAGTGTTTTCAAGTGACTTGCAGGA
1 AAAACGCTTCGAAGTGTTTTCAAGTGACTTGCAGGA
57142463 AAAACGCTTCGAAGTGTTTTCAAGTGACTTGCAGGA
1 AAAACGCTTCGAAGTGTTTTCAAGTGACTTGCAGGA
57142499 AAAACGCTTC
1 AAAACGCTTC
57142509 TAACTAGAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (36 bp):
AAAACGCTTCGAAGTGTTTTCAAGTGACTTGCAGGA
Found at i:57147151 original size:12 final size:12
Alignment explanation
Indices: 57147134--57147158 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57147124 TTTTAGTAAG
57147134 ATTTAATATTAA
1 ATTTAATATTAA
57147146 ATTTAATATTAA
1 ATTTAATATTAA
57147158 A
1 A
57147159 GTGATTGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:57155854 original size:35 final size:34
Alignment explanation
Indices: 57155804--57155902 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 34
57155794 CATAGGTAAG
*
57155804 TACATGTAAGCTTATATTGAACTTGTATATTCGAC
1 TACATGTGAGCTTATATTGAA-TTGTATATTCGAC
* * * *
57155839 TGCATGTGAGGTTATATTGAATTTTAGTATTCGAT
1 TACATGTGAGCTTATATTGAATTGTA-TATTCGAC
*
57155874 TACATGTGAACTTATATTGAAATTGTATA
1 TACATGTGAGCTTATATTG-AATTGTATA
57155903 CTCGGATATA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 4 0.08
35 43 0.81
36 6 0.11
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (34 bp):
TACATGTGAGCTTATATTGAATTGTATATTCGAC
Found at i:57156987 original size:2 final size:2
Alignment explanation
Indices: 57156980--57157006 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
57156970 AGTATACATG
57156980 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
57157007 TTGTTAATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57159569 original size:24 final size:24
Alignment explanation
Indices: 57159520--57159713 Score: 282
Period size: 24 Copynumber: 8.1 Consensus size: 24
57159510 GCCTAGACTC
*
57159520 TTTAATAACTAGGGCA-AAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
57159543 TTTAATAACTGGGGCATAAGCCTT
1 TTTAATAACTGGGGCATAAGCCCT
*
57159567 TTTGATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
57159591 TTTGATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
57159615 TTCAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
* * *
57159639 TTTGATAATTAGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
57159663 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
* * *
57159687 TTTAATCATTGGGGCATAAGACCT
1 TTTAATAACTGGGGCATAAGCCCT
57159711 TTT
1 TTT
57159714 GCACTTCCTC
Statistics
Matches: 154, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 15 0.10
24 139 0.90
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (24 bp):
TTTAATAACTGGGGCATAAGCCCT
Found at i:57159789 original size:20 final size:20
Alignment explanation
Indices: 57159764--57159829 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
57159754 TATGAATACC
57159764 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
57159784 TCATGTTCATATCATACATG
1 TCATGTGCATATCATACATA
57159804 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
57159824 CCATGT
1 TCATGT
57159830 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:57171261 original size:77 final size:77
Alignment explanation
Indices: 57171141--57171330 Score: 335
Period size: 77 Copynumber: 2.5 Consensus size: 77
57171131 TATGGTAACC
* *
57171141 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
57171206 CGGTATCATAGCT
65 CGGTATCATAGCT
* *
57171219 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
57171284 GGTATCATAGCT
66 GGTATCATAGCT
57171296 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
57171331 TCGAACATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 90 0.84
78 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (77 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGTATCATAGCT
Found at i:57171263 original size:39 final size:39
Alignment explanation
Indices: 57171141--57171329 Score: 319
Period size: 38 Copynumber: 4.9 Consensus size: 39
57171131 TATGGTAACC
* * * *
57171141 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
57171181 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
57171219 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
57171258 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
57171296 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
57171330 CTCGAACATT
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 74 0.52
39 52 0.36
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:57179242 original size:76 final size:76
Alignment explanation
Indices: 57179124--57179311 Score: 315
Period size: 76 Copynumber: 2.5 Consensus size: 76
57179114 TATGGTAACC
* *
57179124 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
57179189 CGGTATCATAGCT
65 CGGTATCATA-CT
* *
57179202 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
57179266 GGTATCATACT
66 GGTATCATACT
57179277 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
57179312 TCGAACATTC
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
75 2 0.02
76 86 0.83
77 16 0.15
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (76 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGTATCATACT
Found at i:57179256 original size:39 final size:39
Alignment explanation
Indices: 57179124--57179310 Score: 301
Period size: 37 Copynumber: 4.9 Consensus size: 39
57179114 TATGGTAACC
* * * *
57179124 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
57179164 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
57179202 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
57179240 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATA-CT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
57179277 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
57179311 CTCGAACATT
Statistics
Matches: 140, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
37 57 0.41
38 30 0.21
39 36 0.26
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:57182250 original size:24 final size:24
Alignment explanation
Indices: 57182202--57182395 Score: 309
Period size: 24 Copynumber: 8.1 Consensus size: 24
57182192 GCCTAGCCTC
57182202 TTTAATAACTGGGGCA-AAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
57182225 TTTAATAACTGGGGAATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
57182249 TTCAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
57182273 TTTGATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
*
57182297 TTCAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
* *
57182321 TTTGATAACTGGCGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
57182345 TTTAATAACTGGGGCATAAGCCCT
1 TTTAATAACTGGGGCATAAGCCCT
* *
57182369 TTTAATCACTGGGGCATAAGACCT
1 TTTAATAACTGGGGCATAAGCCCT
57182393 TTT
1 TTT
57182396 GCACTTCCTC
Statistics
Matches: 156, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 15 0.10
24 141 0.90
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
TTTAATAACTGGGGCATAAGCCCT
Found at i:57182471 original size:20 final size:20
Alignment explanation
Indices: 57182446--57182511 Score: 105
Period size: 20 Copynumber: 3.3 Consensus size: 20
57182436 TATGAATACC
57182446 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
57182466 TCATGTTCATATCATACATG
1 TCATGTGCATATCATACATA
57182486 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
57182506 CCATGT
1 TCATGT
57182512 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:57185833 original size:12 final size:12
Alignment explanation
Indices: 57185818--57185872 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
57185808 GATTTTATAT
* *
57185818 TTTATTATTTAA
1 TTTAATATTAAA
57185830 TTTAATATTAAA
1 TTTAATATTAAA
57185842 TTTAATATTAAA
1 TTTAATATTAAA
* *
57185854 TTTTATTATTTAA
1 -TTTAATATTAAA
57185867 TTTAAT
1 TTTAAT
57185873 CATGCATGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 27 0.73
13 10 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:57185840 original size:37 final size:37
Alignment explanation
Indices: 57185798--57185872 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
57185788 TAAAAAAATT
* * *
57185798 TATTAAATTTGATTTTATATTTTATTATTTAATTTAA
1 TATTAAATTTAATATTAAATTTTATTATTTAATTTAA
57185835 TATTAAATTTAATATTAAATTTTATTATTTAATTTAA
1 TATTAAATTTAATATTAAATTTTATTATTTAATTTAA
57185872 T
1 T
57185873 CATGCATGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (37 bp):
TATTAAATTTAATATTAAATTTTATTATTTAATTTAA
Found at i:57187652 original size:40 final size:40
Alignment explanation
Indices: 57187545--57187712 Score: 146
Period size: 40 Copynumber: 4.2 Consensus size: 40
57187535 CGGAATATAA
*
57187545 CCGGATATAATCACGT-GCACCAA-TGCCTTC-GGTCTTAGC
1 CCGGATATAATAAC-TAGCA-CAATTGCCTTCGGGTCTTAGC
* *
57187584 CCGGATAGAAATAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATA-TAATAACTAGCAC-AATTGCCTTCGGGTCTTAGC
*** * *
57187625 CCGGATATAGCCACTAGCACAATTGCCTTCTGGTCTTAAC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
** * * * *
57187665 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCCTTAGC
1 CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
57187705 CCGGATAT
1 CCGGATAT
57187713 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 11 0.10
40 78 0.74
41 16 0.15
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:57189692 original size:40 final size:40
Alignment explanation
Indices: 57189648--57189815 Score: 191
Period size: 40 Copynumber: 4.2 Consensus size: 40
57189638 CGGAATACAA
* * *
57189648 CCGGATATAACCACACGCACGAATGCCTTCGTGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * *
57189688 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
*
57189728 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* *
57189768 CCGGATA-AAGTC-ACTAC-CAC-AATTGCCTTTGGGTCTTAAC
1 CCGGATATAA--CAACT-CGCACGAA-TGCCTTCGGGTCTTAGC
57189808 CCGGATAT
1 CCGGATAT
57189816 CATTCAATTG
Statistics
Matches: 111, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.04
40 106 0.95
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:57189789 original size:80 final size:80
Alignment explanation
Indices: 57189648--57189815 Score: 216
Period size: 80 Copynumber: 2.1 Consensus size: 80
57189638 CGGAATACAA
* *
57189648 CCGGATATAACCACACGCACGAATGCCTTCGTGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
*
57189713 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
**
57189728 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAC-CACAA
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACT-CGCACAA
* * *
57189790 TTGCCTTTGGGTCTTAAC
63 ATGCCTTCGGGTATTAAC
57189808 CCGGATAT
1 CCGGATAT
57189816 CATTCAATTG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 73 0.95
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
CCTTCGGGTATTAAC
Found at i:57201470 original size:40 final size:40
Alignment explanation
Indices: 57201418--57201602 Score: 282
Period size: 40 Copynumber: 4.7 Consensus size: 40
57201408 GCCACTAGCT
* ** *
57201418 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
57201458 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
57201497 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
57201537 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
57201577 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57201603 ATTAGCCATT
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
39 36 0.26
40 100 0.74
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:57201516 original size:79 final size:80
Alignment explanation
Indices: 57201418--57201602 Score: 282
Period size: 79 Copynumber: 2.3 Consensus size: 80
57201408 GCCACTAGCT
* ** * *
57201418 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
57201483 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
57201497 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
57201562 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
57201577 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57201603 ATTAGCCATT
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 59 0.61
80 37 0.39
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:57201623 original size:40 final size:39
Alignment explanation
Indices: 57201418--57201641 Score: 226
Period size: 40 Copynumber: 5.6 Consensus size: 39
57201408 GCCACTAGCT
* * * *
57201418 CAAATGCCTTCGGGACTTAGCCCGG-TTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG-CA-TCGCA
* *
57201458 CAAATGCCTTCGGGACTTAGCCCGGTATAATAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-ATAGCATCGCA
57201497 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT-ATAGCATCGCA
*
57201537 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATA-TAGCATCGCA
* * *
57201577 CGAATGCCTTCGGGACTTAGCCCGGAAT-TAGCCATTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG-CA-TCGCA
57201617 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
57201642 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
37 3 0.02
38 1 0.01
39 34 0.21
40 122 0.75
41 1 0.01
42 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGCATCGCA
Found at i:57205554 original size:39 final size:40
Alignment explanation
Indices: 57205433--57205623 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 40
57205423 CGGATATACG
* ** *
57205433 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGTG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
57205473 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
57205513 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * * *
57205552 ACTCGCACGAATGCCTTC-GGATCCTAG-TCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
57205591 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
57205624 CATCATTCGA
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 2 0.02
39 51 0.41
40 68 0.55
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:57205558 original size:79 final size:81
Alignment explanation
Indices: 57205440--57205623 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
57205430 ACGACTCGCT
** * *
57205440 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTC-GGATCCT-ACCC
* *
57205503 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
57205520 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTCGGATCCTAGTCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTACCCGG
*
57205583 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
57205599 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57205624 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 25 0.28
79 49 0.54
80 16 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACGAATGCCTTCGGATCCTACCCGG
ATATAGTAACTTAGCA
Found at i:57210528 original size:47 final size:48
Alignment explanation
Indices: 57210412--57210542 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 48
57210402 GTGCGATCAA
* * * *
57210412 TACCTTGATTTGGCTATGGGCCATGGTATGGGTATTTTAGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTAGAGAGAAGT
* * *
57210460 TACCTTAATTTGGCTATGGGCCATGGTATAGGTACTCT-GGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTAGAGAGAAGT
*
57210507 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
57210543 TATCGATTGA
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 40 0.54
48 34 0.46
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (48 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTAGAGAGAAGT
Found at i:57217132 original size:34 final size:34
Alignment explanation
Indices: 57217089--57217158 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
57217079 CTGATGATGT
57217089 CCCCCCACAGCACGAGGACCCACCGACTCAGCCA
1 CCCCCCACAGCACGAGGACCCACCGACTCAGCCA
57217123 CCCCCCACAGCACGAGGACCCACCGACTCAGCCA
1 CCCCCCACAGCACGAGGACCCACCGACTCAGCCA
57217157 CC
1 CC
57217159 ACCACCCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.26, C:0.54, G:0.17, T:0.03
Consensus pattern (34 bp):
CCCCCCACAGCACGAGGACCCACCGACTCAGCCA
Found at i:57221896 original size:20 final size:20
Alignment explanation
Indices: 57221856--57221914 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
57221846 AATTTAATGC
* *
57221856 TTATCTTAATAAT-ATTTTA
1 TTATCTTAATATTAAATTTA
*
57221875 TTAAT-TTAATATTAACTTTA
1 TT-ATCTTAATATTAAATTTA
57221895 TTATCTTAATATTAAATTTA
1 TTATCTTAATATTAAATTTA
57221915 ATTTAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.32
20 23 0.68
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATCTTAATATTAAATTTA
Found at i:57221972 original size:62 final size:59
Alignment explanation
Indices: 57221900--57222016 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
57221890 CTTTATTATC
* * *
57221900 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAACATTATATTAATTTAATAAGAT
*
57221962 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATA
57222017 TTGAAGTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 21 0.41
60 1 0.02
61 1 0.02
62 28 0.55
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATAAGAT
Found at i:57224510 original size:18 final size:18
Alignment explanation
Indices: 57224489--57224546 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
57224479 ACAAAATATT
57224489 AAATTAAAATATAATAAA
1 AAATTAAAATATAATAAA
* *
57224507 AAATATAAAA-ATTATACA
1 AAAT-TAAAATATAATAAA
* *
57224525 ACATTAAAATATAATAAG
1 AAATTAAAATATAATAAA
57224543 AAAT
1 AAAT
57224547 ATTCTTACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 5 0.16
18 21 0.68
19 5 0.16
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (18 bp):
AAATTAAAATATAATAAA
Found at i:57228193 original size:30 final size:30
Alignment explanation
Indices: 57228137--57228193 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57228127 TGGGATGGGA
* *
57228137 GAGGAGTAAAAGTTTGGGTAGGAAAGTGAG
1 GAGGAGTAAAAGTTTGAGTAGAAAAGTGAG
57228167 GAGGAGTAAAAGTTTTGAG-AGAAAAGT
1 GAGGAGTAAAAG-TTTGAGTAGAAAAGT
57228194 AAAAAAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.39, T:0.21
Consensus pattern (30 bp):
GAGGAGTAAAAGTTTGAGTAGAAAAGTGAG
Found at i:57232129 original size:18 final size:18
Alignment explanation
Indices: 57232106--57232145 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
57232096 TATTATTTTG
57232106 AAAAATATATAAAAT-TAT
1 AAAAATAT-TAAAATATAT
*
57232124 AAAAATATTTAAATATAT
1 AAAAATATTAAAATATAT
57232142 AAAA
1 AAAA
57232146 GCCTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATATTAAAATATAT
Found at i:57232154 original size:2 final size:2
Alignment explanation
Indices: 57232149--57232180 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
57232139 TATAAAAGCC
57232149 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57232181 GGATTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57233153 original size:24 final size:24
Alignment explanation
Indices: 57233120--57233214 Score: 68
Period size: 24 Copynumber: 3.8 Consensus size: 24
57233110 TTAATATTTT
*
57233120 TTTTATTTTTGTAATTTTAATTAA
1 TTTTAATTTTGTAATTTTAATTAA
* *
57233144 TTTTAATTTT-TGAATGTTAACTAATATT
1 TTTTAATTTTGT-AATTTTAA-T--TA-A
*
57233172 TTTTCATTTATGTAATTTTAATTAA
1 TTTTAATTT-TGTAATTTTAATTAA
*
57233197 TTTGT-ATTTTATAATTTT
1 TTT-TAATTTTGTAATTTT
57233215 TTATAACAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
23 1 0.02
24 24 0.43
25 8 0.14
26 3 0.05
27 2 0.04
28 9 0.16
29 8 0.14
30 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (24 bp):
TTTTAATTTTGTAATTTTAATTAA
Found at i:57235136 original size:45 final size:46
Alignment explanation
Indices: 57235004--57235364 Score: 218
Period size: 47 Copynumber: 7.7 Consensus size: 46
57234994 TTTGTGTGCT
* *
57235004 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * *
57235050 AGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
* * *
57235098 AGTGTATGGCATGTCT-AGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
** * * **
57235143 AGTGTAAGACATGTCTGGGGTATGCATC-GACTACGAGAT--GTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * * * * *
57235187 AGTGTAAGACCATGTCTAGGACATGGCATCGACATAGATATGTGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA--TGAGAGCC
* * * * ** * *
57235237 AGTGTAAGACCATGTTTGGGACATGACGTCGGCTTCAATTTCGATAGTC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAGAT-GAGAGCC
* *
57235286 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGATGA-A-CC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA--GATGAGAGCC
57235333 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
57235365 TATTATACCC
Statistics
Matches: 244, Mismatches: 51, Indels: 38
0.73 0.15 0.11
Matches are distributed among these distances:
44 10 0.04
45 46 0.19
46 37 0.15
47 53 0.22
48 30 0.12
49 34 0.14
50 34 0.14
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Done.