Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold544.1
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: 950074
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 5663 characters in sequence are not A, C, G, or T
File 4 of 4
Found at i:761077 original size:132 final size:133
Alignment explanation
Indices: 760462--761275 Score: 916
Period size: 132 Copynumber: 6.2 Consensus size: 133
760452 GTAGATCAGT
*
760462 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
* * * * * * * * * * *
760526 CATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTG
66 CCTATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
760589 GATC
130 GATC
* * * * * * *
760593 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGGAGTATG-TCGAAGAAAGCAGATATTGTC
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGT-GGATCGAAG-ATGCAGATCTTGTC
* * * * * * * * * *
760656 TTCATTTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAG
64 TTCCTATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAG
*
760719 TGGATC
128 TAGATC
* * * * * * * *
760725 GAAGAT-GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTGTCT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCAGATCTTGTCT
* * * * * *
760788 TCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCATGTATTGGCATAAAGTA
65 TCCTATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
760851 GATC
130 GATC
* * *
760855 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCAAAGTGGATCGAAGATGCATATCTTGTTTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
*
760920 CCTATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
66 CCTATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
760985 ATC
131 ATC
* * * * * *
760988 AAAGATAGTAGGTCATGACTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTATCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
* * *
761052 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
66 CCTATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
761117 ATC
131 ATC
* * * *
761120 GAAAATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATACAAATCTTGTCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
*
761184 CCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
66 CCTATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
761249 ATC
131 ATC
* *
761252 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGATAGCAGATCCTGTCTTCCT
761276 GTACCGACAG
Statistics
Matches: 596, Mismatches: 76, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
130 59 0.10
131 101 0.17
132 371 0.62
133 65 0.11
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (133 bp):
GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
CCTATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
ATC
Found at i:761620 original size:132 final size:132
Alignment explanation
Indices: 761377--761743 Score: 540
Period size: 132 Copynumber: 2.8 Consensus size: 132
761367 CCGATATTGA
* *
761377 AGCAGATCGAAGATGACGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* ** * *
761442 TCTACTTCCTTAAACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTAAAATCTTATCTCCCTAAGCAGTAGT
761507 GG
131 GG
* * * *
761509 AGCATATCGAAGATGGCGGATTTTACCTCCCTGTAGTTATAGTAGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
761574 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTAAAATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTAAAATCTTATCTCCCTAAGCAGTAGT
761639 GG
131 GG
* * *
761641 AGCAGAACGAAGATGGCGGATTTTACATCCCTGTGGTTACAGTGGAATACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
761705 TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTCAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
761744 GTAAGTCCTA
Statistics
Matches: 211, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
131 3 0.01
132 208 0.99
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTAAAATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:762014 original size:19 final size:19
Alignment explanation
Indices: 761990--762064 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
761980 AATCTTCGAG
761990 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAA
762009 GATATGCAATCTTAGATATGA
1 GATATGCAATCTTAGATA--A
* *
762030 TATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAA
*
762049 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
762065 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAA
Found at i:762036 original size:21 final size:21
Alignment explanation
Indices: 761991--762053 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
761981 ATCTTCGAGG
*
761991 ATATGCAATCTTAGATA--AG
1 ATATGCAATCTTAGATATGAT
762010 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
762031 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
762052 AT
1 AT
762054 GTAATCTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 17 0.41
21 24 0.59
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:762083 original size:23 final size:22
Alignment explanation
Indices: 762003--762087 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 22
761993 ATGCAATCTT
* *
762003 AGATAAGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
762024 ATATGAT-ATATGCAATCTT---
1 AGAT-ATGATATGTAATCTTAGA
762043 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
762065 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
762088 GATTTAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.26
21 15 0.28
22 9 0.17
23 13 0.25
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:762100 original size:21 final size:23
Alignment explanation
Indices: 762043--762101 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
762033 ATGCAATCTT
*
762043 AGATATG-ATATGTAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
762065 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
762087 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
762102 ATACCCTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.28
22 11 0.34
23 12 0.38
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:762704 original size:22 final size:21
Alignment explanation
Indices: 762656--762716 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
762646 TTGTAGTATA
*
762656 ATATAATTTTTT-TTATATGT
1 ATATATTTTTTTATTATATGT
762676 A-ATTATTTTTTTATCTATATGT
1 ATA-TATTTTTTTAT-TATATGT
*
762698 ATATATTTATTTTAGTATA
1 ATATATTT-TTTTATTATA
762717 CATATGTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 1 0.03
20 9 0.26
21 1 0.03
22 17 0.50
23 6 0.18
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (21 bp):
ATATATTTTTTTATTATATGT
Found at i:764665 original size:20 final size:20
Alignment explanation
Indices: 764617--764675 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
764607 ATAAGAAAAT
* *
764617 AAAATAAAAATAGATTCAA-
1 AAAATAAAAATAAATTTAAG
*
764636 AAACACAAAAATAAATTTAAG
1 AAA-ATAAAAATAAATTTAAG
*
764657 AAAAT-AAAATAATTTTAAG
1 AAAATAAAAATAAATTTAAG
764676 CTTAGCCTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 16 0.48
20 14 0.42
21 3 0.09
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAATAAAAATAAATTTAAG
Found at i:765519 original size:13 final size:13
Alignment explanation
Indices: 765501--765556 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
765491 AAGATTTTTC
765501 CTAAATATTATCA
1 CTAAATATTATCA
*
765514 CTAAATA--AT-T
1 CTAAATATTATCA
765524 CTAAATATTATCA
1 CTAAATATTATCA
765537 CTAAATATTATCA
1 CTAAATATTATCA
765550 CTAAATA
1 CTAAATA
765557 ATTCTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
10 7 0.18
11 2 0.05
12 2 0.05
13 27 0.71
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:766087 original size:26 final size:26
Alignment explanation
Indices: 766035--766085 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
766025 CAAGATAAGA
*
766035 ATGAAAAACATTTACATTGATTAAAT
1 ATGAAAAACATTTACATTAATTAAAT
* *
766061 ATGAAAGATATTTACATTAAATTAA
1 ATGAAAAACATTTACATT-AATTAA
766086 TAAACACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (26 bp):
ATGAAAAACATTTACATTAATTAAAT
Found at i:767731 original size:16 final size:15
Alignment explanation
Indices: 767710--767759 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 15
767700 ATACAAAAAT
767710 ATAAATGATAATAATA
1 ATAAAT-ATAATAATA
767726 ATAAATAATAATAATA
1 ATAAAT-ATAATAATA
767742 ATATAATATAATAATA
1 ATA-AATATAATAATA
767758 AT
1 AT
767760 GTAAAAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 29 0.91
17 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAATATAATAATA
Found at i:767733 original size:13 final size:13
Alignment explanation
Indices: 767717--767759 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
767707 AATATAAATG
767717 ATAATAATAATAA
1 ATAATAATAATAA
767730 ATAATAATAATAA
1 ATAATAATAATAA
767743 TATAAT-ATAAT-A
1 -ATAATAATAATAA
767755 ATAAT
1 ATAAT
767760 GTAAAAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.17
12 1 0.03
13 18 0.62
14 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:767774 original size:3 final size:3
Alignment explanation
Indices: 767717--767759 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
767707 AATATAAATG
767717 ATA ATA ATA ATAA ATA ATA ATA ATA AT- ATA AT- ATA ATA ATA AT
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
767760 GTAAAAACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:769479 original size:44 final size:44
Alignment explanation
Indices: 769421--769648 Score: 117
Period size: 44 Copynumber: 5.2 Consensus size: 44
769411 TGTAACCTCA
* * *
769421 AGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTT
1 AGGAGATAAAATCTGCAATCTTCAATCTACTCCACTACTGCCTT
* * * * *
769465 AGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCC-C
1 AGGAGATAAAATCTGCAATCTTCAATCTACTCCACTACTGCCTT
* * *** * * * *
769508 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-GTAACCTC
1 A-GGAGATAAAATCTGCAATCTTCAATCTACTCCACTACT-GCCTT
* * * * *
769552 AGGGAGGTGAAATCCGTC-ATCCTT-GATCTGCTCCACTACTG-CTT
1 A-GGAGATAAAATCTG-CAAT-CTTCAATCTACTCCACTACTGCCTT
* * * * *
769596 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCTA
1 A-GGAGATAAAATCTGCAATCTTCAATCTACTCCACTACTGCCTT
769641 AGGAGATA
1 AGGAGATA
769649 GAATTACTGG
Statistics
Matches: 132, Mismatches: 42, Indels: 20
0.68 0.22 0.10
Matches are distributed among these distances:
42 1 0.01
43 22 0.17
44 91 0.69
45 13 0.10
46 5 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
AGGAGATAAAATCTGCAATCTTCAATCTACTCCACTACTGCCTT
Found at i:769539 original size:132 final size:132
Alignment explanation
Indices: 769351--769736 Score: 582
Period size: 132 Copynumber: 2.9 Consensus size: 132
769341 AGATCTTCTT
* * * * * *
769351 TCTTCGATCGATTCCACTGCCGACC-GGAGAGATAGAATTACTGGCTTCAATATACTCCATTGTA
1 TCTTCAATCTATTCCACTGCTGCCCAGG-GAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
* * *
769415 ACCTCAAGGAGGTAAAATCTGCCAT-CTTCGATCTACTCCACTACTGCCTTA-GGAGATAAGATC
65 ACCTCAGGGAGGTAAAATCTGTCATCCTT-GATCTGCTCCACTACTG-CTTAGGGAGATAAGATC
769478 TGTAA
128 TGTAA
769483 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
769548 CCTCAGGGAGGTGAAATCCGTCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTGTCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
769613 AA
131 AA
* *
769615 TCTTCAATCTATTCCACTGCTGCCTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
*
769680 CCTCAGGGAGGTAAAAT-TCGTCATCCTTGATCTGCTCCACTACTGCTTATGGAGATA
66 CCTCAGGGAGGTAAAATCT-GTCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATA
769737 GAATTACTGG
Statistics
Matches: 234, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
131 4 0.02
132 225 0.96
133 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCTCAGGGAGGTAAAATCTGTCATCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
AA
Found at i:769688 original size:88 final size:88
Alignment explanation
Indices: 769596--769811 Score: 247
Period size: 88 Copynumber: 2.5 Consensus size: 88
769586 ACTACTGCTT
* * *
769596 AGGGAGATAAGA-TCTGTAAT-CTTCAATCTATTCCACTGCTGCCTAAGGAGATAGAATTACTGG
1 AGGGAGATAAAATTC-GTAATCCTT-AATCTACTCCACTACTGCCTAAGGAGATAGAATTACTGG
769659 CTTCAATGTACTCCACTGTAACCTC
64 CTTCAATGTACTCCACTGTAACCTC
* * * * * *
769684 AGGGAGGTAAAATTCGTCATCCTTGATCTGCTCCACTACTGCTTATGGAGATAGAATTACTGGCT
1 AGGGAGATAAAATTCGTAATCCTTAATCTACTCCACTACTGCCTAAGGAGATAGAATTACTGGCT
*
769749 TGAATGTACTCCACTGTAACCTC
66 TCAATGTACTCCACTGTAACCTC
* * ** * * *
769772 AGGGAGGTAAAATCCGCCATCATTGATCTGCTCCACTACT
1 AGGGAGATAAAATTCGTAATCCTTAATCTACTCCACTACT
769812 TCTTAGGGAG
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
88 108 0.96
89 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (88 bp):
AGGGAGATAAAATTCGTAATCCTTAATCTACTCCACTACTGCCTAAGGAGATAGAATTACTGGCT
TCAATGTACTCCACTGTAACCTC
Found at i:769820 original size:132 final size:132
Alignment explanation
Indices: 769684--769957 Score: 390
Period size: 132 Copynumber: 2.1 Consensus size: 132
769674 CTGTAACCTC
* * * * * *
769684 AGGGAGGTAAAATTCGTCATCCTT-GATCTGCTCCACTACTGCTTATGGAGATAGAATTACTGGC
1 AGGGAGATAAAATTCGTAAT-CTTCAATCTACTCCACTACTGCCTAAGGAGATAGAATTACTGGC
*
769748 TTGAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCATTGATCTGCTCCACTACT-
65 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCATTGATCTGCTCCACTACTG
769812 TCTT
130 TC-T
* * * *
769816 AGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGCCTAAGGAGATAGAATTACTGGCT
1 AGGGAGATAAAATTCGTAATCTTCAATCTACTCCACTACTGCCTAAGGAGATAGAATTACTGGCT
* * *
769881 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGTCATCCTTGATCTGCTCCACTACTGT
66 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCATTGATCTGCTCCACTACTGT
769946 CT
131 CT
769948 AGGGAGATAA
1 AGGGAGATAA
769958 GATCTGTTGT
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
131 3 0.02
132 121 0.96
133 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (132 bp):
AGGGAGATAAAATTCGTAATCTTCAATCTACTCCACTACTGCCTAAGGAGATAGAATTACTGGCT
TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCATTGATCTGCTCCACTACTGT
CT
Found at i:769822 original size:88 final size:88
Alignment explanation
Indices: 769627--769824 Score: 315
Period size: 88 Copynumber: 2.2 Consensus size: 88
769617 TTCAATCTAT
* * *
769627 TCCACTGCTGCCTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
1 TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
* * *
769692 AAAATTCGTCATCCTTGATCTGC
66 AAAATCCGCCATCATTGATCTGC
* *
769715 TCCACTACTGCTTATGGAGATAGAATTACTGGCTTGAATGTACTCCACTGTAACCTCAGGGAGGT
1 TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
769780 AAAATCCGCCATCATTGATCTGC
66 AAAATCCGCCATCATTGATCTGC
*
769803 TCCACTACTTCTTAGGGAGATA
1 TCCACTACTGCTTAGGGAGATA
769825 AGATTTGTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 101 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (88 bp):
TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
AAAATCCGCCATCATTGATCTGC
Found at i:769956 original size:220 final size:220
Alignment explanation
Indices: 769508--769956 Score: 819
Period size: 220 Copynumber: 2.0 Consensus size: 220
769498 ACTGCTGCCC
* *
769508 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTGAAATCCGTCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
*
769573 CTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
66 ATTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
769638 CTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGTCA
131 CTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGTCA
769703 TCCTTGATCTGCTCCACTACTGCTT
196 TCCTTGATCTGCTCCACTACTGCTT
* *
769728 ATGGAGATAGAATTACTGGCTTGAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
1 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
* *
769793 ATTGATCTGCTCCACTACTTCTTAGGGAGATAAGATTTGTAATCTTCAATCTATTCCACTGCTGC
66 ATTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
769858 CTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGTCA
131 CTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGTCA
769923 TCCTTGATCTGCTCCACTACTG-TCT
196 TCCTTGATCTGCTCCACTACTGCT-T
769948 AGGGAGATA
1 AGGGAGATA
769957 AGATCTGTTG
Statistics
Matches: 220, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
219 1 0.00
220 219 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (220 bp):
AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATC
ATTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGC
CTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGTCA
TCCTTGATCTGCTCCACTACTGCTT
Found at i:769958 original size:132 final size:132
Alignment explanation
Indices: 769715--769960 Score: 413
Period size: 132 Copynumber: 1.9 Consensus size: 132
769705 CTTGATCTGC
* * *
769715 TCCACTACTGCTTATGGAGATAGAATTACTGGCTTGAATGTACTCCACTGTAACCTCAGGGAGGT
1 TCCACTACTGCCTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
769780 AAAATCCGCCATCATTGATCTGCTCCACTACTTCTTAGGGAGATAAGATTTGTAATCTTCAATCT
66 AAAATCCGCCATCATTGATCTGCTCCACTACTTCTTAGGGAGATAAGATTTGTAATCTTCAATCT
769845 AT
131 AT
*
769847 TCCACTGCTGCCTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
1 TCCACTACTGCCTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
* * *
769912 AAAATTCGTCATCCTTGATCTGCTCCACTACTGTC-TAGGGAGATAAGAT
66 AAAATCCGCCATCATTGATCTGCTCCACTACT-TCTTAGGGAGATAAGAT
769961 CTGTTGTCCC
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
132 104 0.98
133 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (132 bp):
TCCACTACTGCCTAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGT
AAAATCCGCCATCATTGATCTGCTCCACTACTTCTTAGGGAGATAAGATTTGTAATCTTCAATCT
AT
Found at i:770005 original size:44 final size:44
Alignment explanation
Indices: 769956--770096 Score: 149
Period size: 44 Copynumber: 3.2 Consensus size: 44
769946 CTAGGGAGAT
* *
769956 AAGATCTGTTGTCCCTGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTTATCCTTGATCTACTTCACGCCAATACATGAAGAC
* * * * * ***
770000 AAGATCTGTTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTATCCTTGATCTACTTC-ACGCCAATACATGAAGAC
* *
770045 AAGATCTGCTAT-CTTCGATCTACTTCATGCCAATACATGAAGAC
1 AAGATCTGTTATCCTT-GATCTACTTCACGCCAATACATGAAGAC
770089 AAGATCTG
1 AAGATCTG
770097 CTTTCTTCCT
Statistics
Matches: 76, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
44 44 0.58
45 32 0.42
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
AAGATCTGTTATCCTTGATCTACTTCACGCCAATACATGAAGAC
Found at i:770097 original size:44 final size:43
Alignment explanation
Indices: 769972--770104 Score: 160
Period size: 44 Copynumber: 3.0 Consensus size: 43
769962 TGTTGTCCCT
* *
769972 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTT
1 GATCTACTTCA-GCCAATACATGAAGACAAGATCTGCTTTCTTC
*** *
770016 GATCTACTTC-GCCACCAGTATGGGAAGACAAGATCTGCTATCTTC
1 GATCTACTTCAGCCA--A-TACATGAAGACAAGATCTGCTTTCTTC
770061 GATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTC
1 GATCTACTTCA-GCCAATACATGAAGACAAGATCTGCTTTCTTC
770105 CTAGCTTACT
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
42 4 0.05
44 34 0.46
45 32 0.43
47 4 0.05
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (43 bp):
GATCTACTTCAGCCAATACATGAAGACAAGATCTGCTTTCTTC
Found at i:771002 original size:13 final size:13
Alignment explanation
Indices: 770984--771008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
770974 AAATTGTCGA
770984 GGATAATAAAGAT
1 GGATAATAAAGAT
770997 GGATAATAAAGA
1 GGATAATAAAGA
771009 AATTGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.24, T:0.20
Consensus pattern (13 bp):
GGATAATAAAGAT
Found at i:774337 original size:13 final size:13
Alignment explanation
Indices: 774319--774344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
774309 GTTCAATTTT
774319 TTTACTAGAAAAC
1 TTTACTAGAAAAC
774332 TTTACTAGAAAAC
1 TTTACTAGAAAAC
774345 AAATCTCTTT
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:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:775724 original size:48 final size:48
Alignment explanation
Indices: 775653--775749 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
775643 ACAATTTCTA
*
775653 AAAATCTCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTC
1 AAAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTC
775701 AAAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTC
1 AAAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTC
775749 A
1 A
775750 TTTTGAGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (48 bp):
AAAATCCCCGAACTTTGAATATCACTTTTATTTTATGCGAAAATCTTC
Found at i:776414 original size:3 final size:3
Alignment explanation
Indices: 776363--776399 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
776353 AATATAAATG
776363 ATA ATA ATA ATA ATA ATA A-A TATA AT- ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA AT
776400 GTAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 3 0.10
3 27 0.87
4 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:788948 original size:29 final size:27
Alignment explanation
Indices: 788914--788971 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 27
788904 TTTAAATATG
*
788914 TATAATTAAATCAAAATTAAAATTTTATA
1 TATAATTAAATCAAAA-CAAAA-TTTATA
*
788943 TATAATTAGATCAAAACAAAATTTATA
1 TATAATTAAATCAAAACAAAATTTATA
788970 TA
1 TA
788972 ACAAATCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 8 0.30
28 4 0.15
29 15 0.56
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (27 bp):
TATAATTAAATCAAAACAAAATTTATA
Found at i:793347 original size:25 final size:24
Alignment explanation
Indices: 793319--793386 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
793309 ACCAATTCTC
793319 AGCTCGAGAGAGCTTACCGATATTT
1 AGCTC-AGAGAGCTTACCGATATTT
** * *
793344 AGCTCACCTGA-CTTACGGTTATTT
1 AGCTCA-GAGAGCTTACCGATATTT
793368 AGCTCAGAGGAGCTTACCG
1 AGCTCAGA-GAGCTTACCG
793387 TTTACAGCTC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
24 20 0.61
25 13 0.39
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (24 bp):
AGCTCAGAGAGCTTACCGATATTT
Found at i:796100 original size:26 final size:27
Alignment explanation
Indices: 796049--796102 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
796039 TTTTTTTTAT
* *
796049 TATTATTATTTCTCTCATTTTAGTTCA
1 TATTATTACTTCTCTCATTGTAGTTCA
796076 TATTGATTACTTCTCT-ATTGT-GTTCA
1 TATT-ATTACTTCTCTCATTGTAGTTCA
796102 T
1 T
796103 TTTGTGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 8 0.33
28 10 0.42
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (27 bp):
TATTATTACTTCTCTCATTGTAGTTCA
Found at i:803419 original size:57 final size:58
Alignment explanation
Indices: 803323--803442 Score: 181
Period size: 57 Copynumber: 2.1 Consensus size: 58
803313 AGAAATGGTA
* **
803323 AAAATGGAGAAATGAGAAATATTTGGAAATGGTTATGGTTTTCTCCAAAATGAAAATG
1 AAAATAGAGAAATGAGAAATATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAATG
*
803381 AAAATAGAGAAATG-G-AATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAATG
1 AAAATAGAGAAATGAGAAAT-ATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAATG
803438 AAAAT
1 AAAAT
803443 GACCTGAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 3 0.05
57 41 0.72
58 13 0.23
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (58 bp):
AAAATAGAGAAATGAGAAATATTTGGAAATGAATATGGTTTTCTCCAAAATGAAAATG
Found at i:808500 original size:16 final size:15
Alignment explanation
Indices: 808463--808519 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
808453 TTTAAACATT
*
808463 TTAAAAATTAAAATA
1 TTAAAAAATAAAATA
808478 -TAGAAAAATAATAATA
1 TTA-AAAAATAA-AATA
* *
808494 TTAAAAATATAAGACA
1 TTAAAAA-ATAAAATA
808510 TTAAAAAATA
1 TTAAAAAATA
808520 GAAAAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 2 0.06
15 10 0.29
16 17 0.49
17 6 0.17
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (15 bp):
TTAAAAAATAAAATA
Found at i:808899 original size:19 final size:21
Alignment explanation
Indices: 808872--808910 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
808862 ATATTTATTT
808872 AATTATTAAAAATT-ATTTTA
1 AATTATTAAAAATTAATTTTA
*
808892 AATT-TTAAATATTAATTTT
1 AATTATTAAAAATTAATTTT
808911 TAAAACTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTATTAAAAATTAATTTTA
Found at i:810410 original size:13 final size:13
Alignment explanation
Indices: 810394--810422 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
810384 AAAAGAAAAA
810394 GAAGAAAATAAGG
1 GAAGAAAATAAGG
810407 GAAGAAAATAAGG
1 GAAGAAAATAAGG
810420 GAA
1 GAA
810423 AATGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (13 bp):
GAAGAAAATAAGG
Found at i:817577 original size:54 final size:54
Alignment explanation
Indices: 817492--817608 Score: 144
Period size: 54 Copynumber: 2.2 Consensus size: 54
817482 TCAAGTCAAT
* ** * *
817492 GAGTTACATGGCCTAACACATGGCTTGGCACACGGACGTATGTGGTAACTCAGA
1 GAGTTACACGGCCTAACACACAGCTTAGCACACGGACGCATGTGGTAACTCAGA
* ** * *
817546 GAGTTACACGGCCTAGCACACAGCTTAGCACACGGGTGCGTGTGGTAACTCAGT
1 GAGTTACACGGCCTAACACACAGCTTAGCACACGGACGCATGTGGTAACTCAGA
817600 GAGTTACAC
1 GAGTTACAC
817609 AGGTGTGTGT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (54 bp):
GAGTTACACGGCCTAACACACAGCTTAGCACACGGACGCATGTGGTAACTCAGA
Found at i:817619 original size:30 final size:30
Alignment explanation
Indices: 817575--817638 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
817565 ACAGCTTAGC
* *
817575 ACACGGGTGCGTGTGGTAACTCAGTGAGTT
1 ACACAGGTGCGTGTGGCAACTCAGTGAGTT
*
817605 ACACAGGTGTGTGTGGCAACTCAGTGAGTT
1 ACACAGGTGCGTGTGGCAACTCAGTGAGTT
817635 ACAC
1 ACAC
817639 TTGTGAGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (30 bp):
ACACAGGTGCGTGTGGCAACTCAGTGAGTT
Found at i:818996 original size:6 final size:6
Alignment explanation
Indices: 818987--819014 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
818977 AAGAGGTAGA
818987 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
819015 TCAAAGAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:827066 original size:7 final size:7
Alignment explanation
Indices: 827054--827096 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
827044 AACATTATTG
827054 AAAACAA
1 AAAACAA
827061 AAAACAA
1 AAAACAA
827068 AAAGA-AA
1 AAA-ACAA
*
827075 AGAATCAA
1 A-AAACAA
827083 AAAACAA
1 AAAACAA
827090 AAAACAA
1 AAAACAA
827097 TTTTGAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.81, C:0.12, G:0.05, T:0.02
Consensus pattern (7 bp):
AAAACAA
Found at i:827648 original size:3 final size:3
Alignment explanation
Indices: 827642--827687 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
827632 TTTTTTTTTA
*
827642 TAT TAT TAAT T-T TAT TA- TAT TAAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
827687 T
1 T
827688 TCAATAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 4 0.11
3 27 0.73
4 6 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:838485 original size:42 final size:42
Alignment explanation
Indices: 838433--838546 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
838423 TACTTCAATT
* * * *
838433 TATCCGATGATGCATTTATGTGCCAGTATAACTACTTTGGTA
1 TATCCAATGATACACTTATGTGCCAGTATAACTACTTCGGTA
* * ** *
838475 TATCCAATGATACACTTATATGTCAGTATATTTGCTTCGGTA
1 TATCCAATGATACACTTATGTGCCAGTATAACTACTTCGGTA
* * *
838517 TATTCAATGATACACTTACGTGCTAGTATA
1 TATCCAATGATACACTTATGTGCCAGTATA
838547 TTTGCTTTAG
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.39
Consensus pattern (42 bp):
TATCCAATGATACACTTATGTGCCAGTATAACTACTTCGGTA
Found at i:838560 original size:42 final size:42
Alignment explanation
Indices: 838467--838560 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
838457 AGTATAACTA
*
838467 CTTTGGTATATCCAATGATACACTTATATGTCAGTATATTTG
1 CTTTGGTATATCCAATGATACACTTACATGTCAGTATATTTG
* * *
838509 CTTCGGTATATTCAATGATACACTTACGTG-CTAGTATATTTG
1 CTTTGGTATATCCAATGATACACTTACATGTC-AGTATATTTG
*
838551 CTTTAGTATA
1 CTTTGGTATA
838561 CCCGATTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 44 0.98
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (42 bp):
CTTTGGTATATCCAATGATACACTTACATGTCAGTATATTTG
Found at i:839063 original size:30 final size:30
Alignment explanation
Indices: 839028--839094 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
839018 GATACAAGGG
839028 ACACACGACCGTATCATCTGGCCGTGTGTC
1 ACACACGACCGTATCATCTGGCCGTGTGTC
*
839058 ACACACGACCGTGTCATCTGGCCGTGTGTC
1 ACACACGACCGTATCATCTGGCCGTGTGTC
839088 ACACACG
1 ACACACG
839095 GCTGAGACAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.21, C:0.34, G:0.24, T:0.21
Consensus pattern (30 bp):
ACACACGACCGTATCATCTGGCCGTGTGTC
Found at i:840210 original size:69 final size:69
Alignment explanation
Indices: 840123--840262 Score: 217
Period size: 69 Copynumber: 2.0 Consensus size: 69
840113 GTCGAGTAGC
* * *
840123 TCAAGAGAGCTATTAATCGAGACGCTTATACGAACCAAATATCGAGAAGCTCATGAGAGTTGTGG
1 TCAAGAAAGCTATTAATCGAGAAGCTCATACGAACCAAATATCGAGAAGCTCATGAGAGTTGTGG
840188 TGTG
66 TGTG
* * * *
840192 TCAAGAAAGCTATTAATCGGGAAGCTCATATGAGCCAAATATCGGGAAGCTCATGAGAGTTGTGG
1 TCAAGAAAGCTATTAATCGAGAAGCTCATACGAACCAAATATCGAGAAGCTCATGAGAGTTGTGG
840257 TGTG
66 TGTG
840261 TC
1 TC
840263 CGCAACACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (69 bp):
TCAAGAAAGCTATTAATCGAGAAGCTCATACGAACCAAATATCGAGAAGCTCATGAGAGTTGTGG
TGTG
Found at i:848947 original size:13 final size:13
Alignment explanation
Indices: 848929--848953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
848919 ACAAACGAGA
848929 AAATTTTCACACG
1 AAATTTTCACACG
848942 AAATTTTCACAC
1 AAATTTTCACAC
848954 TTATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:855952 original size:18 final size:18
Alignment explanation
Indices: 855929--855963 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
855919 TAAATCGAAA
855929 AGATACAATTTTAATTAG
1 AGATACAATTTTAATTAG
855947 AGATACAATTTTAATTA
1 AGATACAATTTTAATTA
855964 AGTGTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (18 bp):
AGATACAATTTTAATTAG
Found at i:861730 original size:97 final size:97
Alignment explanation
Indices: 861564--861752 Score: 342
Period size: 97 Copynumber: 1.9 Consensus size: 97
861554 TGCTACAGTA
* * * *
861564 GGTCATGGAAGAAATAATTTTTTTTTGACGTTTCTGAGGAAATAGTATAAAATCGCTTCTAGCTA
1 GGTCATGGAAGAAATAATTTTTTCTTGACGTTTCTGAGCAAATAGTAGAAAATCGCTTCTAGCAA
861629 GATGCTATTTGAGAAGAATTTGTGAAACTGTT
66 GATGCTATTTGAGAAGAATTTGTGAAACTGTT
861661 GGTCATGGAAGAAATAATTTTTTCTTGACGTTTCTGAGCAAATAGTAGAAAATCGCTTCTAGCAA
1 GGTCATGGAAGAAATAATTTTTTCTTGACGTTTCTGAGCAAATAGTAGAAAATCGCTTCTAGCAA
861726 GATGCTATTTGAGAAGAATTTGTGAAA
66 GATGCTATTTGAGAAGAATTTGTGAAA
861753 TCGCGCCCTC
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 88 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (97 bp):
GGTCATGGAAGAAATAATTTTTTCTTGACGTTTCTGAGCAAATAGTAGAAAATCGCTTCTAGCAA
GATGCTATTTGAGAAGAATTTGTGAAACTGTT
Found at i:864032 original size:28 final size:27
Alignment explanation
Indices: 863999--864097 Score: 110
Period size: 28 Copynumber: 3.6 Consensus size: 27
863989 TAATGAGATT
863999 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* * **
864026 ATGCACTAAGTGTGTGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
864055 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
864083 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
864098 TACTTATTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 54 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:865142 original size:47 final size:46
Alignment explanation
Indices: 865030--865146 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 46
865020 TTGTGTTATA
* * * *
865030 AATTTAATGTATAATGCTGTCCAATTTTGAGTATATTTAAGCTGTCT
1 AATTTGATGTATAATGCTGTCC-ATTTAGAGCATATTTAAGCTGTCC
* *
865077 AATTCGATGTATAATGCTGTCCATTTAGAGCATA-TTATTGCTGTCC
1 AATTTGATGTATAATGCTGTCCATTTAGAGCATATTTA-AGCTGTCC
*
865123 AATTTGATGAATAATTGCTGTCCA
1 AATTTGATGTATAA-TGCTGTCCA
865147 AAACAGGGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 3 0.05
46 28 0.47
47 29 0.48
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (46 bp):
AATTTGATGTATAATGCTGTCCATTTAGAGCATATTTAAGCTGTCC
Found at i:865143 original size:23 final size:23
Alignment explanation
Indices: 865030--865147 Score: 93
Period size: 23 Copynumber: 5.1 Consensus size: 23
865020 TTGTGTTATA
*
865030 AATTTAATGTATAA-TGCTGTCC
1 AATTTGATGTATAATTGCTGTCC
* *
865052 AATTTTGA-GTATATTTAAGCTGTCT
1 AA-TTTGATGTATAATT--GCTGTCC
*
865077 AATTCGATGTATAA-TGCTGTCC
1 AATTTGATGTATAATTGCTGTCC
*
865099 -ATTTAGA-GCATATTATTGCTGTCC
1 AATTT-GATG--TATAATTGCTGTCC
*
865123 AATTTGATGAATAATTGCTGTCC
1 AATTTGATGTATAATTGCTGTCC
865146 AA
1 AA
865148 AACAGGGTTG
Statistics
Matches: 75, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
21 4 0.05
22 15 0.20
23 23 0.31
24 15 0.20
25 18 0.24
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (23 bp):
AATTTGATGTATAATTGCTGTCC
Found at i:867619 original size:25 final size:25
Alignment explanation
Indices: 867591--867821 Score: 234
Period size: 25 Copynumber: 9.6 Consensus size: 25
867581 TAAGCTCATG
867591 TTATTACATCAAATAAACTTCTATT
1 TTATTACATCAAATAAACTTCTATT
867616 TTATTACATCAAAT-AA-TATC-A--
1 TTATTACATCAAATAAACT-TCTATT
** * * *
867637 AAATAAC-TCAAAAAAATTTCTATT
1 TTATTACATCAAATAAACTTCTATT
*
867661 TTATTACATCAATTAAACTTCTATT
1 TTATTACATCAAATAAACTTCTATT
867686 TTATTACATCAAATAAACTTCTATT
1 TTATTACATCAAATAAACTTCTATT
* *
867711 TTATTACAT-AAA-ATA--T-TATC
1 TTATTACATCAAATAAACTTCTATT
** * * *
867731 AAAATA-ACTCAAAAAAATTTCTATT
1 TTATTACA-TCAAATAAACTTCTATT
867756 TTATTACATCAAATAAACTTCTATT
1 TTATTACATCAAATAAACTTCTATT
*
867781 TTATTACATCAAATAATCTTCTATT
1 TTATTACATCAAATAAACTTCTATT
867806 TTATTACATCAAATAA
1 TTATTACATCAAATAA
867822 TATCATAATA
Statistics
Matches: 168, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.01
20 12 0.07
21 12 0.07
22 4 0.02
23 4 0.02
24 12 0.07
25 122 0.73
26 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (25 bp):
TTATTACATCAAATAAACTTCTATT
Found at i:867705 original size:95 final size:95
Alignment explanation
Indices: 867591--867867 Score: 482
Period size: 95 Copynumber: 2.9 Consensus size: 95
867581 TAAGCTCATG
867591 TTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTT
1 TTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTT
*
867656 CTATTTTATTACATCAATTAAACTTCTATT
66 CTATTTTATTACATCAAATAAACTTCTATT
* *
867686 TTATTACATCAAATAAACTTCTATTTTATTACATAAAATATTATCAAAATAACTCAAAAAAATTT
1 TTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTT
867751 CTATTTTATTACATCAAATAAACTTCTATT
66 CTATTTTATTACATCAAATAAACTTCTATT
* * *
867781 TTATTACATCAAATAATCTTCTATTTTATTACATCAAATAATATCATAATAACTCAAAAAAAAAT
1 TTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC-AAAAAAATT
*
867846 TCTATTTTATTACATAAAATAA
65 TCTATTTTATTACATCAAATAA
867868 TATTAAAATA
Statistics
Matches: 172, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
95 143 0.83
96 29 0.17
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (95 bp):
TTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAATTT
CTATTTTATTACATCAAATAAACTTCTATT
Found at i:869532 original size:23 final size:24
Alignment explanation
Indices: 869504--869550 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
869494 AACGTATACT
*
869504 AAAAAACATATGTGCAT-TATATA
1 AAAAAACATATGCGCATGTATATA
*
869527 AAAAAACCTATGCGCATGTATATA
1 AAAAAACATATGCGCATGTATATA
869551 CAGTAGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.28
Consensus pattern (24 bp):
AAAAAACATATGCGCATGTATATA
Found at i:871392 original size:7 final size:7
Alignment explanation
Indices: 871382--871406 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
871372 TTATATACAT
871382 AATACTA
1 AATACTA
871389 AATACTA
1 AATACTA
871396 AATACTA
1 AATACTA
871403 AATA
1 AATA
871407 TCAATCGACT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:871614 original size:20 final size:20
Alignment explanation
Indices: 871576--871614 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
871566 TTTTATTTTT
*
871576 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
871596 TAAAATCTA-ATATAAAATT
1 TAAAATCTACATA-AAAATT
871615 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:872623 original size:11 final size:11
Alignment explanation
Indices: 872609--872675 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
872599 TTAAATATGG
872609 ATTTGAGAGAA
1 ATTTGAGAGAA
872620 ATTTTGTAG-G-A
1 A-TTTG-AGAGAA
*
872631 ATTTGAGAGCA
1 ATTTGAGAGAA
*
872642 AGTTGAGAGGAA
1 ATTTGAGA-GAA
872654 A-TTGAGAGGAA
1 ATTTGAGA-GAA
872665 ATTTGAGAGAA
1 ATTTGAGAGAA
872676 GATTAGTTTG
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
9 2 0.04
10 5 0.10
11 25 0.52
12 14 0.29
13 2 0.04
ACGTcount: A:0.40, C:0.01, G:0.31, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:877867 original size:31 final size:31
Alignment explanation
Indices: 877823--877882 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
877813 TCATCCCAGG
877823 TTGCCCGAAAATGATGACTT-GCCACCCTGGA
1 TTGCCCGAAAATGATGACTTAG-CACCCTGGA
** *
877854 TTGCCCGGCAATGATGGCTTAGCACCCTG
1 TTGCCCGAAAATGATGACTTAGCACCCTG
877883 AGTTGCTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (31 bp):
TTGCCCGAAAATGATGACTTAGCACCCTGGA
Found at i:877972 original size:31 final size:31
Alignment explanation
Indices: 877934--877994 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
877924 TCGGGTTGTC
*
877934 TAGCAACAATAACTTGCCACCCTA-GATTGCT
1 TAGCAACAATAACTTACCACCC-AGGATTGCT
*
877965 TAGCAACAATGACTTACCACCCAGGATTGC
1 TAGCAACAATAACTTACCACCCAGGATTGC
877995 CCGACAACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (31 bp):
TAGCAACAATAACTTACCACCCAGGATTGCT
Found at i:881963 original size:16 final size:16
Alignment explanation
Indices: 881942--882006 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
881932 TTCGCTGTAT
*
881942 TGGAATAAAGGCGTAA
1 TGGAATAGAGGCGTAA
*
881958 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
881974 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
881990 TGGAATAGAGTCGTAA
1 TGGAATAGAGGCGTAA
882006 T
1 T
882007 AGCAAATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:882319 original size:22 final size:21
Alignment explanation
Indices: 882294--882345 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
882284 TAGATATTCT
*
882294 TAATATTAA-ATTACTAAAATCA
1 TAATATTAATACTA-TAAAAT-A
882316 TAATATATAATACTATAAAATA
1 TAATAT-TAATACTATAAAATA
882338 TAAT-TTAA
1 TAATATTAA
882346 CATAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATTAATACTATAAAATA
Found at i:882356 original size:121 final size:120
Alignment explanation
Indices: 882221--882511 Score: 512
Period size: 121 Copynumber: 2.4 Consensus size: 120
882211 TAATCATATC
882221 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT-
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
882285 AGATATTCTTAATATTAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
66 AGATATTCTT-ATA-TAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
882342 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT-
* *
882407 AATATATTCTTATATGAATTACTAAAATCATAATATATAATACTATAAAATATAAT
65 AAGATATTCTTATATAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
* *
882463 TTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
882512 CTAAAGTTTG
Statistics
Matches: 164, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
121 152 0.93
122 3 0.02
123 9 0.05
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (120 bp):
TTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AGATATTCTTATATAAATTACTAAAATCATAATATATAATACTATAAAATATAAT
Found at i:882455 original size:62 final size:62
Alignment explanation
Indices: 882255--882457 Score: 190
Period size: 62 Copynumber: 3.3 Consensus size: 62
882245 ATTTAATAAA
* *
882255 AATATATAATTTAATAAAATTCTTAATATT--AGATATTCTTAATATTAAATTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATATTCTT-ATA-TAAATTACTAAAATCAT
* * * ** * *
882317 AATATATAATACT-ATAAAA-T-ATAAT-TTAACATA-ATTATTAT-TAAATATAATTTAATAAA
1 AATATATAAT-CTAATAAAATTCTTAATATTAA-ATATATTCTTATATAAAT-TACTAAAATCAT
* *
882376 AATATATAATTTAATAAAATTCTTAATATTAAATATATTCTTATATGAATTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATATTCTTATATAAATTACTAAAATCAT
882438 AATATATAATACT-ATAAAAT
1 AATATATAAT-CTAATAAAAT
882458 ATAATTTAAA
Statistics
Matches: 110, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
58 6 0.05
59 25 0.23
60 7 0.06
61 13 0.12
62 53 0.48
63 6 0.05
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (62 bp):
AATATATAATCTAATAAAATTCTTAATATTAAATATATTCTTATATAAATTACTAAAATCAT
Found at i:882476 original size:13 final size:12
Alignment explanation
Indices: 882452--882492 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
882442 TATAATACTA
882452 TAAAATATAATT
1 TAAAATATAATT
882464 TAAAATAATAATT
1 TAAAAT-ATAATT
*
882477 ATTAAATATAATT
1 -TAAAATATAATT
882490 TAA
1 TAA
882493 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:895717 original size:45 final size:46
Alignment explanation
Indices: 895611--896172 Score: 266
Period size: 45 Copynumber: 12.8 Consensus size: 46
895601 TCGCATCTAG
*
895611 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACT-AAG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGAT-AGCAAA
* * *
895655 TATTATC-CTCCTGAAGTTACAGTGAG-GCAGACTAAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
* **
895700 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGATTAAAG-CCG-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCA-AA
* * * * * *** *
895744 TCCTATCTCTCTGAAGTTGCA-TTAGAGCGGATTAAA-ACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
* * * *
895788 TCTTATCTCTCTGAAGTTGCA--GAGAGCAGA-T--TGCAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG-ATAGCAAA
* * *
895828 TCTTATCTCTCTGAAGTTGCAGTG-GAGCAGACT-AAGCAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG-ATAGCAAA
* * *
895873 TCTTATC-CTCCTGAAGTTGCGGTGAG-GCAGGCTGAAA-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAAGATAGCAAA
* * **
895918 TCTTATCTCCCTGAAGTTGCAGTG-GAGTAGATTAAAG-CCG-ACAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCA-AA
* * * * * * * * *
895962 TCCTATCTCCTTGAAGTTGTATTG-GAGCGGATTAAA-ACATCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
* * ** * *
896006 TTTTATCTCTCTGAAGTTGCA--GAGAGC--A-TATCGCAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG-ATAGCAAA
* * *
896046 TCTTATCTCCCTGAAGTTGTAGTG-GAGCAGACT-AAGCAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG-ATAGCAAA
* *
896091 TCTTATC-CTCCTGAAGTTGCAGTGAG-GCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
* * * *
896136 TTTTATCTCCCTGAAGTTGCGGTG-GAACAGATTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG
896173 CTGACAGTGG
Statistics
Matches: 401, Mismatches: 74, Indels: 85
0.72 0.13 0.15
Matches are distributed among these distances:
40 43 0.11
41 12 0.03
42 7 0.02
43 22 0.05
44 143 0.36
45 163 0.41
46 9 0.02
47 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
Found at i:895843 original size:40 final size:43
Alignment explanation
Indices: 895699--896033 Score: 170
Period size: 44 Copynumber: 7.7 Consensus size: 43
895689 AAGATGGCAA
* * *
895699 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT-A-
1 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTAAAACC--TCAG
* * *
895743 ATCCTATCTCTCTGAAGTTGCATTAGAGCGGATTAAAACCTCAG
1 ATCTTATCTCTCTGAAGTTGCA-GAGAGCAGATTAAAACCTCAG
** *
895787 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATT-GCATCT-AG
1 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTAAAACCTCAG
* * **
895828 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGCAA-AGCA-
1 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTAA--AACCTCAG
* * * * *** *
895871 AGTCTTATC-CTCCTGAAGTTGCGGTGAGGCAGGCTGAAAATGGCAA
1 A-TCTTATCTCT-CTGAAGTTGCAGAGA-GCA-GATTAAAACCTCAG
* * * * *
895917 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGACA-
1 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTAAAACC-TCAG
* * * *
895961 ATCCTATCTC-CTTGAAGTTGTATTG-GAGCGGATTAAAACATCAG
1 ATCTTATCTCTC-TGAAGTTGCA--GAGAGCAGATTAAAACCTCAG
*
896005 ATTTTATCTCTCTGAAGTTGCAGAGAGCA
1 ATCTTATCTCTCTGAAGTTGCAGAGAGCA
896034 TATCGCATCT
Statistics
Matches: 222, Mismatches: 45, Indels: 49
0.70 0.14 0.16
Matches are distributed among these distances:
40 22 0.10
41 10 0.05
42 5 0.02
43 17 0.08
44 113 0.51
45 47 0.21
46 8 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTAAAACCTCAG
Found at i:895980 original size:218 final size:218
Alignment explanation
Indices: 895597--896178 Score: 945
Period size: 218 Copynumber: 2.7 Consensus size: 218
895587 GTGAAGACAA
* *
895597 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-TAAGCAAGTATTAT
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
*
895661 CCTCCTGAAGTTACAGTGAGGCAGACT-AAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
66 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAA-ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
895725 AGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTGCATTAGAGCGGATTAAAACCTCAGATC
130 AGCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTGCATTAGAGCGGATTAAAACATCAGATC
895790 TTATCTCTCTGAAGTTGCAGAGAG
195 TTATCTCTCTGAAGTTGCAGAGAG
* *
895814 CAGATTGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
* *
895879 CCTCCTGAAGTTGCGGTGAGGCAGGCTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
66 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* * * *
895944 GTAGATTAAAGCCGACAATCCTATCTC-CTTGAAGTTGTATTGGAGCGGATTAAAACATCAGATT
131 GCAGATTAAAGCCGACAATCCTATCTCTC-TGAAGTTGCATTAGAGCGGATTAAAACATCAGATC
896008 TTATCTCTCTGAAGTTGCAGAGAG
195 TTATCTCTCTGAAGTTGCAGAGAG
* *
896032 CATATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
* * *
896097 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTGAAGTTGCGGTGGA
66 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* *
896162 ACAGATTAAAGCTGACA
131 GCAGATTAAAGCCGACA
896179 GTGGAGCGGG
Statistics
Matches: 337, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
217 49 0.15
218 285 0.85
219 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (218 bp):
CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
CCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
GCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTGCATTAGAGCGGATTAAAACATCAGATCT
TATCTCTCTGAAGTTGCAGAGAG
Found at i:897128 original size:146 final size:146
Alignment explanation
Indices: 896861--897151 Score: 555
Period size: 146 Copynumber: 2.0 Consensus size: 146
896851 TTTGCAAATC
*
896861 AAATCAAAAGAAAATAGATATTGTTTCTTCTTTTATTCTTTTTCATATGGCTATATAAAGCTATT
1 AAATCAAAAGAAAATAGATATTGTTTCTTCTTTTATTCTTTTTCATATAGCTATATAAAGCTATT
*
896926 GATAATACTGTAAAAGGCCCGGATTTTGGAGATCAAAAATATAAACTGTAAATTTCGCAATATCA
66 GATAATACTGTAAAAGGCCCGGATTTTGGAGATCAAAAATATAAACTGCAAATTTCGCAATATCA
896991 AGAGCAAAAATCGAAA
131 AGAGCAAAAATCGAAA
897007 AAATCAAAAGAAAATAGATATTGTTTCTTCTTTTATTCTTTTTCATATAGCTATATAAAGCTATT
1 AAATCAAAAGAAAATAGATATTGTTTCTTCTTTTATTCTTTTTCATATAGCTATATAAAGCTATT
*
897072 GATAATACTGTAAAAGGCCCGGATTTTGGAGATCAAAAATATAAACTGCAACTTTCGCAATATCA
66 GATAATACTGTAAAAGGCCCGGATTTTGGAGATCAAAAATATAAACTGCAAATTTCGCAATATCA
897137 AGAGCAAAAATCGAA
131 AGAGCAAAAATCGAA
897152 GCAAAGGTGG
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
146 142 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (146 bp):
AAATCAAAAGAAAATAGATATTGTTTCTTCTTTTATTCTTTTTCATATAGCTATATAAAGCTATT
GATAATACTGTAAAAGGCCCGGATTTTGGAGATCAAAAATATAAACTGCAAATTTCGCAATATCA
AGAGCAAAAATCGAAA
Found at i:897397 original size:83 final size:83
Alignment explanation
Indices: 897258--897422 Score: 312
Period size: 83 Copynumber: 2.0 Consensus size: 83
897248 GAGCCTGAAA
897258 CCGTCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTCAAGACCGGAAACCGAAAGGTTTCTATG
1 CCGTCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTCAAGACCGGAAACCGAAAGGTTTCTATG
897323 CTTTTAGGGGCTCTTTCG
66 CTTTTAGGGGCTCTTTCG
* *
897341 CCGTCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTCAAGACCGGAAGCCGAAAGGTTTCTGTG
1 CCGTCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTCAAGACCGGAAACCGAAAGGTTTCTATG
897406 CTTTTAGGGGCTCTTTC
66 CTTTTAGGGGCTCTTTC
897423 ATTATTGTTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (83 bp):
CCGTCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTCAAGACCGGAAACCGAAAGGTTTCTATG
CTTTTAGGGGCTCTTTCG
Found at i:898383 original size:24 final size:25
Alignment explanation
Indices: 898342--898389 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
898332 CACATATATA
898342 TATTTTTTAAAAACGAATATTTTCC
1 TATTTTTTAAAAACGAATATTTTCC
* *
898367 TATTTTTT-TAAATGAATATTTTC
1 TATTTTTTAAAAACGAATATTTTC
898390 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (25 bp):
TATTTTTTAAAAACGAATATTTTCC
Found at i:898767 original size:9 final size:9
Alignment explanation
Indices: 898755--898779 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
898745 GATGATGTAT
898755 TTATTATTG
1 TTATTATTG
898764 TTATTATTG
1 TTATTATTG
898773 TTATTAT
1 TTATTAT
898780 AGCATTTGCA
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:899177 original size:98 final size:98
Alignment explanation
Indices: 899055--899251 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
899045 TTAAAAATAA
* * *
899055 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
899120 TTAAATCTTGGGTAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
899153 TAAAGGAAATATTCCAAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
899218 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
899251 T
1 T
899252 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:910745 original size:45 final size:46
Alignment explanation
Indices: 910639--911200 Score: 266
Period size: 45 Copynumber: 12.8 Consensus size: 46
910629 TCGCATCTAG
*
910639 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACT-AAG-TAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGAT-AGCAAA
* * *
910683 TATTATC-CTCCTGAAGTTACAGTGAG-GCAGACTAAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
* **
910728 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGATTAAAG-CCG-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCA-AA
* * * * * *** *
910772 TCCTATCTCTCTGAAGTTGCA-TTAGAGCGGATTAAA-ACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
* * * *
910816 TCTTATCTCTCTGAAGTTGCA--GAGAGCAGA-T--TGCAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG-ATAGCAAA
* * *
910856 TCTTATCTCTCTGAAGTTGCAGTG-GAGCAGACT-AAGCAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG-ATAGCAAA
* * *
910901 TCTTATC-CTCCTGAAGTTGCGGTGAG-GCAGGCTGAAA-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAAGATAGCAAA
* * **
910946 TCTTATCTCCCTGAAGTTGCAGTG-GAGTAGATTAAAG-CCG-ACAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCA-AA
* * * * * * * * *
910990 TCCTATCTCCTTGAAGTTGTATTG-GAGCGGATTAAA-ACATCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
* * ** * *
911034 TTTTATCTCTCTGAAGTTGCA--GAGAGC--A-TATCGCAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG-ATAGCAAA
* * *
911074 TCTTATCTCCCTGAAGTTGTAGTG-GAGCAGACT-AAGCAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG-ATAGCAAA
* *
911119 TCTTATC-CTCCTGAAGTTGCAGTGAG-GCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
* * * *
911164 TTTTATCTCCCTGAAGTTGCGGTG-GAACAGATTAAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAG
911201 CTGACAGTGG
Statistics
Matches: 401, Mismatches: 74, Indels: 85
0.72 0.13 0.15
Matches are distributed among these distances:
40 43 0.11
41 12 0.03
42 7 0.02
43 22 0.05
44 143 0.36
45 163 0.41
46 9 0.02
47 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAAGATAGCAAA
Found at i:910871 original size:40 final size:43
Alignment explanation
Indices: 910727--911061 Score: 170
Period size: 44 Copynumber: 7.7 Consensus size: 43
910717 AAGATGGCAA
* * *
910727 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT-A-
1 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTAAAACC--TCAG
* * *
910771 ATCCTATCTCTCTGAAGTTGCATTAGAGCGGATTAAAACCTCAG
1 ATCTTATCTCTCTGAAGTTGCA-GAGAGCAGATTAAAACCTCAG
** *
910815 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATT-GCATCT-AG
1 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTAAAACCTCAG
* * **
910856 -TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGCAA-AGCA-
1 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTAA--AACCTCAG
* * * * *** *
910899 AGTCTTATC-CTCCTGAAGTTGCGGTGAGGCAGGCTGAAAATGGCAA
1 A-TCTTATCTCT-CTGAAGTTGCAGAGA-GCA-GATTAAAACCTCAG
* * * * *
910945 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGACA-
1 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATTAAAACC-TCAG
* * * *
910989 ATCCTATCTC-CTTGAAGTTGTATTG-GAGCGGATTAAAACATCAG
1 ATCTTATCTCTC-TGAAGTTGCA--GAGAGCAGATTAAAACCTCAG
*
911033 ATTTTATCTCTCTGAAGTTGCAGAGAGCA
1 ATCTTATCTCTCTGAAGTTGCAGAGAGCA
911062 TATCGCATCT
Statistics
Matches: 222, Mismatches: 45, Indels: 49
0.70 0.14 0.16
Matches are distributed among these distances:
40 22 0.10
41 10 0.05
42 5 0.02
43 17 0.08
44 113 0.51
45 47 0.21
46 8 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTAAAACCTCAG
Found at i:911008 original size:218 final size:218
Alignment explanation
Indices: 910625--911206 Score: 945
Period size: 218 Copynumber: 2.7 Consensus size: 218
910615 GTGAAGACAA
* *
910625 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-TAAGCAAGTATTAT
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
*
910689 CCTCCTGAAGTTACAGTGAGGCAGACT-AAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
66 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAA-ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGG
* *
910753 AGCAGATTAAAGCCGATAATCCTATCTCTCTGAAGTTGCATTAGAGCGGATTAAAACCTCAGATC
130 AGCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTGCATTAGAGCGGATTAAAACATCAGATC
910818 TTATCTCTCTGAAGTTGCAGAGAG
195 TTATCTCTCTGAAGTTGCAGAGAG
* *
910842 CAGATTGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
* *
910907 CCTCCTGAAGTTGCGGTGAGGCAGGCTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
66 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* * * *
910972 GTAGATTAAAGCCGACAATCCTATCTC-CTTGAAGTTGTATTGGAGCGGATTAAAACATCAGATT
131 GCAGATTAAAGCCGACAATCCTATCTCTC-TGAAGTTGCATTAGAGCGGATTAAAACATCAGATC
911036 TTATCTCTCTGAAGTTGCAGAGAG
195 TTATCTCTCTGAAGTTGCAGAGAG
* *
911060 CATATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
1 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
* * *
911125 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTGAAGTTGCGGTGGA
66 CCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* *
911190 ACAGATTAAAGCTGACA
131 GCAGATTAAAGCCGACA
911207 GTGGAGCGGG
Statistics
Matches: 337, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
217 49 0.15
218 285 0.85
219 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (218 bp):
CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
CCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
GCAGATTAAAGCCGACAATCCTATCTCTCTGAAGTTGCATTAGAGCGGATTAAAACATCAGATCT
TATCTCTCTGAAGTTGCAGAGAG
Found at i:941968 original size:120 final size:120
Alignment explanation
Indices: 941755--942115 Score: 722
Period size: 120 Copynumber: 3.0 Consensus size: 120
941745 GTCTCTTCAT
941755 TTCTTCTCCATTATTGCCATCAAAGAAATGCTTTCTTAACAATAATATGGATTCAATGTCGATGC
1 TTCTTCTCCATTATTGCCATCAAAGAAATGCTTTCTTAACAATAATATGGATTCAATGTCGATGC
941820 AGCATTTGAGTGCAAACCCAGATAAGCTTTTCAAGAATGAAGCTTAAGTTTATAA
66 AGCATTTGAGTGCAAACCCAGATAAGCTTTTCAAGAATGAAGCTTAAGTTTATAA
941875 TTCTTCTCCATTATTGCCATCAAAGAAATGCTTTCTTAACAATAATATGGATTCAATGTCGATGC
1 TTCTTCTCCATTATTGCCATCAAAGAAATGCTTTCTTAACAATAATATGGATTCAATGTCGATGC
941940 AGCATTTGAGTGCAAACCCAGATAAGCTTTTCAAGAATGAAGCTTAAGTTTATAA
66 AGCATTTGAGTGCAAACCCAGATAAGCTTTTCAAGAATGAAGCTTAAGTTTATAA
941995 TTCTTCTCCATTATTGCCATCAAAGAAATGCTTTCTTAACAATAATATGGATTCAATGTCGATGC
1 TTCTTCTCCATTATTGCCATCAAAGAAATGCTTTCTTAACAATAATATGGATTCAATGTCGATGC
942060 AGCATTTGAGTGCAAACCCAGATAAGCTTTTCAAGAATGAAGCTTAAGTTTATAA
66 AGCATTTGAGTGCAAACCCAGATAAGCTTTTCAAGAATGAAGCTTAAGTTTATAA
942115 T
1 T
942116 AATAATAATA
Statistics
Matches: 241, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 241 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (120 bp):
TTCTTCTCCATTATTGCCATCAAAGAAATGCTTTCTTAACAATAATATGGATTCAATGTCGATGC
AGCATTTGAGTGCAAACCCAGATAAGCTTTTCAAGAATGAAGCTTAAGTTTATAA
Found at i:942351 original size:20 final size:20
Alignment explanation
Indices: 942314--942351 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
942304 TAGAACTTTT
*
942314 TAATTTATTTATGTTATTAA
1 TAATTTATTTATGATATTAA
942334 TAATTATATTTAT-ATATT
1 TAATT-TATTTATGATATT
942352 TTTCAACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TAATTTATTTATGATATTAA
Found at i:943159 original size:88 final size:88
Alignment explanation
Indices: 943015--943192 Score: 216
Period size: 88 Copynumber: 2.0 Consensus size: 88
943005 ATAAAAAATT
* * * * ** *
943015 CTCAAATTTTTTCAAAAAAAGTAATTAAGTCTCTACTTTTTTTTGCACTCGTTTAGGTACTTAAA
1 CTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTACTATTTTTTGCACTCAATTAGGCACTTAAA
* * *
943080 CTTTCAAAATGCATCAAAAAGTCC
66 CTGTC-AAATGCATAAAAAAGACC
* *
943104 CTCAAACTTTTTC-AAAAAAGCAATTAAGCCTCTGA-TATTTTTTGTACTCAATTAGGCACTTTA
1 CTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCT-ACTATTTTTTGCACTCAATTAGGCACTTAA
943167 ACTGTCAAATGCATAAAAAAGACC
65 ACTGTCAAATGCATAAAAAAGACC
943191 CT
1 CT
943193 TTGACCGTTA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 18 0.24
88 45 0.59
89 13 0.17
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (88 bp):
CTCAAACTTTTTCAAAAAAAGCAATTAAGCCTCTACTATTTTTTGCACTCAATTAGGCACTTAAA
CTGTCAAATGCATAAAAAAGACC
Found at i:944401 original size:45 final size:45
Alignment explanation
Indices: 944321--944408 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
944311 GGTCCTTGAA
* *
944321 AAAATTAGTATAAATAATTAATAGTAACTACTATGTAATTTAAAT
1 AAAATTAGTATAAATAATTAATAATAAATACTATGTAATTTAAAT
**
944366 AAAATTAGTATAAATAAATT-ATAATAAATTTTATGTAATTTAA
1 AAAATTAGTATAAAT-AATTAATAATAAATACTATGTAATTTAA
944409 TTAATTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 34 0.89
46 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (45 bp):
AAAATTAGTATAAATAATTAATAATAAATACTATGTAATTTAAAT
Found at i:949840 original size:23 final size:24
Alignment explanation
Indices: 949796--949840 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
949786 TATAACTTTT
949796 TTTTATTTACCAAGAATATATATA
1 TTTTATTTACCAAGAATATATATA
949820 TTTTATTTACCAA-AATATATA
1 TTTTATTTACCAAGAATATATA
949841 AAAAAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTTATTTACCAAGAATATATATA
Found at i:949962 original size:4 final size:4
Alignment explanation
Indices: 949953--950066 Score: 76
Period size: 4 Copynumber: 27.0 Consensus size: 4
949943 GAAGGAGAGG
*
949953 GAAA GAAA GAAA GAAA GAAA GGAGAG GAAA GAAAA GGAAA GGAGAA GAGAA
1 GAAA GAAA GAAA GAAA GAAA -GA-AA GAAA G-AAA -GAAA -GA-AA GA-AA
950004 -AAA -AAA GAAA GAAA G-AA G-AA GAAAA GGAAA GGAGAA GAAA -AAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA -GAAA -GA-AA GAAA GAAA
*
950047 GAAA GAAA GAAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA
950067 AGGAAAGG
Statistics
Matches: 95, Mismatches: 4, Indels: 22
0.79 0.03 0.18
Matches are distributed among these distances:
3 14 0.15
4 46 0.48
5 28 0.29
6 7 0.07
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:950013 original size:45 final size:39
Alignment explanation
Indices: 949955--950074 Score: 170
Period size: 41 Copynumber: 2.9 Consensus size: 39
949945 AGGAGAGGGA
949955 AAGAAAGAAAGAAAGAAAGGAGAGGAAAGAAAAGGAAAGGAG
1 AAGAAA-AAAGAAAGAAA-GA-AGGAAAGAAAAGGAAAGGAG
*
949997 AAGAGAAAAA-AAAGAAAGAAAGAAGAAGAAAAGGAAAGGAG
1 AAGA-AAAAAGAAAGAAAG-AAGGA-AAGAAAAGGAAAGGAG
950038 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGG
1 AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGG
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
39 14 0.19
40 13 0.18
41 36 0.50
42 7 0.10
43 2 0.03
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (39 bp):
AAGAAAAAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAG
Done.