Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 36 of 172
Found at i:9030080 original size:21 final size:23
Alignment explanation
Indices: 9030034--9030084 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
9030024 AAGTCTCTTA
9030034 ATTTTAAAAATTTGTAAGTAATT
1 ATTTTAAAAATTTGTAAGTAATT
* *
9030057 ATTTTAAAATTTTGTTA-T-ATT
1 ATTTTAAAAATTTGTAAGTAATT
9030078 ATTTTAA
1 ATTTTAA
9030085 CTTATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
22 1 0.04
23 15 0.58
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
ATTTTAAAAATTTGTAAGTAATT
Found at i:9030091 original size:10 final size:10
Alignment explanation
Indices: 9030053--9030099 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
9030043 ATTTGTAAGT
9030053 AATTATTTTAA
1 AATTATTTT-A
9030064 AATT-TTGTTA
1 AATTATT-TTA
*
9030074 TATTATTTTA
1 AATTATTTTA
*
9030084 ACTTATTTTA
1 AATTATTTTA
9030094 AATTAT
1 AATTAT
9030100 AATAATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTATTTTA
Found at i:9041131 original size:62 final size:58
Alignment explanation
Indices: 9041017--9041149 Score: 178
Period size: 62 Copynumber: 2.2 Consensus size: 58
9041007 ATCACTTTAA
* * *
9041017 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTTAATC
1 TATTAAATTAATAGAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAATC
9041075 TTATTAAATTAATAGAATATTTATCTACAAGATAAACATTA-AGTTAAATTTAATATTAAATC
1 -TATTAAATTAATAGAATATTTA--T-CAAGATAAACATTAGA-TTAAATTTAATATTAAATC
*
9041137 TATTAAAATAATA
1 TATTAAATTAATA
9041150 TTATTTTTGG
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
59 21 0.32
61 14 0.21
62 31 0.47
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.42
Consensus pattern (58 bp):
TATTAAATTAATAGAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAATC
Found at i:9041579 original size:9 final size:9
Alignment explanation
Indices: 9041567--9041615 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
9041557 AAATTAACTA
*
9041567 AATTATCCG
1 AATTACCCG
9041576 AATTACCCG
1 AATTACCCG
*
9041585 AATTAACCG
1 AATTACCCG
9041594 AATTACCCG
1 AATTACCCG
*
9041603 AATTACCTG
1 AATTACCCG
9041612 AATT
1 AATT
9041616 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (9 bp):
AATTACCCG
Found at i:9041590 original size:27 final size:27
Alignment explanation
Indices: 9041558--9041615 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
9041548 TTTGGTTAAA
* *
9041558 AATTAACTAAATTATCCGAATTACCCG
1 AATTAACCAAATTACCCGAATTACCCG
* *
9041585 AATTAACCGAATTACCCGAATTACCTG
1 AATTAACCAAATTACCCGAATTACCCG
9041612 AATT
1 AATT
9041616 GAATCACTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTAACCAAATTACCCGAATTACCCG
Found at i:9041688 original size:21 final size:21
Alignment explanation
Indices: 9041664--9041705 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9041654 AATTAACACA
*
9041664 TAAATTATTTGTAATTTTTAT
1 TAAATTATTAGTAATTTTTAT
9041685 TAAATTATTAGTAATTTTTAT
1 TAAATTATTAGTAATTTTTAT
9041706 GATTGGGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TAAATTATTAGTAATTTTTAT
Found at i:9042611 original size:26 final size:27
Alignment explanation
Indices: 9042560--9042616 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
9042550 ACAGAGAAGC
* *
9042560 AAAACGAAAACAGGGGAGAAAGGAAAG
1 AAAAAGAAAACAGGGAAGAAAGGAAAG
9042587 AAAAAGAAAA-AGGGAAGGAAA-GAAAG
1 AAAAAGAAAACAGGGAA-GAAAGGAAAG
9042613 AAAA
1 AAAA
9042617 TTTGGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.67, C:0.04, G:0.30, T:0.00
Consensus pattern (27 bp):
AAAAAGAAAACAGGGAAGAAAGGAAAG
Found at i:9049526 original size:14 final size:15
Alignment explanation
Indices: 9049507--9049535 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9049497 TTAATTGTAA
9049507 TTAATTTGA-TTGAT
1 TTAATTTGACTTGAT
9049521 TTAATTTGACTTGAT
1 TTAATTTGACTTGAT
9049536 CAAAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.14, T:0.55
Consensus pattern (15 bp):
TTAATTTGACTTGAT
Found at i:9051846 original size:17 final size:17
Alignment explanation
Indices: 9051800--9051850 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
9051790 CAAATAAACA
9051800 AAAATATATAGAAATGAC
1 AAAAT-TATAGAAATGAC
* *
9051818 AAAATTAGAGAAATGAG
1 AAAATTATAGAAATGAC
9051835 AAACATT-TAGAAATGA
1 AAA-ATTATAGAAATGA
9051851 AAGTGGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.59, C:0.04, G:0.16, T:0.22
Consensus pattern (17 bp):
AAAATTATAGAAATGAC
Found at i:9052078 original size:20 final size:18
Alignment explanation
Indices: 9052055--9052096 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
9052045 AAATTGAGAA
*
9052055 AATTATTTAATTAGAAAGTT
1 AATTAATTAATTA-AAA-TT
9052075 AATTAATTAATTAAAATT
1 AATTAATTAATTAAAATT
9052093 AATT
1 AATT
9052097 TATAATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
AATTAATTAATTAAAATT
Found at i:9055672 original size:30 final size:30
Alignment explanation
Indices: 9055634--9055692 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
9055624 TTAAATACCC
* *
9055634 AAAATTTGAGGGATTAA-AGTGCAAATATG
1 AAAATTTGAAGGATCAATAGTGCAAATATG
*
9055663 AAAATTTTGAAGGATCAATAGTGTAAATAT
1 AAAA-TTTGAAGGATCAATAGTGCAAATAT
9055693 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.16
30 11 0.44
31 10 0.40
ACGTcount: A:0.46, C:0.03, G:0.20, T:0.31
Consensus pattern (30 bp):
AAAATTTGAAGGATCAATAGTGCAAATATG
Found at i:9058260 original size:9 final size:9
Alignment explanation
Indices: 9058243--9058273 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9058233 TCGAGTTGAT
9058243 TCGAATAAC
1 TCGAATAAC
*
9058252 TCGATTAAC
1 TCGAATAAC
9058261 TCGAATAAC
1 TCGAATAAC
9058270 TCGA
1 TCGA
9058274 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:9059016 original size:57 final size:57
Alignment explanation
Indices: 9058903--9059102 Score: 276
Period size: 57 Copynumber: 3.4 Consensus size: 57
9058893 AATTGACGGT
*
9058903 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATAAGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGAT-C--T--TGATATAGCCCTCCCGAAGAATATGTGTG
* *
9058966 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCAAAGAATATGTATG
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
*
9059023 AAAAAGATCTAGCCCGAACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTG-G
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
* *
9059079 AAAATGGATTTAGCCCGGACGGGT
1 AAAA-AGATCTAGCCCGGACGGGT
9059103 AATCCAAATT
Statistics
Matches: 127, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
56 5 0.04
57 94 0.74
59 1 0.01
61 1 0.01
62 21 0.17
63 5 0.04
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
Found at i:9059337 original size:67 final size:67
Alignment explanation
Indices: 9059229--9059360 Score: 237
Period size: 67 Copynumber: 2.0 Consensus size: 67
9059219 GTTTATATTA
*
9059229 CAGGGGATTTAGCCTGAACTAGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGAACTAGTAATCCCACTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
9059294 TG
66 TG
* *
9059296 CAGGGGATTTAGCCTGGACTAGTAATCCCACTGTAAGAAATGAGGTTTGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGAACTAGTAATCCCACTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
9059361 GAATTGGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (67 bp):
CAGGGGATTTAGCCTGAACTAGTAATCCCACTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
TG
Found at i:9060637 original size:45 final size:44
Alignment explanation
Indices: 9060572--9060705 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 44
9060562 AATACCATGA
* *
9060572 TTGAAAGATATCT-TGACATTATACTCGAAATGAAAAAGACCATAG
1 TTGAAAGATA-CTATGGCATTATAC-CGAAATGAATAAGACCATAG
* * * ** *
9060617 TTGAAAGATACTATGGCATTAAACCGGAACGGGTAAGACCCTAG
1 TTGAAAGATACTATGGCATTATACCGAAATGAATAAGACCATAG
*
9060661 TTGAAAGATACTACGGCATTATACCGAAAAATGAATAAGACCATA
1 TTGAAAGATACTATGGCATTATACCG--AAATGAATAAGACCATA
9060706 TGATACGAGC
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
44 40 0.56
45 19 0.27
46 12 0.17
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.23
Consensus pattern (44 bp):
TTGAAAGATACTATGGCATTATACCGAAATGAATAAGACCATAG
Found at i:9068315 original size:19 final size:19
Alignment explanation
Indices: 9068268--9068316 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
9068258 GTGACCCCTA
9068268 TTTTCAAAATTTTCTAATTT
1 TTTTC-AAATTTTCTAATTT
* *
9068288 TTTTAAAATTTTCT-CTTT
1 TTTTCAAATTTTCTAATTT
9068306 TGTTTCAAATT
1 T-TTTCAAATT
9068317 AGCCCCTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 17 0.68
20 4 0.16
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTCAAATTTTCTAATTT
Found at i:9081312 original size:30 final size:30
Alignment explanation
Indices: 9081271--9081338 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
9081261 CCTGACAACT
*
9081271 CAATTCTCCGATCTTACACCAAGAAGCTCC
1 CAATCCTCCGATCTTACACCAAGAAGCTCC
9081301 CAATCCTCCGATCTTACACCAAGAAGCTCC
1 CAATCCTCCGATCTTACACCAAGAAGCTCC
9081331 CAATCCTC
1 CAATCCTC
9081339 TCTCTAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.29, C:0.40, G:0.09, T:0.22
Consensus pattern (30 bp):
CAATCCTCCGATCTTACACCAAGAAGCTCC
Found at i:9090074 original size:15 final size:16
Alignment explanation
Indices: 9090054--9090087 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9090044 GCAGGTATCG
*
9090054 ATACTTTGT-GAAAGT
1 ATACTTTGTAAAAAGT
9090069 ATACTTTGTAAAAAGT
1 ATACTTTGTAAAAAGT
9090085 ATA
1 ATA
9090088 GATACTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (16 bp):
ATACTTTGTAAAAAGT
Found at i:9090094 original size:20 final size:20
Alignment explanation
Indices: 9090069--9090132 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
9090059 TTGTGAAAGT
**
9090069 ATACTTTGTAAAAAGTATAG
1 ATACTTTGTGCAAAGTATAG
*
9090089 ATACTTGGTGCAAAGTATAG
1 ATACTTTGTGCAAAGTATAG
* *
9090109 ATATTTTGTGCAAAGTATCG
1 ATACTTTGTGCAAAGTATAG
9090129 ATAC
1 ATAC
9090133 CTTGACTTGG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
ATACTTTGTGCAAAGTATAG
Found at i:9094517 original size:16 final size:15
Alignment explanation
Indices: 9094498--9094552 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 15
9094488 AGAAAACAAA
9094498 AGAAAAAAAGAGGAAG
1 AGAAAAAAA-AGGAAG
9094514 AGAAAAAAAAGGAAAG
1 AGAAAAAAAAGG-AAG
9094530 ACGATAAAAAAAGAGAA-
1 A-GA-AAAAAAAG-GAAG
9094547 AGAAAA
1 AGAAAA
9094553 GGCGAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
15 6 0.17
16 15 0.43
17 3 0.09
18 10 0.29
19 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (15 bp):
AGAAAAAAAAGGAAG
Found at i:9094547 original size:19 final size:17
Alignment explanation
Indices: 9094500--9094549 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
9094490 AAAACAAAAG
*
9094500 AAAAAAAGAGGAAGAGA
1 AAAAAAAGAGAAAGAGA
9094517 AAAAAAAG-GAAAGACGA
1 AAAAAAAGAGAAAGA-GA
9094534 TAAAAAAAGAGAAAGA
1 -AAAAAAAGAGAAAGA
9094550 AAAGGCGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 5 0.17
17 10 0.34
18 8 0.28
19 6 0.21
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (17 bp):
AAAAAAAGAGAAAGAGA
Found at i:9097328 original size:18 final size:17
Alignment explanation
Indices: 9097277--9097333 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
9097267 CAATTTAATT
* *
9097277 TTTTTTCTTTTATGTGC
1 TTTTTTCTTTTATTTTC
* *
9097294 TTTTTAACTTTTTTTTTC
1 TTTTT-TCTTTTATTTTC
9097312 TTTTTTCTTTTCATTTTC
1 TTTTTTCTTTT-ATTTTC
9097330 TTTT
1 TTTT
9097334 GCTTTTCCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 10 0.31
18 22 0.69
ACGTcount: A:0.07, C:0.12, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTTTTCTTTTATTTTC
Found at i:9097784 original size:22 final size:22
Alignment explanation
Indices: 9097759--9097801 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9097749 AGAAATTATT
9097759 TTTTTCCTTATTTATAAATAAC
1 TTTTTCCTTATTTATAAATAAC
** *
9097781 TTTTTTTTTATTTATAGATAA
1 TTTTTCCTTATTTATAAATAA
9097802 AATTTTTTTA
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:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTCCTTATTTATAAATAAC
Found at i:9097807 original size:22 final size:22
Alignment explanation
Indices: 9097766--9097810 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9097756 ATTTTTTTCC
**
9097766 TTATTTATAAATAACTTTTTTT
1 TTATTTATAAATAAAATTTTTT
*
9097788 TTATTTATAGATAAAATTTTTT
1 TTATTTATAAATAAAATTTTTT
9097810 T
1 T
9097811 AGTTGAACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TTATTTATAAATAAAATTTTTT
Found at i:9103006 original size:17 final size:17
Alignment explanation
Indices: 9102976--9103033 Score: 93
Period size: 17 Copynumber: 3.5 Consensus size: 17
9102966 CCTTAAATCT
9102976 CATAT-TTT-TGATACC
1 CATATCTTTCTGATACC
9102991 CATATCTTTCTGATACC
1 CATATCTTTCTGATACC
*
9103008 TATATCTTTCTGATACC
1 CATATCTTTCTGATACC
9103025 CATATCTTT
1 CATATCTTT
9103034 GACTTTCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.13
16 3 0.08
17 31 0.79
ACGTcount: A:0.24, C:0.24, G:0.05, T:0.47
Consensus pattern (17 bp):
CATATCTTTCTGATACC
Found at i:9106589 original size:17 final size:17
Alignment explanation
Indices: 9106567--9106616 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
9106557 TCTCAGGTTT
9106567 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
9106584 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
9106601 TGATACCCATATCTTT
1 TGATACCCATATCTTT
9106617 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:9107947 original size:34 final size:33
Alignment explanation
Indices: 9107909--9107985 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 33
9107899 GTTTTAGGGG
9107909 TTTTAAATAAATAAATAAAATCAGGGTTTAGATT
1 TTTTAAATAAATAAATAAAATCAGGGTTTAG-TT
* * *
9107943 TTTTAAGA-AAATTAATTAAATTAGGGTTTAGTT
1 TTTTAA-ATAAATAAATAAAATCAGGGTTTAGTT
9107976 TTTTAAATAA
1 TTTTAAATAA
9107986 TTTTGTGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
32 1 0.03
33 10 0.26
34 26 0.68
35 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (33 bp):
TTTTAAATAAATAAATAAAATCAGGGTTTAGTT
Found at i:9108314 original size:126 final size:125
Alignment explanation
Indices: 9108038--9108559 Score: 697
Period size: 125 Copynumber: 4.2 Consensus size: 125
9108028 AAGGATTTTA
* * ** * * *
9108038 TTTTTTTTACAGTAGTTCCTAAAAAAATTTTTTTAAGAAGATGGTTCTAAAAAAATAGTTTCAAA
1 TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAA
* * * * * *
9108103 AACGCTTCAAGCAGGATGTATTGTCA-CAAAATTACTGAAAAAAGATCCCACGTGGATGC
66 AACGCTTCAAACAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * *
9108162 TCTTTTTCTATAGCAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTTTAAAAAAATAGTGTCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAA
* *
9108227 AAACGCTTCAACCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
65 AAACGCTTCAAACAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * **
9108288 TATTTTTCTACAGTAGTTTCT-AAAAAATAATTTTGAGAAGACGATTCCGAAAAAATAGTGTCAA
1 T-TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAA
* * *
9108352 AAACGCTTCAAACAAGATTCACTGTCAGCAAAATTATTGAAAAAAGCTCCCACGTGGACAC
65 AAACGCTTCAAACAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * * *
9108413 TTTTTTCTACAGTAGTTTCTGAAAAAATAATTTTGGGAAGACTGTTCTAAAATAATAGTGTCAAA
1 TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAA
* * * *
9108478 TATGCTTCAAACAAGATGCACTGTCAGCAAAATTATTGAAAAAAGCTTCCACGTGGACGC
66 AACGCTTCAAACAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
*
9108538 TTGTTTACTACAGTAGTTCCTG
1 TT-TTTTCTACAGTAGTTCCTG
9108560 TTTGACCTTA
Statistics
Matches: 353, Mismatches: 41, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
124 20 0.06
125 268 0.76
126 65 0.18
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (125 bp):
TTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAA
AACGCTTCAAACAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
Found at i:9111870 original size:18 final size:18
Alignment explanation
Indices: 9111844--9111886 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9111834 GAGTGGAAAA
* *
9111844 AGGAAACATATAAAGGTT
1 AGGATACATATAAAGGCT
*
9111862 AGGATACATATAAGGGCT
1 AGGATACATATAAAGGCT
9111880 AGGATAC
1 AGGATAC
9111887 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:9113451 original size:25 final size:24
Alignment explanation
Indices: 9113414--9113465 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
9113404 ACTGTTATAA
*
9113414 AAAATTATAAAAT-AAAAATGAATT
1 AAAATTACAAAATGAAAAA-GAATT
*
9113438 AAAATTACATAAATGAAAAAGTATT
1 AAAATTACA-AAATGAAAAAGAATT
9113463 AAA
1 AAA
9113466 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 11 0.46
26 5 0.21
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAGAATT
Found at i:9118037 original size:31 final size:34
Alignment explanation
Indices: 9117995--9118074 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 34
9117985 CATTTAATTA
*
9117995 ATTTTTTAAAATTTTAAAAA-TA-AAAAAA-AAT
1 ATTTTTAAAAATTTTAAAAAGTATAAAAAATAAT
*
9118026 ATTTTTAAAAA--TTAAAAAGTATAAAAAATATT
1 ATTTTTAAAAATTTTAAAAAGTATAAAAAATAAT
* *
9118058 ATTTTTAATATTTTTAA
1 ATTTTTAAAAATTTTAA
9118075 CTTAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 7 0.17
30 2 0.05
31 16 0.40
32 11 0.28
34 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (34 bp):
ATTTTTAAAAATTTTAAAAAGTATAAAAAATAAT
Found at i:9118041 original size:29 final size:33
Alignment explanation
Indices: 9117993--9118065 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 33
9117983 AACATTTAAT
*
9117993 TAAT-TTTTTAAAATTTTAAAAA-TA-AAAAAA
1 TAATATTTTTAAAATATTAAAAAGTATAAAAAA
9118023 -AATATTTTTAAAA-ATTAAAAAGTATAAAAAA
1 TAATATTTTTAAAATATTAAAAAGTATAAAAAA
*
9118054 TATTATTTTTAA
1 TAATATTTTTAA
9118066 TATTTTTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 10 0.27
30 11 0.30
31 6 0.16
32 10 0.27
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (33 bp):
TAATATTTTTAAAATATTAAAAAGTATAAAAAA
Found at i:9123136 original size:28 final size:28
Alignment explanation
Indices: 9123104--9123170 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
9123094 CGTCAGGCGT
9123104 GGGCAAGGAATCAAAGTCTTTGAGTAAA
1 GGGCAAGGAATCAAAGTCTTTGAGTAAA
9123132 GGGCAAGGAATCAAAGTCTTTGAGTAAA
1 GGGCAAGGAATCAAAGTCTTTGAGTAAA
*
9123160 GGAGAAAGGAA
1 GG-GCAAGGAA
9123171 GAATGGAGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 30 0.81
29 7 0.19
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (28 bp):
GGGCAAGGAATCAAAGTCTTTGAGTAAA
Found at i:9127182 original size:7 final size:6
Alignment explanation
Indices: 9127131--9127165 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
9127121 TTAAAATTAA
*
9127131 AAAAAT GAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
9127166 GTCTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:9127457 original size:5 final size:6
Alignment explanation
Indices: 9127441--9127466 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9127431 AATAATTTAT
9127441 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
9127467 TTTAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:9128464 original size:11 final size:12
Alignment explanation
Indices: 9128448--9128476 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9128438 AATTTGTGTG
9128448 TTATAAAAA-TA
1 TTATAAAAAGTA
9128459 TTATAAAAAGTA
1 TTATAAAAAGTA
9128471 TTATAA
1 TTATAA
9128477 TATATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
TTATAAAAAGTA
Found at i:9128475 original size:23 final size:25
Alignment explanation
Indices: 9128448--9128494 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9128438 AATTTGTGTG
9128448 TTATAA-AAATAT-TATAAAAAGTA
1 TTATAATAAATATATATAAAAAGTA
* *
9128471 TTATAATATATTTATATAAAAAGT
1 TTATAATAAATATATATAAAAAGT
9128495 TATGACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 4 0.20
25 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
TTATAATAAATATATATAAAAAGTA
Found at i:9129338 original size:5 final size:5
Alignment explanation
Indices: 9129330--9129360 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
9129320 GAGATGGAAT
9129330 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
9129361 ATATTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:9129911 original size:16 final size:16
Alignment explanation
Indices: 9129869--9129920 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 16
9129859 GGGTGAGAAG
9129869 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTT-GGGGG--AA
9129888 TAAAAAGTTTGGGGGAA
1 T-AAAAGTTTGGGGGAA
*
9129905 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGGGGGAA
9129921 AGTAAATAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 14 0.45
17 3 0.10
19 6 0.19
20 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (16 bp):
TAAAAGTTTGGGGGAA
Found at i:9136056 original size:8 final size:8
Alignment explanation
Indices: 9136045--9136075 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
9136035 AAAAATTTTA
9136045 AAAATTCC
1 AAAATTCC
9136053 AAAATTCC
1 AAAATTCC
9136061 AAAATTCC
1 AAAATTCC
9136069 AAAATTC
1 AAAATTC
9136076 ATTTTTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAATTCC
Found at i:9136264 original size:21 final size:22
Alignment explanation
Indices: 9136228--9136268 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9136218 ATTTTTATAT
*
9136228 ATTTTTAATATCTTTATTTTTA
1 ATTTTTAATATATTTATTTTTA
9136250 ATTTTTAATA-ATTTATTTT
1 ATTTTTAATATATTTATTTT
9136269 CTTTGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTTTAATATATTTATTTTTA
Found at i:9136562 original size:32 final size:31
Alignment explanation
Indices: 9136496--9136563 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 31
9136486 ATTAAAACCA
* *
9136496 TTTTTATTTTTTAAAATTTAAGGAGTTTTAAT
1 TTTTTATTTTTTAAAAATTAA-GAATTTTAAT
*
9136528 TTTTTATTTTTTAAAAAAATTAA-AATTTTCAT
1 TTTTTATTTTTT--AAAAATTAAGAATTTTAAT
9136560 TTTT
1 TTTT
9136564 ATGTTCTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 23 0.74
34 8 0.26
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (31 bp):
TTTTTATTTTTTAAAAATTAAGAATTTTAAT
Found at i:9139434 original size:20 final size:21
Alignment explanation
Indices: 9139401--9139439 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9139391 CAGCATCGAT
9139401 TCTGTAAGTGTTTT-AAAAAC
1 TCTGTAAGTGTTTTGAAAAAC
9139421 TCTGATAAGT-TTTTGAAAA
1 TCTG-TAAGTGTTTTGAAAA
9139440 TATGAGTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (21 bp):
TCTGTAAGTGTTTTGAAAAAC
Found at i:9143761 original size:22 final size:22
Alignment explanation
Indices: 9143717--9143761 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9143707 TTAAGTGACT
* *
9143717 AAAATTGGTTTTCGGATGGTCG
1 AAAATAGGTTTTCGGATGCTCG
9143739 AAAATAGGTTTT-GGAGTGCTCG
1 AAAATAGGTTTTCGGA-TGCTCG
9143761 A
1 A
9143762 GGATCGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.27, C:0.09, G:0.31, T:0.33
Consensus pattern (22 bp):
AAAATAGGTTTTCGGATGCTCG
Found at i:9148024 original size:11 final size:12
Alignment explanation
Indices: 9148008--9148036 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9147998 AATTTGCTTG
9148008 TTATAAAAA-TA
1 TTATAAAAAGTA
9148019 TTATAAAAAGTA
1 TTATAAAAAGTA
9148031 TTATAA
1 TTATAA
9148037 TATACTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
TTATAAAAAGTA
Found at i:9148057 original size:23 final size:23
Alignment explanation
Indices: 9148006--9148057 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
9147996 GTAATTTGCT
9148006 TGTTATAAAAATATTATAAAAAG
1 TGTTATAAAAATATTATAAAAAG
* *
9148029 TATTAT-AATATACTTATATAAAA-
1 TGTTATAAAAATA-TTATA-AAAAG
9148052 TGTTAT
1 TGTTAT
9148058 GACAAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (23 bp):
TGTTATAAAAATATTATAAAAAG
Found at i:9148465 original size:9 final size:9
Alignment explanation
Indices: 9148451--9148480 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
9148441 GTTAAACGAA
9148451 TCGAGTTAT
1 TCGAGTTAT
*
9148460 TCGAGTTAA
1 TCGAGTTAT
9148469 TCGAGTTAT
1 TCGAGTTAT
9148478 TCG
1 TCG
9148481 GATCAACTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:9148810 original size:30 final size:31
Alignment explanation
Indices: 9148776--9148835 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
9148766 AAACATTTTA
*
9148776 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
9148806 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
9148836 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:9149104 original size:9 final size:9
Alignment explanation
Indices: 9149090--9149118 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
9149080 AATTTCACAT
9149090 TTTATATTA
1 TTTATATTA
9149099 TTTATATTA
1 TTTATATTA
9149108 TTTATATTA
1 TTTATATTA
9149117 TT
1 TT
9149119 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:9149711 original size:30 final size:30
Alignment explanation
Indices: 9149675--9149735 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
9149665 TACACGAAAC
9149675 TGAACCAAATTCTGTTTTGTATTTAATATT
1 TGAACCAAATTCTGTTTTGTATTTAATATT
9149705 TGAACCAAATTCTGTTTTGTATTTAATATT
1 TGAACCAAATTCTGTTTTGTATTTAATATT
9149735 T
1 T
9149736 AATTAATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.51
Consensus pattern (30 bp):
TGAACCAAATTCTGTTTTGTATTTAATATT
Found at i:9149748 original size:39 final size:39
Alignment explanation
Indices: 9149694--9149784 Score: 168
Period size: 39 Copynumber: 2.4 Consensus size: 39
9149684 TTCTGTTTTG
9149694 TATTTAA-T-ATTTGAACCAAATTCTGTTTTGTATTTAA
1 TATTTAATTAATTTGAACCAAATTCTGTTTTGTATTTAA
9149731 TATTTAATTAATTTGAACCAAATTCTGTTTTGTATTTAA
1 TATTTAATTAATTTGAACCAAATTCTGTTTTGTATTTAA
9149770 TATTTAATTAATTTG
1 TATTTAATTAATTTG
9149785 TATTTTATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 7 0.13
38 1 0.02
39 44 0.85
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.53
Consensus pattern (39 bp):
TATTTAATTAATTTGAACCAAATTCTGTTTTGTATTTAA
Found at i:9151038 original size:29 final size:29
Alignment explanation
Indices: 9150978--9151038 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
9150968 TAAATGGAAT
* *
9150978 TCTTTTTAATAATATAAGAACTAAATTGA
1 TCTTTTTAATAATAGAAGAACTAAATTAA
*
9151007 TCTTTTTAATAATAG-AGAGACTAATTTAA
1 TCTTTTTAATAATAGAAGA-ACTAAATTAA
9151036 TCT
1 TCT
9151039 AGTCCTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (29 bp):
TCTTTTTAATAATAGAAGAACTAAATTAA
Found at i:9154326 original size:39 final size:38
Alignment explanation
Indices: 9154283--9154365 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 38
9154273 TAATAAGGGT
* *
9154283 TTTTAATTATGTCATAGTTTAGGACATCTTAAATATATG
1 TTTTAAATATGTCATAGTTTA-GACATCTTAAATACATG
* * *
9154322 TTTTAAATATGTCCTAGTTTAGACGTCTTTAATACATG
1 TTTTAAATATGTCATAGTTTAGACATCTTAAATACATG
9154360 TCTTTA
1 T-TTTA
9154366 GTTCACACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 15 0.39
39 23 0.61
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (38 bp):
TTTTAAATATGTCATAGTTTAGACATCTTAAATACATG
Found at i:9155309 original size:464 final size:464
Alignment explanation
Indices: 9154441--9155368 Score: 1811
Period size: 464 Copynumber: 2.0 Consensus size: 464
9154431 CATTAAAGGG
9154441 GGAAACATGCATTTGGACGTGCATGCATGGGGGAGCTGCTGGTTGCTCTCTTCCAAGCAACCTTT
1 GGAAACATGCATTTGGACGTGCATGCATGGGGGAGCTGCTGGTTGCTCTCTTCCAAGCAACCTTT
9154506 CATGGAATGCAATGGACACAAGTGTTTTCACACTTGTCCAATCAGCTGGATGCTATGTTCAAACC
66 CATGGAATGCAATGGACACAAGTGTTTTCACACTTGTCCAATCAGCTGGATGCTATGTTCAAACC
* *
9154571 AAGTGACCATCCAATTTTAGGTTTTCACACCTTGAAGGCTGTTCGTGTGCCCTATGCAACATTGA
131 AAGTGACCATCCAATTTTAGGTTTTCAAACCTTGAAGGCTGTTCGTGTGCCCTATGCAACATTAA
9154636 AAGGGAGATGACACATTCAGCTTCCCAAGAAGGCATCAGCCATGTTCATACCATCCAAAACCGAT
196 AAGGGAGATGACACATTCAGCTTCCCAAGAAGGCATCAGCCATGTTCATACCATCCAAAACCGAT
9154701 CATCTACTCGAACAATCAGCTCAAATTAAAGGCTACACGTTTTGGCTATTTGGGGAGTGCAAATG
261 CATCTACTCGAACAATCAGCTCAAATTAAAGGCTACACGTTTTGGCTATTTGGGGAGTGCAAATG
*
9154766 ACATGGCTATTGGCATCACCTATGCATGGGAGTCTTCAAAAGCCACGTAGAATAGCTCAATGGTT
326 ACATGGCTATTGGCATCACCTATGCATAGGAGTCTTCAAAAGCCACGTAGAATAGCTCAATGGTT
9154831 ATTCAACTCAATTAAGCTGAATTAAACTAGTCCATTTGGCTGAACTTTTGTAGAGCTATAAATAC
391 ATTCAACTCAATTAAGCTGAATTAAACTAGTCCATTTGGCTGAACTTTTGTAGAGCTATAAATAC
9154896 TAAGCTCAA
456 TAAGCTCAA
9154905 GGAAACATGCATTTGGACGTGCATGCATGGGGGAGCTGCTGGTTGCTCTCTTCCAAGCAACCTTT
1 GGAAACATGCATTTGGACGTGCATGCATGGGGGAGCTGCTGGTTGCTCTCTTCCAAGCAACCTTT
9154970 CATGGAATGCAATGGACACAAGTGTTTTCACACTTGTCCAATCAGCTGGATGCTATGTTCAAACC
66 CATGGAATGCAATGGACACAAGTGTTTTCACACTTGTCCAATCAGCTGGATGCTATGTTCAAACC
9155035 AAGTGACCATCCAATTTTAGGTTTTCAAACCTTGAAGGCTGTTCGTGTGCCCTATGCAACATTAA
131 AAGTGACCATCCAATTTTAGGTTTTCAAACCTTGAAGGCTGTTCGTGTGCCCTATGCAACATTAA
9155100 AAGGGAGATGACACATTCAGCTTCCCAAGAAGGCATCAGCCATGTTCATACCATCCAAAACCGAT
196 AAGGGAGATGACACATTCAGCTTCCCAAGAAGGCATCAGCCATGTTCATACCATCCAAAACCGAT
*
9155165 CATCTACTCGAACAATCAGCTCAAATTAAAGGCTACATGTTTTGGCTATTTGGGGAGTGCAAATG
261 CATCTACTCGAACAATCAGCTCAAATTAAAGGCTACACGTTTTGGCTATTTGGGGAGTGCAAATG
*
9155230 ACATGGCTATTGGCATCACCTATGCATAGGAGTCTTCAAAAGCCACGTAGGATAGCTCAATGGTT
326 ACATGGCTATTGGCATCACCTATGCATAGGAGTCTTCAAAAGCCACGTAGAATAGCTCAATGGTT
9155295 ATTCAACTCAATTAAGCTGAATTAAACTAGTCCATTTGGCTGAACTTTTGTAGAGCTATAAATAC
391 ATTCAACTCAATTAAGCTGAATTAAACTAGTCCATTTGGCTGAACTTTTGTAGAGCTATAAATAC
9155360 TAAGCTCAA
456 TAAGCTCAA
9155369 ATATTGTATT
Statistics
Matches: 459, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
464 459 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (464 bp):
GGAAACATGCATTTGGACGTGCATGCATGGGGGAGCTGCTGGTTGCTCTCTTCCAAGCAACCTTT
CATGGAATGCAATGGACACAAGTGTTTTCACACTTGTCCAATCAGCTGGATGCTATGTTCAAACC
AAGTGACCATCCAATTTTAGGTTTTCAAACCTTGAAGGCTGTTCGTGTGCCCTATGCAACATTAA
AAGGGAGATGACACATTCAGCTTCCCAAGAAGGCATCAGCCATGTTCATACCATCCAAAACCGAT
CATCTACTCGAACAATCAGCTCAAATTAAAGGCTACACGTTTTGGCTATTTGGGGAGTGCAAATG
ACATGGCTATTGGCATCACCTATGCATAGGAGTCTTCAAAAGCCACGTAGAATAGCTCAATGGTT
ATTCAACTCAATTAAGCTGAATTAAACTAGTCCATTTGGCTGAACTTTTGTAGAGCTATAAATAC
TAAGCTCAA
Found at i:9156095 original size:21 final size:21
Alignment explanation
Indices: 9156069--9156111 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9156059 CACCAATATC
*
9156069 AATTCCTACCTTTTGCAATGA
1 AATTCCTACCCTTTGCAATGA
9156090 AATTCCTACCCTTTGCAATGA
1 AATTCCTACCCTTTGCAATGA
9156111 A
1 A
9156112 GGTATTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (21 bp):
AATTCCTACCCTTTGCAATGA
Found at i:9161066 original size:39 final size:38
Alignment explanation
Indices: 9160947--9161105 Score: 135
Period size: 38 Copynumber: 4.1 Consensus size: 38
9160937 AGTTTAAGTC
* **
9160947 TTTAATTATGTCTTAATTTGAACATAATTAATATGA-GT
1 TTTAATTATGTCATAATTTGAACATCTTTAATAT-ATGT
* *
9160985 TTTAATTATGTCATAATCTGAACATCTTTAATA-AGGGTT
1 TTTAATTATGTCATAATTTGAACATCTTTAATATA-TG-T
* *
9161024 TTTAATTATGTCATAATTTAAGACATCTTAAATATATGT
1 TTTAATTATGTCATAATTTGA-ACATCTTTAATATATGT
* * * * *
9161063 TTTAAATATGTCCTAGTTT-AGACGTCTTTAATACATGT
1 TTTAATTATGTCATAATTTGA-ACATCTTTAATATATGT
9161101 CTTTA
1 -TTTA
9161106 GTTTAGACCA
Statistics
Matches: 101, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.01
38 46 0.46
39 41 0.41
40 12 0.12
41 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (38 bp):
TTTAATTATGTCATAATTTGAACATCTTTAATATATGT
Found at i:9168513 original size:23 final size:23
Alignment explanation
Indices: 9168468--9168511 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
9168458 AAAAATTATA
9168468 ATTTTTTAAAAATTTTAAAAAAT
1 ATTTTTTAAAAATTTTAAAAAAT
9168491 ATTTTTT-AAAATTTTAAAAAA
1 ATTTTTTAAAAATTTTAAAAAA
9168512 ATGAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTTTTAAAAATTTTAAAAAAT
Found at i:9177324 original size:31 final size:34
Alignment explanation
Indices: 9177282--9177361 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 34
9177272 CATTTAATTA
*
9177282 ATTTTTTAAAATTTTAAAAA-TA-AAAAAA-AAT
1 ATTTTTAAAAATTTTAAAAAGTATAAAAAATAAT
*
9177313 ATTTTTAAAAA--TTAAAAAGTATAAAAAATATT
1 ATTTTTAAAAATTTTAAAAAGTATAAAAAATAAT
* *
9177345 ATTTTTAATATTTTTAA
1 ATTTTTAAAAATTTTAA
9177362 CTTAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 7 0.17
30 2 0.05
31 16 0.40
32 11 0.28
34 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (34 bp):
ATTTTTAAAAATTTTAAAAAGTATAAAAAATAAT
Found at i:9177328 original size:29 final size:33
Alignment explanation
Indices: 9177280--9177352 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 33
9177270 AACATTTAAT
*
9177280 TAAT-TTTTTAAAATTTTAAAAA-TA-AAAAAA
1 TAATATTTTTAAAATATTAAAAAGTATAAAAAA
9177310 -AATATTTTTAAAA-ATTAAAAAGTATAAAAAA
1 TAATATTTTTAAAATATTAAAAAGTATAAAAAA
*
9177341 TATTATTTTTAA
1 TAATATTTTTAA
9177353 TATTTTTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 10 0.27
30 11 0.30
31 6 0.16
32 10 0.27
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (33 bp):
TAATATTTTTAAAATATTAAAAAGTATAAAAAA
Found at i:9182421 original size:28 final size:28
Alignment explanation
Indices: 9182389--9182455 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
9182379 CGTCAGGCGT
9182389 GGGCAAGGAATCAAAGTCTTTGAGTAAA
1 GGGCAAGGAATCAAAGTCTTTGAGTAAA
9182417 GGGCAAGGAATCAAAGTCTTTGAGTAAA
1 GGGCAAGGAATCAAAGTCTTTGAGTAAA
*
9182445 GGAGAAAGGAA
1 GG-GCAAGGAA
9182456 GAATGGAGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 30 0.81
29 7 0.19
ACGTcount: A:0.42, C:0.09, G:0.31, T:0.18
Consensus pattern (28 bp):
GGGCAAGGAATCAAAGTCTTTGAGTAAA
Found at i:9186463 original size:6 final size:6
Alignment explanation
Indices: 9186414--9186447 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
9186404 TTTAAAATTA
*
9186414 AAAAAT GAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
9186448 GTCTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:9187746 original size:11 final size:12
Alignment explanation
Indices: 9187730--9187758 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9187720 AATTTGTGTG
9187730 TTATAAAAA-TA
1 TTATAAAAAGTA
9187741 TTATAAAAAGTA
1 TTATAAAAAGTA
9187753 TTATAA
1 TTATAA
9187759 TATATTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
TTATAAAAAGTA
Found at i:9187757 original size:23 final size:25
Alignment explanation
Indices: 9187730--9187776 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9187720 AATTTGTGTG
9187730 TTATAA-AAATAT-TATAAAAAGTA
1 TTATAATAAATATATATAAAAAGTA
* *
9187753 TTATAATATATTTATATAAAAAGT
1 TTATAATAAATATATATAAAAAGT
9187777 TATGACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 4 0.20
25 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
TTATAATAAATATATATAAAAAGTA
Found at i:9188620 original size:5 final size:5
Alignment explanation
Indices: 9188612--9188642 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
9188602 GAGATGGAAT
9188612 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
9188643 ATATTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:9189191 original size:16 final size:16
Alignment explanation
Indices: 9189149--9189200 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 16
9189139 GGGTGAGAAG
9189149 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTT-GGGGG--AA
9189168 TAAAAAGTTTGGGGGAA
1 T-AAAAGTTTGGGGGAA
*
9189185 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGGGGGAA
9189201 AGTAAATAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 14 0.45
17 3 0.10
19 6 0.19
20 8 0.26
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (16 bp):
TAAAAGTTTGGGGGAA
Found at i:9196488 original size:11 final size:12
Alignment explanation
Indices: 9196472--9196500 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
9196462 TAATTTGCTG
9196472 TTATAAAAA-TA
1 TTATAAAAAGTA
9196483 TTATAAAAAGTA
1 TTATAAAAAGTA
9196495 TTATAA
1 TTATAA
9196501 TATACTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (12 bp):
TTATAAAAAGTA
Found at i:9196933 original size:9 final size:9
Alignment explanation
Indices: 9196919--9196949 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9196909 GTTAAACGAA
9196919 TCGAGTTAT
1 TCGAGTTAT
*
9196928 TCGAGTTAA
1 TCGAGTTAT
9196937 TCGAGTTAT
1 TCGAGTTAT
9196946 TCGA
1 TCGA
9196950 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:9197556 original size:9 final size:9
Alignment explanation
Indices: 9197542--9197570 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
9197532 AATTTCACAT
9197542 TTTATATTA
1 TTTATATTA
9197551 TTTATATTA
1 TTTATATTA
9197560 TTTATATTA
1 TTTATATTA
9197569 TT
1 TT
9197571 GAATTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATATTA
Found at i:9197612 original size:17 final size:17
Alignment explanation
Indices: 9197542--9197612 Score: 63
Period size: 18 Copynumber: 4.1 Consensus size: 17
9197532 AATTTCACAT
* *
9197542 TTTATATTATTTATATTA
1 TTTATAATATTGA-ATTA
* *
9197560 TTTATATTATTGAATTG
1 TTTATAATATTGAATTA
*
9197577 TTTAGTCATATTGAA-TA
1 TTTA-TAATATTGAATTA
*
9197594 TTTATAAAATTGAATTA
1 TTTATAATATTGAATTA
9197611 TT
1 TT
9197613 AATTATGCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
16 8 0.18
17 16 0.36
18 20 0.45
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.56
Consensus pattern (17 bp):
TTTATAATATTGAATTA
Found at i:9198158 original size:30 final size:30
Alignment explanation
Indices: 9198122--9198182 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
9198112 TACACGAAAC
9198122 TGAACCAAATTCTGTTTTGTATTTAATATT
1 TGAACCAAATTCTGTTTTGTATTTAATATT
9198152 TGAACCAAATTCTGTTTTGTATTTAATATT
1 TGAACCAAATTCTGTTTTGTATTTAATATT
9198182 T
1 T
9198183 AATTAATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.51
Consensus pattern (30 bp):
TGAACCAAATTCTGTTTTGTATTTAATATT
Found at i:9198218 original size:38 final size:39
Alignment explanation
Indices: 9198141--9198230 Score: 159
Period size: 38 Copynumber: 2.4 Consensus size: 39
9198131 TTCTGTTTTG
9198141 TATTTAA-T-ATTTGAACCAAATTCTGTTTTGTATTTAA
1 TATTTAATTAATTTGAACCAAATTCTGTTTTGTATTTAA
9198178 TATTTAATTAATTTGAACCAAATTCTG-TTTGTATTTAA
1 TATTTAATTAATTTGAACCAAATTCTGTTTTGTATTTAA
9198216 TATTTAATTAATTTG
1 TATTTAATTAATTTG
9198231 TATTTATATT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
37 7 0.14
38 27 0.53
39 17 0.33
ACGTcount: A:0.33, C:0.07, G:0.08, T:0.52
Consensus pattern (39 bp):
TATTTAATTAATTTGAACCAAATTCTGTTTTGTATTTAA
Found at i:9199481 original size:29 final size:29
Alignment explanation
Indices: 9199421--9199481 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
9199411 TAAATGGAAT
* *
9199421 TCTTTTTAATAATATAAGAACTAAATTGA
1 TCTTTTTAATAATAGAAGAACTAAATTAA
*
9199450 TCTTTTTAATAATAG-AGAGACTAATTTAA
1 TCTTTTTAATAATAGAAGA-ACTAAATTAA
9199479 TCT
1 TCT
9199482 AGTCCTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (29 bp):
TCTTTTTAATAATAGAAGAACTAAATTAA
Found at i:9201171 original size:17 final size:18
Alignment explanation
Indices: 9201149--9201186 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9201139 TTATTTTTTG
*
9201149 AAATTTTAAAAA-TTTAA
1 AAATTTTAAAAAGTATAA
9201166 AAA-TTTAAAAAGTATAA
1 AAATTTTAAAAAGTATAA
9201183 AAAT
1 AAAT
9201187 ATATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATTTTAAAAAGTATAA
Found at i:9201175 original size:7 final size:8
Alignment explanation
Indices: 9201153--9201186 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
9201143 TTTTTGAAAT
9201153 TTTAAAAA
1 TTTAAAAA
9201161 TTTAAAAA
1 TTTAAAAA
9201169 TTTAAAAA
1 TTTAAAAA
*
9201177 GTATAAAAA
1 -TTTAAAAA
9201186 T
1 T
9201187 ATATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (8 bp):
TTTAAAAA
Found at i:9210678 original size:14 final size:15
Alignment explanation
Indices: 9210631--9210681 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
9210621 GATGTATTTA
**
9210631 TAATT-AATTTAAGC
1 TAATTAAATTTAAAT
*
9210645 TAATTAAGTTTAAAT
1 TAATTAAATTTAAAT
*
9210660 TAATTAAATTT-ACT
1 TAATTAAATTTAAAT
9210674 TAATTAAA
1 TAATTAAA
9210682 ACTTAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 15 0.48
15 16 0.52
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (15 bp):
TAATTAAATTTAAAT
Found at i:9213727 original size:40 final size:40
Alignment explanation
Indices: 9213675--9213809 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 40
9213665 AGATCAACCG
* * *
9213675 AACACACTAGACAGGAGCTCGTAAGAGCTAATCCACCCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCACCCGA
* * * **
9213715 AATATACCAGACAAAAGCTCATAAGAGCTAATCCAATCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCACCCGA
* * * *
9213755 TACACGCCAGACAGAAGCTCATAATAGCTAATACACCCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTAATCCACCCGA
*
9213795 AACACGCCAGACAGA
1 AACACACCAGACAGA
9213810 GAGTATAACA
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.42, C:0.28, G:0.16, T:0.13
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTAATCCACCCGA
Found at i:9214761 original size:28 final size:27
Alignment explanation
Indices: 9214706--9214757 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
9214696 GAAAATGCCT
9214706 TAGTTTTTTGGCAAGAACATGAAAAGA
1 TAGTTTTTTGGCAAGAACATGAAAAGA
*
9214733 TAGTTTTTTGGCAAGAACGTGAAAA
1 TAGTTTTTTGGCAAGAACATGAAAA
9214758 AGATGACGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (27 bp):
TAGTTTTTTGGCAAGAACATGAAAAGA
Found at i:9218804 original size:15 final size:15
Alignment explanation
Indices: 9218784--9218819 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
9218774 CAATTGAATC
*
9218784 ATCATTGAGACCATG
1 ATCATTGAGACCAAG
9218799 ATCATTGAGACCAAG
1 ATCATTGAGACCAAG
9218814 ATCATT
1 ATCATT
9218820 CCCTTCCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (15 bp):
ATCATTGAGACCAAG
Found at i:9222892 original size:13 final size:13
Alignment explanation
Indices: 9222825--9222947 Score: 72
Period size: 13 Copynumber: 9.4 Consensus size: 13
9222815 CATATCTATC
*
9222825 CATATAAACATTT
1 CATATAATCATTT
* * *
9222838 CTTATAAGCGCTTT
1 CATATAATC-ATTT
*
9222852 -ATATAATTATTT
1 CATATAATCATTT
*
9222864 CCATATAACTGA-TT
1 -CATATAA-TCATTT
9222878 CATATAATCATTT
1 CATATAATCATTT
* *
9222891 CATATATTCCTTT
1 CATATAATCATTT
* *
9222904 TATATAACCATTT
1 CATATAATCATTT
* *
9222917 CGA-ATAACCATCT
1 C-ATATAATCATTT
*
9222930 CATATAACCATTT
1 CATATAATCATTT
9222943 CATAT
1 CATAT
9222948 TACACATTTA
Statistics
Matches: 85, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
12 6 0.07
13 65 0.76
14 12 0.14
15 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (13 bp):
CATATAATCATTT
Found at i:9223071 original size:45 final size:44
Alignment explanation
Indices: 9223047--9223163 Score: 180
Period size: 45 Copynumber: 2.6 Consensus size: 44
9223037 ACACAATGCT
* *
9223047 ATAGTGTCTTTCAACCATGGTCTTATTCATTTCTGGTATAGTGAC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGATATAGTG-C
*
9223092 ATAGTGTCTTTCAACTATGGTCGTATTCATTTCTGATATAGTGCC
1 ATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGATATAGTG-C
*
9223137 ATAGTGTCTTTCAACTATGATCTTATT
1 ATAGTGTCTTTCAACTATGGTCTTATT
9223164 TGTTTATCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (44 bp):
ATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGATATAGTGC
Found at i:9224156 original size:22 final size:22
Alignment explanation
Indices: 9224107--9224157 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
9224097 AGTTCAGGTA
*
9224107 AGATACAAAACAGATCAAATAT
1 AGATGCAAAACAGATCAAATAT
* *
9224129 AAATGCAAAATAGATCAGAAT-T
1 AGATGCAAAACAGATCA-AATAT
9224151 AGATGCA
1 AGATGCA
9224158 GTTTCTTACC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.20
Consensus pattern (22 bp):
AGATGCAAAACAGATCAAATAT
Found at i:9225041 original size:62 final size:61
Alignment explanation
Indices: 9224886--9225053 Score: 178
Period size: 63 Copynumber: 2.7 Consensus size: 61
9224876 CATGTGATAC
* * * * * * * **
9224886 TAATTCACACACAGTGAGTTACACGGCCTAGTCACACGGC-CATGTCCTTGGCCCGTGTAACCT
1 TAATTCACAAATAGTGAGTTACAC-GCCT-GGCACAC-GCTCGTGCCCCTGGCCCATGTAACAG
9224949 TAATTCACAAATAGTGAGTTACACGACCTGGACACACGCTCGTGCCCCTGGCCCATGT-ACAG
1 TAATTCACAAATAGTGAGTTACACG-CCTGG-CACACGCTCGTGCCCCTGGCCCATGTAACAG
*
9225011 TAATTCACAAATAGTGAGTTACACAGCCTGGCACACGGTCGTG
1 TAATTCACAAATAGTGAGTTACAC-GCCTGGCACACGCTCGTG
9225054 TGGTGTCGAC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
61 11 0.12
62 35 0.38
63 45 0.49
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (61 bp):
TAATTCACAAATAGTGAGTTACACGCCTGGCACACGCTCGTGCCCCTGGCCCATGTAACAG
Found at i:9227562 original size:45 final size:45
Alignment explanation
Indices: 9227467--9227605 Score: 156
Period size: 45 Copynumber: 3.1 Consensus size: 45
9227457 CATCTATGCA
* * **
9227467 AATTCATAGAAGAAACTTCATGGAT-AAAGCAAATTCAAACATACG
1 AATTCATAGAAGAAACTTCAT-GATCATAGCAAATTCATACATGTG
* *
9227512 AATTCATAGAAGAAACTTTATGATCATAGCAAATTCATTCATGTG
1 AATTCATAGAAGAAACTTCATGATCATAGCAAATTCATACATGTG
* * **
9227557 GATTCATAAAAG-AACTTCATGATCATAGCGGATTCATACATGTAG
1 AATTCATAGAAGAAACTTCATGATCATAGCAAATTCATACATGT-G
9227602 AATT
1 AATT
9227606 GGTCGCGGAC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
44 30 0.38
45 49 0.62
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.29
Consensus pattern (45 bp):
AATTCATAGAAGAAACTTCATGATCATAGCAAATTCATACATGTG
Found at i:9233003 original size:78 final size:77
Alignment explanation
Indices: 9232859--9233003 Score: 220
Period size: 78 Copynumber: 1.9 Consensus size: 77
9232849 TGAATATTTC
*
9232859 AAATCCTAAGATTACGTTATTATGCCCCGCAAGAATGATGGTCATCAAAGCAGCAATCTTGAATT
1 AAATCCTAAGATTACGTTATTATGCCCCGCAAGAATGATGGTCATCAAAGCAACAATCTTGAATT
9232924 GATGGTGACAAA
66 GATGGTGACAAA
* * * *
9232936 AAATCCTAAGATTACGTTATTATGCTCTCGCAAGATTGATGGTCAGT-AGAGCAACAATCTTGGA
1 AAATCCTAAGATTACGTTATTATGC-CCCGCAAGAATGATGGTCA-TCAAAGCAACAATCTTGAA
9233000 TTGA
64 TTGA
9233004 CGATGAATAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
77 25 0.41
78 35 0.57
79 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (77 bp):
AAATCCTAAGATTACGTTATTATGCCCCGCAAGAATGATGGTCATCAAAGCAACAATCTTGAATT
GATGGTGACAAA
Found at i:9246597 original size:20 final size:20
Alignment explanation
Indices: 9246572--9246611 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9246562 ATAGAATTTC
*
9246572 TTAAGGATATATCAAAAATT
1 TTAAGGATATACCAAAAATT
* *
9246592 TTAAGGCTTTACCAAAAATT
1 TTAAGGATATACCAAAAATT
9246612 CTAAAGGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
TTAAGGATATACCAAAAATT
Found at i:9247064 original size:21 final size:20
Alignment explanation
Indices: 9247018--9247077 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 20
9247008 ACTTGTAAAA
*
9247018 GATTTATCAATATTTCTAAG
1 GATTTAACAATATTTCTAAG
* * *
9247038 GCTTTACCAAAATTTCTGAAG
1 GATTTAACAATATTTCT-AAG
9247059 GATTTAACAATATTTCTAA
1 GATTTAACAATATTTCTAA
9247078 AAGTTGACCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (20 bp):
GATTTAACAATATTTCTAAG
Found at i:9247088 original size:41 final size:40
Alignment explanation
Indices: 9247015--9247103 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 40
9247005 AATACTTGTA
* * *
9247015 AAAGATTTATCAATATTTCTAAGGCTTTACCAAAATTTCT
1 AAAGATTTAACAATATTTCTAAAGCTTGACCAAAATTTCT
* *
9247055 GAAGGATTTAACAATATTTCTAAAAG-TTGACCAATATTTCT
1 -AAAGATTTAACAATATTTCT-AAAGCTTGACCAAAATTTCT
9247096 AAAGATTT
1 AAAGATTT
9247104 CCCTAGTCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 7 0.17
41 31 0.76
42 3 0.07
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (40 bp):
AAAGATTTAACAATATTTCTAAAGCTTGACCAAAATTTCT
Found at i:9247242 original size:20 final size:20
Alignment explanation
Indices: 9247217--9247255 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9247207 TGGTATAACT
9247217 TTAGTAAATCTTTAAAAATA
1 TTAGTAAATCTTTAAAAATA
*
9247237 TTAGTAAATTTTTAAAAAT
1 TTAGTAAATCTTTAAAAAT
9247256 TTTGATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAGTAAATCTTTAAAAATA
Found at i:9254219 original size:18 final size:19
Alignment explanation
Indices: 9254198--9254249 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
9254188 TTTTTAAAAA
9254198 TATAAAT-TTTTGAATTTT
1 TATAAATATTTTGAATTTT
9254216 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
9254234 TAAAAATTATTTTGAA
1 TATAAA-TATTTTGAA
9254250 ACGTTGAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:9254507 original size:17 final size:20
Alignment explanation
Indices: 9254485--9254540 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
9254475 TTGTATTTAT
9254485 TATTTAA-AA-TTT-TGATG
1 TATTTAATAAGTTTATGATG
*
9254502 TATTTAATAAGTTTATGCTG
1 TATTTAATAAGTTTATGATG
**
9254522 TATTT-ATATTTTTATGATG
1 TATTTAATAAGTTTATGATG
9254541 GTTTAAACAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.22
18 2 0.06
19 14 0.44
20 9 0.28
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.55
Consensus pattern (20 bp):
TATTTAATAAGTTTATGATG
Found at i:9262027 original size:20 final size:18
Alignment explanation
Indices: 9262004--9262053 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
9261994 TAATAGATGC
9262004 ATTTAAAATTATTGATGTTA
1 ATTTAAAATTATT-AT-TTA
9262024 ATTTAAAATT-TTATTTA
1 ATTTAAAATTATTATTTA
*
9262041 TTTATAAAATTAT
1 ATT-TAAAATTAT
9262054 CATAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.19
18 9 0.33
19 3 0.11
20 10 0.37
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
ATTTAAAATTATTATTTA
Found at i:9262314 original size:17 final size:19
Alignment explanation
Indices: 9262278--9262314 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
9262268 TTATATAAAT
*
9262278 AAATATAAATTTGGAAAAA
1 AAATATAAATTTGAAAAAA
9262297 AAAT-TAAA-TTGAAAAAA
1 AAATATAAATTTGAAAAAA
9262314 A
1 A
9262315 TACCCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (19 bp):
AAATATAAATTTGAAAAAA
Found at i:9262923 original size:12 final size:12
Alignment explanation
Indices: 9262906--9262953 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
9262896 AAAATTTACT
9262906 AAAAATTATAAA
1 AAAAATTATAAA
*
9262918 AAAAATTGT-AA
1 AAAAATTATAAA
*
9262929 AAAAA-TAAAAA
1 AAAAATTATAAA
9262940 TAAAAATTATAAA
1 -AAAAATTATAAA
9262953 A
1 A
9262954 TTTCAACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
10 1 0.03
11 9 0.31
12 14 0.48
13 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:9263445 original size:210 final size:212
Alignment explanation
Indices: 9263067--9263459 Score: 628
Period size: 210 Copynumber: 1.9 Consensus size: 212
9263057 CAGTGGGTAC
* * * *
9263067 TGATCCCGTTTATGATCATAATATTCAAGTGGTCTCCATGCTAGAGGTTGAGCATCAATGATAAT
1 TGATCCCGCTTATGATCATAATATTCAAGCGATCTCCATGCTAGAGATTGAGCATCAATGATAAT
* * * *
9263132 CTCATGAGTTTCCTCCATTTTAGGCTTACTTTTAAGGTTTTCTTCAACTTTTTTCCATCTTCTTA
66 CTCAAGAGTTTCCTCCATTTTAGGCTTAATTTCAAGGTTTTCTTCAACTTTTTTCCATCGTCTTA
*
9263197 TTAGATTGTTTTTCGTCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAAAGAACCATAAAT
131 TTAGATTGTTTTTCGCCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAAAGAACCATAAAT
9263262 TATATATATATGGATAT
196 TATATATATATGGATAT
* * * *
9263279 TGATCCTGCTTATGATCATAATCTTTAGGCGATCTCCATGCTAGAGATTGAGCATCAATGATAAT
1 TGATCCCGCTTATGATCATAATATTCAAGCGATCTCCATGCTAGAGATTGAGCATCAATGATAAT
*
9263344 -TCAAGAGTTTCCTCCATTTTAGGCTTAATTTCAAGGTTTTCTTTAAC-TTTTTCCATCGTCTTA
66 CTCAAGAGTTTCCTCCATTTTAGGCTTAATTTCAAGGTTTTCTTCAACTTTTTTCCATCGTCTTA
* *
9263407 TTAGATTTTTTTTGGCCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAA
131 TTAGATTGTTTTTCGCCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAA
9263460 TTAAAAATTT
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
210 65 0.39
211 43 0.26
212 57 0.35
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (212 bp):
TGATCCCGCTTATGATCATAATATTCAAGCGATCTCCATGCTAGAGATTGAGCATCAATGATAAT
CTCAAGAGTTTCCTCCATTTTAGGCTTAATTTCAAGGTTTTCTTCAACTTTTTTCCATCGTCTTA
TTAGATTGTTTTTCGCCTCAATGTTGAAGAATAAATCATTTGCTGGAGGTCAAAGAACCATAAAT
TATATATATATGGATAT
Found at i:9264787 original size:171 final size:171
Alignment explanation
Indices: 9264495--9264817 Score: 531
Period size: 171 Copynumber: 1.9 Consensus size: 171
9264485 TACCATAATT
* * *
9264495 CCAAGAGCAATACAATGACATGAAATCAATCTCCCTACCAAATGAAAACTAGAATGTGATATAGA
1 CCAAGAACAATACAATAACATGAAATCAATCTCCCTACCAAATGAAAACTAGAAGGTGATATAGA
*
9264560 CCATGTTACACTACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGTTAGCTT
66 CCATGTTACACTACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATAGCTT
*
9264625 AATTGAATTAATATTCAATAGGCCACCCAGAACATGACATC
131 AATTGAATTAACATTCAATAGGCCACCCAGAACATGACATC
* *
9264666 CCAAGAACAATACAATAACATGAAATCAATCTCCTTACCAAATGAAAACTAGAAGGTGCT-TAGA
1 CCAAGAACAATACAATAACATGAAATCAATCTCCCTACCAAATGAAAACTAGAAGGTGATATAGA
* * *
9264730 CCCTGTTGCACTAACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTTCACACCAAGATAGCT
66 CCATGTTACACT-ACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATAGCT
*
9264795 TAGTTGAATTAACATTCAATAGG
130 TAATTGAATTAACATTCAATAGG
9264818 TCTCCTAGAA
Statistics
Matches: 140, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
170 14 0.10
171 126 0.90
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.26
Consensus pattern (171 bp):
CCAAGAACAATACAATAACATGAAATCAATCTCCCTACCAAATGAAAACTAGAAGGTGATATAGA
CCATGTTACACTACCCCAATTAGAAACACTTCTTTAAGTGAAATTTCTCCACACCAAGATAGCTT
AATTGAATTAACATTCAATAGGCCACCCAGAACATGACATC
Found at i:9267865 original size:26 final size:26
Alignment explanation
Indices: 9267831--9267897 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
9267821 TGGAGAACCA
9267831 TTAACAGGAAGCTCACAAAGAGCC-T
1 TTAACAGGAAGCTCACAAAGAGCCAT
*
9267856 TTAATCAGGAAGCTCACGAAGAGCCAT
1 TTAA-CAGGAAGCTCACAAAGAGCCAT
* *
9267883 ATAACAGGACGCTCA
1 TTAACAGGAAGCTCA
9267898 TAAGAGCTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.11
26 29 0.78
27 4 0.11
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (26 bp):
TTAACAGGAAGCTCACAAAGAGCCAT
Found at i:9272374 original size:249 final size:248
Alignment explanation
Indices: 9271936--9272434 Score: 908
Period size: 249 Copynumber: 2.0 Consensus size: 248
9271926 TCATCAGATT
9271936 CAATATGGAGTAACTCACCATTCTGACATTTTAACACAATATACTTTTGTTTACAATTTACCACT
1 CAATATGGAGTAACTCACCATTCTGACATTTTAACACAATATACTTTTGTTTACAATTTACCACT
*
9272001 ACATCATGCTGAGTTAGCCAGTCTATACCCAATATTACATCAAATTCATCAAATGGCAACAACAT
66 ACATCATGATGAGTTAGCCAGTCTATACCCAATATTACATCAAATTCATCAAATGGCAACAACAT
* *
9272066 CAAATCAGCCGAGAAACAATAACCCCGTACCATTAACAGACAATTTTTACAAATTTTGTCTACCA
131 CAAATCACCCAAGAAACAATAACCCCGTACCATTAACAGACAATTTTTACAAATTTTGTCTACCA
9272131 TCACATACTAGCCCAGAGGGTTTGAAACTTTAACCACAAATTTAGTGGATTCAA
196 TCACATACTAGCCCAGAGGGTTTGAAACTTTAACCACAAATTTAGT-GATTCAA
9272185 CAATATGGAGTAACTCACCATTCTGACATTTTAACACAATATACTTTTGTTTACAATTTACCACT
1 CAATATGGAGTAACTCACCATTCTGACATTTTAACACAATATACTTTTGTTTACAATTTACCACT
*
9272250 GCATCATGATGAGTTAGCCAGTCTATACCCAATATTACATCAAATTCATCAAATGGCAACAACAT
66 ACATCATGATGAGTTAGCCAGTCTATACCCAATATTACATCAAATTCATCAAATGGCAACAACAT
* *
9272315 CAAATCACCCAAGAAATAATAACCCCGTACCATTAACGGACAATTTTTACAAATTTTGTCTACCA
131 CAAATCACCCAAGAAACAATAACCCCGTACCATTAACAGACAATTTTTACAAATTTTGTCTACCA
* * *
9272380 TCACATACTGGCCTAGAGGGTTTGAAACTTTAACTACAAATTTAGTGATTCAA
196 TCACATACTAGCCCAGAGGGTTTGAAACTTTAACCACAAATTTAGTGATTCAA
9272433 CA
1 CA
9272435 TATAAATTTT
Statistics
Matches: 241, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
248 9 0.04
249 232 0.96
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (248 bp):
CAATATGGAGTAACTCACCATTCTGACATTTTAACACAATATACTTTTGTTTACAATTTACCACT
ACATCATGATGAGTTAGCCAGTCTATACCCAATATTACATCAAATTCATCAAATGGCAACAACAT
CAAATCACCCAAGAAACAATAACCCCGTACCATTAACAGACAATTTTTACAAATTTTGTCTACCA
TCACATACTAGCCCAGAGGGTTTGAAACTTTAACCACAAATTTAGTGATTCAA
Found at i:9274959 original size:25 final size:25
Alignment explanation
Indices: 9274930--9275071 Score: 94
Period size: 25 Copynumber: 5.8 Consensus size: 25
9274920 AGCCTTCTCT
* *
9274930 TGAGCCATATAGCGGGAAGCTCATG
1 TGAGCCATATAACGGGAAGCTCATA
* * * *
9274955 TGAGCCATGTAATGGGAAGCTTATC
1 TGAGCCATATAACGGGAAGCTCATA
* * *
9274980 CGAGCTATGTAACGGGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATA
* * **
9275005 AGAGCCATA-ATCAAGAAGCTCATA
1 TGAGCCATATAACGGGAAGCTCATA
* *
9275029 TGAACCA-CTAACGGGAAGCTC-TGGA
1 TGAGCCATATAACGGGAAGCTCAT--A
*
9275054 T-AGCCATATATCGGGAAG
1 TGAGCCATATAACGGGAAG
9275072 TTCAAGCAAG
Statistics
Matches: 88, Mismatches: 25, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
23 1 0.01
24 30 0.34
25 57 0.65
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (25 bp):
TGAGCCATATAACGGGAAGCTCATA
Found at i:9275046 original size:24 final size:23
Alignment explanation
Indices: 9274989--9275049 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
9274979 CCGAGCTATG
*
9274989 TAACGGGAAGCTCATAAGAGCCA
1 TAACGGGAAGCTCATAAGAACCA
** *
9275012 TAATCAAGAAGCTCATATGAACCA
1 TAA-CGGGAAGCTCATAAGAACCA
9275036 CTAACGGGAAGCTC
1 -TAACGGGAAGCTC
9275050 TGGATAGCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 3 0.10
24 24 0.80
25 3 0.10
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (23 bp):
TAACGGGAAGCTCATAAGAACCA
Found at i:9275130 original size:25 final size:25
Alignment explanation
Indices: 9275100--9275168 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
9275090 AGTAGCTCTG
9275100 AAGAGCCATTAATAGGAAGCTCACA
1 AAGAGCCATTAATAGGAAGCTCACA
* * *
9275125 AAGAGCCTTTAATCGAGAAGCTCACG
1 AAGAGCCATTAATAG-GAAGCTCACA
*
9275151 AAGAGCCATATAACAGGA
1 AAGAGCCAT-TAATAGGA
9275169 TGGGATACTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 13 0.36
26 19 0.53
27 4 0.11
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (25 bp):
AAGAGCCATTAATAGGAAGCTCACA
Found at i:9275154 original size:26 final size:26
Alignment explanation
Indices: 9275086--9275159 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
9275076 AGCAAGCCAT
* *
9275086 ATCGAGTAGCTC-TGAAGAGCCATTA
1 ATCGAGAAGCTCACGAAGAGCCATTA
* * *
9275111 ATAG-GAAGCTCACAAAGAGCCTTTA
1 ATCGAGAAGCTCACGAAGAGCCATTA
9275136 ATCGAGAAGCTCACGAAGAGCCAT
1 ATCGAGAAGCTCACGAAGAGCCAT
9275160 ATAACAGGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 6 0.15
25 16 0.41
26 17 0.44
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
ATCGAGAAGCTCACGAAGAGCCATTA
Found at i:9278100 original size:18 final size:19
Alignment explanation
Indices: 9278048--9278100 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
9278038 TGCCAACTAT
9278048 AAAA-AATAATATTTTAATG
1 AAAATAATAATATTTTAA-G
9278067 AAAATCAATAA-A--TTAA-
1 AAAAT-AATAATATTTTAAG
9278083 AAAATAATAATATTTTAA
1 AAAATAATAATATTTTAA
9278101 TATAAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
15 5 0.17
16 6 0.21
18 8 0.28
19 4 0.14
20 1 0.03
21 5 0.17
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATAATAATATTTTAAG
Found at i:9280356 original size:28 final size:28
Alignment explanation
Indices: 9280323--9280390 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
9280313 ATAAAAAATA
* *
9280323 ACCAAAATGT-TATAACTTTTTTTTATTT
1 ACCAAAATATATATAA-ATTTTTTTATTT
9280351 ACCAAAATATATATAAATTTTTTTATTT
1 ACCAAAATATATATAAATTTTTTTATTT
9280379 ACCAAAATATAT
1 ACCAAAATATAT
9280391 CAAAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 32 0.86
29 5 0.14
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.47
Consensus pattern (28 bp):
ACCAAAATATATATAAATTTTTTTATTT
Found at i:9280476 original size:27 final size:27
Alignment explanation
Indices: 9280445--9280530 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 27
9280435 ACCTTGGTCA
* *
9280445 TGCCAAAGCCATTGGCAGCACCAAAGG
1 TGCCAAAGCCATTGGCGGCACCAATGG
* * *
9280472 TGCCAAAACCATTAGCGGTACCAATGG
1 TGCCAAAGCCATTGGCGGCACCAATGG
*
9280499 TGCCAATGCCATTGGCGGCACCAATGG
1 TGCCAAAGCCATTGGCGGCACCAATGG
9280526 TGCCA
1 TGCCA
9280531 TACTGATTGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (27 bp):
TGCCAAAGCCATTGGCGGCACCAATGG
Found at i:9280539 original size:27 final size:26
Alignment explanation
Indices: 9280455--9280546 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 26
9280445 TGCCAAAGCC
* * *
9280455 ATTGGCAGCACCAAAGGTGCCAAAAC-C
1 ATTGGCGGCACCAATGGTGCC--AACTG
* *
9280482 ATTAGCGGTACCAATGGTGCCAA-TG
1 ATTGGCGGCACCAATGGTGCCAACTG
9280507 CCATTGGCGGCACCAATGGTGCCATACTG
1 --ATTGGCGGCACCAATGGTGCCA-ACTG
9280536 ATTGGCGGCAC
1 ATTGGCGGCAC
9280547 TACTCGTATT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.04
27 48 0.91
28 1 0.02
29 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (26 bp):
ATTGGCGGCACCAATGGTGCCAACTG
Found at i:9280801 original size:3 final size:3
Alignment explanation
Indices: 9280795--9280862 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
9280785 ATTATTATTA
9280795 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
*
9280843 GTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TT
9280863 AGTATTAAGA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:9281084 original size:36 final size:35
Alignment explanation
Indices: 9281013--9281089 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
9281003 AGTTAGTTAG
* *
9281013 TTAGT-TATTATTTTTAGTAAAATTAATAATTTTA
1 TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
*
9281047 TT-GTGTATTATTTTGAGTATAAAATTATTAATATTA
1 TTAGTGTATTATTTTGAG--TAAAATTAATAATATTA
9281083 TTAGTGT
1 TTAGTGT
9281090 GTTAGTTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.06
34 13 0.36
36 17 0.47
37 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (35 bp):
TTAGTGTATTATTTTGAGTAAAATTAATAATATTA
Found at i:9286167 original size:26 final size:26
Alignment explanation
Indices: 9286131--9286182 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
9286121 CCCGTGACAA
9286131 AAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCC
*
9286157 AAGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGTTGCTAAGTGCTGATTCCCC
9286183 GACTCTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (26 bp):
AAGGGGTTGCTAAGTGCTGATTCCCC
Found at i:9286292 original size:76 final size:77
Alignment explanation
Indices: 9286157--9286374 Score: 251
Period size: 81 Copynumber: 2.8 Consensus size: 77
9286147 CTGATTCCCC
* * * ** * *
9286157 AAGGGGTTGCTAAGTGTTGATTCCCCGACTCTTTTGGTGGTTGCTAAGTGCTTATTCCACCATAT
1 AAGGGGTTGCTAAGTGCTGATTCCCTGAATC-ACTGGTGGTTGTTAAGTGCTAATTCCACCATAT
*
9286222 CATTGAATGT-GA
65 CATTGAATGTAAA
* * *
9286234 AAGGGGTTGCTAACTGCTGATTCCCTGAATCACTGATGGTTGTTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCTGAATCACTGGTGGTTGTTAAGTGCTAATTCCACCATATC
*
9286299 CTTGAATGTAAAAAA
66 ATTGAATGT---AAA
*
9286314 AATGGGGTTGCTAAGTGCTGATTCCCTGAATCACTGGTGGTT-TCTAAGTGCTAAATCCACC
1 AA-GGGGTTGCTAAGTGCTGATTCCCTGAATCACTGGTGGTTGT-TAAGTGCTAATTCCACC
9286375 GATAACAGTT
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
76 37 0.31
77 27 0.22
80 4 0.03
81 52 0.43
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGCTGATTCCCTGAATCACTGGTGGTTGTTAAGTGCTAATTCCACCATATC
ATTGAATGTAAA
Found at i:9288978 original size:15 final size:15
Alignment explanation
Indices: 9288958--9288989 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
9288948 AAAAAATATC
9288958 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
9288973 ATAATTTCTAAATTT
1 ATAATTTCTAAATTT
9288988 AT
1 AT
9288990 TAGCCGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATTTCTAAATTT
Found at i:9290214 original size:10 final size:10
Alignment explanation
Indices: 9290196--9290443 Score: 77
Period size: 10 Copynumber: 24.3 Consensus size: 10
9290186 AAAAATTACA
9290196 TTTTCTTTTC
1 TTTTCTTTTC
*
9290206 TTTTTTTTTC
1 TTTTCTTTTC
* * **
9290216 CTTCCTTCCC
1 TTTTCTTTTC
*
9290226 TCTTCTTCTTC
1 TTTTCTT-TTC
*
9290237 TTTTTTTTTTC
1 -TTTTCTTTTC
*
9290248 TTTTC--TCC
1 TTTTCTTTTC
9290256 TTTTCTTTTC
1 TTTTCTTTTC
*
9290266 TTTCCTTCTTTC
1 TTTTC-T-TTTC
*
9290278 TTTCTTTTTTC
1 TTT-TCTTTTC
* *
9290289 TTCTCCTTTCC
1 TT-TTCTTTTC
9290300 TTTTCTTCTTC
1 TTTTCTT-TTC
9290311 -TTTC-TTTC
1 TTTTCTTTTC
9290319 TTTT-TTTCTC
1 TTTTCTTT-TC
* *
9290329 TTCTCCTTTCC
1 TT-TTCTTTTC
*
9290340 TTTTCTTTCC
1 TTTTCTTTTC
*
9290350 TTCTTTCTTTCTT
1 -T-TTTCTTT-TC
*
9290363 TTTTCTTCTCC
1 TTTTCTT-TTC
*
9290374 TTTCCTTTTC
1 TTTTCTTTTC
9290384 TTCTTC-TTTC
1 TT-TTCTTTTC
9290394 -TTTCTTTT-
1 TTTTCTTTTC
*
9290402 TTTCTCTTCTCC
1 TTT-TCTT-TTC
**
9290414 TTCCCTTTTC
1 TTTTCTTTTC
*
9290424 -TTTCTTCT-
1 TTTTCTTTTC
9290432 TTTTC-TTTC
1 TTTTCTTTTC
9290441 TTT
1 TTT
9290444 CCTCTCCTTT
Statistics
Matches: 170, Mismatches: 42, Indels: 53
0.64 0.16 0.20
Matches are distributed among these distances:
8 15 0.09
9 24 0.14
10 61 0.36
11 42 0.25
12 28 0.16
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:9290278 original size:4 final size:4
Alignment explanation
Indices: 9290257--9290470 Score: 129
Period size: 4 Copynumber: 51.0 Consensus size: 4
9290247 CTTTTCTCCT
*
9290257 TTTC TTTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTT-
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC
* *
9290303 TCTTC -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC
1 T-TTC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC
*
9290349 CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC TTTC TTTC
* * * *
9290394 TTTC TTTT TTTC TCTTC -TCC TTCCC TTTTC TTTC TTCTT TTTC TTTC
1 TTTC TTTC TTTC T-TTC TTTC TT-TC -TTTC TTTC TT-TC TTTC TTTC
*
9290441 TTTCC TCTCC TTTC TTTC TTTC TTTC TTTC
1 TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC
9290471 CCTCTCCTTC
Statistics
Matches: 170, Mismatches: 16, Indels: 47
0.73 0.07 0.20
Matches are distributed among these distances:
3 18 0.11
4 104 0.61
5 36 0.21
6 12 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:9290285 original size:45 final size:39
Alignment explanation
Indices: 9290226--9290470 Score: 291
Period size: 39 Copynumber: 6.4 Consensus size: 39
9290216 CTTCCTTCCC
*
9290226 TCTTCTTC-TTCTTT-TTTTTTTCTTTTCTCCTTTTCTTT
1 TCTTCTTCTTTCTTTCTTTTTTTC-TTTCTCCTTTCCTTT
9290264 TCTTTCCTTCTTTCTTTC-TTTTTTC-TTCTCCTTTCCTTT
1 TC-TT-CTTCTTTCTTTCTTTTTTTCTTTCTCCTTTCCTTT
9290303 TCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTT
1 TCTTCTTCTTTCTTTCTTTTTTTCT-TTCTCCTTTCCTTT
9290343 TCTTTCCTTCTTTCTTTC-TTTTTTC-TTCTCCTTTCCTTT
1 TC-TT-CTTCTTTCTTTCTTTTTTTCTTTCTCCTTTCCTTT
*
9290382 TCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTCCCTTT
1 TCTTCTTCTTTCTTTCTTTTTTTCT-TTCTCCTTTCCTTT
* *
9290422 TCTTTCTTC-TT-TTTCTTTCTTTC-CTCTCCTTT-C-TT
1 TC-TTCTTCTTTCTTTCTTTTTTTCTTTCTCCTTTCCTTT
9290457 TC-T-TTCTTTCTTTC
1 TCTTCTTCTTTCTTTC
9290471 CCTCTCCTTC
Statistics
Matches: 187, Mismatches: 5, Indels: 34
0.83 0.02 0.15
Matches are distributed among these distances:
32 3 0.02
33 3 0.02
34 4 0.02
35 4 0.02
36 1 0.01
37 31 0.17
38 20 0.11
39 44 0.24
40 37 0.20
41 28 0.15
42 12 0.06
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (39 bp):
TCTTCTTCTTTCTTTCTTTTTTTCTTTCTCCTTTCCTTT
Found at i:9290308 original size:34 final size:35
Alignment explanation
Indices: 9290202--9290469 Score: 205
Period size: 37 Copynumber: 7.3 Consensus size: 35
9290192 TACATTTTCT
* *
9290202 TTTCTTT-TTTTTTCCT-TCCTTCCCTCTTCTTCTTC
1 TTTCTTTCTTTTTTCTTCTCCTTTCCT-TT-TTCTTC
*
9290237 TTT-TTT-TTTTCTT-TTCTCCTTTTCTTTTCTTTCCTTC
1 TTTCTTTCTTTT-TTCTTCTCC-TTTC-CTT-TTT-CTTC
9290274 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTC
1 TTTCTTTCTTTTTTCTTCTCCTTTCC-TTT-TTCTTC
9290311 TTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTC
1 TTTCTTTC--TTTTT-TCTTCTCCTTTCC--TT-TTT-CTTC
9290353 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTC
1 TTTCTTTCTTTTTTCTTCTCCTTTCC-TTT-TTCTTC
*
9290390 TTTCTTTCTTTTTTTCTCTTCTCC-TTCCCTTTTCTT-
1 TTTCTTTC--TTTTT-TCTTCTCCTTTCCTTTTTCTTC
* * *
9290426 TCTTCTTT-TTCTTTCTT-TCCTCTCCTTTCT-TTC
1 T-TTCTTTCTTTTTTCTTCTCCTTTCCTTTTTCTTC
9290459 TTTCTTTCTTT
1 TTTCTTTCTTT
9290470 CCCTCTCCTT
Statistics
Matches: 198, Mismatches: 10, Indels: 52
0.76 0.04 0.20
Matches are distributed among these distances:
32 11 0.06
33 13 0.07
34 12 0.06
35 8 0.04
36 7 0.04
37 46 0.23
38 20 0.10
39 37 0.19
40 26 0.13
41 5 0.03
42 13 0.07
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (35 bp):
TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTTCTTC
Found at i:9290344 original size:79 final size:79
Alignment explanation
Indices: 9290197--9290470 Score: 383
Period size: 79 Copynumber: 3.6 Consensus size: 79
9290187 AAAATTACAT
* *
9290197 TTTCTTTTCTTTTTT-TT-TCC-TTCCTTCCCTCTTCTTC-TTCTTT-TTTTTTTCTTTTCTCCT
1 TTTC-TTTCTTTTTTCTTCTCCTTTCCTT--TTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCT
*
9290257 TTTCTTTTCTTTCCTTC
63 TTCCTTTTCTTTCCTTC
9290274 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTC
1 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTC
9290339 CTTTTCTTTCCTTC
66 CTTTTCTTTCCTTC
*
9290353 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTCC
1 TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTC
9290418 CTTTTCTTT-CTTC
66 CTTTTCTTTCCTTC
*
9290431 -TT-TTTCTTTCTTTCCTCTCCTTT-C-TTTC-T-TTCTTTCTTTC
1 TTTCTTTCTTT-TTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTC
9290471 CCTCTCCTTC
Statistics
Matches: 186, Mismatches: 5, Indels: 16
0.90 0.02 0.08
Matches are distributed among these distances:
73 11 0.06
74 1 0.01
75 4 0.02
76 18 0.10
77 28 0.15
78 13 0.07
79 111 0.60
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (79 bp):
TTTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTC
CTTTTCTTTCCTTC
Found at i:9290382 original size:16 final size:16
Alignment explanation
Indices: 9290228--9290393 Score: 108
Period size: 16 Copynumber: 10.8 Consensus size: 16
9290218 TCCTTCCCTC
9290228 TTCTTCTTCTTT--TT
1 TTCTTCTTCTTTCCTT
*
9290242 TTTTTCTT-TTCTCCTT
1 TTCTTCTTCTT-TCCTT
9290258 TTCTT-TTCTTTCC--
1 TTCTTCTTCTTTCCTT
*
9290271 TTC-T-TTCTTTCTTTT
1 TTCTTCTTCTTTC-CTT
*
9290286 TTCTTCTCCTTTCCTT
1 TTCTTCTTCTTTCCTT
9290302 TTCTTCTTCTTTCTTTCTT
1 TTCTTCTTCTTTC---CTT
*
9290321 TTTTTC-TCTTCTCCTT
1 TTCTTCTTCTT-TCCTT
*
9290337 TCCTT-TTCTTTCC--
1 TTCTTCTTCTTTCCTT
*
9290350 TTC-T-TTCTTTCTTTT
1 TTCTTCTTCTTTC-CTT
*
9290365 TTCTTCTCCTTTCCTT
1 TTCTTCTTCTTTCCTT
9290381 TTCTTCTTCTTTC
1 TTCTTCTTCTTTC
9290394 TTTCTTTTTT
Statistics
Matches: 119, Mismatches: 14, Indels: 36
0.70 0.08 0.21
Matches are distributed among these distances:
12 16 0.13
13 7 0.06
14 8 0.07
15 14 0.12
16 48 0.40
17 12 0.10
18 4 0.03
19 10 0.08
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTCTTCTTCTTTCCTT
Found at i:9290550 original size:27 final size:27
Alignment explanation
Indices: 9290512--9290581 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
9290502 CCCCAATATA
9290512 CATTGGTGCCGCCAATGG-TATTGGCAC
1 CATTGGTGCCGCCAATGGCT-TTGGCAC
9290539 CATTGGTGCCGCCAATGGCTTTGGCAC
1 CATTGGTGCCGCCAATGGCTTTGGCAC
*
9290566 CTTTGGTGCCGCCAAT
1 CATTGGTGCCGCCAAT
9290582 CCCATTGGCG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCTTTGGCAC
Found at i:9290589 original size:27 final size:27
Alignment explanation
Indices: 9290512--9290590 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
9290502 CCCCAATATA
*
9290512 CATTGGTGCCGCCAATGGTATTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
*
9290539 CATTGGTGCCGCCAATGGCTTTGGCAC
1 CATTGGTGCCGCCAATGGCATTGGCAC
* **
9290566 CTTTGGTGCCGCCAATCCCATTGGC
1 CATTGGTGCCGCCAATGGCATTGGC
9290591 GTGACCAGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.15, C:0.30, G:0.28, T:0.27
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGGCATTGGCAC
Found at i:9290649 original size:8 final size:8
Alignment explanation
Indices: 9290636--9290660 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9290626 TTGCAAGTTT
9290636 TTTTTTTA
1 TTTTTTTA
9290644 TTTTTTTA
1 TTTTTTTA
9290652 TTTTTTTA
1 TTTTTTTA
9290660 T
1 T
9290661 ATATTTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:9290711 original size:26 final size:25
Alignment explanation
Indices: 9290657--9290721 Score: 96
Period size: 24 Copynumber: 2.6 Consensus size: 25
9290647 TTTTATTTTT
9290657 TTATATATTTTGGTAAATAAAAAAA
1 TTATATATTTTGGTAAATAAAAAAA
9290682 -TATATATTTTGGTAAATAAAAAAA
1 TTATATATTTTGGTAAATAAAAAAA
*
9290706 GTTATAACATTTTGGT
1 -TTAT-ATATTTTGGT
9290722 TGTTTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 24 0.67
26 3 0.08
27 9 0.25
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.42
Consensus pattern (25 bp):
TTATATATTTTGGTAAATAAAAAAA
Done.