Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008921.1 Hibiscus syriacus cultivar Beakdansim tig00112225_pilon, whole genome shotgun sequence
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: 578760
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 2 of 3
Found at i:303970 original size:17 final size:17
Alignment explanation
Indices: 303948--303981 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
303938 GATAATTGCA
303948 GTTAGGGATGATTTCTT
1 GTTAGGGATGATTTCTT
303965 GTTAGGGATGATTTCTT
1 GTTAGGGATGATTTCTT
303982 CTTTTACATT
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:0.18, C:0.06, G:0.29, T:0.47
Consensus pattern (17 bp):
GTTAGGGATGATTTCTT
Found at i:307057 original size:24 final size:23
Alignment explanation
Indices: 307006--307059 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
306996 GGCTATTTCA
*
307006 AAATTTATGTTTTTTTAAATATAT
1 AAATTT-TATTTTTTTAAATATAT
*
307030 -AATTTTATTTTTTTAATTTATAT
1 AAATTTTATTTTTTTAA-ATATAT
307053 AAATTTT
1 AAATTTT
307060 TTAAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 10 0.38
23 10 0.38
24 6 0.23
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
AAATTTTATTTTTTTAAATATAT
Found at i:313021 original size:24 final size:24
Alignment explanation
Indices: 312989--313037 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
312979 CTGAAAAGGT
*
312989 TGTATTATATCCTTCTCCATCAAG
1 TGTACTATATCCTTCTCCATCAAG
313013 TGTACTATATCCTTCTCCATCAAG
1 TGTACTATATCCTTCTCCATCAAG
313037 T
1 T
313038 TGTCCTACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (24 bp):
TGTACTATATCCTTCTCCATCAAG
Found at i:313436 original size:15 final size:15
Alignment explanation
Indices: 313416--313447 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
313406 AAAATCTTTC
*
313416 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
313431 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
313446 TT
1 TT
313448 CGATCTGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:314220 original size:17 final size:18
Alignment explanation
Indices: 314198--314235 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
314188 ATCACCGACC
314198 AAATTTTACTATTCACA-
1 AAATTTTACTATTCACAT
314215 AAA-TTTACTATTCACAT
1 AAATTTTACTATTCACAT
314232 AAAT
1 AAAT
314236 AATAACCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTTACTATTCACAT
Found at i:316274 original size:28 final size:28
Alignment explanation
Indices: 316234--316301 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
316224 GACCACGTAG
*
316234 ATGTCCCGAAGGACCACATATAACACAT
1 ATGTCCCAAAGGACCACATATAACACAT
*
316262 ATGTCCCAAAGGACCACGTATAACACAT
1 ATGTCCCAAAGGACCACATATAACACAT
316290 ATGTCCCGAAAG
1 ATGTCCC-AAAG
316302 ATCACTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 33 0.89
29 4 0.11
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (28 bp):
ATGTCCCAAAGGACCACATATAACACAT
Found at i:316442 original size:15 final size:16
Alignment explanation
Indices: 316411--316462 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
316401 CATTACACAT
316411 TCACATA-TTCA--TA
1 TCACATAGTTCATTTA
316424 TCACATAGTTC-TTTA
1 TCACATAGTTCATTTA
316439 TCACAT--TTCATTTGA
1 TCACATAGTTCATTT-A
316454 TCACATAGT
1 TCACATAGT
316463 CACGTAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.31
14 6 0.19
15 15 0.47
17 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (16 bp):
TCACATAGTTCATTTA
Found at i:317138 original size:20 final size:20
Alignment explanation
Indices: 317113--317150 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
317103 TTTCCATTGA
*
317113 AGTGCATCGGTGCATTCTAC
1 AGTGCATCGATGCATTCTAC
317133 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
317151 TTAACAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:320612 original size:21 final size:21
Alignment explanation
Indices: 320586--320625 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
320576 CAGAACCCCA
*
320586 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
320607 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
320626 TCAAAGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:320658 original size:21 final size:21
Alignment explanation
Indices: 320607--320669 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
320597 ATTCCCCTGT
320607 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
* *
320630 AGGAGGAATCGGTTCCCTCAA
1 GGGGGGAATCGGTTCCCTCAA
*
320651 GGGGGGAATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
320670 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 20 0.57
22 3 0.09
23 12 0.34
ACGTcount: A:0.21, C:0.25, G:0.33, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:326888 original size:19 final size:19
Alignment explanation
Indices: 326864--326935 Score: 135
Period size: 19 Copynumber: 3.8 Consensus size: 19
326854 TTTTAAGGGG
*
326864 ATGCATTGATGCACTCCTC
1 ATGCATCGATGCACTCCTC
326883 ATGCATCGATGCACTCCTC
1 ATGCATCGATGCACTCCTC
326902 ATGCATCGATGCACTCCTC
1 ATGCATCGATGCACTCCTC
326921 ATGCATCGATGCACT
1 ATGCATCGATGCACT
326936 AACTGTACTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTC
Found at i:328612 original size:60 final size:60
Alignment explanation
Indices: 328539--328690 Score: 191
Period size: 60 Copynumber: 2.5 Consensus size: 60
328529 GCATCATATG
** * *
328539 TCCTCAAACTATGACCCTCATT-TCAAATTAGTCCTT-AAGTTTTTAAACATTCTAATTTCA
1 TCCTCAAACTATGAATCTCATTCT-AAATTAGTCCTTCAA-CTTTTAAACATTCCAATTTCA
* * * *
328599 TTCTCAAACTATGAATCTCATTCTAGATTAATCCTTCAACTTTTGAACATTCCAATTTCA
1 TCCTCAAACTATGAATCTCATTCTAAATTAGTCCTTCAACTTTTAAACATTCCAATTTCA
*
328659 TCCCCAAACTATGAATCTCATTCTAAATTAGT
1 TCCTCAAACTATGAATCTCATTCTAAATTAGT
328691 TTTTAAACAT
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
60 75 0.96
61 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (60 bp):
TCCTCAAACTATGAATCTCATTCTAAATTAGTCCTTCAACTTTTAAACATTCCAATTTCA
Found at i:328622 original size:31 final size:31
Alignment explanation
Indices: 328586--328684 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
328576 AGTTTTTAAA
*
328586 CATTCTAATTTCATTCTCAAACTATGAATCT
1 CATTCTAATTTCATCCTCAAACTATGAATCT
* *
328617 CATTCTAGA-TTAATCCTTC-AACTTTTGAA---
1 CATTCTA-ATTTCATCC-TCAAAC-TATGAATCT
* *
328646 CATTCCAATTTCATCCCCAAACTATGAATCT
1 CATTCTAATTTCATCCTCAAACTATGAATCT
328677 CATTCTAA
1 CATTCTAA
328685 ATTAGTTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
28 7 0.13
29 15 0.29
31 22 0.42
32 8 0.15
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.38
Consensus pattern (31 bp):
CATTCTAATTTCATCCTCAAACTATGAATCT
Found at i:329861 original size:3 final size:3
Alignment explanation
Indices: 329853--329892 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
329843 AACCCTTTAC
* * *
329853 TCT TCT TCT TCT TCT TCT CCT TCT CCT TCT CCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
329893 GTATTACACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:329870 original size:12 final size:12
Alignment explanation
Indices: 329853--329892 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
329843 AACCCTTTAC
*
329853 TCTTCTTCTTCT
1 TCTTCTCCTTCT
329865 TCTTCTCCTTCT
1 TCTTCTCCTTCT
*
329877 CCTTCTCCTTCT
1 TCTTCTCCTTCT
329889 TCTT
1 TCTT
329893 GTATTACACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTTCTCCTTCT
Found at i:330492 original size:13 final size:13
Alignment explanation
Indices: 330474--330499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
330464 CTGCTTTAGC
330474 ATGATGATTGAGT
1 ATGATGATTGAGT
330487 ATGATGATTGAGT
1 ATGATGATTGAGT
330500 GTCCATTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (13 bp):
ATGATGATTGAGT
Found at i:331163 original size:14 final size:14
Alignment explanation
Indices: 331144--331173 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
331134 TACTTTTAAG
331144 TTTTAATAATATAT
1 TTTTAATAATATAT
331158 TTTTAATAATATAT
1 TTTTAATAATATAT
331172 TT
1 TT
331174 AACCAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAATAATATAT
Found at i:334070 original size:40 final size:39
Alignment explanation
Indices: 334001--334078 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 39
333991 ATTAGAGAGG
334001 TTCTAGAAAATTCTAGAGCTATATGGAGAAGTGTAGAATT
1 TTCTAGAAAATTCTAGAGCTATA-GGAGAAGTGTAGAATT
* *
334041 TTCTAGAACATTCTAGAGAACTCTA-GAGAAGTGTAGAA
1 TTCTAGAAAATTCTAGAG--CTATAGGAGAAGTGTAGAA
334079 CTCACTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 30 0.88
42 4 0.12
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (39 bp):
TTCTAGAAAATTCTAGAGCTATAGGAGAAGTGTAGAATT
Found at i:335074 original size:40 final size:41
Alignment explanation
Indices: 335029--335107 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
335019 ATCAAACAAC
335029 AATGTGATTTG-AAATCTACGAAAGATAAAAGAGATCTTAT
1 AATGTGATTTGAAAATCTACGAAAGATAAAAGAGATCTTAT
*
335069 AATGTGATTTGAAAATCTATGAAAGATAAAAGAGATCTT
1 AATGTGATTTGAAAATCTACGAAAGATAAAAGAGATCTT
335108 TCTGTGATAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 11 0.30
41 26 0.70
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (41 bp):
AATGTGATTTGAAAATCTACGAAAGATAAAAGAGATCTTAT
Found at i:336330 original size:235 final size:237
Alignment explanation
Indices: 335912--336373 Score: 840
Period size: 235 Copynumber: 2.0 Consensus size: 237
335902 ATCGATTGAA
*
335912 CCAAAAATAAAAAAGGATCCGAGAGAGCGAAACATATCAGAATACGTATGAGTACAAAACAAGTG
1 CCAAAAATAAAAAAGGATCCGAGAGAGCGAAACATATCAGAATACGTACGAGTACAAAACAAGTG
335977 AGTACCAGGGAATTGGAGCTCCACAAAGTCCTCGAAGCTGCTTCCAGGGAGACGAGTGATGAACG
66 AGTACCAGGGAATTGGAGCTCCACAAAGTCCTCGAAGCTGCTTCCAGGGAGACGAGTGATGAACG
* *
336042 GCGGTGACTGGCTTCAGGCGAGAGCAGCAATCAGAACTGCAATCCATGATGAACAGAACTAGAAT
131 GCGGTGACTGGCTTCAGGCGAGAGAAGCAATCAGAACTGCAATCCACGATGAACAGAACTAGAAT
336107 GAT-AAAAA-AGAGAAGCAT-ATGAGAATATTTAGAATGTAGG
196 GATAAAAAAGAGAGAAGCATAAT-AGAATATTTAGAATGTAGG
336147 CCAAAAATAAAAAAGGATCCGAGAGAGCGAAACATATCAGAATACGTACGAGTACAAAACAAGTG
1 CCAAAAATAAAAAAGGATCCGAGAGAGCGAAACATATCAGAATACGTACGAGTACAAAACAAGTG
*
336212 AGTAGCAGGGAATTGGAGCTCCACAAAGTCCTCGAAGCTGCTTCCAGGGAGACGAGTGATGAACG
66 AGTACCAGGGAATTGGAGCTCCACAAAGTCCTCGAAGCTGCTTCCAGGGAGACGAGTGATGAACG
* *
336277 GCGGTGACTGGCTTCAGTCGAGAGAAGCAATCGGAACTGCAATCCACGATGAACAGAACTAGAAT
131 GCGGTGACTGGCTTCAGGCGAGAGAAGCAATCAGAACTGCAATCCACGATGAACAGAACTAGAAT
336342 GATAAAAAAGAGAGAAGCATAATAGAATATTT
196 GATAAAAAAGAGAGAAGCATAATAGAATATTT
336374 TTGAGACGAG
Statistics
Matches: 218, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
235 192 0.88
236 5 0.02
237 19 0.09
238 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (237 bp):
CCAAAAATAAAAAAGGATCCGAGAGAGCGAAACATATCAGAATACGTACGAGTACAAAACAAGTG
AGTACCAGGGAATTGGAGCTCCACAAAGTCCTCGAAGCTGCTTCCAGGGAGACGAGTGATGAACG
GCGGTGACTGGCTTCAGGCGAGAGAAGCAATCAGAACTGCAATCCACGATGAACAGAACTAGAAT
GATAAAAAAGAGAGAAGCATAATAGAATATTTAGAATGTAGG
Found at i:339301 original size:60 final size:59
Alignment explanation
Indices: 339227--339373 Score: 172
Period size: 60 Copynumber: 2.4 Consensus size: 59
339217 AACATAATGA
* *
339227 ATAGTCGAGTGACCATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACT-TCAT
1 ATAGTCGAG-GACCATTTTGTAACTTTTAATAGTCAAAGGACTCAACAAAGCAA-TATCAT
* * * *
339287 ATAGTCGATGGACCATTTTGTAACTTTTAATTGTCAAATGACTCAATAAAGCAATATCTT
1 ATAGTCGA-GGACCATTTTGTAACTTTTAATAGTCAAAGGACTCAACAAAGCAATATCAT
*
339347 ATAGTCAGGGGACCATTTGTGT-ACTTT
1 ATAGTC-GAGGACCATTT-TGTAACTTT
339374 ACCCTATATT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 70 0.92
61 5 0.07
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (59 bp):
ATAGTCGAGGACCATTTTGTAACTTTTAATAGTCAAAGGACTCAACAAAGCAATATCAT
Found at i:349487 original size:58 final size:60
Alignment explanation
Indices: 349397--349526 Score: 210
Period size: 61 Copynumber: 2.2 Consensus size: 60
349387 GTTTTATCTG
*
349397 ATGTGGCACGTTACCTTTCGCTAACCCTTCTTA-T-TCCTCTTATTCTTCACGGGATATA
1 ATGTGTCACGTTACCTTTCGCTAACCCTTCTTATTCTCCTCTTATTCTTCACGGGATATA
* *
349455 ATGTGTCATGTTACCTTTCGCTAACCCTTCTTATTCCTCCTCTTCTTCTTCACGGGATATA
1 ATGTGTCACGTTACCTTTCGCTAACCCTTCTTATT-CTCCTCTTATTCTTCACGGGATATA
349516 ATGTGTCACGT
1 ATGTGTCACGT
349527 CAGACAAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
58 31 0.48
59 1 0.02
61 33 0.51
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.41
Consensus pattern (60 bp):
ATGTGTCACGTTACCTTTCGCTAACCCTTCTTATTCTCCTCTTATTCTTCACGGGATATA
Found at i:359193 original size:255 final size:255
Alignment explanation
Indices: 358737--359247 Score: 864
Period size: 255 Copynumber: 2.0 Consensus size: 255
358727 GATGGTAGAT
358737 TCAATGCAAGAGTGAAATGGGATTTGACTGACAATCTTACTGTGAAGGCTAATGCTCAGGCAAAT
1 TCAATGCAAGAGTGAAATGGGATTTGACTGACAATCTTACTGTGAAGGCTAATGCTCAGGCAAAT
358802 ATTCTTTTCTTCTTCAAGCTTTGGTTTTCACATTTGCAGGCATAACTAATGGTTTTTCATATATA
66 ATTCTTTTCTTCTTCAAGCTTTGGTTTTCACATTTGCAGGCATAACTAATGGTTTTTCATATATA
* * *
358867 AACTAGTCGATAACCTTTTTTTTTTGTTCCAGCTCACAAATGAGCCCCATATGTCACTTGGCATG
131 AACTAGTCGATAACCCTTTATTTTTGTTCCAGCTCACAAATGAGCCCCATATGTCACATGGCATG
*
358932 TTCAACTTTGGTTACAAGGTCAGTCACTCTTAAACTAGTTTATATCTTGACTAGTTAGGTC
196 TTCAACTTTGATTACAAGGTCAGTCACTCTTAAACTAG-TTATATCTTGACTAGTTAGGTC
* *
358993 TCAA-GCAAGAGTGAAATGGGATTTGACTGATAATCTTACTGTGAAGGCTAATGCTCAGGTAAAT
1 TCAATGCAAGAGTGAAATGGGATTTGACTGACAATCTTACTGTGAAGGCTAATGCTCAGGCAAAT
* * * *
359057 ATTCTTTTCTTCTTCAAG-TTTTGTTTTTACATTTGCAGGCGTAACTAATGGTTTTTCATTTATA
66 ATTCTTTTCTTCTTCAAGCTTTGGTTTTCACATTTGCAGGCATAACTAATGGTTTTTCATATATA
* *
359121 AGCTAGTCGATAACCCCTTTATTTTTGTTCCAGCTCACAAATGAGCTCCATATGTCACATGGCAT
131 AACTAGTCGATAA-CCCTTTATTTTTGTTCCAGCTCACAAATGAGCCCCATATGTCACATGGCAT
* *
359186 GTTCAACTTTGATTACAAGGTCAGTCACTCTTAAACTAGTTATATTTTGACTAGTTGGGTC
195 GTTCAACTTTGATTACAAGGTCAGTCACTCTTAAACTAGTTATATCTTGACTAGTTAGGTC
359247 T
1 T
359248 GGGTTGTGTC
Statistics
Matches: 240, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
254 75 0.31
255 161 0.67
256 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (255 bp):
TCAATGCAAGAGTGAAATGGGATTTGACTGACAATCTTACTGTGAAGGCTAATGCTCAGGCAAAT
ATTCTTTTCTTCTTCAAGCTTTGGTTTTCACATTTGCAGGCATAACTAATGGTTTTTCATATATA
AACTAGTCGATAACCCTTTATTTTTGTTCCAGCTCACAAATGAGCCCCATATGTCACATGGCATG
TTCAACTTTGATTACAAGGTCAGTCACTCTTAAACTAGTTATATCTTGACTAGTTAGGTC
Found at i:361983 original size:159 final size:159
Alignment explanation
Indices: 361740--362035 Score: 520
Period size: 159 Copynumber: 1.9 Consensus size: 159
361730 TGAAACAATT
*
361740 GTCTTCATCTACTAAGCCGAATCCAACCCCTAAGCCAACTCTATCCTCTCTGCCTTCTAGTTCGA
1 GTCTTCATCTACTAAGCCGAATCCAACCCCTAAGCCAACACTATCCTCTCTGCCTTCTAGTTCGA
* *
361805 CCACACGACAAGGGGAAGGAATGTACAAGCTGGGCGATCCGAAGGATAAATTACCTATTTACATG
66 CCACACAACAAGGGAAAGGAATGTACAAGCTGGGCGATCCGAAGGATAAATTACCTATTTACATG
361870 ATTCCAGCCGTACCGACCCCAAAACTGTC
131 ATTCCAGCCGTACCGACCCCAAAACTGTC
* * *
361899 GTCTTCATCTACTAAGCTGAATCCATCCCTTAAGCCAACACTATCCTCTCTGCCTTCTAGTTCGA
1 GTCTTCATCTACTAAGCCGAATCCAACCCCTAAGCCAACACTATCCTCTCTGCCTTCTAGTTCGA
* *
361964 CCACACAACAAGGGAAAGGAATGTACAAGTTGGTCGATCCGAAGGATAAATTACCTATTTACATG
66 CCACACAACAAGGGAAAGGAATGTACAAGCTGGGCGATCCGAAGGATAAATTACCTATTTACATG
362029 ATTCCAG
131 ATTCCAG
362036 AGGACATCAA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
159 129 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (159 bp):
GTCTTCATCTACTAAGCCGAATCCAACCCCTAAGCCAACACTATCCTCTCTGCCTTCTAGTTCGA
CCACACAACAAGGGAAAGGAATGTACAAGCTGGGCGATCCGAAGGATAAATTACCTATTTACATG
ATTCCAGCCGTACCGACCCCAAAACTGTC
Found at i:369514 original size:16 final size:16
Alignment explanation
Indices: 369493--369526 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
369483 TTACTATTCA
*
369493 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
369509 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
369525 CG
1 CG
369527 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:370294 original size:15 final size:16
Alignment explanation
Indices: 370276--370308 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
370266 GTGGCAGATC
370276 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
*
370291 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
370307 AA
1 AA
370309 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:376414 original size:41 final size:40
Alignment explanation
Indices: 376369--376452 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 40
376359 ATATTAATAA
* *
376369 TTAATATTTTTGTGTCGTCTTATTTTCTTTAACTTT-TTTTT
1 TTAATATTTTTGTATCATCTTATTTTCTTT--CTTTGTTTTT
* *
376410 TTAATATTTTTGTATTATCTTCTTTTCTTTCTTTGTTTTT
1 TTAATATTTTTGTATCATCTTATTTTCTTTCTTTGTTTTT
376450 TTA
1 TTA
376453 TTTAGTCTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.11
40 8 0.21
41 26 0.68
ACGTcount: A:0.14, C:0.10, G:0.06, T:0.70
Consensus pattern (40 bp):
TTAATATTTTTGTATCATCTTATTTTCTTTCTTTGTTTTT
Found at i:380426 original size:60 final size:60
Alignment explanation
Indices: 380350--380487 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 60
380340 TAAAGAACAT
* * * *
380350 AAATGGTCCCCTGACTAT-AAGGTATTGTTTTATTAAGTCACTCAACTATTAAAAGTTATG
1 AAATGGTCACTTGACTATGAA-GTATTGCTTTATTAAGTCACTCAACTATTAAAAGTTATA
* * * *
380410 AAATGGTC-CTTCGACTATGAAGTGTTGCTTTGTTAAGTCCCTCGACTATTAAAAGTTATA
1 AAATGGTCACTT-GACTATGAAGTATTGCTTTATTAAGTCACTCAACTATTAAAAGTTATA
*
380470 AAATTGTCACTTGACTAT
1 AAATGGTCACTTGACTAT
380488 TCATTATGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 2 0.03
60 60 0.90
61 5 0.07
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (60 bp):
AAATGGTCACTTGACTATGAAGTATTGCTTTATTAAGTCACTCAACTATTAAAAGTTATA
Found at i:381615 original size:54 final size:54
Alignment explanation
Indices: 381532--381699 Score: 300
Period size: 54 Copynumber: 3.1 Consensus size: 54
381522 TAGGTACATA
*
381532 TAACACTACATATATGTGTACAACCGAGCCAAAGGATATTCAGGTCACGATCTC
1 TAACACTACATATATGTGTACAACCGAGCCAAACGATATTCAGGTCACGATCTC
* *
381586 TAACACTACATATATGTGTACAACTGAGCCAAACGATATTCAGGTCATGATCTC
1 TAACACTACATATATGTGTACAACCGAGCCAAACGATATTCAGGTCACGATCTC
*
381640 TAACACTACATATATGTGTAGAACCGAGCCAAACGATATTCAGGTCACGATCTC
1 TAACACTACATATATGTGTACAACCGAGCCAAACGATATTCAGGTCACGATCTC
381694 TAACAC
1 TAACAC
381700 ATATGATCAG
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (54 bp):
TAACACTACATATATGTGTACAACCGAGCCAAACGATATTCAGGTCACGATCTC
Found at i:384313 original size:48 final size:48
Alignment explanation
Indices: 384261--384377 Score: 209
Period size: 48 Copynumber: 2.4 Consensus size: 48
384251 GCATACATAT
384261 TCAGAA-CTAGAAGAGTCATCAACCGGTAGTGGGCTTTCGCATATGTAA
1 TCAGAATC-AGAAGAGTCATCAACCGGTAGTGGGCTTTCGCATATGTAA
384309 TCAGAATCAGAAGAGTCATCAACCGGTAGTGGGCTTTCGCATATGTAA
1 TCAGAATCAGAAGAGTCATCAACCGGTAGTGGGCTTTCGCATATGTAA
*
384357 TCGGAATCAGAAGAGTCATCA
1 TCAGAATCAGAAGAGTCATCA
384378 GAAGAACTAC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
48 66 0.99
49 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (48 bp):
TCAGAATCAGAAGAGTCATCAACCGGTAGTGGGCTTTCGCATATGTAA
Found at i:385734 original size:58 final size:58
Alignment explanation
Indices: 385664--385777 Score: 201
Period size: 58 Copynumber: 2.0 Consensus size: 58
385654 ATAATTAAAA
**
385664 TTAGAAAGTAATTCTGGTAATAAATTATTATATGTAATTAAACCATCCAATCCATCAT
1 TTAGAAAGTAATTCTGACAATAAATTATTATATGTAATTAAACCATCCAATCCATCAT
*
385722 TTAGAAAGTAATTCTGACAATAAATTATTTTATGTAATTAAACCATCCAATCCATC
1 TTAGAAAGTAATTCTGACAATAAATTATTATATGTAATTAAACCATCCAATCCATC
385778 GTTAAGAGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (58 bp):
TTAGAAAGTAATTCTGACAATAAATTATTATATGTAATTAAACCATCCAATCCATCAT
Found at i:386265 original size:31 final size:32
Alignment explanation
Indices: 386228--386314 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 32
386218 GGAAGATCTG
386228 AAAGTTTAGGGACTAATTTAGAATGAGATTC-
1 AAAGTTTAGGGACTAATTTAGAATGAGATTCA
* *
386259 ATAGTTT-GAGGA-TGAAATTAGAAT----TTCA
1 AAAGTTTAG-GGACT-AATTTAGAATGAGATTCA
*
386287 AAAGTTTAAGGACTAATTTAGAATGAGA
1 AAAGTTTAGGGACTAATTTAGAATGAGA
386315 GTCACCGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 17
0.66 0.08 0.27
Matches are distributed among these distances:
27 3 0.07
28 18 0.43
29 1 0.02
30 2 0.05
31 18 0.43
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (32 bp):
AAAGTTTAGGGACTAATTTAGAATGAGATTCA
Found at i:387925 original size:20 final size:20
Alignment explanation
Indices: 387900--387938 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
387890 AAAATTAAAA
*
387900 AAAAAATAAAGAA-ACAATAT
1 AAAAAAGAAA-AAGACAATAT
387920 AAAAAAGAAAAAGACAATA
1 AAAAAAGAAAAAGACAATA
387939 AGCAATCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.77, C:0.05, G:0.08, T:0.10
Consensus pattern (20 bp):
AAAAAAGAAAAAGACAATAT
Found at i:398487 original size:50 final size:50
Alignment explanation
Indices: 398366--398520 Score: 220
Period size: 50 Copynumber: 3.0 Consensus size: 50
398356 GGAGAATGCT
* * * *
398366 TGTCTTGTTGGTTTTGTAAGTTCTATGACCATTTAACTTTATTTATTCAAA
1 TGTCTTGTTGGCTTTGTAAGTTCTA-CACCATTTAGCTTTATTTATTCACA
*
398417 TGTGTCTTGTTGGCTTTGTAAGTTCTACAGCATTTAGCTTTATTTATTCACA
1 --TGTCTTGTTGGCTTTGTAAGTTCTACACCATTTAGCTTTATTTATTCACA
*
398469 TGTCTTGTTGGCTTTGTAAGTTCTTCGACCATTTAGCTTTATTTATTCACA
1 TGTCTTGTTGGCTTTGTAAGTTCTAC-ACCATTTAGCTTTATTTATTCACA
398520 T
1 T
398521 ATAGAAAAGT
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
50 25 0.27
51 24 0.26
52 21 0.22
53 24 0.26
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (50 bp):
TGTCTTGTTGGCTTTGTAAGTTCTACACCATTTAGCTTTATTTATTCACA
Found at i:401382 original size:29 final size:29
Alignment explanation
Indices: 401350--401407 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
401340 ACGATCCCTG
* * *
401350 AGGTTTCAGTCTCCCTTTGATGAGCTGAA
1 AGGTTTCAGCCCCCCTTGGATGAGCTGAA
*
401379 AGGTTTCAGCCCCCCTTGGATTAGCTGAA
1 AGGTTTCAGCCCCCCTTGGATGAGCTGAA
401408 CTATCAGTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.31
Consensus pattern (29 bp):
AGGTTTCAGCCCCCCTTGGATGAGCTGAA
Found at i:406086 original size:18 final size:19
Alignment explanation
Indices: 406052--406087 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
406042 ATGCAATCTT
406052 TAAATATTATGAAATAATG
1 TAAATATTATGAAATAATG
*
406071 TAAATTTTAT-AAATAAT
1 TAAATATTATGAAATAAT
406088 TATAAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (19 bp):
TAAATATTATGAAATAATG
Found at i:406093 original size:19 final size:19
Alignment explanation
Indices: 406052--406093 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
406042 ATGCAATCTT
*
406052 TAAATATTATGAAATAATG
1 TAAATATTATGAAATAATA
*
406071 TAAATTTTAT-AAATAATTA
1 TAAATATTATGAAATAA-TA
406090 TAAA
1 TAAA
406094 AAGATCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
TAAATATTATGAAATAATA
Found at i:415176 original size:16 final size:16
Alignment explanation
Indices: 415155--415186 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
415145 ACTATACTTT
*
415155 TAAACAAGTTTTGACC
1 TAAACAAGCTTTGACC
415171 TAAACAAGCTTTGACC
1 TAAACAAGCTTTGACC
415187 ATAATTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (16 bp):
TAAACAAGCTTTGACC
Found at i:415291 original size:20 final size:18
Alignment explanation
Indices: 415241--415295 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
415231 AGTTTTTCAA
* *
415241 AAAGTTTTGATACTTTTC
1 AAAGTTTTGAAACTTTCC
*
415259 AAGAGTTTCGAAACTTTCCC
1 AA-AGTTTTGAAACTTT-CC
415279 TAAAGTTTTGAAACTTT
1 -AAAGTTTTGAAACTTT
415296 GTGTGCAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 12 0.40
20 14 0.47
21 2 0.07
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (18 bp):
AAAGTTTTGAAACTTTCC
Found at i:423382 original size:7 final size:8
Alignment explanation
Indices: 423353--423379 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
423343 TAAAAATTTT
423353 ATTTAAAA
1 ATTTAAAA
423361 ATTTAAAA
1 ATTTAAAA
423369 ATTTAAAA
1 ATTTAAAA
423377 ATT
1 ATT
423380 AAATATATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATTTAAAA
Found at i:423782 original size:25 final size:24
Alignment explanation
Indices: 423740--423792 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
423730 AGAGGTTTTG
* *
423740 TTTTTTTATTTAAGATAAATTAATAT
1 TTTTTTTATTAAAAAT-AA-TAATAT
423766 TTTTTTTA-TAAAAATAATAATAT
1 TTTTTTTATTAAAAATAATAATAT
423789 TTTT
1 TTTT
423793 AATATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 2 0.08
25 5 0.20
26 8 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTTTTTATTAAAAATAATAATAT
Found at i:424109 original size:16 final size:16
Alignment explanation
Indices: 424088--424134 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
424078 GAAGAAAGCA
424088 ATTGAAATTAAATATT
1 ATTGAAATTAAATATT
424104 ATTGAAATTAAATATT
1 ATTGAAATTAAATATT
*
424120 ATTAAAATTAAATAT
1 ATTGAAATTAAATAT
424135 AACTAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
ATTGAAATTAAATATT
Found at i:429956 original size:20 final size:20
Alignment explanation
Indices: 429931--430004 Score: 130
Period size: 20 Copynumber: 3.7 Consensus size: 20
429921 CTATTCCTTA
429931 GTAATCTTACATTCCCACTG
1 GTAATCTTACATTCCCACTG
*
429951 GTAATCTTACATTCCCACGG
1 GTAATCTTACATTCCCACTG
*
429971 GTAATCTTACATTCCCATTG
1 GTAATCTTACATTCCCACTG
429991 GTAATCTTACATTC
1 GTAATCTTACATTC
430005 TGTGAACCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.26, C:0.27, G:0.11, T:0.36
Consensus pattern (20 bp):
GTAATCTTACATTCCCACTG
Found at i:433324 original size:16 final size:16
Alignment explanation
Indices: 433303--433364 Score: 106
Period size: 16 Copynumber: 3.9 Consensus size: 16
433293 TTATTAAGCG
433303 CTGAATGATTCAAATA
1 CTGAATGATTCAAATA
*
433319 CTGAATGATTCAAATG
1 CTGAATGATTCAAATA
*
433335 CTAAATGATTCAAATA
1 CTGAATGATTCAAATA
433351 CTGAATGATTCAAA
1 CTGAATGATTCAAA
433365 AGCTTTGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (16 bp):
CTGAATGATTCAAATA
Found at i:433460 original size:23 final size:23
Alignment explanation
Indices: 433415--433479 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
433405 ATATCTGGCT
* * *
433415 CTGAATGATTCAGCTACTGTTTTG
1 CTGAATCAGTCAGC-ACTGTTTTA
433439 CTGAATCAGTCAGCACTGTTTTA
1 CTGAATCAGTCAGCACTGTTTTA
*
433462 CTGAATCAGTCAACACTG
1 CTGAATCAGTCAGCACTG
433480 AATCATTCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 25 0.68
24 12 0.32
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (23 bp):
CTGAATCAGTCAGCACTGTTTTA
Found at i:434854 original size:63 final size:63
Alignment explanation
Indices: 434755--434915 Score: 225
Period size: 63 Copynumber: 2.6 Consensus size: 63
434745 TCGTTGTTGT
* ** *
434755 GCCACCGGGACTACGCA-CGGGCGAAAATAGATAATCGTACACTGGCGGTTGATACGAGTAAGG
1 GCCACCGGGACTACGCATC-GGAGAAGGTGGATAATCGTACACTGGCGGTTGATACGAGTAAGG
* * *
434818 GCCACCGGGACTACGCATCGGAGAAGGTGGATAATCGTACACTTGCGGTTGATATGAGTAAGT
1 GCCACCGGGACTACGCATCGGAGAAGGTGGATAATCGTACACTGGCGGTTGATACGAGTAAGG
* *
434881 GCCACCAGGACTAGGCATCGGAGAAGGTGGATAAT
1 GCCACCGGGACTACGCATCGGAGAAGGTGGATAAT
434916 GATGCATTTG
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
63 87 0.99
64 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.18
Consensus pattern (63 bp):
GCCACCGGGACTACGCATCGGAGAAGGTGGATAATCGTACACTGGCGGTTGATACGAGTAAGG
Found at i:436380 original size:24 final size:26
Alignment explanation
Indices: 436326--436381 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
436316 TTTATTCGGT
*
436326 TTATTTAGTAGGAATGTAAAATTACA
1 TTATTTAGTAGGAATGTAAAATAACA
* * *
436352 ATATTTAGTCGG-ATG-AAAATAAGA
1 TTATTTAGTAGGAATGTAAAATAACA
436376 TTATTT
1 TTATTT
436382 GGATTTATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 12 0.48
25 3 0.12
26 10 0.40
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (26 bp):
TTATTTAGTAGGAATGTAAAATAACA
Found at i:440889 original size:13 final size:13
Alignment explanation
Indices: 440873--440899 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
440863 CCCAATTAAA
440873 TATTTTATATATT
1 TATTTTATATATT
440886 TATTTTATATATT
1 TATTTTATATATT
440899 T
1 T
440900 TTAAAGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTTATATATT
Found at i:442026 original size:64 final size:64
Alignment explanation
Indices: 441929--442069 Score: 162
Period size: 64 Copynumber: 2.2 Consensus size: 64
441919 CATATTTAAT
* * *
441929 GTGCATCGATGCA-CTCTTTAAAGAAGAAACATCGAATGCAATTGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCATCCCCTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCAT-AGGTA
* * * * *
441992 GTGCATCGATGCATCCCCTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCATCCCCTTAAAGAAG-AAACATCGAAGGCAATTGGTGCATCGATGCATAGGTA
*
442056 GTGTATCGATGCAT
1 GTGCATCGATGCAT
442070 AAGGAGTGCA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
63 17 0.26
64 49 0.74
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCATCCCCTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAGGTA
Found at i:442061 original size:19 final size:19
Alignment explanation
Indices: 442037--442088 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
442027 AAGGTAATTT
*
442037 GTGTATCGATGCAT-GGGTA
1 GTGTATCGATGCATAAGG-A
442056 GTGTATCGATGCATAAGGA
1 GTGTATCGATGCATAAGGA
*
442075 GTGCATCGATGCAT
1 GTGTATCGATGCAT
442089 CCCCTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (19 bp):
GTGTATCGATGCATAAGGA
Found at i:442072 original size:83 final size:83
Alignment explanation
Indices: 441973--442151 Score: 349
Period size: 83 Copynumber: 2.2 Consensus size: 83
441963 AATGCAATTG
441973 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTAATTTG
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTAATTTG
442038 TGTATCGATGCATGGGTA
66 TGTATCGATGCATGGGTA
*
442056 GTGTATCGATGCATAAGGAGTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTAATTTG
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTAATTTG
442121 TGTATCGATGCATGGGTA
66 TGTATCGATGCATGGGTA
442139 GTGCATCGATGCA
1 GTGCATCGATGCA
442152 CTGTAGAATG
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (83 bp):
GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTAATTTG
TGTATCGATGCATGGGTA
Found at i:445943 original size:21 final size:21
Alignment explanation
Indices: 445917--445961 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
445907 GATTGCTGGG
* *
445917 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
445938 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
445959 CAA
1 CAA
445962 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:447662 original size:45 final size:45
Alignment explanation
Indices: 447598--447687 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
447588 TATGGACATC
447598 ATTCTACGGGCACTACGGTGCAATTCTAC-GGGCACTTCGGTGCA
1 ATTCTACGGGCACTACGGTGCAATTCTACGGGGCACTTCGGTGCA
*
447642 ATTCTACGGGGCACTTCGGTGCAATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTACGGTGCAATTCTACGGGGCACTTCGGTGCA
447688 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 7 0.16
45 21 0.49
46 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.26
Consensus pattern (45 bp):
ATTCTACGGGCACTACGGTGCAATTCTACGGGGCACTTCGGTGCA
Found at i:447695 original size:23 final size:23
Alignment explanation
Indices: 447598--447687 Score: 157
Period size: 23 Copynumber: 4.0 Consensus size: 23
447588 TATGGACATC
*
447598 ATTCTAC-GGGCACTACGGTGCA
1 ATTCTACGGGGCACTTCGGTGCA
447620 ATTCTAC-GGGCACTTCGGTGCA
1 ATTCTACGGGGCACTTCGGTGCA
447642 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTACGGGGCACTTCGGTGCA
447665 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTACGGGGCACTTCGGTGCA
447688 TTTATACGAG
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
22 28 0.42
23 38 0.58
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.26
Consensus pattern (23 bp):
ATTCTACGGGGCACTTCGGTGCA
Found at i:450848 original size:21 final size:21
Alignment explanation
Indices: 450822--450866 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
450812 GATTTCTGGG
* *
450822 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
450843 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
450864 CAA
1 CAA
450867 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:452584 original size:23 final size:22
Alignment explanation
Indices: 452525--452591 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
452515 TATGTACATC
*
452525 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
452547 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
452569 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
452592 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:454753 original size:18 final size:18
Alignment explanation
Indices: 454730--454765 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
454720 GACACAATGC
454730 CTTCAAGTTTAAGAGAAA
1 CTTCAAGTTTAAGAGAAA
454748 CTTCAAGTTTAAGAGAAA
1 CTTCAAGTTTAAGAGAAA
454766 GACATTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
CTTCAAGTTTAAGAGAAA
Found at i:457410 original size:21 final size:21
Alignment explanation
Indices: 457386--457430 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
457376 AAATTACACA
*
457386 TTTAGTATCTAAACTATTAAT
1 TTTAGTACCTAAACTATTAAT
*
457407 TTTAGTACCTAAACTTTTAAT
1 TTTAGTACCTAAACTATTAAT
457428 TTT
1 TTT
457431 TTTAAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTAGTACCTAAACTATTAAT
Found at i:460807 original size:17 final size:19
Alignment explanation
Indices: 460779--460813 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
460769 ATGGATTACC
460779 GATTCAAAATAAT-TGTAA
1 GATTCAAAATAATATGTAA
460797 GATTC-AAATAATATGTA
1 GATTCAAAATAATATGTA
460814 TGTATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (19 bp):
GATTCAAAATAATATGTAA
Found at i:462353 original size:31 final size:32
Alignment explanation
Indices: 462308--462367 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
462298 CATAAAATAT
* *
462308 TTTAAGTACATATTTTGA-CTAAAAATATAAC
1 TTTAAATACATATTTTAACCTAAAAATATAAC
*
462339 TTTAAATACTTATTTTAACCTAAAAATAT
1 TTTAAATACATATTTTAACCTAAAAATAT
462368 TTTAGGTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (32 bp):
TTTAAATACATATTTTAACCTAAAAATATAAC
Found at i:466831 original size:2 final size:2
Alignment explanation
Indices: 466824--466854 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
466814 TATTTTCTTC
466824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
466855 ACTTACCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:469390 original size:37 final size:37
Alignment explanation
Indices: 469339--469442 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
469329 CTTTTCGTCC
* *
469339 TACTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTG
*
469376 TACTAGGATCCAAACTCCTAAAAATAGGATAGAATTG
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTG
* * *
469413 TACTATGATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
469443 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTG
Found at i:470348 original size:9 final size:9
Alignment explanation
Indices: 470303--470359 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
470293 TATATATTAA
*
470303 TATTTCATT
1 TATTTTATT
470312 TA-TTTATT
1 TATTTTATT
470320 TA-TTTATT
1 TATTTTATT
*
470328 T-TTCCT-TT
1 TATT-TTATT
470336 TATTTTATT
1 TATTTTATT
*
470345 TATTTTACT
1 TATTTTATT
470354 TATTTT
1 TATTTT
470360 TATTCTTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 19 0.47
9 21 0.52
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (9 bp):
TATTTTATT
Found at i:470389 original size:30 final size:28
Alignment explanation
Indices: 470305--470390 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 28
470295 TATATTAATA
* *
470305 TTTCATTTATTTATTTATTTATTTTTCCT
1 TTTCATTTTTTTATTTA-TTATTTTTCAT
470334 TTT-ATTTTATTTATTTTACTTATTTTT-AT
1 TTTCATTTT-TTTA-TTTA-TTATTTTTCAT
470363 TCTTCATTTTTTTCATTTATTCATTTTT
1 T-TTCATTTTTTT-ATTTATT-ATTTTT
470391 TCCCTCTAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
28 4 0.08
29 11 0.23
30 27 0.56
31 6 0.12
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTCATTTTTTTATTTATTATTTTTCAT
Found at i:473436 original size:23 final size:22
Alignment explanation
Indices: 473403--473451 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
473393 CAAAAAGGGC
*
473403 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAACAAAAGAA-CA
*
473426 AAAAAGGAAAAACAAAAGAACA
1 AAAAAGAAAAAACAAAAGAACA
473448 AAAA
1 AAAA
473452 TCGAAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAACAAAAGAACA
Found at i:473457 original size:22 final size:21
Alignment explanation
Indices: 473410--473475 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
473400 GGCAAAAAGA
*
473410 AAAAAGAAAAGAAGCAAAAAAGG
1 AAAAA-AAAAGAA-CAAAAAACG
*
473433 AAAAACAAAAGAACAAAAATCG
1 AAAAA-AAAAGAACAAAAAACG
*
473455 AAAGAAAAAGAGACAAAAAAC
1 AAAAAAAAAGA-ACAAAAAAC
473476 ACACGCAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.16
22 19 0.51
23 12 0.32
ACGTcount: A:0.74, C:0.09, G:0.15, T:0.02
Consensus pattern (21 bp):
AAAAAAAAAGAACAAAAAACG
Found at i:474167 original size:22 final size:22
Alignment explanation
Indices: 474101--474170 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
474091 CATCAAATCG
474101 TTGAGCATCAAATGCCAAACCT
1 TTGAGCATCAAATGCCAAACCT
* *
474123 ATGAGCATCAAATGTCAAACCT
1 TTGAGCATCAAATGCCAAACCT
474145 TTGAGCATCAAATGCCAAACCT
1 TTGAGCATCAAATGCCAAACCT
474167 TTGA
1 TTGA
474171 CCAAACATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.24
Consensus pattern (22 bp):
TTGAGCATCAAATGCCAAACCT
Found at i:475199 original size:106 final size:106
Alignment explanation
Indices: 475000--476157 Score: 1733
Period size: 106 Copynumber: 11.0 Consensus size: 106
474990 GTGCCATTCA
* * * * * *
475000 AGACAACACAAGTTCAACTTCACAACGAAGGAACAGCTGGTTGTCAA-CAACAATTTTCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
*
475064 CGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
475105 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
475170 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
475211 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
475276 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
475317 AGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
*
475382 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
475423 AAACAACGCAAATTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
* *
475488 CAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* *
475529 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
*
475594 CAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * *
475635 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
* * *
475700 TAGAGCCAATTTCAAATTCACAACGAAGGATATTGGACTCC
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
*
475741 AGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
* *
475806 CAGAGCCAATTTCAACTTCACAGCGTAGGATATTGGACTCA
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * *
475847 AGACAACGCAGGTTCAACTTTACGACGAAGGAACTGCTGGTTGTCAATAAACAACTTCCCAATTT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
* * *
475912 CAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGGACTCG
66 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * *
475953 AGACAACACAAGCTCAACTTCACGACGAAGGG-CCGGCTGATTGTCAA-CAA-AATTT--C-A-T
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACC-GCTGGTTGTCAATAAACAATTTCCCAATT
* * *
476011 TCATAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
65 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
* * * * *
476053 AGACAACACAAGTTCAACTTCACAACGAAGGTA-CGACTGGTTGTCAACAAACAATTTCCCGATT
1 AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAACAATTTCCCAATT
* *
476117 CCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTC
65 TCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTC
476158 GGAACAATGC
Statistics
Matches: 961, Mismatches: 81, Indels: 21
0.90 0.08 0.02
Matches are distributed among these distances:
99 1 0.00
100 79 0.08
101 3 0.00
102 6 0.01
104 5 0.01
105 47 0.05
106 820 0.85
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTT
CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC
Found at i:476943 original size:37 final size:37
Alignment explanation
Indices: 476886--476990 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
476876 CATTTTCGTC
*
476886 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
476923 TTGCTAAGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
476960 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
476991 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:477538 original size:19 final size:19
Alignment explanation
Indices: 477462--477599 Score: 88
Period size: 20 Copynumber: 7.2 Consensus size: 19
477452 TTTTTTACAC
477462 TATATA-TTATTATTATATA
1 TATATATTTATTATT-TATA
* *
477481 TACATATTTTTTTATTTATA
1 TATATA-TTTATTATTTATA
* *
477501 T-TCATTTGGTTATTTTTTA-A
1 TAT-ATAT--TTATTATTTATA
477521 TACTATATTTATTATTTATA
1 TA-TATATTTATTATTTATA
* *
477541 TATATATATA-TATATATA
1 TATATATTTATTATTTATA
* *
477559 TATATATATATATATATATA
1 TATATATTTAT-TATTTATA
* *
477579 TATATATATATT-TTTAAA
1 TATATATTTATTATTTATA
477597 TAT
1 TAT
477600 TTTACTTATA
Statistics
Matches: 97, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
18 24 0.25
19 23 0.24
20 31 0.32
21 18 0.19
22 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (19 bp):
TATATATTTATTATTTATA
Found at i:477544 original size:2 final size:2
Alignment explanation
Indices: 477524--477589 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
477514 TTTTTAATAC
* *
477524 TA TA TT TA T- TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
477565 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
477590 TTTTAAATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:477770 original size:23 final size:23
Alignment explanation
Indices: 477738--477791 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
477728 TATGTATACT
477738 TTTATATTTGGTTTATATATTTA
1 TTTATATTTGGTTTATATATTTA
* * * *
477761 TTTATTTTTGGTTTTTTTATTTG
1 TTTATATTTGGTTTATATATTTA
477784 TTTATATT
1 TTTATATT
477792 ATATTATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (23 bp):
TTTATATTTGGTTTATATATTTA
Found at i:477861 original size:2 final size:2
Alignment explanation
Indices: 477854--477888 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
477844 TTTACTCATT
477854 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
477889 TAATATTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:477905 original size:4 final size:4
Alignment explanation
Indices: 477892--477967 Score: 59
Period size: 4 Copynumber: 18.2 Consensus size: 4
477882 TATATATTAA
*
477892 TATT TCATT TATT TATT TATT TATT TATT T-TT CTTTT TATTT TATT T-TT
1 TATT T-ATT TATT TATT TATT TATT TATT TATT -TATT TA-TT TATT TATT
*
477941 CTTTT TATTT TATT T-TT TAATT TATT T
1 -TATT TA-TT TATT TATT T-ATT TATT T
477968 TTATTCTTCA
Statistics
Matches: 61, Mismatches: 2, Indels: 18
0.75 0.02 0.22
Matches are distributed among these distances:
3 7 0.11
4 35 0.57
5 19 0.31
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:477937 original size:17 final size:17
Alignment explanation
Indices: 477911--477957 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
477901 TATTTATTTA
477911 TTTA-TTTATTTTTCTT
1 TTTATTTTATTTTTCTT
477927 TTTATTTTATTTTTCTT
1 TTTATTTTATTTTTCTT
477944 TTTATTTTATTTTT
1 TTTATTTTATTTTT
477958 TAATTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTATTTTTCTT
Found at i:477963 original size:13 final size:11
Alignment explanation
Indices: 477899--477969 Score: 65
Period size: 12 Copynumber: 6.2 Consensus size: 11
477889 TAATATTTCA
477899 TTTATTTATTT
1 TTTATTTATTT
477910 ATTTATTTATTT
1 -TTTATTTATTT
*
477922 TTCTTTTTATTT
1 TT-TATTTATTT
*
477934 TATT-TTT-CTT
1 T-TTATTTATTT
477944 TTTATTTTATTT
1 TTTA-TTTATTT
477956 TTTAATTTATTT
1 TTT-ATTTATTT
477968 TT
1 TT
477970 ATTCTTCATT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
9 2 0.04
10 3 0.06
11 8 0.16
12 35 0.70
13 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:477964 original size:17 final size:17
Alignment explanation
Indices: 477899--478001 Score: 85
Period size: 17 Copynumber: 6.2 Consensus size: 17
477889 TAATATTTCA
477899 TTTATTTATT-TATTTA-
1 TTTATTT-TTCTATTTAT
*
477915 TTTATTTTTCTTTTTAT
1 TTTATTTTTCTATTTAT
*
477932 TTTATTTTTCTTTTTAT
1 TTTATTTTTCTATTTAT
477949 TTTATTTTT-TAATTTATT
1 TTTATTTTTCT-ATTTA-T
*
477967 TTTATTCTTC-ATTT-T
1 TTTATTTTTCTATTTAT
477982 TTTCATTTATTC-ATTT-T
1 TTT-ATTT-TTCTATTTAT
477999 TTT
1 TTT
478002 CCTCTAACAC
Statistics
Matches: 76, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
15 6 0.08
16 16 0.21
17 45 0.59
18 9 0.12
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTTCTATTTAT
Found at i:477989 original size:26 final size:23
Alignment explanation
Indices: 477899--477992 Score: 79
Period size: 23 Copynumber: 4.0 Consensus size: 23
477889 TAATATTTCA
477899 TTTA-TTTATTTATTT-ATTTATT
1 TTTATTTTATTT-TTTAATTTATT
* *
477921 TTTCTTTTTATTTTATT--TTTCTT
1 TTT-ATTTTATTTT-TTAATTTATT
477944 TTTATTTTATTTTTTAATTTATT
1 TTTATTTTATTTTTTAATTTATT
*
477967 TTTATTCTTCATTTTTTTCATTTATT
1 TTTATT-TT-A-TTTTTTAATTTATT
477993 CATTTTTTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
21 2 0.03
22 12 0.20
23 20 0.34
24 11 0.19
25 1 0.02
26 13 0.22
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTATTTTATTTTTTAATTTATT
Found at i:483530 original size:42 final size:42
Alignment explanation
Indices: 483471--483557 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
483461 CACTCAAAAC
483471 TGAATTTTCAAGCTTCCATTGGGTCGTAGGTTCATTAAATGT
1 TGAATTTTCAAGCTTCCATTGGGTCGTAGGTTCATTAAATGT
483513 TGAATTTTCAAGCTTCCATTGGGTCGTAGGTTCATTAAATGT
1 TGAATTTTCAAGCTTCCATTGGGTCGTAGGTTCATTAAATGT
483555 TGA
1 TGA
483558 TTCTTGTCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (42 bp):
TGAATTTTCAAGCTTCCATTGGGTCGTAGGTTCATTAAATGT
Found at i:491090 original size:54 final size:54
Alignment explanation
Indices: 491008--491117 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
490998 TTTCAGAGGG
491008 ACCTGCATAAGAAAAACAAAAATTTAAACCCTCAGTAACTCATGACTGACCAAA
1 ACCTGCATAAGAAAAACAAAAATTTAAACCCTCAGTAACTCATGACTGACCAAA
491062 ACCTGCATAAGAAAAACAAAAATTTAAACCCTCAGTAACTCATGACTGACCAAA
1 ACCTGCATAAGAAAAACAAAAATTTAAACCCTCAGTAACTCATGACTGACCAAA
491116 AC
1 AC
491118 GTTACAAGGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.48, C:0.25, G:0.09, T:0.18
Consensus pattern (54 bp):
ACCTGCATAAGAAAAACAAAAATTTAAACCCTCAGTAACTCATGACTGACCAAA
Found at i:493413 original size:183 final size:183
Alignment explanation
Indices: 493090--493463 Score: 572
Period size: 183 Copynumber: 2.0 Consensus size: 183
493080 GTTTGATGGC
* * *
493090 TTGGCTTTCTAGAGCCAAATTAGGAGTTTCAACATTGCCAGTTTTCGGCTTCAACACTGAAGAGT
1 TTGGCTTTCTAGAGACAAATTAGGAGTTCCAACATTGCCAGTTTTAGGCTTCAACACTGAAGAGT
* * *
493155 TTCTGATTGTACTAGCTATTGTTTTAGCTGTCTGATGCTTCTTGTCGCTTACCAGTTTATTATGA
66 TCCTGATAGTACTAGCTATTGTTTTAGCTGTCTGATGCTTCTTGTCGCTCACCAGTTTATTATGA
* **
493220 GAATTCATCAATGGTTTAGGGGTGCAGGCTTCAGTTTCAACTTGCACAGTGGA
131 GAATTCATCAATGGTTTAGGGGTGCAAGCTTCAGTAACAACTTGCACAGTGGA
*
493273 TTGGCTTTCTAGAGACAAATTAGGAGTTCCAACATTGCCAGTTTTAGGCTTCAACACTGACGAGT
1 TTGGCTTTCTAGAGACAAATTAGGAGTTCCAACATTGCCAGTTTTAGGCTTCAACACTGAAGAGT
* * * *
493338 TCCTTATAGTACTAGCTATCT-TTTTAGCTGTCTGATGTTTCTTGTCGCTCACCAGTTTTTTCTG
66 TCCTGATAGTACTAGCTAT-TGTTTTAGCTGTCTGATGCTTCTTGTCGCTCACCAGTTTATTATG
*
493402 AG-ATATCATCAATGGTTTAGGGGTGCAAGCTTCAGTAACTACTTGCACAGTGGA
130 AGAAT-TCATCAATGGTTTAGGGGTGCAAGCTTCAGTAACAACTTGCACAGTGGA
*
493456 TTTGCTTT
1 TTGGCTTT
493464 TCTCTTCATC
Statistics
Matches: 173, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
182 2 0.01
183 170 0.98
184 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (183 bp):
TTGGCTTTCTAGAGACAAATTAGGAGTTCCAACATTGCCAGTTTTAGGCTTCAACACTGAAGAGT
TCCTGATAGTACTAGCTATTGTTTTAGCTGTCTGATGCTTCTTGTCGCTCACCAGTTTATTATGA
GAATTCATCAATGGTTTAGGGGTGCAAGCTTCAGTAACAACTTGCACAGTGGA
Found at i:497441 original size:2 final size:2
Alignment explanation
Indices: 497434--497469 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
497424 ACGACTTAAC
497434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
497470 CAATTTGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:497834 original size:2 final size:2
Alignment explanation
Indices: 497827--497869 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
497817 TAATTTACTC
497827 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
497869 A
1 A
497870 ACACGGATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:498355 original size:27 final size:27
Alignment explanation
Indices: 498294--498347 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
498284 TTTTGGTTGT
*
498294 CCTCACCTTGATTAATTTAGATCGATC
1 CCTCATCTTGATTAATTTAGATCGATC
*
498321 CCTCATCTTGATTAATTTGGATCGATC
1 CCTCATCTTGATTAATTTAGATCGATC
498348 GTACATCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (27 bp):
CCTCATCTTGATTAATTTAGATCGATC
Found at i:509936 original size:15 final size:15
Alignment explanation
Indices: 509916--509948 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
509906 GTTTGCAATA
509916 TGATGAACAGTCGGG
1 TGATGAACAGTCGGG
509931 TGATGAACAGTCGGG
1 TGATGAACAGTCGGG
509946 TGA
1 TGA
509949 CTACTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.39, T:0.21
Consensus pattern (15 bp):
TGATGAACAGTCGGG
Found at i:514735 original size:33 final size:33
Alignment explanation
Indices: 514694--514765 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
514684 AAGTATAGTG
* *
514694 AGGA-TGTTGGGTGCATGTTGAGCAAGTCAGTT
1 AGGATTGTTGGGTGCATATTGAGCAAATCAGTT
*
514726 AGGATTGTTGTGTGCATATTGAGCAAATCAGTT
1 AGGATTGTTGGGTGCATATTGAGCAAATCAGTT
514759 AGG-TTGT
1 AGGATTGT
514766 CGGTTATGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.24, C:0.08, G:0.33, T:0.35
Consensus pattern (33 bp):
AGGATTGTTGGGTGCATATTGAGCAAATCAGTT
Found at i:516783 original size:2 final size:2
Alignment explanation
Indices: 516776--516802 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
516766 TTATTACTTG
516776 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
516803 TTTGTGATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:517397 original size:2 final size:2
Alignment explanation
Indices: 517390--517421 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
517380 GATGTGTAAG
*
517390 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
517422 TTGGTCATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:519056 original size:22 final size:22
Alignment explanation
Indices: 519029--519079 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
519019 TAGTAGGCAT
519029 ATGTATTCATAGTTCCTTACTA
1 ATGTATTCATAGTTCCTTACTA
519051 ATGTATTCATAGTTCCTTACTA
1 ATGTATTCATAGTTCCTTACTA
519073 ATGTATT
1 ATGTATT
519080 TAGTTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (22 bp):
ATGTATTCATAGTTCCTTACTA
Found at i:520289 original size:18 final size:19
Alignment explanation
Indices: 520266--520301 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
520256 AGAAAGAAGC
*
520266 AAAAGGAA-AAATCAGAGT
1 AAAAGGAAGAAAACAGAGT
520284 AAAAGGAAGAAAACAGAG
1 AAAAGGAAGAAAACAGAG
520302 GAATGGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.06, G:0.25, T:0.06
Consensus pattern (19 bp):
AAAAGGAAGAAAACAGAGT
Found at i:529954 original size:2 final size:2
Alignment explanation
Indices: 529947--529972 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
529937 TTCATTAATA
529947 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
529973 CATGAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:532564 original size:14 final size:14
Alignment explanation
Indices: 532545--532682 Score: 66
Period size: 14 Copynumber: 10.7 Consensus size: 14
532535 TGGAGTGAAC
532545 ATAAACGAACATAA
1 ATAAACGAACATAA
*
532559 ATAAACGAACGT--
1 ATAAACGAACATAA
*
532571 AT-GA-GAACATAA
1 ATAAACGAACATAA
*
532583 ATAAACAAACATAA
1 ATAAACGAACATAA
* *
532597 ATAAGCGAACGT--
1 ATAAACGAACATAA
* *
532609 A-AGA-GAACATAC
1 ATAAACGAACATAA
*
532621 ATAAACAAACATAA
1 ATAAACGAACATAA
* *
532635 ATAAGCGAACGT--
1 ATAAACGAACATAA
*
532647 A-AGA-GAACATAA
1 ATAAACGAACATAA
* *
532659 ACAAACAAACATAA
1 ATAAACGAACATAA
*
532673 ATAAGCGAAC
1 ATAAACGAAC
532683 GTAAGATAAC
Statistics
Matches: 87, Mismatches: 25, Indels: 24
0.64 0.18 0.18
Matches are distributed among these distances:
10 15 0.17
11 3 0.03
12 8 0.09
13 5 0.06
14 56 0.64
ACGTcount: A:0.59, C:0.15, G:0.12, T:0.13
Consensus pattern (14 bp):
ATAAACGAACATAA
Found at i:532594 original size:38 final size:38
Alignment explanation
Indices: 532545--532711 Score: 271
Period size: 38 Copynumber: 4.4 Consensus size: 38
532535 TGGAGTGAAC
* * *
532545 ATAAACGAACATAAATAAACGAACGTATGAGAACATAA
1 ATAAACAAACATAAATAAGCGAACGTAAGAGAACATAA
*
532583 ATAAACAAACATAAATAAGCGAACGTAAGAGAACATAC
1 ATAAACAAACATAAATAAGCGAACGTAAGAGAACATAA
532621 ATAAACAAACATAAATAAGCGAACGTAAGAGAACATAA
1 ATAAACAAACATAAATAAGCGAACGTAAGAGAACATAA
* *
532659 ACAAACAAACATAAATAAGCGAACGTAAGATAACATAA
1 ATAAACAAACATAAATAAGCGAACGTAAGAGAACATAA
*
532697 ATAAACAAATATAAA
1 ATAAACAAACATAAA
532712 CGAACGGATT
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 120 1.00
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (38 bp):
ATAAACAAACATAAATAAGCGAACGTAAGAGAACATAA
Found at i:546312 original size:26 final size:25
Alignment explanation
Indices: 546278--546328 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
546268 TTTTATTTCA
*
546278 TTTTAGTAC-CAGTTATTAACTCTTTT
1 TTTTAGTACTC-GCTATTAACT-TTTT
*
546304 TTTTGGTACTCGCTATTAACTTTTT
1 TTTTAGTACTCGCTATTAACTTTTT
546329 GTTTCATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 4 0.18
26 17 0.77
27 1 0.05
ACGTcount: A:0.20, C:0.16, G:0.10, T:0.55
Consensus pattern (25 bp):
TTTTAGTACTCGCTATTAACTTTTT
Found at i:553008 original size:41 final size:41
Alignment explanation
Indices: 552981--553058 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
552971 GCGAATTGGG
* * *
552981 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
553022 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
553059 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:553009 original size:20 final size:20
Alignment explanation
Indices: 552984--553078 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
552974 AATTGGGAAA
*
552984 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
553004 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
553025 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
553045 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
553065 TTCGCAACGCGATA
1 ATCGCAACGCGATA
553079 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:553294 original size:22 final size:22
Alignment explanation
Indices: 553266--553309 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
553256 CACTCTCTCA
553266 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
553288 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
553310 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:553611 original size:20 final size:20
Alignment explanation
Indices: 553588--553630 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
553578 GATAGTCGAA
553588 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
553608 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
553628 TTC
1 TTC
553631 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:554970 original size:18 final size:18
Alignment explanation
Indices: 554949--554993 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
554939 TCCACTTCGG
*
554949 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
554967 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
554985 GAGCCATCA
1 GAGCCATCA
554994 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:555521 original size:20 final size:20
Alignment explanation
Indices: 555469--555535 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
555459 TAGTTTACTT
*
555469 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
555489 TCGCAACGTGAAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
555509 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
555528 TCGCAACG
1 TCGCAACG
555536 ACAAAATCGC
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 13 0.34
20 25 0.66
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:555543 original size:14 final size:14
Alignment explanation
Indices: 555524--555581 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
555514 ATGCGAAATG
555524 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
555538 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
555554 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
555570 AAAATCGTAACG
1 AAAATCGCAACG
555582 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:555553 original size:33 final size:33
Alignment explanation
Indices: 555508--555598 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
555498 GAAAATGGCT
*
555508 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
555541 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
* *
555573 ATCGTAACGCGAAATGAAAATTGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
555599 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 31 0.57
33 23 0.43
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:555621 original size:19 final size:18
Alignment explanation
Indices: 555599--555718 Score: 105
Period size: 19 Copynumber: 6.3 Consensus size: 18
555589 AAAATTGCAA
*
555599 TGCGATTTGTGTTTCGCGT
1 TGCGATTT-TATTTCGCGT
*
555618 TGCGATTTCATTTCGCGT
1 TGCGATTTTATTTCGCGT
555636 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-ATTTCGCGT
***
555655 TGCGATAGCCATTTCCGCGT
1 TGCGAT-TTTATTT-CGCGT
* *
555675 TGCGATAGTCATTTCGCGT
1 TGCGAT-TTTATTTCGCGT
*
555694 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-A-TTTCGCGT
555714 TGCGA
1 TGCGA
555719 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
18 17 0.20
19 39 0.45
20 30 0.35
ACGTcount: A:0.12, C:0.20, G:0.26, T:0.42
Consensus pattern (18 bp):
TGCGATTTTATTTCGCGT
Found at i:555675 original size:20 final size:19
Alignment explanation
Indices: 555610--555699 Score: 128
Period size: 19 Copynumber: 4.7 Consensus size: 19
555600 GCGATTTGTG
*
555610 TTTCGCGTTGCGAT-TTCA
1 TTTCGCGTTGCGATAGTCA
**
555628 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATAGTCA
*
555647 TTTCGCGTTGCGATAGCCA
1 TTTCGCGTTGCGATAGTCA
555666 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGATAGTCA
555686 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
555700 TTTAAGTTTC
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
18 14 0.21
19 34 0.52
20 18 0.27
ACGTcount: A:0.12, C:0.23, G:0.24, T:0.40
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTCA
Found at i:555716 original size:39 final size:38
Alignment explanation
Indices: 555610--555718 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 38
555600 GCGATTTGTG
**
555610 TTTCGCGTTGCGA-TTTCATTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTCA
***
555647 TTTCGCGTTGCGATAGCCATTTCCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCATTT-CGCGTTGCGATAGTCA
* *
555686 TTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TTTCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
555719 AAGTAAACTA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
37 13 0.22
38 5 0.08
39 38 0.64
40 3 0.05
ACGTcount: A:0.13, C:0.21, G:0.25, T:0.41
Consensus pattern (38 bp):
TTTCGCGTTGCGATTTTCATTTCGCGTTGCGATAGTCA
Found at i:557580 original size:14 final size:14
Alignment explanation
Indices: 557561--557596 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
557551 ATTGTTTAAT
557561 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
557575 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
557589 TGATTTGT
1 TGATTTGT
557597 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:557722 original size:14 final size:14
Alignment explanation
Indices: 557703--557756 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
557693 CGAAATGGCT
557703 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
557717 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
557736 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
557750 ATCGCAA
1 ATCGCAA
557757 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:557774 original size:33 final size:33
Alignment explanation
Indices: 557684--557761 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
557674 AAAACATACT
* ***
557684 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
557717 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
557750 ATCGCAATGCGA
1 ATCGCAATGCGA
557762 TTTTCATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:557805 original size:20 final size:20
Alignment explanation
Indices: 557780--557837 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
557770 TCGCATTGCG
*
557780 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
557800 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
557820 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
557838 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:558914 original size:24 final size:24
Alignment explanation
Indices: 558887--558940 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
558877 GTATTCGAAA
* *
558887 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
558911 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
558935 TTTGAT
1 TTTGAT
558941 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:559132 original size:12 final size:12
Alignment explanation
Indices: 559115--559139 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
559105 ATATAATCCT
559115 GAAGAAGAAAAA
1 GAAGAAGAAAAA
559127 GAAGAAGAAAAA
1 GAAGAAGAAAAA
559139 G
1 G
559140 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:561468 original size:33 final size:33
Alignment explanation
Indices: 561415--561507 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
561405 GGAAATTACT
561415 ATCGCAATGCG-AATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
561447 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
561480 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
561508 CGAATTTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 11 0.19
33 48 0.81
ACGTcount: A:0.43, C:0.19, G:0.25, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:561470 original size:19 final size:18
Alignment explanation
Indices: 561415--561512 Score: 86
Period size: 19 Copynumber: 5.8 Consensus size: 18
561405 GGAAATTACT
561415 ATCGCAATGCGAATGAAA
1 ATCGCAATGCGAATGAAA
*
561433 ATCGCAA--CG-A-GAGA
1 ATCGCAATGCGAATGAAA
561447 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCG-AATGAAA
**
561466 ATCGCAA--CG-A-GGGA
1 ATCGCAATGCGAATGAAA
561480 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCG-AATGAAA
*
561499 ATCGCAACGCGAAT
1 ATCGCAATGCGAAT
561513 TTAATTTCGC
Statistics
Matches: 63, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.30
15 2 0.03
16 6 0.10
17 2 0.03
18 12 0.19
19 22 0.35
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.13
Consensus pattern (18 bp):
ATCGCAATGCGAATGAAA
Found at i:561581 original size:19 final size:18
Alignment explanation
Indices: 561511--561582 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
561501 CGCAACGCGA
*
561511 ATTTAATTTCGCGTTGCG
1 ATTTCATTTCGCGTTGCG
561529 ATTTCATTTTCGCGTTGCG
1 ATTTCA-TTTCGCGTTGCG
*
561548 A-TTC---TCTCGTTGCG
1 ATTTCATTTCGCGTTGCG
*
561562 ATTTTCATTTCGCATTGCG
1 A-TTTCATTTCGCGTTGCG
561581 AT
1 AT
561583 AGTACTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.23
16 3 0.07
18 9 0.20
19 22 0.50
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (18 bp):
ATTTCATTTCGCGTTGCG
Found at i:561708 original size:14 final size:14
Alignment explanation
Indices: 561689--561725 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
561679 CATCAATTAA
561689 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
561703 ACAAATCACCTTTT
1 ACAAATCAACTTTT
561717 ACAAATCAA
1 ACAAATCAA
561726 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:563153 original size:42 final size:42
Alignment explanation
Indices: 563068--563190 Score: 117
Period size: 42 Copynumber: 2.9 Consensus size: 42
563058 GTGAATCGGG
* * * * *
563068 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTCTTCGAGGATGATAGGGGC
563110 CTCTTGAACGGTGGGAGGGGACT-TTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTCGAGG-ATGATAGGGGC
* * * *
563152 CTCTTCAACGATAGGAGTGGACTCTT-GAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTTCGA-GGATGATAGG
563191 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 5 0.07
42 55 0.81
43 8 0.12
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGACTCTTCGAGGATGATAGGGGC
Found at i:565244 original size:33 final size:33
Alignment explanation
Indices: 565186--565278 Score: 111
Period size: 33 Copynumber: 2.9 Consensus size: 33
565176 ACAAGATAAT
* *
565186 GAGAATCGCAACGC-AAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAATATCGCAACCA
* *
565218 GAGAATCGCAACGCGAAATGAGTATCGCGACCA
1 GAGAATCGCAACGCGAAATGAATATCGCAACCA
* *
565251 GACAAT--CAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAATATCGCAA
565279 TGCGTTTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 19 0.36
32 14 0.26
33 20 0.38
ACGTcount: A:0.42, C:0.24, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAATATCGCAACCA
Found at i:565862 original size:20 final size:20
Alignment explanation
Indices: 565837--565889 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
565827 GCGCTATGTA
565837 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
565857 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
565877 TATCTCGTTGCGA
1 AATCGCGTTGCGA
565890 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:565923 original size:20 final size:20
Alignment explanation
Indices: 565898--565951 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
565888 GATTTTGTAT
565898 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
565918 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
565938 TATCGCATTGCGAT
1 TATCGCATTGCGAT
565952 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:565936 original size:61 final size:61
Alignment explanation
Indices: 565838--565954 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
565828 CGCTATGTAA
* * * * *
565838 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
565899 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
565955 CCCAATTTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Done.