Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 83 of 145
Found at i:27650034 original size:20 final size:20
Alignment explanation
Indices: 27650006--27650046 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27649996 AAATTGGGTT
*
27650006 TCCACCGTGGCTAGTTAACG
1 TCCAACGTGGCTAGTTAACG
*
27650026 TCCAACGTGGGTAGTTAACG
1 TCCAACGTGGCTAGTTAACG
27650046 T
1 T
27650047 GCCACATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (20 bp):
TCCAACGTGGCTAGTTAACG
Found at i:27653446 original size:94 final size:94
Alignment explanation
Indices: 27653283--27653472 Score: 353
Period size: 94 Copynumber: 2.0 Consensus size: 94
27653273 AAATTGCCAA
* *
27653283 GTAATAGTGCAGTAACTTGTAGTTTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAG
1 GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
*
27653348 TCCTGTGAAATAGAATTCTGGTTAAACAG
66 TCCTGTGAAATAGAAATCTGGTTAAACAG
27653377 GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
1 GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
27653442 TCCTGTGAAATAGAAATCTGGTTAAACAG
66 TCCTGTGAAATAGAAATCTGGTTAAACAG
27653471 GT
1 GT
27653473 TTAAGAATGA
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (94 bp):
GTAATAGTGCAGTAACTTGTAGTGTATGTCTTTATGACATGTTTAATTTATGCATGAATACATAA
TCCTGTGAAATAGAAATCTGGTTAAACAG
Found at i:27655597 original size:129 final size:126
Alignment explanation
Indices: 27655350--27655609 Score: 330
Period size: 129 Copynumber: 2.0 Consensus size: 126
27655340 CAGACGGGGT
* * *
27655350 TGGTGACGAAAATGATTCTGAAGTGAATAGAGAATCCTTGGGTGTATCTGCTGCACTTAGTCCCT
1 TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGGTGTATCTGCAGCACTTAGGCCCT
* * *
27655415 CAGAAAGGCTTCACTTGGGAGCAAGCGGTATTCGCAGTCACACAGCACATGGCAGTTTGAG
66 CAGAAAGGCTTCACTTGGGAGCAAGCGGCATGCGCAGTAACACAGCACATGGCAGTTTGAG
* * *
27655476 TGGTGATGAAAATGATTCTGAAGTTAACAGAGAATCCTTGGGCTTGT-T-TGCAGCTCTTAATGG
1 TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGG--TGTATCTGCAGCACTT-A-GG
* *
27655539 CCTCTCCGAAAGGCTTCA-TTGGGGAGCAGGCGGCATGCGCAGTAACACAAG-ACATGGCAGTTT
62 CC-CTCAGAAAGGCTTCACTT-GGGAGCAAGCGGCATGCGCAGTAACAC-AGCACATGGCAGTTT
27655602 GAG
124 GAG
27655605 TGGTG
1 TGGTG
27655610 GAAATGGAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
126 47 0.41
127 2 0.02
128 8 0.07
129 57 0.49
130 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (126 bp):
TGGTGACGAAAATGATTCTGAAGTGAACAGAGAATCCTTGGGTGTATCTGCAGCACTTAGGCCCT
CAGAAAGGCTTCACTTGGGAGCAAGCGGCATGCGCAGTAACACAGCACATGGCAGTTTGAG
Found at i:27657584 original size:20 final size:20
Alignment explanation
Indices: 27657555--27657624 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
27657545 TTTGATTCGG
27657555 AAAA-AAATTTTAATGTTCA
1 AAAATAAATTTTAATGTTCA
27657574 AAAATAAATTTCTAGGAT-TTC-
1 AAAATAAATTT-TA--ATGTTCA
** **
27657595 TTAATTTATTTTAATGTTCA
1 AAAATAAATTTTAATGTTCA
27657615 AAAATAAATT
1 AAAATAAATT
27657625 AATTTAATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 11
0.66 0.14 0.20
Matches are distributed among these distances:
18 2 0.05
19 7 0.19
20 14 0.38
21 9 0.24
22 3 0.08
23 2 0.05
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (20 bp):
AAAATAAATTTTAATGTTCA
Found at i:27661194 original size:43 final size:43
Alignment explanation
Indices: 27661123--27661214 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
27661113 TTATGTGGAA
* * *
27661123 AAACACCGCTATAGAACATGACCCTTAGCGGCGTTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCCTTAGCGGCGCTTTCCCCAC
*
27661166 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCCTTAGCGGCGCTTTCCCCAC
27661209 AAACGC
1 AAACGC
27661215 TACTAACTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCCTTAGCGGCGCTTTCCCCAC
Found at i:27663669 original size:294 final size:294
Alignment explanation
Indices: 27663140--27663728 Score: 1160
Period size: 294 Copynumber: 2.0 Consensus size: 294
27663130 ATATTAATAC
* *
27663140 AAAGTTGTCCACTTGAGTCATAGTCACTAAATTATTTATATCTTGAGCTACGGAACTCCAAATTA
1 AAAGTTGTCCACTTGAGTCATAGTCACTAAATTATTTATATCCTAAGCTACGGAACTCCAAATTA
27663205 AGATCCGCTAAATTCCTATGAAACTAGACTCACATACCTTCGTACCATAATATTTTAAGAATTTT
66 AGATCCGCTAAATTCCTATGAAACTAGACTCACATACCTTCGTACCATAATATTTTAAGAATTTT
27663270 TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAATATTCTACTATTTCATTGTTTGACAGTTCTG
131 TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAATATTCTACTATTTCATTGTTTGACAGTTCTG
27663335 ACCCCTCTTCACTAAAAATTAATTATCTATTTTTACAAAATTTGGATGATGTTCCAATTTGTTTC
196 ACCCCTCTTCACTAAAAATTAATTATCTATTTTTACAAAATTTGGATGATGTTCCAATTTGTTTC
27663400 TATTGAAAATAGACTCATTCATGATTTTAAAAAT
261 TATTGAAAATAGACTCATTCATGATTTTAAAAAT
27663434 AAAGTTGTCCACTTGAGTCATAGTCACTAAATTATTTATATCCTAAGCTACGGAACTCCAAATTA
1 AAAGTTGTCCACTTGAGTCATAGTCACTAAATTATTTATATCCTAAGCTACGGAACTCCAAATTA
27663499 AGATCCGCTAAATTCCTATGAAACTAGACTCACATACCTTCGTACCATAATATTTTAAGAATTTT
66 AGATCCGCTAAATTCCTATGAAACTAGACTCACATACCTTCGTACCATAATATTTTAAGAATTTT
27663564 TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAATATTCTACTATTTCATTGTTTGACAGTTCTG
131 TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAATATTCTACTATTTCATTGTTTGACAGTTCTG
27663629 ACCCCTCTTCACTAAAAATTAATTATCTATTTTTACAAAATTTGGATGATGTTCCAATTTGTTTC
196 ACCCCTCTTCACTAAAAATTAATTATCTATTTTTACAAAATTTGGATGATGTTCCAATTTGTTTC
27663694 TATTGAAAATAGACTCATTCATGATTTTAAAAAT
261 TATTGAAAATAGACTCATTCATGATTTTAAAAAT
27663728 A
1 A
27663729 TAAATTTAAG
Statistics
Matches: 293, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
294 293 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (294 bp):
AAAGTTGTCCACTTGAGTCATAGTCACTAAATTATTTATATCCTAAGCTACGGAACTCCAAATTA
AGATCCGCTAAATTCCTATGAAACTAGACTCACATACCTTCGTACCATAATATTTTAAGAATTTT
TGGTTTAGCCAATAAGTACAGTTTATTCTTTAAATATTCTACTATTTCATTGTTTGACAGTTCTG
ACCCCTCTTCACTAAAAATTAATTATCTATTTTTACAAAATTTGGATGATGTTCCAATTTGTTTC
TATTGAAAATAGACTCATTCATGATTTTAAAAAT
Found at i:27682331 original size:106 final size:106
Alignment explanation
Indices: 27682146--27682359 Score: 410
Period size: 106 Copynumber: 2.0 Consensus size: 106
27682136 CGTTTTTCAG
27682146 TGGTGTCAAAAATAGTGATTTCAGAATCACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
1 TGGTGTCAAAAATAGTGATTTCAGAATCACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
27682211 ATATTTACGAGTCAAATCTAGTAATATAATGAATCATGATT
66 ATATTTACGAGTCAAATCTAGTAATATAATGAATCATGATT
*
27682252 TGGTGTCAAAAATAGTGATTTCAGAATTACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
1 TGGTGTCAAAAATAGTGATTTCAGAATCACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
*
27682317 ATATTTATGAGTCAAATCTAGTAATATAATGAATCATGATT
66 ATATTTACGAGTCAAATCTAGTAATATAATGAATCATGATT
27682358 TG
1 TG
27682360 ATAGAATTGT
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (106 bp):
TGGTGTCAAAAATAGTGATTTCAGAATCACAATTCTGATGATGAGTCTGTAAATATTATTATTTA
ATATTTACGAGTCAAATCTAGTAATATAATGAATCATGATT
Found at i:27686125 original size:53 final size:53
Alignment explanation
Indices: 27686048--27686207 Score: 230
Period size: 53 Copynumber: 3.0 Consensus size: 53
27686038 CCATGGCACT
* * * *
27686048 GAAGAACCATATCATGTTAGACCGTAACTGGTGGGTTATGACATCATATAAGAA
1 GAAG-ACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
* *
27686102 GAAGACCATATCGTGTAAAACCGTAATTGGTGGGTTATGGCATCATATGAGAA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
* * *
27686155 GAAGACCATATCGTGTAAGACTGTAACTAGTAGGTTATGGCATCATATGAGAA
1 GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
27686208 ATTTAAGGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 91 0.96
54 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (53 bp):
GAAGACCATATCGTGTAAGACCGTAACTGGTGGGTTATGGCATCATATGAGAA
Found at i:27686525 original size:31 final size:32
Alignment explanation
Indices: 27686451--27686527 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
27686441 CTCTAGATAC
* *
27686451 GAAAGCTTTTGTGGTGAGTACTGGATATTAAG
1 GAAAGCTTTTGTGGTGAGTACTAGATATAAAG
*
27686483 GAAAGCTTTTGTGGTGAGTACTAGATGTAAAG
1 GAAAGCTTTTGTGGTGAGTACTAGATATAAAG
*
27686515 G-ATGCTTTTGTGG
1 GAAAGCTTTTGTGG
27686528 CAAAACTCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 11 0.27
32 30 0.73
ACGTcount: A:0.26, C:0.06, G:0.32, T:0.35
Consensus pattern (32 bp):
GAAAGCTTTTGTGGTGAGTACTAGATATAAAG
Found at i:27686557 original size:92 final size:93
Alignment explanation
Indices: 27686389--27686559 Score: 213
Period size: 92 Copynumber: 1.8 Consensus size: 93
27686379 ACTCTGGATG
* * * *
27686389 GGAAAGCCTTTTTGGTTAGTACTAGGTATTAAAGAATGGTTTTATGGCACAACTCTAGATACGAA
1 GGAAAGCCTTTTTGGTGAGTACTAGGTATTAAAGAATGCTTTTATGGCAAAACTCTAGAAACGAA
* *
27686454 AGCTTTTGTGGTGAGTACTGGATATTAA
66 AGCCTTAGTGGTGAGTACTGGATATTAA
* * *
27686482 GGAAAG-CTTTTGTGGTGAGTACTA-G-ATGTAAAGGATGCTTTTGTGGCAAAACTCTAGAAAGG
1 GGAAAGCCTTTT-TGGTGAGTACTAGGTAT-TAAAGAATGCTTTTATGGCAAAACTCTAGAAACG
*
27686544 TAAGCCTTAGTGGTGA
64 AAAGCCTTAGTGGTGA
27686560 ACATTTAAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
91 2 0.03
92 47 0.71
93 17 0.26
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (93 bp):
GGAAAGCCTTTTTGGTGAGTACTAGGTATTAAAGAATGCTTTTATGGCAAAACTCTAGAAACGAA
AGCCTTAGTGGTGAGTACTGGATATTAA
Found at i:27697717 original size:18 final size:18
Alignment explanation
Indices: 27697694--27697732 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
27697684 GCCGAGTGGG
27697694 CCACACGAGCGTGCGGGC
1 CCACACGAGCGTGCGGGC
* * *
27697712 CCACACGGGTGTGTGGGC
1 CCACACGAGCGTGCGGGC
27697730 CCA
1 CCA
27697733 TTTTTAGCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.36, G:0.38, T:0.10
Consensus pattern (18 bp):
CCACACGAGCGTGCGGGC
Found at i:27707924 original size:39 final size:39
Alignment explanation
Indices: 27707865--27707952 Score: 140
Period size: 39 Copynumber: 2.3 Consensus size: 39
27707855 CATCATGACA
* *
27707865 TCACGAGATCATGACATCACAAAGTTAGGTTTCTCCATG
1 TCACGACATCATGACATCACAAAGTTAGGCTTCTCCATG
**
27707904 TCACGACATCATGATGTCACAAAGTTAGGCTTCTCCATG
1 TCACGACATCATGACATCACAAAGTTAGGCTTCTCCATG
27707943 TCACGACATC
1 TCACGACATC
27707953 GACCCTATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (39 bp):
TCACGACATCATGACATCACAAAGTTAGGCTTCTCCATG
Found at i:27710021 original size:17 final size:17
Alignment explanation
Indices: 27709999--27710040 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
27709989 AAACTATAAT
27709999 CATTTCTAAATGTTTC-C
1 CATTTCTAAAT-TTTCAC
**
27710016 CATTTCTCCATTTTCAC
1 CATTTCTAAATTTTCAC
27710033 CATTTCTA
1 CATTTCTA
27710041 TCCATTTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (17 bp):
CATTTCTAAATTTTCAC
Found at i:27726346 original size:32 final size:33
Alignment explanation
Indices: 27726281--27726353 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
27726271 CATTTTCTAA
* * *
27726281 GGCACCACCAGGGTGGGTCATCCCATTCTCTAT
1 GGCACCACCAGGGTGGGCCATCACATTCACTAT
27726314 GGCACCACCAGGGT-GGCCA-CGACATTCACTAT
1 GGCACCACCAGGGTGGGCCATC-ACATTCACTAT
27726346 GGCACCAC
1 GGCACCAC
27726354 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 21 0.58
33 14 0.39
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.18
Consensus pattern (33 bp):
GGCACCACCAGGGTGGGCCATCACATTCACTAT
Found at i:27728420 original size:50 final size:50
Alignment explanation
Indices: 27728304--27728497 Score: 264
Period size: 50 Copynumber: 3.9 Consensus size: 50
27728294 TGATAATAAA
** * *
27728304 ATGCCATA-GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCG
1 ATGCCA-ACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTTG
* * * **
27728355 ATGCCCATGCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
*
27728405 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCCCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
*
27728455 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27728498 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 94 0.75
51 32 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:27734233 original size:7 final size:7
Alignment explanation
Indices: 27734219--27734247 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
27734209 CATAATTGAT
27734219 TTTA-TA
1 TTTAGTA
27734225 TTTAGTA
1 TTTAGTA
27734232 TTTAGTA
1 TTTAGTA
27734239 TTTAGTA
1 TTTAGTA
27734246 TT
1 TT
27734248 ATATATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (7 bp):
TTTAGTA
Found at i:27734240 original size:14 final size:13
Alignment explanation
Indices: 27734219--27734253 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
27734209 CATAATTGAT
27734219 TTTATATTTAGTA
1 TTTATATTTAGTA
27734232 TTTAGTATTTAGTA
1 TTTA-TATTTAGTA
27734246 TTATATAT
1 TT-TATAT
27734254 ATAACTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 14 0.70
15 2 0.10
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (13 bp):
TTTATATTTAGTA
Found at i:27734384 original size:14 final size:13
Alignment explanation
Indices: 27734360--27734388 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
27734350 AATGAACAGA
27734360 GGCCCAAAAAAAT
1 GGCCCAAAAAAAT
27734373 GGCCCAAAAAAAT
1 GGCCCAAAAAAAT
27734386 GGC
1 GGC
27734389 AGAAACTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.07
Consensus pattern (13 bp):
GGCCCAAAAAAAT
Found at i:27742342 original size:44 final size:44
Alignment explanation
Indices: 27742253--27742801 Score: 445
Period size: 44 Copynumber: 12.5 Consensus size: 44
27742243 GCAGATCAGT
* * * *
27742253 GAAGATCGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* *
27742297 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* *
27742341 GAAGAAAGCAGATCTTGTCTT-C---ATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * *
27742381 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * *
27742425 GAAGATGCAGATCTTGCCTTCCCATATTGGTGGTGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * * * * *
27742469 CAATAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATG
1 GAA-GATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * * * *
27742513 GAAGATAACAGATCCTGTCTTCCTATATTTGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * *
27742558 AAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
** * * *
27742602 GAAGAAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * ** *
27742646 GAAGATAGCAGGTCCTGTCTTCCTATATTGGT-AAGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * * *
27742690 CAAGATGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* * * ** * *
27742734 GAAGAAAGTAAATCTTGTCTTTATGTATT-GAGGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
* *
27742778 GAAGATAGCAAATCTTGCCTTCCT
1 GAAGAT-GCAGATCTTGTCTTCCT
27742802 GCACGGACAG
Statistics
Matches: 394, Mismatches: 93, Indels: 36
0.75 0.18 0.07
Matches are distributed among these distances:
39 1 0.00
40 28 0.07
41 6 0.02
43 69 0.18
44 204 0.52
45 86 0.22
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATC
Found at i:27742740 original size:132 final size:132
Alignment explanation
Indices: 27742253--27742787 Score: 810
Period size: 132 Copynumber: 4.1 Consensus size: 132
27742243 GCAGATCAGT
* *
27742253 GAAGATCGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
* * *
27742318 CCATATTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTC----ATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
27742379 TC
131 TC
*
27742381 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
* * * * *
27742446 CCATATTGGTGGTGGAGTAGATCCAATAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
*
27742511 TG
131 TC
* * * * *
27742513 GAAGATAACAGATCCTGTCTTCCTATATTTGTAGCGAAGTGGATCAAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGCCTT
*
27742578 CCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
65 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
27742643 ATC
130 ATC
* *
27742646 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
* * *
27742711 CCATACTGGTGGCGAAGTAGATCGAAGAAAGTAAATCTTGTCTTTATGTATTGAG-GTGAAGTAG
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTG-GCGTGAAGTAG
27742775 ATC
130 ATC
27742778 GAAGATAGCA
1 GAAGATAGCA
27742788 AATCTTGCCT
Statistics
Matches: 372, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
128 105 0.28
132 147 0.40
133 120 0.32
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:27742762 original size:265 final size:260
Alignment explanation
Indices: 27742265--27742784 Score: 817
Period size: 265 Copynumber: 2.0 Consensus size: 260
27742255 AGATCGCAGG
* *
27742265 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTGTCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGG
* * *
27742330 TGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTGGCGTGAAGTAGATCGAAGATAGCAGGTC
66 CGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATTGGCGTGAAGTAGATCGAAGATAGCAGGTC
* * * * *
27742395 TTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGCCTTCCCATATTGGTGGTG
131 CTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTCCCATACTGGTGGCG
* * * *
27742460 GAGTAGATCCAATAAAGCAGATCTTGTCTTCATGTATTG-GCGTGAAGTAGATGGAAGATAACAG
196 AAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGTATTGAG-GTGAAGTAGATCGAAGATAACAG
27742524 A
260 A
*
27742525 TCCTGTCTTCCTATATTTGTAGCGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTG
1 TCCTGTCTTCCTATATTGGTAG-GAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTG
27742590 GCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
65 GCGAAGTAGATCGAAGAAAACAGATCTTGTCTTC----ATTGGCGTGAAGTAGATCGAAGATAGC
27742655 AGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTCCCATACTGG
126 AGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTCCCATACTGG
* * *
27742720 TGGCGAAGTAGATCGAAGAAAGTAAATCTTGTCTTTATGTATTGAGGTGAAGTAGATCGAAGATA
191 TGGCGAAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGTATTGAGGTGAAGTAGATCGAAGATA
27742785 GCAAATCTTG
Statistics
Matches: 236, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
260 21 0.09
261 71 0.30
265 143 0.61
266 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (260 bp):
TCCTGTCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATACTGGTGG
CGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATTGGCGTGAAGTAGATCGAAGATAGCAGGTC
CTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGATGCAGATCTTGCCTTCCCATACTGGTGGCG
AAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGTATTGAGGTGAAGTAGATCGAAGATAACAGA
Found at i:27742889 original size:88 final size:88
Alignment explanation
Indices: 27742782--27743097 Score: 452
Period size: 88 Copynumber: 3.6 Consensus size: 88
27742772 TAGATCGAAG
* *
27742782 ATAGCAAATCTTGCCTTCCTGCACGGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
27742847 GGTTGTAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * *
27742870 ATAGCAGATCTTTCCTTCCTGCACTGACAGTGAAGCAGATCGAAGACACCAACCTTGCCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
*
27742935 GGTTGCAACGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * * * * *
27742958 ATAGCAGATCTTACATTCCTGCACTGACAGTGAAGTAGATCTAAGACACCAGCCTTGCCTACCTG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
* *
27743023 GGTTGCAGCGGAACAGGTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * * * *
27743046 ATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAACAGATCGATGACCCCAG
1 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAG
27743098 TCCTATCTCC
Statistics
Matches: 202, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 202 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:27742912 original size:265 final size:265
Alignment explanation
Indices: 27742304--27742915 Score: 609
Period size: 265 Copynumber: 2.3 Consensus size: 265
27742294 ATCGAAGATG
* * * * * * * * *
27742304 CAGATCTTGTCTTCCCATATTGGTGGTGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCAT----
1 CAGACCTTGTCCTCCCATACTGGTAGCGAAGCAGAGCGAAGAAAACAGATCTTGTCTTCATGCAC
* * * *
27742365 TGGCGTGAAGTAGATCGAAGATAGCAGGTCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
66 TGACGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGA
* * * * *
27742430 TGCAGATCTTGCCTTCCCATATTGGTGGTGGAGTAGATCCAATAAAGCAGATCTTGTCTTCATGT
131 TGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGT
* * * * ** * **
27742495 ATTGGCGTGAAGTAGATGGAAGATAACAGATCCTGTCTTCCTATATTTGTAGCGAAGTGGATCAA
196 ATTGGCGTGAAGTAGATCGAAGATAACAAATCCTGCCTTCCTACATCGGCAGCGAAGCAGATCAA
**
27742560 AGATG
261 AGAAC
* * * * * * *
27742565 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTAT
1 CAGACCTTGTCCTCCCATACTGGTAGCGAAGCAGAGCGAAGAAAACAGATCTTGTCTTCATGCAC
*
27742630 TGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGA
66 TGACGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGA
* * *
27742695 TGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAAATCTTGTCTTTATGT
131 TGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGT
* * *
27742760 ATTGAG-GTGAAGTAGATCGAAGATAGCAAATCTTGCCTTCCTGCA-CGGACAGCGAAGCAGATC
196 ATTG-GCGTGAAGTAGATCGAAGATAACAAATCCTGCCTTCCTACATCGG-CAGCGAAGCAGATC
*
27742823 GAAGACAC
259 AAAGA-AC
** * * * *
27742831 CAG-CCTTG-CCTCCC-TGGGTTGTAGCGGAGCAG-GCTAA-AAATAGCAGATCTT-TCCTTCCT
1 CAGACCTTGTCCTCCCAT-ACTGGTAGCGAAGCAGAGCGAAGAAA-A-CAGATCTTGT-CTTCAT
*
27742890 GCACTGACAGTGAAGCAGATCGAAGA
62 GCACTGAC-GTGAAGTAGATCGAAGA
27742916 CACCAACCTT
Statistics
Matches: 294, Mismatches: 45, Indels: 20
0.82 0.13 0.06
Matches are distributed among these distances:
261 57 0.19
262 3 0.01
263 6 0.02
264 34 0.12
265 190 0.65
266 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (265 bp):
CAGACCTTGTCCTCCCATACTGGTAGCGAAGCAGAGCGAAGAAAACAGATCTTGTCTTCATGCAC
TGACGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCCAAGA
TGCAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAGCAAATCTTGTCTTCATGT
ATTGGCGTGAAGTAGATCGAAGATAACAAATCCTGCCTTCCTACATCGGCAGCGAAGCAGATCAA
AGAAC
Found at i:27743164 original size:44 final size:44
Alignment explanation
Indices: 27743098--27743264 Score: 246
Period size: 44 Copynumber: 3.8 Consensus size: 44
27743088 ATGACCCCAG
27743098 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAA
* * *
27743142 TCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGAGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAA
* * * *
27743186 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAA
*
27743230 TCCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTAAA
1 TCCTATCTCCCTG-GTCAGCAGTGGAATAGGTTAAA
27743265 AATAGCAGAT
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
44 109 0.99
45 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAA
Found at i:27743327 original size:88 final size:88
Alignment explanation
Indices: 27743235--27743397 Score: 236
Period size: 88 Copynumber: 1.9 Consensus size: 88
27743225 GTGAATCCTA
* * *
27743235 TCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCGGCAGCGAA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCAGCAACGAA
27743300 GCAGATCGAAAACTCCAGCCTTG
66 GCAGATCGAAAACTCCAGCCTTG
* * * * * * *
27743323 TCTCCCTGAGCAGTAGTGGAATAGGTTGAAAATAGCAGGTCTTGTCTTCCTGTACTAGCAATGAA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCAGCAACGAA
27743388 GCAGATCGAA
66 GCAGATCGAA
27743398 CTCATCAGTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTGGAATAGGTTAAAAATAGCAGATCATGCCTTCCTGTACCAGCAACGAA
GCAGATCGAAAACTCCAGCCTTG
Found at i:27744014 original size:44 final size:44
Alignment explanation
Indices: 27743917--27744217 Score: 183
Period size: 44 Copynumber: 6.9 Consensus size: 44
27743907 TGCAATGGCG
* *
27743917 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTAAAGCGAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAT
* * **
27743961 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC-TTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAT
* * * *** *
27744004 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCATC---T
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAT
* * * *
27744045 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAA-GCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACGAAT
* * * * ** *
27744089 AGTCTTATC-CTCTAGAAGTTGCAGT-AAGGCAGACTGAAGATGGCA-
1 AATCTTATCTCCCT-GAAGTTGCAGTGGA-GCAGA-TTAA-AACGAAT
* *
27744134 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCG-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACGAAT
* * * *
27744178 AATCCTATCTCCCTAAAGTTGCAGTGAAGCGGATTAAAAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
27744218 CACAGATCTT
Statistics
Matches: 200, Mismatches: 42, Indels: 31
0.73 0.15 0.11
Matches are distributed among these distances:
40 21 0.10
41 9 0.05
43 18 0.09
44 120 0.60
45 28 0.14
46 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACGAAT
Found at i:27744185 original size:217 final size:215
Alignment explanation
Indices: 27743910--27744370 Score: 627
Period size: 217 Copynumber: 2.1 Consensus size: 215
27743900 TTAACATTGC
* * *
27743910 AATGGCGAATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTAAAGCGAATAATCCTATCTCCCT
1 AATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCGAATAATCCTATCTCCCT
* * **** * *
27743975 GAAGTTGCAGTGGAGCGGATTAAAACTTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
66 AAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGCAGAGAGCAAATCG
* * *
27744040 CATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCCTCTAGA
131 CATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGAAAGTCTTATCCCCCAGA
*
27744105 AGTTGCAGTAAGGCAGACTG
196 AATTGCAGTAAGGCAGACTG
27744125 AAGATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCG-ATAATCCTATCTC
1 -A-ATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAG-CGAATAATCCTATCTC
* *
27744189 CCTAAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGTAGAGTGCAAA
63 CCTAAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGCAGAGAGCAAA
* * * * *
27744254 TCGCATCTGGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGACTGAGTAAGAAAGTCTTATCCCCC
128 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGAAAGTCTTATCCCCC
** *
27744319 AGAAATTGCAGTGGGGCGGACTG
193 AGAAATTGCAGTAAGGCAGACTG
* * *
27744342 AATGAACAAATCCTATCTCCCTAAAGTTG
1 AATG-GCAAATCTTATCTCCCTGAAGTTG
27744371 TAGTGGAGTG
Statistics
Matches: 214, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
215 3 0.01
216 23 0.11
217 186 0.87
218 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (215 bp):
AATGGCAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCGAATAATCCTATCTCCCT
AAAGTTGCAGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAATTGCAGAGAGCAAATCG
CATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGAAAGTCTTATCCCCCAGA
AATTGCAGTAAGGCAGACTG
Found at i:27744231 original size:44 final size:44
Alignment explanation
Indices: 27744134--27744232 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
27744124 GAAGATGGCA
* * * *
27744134 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAACCGAC
* * *
27744178 AATCCTATCTCCCTAAAGTTGCAGTGAAGCGGATTAAAACC-AC
1 AATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAACCGAC
27744221 AGATCTTATCTC
1 A-ATCTTATCTC
27744233 TCTGAAATTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.04
44 44 0.96
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAATGAAGCAGATTAAAACCGAC
Found at i:27744887 original size:14 final size:14
Alignment explanation
Indices: 27744868--27744928 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
27744858 AATGGCAAGA
27744868 AAATCAAAGATTAC
1 AAATCAAAGATTAC
* *
27744882 AAATCAAATATGAGC
1 AAATCAAAGATTA-C
27744897 AAGAAAATCAAAGATTAC
1 ----AAATCAAAGATTAC
*
27744915 AAATCAAATATTAC
1 AAATCAAAGATTAC
27744929 CTTGAGGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
14 24 0.65
15 1 0.03
18 1 0.03
19 11 0.30
ACGTcount: A:0.57, C:0.13, G:0.08, T:0.21
Consensus pattern (14 bp):
AAATCAAAGATTAC
Found at i:27744904 original size:33 final size:33
Alignment explanation
Indices: 27744862--27744925 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
27744852 AACAGAAATG
27744862 GCAAGAAAATCAAAGATTACAAATCAAATATGA
1 GCAAGAAAATCAAAGATTACAAATCAAATATGA
27744895 GCAAGAAAATCAAAGATTACAAATCAAATAT
1 GCAAGAAAATCAAAGATTACAAATCAAATAT
27744926 TACCTTGAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.58, C:0.12, G:0.11, T:0.19
Consensus pattern (33 bp):
GCAAGAAAATCAAAGATTACAAATCAAATATGA
Found at i:27750808 original size:11 final size:11
Alignment explanation
Indices: 27750792--27750820 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
27750782 TAATTTTTCA
27750792 TAAACCCTAAT
1 TAAACCCTAAT
27750803 TAAACCCTAAT
1 TAAACCCTAAT
27750814 TAAACCC
1 TAAACCC
27750821 AAATACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAACCCTAAT
Found at i:27756474 original size:50 final size:50
Alignment explanation
Indices: 27756404--27756529 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 50
27756394 TGTATTACCA
* * * * * **
27756404 ATGCCATATCCCAGATATGGTCTTACATGTGAGTTCTCATATAGGTGCCC
1 ATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATAGGTGCCC
* * * *
27756454 ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTGGTTCCC
1 ATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATAGGTGCCC
27756504 ATGCCATGTCCTAGACATGGTCTTAC
1 ATGCCATGTCCTAGACATGGTCTTAC
27756530 NNNNNNNNNN
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 65 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (50 bp):
ATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCATATAGGTGCCC
Found at i:27764499 original size:3 final size:3
Alignment explanation
Indices: 27764491--27764515 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27764481 AGTAAAAAAC
27764491 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
27764516 GGAAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:27766375 original size:20 final size:19
Alignment explanation
Indices: 27766333--27766375 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
27766323 CCGATGGTAG
* *
27766333 AATTTTTATATTTTGTTAT
1 AATTTTTATATTTTCTTAC
*
27766352 AATTTTTTTAGTTTTCTTAC
1 AATTTTTATA-TTTTCTTAC
27766372 AATT
1 AATT
27766376 ATGGTAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (19 bp):
AATTTTTATATTTTCTTAC
Found at i:27770021 original size:27 final size:25
Alignment explanation
Indices: 27769991--27770079 Score: 97
Period size: 25 Copynumber: 3.5 Consensus size: 25
27769981 CCCACAACTT
* * *
27769991 GTGTGAGCATGCCCATTTTCGTAGTTC
1 GTGTGAGCATACCCATTTAC--AGCTC
*
27770018 GTGTGAGCATACCGATTTACAGCTC
1 GTGTGAGCATACCCATTTACAGCTC
* *
27770043 GTGTGAGCATACCGATTCACAGCTC
1 GTGTGAGCATACCCATTTACAGCTC
*
27770068 GTGTGAGTATAC
1 GTGTGAGCATAC
27770080 ATGTACAGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 39 0.70
27 17 0.30
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (25 bp):
GTGTGAGCATACCCATTTACAGCTC
Found at i:27770050 original size:25 final size:25
Alignment explanation
Indices: 27770016--27770079 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
27770006 TTTTCGTAGT
*
27770016 TCGTGTGAGCATACCGATTTACAGC
1 TCGTGTGAGCATACCGATTCACAGC
27770041 TCGTGTGAGCATACCGATTCACAGC
1 TCGTGTGAGCATACCGATTCACAGC
*
27770066 TCGTGTGAGTATAC
1 TCGTGTGAGCATAC
27770080 ATGTACAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
TCGTGTGAGCATACCGATTCACAGC
Found at i:27785605 original size:69 final size:69
Alignment explanation
Indices: 27785339--27786040 Score: 521
Period size: 69 Copynumber: 10.2 Consensus size: 69
27785329 GAGAAAAGCA
* * * * * * * * *
27785339 GCAACCTCCAAAACAGTTAGTGAGATCAAAGCTCCCAACTATCATATTAGGGTTCACAGGTGAAA
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
**
27785404 AACC
66 AGTC
* ** * * * ** * * * *
27785408 GCAATCTCCAAAGCAATTAACGAAAGCAAAGCTCTTAGTTGTCATATTAAGGTTCGCAGGCAAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
27785473 AGTC
66 AGTC
** * * ** * * ** *
27785477 ATAATCTCTAAAATAGTTAGTAAGAG-AAAGCTCCTAGCTGTTATATTAAGGTTCTTAGGTGAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
27785541 AGTC
66 AGTC
* * * * *
27785545 GTAACCTCCAAAATAGTTAGCGAGAGCAAAACTCCCAGCTGTAACATTAAGGTTCATAGGTGAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
*
27785610 AGCC
66 AGTC
* * * * * **
27785614 GTAACTTCCAAAATAGTTAGCGAAAGCAAAGCTCCCAACTGTAACATTAAGGTTCACAGGTAAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
*
27785679 ATTC
66 AGTC
* ** * * *
27785683 GCAACCTCTAAAATAGTTAATGAGGGCAAAGCTCCCAGCTGTAATAGTAAGGTTCACAGACGAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
*
27785748 AGCC
66 AGTC
** * * * * ** * *
27785752 ATAACCTCTAAAATAATTAGCGAGAGTAAAGCTCTCAATTGTCATATTAAGGTTCACAAGCGAAG
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
27785817 A-TCC
66 AGT-C
* ** * * * * ** ***
27785821 GCAACCTCTAAAGCAGTTAGCGAGAGCAAAACTCCCCAGCTTTCATATTAAAGTTCGTAAAAGAA
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCT-CCCAGCTGTAATATTAAGGTTCACAGGCGAA
*
27785886 GAGCC
65 GAGTC
* * * *
27785891 GCAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAG-TCGTAATATTAAGG-CCAGCAGGCAA
1 GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCT-GTAATATTAAGGTTCA-CAGGCGA
*
27785954 AGAGTT
64 AGAGTC
* * * ***
27785960 GCAACCTCCAAAATAGTTAGCGAGAGCAAAAGCTCCCAGCTATCATATTAAGGTTCGCAAAAGAA
1 GCAACCTCCAAAATAGTTAGCGAGAGC-AAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAA
27786025 GAGTC
65 GAGTC
*
27786030 CCAACCTCCAA
1 GCAACCTCCAA
27786041 GTGTAACAGC
Statistics
Matches: 492, Mismatches: 132, Indels: 17
0.77 0.21 0.03
Matches are distributed among these distances:
68 58 0.12
69 341 0.69
70 91 0.18
71 2 0.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (69 bp):
GCAACCTCCAAAATAGTTAGCGAGAGCAAAGCTCCCAGCTGTAATATTAAGGTTCACAGGCGAAG
AGTC
Found at i:27785841 original size:207 final size:206
Alignment explanation
Indices: 27785341--27786015 Score: 539
Period size: 206 Copynumber: 3.3 Consensus size: 206
27785331 GAAAAGCAGC
* * * * * * *
27785341 AACCTCCAAAACAGTTAGTGAGATCAAAGCTCCCAACTATCATATTAGGGTTCACAGGTGAAAAA
1 AACCTCCAAAATAATTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCACAGGTGAAGAA
* * * ** ** * * *
27785406 CCGCAATCTCCAAAGCAATTAACGAAAGCAAAGCTCTTAGTTGTCATATTAAGGTTCGCAGGCAA
66 CCGCAACCTCCAAAGCAGTTAGCGAAAGCAAAGCTCCCAACTGTAACATTAAGGTTCACAGGCAA
* * * * * * ** *
27785471 AGAGTCATAATCTCTAAAATAGTTAGTAAGAGAAAGCTCCTAGCTGTTATATTAAGGTTCTTAGG
131 AGAGTCACAACCTCTAAAATAGTTAATAAGAGAAAGCTCCCAGCTGTAATAGTAAGGTTCACAGA
* * *
27785536 TGAAGAGTCGT
196 CGAAGAGCCAT
* * * * * * *
27785547 AACCTCCAAAATAGTTAGCGAGAGCAAAACTCCCAGCTGTAACATTAAGGTTCATAGGTGAAGAG
1 AACCTCCAAAATAATTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCACAGGTGAAGAA
* * ** *
27785612 CCGTAACTTCCAAAATAGTTAGCGAAAGCAAAGCTCCCAACTGTAACATTAAGGTTCACAGGTAA
66 CCGCAACCTCCAAAGCAGTTAGCGAAAGCAAAGCTCCCAACTGTAACATTAAGGTTCACAGGCAA
* * * *
27785677 AGATTCGCAACCTCTAAAATAGTTAATGAGGGCAAAGCTCCCAGCTGTAATAGTAAGGTTCACAG
131 AGAGTCACAACCTCTAAAATAGTTAATAAGAG-AAAGCTCCCAGCTGTAATAGTAAGGTTCACAG
27785742 ACGAAGAGCCAT
195 ACGAAGAGCCAT
* * * * * * *
27785754 AACCTCTAAAATAATTAGCGAGAGTAAAGCTCTCAATTGTCATATTAAGGTTCACAAGCGAAGAT
1 AACCTCCAAAATAATTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCACAGGTGAAGAA
* * * * * * * * * *
27785819 CCGCAACCTCTAAAGCAGTTAGCGAGAGCAAAACTCCCCAGCTTTCATATTAAAGTTCGTAAAAG
66 CCGCAACCTCCAAAGCAGTTAGCGAAAGCAAAGCT-CCCAACTGTAACATTAAGGTTC--ACAGG
* * * * * * * *
27785884 --AAGAGCCGCAACCTCCAAAATAGTTAGTGAGAGCAAAGCTCCTAG-TCGTAATATTAAGG-CC
128 CAAAGAGTCACAACCTCTAAAATAGTTAATAAGAG-AAAGCTCCCAGCT-GTAATAGTAAGGTTC
* * ****
27785945 AGCAGGCAAAGAGTTGC
191 A-CAGACGAAGAGCCAT
* * *
27785962 AACCTCCAAAATAGTTAGCGAGAGCAAAAGCTCCCAGCTATCATATTAAGGTTC
1 AACCTCCAAAATAATTAGCGAGAGC-AAAGCTCCCAACTGTCATATTAAGGTTC
27786016 GCAAAAGAAG
Statistics
Matches: 371, Mismatches: 91, Indels: 11
0.78 0.19 0.02
Matches are distributed among these distances:
206 128 0.35
207 118 0.32
208 98 0.26
209 24 0.06
210 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (206 bp):
AACCTCCAAAATAATTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCACAGGTGAAGAA
CCGCAACCTCCAAAGCAGTTAGCGAAAGCAAAGCTCCCAACTGTAACATTAAGGTTCACAGGCAA
AGAGTCACAACCTCTAAAATAGTTAATAAGAGAAAGCTCCCAGCTGTAATAGTAAGGTTCACAGA
CGAAGAGCCAT
Found at i:27793376 original size:26 final size:25
Alignment explanation
Indices: 27793336--27793423 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
27793326 TAGGTATGCC
*
27793336 CATTCGAG-CATATAATCGTGAAGCT
1 CATTTGAGCCATATAATCG-GAAGCT
*
27793361 CTTTTGAGCCATATAA-CGGGAAGCT
1 CATTTGAGCCATATAATC-GGAAGCT
** *
27793386 CATTTGAGCTGTATAATAGGAAGCT
1 CATTTGAGCCATATAATCGGAAGCT
*
27793411 CATTAGAGCCATA
1 CATTTGAGCCATA
27793424 ATCAGAAAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
25 43 0.84
26 8 0.16
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (25 bp):
CATTTGAGCCATATAATCGGAAGCT
Found at i:27798790 original size:18 final size:18
Alignment explanation
Indices: 27798764--27798798 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
27798754 TAAAAAAGCC
*
27798764 AATTTTTTGCTCATTTAG
1 AATTCTTTGCTCATTTAG
27798782 AATTCTTTGCTCATTTA
1 AATTCTTTGCTCATTTA
27798799 TCCACTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (18 bp):
AATTCTTTGCTCATTTAG
Found at i:27807300 original size:41 final size:42
Alignment explanation
Indices: 27807202--27807324 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 42
27807192 GTATATCCAA
* * *
27807202 GGGTACCGTAGTACAAACAGGGGCACGTATGTGCAATTTAGG
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGG
* *
27807244 GGGTACCAAAGTACAAACAAGGGCACATATGTGCAATTCA-G
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGG
* *
27807285 GGGTACCGAAGTACAAATAGGGGCACATATGTGTAATTCA
1 GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCA
27807325 ACATTATTCT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 37 0.51
42 35 0.49
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.20
Consensus pattern (42 bp):
GGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGG
Found at i:27816849 original size:9 final size:9
Alignment explanation
Indices: 27816826--27816896 Score: 63
Period size: 9 Copynumber: 7.8 Consensus size: 9
27816816 TAGGCAACTT
27816826 TTTTTTTGC
1 TTTTTTTGC
**
27816835 GCTTTTTGC
1 TTTTTTTGC
*
27816844 TTTTTTTGT
1 TTTTTTTGC
*
27816853 TTTTTTTGTTT
1 TTTTTTTG--C
27816864 TTTTTTTGC
1 TTTTTTTGC
**
27816873 GCTTTTTGC
1 TTTTTTTGC
27816882 TTTTTTTG-
1 TTTTTTTGC
27816890 TTTTTTT
1 TTTTTTT
27816897 TAAAGAATAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
8 7 0.14
9 34 0.68
11 9 0.18
ACGTcount: A:0.00, C:0.08, G:0.13, T:0.79
Consensus pattern (9 bp):
TTTTTTTGC
Found at i:27816869 original size:29 final size:29
Alignment explanation
Indices: 27816837--27816897 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
27816827 TTTTTTGCGC
** *
27816837 TTTTTGCTTTTTTTGTTTTTTTTGTTTTT
1 TTTTTGCGCTTTTTGCTTTTTTTGTTTTT
27816866 TTTTTGCGCTTTTTGCTTTTTTTGTTTTT
1 TTTTTGCGCTTTTTGCTTTTTTTGTTTTT
27816895 TTT
1 TTT
27816898 AAAGAATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (29 bp):
TTTTTGCGCTTTTTGCTTTTTTTGTTTTT
Found at i:27816874 original size:38 final size:38
Alignment explanation
Indices: 27816824--27816897 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
27816814 GGTAGGCAAC
27816824 TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTTGT
1 TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTTGT
27816862 TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTT
1 TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTT
27816898 AAAGAATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (38 bp):
TTTTTTTTTGCGCTTTTTGCTTTTTTTGTTTTTTTTGT
Found at i:27820566 original size:23 final size:23
Alignment explanation
Indices: 27820539--27820582 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27820529 ACAAAATTAT
*
27820539 AAATTCATAACGAAAAAATCTGG
1 AAATTCATAAAGAAAAAATCTGG
**
27820562 AAATTTTTAAAGAAAAAATCT
1 AAATTCATAAAGAAAAAATCT
27820583 TTTGACTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (23 bp):
AAATTCATAAAGAAAAAATCTGG
Found at i:27821459 original size:25 final size:25
Alignment explanation
Indices: 27821425--27821474 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
27821415 AAATCGTTAC
*
27821425 AATATCATGGTTATATGGACAAATT
1 AATATCATGGCTATATGGACAAATT
*
27821450 AATATCATGGCTATATGGACGAATT
1 AATATCATGGCTATATGGACAAATT
27821475 TATTCCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (25 bp):
AATATCATGGCTATATGGACAAATT
Found at i:27821839 original size:25 final size:25
Alignment explanation
Indices: 27821809--27821859 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
27821799 ATTATTATTA
* *
27821809 ATGATTAGTTTAAGTTAA-TTAAATT
1 ATGATTAGGTT-ACTTAAGTTAAATT
27821834 ATGATTAGGTTACTTAAGTTAAATT
1 ATGATTAGGTTACTTAAGTTAAATT
27821859 A
1 A
27821860 ATTAAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGATTAGGTTACTTAAGTTAAATT
Found at i:27823320 original size:28 final size:28
Alignment explanation
Indices: 27823272--27823403 Score: 158
Period size: 28 Copynumber: 4.7 Consensus size: 28
27823262 AACATGACAG
*
27823272 GAAAGAATAAGCCTTTGTGGTGAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
* *
27823300 GAAAGAATAAACATTTATGGTGAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
* * *
27823328 GAAAGAATAAGCCTTTGGGGAGAA-TAAT
1 GAAAGAATAAACCTTTGTGGTGAACT-AT
* **
27823356 GAAAGAACAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAACCTTTGTGGTGAACTAT
*
27823384 GAAAGAATAAGCCTTTGTGG
1 GAAAGAATAAACCTTTGTGG
27823404 CGGACTCCGT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.01
28 85 0.98
29 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (28 bp):
GAAAGAATAAACCTTTGTGGTGAACTAT
Found at i:27823358 original size:56 final size:56
Alignment explanation
Indices: 27823272--27823400 Score: 179
Period size: 56 Copynumber: 2.3 Consensus size: 56
27823262 AACATGACAG
* * * **
27823272 GAAAGAATAAGCCTTTGTGGTGAACTATGAAAGAATAAACATTTATGGTGAACTAT
1 GAAAGAATAAGCCTTTGGGGAGAACTATGAAAGAACAAACATTTATGGCAAACTAT
* *
27823328 GAAAGAATAAGCCTTTGGGGAGAA-TAATGAAAGAACAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAGCCTTTGGGGAGAACT-ATGAAAGAACAAACATTTATGGCAAACTAT
27823384 GAAAGAATAAGCCTTTG
1 GAAAGAATAAGCCTTTG
27823401 TGGCGGACTC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 64 0.98
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (56 bp):
GAAAGAATAAGCCTTTGGGGAGAACTATGAAAGAACAAACATTTATGGCAAACTAT
Found at i:27825188 original size:25 final size:25
Alignment explanation
Indices: 27825160--27825225 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
27825150 CCCATTTCAC
27825160 AGCTTGTGTGAGCATTTACAGTTAT
1 AGCTTGTGTGAGCATTTACAGTTAT
** * *
27825185 AGCTCATGTGAGCAATTATAGTTAT
1 AGCTTGTGTGAGCATTTACAGTTAT
*
27825210 AACTTGTGTGAGCATT
1 AGCTTGTGTGAGCATT
27825226 ATTTCCGTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (25 bp):
AGCTTGTGTGAGCATTTACAGTTAT
Found at i:27829767 original size:24 final size:24
Alignment explanation
Indices: 27829730--27829798 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
27829720 TTTACTACAA
* * * *
27829730 TATTGAGCGGCTTGACCTTAATGT
1 TATTGAGTGGCTTGACCATAAAGC
*
27829754 TATTGAGTGACTTGACCATAAAGC
1 TATTGAGTGGCTTGACCATAAAGC
*
27829778 TATTAAGTGGCTTGACCATAA
1 TATTGAGTGGCTTGACCATAA
27829799 CGTGCAGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCATAAAGC
Found at i:27830886 original size:16 final size:16
Alignment explanation
Indices: 27830865--27830897 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27830855 ACATAAAATA
27830865 CTAAAA-TCATCGATTT
1 CTAAAATTC-TCGATTT
27830881 CTAAAATTCTCGATTT
1 CTAAAATTCTCGATTT
27830897 C
1 C
27830898 ACTAGTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.39
Consensus pattern (16 bp):
CTAAAATTCTCGATTT
Found at i:27841520 original size:18 final size:18
Alignment explanation
Indices: 27841480--27841535 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
27841470 TTCAGTGATA
*
27841480 AATAACATTTTGAAAATT
1 AATAACATTTTGAAAATG
*
27841498 TATAACATTTTGAAAGA-G
1 AATAACATTTTGAAA-ATG
* *
27841516 AATAAC-TTATGAATATG
1 AATAACATTTTGAAAATG
27841533 AAT
1 AAT
27841536 CACGTTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
18 19 0.61
19 1 0.03
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (18 bp):
AATAACATTTTGAAAATG
Found at i:27841785 original size:28 final size:28
Alignment explanation
Indices: 27841745--27841819 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
27841735 GCTCGATAGT
* * *
27841745 AAAGAATATGCCTTTGTGGTGAACTATT
1 AAAGAAGAAGCCTTTGTGGTGAACTATG
* *
27841773 AAAGAGGAAGCCTTTATGGTGAACTATG
1 AAAGAAGAAGCCTTTGTGGTGAACTATG
27841801 AAAGAAGAAGCCTTTGTGG
1 AAAGAAGAAGCCTTTGTGG
27841820 CAGACTCTGA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.28
Consensus pattern (28 bp):
AAAGAAGAAGCCTTTGTGGTGAACTATG
Found at i:27843558 original size:134 final size:134
Alignment explanation
Indices: 27843318--27843565 Score: 288
Period size: 134 Copynumber: 1.9 Consensus size: 134
27843308 AATGAACTGA
* *
27843318 AGTCGTGAACATAAATCAACGAACTATTTAAGTGGAGTCATGATCATAAATTGGCAAACTCTTTA
1 AGTCGTGAACATAAATCAACGAACTATTTAAGTGGAGTCATGATCATAAATCGGCAAACTCTTGA
* * * * *
27843383 TGAAGTGTTCATGATAATATATCAATAAATTGAAGTCGTGATCGTAAATCAATGAGGTTTAAAAA
66 TGAACTGTTCATGATAATAAATAAATAAACTGAAGTCGTGATCATAAATCAATGAGGTTTAAAAA
27843448 TGAT
131 TGAT
* * * ** *
27843452 AGTCGTGATCGTAAATCAGCGAAC-AGTTTAAGTGGA-T-ATACGATCATAAATCGGTGAAGTCT
1 AGTCGTGAACATAAATCAACGAACTA-TTTAAGTGGAGTCAT--GATCATAAATCGGCAAACTCT
** *
27843514 TGATGAACTGTTCATGATCTTAAATAAATGAACTGAAG-CAGTGATCATAAAT
63 TGATGAACTGTTCATGATAATAAATAAATAAACTGAAGTC-GTGATCATAAAT
27843566 TAGCATGACA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
132 2 0.02
133 3 0.03
134 89 0.95
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.30
Consensus pattern (134 bp):
AGTCGTGAACATAAATCAACGAACTATTTAAGTGGAGTCATGATCATAAATCGGCAAACTCTTGA
TGAACTGTTCATGATAATAAATAAATAAACTGAAGTCGTGATCATAAATCAATGAGGTTTAAAAA
TGAT
Found at i:27843625 original size:123 final size:123
Alignment explanation
Indices: 27843447--27843670 Score: 279
Period size: 123 Copynumber: 1.8 Consensus size: 123
27843437 AGGTTTAAAA
* * * * * * *
27843447 ATGATAGTCGTGATCGTAAATCAGCGAACAGTTTAAGTGGATATACGATCATAAATCGGTGAAGT
1 ATGACAGTCGTGATCGTAAATCAGCAAACAGTTTAAGTGGATACACAAACATAAATCAGTGAACT
*
27843512 CTTGATGAACTGTTCATGATCTTAAATAAATGAACTGAAGCAGTGATCATAAATTAGC
66 CTTGATGAACTGTTCATGATCGTAAATAAATGAACTGAAGCAGTGATCATAAATTAGC
* * * *
27843570 ATGACAGTCGTGATCGTAAATTAGCAAACTGTTTAAGTGGAGT-CACAAACGTAAATTAGTGAAC
1 ATGACAGTCGTGATCGTAAATCAGCAAACAGTTTAAGTGGA-TACACAAACATAAATCAGTGAAC
* * * * *
27843634 TCTTTATTAAGTGTTCATGATCGTAAATCAATTAACT
65 TCTTGATGAACTGTTCATGATCGTAAATAAATGAACT
27843671 CAAGTTGTGA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
123 82 0.99
124 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (123 bp):
ATGACAGTCGTGATCGTAAATCAGCAAACAGTTTAAGTGGATACACAAACATAAATCAGTGAACT
CTTGATGAACTGTTCATGATCGTAAATAAATGAACTGAAGCAGTGATCATAAATTAGC
Found at i:27843729 original size:36 final size:38
Alignment explanation
Indices: 27843667--27843765 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 38
27843657 TAAATCAATT
* * * *
27843667 AACTCAAGTTGTGATCGTAAACCAACAAGCT-TT-AAA
1 AACTAAAGTCGTGATCGTAAATCAACAAACTGTTAAAA
27843703 AA-TGAAAGTCGTGATCGTAAATCAACAAACTGTTAAAA
1 AACT-AAAGTCGTGATCGTAAATCAACAAACTGTTAAAA
*
27843741 AACTAATGGTCGTGATCGTAAATCA
1 AACTAA-AGTCGTGATCGTAAATCA
27843766 GTGGTTCGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
35 1 0.02
36 25 0.47
37 2 0.04
38 7 0.13
39 18 0.34
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (38 bp):
AACTAAAGTCGTGATCGTAAATCAACAAACTGTTAAAA
Found at i:27843780 original size:39 final size:39
Alignment explanation
Indices: 27843710--27844575 Score: 321
Period size: 39 Copynumber: 22.4 Consensus size: 39
27843700 AAAAATGAAA
* * * * *
27843710 GTCGTGATCGTAAATCAACAAACTGTTAAAAAA-CTAATG
1 GTCGTGATCGTAAATCAATAGACCG-TAAAAAAGCCAAAG
* * ** *
27843749 GTCGTGATCGTAAATCAGTGGTTCGTAAAAAAGCCAAAA
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
*
27843788 GTCGTGATCGTAAATCAATAGACCGTAAGAAAGCCAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* ** * * * *
27843827 GTCGTGATCGTAAATTAGCAAACAGTAAGAAAGCTAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
27843866 GTC-T--T-G---ATC-AT-GAACCGTAAAAAAGCCAAAG
1 GTCGTGATCGTAAATCAATAG-ACCGTAAAAAAGCCAAAG
* * * * * *
27843897 GCCGTGATCGTAAATCAATAGACCATGAGAAAGTCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* ** * * ***
27843936 GTCGTGATCATAAATCAGCAGACCATAAGAAAGTTGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * * * ***
27843975 GTCGTCACCATAAATAAATAGACCATAGGAAAA-TTGAAG
1 GTCGTGATCGTAAATCAATAGACCGTA-AAAAAGCCAAAG
* ** * * * *
27844014 GTCATGATCGTAAATCAACGGACTGTAAGAAAGTCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * *** * * * * *
27844053 GTCATGATCATAAATTAGCGGATCATAAGAAAGTCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
** * *
27844092 GTCGTGATCGTAAATCAACGGATCC-TAAGAAAGCCGAAG
1 GTCGTGATCGTAAATCAATAGA-CCGTAAAAAAGCCAAAG
* * *** *
27844131 GTCGTGATTGTAAATCAATGGACCGTGGGAAAGCCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * *
27844170 GGCATGATC-TCAAATCAATAGTCCGTAAGAAAGCCGAAG
1 GTCGTGATCGT-AAATCAATAGACCGTAAAAAAGCCAAAG
* * * * * * * * * *
27844209 ATCATGATCGTAAATTAGTGGGCCATAAGAAAGCCGACG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * * *
27844248 TTCATGATCATAAATTAACATACCGTAAGAAAA--CAGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAA-AAAAGCCA-AAG
* * * * *
27844287 GTCGTGATCATAAATCAGTGGACTGTAAGAAAGCCAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * *** * **
27844326 GTAGTGATCATAAATCAACAGATTTTAAGAAAGTTAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * *
27844365 GTCATGATCGTGATTCAGT-GAACCGTAAGAAAGCCAAAG
1 GTCGTGATCGTAAATCAATAG-ACCGTAAAAAAGCCAAAG
* * * * *
27844404 GTCATGATCATAAATCAA-AGAACTGTAAGAAAGTCAAAG
1 GTCGTGATCGTAAATCAATAG-ACCGTAAAAAAGCCAAAG
* * *** * *
27844443 GTTGTGATCGTGAATCAGCGGACCGTAAGAAATCCAAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * *
27844482 GTCATGATCGTAAATCAATGGACC-TAAGAAAGCCGAAG
1 GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
* * * * *
27844520 GTCGTGATCGTGAATCAA-CGAATCGTAAGAAAGCTAAAG
1 GTCGTGATCGTAAATCAATAG-ACCGTAAAAAAGCCAAAG
* *
27844559 GTCATGATCATAAATCA
1 GTCGTGATCGTAAATCA
27844576 GCGAACCGTG
Statistics
Matches: 639, Mismatches: 162, Indels: 52
0.75 0.19 0.06
Matches are distributed among these distances:
31 17 0.03
32 3 0.00
34 1 0.00
35 2 0.00
36 1 0.00
37 1 0.00
38 52 0.08
39 550 0.86
40 12 0.02
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (39 bp):
GTCGTGATCGTAAATCAATAGACCGTAAAAAAGCCAAAG
Found at i:27843860 original size:78 final size:78
Alignment explanation
Indices: 27843714--27844575 Score: 488
Period size: 78 Copynumber: 11.2 Consensus size: 78
27843704 ATGAAAGTCG
* * * * * **
27843714 TGATCGTAAATCAACAAACTGTTAA-AAAACTAATGGTCGTGATCGTAAATCAGTGGTTC-GTAA
1 TGATCGTAAATCAACAGACCG-TAAGAAAGCCAAAGGTCGTGATCGTAAATCAGT-GAACAGTAA
* * *
27843777 AAAAGCCAAAAGTCG
64 GAAAGCCAAAGGTCA
* * **
27843792 TGATCGTAAATCAATAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATTAGCAAACAGTAAGA
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAGA
*
27843857 AAGCTAAAGGTC-
66 AAGCCAAAGGTCA
** * * * * *
27843869 T--T-G---ATCATGA-ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAATAGACCA-TGAG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGT-GAACAGTAAG
* * *
27843926 AAAGTCGAAGGTCG
65 AAAGCCAAAGGTCA
* * * *** * * * * * * *
27843940 TGATCATAAATCAGCAGACCATAAGAAAGTTGAAGGTCGTCACCATAAATAAATAGACCA-TAGG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGT-GAACAGTAAG
****
27844004 AAAATTGAAGGTCA
65 AAAGCCAAAGGTCA
* * * * * * * * *
27844018 TGATCGTAAATCAACGGACTGTAAGAAAGTCGAAGGTCATGATCATAAATTAGCGGATCA-TAAG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAG-TGAACAGTAAG
* * *
27844082 AAAGTCGAAGGTCG
65 AAAGCCAAAGGTCA
* * * * * * **
27844096 TGATCGTAAATCAACGGATCC-TAAGAAAGCCGAAGGTCGTGATTGTAAATCAATGGACCGTGGG
1 TGATCGTAAATCAACAGA-CCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAG
* *
27844160 AAAGCCGAAGGGCA
65 AAAGCCAAAGGTCA
* * * * * * **
27844174 TGATC-TCAAATCAATAGTCCGTAAGAAAGCCGAAGATCATGATCGTAAATTAGTGGGCCA-TAA
1 TGATCGT-AAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGT-GAACAGTAA
* * *
27844237 GAAAGCCGACGTTCA
64 GAAAGCCAAAGGTCA
* * * * * * *
27844252 TGATCATAAATTAACATACCGTAAGAAA-ACAGAAGGTCGTGATCATAAATCAGTGGACTGTAAG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCA-AAGGTCGTGATCGTAAATCAGTGAACAGTAAG
27844316 AAAGCCAAAGGT-A
65 AAAGCCAAAGGTCA
* *** ** * * * *
27844329 GTGATCATAAATCAACAGATTTTAAGAAAGTTAAAGGTCATGATCGTGATTCAGTGAACCGTAAG
1 -TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAG
27844394 AAAGCCAAAGGTCA
65 AAAGCCAAAGGTCA
* * * * * * * *
27844408 TGATCATAAATCAA-AGAACTGTAAGAAAGTCAAAGGTTGTGATCGTGAATCAGCGGACCGTAAG
1 TGATCGTAAATCAACAG-ACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAG
*
27844472 AAATCCAAAGGTCA
65 AAAGCCAAAGGTCA
** * * **
27844486 TGATCGTAAATCAATGGACC-TAAGAAAGCCGAAGGTCGTGATCGTGAATCAACGAATC-GTAAG
1 TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAA-CAGTAAG
*
27844549 AAAGCTAAAGGTCA
65 AAAGCCAAAGGTCA
*
27844563 TGATCATAAATCA
1 TGATCGTAAATCA
27844576 GCGAACCGTG
Statistics
Matches: 617, Mismatches: 141, Indels: 53
0.76 0.17 0.07
Matches are distributed among these distances:
70 45 0.07
71 9 0.01
73 1 0.00
74 1 0.00
75 1 0.00
77 82 0.13
78 470 0.76
79 8 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (78 bp):
TGATCGTAAATCAACAGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCAGTGAACAGTAAGA
AAGCCAAAGGTCA
Found at i:27843874 original size:117 final size:117
Alignment explanation
Indices: 27843710--27844576 Score: 521
Period size: 117 Copynumber: 7.5 Consensus size: 117
27843700 AAAAATGAAA
* * * * * * **
27843710 GTCGTGATCGTAAATCAACAAACTGTTAA-AAAACTAATGGTCGTGATCGTAAATCAGTGGTTCG
1 GTCGTGATCATAAATCAGCAAACAG-TAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCG
* * * *
27843774 TAAAAAAGCCAAAAGTCGTGATCGTAAATCAATAGACCGTAAGAAAGCCAAAG
65 TAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * * *
27843827 GTCGTGATCGTAAATTAGCAAACAGTAAGAAAGCTAAAGGTC----T--T-GATCA-TGAACCGT
1 GTCGTGATCATAAATCAGCAAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCGT
* * * * * *
27843884 AAAAAAGCCAAAGGCCGTGATCGTAAATCAATAGACCATGAGAAAGTCGAAG
66 AAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * * * * * * * *
27843936 GTCGTGATCATAAATCAGCAGACCA-TAAGAAAGTTGAAGGTCGTCACCATAAATAAATAGACCA
1 GTCGTGATCATAAATCAGCA-AACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCG
* **** ** * *
27844000 TAGGAAAATTGAAGGTCATGATCGTAAATCAACGGACTGTAAGAAAGTCGAAG
65 TAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * * * * * **
27844053 GTCATGATCATAAATTAGCGGATCA-TAAGAAAG-TCGAAGGTCGTGATCGTAAATCAACGGATC
1 GTCGTGATCATAAATCAGC-AAACAGTAAGAAAGCT-AAAGGTCGTGATCATAAATCAGTGGA-C
* * * * **
27844116 C-TAAGAAAGCCGAAGGTCGTGATTGTAAATCAATGGACCGTGGGAAAGCCGAAG
63 CGTAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * ** ** * ** * * * * * *
27844170 GGCATGATC-TCAAATCAATAGTCCGTAAGAAAGCCGAAGATCATGATCGTAAATTAGTGGGCCA
1 GTCGTGATCAT-AAATCAGCAAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCG
* * * * * * * * *
27844234 TAAGAAAGCCGACGTTCATGATCATAAATTAACATACCGTAAGAAAACAGAAG
65 TAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
*** * * * *** ***
27844287 GTCGTGATCATAAATCAGTGGACTGTAAGAAAGCCAAAGGTAGTGATCATAAATCAACAGATTTT
1 GTCGTGATCATAAATCAGCAAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCGT
** * * * *
27844352 AAGAAAGTTAAAGGTCATGATCGTGATTCAGT-GAACCGTAAGAAAGCCAAAG
66 AAGAAAGCCAAAGGTCATGATCGTAAATCAATAG-ACCGTAAGAAAGCCGAAG
* * * * * * *
27844404 GTCATGATCATAAATCA-AAGAACTGTAAGAAAG-TCAAAGGTTGTGATCGTGAATCAGCGGACC
1 GTCGTGATCATAAATCAGCA-AACAGTAAGAAAGCT-AAAGGTCGTGATCATAAATCAGTGGACC
* *
27844467 GTAAGAAATCCAAAGGTCATGATCGTAAATCAATGGACC-TAAGAAAGCCGAAG
64 GTAAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
* * * * *
27844520 GTCGTGATCGTGAATCAACGAATC-GTAAGAAAGCTAAAGGTCATGATCATAAATCAG
1 GTCGTGATCATAAATCAGC-AAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAG
27844577 CGAACCGTGA
Statistics
Matches: 575, Mismatches: 150, Indels: 51
0.74 0.19 0.07
Matches are distributed among these distances:
109 84 0.15
110 7 0.01
111 1 0.00
113 1 0.00
115 1 0.00
116 66 0.11
117 410 0.71
118 5 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (117 bp):
GTCGTGATCATAAATCAGCAAACAGTAAGAAAGCTAAAGGTCGTGATCATAAATCAGTGGACCGT
AAGAAAGCCAAAGGTCATGATCGTAAATCAATAGACCGTAAGAAAGCCGAAG
Found at i:27843903 original size:109 final size:109
Alignment explanation
Indices: 27843772--27843977 Score: 297
Period size: 109 Copynumber: 1.9 Consensus size: 109
27843762 ATCAGTGGTT
* * *
27843772 CGTAAAAAAGCCAAAAGTCGTGATCGTAAATCAATAGACCGTAAGAAAGCCAAAGGTCGTGATCG
1 CGTAAAAAAGCCAAAAGCCGTGATCGTAAATCAATAGACCATAAGAAAGCCAAAGGTCGTGATCA
*
27843837 TAAATTAGCA-AACAGTAAGAAAGCTAAAGGTCTTGATCATGAAC
66 TAAATCAGCAGAACA-TAAGAAAGCTAAAGGTCTTGATCATGAAC
* * * *
27843881 CGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAATAGACCATGAGAAAGTCGAAGGTCGTGATCA
1 CGTAAAAAAGCCAAAAGCCGTGATCGTAAATCAATAGACCATAAGAAAGCCAAAGGTCGTGATCA
* * *
27843946 TAAATCAGCAGACCATAAGAAAGTTGAAGGTC
66 TAAATCAGCAGAACATAAGAAAGCTAAAGGTC
27843978 GTCACCATAA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 82 0.96
110 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.22, T:0.18
Consensus pattern (109 bp):
CGTAAAAAAGCCAAAAGCCGTGATCGTAAATCAATAGACCATAAGAAAGCCAAAGGTCGTGATCA
TAAATCAGCAGAACATAAGAAAGCTAAAGGTCTTGATCATGAAC
Found at i:27843928 original size:70 final size:70
Alignment explanation
Indices: 27843809--27843946 Score: 163
Period size: 70 Copynumber: 2.0 Consensus size: 70
27843799 AAATCAATAG
* * * * *
27843809 ACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATTAGCAAACAGTAAGAAAG-CTAAAGGTCTTGA
1 ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAACAAACAGTAAGAAAGTC-AAAGGTCGTGA
27843873 TCATGA
65 TCATGA
* * * *
27843879 ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAATAGACCA-TGAGAAAGTCGAAGGTCGTGA
1 ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAACA-AACAGTAAGAAAGTCAAAGGTCGTGA
27843943 TCAT
65 TCAT
27843947 AAATCAGCAG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
70 53 0.93
71 4 0.07
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (70 bp):
ACCGTAAAAAAGCCAAAGGCCGTGATCGTAAATCAACAAACAGTAAGAAAGTCAAAGGTCGTGAT
CATGA
Found at i:27850386 original size:19 final size:22
Alignment explanation
Indices: 27850348--27850387 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
27850338 TTTTGAATAA
27850348 AATATTATTATATGATTATTAT
1 AATATTATTATATGATTATTAT
27850370 AATA-TATTAT-T-ATTATTA
1 AATATTATTATATGATTATTA
27850388 ACTAATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 6 0.33
22 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (22 bp):
AATATTATTATATGATTATTAT
Found at i:27850421 original size:13 final size:14
Alignment explanation
Indices: 27850395--27850423 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27850385 TTAACTAATG
27850395 AATAAAAGGAATAA
1 AATAAAAGGAATAA
27850409 AATAAAA-GAATAA
1 AATAAAAGGAATAA
27850422 AA
1 AA
27850424 GAAACAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (14 bp):
AATAAAAGGAATAA
Found at i:27850434 original size:17 final size:17
Alignment explanation
Indices: 27850412--27850446 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
27850402 GGAATAAAAT
*
27850412 AAAAGAATAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
27850429 AAAAGAAGAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
27850446 A
1 A
27850447 GAGACCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Found at i:27853318 original size:188 final size:187
Alignment explanation
Indices: 27852996--27853375 Score: 645
Period size: 188 Copynumber: 2.0 Consensus size: 187
27852986 GTTTTGAAGG
*
27852996 GAATTTATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTAAAT
1 GAATTGATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTAAAT
* * *
27853061 GTACCCCCCGAGAAAGCTTGATCTGTGTTGTTTCTCTACTGCAAGGAGAAGCATATTTGTGGTGG
66 GTACCACCCGAGAAAGCTTGATCTGTGCTGTTTCTCTACTGCAAGGAGAAGCATATTTGCGGTGG
* *
27853126 GAATCTGTAA-TACGACATCTGCCTATAGAATAGGTGACATGAGACTTATTTCAAAAA
131 GAATCTGTAATTA-GACATCTGCCTACAGAACAGGTGACATGAGACTTATTTCAAAAA
27853183 GAATTGATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTAGAA
1 GAATTGATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTA-AA
* *
27853248 TGTACCACCCGAGAGAGCTTGATCTGTGCTGTTTCTCTACTGCAATGAGAAGCATATTTGCGGTG
65 TGTACCACCCGAGAAAGCTTGATCTGTGCTGTTTCTCTACTGCAAGGAGAAGCATATTTGCGGTG
* *
27853313 GGAATCTGTAATTAGACATTTGCCTACAGAACAGGTGACATGGGACTTATTTCAAAAA
130 GGAATCTGTAATTAGACATCTGCCTACAGAACAGGTGACATGAGACTTATTTCAAAAA
27853371 GAATT
1 GAATT
27853376 CCAGAAGAAA
Statistics
Matches: 181, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
187 61 0.34
188 118 0.65
189 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (187 bp):
GAATTGATCCATCCACTGCAGAGAAGTGGATGGAATCAACTAAACGAGTTCTGCAGCAATTAAAT
GTACCACCCGAGAAAGCTTGATCTGTGCTGTTTCTCTACTGCAAGGAGAAGCATATTTGCGGTGG
GAATCTGTAATTAGACATCTGCCTACAGAACAGGTGACATGAGACTTATTTCAAAAA
Found at i:27854279 original size:22 final size:21
Alignment explanation
Indices: 27854254--27854296 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
27854244 GAGTTGGGAA
*
27854254 AGTTAAAATCTGAAATGTCTAG
1 AGTTAAAAT-AGAAATGTCTAG
**
27854276 AGTTTTAATAGAAATGTCTAG
1 AGTTAAAATAGAAATGTCTAG
27854297 CCCTTTGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.35
Consensus pattern (21 bp):
AGTTAAAATAGAAATGTCTAG
Found at i:27857935 original size:19 final size:21
Alignment explanation
Indices: 27857896--27857940 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 21
27857886 TTTGTGAATA
27857896 AAATATTATTATATGATTATT
1 AAATATTATTATATGATTATT
27857917 ATAATA-TATTAT-T-ATTATT
1 A-AATATTATTATATGATTATT
27857936 AAATA
1 AAATA
27857941 ATGAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 7 0.30
20 1 0.04
21 7 0.30
22 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AAATATTATTATATGATTATT
Found at i:27859069 original size:23 final size:24
Alignment explanation
Indices: 27859042--27859135 Score: 149
Period size: 23 Copynumber: 4.0 Consensus size: 24
27859032 GGCTTTGCCA
*
27859042 ATCAGGCACTTTATATGTCGTA-C
1 ATCAGGCACTTTATGTGTCGTATC
27859065 ATCAGGCACTTTATGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTATC
*
27859089 -TCAGGCACTTTATGTGTCATATC
1 ATCAGGCACTTTATGTGTCGTATC
27859112 -TCAGGCACTTTATGTGTCGTATC
1 ATCAGGCACTTTATGTGTCGTATC
27859135 A
1 A
27859136 GGCACCTCGT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
23 65 0.98
24 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (24 bp):
ATCAGGCACTTTATGTGTCGTATC
Found at i:27859138 original size:21 final size:21
Alignment explanation
Indices: 27859042--27859170 Score: 143
Period size: 23 Copynumber: 5.9 Consensus size: 21
27859032 GGCTTTGCCA
*
27859042 ATCAGGCACTTTATATGTCGT
1 ATCAGGCACTTTATGTGTCGT
27859063 ACATCAGGCACTTTATGTGTCGT
1 --ATCAGGCACTTTATGTGTCGT
*
27859086 ATCTCAGGCACTTTATGTGTCAT
1 A--TCAGGCACTTTATGTGTCGT
27859109 ATCTCAGGCACTTTATGTGTCGT
1 A--TCAGGCACTTTATGTGTCGT
* **
27859132 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
*
27859153 TTCAGGCAC-TTATGTGTC
1 ATCAGGCACTTTATGTGTC
27859171 ATATACTGAT
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
20 7 0.07
21 26 0.27
23 62 0.65
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:27862268 original size:111 final size:110
Alignment explanation
Indices: 27862071--27862292 Score: 392
Period size: 111 Copynumber: 2.0 Consensus size: 110
27862061 TACCCAACGG
27862071 TCAAAAAAATAAAATACCGGGCCCATTTCGATAAATTTTAAAAATATAAGGCTTTTTTGGTATTT
1 TCAAAAAAATAAAATACCGGGCCCATTTCGATAAATTTTAAAAATATAAGGCTTTTTTGGTATTT
*
27862136 TGAAAAAATAAATTTTGAATCTTTTTGTACTTGTATTTATTCTTTT
66 TGAAAAAATAAATTTTAAATCTTTTTGTACTTGTATTTATT-TTTT
* *
27862182 TCAAAAAAATAAAATACTGGGCCTATTTCGATAAATTTTAAAAATAT-AGGACTTTTTTGGTATT
1 TCAAAAAAATAAAATACCGGGCCCATTTCGATAAATTTTAAAAATATAAGG-CTTTTTTGGTATT
27862246 TTGAAAAAATAAATTTTAAATCTTTTTGTACTTGTATTTATTTTTT
65 TTGAAAAAATAAATTTTAAATCTTTTTGTACTTGTATTTATTTTTT
27862292 T
1 T
27862293 AATCAATTAA
Statistics
Matches: 107, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
110 8 0.07
111 99 0.93
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (110 bp):
TCAAAAAAATAAAATACCGGGCCCATTTCGATAAATTTTAAAAATATAAGGCTTTTTTGGTATTT
TGAAAAAATAAATTTTAAATCTTTTTGTACTTGTATTTATTTTTT
Found at i:27864622 original size:29 final size:29
Alignment explanation
Indices: 27864580--27864745 Score: 228
Period size: 29 Copynumber: 5.8 Consensus size: 29
27864570 TGAACACGTC
*
27864580 AGAAAATGGAAGTCTTTGTGGCATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
*
27864609 AGAAAATGGAAGTCTTTGTGGCA-ATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
*
27864637 AGAAAATAGAAGCCTTTGTGGCATATCTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* *
27864666 AGAAAATGGAAGCCTTTGTGGAAAAT-TA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* * *
27864694 AGAAAATTGAAGCCTTTGTGGCTTATTTA
1 AGAAAATGGAAGCCTTTGTGGCATATCTA
* *
27864723 TGAAAATGAAAGCCTTTGTGGCA
1 AGAAAATGGAAGCCTTTGTGGCA
27864746 AATTTTGTAA
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
28 50 0.41
29 72 0.59
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (29 bp):
AGAAAATGGAAGCCTTTGTGGCATATCTA
Found at i:27864749 original size:57 final size:57
Alignment explanation
Indices: 27864580--27864749 Score: 243
Period size: 57 Copynumber: 3.0 Consensus size: 57
27864570 TGAACACGTC
* * *
27864580 AGAAAATGGAAGTCTTTGTGGCATATCTAAGAAAATGGAAGTCTTTGTGGC-AATCTA
1 AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAAT-TA
*
27864637 AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGAAAATTA
1 AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAATTA
* * * * *
27864694 AGAAAATTGAAGCCTTTGTGGCTTATTTATGAAAATGAAAGCCTTTGTGGCAAATT
1 AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAATT
27864750 TTGTAAAAGA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
57 99 0.97
58 3 0.03
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (57 bp):
AGAAAATAGAAGCCTTTGTGGCATATCTAAGAAAATGGAAGCCTTTGTGGCAAATTA
Found at i:27870345 original size:23 final size:22
Alignment explanation
Indices: 27870302--27870345 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
27870292 TTCTAAGTCG
27870302 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
27870325 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
27870346 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:27870555 original size:51 final size:50
Alignment explanation
Indices: 27870489--27870672 Score: 171
Period size: 51 Copynumber: 3.7 Consensus size: 50
27870479 TTGGTTCACA
* * * *
27870489 TAGTATCCTAAACATAGTACTACACATGTGACCATTACCATTCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCA-TACCATTCGGTACACG
* * * * *
27870540 TAGTAGCCTACACATAGTACTACACACGTGATCGAAACTA-TCTGGTACGCA
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATACCATTC-GGTACACG
* * * *
27870591 TAGTAGCCTACAC--A-TACTACACATGCGACC-TATCATTCCGGTAAACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATACCATT-CGGTACACG
*
27870638 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
27870673 CACTTTCACT
Statistics
Matches: 104, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
46 2 0.02
47 19 0.18
48 13 0.12
49 2 0.02
50 16 0.15
51 50 0.48
52 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATACCATTCGGTACACG
Found at i:27870856 original size:14 final size:15
Alignment explanation
Indices: 27870837--27870869 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
27870827 TTCTTTCTTG
27870837 ATTTATAACAA-TAC
1 ATTTATAACAATTAC
27870851 ATTTATAACAATTAC
1 ATTTATAACAATTAC
27870866 ATTT
1 ATTT
27870870 TTGCCCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
ATTTATAACAATTAC
Found at i:27876868 original size:9 final size:9
Alignment explanation
Indices: 27876854--27876902 Score: 89
Period size: 9 Copynumber: 5.4 Consensus size: 9
27876844 TTTAGTTAAA
27876854 AATTAACCG
1 AATTAACCG
27876863 AATTAACCG
1 AATTAACCG
*
27876872 AATTACCCG
1 AATTAACCG
27876881 AATTAACCG
1 AATTAACCG
27876890 AATTAACCG
1 AATTAACCG
27876899 AATT
1 AATT
27876903 GAATCACTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:27880715 original size:46 final size:48
Alignment explanation
Indices: 27880648--27880741 Score: 140
Period size: 46 Copynumber: 2.0 Consensus size: 48
27880638 TAGGAGAGTA
*
27880648 AAATTTTGAATGGAAAATATT-AAAAAAAATTGG-AGGGGGAGGGTTT
1 AAATTTTGAATGGAAAATATTAAAAAAAAATTGGAAAGGGGAGGGTTT
*
27880694 AAATTTTGGA-GGTAAAATATTAAAAAAAAATTGGAAAGGGGAGGGTTT
1 AAATTTTGAATGG-AAAATATTAAAAAAAAATTGGAAAGGGGAGGGTTT
27880742 GGGGTAGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
45 2 0.05
46 17 0.40
47 12 0.28
48 12 0.28
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (48 bp):
AAATTTTGAATGGAAAATATTAAAAAAAAATTGGAAAGGGGAGGGTTT
Found at i:27881097 original size:9 final size:9
Alignment explanation
Indices: 27881080--27881110 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27881070 TCGAGTTGAT
27881080 TCGAATAAC
1 TCGAATAAC
*
27881089 TCGATTAAC
1 TCGAATAAC
27881098 TCGAATAAC
1 TCGAATAAC
27881107 TCGA
1 TCGA
27881111 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:27881667 original size:27 final size:29
Alignment explanation
Indices: 27881637--27881691 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
27881627 AGTGGAGAAC
27881637 TAAAATAATT-TT-TTTTTATAAAATTGT
1 TAAAATAATTCTTCTTTTTATAAAATTGT
*
27881664 TAAAATGATTCTTCTTTTTATAAAATTG
1 TAAAATAATTCTTCTTTTTATAAAATTG
27881692 AAAGATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 9 0.36
28 2 0.08
29 14 0.56
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (29 bp):
TAAAATAATTCTTCTTTTTATAAAATTGT
Found at i:27882853 original size:37 final size:37
Alignment explanation
Indices: 27882803--27882912 Score: 130
Period size: 37 Copynumber: 3.0 Consensus size: 37
27882793 CCTGGAAGAT
* * * *
27882803 AAAAGACGGAGATGAACAATAATGATTCTTTGCAAAG
1 AAAACACGAAGATGAACAGTAATGATTCTCTGCAAAG
* * *
27882840 AAAACACGAAGATGAATAGCAATGATTCCCTGCAAAG
1 AAAACACGAAGATGAACAGTAATGATTCTCTGCAAAG
* * *
27882877 AAAATACGAAGATGAACAGTAATCATTCTCTACAAA
1 AAAACACGAAGATGAACAGTAATGATTCTCTGCAAA
27882913 AATTCTCTCA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (37 bp):
AAAACACGAAGATGAACAGTAATGATTCTCTGCAAAG
Found at i:27883682 original size:17 final size:17
Alignment explanation
Indices: 27883662--27883695 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27883652 GGGTCGGGAG
27883662 GGGAGGGGAGTAAAAGT
1 GGGAGGGGAGTAAAAGT
27883679 GGGAGGGGAGTAAAAGT
1 GGGAGGGGAGTAAAAGT
27883696 TTTGGGGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.53, T:0.12
Consensus pattern (17 bp):
GGGAGGGGAGTAAAAGT
Found at i:27883721 original size:30 final size:31
Alignment explanation
Indices: 27883673--27883739 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
27883663 GGAGGGGAGT
* *
27883673 AAAAGTGGGAGGGGAGTAAAAGTTTTGGGGG
1 AAAAGTGGGAGAGGAGTAAAAGTTTTGAGGG
*
27883704 GAAAGTGGGA-AGGAGTAAAAGTTTTGAGGG
1 AAAAGTGGGAGAGGAGTAAAAGTTTTGAGGG
27883734 AAAAGT
1 AAAAGT
27883740 AAAAAAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 23 0.72
31 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.19
Consensus pattern (31 bp):
AAAAGTGGGAGAGGAGTAAAAGTTTTGAGGG
Found at i:27883802 original size:9 final size:9
Alignment explanation
Indices: 27883788--27883824 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
27883778 TATAGTTTGA
27883788 TATTCGAAT
1 TATTCGAAT
27883797 TATTCGAAT
1 TATTCGAAT
*
27883806 TATTCGAGT
1 TATTCGAAT
27883815 TATTCGAAT
1 TATTCGAAT
27883824 T
1 T
27883825 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:27889855 original size:50 final size:51
Alignment explanation
Indices: 27889794--27889933 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 51
27889784 TATCATTCGA
* * *
27889794 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAA-CTTTTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCCTTCCGG
* *
27889844 TTCACGTAGTAGCCTGCACATAGTAC-ACACACGTGACCAAAGCCTTCCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCCTTCCGG
* * *
27889894 TACACATAGTAGCGTGT-ACATAGTACTACACATGTGACCA
1 TACACGTAGTAGCCT-TCACATAGTACTACACACGTGACCA
27889934 TTATCTATCG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 14 0.18
50 51 0.66
51 12 0.16
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCCTTCCGG
Found at i:27892775 original size:29 final size:29
Alignment explanation
Indices: 27892712--27892777 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
27892702 ACTTACACGC
*
27892712 CCGTGTGGCTCACACAATAGAGCACACAG
1 CCGTGTGGCTCACACAACAGAGCACACAG
* * *
27892741 CTGTGTGGCTCACACAGCAGAGCATAC-G
1 CCGTGTGGCTCACACAACAGAGCACACAG
27892769 ACCGTGTGG
1 -CCGTGTGG
27892778 TGTCGTGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.17
Consensus pattern (29 bp):
CCGTGTGGCTCACACAACAGAGCACACAG
Found at i:27897485 original size:12 final size:12
Alignment explanation
Indices: 27897468--27897500 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
27897458 GACGGGGTAC
27897468 TAGAGGCCGAGG
1 TAGAGGCCGAGG
27897480 TAGAGGCCGAGG
1 TAGAGGCCGAGG
27897492 TAGAGGCCG
1 TAGAGGCCG
27897501 TAGAGGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.18, G:0.48, T:0.09
Consensus pattern (12 bp):
TAGAGGCCGAGG
Found at i:27905521 original size:31 final size:30
Alignment explanation
Indices: 27905452--27905543 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 30
27905442 TTAACATCCT
* * *
27905452 AGTGACTTAAATAAAAACTTTTCAATAATTC
1 AGTGACTTAAATGAAAA-TTTTGAATAGTTC
27905483 AGTGACTTAAATGAAAATTTTAGAATAGTTC
1 AGTGACTTAAATGAAAATTTT-GAATAGTTC
**
27905514 AAG-GACTTGGATGAAAATTTTTGAATAGTT
1 -AGTGACTTAAATGAAAA-TTTTGAATAGTT
27905544 TAATGATCAT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 4 0.08
31 43 0.81
32 6 0.11
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (30 bp):
AGTGACTTAAATGAAAATTTTGAATAGTTC
Found at i:27909755 original size:93 final size:93
Alignment explanation
Indices: 27909581--27909755 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 93
27909571 TTTAGCCCCA
* * * *
27909581 TGCCATTAACATGATTAAAAAAAATCAACAACCAATCAGATCATACCATGTGTCCCTATTGACTG
1 TGCCATTAACAGGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
*
27909646 TTAATGTCATCAATGACTTTTTGGTCCC
66 TTAATGTCACCAATGACTTTTTGGTCCC
* * **
27909674 TGCCATTAATAGGGTTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCTTTATTGACTG
1 TGCCATTAACAGGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
* * *
27909739 TTGATGTGACCGATGAC
66 TTAATGTCACCAATGAC
27909756 GTGGTCGTGA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (93 bp):
TGCCATTAACAGGATTAAAAAAAATCAACAACCAATCAGAACACACCACGTGTCCCTATTGACTG
TTAATGTCACCAATGACTTTTTGGTCCC
Found at i:27909830 original size:21 final size:22
Alignment explanation
Indices: 27909804--27909859 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
27909794 TGACCAAACC
27909804 AAAAATATTGTAAAA-AT-TATT
1 AAAAATATTGTAAAACATAT-TT
27909825 -AAAA-ATTGTAAGAACATATTT
1 AAAAATATTGTAA-AACATATTT
27909846 AAAAATATT-TAAAA
1 AAAAATATTGTAAAA
27909860 TTGTAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
19 7 0.23
20 6 0.20
21 6 0.20
22 8 0.27
23 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (22 bp):
AAAAATATTGTAAAACATATTT
Found at i:27909855 original size:10 final size:10
Alignment explanation
Indices: 27909804--27909859 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
27909794 TGACCAAACC
27909804 AAAAATATTGT
1 AAAAATATT-T
27909815 AAAAAT-TATT
1 AAAAATAT-TT
*
27909825 AAAAAT-TGT
1 AAAAATATTT
27909834 AAGAACATATTT
1 AA-AA-ATATTT
27909846 AAAAATATTT
1 AAAAATATTT
27909856 AAAA
1 AAAA
27909860 TTGTAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 3 0.08
10 21 0.54
11 11 0.28
12 4 0.10
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (10 bp):
AAAAATATTT
Found at i:27909878 original size:17 final size:16
Alignment explanation
Indices: 27909856--27909906 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 16
27909846 AAAAATATTT
27909856 AAAATTGTAAAAAATA
1 AAAATTGTAAAAAATA
*
27909872 AACAATTG-AAAGTTAATA
1 AA-AATTGTAAA--AAATA
27909890 AAAATTGTAAAAGAATA
1 AAAATTGTAAAA-AATA
27909907 TTAAAAATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.18
17 14 0.50
18 9 0.32
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (16 bp):
AAAATTGTAAAAAATA
Found at i:27909913 original size:20 final size:20
Alignment explanation
Indices: 27909888--27910001 Score: 83
Period size: 20 Copynumber: 5.7 Consensus size: 20
27909878 TGAAAGTTAA
27909888 TAAAAATTGTAAAAGAATAT
1 TAAAAATTGTAAAAGAATAT
* *
27909908 TAAAAATGGTAAAA-AGTATT
1 TAAAAATTGTAAAAGAATA-T
*
27909928 TAAAAA-TGTAAAATAAATTAT
1 TAAAAATTGTAAAA-GAA-TAT
* * *
27909949 TAAAAATTATAAAACATTAT
1 TAAAAATTGTAAAAGAATAT
*
27909969 ATAAAATTTGT--AAGAATTAT
1 -TAAAAATTGTAAAAGAA-TAT
*
27909989 TAAAAATAGTAAA
1 TAAAAATTGTAAA
27910002 TTATTAACAA
Statistics
Matches: 72, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
19 20 0.28
20 26 0.36
21 18 0.25
22 8 0.11
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAAAATTGTAAAAGAATAT
Found at i:27909932 original size:40 final size:42
Alignment explanation
Indices: 27909887--27910001 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 42
27909877 TTGAAAGTTA
*
27909887 ATAAAAATTGTAAAAGAA-TATTAAAAATGGTAAAA-AGTAT
1 ATAAAAATTGTAAAAGAATTATTAAAAATAGTAAAACAGTAT
* * *
27909927 TTAAAAA-TGTAAAATAAATTATTAAAAATTA-TAAAACATTAT
1 ATAAAAATTGTAAAA-GAATTATTAAAAA-TAGTAAAACAGTAT
*
27909969 ATAAAATTTGT--AAGAATTATTAAAAATAGTAAA
1 ATAAAAATTGTAAAAGAATTATTAAAAATAGTAAA
27910002 TTATTAACAA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
39 9 0.15
40 24 0.39
41 16 0.26
42 10 0.16
43 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (42 bp):
ATAAAAATTGTAAAAGAATTATTAAAAATAGTAAAACAGTAT
Found at i:27909957 original size:10 final size:10
Alignment explanation
Indices: 27909942--27909995 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
27909932 AATGTAAAAT
27909942 AAATTATTAA
1 AAATTATTAA
27909952 AAATTA-TAA
1 AAATTATTAA
27909961 AACATTA-TATA
1 AA-ATTATTA-A
27909972 AAATT-TGTAA
1 AAATTAT-TAA
*
27909982 GAATTATTAA
1 AAATTATTAA
27909992 AAAT
1 AAAT
27909996 AGTAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 5 0.14
10 26 0.70
11 6 0.16
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
AAATTATTAA
Found at i:27915526 original size:5 final size:5
Alignment explanation
Indices: 27915516--27915551 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
27915506 GGCCGAATAT
27915516 AGAAA AGAAAA AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AG-AAA AGAAA AGAAA AGAAA AGAAA AGAAA
27915552 GGAGAACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:27916472 original size:42 final size:42
Alignment explanation
Indices: 27916413--27916503 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
27916403 GCTGGTGTGA
* *
27916413 TATATCAGGCTAAAAGCCTAGCAGGCGTATTGCCGGTGAATT
1 TATATCAAGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
27916455 TATATCAAGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
1 TATATCAAGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
*
27916497 TTTATCA
1 TATATCA
27916504 GGCTTGTGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
TATATCAAGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
Found at i:27918919 original size:43 final size:43
Alignment explanation
Indices: 27918861--27918983 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 43
27918851 TATAAGATAT
* * * *
27918861 TATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
* * * * *
27918904 TATTATAGGATATTATCTCTTAGCAGTTTCATTTCTAATGAGA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
* *
27918947 TATTATAAGAAATTATCTTTTAACAATTTGATTCCTA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTCCTA
27918984 TGTAACTACT
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (43 bp):
TATTATAAGATATTATCTTTTAGCAATTTGATTCCTAATGAGA
Found at i:27918942 original size:99 final size:99
Alignment explanation
Indices: 27918757--27918962 Score: 304
Period size: 99 Copynumber: 2.1 Consensus size: 99
27918747 GGGGTGTTAG
*
27918757 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATAAGATGTTATAGGACATTATC
1 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATAAGATATTATAGGACATTATC
** *
27918822 TCTTATTAATTTGATTCCTAATAAGATATTATAA
66 TCTTAGCAATTTCATTCCTAATAAGATATTATAA
* ** *
27918856 GATATTATTATGATATATTATCTTTTAGCATTTTGATTCCTAATGGGATATTATAGGATATTATC
1 GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATAAGATATTATAGGACATTATC
* * *
27918921 TCTTAGCAGTTTCATTTCTAATGAGATATTATAA
66 TCTTAGCAATTTCATTCCTAATAAGATATTATAA
*
27918955 GAAATTAT
1 GATATTAT
27918963 CTTTTAACAA
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 95 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (99 bp):
GATATTATTATGAGATATTATCTTTTAGCATTTTGATTCCTAATAAGATATTATAGGACATTATC
TCTTAGCAATTTCATTCCTAATAAGATATTATAA
Found at i:27919298 original size:20 final size:20
Alignment explanation
Indices: 27919275--27919312 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27919265 CGCAATTTCT
27919275 AATAATTTTTAAAATTTTTA
1 AATAATTTTTAAAATTTTTA
* *
27919295 AATATTTTTTACAATTTT
1 AATAATTTTTAAAATTTT
27919313 AATATTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
AATAATTTTTAAAATTTTTA
Found at i:27919375 original size:39 final size:35
Alignment explanation
Indices: 27919291--27919381 Score: 92
Period size: 38 Copynumber: 2.4 Consensus size: 35
27919281 TTTTAAAATT
*
27919291 TTTAAATATTTTTTACAATTTTAATATTTTCTATA
1 TTTAAATATTTTTTTCAATTTTAATATTTTCTATA
* * *
27919326 ATTAGTAATATATTTTTTCAATTTTATTAATTTTTTAGTTA
1 TTTA--AATAT-TTTTTTCAATTTTAAT-ATTTTCTA--TA
27919367 TTTAAATATTTTTTT
1 TTTAAATATTTTTTT
27919382 ATAAATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
35 3 0.07
37 5 0.11
38 20 0.44
39 12 0.27
41 5 0.11
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (35 bp):
TTTAAATATTTTTTTCAATTTTAATATTTTCTATA
Found at i:27924880 original size:13 final size:13
Alignment explanation
Indices: 27924862--27924886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27924852 TATTTTAATA
27924862 TTATTTTGTGTGT
1 TTATTTTGTGTGT
27924875 TTATTTTGTGTG
1 TTATTTTGTGTG
27924887 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:27936806 original size:15 final size:15
Alignment explanation
Indices: 27936785--27936831 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
27936775 TGAGCTGGTA
27936785 GAGCTGAAATTGAGCT
1 GAGCTGAAA-TGAGCT
27936801 -AGCTGAAAATGTA-CT
1 GAGCTG-AAATG-AGCT
27936816 GAGCTGAAATGAGCT
1 GAGCTGAAATGAGCT
27936831 G
1 G
27936832 GAAACGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
14 1 0.04
15 17 0.63
16 9 0.33
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (15 bp):
GAGCTGAAATGAGCT
Found at i:27943549 original size:41 final size:41
Alignment explanation
Indices: 27943499--27943644 Score: 204
Period size: 41 Copynumber: 3.6 Consensus size: 41
27943489 AGACTTTACA
* *
27943499 TCTAGCAGGCTAAGTGCCGGTGATTTGAAACAGGCTATAAG
1 TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
27943540 TCTAGCAGGCTAAGTGCCAGTGATCTGAATCAGGTTATAAA
1 TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
27943581 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
27943622 -CTTAGCAGGTTAAGTGCCTGTGA
1 TC-TAGCAGGCTAAGTGCCGGTGA
27943645 ATATGTTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 92 0.99
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (41 bp):
TCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:27947123 original size:61 final size:62
Alignment explanation
Indices: 27947058--27947261 Score: 243
Period size: 61 Copynumber: 3.3 Consensus size: 62
27947048 TACCTCTCCT
* *
27947058 GAGTTTTTCCACAAAGGCGTTCCTTAACATTTAGTACTCACTACAAAGGCTTTCCTGT-TAA
1 GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAA
** * * *
27947119 GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTTGCCATAAAGGCTTTCTTATCT-A
1 GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAA
* * * * * * * * *
27947180 GAATTTTTCCATAAAGTCGCTCCATAACATTGAGTACTCACTACAAAAGCTTTTTTGTCCAA
1 GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAA
27947242 -AGTTTTTCCACAAAGGCGTT
1 GAGTTTTTCCACAAAGGCGTT
27947262 TCTTCTCCTG
Statistics
Matches: 116, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
61 114 0.98
62 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (62 bp):
GAGTTTTTCCACAAAGGCGTTCCTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAA
Found at i:27947141 original size:29 final size:28
Alignment explanation
Indices: 27947058--27947143 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 28
27947048 TACCTCTCCT
27947058 GAGTTTTTCCACAAAGGCGTTCC-TTAA
1 GAGTTTTTCCACAAAGGCGTTCCTTTAA
* *
27947085 CA-TTTAGTACTCACTACAAAGGCTTTCCTGTTAA
1 GAGTTT--T--TC-C-ACAAAGGCGTTCCT-TTAA
27947119 GAGTTTTTCCACAAAGGCGTTCCTT
1 GAGTTTTTCCACAAAGGCGTTCCTT
27947144 AACATTCAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 2 0.04
29 13 0.28
30 3 0.07
31 3 0.07
32 12 0.26
33 1 0.02
34 5 0.11
35 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (28 bp):
GAGTTTTTCCACAAAGGCGTTCCTTTAA
Found at i:27947451 original size:53 final size:53
Alignment explanation
Indices: 27947380--27947485 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
27947370 TCCTTAAATT
* *
27947380 TTTCAATATGATGTCATAACCCACCAGTTACAATCTTACACGATATGGTCTTC
1 TTTCAATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
* ***
27947433 TTTCCATATGATGCCATAACCCACCAGTTATGGTCTTACACAATATGGTCTTC
1 TTTCAATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
27947486 AGTGCCATGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (53 bp):
TTTCAATATGATGCCATAACCCACCAGTTACAATCTTACACAATATGGTCTTC
Found at i:27947851 original size:202 final size:202
Alignment explanation
Indices: 27947505--27947887 Score: 721
Period size: 202 Copynumber: 1.9 Consensus size: 202
27947495 GCCATGGACC
27947505 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGACAGACAC
1 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGACAGACAC
* * *
27947570 GGACTCATCATGTATCGACTCACTCATGACAGGCATTCTTATGCCTACTAGGCACACATGCACTT
66 GGACTCATCATGTATCGACTCACTCATGACAGACATTCTCATGCCTACTAGACACACATGCACTT
27947635 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCATTCAGGCTCGTTCTTCCTA
131 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCATTCAGGCTCGTTCTTCCTA
27947700 TCAGACT
196 TCAGACT
*
27947707 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGATAGACAC
1 TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGACAGACAC
27947772 GGACTCATCATGTATCGACTCACTCATGACAGACATTCTCATGCCTACTAGACACACATGCACTT
66 GGACTCATCATGTATCGACTCACTCATGACAGACATTCTCATGCCTACTAGACACACATGCACTT
*
27947837 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATATTCATTCAG
131 CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCATTCAG
27947888 ATTCATAAGT
Statistics
Matches: 176, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
202 176 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (202 bp):
TGTCCTTTCAAAGATTAGTGTTTTTAGTCTTGACGGACCCTTTTGACCACTTCGAAGACAGACAC
GGACTCATCATGTATCGACTCACTCATGACAGACATTCTCATGCCTACTAGACACACATGCACTT
CCTATCAGACTCGTTCTTACTTTTAGACATAACCACACCATAGTCATTCAGGCTCGTTCTTCCTA
TCAGACT
Found at i:27952776 original size:51 final size:51
Alignment explanation
Indices: 27952716--27952955 Score: 230
Period size: 51 Copynumber: 4.7 Consensus size: 51
27952706 TAGGTCGTAT
* * *
27952716 ATAGTACTTTACATAATTAGTATGCATATAATTTGCATTCACAATTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAATTCACAC
* * * * * * * * *
27952767 ATATAACTTTACATAATCT-GTACGCACACACTTTACATTAATAGTTGACAT
1 ATAGAACTTTACATAAT-TAGTACGCATATACTTTGCATTCACAATTCACAC
* * * * *
27952818 ATAGAACTTTTCATAATTAGTACGTATATACTTTGCATTCATAGTTCACTC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAATTCACAC
* * ** * *
27952869 ATAAAACTTTACATAATTAGTGCAAATATGCTTTACATTCACAATTCACAC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAATTCACAC
* * *
27952920 ATAGAACTTTATATAATCAGTAAGCATATACTTTGC
1 ATAGAACTTTACATAATTAGTACGCATATACTTTGC
27952956 TTTGGAAGAC
Statistics
Matches: 146, Mismatches: 41, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
50 1 0.01
51 144 0.99
52 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (51 bp):
ATAGAACTTTACATAATTAGTACGCATATACTTTGCATTCACAATTCACAC
Found at i:27952903 original size:102 final size:101
Alignment explanation
Indices: 27952714--27952955 Score: 256
Period size: 102 Copynumber: 2.4 Consensus size: 101
27952704 GCTAGGTCGT
* * * * *
27952714 ATATAGTACTTTACATAATTAGTATGCATATAATTTGCATTCACAATTCACACATATAACTTTAC
1 ATATAGAACTTTTCATAATTAGTAAGCATATACTTTGCATTCACAATTCACACATAAAACTTTAC
* * * *
27952779 ATAATCTGTACGCACACACTTTACATTAATAGTTGAC
66 ATAATCTGTA-GCAAACACTTTACATTAACAATTCAC
* * * * *
27952816 ATATAGAACTTTTCATAATTAGTACGTATATACTTTGCATTCATAGTTCACTCATAAAACTTTAC
1 ATATAGAACTTTTCATAATTAGTAAGCATATACTTTGCATTCACAATTCACACATAAAACTTTAC
* *
27952881 ATAAT-TAGT-GCAAATATGCTTTACATTCACAATTCAC
66 ATAATCT-GTAGCAAACA--CTTTACATTAACAATTCAC
* *
27952918 ACATAGAACTTTAT-ATAATCAGTAAGCATATACTTTGC
1 ATATAGAACTTT-TCATAATTAGTAAGCATATACTTTGC
27952956 TTTGGAAGAC
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
100 5 0.04
101 1 0.01
102 110 0.94
103 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (101 bp):
ATATAGAACTTTTCATAATTAGTAAGCATATACTTTGCATTCACAATTCACACATAAAACTTTAC
ATAATCTGTAGCAAACACTTTACATTAACAATTCAC
Found at i:27957105 original size:7 final size:7
Alignment explanation
Indices: 27957095--27957121 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
27957085 AATTGAGAGA
27957095 TGTGTGT
1 TGTGTGT
27957102 TGTGTGT
1 TGTGTGT
27957109 TGTGTGT
1 TGTGTGT
27957116 TGTGTG
1 TGTGTG
27957122 AAATGAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.44, T:0.56
Consensus pattern (7 bp):
TGTGTGT
Found at i:27957546 original size:30 final size:30
Alignment explanation
Indices: 27957512--27957574 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
27957502 ACTTAACAAG
27957512 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
27957542 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTTAAAATAATAACAAAATTAA
27957572 CAA
1 CAA
27957575 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAACAAAATTAA
Found at i:27964693 original size:18 final size:18
Alignment explanation
Indices: 27964672--27964712 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
27964662 TCTTCTTCAG
27964672 CAACAACTTCCGCTTCGA
1 CAACAACTTCCGCTTCGA
* **
27964690 CAACAGCTTCTTCTTCGA
1 CAACAACTTCCGCTTCGA
27964708 CAACA
1 CAACA
27964713 TCAATTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.24
Consensus pattern (18 bp):
CAACAACTTCCGCTTCGA
Found at i:27971204 original size:15 final size:15
Alignment explanation
Indices: 27971184--27971212 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27971174 GATGTTAGCT
27971184 CCCAAATATTAATTG
1 CCCAAATATTAATTG
27971199 CCCAAATATTAATT
1 CCCAAATATTAATT
27971213 TCCAATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.34
Consensus pattern (15 bp):
CCCAAATATTAATTG
Found at i:27973159 original size:12 final size:12
Alignment explanation
Indices: 27973142--27973166 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27973132 TGAATGTTTT
27973142 GCTGTTGTATCG
1 GCTGTTGTATCG
27973154 GCTGTTGTATCG
1 GCTGTTGTATCG
27973166 G
1 G
27973167 GGTATGGCTA
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:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (12 bp):
GCTGTTGTATCG
Found at i:27979086 original size:5 final size:5
Alignment explanation
Indices: 27979076--27979102 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
27979066 ATATCCTAAG
27979076 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
27979103 GATCCCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:27980901 original size:50 final size:50
Alignment explanation
Indices: 27980829--27981083 Score: 221
Period size: 50 Copynumber: 5.1 Consensus size: 50
27980819 AAAGTGAAAG
*
27980829 TGAT-GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAA
1 TGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAA
* * * * ** *
27980878 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTATTATGCATACCGGAA
1 TGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAA
* * * * * * *
27980928 AGCTTCGATCATGTGTGTAGTACTATGTGCAGGCTACCACGTGTATTGGATA
1 TG-ATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGA-A
* * * * *
27980980 TTA-ATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGAAA
1 TGATA-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAA
* * * * *
27981030 AGTTTGAG-CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGAA
1 TGATAG-GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAA
27981079 TGATA
1 TGATA
27981084 ATAGTTAAAT
Statistics
Matches: 155, Mismatches: 45, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
49 8 0.05
50 73 0.47
51 73 0.47
52 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (50 bp):
TGATAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGAA
Found at i:27980950 original size:101 final size:99
Alignment explanation
Indices: 27980836--27981110 Score: 295
Period size: 101 Copynumber: 2.7 Consensus size: 99
27980826 AAGTGATGGT
* *
27980836 CACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGAATGATA-GGTCGCATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TGGAATGATATGGTCACATGTGTAGTAC
* * *
27980900 TATGTGCAGGCTATTA-TGCATACCGGAAAGCTTCGAT
65 TATGTGCAGGCTACTACTG-A-ACCGAAAAG-TTCGAG
* * * * **
27980937 CATGTGTGTAGTACTATGTGCAGGCTACCACGTGTATTGGATATTA-ATGGTCATGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TGGA-ATGATATGGTCACATGTGTAGTA
*
27981001 CTATGTGCAGGCTACTACGTGAACCGAAAAGTTTGAG
64 CTATGTGCAGGCTACTAC-TGAACCGAAAAGTTCGAG
* * * * * *
27981038 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTTAAATGAGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGGAATGAT-ATGGTCACATGTGTAGTAC
27981103 TATGTGCA
65 TATGTGCA
27981111 AACCACCGAA
Statistics
Matches: 145, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
99 3 0.02
100 3 0.02
101 96 0.66
102 40 0.28
103 1 0.01
104 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (99 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATGGAATGATATGGTCACATGTGTAGTACT
ATGTGCAGGCTACTACTGAACCGAAAAGTTCGAG
Found at i:27984744 original size:40 final size:40
Alignment explanation
Indices: 27984686--27984808 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
27984676 CACCAGACAG
* *
27984686 AAGCTCATAAGAGTTGGTCCACCCGAAATATGCCAAAAAA
1 AAGCTCATAAGAGCTGGTCCACCCGAAACATGCCAAAAAA
* * *
27984726 AAGCTCATAAGAGCTGGTCCACCCGAAACATTCC-AATAG
1 AAGCTCATAAGAGCTGGTCCACCCGAAACATGCCAAAAAA
* *
27984765 AAGCTCAT-AGTTGCTGATCCACCCGAAACATGCCAAAAAGA
1 AAGCTCATAAG-AGCTGGTCCACCCGAAACATGCCAAAAA-A
27984806 AAG
1 AAG
27984809 TATAACGCGA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.03
39 31 0.44
40 34 0.49
41 3 0.04
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (40 bp):
AAGCTCATAAGAGCTGGTCCACCCGAAACATGCCAAAAAA
Found at i:27984786 original size:39 final size:39
Alignment explanation
Indices: 27984686--27984803 Score: 139
Period size: 39 Copynumber: 3.0 Consensus size: 39
27984676 CACCAGACAG
* * *
27984686 AAGCTCATAAGAGTTGGTCCACCCGAAATATGCCAAAAAA
1 AAGCTCATAAGAGCTGATCCACCCGAAACATGCC-AAAAA
* * * *
27984726 AAGCTCATAAGAGCTGGTCCACCCGAAACATTCCAATAG
1 AAGCTCATAAGAGCTGATCCACCCGAAACATGCCAAAAA
*
27984765 AAGCTCAT-AGTTGCTGATCCACCCGAAACATGCCAAAAA
1 AAGCTCATAAG-AGCTGATCCACCCGAAACATGCCAAAAA
27984804 GAAAGTATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.03
39 34 0.51
40 31 0.46
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (39 bp):
AAGCTCATAAGAGCTGATCCACCCGAAACATGCCAAAAA
Done.