Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 7 of 356
Found at i:2413581 original size:44 final size:45
Alignment explanation
Indices: 2413528--2413631 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
2413518 TGTCTTTGAC
* * *
2413528 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
2413572 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
2413618 ATGGACTTACATGA
1 ATGGACTTACATGA
2413632 CTCATTTCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:2421008 original size:46 final size:44
Alignment explanation
Indices: 2420904--2421011 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
2420894 TGTCTTTGAC
** * * *
2420904 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
2420948 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
2420994 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
2421012 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:2423824 original size:26 final size:26
Alignment explanation
Indices: 2423787--2423837 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2423777 TATTATATAC
* *
2423787 ATTTTAAGCTATTATATGTATTATTT
1 ATTTTAAGCTATCATACGTATTATTT
2423813 ATTTT-AGTCTATCATACGTATTATT
1 ATTTTAAG-CTATCATACGTATTATT
2423838 ACGAAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (26 bp):
ATTTTAAGCTATCATACGTATTATTT
Found at i:2424262 original size:15 final size:15
Alignment explanation
Indices: 2424245--2424274 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
2424235 ATTTTAAATA
2424245 TTTACATATTATATAT
1 TTTACAT-TTATATAT
2424261 TTTACATTTATATA
1 TTTACATTTATATA
2424275 CATTATGTAG
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:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTACATTTATATAT
Found at i:2426561 original size:14 final size:14
Alignment explanation
Indices: 2426542--2426568 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2426532 TTGTTTAAAT
2426542 AAATCATTATTTTG
1 AAATCATTATTTTG
2426556 AAATCATTATTTT
1 AAATCATTATTTT
2426569 ATTTTACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AAATCATTATTTTG
Found at i:2428353 original size:131 final size:131
Alignment explanation
Indices: 2427997--2428356 Score: 352
Period size: 131 Copynumber: 2.7 Consensus size: 131
2427987 CGAAGATAAG
* * * * * *
2427997 ATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGA-TTGTT
1 ATTCGATGTTTGGCAATTCG-AGAATCGAGCCCTATCGTGCTGGGTTGCGATTTCTC-ATTTGCT
* * * ** * * *
2428061 TAAAATAATCAAATATCCCTTCAAAATTTCACTAATGTCTTCTAAAAATATTTTATAACAAAGGT
64 CAAAACAATCGAATATCCCTTCGGAATTTCACTCATGTCTTCTAAAAATATTTTAAAACAAAGGC
2428126 GAT
129 GAT
* * ** * * *
2428129 ACTCGGTGTTTGATAATTCGAGAATC-ATGCCCTATCGTGCTGGGTTGTGATTCCTCGTTTGCTC
1 ATTCGATGTTTGGCAATTCGAGAATCGA-GCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTC
* * * * *
2428193 AAAACAATCGAATATTCCTTTAGG-TTTTCACTCATGT-TTATTAAAAA-ATTTTCAAAACGAAG
65 AAAACAATCGAATA-TCCCTTCGGAATTTCACTCATGTCTT-CTAAAAATATTTT-AAAACAAAG
2428255 GCGAT
127 GCGAT
* * * *
2428260 GTTCGATGTTTGGCAATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCTTTTTCATTTGCTCA
1 ATTCGATGTTTGGCAATTCGAGAATCGAGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCA
*
2428325 AAACAATCGAAGATCCCTTCGGAATTTCACTC
66 AAACAATCGAATATCCCTTCGGAATTTCACTC
2428357 GTATTTTCTA
Statistics
Matches: 180, Mismatches: 41, Indels: 15
0.76 0.17 0.06
Matches are distributed among these distances:
130 14 0.08
131 145 0.81
132 21 0.12
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
ATTCGATGTTTGGCAATTCGAGAATCGAGCCCTATCGTGCTGGGTTGCGATTTCTCATTTGCTCA
AAACAATCGAATATCCCTTCGGAATTTCACTCATGTCTTCTAAAAATATTTTAAAACAAAGGCGA
T
Found at i:2435873 original size:5 final size:5
Alignment explanation
Indices: 2435847--2435904 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
2435837 ATGTGTTAAA
* *
2435847 ATATAT ATATT AAATT ATTATT ATATT ATATT ATAGT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
2435896 ATATT ATAT
1 ATATT ATAT
2435905 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 32 0.71
6 9 0.20
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:2444651 original size:13 final size:11
Alignment explanation
Indices: 2444623--2444665 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
2444613 AGTTAAAAAT
2444623 TATTTTATTAA
1 TATTTTATTAA
2444634 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
2444647 TA-TTTATTAT
1 TATTTTATTAA
2444657 TATTTTATT
1 TATTTTATT
2444666 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:2444652 original size:23 final size:23
Alignment explanation
Indices: 2444626--2444669 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2444616 TAAAAATTAT
2444626 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
2444649 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
2444670 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:2475272 original size:20 final size:20
Alignment explanation
Indices: 2475233--2475283 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2475223 CGTGTTTGCT
* *
2475233 TTCCGTTTAGCTCTTATGAGC
1 TTCCG-TTAACTCATATGAGC
*
2475254 TTCCGTTAACTCATATGAGT
1 TTCCGTTAACTCATATGAGC
*
2475274 TTCGGTTAAC
1 TTCCGTTAAC
2475284 CCTTTTGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (20 bp):
TTCCGTTAACTCATATGAGC
Found at i:2475362 original size:39 final size:39
Alignment explanation
Indices: 2475303--2475413 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
2475293 GTTTCAGTTC
2475303 AGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTT
1 AGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTT
* * *
2475342 AGCACTTATGTGCTTTAGTTAGCCTCCGGGCTTCTGTTT
1 AGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTT
* *
2475381 AGCACTTATGTGCTTCAGCTAGACTTCGGGCTT
1 AGCACTTATGTGCTTCAGTTAGCCTTCGGGCTT
2475414 TAGATCATGA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.38
Consensus pattern (39 bp):
AGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTT
Found at i:2476925 original size:22 final size:22
Alignment explanation
Indices: 2476900--2476942 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2476890 TATCCAGACA
*
2476900 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAATAGCAAT
* *
2476922 ATAATAACGAAATAATAGCAA
1 ATAACAACAAAATAATAGCAA
2476943 AACAATAAAA
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:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAATAGCAAT
Found at i:2476949 original size:22 final size:22
Alignment explanation
Indices: 2476909--2476950 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2476899 AATAACAACA
* * *
2476909 AAATAGTAGCAATATAATAACG
1 AAATAATAGCAAAACAATAACG
2476931 AAATAATAGCAAAACAATAA
1 AAATAATAGCAAAACAATAA
2476951 AAAAACACTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (22 bp):
AAATAATAGCAAAACAATAACG
Found at i:2490736 original size:46 final size:46
Alignment explanation
Indices: 2490689--2490957 Score: 351
Period size: 46 Copynumber: 5.8 Consensus size: 46
2490679 GCCCTCTGAT
** * * *
2490689 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** * *
2490735 ATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
2490781 ATGAAACGAATAAGACCATAGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
**
2490827 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
2490873 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * * *
2490919 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
2490958 TCATGTCAAA
Statistics
Matches: 200, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 199 1.00
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:2491863 original size:10 final size:10
Alignment explanation
Indices: 2491848--2491879 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
2491838 TTATATATAA
2491848 TAAAATAATT
1 TAAAATAATT
2491858 TAAAATAA-T
1 TAAAATAATT
2491867 TAAAATAATT
1 TAAAATAATT
2491877 TAA
1 TAA
2491880 TAAGATCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATAATT
Found at i:2491870 original size:19 final size:18
Alignment explanation
Indices: 2491844--2491879 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
2491834 TTTGTTATAT
2491844 ATAATAAAATAATTTAAA
1 ATAATAAAATAATTTAAA
2491862 ATAATTAAAATAATTTAA
1 ATAA-TAAAATAATTTAA
2491880 TAAGATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAAAATAATTTAAA
Found at i:2491871 original size:9 final size:9
Alignment explanation
Indices: 2491844--2491876 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2491834 TTTGTTATAT
2491844 ATAA-TAAA
1 ATAATTAAA
2491852 ATAATTTAAA
1 ATAA-TTAAA
2491862 ATAATTAAA
1 ATAATTAAA
2491871 ATAATT
1 ATAATT
2491877 TAATAAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.17
9 11 0.48
10 8 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
ATAATTAAA
Found at i:2499037 original size:32 final size:30
Alignment explanation
Indices: 2498979--2499058 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
2498969 TTAATATAAC
2498979 ATTTGGTACTTAAACCTTACATTTTTTTCCTA
1 ATTTGGTACTTAAA-CTTACA-TTTTTTCCTA
* *
2499011 ATTTAGTACTTAAACTTGACCA-TTTTTCTTA
1 ATTTGGTACTTAAACTT-A-CATTTTTTCCTA
*
2499042 AGTTGGTACTTAAACTT
1 ATTTGGTACTTAAACTT
2499059 TTTGAGGGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 26 0.62
32 14 0.33
33 2 0.05
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (30 bp):
ATTTGGTACTTAAACTTACATTTTTTCCTA
Found at i:2500287 original size:13 final size:13
Alignment explanation
Indices: 2500269--2500295 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2500259 TCTCAATGCA
2500269 TGTTGAACTCGCC
1 TGTTGAACTCGCC
2500282 TGTTGAACTCGCC
1 TGTTGAACTCGCC
2500295 T
1 T
2500296 TCATGTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (13 bp):
TGTTGAACTCGCC
Found at i:2502406 original size:27 final size:27
Alignment explanation
Indices: 2502368--2502420 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
2502358 CTGTTGTTGA
2502368 TTGATTATTTGCTGCTCAACAAAACCC
1 TTGATTATTTGCTGCTCAACAAAACCC
2502395 TTGATTATTTGCTGCTCAACAAAACC
1 TTGATTATTTGCTGCTCAACAAAACC
2502421 TTATAGGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (27 bp):
TTGATTATTTGCTGCTCAACAAAACCC
Found at i:2507701 original size:18 final size:18
Alignment explanation
Indices: 2507663--2507721 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
2507653 GTGAGTATAA
* * *
2507663 AATTAACCGAATTAGTCG
1 AATTAACCAAATTACTTG
2507681 AATTAACCAAATTACTTG
1 AATTAACCAAATTACTTG
2507699 AATT-ACTCAAATTAAC-TG
1 AATTAAC-CAAATT-ACTTG
2507717 AATTA
1 AATTA
2507722 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (18 bp):
AATTAACCAAATTACTTG
Found at i:2507757 original size:5 final size:6
Alignment explanation
Indices: 2507742--2507782 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
2507732 ATTATATGTT
2507742 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
2507783 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:2507770 original size:14 final size:13
Alignment explanation
Indices: 2507742--2507779 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
2507732 ATTATATGTT
2507742 TTTTTATTTTT-A
1 TTTTTATTTTTAA
2507754 TTTTTATTTTTAGA
1 TTTTTATTTTTA-A
2507768 TTTTTATTTTTA
1 TTTTTATTTTTA
2507780 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTAA
Found at i:2507772 original size:21 final size:21
Alignment explanation
Indices: 2507747--2507790 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
2507737 ATGTTTTTTT
*
2507747 ATTTTTATTTTTATTT-TTAG
1 ATTTTTATTTTTATTTATTAA
2507767 ATTTTTATTTTTATTTATTAA
1 ATTTTTATTTTTATTTATTAA
2507788 ATT
1 ATT
2507791 ATTTGTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTTTTATTTTTATTTATTAA
Found at i:2508520 original size:22 final size:23
Alignment explanation
Indices: 2508495--2508547 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
2508485 TATTTTGAGG
*
2508495 TTAAAATATAATTTTAT-TATTA
1 TTAAAATATAATTTTATAAATTA
** *
2508517 TTAATTTAAAATTTTATAAATTA
1 TTAAAATATAATTTTATAAATTA
2508540 -TAAAATAT
1 TTAAAATAT
2508548 CTAAATGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATAATTTTATAAATTA
Found at i:2508794 original size:19 final size:19
Alignment explanation
Indices: 2508759--2508796 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
2508749 ATTTAATTAA
2508759 AATTATTAAAATAATAAAT
1 AATTATTAAAATAATAAAT
2508778 AATTGATTAAAAT-ATAAAT
1 AATT-ATTAAAATAATAAAT
2508797 TTATTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AATTATTAAAATAATAAAT
Found at i:2508802 original size:16 final size:17
Alignment explanation
Indices: 2508756--2508803 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2508746 AATATTTAAT
*
2508756 TAAAATTATTAAAATAA
1 TAAATTTATTAAAATAA
2508773 TAAATAATTGATTAAAAT-A
1 TAAAT--TT-ATTAAAATAA
2508792 TAAATTTATTAA
1 TAAATTTATTAA
2508804 TAATTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
19 8 0.30
20 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAATTTATTAAAATAA
Found at i:2508956 original size:35 final size:35
Alignment explanation
Indices: 2508908--2508975 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
2508898 ACACTCAAAC
*
2508908 TTACATCTCTATCTATTGACAATAATATTCATATT
1 TTACATCTCTATCTATTGACAATAATACTCATATT
* *
2508943 TTACATTTTTATCTATTGACAATAATACTCATA
1 TTACATCTCTATCTATTGACAATAATACTCATA
2508976 AAGTAAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (35 bp):
TTACATCTCTATCTATTGACAATAATACTCATATT
Found at i:2516597 original size:12 final size:12
Alignment explanation
Indices: 2516576--2516608 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2516566 TAAGTGAGCA
*
2516576 AAAAAAAAAAAC
1 AAAAACAAAAAC
2516588 AAAAACAAAAAC
1 AAAAACAAAAAC
2516600 -AAAACAAAA
1 AAAAACAAAA
2516609 TGGACCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:2518146 original size:35 final size:35
Alignment explanation
Indices: 2518050--2518148 Score: 85
Period size: 35 Copynumber: 2.8 Consensus size: 35
2518040 TGTAATAGTT
* * * *
2518050 TAAAAATATATTATATATTATTTATTTTGATTAATA
1 TAAAAA-ATATTATATATAATATATATTGACTAATA
* * *
2518086 TAAAAAATAATAGT-TCAAAAAATATATTG-CTAATA
1 TAAAAAATATTA-TAT-ATAATATATATTGACTAATA
2518121 TAAAAACATATTATATATAATATATATT
1 TAAAAA-ATATTATATATAATATATATT
2518149 ATTTATTTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
35 28 0.57
36 21 0.43
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (35 bp):
TAAAAAATATTATATATAATATATATTGACTAATA
Found at i:2521986 original size:21 final size:21
Alignment explanation
Indices: 2521962--2522026 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
2521952 AAATCTAACT
2521962 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
2521983 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACG
*
2522001 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
2522022 GAAGC
1 GAAGC
2522027 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:2522002 original size:39 final size:39
Alignment explanation
Indices: 2521956--2522044 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
2521946 TACCCGAAAT
2521956 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
2521995 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
2522034 CTAACTGAAGC
1 CTAACTGAAGC
2522045 TCATCAGAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:2538193 original size:38 final size:38
Alignment explanation
Indices: 2538148--2538232 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
2538138 GGCTTAGAGA
2538148 CCCGCAGGCTAT-ATGCTAGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCATGCTAGAATTATATCCGGGTTAAAT
* * *
2538186 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTAGAATTATATCCGGGTTAAAT
2538224 CCCGCAGGC
1 CCCGCAGGC
2538233 CTAGTGCTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.02
38 42 0.98
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTAGAATTATATCCGGGTTAAAT
Found at i:2538240 original size:38 final size:38
Alignment explanation
Indices: 2538168--2538251 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 38
2538158 ATATGCTAGA
* *
2538168 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
2538206 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
2538244 ATTATATC
1 ATTATATC
2538252 TAAGTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (38 bp):
ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
Found at i:2538280 original size:40 final size:38
Alignment explanation
Indices: 2538168--2538288 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
2538158 ATATGCTAGA
**
2538168 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
** * *
2538206 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
2538244 ATTATATCTAAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATC-AAGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
*
2538284 GTTAT
1 ATTAT
2538289 GTTTGGGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 44 0.61
39 6 0.08
40 22 0.31
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:2540017 original size:35 final size:35
Alignment explanation
Indices: 2539976--2540079 Score: 199
Period size: 35 Copynumber: 3.0 Consensus size: 35
2539966 ACTTGCCTCT
2539976 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
*
2540011 TTCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
2540046 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
2540080 TCACACACCC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.17, C:0.50, G:0.12, T:0.21
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:2540938 original size:3 final size:3
Alignment explanation
Indices: 2540923--2540969 Score: 76
Period size: 3 Copynumber: 15.3 Consensus size: 3
2540913 GTTATTTTCA
*
2540923 TAT TAT TAA TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2540969 T
1 T
2540970 GTACATTAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2541074 original size:3 final size:3
Alignment explanation
Indices: 2541066--2541092 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2541056 TGTGTTTCAA
2541066 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
2541093 ATATCCTTGT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2541298 original size:22 final size:23
Alignment explanation
Indices: 2541270--2541324 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
2541260 AATTTTTTTA
2541270 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
2541292 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
2541316 -TA-ATATTAT
1 ATATATATTAT
2541325 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:2553729 original size:73 final size:73
Alignment explanation
Indices: 2553617--2553988 Score: 427
Period size: 73 Copynumber: 5.1 Consensus size: 73
2553607 TTTCCGTTTC
* * * * *
2553617 AAAATTCAACTTATATTGCGAGAAATGGGTTGAGCCTCGGACATGCTGAGGTAATTTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
2553682 A-TTTCAAA
66 ATTTTC-AA
* *
2553690 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAA-TTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
2553754 ATTTTCAA
66 ATTTTCAA
*
2553762 AAAAA-CAACTCATATTGCGAGAGATGAATTGAGCCTCGGACACGCTGAGGTAA-TTTAATTTCT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
**
2553825 ATTTTTTTA
66 A-TTTTCAA
* * * * *
2553834 AAAAATCAACTCATATCGCGAGAGATTAATTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGACACGCTGAGGTAATTTT-AATTT
2553898 CTATTTTC--
64 CTATTTTCAA
* * * *
2553906 -AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGG---ACACGCTGAGGTAATTTTAATT
* * *
2553970 TGTGTTGTCAA
63 TCTATTTTCAA
2553981 AAAAATCA
1 AAAAATCA
2553989 CTCGATTGNN
Statistics
Matches: 257, Mismatches: 29, Indels: 23
0.83 0.09 0.07
Matches are distributed among these distances:
70 1 0.00
71 88 0.34
72 28 0.11
73 102 0.40
74 23 0.09
75 8 0.03
76 7 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGACACGCTGAGGTAATTTTAATTTCT
ATTTTCAA
Found at i:2553915 original size:144 final size:141
Alignment explanation
Indices: 2553613--2553985 Score: 467
Period size: 144 Copynumber: 2.6 Consensus size: 141
2553603 CTGTTTTCCG
* *
2553613 TTTCAAAATTCAACTTATATTGCGAGAAATGGGTTGAGCCTCGGACATGCTGAGGTAATTTTAAT
1 TTTCAAAA-TCAACTTATATTGCGAGAGATGAGTTGAGCCTCGGACATGCTGAGGTAA-TTTAAT
* * * *
2553678 TTCTATTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTA
64 TTCTATTTCAAAAAAAATCAACTCATATCGCGAGAGATGAATTGAGCCTCAGACACGATGAGGTA
2553743 ATTTAATTTCTAT
129 ATTTAATTTCTAT
* * * *
2553756 TTTCAAAAAAACAACTCATATTGCGAGAGATGAATTGAGCCTCGGACACGCTGAGGTAATTTAAT
1 TTTC--AAAATCAACTTATATTGCGAGAGATGAGTTGAGCCTCGGACATGCTGAGGTAATTTAAT
*** * *
2553821 TTCTATTTTTTTAAAAAATCAACTCATATCGCGAGAGATTAATTGAGCCTCAAGACACGTTGAGG
64 TTCTA-TTTCAAAAAAAATCAACTCATATCGCGAGAGATGAATTGAGCCTC-AGACACGATGAGG
*
2553886 TATTTTCAATTTCTAT
127 TAATTT-AATTTCTAT
*
2553902 TTTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTCA
1 TTTCAAAATCAACTTATATTGCGAGAGATGAGTTGAGCCTCGG---ACATGCTGAGGTAATTT-A
* *
2553967 ATTTGTGTTGTCAAAAAAA
62 ATTTCTATT-TCAAAAAAA
2553986 TCACTCGATT
Statistics
Matches: 194, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
143 15 0.08
144 116 0.60
145 20 0.10
146 13 0.07
147 18 0.09
148 12 0.06
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (141 bp):
TTTCAAAATCAACTTATATTGCGAGAGATGAGTTGAGCCTCGGACATGCTGAGGTAATTTAATTT
CTATTTCAAAAAAAATCAACTCATATCGCGAGAGATGAATTGAGCCTCAGACACGATGAGGTAAT
TTAATTTCTAT
Found at i:2572951 original size:23 final size:24
Alignment explanation
Indices: 2572925--2572972 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
2572915 TGTGATGACG
2572925 TTATCTT-ATAAATATGCAT-GAAT
1 TTATCTTGA-AAATATGCATGGAAT
*
2572948 TTATCTTGAAAATATGTATGGAAT
1 TTATCTTGAAAATATGCATGGAAT
2572972 T
1 T
2572973 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (24 bp):
TTATCTTGAAAATATGCATGGAAT
Found at i:2581270 original size:22 final size:22
Alignment explanation
Indices: 2581226--2581291 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 22
2581216 GAAATTAAAT
**
2581226 TATAA-TTTATAATAGTAAAAA
1 TATAATTTTATAATTTTAAAAA
2581247 TATAATTTTATAATTTTAATAATA
1 TATAATTTTATAATTTTAA-AA-A
* *
2581271 TGTATTTTTATAATTTTAAAA
1 TATAATTTTATAATTTTAAAA
2581292 GATTAAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.13
22 11 0.29
23 4 0.11
24 18 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
TATAATTTTATAATTTTAAAAA
Found at i:2585575 original size:21 final size:21
Alignment explanation
Indices: 2585549--2585589 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2585539 AGACAAGCGA
* *
2585549 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2585570 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2585590 TTGAGCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2600084 original size:63 final size:62
Alignment explanation
Indices: 2599985--2600110 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
2599975 AAAATAAACG
*
2599985 TCACACTCAATAATGAATCTATTCATTTTGGTTTTTTTCTTTTATATCATAAATGATGTGACT
1 TCACACTCAATAATGAATCTATTCATTTTGG-TTTTTTCTTTTATATCATAAATGATATGACT
*
2600048 TCACACTCAATAATGAATCTATTCATTTTTGTTTTTTCTTTTATATCATAAATGATATGACT
1 TCACACTCAATAATGAATCTATTCATTTTGGTTTTTTCTTTTATATCATAAATGATATGACT
2600110 T
1 T
2600111 TTGACCGACA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
62 31 0.51
63 30 0.49
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.48
Consensus pattern (62 bp):
TCACACTCAATAATGAATCTATTCATTTTGGTTTTTTCTTTTATATCATAAATGATATGACT
Found at i:2603403 original size:553 final size:553
Alignment explanation
Indices: 2601699--2603912 Score: 4421
Period size: 553 Copynumber: 4.0 Consensus size: 553
2601689 ATGCACAGAC
2601699 CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
1 CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
2601764 AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGGTTTTTCCATTCATTAACATTTACAA
66 AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGGTTTTTCCATTCATTAACATTTACAA
2601829 CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
131 CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
2601894 TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
196 TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
2601959 TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
261 TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
2602024 GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
326 GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
2602089 TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
391 TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
2602154 CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
456 CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
2602219 TATCCGAATGGACCGTCCCGGTTTCATTAACAT
521 TATCCGAATGGACCGTCCCGGTTTCATTAACAT
2602252 CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
1 CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
2602317 AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGG-TTTTCCATTCATTAACATTTACAA
66 AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGGTTTTTCCATTCATTAACATTTACAA
2602381 CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
131 CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
2602446 TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
196 TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
2602511 TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
261 TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
2602576 GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
326 GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
2602641 TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
391 TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
2602706 CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
456 CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
2602771 TATCCGAATGGACCGTCCCGGTTTCATTAACAT
521 TATCCGAATGGACCGTCCCGGTTTCATTAACAT
2602804 CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
1 CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
2602869 AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGGTTTTTCCATTCATTAACATTTACAA
66 AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGGTTTTTCCATTCATTAACATTTACAA
2602934 CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
131 CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
2602999 TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
196 TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
2603064 TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
261 TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
2603129 GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
326 GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
2603194 TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
391 TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
2603259 CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
456 CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
2603324 TATCCGAATGGACCGTCCCGGTTTCATTAACAT
521 TATCCGAATGGACCGTCCCGGTTTCATTAACAT
2603357 CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
1 CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
2603422 AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGGTTTTTCCATTCATTAACATTTACAA
66 AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGGTTTTTCCATTCATTAACATTTACAA
2603487 CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
131 CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
2603552 TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
196 TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
2603617 TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
261 TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
2603682 GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
326 GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
2603747 TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
391 TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
2603812 CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
456 CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
2603877 TATCCGAATGGACCGTCCCGGTTTCATTAACAT
521 TATCCGAATGGACCGTCCCGGTTTCATTAACAT
2603910 CCG
1 CCG
2603913 GTTCTTCATC
Statistics
Matches: 1660, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
552 552 0.33
553 1108 0.67
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (553 bp):
CCGCGCGTGTCCAAGCACATACGAGCTACACATGCAGAACAATCATAGCCGAAACTTGCAATCAA
AGTCGGAAACCGGAGGTTCTTTATAATACATACCAAAAGGTTTTTCCATTCATTAACATTTACAA
CTATGCATTAATACCAAGGCATGGACTTGAACAACAAAATACTAGCCTAGAGCTTTACAGGTTCA
TATATATTCCAGCATACCTGCAATCTAAAGTACAAAAAACACTTCTTGATCTTTGAGGCTTTTCC
TTCCATTCATTTCCGAGAAGAAAATATCAGAAACCCAAAATGTTCATCATCTAGCATACTAAAAT
GCACCCCCAAAAGAACTCGTTGGCCTTTACTCTTTCAGTTTATCACTTCCTAGAATTTACCCCAT
TTTCTCTCTGCAACCTCCAAAAGACTAAGACATACTAAACTCTCATCCTCCTCACAATCCTTTGC
CAATTTCAACAGCACATCCAGAAGCTTAATTTTCCTAAAATCATCATTCAATCTGCTTGCATTTG
TATCCGAATGGACCGTCCCGGTTTCATTAACAT
Found at i:2607703 original size:20 final size:21
Alignment explanation
Indices: 2607671--2607710 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2607661 TGGGGAAATT
2607671 CAAAATAAATAAT-AATAAAA
1 CAAAATAAATAATAAATAAAA
2607691 CAAAA-AAAGTAATAAATAAA
1 CAAAATAAA-TAATAAATAAA
2607711 TAAATCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 9 0.50
21 6 0.33
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (21 bp):
CAAAATAAATAATAAATAAAA
Found at i:2611268 original size:23 final size:25
Alignment explanation
Indices: 2611228--2611282 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
2611218 AATTCTTATT
*
2611228 TAAA-TTTAAATATTGAA-TTTAGA
1 TAAACTTTAAATATAGAATTTTAGA
*
2611251 TAAACTTTAAATA-AGAATTTTATA
1 TAAACTTTAAATATAGAATTTTAGA
2611275 TAAACTTT
1 TAAACTTT
2611283 TTTTCTACGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (25 bp):
TAAACTTTAAATATAGAATTTTAGA
Found at i:2611641 original size:41 final size:41
Alignment explanation
Indices: 2611594--2611678 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
2611584 TGATTTATGC
2611594 TATCCCCATTATTGAAAAATTATCCATTAATTAAATTTGGA
1 TATCCCCATTATTGAAAAATTATCCATTAATTAAATTTGGA
*
2611635 TATCCCCATTATTGAAAAATTATTCATTAATTAAATTTGGA
1 TATCCCCATTATTGAAAAATTATCCATTAATTAAATTTGGA
2611676 TAT
1 TAT
2611679 AATTCTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (41 bp):
TATCCCCATTATTGAAAAATTATCCATTAATTAAATTTGGA
Found at i:2612883 original size:29 final size:30
Alignment explanation
Indices: 2612830--2612912 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 30
2612820 GGCCCTAGAG
*
2612830 TTTTTAAAAATTTAATTAGGTCC-TTAAAA
1 TTTTTAAAAATTTAATTAGGACCTTTAAAA
*
2612859 TTTTTAAAAATTCTCATTA-GACCTTTAAAAA
1 TTTTTAAAAATT-TAATTAGGACCTTT-AAAA
***
2612890 TTAAAAAAAAATTTAATTAGGAC
1 TT-TTTAAAAATTTAATTAGGAC
2612913 TCCCAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
29 15 0.35
30 7 0.16
31 11 0.26
32 10 0.23
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (30 bp):
TTTTTAAAAATTTAATTAGGACCTTTAAAA
Found at i:2621860 original size:49 final size:50
Alignment explanation
Indices: 2621781--2622025 Score: 289
Period size: 49 Copynumber: 4.9 Consensus size: 50
2621771 ACTATTGTGA
*
2621781 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
* * * * *
2621830 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TGT
* * ** ** *
2621881 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
*
2621931 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-AT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAATGT
* * * *
2621980 GGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
2622026 GCTTTGGCTA
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 80 0.49
50 45 0.27
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATGT
Found at i:2623580 original size:91 final size:87
Alignment explanation
Indices: 2623485--2623707 Score: 247
Period size: 92 Copynumber: 2.5 Consensus size: 87
2623475 TTTAAAGGTG
** * *
2623485 CAAAAAGCCCTCAAACTATTTCAAAAAAAAAGCAATTAAGTCCTTTTCTTTTTTTGC-CTTCATT
1 CAAAAAGCCCTCAAACT-TTTCAAAAAAAAAGCAATTAAG-CCCCTACTTTTTTT-CAC-TCAAT
* *
2623549 TAGGGTACTTGAACTTTTAAAATACAT
62 T-GAGTACTTGAACTTTCAAAATACAT
2623576 CAAAAAGGCCCTCAAACCTTTTCACAAAAAAAAAAGCAATTAAGCCCCTACTTTTTTTCACTCAA
1 CAAAAA-GCCCTCAAA-CTTTT--C-AAAAAAAAAGCAATTAAGCCCCTACTTTTTTTCACTCAA
*
2623641 TTGAGTACTTGAACTTTCAAAATGCAT
61 TTGAGTACTTGAACTTTCAAAATACAT
*
2623668 CAAAAAGACCCTCAAGC-TTTC--AAAAAAAGCAATTAAGCCC
1 CAAAAAG-CCCTCAAACTTTTCAAAAAAAAAGCAATTAAGCCC
2623708 AAACTAATTG
Statistics
Matches: 117, Mismatches: 8, Indels: 20
0.81 0.06 0.14
Matches are distributed among these distances:
85 19 0.16
88 1 0.01
90 3 0.03
91 8 0.07
92 47 0.40
93 8 0.07
94 13 0.11
95 18 0.15
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (87 bp):
CAAAAAGCCCTCAAACTTTTCAAAAAAAAAGCAATTAAGCCCCTACTTTTTTTCACTCAATTGAG
TACTTGAACTTTCAAAATACAT
Found at i:2625086 original size:22 final size:21
Alignment explanation
Indices: 2625052--2625095 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2625042 TTGAATAAAA
* *
2625052 TTTATAATTTTATTCATTAAT
1 TTTATAATATTATTAATTAAT
2625073 TTTACTAATATTATTAATTAAT
1 TTTA-TAATATTATTAATTAAT
2625095 T
1 T
2625096 ATAAATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATAATATTATTAATTAAT
Found at i:2626355 original size:18 final size:18
Alignment explanation
Indices: 2626325--2626404 Score: 62
Period size: 16 Copynumber: 4.5 Consensus size: 18
2626315 AATACTTTAC
2626325 TTTTTTA-AA-TTATATA
1 TTTTTTATAATTTATATA
2626341 TTTTTTATAATTTATAT-
1 TTTTTTATAATTTATATA
*
2626358 GTTTTTA-AACTTT-TATGA
1 TTTTTTATAA-TTTATAT-A
* *
2626376 ATTTTTATATATTTATTTTA
1 TTTTTTATA-ATTTA-TATA
2626396 TTTTTTATA
1 TTTTTTATA
2626405 TTTTTAATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
16 12 0.24
17 11 0.22
18 12 0.24
19 4 0.08
20 10 0.20
21 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTTATAATTTATATA
Found at i:2626390 original size:36 final size:33
Alignment explanation
Indices: 2626326--2626391 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
2626316 ATACTTTACT
*
2626326 TTTTTAAATTATATATTTTTTATAATTTATATG
1 TTTTTAAATTATATAATTTTTATAATTTATATG
*
2626359 TTTTTAAACTTTTATGAATTTTTATATATTTAT
1 TTTTTAAA-TTATAT-AATTTTTATA-ATTTAT
2626392 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 8 0.29
34 5 0.18
35 9 0.32
36 6 0.21
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (33 bp):
TTTTTAAATTATATAATTTTTATAATTTATATG
Found at i:2630989 original size:3 final size:3
Alignment explanation
Indices: 2630981--2631008 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2630971 ACCAGCAAAT
2630981 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
2631009 GGAGAAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2634120 original size:16 final size:15
Alignment explanation
Indices: 2634096--2634129 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2634086 TCAATTCGAT
*
2634096 TTTGCTTTTTGTTGAC
1 TTTGATTTTTGTTG-C
2634112 TTTGATTTTTGTTGC
1 TTTGATTTTTGTTGC
2634127 TTT
1 TTT
2634130 TACTATTCGC
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:0.06, C:0.09, G:0.18, T:0.68
Consensus pattern (15 bp):
TTTGATTTTTGTTGC
Found at i:2634771 original size:29 final size:29
Alignment explanation
Indices: 2634712--2634783 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
2634702 CATGCACATG
* *
2634712 TTAAAAATTTAAAATATATTTTTATGTTT
1 TTAATAATTTTAAATATATTTTTATGTTT
*
2634741 TTAATAATTTTAAATTTATTTTTAT-TATT
1 TTAATAATTTTAAATATATTTTTATGT-TT
**
2634770 TTTTTAATTTTAAA
1 TTAATAATTTTAAA
2634784 AAATTGACAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (29 bp):
TTAATAATTTTAAATATATTTTTATGTTT
Found at i:2635143 original size:20 final size:20
Alignment explanation
Indices: 2635088--2635148 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
2635078 TGAATCTTAG
* *
2635088 ATCTTAAACCTCAACCCCAA
1 ATCTCAAACCTCAAACCCAA
*
2635108 ATCTCAAACCT-GAACCCAA
1 ATCTCAAACCTCAAACCCAA
* *
2635127 A-CTCCGAACCTCAAACCGAA
1 ATCT-CAAACCTCAAACCCAA
2635147 AT
1 AT
2635149 TTGAGTTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 13 0.41
20 17 0.53
ACGTcount: A:0.41, C:0.38, G:0.05, T:0.16
Consensus pattern (20 bp):
ATCTCAAACCTCAAACCCAA
Found at i:2636185 original size:16 final size:17
Alignment explanation
Indices: 2636166--2636198 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2636156 TAATCCTTAT
2636166 TAATTTTAATT-ATATA
1 TAATTTTAATTGATATA
*
2636182 TAATTTTGATTGATATA
1 TAATTTTAATTGATATA
2636199 ATAACAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TAATTTTAATTGATATA
Found at i:2646445 original size:2 final size:2
Alignment explanation
Indices: 2646440--2646484 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
2646430 AGAAAAAAGA
* * * *
2646440 AT AT AT AT AC AT AT AC AT AT AT AC AT AT AT AC 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
2646482 AT A
1 AT A
2646485 AATAAACGGC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:2646461 original size:8 final size:8
Alignment explanation
Indices: 2646440--2646484 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
2646430 AGAAAAAAGA
*
2646440 ATATATAT
1 ATATATAC
*
2646448 ACATATAC
1 ATATATAC
2646456 ATATATAC
1 ATATATAC
2646464 ATATATAC
1 ATATATAC
*
2646472 ATATATAT
1 ATATATAC
2646480 ATATA
1 ATATA
2646485 AATAAACGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATATAC
Found at i:2656572 original size:18 final size:17
Alignment explanation
Indices: 2656551--2656592 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
2656541 TTAAAATCAG
2656551 AAAAAAT-TATAAATATAT
1 AAAAAATGT-TAAATAT-T
2656569 AAAAAATGTTAAATATT
1 AAAAAATGTTAAATATT
2656586 AAAAAAT
1 AAAAAAT
2656593 ATGAAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAAATGTTAAATATT
Found at i:2656600 original size:18 final size:18
Alignment explanation
Indices: 2656551--2656666 Score: 53
Period size: 18 Copynumber: 6.2 Consensus size: 18
2656541 TTAAAATCAG
2656551 AAAAAAT-TATAAATATAT
1 AAAAAATATA-AAATATAT
* *
2656569 AAAAAATGTTAAATAT-T
1 AAAAAATATAAAATATAT
2656586 AAAAAATATGAAAATTCATAT
1 AAAAAATAT-AAAA-T-ATAT
*
2656607 AAACTTAATA-AAAAT-TAT
1 AAA--AAATATAAAATATAT
* *
2656625 CAAAAATATAATAA-ATCT
1 AAAAAATATAA-AATATAT
* *
2656643 AATAAATTATAAAAAAATAT
1 AA-AAAATAT-AAAATATAT
2656663 AAAA
1 AAAA
2656667 TTGAAAAAAG
Statistics
Matches: 75, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
16 4 0.05
17 11 0.15
18 26 0.35
19 12 0.16
20 10 0.13
21 8 0.11
23 4 0.05
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAAATATAAAATATAT
Found at i:2657204 original size:19 final size:18
Alignment explanation
Indices: 2657182--2657225 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2657172 TTTTTATATT
2657182 TTTTATAAGTTTATATAAA
1 TTTTATAAGTTTA-ATAAA
* *
2657201 TTTTAATGATTTTAATAAA
1 TTTT-ATAAGTTTAATAAA
2657220 TTTTAT
1 TTTTAT
2657226 TAACTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.59
20 7 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTATAAGTTTAATAAA
Found at i:2657347 original size:16 final size:19
Alignment explanation
Indices: 2657312--2657351 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
2657302 TAGAAAAAAC
2657312 TATAATTTTACTAGATTTT
1 TATAATTTTACTAGATTTT
2657331 TATAA-TTTA-TA-ATTTT
1 TATAATTTTACTAGATTTT
2657347 TATAA
1 TATAA
2657352 GTTGATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 2 0.10
18 4 0.19
19 5 0.24
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (19 bp):
TATAATTTTACTAGATTTT
Found at i:2657348 original size:9 final size:9
Alignment explanation
Indices: 2657312--2657447 Score: 52
Period size: 10 Copynumber: 14.6 Consensus size: 9
2657302 TAGAAAAAAC
2657312 TATAA-TTT
1 TATAATTTT
2657320 TACTAGATTTT
1 TA-TA-ATTTT
2657331 TATAA--TT
1 TATAATTTT
2657338 TATAATTTT
1 TATAATTTT
**
2657347 TATAAGTTGA
1 TATAA-TTTT
2657357 TATCAATTTT
1 TAT-AATTTT
*
2657367 TAT-GTTTT
1 TATAATTTT
*
2657375 TTTAATATGTAT
1 TATAAT-T-T-T
2657387 T-TAATATTT
1 TATAAT-TTT
*
2657396 GATAATTTT
1 TATAATTTT
2657405 CT-T-ATTTT
1 -TATAATTTT
2657413 TATAATTTTTT
1 TATAA--TTTT
*
2657424 TACAATTTT
1 TATAATTTT
*
2657433 TAATTATTTT
1 T-ATAATTTT
2657443 TATAA
1 TATAA
2657448 AAAAATTATA
Statistics
Matches: 97, Mismatches: 13, Indels: 35
0.67 0.09 0.24
Matches are distributed among these distances:
7 8 0.08
8 14 0.14
9 25 0.26
10 26 0.27
11 22 0.23
12 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (9 bp):
TATAATTTT
Found at i:2657814 original size:6 final size:7
Alignment explanation
Indices: 2657796--2657822 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2657786 GGGAACCGAG
2657796 TAAAAAA
1 TAAAAAA
2657803 TAAAAAA
1 TAAAAAA
2657810 TAAAAAA
1 TAAAAAA
2657817 TAAAAA
1 TAAAAA
2657823 GGTAAAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:2663064 original size:16 final size:16
Alignment explanation
Indices: 2663043--2663080 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
2663033 AGCTTAACCC
2663043 ATTTTTAAGTTA-ATA
1 ATTTTTAAGTTATATA
*
2663058 ATGTTTTATGTTATATA
1 AT-TTTTAAGTTATATA
2663075 ATTTTT
1 ATTTTT
2663081 TTATATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (16 bp):
ATTTTTAAGTTATATA
Found at i:2663196 original size:15 final size:16
Alignment explanation
Indices: 2663178--2663220 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
2663168 TAAAGTGACT
2663178 ATATATAAAATT-TTA
1 ATATATAAAATTATTA
2663193 ATATATAAAATTATTA
1 ATATATAAAATTATTA
*
2663209 A-ATATTAAATTA
1 ATATATAAAATTA
2663221 AAAATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATATAAAATTATTA
Found at i:2668447 original size:28 final size:28
Alignment explanation
Indices: 2668415--2668468 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
2668405 TTTTATGAAC
* * *
2668415 TTTTTATATATTTTTTAAAATTTTAATT
1 TTTTTAAACATTTTTAAAAATTTTAATT
2668443 TTTTTAAACATTTTTAAAAATTTTAA
1 TTTTTAAACATTTTTAAAAATTTTAA
2668469 ATTATTTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTAAACATTTTTAAAAATTTTAATT
Found at i:2670673 original size:4 final size:4
Alignment explanation
Indices: 2670658--2670701 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
2670648 AAAAAGTATG
2670658 AAAT ATAAT AAAT AAAT -AAT AAAT -AAT AAAT -AAT AAAT AAAT AA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
2670702 GAACTACTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 9 0.25
4 23 0.64
5 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:2670678 original size:7 final size:7
Alignment explanation
Indices: 2670668--2670697 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
2670658 AAATATAATA
2670668 AATAAAT
1 AATAAAT
2670675 AATAAAT
1 AATAAAT
2670682 AATAAAT
1 AATAAAT
2670689 AATAAAT
1 AATAAAT
2670696 AA
1 AA
2670698 ATAAGAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AATAAAT
Found at i:2670678 original size:11 final size:11
Alignment explanation
Indices: 2670662--2670701 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
2670652 AGTATGAAAT
2670662 ATAATAAATAA
1 ATAATAAATAA
2670673 ATAATAAATAATAA
1 ATAAT--A-AATAA
2670687 ATAATAAATAA
1 ATAATAAATAA
2670698 ATAA
1 ATAA
2670702 GAACTACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 14 0.54
12 1 0.04
13 1 0.04
14 10 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAATAA
Found at i:2670853 original size:33 final size:33
Alignment explanation
Indices: 2670814--2670885 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
2670804 ATAAGATAAA
2670814 ATATTTAAAAATTAAGGATAAATTGTAGAATAT
1 ATATTTAAAAATTAAGGATAAATTGTAGAATAT
2670847 ATATTTAAAAATTAAGGATAAATTGTAGAATAT
1 ATATTTAAAAATTAAGGATAAATTGTAGAATAT
2670880 ATATTT
1 ATATTT
2670886 CTTATAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (33 bp):
ATATTTAAAAATTAAGGATAAATTGTAGAATAT
Found at i:2674246 original size:31 final size:31
Alignment explanation
Indices: 2674211--2674273 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
2674201 TTGGTCACTA
*
2674211 AACTATTT-AAAAGTTTTCATTTAAGTCATTG
1 AACTATTTAAAAAATTTT-ATTTAAGTCATTG
*
2674242 AACTATTTAAAAAATTTTATTTAAGTCGTTG
1 AACTATTTAAAAAATTTTATTTAAGTCATTG
2674273 A
1 A
2674274 GTTGTTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (31 bp):
AACTATTTAAAAAATTTTATTTAAGTCATTG
Found at i:2674834 original size:12 final size:12
Alignment explanation
Indices: 2674817--2674842 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2674807 GGCTTTTGAG
2674817 AGAAAAAAGAAA
1 AGAAAAAAGAAA
2674829 AGAAAAAAGAAA
1 AGAAAAAAGAAA
2674841 AG
1 AG
2674843 TTGATGTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AGAAAAAAGAAA
Found at i:2677048 original size:10 final size:10
Alignment explanation
Indices: 2677023--2677056 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2677013 TAAATTTATT
2677023 ATTATAA-TA
1 ATTATAATTA
*
2677032 ATAATAATTA
1 ATTATAATTA
2677042 ATTATAATTA
1 ATTATAATTA
2677052 ATTAT
1 ATTAT
2677057 TATTTATCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTATAATTA
Found at i:2678461 original size:30 final size:30
Alignment explanation
Indices: 2678420--2678491 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
2678410 GTTTAAATAA
*
2678420 TTTCA-AAATTTTATTGACGAATGATAAAT
1 TTTCATAAATTTTATTGACGAAAGATAAAT
2678449 TTTCATAAATTTTATTGACGAAAGATAAAT
1 TTTCATAAATTTTATTGACGAAAGATAAAT
*
2678479 TTTCATACATTTT
1 TTTCATAAATTTT
2678492 GACTTACTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 5 0.12
30 35 0.88
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (30 bp):
TTTCATAAATTTTATTGACGAAAGATAAAT
Found at i:2682954 original size:36 final size:37
Alignment explanation
Indices: 2682909--2682990 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 37
2682899 TAAATTTAAA
*
2682909 ATATTAAATGTA-TGTTTAGAAATAATAT-ATAATAA-
1 ATATGAAATGTATTGTTTA-AAATAATATAATAATAAT
* *
2682944 ATAATGAAATGTATTGTTTAAAATTATTTAATAATAAT
1 AT-ATGAAATGTATTGTTTAAAATAATATAATAATAAT
2682982 ATATGAAAT
1 ATATGAAAT
2682991 ATGTATATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 2 0.05
36 16 0.40
37 20 0.50
38 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (37 bp):
ATATGAAATGTATTGTTTAAAATAATATAATAATAAT
Found at i:2683764 original size:43 final size:43
Alignment explanation
Indices: 2683700--2683781 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
2683690 GTAACCTTGC
* **
2683700 AACAAAAAAAAATTAATATTATAATGCATCTAAATTTAACAGT
1 AACAAAAAAAAATTAACATTATAATAAATCTAAATTTAACAGT
* * *
2683743 AACAAAAAAAATTTGACATTATAATAAATTTAAATTTAA
1 AACAAAAAAAAATTAACATTATAATAAATCTAAATTTAA
2683782 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (43 bp):
AACAAAAAAAAATTAACATTATAATAAATCTAAATTTAACAGT
Found at i:2690947 original size:3 final size:3
Alignment explanation
Indices: 2690939--2690967 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2690929 TTCCTTTTAA
2690939 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
2690968 TTGTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:2692670 original size:30 final size:29
Alignment explanation
Indices: 2692604--2692662 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
2692594 AAATTAATAC
*
2692604 ATAATAAAATTATATTTTAATATTTTAAA
1 ATAATAAAATTATAATTTAATATTTTAAA
* *
2692633 ATAATAAAATTTTAATTTAATCTTTTAAA
1 ATAATAAAATTATAATTTAATATTTTAAA
2692662 A
1 A
2692663 ATTATAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
ATAATAAAATTATAATTTAATATTTTAAA
Found at i:2703032 original size:31 final size:31
Alignment explanation
Indices: 2702994--2703054 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
2702984 GTAGCCCTCA
2702994 ACTTTTACATATTATATCAATTTAATCATAT
1 ACTTTTACATATTATATCAATTTAATCATAT
2703025 ACTTTTACATATTATATCAATTTAATCATA
1 ACTTTTACATATTATATCAATTTAATCATA
2703055 CTTTTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (31 bp):
ACTTTTACATATTATATCAATTTAATCATAT
Found at i:2703048 original size:17 final size:17
Alignment explanation
Indices: 2702997--2703048 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2702987 GCCCTCAACT
2702997 TTTACATATTATATCAA
1 TTTACATATTATATCAA
*
2703014 TTTA-ATCA-TATA-C-T
1 TTTACAT-ATTATATCAA
2703028 TTTACATATTATATCAA
1 TTTACATATTATATCAA
2703045 TTTA
1 TTTA
2703049 ATCATACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 5 0.18
15 7 0.25
16 7 0.25
17 9 0.32
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTACATATTATATCAA
Found at i:2703150 original size:19 final size:20
Alignment explanation
Indices: 2703123--2703176 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
2703113 AAATTAAAAG
2703123 AAATA-TTTAAAAATAAAT-
1 AAATATTTTAAAAATAAATA
* *
2703141 AAATATTTTAAATATATATA
1 AAATATTTTAAAAATAAATA
2703161 AAATAATTTTTAAAAA
1 AAAT-A-TTTTAAAAA
2703177 CATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 5 0.17
19 11 0.38
20 4 0.14
21 1 0.03
22 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATTTTAAAAATAAATA
Found at i:2703161 original size:23 final size:23
Alignment explanation
Indices: 2703135--2703223 Score: 69
Period size: 22 Copynumber: 3.9 Consensus size: 23
2703125 ATATTTAAAA
2703135 ATAAATAAATATTTTAAATATAT
1 ATAAATAAATATTTTAAATATAT
* *
2703158 ATAAA-ATAAT-TTTTAAAAACAT
1 ATAAATA-AATATTTTAAATATAT
* *
2703180 AAAAATATATATTTTCAAA-A-AT
1 ATAAATAAATATTTT-AAATATAT
* *
2703202 ATATATTAATAATTTTAAATAT
1 ATAAATAAAT-ATTTTAAATAT
2703224 TTACTATTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
22 28 0.55
23 20 0.39
24 3 0.06
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAATAAATATTTTAAATATAT
Found at i:2703166 original size:24 final size:24
Alignment explanation
Indices: 2703137--2703206 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 24
2703127 ATTTAAAAAT
*
2703137 AAATAAATATTTTAAATATATATA
1 AAATAAATATTTTAAAAATATATA
*
2703161 AAAT-AAT-TTTTAAAAACATA-A
1 AAATAAATATTTTAAAAATATATA
*
2703182 AAATATATATTTTCAAAAATATATA
1 AAATAAATATTTT-AAAAATATATA
2703207 TTAATAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.13
22 13 0.34
23 7 0.18
24 12 0.32
25 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATAAATATTTTAAAAATATATA
Found at i:2703279 original size:30 final size:30
Alignment explanation
Indices: 2703243--2703303 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
2703233 ATATTTATTA
* *
2703243 TATTTGTGTT-TATTATTATATTTTTGAATT
1 TATTTGT-TTGTATTAATATATTTTTAAATT
*
2703273 TATTTGTTTGTTTTAATATATTTTTAAATT
1 TATTTGTTTGTATTAATATATTTTTAAATT
2703303 T
1 T
2703304 TATTATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (30 bp):
TATTTGTTTGTATTAATATATTTTTAAATT
Found at i:2705527 original size:7 final size:7
Alignment explanation
Indices: 2705515--2705540 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2705505 GAATTGGGTT
2705515 GAATATA
1 GAATATA
2705522 GAATATA
1 GAATATA
2705529 GAATATA
1 GAATATA
2705536 GAATA
1 GAATA
2705541 AATGTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (7 bp):
GAATATA
Found at i:2711424 original size:19 final size:20
Alignment explanation
Indices: 2711378--2711415 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2711368 TATTACTCAA
2711378 ATTAAAATAGATTAAAACAC
1 ATTAAAATAGATTAAAACAC
*
2711398 ATTTAAATA-ATTAAAACA
1 ATTAAAATAGATTAAAACA
2711416 TGTTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (20 bp):
ATTAAAATAGATTAAAACAC
Found at i:2714340 original size:33 final size:33
Alignment explanation
Indices: 2714279--2714343 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
2714269 ATACAACGTC
* * *
2714279 TAGACTTATTCATAGCTTCTCTCTAACTCTTAT
1 TAGAATTATTCATAACTTCTCTCAAACTCTTAT
* *
2714312 TAGAATTATTTATAACTTTTCTCAAACTCTTA
1 TAGAATTATTCATAACTTCTCTCAAACTCTTA
2714344 AATAAGAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.46
Consensus pattern (33 bp):
TAGAATTATTCATAACTTCTCTCAAACTCTTAT
Found at i:2726247 original size:12 final size:12
Alignment explanation
Indices: 2726230--2726254 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2726220 ATCGGAATCC
2726230 TTGTACTTTTAA
1 TTGTACTTTTAA
2726242 TTGTACTTTTAA
1 TTGTACTTTTAA
2726254 T
1 T
2726255 GAGAGAATAA
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:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTGTACTTTTAA
Found at i:2729450 original size:33 final size:33
Alignment explanation
Indices: 2729410--2729475 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2729400 ATTTCATTGC
*
2729410 TGCAATTAAGGACCAACACAGCCTTGCCTAGAT
1 TGCAATTAAGGACCAACACAGCCTAGCCTAGAT
2729443 TGCAATTAAGGACCAACACAGCCTAGCCTAGAT
1 TGCAATTAAGGACCAACACAGCCTAGCCTAGAT
2729476 AAAAAAGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (33 bp):
TGCAATTAAGGACCAACACAGCCTAGCCTAGAT
Found at i:2729832 original size:25 final size:25
Alignment explanation
Indices: 2729804--2729853 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2729794 AGTCACTAAA
2729804 GGTTTTAAAATTAAATATTTTAGTC
1 GGTTTTAAAATTAAATATTTTAGTC
2729829 GGTTTTAAAATTAAATATTTTAGTC
1 GGTTTTAAAATTAAATATTTTAGTC
2729854 CCTTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (25 bp):
GGTTTTAAAATTAAATATTTTAGTC
Found at i:2733272 original size:18 final size:18
Alignment explanation
Indices: 2733222--2733269 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
2733212 AATTAAAACT
2733222 AAAACTAAAATTTATTAAA
1 AAAACT-AAATTTATTAAA
* *
2733241 GAAACTACATTTATTAAA
1 AAAACTAAATTTATTAAA
2733259 AAAAC-AAATTT
1 AAAACTAAATTT
2733270 TATAAGGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAACTAAATTTATTAAA
Found at i:2735087 original size:30 final size:30
Alignment explanation
Indices: 2735053--2735118 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
2735043 AATTGTAATG
*
2735053 TTATATATG-AATTTTGATTTTATATAATTT
1 TTATATATGAAATTTTGATTTGA-ATAATTT
*
2735083 TTATATATGAAATTTTTATTTGAATAATTT
1 TTATATATGAAATTTTGATTTGAATAATTT
2735113 TT-TATA
1 TTATATA
2735119 AGCCATTAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 4 0.12
30 18 0.55
31 11 0.33
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (30 bp):
TTATATATGAAATTTTGATTTGAATAATTT
Found at i:2735325 original size:29 final size:30
Alignment explanation
Indices: 2735288--2735349 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
2735278 CAATTAAACT
2735288 TTCACGTA-T-ATTATTACACTAAATCAAAA
1 TTCACGTATTAATTA-TACACTAAATCAAAA
* *
2735317 TTCATGTATTAAATTATACATTAAATCAAAA
1 TTCACGTATT-AATTATACACTAAATCAAAA
2735348 TT
1 TT
2735350 TATATCTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.25
30 1 0.04
31 16 0.57
32 4 0.14
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (30 bp):
TTCACGTATTAATTATACACTAAATCAAAA
Found at i:2735380 original size:18 final size:18
Alignment explanation
Indices: 2735345--2735378 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2735335 CATTAAATCA
2735345 AAATTTATATCTAGTTTT
1 AAATTTATATCTAGTTTT
2735363 AAATTT-TATCTA-TTTT
1 AAATTTATATCTAGTTTT
2735379 TTTCTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 6 0.38
18 6 0.38
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (18 bp):
AAATTTATATCTAGTTTT
Found at i:2741665 original size:32 final size:33
Alignment explanation
Indices: 2741629--2741696 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
2741619 TAATAAATCA
*
2741629 TAATTTCTTCAAGGGTTTGTATTAATCAA-TTC
1 TAATTTCTTCAAGGATTTGTATTAATCAACTTC
* *
2741661 TAATTTCTTTAATGATTTGTATTAATCAACTTC
1 TAATTTCTTCAAGGATTTGTATTAATCAACTTC
2741694 TAA
1 TAA
2741697 AAATTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.49
Consensus pattern (33 bp):
TAATTTCTTCAAGGATTTGTATTAATCAACTTC
Found at i:2747619 original size:11 final size:12
Alignment explanation
Indices: 2747595--2747623 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2747585 ACTTAAATGA
2747595 AATTTTTTGAAT
1 AATTTTTTGAAT
2747607 AATTTTTTG-AT
1 AATTTTTTGAAT
2747618 AATTTT
1 AATTTT
2747624 GTAACCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (12 bp):
AATTTTTTGAAT
Found at i:2752689 original size:9 final size:9
Alignment explanation
Indices: 2752656--2752697 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
2752646 TCCAGCTCCG
2752656 CCTCCACCA
1 CCTCCACCA
*
2752665 CCACCACC-
1 CCTCCACCA
*
2752673 GCTACCACCA
1 CCT-CCACCA
2752683 CCTCCACCA
1 CCTCCACCA
2752692 CCTCCA
1 CCTCCA
2752698 TGTCCACCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 1 0.04
9 24 0.89
10 2 0.07
ACGTcount: A:0.24, C:0.64, G:0.02, T:0.10
Consensus pattern (9 bp):
CCTCCACCA
Found at i:2752875 original size:120 final size:120
Alignment explanation
Indices: 2752625--2752944 Score: 283
Period size: 120 Copynumber: 2.6 Consensus size: 120
2752615 CACTTCCTCC
* * *
2752625 TCCACTTCCACTTCCATATCCTCCAGCTCCGCCTC-C-ACCACCACCACCGCTACCACCACCTCC
1 TCCACTTCCACTTCCATATCCTCCAGCTCCACCGCACTACCACCACCACCGCCACCACCACCTCC
** *
2752688 ACCACCTCCATGTCCACCACCACCATTACCAGCTCCACCACCTTCTCCACTTCCACT
66 ACCACCTCCA--TCCACCACCACCATTACCAGCTCCACCACCAGCTCCACCTCCACT
* * * *
2752745 TCCGCTTCCACTTCCATATCCTCCAGCTCCACCGGCACTACCGCCACCTCCGCCACCACC-CTTA
1 TCCACTTCCACTTCCATATCCTCCAGCTCCACC-GCACTACCACCACCACCGCCACCACCACCT-
* * * * *
2752809 CCTCCACCTCCA-CCACCTCCTCCATTTCCAGCTCCACTACCAGCTCCACCT-C-CT
64 CCACCACCTCCATCCACCACCACCATTACCAGCTCCACCACCAGCTCCACCTCCACT
* * *** * * *
2752863 TCACCACCTCCACTTCCATACCCAGAAGCTCCACCTGCACTACCTCCGCCACCACCATTACCACC
1 T--CCACTTCCACTTCCATATCCTCCAGCTCCACC-GCACTACCACCACCACCGCC---ACCACC
* *
2752928 ACCTCCTCCTCCTCCAT
60 ACCTCCACCACCTCCAT
2752945 GTCCACCTGC
Statistics
Matches: 161, Mismatches: 28, Indels: 18
0.78 0.14 0.09
Matches are distributed among these distances:
118 3 0.02
119 1 0.01
120 105 0.65
121 1 0.01
122 3 0.02
123 46 0.29
124 2 0.01
ACGTcount: A:0.20, C:0.55, G:0.05, T:0.20
Consensus pattern (120 bp):
TCCACTTCCACTTCCATATCCTCCAGCTCCACCGCACTACCACCACCACCGCCACCACCACCTCC
ACCACCTCCATCCACCACCACCATTACCAGCTCCACCACCAGCTCCACCTCCACT
Found at i:2752975 original size:129 final size:129
Alignment explanation
Indices: 2752825--2753065 Score: 401
Period size: 129 Copynumber: 1.9 Consensus size: 129
2752815 CCTCCACCAC
* * *
2752825 CTCCTCCATTTCCAGCTCCACTACCAGCTCCACCTCCTTCACCACCTCCACTTCCATACCCAGAA
1 CTCCTCCATATCCAGCACCACTACCAGCTCCACCTCCTTCACCAACTCCACTTCCATACCCAGAA
* *
2752890 GCTCCACCTGCACTACCTCCGCCACCACCATTACCACCACCTCCTCCTCCTCCATGTCCACCTG
66 GCTCCACCTGCACTACCTCCGCCACCACCACTACCACCACCACCTCCTCCTCCATGTCCACCTG
* *
2752954 CTCCTCCATATCCGGCACCACTACCAGCTCCACCTCCTTCACCAACTCCACTTCCATATCCAGAA
1 CTCCTCCATATCCAGCACCACTACCAGCTCCACCTCCTTCACCAACTCCACTTCCATACCCAGAA
* *
2753019 GCTCCACCTGCACTACCTCCGCCTCCACCACTACCACTACCACCTCC
66 GCTCCACCTGCACTACCTCCGCCACCACCACTACCACCACCACCTCC
2753066 ATGTCCACCA
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 103 1.00
ACGTcount: A:0.21, C:0.52, G:0.06, T:0.21
Consensus pattern (129 bp):
CTCCTCCATATCCAGCACCACTACCAGCTCCACCTCCTTCACCAACTCCACTTCCATACCCAGAA
GCTCCACCTGCACTACCTCCGCCACCACCACTACCACCACCACCTCCTCCTCCATGTCCACCTG
Found at i:2753097 original size:42 final size:42
Alignment explanation
Indices: 2753051--2753132 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
2753041 CTCCACCACT
* * * *
2753051 ACCACTACCACCTCCA-TGTCCACCAGCACCTCCATTTCCAAC
1 ACCACCACCACCTCCACT-ACCACCACCACCTCCATATCCAAC
**
2753093 ACCACCACCTTCTCCACTACCACCACCACCTCCATATCCA
1 ACCACCACCACCTCCACTACCACCACCACCTCCATATCCA
2753133 GCACTAGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.27, C:0.52, G:0.02, T:0.18
Consensus pattern (42 bp):
ACCACCACCACCTCCACTACCACCACCACCTCCATATCCAAC
Found at i:2753098 original size:18 final size:18
Alignment explanation
Indices: 2753057--2753098 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2753047 CACTACCACT
*
2753057 ACCACCTCCATGTCCACC
1 ACCACCTCCATGTCCAAC
* *
2753075 AGCACCTCCATTTCCAAC
1 ACCACCTCCATGTCCAAC
2753093 ACCACC
1 ACCACC
2753099 ACCTTCTCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.52, G:0.05, T:0.17
Consensus pattern (18 bp):
ACCACCTCCATGTCCAAC
Found at i:2753116 original size:129 final size:126
Alignment explanation
Indices: 2752808--2753097 Score: 361
Period size: 129 Copynumber: 2.3 Consensus size: 126
2752798 CACCACCCTT
** * * * * * *
2752808 ACCTCCACCTCCACCACCTCCTCCATTTCCAGCTCCACTACCAGCTCCACCTCCTTCACCACCTC
1 ACCTCCATGTCCACCAGCACCTCCATATCCACCACCACTACCAGCTCCACCTCCTTCACCAACTC
*
2752873 CACTTCCATACCCAGAAGCTCCACCTGCACTACCTCCGCCACCACCATTACCACCACCTCCTCC
66 CACTTCCATACCCAGAAGCTCCACCTGCACTACCTCCGCCACCACC--TACCACCACCT-CACC
* * * **
2752937 TCCTCCATGTCCACCTGCTCCTCCATATCCGGCACCACTACCAGCTCCACCTCCTTCACCAACTC
1 ACCTCCATGTCCACCAGCACCTCCATATCCACCACCACTACCAGCTCCACCTCCTTCACCAACTC
* * *
2753002 CACTTCCATATCCAGAAGCTCCACCTGCACTACCTCCGCCTCCACC-ACTACCA-CT-ACC
66 CACTTCCATACCCAGAAGCTCCACCTGCACTACCTCCGCCACCACCTACCACCACCTCACC
* *
2753060 ACCTCCATGTCCACCAGCACCTCCATTTCCAACACCAC
1 ACCTCCATGTCCACCAGCACCTCCATATCCACCACCAC
2753098 CACCTTCTCC
Statistics
Matches: 142, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
123 34 0.24
125 2 0.01
126 6 0.04
129 100 0.70
ACGTcount: A:0.22, C:0.52, G:0.06, T:0.20
Consensus pattern (126 bp):
ACCTCCATGTCCACCAGCACCTCCATATCCACCACCACTACCAGCTCCACCTCCTTCACCAACTC
CACTTCCATACCCAGAAGCTCCACCTGCACTACCTCCGCCACCACCTACCACCACCTCACC
Found at i:2753132 original size:24 final size:22
Alignment explanation
Indices: 2753070--2753132 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 22
2753060 ACCTCCATGT
* *
2753070 CCACCAGCACCTCCATTTCCAA
1 CCACCACCACCTCCATATCCAA
*
2753092 -CACCACCACCT---TCTCCACTA
1 CCACCACCACCTCCATATCCA--A
2753112 CCACCACCACCTCCATATCCA
1 CCACCACCACCTCCATATCCA
2753133 GCACTAGCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
18 5 0.16
20 1 0.03
21 21 0.66
24 5 0.16
ACGTcount: A:0.27, C:0.54, G:0.02, T:0.17
Consensus pattern (22 bp):
CCACCACCACCTCCATATCCAA
Found at i:2753137 original size:27 final size:24
Alignment explanation
Indices: 2753107--2753176 Score: 59
Period size: 27 Copynumber: 2.8 Consensus size: 24
2753097 CCACCTTCTC
2753107 CACTACCACCACCACCTCCATATCCAG
1 CACTACCACCACCACCTCCA-A-CC-G
* * * *
2753134 CACTAGCACCTCCTCCTACAACCG
1 CACTACCACCACCACCTCCAACCG
**
2753158 CAGAACCACCACCACCTCC
1 CACTACCACCACCACCTCC
2753177 TGAACCGCCT
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
24 14 0.42
25 2 0.06
26 1 0.03
27 16 0.48
ACGTcount: A:0.29, C:0.53, G:0.06, T:0.13
Consensus pattern (24 bp):
CACTACCACCACCACCTCCAACCG
Found at i:2758888 original size:106 final size:106
Alignment explanation
Indices: 2758718--2758918 Score: 348
Period size: 106 Copynumber: 1.9 Consensus size: 106
2758708 AAGCTTTAAG
*
2758718 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
2758783 TTTTTCAAACGCGAAACATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAACATCGCCTTATTTAAAAGTTTAAAA
* *
2758824 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
* *
2758889 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAACATCGCCTTATTTA
2758919 GAAAAATTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAACATCGCCTTATTTAAAAGTTTAAAA
Found at i:2759449 original size:18 final size:20
Alignment explanation
Indices: 2759410--2759453 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
2759400 AAATATGCAT
2759410 AAATATATGTAAGTGTATAA
1 AAATATATGTAAGTGTATAA
2759430 AAAT-TATG-AAGTGTGA-AA
1 AAATATATGTAAGTGT-ATAA
2759448 AAATAT
1 AAATAT
2759454 GTTTAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
AAATATATGTAAGTGTATAA
Found at i:2761779 original size:44 final size:44
Alignment explanation
Indices: 2761566--2761859 Score: 240
Period size: 44 Copynumber: 6.7 Consensus size: 44
2761556 TCCACTGCCA
* *
2761566 AATACAGG--GACAAGATCTGCTTTCTTCGATCTACTTCACGCC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCACC
* * * *
2761608 AATACATGAAGACAAAATCTGCTTTCTGCAATCTACTTCGCCACC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCG-CACC
** * *
2761653 AATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC-ACC
* * * ** *
2761696 AATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCGCGCC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCACC
* * *
2761740 AATACATGAAGACAAGCTCTACTTTCTTCGATCTACTTCGCCACC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCG-CACC
** * * * *
2761785 AATATGGGAAGACAAGACCTG-TATCTTTGATCCACTTC-CTACC
1 AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC-ACC
* * * **
2761828 AATATAGGAAGATAGGATCTGCTACCTTCGAT
1 AATACAGGAAGACAAGATCTGCTTTCTTCGAT
2761860 GAAGACAAGA
Statistics
Matches: 199, Mismatches: 44, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
42 9 0.05
43 42 0.21
44 108 0.54
45 40 0.20
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
AATACAGGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCACC
Found at i:2761817 original size:132 final size:132
Alignment explanation
Indices: 2761579--2762223 Score: 569
Period size: 132 Copynumber: 5.0 Consensus size: 132
2761569 ACAGGGACAA
** *
2761579 GATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTGCTTTCTGCAATCTAC
1 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTAC
*
2761644 TTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
2761709 AG
131 AG
* ** * *
2761711 GATCTGCTACCTTCGATCTACTTCGCGCCAATACATGAAGACAAGCTCTACTTTCTTCGATCTAC
1 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTAC
* *
2761776 TTCGCCACCAATATGGGAAGACAAGACCTGTATCTTTGATCCACTTCCTACCAATATAGGAAGAT
66 TTCGCCACCAATATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
2761841 AG
131 AG
* * * ** * ** *
2761843 GATCTGCTACCTTCGAT-GA----A-GACAAGATC-T----AC--TTTCTGCAATCT---A-CTT
1 GATCTGCTACCTTCGATCTACTTCACGCCAATA-CATGAAGACAAAATCTACTTTCTGCAATCTA
*
2761891 C---GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
65 CTTCGCCACCAATATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
2761953 TAG
130 TAG
* * *** * * * * * *
2761956 GATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
1 GATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTA
* * * * * * * * *
2762020 CTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAA
65 CTTCGCCACCAATATGGGAAGACAAGACCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
* *
2762084 GACAA
128 GATAG
** * * * * *** * *
2762089 GATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCAATCTA
1 GATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTA
** * *
2762154 CTTCGCCACCAATATGGGAAGACAAGATTTGTATCTTTGATCCACTTCCTACCAATATAGGAAGA
65 CTTCGCCACCAATATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGA
2762219 TAG
130 TAG
2762222 GA
1 GA
2762224 CCTATTTACG
Statistics
Matches: 421, Mismatches: 66, Indels: 51
0.78 0.12 0.09
Matches are distributed among these distances:
113 78 0.19
114 1 0.00
116 3 0.01
117 1 0.00
120 11 0.03
122 2 0.00
124 2 0.00
125 4 0.01
126 11 0.03
127 1 0.00
128 1 0.00
129 2 0.00
131 24 0.06
132 152 0.36
133 82 0.19
134 25 0.06
135 21 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAAATCTACTTTCTGCAATCTAC
TTCGCCACCAATATGGGAAGACAAGACCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGAT
AG
Found at i:2761943 original size:113 final size:113
Alignment explanation
Indices: 2761745--2761972 Score: 402
Period size: 113 Copynumber: 2.0 Consensus size: 113
2761735 GCGCCAATAC
* * * *
2761745 ATGAAGACAAGCTCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGACCTGTATC
1 ATGAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGACCTGCATC
*
2761810 TTTGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
66 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
*
2761858 ATGAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
1 ATGAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGACCTGCATC
2761923 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
66 TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
2761971 AT
1 AT
2761973 CTACTTCGCC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (113 bp):
ATGAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGACCTGCATC
TTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
Found at i:2761996 original size:45 final size:45
Alignment explanation
Indices: 2761860--2762218 Score: 433
Period size: 45 Copynumber: 8.1 Consensus size: 45
2761850 TACCTTCGAT
* * * *
2761860 GAAGACAAGATCTACTTTCTGCAATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
2761905 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
2761948 GAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
2761993 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
2762036 GAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
2762081 GAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * *
2762126 GAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
* * * * *
2762171 GAAGACAAGATTTG-TATCTTTGATCCACTTC-CTACCAATATAG
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
2762214 GAAGA
1 GAAGA
2762219 TAGGACCTAT
Statistics
Matches: 271, Mismatches: 39, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
43 61 0.23
44 66 0.24
45 144 0.53
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAATATGG
Found at i:2762009 original size:88 final size:88
Alignment explanation
Indices: 2761883--2762223 Score: 529
Period size: 88 Copynumber: 3.9 Consensus size: 88
2761873 ACTTTCTGCA
2761883 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAG
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAG
2761948 GAAGATAGGATCTGCTACCTTCG
66 GAAGATAGGATCTGCTACCTTCG
2761971 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAG
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAG
2762036 GAAGATAGGATCTGCTACCTTCG
66 GAAGATAGGATCTGCTACCTTCG
* * * * *
2762059 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATAT
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATAT
* * * ** * *
2762124 GGGAAGACAAGATCTGCTTTCTGCA
64 AGGAAGATAGGATCTGCTACCTTCG
* * *
2762149 ATCTACTTCGCCACCAATATGGGAAGACAAGATTTGTATCTTTGATCCACTTCCTACCAATATAG
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAG
2762214 GAAGATAGGA
66 GAAGATAGGA
2762224 CCTATTTACG
Statistics
Matches: 228, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
88 143 0.63
89 23 0.10
90 62 0.27
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (88 bp):
ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAG
GAAGATAGGATCTGCTACCTTCG
Found at i:2762108 original size:133 final size:131
Alignment explanation
Indices: 2761895--2762218 Score: 396
Period size: 133 Copynumber: 2.4 Consensus size: 131
2761885 CTACTTCGCC
* * * * *
2761895 ACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATC
1 ACCAATATAGGAAGACAAGATCTGCACCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATC
* *
2761960 TGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
66 TGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
2762025 T
131 T
* * * *
2762026 ACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGC-ACCTTCGATCCACTTC-CCACCAATATAGGAAGACAAGA
** * * * *
2762091 TCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCAATCTACT
64 TCTGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACT
*
2762156 TCGCC
128 TC-CT
* * * * * *
2762161 ACCAATATGGGAAGACAAGATTTGTATCTTTGATCCACTTCCTACCAATATAGGAAGA
1 ACCAATATAGGAAGACAAGATCTGCACCTTCGATCCACTTCCCACCAATATAGGAAGA
2762219 TAGGACCTAT
Statistics
Matches: 161, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
131 22 0.14
132 14 0.09
133 79 0.49
134 25 0.16
135 21 0.13
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (131 bp):
ACCAATATAGGAAGACAAGATCTGCACCTTCGATCCACTTCCCACCAATATAGGAAGACAAGATC
TGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
T
Found at i:2762180 original size:178 final size:176
Alignment explanation
Indices: 2761883--2762223 Score: 529
Period size: 178 Copynumber: 1.9 Consensus size: 176
2761873 ACTTTCTGCA
* * *
2761883 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAG
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTGCAATCCACTTCCCACCAATATAG
* * * *
2761948 GAAGATAGGATCTGCTACCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
66 GAAGACAAGATCTGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
2762013 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
131 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
* *
2762059 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATAT
1 ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTGCAATCCACTTC-CCACCAATAT
* ** * *
2762124 GGGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATTTGTATC
64 AGGAAGACAAGATCTGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATC
*
2762189 TTTGATCCACTTCCTACCAATATAGGAAGATAGGA
129 TTCGATCCACTTCCTACCAATATAGGAAGATAGGA
2762224 CCTATTTACG
Statistics
Matches: 148, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
176 37 0.25
177 12 0.08
178 99 0.67
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (176 bp):
ATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTGCAATCCACTTCCCACCAATATAG
GAAGACAAGATCTGCTACCTGCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCG
Found at i:2763021 original size:1 final size:1
Alignment explanation
Indices: 2763015--2763055 Score: 82
Period size: 1 Copynumber: 41.0 Consensus size: 1
2763005 GGCCTCTCCC
2763015 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2763056 AGGCAAAGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:2773681 original size:106 final size:106
Alignment explanation
Indices: 2773501--2773701 Score: 348
Period size: 106 Copynumber: 1.9 Consensus size: 106
2773491 AAGCTTTAAG
*
2773501 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
2773566 TTTTTCAAACGCGAAACATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAACATCGCCTTATTTAAAAGTTTAAAA
* *
2773607 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
* *
2773672 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAACATCGCCTTATTTA
2773702 GAAAAATTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAACATCGCCTTATTTAAAAGTTTAAAA
Done.