Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 168 of 185
Found at i:51311176 original size:21 final size:21
Alignment explanation
Indices: 51311152--51311193 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51311142 TCATACTCAA
*
51311152 ATTTATTTATTC-TCTTCTCTT
1 ATTT-TTTATTCTTCCTCTCTT
*
51311173 ATTTTTTCTTCTTCCTCTCTT
1 ATTTTTTATTCTTCCTCTCTT
51311194 TGTTAATGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.24, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTTATTCTTCCTCTCTT
Found at i:51312312 original size:22 final size:24
Alignment explanation
Indices: 51312286--51312329 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
51312276 GAAAAATATT
51312286 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
51312308 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
51312330 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:51312440 original size:9 final size:9
Alignment explanation
Indices: 51312426--51312453 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
51312416 TTTTGTTACA
51312426 ACAATTAAT
1 ACAATTAAT
51312435 ACAATTAAT
1 ACAATTAAT
51312444 ACAATTAAT
1 ACAATTAAT
51312453 A
1 A
51312454 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:51312475 original size:68 final size:66
Alignment explanation
Indices: 51312396--51312537 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
51312386 TCAAGTTTAT
*
51312396 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
51312461 AAA
64 AAA
51312464 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
51312529 T
66 A
51312530 TTTACTAA
1 TTTACTAA
51312538 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:51312547 original size:16 final size:16
Alignment explanation
Indices: 51312526--51312567 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
51312516 AATAATTTGA
*
51312526 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
51312542 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
51312558 TAGTTTTAAT
1 TAATTTTAAT
51312568 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:51312556 original size:59 final size:66
Alignment explanation
Indices: 51312396--51312559 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
51312386 TCAAGTTTAT
*
51312396 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
51312461 AAA
64 AAA
51312464 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
51312527 AAT
64 AAA
*
51312530 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
51312560 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:51315208 original size:13 final size:13
Alignment explanation
Indices: 51315190--51315341 Score: 67
Period size: 13 Copynumber: 11.2 Consensus size: 13
51315180 ATTTTGAATA
51315190 TAATATACTGTTT
1 TAATATACTGTTT
51315203 TAATATACTGATTACT
1 TAATATACTG-TT--T
* * * *
51315219 GTTATAAAAT-TTG
1 -TAATATACTGTTT
*
51315232 TAATATATTGTTT
1 TAATATACTGTTT
*
51315245 TAACTTTTAACT-TTT
1 TAA--TAT-ACTGTTT
*
51315260 -AATATACTATTAT
1 TAATATACTGTT-T
* *
51315273 AAATATACTTTTT
1 TAATATACTGTTT
* *
51315286 TAATATATTATTT
1 TAATATACTGTTT
*
51315299 TAATATATTGTTAT
1 TAATATACTGTT-T
* *
51315313 AAATATATTGTTT
1 TAATATACTGTTT
*
51315326 TAATATAATGTTT
1 TAATATACTGTTT
51315339 TAA
1 TAA
51315342 CTTTTAATAT
Statistics
Matches: 108, Mismatches: 19, Indels: 24
0.72 0.13 0.16
Matches are distributed among these distances:
11 3 0.03
12 10 0.09
13 53 0.49
14 26 0.24
15 7 0.06
16 3 0.03
17 6 0.06
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:51315299 original size:15 final size:13
Alignment explanation
Indices: 51315256--51315332 Score: 75
Period size: 13 Copynumber: 5.8 Consensus size: 13
51315246 AACTTTTAAC
*
51315256 TTTTAATATACTA
1 TTTTAATATATTA
*
51315269 TTATAAATATACTT-
1 TT-TTAATATA-TTA
51315283 TTTTAATATATTA
1 TTTTAATATATTA
*
51315296 TTTTAATATATTG
1 TTTTAATATATTA
* *
51315309 TTATAAATATATTG
1 TT-TTAATATATTA
51315323 TTTTAATATA
1 TTTTAATATA
51315333 ATGTTTTAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.04
13 30 0.56
14 21 0.39
15 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (13 bp):
TTTTAATATATTA
Found at i:51315313 original size:40 final size:40
Alignment explanation
Indices: 51315233--51315341 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
51315223 TAAAATTTGT
* *
51315233 AATATATTGTTTTAACTTTTAA-CTTTTAATATACTATTATA
1 AATATATTGTTTTAA--TATAATATTTTAATATACTATTATA
* * *
51315274 AATATACTT-TTTTAATATATTATTTTAATATATTGTTATA
1 AATATA-TTGTTTTAATATAATATTTTAATATACTATTATA
*
51315314 AATATATTGTTTTAATATAATGTTTTAA
1 AATATATTGTTTTAATATAATATTTTAA
51315342 CTTTTAATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
39 5 0.09
40 39 0.67
41 12 0.21
42 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (40 bp):
AATATATTGTTTTAATATAATATTTTAATATACTATTATA
Found at i:51317969 original size:10 final size:10
Alignment explanation
Indices: 51317954--51317978 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51317944 TGGGGTTTAA
51317954 CTTATGTTTT
1 CTTATGTTTT
51317964 CTTATGTTTT
1 CTTATGTTTT
51317974 CTTAT
1 CTTAT
51317979 CTCAAAGATA
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:0.12, C:0.12, G:0.08, T:0.68
Consensus pattern (10 bp):
CTTATGTTTT
Found at i:51318028 original size:30 final size:30
Alignment explanation
Indices: 51317992--51318050 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
51317982 AAAGATAGTT
51317992 TGAAGCAAAATTACAGATTGGGATTTTCAG
1 TGAAGCAAAATTACAGATTGGGATTTTCAG
*
51318022 TGAAGCAAAATTATAGATTGGGATTTTCA
1 TGAAGCAAAATTACAGATTGGGATTTTCA
51318051 ATGCTTGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.32
Consensus pattern (30 bp):
TGAAGCAAAATTACAGATTGGGATTTTCAG
Found at i:51323670 original size:5 final size:5
Alignment explanation
Indices: 51323660--51323703 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
51323650 GATTATGTTT
51323660 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA -TATA T
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA T
51323704 AACAAAAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
3 2 0.06
4 6 0.17
5 22 0.63
6 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:51323685 original size:19 final size:19
Alignment explanation
Indices: 51323661--51323703 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
51323651 ATTATGTTTT
51323661 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
51323680 TATATTATATTATATTATA
1 TATATTATATTATATTATA
51323699 TATAT
1 TATAT
51323704 AACAAAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:51324188 original size:34 final size:35
Alignment explanation
Indices: 51324144--51324210 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
51324134 CAGTAAAATA
51324144 TTTTCCGTAAAATGATTT-CGGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
51324178 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
51324211 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:51325159 original size:41 final size:37
Alignment explanation
Indices: 51325111--51325210 Score: 92
Period size: 41 Copynumber: 2.6 Consensus size: 37
51325101 TCGACCTTGA
51325111 GTCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-AC--TTACTTCGGATAG
* ** ** * *
51325151 ATTCGATGAGGTACTGGGTACCAACTTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
*
51325189 GCCGATGAGACACTGGGTGTCA
1 GTCGATGAGACACTGGGTGTCA
51325211 CTTTATTGCT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 16 0.35
38 11 0.24
40 2 0.04
41 17 0.37
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (37 bp):
GTCGATGAGACACTGGGTGTCAACTTACTTCGGATAG
Found at i:51328117 original size:32 final size:32
Alignment explanation
Indices: 51328081--51328147 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
51328071 TATATAGCCT
*
51328081 CTTATTCAAGCAGAACTTATCTCTCCTTGATC
1 CTTATTCAAGCAAAACTTATCTCTCCTTGATC
*
51328113 CTTATTCAAGCAAAACTTATCTCTCTTTGATC
1 CTTATTCAAGCAAAACTTATCTCTCCTTGATC
51328145 CTT
1 CTT
51328148 CCTCTATGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.07, T:0.40
Consensus pattern (32 bp):
CTTATTCAAGCAAAACTTATCTCTCCTTGATC
Found at i:51334357 original size:8 final size:7
Alignment explanation
Indices: 51334337--51334369 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
51334327 TTAACAAGTC
51334337 TTAAAAA
1 TTAAAAA
51334344 TTAAAAA
1 TTAAAAA
51334351 TTAAAAA
1 TTAAAAA
51334358 TTACAAAA
1 TTA-AAAA
51334366 TTAA
1 TTAA
51334370 TTAGCCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (7 bp):
TTAAAAA
Found at i:51339842 original size:30 final size:30
Alignment explanation
Indices: 51339806--51339864 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
51339796 TTGGGTATTT
*
51339806 CCACACGGGCTGGCCACACG-CTCGTGTGCG
1 CCACACGAGCTGGCCACACGCCTC-TGTGCG
51339836 CCACACGAGCTGGCCACACGCCTCTGTGC
1 CCACACGAGCTGGCCACACGCCTCTGTGC
51339865 CAGCCCGTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.15, C:0.42, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACGCCTCTGTGCG
Found at i:51346402 original size:14 final size:15
Alignment explanation
Indices: 51346383--51346416 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
51346373 TCAACATGTC
51346383 TAAAAAAT-TATAAA
1 TAAAAAATATATAAA
*
51346397 TAAAAAATATTTAAA
1 TAAAAAATATATAAA
51346412 TAAAA
1 TAAAA
51346417 GTACGAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAAATATATAAA
Found at i:51358094 original size:27 final size:27
Alignment explanation
Indices: 51358004--51358466 Score: 362
Period size: 27 Copynumber: 17.1 Consensus size: 27
51357994 GGTATAACAA
* * *
51358004 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCTTATAGGGGTATTTCGG
* * * *
51358031 CCAGTCTACCTTAT-GGCGGTATTTCAG
1 TCATTTTACCTTATAGG-GGTATTTCGG
*
51358058 TCATTCTACCTTATAGGGGTATTTCGG
1 TCATTTTACCTTATAGGGGTATTTCGG
* * ** *
51358085 TTATTTTACCCTAT-GAGATTAATTCGG
1 TCATTTTACCTTATAG-GGGTATTTCGG
** * * *
51358112 TCAACTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCTTATAGGGGTATTTCGG
* * *
51358139 TTATTTTACCTTATGGGGGTATTTTGG
1 TCATTTTACCTTATAGGGGTATTTCGG
* * * *
51358166 TCATTATACCCTATAGGTGTACTTCGG
1 TCATTTTACCTTATAGGGGTATTTCGG
* *
51358193 TCATTCTACCTTATAGGGGTATTTTGG
1 TCATTTTACCTTATAGGGGTATTTCGG
* * * **
51358220 TCATTTTACCCTAGAGGGGGTAATTCTA
1 TCATTTTACCTTATA-GGGGTATTTCGG
* * *
51358248 ACATTTTACGTTAT-GGGGATATTTCGA
1 TCATTTTACCTTATAGGGG-TATTTCGG
* * * *
51358275 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCTTATAGGGGTATTTCGG
*
51358302 TCA-TTTACCTTATAGGGGTATTTCAG
1 TCATTTTACCTTATAGGGGTATTTCGG
* *
51358328 TCATTTTACCCTAT-GTGGGTATTTTGG
1 TCATTTTACCTTATAG-GGGTATTTCGG
* * * *
51358355 TTATTTTAGCTTATGGGGGTATTTTGG
1 TCATTTTACCTTATAGGGGTATTTCGG
*
51358382 TCATTTTACCTTAT-GAGGGTATTTCAG
1 TCATTTTACCTTATAG-GGGTATTTCGG
*
51358409 TCATTTTACCTTATAGGGGTATTTCGA
1 TCATTTTACCTTATAGGGGTATTTCGG
* * * *
51358436 TCAATCTACCCTATAGGGGTATTTTGG
1 TCATTTTACCTTATAGGGGTATTTCGG
51358463 TCAT
1 TCAT
51358467 AACAGTGTAG
Statistics
Matches: 344, Mismatches: 80, Indels: 24
0.77 0.18 0.05
Matches are distributed among these distances:
26 30 0.09
27 287 0.83
28 27 0.08
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCTTATAGGGGTATTTCGG
Found at i:51358460 original size:81 final size:81
Alignment explanation
Indices: 51358004--51358466 Score: 420
Period size: 81 Copynumber: 5.7 Consensus size: 81
51357994 GGTATAACAA
* * * * * *
51358004 TCATTTTACCCTATGGGGGTATTTCGACCAGTCTACCTTATGGCGGTATTTCAGTCATTCTACCT
1 TCATTTTACCCTAT-GGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCT
*
51358069 TAT-AGGGGTATTTCGG
65 TATGAGGGGTATTTCAG
* ** * * * * *
51358085 TTATTTTACCCTATGAGATTAATTCGGTCA-ACTTACCCTATGGGGGTATTTCAGTTATTTTACC
1 TCATTTTACCCTATG-GGGTATTTCGATCATTC-TACCCTATGGGGGTATTTCGGTCATTTTACC
**
51358149 TTATG-GGGGTATTTTGG
64 TTATGAGGGGTATTTCAG
* * * * * * * *
51358166 TCATTATACCCTATAGGTGTACTTCGGTCATTCTACCTTATAGGGGTATTTTGGTCATTTTACCC
1 TCATTTTACCCTAT-GGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCT
*
51358231 TA-GAGGGGGTAATTCTA-
65 TATGA-GGGGTATTTC-AG
* ** *
51358248 ACATTTTACGTTATGGGGATATTTCGATCATTCTACCCTATGGGGGTATTTCGATCA-TTTACCT
1 TCATTTTACCCTATGGGG-TATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCT
51358312 TAT-AGGGGTATTTCAG
65 TATGAGGGGTATTTCAG
* * * * * * *
51358328 TCATTTTACCCTATGTGGGTATTTTGGTTATTTTAGCTTATGGGGGTATTTTGGTCATTTTACCT
1 TCATTTTACCCTATG-GGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCT
51358393 TATGA-GGGTATTTCAG
65 TATGAGGGGTATTTCAG
* * * *
51358409 TCATTTTACCTTATAGGGGTATTTCGATCAATCTACCCTATAGGGGTATTTTGGTCAT
1 TCATTTTACCCTAT-GGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCAT
51358467 AACAGTGTAG
Statistics
Matches: 307, Mismatches: 60, Indels: 30
0.77 0.15 0.08
Matches are distributed among these distances:
79 1 0.00
80 54 0.18
81 198 0.64
82 54 0.18
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTATGGGGTATTTCGATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCTT
ATGAGGGGTATTTCAG
Found at i:51371633 original size:2 final size:2
Alignment explanation
Indices: 51371628--51371653 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51371618 TTTTAGAGGG
51371628 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
51371654 TTTTTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:51378883 original size:27 final size:27
Alignment explanation
Indices: 51378855--51379345 Score: 572
Period size: 27 Copynumber: 18.2 Consensus size: 27
51378845 GGATATAACA
*
51378855 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
51378882 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
51378908 ATCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
51378935 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
51378962 ATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
51378989 ATCAATTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
51379016 ATCAATTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
51379043 GTCATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
51379070 GTCATTATACCCTATGGGGGTACTTT-G
1 GTCATTTTACCCTATGGGGGTA-TTTCG
* * *
51379097 GTCATTCTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
51379124 GTCATTTTACCCTATGGAGGCTATTTCG
1 GTCATTTTACCCTATGG-GGGTATTTCG
* * *
51379152 ATCATTTTACCCTATAGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * **
51379179 GTCATTCTATCTTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
51379206 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
51379233 GTTATTTTACCTTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
51379260 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** *
51379287 GTTATTTTACCCTATAAGGGTATTTCT
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
51379314 ATCATTCTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
51379341 GTCAT
1 GTCAT
51379346 AACAATATAA
Statistics
Matches: 402, Mismatches: 58, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 26 0.06
27 350 0.87
28 26 0.06
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:51396748 original size:41 final size:41
Alignment explanation
Indices: 51396601--51396824 Score: 357
Period size: 41 Copynumber: 5.5 Consensus size: 41
51396591 AACTTTATGT
51396601 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
51396642 CTAGCA-GCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
**
51396681 CTAGCAAACT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
51396721 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
51396762 CTAGTAGGCTAAGTGCCGGTGATCTGAATTA-GTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT-TATAAAC
*
51396803 CTAGCAAGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
51396825 ATATGTTAAA
Statistics
Matches: 172, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
39 36 0.21
40 45 0.26
41 91 0.53
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:51398110 original size:196 final size:196
Alignment explanation
Indices: 51397774--51398172 Score: 746
Period size: 196 Copynumber: 2.0 Consensus size: 196
51397764 ATTATGATCT
*
51397774 TTTATTTGATTTGTTGAATTAGTTATTATTGTAAAAAAATAAAAAGAAAAAAGAAAACCGAAAGA
1 TTTATTTGATTTGTTGAATTAGTTATTATTGTAAAAAAATAAAAAGAAAAAAGAAAACCAAAAGA
51397839 AAAAAAGATATATATTGATTATTTAGTTCTATGATTGAGCTTGAACAGTTAAATTAATATTATGA
66 AAAAAAGATATATATTGATTATTTAGTTCTATGATTGAGCTTGAACAGTTAAATTAATATTATGA
51397904 GATGAAGCTCGTTTTTATTCTTGATTAGTTTTAGATCGATGTAATTTTTTTAAAATTCAGCATTA
131 GATGAAGCTCGTTTTTATTCTTGATTAGTTTTAGATCGATGTAATTTTTTTAAAATTCAGCATTA
51397969 G
196 G
51397970 TTTATTTGATTTGTTGAATTAGTTATTATTGT-AAAAAATAAAAAGAAAAAAGAAAACCAAAAGA
1 TTTATTTGATTTGTTGAATTAGTTATTATTGTAAAAAAATAAAAAGAAAAAAGAAAACCAAAAG-
*
51398034 AAAAAAAGATATATATTGATTATTTAGTTCTATGATTGAGCTTGAATAGTTAAATTAATATTATG
65 AAAAAAAGATATATATTGATTATTTAGTTCTATGATTGAGCTTGAACAGTTAAATTAATATTATG
* *
51398099 AGATTAAGCTCGTTTTTATTCTTGATTAGTTTTAGATTGATGTAATTTTTTTAAAATTCAGCATT
130 AGATGAAGCTCGTTTTTATTCTTGATTAGTTTTAGATCGATGTAATTTTTTTAAAATTCAGCATT
51398164 AG
195 AG
51398166 TTTATTT
1 TTTATTT
51398173 TTCTAGTTTG
Statistics
Matches: 198, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
195 30 0.15
196 168 0.85
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (196 bp):
TTTATTTGATTTGTTGAATTAGTTATTATTGTAAAAAAATAAAAAGAAAAAAGAAAACCAAAAGA
AAAAAAGATATATATTGATTATTTAGTTCTATGATTGAGCTTGAACAGTTAAATTAATATTATGA
GATGAAGCTCGTTTTTATTCTTGATTAGTTTTAGATCGATGTAATTTTTTTAAAATTCAGCATTA
G
Found at i:51401761 original size:13 final size:13
Alignment explanation
Indices: 51401743--51401768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51401733 AATGAAATTA
51401743 AAAAAGAATTTTC
1 AAAAAGAATTTTC
51401756 AAAAAGAATTTTC
1 AAAAAGAATTTTC
51401769 TTGAAATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAAAGAATTTTC
Found at i:51403463 original size:2 final size:2
Alignment explanation
Indices: 51403456--51403480 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51403446 TTTTTCAGAT
51403456 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
51403481 ACAATAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:51403988 original size:16 final size:17
Alignment explanation
Indices: 51403967--51403999 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51403957 GATGTAGTTG
51403967 CCTTTATAT-TGTTTTT
1 CCTTTATATGTGTTTTT
*
51403983 CCTTTATGTGTGTTTTT
1 CCTTTATATGTGTTTTT
51404000 TAGTCAGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.67
Consensus pattern (17 bp):
CCTTTATATGTGTTTTT
Found at i:51405083 original size:16 final size:16
Alignment explanation
Indices: 51405059--51405093 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51405049 ATACATAGGT
*
51405059 ATATAAAAATTATGAA
1 ATATAAAAATAATGAA
*
51405075 ATATGAAAATAATGAA
1 ATATAAAAATAATGAA
51405091 ATA
1 ATA
51405094 CATGTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (16 bp):
ATATAAAAATAATGAA
Found at i:51407105 original size:50 final size:50
Alignment explanation
Indices: 51407051--51407586 Score: 382
Period size: 50 Copynumber: 10.8 Consensus size: 50
51407041 CTAAGAAGTA
* *
51407051 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCATTGTC-GGAGAAGCG
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGG-GAAGCG
* * * * ** * ** * **
51407101 AGATTTGCCATTGTAGCTTCAATCTGTTCCACTGCACCGCCTGGGAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
* * *
51407151 AGATTCGTCGTTTTGGCTTCAATC-TTTTAATTGCAATGTCAGGGAAGCG
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
* * * ** * ** **
51407200 AGATTCACCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCAGATAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-GCCAGGGAAGCG
* * * *
51407250 AGATTCTCTGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCG
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
* * * ** * ** *
51407300 AGATTCTCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAG-T
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
* * *
51407349 ACGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCG
1 A-GATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
* * ** * * ** * **
51407400 AGATTCGCCGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTA
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
* * * *
51407450 AGATTCGCCGTTATGGCTTTAATC-TTTTAATTGTAATGCCGGGGAAGCG
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
* * * * * * * * * *
51407499 AGATTCACCGTCGTAGCTTTAATC-TTCTCACTGTACTGCCAGGGAAGTG
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
*
51407548 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTACAATG
1 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATG
51407587 TCGGGGAACA
Statistics
Matches: 358, Mismatches: 121, Indels: 14
0.73 0.25 0.03
Matches are distributed among these distances:
49 111 0.31
50 242 0.68
51 5 0.01
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (50 bp):
AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGCCAGGGAAGCG
Found at i:51407118 original size:100 final size:100
Alignment explanation
Indices: 51406938--51407644 Score: 904
Period size: 100 Copynumber: 7.1 Consensus size: 100
51406928 TCAATCTGTT
* * ** *
51406938 CGCCAGGGAAGTAAGATTTGCCGTTGCGGCTTTGATCTTTTTAATTGCAATGTCGGGGAAACGAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAG
* * * *
51407003 ATTCACCATCGTAGCTTTAATTTGTTCCACTGCAC
66 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * *
51407038 CGCCTA-AGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCATTGTCGGAGAAGCGA
1 CGCC-AGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCGA
** *
51407102 GATTTGCCATTGTAGCTTCAATCTGTTCCACTGCAC
65 GATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * *
51407138 CGCCTGGGAAGTAAGATTCGTCGTTTTGGCTTCAATC-TTTTAATTGCAATGTCAGGGAAGCGAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAG
*
51407202 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAT
66 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
** * * * *
51407237 CGCCAGATAAGTAAGATTCTCTGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCGAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAG
*
51407302 ATTCTCCGTTGTAGCTTCAATCTGTTCCACTGCAC
66 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
* *
51407337 CGCCAGGGAAGTACGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCGAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAG
* *
51407402 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTACAC
66 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * *
51407437 CGCCTGGGAAGTAAGATTCGCCGTTATGGCTTTAATC-TTTTAATTGTAATGCCGGGGAAGCGAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAG
* * *
51407501 ATTCACCGTCGTAGCTTTAATC--TTCTCACTGTAC
66 ATTCACCGTTGTAGCTTCAATCTGTTC-CACTGCAC
* * * *
51407535 TGCCAGGGAAGTGAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAA-CAAG
1 CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAG
* * * ** *
51407599 ATTCACCATCGTAGCTTTAATCTACTCCATTGCAC
66 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
*
51407634 TGCCAGGGAAG
1 CGCCAGGGAAG
51407645 GTAACTTCAT
Statistics
Matches: 533, Mismatches: 67, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
97 3 0.01
98 62 0.12
99 166 0.31
100 301 0.56
101 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (100 bp):
CGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCGAG
ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
Found at i:51407476 original size:299 final size:297
Alignment explanation
Indices: 51406937--51407644 Score: 983
Period size: 299 Copynumber: 2.4 Consensus size: 297
51406927 TTCAATCTGT
* **
51406937 TCGCCAGGGAAGTAAGATT-TGCCGTTGCGGCTTTGATCTTTTTAATTGCAATGTCGGGGAAACG
1 TCGCCAGGGAAGTAAGATTCT-CCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGG-AACG
* *
51407001 AGATTCACCATCGTAGCTTTAATTTGTTCCACTGCACCGCCTA-AGAAGTAAGATTCGCCGTTGT
64 AGATTCACCATCGTAGCTTTAATCTGTTCCACTGCACCGCC-AGGGAAGTAAGATTCGCCGTTGT
* *
51407065 GGCTTCAATCTTTTTAATTGCATTGTCGGAGAAGCGAGATTTGCCATTGTAGCTTCAATCTGTTC
128 GGCTTCAATCTTTTTAATTGCAATGTCGGAGAAGCGAGATTCGCCATTGTAGCTTCAATCTGTTC
* * * *
51407130 CACTGCACCGCCTGGGAAGTAAGATTCGTCGTTTTGGCTTCAATCTTTTAATTGCAATGTCAGGG
193 CACTACACCGCCTGGGAAGTAAGATTCGCCGTTATGGCTTCAATCTTTTAATTGCAATGCCAGGG
*
51407195 AAGCGAGATTCACCGTTGTAGCTTCAATCTGT-TCCACTGCA
258 AAGCGAGATTCACCGTCGTAGCTTCAATCT-TCT-CACTGCA
** * * *
51407236 TCGCCAGATAAGTAAGATTCTCTGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGCGA
1 TCGCCAGGGAAGTAAGATTCTCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAA-CGA
* * * * *
51407301 GATTCTCCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTACGATTCGCCGTTGTGG
65 GATTCACCATCGTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
* * *
51407366 CTTCAATCTTTTTAATTGTAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
130 CTTCAATCTTTTTAATTGCAATGTCGGAGAAGCGAGATTCGCCATTGTAGCTTCAATCTGTTCCA
* * *
51407431 CTACACCGCCTGGGAAGTAAGATTCGCCGTTATGGCTTTAATCTTTTAATTGTAATGCCGGGGAA
195 CTACACCGCCTGGGAAGTAAGATTCGCCGTTATGGCTTCAATCTTTTAATTGCAATGCCAGGGAA
* *
51407496 GCGAGATTCACCGTCGTAGCTTTAATCTTCTCACTGTA
260 GCGAGATTCACCGTCGTAGCTTCAATCTTCTCACTGCA
* * * *
51407534 -CTGCCAGGGAAGTGAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAACAA
1 TC-GCCAGGGAAGTAAGATTCTCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACGA
** * *
51407598 GATTCACCATCGTAGCTTTAATCTACTCCATTGCACTGCCAGGGAAG
65 GATTCACCATCGTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAG
51407645 GTAACTTCAT
Statistics
Matches: 357, Mismatches: 47, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
297 42 0.12
298 61 0.17
299 253 0.71
300 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (297 bp):
TCGCCAGGGAAGTAAGATTCTCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAACGAG
ATTCACCATCGTAGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGGC
TTCAATCTTTTTAATTGCAATGTCGGAGAAGCGAGATTCGCCATTGTAGCTTCAATCTGTTCCAC
TACACCGCCTGGGAAGTAAGATTCGCCGTTATGGCTTCAATCTTTTAATTGCAATGCCAGGGAAG
CGAGATTCACCGTCGTAGCTTCAATCTTCTCACTGCA
Found at i:51408945 original size:6 final size:7
Alignment explanation
Indices: 51408894--51408937 Score: 54
Period size: 7 Copynumber: 6.0 Consensus size: 7
51408884 TTAGCCTCTC
51408894 CATTTTT
1 CATTTTT
51408901 -ACTTTTT
1 CA-TTTTT
51408908 CATTTTTT
1 CA-TTTTT
51408916 CATTTTTT
1 CA-TTTTT
51408924 CATTTTT
1 CATTTTT
51408931 CATTTTT
1 CATTTTT
51408938 TTCATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
6 1 0.03
7 17 0.50
8 16 0.47
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:51408948 original size:9 final size:8
Alignment explanation
Indices: 51408903--51408947 Score: 74
Period size: 8 Copynumber: 5.6 Consensus size: 8
51408893 CCATTTTTAC
51408903 TTTTTCAT
1 TTTTTCAT
51408911 TTTTTCAT
1 TTTTTCAT
51408919 TTTTTCA-
1 TTTTTCAT
51408926 TTTTTCATT
1 TTTTTCA-T
51408935 TTTTTCAT
1 TTTTTCAT
51408943 TTTTT
1 TTTTT
51408948 TGTTTCACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.20
8 21 0.60
9 7 0.20
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCAT
Found at i:51409758 original size:6 final size:6
Alignment explanation
Indices: 51409747--51409786 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
51409737 TTGACCTCTC
51409747 CTTTTT CTTTTT CTTTTT CTTTTTT CTTCTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT C-TTTTT CTT-TTT CTTTTT CT
51409787 CCTATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 20 0.62
7 12 0.38
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:51409764 original size:7 final size:7
Alignment explanation
Indices: 51409748--51409784 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
51409738 TGACCTCTCC
51409748 TTTTTC-
1 TTTTTCT
51409754 TTTTTC-
1 TTTTTCT
51409760 TTTTTCT
1 TTTTTCT
51409767 TTTTTCT
1 TTTTTCT
*
51409774 TCTTTCT
1 TTTTTCT
51409781 TTTT
1 TTTT
51409785 CTCCTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 12 0.43
7 16 0.57
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:51409770 original size:13 final size:13
Alignment explanation
Indices: 51409747--51409784 Score: 60
Period size: 14 Copynumber: 2.9 Consensus size: 13
51409737 TTGACCTCTC
51409747 CTTTTTC-TTTTT
1 CTTTTTCTTTTTT
51409759 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
51409772 CTTCTTTCTTTTT
1 CTT-TTTCTTTTT
51409785 CTCCTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:51409785 original size:13 final size:12
Alignment explanation
Indices: 51409747--51409786 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
51409737 TTGACCTCTC
51409747 CTTTTTCTTTTT
1 CTTTTTCTTTTT
51409759 CTTTTTCTTTTTT
1 CTTTTTC-TTTTT
51409772 CTTCTTTCTTTTT
1 CTT-TTTCTTTTT
51409785 CT
1 CT
51409787 CCTATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.27
13 15 0.58
14 4 0.15
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:51413910 original size:9 final size:9
Alignment explanation
Indices: 51413893--51413954 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
51413883 ATACGTGAAT
*
51413893 TATAAAATA
1 TATATAATA
51413902 TATATAATA
1 TATATAATA
51413911 TATATAATA
1 TATATAATA
* *
51413920 TATTTTAAAA
1 TA-TATAATA
*
51413930 TATA-AAGAA
1 TATATAA-TA
51413939 TATATAAATA
1 TATAT-AATA
51413949 TATATA
1 TATATA
51413955 TCTATAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 2 0.05
9 27 0.61
10 13 0.30
11 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TATATAATA
Found at i:51413929 original size:30 final size:29
Alignment explanation
Indices: 51413895--51413951 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
51413885 ACGTGAATTA
* *
51413895 TAAAATATATATAATATATATAATATATTT
1 TAAAATATAAAGAATATATA-AATATATTT
51413925 TAAAATATAAAGAATATATAAATATAT
1 TAAAATATAAAGAATATATAAATATAT
51413952 ATATCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (29 bp):
TAAAATATAAAGAATATATAAATATATTT
Found at i:51413987 original size:27 final size:27
Alignment explanation
Indices: 51413930--51414004 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
51413920 TATTTTAAAA
* * *
51413930 TATAAAGAATATATAAATATATATATC
1 TATAAAAAATATATAAATATACATAGC
* * *
51413957 TATAAAAAATATGTACATATACATAGG
1 TATAAAAAATATATAAATATACATAGC
51413984 TATATAAAAAT-TATGAAATAT
1 TATA-AAAAATATAT-AAATAT
51414005 GAAAATAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 27 0.71
28 11 0.29
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.35
Consensus pattern (27 bp):
TATAAAAAATATATAAATATACATAGC
Found at i:51414009 original size:16 final size:16
Alignment explanation
Indices: 51413985--51414019 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51413975 ATACATAGGT
*
51413985 ATATAAAAATTATGAA
1 ATATAAAAATAATGAA
*
51414001 ATATGAAAATAATGAA
1 ATATAAAAATAATGAA
51414017 ATA
1 ATA
51414020 CATGTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (16 bp):
ATATAAAAATAATGAA
Found at i:51425845 original size:18 final size:18
Alignment explanation
Indices: 51425806--51425839 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
51425796 AATGATGTTT
51425806 GCCCGTGTAGGCCCACAC
1 GCCCGTGTAGGCCCACAC
51425824 GCCCGTGT-GGCCCACA
1 GCCCGTGTAGGCCCACA
51425840 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (18 bp):
GCCCGTGTAGGCCCACAC
Found at i:51428720 original size:27 final size:25
Alignment explanation
Indices: 51428665--51428728 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
51428655 CAGCTCGTAC
* *
51428665 GAGCTTCCCATTATACACCTCAAAT
1 GAGCTTCCCGTTATACACCTCAAAA
* *
51428690 GAGCTTCCCGTTATATAGCTCAAGAGA
1 GAGCTTCCCGTTATACACCTCAA-A-A
*
51428717 GAGCTTCTCGTT
1 GAGCTTCCCGTT
51428729 TATGTGCTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 20 0.62
26 1 0.03
27 11 0.34
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGTTATACACCTCAAAA
Found at i:51440510 original size:18 final size:17
Alignment explanation
Indices: 51440480--51440513 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
51440470 ATTTTGATCT
*
51440480 AATTTTTACTTTTTTAG
1 AATTTTTAATTTTTTAG
51440497 AATTTTCTAATTTTTTA
1 AATTTT-TAATTTTTTA
51440514 AAAAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (17 bp):
AATTTTTAATTTTTTAG
Found at i:51442467 original size:34 final size:35
Alignment explanation
Indices: 51442424--51442496 Score: 139
Period size: 34 Copynumber: 2.1 Consensus size: 35
51442414 ATTCTCTCCC
51442424 TCTTGCCATTGTAAGTTATGCTGCCTCTCTTTGTT
1 TCTTGCCATTGTAAGTTATGCTGCCTCTCTTTGTT
51442459 TCTT-CCATTGTAAGTTATGCTGCCTCTCTTTGTT
1 TCTTGCCATTGTAAGTTATGCTGCCTCTCTTTGTT
51442493 TCTT
1 TCTT
51442497 TCTCTCATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.11, C:0.23, G:0.15, T:0.51
Consensus pattern (35 bp):
TCTTGCCATTGTAAGTTATGCTGCCTCTCTTTGTT
Found at i:51446393 original size:23 final size:23
Alignment explanation
Indices: 51446360--51446403 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
51446350 TGGGTAGGAA
*
51446360 GTTTTCTAAAAATTCTGCATTAT
1 GTTTTCCAAAAATTCTGCATTAT
*
51446383 GTTTTCCAAAAATTTTGCATT
1 GTTTTCCAAAAATTCTGCATT
51446404 TACATAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.48
Consensus pattern (23 bp):
GTTTTCCAAAAATTCTGCATTAT
Found at i:51450161 original size:16 final size:15
Alignment explanation
Indices: 51450136--51450166 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
51450126 TTGAGGAGAG
51450136 AAAAATAAAATAAAT
1 AAAAATAAAATAAAT
51450151 AAAAATAAAAATAAAT
1 AAAAAT-AAAATAAAT
51450167 TAAACTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATAAAATAAAT
Found at i:51450162 original size:21 final size:22
Alignment explanation
Indices: 51450136--51450184 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
51450126 TTGAGGAGAG
51450136 AAAAATAAAATAAA-TAAAAAT
1 AAAAATAAAATAAACTAAAAAT
* * *
51450157 AAAAATAAATTAAACTCAAACT
1 AAAAATAAAATAAACTAAAAAT
51450179 AAAAAT
1 AAAAAT
51450185 CCCATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAATAAAATAAACTAAAAAT
Found at i:51465127 original size:89 final size:88
Alignment explanation
Indices: 51464982--51465403 Score: 389
Period size: 88 Copynumber: 4.8 Consensus size: 88
51464972 GTGGTGAATT
* * * * * * * * *
51464982 TTATCTCCATGAAAGTTGCAGTGGAGCAGATTAAAGCCAAAAATCTTGTCTTCCTAAAGTTGCAG
1 TTATCTCCCTG-AAGTTACAGTAGAGTAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAG
*
51465047 TGGAGCAGATTGAAGATAGCAAATC
65 TGGAGCAGATTAAAGATA-CAAATC
* * * * * * * *
51465072 TTATCTCTCTAAAGTTATAGTAGAGCAAATTAAAGCTACAAACCTTATCTCCCTAAAGTTGCAAT
1 TTATCTCCCTGAAGTTACAGTAGAGTAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGT
* * *
51465137 AGAGCAGATTAAAAATAGTAAATC
66 GGAGCAGATTAAAGATA-CAAATC
* * * * *
51465161 TTATCTCCCTGAAGCT-CTAGTGGAGTAGATTGAAGTTACAAAACTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTAC-AGTAGAGTAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAG
* * *
51465225 TGGAGCGGATTGAAGTTACAAATC
65 TGGAGCAGATTAAAGATACAAATC
* * * * * * * *
51465249 TCATCTCCCTGAAGTTGCAATAGAGTAGATTGAAGATACGAGTCTCATCTCCCTAAAGTTGTAGT
1 TTATCTCCCTGAAGTTACAGTAGAGTAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGT
* *
51465314 GGAGCAGATTAAAGCTACAAGTC
66 GGAGCAGATTAAAGATACAAATC
* * * * *
51465337 TAATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCAACAAATCTTATAC-CTCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTACAGTAGAGTAGATTGAAGCTACAAATCTTAT-CTCCCTAAAGTTGCAG
51465401 TGG
65 TGG
51465404 GTTAGAATGA
Statistics
Matches: 269, Mismatches: 60, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
88 131 0.49
89 130 0.48
90 8 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (88 bp):
TTATCTCCCTGAAGTTACAGTAGAGTAGATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGT
GGAGCAGATTAAAGATACAAATC
Found at i:51465403 original size:44 final size:44
Alignment explanation
Indices: 51464982--51465403 Score: 316
Period size: 44 Copynumber: 9.5 Consensus size: 44
51464972 GTGGTGAATT
* *
51464982 TTATCTCCATGAAAGTTGCAGTGGAGCAGATTAAAGCCAA-AAATC
1 TTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAG-CAACAAATC
* *
51465027 TTGTCTTCCTAAAGTTGCAGTGGAGCAGATTGAAG-ATAGCAAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCA-A-CAAATC
* ** * * * * *
51465072 TTATCTCTCTAAAGTTATAGTAGAGCAAATTAAAGCTACAAACC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAACAAATC
* * ** *
51465116 TTATCTCCCTAAAGTTGCAATAGAGCAGATT-AAAAATAGTAAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCA-A-CAAATC
* * * ** *
51465161 TTATCTCCCTGAAGCT-CTAGTGGAGTAGATTGAAGTTACAAAAC
1 TTATCTCCCTAAAGTTGC-AGTGGAGCAGATTGAAGCAACAAATC
* * **
51465205 TTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTTACAAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAACAAATC
* * * * * * *
51465249 TCATCTCCCTGAAGTTGCAATAGAGTAGATTGAAG-ATACGAGTC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCA-ACAAATC
* * * * *
51465293 TCATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCTACAAGTC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAACAAATC
* * * *
51465337 TAATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGCAACAAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAACAAATC
* *
51465381 TTATAC-CTCTAAAGTTGTAGTGG
1 TTAT-CTCCCTAAAGTTGCAGTGG
51465404 GTTAGAATGA
Statistics
Matches: 298, Mismatches: 67, Indels: 25
0.76 0.17 0.06
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 221 0.74
45 71 0.24
46 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAACAAATC
Found at i:51466969 original size:12 final size:12
Alignment explanation
Indices: 51466952--51466976 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51466942 GTTCCTTTAT
51466952 TTTATTTTATTA
1 TTTATTTTATTA
51466964 TTTATTTTATTA
1 TTTATTTTATTA
51466976 T
1 T
51466977 GATTTATACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:51467195 original size:28 final size:28
Alignment explanation
Indices: 51467163--51467220 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
51467153 ATTTATGTTG
51467163 TTCATATTTGTACATTTTTCGCTCATTA
1 TTCATATTTGTACATTTTTCGCTCATTA
*
51467191 TTCATATTTGTACATTTTTTGCTCATTA
1 TTCATATTTGTACATTTTTCGCTCATTA
51467219 TT
1 TT
51467221 TATTTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.57
Consensus pattern (28 bp):
TTCATATTTGTACATTTTTCGCTCATTA
Found at i:51469583 original size:17 final size:17
Alignment explanation
Indices: 51469560--51469593 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
51469550 AGTTCAATTG
*
51469560 ATTTTTAAT-ATTTTTT
1 ATTTTTTATAATTTTTT
51469576 ATTTTTTATAATTTTTT
1 ATTTTTTATAATTTTTT
51469593 A
1 A
51469594 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTTTTTATAATTTTTT
Found at i:51472643 original size:46 final size:47
Alignment explanation
Indices: 51472531--51472645 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 47
51472521 CTGCACTATC
* * * *
51472531 TAGTGGTTTAACCACAT-T-TCTGTTCTGGCAGCTTGACTACATTTA
1 TAGTGGCTTCACCACATATATCTGTTATGGCAGCTTGACTACATATA
* * *
51472576 TGGTGGC-TCGACCACAGATATCTGTTATGGCAGCTT-AGCTGCA-ATA
1 TAGTGGCTTC-ACCACATATATCTGTTATGGCAGCTTGA-CTACATATA
51472622 TAGTGGCTTCACCACATATATCTG
1 TAGTGGCTTCACCACATATATCTG
51472646 ATCTAGCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.02
45 11 0.20
46 23 0.41
47 21 0.38
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (47 bp):
TAGTGGCTTCACCACATATATCTGTTATGGCAGCTTGACTACATATA
Found at i:51472789 original size:23 final size:23
Alignment explanation
Indices: 51472759--51472802 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
51472749 TGGGTAGGAA
51472759 GTTTTCTGAAAA-ATCTGCATTTT
1 GTTTTCTGAAAATAT-TGCATTTT
51472782 GTTTTCTGAAAATATTGCATT
1 GTTTTCTGAAAATATTGCATT
51472803 CACGTAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (23 bp):
GTTTTCTGAAAATATTGCATTTT
Found at i:51476953 original size:34 final size:34
Alignment explanation
Indices: 51476885--51476951 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 34
51476875 CAGTAAAATA
51476885 TTTTCCGTAAAATGATTTTAGGAAAATATTTTTC
1 TTTTCCGTAAAATGATTTTAGGAAAATATTTTTC
*
51476919 TTTTCTGTAAAATGA-TTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTTA--GGAAAATATTTT
51476952 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.13
34 14 0.47
35 12 0.40
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (34 bp):
TTTTCCGTAAAATGATTTTAGGAAAATATTTTTC
Found at i:51481429 original size:60 final size:59
Alignment explanation
Indices: 51481355--51481486 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 59
51481345 CAATCTCAAT
* * * * *
51481355 TAGTTGAGTGACCAAATTTAATAAATTGATAGTTAGGTGACCAAAAGAGAAAAGGGGCAA
1 TAGTTGGGTGACCAAATTAAAAAAATTGATAGTTAGGTGACCAAAAAAGAAAA-GGACAA
* *
51481415 TAGTTGGGTGACCAAATTAAAAAAATTGGTAGTTGGGTGACCAAAAAAGAAAAGGACAA
1 TAGTTGGGTGACCAAATTAAAAAAATTGATAGTTAGGTGACCAAAAAAGAAAAGGACAA
*
51481474 TAGTTGGCTGACC
1 TAGTTGGGTGACC
51481487 TATGTTGTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 17 0.27
60 47 0.73
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.23
Consensus pattern (59 bp):
TAGTTGGGTGACCAAATTAAAAAAATTGATAGTTAGGTGACCAAAAAAGAAAAGGACAA
Found at i:51488386 original size:17 final size:17
Alignment explanation
Indices: 51488366--51488412 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
51488356 CACATTTTAT
51488366 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
51488383 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
51488401 A-TATTTATATTA
1 ATTATTTATATTA
51488413 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:51489029 original size:61 final size:61
Alignment explanation
Indices: 51488902--51489028 Score: 186
Period size: 61 Copynumber: 2.1 Consensus size: 61
51488892 GTCACTCTTA
* ** * *
51488902 TTTTTTGGTCATCCAACTATGAAAAGTTACAAAATGGTCACTTAATTATGTTTTTTTTTTC
1 TTTTTTGGTCATCCAACCATGAAAAGTTACAAAATAATCACTCAACTATGTTTTTTTTTTC
51488963 TTTTTTGGTCA-CCAAACCATGAAAAGTTACAAAATAATCACTCAACTATG-TTTTTTTTTC
1 TTTTTTGGTCATCC-AACCATGAAAAGTTACAAAATAATCACTCAACTATGTTTTTTTTTTC
51489023 TTTTTT
1 TTTTTT
51489029 TATCATGAGT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
60 18 0.30
61 42 0.70
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.46
Consensus pattern (61 bp):
TTTTTTGGTCATCCAACCATGAAAAGTTACAAAATAATCACTCAACTATGTTTTTTTTTTC
Found at i:51489390 original size:16 final size:16
Alignment explanation
Indices: 51489369--51489410 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
51489359 AATAATTTGA
*
51489369 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
51489385 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
51489401 TAGTTTTAAT
1 TAATTTTAAT
51489411 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:51489394 original size:22 final size:23
Alignment explanation
Indices: 51489384--51489445 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
51489374 TTACTAACAA
* * *
51489384 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
51489406 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
51489429 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
51489446 CGGGTCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:51490241 original size:10 final size:11
Alignment explanation
Indices: 51490196--51490252 Score: 64
Period size: 11 Copynumber: 5.3 Consensus size: 11
51490186 CGGCCTATTT
51490196 TTATTTTAAAA
1 TTATTTTAAAA
*
51490207 -AATTTTAAAAA
1 TTATTTT-AAAA
* *
51490218 GTATTTTTAAA
1 TTATTTTAAAA
51490229 TTA-TTTAAAA
1 TTATTTTAAAA
51490239 TTATTTTAAAA
1 TTATTTTAAAA
51490250 TTA
1 TTA
51490253 AAAAAATTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 14 0.37
11 19 0.50
12 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (11 bp):
TTATTTTAAAA
Found at i:51490243 original size:21 final size:21
Alignment explanation
Indices: 51490205--51490252 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
51490195 TTTATTTTAA
51490205 AAAATT-TTAAAAAGTATTTT
1 AAAATTATTAAAAAGTATTTT
* * *
51490225 TAAATTATTTAAAATTATTTT
1 AAAATTATTAAAAAGTATTTT
51490246 AAAATTA
1 AAAATTA
51490253 AAAAAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAAATTATTAAAAAGTATTTT
Found at i:51490290 original size:42 final size:40
Alignment explanation
Indices: 51490230--51490342 Score: 163
Period size: 42 Copynumber: 2.8 Consensus size: 40
51490220 ATTTTTAAAT
*
51490230 TATTTAAAATTATTTTAAAATTAAAAAAATTTAAAAAAAAG
1 TATTTAAAAATATTTTAAAATTAAAAAAATTT-AAAAAAAG
*
51490271 TATTTTAAAAATATTTTAAAATTAAAAAAAAATTAAAAAAAG
1 TA-TTTAAAAATATTTTAAAATT-AAAAAAATTTAAAAAAAG
* *
51490313 TATGTAAAAATATTTTAAAGTTAAAAAAAT
1 TATTTAAAAATATTTTAAAATTAAAAAAAT
51490343 AAATATATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
40 7 0.11
41 20 0.31
42 29 0.45
43 9 0.14
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (40 bp):
TATTTAAAAATATTTTAAAATTAAAAAAATTTAAAAAAAG
Found at i:51496635 original size:14 final size:15
Alignment explanation
Indices: 51496616--51496648 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
51496606 ATATAATTAC
*
51496616 TTAATT-AATTTATT
1 TTAATTAAACTTATT
51496630 TTAATTAAACTTATT
1 TTAATTAAACTTATT
51496645 TTAA
1 TTAA
51496649 ATTTTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATTAAACTTATT
Found at i:51502722 original size:14 final size:14
Alignment explanation
Indices: 51502700--51502733 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51502690 CAATCAATTC
*
51502700 TTTTGAGTTTAATA
1 TTTTTAGTTTAATA
51502714 TTTTTAGTTTAATA
1 TTTTTAGTTTAATA
*
51502728 TATTTA
1 TTTTTA
51502734 AAAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (14 bp):
TTTTTAGTTTAATA
Found at i:51509674 original size:20 final size:21
Alignment explanation
Indices: 51509646--51509686 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
51509636 TTCTAATTAG
* *
51509646 AAAATTCTAA-TAATTAAAAT
1 AAAAATCTAAGTAAATAAAAT
51509666 AAAAATCTAAGTAAATAAAAT
1 AAAAATCTAAGTAAATAAAAT
51509687 TTTCTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATCTAAGTAAATAAAAT
Found at i:51524495 original size:26 final size:26
Alignment explanation
Indices: 51524443--51524493 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
51524433 TATATTAATA
* **
51524443 ATTAATAATTTCATATATTTTTATTT
1 ATTAAAAATTTCATATATAATTATTT
51524469 ATTAAAAATTT-ATATATAATTATTT
1 ATTAAAAATTTCATATATAATTATTT
51524494 TAATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTAAAAATTTCATATATAATTATTT
Found at i:51524543 original size:22 final size:23
Alignment explanation
Indices: 51524508--51524551 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
51524498 ATTTTTTAAT
51524508 ATTTAAATTATTATATACTATAG
1 ATTTAAATTATTATATACTATAG
* *
51524531 ATTT-AATTTTTATATATTATA
1 ATTTAAATTATTATATACTATA
51524552 AATTACGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTTAAATTATTATATACTATAG
Found at i:51525472 original size:25 final size:25
Alignment explanation
Indices: 51525422--51525472 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
51525412 AAACCGAGCC
* *
51525422 AAGCTCAAGCTCAACTCAAAATTCG
1 AAGCTCAAACTCAACTCAAAACTCG
*
51525447 AAGCTCAATACTCAACTC-GAACTCG
1 AAGCTCAA-ACTCAACTCAAAACTCG
51525472 A
1 A
51525473 TCGAATGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (25 bp):
AAGCTCAAACTCAACTCAAAACTCG
Found at i:51528208 original size:24 final size:22
Alignment explanation
Indices: 51528172--51528217 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
51528162 TATTCCTCAA
51528172 AATACCATCATATATAAAAACT
1 AATACCATCATATATAAAAACT
51528194 AATACCATCATATATAAAAACT
1 AATACCATCATATATAAAAACT
51528216 AA
1 AA
51528218 GCTAAGTCAT
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:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (22 bp):
AATACCATCATATATAAAAACT
Found at i:51528425 original size:18 final size:18
Alignment explanation
Indices: 51528402--51528436 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51528392 GAAACTTGTC
* *
51528402 CAACAGGGTTAGAGTTTT
1 CAACAGAGTCAGAGTTTT
51528420 CAACAGAGTCAGAGTTT
1 CAACAGAGTCAGAGTTT
51528437 CGAATGGAAT
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:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (18 bp):
CAACAGAGTCAGAGTTTT
Found at i:51530539 original size:3 final size:3
Alignment explanation
Indices: 51530531--51530557 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
51530521 CAGTACCATT
51530531 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
51530558 CAAATTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:51533853 original size:34 final size:34
Alignment explanation
Indices: 51533810--51533884 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
51533800 TCGATTCAGT
51533810 TCGAAAAGTAAGAGGATTAGAATAAAAATATAGG
1 TCGAAAAGTAAGAGGATTAGAATAAAAATATAGG
*
51533844 TCGAAAAGTAAGAGGGTTAGAATAAAAATATAGG
1 TCGAAAAGTAAGAGGATTAGAATAAAAATATAGG
51533878 TCGAAAA
1 TCGAAAA
51533885 ATAGGATTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.52, C:0.04, G:0.24, T:0.20
Consensus pattern (34 bp):
TCGAAAAGTAAGAGGATTAGAATAAAAATATAGG
Found at i:51534891 original size:28 final size:31
Alignment explanation
Indices: 51534859--51534921 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
51534849 TATATAAAAA
*
51534859 ATAATT-T-TTTTATAAAATTAAAA-AATAT
1 ATAATTATATTTTATAAAATCAAAATAATAT
*
51534887 ATAATTATATTTTTTAAAATCAAAATAATAT
1 ATAATTATATTTTATAAAATCAAAATAATAT
51534918 ATAA
1 ATAA
51534922 AAATTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 6 0.20
29 1 0.03
30 14 0.47
31 9 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
ATAATTATATTTTATAAAATCAAAATAATAT
Found at i:51534954 original size:22 final size:24
Alignment explanation
Indices: 51534920--51534964 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
51534910 AATAATATAT
*
51534920 AAAAATTTATTTTTA-AACTTTTA
1 AAAAATATATTTTTACAACTTTTA
51534943 AAAAATAT-TTTTTACAACTTTT
1 AAAAATATATTTTTACAACTTTT
51534965 TACATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (24 bp):
AAAAATATATTTTTACAACTTTTA
Found at i:51535542 original size:29 final size:29
Alignment explanation
Indices: 51535484--51535542 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
51535474 GAATTTGATC
*
51535484 AAATCAAAATTTCATGCATAAAATTACACA
1 AAATCAAAATTTCAT-CATAAAAGTACACA
* *
51535514 AAATCAAAATTCTTAT-ATAAAAGTGCACA
1 AAATCAAAATT-TCATCATAAAAGTACACA
51535543 TTAAACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 11 0.44
30 11 0.44
31 3 0.12
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (29 bp):
AAATCAAAATTTCATCATAAAAGTACACA
Found at i:51544450 original size:12 final size:11
Alignment explanation
Indices: 51544420--51544450 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
51544410 TTATTTAAAA
51544420 TATTAATTTTT
1 TATTAATTTTT
51544431 TATTAATTTTT
1 TATTAATTTTT
51544442 TATTGAATT
1 TATT-AATT
51544451 AATGTCGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TATTAATTTTT
Found at i:51547261 original size:16 final size:16
Alignment explanation
Indices: 51547240--51547295 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
51547230 CAAATAGTTT
51547240 TAAAATATTTTCTTTC
1 TAAAATATTTTCTTTC
* *
51547256 TAAAATA-ATTCAATTTT
1 TAAAATATTTTC--TTTC
51547273 TAAAATATTTTCTTTC
1 TAAAATATTTTCTTTC
51547289 TAAAATA
1 TAAAATA
51547296 ATTCAATTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.09
16 17 0.52
17 10 0.30
18 3 0.09
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAAATATTTTCTTTC
Found at i:51547278 original size:17 final size:17
Alignment explanation
Indices: 51547252--51547305 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
51547242 AAATATTTTC
51547252 TTTCTAAAATAATTCAA
1 TTTCTAAAATAATTCAA
* *
51547269 TTTTTAAAATATTTTC--
1 TTTCTAAAATA-ATTCAA
51547285 TTTCTAAAATAATTCAA
1 TTTCTAAAATAATTCAA
51547302 TTTC
1 TTTC
51547306 ATCATGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 3 0.10
16 10 0.33
17 14 0.47
18 3 0.10
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTCTAAAATAATTCAA
Found at i:51547279 original size:33 final size:33
Alignment explanation
Indices: 51547237--51547304 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
51547227 AAACAAATAG
51547237 TTTTAAAATATTTTCTTTCTAAAATAATTCAAT
1 TTTTAAAATATTTTCTTTCTAAAATAATTCAAT
51547270 TTTTAAAATATTTTCTTTCTAAAATAATTCAAT
1 TTTTAAAATATTTTCTTTCTAAAATAATTCAAT
51547303 TT
1 TT
51547305 CATCATGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (33 bp):
TTTTAAAATATTTTCTTTCTAAAATAATTCAAT
Found at i:51550567 original size:30 final size:30
Alignment explanation
Indices: 51550528--51550584 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
51550518 TTTTATAAAT
51550528 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
51550558 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
51550585 AATAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:51550791 original size:26 final size:26
Alignment explanation
Indices: 51550762--51550811 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
51550752 CTTAAACCAA
51550762 ACTTTT-CAGAAATATTTCTCAAAATC
1 ACTTTTCCA-AAATATTTCTCAAAATC
*
51550788 ACTTTTCCAAACTATTTCTCAAAA
1 ACTTTTCCAAAATATTTCTCAAAA
51550812 AAATGCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (26 bp):
ACTTTTCCAAAATATTTCTCAAAATC
Found at i:51553993 original size:31 final size:29
Alignment explanation
Indices: 51553958--51554020 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
51553948 GTAAATTTAA
*
51553958 AAAATATATATATATACAGGGGTGAAGCCAG
1 AAAATAT-T-TATATACAGGGGCGAAGCCAG
51553989 -AAA-ATTTATATACAGGGGCGAAGCCAG
1 AAAATATTTATATACAGGGGCGAAGCCAG
51554016 AAAAT
1 AAAAT
51554021 TTTTCTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
27 20 0.69
28 4 0.14
29 2 0.07
30 3 0.10
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (29 bp):
AAAATATTTATATACAGGGGCGAAGCCAG
Found at i:51554034 original size:27 final size:27
Alignment explanation
Indices: 51553968--51554022 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
51553958 AAAATATATA
*
51553968 TATATACAGGGGTGAAGCCAGAAAATT
1 TATATACAGGGGCGAAGCCAGAAAATT
51553995 TATATACAGGGGCGAAGCCAGAAAATT
1 TATATACAGGGGCGAAGCCAGAAAATT
51554022 T
1 T
51554023 TTCTTTAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (27 bp):
TATATACAGGGGCGAAGCCAGAAAATT
Found at i:51555228 original size:106 final size:106
Alignment explanation
Indices: 51555043--51555246 Score: 345
Period size: 106 Copynumber: 1.9 Consensus size: 106
51555033 TGGGTTGAGA
* * *
51555043 TTTAAGAGGATATTTGGCTATTTGGTCGAACGAGAAATTGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
* *
51555108 TCTTGAATTTCCAAACGTAAAATATTACCTTATTTTGAAAT
66 TCTCGAATTTCCAAACGCAAAATATTACCTTATTTTGAAAT
*
51555149 TTTAAAAGGATATTTGGCTGTTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
*
51555214 TCTCGAATTTCCAAACGCAAAATATTGCCTTAT
66 TCTCGAATTTCCAAACGCAAAATATTACCTTAT
51555247 CTTAAAACAT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTT
TCTCGAATTTCCAAACGCAAAATATTACCTTATTTTGAAAT
Found at i:51555671 original size:18 final size:19
Alignment explanation
Indices: 51555648--51555683 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
51555638 AAACCAATGT
51555648 ATAAAAAATGAA-TAATAA
1 ATAAAAAATGAACTAATAA
*
51555666 ATAAAATATGAACTAATA
1 ATAAAAAATGAACTAATA
51555684 TAAGTTGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (19 bp):
ATAAAAAATGAACTAATAA
Found at i:51563813 original size:16 final size:16
Alignment explanation
Indices: 51563793--51563845 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
51563783 TTGGTTCGCT
*
51563793 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
*
51563809 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
51563825 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
51563841 GTAAT
1 GTAAT
51563846 AGATAATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.04, G:0.34, T:0.25
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:51564086 original size:18 final size:17
Alignment explanation
Indices: 51564034--51564079 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
51564024 TTATTATTAA
51564034 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
51564052 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
51564069 ATATGAATTTA
1 ATAT-AATTTA
51564080 CTTAAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:51564107 original size:41 final size:41
Alignment explanation
Indices: 51564049--51564232 Score: 95
Period size: 41 Copynumber: 4.6 Consensus size: 41
51564039 ATTTAATAAA
* *
51564049 AATATATAAT-TTAATAAAATATATGAATTT-ACTTAAATCAT
1 AATATATAATACT-ATAAAATATAT-AATTTAACTAAAATCAT
* * *
51564090 AATATATAATACTATAAAA-A-ATAATTTAAAATAATTATTATT
1 AATATATAATACTATAAAATATATAATTT-AACTAA-AATCA-T
* * *
51564132 AA-ATATAAT-TTAATAAAAATATATAATTTGA-TAAAATTCTT
1 AATATATAATACT-AT-AAAATATATAATTTAACTAAAA-TCAT
* ***
51564173 AGTAT-TAA-A-TAT-TCTTATATGAATTT-ACTAAAATCAT
1 AATATATAATACTATAAAATATAT-AATTTAACTAAAATCAT
51564210 AATATATAATACTATAAAATATA
1 AATATATAATACTATAAAATATA
51564233 ATTTAAAATA
Statistics
Matches: 106, Mismatches: 19, Indels: 36
0.66 0.12 0.22
Matches are distributed among these distances:
37 13 0.12
38 18 0.17
39 5 0.05
40 9 0.08
41 38 0.36
42 14 0.13
43 2 0.02
44 7 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (41 bp):
AATATATAATACTATAAAATATATAATTTAACTAAAATCAT
Found at i:51564227 original size:61 final size:61
Alignment explanation
Indices: 51564068--51564250 Score: 189
Period size: 59 Copynumber: 3.0 Consensus size: 61
51564058 TTTAATAAAA
51564068 TATATGAATTTACTTAAATCATAATATATAATACTATAAAA-AATAATTTAAAATAATTAT
1 TATATGAATTTACTTAAATCATAATATATAATACTATAAAATAATAATTTAAAATAATTAT
* * * * * * * ** * *
51564128 TAT-TAAATATAATTTAATAAAAATATATAAT-TTGATAAAATTCTTAGTATT-AAAT-ATTCT
1 TATATGAATTTACTTAAATCATAATATATAATACT-ATAAAA-TAATAAT-TTAAAATAATTAT
*
51564188 TATATGAATTTACTAAAATCATAATATATAATACTATAAAAT-ATAATTTAAAATAATTAT
1 TATATGAATTTACTTAAATCATAATATATAATACTATAAAATAATAATTTAAAATAATTAT
51564248 TAT
1 TAT
51564251 TAAATATAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
58 3 0.03
59 35 0.38
60 18 0.19
61 34 0.37
62 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (61 bp):
TATATGAATTTACTTAAATCATAATATATAATACTATAAAATAATAATTTAAAATAATTAT
Found at i:51571266 original size:17 final size:17
Alignment explanation
Indices: 51571245--51571281 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
51571235 ATTTGATAAG
51571245 TAAAAATATTTT--AAAA
1 TAAAAA-ATTTTAAAAAA
51571261 TAAAAAATTTTAAAAAA
1 TAAAAAATTTTAAAAAA
51571278 TAAA
1 TAAA
51571282 GTAAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 6 0.32
17 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAAATTTTAAAAAA
Found at i:51571270 original size:15 final size:16
Alignment explanation
Indices: 51571245--51571275 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
51571235 ATTTGATAAG
51571245 TAAAAATATTTTAAAA
1 TAAAAATATTTTAAAA
51571261 TAAAAA-ATTTTAAAA
1 TAAAAATATTTTAAAA
51571276 AATAAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAATATTTTAAAA
Found at i:51571395 original size:23 final size:24
Alignment explanation
Indices: 51571364--51571413 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
51571354 ATTAATTTTT
*
51571364 TTTATAAATCTATTATA-ATTAATA
1 TTTATAAATATA-TATAGATTAATA
51571388 TTTA-AAATATATATAGATTAATA
1 TTTATAAATATATATAGATTAATA
51571411 TTT
1 TTT
51571414 GAAACTGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 16 0.67
24 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTATAAATATATATAGATTAATA
Found at i:51586215 original size:68 final size:69
Alignment explanation
Indices: 51586115--51586338 Score: 261
Period size: 68 Copynumber: 3.0 Consensus size: 69
51586105 TTTTTTAATT
*
51586115 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCT-CGAAAAAAATGAGATGTGTTTTT
1 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATGAGATGTGTTTTT
51586179 TTTA
66 TTTA
51586183 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATGAGATGTGTTTTA
1 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATGAGATGTG-----
51586248 ATTTTAATTTTTTA
61 ---TT--TTTTTTA
* * *
51586262 TTTTTTAAATATTAATTAGAATATTTGTCGGGTTTTAAATTCCTCCCAAAAAAACTAAGATGTGT
1 ---TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCT-CCAAAAAAAATGAGATGTGT
*
51586327 TTAATTTTA
62 TT-TTTTTA
51586336 TTT
1 TTT
51586339 TTTTTAAATT
Statistics
Matches: 135, Mismatches: 5, Indels: 29
0.80 0.03 0.17
Matches are distributed among these distances:
68 41 0.30
69 17 0.13
71 3 0.02
73 1 0.01
74 5 0.04
75 2 0.01
77 2 0.01
79 7 0.05
82 40 0.30
83 17 0.13
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (69 bp):
TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATGAGATGTGTTTTT
TTTA
Found at i:51586269 original size:82 final size:83
Alignment explanation
Indices: 51586174--51586373 Score: 307
Period size: 82 Copynumber: 2.4 Consensus size: 83
51586164 ATGAGATGTG
* *
51586174 TTTTTT-TTATTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCT-CCAAAAAAAATGA
1 TTTTTTATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCCAAAAAAAATAA
51586237 GATGTGTTTTAATTTTA-A
66 GATGTG-TTTAATTTTATA
* *
51586255 TTTTTTATTTTTTAAATATTAATTAGAATATTTGTCGGGTTTTAAATTCCTCCCAAAAAAACTAA
1 TTTTTTATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCCAAAAAAAATAA
*
51586320 GATGTGTTTAATTTTATT
66 GATGTGTTTAATTTTATA
**
51586338 TTTTTTAAATTTTAAATATTAATTAGAATATTTGTC
1 TTTTTTATTTTTTAAATATTAATTAGAATATTTGTC
51586374 CGATCTAAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
81 6 0.06
82 52 0.48
83 51 0.47
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (83 bp):
TTTTTTATTTTTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCCAAAAAAAATAA
GATGTGTTTAATTTTATA
Found at i:51586363 original size:83 final size:82
Alignment explanation
Indices: 51586183--51586373 Score: 303
Period size: 83 Copynumber: 2.3 Consensus size: 82
51586173 GTTTTTTTTA
*
51586183 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATGAGATGTGTTTTA
1 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATAAGATGTGTTTTA
**
51586248 ATTTTAATTTTTTATTT
66 ATTTTAATTTTTTAAAT
* *
51586265 TTTAAATATTAATTAGAATATTTGTCGGGTTTTAAATTCCTCCCAAAAAAACTAAGATGTG-TTT
1 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCT-CCAAAAAAAATAAGATGTGTTTT
*
51586329 AATTTTATTTTTTTTAAAT
65 AATTTTA-ATTTTTTAAAT
51586348 TTTAAATATTAATTAGAATATTTGTC
1 TTTAAATATTAATTAGAATATTTGTC
51586374 CGATCTAAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
82 50 0.50
83 51 0.50
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (82 bp):
TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATAAGATGTGTTTTA
ATTTTAATTTTTTAAAT
Found at i:51593716 original size:28 final size:28
Alignment explanation
Indices: 51593676--51593732 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
51593666 CTCTGCCATG
51593676 ATATTTCTTTTTTGGGTCAACTCTAACT
1 ATATTTCTTTTTTGGGTCAACTCTAACT
51593704 ATATTTCTTTTTTGGGTCAACTCTAACT
1 ATATTTCTTTTTTGGGTCAACTCTAACT
51593732 A
1 A
51593733 ACATCCTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.49
Consensus pattern (28 bp):
ATATTTCTTTTTTGGGTCAACTCTAACT
Found at i:51594945 original size:21 final size:24
Alignment explanation
Indices: 51594919--51594971 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 24
51594909 TTTAAAATAC
51594919 TTTTAAAAT-AATTTTT-TGTTT-
1 TTTTAAAATAAATTTTTATGTTTA
51594940 TTTT-AAATAAATTTTTAATGTTTA
1 TTTTAAAATAAATTTTT-ATGTTTA
51594964 TTTTAAAA
1 TTTTAAAA
51594972 ATGGGCCGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.15
21 11 0.41
23 5 0.19
24 4 0.15
25 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTAAAATAAATTTTTATGTTTA
Found at i:51594947 original size:20 final size:22
Alignment explanation
Indices: 51594919--51594970 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
51594909 TTTAAAATAC
*
51594919 TTTTAAAAT-AATTTTT-TGTT
1 TTTTTAAATAAATTTTTATGTT
51594939 TTTTTAAATAAATTTTTAATGTT
1 TTTTTAAATAAATTTTT-ATGTT
51594962 TATTTTAAA
1 T-TTTTAAA
51594971 AATGGGCCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 8 0.30
21 7 0.26
23 5 0.19
24 7 0.26
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTTAAATAAATTTTTATGTT
Found at i:51595538 original size:24 final size:24
Alignment explanation
Indices: 51595510--51595557 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
51595500 AAGATTGAGT
* *
51595510 ATTTATTTGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
51595534 ATTTATTAGCATAATTTATTTAAC
1 ATTTATTAGCATAATATATTTAAC
51595558 TTACTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:51596821 original size:3 final size:3
Alignment explanation
Indices: 51596810--51596840 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
51596800 CTTTTTTTTC
51596810 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
51596841 ACTACGGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:51597266 original size:20 final size:20
Alignment explanation
Indices: 51597241--51597280 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51597231 CGTAAAATGA
*
51597241 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
51597261 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
51597281 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:51597270 original size:34 final size:35
Alignment explanation
Indices: 51597226--51597292 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
51597216 CAGTAAAATA
*
51597226 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
51597260 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
51597293 CTGATGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:51606570 original size:19 final size:19
Alignment explanation
Indices: 51606522--51606601 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 19
51606512 GTACGATAAC
* * *
51606522 TTTTATAATTTTTTTACGAA
1 TTTTATAATTTCTTTA-TAT
51606542 TTTTAT-ATTTCTTTATAT
1 TTTTATAATTTCTTTATAT
* *
51606560 TTTTATAATTT-TATAAAAT
1 TTTTATAATTTCT-TTATAT
* *
51606579 TTTTCTATATTTCTATATAT
1 TTTTATA-ATTTCTTTATAT
51606599 TTT
1 TTT
51606602 ATATTTTTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
18 8 0.17
19 22 0.47
20 16 0.34
21 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTCTTTATAT
Found at i:51606574 original size:46 final size:47
Alignment explanation
Indices: 51606517--51606609 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 47
51606507 TTTTTGTACG
** *
51606517 ATAACTTTTATAATTTTTTTACGA-ATTT-TATATTTCTTTATATTTTT
1 ATAACTTTTATAAAATTTTT-CGATATTTCTATATAT-TTTATATTTTT
*
51606564 ATAA-TTTTATAAAATTTTTCTATATTTCTATATATTTTATATTTTT
1 ATAACTTTTATAAAATTTTTCGATATTTCTATATATTTTATATTTTT
51606610 TTCTAATTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 2 0.05
46 28 0.70
47 10 0.25
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (47 bp):
ATAACTTTTATAAAATTTTTCGATATTTCTATATATTTTATATTTTT
Found at i:51606610 original size:29 final size:28
Alignment explanation
Indices: 51606540--51606639 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 28
51606530 TTTTTTTACG
* *
51606540 AATTTTATA-TTTCTT-TATATTTTTAT
1 AATTTTATATTTTTTTCTATATTTCTAT
**
51606566 AATTTTATAAAATTTTTCTATATTTCTAT
1 AATTTTAT-ATTTTTTTCTATATTTCTAT
51606595 ATATTTTATATTTTTTTCTA-A-TTCTTAAT
1 A-ATTTTATATTTTTTTCTATATTTC-T-AT
51606624 AAATTTTA-ATTTTTTT
1 -AATTTTATATTTTTTT
51606640 ATATTTTTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
26 8 0.13
27 4 0.06
28 14 0.23
29 28 0.45
30 8 0.13
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (28 bp):
AATTTTATATTTTTTTCTATATTTCTAT
Found at i:51607314 original size:16 final size:16
Alignment explanation
Indices: 51607293--51607332 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
51607283 GCCTACTCCT
51607293 CCCAATTTAAACCCAG
1 CCCAATTTAAACCCAG
* *
51607309 CCCAATTTAAATCTAG
1 CCCAATTTAAACCCAG
51607325 CCCAATTT
1 CCCAATTT
51607333 TCACAACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.05, T:0.28
Consensus pattern (16 bp):
CCCAATTTAAACCCAG
Found at i:51608042 original size:9 final size:9
Alignment explanation
Indices: 51608028--51608076 Score: 71
Period size: 9 Copynumber: 5.2 Consensus size: 9
51608018 CTTAAATATT
51608028 TTCGGGTAA
1 TTCGGGTAA
*
51608037 TTCGGGTCATT
1 TTCGGGT-A-A
51608048 TTCGGGTAA
1 TTCGGGTAA
51608057 TTCGGGTAA
1 TTCGGGTAA
51608066 TTCGGGTAA
1 TTCGGGTAA
51608075 TT
1 TT
51608077 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 27 0.75
10 2 0.06
11 7 0.19
ACGTcount: A:0.18, C:0.12, G:0.31, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:51608050 original size:20 final size:19
Alignment explanation
Indices: 51608024--51608076 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
51608014 TAGGCTTAAA
51608024 TATTTTCGGGTAATTCGGG
1 TATTTTCGGGTAATTCGGG
51608043 TCATTTTCGGGTAATTCGGG
1 T-ATTTTCGGGTAATTCGGG
*
51608063 TA-ATTCGGGTAATT
1 TATTTTCGGGTAATT
51608077 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 11 0.34
19 2 0.06
20 19 0.59
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (19 bp):
TATTTTCGGGTAATTCGGG
Found at i:51608150 original size:12 final size:12
Alignment explanation
Indices: 51608133--51608157 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51608123 AAGAATTTCG
51608133 GGTCGGTTAACC
1 GGTCGGTTAACC
51608145 GGTCGGTTAACC
1 GGTCGGTTAACC
51608157 G
1 G
51608158 ACTGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:51608364 original size:86 final size:84
Alignment explanation
Indices: 51608210--51608546 Score: 394
Period size: 84 Copynumber: 4.0 Consensus size: 84
51608200 CCGCCTCTGG
* * *
51608210 CTTTTTTGATGCATTTTGACAATTCAAGTACCCAATTGAGTGAAAAAAAAAACATAGGCTTAATT
1 CTTTTTTGATACATTTTGACAGTTCAAGTACCCAATTAAGTG-AAAAAAAAACATAGGCTTAATT
*
51608275 TTTTTTTTAAGTTTGAGGGT
65 TTTTTTTTAAGTTTGAAGGT
* *
51608295 CTTTTTTTTATACATTTTGACAGTTCAAGTGCCCAATTAAGT-AAAAAAAAACATAGGCTTAATT
1 C-TTTTTTGATACATTTTGACAGTTCAAGTACCCAATTAAGTGAAAAAAAAACATAGGCTTAATT
* * *
51608359 GTTTTTTTTTAGTTTGAATGC
65 -TTTTTTTTAAGTTTGAAGGT
* * * * *
51608380 CTTTTTTTATACATTTTTG-CAGTTAAAGTGCCCAATTAAGTGAAAAAAAAACAAAGGTTTAATT
1 CTTTTTTGATACA-TTTTGACAGTTCAAGTACCCAATTAAGTGAAAAAAAAACATAGGCTTAATT
51608444 TTTTTTTTAAGTTTGAAGGT
65 TTTTTTTTAAGTTTGAAGGT
* * * * *
51608464 C-TTTTTGATACATTTTGAAAGTTCAAATACCCAATTGAGTGCAAAAAAAATA-AGGGCTTAATT
1 CTTTTTTGATACATTTTGACAGTTCAAGTACCCAATTAAGTGAAAAAAAAACATA-GGCTTAA--
51608527 GCTTTTTTTTTTAAGTTTGA
63 --TTTTTTTTTTAAGTTTGA
51608547 GAGCTTTTCA
Statistics
Matches: 218, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
82 6 0.03
83 43 0.20
84 73 0.33
85 43 0.20
86 35 0.16
87 18 0.08
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (84 bp):
CTTTTTTGATACATTTTGACAGTTCAAGTACCCAATTAAGTGAAAAAAAAACATAGGCTTAATTT
TTTTTTTAAGTTTGAAGGT
Found at i:51609294 original size:29 final size:30
Alignment explanation
Indices: 51609227--51609295 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
51609217 CGAATATAAT
*
51609227 AAAT-ATTTTTTTTCATTTTTTAATTTTTA
1 AAATAATTTTTTATCATTTTTTAATTTTTA
*
51609256 AAATACTTTTTTAT-ATTTTTT-ATTTTTA
1 AAATAATTTTTTATCATTTTTTAATTTTTA
*
51609284 AAATAAATTTTT
1 AAATAATTTTTT
51609296 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.49
29 11 0.31
30 7 0.20
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (30 bp):
AAATAATTTTTTATCATTTTTTAATTTTTA
Found at i:51609837 original size:23 final size:22
Alignment explanation
Indices: 51609799--51609858 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
51609789 TAATTTTAAA
51609799 AATATATTTTAT-ATT-AATATT
1 AATATATTTTATAATTAAAT-TT
51609820 AATATATTTTTATAATTAAATTT
1 AATATA-TTTTATAATTAAATTT
51609843 AA-ATAATTTT-TAATTA
1 AATAT-ATTTTATAATTA
51609859 TTTAATTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 12 0.34
22 12 0.34
23 8 0.23
24 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATATTTTATAATTAAATTT
Found at i:51609865 original size:24 final size:23
Alignment explanation
Indices: 51609799--51609866 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
51609789 TAATTTTAAA
51609799 AATATA-TTTTA-TA-TTAATATT
1 AATATATTTTTATTATTTAAT-TT
* *
51609820 AATATATTTTTATAATTAAATTT
1 AATATATTTTTATTATTTAATTT
51609843 AA-ATAATTTTTAATTATTTAATTT
1 AATAT-ATTTTT-ATTATTTAATTT
51609867 GAATTGAGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.16
22 7 0.18
23 11 0.29
24 14 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATATATTTTTATTATTTAATTT
Found at i:51612122 original size:27 final size:27
Alignment explanation
Indices: 51612076--51612127 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
51612066 CTTAAAAATT
* * *
51612076 ATTATAACCTATTAAGATAACACGAGG
1 ATTATAACATATAAAAATAACACGAGG
*
51612103 ATTATAACATATAAAAATAATACGA
1 ATTATAACATATAAAAATAACACGA
51612128 ATACGATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (27 bp):
ATTATAACATATAAAAATAACACGAGG
Found at i:51619889 original size:17 final size:18
Alignment explanation
Indices: 51619867--51619904 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
51619857 CTCTATATTA
*
51619867 TATTATTATTTTCG-TAT
1 TATTATTATTATCGTTAT
51619884 TATTATTATTATCGTTAT
1 TATTATTATTATCGTTAT
51619902 TAT
1 TAT
51619905 AGTTGCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (18 bp):
TATTATTATTATCGTTAT
Found at i:51620001 original size:26 final size:23
Alignment explanation
Indices: 51619937--51620001 Score: 60
Period size: 28 Copynumber: 2.7 Consensus size: 23
51619927 ATATTTCTTT
*
51619937 TATATATAAATATA-TTTTTCTA
1 TATATATACATATACTTTTTCTA
*
51619959 TATATTTACATGCATACTTTTTGTACTA
1 TATATATACAT--ATAC-TTTT-T-CTA
51619987 TATATATACATATAC
1 TATATATACATATAC
51620002 ACTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
22 9 0.26
24 3 0.09
26 8 0.24
27 1 0.03
28 13 0.38
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (23 bp):
TATATATACATATACTTTTTCTA
Found at i:51620213 original size:27 final size:25
Alignment explanation
Indices: 51620182--51620245 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 25
51620172 ATGTGTCCCT
*
51620182 TTTTTATATAT-ATGTAAATCTCCATA
1 TTTTTATATATCATATAAAT-T-CATA
*
51620208 TATTTTACATATGCATATAAATTCATA
1 T-TTTTATATAT-CATATAAATTCATA
51620235 TTTTTATATAT
1 TTTTTATATAT
51620246 TTTATAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.31
27 14 0.44
28 1 0.03
29 7 0.22
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATATATCATATAAATTCATA
Done.