Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 14 of 50
Found at i:7284597 original size:16 final size:16
Alignment explanation
Indices: 7284552--7284602 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
7284542 AAATTGAAAG
*
7284552 AAAATTATTAATATTT
1 AAAAATATTAATATTT
7284568 AAAGAAAATATTAATATTT
1 --A-AAAATATTAATATTT
*
7284587 AAAAATGTTAATATTT
1 AAAAATATTAATATTT
7284603 TAATTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 14 0.47
17 1 0.03
18 1 0.03
19 14 0.47
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
AAAAATATTAATATTT
Found at i:7284621 original size:22 final size:20
Alignment explanation
Indices: 7284596--7284648 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
7284586 TAAAAATGTT
7284596 AATATTTTAATTATAAATTATG
1 AATATTTTAA--ATAAATTATG
7284618 AATATTTTAAATAAATTAT-
1 AATATTTTAAATAAATTATG
*
7284637 AA-ATTATAAATA
1 AATATTTTAAATA
7284649 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 9 0.30
19 2 0.07
20 9 0.30
22 10 0.33
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
AATATTTTAAATAAATTATG
Found at i:7284634 original size:27 final size:28
Alignment explanation
Indices: 7284604--7284661 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
7284594 TTAATATTTT
* *
7284604 AATTATAAATTATGAATATTT-TAAATA
1 AATTATAAATTATAAATATTTAAAAATA
7284631 AATTATAAATTATAAATATTTAAAAATA
1 AATTATAAATTATAAATATTTAAAAATA
7284659 AAT
1 AAT
7284662 GAAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (28 bp):
AATTATAAATTATAAATATTTAAAAATA
Found at i:7284641 original size:205 final size:209
Alignment explanation
Indices: 7284399--7284912 Score: 616
Period size: 205 Copynumber: 2.5 Consensus size: 209
7284389 TAAAATTTTA
* * *
7284399 AAATT-TAAATTATTAACAATTTAAAGAAATTATAAATTATTATGATTTAAAAATAAAATAAAAT
1 AAATTATAAATTATTAATATTTTAAATAAATTATAAATTATTAT-ATTTAAAAATAAAATAAAAT
* * * *
7284463 AAAAATAGATAATGATATATTGTAATGAAAAGGTTAAGTTTTTAATTATATATTATA-AAATTTT
65 AAAAATAGATAATCATATATTATAATAAAAAGGTTAAGTTTTTAATTATATATTATAGAAA-ATT
*
7284527 AATATTTTAAATT-TAAAATTGAAAGAAAATTATTAATA-TTTAA-AGAA-AATATTAATATT-T
129 AATATTTAAAATTCTAAAATT-AAAGAAAATTATTAATATTTTAACAGAATAATATTAA-ATTAT
*
7284587 -A-AAAATGTTAATATTT
192 AATAAAATATTAATATTT
* * *
7284603 TAATTATAAATTATGAATATTTTAAATAAATTATAAATTATAAATATTTAAAAAT-AAATGAAAA
1 AAATTATAAATTATTAATATTTTAAATAAATTATAAATTAT-TATATTTAAAAATAAAAT-AAAA
* ** *
7284667 TAAAAATAGATAATCAAATATTATAATAAAAAATTTAAGTTTTTAATTATGTATTATAGAAAATT
64 TAAAAATAGATAATCATATATTATAATAAAAAGGTTAAGTTTTTAATTATATATTATAGAAAATT
* ** * * *
7284732 AATATTTAAAATTCTATAATTAATTAACATTATTAGTATTTTAATCATAATAATATTAAATTATA
129 AATATTTAAAATTCTAAAATTAAAGAAAATTATTAATATTTTAA-CAGAATAATATTAAATTATA
7284797 ATTAAAATATTAATATTT
193 A-TAAAATATTAATATTT
** ** * *
7284815 AAATTACCAATTATTAATATTTTAAATAAATTACCAATAATTAATATTTAAAAAATAAAATAGAA
1 AAATTATAAATTATTAATATTTTAAATAAATTATAAATTATT-ATATTT-AAAAATAAAATAAAA
7284880 TAAAAATAGATAATCATATATTATAATAAAAAG
64 TAAAAATAGATAATCATATATTATAATAAAAAG
7284913 TATTTTTATC
Statistics
Matches: 261, Mismatches: 33, Indels: 23
0.82 0.10 0.07
Matches are distributed among these distances:
204 8 0.03
205 123 0.47
206 16 0.06
208 6 0.02
209 9 0.03
210 1 0.00
212 54 0.21
213 40 0.15
214 4 0.02
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (209 bp):
AAATTATAAATTATTAATATTTTAAATAAATTATAAATTATTATATTTAAAAATAAAATAAAATA
AAAATAGATAATCATATATTATAATAAAAAGGTTAAGTTTTTAATTATATATTATAGAAAATTAA
TATTTAAAATTCTAAAATTAAAGAAAATTATTAATATTTTAACAGAATAATATTAAATTATAATA
AAATATTAATATTT
Found at i:7284844 original size:27 final size:26
Alignment explanation
Indices: 7284814--7284870 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
7284804 TATTAATATT
*
7284814 TAAATTACCAATTATTAATATTTTAAA
1 TAAATTACCAATAATTAATA-TTTAAA
7284841 TAAATTACCAATAATTAATATTTAAA
1 TAAATTACCAATAATTAATATTTAAA
7284867 -AAAT
1 TAAAT
7284871 AAAATAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 6 0.21
27 19 0.66
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (26 bp):
TAAATTACCAATAATTAATATTTAAA
Found at i:7291326 original size:39 final size:38
Alignment explanation
Indices: 7291244--7291425 Score: 181
Period size: 39 Copynumber: 4.7 Consensus size: 38
7291234 TGAATATTGG
* * *
7291244 TTTATTCATATGATGAAGAATGATTTATTAAAAT-TTTGG
1 TTTATTCATATGATGAAGATTGATTTA--CAAATGTTTGA
* *
7291283 TTTATTTAGATGATGAAGATTGATTTACAAATGTTATGA
1 TTTATTCATATGATGAAGATTGATTTACAAATGTT-TGA
* * **
7291322 TTTATTCAAATGGTGAAGATTGATTTATGAATGTTTGGA
1 TTTATTCATATGATGAAGATTGATTTACAAATGTTT-GA
*
7291361 TTTATTCATATGACT-AAGATTGACTTT-CAAATGTTTTGG
1 TTTATTCATATGA-TGAAGATTGA-TTTACAAATG-TTTGA
*
7291400 TTTATTCATATGATGATGATTGATTT
1 TTTATTCATATGATGAAGATTGATTT
7291426 GTGAATGCGA
Statistics
Matches: 120, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
37 4 0.03
38 7 0.06
39 102 0.85
40 7 0.06
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (38 bp):
TTTATTCATATGATGAAGATTGATTTACAAATGTTTGA
Found at i:7291365 original size:78 final size:77
Alignment explanation
Indices: 7291244--7291432 Score: 222
Period size: 78 Copynumber: 2.4 Consensus size: 77
7291234 TGAATATTGG
* * *
7291244 TTTATTCATATGATGAAGAATGATTTATTAAAAT-TTTGGTTTATTTAGATGA-TGAAGATTGA-
1 TTTATTCATATGATGAAGATTGATTTA-T-GAATGTTTGGTTTATTCAGATGACT-AAGATTGAC
7291306 TTTACAAATGTTATGA
63 TTT-CAAATGTTATGA
* * *
7291322 TTTATTCAAATGGTGAAGATTGATTTATGAATGTTTGGATTTATTCATATGACTAAGATTGACTT
1 TTTATTCATATGATGAAGATTGATTTATGAATGTTTGG-TTTATTCAGATGACTAAGATTGACTT
* *
7291387 TCAAATGTTTTGG
65 TCAAATGTTATGA
* *
7291400 TTTATTCATATGATGATGATTGATTTGTGAATG
1 TTTATTCATATGATGAAGATTGATTTATGAATG
7291433 CGATTAAATC
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
76 3 0.03
77 6 0.06
78 82 0.86
79 4 0.04
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.46
Consensus pattern (77 bp):
TTTATTCATATGATGAAGATTGATTTATGAATGTTTGGTTTATTCAGATGACTAAGATTGACTTT
CAAATGTTATGA
Found at i:7291574 original size:33 final size:33
Alignment explanation
Indices: 7291548--7291611 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
7291538 AGGTTATATT
**
7291548 AATTAGCACATGGTCTTGCCAACAGGTTACAAC
1 AATTAGCACATGACCTTGCCAACAGGTTACAAC
* *
7291581 AATTAGCATATGACCTTGCTAACAGGTTACA
1 AATTAGCACATGACCTTGCCAACAGGTTACA
7291612 GTAGTCAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (33 bp):
AATTAGCACATGACCTTGCCAACAGGTTACAAC
Found at i:7291622 original size:33 final size:33
Alignment explanation
Indices: 7291562--7291628 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
7291552 AGCACATGGT
*
7291562 CTTGCCAACAGGTTACAACAATTAGCATATGAC
1 CTTGCCAACAGGTTACAACAATCAGCATATGAC
* ** *
7291595 CTTGCTAACAGGTTACAGTAGTCAGCATATGAC
1 CTTGCCAACAGGTTACAACAATCAGCATATGAC
7291628 C
1 C
7291629 ATACTAATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (33 bp):
CTTGCCAACAGGTTACAACAATCAGCATATGAC
Found at i:7292199 original size:48 final size:49
Alignment explanation
Indices: 7292147--7292240 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
7292137 TTTGAAGACT
** *
7292147 TTAGAAAAGTTGTAATAG-TTATGTTTCGAATATGTAAGAAGATAAACA
1 TTAGAAAAGTTGTAATAGTTTATAATTCAAATATGTAAGAAGATAAACA
**
7292195 TTAGATGAGTTGTAATAGTTTATAATTCAAATATGTAAGAAGATAA
1 TTAGAAAAGTTGTAATAGTTTATAATTCAAATATGTAAGAAGATAA
7292241 TTATCAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 16 0.40
49 24 0.60
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (49 bp):
TTAGAAAAGTTGTAATAGTTTATAATTCAAATATGTAAGAAGATAAACA
Found at i:7294781 original size:75 final size:75
Alignment explanation
Indices: 7294650--7294789 Score: 199
Period size: 75 Copynumber: 1.9 Consensus size: 75
7294640 GATGCACTTC
* * * *
7294650 TGTATCTTTCAATGGATTATTCTAAATAGGCATAGTTGTATCAGTGTCTTAACTTTAATGTTCAC
1 TGTATCTTTCAATGGATTATTCTAAATAAGCATAATTGTATCAGTATCTTAACTTTAATGCTCAC
7294715 CTAATGCTTT
66 CTAATGCTTT
* * * * *
7294725 TGTATCTTTCAATGGATTATTCTGAATAAGTATAATTTTATCAGTATTTTACCTTTAATGCTCAC
1 TGTATCTTTCAATGGATTATTCTAAATAAGCATAATTGTATCAGTATCTTAACTTTAATGCTCAC
7294790 GTATGACTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 56 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (75 bp):
TGTATCTTTCAATGGATTATTCTAAATAAGCATAATTGTATCAGTATCTTAACTTTAATGCTCAC
CTAATGCTTT
Found at i:7301267 original size:13 final size:13
Alignment explanation
Indices: 7301249--7301276 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7301239 TCTTCTCCCC
7301249 TACTTAGATTAGT
1 TACTTAGATTAGT
7301262 TACTTAGATTAGT
1 TACTTAGATTAGT
7301275 TA
1 TA
7301277 TATAATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (13 bp):
TACTTAGATTAGT
Found at i:7302066 original size:126 final size:126
Alignment explanation
Indices: 7301909--7302155 Score: 343
Period size: 126 Copynumber: 2.0 Consensus size: 126
7301899 AAGCCAAAGT
* * * *
7301909 TACAAAGTTTATGTTAAGGAGATATCCATAG-AAGTGAGAGAAAAATTGCTACTAGATAATGCTG
1 TACAAAGTTTATGTTAAGGAAATATCCATAGAAAG-AAAAGAAAAATTACTACTAGATAATGCTG
* *
7301973 GAGATGAAAAAGGAAGTGTGGGGGAACATTTTTTAAAAGCCATGTTTATGCAAAGCCTAAAC
65 GAGATGAAAAAGGAAATGTGGGGGAACATTTTTCAAAAGCCATGTTTATGCAAAGCCTAAAC
* * * * *
7302035 TACAAAGTTTATGTTAAGGAAATATCTATAGAAAGAAAAGAACATTTACTACTAGATAGTGTTGG
1 TACAAAGTTTATGTTAAGGAAATATCCATAGAAAGAAAAGAAAAATTACTACTAGATAATGCTGG
* * * *
7302100 AGATGAAGAAGGAAATGTGTGGGAACATTTTTCAGAAGCCATGTTTGTGCAAAGCC
66 AGATGAAAAAGGAAATGTGGGGGAACATTTTTCAAAAGCCATGTTTATGCAAAGCC
7302156 CATGCTATGT
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
126 102 0.97
127 3 0.03
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.27
Consensus pattern (126 bp):
TACAAAGTTTATGTTAAGGAAATATCCATAGAAAGAAAAGAAAAATTACTACTAGATAATGCTGG
AGATGAAAAAGGAAATGTGGGGGAACATTTTTCAAAAGCCATGTTTATGCAAAGCCTAAAC
Found at i:7304665 original size:19 final size:20
Alignment explanation
Indices: 7304638--7304683 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7304628 AGGAGACAAG
*
7304638 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
7304657 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
7304676 ATAATATT
1 ATAATATT
7304684 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:7305130 original size:20 final size:20
Alignment explanation
Indices: 7305085--7305122 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7305075 TTTTGGCCCC
7305085 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
7305105 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
7305123 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:7305206 original size:27 final size:27
Alignment explanation
Indices: 7305176--7305233 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
7305166 TTGGAGTAAA
*
7305176 AGGGTAAAATGGTAATTTTGCCACC-CC
1 AGGGCAAAATGGTAATTTT-CCACCACC
*
7305203 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATGGTAATTTTCCACCACC
7305231 AGG
1 AGG
7305234 ACATTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATGGTAATTTTCCACCACC
Found at i:7306386 original size:13 final size:13
Alignment explanation
Indices: 7306368--7306392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7306358 AGGGAAATTG
7306368 TGATTTTATAAAA
1 TGATTTTATAAAA
7306381 TGATTTTATAAA
1 TGATTTTATAAA
7306393 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:7310464 original size:2 final size:2
Alignment explanation
Indices: 7310459--7310534 Score: 125
Period size: 2 Copynumber: 38.0 Consensus size: 2
7310449 TATATAAGTG
7310459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
7310501 TA TA TA TA TA TA TA TA TT TA TT TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7310535 GTTGAGGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:7312543 original size:22 final size:22
Alignment explanation
Indices: 7312502--7312544 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7312492 CTTGTTCCCC
* *
7312502 TATATACATATATGTGTGTATG
1 TATATACATATATATATGTATG
*
7312524 TATATACATATTTATATGTAT
1 TATATACATATATATATGTAT
7312545 CCCTCACTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.49
Consensus pattern (22 bp):
TATATACATATATATATGTATG
Found at i:7324465 original size:3 final size:3
Alignment explanation
Indices: 7324438--7324518 Score: 84
Period size: 3 Copynumber: 28.7 Consensus size: 3
7324428 TGTTGGTCAT
* *
7324438 TTA TTA ATA TT- TAA TTA TT- TTA TTA TTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
7324483 TT- TTA TTA TTA TT- TTA TT- TTA TTT TTAA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
7324519 TTTTTTATAC
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
2 11 0.17
3 52 0.80
4 2 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:7324465 original size:11 final size:11
Alignment explanation
Indices: 7324452--7324520 Score: 81
Period size: 11 Copynumber: 6.2 Consensus size: 11
7324442 TAATATTTAA
7324452 TTATT-TTATT
1 TTATTATTATT
7324462 ATTATTATT-TT
1 -TTATTATTATT
7324473 ATTATTATTATT
1 -TTATTATTATT
7324485 TTATTATTATT
1 TTATTATTATT
7324496 TTATT-TTATTT
1 TTATTATTA-TT
7324507 TTAATTATTATT
1 TT-ATTATTATT
7324519 TT
1 TT
7324521 TTTTATACCT
Statistics
Matches: 53, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.06
11 36 0.68
12 11 0.21
13 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTATTATT
Found at i:7324468 original size:14 final size:14
Alignment explanation
Indices: 7324451--7324515 Score: 94
Period size: 14 Copynumber: 4.4 Consensus size: 14
7324441 TTAATATTTA
7324451 ATTATTTTATTATT
1 ATTATTTTATTATT
7324465 ATTATTTTATTATT
1 ATTATTTTATTATT
7324479 ATTATTTTATTATT
1 ATTATTTTATTATT
*
7324493 ATTTTATTTTATTTTT
1 A--TTATTTTATTATT
7324509 AATTATT
1 -ATTATT
7324516 ATTTTTTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
14 29 0.62
15 5 0.11
16 12 0.26
17 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTATTTTATTATT
Found at i:7324639 original size:10 final size:10
Alignment explanation
Indices: 7324620--7324712 Score: 66
Period size: 10 Copynumber: 9.2 Consensus size: 10
7324610 TGAACAAGAA
7324620 TTTTATTATT
1 TTTTATTATT
*
7324630 TTTTACTATT
1 TTTTATTATT
7324640 TTTTA-T-TT
1 TTTTATTATT
*
7324648 TTATATTATT
1 TTTTATTATT
*
7324658 TTTTATTTTT
1 TTTTATTATT
*
7324668 ATATTTTTTATAT
1 -T-TTTATTAT-T
*
7324681 TTTGATTATT
1 TTTTATTATT
*
7324691 ATATTATTA-T
1 -TTTTATTATT
*
7324701 TATTATTATT
1 TTTTATTATT
7324711 TT
1 TT
7324713 GTAAGCAATC
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
8 6 0.09
9 10 0.15
10 28 0.43
11 13 0.20
12 7 0.11
13 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.74
Consensus pattern (10 bp):
TTTTATTATT
Found at i:7324649 original size:18 final size:16
Alignment explanation
Indices: 7324619--7324683 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 16
7324609 GTGAACAAGA
7324619 ATTTTATTATTTTTTACT
1 ATTTT-TTATTTTTTA-T
7324637 ATTTTTTATTTTTATATT
1 ATTTTTTATTTTT-TA-T
7324655 ATTTTTTA-TTTTTAT
1 ATTTTTTATTTTTTAT
7324670 ATTTTTTATATTTT
1 ATTTTTTAT-TTTT
7324684 GATTATTATA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
15 9 0.21
16 2 0.05
17 16 0.37
18 16 0.37
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTTATTTTTTAT
Found at i:7324692 original size:14 final size:14
Alignment explanation
Indices: 7324675--7324713 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
7324665 TTTATATTTT
7324675 TTATATTTTGATTA
1 TTATATTTTGATTA
7324689 TTATATTATT-ATTA
1 TTATATT-TTGATTA
7324703 TTATTATTTTG
1 TTA-TATTTTG
7324714 TAAGCAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (14 bp):
TTATATTTTGATTA
Found at i:7324698 original size:3 final size:3
Alignment explanation
Indices: 7324622--7324710 Score: 51
Period size: 3 Copynumber: 33.7 Consensus size: 3
7324612 AACAAGAATT
* *
7324622 TTA TTA TT- TT- TTA CTA TT- TT- TTA TTT TTA -TA TTA TT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
7324663 TTT TTA -TA TT- TT- TTA -TA TT- TTGA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
7324703 TTA TTA TT
1 TTA TTA TT
7324711 TTGTAAGCAA
Statistics
Matches: 70, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
2 26 0.37
3 42 0.60
4 2 0.03
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:7325334 original size:16 final size:17
Alignment explanation
Indices: 7325308--7325340 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7325298 TTTGATATCC
7325308 ACATATTTTATTCTATT
1 ACATATTTTATTCTATT
*
7325325 ACAT-TTTTATTTTATT
1 ACATATTTTATTCTATT
7325341 TTTTTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (17 bp):
ACATATTTTATTCTATT
Found at i:7326475 original size:17 final size:17
Alignment explanation
Indices: 7326455--7326497 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
7326445 CATTCTTTCT
7326455 TTATTTTTTAATTTTT-A
1 TTATTTTTT-ATTTTTAA
7326472 TTA-TTTTTATTTTTAA
1 TTATTTTTTATTTTTAA
7326488 TTCATTTTTT
1 TT-ATTTTTT
7326498 GTTTATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 4 0.17
18 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTTTATTTTTAA
Found at i:7326502 original size:22 final size:22
Alignment explanation
Indices: 7326443--7326503 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
7326433 CCCTTTTTTT
*
7326443 TTCATTCTTTCTTTATTTTTTAA
1 TTCATTTTTTCTTTA-TTTTTAA
*
7326466 TT--TTTATTATTTTTATTTTTAA
1 TTCATTT-TT-TCTTTATTTTTAA
*
7326488 TTCATTTTTTGTTTAT
1 TTCATTTTTTCTTTAT
7326504 GATTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
21 2 0.06
22 17 0.55
23 9 0.29
24 3 0.10
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (22 bp):
TTCATTTTTTCTTTATTTTTAA
Found at i:7326509 original size:13 final size:13
Alignment explanation
Indices: 7326493--7326524 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7326483 TTTAATTCAT
*
7326493 TTTTTGTTTATGA
1 TTTTTATTTATGA
7326506 TTTTTATTTATGA
1 TTTTTATTTATGA
7326519 TTTTTA
1 TTTTTA
7326525 GTGTCTACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (13 bp):
TTTTTATTTATGA
Found at i:7331911 original size:2 final size:2
Alignment explanation
Indices: 7331904--7331974 Score: 126
Period size: 2 Copynumber: 36.0 Consensus size: 2
7331894 TTTGAGGTTC
*
7331904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TN TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7331945 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7331975 GACTTAATAA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7338810 original size:3 final size:3
Alignment explanation
Indices: 7338802--7338826 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7338792 AACTGAATTG
7338802 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
7338827 ATACATTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7340131 original size:28 final size:28
Alignment explanation
Indices: 7340087--7340149 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
7340077 AAGTCTGTGT
7340087 TTTTATTACATTCAATCAAGCTTTATAC
1 TTTTATTACATTCAATCAAGCTTTATAC
* * *
7340115 TTTTATTACGTTTAATCAAGTTTTATAC
1 TTTTATTACATTCAATCAAGCTTTATAC
7340143 TTTTATT
1 TTTTATT
7340150 TTGAACCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.54
Consensus pattern (28 bp):
TTTTATTACATTCAATCAAGCTTTATAC
Found at i:7340175 original size:30 final size:29
Alignment explanation
Indices: 7340135--7340193 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
7340125 TTTAATCAAG
7340135 TTTTATACTTTTATTTTGAACCAAATAAA
1 TTTTATACTTTTATTTTGAACCAAATAAA
*
7340164 TTTTAATACTTTTATTTTGAATCAAATAAA
1 TTTT-ATACTTTTATTTTGAACCAAATAAA
7340194 CTCTTATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 4 0.14
30 24 0.86
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (29 bp):
TTTTATACTTTTATTTTGAACCAAATAAA
Found at i:7343127 original size:25 final size:25
Alignment explanation
Indices: 7343074--7343131 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
7343064 TTGCATAATT
* *
7343074 GTTATATGTATTGCATTGTGTAACT
1 GTTATATGTATTGCATTGCGTAACA
* *
7343099 GTTATATGTATTGCATTGCGTGAGA
1 GTTATATGTATTGCATTGCGTAACA
7343124 GTTATATG
1 GTTATATG
7343132 AAGGGCATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (25 bp):
GTTATATGTATTGCATTGCGTAACA
Found at i:7343203 original size:75 final size:75
Alignment explanation
Indices: 7343086--7343241 Score: 168
Period size: 75 Copynumber: 2.1 Consensus size: 75
7343076 TATATGTATT
* * * * * * * * *
7343086 GCATTGTGTAACTGTTATATGTATTGCATTGCGTGAGAGTTATATGAAGGGCATTACGTGACTAT
1 GCATTGTGTAACTGCTATACGTATGGAAGTGCATGAGAGTTATAAGAAGGGCATTACATGAATAT
7343151 TATCTGTAGG
66 TATCTGTAGG
* * * * * *
7343161 GCATTGTGTGACTGCTATACGTATGGAAGTGCATGAGTGTTATAAGTATGGCATTGCATGAATTT
1 GCATTGTGTAACTGCTATACGTATGGAAGTGCATGAGAGTTATAAGAAGGGCATTACATGAATAT
*
7343226 TATCTGTATG
66 TATCTGTAGG
7343236 GCATTG
1 GCATTG
7343242 CATGACCGTC
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (75 bp):
GCATTGTGTAACTGCTATACGTATGGAAGTGCATGAGAGTTATAAGAAGGGCATTACATGAATAT
TATCTGTAGG
Found at i:7343228 original size:25 final size:25
Alignment explanation
Indices: 7343176--7343246 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
7343166 GTGTGACTGC
* * * *
7343176 TATACGTATGGAAGTGCATGAGTGT
1 TATAAGTATGGCATTGCATGAATGT
*
7343201 TATAAGTATGGCATTGCATGAATTT
1 TATAAGTATGGCATTGCATGAATGT
**
7343226 TATCTGTATGGCATTGCATGA
1 TATAAGTATGGCATTGCATGA
7343247 CCGTCATTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (25 bp):
TATAAGTATGGCATTGCATGAATGT
Found at i:7345097 original size:21 final size:21
Alignment explanation
Indices: 7345058--7345097 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7345048 CCAACGGTAG
* *
7345058 ATGCAGTTGTAGATGCAATTC
1 ATGCAGTTGGAGATCCAATTC
*
7345079 ATGCAGTTGGATATCCAAT
1 ATGCAGTTGGAGATCCAAT
7345098 AATCAATGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (21 bp):
ATGCAGTTGGAGATCCAATTC
Found at i:7352118 original size:22 final size:22
Alignment explanation
Indices: 7352093--7352141 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
7352083 TTGCCCTACA
*
7352093 TCACGTAATACATAA-AACCTAG
1 TCACATAATACATAACAA-CTAG
*
7352115 TCACATAATATATAACAACTAG
1 TCACATAATACATAACAACTAG
7352137 TCACA
1 TCACA
7352142 CAATGCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.24
Consensus pattern (22 bp):
TCACATAATACATAACAACTAG
Found at i:7352182 original size:22 final size:23
Alignment explanation
Indices: 7352137--7352185 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
7352127 TAACAACTAG
*
7352137 TCACACAATGCCTAAATATTCAT
1 TCACACAATGCCTAAATATCCAT
7352160 TCACACAATGCCT-AATATCCAT
1 TCACACAATGCCTAAATATCCAT
7352182 TCAC
1 TCAC
7352186 GTAAAACCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.29
Consensus pattern (23 bp):
TCACACAATGCCTAAATATCCAT
Found at i:7353060 original size:22 final size:22
Alignment explanation
Indices: 7353035--7353085 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
7353025 AATCAATCAT
*
7353035 GCAATGCCTACAAA-CTAGTCAA
1 GCAATGCCTA-AAACCCAGTCAA
*
7353057 GCAATTCCTAAAACCCAGTCAA
1 GCAATGCCTAAAACCCAGTCAA
7353079 GCAATGC
1 GCAATGC
7353086 ACAAGTCACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.39, C:0.29, G:0.14, T:0.18
Consensus pattern (22 bp):
GCAATGCCTAAAACCCAGTCAA
Found at i:7356620 original size:43 final size:42
Alignment explanation
Indices: 7356542--7356626 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 42
7356532 ATAATAAGAG
* *
7356542 TAATAATAAACTAAAATATATATTCCCAAAAAGGTAGTGAAA
1 TAATAATAAAATAAAATATATATTCCCAAAAAGGTAGAGAAA
* * *
7356584 TAATAATAATAATAATATATTTATTCCCGAAAAGGTAGAGAAA
1 TAATAATAA-AATAAAATATATATTCCCAAAAAGGTAGAGAAA
7356627 ATTGTGTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 9 0.24
43 28 0.76
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (42 bp):
TAATAATAAAATAAAATATATATTCCCAAAAAGGTAGAGAAA
Found at i:7356863 original size:18 final size:18
Alignment explanation
Indices: 7356827--7356872 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
7356817 CACAAAAAGG
* *
7356827 AATAATCAA-ATAATGAT
1 AATAATAAATATAATAAT
7356844 AATAATAAATATAATAAT
1 AATAATAAATATAATAAT
7356862 AATAATAAATA
1 AATAATAAATA
7356873 CAAGGGAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AATAATAAATATAATAAT
Found at i:7357293 original size:17 final size:17
Alignment explanation
Indices: 7357235--7357295 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 17
7357225 TAGATACTTA
7357235 AATATAAAAATATAT-AT
1 AATA-AAAAATATATAAT
7357252 AATAAAATGAA-ATATAATT
1 AATAAAA--AATATATAA-T
7357271 AGATAAAAAATATATAAT
1 A-ATAAAAAATATATAAT
7357289 AATAAAA
1 AATAAAA
7357296 GTAAAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.08
17 14 0.37
18 7 0.18
19 8 0.21
20 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AATAAAAAATATATAAT
Found at i:7357304 original size:19 final size:18
Alignment explanation
Indices: 7357241--7357304 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
7357231 CTTAAATATA
7357241 AAAATATATATAATAAAAT
1 AAAATATA-ATAATAAAAT
*
7357260 GAAATATAATTAGATAAAA-
1 AAAATATAA-TA-ATAAAAT
*
7357279 AATATATAATAATAAAAGT
1 AAAATATAATAATAAAA-T
7357298 AAAATAT
1 AAAATAT
7357305 TATTTCATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 6 0.16
18 3 0.08
19 22 0.59
20 6 0.16
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAATATAATAATAAAAT
Found at i:7358394 original size:27 final size:27
Alignment explanation
Indices: 7358339--7358394 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
7358329 TCTCCAAAAA
* *
7358339 TTTTAAAATTTTATATTTTTTCTTATT
1 TTTTAAAATTTTATATTTTGTCCTATT
*
7358366 TTTTTAAATTTTATAATTTTGTCCT-TT
1 TTTTAAAATTTTAT-ATTTTGTCCTATT
7358393 TT
1 TT
7358395 AAAAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTTAAAATTTTATATTTTGTCCTATT
Found at i:7359195 original size:30 final size:30
Alignment explanation
Indices: 7359159--7359260 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
7359149 TACGTTCAAT
*
7359159 TAAATTTTTATATTTTTATTTTAAATTAAA
1 TAAATTTTTATATTTTTATTTTGAATTAAA
* *
7359189 TAAATTTTTATATATTTATTTTGAATCAAA
1 TAAATTTTTATATTTTTATTTTGAATTAAA
*
7359219 TAAATTTTTATATTTTTATTTTGAGTTAAA
1 TAAATTTTTATATTTTTATTTTGAATTAAA
7359249 -AAAGTTTTTATA
1 TAAA-TTTTTATA
7359261 ATTAATTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 3 0.05
30 62 0.95
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (30 bp):
TAAATTTTTATATTTTTATTTTGAATTAAA
Found at i:7359955 original size:19 final size:20
Alignment explanation
Indices: 7359911--7359955 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
7359901 ATTGTAAACC
*
7359911 ATTTAAGTATTTAATTTATT
1 ATTTAAGTATATAATTTATT
* *
7359931 AATTAA-TATATAATTTTTT
1 ATTTAAGTATATAATTTATT
7359950 ATTTAA
1 ATTTAA
7359956 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTAAGTATATAATTTATT
Found at i:7361684 original size:42 final size:38
Alignment explanation
Indices: 7361599--7361696 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 38
7361589 TTCTTTAAAA
7361599 TTTAAAGTTGTGAAGTCTCAGAGGAATTTTTATTTCGT
1 TTTAAAGTTGTGAAGTCTCAGAGGAATTTTTATTTCGT
* * * *
7361637 CTTAAAGTTGTGAAGTCTCAATGAATGAGTTTTTTATTTCTT
1 TTTAAAGTTGTGAAGTCTC-A-G-AGGA-ATTTTTATTTCGT
*
7361679 TTTAAAGTTGTGGAGTCT
1 TTTAAAGTTGTGAAGTCT
7361697 TGTGGAGGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
38 18 0.36
39 1 0.02
40 1 0.02
41 3 0.06
42 27 0.54
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (38 bp):
TTTAAAGTTGTGAAGTCTCAGAGGAATTTTTATTTCGT
Found at i:7361837 original size:83 final size:84
Alignment explanation
Indices: 7361653--7361854 Score: 207
Period size: 83 Copynumber: 2.4 Consensus size: 84
7361643 GTTGTGAAGT
* * * * ** * *
7361653 CTCAAT-GAATGAGTTTTTTATTTCTTTTTAAAGTTGTGGAGTCTTGTGGAGGACCTTTTTTTTT
1 CTCAATAGAA-GATTTTTTTATTTCCTTTTAAAGTTATGGAGACTTGTGGAGGAAATCTTTTATT
*
7361717 TTCTTTTAAAATTGTGAAAC
65 TTCTTTTAAAATTATGAAAC
* *
7361737 CTCAATAGAGGA-GTTTTTATTTCCTTTTAAAGTTATGGA-ACTT-TGGAGGATGAATCTTTTAT
1 CTCAATAGAAGATTTTTTTATTTCCTTTTAAAGTTATGGAGACTTGTGGAGGA--AATCTTTTAT
7361799 TTTCTTTTAAAATTATGAAAC
64 TTTCTTTTAAAATTATGAAAC
*** *
7361820 CTTGTTAGAAGATTTTTTTATTT-CTCTTAAAGTTA
1 CTCAATAGAAGATTTTTTTATTTCCTTTTAAAGTTA
7361855 CGTAATCTCA
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
81 7 0.07
82 3 0.03
83 69 0.70
84 17 0.17
85 2 0.02
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (84 bp):
CTCAATAGAAGATTTTTTTATTTCCTTTTAAAGTTATGGAGACTTGTGGAGGAAATCTTTTATTT
TCTTTTAAAATTATGAAAC
Found at i:7361839 original size:42 final size:41
Alignment explanation
Indices: 7361708--7361847 Score: 113
Period size: 42 Copynumber: 3.4 Consensus size: 41
7361698 GTGGAGGACC
* ** *
7361708 TTTTTTT-TTTTCTTTTAAAATTGTGAAACCTCAATAGAGGA
1 TTTTTTTATTTTCTTTTAAAATTATGAAACCT-TGTAGAAGA
* * * * * * *
7361749 -GTTTTTATTTCCTTTTAAAGTTATGGAACTTTGGAGGATGA
1 TTTTTTTATTTTCTTTTAAAATTATGAAACCTTGTA-GAAGA
* *
7361790 ATCTTTTATTTTCTTTTAAAATTATGAAACCTTGTTAGAAGA
1 TTTTTTTATTTTCTTTTAAAATTATGAAACCTTG-TAGAAGA
7361832 TTTTTTTATTTCTCTT
1 TTTTTTTATTT-TCTT
7361848 AAAGTTACGT
Statistics
Matches: 74, Mismatches: 20, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
40 6 0.08
41 23 0.31
42 40 0.54
43 5 0.07
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.51
Consensus pattern (41 bp):
TTTTTTTATTTTCTTTTAAAATTATGAAACCTTGTAGAAGA
Found at i:7362462 original size:19 final size:19
Alignment explanation
Indices: 7362452--7362488 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7362442 ATCTTTTTAC
7362452 TCTCTCTAAATACTTTCTT
1 TCTCTCTAAATACTTTCTT
*
7362471 TCTCTCTAAACACTTTCT
1 TCTCTCTAAATACTTTCT
7362489 CTTATATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.30, G:0.00, T:0.49
Consensus pattern (19 bp):
TCTCTCTAAATACTTTCTT
Found at i:7363148 original size:26 final size:26
Alignment explanation
Indices: 7363107--7363259 Score: 114
Period size: 26 Copynumber: 6.0 Consensus size: 26
7363097 TAATTCTACA
*
7363107 AATAATTTTACTATCAGAAGTGGATG
1 AATAATTTTACCATCAGAAGTGGATG
** * ** *
7363133 GCTAATTTTACCATCATAA-TCTAAG
1 AATAATTTTACCATCAGAAGTGGATG
** * *
7363158 AATAATTTTATTAACAGAAGTGAATG
1 AATAATTTTACCATCAGAAGTGGATG
* **
7363184 AATAATTTTATCATCAGAA-T-CTTAG
1 AATAATTTTACCATCAGAAGTGGAT-G
* *
7363209 AATAATTTTACCACCAGAAGTAGATG
1 AATAATTTTACCATCAGAAGTGGATG
* *
7363235 GATAATTTTACCACCAGAAGTGGAT
1 AATAATTTTACCATCAGAAGTGGAT
7363260 AGATGCCGTA
Statistics
Matches: 97, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
24 1 0.01
25 35 0.36
26 60 0.62
27 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (26 bp):
AATAATTTTACCATCAGAAGTGGATG
Found at i:7363190 original size:51 final size:51
Alignment explanation
Indices: 7363107--7363253 Score: 179
Period size: 51 Copynumber: 2.9 Consensus size: 51
7363097 TAATTCTACA
* * * *
7363107 AATAATTTTACTATCAGAAGTGGATGGCTAATTTTACCATCATAATCTAAG
1 AATAATTTTACTAACAGAAGTGAATGGATAATTTTACCATCAGAATCTAAG
* * * *
7363158 AATAATTTTATTAACAGAAGTGAATGAATAATTTTATCATCAGAATCTTAG
1 AATAATTTTACTAACAGAAGTGAATGGATAATTTTACCATCAGAATCTAAG
* * *
7363209 AATAATTTTACCACCAGAAGT-AGATGGATAATTTTACCACCAGAA
1 AATAATTTTACTAACAGAAGTGA-ATGGATAATTTTACCATCAGAA
7363254 GTGGATAGAT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 1 0.01
51 80 0.99
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (51 bp):
AATAATTTTACTAACAGAAGTGAATGGATAATTTTACCATCAGAATCTAAG
Found at i:7372003 original size:22 final size:21
Alignment explanation
Indices: 7371953--7372048 Score: 75
Period size: 21 Copynumber: 4.5 Consensus size: 21
7371943 CCAGGTAACT
* * *
7371953 ATTTTGAAAACTTTCGAGTAT
1 ATTTTCAAAACCTTCGAGTAC
* *
7371974 ACTATCAAAATCCTTCGAGTAC
1 ATTTTCAAAA-CCTTCGAGTAC
* * *
7371996 TTTTTCAAAACTTTTGAGTAC
1 ATTTTCAAAACCTTCGAGTAC
* *
7372017 AATTTCAAAACCTCCGAGTAC
1 ATTTTCAAAACCTTCGAGTAC
* *
7372038 CTCTTCAAAAC
1 ATTTTCAAAAC
7372049 ATCCAAGTAC
Statistics
Matches: 56, Mismatches: 18, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
21 40 0.71
22 16 0.29
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (21 bp):
ATTTTCAAAACCTTCGAGTAC
Found at i:7372025 original size:43 final size:42
Alignment explanation
Indices: 7371954--7372048 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 42
7371944 CAGGTAACTA
* * * * *
7371954 TTTTGAAAACTTTCGAGTATACTATCAAAATCCTTCGAGTACT
1 TTTTCAAAACTTTCGAGTACAATATCAAAA-CCTCCGAGTACC
* *
7371997 TTTTCAAAACTTTTGAGTACAATTTCAAAACCTCCGAGTACC
1 TTTTCAAAACTTTCGAGTACAATATCAAAACCTCCGAGTACC
*
7372039 TCTTCAAAAC
1 TTTTCAAAAC
7372049 ATCCAAGTAC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 19 0.43
43 25 0.57
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (42 bp):
TTTTCAAAACTTTCGAGTACAATATCAAAACCTCCGAGTACC
Found at i:7372044 original size:21 final size:21
Alignment explanation
Indices: 7372020--7372059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7372010 TGAGTACAAT
* *
7372020 TTCAAAACCTCCGAGTACCTC
1 TTCAAAACATCCAAGTACCTC
7372041 TTCAAAACATCCAAGTACC
1 TTCAAAACATCCAAGTACC
7372060 ATTGAATGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.07, T:0.23
Consensus pattern (21 bp):
TTCAAAACATCCAAGTACCTC
Found at i:7372298 original size:14 final size:14
Alignment explanation
Indices: 7372264--7372317 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
7372254 TAAGGTATTT
7372264 TTTTA-TTATTTTA
1 TTTTATTTATTTTA
*
7372277 TTTATATTTATTTTG
1 TTT-TATTTATTTTA
* *
7372292 TTTTATTTATTATC
1 TTTTATTTATTTTA
*
7372306 CTTTATTTATTT
1 TTTTATTTATTT
7372318 AAATTGGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 3 0.09
14 21 0.62
15 10 0.29
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:7372491 original size:21 final size:22
Alignment explanation
Indices: 7372450--7372492 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
7372440 TAAGAGTTTT
**
7372450 AAAAAAAGTAAAAAATTGAAAA
1 AAAAAAAGTAAAAAAAAGAAAA
7372472 AAAAAAAG-AAAAAAAAGAAAA
1 AAAAAAAGTAAAAAAAAGAAAA
7372493 GTTGTGGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAAAAAGTAAAAAAAAGAAAA
Found at i:7374039 original size:20 final size:20
Alignment explanation
Indices: 7374014--7374059 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7374004 TTTTGGCCCC
7374014 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
7374034 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
7374054 ATTTGA
1 ATTTGA
7374060 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:7376931 original size:23 final size:23
Alignment explanation
Indices: 7376900--7376944 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7376890 TTACCATTTA
7376900 ATTTGTTATGCATCATTACATGC
1 ATTTGTTATGCATCATTACATGC
* **
7376923 ATTTTTTATTTATCATTACATG
1 ATTTGTTATGCATCATTACATG
7376945 TTCACAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (23 bp):
ATTTGTTATGCATCATTACATGC
Found at i:7379058 original size:28 final size:29
Alignment explanation
Indices: 7379017--7379076 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
7379007 GTCTATGGGC
*
7379017 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
7379045 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
7379075 AA
1 AA
7379077 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:7383367 original size:14 final size:13
Alignment explanation
Indices: 7383335--7383375 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
7383325 ATAAAATCTT
7383335 ATTATTTTTTTAA
1 ATTATTTTTTTAA
*
7383348 AATATTTTTTTATA
1 ATTATTTTTTTA-A
*
7383362 TTTATTTTTTTAA
1 ATTATTTTTTTAA
7383375 A
1 A
7383376 GTATATTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATTTTTTTAA
Found at i:7386962 original size:28 final size:28
Alignment explanation
Indices: 7386931--7386996 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
7386921 TTAAATGTTC
* *
7386931 AAGCATAACCATTGCCTTTTCAAGGTTA
1 AAGCACAACCATTACCTTTTCAAGGTTA
* *
7386959 AAGCACAACTATTACCTTTTCAAGGTTT
1 AAGCACAACCATTACCTTTTCAAGGTTA
7386987 AAGCACAACC
1 AAGCACAACC
7386997 TTTAATCACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (28 bp):
AAGCACAACCATTACCTTTTCAAGGTTA
Found at i:7387773 original size:21 final size:21
Alignment explanation
Indices: 7387710--7387784 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
7387700 AGGGAGGTTT
* * *
7387710 AAAACTTATTTAAATAAGTTC
1 AAAACTCATTCAAACAAGTTC
*
7387731 AAAAACT-ATTCAAATAAGTTC
1 -AAAACTCATTCAAACAAGTTC
* *
7387752 AAAACTCATTCAAGCAATTTC
1 AAAACTCATTCAAACAAGTTC
7387773 AAAACTCATTCA
1 AAAACTCATTCA
7387785 TATACAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
20 6 0.12
21 36 0.75
22 6 0.12
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAACTCATTCAAACAAGTTC
Found at i:7387801 original size:23 final size:21
Alignment explanation
Indices: 7387732--7387794 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
7387722 AATAAGTTCA
* *
7387732 AAAACT-ATTCAAATAAGTTC
1 AAAACTCATTCAAACAATTTC
*
7387752 AAAACTCATTCAAGCAATTTC
1 AAAACTCATTCAAACAATTTC
7387773 AAAACTCATTCATATACAATTT
1 AAAACTCATTCA-A-ACAATTT
7387795 TGAAACTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 6 0.17
21 23 0.64
22 1 0.03
23 6 0.17
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.32
Consensus pattern (21 bp):
AAAACTCATTCAAACAATTTC
Found at i:7387902 original size:21 final size:20
Alignment explanation
Indices: 7387865--7387928 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
7387855 TAATAAATTA
7387865 AGTTCAAAAACTCATTCAAAC
1 AGTTCAAAAA-TCATTCAAAC
* *
7387886 AGCTTCAAAAATTATTCAAAGA
1 AG-TTCAAAAATCATTCAAA-C
*
7387908 AGTTCAAAGATCATTCAAAC
1 AGTTCAAAAATCATTCAAAC
7387928 A
1 A
7387929 ATTTTGATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
22 10 0.28
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (20 bp):
AGTTCAAAAATCATTCAAAC
Found at i:7389365 original size:17 final size:17
Alignment explanation
Indices: 7389331--7389368 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7389321 TTTCATTATA
*
7389331 CTAGAGTAGTCACTTGG
1 CTAGAGTAGCCACTTGG
7389348 CTAGAGTAGCCAAC-TGG
1 CTAGAGTAGCC-ACTTGG
7389365 CTAG
1 CTAG
7389369 TGTTGTGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (17 bp):
CTAGAGTAGCCACTTGG
Found at i:7390978 original size:126 final size:126
Alignment explanation
Indices: 7390744--7390993 Score: 428
Period size: 126 Copynumber: 2.0 Consensus size: 126
7390734 CCACATAAAA
*
7390744 GAAATATCTTCCATGTTGTGGCATAAAAAACTTGGCATATCTCTAAAAAAAGGGTAGAAAGGTTA
1 GAAACATCTTCCATGTTGTGGCATAAAAAACTTGGCATATCTCTAAAAAAAGGGTAGAAAGGTTA
* * *
7390809 ATAAAAAATAACATTCTATGTATTTTTTTTTTTGATGATTTGGAGACATATGTTGACTATT
66 ATAAAAAATAACATTCTATGTATTCTTATTTTTGATGACTTGGAGACATATGTTGACTATT
*
7390870 GAAACATCTTCCATGTTGTGGCATAAAAGACTTGGCATATCTCTAAAAAAAGGGTAGAAAGGTTA
1 GAAACATCTTCCATGTTGTGGCATAAAAAACTTGGCATATCTCTAAAAAAAGGGTAGAAAGGTTA
* * *
7390935 ATAAAGAATAACATTTTGTGTATTCTTATTTTTGATGACTTGGAGACATATGTTGACTA
66 ATAAAAAATAACATTCTATGTATTCTTATTTTTGATGACTTGGAGACATATGTTGACTA
7390994 CTGTAGGTGT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 116 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (126 bp):
GAAACATCTTCCATGTTGTGGCATAAAAAACTTGGCATATCTCTAAAAAAAGGGTAGAAAGGTTA
ATAAAAAATAACATTCTATGTATTCTTATTTTTGATGACTTGGAGACATATGTTGACTATT
Found at i:7392262 original size:2 final size:2
Alignment explanation
Indices: 7392255--7392317 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
7392245 ACACATTGCA
7392255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7392297 AT AT AN AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
7392318 ATAGTAATTA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7395327 original size:2 final size:2
Alignment explanation
Indices: 7395309--7395365 Score: 96
Period size: 2 Copynumber: 28.0 Consensus size: 2
7395299 TATGTCTATG
*
7395309 TA TA TG TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7395352 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
7395366 GTGTATTTGA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 50 0.96
3 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7399021 original size:33 final size:33
Alignment explanation
Indices: 7398965--7399049 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
7398955 AAAAAATTAT
* * *
7398965 AATAAAATATATAATATAAAAAATTATATTAAGA
1 AATAAAA-ATAAAATATATAAAATTATAATAAGA
* *
7398999 AATGAAAATAAAATATATAAAATTATAATAATA
1 AATAAAAATAAAATATATAAAATTATAATAAGA
7399032 AATAAAAATAAAATATAT
1 AATAAAAATAAAATATAT
7399050 GACATTACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 39 0.87
34 6 0.13
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (33 bp):
AATAAAAATAAAATATATAAAATTATAATAAGA
Found at i:7399297 original size:15 final size:15
Alignment explanation
Indices: 7399265--7399322 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
7399255 GTTATCTTCC
* **
7399265 TGCAATTACATTGGT
1 TGCAATCACATTACT
* *
7399280 TGCAGTCATATTACT
1 TGCAATCACATTACT
*
7399295 TGCAATCACATTACA
1 TGCAATCACATTACT
*
7399310 TGTAATCACATTA
1 TGCAATCACATTA
7399323 TATTTAAGAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (15 bp):
TGCAATCACATTACT
Found at i:7411934 original size:26 final size:26
Alignment explanation
Indices: 7411905--7411959 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
7411895 ATTTAAAATC
* *
7411905 AATAATTATAAAAACAATTATAACAA
1 AATAATAATAAAAACAAATATAACAA
* * *
7411931 AATAATAATAACATCAAATATAATAA
1 AATAATAATAAAAACAAATATAACAA
7411957 AAT
1 AAT
7411960 TTAACATACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.27
Consensus pattern (26 bp):
AATAATAATAAAAACAAATATAACAA
Found at i:7423703 original size:35 final size:34
Alignment explanation
Indices: 7423662--7423778 Score: 114
Period size: 35 Copynumber: 3.4 Consensus size: 34
7423652 GTTGATCCCG
*
7423662 TGAAAAACCATTATTGTAAGTTGTAGTTGAGCCTT
1 TGAAAAACCATT-TTGTAAGTTGTGGTTGAGCCTT
* * * *
7423697 TAAAAAACCA-CTT-TAGGTTTTGGTTGAG-CTT
1 TGAAAAACCATTTTGTAAGTTGTGGTTGAGCCTT
* *
7423728 GTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
1 -TGAAAAACCATTTTGTAA-GTTGTGGTTGAGCCTT
*
7423764 TGAAAAACCACTTTG
1 TGAAAAACCATTTTG
7423779 GATTTTGGTT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
31 3 0.05
32 21 0.33
33 3 0.05
34 1 0.02
35 33 0.52
36 3 0.05
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (34 bp):
TGAAAAACCATTTTGTAAGTTGTGGTTGAGCCTT
Found at i:7423735 original size:32 final size:32
Alignment explanation
Indices: 7423687--7423790 Score: 115
Period size: 32 Copynumber: 3.2 Consensus size: 32
7423677 GTAAGTTGTA
*
7423687 GTTGAGCCTTTAAAAAACCACTTTAGGTTTTG
1 GTTGAGCCTTTGAAAAACCACTTTAGGTTTTG
*
7423719 GTTGAG-CTTGTGAAAAACCA-TTGTGAAAGGTTGTG
1 GTTGAGCCTT-TGAAAAACCACTT-T---AGGTTTTG
7423754 GTTGAGCCTTTGAAAAACCACTTT-GGATTTTG
1 GTTGAGCCTTTGAAAAACCACTTTAGG-TTTTG
7423786 GTTGA
1 GTTGA
7423791 TCTCGGTAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
31 7 0.11
32 25 0.41
35 24 0.39
36 5 0.08
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (32 bp):
GTTGAGCCTTTGAAAAACCACTTTAGGTTTTG
Found at i:7423758 original size:67 final size:66
Alignment explanation
Indices: 7423645--7423817 Score: 233
Period size: 67 Copynumber: 2.6 Consensus size: 66
7423635 TTAGTTGTTG
* * *
7423645 GGTTTTGGTTGATCCCGTGAAAAACCATTATTGTAA-GTTGTAGTTGAGCCTTTAAAAAACCACT
1 GGTTTTGGTTGATCTCGTGAAAAACCATT-GTGAAAGGTTGTAGTTGAGCCTTTAAAAAACCACT
7423709 TT
65 TT
* * * *
7423711 AGGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 -GGTTTTGGTTGATCTCGTGAAAAACCATTGTGAAAGGTTGTAGTTGAGCCTTTAAAAAACCACT
7423776 TT
65 TT
7423778 GGATTTTGGTTGATCTCG-GTAAAAACCATTGTGAAAGGTT
1 GG-TTTTGGTTGATCTCGTG-AAAAACCATTGTGAAAGGTT
7423818 TTGGCTAAGC
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
66 7 0.07
67 87 0.93
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (66 bp):
GGTTTTGGTTGATCTCGTGAAAAACCATTGTGAAAGGTTGTAGTTGAGCCTTTAAAAAACCACTT
T
Found at i:7423838 original size:23 final size:23
Alignment explanation
Indices: 7423808--7423860 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
7423798 AAAAACCATT
7423808 GTGAAAGGTTTTGGCTAAGCTTG
1 GTGAAAGGTTTTGGCTAAGCTTG
7423831 GTGAAAGGTTTTGGCTAAGCTTG
1 GTGAAAGGTTTTGGCTAAGCTTG
*
7423854 GTAAAAG
1 GTGAAAG
7423861 CCATTGTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.08, G:0.34, T:0.32
Consensus pattern (23 bp):
GTGAAAGGTTTTGGCTAAGCTTG
Found at i:7439547 original size:17 final size:18
Alignment explanation
Indices: 7439515--7439548 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7439505 GATAATTGAA
7439515 TATTTACTGATATTTTGC
1 TATTTACTGATATTTTGC
*
7439533 TATTTA-TGGTATTTTG
1 TATTTACTGATATTTTG
7439549 ACTGCTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.59
Consensus pattern (18 bp):
TATTTACTGATATTTTGC
Found at i:7440361 original size:72 final size:73
Alignment explanation
Indices: 7440238--7440425 Score: 199
Period size: 72 Copynumber: 2.6 Consensus size: 73
7440228 ATTGAGACAT
** * *
7440238 AGAACCAACTTAGTCGACTAAGAGGTAAGGTAGTCGACTAAGAAGCTATTGCCAAAATCT-GGAC
1 AGAACCAACTTAGTCGACTAAGAAATAAGTTAGTCGACTAAGAAGCTATTGCCAAAATCTACGA-
7440302 TT-CAAGAC
65 TTACAAGAC
* * * * *
7440310 AGAACCAACTTAGTTGACTAAGAAATGAGTTAGTCGACTAA-ATA-CTCATTGCTAGAATTTACG
1 AGAACCAACTTAGTCGACTAAGAAATAAGTTAGTCGACTAAGA-AGCT-ATTGCCAAAATCTACG
*
7440373 ATTAGAAGAC
64 ATTACAAGAC
7440383 AGAACCAACTTAGTCGA-TCAAGAAGA-AAGTTAGTCGACTAAGA
1 AGAACCAACTTAGTCGACT-AAGAA-ATAAGTTAGTCGACTAAGA
7440426 GCTCTCTGTC
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
71 3 0.03
72 50 0.52
73 42 0.43
74 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (73 bp):
AGAACCAACTTAGTCGACTAAGAAATAAGTTAGTCGACTAAGAAGCTATTGCCAAAATCTACGAT
TACAAGAC
Found at i:7440934 original size:67 final size:68
Alignment explanation
Indices: 7440856--7441030 Score: 225
Period size: 67 Copynumber: 2.6 Consensus size: 68
7440846 AAGTTAGTTG
* *
7440856 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGTAA-GTTGTAGTTGAGCTTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTAGTTGAGCCTTTGAAAAACC
7440920 ACT
66 ACT
* * * * *
7440923 TTGGGTTTTGGTTGAGCCTGTGAAAAACCATT-ATGAAAGGTTGTGGTTGAGCCTTTGAAAAACT
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTAGTTGAGCCTTTGAAAAACC
7440987 ACT
66 ACT
* *
7440990 TTGGGTTTTGGTTGATCTCGAT-AAAAACTATTG-TG-AAGGTT
1 TTGGGTTTTGGTTGATCCCG-TGAAAAACCATTGTTGAAAGGTT
7441031 TTTGCTAAGC
Statistics
Matches: 94, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
66 10 0.11
67 83 0.88
68 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (68 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTAGTTGAGCCTTTGAAAAACC
ACT
Found at i:7440947 original size:32 final size:32
Alignment explanation
Indices: 7440856--7441004 Score: 129
Period size: 35 Copynumber: 4.5 Consensus size: 32
7440846 AAGTTAGTTG
* * *
7440856 TTGGGTTTTGGTTGATCCCGTGAAAAACCATT
1 TTGGGTTTTGGTTGAGCCTGTGAAAAACCACT
* * * * *
7440888 GTTGTAAGTTGTAGTTGAGCTTTTGAAAAACCACT
1 -TTG--GGTTTTGGTTGAGCCTGTGAAAAACCACT
7440923 TTGGGTTTTGGTTGAGCCTGTGAAAAACCA-T
1 TTGGGTTTTGGTTGAGCCTGTGAAAAACCACT
* * *
7440954 TATGAAAGGTTGTGGTTGAGCCTTTGAAAAACTACT
1 T-TG---GGTTTTGGTTGAGCCTGTGAAAAACCACT
7440990 TTGGGTTTTGGTTGA
1 TTGGGTTTTGGTTGA
7441005 TCTCGATAAA
Statistics
Matches: 92, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
31 2 0.02
32 35 0.38
33 3 0.03
34 3 0.03
35 47 0.51
36 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (32 bp):
TTGGGTTTTGGTTGAGCCTGTGAAAAACCACT
Found at i:7441633 original size:4 final size:4
Alignment explanation
Indices: 7441624--7441662 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
7441614 TCCACAACAT
*
7441624 ATAC ATAC ATAC ATAC ATAC ATAA ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
7441663 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:7441667 original size:2 final size:2
Alignment explanation
Indices: 7441660--7441694 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7441650 ACATACATAC
7441660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7441695 AGTCATTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7444288 original size:27 final size:29
Alignment explanation
Indices: 7444252--7444309 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 29
7444242 TTCATGACAT
*
7444252 AGGGGTAAAATGGTCATTTT-ACCACCCA
1 AGGGGTAAAATGGTAATTTTAACCACCCA
*
7444280 AGGGG-AAAATTGTAATTTTACACCACCCA
1 AGGGGTAAAATGGTAATTTTA-ACCACCCA
7444309 A
1 A
7444310 CACTTGTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 12 0.46
28 5 0.19
29 9 0.35
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (29 bp):
AGGGGTAAAATGGTAATTTTAACCACCCA
Found at i:7455117 original size:19 final size:19
Alignment explanation
Indices: 7455093--7455130 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
7455083 ACTTCTAAAC
7455093 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
7455112 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
7455131 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:7456454 original size:35 final size:35
Alignment explanation
Indices: 7456387--7456455 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 35
7456377 TTAGGTGTTG
*
7456387 GGTTTTAGTTTAGCCCGTGAAAAACTAGTGTAAAA
1 GGTTTTAGTTTAGCCCGTGAAAAACCAGTGTAAAA
* * * * *
7456422 GGTTTTGGTTTAGCCTGTTAAAAGCCATTGTAAA
1 GGTTTTAGTTTAGCCCGTGAAAAACCAGTGTAAA
7456456 GCTTGGTGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (35 bp):
GGTTTTAGTTTAGCCCGTGAAAAACCAGTGTAAAA
Found at i:7461052 original size:15 final size:15
Alignment explanation
Indices: 7461032--7461065 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
7461022 GTATTCCCAC
7461032 CAGCACAGGCATTGG
1 CAGCACAGGCATTGG
7461047 CAGCACAGGCATTGG
1 CAGCACAGGCATTGG
7461062 CAGC
1 CAGC
7461066 TTTCTTTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.32, T:0.12
Consensus pattern (15 bp):
CAGCACAGGCATTGG
Found at i:7466290 original size:28 final size:29
Alignment explanation
Indices: 7466249--7466308 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
7466239 GTCTATGGGC
*
7466249 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
7466277 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
7466307 AA
1 AA
7466309 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:7471182 original size:150 final size:149
Alignment explanation
Indices: 7470911--7471209 Score: 589
Period size: 150 Copynumber: 2.0 Consensus size: 149
7470901 AATTTCTAGT
7470911 TGAAAAGGTTATGATAGAGGTAGCATTGACACCATATTGTTCATAAAGAGATACTTAAATGATTT
1 TGAAAAGGTTATGATAGAGGTAGCATTGACACCATATTGTTCATAAAGAGATACTTAAATGATTT
7470976 AATTATTGTACAAATATGTGGATGACATTGTATTTGGTGGAACTAATGAAGCTTTATGCAAGAAT
66 AATTATTGTACAAATATGTGGATGACATTGTATTTGGTGGAACTAATGAAGCTTTATGCAAGAAT
7471041 TTTGCTAAAGAAATGCAAG
131 TTTGCTAAAGAAATGCAAG
7471060 NTGAAAAGGTTATGATAGAGGTAGCATTGACACCATATTGTTCATAAAGAGATACTTAAATGATT
1 -TGAAAAGGTTATGATAGAGGTAGCATTGACACCATATTGTTCATAAAGAGATACTTAAATGATT
7471125 TAATTATTGTACAAATATGTGGATGACATTGTATTTGGTGGAACTAATGAAGCTTTATGCAAGAA
65 TAATTATTGTACAAATATGTGGATGACATTGTATTTGGTGGAACTAATGAAGCTTTATGCAAGAA
7471190 TTTTGCTAAAGAAATGCAAG
130 TTTTGCTAAAGAAATGCAAG
7471210 GGGAATTTGA
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (149 bp):
TGAAAAGGTTATGATAGAGGTAGCATTGACACCATATTGTTCATAAAGAGATACTTAAATGATTT
AATTATTGTACAAATATGTGGATGACATTGTATTTGGTGGAACTAATGAAGCTTTATGCAAGAAT
TTTGCTAAAGAAATGCAAG
Found at i:7480531 original size:38 final size:40
Alignment explanation
Indices: 7480489--7480672 Score: 118
Period size: 48 Copynumber: 4.0 Consensus size: 40
7480479 CAAATAAGTT
7480489 AAATAAT-TACATCATGCATTTTATAAATTTTACCTAACAAA
1 AAATAATATACATCATGCATTTTATAAATTTTACCTAAC--A
7480530 TAAATAAAATAAGTACATCATGCATTTTATAAATTTTACCTAACAAATA
1 -AAAT--AAT-A-TACATCATGCATTTTATAAATTTTACCTAAC----A
* * *
7480579 AGAAAAATAATTATATCATGTATTTTTATAAATTTTACCTAACAA
1 A-AATAAT-A-TACATCATGCA-TTTTATAAATTTTACCTAAC-A
*
7480624 ATAAGTAAAATAATTACATCATGCATTGTTATAAATTTTACCAAACA
1 A-AA-T--AAT-A-TACATCATGCATT-TTATAAATTTTACCTAACA
7480671 AA
1 AA
7480673 TAAGAAAAAT
Statistics
Matches: 118, Mismatches: 11, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.03
44 3 0.03
45 4 0.03
46 1 0.01
47 49 0.42
48 53 0.45
49 4 0.03
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.36
Consensus pattern (40 bp):
AAATAATATACATCATGCATTTTATAAATTTTACCTAACA
Found at i:7480532 original size:47 final size:47
Alignment explanation
Indices: 7480467--7480687 Score: 343
Period size: 47 Copynumber: 4.7 Consensus size: 47
7480457 GTTTGGATAT
* *
7480467 AATTTTACTTAACAAATAAGTTAAATAATTACATCATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATA
* *
7480514 AATTTTACCTAACAAATAAATAAAATAAGTACATCATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATA
* * *
7480561 AATTTTACCTAACAAATAAGAAAAATAATTATATCATGTATTTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATCATGCA-TTTTATA
7480609 AATTTTACCTAACAAATAAGTAAAATAATTACATCATGCATTGTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATCATGCATT-TTATA
* *
7480657 AATTTTACCAAACAAATAAGAAAAATAATTA
1 AATTTTACCTAACAAATAAGTAAAATAATTA
7480688 TAAAATATAC
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
47 80 0.51
48 78 0.49
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.36
Consensus pattern (47 bp):
AATTTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATA
Found at i:7480642 original size:95 final size:95
Alignment explanation
Indices: 7480467--7480689 Score: 358
Period size: 95 Copynumber: 2.3 Consensus size: 95
7480457 GTTTGGATAT
* ** *
7480467 AATTTTACTTAACAAATAAGTTAAATAATTACATCATGCATTTTATAAATTTTACCTAACAAATA
1 AATTTTACCTAACAAATAAGAAAAATAATTATATCATGCATTTTATAAATTTTACCTAACAAATA
7480532 AATAAAATAAGTACATCATGCATT-TTATA
66 AATAAAATAAGTACATCATGCATTGTTATA
*
7480561 AATTTTACCTAACAAATAAGAAAAATAATTATATCATGTATTTTTATAAATTTTACCTAACAAAT
1 AATTTTACCTAACAAATAAGAAAAATAATTATATCATGCA-TTTTATAAATTTTACCTAACAAAT
* *
7480626 AAGTAAAATAATTACATCATGCATTGTTATA
65 AAATAAAATAAGTACATCATGCATTGTTATA
*
7480657 AATTTTACCAAACAAATAAGAAAAATAATTATA
1 AATTTTACCTAACAAATAAGAAAAATAATTATA
7480690 AAATATACTT
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 35 0.29
95 47 0.39
96 37 0.31
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (95 bp):
AATTTTACCTAACAAATAAGAAAAATAATTATATCATGCATTTTATAAATTTTACCTAACAAATA
AATAAAATAAGTACATCATGCATTGTTATA
Found at i:7481764 original size:21 final size:21
Alignment explanation
Indices: 7481735--7481856 Score: 120
Period size: 21 Copynumber: 5.8 Consensus size: 21
7481725 TATATAGGAT
* *
7481735 ATTATATTTAAGTTTAAATAA
1 ATTAAATTTAAATTTAAATAA
* *
7481756 ATTAAATTTAAATATAATTAA
1 ATTAAATTTAAATTTAAATAA
* **
7481777 TTTTTATTTAAATTTAAATAA
1 ATTAAATTTAAATTTAAATAA
* *
7481798 ATTAAATTTAAATAT-AATGA
1 ATTAAATTTAAATTTAAATAA
* *
7481818 ATAGATAATTTAAATTTAAACAA
1 AT-TA-AATTTAAATTTAAATAA
7481841 ATTAAATTTAAATTTA
1 ATTAAATTTAAATTTA
7481857 TATCCTGTCT
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
20 6 0.08
21 57 0.72
22 11 0.14
23 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATTTAAATTTAAATAA
Found at i:7481765 original size:15 final size:15
Alignment explanation
Indices: 7481742--7481853 Score: 94
Period size: 15 Copynumber: 7.8 Consensus size: 15
7481732 GATATTATAT
*
7481742 TTAAGTTTAAATAAA
1 TTAAATTTAAATAAA
7481757 TTAAATTTAAATATAA
1 TTAAATTTAAATA-AA
* *
7481773 TT-AATTT---TTAT
1 TTAAATTTAAATAAA
7481784 TTAAATTTAAATAAA
1 TTAAATTTAAATAAA
7481799 TTAAATTTAAATATAA
1 TTAAATTTAAATA-AA
* * *
7481815 -TGAA--TAGATAAT
1 TTAAATTTAAATAAA
*
7481827 TTAAATTTAAACAAA
1 TTAAATTTAAATAAA
7481842 TTAAATTTAAAT
1 TTAAATTTAAAT
7481854 TTATATCCTG
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
11 3 0.04
12 7 0.09
13 8 0.11
15 51 0.68
16 6 0.08
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (15 bp):
TTAAATTTAAATAAA
Found at i:7481785 original size:42 final size:43
Alignment explanation
Indices: 7481739--7481853 Score: 169
Period size: 42 Copynumber: 2.7 Consensus size: 43
7481729 TAGGATATTA
* * **
7481739 TATTTAAGTTTAAATAAATTAAATTTAAATATAATTAAT-TTT
1 TATTTAAATTTAAATAAATTAAATTTAAATATAATGAATAGAT
7481781 TATTTAAATTTAAATAAATTAAATTTAAATATAATGAATAGAT
1 TATTTAAATTTAAATAAATTAAATTTAAATATAATGAATAGAT
* *
7481824 AATTTAAATTTAAACAAATTAAATTTAAAT
1 TATTTAAATTTAAATAAATTAAATTTAAAT
7481854 TTATATCCTG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 37 0.56
43 29 0.44
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (43 bp):
TATTTAAATTTAAATAAATTAAATTTAAATATAATGAATAGAT
Found at i:7481992 original size:117 final size:117
Alignment explanation
Indices: 7481852--7482092 Score: 466
Period size: 118 Copynumber: 2.1 Consensus size: 117
7481842 TTAAATTTAA
7481852 ATTTATATCCTGTCTCAAA-TTTTTTTTAATTATTGAATTAAAAAATATCATAATAATATCTAAT
1 ATTTATATCCTGTCTCAAATTTTTTTTTAATTATTGAATTAAAAAATATCATAATAATATCTAAT
7481916 ATTAATTAATTGAATATCAGTTTGTGTGTTGAAACTAATACATCTGTTTACT
66 ATTAATTAATTGAATATCAGTTTGTGTGTTGAAACTAATACATCTGTTTACT
7481968 ATTTNATATCCTGTCTCAAATTTTTTTTTAATTATTGAATTAAAAAATATCATAATAATATCTAA
1 ATTT-ATATCCTGTCTCAAATTTTTTTTTAATTATTGAATTAAAAAATATCATAATAATATCTAA
7482033 TATTAATTAATTGAATATCAGTTTGTGTGTTGAAACTAATACATCTGTTTACT
65 TATTAATTAATTGAATATCAGTTTGTGTGTTGAAACTAATACATCTGTTTACT
7482086 ATTTATA
1 ATTTATA
7482093 GACGTATTAT
Statistics
Matches: 123, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
116 4 0.03
117 18 0.15
118 101 0.82
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (117 bp):
ATTTATATCCTGTCTCAAATTTTTTTTTAATTATTGAATTAAAAAATATCATAATAATATCTAAT
ATTAATTAATTGAATATCAGTTTGTGTGTTGAAACTAATACATCTGTTTACT
Found at i:7482239 original size:15 final size:15
Alignment explanation
Indices: 7482215--7482244 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7482205 AATAATATCT
*
7482215 AATATTAATTAATTA
1 AATATCAATTAATTA
7482230 AATATCAATTAATTA
1 AATATCAATTAATTA
7482245 TCTACAGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATCAATTAATTA
Found at i:7484704 original size:61 final size:61
Alignment explanation
Indices: 7484609--7484730 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
7484599 TCTGCTTGTA
*
7484609 AACCTGCTAACAAATGACTCCTTGCTGAAAATGGCGATATCAACAATAAGTTGGAAAAGGT
1 AACCTGCTAACAAACGACTCCTTGCTGAAAATGGCGATATCAACAATAAGTTGGAAAAGGT
*
7484670 AACCTGCTAACAAACGACTCCTTGCTGAAAATGGCGATGTCAACAATAAGTTGGAAAAGGT
1 AACCTGCTAACAAACGACTCCTTGCTGAAAATGGCGATATCAACAATAAGTTGGAAAAGGT
7484731 TACAAATTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (61 bp):
AACCTGCTAACAAACGACTCCTTGCTGAAAATGGCGATATCAACAATAAGTTGGAAAAGGT
Found at i:7489891 original size:3 final size:3
Alignment explanation
Indices: 7489864--7489917 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
7489854 AAACACTTTA
* *
7489864 TTC TTT TTC TTC GT- TTC TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7489910 TT- TTC TTC
1 TTC TTC TTC
7489918 ATCACAATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 5 0.11
3 39 0.89
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:7503144 original size:57 final size:56
Alignment explanation
Indices: 7503052--7503163 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 56
7503042 GCTAGCAAAT
* *
7503052 AGGACAACAATTATCCTTTTCTTCCTTTTCACAATCTTAGCTGAATCTTTCTCGANG
1 AGGACAACAATTATCCTTTTCTTCCTTTTCACAATCTTAGCTAAACCTTTCTCGA-G
* * *
7503109 AGGACAACAATTGTCCTTTTCTTCTTTTTCCCAATCTTAGCTAAACCTTTCTCGA
1 AGGACAACAATTATCCTTTTCTTCCTTTTCACAATCTTAGCTAAACCTTTCTCGA
7503164 AAATTACTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.39
Consensus pattern (56 bp):
AGGACAACAATTATCCTTTTCTTCCTTTTCACAATCTTAGCTAAACCTTTCTCGAG
Found at i:7508892 original size:20 final size:19
Alignment explanation
Indices: 7508867--7508905 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7508857 TTATTCACAC
7508867 CTCTTTCTCCCTCTCTTTTT
1 CTCTTTCT-CCTCTCTTTTT
*
7508887 CTCTTTCTCGTCTCTTTTT
1 CTCTTTCTCCTCTCTTTTT
7508906 GGTTTTTTAT
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:0.00, C:0.36, G:0.03, T:0.62
Consensus pattern (19 bp):
CTCTTTCTCCTCTCTTTTT
Found at i:7510663 original size:20 final size:20
Alignment explanation
Indices: 7510638--7510678 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7510628 AAGACACAAA
*
7510638 TGGGTCGAATTTGACCCAAT
1 TGGGTCAAATTTGACCCAAT
*
7510658 TGGGTCAAATTTGATCCAAT
1 TGGGTCAAATTTGACCCAAT
7510678 T
1 T
7510679 AAAAGTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (20 bp):
TGGGTCAAATTTGACCCAAT
Found at i:7511136 original size:2 final size:2
Alignment explanation
Indices: 7511129--7511179 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7511119 CATCAACCAT
7511129 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7511171 TA TA TA TA T
1 TA TA TA TA T
7511180 TAACAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7511939 original size:38 final size:38
Alignment explanation
Indices: 7511897--7512029 Score: 128
Period size: 38 Copynumber: 3.4 Consensus size: 38
7511887 ATTGTGTGCA
7511897 CCCCCACATCGCGCACAACTAATGCCATCATGTGCTTC
1 CCCCCACATCGCGCACAACTAATGCCATCATGTGCTTC
* *
7511935 CCCCCACATCGCGCACATGGCATATAT-CATCATCATCGTG-TGC
1 CCCCCACATCGCGCACA--AC-TA-ATGC--CATCAT-GTGCTTC
* *
7511978 ACCCCTACATCACGCACAACTAATGCCATCATGTGC-TC
1 -CCCCCACATCGCGCACAACTAATGCCATCATGTGCTTC
*
7512016 CCCCCACATTGCGC
1 CCCCCACATCGCGC
7512030 GCATGGTATA
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
37 11 0.14
38 21 0.28
39 6 0.08
40 3 0.04
41 6 0.08
42 3 0.04
43 8 0.11
44 18 0.24
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.21
Consensus pattern (38 bp):
CCCCCACATCGCGCACAACTAATGCCATCATGTGCTTC
Found at i:7511994 original size:44 final size:44
Alignment explanation
Indices: 7511935--7512112 Score: 185
Period size: 44 Copynumber: 4.2 Consensus size: 44
7511925 CATGTGCTTC
*
7511935 CCCCCACATCGCGCACATGGCATATATCATCATCATCGTGTGCA
1 CCCCCACATCGCGCACATGGCATATATCATCATCATCGTATGCA
* * * *
7511979 CCCCTACATCACGCACA--AC-TA-ATGC--CATCAT-G--TGCTC
1 CCCCCACATCGCGCACATGGCATATAT-CATCATCATCGTATGC-A
* * *
7512016 CCCCCACATTGCGCGCATGGTATATATCATCATCATCGTATGCA
1 CCCCCACATCGCGCACATGGCATATATCATCATCATCGTATGCA
* *
7512060 CCCCCACATTGCGCACATGGCATATATCATCATCATCGTATGTA
1 CCCCCACATCGCGCACATGGCATATATCATCATCATCGTATGCA
7512104 CCCCCACAT
1 CCCCCACAT
7512113 TGCACACAAC
Statistics
Matches: 109, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
36 3 0.03
37 13 0.12
38 1 0.01
39 6 0.06
40 5 0.05
41 5 0.05
42 7 0.06
43 1 0.01
44 65 0.60
45 3 0.03
ACGTcount: A:0.26, C:0.37, G:0.13, T:0.24
Consensus pattern (44 bp):
CCCCCACATCGCGCACATGGCATATATCATCATCATCGTATGCA
Found at i:7512075 original size:81 final size:82
Alignment explanation
Indices: 7511893--7512076 Score: 298
Period size: 81 Copynumber: 2.3 Consensus size: 82
7511883 AGTCATTGTG
7511893 TGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTTCCCCCCACATCGCGCACATGGCAT
1 TGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTTCCCCCCACATCGCGCACATGGCAT
*
7511958 ATATCATCATCATCGTG
66 ATATCATCATCATCGTA
* * * * *
7511975 TGCACCCCTACATCACGCACAACTAATGCCATCATGTGC-TCCCCCCACATTGCGCGCATGGTAT
1 TGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTTCCCCCCACATCGCGCACATGGCAT
7512039 ATATCATCATCATCGTA
66 ATATCATCATCATCGTA
*
7512056 TGCACCCCCACATTGCGCACA
1 TGCACCCCCACATCGCGCACA
7512077 TGGCATATAT
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
81 56 0.60
82 37 0.40
ACGTcount: A:0.25, C:0.39, G:0.14, T:0.22
Consensus pattern (82 bp):
TGCACCCCCACATCGCGCACAACTAATGCCATCATGTGCTTCCCCCCACATCGCGCACATGGCAT
ATATCATCATCATCGTA
Found at i:7512075 original size:125 final size:125
Alignment explanation
Indices: 7511935--7512173 Score: 363
Period size: 125 Copynumber: 1.9 Consensus size: 125
7511925 CATGTGCTTC
* * *
7511935 CCCCCACATCGCGCACATGGCATATATCATCATCATCGTGTGCACCCCTACATCACGCACAACTA
1 CCCCCACATCGCGCACATGGCATATATCATCATCATCGTATGCACCCCCACATCACACACAACTA
* *
7512000 ATGCCATCATGTGCTCCCCCCACATTGCGCGCAT-GGTATATATCATCATCATCGTATGCA
66 ATGCCATCATGTGCTCCCCCCACATCGCGCACATGGGTA-ATATCATCATCATCGTATGCA
* * **
7512060 CCCCCACATTGCGCACATGGCATATATCATCATCATCGTATGTACCCCCACATTGCACACAACTA
1 CCCCCACATCGCGCACATGGCATATATCATCATCATCGTATGCACCCCCACATCACACACAACTA
* *
7512125 ATGCCATCATGTGCTCCCCTCACATCGCGCACATGGGTAATCTCATCAT
66 ATGCCATCATGTGCTCCCCCCACATCGCGCACATGGGTAATATCATCAT
7512174 TCACATTTTC
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 98 0.96
126 4 0.04
ACGTcount: A:0.26, C:0.36, G:0.14, T:0.24
Consensus pattern (125 bp):
CCCCCACATCGCGCACATGGCATATATCATCATCATCGTATGCACCCCCACATCACACACAACTA
ATGCCATCATGTGCTCCCCCCACATCGCGCACATGGGTAATATCATCATCATCGTATGCA
Found at i:7524805 original size:22 final size:23
Alignment explanation
Indices: 7524780--7524825 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
7524770 ACAATATGTT
*
7524780 TATATTATTATATA-TTTTATAA
1 TATAATATTATATATTTTTATAA
*
7524802 TATAATATTTTATATTTTTATAA
1 TATAATATTATATATTTTTATAA
7524825 T
1 T
7524826 GTTATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TATAATATTATATATTTTTATAA
Found at i:7524811 original size:15 final size:16
Alignment explanation
Indices: 7524772--7524815 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
7524762 AACAAATTAC
*
7524772 AATATGTTTATATTATT
1 AATAT-TTTATAATATT
7524789 ATATATTTTATAATA-T
1 A-ATATTTTATAATATT
7524805 AATATTTTATA
1 AATATTTTATA
7524816 TTTTTATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 10 0.40
16 2 0.08
17 9 0.36
18 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
AATATTTTATAATATT
Found at i:7524838 original size:23 final size:22
Alignment explanation
Indices: 7524788--7524838 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
7524778 TTTATATTAT
*
7524788 TATATATTTTATAATATAATAT
1 TATATATTTTATAATATAATAA
* * *
7524810 TTTATATTTTTATAATGTTATAA
1 TATATA-TTTTATAATATAATAA
7524833 TATATA
1 TATATA
7524839 AATTGCTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATATTTTATAATATAATAA
Found at i:7527432 original size:19 final size:21
Alignment explanation
Indices: 7527388--7527434 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
7527378 AGTAAAATGC
7527388 TAAACATTGGCAACATCACTA
1 TAAACATTGGCAACATCACTA
7527409 TAAACA-TGTGCAACATC-C-A
1 TAAACATTG-GCAACATCACTA
7527428 TAAACAT
1 TAAACAT
7527435 AAAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.29
20 3 0.12
21 14 0.58
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (21 bp):
TAAACATTGGCAACATCACTA
Found at i:7531261 original size:7 final size:7
Alignment explanation
Indices: 7531249--7531282 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
7531239 TTTTTAATTG
7531249 ATTTTTT
1 ATTTTTT
7531256 ATTTTTT
1 ATTTTTT
7531263 ATTTTTT
1 ATTTTTT
*
7531270 TTTTTTT
1 ATTTTTT
7531277 AATTTT
1 -ATTTT
7531283 GGTTTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:7531270 original size:15 final size:15
Alignment explanation
Indices: 7531239--7531282 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
7531229 CCTATTTCCC
7531239 TTTTTAATTGATTTTTT
1 TTTTTAATT--TTTTTT
*
7531256 ATTTTTTATTTTTTTT
1 -TTTTTAATTTTTTTT
7531272 TTTTTAATTTT
1 TTTTTAATTTT
7531283 GGTTTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 10 0.42
16 6 0.25
18 8 0.33
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTAATTTTTTTT
Found at i:7531948 original size:43 final size:43
Alignment explanation
Indices: 7531886--7531983 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
7531876 CAAAAATGTT
* * *
7531886 AAAAGAAAT-AAAAACCTCCTCCACCA-AGGCTTCACAATTTTA
1 AAAAAAAATAAAAAAACTCCTCCA-CAGAGGCTTCACAACTTTA
* *
7531928 AAAAAAAATAAAAAAACTCCTCGACAGAGGTTTCACAACTTTA
1 AAAAAAAATAAAAAAACTCCTCCACAGAGGCTTCACAACTTTA
7531971 AAAATAATAATAA
1 AAAA-AA-AATAA
7531984 TAATAATAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 10 0.21
43 30 0.64
44 2 0.04
45 5 0.11
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.21
Consensus pattern (43 bp):
AAAAAAAATAAAAAAACTCCTCCACAGAGGCTTCACAACTTTA
Found at i:7536844 original size:18 final size:19
Alignment explanation
Indices: 7536803--7536859 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 19
7536793 AAATAGATAA
7536803 TTTTAT-TAATTATTAATTAT
1 TTTTATATAATT-TTAA-TAT
7536823 TTTTATATAATTTTAA-AT
1 TTTTATATAATTTTAATAT
*
7536841 TTTTATATATTTTTAATAT
1 TTTTATATAATTTTAATAT
7536860 AATTAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 17 0.50
19 2 0.06
20 10 0.29
21 5 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATATAATTTTAATAT
Found at i:7537986 original size:26 final size:26
Alignment explanation
Indices: 7537935--7538004 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
7537925 ACTAACTTTG
*
7537935 AGCATTACGTGACT-GATTTTTAATAA
1 AGCATTACGTGACTAG-TTTCTAATAA
*
7537961 AGCATTACGTGACTAGTTTCTGATAA
1 AGCATTACGTGACTAGTTTCTAATAA
* * * *
7537987 GGTATTGCATGACTAGTT
1 AGCATTACGTGACTAGTT
7538005 AATAGGCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 36 0.97
27 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (26 bp):
AGCATTACGTGACTAGTTTCTAATAA
Found at i:7538036 original size:21 final size:21
Alignment explanation
Indices: 7538012--7538065 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
7538002 GTTAATAGGC
*
7538012 ATTGAGTGATTAACTTTGGGT
1 ATTGAGTGACTAACTTTGGGT
*
7538033 ATTGCGTGACTAACTTTGGGT
1 ATTGAGTGACTAACTTTGGGT
7538054 ATT-ACGTGACTA
1 ATTGA-GTGACTA
7538066 GTTTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (21 bp):
ATTGAGTGACTAACTTTGGGT
Found at i:7538087 original size:26 final size:26
Alignment explanation
Indices: 7538051--7538193 Score: 107
Period size: 26 Copynumber: 5.7 Consensus size: 26
7538041 ACTAACTTTG
* *
7538051 GGTATTACGTGACTAGTTTTTTATAA
1 GGTATTGCGTGACTAGTTTTTAATAA
*
7538077 GGTATTGCGTGACTAGTTTCTAATAA
1 GGTATTGCGTGACTAGTTTTTAATAA
* ** *
7538103 AGTATTGCGTGACTA--ACTT--TGA
1 GGTATTGCGTGACTAGTTTTTAATAA
* * *
7538125 -GTATTGCGTAACTAATTTTTGATAA
1 GGTATTGCGTGACTAGTTTTTAATAA
* * *
7538150 GGCATTGTGTGACTAGTTTTTAACAA
1 GGTATTGCGTGACTAGTTTTTAATAA
** *
7538176 GACATTGCATGACTAGTT
1 GGTATTGCGTGACTAGTT
7538194 GATAAGCATT
Statistics
Matches: 91, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
21 13 0.14
22 2 0.02
23 2 0.02
24 1 0.01
25 2 0.02
26 71 0.78
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (26 bp):
GGTATTGCGTGACTAGTTTTTAATAA
Found at i:7538090 original size:90 final size:93
Alignment explanation
Indices: 7537964--7538139 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 93
7537954 TTAATAAAGC
* *
7537964 ATTACGTGACTAGTTTCTGATAAGGTATTGCATGACTAG-T-TAAT-AGGCATTGAGTGATTAAC
1 ATTACGTGACTAGTTTCTGATAAGGTATTGCATGACTAGTTCTAATAAAGCATTGAGTGACTAAC
* *
7538026 TTTGGGTATTGCGTGACTAACTTTGGGT
66 TTTGAGTATTGCGTAACTAACTTTGGGT
* * * * *
7538054 ATTACGTGACTAGTTTTTTATAAGGTATTGCGTGACTAGTTTCTAATAAAGTATTGCGTGACTAA
1 ATTACGTGACTAGTTTCTGATAAGGTATTGCATGACTAG-TTCTAATAAAGCATTGAGTGACTAA
7538119 CTTTGAGTATTGCGTAACTAA
65 CTTTGAGTATTGCGTAACTAA
7538140 TTTTTGATAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 36 0.49
92 1 0.01
93 4 0.05
94 32 0.44
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (93 bp):
ATTACGTGACTAGTTTCTGATAAGGTATTGCATGACTAGTTCTAATAAAGCATTGAGTGACTAAC
TTTGAGTATTGCGTAACTAACTTTGGGT
Done.