Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 242 of 276
Found at i:79991662 original size:66 final size:66
Alignment explanation
Indices: 79991556--79991679 Score: 248
Period size: 66 Copynumber: 1.9 Consensus size: 66
79991546 CTGCTCAGGC
79991556 TGGCCTTTAATTCAATGTCAGAGTTACGACTACGACGCTGATATAGTGCCTTTTCTAATACACTC
1 TGGCCTTTAATTCAATGTCAGAGTTACGACTACGACGCTGATATAGTGCCTTTTCTAATACACTC
79991621 T
66 T
79991622 TGGCCTTTAATTCAATGTCAGAGTTACGACTACGACGCTGATATAGTGCCTTTTCTAA
1 TGGCCTTTAATTCAATGTCAGAGTTACGACTACGACGCTGATATAGTGCCTTTTCTAA
79991680 CTCCGCTACC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (66 bp):
TGGCCTTTAATTCAATGTCAGAGTTACGACTACGACGCTGATATAGTGCCTTTTCTAATACACTC
T
Found at i:79994790 original size:20 final size:21
Alignment explanation
Indices: 79994765--79994804 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79994755 AGGACAAAAG
79994765 TAAAATAA-AAATGAAATAAA
1 TAAAATAATAAATGAAATAAA
*
79994785 TAAAATAATAATTGAAATAA
1 TAAAATAATAAATGAAATAA
79994805 CAAAGGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
TAAAATAATAAATGAAATAAA
Found at i:79994910 original size:3 final size:3
Alignment explanation
Indices: 79994897--79995081 Score: 92
Period size: 3 Copynumber: 62.7 Consensus size: 3
79994887 GTTTTAAAAA
* * * * * *
79994897 AAT AAT GAT AAT AAA AAT AAT AGT AAT AAT AGT ACT AAT AAT ACT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * **
79994944 AAT AAT AAT GAC AGT AGT GAT AA- AAT AAT AAT AAT AGT GGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
79994991 AAT AAT AAT AAC AAT ACT AAT AA- AAA AAT AGT AAC AGT AAT AAC AGA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * * *
79995038 AAT AAA AAT ACT AAA AAT AAT AAT AA- ATAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA
79995082 ATATAAAACT
Statistics
Matches: 132, Mismatches: 43, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
2 7 0.05
3 123 0.93
4 2 0.02
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:79995082 original size:18 final size:18
Alignment explanation
Indices: 79995038--79995089 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
79995028 TAATAACAGA
79995038 AATAA-AAATACTAAAAAT
1 AATAATAAATA-TAAAAAT
*
79995056 AATAATAAATATAACAAT
1 AATAATAAATATAAAAAT
79995074 AATAATAAATATAAAA
1 AATAATAAATATAAAA
79995090 CTCAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAATAAATATAAAAAT
Found at i:79996474 original size:24 final size:25
Alignment explanation
Indices: 79996447--79996495 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
79996437 GCTTTTTTAT
*
79996447 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
79996471 TAAATCAAACACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
79996496 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:79996516 original size:19 final size:20
Alignment explanation
Indices: 79996485--79996523 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
79996475 TCAAACACAT
79996485 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
79996505 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
79996524 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:79997767 original size:32 final size:32
Alignment explanation
Indices: 79997731--79997791 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
79997721 TTATATAGTA
79997731 GAAGGACCAAATCCATAATTTGACCTTTCGTT
1 GAAGGACCAAATCCATAATTTGACCTTTCGTT
*
79997763 GAAGGATCAAATCCATAATTTGACCTTTC
1 GAAGGACCAAATCCATAATTTGACCTTTC
79997792 ATTTTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (32 bp):
GAAGGACCAAATCCATAATTTGACCTTTCGTT
Found at i:79998640 original size:19 final size:19
Alignment explanation
Indices: 79998601--79998637 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
79998591 ATTGGGCAAA
79998601 ATAAAAAAATAATAGACTT
1 ATAAAAAAATAATAGACTT
*
79998620 ATAAATAAATAATA-ACTT
1 ATAAAAAAATAATAGACTT
79998638 TATTTAAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
ATAAAAAAATAATAGACTT
Found at i:80002865 original size:24 final size:24
Alignment explanation
Indices: 80002833--80002892 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
80002823 TTCTCTACTT
* *
80002833 AATCGGATTTATTCTCCTAGTTAA
1 AATCTGATTTATTCTCCTAGTCAA
* *
80002857 AATCTGA-TTATTTTTTCTAGTCAA
1 AATCTGATTTA-TTCTCCTAGTCAA
*
80002881 ATTCTGATTTAT
1 AATCTGATTTAT
80002893 CCAAGATGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.10
24 23 0.79
25 3 0.10
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.48
Consensus pattern (24 bp):
AATCTGATTTATTCTCCTAGTCAA
Found at i:80008065 original size:15 final size:15
Alignment explanation
Indices: 80008030--80008081 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
80008020 TTAAGAATTT
*
80008030 TATTAAATTAT-ATA
1 TATTTAATTATAATA
80008044 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
80008058 TATTTAATAATAAT-
1 TATTTAATTATAATA
80008072 TATGTTAATT
1 TAT-TTAATT
80008082 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:80008109 original size:120 final size:120
Alignment explanation
Indices: 80007968--80008197 Score: 451
Period size: 120 Copynumber: 1.9 Consensus size: 120
80007958 TTTGAGTAAA
80007968 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
80008033 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
*
80008088 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
80008153 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
80008198 TAAATATGAT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:80008153 original size:15 final size:16
Alignment explanation
Indices: 80008125--80008154 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
80008115 TAAATTCATA
80008125 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
80008141 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
80008155 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:80008163 original size:61 final size:61
Alignment explanation
Indices: 80007978--80008165 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
80007968 TTATAGTATC
*
80007978 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
80008039 ATATATTTTAATTAT-AATATATTTA-ATAATAATTATGTTA--ATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TTATTATTAAGAATTTTATTA-AATT
80008098 ATATATTATGATTTGAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATT
80008159 ATATATT
1 ATATATT
80008166 TTAATTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.30
60 20 0.21
61 36 0.38
62 5 0.05
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATT
Found at i:80008180 original size:16 final size:16
Alignment explanation
Indices: 80008159--80008200 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
80008149 TTATTAAATT
*
80008159 ATATATTTTAATTATA
1 ATATATTTTAATAATA
80008175 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
80008190 AT-TATGTTTAA
1 ATATAT-TTTAA
80008201 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:80008185 original size:15 final size:15
Alignment explanation
Indices: 80008150--80008191 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
80008140 TTAAGAATTT
*
80008150 TATTAAATTAT-ATA
1 TATTTAATTATAATA
80008164 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
80008178 TATTTAATAATAAT
1 TATTTAATTATAAT
80008192 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:80008426 original size:45 final size:43
Alignment explanation
Indices: 80008326--80008435 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
80008316 TTTTCCATTA
80008326 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
80008365 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
80008410 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
80008436 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:80008437 original size:16 final size:16
Alignment explanation
Indices: 80008416--80008483 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
80008406 GATTTGCTAT
*
80008416 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
80008432 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
80008448 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
80008464 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
80008480 TACA
1 TACA
80008484 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:80012408 original size:25 final size:25
Alignment explanation
Indices: 80012370--80012438 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
80012360 ATTCTAAATT
*
80012370 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
80012393 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
*
80012418 CTATATTATTTATATATATTT
1 CTATATTATGTATATATATTT
80012439 TTTTTTTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.39
24 2 0.05
25 21 0.55
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:80012484 original size:22 final size:22
Alignment explanation
Indices: 80012454--80012561 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
80012444 TTTTTACATG
*
80012454 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
80012476 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
80012501 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
80012524 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
80012544 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
80012562 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:80012510 original size:25 final size:24
Alignment explanation
Indices: 80012460--80012546 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
80012450 CATGTTATCT
*
80012460 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
80012486 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
80012511 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
80012534 TATTTATTTTTTA
1 TATGTATTTTTTA
80012547 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:80012528 original size:20 final size:20
Alignment explanation
Indices: 80012503--80012561 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
80012493 TTTTTACACT
80012503 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
80012523 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
80012546 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
80012562 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:80012693 original size:16 final size:15
Alignment explanation
Indices: 80012669--80012702 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
80012659 TATTAATTAT
80012669 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
80012685 TATTTTAATATTTTA
1 TATTCTAATATTTTA
80012700 TAT
1 TAT
80012703 ACTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:80021464 original size:18 final size:20
Alignment explanation
Indices: 80021424--80021468 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
80021414 AATTCGAATG
80021424 AAATAATAACAATGATATCA
1 AAATAATAACAATGATATCA
80021444 AAATAA-AA-AATGAATAT-A
1 AAATAATAACAATG-ATATCA
80021462 AAA-AATA
1 AAATAATA
80021469 TTAAATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.09
18 9 0.39
19 6 0.26
20 6 0.26
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATAATAACAATGATATCA
Found at i:80021465 original size:19 final size:20
Alignment explanation
Indices: 80021424--80021465 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
80021414 AATTCGAATG
*
80021424 AAATAATAACAATGATATCA
1 AAATAATAACAATGATATAA
80021444 AAATAA-AA-AATGAATATAA
1 AAATAATAACAATG-ATATAA
80021463 AAA
1 AAA
80021466 ATATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 4 0.20
19 10 0.50
20 6 0.30
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATAATAACAATGATATAA
Found at i:80025560 original size:40 final size:39
Alignment explanation
Indices: 80025473--80025563 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 39
80025463 CCGTATCTCC
*
80025473 CACACGGCCTACCTGTCCATCACACGGCCATGTCTTGTG
1 CACACGGCCTACCTGTCCATCACACGGCCATGTCTTATG
* * *
80025512 CGCA-GGCCTATCCTCGTCGATCACAC-GCC-TGTGTTATGG
1 CACACGGCCTA-CCT-GTCCATCACACGGCCATGTCTTAT-G
80025551 CACACGGCCTACC
1 CACACGGCCTACC
80025564 ATATGGGCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
38 12 0.28
39 15 0.35
40 16 0.37
ACGTcount: A:0.18, C:0.38, G:0.22, T:0.22
Consensus pattern (39 bp):
CACACGGCCTACCTGTCCATCACACGGCCATGTCTTATG
Found at i:80028448 original size:15 final size:14
Alignment explanation
Indices: 80028427--80028463 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
80028417 TAATAATGAA
*
80028427 TAAATAAAATAAAT
1 TAAATAAAATAAAG
80028441 TAAAATAAAATAAAG
1 T-AAATAAAATAAAG
80028456 TAAATAAA
1 TAAATAAA
80028464 GAAAATTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
TAAATAAAATAAAG
Found at i:80028464 original size:9 final size:9
Alignment explanation
Indices: 80028425--80028463 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
80028415 AATAATAATG
80028425 AATAAATAA
1 AATAAATAA
80028434 AATAAATTAA
1 AATAAA-TAA
80028444 AATAAAATAA
1 AAT-AAATAA
*
80028454 AGTAAATAA
1 AATAAATAA
80028463 A
1 A
80028464 GAAAATTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 13 0.48
10 11 0.41
11 3 0.11
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (9 bp):
AATAAATAA
Found at i:80030636 original size:93 final size:94
Alignment explanation
Indices: 80030473--80030642 Score: 236
Period size: 93 Copynumber: 1.8 Consensus size: 94
80030463 TATGAGAGCC
* ** *
80030473 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGAGATGGGGGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAGATGGAAGCCAGTGTAAGACATGTCTG
80030538 AGACATGGCATCGGCATGGAGACGGGGGCT
66 AGACAT-GCATCGGCATGGAGACGGGGGCT
* * * *
80030568 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAGATGGAAGCCAGTGTAAGACATGTCTG
*
80030631 GGACATGCATCG
66 AGACATGCATCG
80030643 ACTACGAGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
92 6 0.09
93 39 0.59
94 12 0.18
95 9 0.14
ACGTcount: A:0.26, C:0.18, G:0.35, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAGATGGAAGCCAGTGTAAGACATGTCTG
AGACATGCATCGGCATGGAGACGGGGGCT
Found at i:80030699 original size:47 final size:46
Alignment explanation
Indices: 80030422--80030737 Score: 248
Period size: 47 Copynumber: 6.8 Consensus size: 46
80030412 ATTCGTGTGT
* * * *
80030422 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATC-GACTCGA-GATGA
* * * *
80030468 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGAGATGG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC-TCGAGATGA
* * * * * * *
80030516 GGGCTAGTGTAAGACATGTCTGAGACATGGCATCGGCATGGAGACGG
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGAC-TCGAGATGA
* * * *
80030563 GGGCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATC-GACTCGAGATG-A
80030610 -AGCCAGTGTAAGACATGTCTGGGACAT-GCATCGACTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGATGA
* * * *
80030655 TAGCCAGCGTAAGACCATGTCTGGGACATGGCATTGACTTGAGAT-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGATGA
* * * *
80030701 TGAGCCAGTATAAGACCGTGTTTGGGACATGGTATCG
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCG
80030738 GCACTTTACC
Statistics
Matches: 227, Mismatches: 32, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
45 4 0.02
46 73 0.32
47 121 0.53
48 28 0.12
49 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGATGA
Found at i:80034992 original size:46 final size:46
Alignment explanation
Indices: 80034942--80035378 Score: 641
Period size: 46 Copynumber: 9.5 Consensus size: 46
80034932 ATGTACTAGT
*
80034942 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
** * **
80034988 GTAAGACATGTCTGGGACATACATCAGCCTTGAGATATAC--A-AGCCAAT
1 GTAAGACATGTCTGGGACATGTATCAGCC---ACAT-T-CTGAGAGCCAGG
** * * ** * *
80035036 GTAAGACATGTCTGGGACATACATC-GGCATTGAGAC-GAGAGCTAGT
1 GTAAGACATGTCTGGGACATGTATCAGCCA--CATTCTGAGAGCCAGG
80035082 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
1 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
80035128 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
1 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
80035174 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
1 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
80035220 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
1 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
80035266 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
1 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
*
80035312 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
80035358 GTAAGACATGTCTGGGACATG
1 GTAAGACATGTCTGGGACATG
80035379 CATCGGCCTC
Statistics
Matches: 362, Mismatches: 18, Indels: 22
0.90 0.04 0.05
Matches are distributed among these distances:
44 2 0.01
45 3 0.01
46 315 0.87
47 5 0.01
48 31 0.09
49 4 0.01
50 1 0.00
51 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGTATCAGCCACATTCTGAGAGCCAGG
Found at i:80035052 original size:48 final size:46
Alignment explanation
Indices: 80034939--80035571 Score: 191
Period size: 46 Copynumber: 13.5 Consensus size: 46
80034929 GATATGTACT
** **
80034939 AGTGTAAGACATGTCTGGGACATGTATCAGCCACATTCTG-AG--AGCC
1 AGTGTAAGACATGTCTGGGACATACATCAG-C-C-TTGAGAAGAAAGCC
*
80034985 AGTGTAAGACATGTCTGGGACATACATCAGCCTTGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATACATCAGCCTTGAGA-AGA-AAGCC
* * * * * *
80035033 AATGTAAGACATGTCTGGGACATACATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATACATCAGCCTTGAGAAGAAAGCC
** **
80035079 AGTGTAAGACATGTCTGGGACATGTATCAGCCACATTCTG-AG--AGCC
1 AGTGTAAGACATGTCTGGGACATACATCAG-C-C-TTGAGAAGAAAGCC
* ** **
80035125 AGGGTAAGACATGTCTGGGACATGTATCAGCCACATTCTG-AG--AGCC
1 AGTGTAAGACATGTCTGGGACATACATCAG-C-C-TTGAGAAGAAAGCC
* ** **
80035171 AGGGTAAGACATGTCTGGGACATGTATCAGCCACATTCTG-AG--AGCC
1 AGTGTAAGACATGTCTGGGACATACATCAG-C-C-TTGAGAAGAAAGCC
* ** **
80035217 AGGGTAAGACATGTCTGGGACATGTATCAGCCACATTCTG-AG--AGCC
1 AGTGTAAGACATGTCTGGGACATACATCAG-C-C-TTGAGAAGAAAGCC
* ** **
80035263 AGGGTAAGACATGTCTGGGACATGTATCAGCCACATTCTG-AG--AGCC
1 AGTGTAAGACATGTCTGGGACATACATCAG-C-C-TTGAGAAGAAAGCC
* ** **
80035309 AGGGTAAGACATGTCTGGGACATGTATCAGCCACATTCTG-AG--AGCC
1 AGTGTAAGACATGTCTGGGACATACATCAG-C-C-TTGAGAAGAAAGCC
* * * * *
80035355 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATACATCAGCCTTGAGA-AGA-AAGCC
* * * * * *
80035403 AGTGTAAGACCA-GTATGGGACATGGCATCGGCAC-CGATAGATGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-ACATCAGC-CTTG--AGAAGAAAGCC
* * * * *
80035452 AGTGTAAGACCTGTCTGGGACACGACATCGGCCTCT-ATATATGAAAGTC
1 AGTGTAAGACATGTCTGGGACA-TACATCAGCCT-TGAGA-A-GAAAGCC
* * * * * **
80035501 AGTGTAAGACCTGTCTGGGACATGGCATC-GACTTTGATATGCTAGCC
1 AGTGTAAGACATGTCTGGGACAT-ACATCAG-CCTTGAGAAGAAAGCC
80035548 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
80035572 GGCGTCGGCA
Statistics
Matches: 509, Mismatches: 50, Indels: 54
0.83 0.08 0.09
Matches are distributed among these distances:
43 5 0.01
44 2 0.00
45 4 0.01
46 316 0.62
47 17 0.03
48 79 0.16
49 81 0.16
50 2 0.00
51 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATACATCAGCCTTGAGAAGAAAGCC
Found at i:80035452 original size:49 final size:49
Alignment explanation
Indices: 80035355--80035580 Score: 223
Period size: 49 Copynumber: 4.7 Consensus size: 49
80035345 TCTGAGAGCC
*
80035355 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCA-GTCTGGGACATGGCATCGGCCTCGATATATGA-AAGCT
* *
80035403 AGTGTAAGACCAGTATGGGACATGGCATCGGCAC-CGATAGATGAAAGCT
1 AGTGTAAGACCAGTCTGGGACATGGCATCGGC-CTCGATATATGAAAGCT
* * * *
80035452 AGTGTAAGACCTGTCTGGGACACGACATCGGCCTCTATATATGAAAG-T
1 AGTGTAAGACCAGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCT
* * * * ** *
80035500 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTG--ATATGCTAGCC
1 -AGTGTAAGACCAGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCT
*
80035548 AGTGTAAGACCATGTCTGGGACATGGCGTCGGC
1 AGTGTAAGACCA-GTCTGGGACATGGCATCGGC
80035581 ATCTTATCCC
Statistics
Matches: 149, Mismatches: 21, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
47 18 0.12
48 39 0.26
49 90 0.60
50 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCAGTCTGGGACATGGCATCGGCCTCGATATATGAAAGCT
Found at i:80035511 original size:98 final size:97
Alignment explanation
Indices: 80035355--80035530 Score: 257
Period size: 98 Copynumber: 1.8 Consensus size: 97
80035345 TCTGAGAGCC
*
80035355 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCAGTATG
1 AGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCAGTATG
80035420 GGACATGGCATCGGCACCGATAGATGAAAGCT
66 GGACATGGCATCGGCACCGATAGATGAAAGCT
* * * *
80035452 AGTGTAAGACCTGTCTGGGACACGACATCGGCCTCTATATATGA-AAG-TCAGTGTAAGACCTGT
1 AGTGTAAGACATGTCTGGGACACG-CATCGGCCTCGAGATAT-ACAAGCT-AGTGTAAGACCAGT
*
80035515 CTGGGACATGGCATCG
63 ATGGGACATGGCATCG
80035531 ACTTTGATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
97 23 0.33
98 46 0.66
99 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (97 bp):
AGTGTAAGACATGTCTGGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCAGTATG
GGACATGGCATCGGCACCGATAGATGAAAGCT
Found at i:80040428 original size:46 final size:46
Alignment explanation
Indices: 80040380--80040607 Score: 307
Period size: 46 Copynumber: 5.0 Consensus size: 46
80040370 GCTCTCTGAT
** * *
80040380 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
80040426 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
80040472 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
80040518 ATGAAATGAATAAGACCATGGTCGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
80040564 A-GAAAAT-AAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAA-TAAGACCATGGTTGAAAGATACCATGGCAACATG
80040608 TCAAAGATAA
Statistics
Matches: 162, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 3 0.02
46 159 0.98
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:80040539 original size:92 final size:92
Alignment explanation
Indices: 80040389--80040602 Score: 340
Period size: 92 Copynumber: 2.3 Consensus size: 92
80040379 TATGAAATGT
* *
80040389 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTCGAAAG
* *
80040454 ATACCATGGCAACATGACGGGAAATGAA
66 ATACCATGGCAACATGACAGAAAAT-AA
*
80040482 -TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTCGAAAG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTCGAAAG
80040546 ATACCATGGCAACATGACAGAAAATAA
66 ATACCATGGCAACATGACAGAAAATAA
* * *
80040573 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
80040603 TCATGTCAAA
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
91 2 0.02
92 110 0.98
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (92 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTCGAAAG
ATACCATGGCAACATGACAGAAAATAA
Found at i:80040853 original size:16 final size:17
Alignment explanation
Indices: 80040832--80040864 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
80040822 ATGATGGAGC
80040832 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
80040848 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
80040865 TACTTATGAA
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:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:80043572 original size:31 final size:32
Alignment explanation
Indices: 80043506--80043584 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
80043496 TTCTTCAACT
* *
80043506 TAAATTTCAATTGATTTGAATTCAAAACAATC
1 TAAATTTAAAATGATTTGAATTCAAAACAATC
* * *
80043538 TAAATTTGAAATGATTT-AATTCTAAA-TATCC
1 TAAATTTAAAATGATTTGAATTCAAAACAAT-C
80043569 TAAATTTAAAATGATT
1 TAAATTTAAAATGATT
80043585 AGAGCTAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.05
31 24 0.59
32 15 0.37
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (32 bp):
TAAATTTAAAATGATTTGAATTCAAAACAATC
Found at i:80046784 original size:18 final size:18
Alignment explanation
Indices: 80046763--80046799 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
80046753 ATTAATTTGA
80046763 TCAGCCTACTTAAGAGGC
1 TCAGCCTACTTAAGAGGC
*
80046781 TCAGCTTACTTAAGAGGC
1 TCAGCCTACTTAAGAGGC
80046799 T
1 T
80046800 AACTTATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (18 bp):
TCAGCCTACTTAAGAGGC
Found at i:80054769 original size:29 final size:27
Alignment explanation
Indices: 80054671--80054770 Score: 83
Period size: 29 Copynumber: 3.5 Consensus size: 27
80054661 GATAAAAACA
* *
80054671 TAATAATAATTATGATTTTTTAATTTATA
1 TAATAATAATTAT--TTTATTAATTTATT
* **
80054700 TAATAATAATTATATTAAGAATTTTATT
1 TAATAATAATTATTTTATTAA-TTTATT
* *
80054728 AAATTATATATTATTTTATTAAGTTATATT
1 TAATAATA-ATTATTTTATTAA-TT-TATT
80054758 TAATAATAATTAT
1 TAATAATAATTAT
80054771 GTTAAAATAT
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
27 4 0.07
28 11 0.20
29 30 0.55
30 10 0.18
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
TAATAATAATTATTTTATTAATTTATT
Found at i:80054769 original size:58 final size:56
Alignment explanation
Indices: 80054685--80054838 Score: 186
Period size: 58 Copynumber: 2.7 Consensus size: 56
80054675 AATAATTATG
* *
80054685 ATTTT-TTAATT-TATATAATAATAATTATATTAAGAATTTTATTAAATTATATATT
1 ATTTTATTAATTATATTTAATAATAATTATATTAA-AATTTGATTAAATTATATATT
* * * *
80054740 ATTTTATTAAGTTATATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATT
1 ATTTTATTAA-TTATATTTAATAATAATTATATTAAAATTTGATTAAATTATATATT
* *
80054797 ATTTTTATTAAATTATTTTTAATAATAATTTTATTAAAATTT
1 A-TTTTATT-AATTATATTTAATAATAATTATATTAAAATTT
80054839 AATAACAATA
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
55 5 0.06
56 4 0.05
57 20 0.24
58 53 0.63
59 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (56 bp):
ATTTTATTAATTATATTTAATAATAATTATATTAAAATTTGATTAAATTATATATT
Found at i:80054813 original size:14 final size:14
Alignment explanation
Indices: 80054794--80054834 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
80054784 TAAATTATTT
80054794 ATTATTTTTATTAA
1 ATTATTTTTATTAA
*
80054808 ATTATTTTTAAT-A
1 ATTATTTTTATTAA
*
80054821 A-TAATTTTATTAA
1 ATTATTTTTATTAA
80054834 A
1 A
80054835 ATTTAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTTTATTAA
Found at i:80055026 original size:16 final size:16
Alignment explanation
Indices: 80055005--80055056 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
80054995 TGACTTACTG
*
80055005 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
*
80055021 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
* *
80055037 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
80055053 ATTA
1 ATTA
80055057 TAGTGAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:80057983 original size:11 final size:11
Alignment explanation
Indices: 80057967--80058006 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
80057957 AATAATATAT
80057967 ATTATTTTTAC
1 ATTATTTTTAC
*
80057978 ATTATTTATAC
1 ATTATTTTTAC
*
80057989 ATTATTATTTAT
1 ATTATT-TTTAC
80058001 ATTATT
1 ATTATT
80058007 ATACATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTATTTTTAC
Found at i:80058030 original size:22 final size:21
Alignment explanation
Indices: 80057982--80058022 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
80057972 TTTTACATTA
80057982 TTTATACATTATTATTTATAT
1 TTTATACATTATTATTTATAT
80058003 TATTATACATT-TTATTTATA
1 T-TTATACATTATTATTTATA
80058023 AATTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATACATTATTATTTATAT
Found at i:80058112 original size:22 final size:23
Alignment explanation
Indices: 80058056--80058112 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
80058046 TTACTATAAA
*
80058056 TATTATTCCTTACATTTTTATTT
1 TATTATTCATTACATTTTTATTT
** *
80058079 TATTATAAATTATA-TTTTATTT
1 TATTATTCATTACATTTTTATTT
80058101 TATTATTCATTA
1 TATTATTCATTA
80058113 ATTACGTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTCATTACATTTTTATTT
Found at i:80070195 original size:44 final size:44
Alignment explanation
Indices: 80070140--80071022 Score: 1320
Period size: 44 Copynumber: 20.1 Consensus size: 44
80070130 GTAGATCACC
* * *
80070140 GATAGCAGATTTGGCGTCTCTGTAAT-ATTAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGA-CAGAGAGCAGATCGAA
*
80070184 GATAACAGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * * *
80070228 GATGACAGATTTGGCGTTTCTATATTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
80070272 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
80070316 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
80070360 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
80070404 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
80070448 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
80070492 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
80070536 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*
80070580 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
80070624 GATGACAGATTTGGCGTCTCTGTATTGACAGAGAACAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
80070668 GATGACATATTTGGCGCCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
80070712 GATAGCCGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
80070756 GATAGCAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
*** ** * * * *
80070800 GAT-TTTGGCTTGGCATTTCTGTATTGACAGAAAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* **
80070843 GATAGCAGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* **
80070887 GATAGCAGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* **
80070931 GATAGCAGATTTGGCGTCTCTGTATTGGTAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
80070975 GATAGCAGATTTGGCGTTTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
80071019 GATA
1 GATA
80071023 GTAGATCTGA
Statistics
Matches: 784, Mismatches: 53, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
43 32 0.04
44 751 0.96
45 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (44 bp):
GATAACAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
Found at i:80078914 original size:26 final size:26
Alignment explanation
Indices: 80078878--80078961 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
80078868 CATGAAATTC
80078878 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
80078904 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
80078930 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
80078956 TTATCA
1 TTATCA
80078962 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:80080089 original size:33 final size:33
Alignment explanation
Indices: 80080046--80080109 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
80080036 GTGTTAGGCC
80080046 TATCGAGCCTTTAGGATTTTTTGTATTTGGGCA
1 TATCGAGCCTTTAGGATTTTTTGTATTTGGGCA
*
80080079 TATCGGGCCTTTAGGATTTTTTGTATTTGGG
1 TATCGAGCCTTTAGGATTTTTTGTATTTGGG
80080110 TCATTTGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.16, C:0.11, G:0.27, T:0.47
Consensus pattern (33 bp):
TATCGAGCCTTTAGGATTTTTTGTATTTGGGCA
Found at i:80080461 original size:44 final size:44
Alignment explanation
Indices: 80080403--80080564 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 44
80080393 AGTATAGGAT
* * * *
80080403 TTGTTGCTTCAATCTATTCCACTACAACTTTACGGTGATTAGAC
1 TTGTAGCTTCAATCTACTCCACTACAACTTTACGGAGATGAGAC
* * * *
80080447 TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATGAGAC
1 TTGTAGCTTCAATCTACTCCACTACAACTTTACGGAGATGAGAC
* * * *
80080491 TCGTATCTTCAATCTACTCCACAACAACTTTAAGGAGATGAGA-
1 TTGTAGCTTCAATCTACTCCACTACAACTTTACGGAGATGAGAC
** * *
80080534 TTAGTAATTTCAATCTGCTCCACTGCAACTT
1 TT-GTAGCTTCAATCTACTCCACTACAACTT
80080565 AAGGGATATA
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
43 1 0.01
44 95 0.99
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCAATCTACTCCACTACAACTTTACGGAGATGAGAC
Found at i:80080512 original size:88 final size:88
Alignment explanation
Indices: 80080409--80080570 Score: 229
Period size: 88 Copynumber: 1.8 Consensus size: 88
80080399 GGATTTGTTG
* * * * * *
80080409 CTTCAATCTATTCCACTACAACTTTACGGTGATTAGACTT-GTAGCTTT-AATCTGCTCCACTGC
1 CTTCAATCTACTCCACAACAACTTTAAGGAGATGAGA-TTAGTA-ATTTCAATCTGCTCCACTGC
*
80080472 AACTTTAGGGAGATGAGACTCGTAT
64 AACTTAAGGGAGATGAGACTCGTAT
80080497 CTTCAATCTACTCCACAACAACTTTAAGGAGATGAGATTAGTAATTTCAATCTGCTCCACTGCAA
1 CTTCAATCTACTCCACAACAACTTTAAGGAGATGAGATTAGTAATTTCAATCTGCTCCACTGCAA
80080562 CTTAAGGGA
66 CTTAAGGGA
80080571 TATAAGATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 5 0.08
88 60 0.92
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (88 bp):
CTTCAATCTACTCCACAACAACTTTAAGGAGATGAGATTAGTAATTTCAATCTGCTCCACTGCAA
CTTAAGGGAGATGAGACTCGTAT
Found at i:80080579 original size:44 final size:45
Alignment explanation
Indices: 80080457--80080584 Score: 145
Period size: 44 Copynumber: 2.9 Consensus size: 45
80080447 TTGTAGCTTT
* * *
80080457 AATCTGCTCCACTGCAACTTTAGGGAGATGAGACTCGT-ATCTTC
1 AATCTGCTCCACTGCAACTTAAGGGAGATGAGATTAGTAATCTTC
* **
80080501 AATCTACTCCACAACAACTTTAA-GGAGATGAGATTAGTAAT-TTC
1 AATCTGCTCCACTGCAAC-TTAAGGGAGATGAGATTAGTAATCTTC
* * *
80080545 AATCTGCTCCACTGCAACTTAAGGGATATAAGATTTGTAA
1 AATCTGCTCCACTGCAACTTAAGGGAGATGAGATTAGTAA
80080585 CTTGTAACAC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.06
44 60 0.87
45 5 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTAAGGGAGATGAGATTAGTAATCTTC
Found at i:80083051 original size:27 final size:27
Alignment explanation
Indices: 80083021--80083198 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
80083011 ATATTGAGTC
* * *
80083021 CGCACCCTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
80083048 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
80083075 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
80083103 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
80083130 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
80083157 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
80083184 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80083199 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:80083160 original size:82 final size:81
Alignment explanation
Indices: 80083042--80083197 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
80083032 TGCTATATAA
* *
80083042 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
80083107 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
80083124 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
80083188 CACTTAGTGC
65 CACTTAGTGC
80083198 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:80083772 original size:13 final size:13
Alignment explanation
Indices: 80083754--80083778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80083744 TACTAAATTT
80083754 TCATGGATTCAAG
1 TCATGGATTCAAG
80083767 TCATGGATTCAA
1 TCATGGATTCAA
80083779 TATACCATTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:80085656 original size:34 final size:34
Alignment explanation
Indices: 80085614--80085687 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
80085604 GGACCTCTCA
* *
80085614 CACACACCCAGAACACATAACCACTAAAGCAGAT
1 CACACACCCAGAACAAAAAACCACTAAAGCAGAT
80085648 CACACACCCAGAACAAAAAACCACTAAAGCAGAT
1 CACACACCCAGAACAAAAAACCACTAAAGCAGAT
80085682 -ACACAC
1 CACACAC
80085688 TTATGTCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 6 0.16
34 32 0.84
ACGTcount: A:0.50, C:0.35, G:0.08, T:0.07
Consensus pattern (34 bp):
CACACACCCAGAACAAAAAACCACTAAAGCAGAT
Found at i:80091199 original size:33 final size:36
Alignment explanation
Indices: 80091162--80091246 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 36
80091152 ATTCCCAAGT
*
80091162 CAAATTGAAAGA-GAAAAG-AA-AATAATTCAATTC
1 CAAATTGAAAGAGGAAAAGAAAGAATAATCCAATTC
80091195 CAAA-TGCAAAGAGGAAAAGAAAGAATAATCCAATTC
1 CAAATTG-AAAGAGGAAAAGAAAGAATAATCCAATTC
*
80091231 TAAATT-AAAGTAGGAA
1 CAAATTGAAAG-AGGAA
80091247 TACAAAAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
32 2 0.05
33 9 0.20
34 6 0.14
35 6 0.14
36 20 0.45
37 1 0.02
ACGTcount: A:0.56, C:0.09, G:0.15, T:0.19
Consensus pattern (36 bp):
CAAATTGAAAGAGGAAAAGAAAGAATAATCCAATTC
Found at i:80092007 original size:42 final size:42
Alignment explanation
Indices: 80091895--80092343 Score: 280
Period size: 43 Copynumber: 10.4 Consensus size: 42
80091885 GCTTTTTTAG
* * *
80091895 AAAAAAACGCCGCTAAAGACCACGATCTTTAGCGGCATTTTTT
1 AAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGC-GTTTTT
* * * * *
80091938 ATAAAAGCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTCTT
1 AAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGTTTTT
* * *
80091980 AAAAAAACGCCGCCAAAGACCAGGACCTATAGCGGCGTTTTTT
1 AAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCG-TTTTT
* ** *
80092023 AAAAAAGCGCCGCTAAAAGTA-C-AGGTCTATAGCGGCGTTTTT
1 AAAAAAACGCCGCT-AAAG-ACCAAGACCTTTAGCGGCGTTTTT
* * * * *
80092065 CTAAAAAACGTCGCTATAGGCCAAGAACTTTAGCGGCGCTTTTT
1 -AAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCG-TTTTT
* * * * *
80092109 TAAAAAACGCCGCTATAGACCTATACTTTTAGCGGCGCTTTTGT
1 AAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCG-TTTT-T
* * * *
80092153 AAAAAAGCGCCGCTATAGACCAAGAACTTTAGCGGTGCTTTTGT
1 AAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCG-TTTT-T
* * *
80092197 -AAAAAACGCCGCTATAGACC-TGTACTTTTAGCGGCGCTTTTGT
1 AAAAAAACGCCGCTAAAGACCAAG-ACCTTTAGCGGCG-TTTT-T
* * * * * * *
80092240 AGAAAAACACTGCTATAGACC-TGTACTTTTAGCGGCGCTTTTGC
1 AAAAAAACGCCGCTAAAGACCAAG-ACCTTTAGCGGCG-TTTT-T
* * * * *
80092284 AAAAAAACGCCGCTATAGTCC-TGTACTTTTAGCGGCGCTTTTGC
1 AAAAAAACGCCGCTAAAGACCAAG-ACCTTTAGCGGCG-TTTT-T
*
80092328 AAAAAAATGCCGCTAA
1 AAAAAAACGCCGCTAA
80092344 TTTGCCCAGT
Statistics
Matches: 339, Mismatches: 57, Indels: 19
0.82 0.14 0.05
Matches are distributed among these distances:
42 44 0.13
43 153 0.45
44 141 0.42
45 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGTTTTT
Found at i:80092108 original size:44 final size:44
Alignment explanation
Indices: 80091896--80092342 Score: 331
Period size: 44 Copynumber: 10.3 Consensus size: 44
80091886 CTTTTTTAGA
* *
80091896 AAAAAACGCCGCTAAAGACCACG-A-TCTTTAGCGGC-ATTTTT-T
1 AAAAAACGCCGCTATAGACCA-GTACT-TTTAGCGGCGCTTTTTCT
* * * * * *
80091938 ATAAAAGCGCCGCTAAAGACCAAG-ACCTTTAGCAGCGC-TCTT-A
1 A-AAAAACGCCGCTATAGACC-AGTACTTTTAGCGGCGCTTTTTCT
* * * * *
80091981 AAAAAACGCCGCCAAAGACCAGGACCTATAGCGGCG-TTTTT-T
1 AAAAAACGCCGCTATAGACCAGTACTTTTAGCGGCGCTTTTTCT
* *
80092023 AAAAAAGCGCCGCTAAAAGTA-CAGGT-C-TATAGCGGCG-TTTTTCT
1 AAAAAA-CGCCGCT-ATAG-ACCA-GTACTTTTAGCGGCGCTTTTTCT
* * *
80092067 AAAAAACGTCGCTATAGGCCAAGAAC-TTTAGCGGCGCTTTTT-T
1 AAAAAACGCCGCTATAGACC-AGTACTTTTAGCGGCGCTTTTTCT
*
80092110 AAAAAACGCCGCTATAGACCTA-TACTTTTAGCGGCGC-TTTTGT
1 AAAAAACGCCGCTATAGACC-AGTACTTTTAGCGGCGCTTTTTCT
* * *
80092153 AAAAAAGCGCCGCTATAGACCAAGAAC-TTTAGCGGTGC-TTTTGT
1 AAAAAA-CGCCGCTATAGACC-AGTACTTTTAGCGGCGCTTTTTCT
* *
80092197 AAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGC-TTTTGT
1 AAAAAACGCCGCTATAGACCAGTACTTTTAGCGGCGCTTTTTCT
* * * * *
80092240 AGAAAAACACTGCTATAGACCTGTACTTTTAGCGGCGCTTTTGCA
1 A-AAAAACGCCGCTATAGACCAGTACTTTTAGCGGCGCTTTTTCT
* * * *
80092285 AAAAAACGCCGCTATAGTCCTGTACTTTTAGCGGCGCTTTTGCA
1 AAAAAACGCCGCTATAGACCAGTACTTTTAGCGGCGCTTTTTCT
*
80092329 AAAAAATGCCGCTA
1 AAAAAACGCCGCTA
80092343 ATTTGCCCAG
Statistics
Matches: 345, Mismatches: 38, Indels: 42
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.01
42 52 0.15
43 139 0.40
44 144 0.42
45 8 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (44 bp):
AAAAAACGCCGCTATAGACCAGTACTTTTAGCGGCGCTTTTTCT
Found at i:80092178 original size:87 final size:87
Alignment explanation
Indices: 80091895--80092342 Score: 426
Period size: 87 Copynumber: 5.2 Consensus size: 87
80091885 GCTTTTTTAG
* * * * * *
80091895 AAAAAAACGCCGCTAAAGACCACGATCTTTAGCGGC-ATTTTTTATAAAAGCGCCGCTAAAGACC
1 AAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTTTA-AAAAACGCCGCTATAGACC
* * * * *
80091959 AAGACCTTTAGCAGCGC-TCT-T
65 TATACTTTTAGCGGCGCTTTTGT
* * * * * **
80091980 AAAAAAACGCCGCCAAAGACCAGGACCTATAGCGGCG-TTTTTTAAAAAAGCGCCGCTA-A-AAG
1 AAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTTTAAAAAA-CGCCGCTATAGACC
* * * * *
80092042 TACAGGTCTATAGCGGCGTTTTTCT
65 TATA-CT-TTTAGCGGCGCTTTTGT
* *
80092067 -AAAAAACGTCGCTATAGGCCAAGAACTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCT
1 AAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCT
80092131 ATACTTTTAGCGGCGCTTTTGT
66 ATACTTTTAGCGGCGCTTTTGT
* * *
80092153 AAAAAAGCGCCGCTATAGACCAAGAACTTTAGCGGTGCTTTTGTAAAAAACGCCGCTATAGACCT
1 AAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCT
*
80092218 GTACTTTTAGCGGCGCTTTTGT
66 ATACTTTTAGCGGCGCTTTTGT
* * * * * ** *
80092240 AGAAAAACACTGCTATAGACC-TGTACTTTTAGCGGCGCTTTTGCAAAAAAACGCCGCTATAGTC
1 AAAAAAACGCCGCTATAGACCAAGAAC-TTTAGCGGCGCTTTT-TTAAAAAACGCCGCTATAGAC
* *
80092304 CTGTACTTTTAGCGGCGCTTTTGC
64 CTATACTTTTAGCGGCGCTTTTGT
*
80092328 AAAAAAATGCCGCTA
1 AAAAAAACGCCGCTA
80092343 ATTTGCCCAG
Statistics
Matches: 301, Mismatches: 50, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
83 3 0.01
84 5 0.02
85 55 0.18
86 56 0.19
87 126 0.42
88 56 0.19
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (87 bp):
AAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTTTAAAAAACGCCGCTATAGACCT
ATACTTTTAGCGGCGCTTTTGT
Found at i:80092664 original size:21 final size:21
Alignment explanation
Indices: 80092640--80092684 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
80092630 TCTTGTTCTG
*
80092640 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTACTGC
80092661 CTCCGCCTCCCTCGCTACTGC
1 CTCCGCCTCCCTCGCTACTGC
80092682 CTC
1 CTC
80092685 TGCTCTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.58, G:0.16, T:0.24
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTACTGC
Found at i:80093275 original size:18 final size:18
Alignment explanation
Indices: 80093243--80093280 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
80093233 TACAATATAG
80093243 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
80093262 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
80093279 TA
1 TA
80093281 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:80098859 original size:21 final size:21
Alignment explanation
Indices: 80098835--80098874 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
80098825 AAATTAATTC
*
80098835 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
80098856 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
80098875 ATATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:80099329 original size:160 final size:160
Alignment explanation
Indices: 80099155--80099457 Score: 570
Period size: 160 Copynumber: 1.9 Consensus size: 160
80099145 GGCGTTGTTA
*
80099155 TCAGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATAC
1 TCAGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATAC
* *
80099220 TTATTCATACTTCAAATAATTAATACTATAAGATCAGGTTTCCAGCCTATATACTTTGAATCTTT
66 TTATTCATACTGCAAATAATTAATACTATAAGATCAGGTTTCCAACCTATATACTTTGAATCTTT
80099285 AAAATATTTAAAATAAGGTTGGAGAGAAGG
131 AAAATATTTAAAATAAGGTTGGAGAGAAGG
80099315 TCAGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATAC
1 TCAGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATAC
*
80099380 TTATTCATACTGCAAATAATTAATACTATAAGGTCAGGTTTCCAACCTATATACTTTGAATCTTT
66 TTATTCATACTGCAAATAATTAATACTATAAGATCAGGTTTCCAACCTATATACTTTGAATCTTT
80099445 AAAATATTTAAAA
131 AAAATATTTAAAA
80099458 CGTACCTTAA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 139 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.36
Consensus pattern (160 bp):
TCAGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATATGGTAATAAAATTAATTCATAC
TTATTCATACTGCAAATAATTAATACTATAAGATCAGGTTTCCAACCTATATACTTTGAATCTTT
AAAATATTTAAAATAAGGTTGGAGAGAAGG
Found at i:80101279 original size:160 final size:160
Alignment explanation
Indices: 80101015--80101860 Score: 1692
Period size: 160 Copynumber: 5.3 Consensus size: 160
80101005 AAGGCAACCC
80101015 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
80101080 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
66 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
80101145 ATTCATACTTCAAATAATTAATACTATAAG
131 ATTCATACTTCAAATAATTAATACTATAAG
80101175 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
80101240 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
66 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
80101305 ATTCATACTTCAAATAATTAATACTATAAG
131 ATTCATACTTCAAATAATTAATACTATAAG
80101335 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
80101400 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
66 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
80101465 ATTCATACTTCAAATAATTAATACTATAAG
131 ATTCATACTTCAAATAATTAATACTATAAG
80101495 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
80101560 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
66 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
80101625 ATTCATACTTCAAATAATTAATACTATAAG
131 ATTCATACTTCAAATAATTAATACTATAAG
80101655 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
80101720 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
66 AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
80101785 ATTCATACTTCAAATAATTAATACTATAAG
131 ATTCATACTTCAAATAATTAATACTATAAG
80101815 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
80101861 CGTACCTTAA
Statistics
Matches: 686, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 686 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (160 bp):
GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTC
AGCTATTGTTGTAATTATAATGGACAAGCAAGCTACATATGTGGTAATAAAATTAATTCATACTT
ATTCATACTTCAAATAATTAATACTATAAG
Found at i:80103530 original size:11 final size:10
Alignment explanation
Indices: 80103503--80103534 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
80103493 TCAGTAAACA
80103503 AAACCATTTC
1 AAACCATTTC
80103513 AAACCATTTC
1 AAACCATTTC
80103523 AAACCCATTTC
1 AAA-CCATTTC
80103534 A
1 A
80103535 GTAAACAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.62
11 8 0.38
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (10 bp):
AAACCATTTC
Found at i:80104721 original size:13 final size:15
Alignment explanation
Indices: 80104682--80104712 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
80104672 CAAATAATAA
*
80104682 TATATATATTTATCT
1 TATATACATTTATCT
80104697 TATATACATTTATCT
1 TATATACATTTATCT
80104712 T
1 T
80104713 CTAAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATACATTTATCT
Found at i:80104750 original size:22 final size:22
Alignment explanation
Indices: 80104720--80104761 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
80104710 CTTCTAAATT
80104720 TAAAACCCTAAACCTGAGACTC
1 TAAAACCCTAAACCTGAGACTC
* *
80104742 TAAACCCCTAAACCTTAGAC
1 TAAAACCCTAAACCTGAGAC
80104762 CACAAACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.19
Consensus pattern (22 bp):
TAAAACCCTAAACCTGAGACTC
Found at i:80105090 original size:25 final size:25
Alignment explanation
Indices: 80105055--80105106 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
80105045 TTTCTAGCTA
80105055 ATAGTTAAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
*
80105080 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
80105105 AT
1 AT
80105107 TCAAAATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTAAACAAATGCTAATTCCAC
Found at i:80105644 original size:82 final size:82
Alignment explanation
Indices: 80105507--80105889 Score: 714
Period size: 82 Copynumber: 4.7 Consensus size: 82
80105497 GGTTTATGAC
*
80105507 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
80105572 GCCCCTAATGATCTGGT
66 GCCCCTAATGATCTGGT
80105589 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
80105654 GCCCCTAATGATCTGGT
66 GCCCCTAATGATCTGGT
80105671 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
80105736 GCCCCTAATGATCTGGT
66 GCCCCTAATGATCTGGT
80105753 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
80105818 GCCCCTAATGATCTGGT
66 GCCCCTAATGATCTGGT
** * *
80105835 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATTCTCT-ATTTTTAGCGACGTTTT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTT
80105890 TTACTAAAAC
Statistics
Matches: 296, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
81 15 0.05
82 281 0.95
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGT
GCCCCTAATGATCTGGT
Found at i:80105961 original size:41 final size:41
Alignment explanation
Indices: 80105507--80105946 Score: 618
Period size: 41 Copynumber: 10.8 Consensus size: 41
80105497 GGTTTATGAC
*
80105507 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* * *
80105548 TTTTAGCGGCGTTTTACCCAAAGTGCCCCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
80105589 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* * *
80105630 TTTTAGCGGCGTTTTACCCAAAGTGCCCCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
80105671 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* * *
80105712 TTTTAGCGGCGTTTTACCCAAAGTGCCCCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
80105753 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* * *
80105794 TTTTAGCGGCGTTTTACCCAAAGTGCCCCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
** *
80105835 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATTCTCT-AT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* * ** *
80105875 TTTTAGCGACGTTTTTTA-CTAAAACGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCTAAAGCGCCGCTAATGATCTGGT
* *
80105916 TTTTAGTGGCGTTTT-CCTTAAGACGCCGCTA
1 TTTTAGCGGCGTTTTACCTAAAG-CGCCGCTA
80105947 TTGCTCTGTA
Statistics
Matches: 358, Mismatches: 37, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
39 8 0.02
40 18 0.05
41 327 0.91
42 5 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
Found at i:80106656 original size:10 final size:10
Alignment explanation
Indices: 80106641--80106665 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
80106631 TATACTTAGA
80106641 AGAGCATAGG
1 AGAGCATAGG
80106651 AGAGCATAGG
1 AGAGCATAGG
80106661 AGAGC
1 AGAGC
80106666 GAAAGGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.12, G:0.40, T:0.08
Consensus pattern (10 bp):
AGAGCATAGG
Found at i:80116757 original size:48 final size:48
Alignment explanation
Indices: 80116686--80116808 Score: 246
Period size: 48 Copynumber: 2.6 Consensus size: 48
80116676 GTATTGGTTT
80116686 TGACTTATCATTAGGATGTCCCATATCATTCCTGCAAGGTACGATTTG
1 TGACTTATCATTAGGATGTCCCATATCATTCCTGCAAGGTACGATTTG
80116734 TGACTTATCATTAGGATGTCCCATATCATTCCTGCAAGGTACGATTTG
1 TGACTTATCATTAGGATGTCCCATATCATTCCTGCAAGGTACGATTTG
80116782 TGACTTATCATTAGGATGTCCCATATC
1 TGACTTATCATTAGGATGTCCCATATC
80116809 CTCATAAACA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (48 bp):
TGACTTATCATTAGGATGTCCCATATCATTCCTGCAAGGTACGATTTG
Found at i:80117230 original size:40 final size:40
Alignment explanation
Indices: 80117186--80117266 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
80117176 TTGCAAGATA
80117186 TGGAAAACATACCTTGGTCCTTACATTTAGGTGGTATTTT
1 TGGAAAACATACCTTGGTCCTTACATTTAGGTGGTATTTT
80117226 TGGAAAACATACCTTGGTCCTTACATTTAGGTGGTATTTT
1 TGGAAAACATACCTTGGTCCTTACATTTAGGTGGTATTTT
80117266 T
1 T
80117267 CTTTGTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.41
Consensus pattern (40 bp):
TGGAAAACATACCTTGGTCCTTACATTTAGGTGGTATTTT
Found at i:80120084 original size:36 final size:34
Alignment explanation
Indices: 80120029--80120101 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 34
80120019 AATTGAAAGA
*
80120029 GAAAAGAAAATAATTCAATTCCAAATAGAAATAG
1 GAAAAGAAAATAATCCAATTCCAAATAGAAATAG
* * *
80120063 GAAAAGAGAGAATAATCCAATTTCAAATTGAAGTAG
1 GAAAAGA-A-AATAATCCAATTCCAAATAGAAATAG
80120099 GAA
1 GAA
80120102 TACAAAAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 7 0.21
35 1 0.03
36 25 0.76
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (34 bp):
GAAAAGAAAATAATCCAATTCCAAATAGAAATAG
Found at i:80121539 original size:6 final size:6
Alignment explanation
Indices: 80121528--80121577 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
80121518 TTAAGCCCAT
80121528 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
1 TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA TACAGA
80121576 TA
1 TA
80121578 TAAATTCAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
TACAGA
Found at i:80125439 original size:16 final size:16
Alignment explanation
Indices: 80125418--80125457 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
80125408 TTTAATACAT
80125418 ATGATGAAATGTAATG
1 ATGATGAAATGTAATG
80125434 ATGATGAAATGTAATG
1 ATGATGAAATGTAATG
80125450 ATGATGAA
1 ATGATGAA
80125458 TGAAAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (16 bp):
ATGATGAAATGTAATG
Found at i:80129248 original size:77 final size:77
Alignment explanation
Indices: 80129154--80129308 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
80129144 TAACACACCA
80129154 ATTTGTAATGAAGATGGAAATTATTGTATTATAATTATTATTCTAATAATAATAGAAATAATCGA
1 ATTTGTAATGAAGATGGAAATTATTGTATTATAATTATTATTCTAATAATAATAGAAATAATCGA
*
80129219 AAAAAGGTAAGT
66 AAAAAGGAAAGT
80129231 ATTTGTAATGAAGATGGAAATTATTGTATTATAATTATTATTCTAATAATAATAGAAATAATCGA
1 ATTTGTAATGAAGATGGAAATTATTGTATTATAATTATTATTCTAATAATAATAGAAATAATCGA
80129296 AAAAAGGAAAGT
66 AAAAAGGAAAGT
80129308 A
1 A
80129309 AGTAAGAAAG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.35
Consensus pattern (77 bp):
ATTTGTAATGAAGATGGAAATTATTGTATTATAATTATTATTCTAATAATAATAGAAATAATCGA
AAAAAGGAAAGT
Found at i:80129344 original size:3 final size:3
Alignment explanation
Indices: 80129338--80129364 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
80129328 GTAGAAGTAG
80129338 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
80129365 AGTGCAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:80129509 original size:15 final size:16
Alignment explanation
Indices: 80129483--80129518 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
80129473 ATAATAAATG
80129483 CACAATAAAAAGCAAA
1 CACAATAAAAAGCAAA
80129499 CACAA-AAAAAGCAAA
1 CACAATAAAAAGCAAA
80129514 C-CAAT
1 CACAAT
80129519 TTTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.16
15 11 0.58
16 5 0.26
ACGTcount: A:0.67, C:0.22, G:0.06, T:0.06
Consensus pattern (16 bp):
CACAATAAAAAGCAAA
Found at i:80131072 original size:37 final size:37
Alignment explanation
Indices: 80131022--80131098 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
80131012 AGAAAATACG
80131022 TTAGCTTTTCAAAAATCGAACTTCCTACGACTAGCAT
1 TTAGCTTTTCAAAAATCGAACTTCCTACGACTAGCAT
80131059 TTAGCTTTTCAAAAATCGAACTTCCTACGACTAGCAT
1 TTAGCTTTTCAAAAATCGAACTTCCTACGACTAGCAT
80131096 TTA
1 TTA
80131099 TAATTCCACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (37 bp):
TTAGCTTTTCAAAAATCGAACTTCCTACGACTAGCAT
Found at i:80131457 original size:40 final size:41
Alignment explanation
Indices: 80131409--80131489 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
80131399 ATAACGGTTT
* *
80131409 GGGCCTTAGCCCATCTCAATA-CAGTATCAAAT-ATGTAGTA
1 GGGCCTTAGCCCATCACAATATCAGTAGC-AATCATGTAGTA
*
80131449 GGGCCTTAGCCCATCACAGTATCAGTAGCAATCATGTAGTA
1 GGGCCTTAGCCCATCACAATATCAGTAGCAATCATGTAGTA
80131490 TTCAGTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 22 0.61
41 14 0.39
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
GGGCCTTAGCCCATCACAATATCAGTAGCAATCATGTAGTA
Found at i:80134405 original size:25 final size:26
Alignment explanation
Indices: 80134377--80134432 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
80134367 CATTTAGGTC
**
80134377 AATTTAAC-CCTAGGGGTATTTCAGT
1 AATTTAACACCTAGGGGTATAACAGT
**
80134402 AATTTTGCACCTAGGGGTATAACAGT
1 AATTTAACACCTAGGGGTATAACAGT
80134428 AATTT
1 AATTT
80134433 TCCATACATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (26 bp):
AATTTAACACCTAGGGGTATAACAGT
Found at i:80134414 original size:26 final size:27
Alignment explanation
Indices: 80134385--80134460 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
80134375 TCAATTTAAC
*
80134385 CCTAGGGGTATTTCAGTAATTTTGC-A
1 CCTAGGGGTATTTCAGTAATTTTCCAA
**
80134411 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTTCAGTAATTTTCCA-A
*
80134439 CATAGGGGTATTAT-AGTAATTT
1 CCTAGGGGTATT-TCAGTAATTT
80134461 GTCTATTCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 22 0.54
28 19 0.46
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTTCAGTAATTTTCCAA
Found at i:80134456 original size:28 final size:26
Alignment explanation
Indices: 80134387--80134460 Score: 78
Period size: 28 Copynumber: 2.8 Consensus size: 26
80134377 AATTTAACCC
* *
80134387 TAGGGGTATT-TCAGTAATTTTGCACC
1 TAGGGGTATTAT-AGTAATTTTCCACA
* *
80134413 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATTATAGTAATTTTCC--ACA
80134441 TAGGGGTATTATAGTAATTT
1 TAGGGGTATTATAGTAATTT
80134461 GTCTATTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 19 0.49
28 20 0.51
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (26 bp):
TAGGGGTATTATAGTAATTTTCCACA
Found at i:80135937 original size:26 final size:26
Alignment explanation
Indices: 80135906--80136013 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
80135896 TGAAATGCCC
*
80135906 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
80135932 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
80135958 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
80135984 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
80136010 ATCA
1 ATCA
80136014 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:80163005 original size:40 final size:40
Alignment explanation
Indices: 80162921--80163105 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
80162911 CCGAATGATG
* *
80162921 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
80162960 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
80163001 TCCGGGCTAAG-CCCGAAAGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
80163040 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
80163079 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
80163106 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:80163127 original size:79 final size:78
Alignment explanation
Indices: 80162922--80163140 Score: 223
Period size: 79 Copynumber: 2.8 Consensus size: 78
80162912 CGAATGATGT
* * *
80162922 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGTATT
*
80162985 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* * *
80163002 CCGGGCTAAG-CCCGAAAGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGTATTT
80163065 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
80163081 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGGTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGGTA
80163141 CGTGATTCGG
Statistics
Matches: 116, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
78 3 0.03
79 68 0.59
80 45 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGTATTTGTG
CGAGTTACTAATA
Found at i:80173243 original size:18 final size:17
Alignment explanation
Indices: 80173220--80173255 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
80173210 AAAAAATCAT
80173220 TTAACAAAACAAGTTTAA
1 TTAAC-AAACAAGTTTAA
*
80173238 TTAACAACCAAGTTTAA
1 TTAACAAACAAGTTTAA
80173255 T
1 T
80173256 AATATATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.31
Consensus pattern (17 bp):
TTAACAAACAAGTTTAA
Found at i:80179169 original size:27 final size:27
Alignment explanation
Indices: 80179139--80179192 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
80179129 ACCCAAATTT
*
80179139 GGTAAAATGACT-ATTATACCCCTATGA
1 GGTAAAATAACTGA-TATACCCCTATGA
80179166 GGTAAAATAACTGATATACCCCTATGA
1 GGTAAAATAACTGATATACCCCTATGA
80179193 TATGTATACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (27 bp):
GGTAAAATAACTGATATACCCCTATGA
Found at i:80189647 original size:30 final size:30
Alignment explanation
Indices: 80189613--80189673 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
80189603 ATTCTATTGT
80189613 TAGAAATGAATTATTGTTGGAATTATAATA
1 TAGAAATGAATTATTGTTGGAATTATAATA
80189643 TAGAAATGAATTATTGTTGGAATTATAATA
1 TAGAAATGAATTATTGTTGGAATTATAATA
80189673 T
1 T
80189674 TGAATTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (30 bp):
TAGAAATGAATTATTGTTGGAATTATAATA
Found at i:80193781 original size:28 final size:29
Alignment explanation
Indices: 80193727--80193792 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
80193717 AACATAAATA
80193727 TAATATT--AATATTTTTAGTTATCA-TT
1 TAATATTAAAATATTTTTAGTTATCATTT
*
80193753 TAATATTAAAATATTTTTATTTTAT-ATTT
1 TAATATTAAAATATTTTTA-GTTATCATTT
80193782 TAATTATTAAA
1 TAA-TATTAAA
80193793 TATAAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 7 0.21
28 11 0.32
29 9 0.26
30 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
TAATATTAAAATATTTTTAGTTATCATTT
Found at i:80193793 original size:29 final size:27
Alignment explanation
Indices: 80193727--80193795 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 27
80193717 AACATAAATA
80193727 TAATATT-AATATTTTTAGTTATCATT
1 TAATATTAAATATTTTTAGTTATCATT
*
80193753 TAATATTAAAATATTTTTATTTTAT-ATTT
1 TAATATT-AAATATTTTTA-GTTATCA-TT
80193782 TAATTATTAAATAT
1 TAA-TATTAAATAT
80193796 AAATATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 7 0.19
28 11 0.30
29 15 0.41
30 4 0.11
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (27 bp):
TAATATTAAATATTTTTAGTTATCATT
Found at i:80194310 original size:26 final size:26
Alignment explanation
Indices: 80194273--80194458 Score: 354
Period size: 26 Copynumber: 7.2 Consensus size: 26
80194263 TGATACAAAT
*
80194273 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
80194299 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
80194325 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
80194351 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
80194377 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
80194403 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
80194429 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
80194455 TGAT
1 TGAT
80194459 GGGCATTTCA
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 158 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:80208988 original size:12 final size:12
Alignment explanation
Indices: 80208960--80208995 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 12
80208950 GAAAAATATT
80208960 AATTAAATTATAAA
1 AATTAAA-TA-AAA
80208974 AATTAAATAAAA
1 AATTAAATAAAA
80208986 AATTAAATAA
1 AATTAAATAA
80208996 TATTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 13 0.59
13 2 0.09
14 7 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATTAAATAAAA
Found at i:80208991 original size:30 final size:33
Alignment explanation
Indices: 80208933--80209012 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 33
80208923 ATCTACCGAT
*
80208933 TATTATAAAAA-AAATATGAAAAATATTAATTAA
1 TATTATAAAAATAAA-ATGAAAAATATTAAATAA
*
80208966 -ATTATAAAAATTAAAT-AAAAA-ATTAAATAA
1 TATTATAAAAATAAAATGAAAAATATTAAATAA
* *
80208996 TATTAAAAAAATGAAAT
1 TATTATAAAAATAAAAT
80209013 TAACCCTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 8 0.20
31 19 0.46
32 12 0.29
33 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (33 bp):
TATTATAAAAATAAAATGAAAAATATTAAATAA
Found at i:80226583 original size:15 final size:16
Alignment explanation
Indices: 80226563--80226593 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
80226553 AATAATATAA
80226563 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
80226578 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
80226594 AAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:80226646 original size:22 final size:22
Alignment explanation
Indices: 80226606--80226661 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
80226596 AATAAATTTG
*
80226606 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
80226626 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
80226648 TATTAATAATTTAT
1 AAATAATAAATTAT
80226662 TAGACTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:80227154 original size:64 final size:64
Alignment explanation
Indices: 80227015--80227144 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
80227005 ATAAAACATT
80227015 ATAAATATTTGTGACACATATGCAAATCCATCTGAATATATATAAGTAGATAGTAAATTATATA
1 ATAAATATTTGTGACACATATGCAAATCCATCTGAATATATATAAGTAGATAGTAAATTATATA
80227079 ATAAATATTTGTGACACATATGCAAATCCATCTGAATATATATAAGTAGATAGTAAATTATATA
1 ATAAATATTTGTGACACATATGCAAATCCATCTGAATATATATAAGTAGATAGTAAATTATATA
80227143 AT
1 AT
80227145 GCTCCTTTGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (64 bp):
ATAAATATTTGTGACACATATGCAAATCCATCTGAATATATATAAGTAGATAGTAAATTATATA
Found at i:80228226 original size:50 final size:50
Alignment explanation
Indices: 80228165--80228343 Score: 358
Period size: 50 Copynumber: 3.6 Consensus size: 50
80228155 CATCTTTTAA
80228165 AAAAAAATTCTATTTAGATTTTAAATATTTTGTTTTGGTTTAGGTTCTTT
1 AAAAAAATTCTATTTAGATTTTAAATATTTTGTTTTGGTTTAGGTTCTTT
80228215 AAAAAAATTCTATTTAGATTTTAAATATTTTGTTTTGGTTTAGGTTCTTT
1 AAAAAAATTCTATTTAGATTTTAAATATTTTGTTTTGGTTTAGGTTCTTT
80228265 AAAAAAATTCTATTTAGATTTTAAATATTTTGTTTTGGTTTAGGTTCTTT
1 AAAAAAATTCTATTTAGATTTTAAATATTTTGTTTTGGTTTAGGTTCTTT
80228315 AAAAAAATTCTATTTAGATTTTAAATATT
1 AAAAAAATTCTATTTAGATTTTAAATATT
80228344 AAAAATCTTT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 129 1.00
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (50 bp):
AAAAAAATTCTATTTAGATTTTAAATATTTTGTTTTGGTTTAGGTTCTTT
Found at i:80233550 original size:40 final size:40
Alignment explanation
Indices: 80233501--80233581 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
80233491 GATAATTAGG
80233501 ACTAAATTGCATAAAGAGTGAAAGTTGAATTATAAATTAA
1 ACTAAATTGCATAAAGAGTGAAAGTTGAATTATAAATTAA
* *
80233541 ACTAGATTGCATAAAGAGTGAAAGTTGAATTATCAATTAA
1 ACTAAATTGCATAAAGAGTGAAAGTTGAATTATAAATTAA
80233581 A
1 A
80233582 GAATAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (40 bp):
ACTAAATTGCATAAAGAGTGAAAGTTGAATTATAAATTAA
Found at i:80238953 original size:41 final size:41
Alignment explanation
Indices: 80238894--80238976 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
80238884 ATTAATTGTG
* *
80238894 TAGGGAAAATATTAGAATCTTTAGAACTGTACAAATTACTA
1 TAGGGAAAATATTAGAATCTTTAGAACTATACAAATGACTA
* *
80238935 TAGGGAAAATATTGGAATCTTTAGAACTATGCAAATGACTA
1 TAGGGAAAATATTAGAATCTTTAGAACTATACAAATGACTA
80238976 T
1 T
80238977 GATCAAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (41 bp):
TAGGGAAAATATTAGAATCTTTAGAACTATACAAATGACTA
Found at i:80239764 original size:36 final size:36
Alignment explanation
Indices: 80239716--80239785 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
80239706 CCTTTTTGTA
* **
80239716 TGCTGCATAACGATTTACAGTGGGGAGATTAGTAGG
1 TGCTGCAGAACGATTTACAGTAAGGAGATTAGTAGG
*
80239752 TGCTGCAGAACGATTTACATTAAGGAGATTAGTA
1 TGCTGCAGAACGATTTACAGTAAGGAGATTAGTA
80239786 AGTTGAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (36 bp):
TGCTGCAGAACGATTTACAGTAAGGAGATTAGTAGG
Found at i:80243265 original size:36 final size:36
Alignment explanation
Indices: 80243210--80243279 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
80243200 AAGTTCAACT
** *
80243210 TACTAATCTCCTTAATGTAAATCGTTCTGCAGCACC
1 TACTAATCTCCCCAATGTAAATCGTTATGCAGCACC
*
80243246 TACTAATCTCCCCACTGTAAATCGTTATGCAGCA
1 TACTAATCTCCCCAATGTAAATCGTTATGCAGCA
80243280 TACAAAAAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (36 bp):
TACTAATCTCCCCAATGTAAATCGTTATGCAGCACC
Found at i:80255592 original size:17 final size:18
Alignment explanation
Indices: 80255559--80255592 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
80255549 TATCTATTAT
*
80255559 TTAAAAAATATATATTTA
1 TTAAAAAATATAAATTTA
80255577 TTAAAAAAT-TAAATTT
1 TTAAAAAATATAAATTT
80255593 TTTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAAAAATATAAATTTA
Found at i:80263101 original size:84 final size:83
Alignment explanation
Indices: 80262894--80263104 Score: 269
Period size: 84 Copynumber: 2.5 Consensus size: 83
80262884 CAGGAGCTGC
* * ** *
80262894 TTCCGGGGTTTCTGTTGGCAAGGGAGAAGTTTCGGGGGCCAGATACACGGATGGTGGGAGAGAAG
1 TTCCGGGGTTTCCGTTGGC-AGGGAGAAGTTTCGGGAGCTGGATACACGGATGGTGGGAAAGAAG
* * * *
80262959 GCGAGGTTTCTGGAGCTAT
65 GCGAAGTTTCCGGAGCCAA
*
80262978 TTCCGGGGTTTCCATTGGCATGGGAGAAGTTTCGGGAGCTGGATACACGGATGGTGGGAAAGAAG
1 TTCCGGGGTTTCCGTTGGCA-GGGAGAAGTTTCGGGAGCTGGATACACGGATGGTGGGAAAGAAG
80263043 GCGAAGTTTCCGGAGCCAA
65 GCGAAGTTTCCGGAGCCAA
* * * *
80263062 TTCCGGAGTTTCGGCTGGCGAGGGAGAAGTTTCCGGAGCTGGA
1 TTCCGGGGTTTCCGTTGGC-AGGGAGAAGTTTCGGGAGCTGGA
80263105 GAGGCCGAGG
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
83 1 0.01
84 108 0.98
85 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.40, T:0.23
Consensus pattern (83 bp):
TTCCGGGGTTTCCGTTGGCAGGGAGAAGTTTCGGGAGCTGGATACACGGATGGTGGGAAAGAAGG
CGAAGTTTCCGGAGCCAA
Found at i:80264363 original size:17 final size:18
Alignment explanation
Indices: 80264341--80264375 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
80264331 TCACAAATGG
80264341 ACTTATTCTTAA-TTTTC
1 ACTTATTCTTAACTTTTC
80264358 ACTTATTCTTAACTTTTC
1 ACTTATTCTTAACTTTTC
80264376 TAACTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
ACTTATTCTTAACTTTTC
Found at i:80267176 original size:30 final size:32
Alignment explanation
Indices: 80267140--80267199 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
80267130 TCATATTTAA
*
80267140 ATAA-TTTTA-ATGTTTTTTTAATTTTTAAGG
1 ATAATTTTTATATATTTTTTTAATTTTTAAGG
80267170 ATAATTTTTATATATTTTTTTAATTTTTAA
1 ATAATTTTTATATATTTTTTTAATTTTTAA
80267200 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 5 0.19
32 18 0.67
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (32 bp):
ATAATTTTTATATATTTTTTTAATTTTTAAGG
Found at i:80268529 original size:27 final size:27
Alignment explanation
Indices: 80268463--80268530 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
80268453 GCCTTTCTCT
* * * *
80268463 GAGGTGCAAATGATTGTGCCTACCTCA
1 GAGGCGCAAATGGTTGTACCTACATCA
*
80268490 GAGGCGCAAATGGTTGTACCTATATCA
1 GAGGCGCAAATGGTTGTACCTACATCA
80268517 GAGGCGCAAATGGT
1 GAGGCGCAAATGGT
80268531 GGGGCCCACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (27 bp):
GAGGCGCAAATGGTTGTACCTACATCA
Found at i:80275320 original size:60 final size:60
Alignment explanation
Indices: 80275247--80275365 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
80275237 ATACTAAACT
* * * *
80275247 AAACACAACAATTTATAACTTAATCCTAAATTATTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
80275307 AAACACAAAAATTTTTAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
80275366 TAAAAAACAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:80275558 original size:21 final size:21
Alignment explanation
Indices: 80275532--80275590 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 21
80275522 ATTTTTTTTC
80275532 TTTTTTCTTTCTTCT-TCTTCT
1 TTTTTTCTTTCTTCTCTCTT-T
80275553 TTTTTTCTTCTCCTTTCTCTCTTT
1 TTTTTTCTT-T-C-TTCTCTCTTT
*
80275577 TTTTTTCTCTCTTC
1 TTTTTTCTTTCTTC
80275591 CGGTGTGTGG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 12 0.36
22 2 0.06
23 2 0.06
24 13 0.39
25 4 0.12
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTTCTTTCTTCTCTCTTT
Found at i:80275559 original size:17 final size:17
Alignment explanation
Indices: 80275529--80275568 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
80275519 TACATTTTTT
80275529 TTCTTTTTTCTTTCTTC
1 TTCTTTTTTCTTTCTTC
80275546 TTCTTCTTTT-TTTCTTC
1 TTCTT-TTTTCTTTCTTC
*
80275563 TCCTTT
1 TTCTTT
80275569 CTCTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 16 0.76
18 4 0.19
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTTTTTTCTTTCTTC
Found at i:80275575 original size:14 final size:14
Alignment explanation
Indices: 80275536--80275590 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
80275526 TTTTTCTTTT
80275536 TTCTTTCT-TCTTC
1 TTCTTTCTCTCTTC
* *
80275549 TTCTTTTTTTCTTC
1 TTCTTTCTCTCTTC
* *
80275563 TCCTTTCTCTCTTT
1 TTCTTTCTCTCTTC
*
80275577 TTTTTTCTCTCTTC
1 TTCTTTCTCTCTTC
80275591 CGGTGTGTGG
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
13 7 0.21
14 26 0.79
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTTCTCTCTTC
Found at i:80275587 original size:23 final size:24
Alignment explanation
Indices: 80275532--80275584 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
80275522 ATTTTTTTTC
80275532 TTTTTTCTT-T-C-TTCTTCTTCT
1 TTTTTTCTTCTCCTTTCTTCTTCT
80275553 TTTTTTCTTCTCCTTTCTCTCTT-T
1 TTTTTTCTTCTCCTTTCT-TCTTCT
80275577 TTTTTTCT
1 TTTTTTCT
80275585 CTCTTCCGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.32
22 1 0.04
23 1 0.04
24 13 0.46
25 4 0.14
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
TTTTTTCTTCTCCTTTCTTCTTCT
Found at i:80275985 original size:22 final size:21
Alignment explanation
Indices: 80275938--80275986 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
80275928 TTTAATAAAA
* * *
80275938 ATAAAAAAAATAAAATTTTAT
1 ATAAAAAAAAAAAAAATTAAT
*
80275959 TTAAAAAACAAAAAAAATTAAT
1 ATAAAAAA-AAAAAAAATTAAT
80275981 ATAAAA
1 ATAAAA
80275987 TAATCATTCG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAAAAAAAAAAAAAATTAAT
Found at i:80299547 original size:26 final size:26
Alignment explanation
Indices: 80299518--80299601 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
80299508 TGATACAAAT
*
80299518 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
80299544 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
80299570 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
80299596 TGATAA
1 TGATAA
80299602 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:80311595 original size:12 final size:12
Alignment explanation
Indices: 80311578--80311602 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80311568 GTATACATCA
80311578 GTTGTTGGAAAG
1 GTTGTTGGAAAG
80311590 GTTGTTGGAAAG
1 GTTGTTGGAAAG
80311602 G
1 G
80311603 ACAGTACAAT
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:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (12 bp):
GTTGTTGGAAAG
Found at i:80313092 original size:59 final size:59
Alignment explanation
Indices: 80313021--80313139 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
80313011 ATTACATATA
80313021 TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTCTATT
1 TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTCTATT
*
80313080 TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTTTATT
1 TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTCTATT
80313139 T
1 T
80313140 ATAGGCATAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (59 bp):
TCATTATGTATTTTATTGATCAATTAAAATATTTATAAAACTTCTCTAAAGTCTCTATT
Found at i:80316029 original size:22 final size:22
Alignment explanation
Indices: 80315986--80316029 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
80315976 GGTTAAAGGC
*
80315986 ATTACCAGAAAATCAGAAACAT
1 ATTACCAGAAAATCACAAACAT
*
80316008 ATTACCA-AAAATTCACATACAT
1 ATTACCAGAAAA-TCACAAACAT
80316030 CATCCACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (22 bp):
ATTACCAGAAAATCACAAACAT
Found at i:80316248 original size:42 final size:42
Alignment explanation
Indices: 80316177--80316282 Score: 151
Period size: 42 Copynumber: 2.5 Consensus size: 42
80316167 CAGAGGTCAC
* * *
80316177 ACGCCCGTGTGAACAGGCCATGTGTCTCACACGGCATTAGAA
1 ACGCCTGTGTGAACAGGCCGTGTGCCTCACACGGCATTAGAA
* *
80316219 ACTCCTGTGTGAACAGGCCGTGTGCCTCACACGGCATTAGAC
1 ACGCCTGTGTGAACAGGCCGTGTGCCTCACACGGCATTAGAA
*
80316261 ACGCCTGTGTG-TCAGGCCGTGT
1 ACGCCTGTGTGAACAGGCCGTGT
80316283 CAAAACAGAG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 10 0.18
42 47 0.82
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.22
Consensus pattern (42 bp):
ACGCCTGTGTGAACAGGCCGTGTGCCTCACACGGCATTAGAA
Found at i:80316888 original size:23 final size:23
Alignment explanation
Indices: 80316862--80316914 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
80316852 ATTTGCATCA
80316862 CATATCAT-ATACCATAATCAAGC
1 CATATCATCA-ACCATAATCAAGC
*** *
80316885 CATAAGTTCAACCATAATTAAGC
1 CATATCATCAACCATAATCAAGC
80316908 CATATCA
1 CATATCA
80316915 CATGGCTAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.26
Consensus pattern (23 bp):
CATATCATCAACCATAATCAAGC
Done.