Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 116 of 230
Found at i:33661619 original size:27 final size:27
Alignment explanation
Indices: 33661589--33661655 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
33661579 GGGTACTTTG
*
33661589 GTAATTTTACAAGTCGAAAGTATTTCA
1 GTAATTTTACAAATCGAAAGTATTTCA
**
33661616 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAAGTATTTCA
*
33661643 GTATTTTTACAAA
1 GTAATTTTACAAA
33661656 CTAAGCGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAAGTATTTCA
Found at i:33661668 original size:27 final size:27
Alignment explanation
Indices: 33661608--33661687 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
33661598 CAAGTCGAAA
* *
33661608 GTATTTCAGTAATTTTACAAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AAGC
*
33661635 GTATTTCAGTATTTTTACAAACTAAGC
1 GTATTTCAGTAATTTTACAAACTAAGC
* * *
33661662 GTGTTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
33661688 AGTATTCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 36 0.82
28 8 0.18
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGC
Found at i:33684374 original size:645 final size:647
Alignment explanation
Indices: 33683142--33684422 Score: 1789
Period size: 645 Copynumber: 2.0 Consensus size: 647
33683132 AATCGCCTAG
33683142 CAAAAGTGGTTTAACATAATTTCAAGCTTCATATTCTACCATAAAACACCAAAATAAACACATTT
1 CAAAAGTGGTTTAACATAATTTCAAGCTTCATATTCTACCATAAAACACCAAAATAAACACATTT
* * * *
33683207 CAACTATGGGTGTTTTTCCAAATATAAACCTTAACATGAATTAATGGTTGAATAAGCTAAATCGA
66 CAACTATGGGTATTTTTCCAAATATAAACCCTAACATGAATTAATGGTAGAATAAGCTAAACCGA
* * * * * * *
33683272 GCTACAATGACTCCAAAAACGTAAAAACCATTAAAAGCGGGGCTTGTATGTACTTACAATCAAGC
131 GCTACAATGACTCCAAAAACATAAAAACAATTAAAAACAGGGATTGGATGCACTTACAATCAAGC
** * *
33683337 TTGAAAGTGGCCAAAGCCCTAGCTATGGAGAACTTGTAAGTTTCCACTATGGTGGAAGAAATATG
196 TTGAAAGTGAACAAAGCCCTAGCTATGGAGAACTTGTAAGTTTCCACTATGATGGAAGAAAGATG
* * *
33683402 AGCACATTTTGGCTTTATTTTCCCTTTTAATTCATTTAATTACCAAATGACTAAAATGCCCCTAA
261 AGCACATGTTGCCTCTATTTTCCCTTTTAATTCATTTAATTACCAAATGACTAAAATGCCCCTAA
* * * * *
33683467 CTTAAAAATATCCTATTTCACCTATCTCTTGTCCATTTTTTTCTATGAAAATCTAATGGTCTAAT
326 CTTAAAAATATCCTATTTCACCTATCGCATGCCCATTTTTGTCCATGAAAATCTAATGGTCTAAT
*
33683532 TAACATTTAAGGACCTCTACTTCAATTATGCACTTCAATTAAATCCTTTATCATCTAAAACTCAT
391 TAACATTTAAGGACCTCTACTTCAATTACGCACTTCAATTAAATCCTTTATCATCTAAAACTCAT
*
33683597 ATTTACCCACTTTTGCAATTAAACCATAATATGCAATTCAGACATGCAATCGCTGAAATTTCTTA
456 ATTTACCCACTTTTGCAATTAAACCATAATATGCAATTCAGACATGCAATCGCTAAAATTTCTTA
* * * *
33683662 TCGGTATTCTAACACATGCATCCAATCAATTGGTAAATAATAAAAATTAATCACAATAAACTTTT
521 TCGATATTCTAACACATGCATCCAATAAATCGATAAATAATAAAAATTAATCACAATAAACTTTT
* *
33683727 CTATCTCAAATTCGTGGTTTCGCAACCACTATTTTGTTTAGGCCATATTTCGGGATGTTACA
586 CTATCTCAAATTCATGGTTTCGCAACCACTATTTCGTTTAGGCCATATTTCGGGATGTTACA
* **
33683789 CAAAAGTTGTTTAACATAATTTCAAGCTTCATATTCTACCATAAAACATTAAAATAAACACATTT
1 CAAAAGTGGTTTAACATAATTTCAAGCTTCATATTCTACCATAAAACACCAAAATAAACACATTT
** *
33683854 C-ACTTATGTTTATTTTTCCAAATATGAACCCTAACATGAATTAATGGTAGAATAAGCTAAACCG
66 CAAC-TATGGGTATTTTTCCAAATATAAACCCTAACATGAATTAATGGTAGAATAAGCTAAACCG
* *
33683918 AGCTACGAA-GACTCGAAAAACATAAAAA-AATTAAAAACAGGGATTGGATGCACTTACTAT-AA
130 AGCTAC-AATGACTCCAAAAACATAAAAACAATTAAAAACAGGGATTGGATGCACTTACAATCAA
* **
33683980 GCTTGAGAAAGTGAAGAAA-CCCTAGCTATGGAGTCCTT-TGAAGTTTTGGCC-CT-T-ATGGAA
194 GCTT--GAAAGTGAACAAAGCCCTAGCTATGGAGAACTTGT-AAG-TTT--CCACTATGATGGAA
* *
33684040 G-AAGATGAGCACATGTTGCCATCT-TTTTCCCTTTTAATT-ATTTTTATTACCAAATGACTATA
253 GAAAGATGAGCACATGTTGCC-TCTATTTTCCCTTTTAATTCA-TTTAATTACCAAATGACTAAA
* * * * * ** *
33684102 ATGCTCTTCA-TTAAAACTTTAGTTATTTTTACCTAT-GCATGCCCATTTTTGTCCATGAAAATC
316 ATGCCCCTAACTTAAAAATAT-CCTA-TTTCACCTATCGCATGCCCATTTTTGTCCATGAAAATC
* *
33684165 TACTGGTCTAATTATCATTTAAGGACCTCTACTTCAATTACGCACTTCAATTAAATCCTTTATCA
379 TAATGGTCTAATTAACATTTAAGGACCTCTACTTCAATTACGCACTTCAATTAAATCCTTTATCA
* *
33684230 TCTAAAACTCATATTTACCCACTTTTGTAATTAAACCCTAATATGCAATTCAGACATGCAATCGC
444 TCTAAAACTCATATTTACCCACTTTTGCAATTAAACCATAATATGCAATTCAGACATGCAATCGC
* ** *
33684295 TAAAATTTCTTATTGATATTCTAACGTATGCATCCAATAAATCGATAAATTATAAAAATTAATCA
509 TAAAATTTCTTATCGATATTCTAACACATGCATCCAATAAATCGATAAATAATAAAAATTAATCA
* * *
33684360 CAATAAACTTTTCTATCTCAGATTCATGGTTTCGCAACCACTGTTTCGTTTAGGCCCTATTTC
574 CAATAAACTTTTCTATCTCAAATTCATGGTTTCGCAACCACTATTTCGTTTAGGCCATATTTC
33684423 AAGATTTTAC
Statistics
Matches: 559, Mismatches: 63, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
644 9 0.02
645 327 0.58
646 64 0.11
647 153 0.27
648 4 0.01
649 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (647 bp):
CAAAAGTGGTTTAACATAATTTCAAGCTTCATATTCTACCATAAAACACCAAAATAAACACATTT
CAACTATGGGTATTTTTCCAAATATAAACCCTAACATGAATTAATGGTAGAATAAGCTAAACCGA
GCTACAATGACTCCAAAAACATAAAAACAATTAAAAACAGGGATTGGATGCACTTACAATCAAGC
TTGAAAGTGAACAAAGCCCTAGCTATGGAGAACTTGTAAGTTTCCACTATGATGGAAGAAAGATG
AGCACATGTTGCCTCTATTTTCCCTTTTAATTCATTTAATTACCAAATGACTAAAATGCCCCTAA
CTTAAAAATATCCTATTTCACCTATCGCATGCCCATTTTTGTCCATGAAAATCTAATGGTCTAAT
TAACATTTAAGGACCTCTACTTCAATTACGCACTTCAATTAAATCCTTTATCATCTAAAACTCAT
ATTTACCCACTTTTGCAATTAAACCATAATATGCAATTCAGACATGCAATCGCTAAAATTTCTTA
TCGATATTCTAACACATGCATCCAATAAATCGATAAATAATAAAAATTAATCACAATAAACTTTT
CTATCTCAAATTCATGGTTTCGCAACCACTATTTCGTTTAGGCCATATTTCGGGATGTTACA
Found at i:33685725 original size:41 final size:41
Alignment explanation
Indices: 33685666--33685770 Score: 115
Period size: 39 Copynumber: 2.6 Consensus size: 41
33685656 GAGTGTAAAA
* * * * *
33685666 AGGGGCACATATGCGCAATTTAGGGGTACCGAAGTAGAAAC
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
* * * *
33685707 AGGGGCATGTATGTGCAATTCA-AGGTACTAAAGTACAAAT
1 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
33685747 A-GGGCACGTATGTGCAATTCAGGG
1 AGGGGCACGTATGTGCAATTCAGGG
33685771 TATAAGAGTT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
39 19 0.37
40 15 0.29
41 18 0.35
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.21
Consensus pattern (41 bp):
AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAC
Found at i:33688402 original size:35 final size:35
Alignment explanation
Indices: 33688343--33688411 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
33688333 TTGGTTGGAT
*
33688343 AAATAGTCTACTAGCACTACGTAGTGGCATCATGA
1 AAATAGTCTACTAGCACTAAGTAGTGGCATCATGA
* * *
33688378 AAATAGTCTATTGGCTCTAAGTAGTGGCATCATG
1 AAATAGTCTACTAGCACTAAGTAGTGGCATCATG
33688412 GAGTGATCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (35 bp):
AAATAGTCTACTAGCACTAAGTAGTGGCATCATGA
Found at i:33688962 original size:27 final size:28
Alignment explanation
Indices: 33688930--33688993 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
33688920 TATACCAAGG
33688930 ACTATCTTATGATGGAA-GTCT-CCAAAA
1 ACTATCTTATG-TGGAATGTCTGCCAAAA
**
33688957 ACTATCTTATGTGGAATGTCTGCCAAGG
1 ACTATCTTATGTGGAATGTCTGCCAAAA
33688985 ACTATCTTA
1 ACTATCTTA
33688994 AATACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 15 0.45
28 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (28 bp):
ACTATCTTATGTGGAATGTCTGCCAAAA
Found at i:33688991 original size:28 final size:27
Alignment explanation
Indices: 33688898--33688993 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 27
33688888 GAAGCCTACT
* * *
33688898 AAGGACTATCTTATG-CGAGCTGTATACC
1 AAGGACTATCTTATGTGGA-ATGTCT-CC
33688926 AAGGACTATCTTATGATGGAA-GTCTCC
1 AAGGACTATCTTATG-TGGAATGTCTCC
**
33688953 AAAAACTATCTTATGTGGAATGTCTGCC
1 AAGGACTATCTTATGTGGAATGTCT-CC
33688981 AAGGACTATCTTA
1 AAGGACTATCTTA
33688994 AATACAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 5 0.09
27 19 0.33
28 31 0.54
30 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (27 bp):
AAGGACTATCTTATGTGGAATGTCTCC
Found at i:33692607 original size:27 final size:28
Alignment explanation
Indices: 33692536--33692610 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 28
33692526 AATCAGGGTA
* *
33692536 TGCCACAAAGGCA-GTCTATTTAGAGTT
1 TGCCACAAAGGCATTTCTATTCAGAGTT
* **
33692563 TTCCACAAA-GTTTATTCT-TTCAGAGTT
1 TGCCACAAAGGCAT-TTCTATTCAGAGTT
33692590 TGCCACAAAGGCATTTCTATT
1 TGCCACAAAGGCATTTCTATT
33692611 GTCAGGTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
26 1 0.03
27 28 0.78
28 7 0.19
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (28 bp):
TGCCACAAAGGCATTTCTATTCAGAGTT
Found at i:33699675 original size:12 final size:12
Alignment explanation
Indices: 33699650--33699688 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33699640 ACTCGCTTCT
* *
33699650 TTACTTACTCAC
1 TTACTTGCTTAC
*
33699662 TTACTTGTTTAC
1 TTACTTGCTTAC
33699674 TTACTTGCTTAC
1 TTACTTGCTTAC
33699686 TTA
1 TTA
33699689 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:33700122 original size:50 final size:50
Alignment explanation
Indices: 33699950--33700124 Score: 176
Period size: 50 Copynumber: 3.5 Consensus size: 50
33699940 CAATGTCATA
* * ** * * * *
33699950 TCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTGCCCA-TACAATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACT-CCATG
* * * *
33700000 TCCCAGACATGGTCTTGCGAT-GGATCT-TTCATCTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTAC-ATGGGACCTCTT-ATCTCGGTGCCAACTCCATG
* *
33700050 TCCCAAACATAGTCTTACATGGGACCTCTTATCTCGGTGCCAACTCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACTCCATG
33700100 TCCCAGACATGGTCTTACATGGGAC
1 TCCCAGACATGGTCTTACATGGGAC
33700125 ATCATTCCCT
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
49 3 0.03
50 94 0.93
51 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACTCCATG
Found at i:33703600 original size:9 final size:9
Alignment explanation
Indices: 33703586--33703620 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
33703576 TTATTTATTC
*
33703586 AATTAATTT
1 AATTAATTA
33703595 AATTAATTA
1 AATTAATTA
*
33703604 AATTAACTA
1 AATTAATTA
33703613 AATTAATT
1 AATTAATT
33703621 CCTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTAATTA
Found at i:33708595 original size:28 final size:28
Alignment explanation
Indices: 33708561--33708615 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
33708551 TTGTACTGCA
*
33708561 ACTGTATTAGGCTAAGGCCCACACTGTT
1 ACTGTATCAGGCTAAGGCCCACACTGTT
* **
33708589 ACTGTATCGGGCTAAGGTTCACACTGT
1 ACTGTATCAGGCTAAGGCCCACACTGT
33708616 ACTATTACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTGTATCAGGCTAAGGCCCACACTGTT
Found at i:33715666 original size:27 final size:27
Alignment explanation
Indices: 33715628--33715824 Score: 189
Period size: 27 Copynumber: 7.0 Consensus size: 27
33715618 CACGAATGGC
* *
33715628 CGAAATACCCTCTAAGGGTAAAATAAT
1 CGAAATACCCTCAAAGGGTAAAATGAT
* *
33715655 CGAAATACCCTCGAAGGGTAAAATGAC
1 CGAAATACCCTCAAAGGGTAAAATGAT
* *
33715682 CAAAATACCGTCAAAGGGTAAAATGACCGAAAT
1 CGAAATACCCTCAAAGGGTAAAAT----G--AT
*
33715715 AACTGAAATACCCTCGAAGGGTAAAATGA-
1 --C-GAAATACCCTCAAAGGGTAAAATGAT
* * *
33715744 CTGAAATACCGTCAAAAGGTAAAATGAC
1 C-GAAATACCCTCAAAGGGTAAAATGAT
*
33715772 CGAAATACCCTCAAAGGGTTAAATGAT
1 CGAAATACCCTCAAAGGGTAAAATGAT
*
33715799 CGAAATACCCTCCAAGGGTAAAATGA
1 CGAAATACCCTCAAAGGGTAAAATGA
33715825 CCGATTTGCT
Statistics
Matches: 141, Mismatches: 19, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
27 115 0.82
28 1 0.01
30 1 0.01
31 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 20 0.14
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
CGAAATACCCTCAAAGGGTAAAATGAT
Found at i:33715713 original size:54 final size:54
Alignment explanation
Indices: 33715622--33715828 Score: 216
Period size: 54 Copynumber: 3.7 Consensus size: 54
33715612 ATGTGCCACG
* * * *
33715622 AATGGCCGAAATACCCTCTAAGGGTAAAATAATCGAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAA
* *
33715676 AATGACCAAAATACCGTCAAAGGGTAAAATGACCGAAATAACTGAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTCAAAGGGTAAAATGA-C-------C-GAAATACCCTCGAAGGGTAA
* * * * *
33715739 AATGACTGAAATACCGTCAAAAGGTAAAATGACCGAAATACCCTCAAAGGGTTA
1 AATGACCGAAATACCCTCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAA
* *
33715793 AATGATCGAAATACCCTCCAAGGGTAAAATGACCGA
1 AATGACCGAAATACCCTCAAAGGGTAAAATGACCGA
33715829 TTTGCTCTAT
Statistics
Matches: 128, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
54 76 0.59
55 1 0.01
62 2 0.02
63 49 0.38
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.17
Consensus pattern (54 bp):
AATGACCGAAATACCCTCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAA
Found at i:33715751 original size:63 final size:63
Alignment explanation
Indices: 33715648--33715778 Score: 219
Period size: 63 Copynumber: 2.1 Consensus size: 63
33715638 TCTAAGGGTA
*
33715648 AAATAATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTCAAAGGGTAAAATGACCG
1 AAATAATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTCAAAAGGTAAAATGACCG
**
33715711 AAATAA-CTGAAATACCCTCGAAGGGTAAAATGACTGAAATACCGTCAAAAGGTAAAATGACCG
1 AAATAATC-GAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTCAAAAGGTAAAATGACCG
33715774 AAATA
1 AAATA
33715779 CCCTCAAAGG
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
62 1 0.02
63 63 0.98
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.17
Consensus pattern (63 bp):
AAATAATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTCAAAAGGTAAAATGACCG
Found at i:33715786 original size:90 final size:90
Alignment explanation
Indices: 33715629--33715805 Score: 257
Period size: 90 Copynumber: 2.0 Consensus size: 90
33715619 ACGAATGGCC
* * * *
33715629 GAAATACCCTCTAAGGGTAAAATAATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTC
1 GAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCAAAAGGTAAAATGACCAAAATACCCTC
33715694 AAAGGGTAAAATGACCGAAATAACT
66 AAAGGGTAAAATGACCGAAATAACT
* * *
33715719 GAAATACCCTCGAAGGGTAAAATGA-CTGAAATACCGTCAAAAGGTAAAATGACCGAAATACCCT
1 GAAATACCCTCGAAGGGTAAAATAATC-GAAATACCCTCAAAAGGTAAAATGACCAAAATACCCT
* *
33715783 CAAAGGGTTAAATGATCGAAATA
65 CAAAGGGTAAAATGACCGAAATA
33715806 CCCTCCAAGG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 1 0.01
90 76 0.99
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (90 bp):
GAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCAAAAGGTAAAATGACCAAAATACCCTC
AAAGGGTAAAATGACCGAAATAACT
Found at i:33719668 original size:29 final size:28
Alignment explanation
Indices: 33719625--33719702 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
33719615 TCATGAGATT
33719625 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
33719655 -GCACTAAGTGTGCGAGTTTACAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
33719682 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
33719703 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:33719956 original size:174 final size:174
Alignment explanation
Indices: 33719657--33719982 Score: 510
Period size: 174 Copynumber: 1.9 Consensus size: 174
33719647 ATTGTACAGC
* * * *
33719657 ACTAAGTGTGCGAGTTTACAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
* ** *
33719722 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
33719787 TTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
131 TTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
* * * * *
33719832 ACTAAGTGTGTGAGTTTAAAGTGCATGGCACTGAGTGTGCGTGGGTGATTACTAAACATTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
*
33719897 TGC-AACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGGCTTTACCGAGTCAATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
33719961 TTGGACAGCGGAAAAGGTAAGT
131 TTGGACAGCGGAAAAGGTAAGT
33719983 ACCTTGAGTT
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
173 11 0.08
174 67 0.49
175 59 0.43
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTATGTG
TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGT
Found at i:33722397 original size:410 final size:409
Alignment explanation
Indices: 33721749--33722752 Score: 1134
Period size: 411 Copynumber: 2.4 Consensus size: 409
33721739 TTGGGAGGAG
* * * * * *
33721749 TCATCATAAGTGGTTGGGTTGACTCAAGAATAGAGGTGCCAACAATTGTAAAGTTAGGTTGAATT
1 TCATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGTGTCAACAATTGTAAAGTTAGGTTGAATC
* * * * **
33721814 GAGGGAGAATCC-ATGGCTTTTTAGTTCAGTATTTTCCTAGATTGTGCCAATTGTTGATGTCTCT
66 GAGGGAGAA-CCTATGGC-TTTTAGTTCAATATTCTCATAAACAGTGCCAATTGTTGATGTCTCT
* * * *
33721878 TTCACTGGGCTTGGAGATTGGTTGAGCTAAACTTTATAGCTAGAAAATCTACAAAGTGTACTAGC
129 TTTATTGGGCTTGGAGATTAGTTGAGCT-AACTTTATAGCTAGAAAATCTACAAAGTATACTAGC
* *
33721943 AATATGGGTAGTCATGGTTGATGGTAGATATGATTGTGAGAACTTGTACTC-AATA-TTTGGTAA
193 AATATGGATAGTCATGGTTGATGGTAGAGATGATTGTGAGAACTTGTACTCAAATATTTTGGTAA
* * * *
33722006 TGATCTTATGGCAACCAATTA-TTTTTAGAAGTATCTCAGAAAAACATACAAATTAGTTGGAGCT
258 TGATCGTATGGAAACCAATTACTATTGA-AAGTATCT-A-AAAAACATACAAATTAGTTGGAGCT
* * * * *
33722070 GAGATTATTGGT-GGACTGGTCTTTCTGGAACTTGTCACCACGTAGGAAAATGTTTCGGCTCA-A
320 AAGATTATAGGTAGG-CTAGTCTTTCTGAAACTTGTAACCACGTAGGAAAATGTTTCGGCT-AGA
33722133 ACTCTCAATCAAAA-GCTTAAGAACAGC
383 ACTCTCAATCAAAAGGC-TAAGAACAGC
* * * *
33722160 -CATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGCGTTAGCAATTGTAAAGTTAGCTTGAATC
1 TCATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGTGTCAACAATTGTAAAGTTAGGTTGAATC
* *
33722224 GAGGGAGAACCTA-GAGCTTTTAGTTTAATATTCTCATAAACAGTGCCACTTGTTGATGTCTCTT
66 GAGGGAGAACCTATG-GCTTTTAGTTCAATATTCTCATAAACAGTGCCAATTGTTGATGTCTCTT
* * * * * *
33722288 TTATTGGGCTTAGAGACTAGTTGAGCTACACTTTATAGC-CGAACAATTTGCAAAGTATTCTAGC
130 TTATTGGGCTTGGAGATTAGTTGAGCTA-ACTTTATAGCTAGAA-AATCTACAAAGTATACTAGC
*
33722352 AATATGGATAGTCATGGTTGATGGTAGAGATGGTTGTGAAGAACTTGTACTCAAAATATTTTGGT
193 AATATGGATAGTCATGGTTGATGGTAGAGATGATTGTG-AGAACTTGTACTC-AAATATTTTGGT
* *** *
33722417 AATGATCGTATGGAAACCGATTACTATTGAAAGTATCTAAAAAACATATTGATTGGTTGGAGCTA
256 AATGATCGTATGGAAACCAATTACTATTGAAAGTATCTAAAAAACATACAAATTAGTTGGAGCTA
* * * ** * *
33722482 AGATTCTAGGTAGGTTAGTCTTTTTGAAACTTGTAACCACGTAGGGTAATGTTTGGGCTAGTACT
321 AGATTATAGGTAGGCTAGTCTTTCTGAAACTTGTAACCACGTAGGAAAATGTTTCGGCTAGAACT
* ** **
33722547 CTCTATCAAAAGGCTGGGAGGAGC
386 CTCAATCAAAAGGCTAAGAACAGC
* * * * * * ** * *
33722571 TGA-CGTAAGTAGATGGGCTAATTAAAGAACAGGGGTGTCAATTACTATAAAGTTAGGTTGAATC
1 TCATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGTGTCAACAATTGTAAAGTTAGGTTGAATC
* *
33722635 GAGAGAGAACCTATGGCTTTTAGTTCAATATTCTCACAAACAGTGCCAATTGTTGATGTCTCTTT
66 GAGGGAGAACCTATGGCTTTTAGTTCAATATTCTCATAAACAGTGCCAATTGTTGATGTCTCTTT
*
33722700 TTTTGGGCTTGGATG-TTAGTTGAGCTAAGCTTTATAGCT-GAAAAATCTACAAA
131 TATTGGGCTTGGA-GATTAGTTGAGCTAA-CTTTATAGCTAG-AAAATCTACAAA
33722753 AAAAAAAAAG
Statistics
Matches: 495, Mismatches: 80, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
408 4 0.01
409 125 0.25
410 81 0.16
411 233 0.47
412 14 0.03
413 34 0.07
414 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (409 bp):
TCATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGTGTCAACAATTGTAAAGTTAGGTTGAATC
GAGGGAGAACCTATGGCTTTTAGTTCAATATTCTCATAAACAGTGCCAATTGTTGATGTCTCTTT
TATTGGGCTTGGAGATTAGTTGAGCTAACTTTATAGCTAGAAAATCTACAAAGTATACTAGCAAT
ATGGATAGTCATGGTTGATGGTAGAGATGATTGTGAGAACTTGTACTCAAATATTTTGGTAATGA
TCGTATGGAAACCAATTACTATTGAAAGTATCTAAAAAACATACAAATTAGTTGGAGCTAAGATT
ATAGGTAGGCTAGTCTTTCTGAAACTTGTAACCACGTAGGAAAATGTTTCGGCTAGAACTCTCAA
TCAAAAGGCTAAGAACAGC
Found at i:33724687 original size:21 final size:21
Alignment explanation
Indices: 33724661--33724732 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
33724651 TCATATGAGT
33724661 TTTCGTTCAGCTCTTACGAGC
1 TTTCGTTCAGCTCTTACGAGC
* * * *
33724682 TTTCGTTCAACCCTTATG-GG
1 TTTCGTTCAGCTCTTACGAGC
33724702 TTTCCGTTCAGCTCTTACGAGC
1 TTT-CGTTCAGCTCTTACGAGC
*
33724724 TTCCGTTCA
1 TTTCGTTCA
33724733 ACCCTTATGG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 4 0.10
21 33 0.82
22 3 0.08
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (21 bp):
TTTCGTTCAGCTCTTACGAGC
Found at i:33724747 original size:42 final size:42
Alignment explanation
Indices: 33724622--33724747 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
33724612 GTTTACTTTT
* * ** * * * * *
33724622 CGTTTAGCTCTCACGAGCTTCTATTTAACTCATATGAGTTTT
1 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
*
33724664 CGTTCAGCTCTTACGAGCTTTCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
33724706 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
33724748 TGTTTAGTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (42 bp):
CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
Found at i:33724766 original size:42 final size:42
Alignment explanation
Indices: 33724622--33724766 Score: 155
Period size: 42 Copynumber: 3.5 Consensus size: 42
33724612 GTTTACTTTT
* ** * * * * *
33724622 CGTTTAGCTCTCACGAGCTTCTATTTAACTCATATGAGTTTT
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
* *
33724664 CGTTCAGCTCTTACGAGCTTTCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
*
33724706 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
* * * *
33724748 TGTTTAGTTCTCATGAGCT
1 CGTTCAGCTCTCACGAGCT
33724767 ACTATTCAGC
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.40
Consensus pattern (42 bp):
CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
Found at i:33728463 original size:21 final size:21
Alignment explanation
Indices: 33728439--33728501 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
33728429 GACGAGCTTT
33728439 CGTTCAACCTTTATGGGTTTC
1 CGTTCAACCTTTATGGGTTTC
* *** *
33728460 CGTTC-AGCTCTTACAAGCTTC
1 CGTTCAACCT-TTATGGGTTTC
*
33728481 CGTTCAACCCTTATGGGTTTC
1 CGTTCAACCTTTATGGGTTTC
33728502 TGTTTAGCTC
Statistics
Matches: 29, Mismatches: 11, Indels: 4
0.66 0.25 0.09
Matches are distributed among these distances:
20 3 0.10
21 24 0.83
22 2 0.07
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.38
Consensus pattern (21 bp):
CGTTCAACCTTTATGGGTTTC
Found at i:33728464 original size:42 final size:42
Alignment explanation
Indices: 33728376--33728522 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 42
33728366 GTTTACTTTT
* ** * * * * *
33728376 CGTTTAGCTCTCACGAGCTTCTATTTAACTCATATGAGTTTT
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
* * *
33728418 CGTTCAGCTCTGACGAGCTTTCGTTCAACCTTTATGGGTTTC
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
* *
33728460 CGTTCAGCTCTTACAAGCTTCCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
* * *
33728502 TGTTTAGCTCTCATGAGCTTC
1 CGTTCAGCTCTCACGAGCTTC
33728523 TATTCAGCCT
Statistics
Matches: 85, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (42 bp):
CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
Found at i:33730186 original size:24 final size:24
Alignment explanation
Indices: 33730157--33730230 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
33730147 AATAGTTGTG
33730157 ATAATTATACATTTAAAAATAATT
1 ATAATTATACATTTAAAAATAATT
* ** *
33730181 ATAATT-TA-A--TAAAAGTTGTG
1 ATAATTATACATTTAAAAATAATT
*
33730201 ATAATTACACATTTAAAAATAATT
1 ATAATTATACATTTAAAAATAATT
*
33730225 AGAATT
1 ATAATT
33730231 CAAATTCAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
20 13 0.36
21 1 0.03
22 2 0.06
23 2 0.06
24 18 0.50
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.39
Consensus pattern (24 bp):
ATAATTATACATTTAAAAATAATT
Found at i:33730200 original size:44 final size:47
Alignment explanation
Indices: 33730136--33730230 Score: 151
Period size: 44 Copynumber: 2.1 Consensus size: 47
33730126 TTAGTTAAAA
* *
33730136 AATTTAAGTAAAATAGTTGTGATAATTATACATTTAAAAATAATTAT
1 AATTTAAGTAAAATAGTTGTGATAATTACACATTTAAAAATAATTAG
33730183 AATTTAA-T-AAA-AGTTGTGATAATTACACATTTAAAAATAATTAG
1 AATTTAAGTAAAATAGTTGTGATAATTACACATTTAAAAATAATTAG
33730227 AATT
1 AATT
33730231 CAAATTCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 35 0.76
45 3 0.07
46 1 0.02
47 7 0.15
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (47 bp):
AATTTAAGTAAAATAGTTGTGATAATTACACATTTAAAAATAATTAG
Found at i:33739486 original size:98 final size:96
Alignment explanation
Indices: 33739374--33739553 Score: 254
Period size: 98 Copynumber: 1.9 Consensus size: 96
33739364 TTAAAAAATA
* * *
33739374 AAATATATTTAACATAACGATAAATGTAAAAATAATTTT-ATTATATAATTGCATATTTATATTA
1 AAATATATTTAACATAACAATAAATATAAAAAT-ATTTTCATTATATAATTACATA-TT-TATTA
33739438 ATTTATTTATATAAATAAATGAGTTACTAATTAT
63 ATTTATTTATATAAATAAATGAGTTACTAATTAT
* * * * *
33739472 AAATATTTTTAACATAATAATATATATAAATATATTTTCATTATATAATTACATATTTATTATTT
1 AAATATATTTAACATAACAATAAATATAAAAATATTTTCATTATATAATTACATATTTATTAATT
33739537 TATTTATATAAATAAAT
66 TATTTATATAAATAAAT
33739554 AAAATTATTA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
96 24 0.33
97 7 0.10
98 42 0.58
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (96 bp):
AAATATATTTAACATAACAATAAATATAAAAATATTTTCATTATATAATTACATATTTATTAATT
TATTTATATAAATAAATGAGTTACTAATTAT
Found at i:33739641 original size:14 final size:13
Alignment explanation
Indices: 33739608--33739646 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
33739598 CAACATATTT
33739608 ATTAATTAAAAAC
1 ATTAATTAAAAAC
*
33739621 ATTAATTAAAAAT
1 ATTAATTAAAAAC
*
33739634 TTTAAATTAAAAA
1 ATT-AATTAAAAA
33739647 AAAAACTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:33739663 original size:29 final size:30
Alignment explanation
Indices: 33739573--33739663 Score: 73
Period size: 36 Copynumber: 3.0 Consensus size: 30
33739563 AATTAAAAAA
*
33739573 TAAATTAAAAATAAAAACTTGAAAACAACATATT
1 TAAATTAAAAACAAAAACTTG-AAAC-A-AT-TT
**
33739607 TATTAATTAAAAACATTAA-TT-AAA-AATTT
1 TA--AATTAAAAACAAAAACTTGAAACAATTT
33739636 TAAATTAAAAA-AAAAACTTGAAACAATT
1 TAAATTAAAAACAAAAACTTGAAACAATT
33739664 GAAATAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
26 3 0.06
27 11 0.23
28 3 0.06
29 8 0.17
30 2 0.04
31 1 0.02
33 3 0.06
34 2 0.04
35 2 0.04
36 12 0.26
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (30 bp):
TAAATTAAAAACAAAAACTTGAAACAATTT
Found at i:33739873 original size:15 final size:15
Alignment explanation
Indices: 33739833--33739873 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
33739823 TTTGCTCCAC
*
33739833 AAAAATAATTTTTAG
1 AAAAATAAATTTTAG
*
33739848 AAAAA-AGATTTTAG
1 AAAAATAAATTTTAG
33739862 AAAAATAAATTT
1 AAAAATAAATTT
33739874 ATTTTTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
AAAAATAAATTTTAG
Found at i:33739934 original size:13 final size:14
Alignment explanation
Indices: 33739910--33739939 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
33739900 GTTTAGATAC
33739910 TTTTGTATAATTTT
1 TTTTGTATAATTTT
33739924 TTTTGTA-AATTTT
1 TTTTGTATAATTTT
33739937 TTT
1 TTT
33739940 AAAATCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (14 bp):
TTTTGTATAATTTT
Found at i:33745269 original size:39 final size:39
Alignment explanation
Indices: 33745226--33745342 Score: 180
Period size: 39 Copynumber: 3.0 Consensus size: 39
33745216 CCATATTAAA
* * * *
33745226 CATATAACCACATAACCTTTAAGAATATATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
*
33745265 CATATAATTACATAACATTCAAGCATATATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
*
33745304 CATATAATCACATAACATTCAAGCATACATCACAATACT
1 CATATAATCACATAACATTCAAGCATATATCACAATACT
33745343 AAAAAACATG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (39 bp):
CATATAATCACATAACATTCAAGCATATATCACAATACT
Found at i:33750435 original size:10 final size:10
Alignment explanation
Indices: 33750420--33750453 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
33750410 TATAACTCAA
33750420 CCATTTTAAT
1 CCATTTTAAT
33750430 CCATTTTAAT
1 CCATTTTAAT
*
33750440 CCATTTTGAT
1 CCATTTTAAT
33750450 CCAT
1 CCAT
33750454 GTGGAGACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (10 bp):
CCATTTTAAT
Found at i:33753525 original size:16 final size:16
Alignment explanation
Indices: 33753504--33753535 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
33753494 GTTTTGTTGC
*
33753504 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
33753520 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
33753536 CTTCCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:33753715 original size:46 final size:43
Alignment explanation
Indices: 33753650--33753757 Score: 121
Period size: 46 Copynumber: 2.4 Consensus size: 43
33753640 ACACTTTGGA
33753650 ATAAT-AATAGATACACGGT-GGATTCAGCACACAGCAACCACCCTTT
1 ATAATCAAT-GATAC-CGGTGGGA-TCAGCACACAGCAACCA-CC-TT
* *
33753696 GTAATCAATGATATCCGGTGGGATCAGCACATAGCAACCACCTT
1 ATAATCAATGATA-CCGGTGGGATCAGCACACAGCAACCACCTT
*
33753740 ATAATTAATGATACCGGT
1 ATAATCAATGATACCGGT
33753758 TCACATAGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
43 5 0.09
44 13 0.24
45 2 0.04
46 28 0.51
47 7 0.13
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (43 bp):
ATAATCAATGATACCGGTGGGATCAGCACACAGCAACCACCTT
Found at i:33753819 original size:51 final size:50
Alignment explanation
Indices: 33753759--33753951 Score: 205
Period size: 51 Copynumber: 3.8 Consensus size: 50
33753749 GATACCGGTT
* * * *
33753759 CACATAGTAGCCCGCGCATAGTCCTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT-CGATA
* *
33753810 CACATAGTAGCCTGCACATAGTAGTACACACGTGATCGA--AGCTATTCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTA-TCGATA
* * * * *
33753861 CGCATAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCGA-TA
33753911 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCA
33753952 GTTTCACTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
49 7 0.06
50 37 0.31
51 70 0.59
52 3 0.03
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCGATA
Found at i:33753969 original size:101 final size:102
Alignment explanation
Indices: 33753757--33753945 Score: 249
Period size: 101 Copynumber: 1.9 Consensus size: 102
33753747 ATGATACCGG
* * * *
33753757 TTCACATAGTAGCCCGCGCATAGTCCTACACATGTGACCATCACTATCCGATACACATAGTAGCC
1 TTCACATAGTAGCCCGCACATAGTACTACACATGCGACCATCACTATCAGATACACATAGTAGCC
* *
33753822 TGCACATAGTAGTACACACGTGATCGAAGCTATTCGA
66 TGCACATAGTACTACACACGTGATCCAAGCTATTCGA
* * **
33753859 TACGCATAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTAG-TACACATAGTAG
1 TTCACATAGTAGCCCGCACATAGTACTACACATGCGACC-ATCACTATC-AGATACACATAGTAG
33753921 CCTGCACATAGTACTACACACGTGA
64 CCTGCACATAGTACTACACACGTGA
33753946 CCATCAGTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (102 bp):
TTCACATAGTAGCCCGCACATAGTACTACACATGCGACCATCACTATCAGATACACATAGTAGCC
TGCACATAGTACTACACACGTGATCCAAGCTATTCGA
Found at i:33784496 original size:28 final size:28
Alignment explanation
Indices: 33784458--33784515 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
33784448 TTACCCTTGT
*
33784458 TCTCCGGTCCTCACTTCTCTTTCCAATC
1 TCTCCAGTCCTCACTTCTCTTTCCAATC
*
33784486 TCTCCAGTCCTCACTTCTCTTTCTAATC
1 TCTCCAGTCCTCACTTCTCTTTCCAATC
33784514 TC
1 TC
33784516 AATATTCCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.12, C:0.41, G:0.05, T:0.41
Consensus pattern (28 bp):
TCTCCAGTCCTCACTTCTCTTTCCAATC
Found at i:33790458 original size:16 final size:16
Alignment explanation
Indices: 33790437--33790504 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
33790427 TTTGGTTCGC
33790437 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
33790453 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
33790469 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33790485 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
33790501 TGTA
1 TGTA
33790505 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:33790761 original size:18 final size:17
Alignment explanation
Indices: 33790740--33790774 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33790730 TTATTATTAA
*
33790740 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
33790758 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
33790775 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:33790840 original size:157 final size:157
Alignment explanation
Indices: 33790627--33790911 Score: 516
Period size: 157 Copynumber: 1.8 Consensus size: 157
33790617 TATAATACCC
33790627 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
33790692 TTATCAATAATAAATATTTTAATCACATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCACATTTAAACATAATTATTATTAAATATATTATAATTAAAA
33790757 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
33790784 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
33790849 ATATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAA
66 ATATCAATAATAAATAATTTAATCACATTTAAACATAATTATTATTAAATATATTATAATTAA
33790912 TAAGGAACCA
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 122 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCACATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:33790910 original size:15 final size:16
Alignment explanation
Indices: 33790877--33790911 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33790867 TTAATCATAT
*
33790877 TTAAATATAATTATTA
1 TTAAATATAATTATAA
33790893 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
33790908 TTAA
1 TTAA
33790912 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:33794158 original size:28 final size:28
Alignment explanation
Indices: 33794127--33794181 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
33794117 GCAAACCGGT
*
33794127 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
33794155 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
33794182 AGCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:33798961 original size:22 final size:22
Alignment explanation
Indices: 33798933--33798978 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
33798923 ACACATGAAA
33798933 GTTGTCTTCTCTTGGTTTTTAG
1 GTTGTCTTCTCTTGGTTTTTAG
33798955 GTTGTCTTCTCTTGGTTTTTAG
1 GTTGTCTTCTCTTGGTTTTTAG
33798977 GT
1 GT
33798979 GCTATAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.04, C:0.13, G:0.24, T:0.59
Consensus pattern (22 bp):
GTTGTCTTCTCTTGGTTTTTAG
Found at i:33804518 original size:176 final size:176
Alignment explanation
Indices: 33804224--33804574 Score: 558
Period size: 176 Copynumber: 2.0 Consensus size: 176
33804214 ATCTAGATTG
* * *
33804224 GGTTGGGGAGGTTACACCAGAGGAGAAAGGCAAACTAACATTGACCAAAACACTAAGAGGTTTAG
1 GGTTGGGGAGGTTACACCAGAGGAGAAAGGCAAACTAACACTAACCAAAACAATAAGAGGTTTAG
* *
33804289 AAACTAACCAAAGATGTTGATTGAGTCTTAACTCAATTGGCATCAGCATTGTTGCCAATGCAAGA
66 AAACTAACCAAAGATATTGATTGAGTCTTAACTCAATTGGCATCAACATTGTTGCCAATGCAAGA
33804354 GGACATGGGTTTGAGTGTGCTGAACCACATTATCCTCTTATTTAAA
131 GGACATGGGTTTGAGTGTGCTGAACCACATTATCCTCTTATTTAAA
* * * * *
33804400 GGTTGGGGAGGTTACACTAGAGGAGAAAGGCAAATTAACACTAACCACAACAATAGGATGTTTAG
1 GGTTGGGGAGGTTACACCAGAGGAGAAAGGCAAACTAACACTAACCAAAACAATAAGAGGTTTAG
* * *
33804465 AAACTAACCAAATATATTGATTGAGTCTTAGCTCAATTGGCATCAACATTGTTGCCAATGTAAGA
66 AAACTAACCAAAGATATTGATTGAGTCTTAACTCAATTGGCATCAACATTGTTGCCAATGCAAGA
* * *
33804530 GGACGTGGGTTTGAGTGTGCTGAAGCGCATTATCCTCTTATTTAA
131 GGACATGGGTTTGAGTGTGCTGAACCACATTATCCTCTTATTTAA
33804575 GGCTTGGAAA
Statistics
Matches: 159, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
176 159 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (176 bp):
GGTTGGGGAGGTTACACCAGAGGAGAAAGGCAAACTAACACTAACCAAAACAATAAGAGGTTTAG
AAACTAACCAAAGATATTGATTGAGTCTTAACTCAATTGGCATCAACATTGTTGCCAATGCAAGA
GGACATGGGTTTGAGTGTGCTGAACCACATTATCCTCTTATTTAAA
Found at i:33809262 original size:92 final size:92
Alignment explanation
Indices: 33809105--33809288 Score: 359
Period size: 92 Copynumber: 2.0 Consensus size: 92
33809095 TATATATTTT
33809105 TTAAATTATTAAAAATCATATATATCTAATATATAACATTCATATATATTCTAAGTTAGTTTAAG
1 TTAAATTATTAAAAATCATATATATCTAATATATAACATTCATATATATTCTAAGTTAGTTTAAG
33809170 TTTTAATATATATTTAATTCTATTTAA
66 TTTTAATATATATTTAATTCTATTTAA
*
33809197 TTAAATTATTAAAAATCATATATATCTAATATATATCATTCATATATATTCTAAGTTAGTTTAAG
1 TTAAATTATTAAAAATCATATATATCTAATATATAACATTCATATATATTCTAAGTTAGTTTAAG
33809262 TTTTAATATATATTTAATTCTATTTAA
66 TTTTAATATATATTTAATTCTATTTAA
33809289 AATTGATCCC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (92 bp):
TTAAATTATTAAAAATCATATATATCTAATATATAACATTCATATATATTCTAAGTTAGTTTAAG
TTTTAATATATATTTAATTCTATTTAA
Found at i:33812041 original size:125 final size:123
Alignment explanation
Indices: 33811848--33812194 Score: 568
Period size: 123 Copynumber: 2.8 Consensus size: 123
33811838 TTTCAAGTTG
* * *
33811848 ACGTTTCTAATCAAATAGTATAAAATCGCTTTTAGCTGAATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTGAAA
*
33811913 TCGCGCCCTTGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTTTTC
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAG-AAT-ATTTTTTTTTC
* *
33811973 ACGTTTCTAAGGAAATAGTATAAAATCGCTTCTAGTTGGATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTGAAA
* * *
33812038 TCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAGAATTTTTTTTTTTG
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAATATTTTTTTTTC
* *
33812096 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTGAAA
*
33812161 TCACGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
33812195 TATGTTTGGG
Statistics
Matches: 207, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
123 102 0.49
124 3 0.01
125 102 0.49
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (123 bp):
ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTGAAA
TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAATATTTTTTTTTC
Found at i:33812170 original size:123 final size:125
Alignment explanation
Indices: 33811845--33812190 Score: 570
Period size: 125 Copynumber: 2.8 Consensus size: 125
33811835 TAATTTCAAG
* * *
33811845 TTGACGTTTCTAATCAAATAGTATAAAATCGCTTTTAGCTGAATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
* *
33811910 AAATCGCGCCCTTGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAGAAATAATTTTTTT
* * *
33811970 TTCACGTTTCTAAGGAAATAGTATAAAATCGCTTCTAGTTGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
*
33812035 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAG-AAT-TTTTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAGAAATAATTTTTTT
* *
33812093 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
*
33812158 AAATCACGCCCTCGTGGACGCGCTTTTGCTACA
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
33812191 GTAGTATGTT
Statistics
Matches: 206, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
123 99 0.48
124 3 0.01
125 104 0.50
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (125 bp):
TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAGAAATAATTTTTTT
Found at i:33816830 original size:22 final size:22
Alignment explanation
Indices: 33816802--33816854 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
33816792 TAATAGGGGA
*
33816802 TAAAATATAAATTTTATGTGGC
1 TAAAATATAAATATTATGTGGC
* *
33816824 TAAAATACAAAATATTATGTGGT
1 TAAAATA-TAAATATTATGTGGC
*
33816847 TGAAATAT
1 TAAAATAT
33816855 GAAAATGACT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (22 bp):
TAAAATATAAATATTATGTGGC
Found at i:33816853 original size:23 final size:23
Alignment explanation
Indices: 33816802--33816845 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
33816792 TAATAGGGGA
* *
33816802 TAAAATA-TAAATTTTATGTGGC
1 TAAAATACAAAATATTATGTGGC
33816824 TAAAATACAAAATATTATGTGG
1 TAAAATACAAAATATTATGTGG
33816846 TTGAAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (23 bp):
TAAAATACAAAATATTATGTGGC
Found at i:33818282 original size:27 final size:27
Alignment explanation
Indices: 33818252--33818364 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
33818242 AACTGTGAAC
* *
33818252 TGTCCCGTAGACACCTATATTGCGGAA
1 TGTCCTGTAGACACCTATATTGCAGAA
* **
33818279 TGTCCTGTGGACACCTATATTGTGGAA
1 TGTCCTGTAGACACCTATATTGCAGAA
* * * *
33818306 GGTCTTGCA-ATCACCTATGTTGCAGAA
1 TGTCCTGTAGA-CACCTATATTGCAGAA
* *
33818333 TGTCCTGCAGACACCTATATTGTAGAA
1 TGTCCTGTAGACACCTATATTGCAGAA
33818360 TGTCC
1 TGTCC
33818365 CATAGACATT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 68 0.97
28 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (27 bp):
TGTCCTGTAGACACCTATATTGCAGAA
Found at i:33823390 original size:31 final size:30
Alignment explanation
Indices: 33823352--33823411 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
33823342 GGCCCATTTT
33823352 TATTTTAAAA-ATTTTAAAAAATTAAAAAAAG
1 TATTTTAAAATATTTT--AAAATTAAAAAAAG
33823383 TATTTTAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAATATTTTAAAATTAAAAAAA
33823412 TTTTCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 13 0.46
31 10 0.36
32 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TATTTTAAAATATTTTAAAATTAAAAAAAG
Found at i:33823398 original size:41 final size:39
Alignment explanation
Indices: 33823352--33823494 Score: 171
Period size: 41 Copynumber: 3.5 Consensus size: 39
33823342 GGCCCATTTT
33823352 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAA
1 TATTTT-AAAA-TTTAAAAAATTAAAAAAAGTATTTTAAAA
* *
33823393 TATTTTAAAATTAAAAAAATTTTCAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTTAAAAAA--TTAAAAAAAGTATTTT-AAAA
**
33823435 TATTTTAAAA-TTAAAAAATTAAAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTTAAAAAATT-AAAAAAAGTAT-TTTAAAA
*
33823475 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTTAAAAAAT
33823495 AAATATATTT
Statistics
Matches: 89, Mismatches: 7, Indels: 12
0.82 0.06 0.11
Matches are distributed among these distances:
39 10 0.11
40 28 0.31
41 37 0.42
42 14 0.16
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (39 bp):
TATTTTAAAATTTAAAAAATTAAAAAAAGTATTTTAAAA
Found at i:33823411 original size:40 final size:40
Alignment explanation
Indices: 33823352--33823493 Score: 171
Period size: 40 Copynumber: 3.5 Consensus size: 40
33823342 GGCCCATTTT
**
33823352 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAA
1 TATTTT-AAAATTAAAAAAAATTAAAAAAAGTATTTTAAAA
* *
33823393 TATTTTAAAATTAAAAAAATTTTCAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAA-ATTAAAAAAAGTATTTT-AAAA
**
33823435 TATTTTAAAATT--AAAAAATTAAAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTAAAAAAAATT-AAAAAAAGTAT-TTTAAAA
33823475 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
33823494 TAAATATATT
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.02
40 42 0.48
41 22 0.25
42 21 0.24
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAA
Found at i:33823422 original size:11 final size:10
Alignment explanation
Indices: 33823353--33823444 Score: 57
Period size: 10 Copynumber: 8.9 Consensus size: 10
33823343 GCCCATTTTT
33823353 ATTTT-AAAA
1 ATTTTAAAAA
33823362 ATTTTAAAAA
1 ATTTTAAAAA
**
33823372 ATTAAAAAAA
1 ATTTTAAAAA
*
33823382 GTATTTTAAAAT
1 --ATTTTAAAAA
33823394 ATTTT--AAA
1 ATTTTAAAAA
*
33823402 A-TTAAAAAA
1 ATTTTAAAAA
33823411 ATTTTCAAAAAA
1 ATTTT--AAAAA
33823423 GTATTTTAAAAA
1 --ATTTTAAAAA
33823435 TATTTTAAAA
1 -ATTTTAAAA
33823445 TTAAAAAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
7 2 0.03
8 3 0.05
9 9 0.14
10 19 0.29
11 10 0.15
12 17 0.26
14 5 0.08
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:33823677 original size:18 final size:18
Alignment explanation
Indices: 33823643--33823677 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33823633 CCCATATTTC
* *
33823643 GGCCGGGCCGTCGGGCCG
1 GGCCGGGCCGCCCGGCCG
33823661 GGCCGGGCCGCCCGGCC
1 GGCCGGGCCGCCCGGCC
33823678 ATGAGCACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.46, G:0.51, T:0.03
Consensus pattern (18 bp):
GGCCGGGCCGCCCGGCCG
Found at i:33825014 original size:11 final size:11
Alignment explanation
Indices: 33824998--33825043 Score: 58
Period size: 11 Copynumber: 4.0 Consensus size: 11
33824988 GTCCAACAAT
33824998 TTAAAAATTAA
1 TTAAAAATTAA
33825009 TTAAAAATATATTA
1 TTAAAAAT-TA--A
33825023 TTAAAAA-TAA
1 TTAAAAATTAA
33825033 TTAAAAATTAA
1 TTAAAAATTAA
33825044 AAACGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 8 0.26
11 11 0.35
12 4 0.13
14 8 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TTAAAAATTAA
Found at i:33828450 original size:16 final size:16
Alignment explanation
Indices: 33828431--33828475 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
33828421 TCCATTCCAC
33828431 ATCCTTAATGTATAAT
1 ATCCTTAATGTATAAT
33828447 ATCCTTAATGTATAAT
1 ATCCTTAATGTATAAT
*
33828463 ATGCTTATATGTA
1 ATCCTTA-ATGTA
33828476 ACATTATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (16 bp):
ATCCTTAATGTATAAT
Found at i:33837878 original size:27 final size:27
Alignment explanation
Indices: 33837839--33837892 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
33837829 ATTGTAAAGA
*
33837839 AAGGAAAACTTCTTTCTTTTCCTCTCT
1 AAGGAAAAATTCTTTCTTTTCCTCTCT
33837866 AAGGAAAAATTCTTTCTTTTCCTCTCT
1 AAGGAAAAATTCTTTCTTTTCCTCTCT
33837893 TCTCACGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.44
Consensus pattern (27 bp):
AAGGAAAAATTCTTTCTTTTCCTCTCT
Found at i:33841454 original size:20 final size:20
Alignment explanation
Indices: 33841429--33841471 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
33841419 AGCATTAAAA
*
33841429 TGCTAACAGAGGCACCGAAG
1 TGCTAACAGAGGCACCAAAG
*
33841449 TGCTAACATAGGCACCAAAG
1 TGCTAACAGAGGCACCAAAG
33841469 TGC
1 TGC
33841472 AATCCCGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.14
Consensus pattern (20 bp):
TGCTAACAGAGGCACCAAAG
Found at i:33843195 original size:47 final size:48
Alignment explanation
Indices: 33843142--33843252 Score: 113
Period size: 47 Copynumber: 2.4 Consensus size: 48
33843132 AAGGTGGAAC
* * *
33843142 TATGTGGTAGTTTATC-AC-ATTAAT-GTGACATTGTTCATGATTTTGAT
1 TATGTGGTAGTTTATCTACAATT-ATGGTGAC-TTGTCCATGATATTAAT
* * * *
33843189 TATGTGGCAGTATATCTACAATTTTGGTGGCTTGTCCATGATATTAAT
1 TATGTGGTAGTTTATCTACAATTATGGTGACTTGTCCATGATATTAAT
33843237 TAT-TGGTAGTTTATCT
1 TATGTGGTAGTTTATCT
33843253 GTGATTTTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
47 25 0.48
48 20 0.38
49 7 0.13
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (48 bp):
TATGTGGTAGTTTATCTACAATTATGGTGACTTGTCCATGATATTAAT
Found at i:33846538 original size:17 final size:15
Alignment explanation
Indices: 33846496--33846562 Score: 64
Period size: 14 Copynumber: 4.3 Consensus size: 15
33846486 GTAAGTAATC
33846496 TAGATGTGAAAA-TA
1 TAGATGTGAAAACTA
*
33846510 TAGATTTGAAAACTA
1 TAGATGTGAAAACTA
*
33846525 TAGAACTGTGAAAAACTC
1 TAG-A-TGTG-AAAACTA
*
33846543 TAGATTGTGAAAACAA
1 TAGA-TGTGAAAACTA
33846559 TAGA
1 TAGA
33846563 AACTTTAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.26
15 5 0.12
16 10 0.23
17 8 0.19
18 9 0.21
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (15 bp):
TAGATGTGAAAACTA
Found at i:33854558 original size:25 final size:25
Alignment explanation
Indices: 33854529--33854595 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
33854519 TCCTATACAT
33854529 GTATGCTCATACGAGCTATAAATCG
1 GTATGCTCATACGAGCTATAAATCG
33854554 GTATGCTTTCAT--GAGCTATAAATCG
1 GTATGC--TCATACGAGCTATAAATCG
*
33854579 GTAAGCTCATACGAGCT
1 GTATGCTCATACGAGCT
33854596 GAGAATCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 4 0.11
25 29 0.78
27 4 0.11
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAAATCG
Found at i:33861377 original size:23 final size:22
Alignment explanation
Indices: 33861325--33861378 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
33861315 GATTTATCAG
*
33861325 TATGGATATGTGTGGTATTGAAT
1 TATGG-TATGTCTGGTATTGAAT
*
33861348 TAAGGTATGTCTGAGTA-TGAATT
1 TATGGTATGTCTG-GTATTGAA-T
33861371 TATGGTAT
1 TATGGTAT
33861379 TATATTCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.43
Consensus pattern (22 bp):
TATGGTATGTCTGGTATTGAAT
Found at i:33863071 original size:50 final size:50
Alignment explanation
Indices: 33862968--33863160 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 50
33862958 GGGAATGAGA
*
33862968 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
33863024 TCCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*** * * **
33863074 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
33863124 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
33863161 GTACAGAAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 79 0.67
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:33863159 original size:100 final size:103
Alignment explanation
Indices: 33862975--33863160 Score: 243
Period size: 100 Copynumber: 1.8 Consensus size: 103
33862965 AGATCCCATG
* **
33862975 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCAT
1 TAAGACCATGTCTGGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACCAT
* * *
33863040 GCCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCA
63 ACCTGGGACATGACATTGGCACCGAGATGAGAGGTCCCCCA
* *
33863081 TAAGACCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAAGACCATATC
1 TAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATACC
*
33863143 TGGGATATGACATTGGCA
66 TGGGACATGACATTGGCA
33863161 GTACAGAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 39 0.55
101 2 0.03
105 1 0.01
106 29 0.41
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (103 bp):
TAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATACC
TGGGACATGACATTGGCACCGAGATGAGAGGTCCCCCA
Found at i:33863426 original size:12 final size:12
Alignment explanation
Indices: 33863409--33863447 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33863399 ATGAGTTATT
33863409 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
33863421 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
33863433 TAAGTGAGTAAG
1 TAAGTAAGCAAG
33863445 TAA
1 TAA
33863448 AAAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:33911554 original size:21 final size:19
Alignment explanation
Indices: 33911525--33911582 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
33911515 AATATTTTTT
33911525 TTTATTTTTTTATTTAATTAAG
1 TTTA-TTTTTTATTT-A-TAAG
* *
33911547 TTTATTTTATATTTATAAT
1 TTTATTTTTTATTTATAAG
*
33911566 TTTATATTTTATATTAT
1 TTTATTTTTTAT-TTAT
33911583 TCTTTATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 13 0.42
20 5 0.16
21 9 0.29
22 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTATTTTTTATTTATAAG
Found at i:33911851 original size:22 final size:24
Alignment explanation
Indices: 33911817--33911877 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
33911807 GAGCTAAGCA
* *
33911817 TTATTTAAATAAA-TACTCATA-T
1 TTATATAATTAAAGTACTCATATT
*
33911839 TTATATAATTAAAGTATTCATATT
1 TTATATAATTAAAGTACTCATATT
33911863 TTATATCAAGTTAAA
1 TTATAT-AA-TTAAA
33911878 ATATGTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 11 0.34
23 7 0.22
24 7 0.22
25 2 0.06
26 5 0.16
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (24 bp):
TTATATAATTAAAGTACTCATATT
Found at i:33911876 original size:26 final size:24
Alignment explanation
Indices: 33911833--33911887 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
33911823 AAATAAATAC
*
33911833 TCATATTTATATAATTAAAGTAT-
1 TCATATTTATATAATTAAAATATG
33911856 TCATATTTTATATCAAGTTAAAATATG
1 TCATA-TTTATAT-AA-TTAAAATATG
33911883 TCATA
1 TCATA
33911888 AGTCCTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 5 0.19
24 7 0.26
25 2 0.07
26 8 0.30
27 5 0.19
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (24 bp):
TCATATTTATATAATTAAAATATG
Found at i:33912285 original size:19 final size:19
Alignment explanation
Indices: 33912261--33912297 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33912251 TATTATTAAT
*
33912261 ATATTTATAATTTTAATAA
1 ATATTTATAATTTAAATAA
*
33912280 ATATTTATTATTTAAATA
1 ATATTTATAATTTAAATA
33912298 TTAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTATAATTTAAATAA
Found at i:33914196 original size:30 final size:31
Alignment explanation
Indices: 33914151--33914214 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
33914141 GATGAAAAAT
* * *
33914151 TAAAATATAAACTAAT-TAAATTAATTATCC
1 TAAAAAATAAACTAATGGAAATTAATTAACC
* *
33914181 TAAAAAATAACCTAATGGAATTTAATTAACC
1 TAAAAAATAAACTAATGGAAATTAATTAACC
33914212 TAA
1 TAA
33914215 GATATCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (31 bp):
TAAAAAATAAACTAATGGAAATTAATTAACC
Found at i:33919560 original size:19 final size:19
Alignment explanation
Indices: 33919536--33919577 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
33919526 TTTAACTAGG
33919536 ATTAGGTGGGGCGACAACC
1 ATTAGGTGGGGCGACAACC
33919555 ATTAGGTGGGGCGACAACC
1 ATTAGGTGGGGCGACAACC
33919574 -TTAG
1 ATTAG
33919578 TTAAATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.26, C:0.19, G:0.36, T:0.19
Consensus pattern (19 bp):
ATTAGGTGGGGCGACAACC
Found at i:33924276 original size:17 final size:17
Alignment explanation
Indices: 33924254--33924289 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
33924244 TATCTAACAT
*
33924254 CCTTCTTTTACGAATAC
1 CCTTCTTTTACGAAAAC
33924271 CCTTCTTTTACGAAAAC
1 CCTTCTTTTACGAAAAC
33924288 CC
1 CC
33924290 ATTTACTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.36
Consensus pattern (17 bp):
CCTTCTTTTACGAAAAC
Found at i:33925226 original size:35 final size:35
Alignment explanation
Indices: 33925111--33925227 Score: 119
Period size: 35 Copynumber: 3.3 Consensus size: 35
33925101 GTAGCTTTGT
* * *
33925111 AGAGCCTGTAGATCGTTTACACGGTGTCGCTCCAA
1 AGAGCCTGTAGACCATTTACATGGTGTCGCTCCAA
* * * ** *
33925146 AGAACTTGCA-AGCCATTTACATGGTGTCATTCCGA
1 AGAGCCTGTAGA-CCATTTACATGGTGTCGCTCCAA
*
33925181 AGAGCCTGTAGACCATTTACATGGTGTCGCTCTAA
1 AGAGCCTGTAGACCATTTACATGGTGTCGCTCCAA
*
33925216 AGAGCTTGTAGA
1 AGAGCCTGTAGA
33925228 TAACATTTCC
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
34 1 0.02
35 61 0.97
36 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (35 bp):
AGAGCCTGTAGACCATTTACATGGTGTCGCTCCAA
Found at i:33928026 original size:50 final size:49
Alignment explanation
Indices: 33927951--33928052 Score: 150
Period size: 50 Copynumber: 2.1 Consensus size: 49
33927941 AAACTTGGTA
* * *
33927951 GTTATCATTCTTTTTGGAAAGAATATAACGTTTTTTAATACTTTCCATAT
1 GTTATAATTATTTTTGGAAAGAATATAACG-TGTTTAATACTTTCCATAT
* *
33928001 GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTTCATGT
1 GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATAT
33928050 GTT
1 GTT
33928053 CTCTATAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 19 0.40
50 28 0.60
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (49 bp):
GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATAT
Found at i:33932038 original size:18 final size:18
Alignment explanation
Indices: 33932017--33932052 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33932007 TCTTCTCTTT
33932017 CTTTCTCTTCTTCAACAA
1 CTTTCTCTTCTTCAACAA
*
33932035 CTTTTTCTTCTTCAACAA
1 CTTTCTCTTCTTCAACAA
33932053 TGATTTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (18 bp):
CTTTCTCTTCTTCAACAA
Found at i:33932059 original size:18 final size:18
Alignment explanation
Indices: 33932022--33932065 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
33932012 TCTTTCTTTC
*
33932022 TCTTCTTCAACAACTTTT
1 TCTTCTTCAACAACTATT
33932040 TCTTCTTCAACAA-TGATT
1 TCTTCTTCAACAACT-ATT
*
33932058 TCCTCTTC
1 TCTTCTTC
33932066 TATAGCAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (18 bp):
TCTTCTTCAACAACTATT
Found at i:33945077 original size:49 final size:49
Alignment explanation
Indices: 33945015--33945209 Score: 178
Period size: 49 Copynumber: 3.8 Consensus size: 49
33945005 TAACAACATG
** * *
33945015 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC-TA
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGTA
* ** *
33945064 CCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-GTA
* *
33945114 CCAACGCCATGTCCCAGACATGGTCTTACATTGGACCTCTCATGATCTCAAGGATA
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---G-TA
* *
33945170 -CAAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAAA-GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33945210 TTACCCAAAT
Statistics
Matches: 120, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
48 1 0.01
49 38 0.32
50 38 0.32
53 5 0.04
55 5 0.04
56 33 0.28
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (49 bp):
CCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGTA
Found at i:33945150 original size:50 final size:49
Alignment explanation
Indices: 33945013--33945156 Score: 173
Period size: 50 Copynumber: 2.9 Consensus size: 49
33945003 GATAACAACA
** * *
33945013 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC
* * **
33945062 TACCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCT-C
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC
* *
33945110 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATTGGACCTCTCAT
1 --TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
33945157 GATCTCAAGG
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 39 0.49
50 40 0.50
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (49 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC
Found at i:33952601 original size:600 final size:600
Alignment explanation
Indices: 33951456--33952623 Score: 1969
Period size: 600 Copynumber: 1.9 Consensus size: 600
33951446 ATCCATCAGC
* *
33951456 ATTATGCCTTGACACGTAGGACTAGAAAAAGGACAAACTATCCACATATAAGTTAAAAATCGGAT
1 ATTATGCCTTGACACGGAGGACCAGAAAAAGGACAAACTATCCACATATAAGTTAAAAATCGGAT
* * * *
33951521 AACTAATCAATACAAAAGAAGGTACTAGGACAAAGGAAGAGATAGATATAACTTTTTGAGTTGGC
66 AACTAATCAATAAAAAAGAAAGTACTACGACAAAGGAAGAGATAGATATAACTTTTTGAGTTAGC
*
33951586 AAATTATAGTGTGAGATTGTTTAGTACTATAATTCAAGGGGTTAGTATTTAAAGTACATACTTTG
131 AAATTATAGAGTGAGATTGTTTAGTACTATAATTCAAGGGGTTAGTATTTAAAGTACATACTTTG
* *
33951651 GGAGGGAACTATAATTTGAGGAATATACCTAAATTCTAATGTCAGAAATGTCGAGGAAAAGGCCA
196 GGAGGGAACTATAATTGGAGGAATATAACTAAATTCTAATGTCAGAAATGTCGAGGAAAAGGCCA
* *
33951716 CAGCCATATGCAATTCTACCTTTGTAGAGAGATTATGATAACATTCCTGTGGAATCAAGAACATA
261 CAGCCATATGCAACTCTACCTTTGTACAGAGATTATGATAACATTCCTGTGGAATCAAGAACATA
* *
33951781 AATTTTCTAGATGTTTATGTTTTAGAGTAATTTGTGTGAAACAAAACTCAGCAAGAAAATTTCAG
326 AATTTTCTAGATGTTTATGTTTTAGAGTAAATTGGGTGAAACAAAACTCAGCAAGAAAATTTCAG
* *
33951846 AAAGGAGGATTACATTGAGATCAGAATTATTGGATGCTGGTACTGCTGGACCGTAATTGGGTCCC
391 AAAGGAGGATTACATTGAGATCAGAATTATTGGATGCTGGTACTGCCGGACCATAATTGGGTCCC
* *
33951911 TTTATAAGACGTGGAACAAATTTCATTCTATAAGGAAGACATCCACTACTGAAAAAAGGTCAAAG
456 TTTATAAGACGAGGAACAAATTTCATTCTAGAAGGAAGACATCCACTACTGAAAAAAGGTCAAAG
* *
33951976 ATGATGCTACAAACAAATACAGATAATAAAAATGGGAAGTGTTAAAGGGTAACTTATTCACATAT
521 ATGATGCTACAAACAAATACAGATAATAAAAATGGGAAGCGTGAAAGGGTAACTTATTCACATAT
33952041 AAGTTATCTCACACT
586 AAGTTATCTCACACT
* * * *
33952056 ATTATGCCTTGACATGGAGGACCAGAAAAAGGGCAAACTATCCACATATAAGTTAAAAATTGGGT
1 ATTATGCCTTGACACGGAGGACCAGAAAAAGGACAAACTATCCACATATAAGTTAAAAATCGGAT
*
33952121 AACTAATCAATAAAAAAGAAAGTACTACGACAAAGGAAGAGATAGAATATAACTTTTTGGGTTAG
66 AACTAATCAATAAAAAAGAAAGTACTACGACAAAGGAAGAGATAG-ATATAACTTTTTGAGTTAG
* *
33952186 CAATTTATAGAGTGAGATTGTTTAGTACTAT-ATTCAAGGGGTTAGTATTTAAAGTACATTCTTT
130 CAAATTATAGAGTGAGATTGTTTAGTACTATAATTCAAGGGGTTAGTATTTAAAGTACATACTTT
*
33952250 GGGAGGGAACTATAATTGGAGGAATGTAACTAAATTCTAATGTCAGAAATGTCGAGGAAAAGGCC
195 GGGAGGGAACTATAATTGGAGGAATATAACTAAATTCTAATGTCAGAAATGTCGAGGAAAAGGCC
* * * *
33952315 ACAGCTATATGCAACTCTATCTTTGTACAGAGATTATGATAACATTCCTGTGGGATCGAGAACAT
260 ACAGCCATATGCAACTCTACCTTTGTACAGAGATTATGATAACATTCCTGTGGAATCAAGAACAT
* *
33952380 AAATTTTCTAGATGTTTATGTTTTAGATTAAATTGGGTGAAACAAACCTCAGCAAGAAAATTTCA
325 AAATTTTCTAGATGTTTATGTTTTAGAGTAAATTGGGTGAAACAAAACTCAGCAAGAAAATTTCA
*
33952445 GAAAGTAGGATTACATTGAGATCAGAATTATTGGATGCTGGTACTGCCGGACCATAATTGGGTCC
390 GAAAGGAGGATTACATTGAGATCAGAATTATTGGATGCTGGTACTGCCGGACCATAATTGGGTCC
* * * *
33952510 CTTTATAAGACGAGGAACAAATTTCATTCTAGAAGGCAGACATCCACTATTGACAAAAGGTTAAA
455 CTTTATAAGACGAGGAACAAATTTCATTCTAGAAGGAAGACATCCACTACTGAAAAAAGGTCAAA
*
33952575 GATGATGCTACAAACAAATGCAGATAATAAAAATGGGAAGCGTGAAAGG
520 GATGATGCTACAAACAAATACAGATAATAAAAATGGGAAGCGTGAAAGG
33952624 AAGGGTAACT
Statistics
Matches: 528, Mismatches: 39, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
600 482 0.91
601 46 0.09
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (600 bp):
ATTATGCCTTGACACGGAGGACCAGAAAAAGGACAAACTATCCACATATAAGTTAAAAATCGGAT
AACTAATCAATAAAAAAGAAAGTACTACGACAAAGGAAGAGATAGATATAACTTTTTGAGTTAGC
AAATTATAGAGTGAGATTGTTTAGTACTATAATTCAAGGGGTTAGTATTTAAAGTACATACTTTG
GGAGGGAACTATAATTGGAGGAATATAACTAAATTCTAATGTCAGAAATGTCGAGGAAAAGGCCA
CAGCCATATGCAACTCTACCTTTGTACAGAGATTATGATAACATTCCTGTGGAATCAAGAACATA
AATTTTCTAGATGTTTATGTTTTAGAGTAAATTGGGTGAAACAAAACTCAGCAAGAAAATTTCAG
AAAGGAGGATTACATTGAGATCAGAATTATTGGATGCTGGTACTGCCGGACCATAATTGGGTCCC
TTTATAAGACGAGGAACAAATTTCATTCTAGAAGGAAGACATCCACTACTGAAAAAAGGTCAAAG
ATGATGCTACAAACAAATACAGATAATAAAAATGGGAAGCGTGAAAGGGTAACTTATTCACATAT
AAGTTATCTCACACT
Found at i:33953229 original size:2 final size:2
Alignment explanation
Indices: 33953224--33953254 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33953214 CATATATATC
33953224 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
33953255 AAAGAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:33954761 original size:12 final size:12
Alignment explanation
Indices: 33954744--33954768 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33954734 GGCGTGCATT
33954744 CGGTTAACCGAC
1 CGGTTAACCGAC
33954756 CGGTTAACCGAC
1 CGGTTAACCGAC
33954768 C
1 C
33954769 CGAATTAGTT
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:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:33954941 original size:9 final size:9
Alignment explanation
Indices: 33954927--33955019 Score: 107
Period size: 9 Copynumber: 10.4 Consensus size: 9
33954917 TTGTTAAAAA
33954927 TTAACCGAT
1 TTAACCGAT
*
33954936 TTAACCTAT
1 TTAACCGAT
33954945 TTAACCGA-
1 TTAACCGAT
* *
33954953 TTAACTGAC
1 TTAACCGAT
33954962 TTAACCGAT
1 TTAACCGAT
*
33954971 TTAACCGAC
1 TTAACCGAT
*
33954980 TTAACCGAC
1 TTAACCGAT
33954989 TTAACCGAT
1 TTAACCGAT
* *
33954998 TTAACCAAC
1 TTAACCGAT
*
33955007 TTAATCGAT
1 TTAACCGAT
33955016 TTAA
1 TTAA
33955020 ATCACTATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
8 7 0.10
9 64 0.90
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (9 bp):
TTAACCGAT
Found at i:33954991 original size:27 final size:27
Alignment explanation
Indices: 33954927--33955019 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 27
33954917 TTGTTAAAAA
* *
33954927 TTAACCGATTTAACCTATTTAACCGA-
1 TTAACCGACTTAACCGATTTAACCGAC
*
33954953 TTAACTGACTTAACCGATTTAACCGAC
1 TTAACCGACTTAACCGATTTAACCGAC
*
33954980 TTAACCGACTTAACCGATTTAACCAAC
1 TTAACCGACTTAACCGATTTAACCGAC
* *
33955007 TTAATCGATTTAA
1 TTAACCGACTTAA
33955020 ATCACTATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
26 23 0.39
27 36 0.61
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (27 bp):
TTAACCGACTTAACCGATTTAACCGAC
Found at i:33955061 original size:37 final size:37
Alignment explanation
Indices: 33955019--33955091 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
33955009 AATCGATTTA
* *
33955019 AATCACTATATAATTTAAAAA-ATTACATAAGTCTTTG
1 AATCACTACATAA-CTAAAAACATTACATAAGTCTTTG
33955056 AATCACTACATAACTAAAAACATTACATAAGTCTTT
1 AATCACTACATAACTAAAAACATTACATAAGTCTTT
33955092 AACACATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 6 0.18
37 27 0.82
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (37 bp):
AATCACTACATAACTAAAAACATTACATAAGTCTTTG
Found at i:33955273 original size:7 final size:7
Alignment explanation
Indices: 33955261--33955285 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33955251 TGCAGTATTG
33955261 CATGAAA
1 CATGAAA
33955268 CATGAAA
1 CATGAAA
33955275 CATGAAA
1 CATGAAA
33955282 CATG
1 CATG
33955286 CAGTATAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (7 bp):
CATGAAA
Found at i:33955353 original size:7 final size:7
Alignment explanation
Indices: 33955341--33955399 Score: 73
Period size: 7 Copynumber: 8.3 Consensus size: 7
33955331 GTACAGAAGA
33955341 AAACATG
1 AAACATG
33955348 AAACATG
1 AAACATG
* **
33955355 CAGTATG
1 AAACATG
33955362 AAACATG
1 AAACATG
*
33955369 AAATCGTG
1 AAA-CATG
33955377 AAACATG
1 AAACATG
33955384 AAACATG
1 AAACATG
33955391 AAACATG
1 AAACATG
33955398 AA
1 AA
33955400 TTGTTCTTGG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.17
Consensus pattern (7 bp):
AAACATG
Found at i:33955420 original size:13 final size:13
Alignment explanation
Indices: 33955402--33955428 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33955392 AACATGAATT
33955402 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
33955415 GTTCTTGGGCTTA
1 GTTCTTGGGCTTA
33955428 G
1 G
33955429 AGCCTGGAGG
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:0.07, C:0.15, G:0.33, T:0.44
Consensus pattern (13 bp):
GTTCTTGGGCTTA
Found at i:33955652 original size:18 final size:19
Alignment explanation
Indices: 33955617--33955668 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
33955607 AATCGACCGA
**
33955617 TTAACCGAATTCGGTCGG-
1 TTAACCGAATTTTGTCGGT
*
33955635 TTAACCGAATTTTTTCGGTT
1 TTAACCGAATTTTGTCGG-T
33955655 TTAACCGAATTTTG
1 TTAACCGAATTTTG
33955669 CACACCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
20 13 0.46
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (19 bp):
TTAACCGAATTTTGTCGGT
Found at i:33956909 original size:279 final size:279
Alignment explanation
Indices: 33956399--33956959 Score: 777
Period size: 279 Copynumber: 2.0 Consensus size: 279
33956389 ATGTTGAAAA
* * *
33956399 AATCTCAGTTTGAAAATGGTTTTCTTACACAACGAAAAATTAAAATTTTGAAAATCGATCCGGTT
1 AATCCCAGTTTGAAAATGGTTTTCTTACACAACGAAAAATTAAAATTTTGAAAATCCAACCGGTT
** * * ** *
33956464 TGTGATATTTATAGCAATAAACCTTAATTGAATTCGTACATGTGTTTTTGACTTAGTAGACGTTC
66 TGTGATATTTATAGCAATAAACCTTAACCGAATTCATACATATGTTTTCAACTTAGTAGACATTC
* * * * ** *
33956529 GTTGTTCTTGACTTTCAACCAAACGATCTTCTCCGCTTTTCTTGTACCACGAACTGCTTCGAGTG
131 ATTGTTCCTGAATTTCAACCAAACGATCTTCTCCGCTATTCTCATACCACGAACTACTTCGAGTG
* * * *
33956594 TGGGCTCGAATCAATTAAACCAAAACACAAAACTAGAAAAAGTTTTCTCT-CTATTTTGGGTGAA
196 TGGGCCCAAACCAATTAAACCAAAACACAAAACTAGAAAAAGTTTTCTCTCCT-TTTGGGGTGAA
*
33956658 AACGAAAATT-TTGTCTTTTT
260 AACAAAAATTCTT-TCTTTTT
* * *
33956678 AATCCCAGTTTGAAAATGGTTTTCTTGCACAGCGAAAATTTAAAATTTTGAAAA-CCAACCTGGT
1 AATCCCAGTTTGAAAATGGTTTTCTTACACAACGAAAAATTAAAATTTTGAAAATCCAACC-GGT
* *
33956742 TTGTGATATTTATAGCAATAAACCTTAACCGAATTCATACTTATGTTTTCAACTTAGTGGACATT
65 TTGTGATATTTATAGCAATAAACCTTAACCGAATTCATACATATGTTTTCAACTTAGTAGACATT
* *
33956807 CATTGTTCCTGAATTTCAACCAAACGATCTTCTCTGCTATTCTCATACTACGAACTACTTCGAGT
130 CATTGTTCCTGAATTTCAACCAAACGATCTTCTCCGCTATTCTCATACCACGAACTACTTCGAGT
* * * *
33956872 GTGGGCCCAAACCAATTGAATCGAAACACAGAACTAGAAAAAGTTTTCTCTCCTTTTGGGGTGAA
195 GTGGGCCCAAACCAATTAAACCAAAACACAAAACTAGAAAAAGTTTTCTCTCCTTTTGGGGTGAA
33956937 AACAAAAATTCTTTCTTTTT
260 AACAAAAATTCTTTCTTTTT
33956957 AAT
1 AAT
33956960 AGAAATCGGT
Statistics
Matches: 246, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
278 4 0.02
279 238 0.97
280 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (279 bp):
AATCCCAGTTTGAAAATGGTTTTCTTACACAACGAAAAATTAAAATTTTGAAAATCCAACCGGTT
TGTGATATTTATAGCAATAAACCTTAACCGAATTCATACATATGTTTTCAACTTAGTAGACATTC
ATTGTTCCTGAATTTCAACCAAACGATCTTCTCCGCTATTCTCATACCACGAACTACTTCGAGTG
TGGGCCCAAACCAATTAAACCAAAACACAAAACTAGAAAAAGTTTTCTCTCCTTTTGGGGTGAAA
ACAAAAATTCTTTCTTTTT
Found at i:33958625 original size:8 final size:8
Alignment explanation
Indices: 33958614--33958647 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
33958604 AAGGTATAAG
33958614 TATGTATA
1 TATGTATA
33958622 TATGTATA
1 TATGTATA
* *
33958630 TGTATATA
1 TATGTATA
33958638 TATGTATA
1 TATGTATA
33958646 TA
1 TA
33958648 ATGCTCGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
TATGTATA
Found at i:33959017 original size:75 final size:75
Alignment explanation
Indices: 33958918--33959058 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 75
33958908 GCTTACATAT
* ** * * * * *
33958918 ATGTATATGTTCTTTTGTTGAATTTAGGAAGGACATTTATATAAGTTTATGTG-AGATTCGATTA
1 ATGTATATGTTCTTGTAATAAATTTAAGAAGGAAATTTACATAAGTATATG-GAAGATTCGATTA
33958982 TGCAGGTATAC
65 TGCAGGTATAC
* * *
33958993 ATGTATATGTTCTTGTAATAAATTTAAGTATGAAATTTACATATGTATATGGAAGATTCGATTAT
1 ATGTATATGTTCTTGTAATAAATTTAAGAAGGAAATTTACATAAGTATATGGAAGATTCGATTAT
33959058 G
66 G
33959059 TATATATATT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 1 0.02
75 53 0.98
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (75 bp):
ATGTATATGTTCTTGTAATAAATTTAAGAAGGAAATTTACATAAGTATATGGAAGATTCGATTAT
GCAGGTATAC
Found at i:33959199 original size:41 final size:41
Alignment explanation
Indices: 33959140--33959219 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
33959130 TGATCGAATG
* * *
33959140 TTTCAGACTTTACGTCTAGCAGGTTTGATACCGGTGAAATA
1 TTTCAGACTTTACATCTAGCAGGCTTAATACCGGTGAAATA
* * *
33959181 TTTCAGGCTTTATATCTAGCAGGCTTAATGCCGGTGAAA
1 TTTCAGACTTTACATCTAGCAGGCTTAATACCGGTGAAA
33959220 CAATTCGGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (41 bp):
TTTCAGACTTTACATCTAGCAGGCTTAATACCGGTGAAATA
Found at i:33959454 original size:33 final size:34
Alignment explanation
Indices: 33959407--33959480 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
33959397 GTTAGGCATA
**
33959407 TGTATATATGCATTCAGCTATTCATG-TTTAAAG
1 TGTATATACACATTCAGCTATTCATGTTTTAAAG
* *
33959440 TGTATATACACATTCGGCTATTCATGTTTTAAAT
1 TGTATATACACATTCAGCTATTCATGTTTTAAAG
33959474 TGTATAT
1 TGTATAT
33959481 GCATTCGGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.45
Consensus pattern (34 bp):
TGTATATACACATTCAGCTATTCATGTTTTAAAG
Found at i:33962036 original size:10 final size:10
Alignment explanation
Indices: 33962021--33962045 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33962011 TCAAATAAGC
33962021 ATGTATATAT
1 ATGTATATAT
33962031 ATGTATATAT
1 ATGTATATAT
33962041 ATGTA
1 ATGTA
33962046 AATTTCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (10 bp):
ATGTATATAT
Found at i:33962165 original size:6 final size:6
Alignment explanation
Indices: 33962156--33962262 Score: 214
Period size: 6 Copynumber: 17.8 Consensus size: 6
33962146 TGAGTATGTA
33962156 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
33962204 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
33962252 TATATG TATAT
1 TATATG TATAT
33962263 AATGCTCGAA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 101 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:33962808 original size:40 final size:41
Alignment explanation
Indices: 33962758--33962836 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
33962748 TGATCGAATG
* * * *
33962758 TTTCAGACTTT-CGTCTAGCTGGTTTGATGCCGGTGAAATA
1 TTTCAAACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
*
33962798 TTTCAAACTTTATGTCTAGCAGGCTTAATGCCGGTGAAA
1 TTTCAAACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
33962837 CAATTCGGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 10 0.30
41 23 0.70
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTCAAACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATA
Found at i:33962856 original size:41 final size:41
Alignment explanation
Indices: 33962770--33962861 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
33962760 TCAGACTTTC
* * * * * * *
33962770 GTCTAGCTGGTTTGATGCCGGTGAAATATTTCAAACTTTAT
1 GTCTAGCAGGCTTAATGCCGGTGAAACAATTCAAACTATAA
**
33962811 GTCTAGCAGGCTTAATGCCGGTGAAACAATTCGGACTATAA
1 GTCTAGCAGGCTTAATGCCGGTGAAACAATTCAAACTATAA
33962852 GTCTAGCAGG
1 GTCTAGCAGG
33962862 GTAAAAGCCG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (41 bp):
GTCTAGCAGGCTTAATGCCGGTGAAACAATTCAAACTATAA
Found at i:33963068 original size:69 final size:71
Alignment explanation
Indices: 33962988--33963141 Score: 186
Period size: 69 Copynumber: 2.2 Consensus size: 71
33962978 TTGAAGAACA
* * ** **
33962988 TGTATATACATTCGGTGATAATACTTGTTAGGCA-TATGTATATATGCATTCAGCTATTCATG-T
1 TGTATATACATTCGATGATAATACTTGTTAAGCACTATCCATATACACATTCAGCTATTCATGTT
33963051 TTAAAG
66 TTAAAG
* * *
33963057 TGTATATACATTTGATGATAATATTTGTTAAGCATCTATCCATATACACATTCGGCTATTCATGT
1 TGTATATACATTCGATGATAATACTTGTTAAGCA-CTATCCATATACACATTCAGCTATTCATGT
*
33963122 TTTAAAT
65 TTTAAAG
*
33963129 TGTATATGCATTC
1 TGTATATACATTC
33963142 AGTTTTAAGT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
69 30 0.43
71 23 0.33
72 17 0.24
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (71 bp):
TGTATATACATTCGATGATAATACTTGTTAAGCACTATCCATATACACATTCAGCTATTCATGTT
TTAAAG
Found at i:33966333 original size:16 final size:16
Alignment explanation
Indices: 33966291--33966336 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
33966281 ATCATCTCAT
* *
33966291 ATATATATATATATCAC
1 ATAT-TATAAATATTAC
33966308 A-ATTAT-AATATTAC
1 ATATTATAAATATTAC
33966322 ATATTATAAATATTA
1 ATATTATAAATATTA
33966337 TAAACAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 7 0.28
15 8 0.32
16 9 0.36
17 1 0.04
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTATAAATATTAC
Found at i:33967833 original size:21 final size:21
Alignment explanation
Indices: 33967809--33967851 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
33967799 TCTCACAATG
*
33967809 TAAACGTTCTTACAGTGTCAC
1 TAAACGTTCTTACAGTGCCAC
33967830 TAAACGTTCTTACAGTGCCAC
1 TAAACGTTCTTACAGTGCCAC
33967851 T
1 T
33967852 TATCATCAAT
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:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (21 bp):
TAAACGTTCTTACAGTGCCAC
Found at i:33968984 original size:49 final size:50
Alignment explanation
Indices: 33968914--33969042 Score: 161
Period size: 56 Copynumber: 2.5 Consensus size: 50
33968904 TGATTTATTC
* * *
33968914 TATTAATTTAAAAACAGAAAATG-GTAAATTATAGCTTTAAGTTATCTTT
1 TATTAATTTTAAAACAAAAAATGTATAAATTATAGCTTTAAGTTATCTTT
*
33968963 TATTAATTTTAAAACAAAAAATGTTATTATATAAATTATAGTTTTAAGTTATCTTT
1 TATTAATTTTAAAACAAAAAATG------TATAAATTATAGCTTTAAGTTATCTTT
33969019 TATTAATTTTAAAACAAAAAATGT
1 TATTAATTTTAAAACAAAAAATGT
33969043 TATATATAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
49 21 0.30
50 1 0.01
56 47 0.68
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (50 bp):
TATTAATTTTAAAACAAAAAATGTATAAATTATAGCTTTAAGTTATCTTT
Found at i:33968998 original size:56 final size:55
Alignment explanation
Indices: 33968938--33969051 Score: 210
Period size: 56 Copynumber: 2.1 Consensus size: 55
33968928 CAGAAAATGG
33968938 TAAATTATAGCTTTAAGTTATCTTTTATTAATTTTAAAACAAAAAATGTTATTATA
1 TAAATTATAGCTTTAAGTTATCTTTTATTAATTTTAAAACAAAAAATGTTA-TATA
*
33968994 TAAATTATAGTTTTAAGTTATCTTTTATTAATTTTAAAACAAAAAATGTTATATA
1 TAAATTATAGCTTTAAGTTATCTTTTATTAATTTTAAAACAAAAAATGTTATATA
33969049 TAA
1 TAA
33969052 TAGAGTTGCT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 7 0.12
56 50 0.88
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.46
Consensus pattern (55 bp):
TAAATTATAGCTTTAAGTTATCTTTTATTAATTTTAAAACAAAAAATGTTATATA
Found at i:33969716 original size:14 final size:14
Alignment explanation
Indices: 33969697--33969734 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
33969687 AGCTCGATCG
*
33969697 TATTAATTTTTTTA
1 TATTAATTTTTTAA
*
33969711 TATTAATATTTTAA
1 TATTAATTTTTTAA
33969725 TA-TAATTTTT
1 TATTAATTTTT
33969735 AAAAATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTAATTTTTTAA
Found at i:33970621 original size:6 final size:6
Alignment explanation
Indices: 33970600--33970635 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
33970590 GTCATGCATT
*
33970600 AAATTA TAATTAA AAATTA AAATTA AAATTA AAATT
1 AAATTA AAATT-A AAATTA AAATTA AAATTA AAATT
33970636 TCAATAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AAATTA
Found at i:33971018 original size:6 final size:6
Alignment explanation
Indices: 33970997--33971032 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
33970987 ATCATGCATT
*
33970997 AAATTA TAATTAA AAATTA AAATTA AAATTA AAATT
1 AAATTA AAATT-A AAATTA AAATTA AAATTA AAATT
33971033 TCAATAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AAATTA
Found at i:33971173 original size:397 final size:397
Alignment explanation
Indices: 33970440--33971233 Score: 1498
Period size: 397 Copynumber: 2.0 Consensus size: 397
33970430 ATATACGAGA
33970440 AATTTTGAGTTTTAAAATAATTCTCTTTTTAATTATATTTAAAGTGGATCTTGTTTTTAAGTTAA
1 AATTTTGAGTTTTAAAATAATTCTCTTTTTAATTATATTTAAAGTGGATCTTGTTTTTAAGTTAA
* *
33970505 GTTTTAAATTTATTTTTTTTAGCATTGATAATAACAGTAATAATAATCATAATAATAAATTTGTA
66 GTTTTAAATTTAATTTTTTTACCATTGATAATAACAGTAATAATAATCATAATAATAAATTTGTA
**
33970570 AATAATAAATAATTTTAAATGTCATGCATTAAATTATAATTAAAAATTAAAATTAAAATTAAAAT
131 AATAATAAATAATTTTAAACATCATGCATTAAATTATAATTAAAAATTAAAATTAAAATTAAAAT
33970635 TTCAATAGATATTATAAAATAATGTAATTACATATATCATATCATATTATATTACAAGGTTCTAA
196 TTCAATAGATATTATAAAATAATGTAATTACATATATCATATCATATTATATTACAAGGTTCTAA
* *
33970700 ATAAATAAATGTGCTCACACGACACTCTTTTCCTCTAGGCCTTTTTAAATTATATGAGATAATTT
261 ATAAACAAATGTGCTCACACGACACTCTTTTACTCTAGGCCTTTTTAAATTATATGAGATAATTT
* *
33970765 GCTTTAAACATAACTTAATATTTATACTTATATTACAATTCTTAAAGCTATTTTTTAAATTAATA
326 ACTTTAAACATAACTTAATATTTATACTTATATTACAATTCTTAAAACTATTTTTTAAATTAATA
33970830 TTATTTT
391 TTATTTT
33970837 AATTTTGAGTTTTAAAATAATTCTCTTTTTAATTATATTTAAAGTGGATCTTGTTTTTAAGTTAA
1 AATTTTGAGTTTTAAAATAATTCTCTTTTTAATTATATTTAAAGTGGATCTTGTTTTTAAGTTAA
*
33970902 GTTTTAAATTTAATTTTTTTACCATTGATAATAACAGTAATAATAATTATAATAATAAATTTGTA
66 GTTTTAAATTTAATTTTTTTACCATTGATAATAACAGTAATAATAATCATAATAATAAATTTGTA
33970967 AATAATAAATAATTTTAAACATCATGCATTAAATTATAATTAAAAATTAAAATTAAAATTAAAAT
131 AATAATAAATAATTTTAAACATCATGCATTAAATTATAATTAAAAATTAAAATTAAAATTAAAAT
33971032 TTCAATAGATATTATAAAATAATGTAATTACATATATCATATCATATTATATTACAAGGTTCTAA
196 TTCAATAGATATTATAAAATAATGTAATTACATATATCATATCATATTATATTACAAGGTTCTAA
*
33971097 ATAAACAAATGTGCTCACACGACACTCTTTTACTCTATGCCTTTTTAAATTATATGAGATAATTT
261 ATAAACAAATGTGCTCACACGACACTCTTTTACTCTAGGCCTTTTTAAATTATATGAGATAATTT
33971162 ACTTTAAACATAACTTAATATTTATACTTATATTACAATTCTTAAAACTATTTTTTAAATTAATA
326 ACTTTAAACATAACTTAATATTTATACTTATATTACAATTCTTAAAACTATTTTTTAAATTAATA
33971227 TTATTTT
391 TTATTTT
33971234 TATTATTTTT
Statistics
Matches: 387, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
397 387 1.00
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (397 bp):
AATTTTGAGTTTTAAAATAATTCTCTTTTTAATTATATTTAAAGTGGATCTTGTTTTTAAGTTAA
GTTTTAAATTTAATTTTTTTACCATTGATAATAACAGTAATAATAATCATAATAATAAATTTGTA
AATAATAAATAATTTTAAACATCATGCATTAAATTATAATTAAAAATTAAAATTAAAATTAAAAT
TTCAATAGATATTATAAAATAATGTAATTACATATATCATATCATATTATATTACAAGGTTCTAA
ATAAACAAATGTGCTCACACGACACTCTTTTACTCTAGGCCTTTTTAAATTATATGAGATAATTT
ACTTTAAACATAACTTAATATTTATACTTATATTACAATTCTTAAAACTATTTTTTAAATTAATA
TTATTTT
Found at i:33971706 original size:31 final size:30
Alignment explanation
Indices: 33971671--33971748 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
33971661 TTAACTTTAT
* *
33971671 TTAATTACATCATATAATATTTTAATTTAAC
1 TTAATTACATAATATAATA-ATTAATTTAAC
* * *
33971702 TTAATCACATTATATAATAATTAATTTAAT
1 TTAATTACATAATATAATAATTAATTTAAC
33971732 TTAATTACCATAATATA
1 TTAATTA-CATAATATA
33971749 CACCTCACTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.46
Consensus pattern (30 bp):
TTAATTACATAATATAATAATTAATTTAAC
Found at i:33971921 original size:5 final size:5
Alignment explanation
Indices: 33971911--33971944 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
33971901 CATATATACA
*
33971911 CATAT CATAT CATAT CATAT TATAT CATAT -ATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT
33971945 AATAAAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (5 bp):
CATAT
Found at i:33983477 original size:17 final size:16
Alignment explanation
Indices: 33983445--33983475 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33983435 CAATCCAGTC
33983445 GAAAAATCACATTTTG
1 GAAAAATCACATTTTG
*
33983461 GAAAAATTACATTTT
1 GAAAAATCACATTTT
33983476 TGCCCCTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (16 bp):
GAAAAATCACATTTTG
Found at i:33984372 original size:30 final size:30
Alignment explanation
Indices: 33984335--33984581 Score: 136
Period size: 30 Copynumber: 8.3 Consensus size: 30
33984325 TCATTGACAG
33984335 TGAAAAGGGATAGCTTCAGCTATCGAAATA
1 TGAAAAGGGATAGCTTCAGCTATCGAAATA
* * * * *
33984365 CGAAAAGGGAT-G-GTGACGACCATCGAATTA
1 TGAAAAGGGATAGCTTCA-G-CTATCGAAATA
*
33984395 TGAAAAAGGGATAGATTCAGCTATCGAAATA
1 TG-AAAAGGGATAGCTTCAGCTATCGAAATA
* *
33984426 TGAAAAGCGATAGCTTTAGCTATC-AAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAA-TA
* * * * *
33984456 TGAAAAGGGAT-GGTGACAACCATC-AACTA
1 TGAAAAGGGATAGCT-TCAGCTATCGAAATA
* * * * *
33984485 TGAAAAAGGAT-G-GTGACGACAATCGAATTA
1 TGAAAAGGGATAGCTTCA-G-CTATCGAAATA
* **
33984515 TGAAAAGGAATAGCTTTGGCTATC-AAATTA
1 TGAAAAGGGATAGCTTCAGCTATCGAAA-TA
* *
33984545 TGAAAAGGGATACCTTC-GACTATCG-ATTA
1 TGAAAAGGGATAGCTTCAG-CTATCGAAATA
33984574 TGAAAAGG
1 TGAAAAGG
33984582 AATGCTGATG
Statistics
Matches: 164, Mismatches: 38, Indels: 31
0.70 0.16 0.13
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 37 0.23
30 97 0.59
31 22 0.13
32 3 0.02
33 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (30 bp):
TGAAAAGGGATAGCTTCAGCTATCGAAATA
Found at i:33984455 original size:61 final size:60
Alignment explanation
Indices: 33984335--33984527 Score: 162
Period size: 61 Copynumber: 3.2 Consensus size: 60
33984325 TCATTGACAG
* * *
33984335 TGAAAAGGGATAGCTTCAGCTATCGAAATACGAAAAGGGATGGTGACGACCATCGAATTA
1 TGAAAAGGGATAGATTCAGCTATCGAAATACGAAAAGCGATGGTGACGACCATCAAATTA
* * * *
33984395 TGAAAAAGGGATAGATTCAGCTATCGAAATATGAAAAGCGATAGCTTTA-G-CTATCAAATTA
1 TG-AAAAGGGATAGATTCAGCTATCGAAATACGAAAAGCGAT-G-GTGACGACCATCAAATTA
* * * * * * * *
33984456 TGAAAAGGGAT-GGTGACAACCATC-AACTATGAAAAAG-GATGGTGACGACAATCGAATTA
1 TGAAAAGGGATAGAT-TCAGCTATCGAAATACG-AAAAGCGATGGTGACGACCATCAAATTA
*
33984515 TGAAAAGGAATAG
1 TGAAAAGGGATAG
33984528 CTTTGGCTAT
Statistics
Matches: 108, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
57 2 0.02
58 2 0.02
59 30 0.28
60 23 0.21
61 47 0.44
62 2 0.02
63 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (60 bp):
TGAAAAGGGATAGATTCAGCTATCGAAATACGAAAAGCGATGGTGACGACCATCAAATTA
Found at i:33984538 original size:89 final size:90
Alignment explanation
Indices: 33984335--33984555 Score: 272
Period size: 89 Copynumber: 2.4 Consensus size: 90
33984325 TCATTGACAG
* * * *
33984335 TGAAAAGGGATAGCTTCAGCTATCGAAA-TACGAAAAGGGATGGTGACGACCATCGAATTATGAA
1 TGAAAA-GGATAGCTTTAGCTATC-AAATTATGAAAAGGGATGGTGACAACCATCGAACTATGAA
* *
33984399 AAAGGGATAGATTCAGCTATCGAAATA
64 AAAGGGATAGATACAGCAATCGAAATA
33984426 TGAAAAGCGATAGCTTTAGCTATCAAATTATGAAAAGGGATGGTGACAACCATC-AACTATGAAA
1 TGAAAAG-GATAGCTTTAGCTATCAAATTATGAAAAGGGATGGTGACAACCATCGAACTATGAAA
* *
33984490 AA-GGAT-GGTGAC-GACAATCGAATTA
65 AAGGGATAGAT-ACAG-CAATCGAAATA
*
33984515 TGAAAAGGAATAGCTTTGGCTATCAAATTATGAAAAGGGAT
1 TGAAAAGG-ATAGCTTTAGCTATCAAATTATGAAAAGGGAT
33984556 ACCTTCGACT
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
88 4 0.03
89 52 0.45
90 15 0.13
91 45 0.39
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (90 bp):
TGAAAAGGATAGCTTTAGCTATCAAATTATGAAAAGGGATGGTGACAACCATCGAACTATGAAAA
AGGGATAGATACAGCAATCGAAATA
Found at i:33984540 original size:59 final size:58
Alignment explanation
Indices: 33984452--33984622 Score: 166
Period size: 59 Copynumber: 2.9 Consensus size: 58
33984442 TAGCTATCAA
* * ** *
33984452 ATTATGAAAAGGGATGGTGACAACCATCAACTATGAAAAAGGATGGTGACGACAATCG
1 ATTATGAAAAGGAATGCTGATGACCATCAATTATGAAAAAGGATGGTGACGACAATCG
* * * * ** * *
33984510 AATTATGAAAAGGAATAGCT-TTGGCTATCAAATTATGAAAAGGGATACCT-TCGACTATCG
1 -ATTATGAAAAGGAAT-GCTGATGACCATC-AATTATGAAAAAGGAT-GGTGACGACAATCG
*
33984570 ATTATGAAAAGGAATGCTGATGACCATCAATTATGAAAATGGATGGTGACGAC
1 ATTATGAAAAGGAATGCTGATGACCATCAATTATGAAAAAGGATGGTGACGAC
33984623 CATCTTGATA
Statistics
Matches: 87, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
57 1 0.01
58 22 0.25
59 39 0.45
60 24 0.28
61 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (58 bp):
ATTATGAAAAGGAATGCTGATGACCATCAATTATGAAAAAGGATGGTGACGACAATCG
Found at i:33984576 original size:89 final size:89
Alignment explanation
Indices: 33984417--33984608 Score: 221
Period size: 89 Copynumber: 2.2 Consensus size: 89
33984407 AGATTCAGCT
* **
33984417 ATCGAAATATGAAAAGCGATAGCTTTAGCTATCAAATTATGAAAAGGGATGGTGACAACCATCAA
1 ATCGAATTATGAAAAGCGATAGCTTTAGCTATCAAATTATGAAAAGGGATCCTGACAACCATCAA
*
33984482 CTATGAAAAAGG-ATGGTGACGACA
66 CTATG-AAAAGGAATGCTGACGACA
* * * *
33984506 ATCGAATTATGAAAAG-GAATAGCTTTGGCTATCAAATTATGAAAAGGGATACCT-TCGACTATC
1 ATCGAATTATGAAAAGCG-ATAGCTTTAGCTATCAAATTATGAAAAGGGAT-CCTGACAACCATC
* * * *
33984569 GATTATGAAAAGGAATGCTGATGACC
64 AACTATGAAAAGGAATGCTGACGACA
33984595 ATC-AATTATGAAAA
1 ATCGAATTATGAAAA
33984609 TGGATGGTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
88 18 0.20
89 69 0.78
90 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (89 bp):
ATCGAATTATGAAAAGCGATAGCTTTAGCTATCAAATTATGAAAAGGGATCCTGACAACCATCAA
CTATGAAAAGGAATGCTGACGACA
Found at i:33984602 original size:29 final size:28
Alignment explanation
Indices: 33984451--33984626 Score: 113
Period size: 29 Copynumber: 6.0 Consensus size: 28
33984441 TTAGCTATCA
* *
33984451 AATTATGAAAAGGGATGGTGACAACCATC
1 AATTATGAAAA-GGATGCTGACGACCATC
* * *
33984480 AACTATGAAAAAGGATGGTGACGACAATC
1 AATTATG-AAAAGGATGCTGACGACCATC
** * *
33984509 GAATTATGAAAAGGAATAGCT-TTGGCTATC
1 -AATTATGAAAAGG-AT-GCTGACGACCATC
* * *
33984539 AAATTATGAAAAGGGATACCT-TCGACTATC
1 -AATTATGAAAA-GGAT-GCTGACGACCATC
* *
33984569 GATTATGAAAAGGAATGCTGATGACCATC
1 AATTATGAAAAGG-ATGCTGACGACCATC
*
33984598 AATTATGAAAATGGATGGTGACGACCATC
1 AATTATGAAAA-GGATGCTGACGACCATC
33984627 TTGATACCAC
Statistics
Matches: 118, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
28 4 0.03
29 68 0.58
30 42 0.36
31 4 0.03
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.24
Consensus pattern (28 bp):
AATTATGAAAAGGATGCTGACGACCATC
Found at i:33990561 original size:16 final size:16
Alignment explanation
Indices: 33990542--33990578 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
33990532 TGTTAATTTT
33990542 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
33990558 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
33990574 AATGT
1 AATGT
33990579 AGGGACTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.30
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:33991250 original size:40 final size:40
Alignment explanation
Indices: 33991182--33991283 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 40
33991172 CAAATGAACG
* * * *
33991182 ATACCTATTGAATCTACAT-AAACGTATGCGCT-TTCGAGTC
1 ATACCTATTGAATCTA-TTGAAACATATGCGCTCTT-AAGCC
*
33991222 ATATCTATTGAATCTATTGAAACATATGCGCTCTTAAGCC
1 ATACCTATTGAATCTATTGAAACATATGCGCTCTTAAGCC
*
33991262 ATACCTACTGAATCTATTGAAA
1 ATACCTATTGAATCTATTGAAA
33991284 TGAGTGCTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.02
40 50 0.94
41 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (40 bp):
ATACCTATTGAATCTATTGAAACATATGCGCTCTTAAGCC
Found at i:33991387 original size:36 final size:36
Alignment explanation
Indices: 33991308--33991394 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
33991298 AGTAAAAGAC
* **
33991308 TCTACTGATATACTGAATAAATCTCATGGAATGTTA
1 TCTACTGATATACTGAAGAAATCTCATGGAATGAAA
* * *
33991344 TCCACTGATATACTGAAGAAA-CTCAATTGAGTGAAA
1 TCTACTGATATACTGAAGAAATCTC-ATGGAATGAAA
33991380 TCTACTGATATACTG
1 TCTACTGATATACTG
33991395 GGTAAAGCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 3 0.07
36 40 0.93
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (36 bp):
TCTACTGATATACTGAAGAAATCTCATGGAATGAAA
Done.