Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008064.1 Hibiscus syriacus cultivar Beakdansim tig00110561_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: 399611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 2 of 2
Found at i:173522 original size:3 final size:3
Alignment explanation
Indices: 173514--173588 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
173504 ACTTGTTTGG
* * * * *
173514 ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
173562 ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
173589 GTCAGCTTCA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.24, C:0.33, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:173571 original size:36 final size:36
Alignment explanation
Indices: 173524--173605 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
173514 ATCATCATCA
*
173524 TCATCATCATCATCGTCATCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
173560 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
*
173596 TCATCTTCAT
1 TCATCATCAT
173606 TGACCGCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.38
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:173589 original size:12 final size:12
Alignment explanation
Indices: 173518--173605 Score: 95
Period size: 12 Copynumber: 7.3 Consensus size: 12
173508 GTTTGGATCA
* *
173518 TCATCATCATCA
1 TCATCTTCATCG
* * *
173530 TCATCATCGTCA
1 TCATCTTCATCG
173542 TCATCTTCATCG
1 TCATCTTCATCG
*
173554 TCAGCTTCATCG
1 TCATCTTCATCG
*
173566 TCATCATCATCG
1 TCATCTTCATCG
173578 TCATCTTCATCG
1 TCATCTTCATCG
* *
173590 TCAGCTTCATCT
1 TCATCTTCATCG
173602 TCAT
1 TCAT
173606 TGACCGCTTG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.38
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:173614 original size:18 final size:18
Alignment explanation
Indices: 173542--173605 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
173532 ATCATCGTCA
*
173542 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
* * *
173560 TCATCGTCATC-ATCATCG
1 TCATCTTCATCGA-CAGCT
*
173578 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
173596 TCATCTTCAT
1 TCATCTTCAT
173606 TGACCGCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.19, C:0.33, G:0.09, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCGACAGCT
Found at i:175410 original size:200 final size:200
Alignment explanation
Indices: 175067--176045 Score: 1814
Period size: 200 Copynumber: 4.9 Consensus size: 200
175057 TATTTAAATT
*
175067 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATGCTCTCATAAAACCGGTA
1 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
* *
175132 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGAGTTTCGATGATTTTGG
66 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
175197 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
131 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
175262 CAAAA
196 CAAAA
175267 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
175332 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
66 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
175397 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
131 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
**
175462 CAATT
196 CAAAA
*
175467 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTA
1 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
175532 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATATTTTTGG
66 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
* * **
175597 GATCGATACTTTTTATATATGGATCGACACGTTATGGTTGCACCCTGTTTTCCATTCATTCAAGA
131 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
175662 CAAAA
196 CAAAA
*
175667 ACTATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
175732 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
66 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
175797 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
131 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
175862 CAAAA
196 CAAAA
*
175867 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTA
1 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
175932 TACTTGTACCGGTTAGATTGGAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
66 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
* *
175997 GATCGACACTTTTTATATATGGTTCGACACTTTATTGTTGCACCCTGTT
131 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
176046 GGCCATATTG
Statistics
Matches: 754, Mismatches: 25, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 754 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (200 bp):
AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
CAAAA
Found at i:176210 original size:19 final size:19
Alignment explanation
Indices: 176164--176212 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
176154 TTATATTCAC
*
176164 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
176183 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
176202 ATACAAAATTA
1 ATACAAAATTA
176213 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:178041 original size:33 final size:33
Alignment explanation
Indices: 178004--178069 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
177994 CATCTTAATA
*
178004 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
178037 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
178070 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:178128 original size:21 final size:21
Alignment explanation
Indices: 178103--178167 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
178093 CCCCTTATGC
*
178103 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
*
178124 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
*
178145 CTATCAAGTTTATCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
178166 CT
1 CT
178168 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.18, C:0.29, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTATCTTCGACT
Found at i:180381 original size:17 final size:18
Alignment explanation
Indices: 180359--180401 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
180349 ATATATCCGG
180359 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
180376 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
180396 TATCAT
1 TATCAT
180402 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:180410 original size:20 final size:19
Alignment explanation
Indices: 180364--180424 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
180354 TCCGGTATCA
180364 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
180383 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
* * *
180404 TTTTACCTGTTATATCGTT
1 TTTTACCGGTTTTATCATT
180423 TT
1 TT
180425 GGATCGATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 5 0.14
20 27 0.77
21 3 0.09
ACGTcount: A:0.18, C:0.15, G:0.11, T:0.56
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:180635 original size:181 final size:182
Alignment explanation
Indices: 180331--180803 Score: 734
Period size: 181 Copynumber: 2.6 Consensus size: 182
180321 CGTACTTACG
* *
180331 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
*
180396 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTAT
* *
180461 AGGCGCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
180512 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCAGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
180577 TATCATATTTTTATCTGGTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTAT
** *
180642 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
180694 AAAGTACCGACACTTTAAATGTATCCGGTAGCGATTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
180758 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
180804 AATTTGGATC
Statistics
Matches: 265, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 167 0.63
182 97 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:181896 original size:20 final size:20
Alignment explanation
Indices: 181867--181904 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
181857 TTTGGTTCAC
181867 GGAATATAAGATTACCAGTG
1 GGAATATAAGATTACCAGTG
*
181887 GGAATGTAAGATTACCAG
1 GGAATATAAGATTACCAG
181905 GGAATAGGAT
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:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (20 bp):
GGAATATAAGATTACCAGTG
Found at i:181909 original size:18 final size:19
Alignment explanation
Indices: 181867--181910 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
181857 TTTGGTTCAC
181867 GGAATATAAGATTACCAGTG
1 GGAATATAAGATTACCAG-G
*
181887 GGAATGTAAGATTACCA-G
1 GGAATATAAGATTACCAGG
181905 GGAATA
1 GGAATA
181911 GGATTACTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (19 bp):
GGAATATAAGATTACCAGG
Found at i:185055 original size:27 final size:27
Alignment explanation
Indices: 184997--185049 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
184987 CCAAACGGAC
* *
184997 CCGAAAATTATACATCATTCACCCGAT
1 CCGAAAAATATACATCATCCACCCGAT
*
185024 CCGAAAAATATATATCATCCACCCGA
1 CCGAAAAATATACATCATCCACCCGA
185050 CTCGAATTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.30, G:0.08, T:0.23
Consensus pattern (27 bp):
CCGAAAAATATACATCATCCACCCGAT
Found at i:189130 original size:30 final size:30
Alignment explanation
Indices: 189096--189193 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
189086 TTATGACGAG
189096 GAAGATGAACAATCTGCGTTGCATGTTAAT
1 GAAGATGAACAATCTGCGTTGCATGTTAAT
** * * *
189126 GAAGAAAAAC-GTGCTGCAGTT-CATTGTGACGAG
1 GAAGATGAACAAT-CTGC-GTTGCA-TGTTA--AT
* *
189159 GAAGATGAGCAATCTGTGTTGCATGTTAAT
1 GAAGATGAACAATCTGCGTTGCATGTTAAT
189189 GAAGA
1 GAAGA
189194 AAAACGTGCT
Statistics
Matches: 49, Mismatches: 12, Indels: 14
0.65 0.16 0.19
Matches are distributed among these distances:
29 1 0.02
30 20 0.41
31 7 0.14
32 7 0.14
33 13 0.27
34 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.27
Consensus pattern (30 bp):
GAAGATGAACAATCTGCGTTGCATGTTAAT
Found at i:189229 original size:63 final size:63
Alignment explanation
Indices: 189058--189209 Score: 241
Period size: 63 Copynumber: 2.4 Consensus size: 63
189048 CACATGCTTC
* * *
189058 TTAATGAAGAAAAAAGTGATGAAGTACATTATGACGAGGAAGATGAACAATCTGCGTTGCATG
1 TTAATGAAGAAAAACGTGCTGAAGTTCATTATGACGAGGAAGATGAACAATCTGCGTTGCATG
* * * *
189121 TTAATGAAGAAAAACGTGCTGCAGTTCATTGTGACGAGGAAGATGAGCAATCTGTGTTGCATG
1 TTAATGAAGAAAAACGTGCTGAAGTTCATTATGACGAGGAAGATGAACAATCTGCGTTGCATG
189184 TTAATGAAGAAAAACGTGCTGAAGTT
1 TTAATGAAGAAAAACGTGCTGAAGTT
189210 GATTTTGGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 81 1.00
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.26
Consensus pattern (63 bp):
TTAATGAAGAAAAACGTGCTGAAGTTCATTATGACGAGGAAGATGAACAATCTGCGTTGCATG
Found at i:194840 original size:313 final size:310
Alignment explanation
Indices: 194154--195080 Score: 1089
Period size: 302 Copynumber: 3.0 Consensus size: 310
194144 TCGATTTGTT
* * * * *
194154 TCGATTTACCATCCAAGAGGACCAGAGTTTTGTGAAGATGTCTTTT-CATTT-TAGTGTATATGA
1 TCGATTTGCCTTCCAAGAGGACCAGAGTTTTGTGAAGATATCTTTTCCTTTTCTAGTTTATATGA
* * * *
194217 AAGCATGTCTAGACCTTCATTACTTGTGAAGTCATTGTGGAGCCTTATA-TCGCTGTACTATTCT
66 AAGCATGTCTAGACCTTC-TTACTCGTGAAGTCCTTGTGGAGCCTTA-AGTTGCTGTACAATTCT
* *
194281 CACGTGCCTG-CCCTTTTTTGTTGCGGAGTGCGCCACCTTTGTCTCTA-TCCATTAGCATACAGT
129 CACGTGCCTGACCATTTTTTGTTGCGGAGTGAGCCACCTTTGTCTCTACT-CATTAGCATACAGT
* * * * * * *
194344 TTTCTGCGCCACTATGTTCCAAATGACGGTAAAGAGCGGCTGTGTGTACGCGGATGATAAAAACG
193 TTTCTGGGCCACTATGTTCCAAATGATGATAAAGAGCAGCTGTGTGT-CACAGATGAT---AATG
* * * * *
194409 ATA-TTTCTCGAGTGCAGTGGTAATTGCTTTTGGATGGGATTGACATCATCATATCAG
254 -TAGTTTCTTGAGGGCAGTGTTAATTGCTTTTGGATGGGATTGATATCATCATATCGG
* ** *
194466 TCTATTTGCCTTCCAAGATTACCAGAGTTTTGTCAAGATATCTTTTCCTTTTCTAGTTTATATGA
1 TCGATTTGCCTTCCAAGAGGACCAGAGTTTTGTGAAGATATCTTTTCCTTTTCTAGTTTATATGA
* *
194531 AAGCTTGTCTAGACCTTCCTTACTCGTGAAGTCCTTGTGGAGCATTAAGTTGCTGTACAATTCTC
66 AAGCATGTCTAGACCTT-CTTACTCGTGAAGTCCTTGTGGAGCCTTAAGTTGCTGTACAATTCTC
* * *
194596 ACGTGCCTGACCATTTTCTGTTGCGAAGTGTGCCACCTTTGTCTCTACTCATTAGCATACAGTTT
130 ACGTGCCTGACCATTTTTTGTTGCGGAGTGAGCCACCTTTGTCTCTACTCATTAGCATACAGTTT
* * * * *
194661 TCTGGGCCACCATGCTCCAAATGATGATAAAGGGAAGCTGTGTGTGCACAGACGATAATGTAGTT
195 TCTGGGCCACTATGTTCCAAATGATGATAAAGAGCAGCTGTGTGT-CACAGATGATAATGTAGTT
* * *
194726 GTCTTGAGGGCAGTGTTAATTGCTTTTGGTTGGGATAGATATCATGATATCGG
259 -TCTTGAGGGCAGTGTTAATTGCTTTTGGATGGGATTGATATCATCATATCGG
** *
194779 TCGATTTGCCTTCCAAGAGGACTGGGGTTTTGTGAAGATATCTTTTCCTTTTCTAGTTTATATGA
1 TCGATTTGCCTTCCAAGAGGACCAGAGTTTTGTGAAGATATCTTTTCCTTTTCTAGTTTATATGA
*
194844 AAGCATGTCTAGA-C-T-TT-C-C-T----TACTTGTGGAGCCTTAAGTTGCTGTACAATTCTCA
66 AAGCATGTCTAGACCTTCTTACTCGTGAAGTCCTTGTGGAGCCTTAAGTTGCTGTACAATTCTCA
* * * * *
194899 TGTGCCTGACCTTTTTTTGTTGCGGAGTGAGCCAACTTTGTCTCTACTCGTTAG-AGTATAGTTT
131 CGTGCCTGACCATTTTTTGTTGCGGAGTGAGCCACCTTTGTCTCTACTCATTAGCA-TACAGTTT
* * * * *
194963 TCTGGGCCACTATGTTCCAAATGATGACAAAGTGCAGCTGTGTACTCA-TGCATGATTATGTAGT
195 TCTGGGCCACTATGTTCCAAATGATGATAAAGAGCAGCTGTGT-GTCACAG-ATGATAATGTAG-
* *
195027 TTTCCTGAGGGCAGTGTTAATCGCTTTTGGATGGGATTGATATCATCATATCGG
257 TTTCTTGAGGGCAGTGTTAATTGCTTTTGGATGGGATTGATATCATCATATCGG
195081 CTGATGTGGT
Statistics
Matches: 531, Mismatches: 72, Indels: 34
0.83 0.11 0.05
Matches are distributed among these distances:
301 2 0.00
302 184 0.35
303 3 0.01
306 1 0.00
307 1 0.00
308 1 0.00
309 2 0.00
311 3 0.01
312 45 0.08
313 119 0.22
314 75 0.14
315 94 0.18
316 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (310 bp):
TCGATTTGCCTTCCAAGAGGACCAGAGTTTTGTGAAGATATCTTTTCCTTTTCTAGTTTATATGA
AAGCATGTCTAGACCTTCTTACTCGTGAAGTCCTTGTGGAGCCTTAAGTTGCTGTACAATTCTCA
CGTGCCTGACCATTTTTTGTTGCGGAGTGAGCCACCTTTGTCTCTACTCATTAGCATACAGTTTT
CTGGGCCACTATGTTCCAAATGATGATAAAGAGCAGCTGTGTGTCACAGATGATAATGTAGTTTC
TTGAGGGCAGTGTTAATTGCTTTTGGATGGGATTGATATCATCATATCGG
Found at i:199622 original size:120 final size:122
Alignment explanation
Indices: 199343--199658 Score: 458
Period size: 120 Copynumber: 2.6 Consensus size: 122
199333 CCCTGTTCAA
* * *
199343 GGAGTCAATCCAATGCTGAACAAGGAGGCCAATCCTCAGGTTGGAATCAATCTGGTGGCTGGAAC
1 GGAGCCAATCCAATGCTGATC-AGGAGGCCAATCCTCCGGTTGGAATCAATCTGGTGGCTGGAAC
*
199408 AAAGAGGGTAACCAGGGCCGGAGGAGTGGTGGAACAAATGGTGGTGGAGCCAAGACTT
65 AAAGAGGGTAACCAAGGCCGGAGGAGTGGTGGAACAAATGGTGGTGGAGCCAAGACTT
* *
199466 GGAGCCAATCCAATGCTGATTAGGGAGGCCAATCCTCCGATTGGAATCAATCTGGTGGCTGGAAC
1 GGAGCCAATCCAATGCTGATCA-GGAGGCCAATCCTCCGGTTGGAATCAATCTGGTGGCTGGAAC
* * *
199531 AAAGAGGGTAACCAAGG-C-TA-GAGTGGTGGAACAAATGGTGGTGGAGCTAAGATTT
65 AAAGAGGGTAACCAAGGCCGGAGGAGTGGTGGAACAAATGGTGGTGGAGCCAAGACTT
* * * * *
199586 GGAGCCAATCCAAGGCTGATCAGGATGGCCAATCCTCCGGTTCGAATAAATCTGGTGGTTGGACC
1 GGAGCCAATCCAATGCTGATCAGGA-GGCCAATCCTCCGGTTGGAATCAATCTGGTGGCTGGAAC
199651 AAAGAGGG
65 AAAGAGGG
199659 CCAGAACTCT
Statistics
Matches: 175, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
119 3 0.02
120 95 0.54
121 1 0.01
122 2 0.01
123 74 0.42
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.19
Consensus pattern (122 bp):
GGAGCCAATCCAATGCTGATCAGGAGGCCAATCCTCCGGTTGGAATCAATCTGGTGGCTGGAACA
AAGAGGGTAACCAAGGCCGGAGGAGTGGTGGAACAAATGGTGGTGGAGCCAAGACTT
Found at i:200032 original size:128 final size:128
Alignment explanation
Indices: 199657--200117 Score: 502
Period size: 127 Copynumber: 3.6 Consensus size: 128
199647 GACCAAAGAG
* * * *
199657 GGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCGCTCGACCAAATTTCCTCATTATGTAGGA
1 GGCCAAAACTCCTCATCACGTATGAGCCGTGTCATCACCCGACCAAATTTCCTCATTATGTAGGA
* *
199722 GTTGTGTCAACCTTC-GATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
66 GTTGTGTCAACC--CAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAGAT
* * * * * *
199786 GGCCAAAACTCTTCACCACGTATGAGCCGTGTCATCAACTGACCATATCTCCTCA-TATGTAGGA
1 GGCCAAAACTCCTCATCACGTATGAGCCGTGTCATCACCCGACCAAATTTCCTCATTATGTAGGA
*
199850 GTTGTGTCAACCCAGATAATCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAGAT
66 GTTGTGTCAACCCAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAGAT
* *** * * *
199913 GGTC-TGCCGTCCTCATCACGTAGGAACCGTGTCATCACCCGACCAGATTTCCTCATTATGTAGG
1 GGCCAAAAC-TCCTCATCACGTATGAGCCGTGTCATCACCCGACCAAATTTCCTCATTATGTAGG
** * *
199977 AGTTGTGTCAACCCAGATAACCAGTTGTCCTCATCAAGTAGGAACCGAGTTATCACCCTTCCTAA
65 AGTTGTGTCAACCCAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCC-T--T--
200042 AGAT
125 AGAT
* * * *** * *
200046 GGCCAAGATTCATCAT-A-GTATGAATAGTGTCATC-CCCTGACTATATTTCCTCATTATGTAGG
1 GGCCAAAACTCCTCATCACGTATGAGCCGTGTCATCACCC-GACCAAATTTCCTCATTATGTAGG
*
200108 AGTTTTGTCA
65 AGTTGTGTCA
200118 CCCTTAGACG
Statistics
Matches: 283, Mismatches: 39, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
126 2 0.01
127 87 0.31
128 82 0.29
129 48 0.17
130 3 0.01
131 46 0.16
132 1 0.00
133 13 0.05
134 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (128 bp):
GGCCAAAACTCCTCATCACGTATGAGCCGTGTCATCACCCGACCAAATTTCCTCATTATGTAGGA
GTTGTGTCAACCCAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTAGAT
Found at i:205950 original size:41 final size:41
Alignment explanation
Indices: 205893--205973 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
205883 ACCAACGGTG
* *
205893 CTGAACATTGTTACACGAATGTACCAAAGCTGAGCTGATAA
1 CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATAA
205934 CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATA
1 CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATA
205974 TGTACTCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (41 bp):
CTGAACATTGATACACGAATGTACCAAAGCTGAACTGATAA
Found at i:212365 original size:131 final size:131
Alignment explanation
Indices: 212131--212389 Score: 518
Period size: 131 Copynumber: 2.0 Consensus size: 131
212121 CTTATTTAGC
212131 ACTCTAGTTAGAGTATTACTCGTGTAGTAACTCTATTTCAATATTGTTTATATTTGTGTATTGCT
1 ACTCTAGTTAGAGTATTACTCGTGTAGTAACTCTATTTCAATATTGTTTATATTTGTGTATTGCT
212196 GGAGAGCGTAGCGAGACATGTGCTTAGTAGATCTCCCAGACTGATCCTTTTTGCGAGGTGTGTAT
66 GGAGAGCGTAGCGAGACATGTGCTTAGTAGATCTCCCAGACTGATCCTTTTTGCGAGGTGTGTAT
212261 T
131 T
212262 ACTCTAGTTAGAGTATTACTCGTGTAGTAACTCTATTTCAATATTGTTTATATTTGTGTATTGCT
1 ACTCTAGTTAGAGTATTACTCGTGTAGTAACTCTATTTCAATATTGTTTATATTTGTGTATTGCT
212327 GGAGAGCGTAGCGAGACATGTGCTTAGTAGATCTCCCAGACTGATCCTTTTTGCGAGGTGTGT
66 GGAGAGCGTAGCGAGACATGTGCTTAGTAGATCTCCCAGACTGATCCTTTTTGCGAGGTGTGT
212390 TCCTTGTGTG
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (131 bp):
ACTCTAGTTAGAGTATTACTCGTGTAGTAACTCTATTTCAATATTGTTTATATTTGTGTATTGCT
GGAGAGCGTAGCGAGACATGTGCTTAGTAGATCTCCCAGACTGATCCTTTTTGCGAGGTGTGTAT
T
Found at i:213997 original size:32 final size:31
Alignment explanation
Indices: 213961--214028 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
213951 TTATTTGCTT
* *
213961 TCAAAATTT-ATAGAATTAGATTAAAATTAAAA
1 TCAAAATTTCATAG-ATAAAATT-AAATTAAAA
*
213993 TCAAAATTTCATAGATAAAATTGAATTAAAA
1 TCAAAATTTCATAGATAAAATTAAATTAAAA
214024 TCAAA
1 TCAAA
214029 TTTTGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 13 0.41
32 15 0.47
33 4 0.12
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (31 bp):
TCAAAATTTCATAGATAAAATTAAATTAAAA
Found at i:214680 original size:18 final size:17
Alignment explanation
Indices: 214647--214680 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
214637 GAATAATTAA
214647 ATAAAATATCAAAATAT
1 ATAAAATATCAAAATAT
*
214664 ATAAAATCATTAAAATA
1 ATAAAAT-ATCAAAATA
214681 AAATAGACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATATCAAAATAT
Found at i:219170 original size:31 final size:31
Alignment explanation
Indices: 219135--219200 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
219125 TTCTCTTCCA
219135 TTTTCTCAAGAGTCAAACGAAAAATTTATTT
1 TTTTCTCAAGAGTCAAACGAAAAATTTATTT
219166 TTTTCTCAAGAGTCAAACGAAAAATTTATTT
1 TTTTCTCAAGAGTCAAACGAAAAATTTATTT
219197 TTTT
1 TTTT
219201 ATCCAAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (31 bp):
TTTTCTCAAGAGTCAAACGAAAAATTTATTT
Found at i:220193 original size:20 final size:20
Alignment explanation
Indices: 220153--220198 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
220143 TTTAGAGGAA
220153 AAAATATCAATAAAAATATAG
1 AAAATATC-ATAAAAATATAG
220174 AAAATATC-TAAAATATATAG
1 AAAATATCATAAAA-ATATAG
*
220194 GAAAT
1 AAAAT
220199 TAAAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 10 0.43
21 8 0.35
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (20 bp):
AAAATATCATAAAAATATAG
Found at i:222016 original size:16 final size:17
Alignment explanation
Indices: 221995--222046 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
221985 CTTTTAATTT
221995 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
222011 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
222026 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
222043 AATT
1 AATT
222047 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:222573 original size:20 final size:20
Alignment explanation
Indices: 222550--222717 Score: 103
Period size: 20 Copynumber: 8.3 Consensus size: 20
222540 ATTTCCAATT
*
222550 TCGCAACGCAAATATGTAAA
1 TCGCAACGCGAATATGTAAA
** * * **
222570 TCGCATTGCGATTTTCCAAA
1 TCGCAACGCGAATATGTAAA
*
222590 TTCGCAACGCGAATCTGTAAA
1 -TCGCAACGCGAATATGTAAA
* * *
222611 TCGCAACACGAATCTGTAAT
1 TCGCAACGCGAATATGTAAA
*
222631 TCGCAACGC-TATA-GTCAAA
1 TCGCAACGCGAATATGT-AAA
*
222650 TTCGCAACGCGAATTTGTAAA
1 -TCGCAACGCGAATATGTAAA
*
222671 TCGCAACAC-AGA-A-GTCAAA
1 TCGCAACGCGA-ATATGT-AAA
* *
222690 TTCGCAACTCGAATTTGTAAA
1 -TCGCAACGCGAATATGTAAA
222711 TCGCAAC
1 TCGCAAC
222718 ACAGAAGTCA
Statistics
Matches: 112, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
18 4 0.04
19 8 0.07
20 73 0.65
21 23 0.21
22 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:222655 original size:40 final size:40
Alignment explanation
Indices: 222611--222739 Score: 188
Period size: 40 Copynumber: 3.2 Consensus size: 40
222601 AATCTGTAAA
* * * *
222611 TCGCAACACGAATCTGTAATTCGCAACGCTA-TAGTCAAAT
1 TCGCAACACGAATTTGTAAATCGCAACAC-AGAAGTCAAAT
*
222651 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
1 TCGCAACACGAATTTGTAAATCGCAACACAGAAGTCAAAT
*
222691 TCGCAACTCGAATTTGTAAATCGCAACACAGAAGTCAAAT
1 TCGCAACACGAATTTGTAAATCGCAACACAGAAGTCAAAT
222731 TCGCAACAC
1 TCGCAACAC
222740 AAAAGTCAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 80 0.99
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.22
Consensus pattern (40 bp):
TCGCAACACGAATTTGTAAATCGCAACACAGAAGTCAAAT
Found at i:222715 original size:60 final size:60
Alignment explanation
Indices: 222587--222783 Score: 194
Period size: 60 Copynumber: 3.3 Consensus size: 60
222577 GCGATTTTCC
* * *
222587 AAATTCGCAACGCGAATCTGTAAATCGCAACAC-GAA-TCTGTAATTCGCAACGC-TA-TAGT
1 AAATTCGCAACGCGAAT-TGTAAATCGCAACACAGAAGTC--AAATTCGCAACGCGAATTTGT
*
222646 CAAATTCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAATTCGCAACTCGAATTTGT
1 -AAATTCGCAACGCGAA-TTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAATTTGT
* *
222708 AAA-TCGCAACACAGAA--GTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGGAATTT-T
1 AAATTCGCAACGC-GAATTGT-AAA-TCGCAACACAGAAGTCAAATTCGCAACGC-GAATTTGT
*
222768 AAATTCGCAATGCGAA
1 AAATTCGCAACGCGAA
222784 ACACAATATT
Statistics
Matches: 118, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
58 2 0.02
59 3 0.03
60 84 0.71
61 24 0.20
62 5 0.04
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (60 bp):
AAATTCGCAACGCGAATTGTAAATCGCAACACAGAAGTCAAATTCGCAACGCGAATTTGT
Found at i:222734 original size:20 final size:20
Alignment explanation
Indices: 222671--222757 Score: 108
Period size: 20 Copynumber: 4.3 Consensus size: 20
222661 AATTTGTAAA
222671 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
222691 TCGCAACTC-GAATTTGT-AAA-
1 TCGCAACACAGAA---GTCAAAT
222711 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
*
222731 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAGAAGTCAAAT
222751 TCGCAAC
1 TCGCAAC
222758 GCGGAATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
18 2 0.03
19 6 0.10
20 42 0.72
21 6 0.10
22 2 0.03
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (20 bp):
TCGCAACACAGAAGTCAAAT
Found at i:222755 original size:40 final size:40
Alignment explanation
Indices: 222611--222757 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 40
222601 AATCTGTAAA
** * * *
222611 TCGCAACACGAATCTGTAATTCGCAACGCTA-TAGTCAAAT
1 TCGCAACACGAATAAGTAAATCGCAACAC-AGAAGTCAAAT
* **
222651 TCGCAACGCGAATTTGTAAATCGCAACACAGAAGTCAAAT
1 TCGCAACACGAATAAGTAAATCGCAACACAGAAGTCAAAT
* **
222691 TCGCAACTCGAATTTGTAAATCGCAACACAGAAGTCAAAT
1 TCGCAACACGAATAAGTAAATCGCAACACAGAAGTCAAAT
222731 TCGCAACAC-AA-AAGTCAAATTCGCAAC
1 TCGCAACACGAATAAGT-AAA-TCGCAAC
222758 GCGGAATTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 6 0.06
40 87 0.92
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (40 bp):
TCGCAACACGAATAAGTAAATCGCAACACAGAAGTCAAAT
Found at i:223360 original size:20 final size:19
Alignment explanation
Indices: 223325--223378 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
223315 AAATCACAAC
223325 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
223344 GCGATTTTCATTTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
*
223364 GCGAATTTAAGTTTC
1 GCG-ATTTTAGTTTC
223379 AGAAACTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:225605 original size:21 final size:21
Alignment explanation
Indices: 225564--225661 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
225554 GATGCACCTA
* * *
225564 TCATCATTCAAGAGGCGCCTC
1 TCATCGTTCAAGAGACCCCTC
225585 -CTATCGTTCAAGAGACCCCTC
1 TC-ATCGTTCAAGAGACCCCTC
* * *
225606 TCATC-ATCGAAGAAATCCCTC
1 TCATCGTTC-AAGAGACCCCTC
* * * *
225627 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGACCCCTC
225648 TCATCGTTCAAGAG
1 TCATCGTTCAAGAG
225662 GTCCCGCCCG
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
20 3 0.05
21 52 0.90
22 3 0.05
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGACCCCTC
Found at i:225611 original size:42 final size:41
Alignment explanation
Indices: 225564--225682 Score: 105
Period size: 42 Copynumber: 2.8 Consensus size: 41
225554 GATGCACCTA
* *
225564 TCATCATTCAAGAGGCGCCTCCTATCGTTCAAGAGACCCCTC
1 TCATCATTCAAGAGGC-CCTCCCACCGTTCAAGAGACCCCTC
** * *
225606 TCATCA-TCGAAGAAATCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTC-AAG-AGGCCCTCCCACCGTTCAAGAGACCCCTC
* * * *
225648 TCATCGTTCAAGAGGTCCCGCCCGCCATTCAAGAG
1 TCATCATTCAAGAGG-CCCTCCCACCGTTCAAGAG
225683 CCCGATTCAT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.05
42 54 0.89
43 4 0.07
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.21
Consensus pattern (41 bp):
TCATCATTCAAGAGGCCCTCCCACCGTTCAAGAGACCCCTC
Found at i:227092 original size:69 final size:66
Alignment explanation
Indices: 227011--227184 Score: 230
Period size: 65 Copynumber: 2.6 Consensus size: 66
227001 GGGGTACACT
227011 TTTTTTACTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAA-TTGATGAGGAAATAA
1 TTTTTTACTTGTTTAATTGAATTTGT--A---AAAGTTGATTTGTTTAATTTGATGAGGAAATAA
227074 GAATTA
61 GAATTA
* * * *
227080 TTTTTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTTTTTAATTTGATGTGTAAATAAGAATT
1 TTTTTTACTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATT
227144 A
66 A
*
227145 TTTTTTTCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTT
1 TTTTTTACTTGTTTAATTGAATTTGTAAAAGTTGATTTGTT
227185 GTTTTAAATT
Statistics
Matches: 97, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
64 16 0.16
65 57 0.59
67 1 0.01
68 4 0.04
69 19 0.20
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (66 bp):
TTTTTTACTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAATT
A
Found at i:227149 original size:64 final size:64
Alignment explanation
Indices: 227042--227184 Score: 241
Period size: 65 Copynumber: 2.2 Consensus size: 64
227032 TTTTACATTG
227042 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTA
1 AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTA
* * * *
227106 AAAGTTGATTTTTTTAATTTGATGTGTAAATAAGAATTATTTTTTTCTTGTTTAATTGATTTGTA
1 AAAGTTGATTTGTTTAA-TTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTA
227171 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
227185 GTTTTAAATT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
64 16 0.22
65 57 0.78
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.52
Consensus pattern (64 bp):
AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTGATTTGTA
Found at i:227305 original size:20 final size:20
Alignment explanation
Indices: 227257--227305 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
227247 CGCGAAATAA
*
227257 GCGTTGCGATAGTCAAATCC
1 GCGTTGCGAAAGTCAAATCC
*** *
227277 GCAACGCGAAAGTCAAATTC
1 GCGTTGCGAAAGTCAAATCC
227297 GCGTTGCGA
1 GCGTTGCGA
227306 TTTTCAGTTT
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (20 bp):
GCGTTGCGAAAGTCAAATCC
Found at i:228335 original size:18 final size:18
Alignment explanation
Indices: 228312--228348 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
228302 TGAAATTTAT
228312 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
228330 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
228348 A
1 A
228349 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:228761 original size:25 final size:25
Alignment explanation
Indices: 228733--228782 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
228723 CATTATTTTC
*
228733 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
228758 CAAATAATGTATCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
228783 TAATTGATTT
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:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:228877 original size:20 final size:20
Alignment explanation
Indices: 228852--228971 Score: 110
Period size: 20 Copynumber: 6.3 Consensus size: 20
228842 AAGTTAAACT
*
228852 TTCGCAATGCGAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
228872 TTCGCAACGCGAAAGGT-AAA
1 TTCGCAACGCGAAA-GTCAAA
228892 TTCGCAACGCGAAA-T--AA
1 TTCGCAACGCGAAAGTCAAA
*** *
228909 ---GCGTTGCGATAGTCAAA
1 TTCGCAACGCGAAAGTCAAA
*
228926 TTCGCAACGCGAAAGCCAAA
1 TTCGCAACGCGAAAGTCAAA
* *
228946 TTCGCAACGTGAAAGCCAAA
1 TTCGCAACGCGAAAGTCAAA
228966 TTCGCA
1 TTCGCA
228972 TTGCGATTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
14 7 0.09
15 1 0.01
17 4 0.05
18 1 0.01
20 67 0.82
21 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (20 bp):
TTCGCAACGCGAAAGTCAAA
Found at i:229362 original size:18 final size:18
Alignment explanation
Indices: 229336--229376 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
229326 AGGTGAAGCC
* *
229336 GATTGTGATTGGGATTTT
1 GATTTTGATTGCGATTTT
229354 GATTTTGATTGCGATTTT
1 GATTTTGATTGCGATTTT
229372 GATTT
1 GATTT
229377 CCTTTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.02, G:0.27, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGCGATTTT
Found at i:236731 original size:12 final size:12
Alignment explanation
Indices: 236710--236743 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
236700 GGTTTTGGGT
*
236710 TTTGAGATTGTG
1 TTTGATATTGTG
236722 TTTGATATTGTG
1 TTTGATATTGTG
*
236734 TTTGGTATTG
1 TTTGATATTG
236744 GAAATATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:237376 original size:14 final size:16
Alignment explanation
Indices: 237341--237377 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
237331 AAATCATTGG
237341 AAAATTATATAGAAAT
1 AAAATTATATAGAAAT
*
237357 AAAATTATGTA-AAA-
1 AAAATTATATAGAAAT
237371 AAAATTA
1 AAAATTA
237378 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
AAAATTATATAGAAAT
Found at i:237557 original size:19 final size:19
Alignment explanation
Indices: 237514--237579 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
237504 AAAAACATTT
* *
237514 GTGTTGCGAAACTAAA-AC
1 GTGTTGCGAAATTAAATTC
*
237532 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAATTAAATTC
*
237551 GTGTTGCGAATTTGAAATTC
1 GTGTTGCGAAATT-AAATTC
*
237571 -AGTTGCGAA
1 GTGTTGCGAA
237580 TTTGACTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 14 0.35
19 20 0.50
20 6 0.15
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (19 bp):
GTGTTGCGAAATTAAATTC
Found at i:237570 original size:20 final size:20
Alignment explanation
Indices: 237534--237723 Score: 113
Period size: 20 Copynumber: 9.6 Consensus size: 20
237524 ACTAAAACCT
* *
237534 GTTGCGAAATT-AAATTCGT
1 GTTGCGAATTTGAAATTCGC
*
237553 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTGAAATTCGC
** * *
237572 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAAATTCGC
*
237592 GTTGCGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
* *
237612 GTTACGAATTTG-ACTATCGC
1 GTTGCGAATTTGAAAT-TCGC
** * *
237632 GTTGCGAATTTGACTTTTGT
1 GTTGCGAATTTGAAATTCGC
*
237652 GTTGCG-ATTTACAAATTCGC
1 GTTGCGAATTT-GAAATTCGC
* *
237672 GTTGCGAAATTGGAAACTCG-
1 GTTGCG-AATTTGAAATTCGC
* * * *
237692 GTTGCGAAATTGGAGTTCCC
1 GTTGCGAATTTGAAATTCGC
237712 GTTGCGAATTTG
1 GTTGCGAATTTG
237724 TTGGTCATTT
Statistics
Matches: 132, Mismatches: 31, Indels: 15
0.74 0.17 0.08
Matches are distributed among these distances:
19 37 0.28
20 85 0.64
21 7 0.05
22 3 0.02
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGAATTTGAAATTCGC
Found at i:237696 original size:60 final size:60
Alignment explanation
Indices: 237545--237699 Score: 183
Period size: 60 Copynumber: 2.6 Consensus size: 60
237535 TTGCGAAATT
* *
237545 AAATTCGTGTTGCGAATTTGAAATTCAGTTGCGAATTTGACTTTTGTGTTGCGAATTTGAC
1 AAATTCGCGTTGCGAATTTGAAA-TCGGTTGCGAATTTGACTTTTGTGTTGCGAATTTGAC
* * *
237606 -TA-TCGCGTTACGAATTTGACTATCGCGTTGCGAATTTGACTTTTGTGTTGCG-ATTT-AC
1 AAATTCGCGTTGCGAATTTGA-AATCG-GTTGCGAATTTGACTTTTGTGTTGCGAATTTGAC
*
237664 AAATTCGCGTTGCGAAATTGGAAACTCGGTTGCGAA
1 AAATTCGCGTTGCG-AATTTGAAA-TCGGTTGCGAA
237700 ATTGGAGTTC
Statistics
Matches: 79, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
58 2 0.03
59 22 0.28
60 46 0.58
61 9 0.11
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (60 bp):
AAATTCGCGTTGCGAATTTGAAATCGGTTGCGAATTTGACTTTTGTGTTGCGAATTTGAC
Found at i:243830 original size:24 final size:24
Alignment explanation
Indices: 243803--243911 Score: 116
Period size: 24 Copynumber: 4.5 Consensus size: 24
243793 AAACGGAGAT
*
243803 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
243827 ATCA-AATATCATAACAGAATCCAG
1 ATCAGAA-ATCAGAACAGAATTCAG
243851 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
243875 GTAATG-TATCAGAACAGAATTCA-
1 ATCA-GAAATCAGAACAGAATTCAG
243898 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
243912 TAAAATATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.04
24 64 0.91
25 3 0.04
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:243863 original size:12 final size:12
Alignment explanation
Indices: 243805--243874 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
243795 ACGGAGATAT
*
243805 CAGAAATCAAAA
1 CAGAAATCAGAA
* *
243817 CAGAATTCAGAT
1 CAGAAATCAGAA
*
243829 CA-AATATCATAA
1 CAGAA-ATCAGAA
*
243841 CAG-AATCCAGAT
1 CAGAAAT-CAGAA
243853 CAGAAATCAGAA
1 CAGAAATCAGAA
*
243865 CAGAATTCAG
1 CAGAAATCAG
243875 GTAATGTATC
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
11 4 0.09
12 37 0.84
13 3 0.07
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:243874 original size:48 final size:47
Alignment explanation
Indices: 243803--243911 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 47
243793 AAACGGAGAT
* *
243803 ATCAGAAATCAAAACAGAATTCAGATCAA-ATATCATAACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGAT-AATATATCAGAACAGAATCCA
* * *
243850 GATCAGAAATCAGAACAGAATTCAGGTAATGTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGATAATATATCAGAACAGAATCCA
243898 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
243912 TAAAATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 3 0.06
48 51 0.94
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.19
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGATAATATATCAGAACAGAATCCA
Found at i:246386 original size:13 final size:13
Alignment explanation
Indices: 246365--246404 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
246355 TGGTCAACGA
*
246365 TCAATGGGTCGGG
1 TCAACGGGTCGGG
246378 TCAACGGGTCGGG
1 TCAACGGGTCGGG
* *
246391 TAAACAGGTCGGG
1 TCAACGGGTCGGG
246404 T
1 T
246405 TATGACCAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.20, C:0.17, G:0.42, T:0.20
Consensus pattern (13 bp):
TCAACGGGTCGGG
Found at i:251253 original size:3 final size:3
Alignment explanation
Indices: 251245--251269 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
251235 TTTCTAAGGC
251245 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
251270 AATTACTCTA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:256301 original size:3 final size:3
Alignment explanation
Indices: 256293--256326 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
256283 CGTTTTGTCC
256293 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
256327 TCTTTGTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:258489 original size:22 final size:22
Alignment explanation
Indices: 258439--258481 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
258429 TTGTTTCTAG
258439 CTGTTATTGCTACTATTTTTAA
1 CTGTTATTGCTACTATTTTTAA
* *
258461 CTGTTATTGTTAGTATTTTTA
1 CTGTTATTGCTACTATTTTTA
258482 GTTGTTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (22 bp):
CTGTTATTGCTACTATTTTTAA
Found at i:269196 original size:33 final size:34
Alignment explanation
Indices: 269154--269224 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
269144 AGTTCAGGTT
*
269154 GGGTCGGG-TTTTTTTAAGTTTAATATTCGGGTC
1 GGGTCGGGTTTTTTTTAAGTGTAATATTCGGGTC
*
269187 GGGTCGGGTTTTTTTTAAGTGTGATATTCGGGTC
1 GGGTCGGGTTTTTTTTAAGTGTAATATTCGGGTC
269221 GGGT
1 GGGT
269225 TCGAGTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 8 0.23
34 27 0.77
ACGTcount: A:0.13, C:0.08, G:0.35, T:0.44
Consensus pattern (34 bp):
GGGTCGGGTTTTTTTTAAGTGTAATATTCGGGTC
Found at i:269857 original size:18 final size:18
Alignment explanation
Indices: 269820--269883 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
269810 ATTTCAGATT
*
269820 CAGATTCCAATTCC--TA
1 CAGATTCTAATTCCTTTA
269836 CAGATTCTAATTCCTTTA
1 CAGATTCTAATTCCTTTA
269854 CAGATTCTAATTCCTTTA
1 CAGATTCTAATTCCTTTA
269872 CAGATTCTAATT
1 CAGATTCTAATT
269884 TCTTCATAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 13 0.29
18 32 0.71
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.41
Consensus pattern (18 bp):
CAGATTCTAATTCCTTTA
Found at i:275524 original size:134 final size:134
Alignment explanation
Indices: 275272--275539 Score: 419
Period size: 134 Copynumber: 2.0 Consensus size: 134
275262 ATCTCCGTAG
* * * * * *
275272 TGATTATGGTTCGTTATCTATGGCTGTGTTTATTCGATATTGCGGCCTACACTTTTGTGCATGTT
1 TGATAATGATTCGTTATCTATGGCTGTGTTTATTCGATATTACAGCCTACACTTTTATGCATATT
* * *
275337 AAGAGATTGCAGCACATTTCAGATAGATTTAGGATGAGGAGAGTTATCGAATTTTATCATGAAAG
66 AAGAGATTGCAGCACATTTCAGATAGATTTAGGATGACGAGAGTTATCAAATTTTATCACGAAAG
275402 ACTT
131 ACTT
* *
275406 TGATAATGATTCGTTATCTATGGTTGTGTTTATTTGATATTACAGCCTACACTTTTATGCATATT
1 TGATAATGATTCGTTATCTATGGCTGTGTTTATTCGATATTACAGCCTACACTTTTATGCATATT
* *
275471 AAGAGATTGCAGCACATTTCAGATAGATTTTGGATGACGAGAGTTATCAAATTTTATCACGAAAT
66 AAGAGATTGCAGCACATTTCAGATAGATTTAGGATGACGAGAGTTATCAAATTTTATCACGAAAG
275536 ACTT
131 ACTT
275540 GGTACATTAC
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
134 121 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (134 bp):
TGATAATGATTCGTTATCTATGGCTGTGTTTATTCGATATTACAGCCTACACTTTTATGCATATT
AAGAGATTGCAGCACATTTCAGATAGATTTAGGATGACGAGAGTTATCAAATTTTATCACGAAAG
ACTT
Found at i:278759 original size:60 final size:60
Alignment explanation
Indices: 278626--278761 Score: 148
Period size: 60 Copynumber: 2.3 Consensus size: 60
278616 TTTAAATTGA
* * * **
278626 TCCTTAAACTTTTGAATATTCTAATTTTATCCCCAAACTATGACTTTCACTCTAAATCAG
1 TCCTTAAACTTTTGAACATTCCAATTTCATCCCCAAACTATGACCCTCACTCTAAATCAG
* * ** * **
278686 TCCTTAAAATTTTGAACATTCCAATTTCATCTCCATGCTATGACCCTCATTCTAAATTGG
1 TCCTTAAACTTTTGAACATTCCAATTTCATCCCCAAACTATGACCCTCACTCTAAATCAG
278746 T-CTCTAAACTTTTGAA
1 TCCT-TAAACTTTTGAA
278762 TCTTTCAGTT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
59 2 0.03
60 60 0.97
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.40
Consensus pattern (60 bp):
TCCTTAAACTTTTGAACATTCCAATTTCATCCCCAAACTATGACCCTCACTCTAAATCAG
Found at i:279384 original size:29 final size:29
Alignment explanation
Indices: 279341--279433 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
279331 CATAGTTTGG
* *
279341 GGATAAAATTGAAATATTCAAAAGTTTGA
1 GGATAAAATTAAAATATTCAAAAGTTTAA
* * *
279370 GGATTAATTTAAAATGATAGTC-ATAGTTTAA
1 GGATAAAATTAAAAT-AT--TCAAAAGTTTAA
* *
279401 GGATGAAATTAAAATATTTAAAAGTTTAA
1 GGATAAAATTAAAATATTCAAAAGTTTAA
279430 GGAT
1 GGAT
279434 CAATTTGAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
28 1 0.02
29 24 0.47
30 4 0.08
31 20 0.39
32 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.34
Consensus pattern (29 bp):
GGATAAAATTAAAATATTCAAAAGTTTAA
Found at i:279393 original size:60 final size:60
Alignment explanation
Indices: 279329--279444 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
279319 TAGAATTAAG
** * * *
279329 GTCATAGTTTGGGGATAAAATTGAAATATTCAAAAGTTTGAGGATTAATTTAAAATGATA
1 GTCATAGTTTAAGGATAAAATTAAAATATTCAAAAGTTTAAGGATCAATTTAAAATGATA
* * *
279389 GTCATAGTTTAAGGATGAAATTAAAATATTTAAAAGTTTAAGGATCAATTTGAAAT
1 GTCATAGTTTAAGGATAAAATTAAAATATTCAAAAGTTTAAGGATCAATTTAAAAT
279445 TAGAGTCACA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.35
Consensus pattern (60 bp):
GTCATAGTTTAAGGATAAAATTAAAATATTCAAAAGTTTAAGGATCAATTTAAAATGATA
Found at i:279444 original size:29 final size:29
Alignment explanation
Indices: 279352--279444 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
279342 GATAAAATTG
* * *
279352 AAATATTCAAAAGTTTGAGGATTAATTTA
1 AAATATTTAAAAGTTTAAGGATCAATTTA
* * * * *
279381 AAATGATAGTCATAGTTTAAGGATGAAATTA
1 AAAT-AT-TTAAAAGTTTAAGGATCAATTTA
*
279412 AAATATTTAAAAGTTTAAGGATCAATTTG
1 AAATATTTAAAAGTTTAAGGATCAATTTA
279441 AAAT
1 AAAT
279445 TAGAGTCACA
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
29 25 0.51
30 4 0.08
31 20 0.41
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.35
Consensus pattern (29 bp):
AAATATTTAAAAGTTTAAGGATCAATTTA
Found at i:285302 original size:23 final size:23
Alignment explanation
Indices: 285276--285331 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
285266 ATTCTCAACA
*** *
285276 TTAAACGAACATGTTTGTGAATG
1 TTAAACGAACATGTTCACGAAAG
**
285299 TTAAATAAACATGTTCACGAAAG
1 TTAAACGAACATGTTCACGAAAG
285322 TTAAACGAAC
1 TTAAACGAAC
285332 GAACATGAAC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (23 bp):
TTAAACGAACATGTTCACGAAAG
Found at i:287211 original size:40 final size:42
Alignment explanation
Indices: 287155--287240 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 42
287145 TCTGACACTG
287155 TCCATTTCCATCCCTACTTT-ACTCAATCAACATCACCATCA
1 TCCATTTCCATCCCTACTTTCACTCAATCAACATCACCATCA
* *
287196 TCCA-TTCCATCCCTACTTTCCCTCATTCAACATCACCATCA
1 TCCATTTCCATCCCTACTTTCACTCAATCAACATCACCATCA
287237 TCCA
1 TCCA
287241 ACTCACTACA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 15 0.36
41 27 0.64
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.31
Consensus pattern (42 bp):
TCCATTTCCATCCCTACTTTCACTCAATCAACATCACCATCA
Found at i:295446 original size:21 final size:20
Alignment explanation
Indices: 295412--295451 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
295402 TCACCCACTT
* *
295412 ATTATTTCATTTTTGATTTTG
1 ATTATTTAACTTTT-ATTTTG
295433 ATTATTTAACTTTTATTTT
1 ATTATTTAACTTTTATTTT
295452 ATTTTCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTATTTAACTTTTATTTTG
Found at i:297874 original size:20 final size:20
Alignment explanation
Indices: 297849--297901 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
297839 TTCATGTGGT
297849 TATCGATACTCACCTAAGAG
1 TATCGATACTCACCTAAGAG
297869 TATCGATACTCACCTAAGAG
1 TATCGATACTCACCTAAGAG
297889 TATCGATACTCAC
1 TATCGATACTCAC
297902 ACTCCTCAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (20 bp):
TATCGATACTCACCTAAGAG
Found at i:311571 original size:17 final size:17
Alignment explanation
Indices: 311549--311582 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
311539 GTCATTGTTA
*
311549 CTCCCTTGAGGTCTTAG
1 CTCCCTTGAGATCTTAG
311566 CTCCCTTGAGATCTTAG
1 CTCCCTTGAGATCTTAG
311583 GTTCGAGCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.29, G:0.21, T:0.35
Consensus pattern (17 bp):
CTCCCTTGAGATCTTAG
Found at i:322253 original size:12 final size:12
Alignment explanation
Indices: 322228--322297 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
322218 ACGAAGATAT
* *
322228 CAGAAATCAAAA
1 CAGAATTCAGAA
322240 CAGAATTCAGAA
1 CAGAATTCAGAA
322252 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
322264 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
322276 CAGAAATCAAAA
1 CAGAATTCAGAA
322288 CAGAATTCAG
1 CAGAATTCAG
322298 GTCATTTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:322297 original size:48 final size:48
Alignment explanation
Indices: 322226--322317 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
322216 AAACGAAGAT
322226 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
** **
322274 ATCAGAAATCAAAACAGAATTCAGGTCATTTATCAGAACAGAAT
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAAT
322318 TCAAGTCGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
Found at i:322308 original size:24 final size:24
Alignment explanation
Indices: 322226--322320 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 24
322216 AAACGAAGAT
*
322226 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGATATCAAAACAGAATTCAG
* * *
322250 AACAGATATCAGAACAGAATCCAG
1 ATCAGATATCAAAACAGAATTCAG
*
322274 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGATATCAAAACAGAATTCAG
* ** *
322298 GTCATTTATCAGAACAGAATTCA
1 ATCAGATATCAAAACAGAATTCA
322321 AGTCGGAAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGATATCAAAACAGAATTCAG
Found at i:322330 original size:48 final size:48
Alignment explanation
Indices: 322226--322332 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
322216 AAACGAAGAT
*
322226 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
** **
322274 ATCAGAAATCAAAACAGAATTCAGGTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAA-TCAAG
*
322323 -TCGGAAATCA
1 ATCAGAAATCA
322333 GATAAAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 48 0.92
49 4 0.08
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.19
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
Found at i:322332 original size:24 final size:25
Alignment explanation
Indices: 322226--322334 Score: 100
Period size: 24 Copynumber: 4.5 Consensus size: 25
322216 AAACGAAGAT
*
322226 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
322250 AACAGATATCAGAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
322274 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* ***
322298 GTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
322323 -TCGGAAATCAGA
1 ATCAGAAATCAGA
322335 TAAAATATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
23 2 0.03
24 61 0.91
25 4 0.06
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.18
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:323900 original size:31 final size:31
Alignment explanation
Indices: 323865--323964 Score: 77
Period size: 31 Copynumber: 3.2 Consensus size: 31
323855 ATTATTGCTT
323865 TCTTAAACACTCTCTGATCTTGAAACGGTTC
1 TCTTAAACACTCTCTGATCTTGAAACGGTTC
* *
323896 TCTTAACAGACT-TCTAGTATCCTTCACAAAC---TC
1 TCTTAA-ACACTCTCT-G-AT-CTT--GAAACGGTTC
323929 T-TCT-AACACTCTCTGATCTTGAAACGGTTC
1 TCT-TAAACACTCTCTGATCTTGAAACGGTTC
323959 TCTTAA
1 TCTTAA
323965 CAGACTTCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 26
0.63 0.05 0.32
Matches are distributed among these distances:
27 4 0.08
29 3 0.06
30 6 0.12
31 16 0.31
32 10 0.19
33 6 0.12
34 3 0.06
36 4 0.08
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.36
Consensus pattern (31 bp):
TCTTAAACACTCTCTGATCTTGAAACGGTTC
Found at i:323969 original size:63 final size:63
Alignment explanation
Indices: 323870--323992 Score: 246
Period size: 63 Copynumber: 2.0 Consensus size: 63
323860 TGCTTTCTTA
323870 AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCTTCT
1 AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCTTCT
323933 AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCT
1 AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCT
323993 CCTAGGATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (63 bp):
AACACTCTCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCTTCT
Found at i:324922 original size:7 final size:7
Alignment explanation
Indices: 324907--324946 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
324897 TGGTCAACTC
*
324907 CGGTTAA
1 CGGTCAA
324914 CGGTCAA
1 CGGTCAA
324921 CGGGTCAA
1 C-GGTCAA
324929 CGGTCAA
1 CGGTCAA
324936 CGGGTCAA
1 C-GGTCAA
324944 CGG
1 CGG
324947 GTCGGGTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (7 bp):
CGGTCAA
Found at i:324932 original size:15 final size:15
Alignment explanation
Indices: 324912--324946 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
324902 AACTCCGGTT
324912 AACGGTCAACGGGTC
1 AACGGTCAACGGGTC
324927 AACGGTCAACGGGTC
1 AACGGTCAACGGGTC
324942 AACGG
1 AACGG
324947 GTCGGGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.34, T:0.11
Consensus pattern (15 bp):
AACGGTCAACGGGTC
Found at i:324962 original size:8 final size:8
Alignment explanation
Indices: 324915--324949 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
324905 TCCGGTTAAC
324915 GGTCAACG
1 GGTCAACG
324923 GGTCAAC-
1 GGTCAACG
324930 GGTCAACG
1 GGTCAACG
324938 GGTCAACG
1 GGTCAACG
324946 GGTC
1 GGTC
324950 GGGTCAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.23, C:0.26, G:0.37, T:0.14
Consensus pattern (8 bp):
GGTCAACG
Found at i:324967 original size:18 final size:18
Alignment explanation
Indices: 324930--325020 Score: 93
Period size: 18 Copynumber: 5.2 Consensus size: 18
324920 ACGGGTCAAC
324930 GGTCAACGGGTCAACGGGTCG
1 GGTCAACGGGT---CGGGTCG
*
324951 GGTCAATGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
324969 GGT-AA----ACGGGTCG
1 GGTCAACGGGTCGGGTCG
*
324982 GGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
325000 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
325018 GGT
1 GGT
325021 TGTGACCGGT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
13 10 0.16
14 2 0.03
17 2 0.03
18 37 0.61
21 10 0.16
ACGTcount: A:0.15, C:0.19, G:0.48, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:324977 original size:31 final size:31
Alignment explanation
Indices: 324936--325016 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
324926 CAACGGTCAA
*
324936 CGGGTCAACGGGTCGGGTCAATGGGTCGGGT
1 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
* *
324967 CGGGTAAACGGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
324998 CGGGTCAACGGGTCGGGTC
1 CGGGTCAACGGGTCGGGTC
325017 GGGTTGTGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.15, C:0.20, G:0.48, T:0.17
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
Found at i:325016 original size:13 final size:13
Alignment explanation
Indices: 324936--324998 Score: 63
Period size: 13 Copynumber: 4.5 Consensus size: 13
324926 CAACGGTCAA
324936 CGGGTCAACGGGT
1 CGGGTCAACGGGT
324949 CGGGTCAATGGGTCGGGT
1 CGGGTCAA-----CGGGT
*
324967 CGGGTAAACGGGT
1 CGGGTCAACGGGT
*
324980 CGGGTAAACGGGT
1 CGGGTCAACGGGT
324993 CGGGTC
1 CGGGTC
324999 GGGTCAACGG
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 31 0.72
18 12 0.28
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:326021 original size:23 final size:23
Alignment explanation
Indices: 325995--326069 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 23
325985 CTATTCTTAA
325995 TTATTTTTTTATGAATTTATATT
1 TTATTTTTTTATGAATTTATATT
** *
326018 TTATTTTTTT-TGGAAAATATAAT
1 TTATTTTTTTAT-GAATTTATATT
*
326041 TTATTGTTTTTATGTATATTTAAATT
1 TTATT-TTTTTATG-A-ATTTATATT
326067 TTA
1 TTA
326070 GAGATAACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 1 0.03
23 23 0.57
24 6 0.15
25 2 0.05
26 8 0.20
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (23 bp):
TTATTTTTTTATGAATTTATATT
Found at i:328276 original size:21 final size:22
Alignment explanation
Indices: 328247--328287 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
328237 TATCTAATCT
328247 ATATATATAGAAT-AAATAAATA
1 ATATATATA-AATAAAATAAATA
328269 ATAT-TATAAATAAAATAAA
1 ATATATATAAATAAAATAAA
328288 AAAGAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 11 0.61
22 4 0.22
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (22 bp):
ATATATATAAATAAAATAAATA
Found at i:328336 original size:25 final size:25
Alignment explanation
Indices: 328248--328337 Score: 83
Period size: 25 Copynumber: 3.5 Consensus size: 25
328238 ATCTAATCTA
* *
328248 TATATATAGAATAAATAAATAATAT
1 TATAAATAAAATAAATAAATAATAT
* *
328273 TATAAATAAAATAAAAAAGAAATATAT
1 TATAAATAAAATAAATAA-ATA-ATAT
* *
328300 TCCTTGAA-AAAATAAATAAATAATAT
1 T--ATAAATAAAATAAATAAATAATAT
328326 TATAAATAAAAT
1 TATAAATAAAAT
328338 TAAGTTCAGC
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
24 3 0.06
25 20 0.40
26 7 0.14
27 7 0.14
28 10 0.20
29 3 0.06
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (25 bp):
TATAAATAAAATAAATAAATAATAT
Found at i:328856 original size:20 final size:20
Alignment explanation
Indices: 328818--328861 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
328808 TGTTTTTAAC
* *
328818 AAATTTTTATATATGAAATT
1 AAATTTTTATATATAAAATA
* *
328838 AAATTTTTATTTTTAAAATA
1 AAATTTTTATATATAAAATA
328858 AAAT
1 AAAT
328862 ATTAAAAGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AAATTTTTATATATAAAATA
Found at i:332723 original size:15 final size:15
Alignment explanation
Indices: 332703--332732 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
332693 GACGCTTTTC
332703 TTTTATCATAGCTTA
1 TTTTATCATAGCTTA
*
332718 TTTTATCATGGCTTA
1 TTTTATCATAGCTTA
332733 ACGCGTATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.10, T:0.53
Consensus pattern (15 bp):
TTTTATCATAGCTTA
Found at i:333043 original size:40 final size:40
Alignment explanation
Indices: 332979--333069 Score: 146
Period size: 40 Copynumber: 2.3 Consensus size: 40
332969 AAGTAAAACG
* * *
332979 AAAGCTTTATGAGATTCATATGATATTATGCTATAGTCCC
1 AAAGATTTTTGAGATTCATATGATATTATGCCATAGTCCC
333019 AAAGATTTTTGAGATTCATATGATATTATGCCATAGTCCC
1 AAAGATTTTTGAGATTCATATGATATTATGCCATAGTCCC
*
333059 AAAGATATTTG
1 AAAGATTTTTG
333070 GCTTTTCTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (40 bp):
AAAGATTTTTGAGATTCATATGATATTATGCCATAGTCCC
Found at i:348404 original size:14 final size:14
Alignment explanation
Indices: 348385--348411 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
348375 CCTTCTAGAA
348385 TTGTTGATTGGACG
1 TTGTTGATTGGACG
348399 TTGTTGATTGGAC
1 TTGTTGATTGGAC
348412 TTTCAAGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.33, T:0.44
Consensus pattern (14 bp):
TTGTTGATTGGACG
Found at i:349628 original size:27 final size:29
Alignment explanation
Indices: 349582--349638 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
349572 AAATCTTAAT
*
349582 AATTTTATATTTTATATT-AATTTAAATA
1 AATTTTATATTTTATATTAAAATTAAATA
* *
349610 AATTTT-TATTTTTTTTTAAAATTAAATA
1 AATTTTATATTTTATATTAAAATTAAATA
349638 A
1 A
349639 GTCCTTAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.36
28 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
AATTTTATATTTTATATTAAAATTAAATA
Found at i:352242 original size:55 final size:56
Alignment explanation
Indices: 352144--352268 Score: 162
Period size: 55 Copynumber: 2.2 Consensus size: 56
352134 GCTCATTGAA
* *
352144 CATAGGAGCCAACCTAAGGGAGCATCGTGGGTCTATAAAGACTTAACCTAGCAGAAG
1 CATAGGATCC-ACCTAAGGGAGCATCGTGGGTCCATAAAGACTTAACCTAGCAGAAG
** * ** *
352201 TGTAGGATCCACCTAAGGGAGCA-CGTGGGTCCATAAGGACTTGTCCTAGCCGAAG
1 CATAGGATCCACCTAAGGGAGCATCGTGGGTCCATAAAGACTTAACCTAGCAGAAG
352256 CATAGGATCCACC
1 CATAGGATCCACC
352269 AGAGGGGTGT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 38 0.66
56 13 0.22
57 7 0.12
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.18
Consensus pattern (56 bp):
CATAGGATCCACCTAAGGGAGCATCGTGGGTCCATAAAGACTTAACCTAGCAGAAG
Found at i:369210 original size:18 final size:18
Alignment explanation
Indices: 369186--369228 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
369176 GCTCTAATAT
*
369186 TTTTTTTATATTTTCTTTA
1 TTTTTTTATATTTTC-TGA
*
369205 TTTTTTTGTATTTTCTGA
1 TTTTTTTATATTTTCTGA
369223 TTTTTT
1 TTTTTT
369229 AATAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTTTTATATTTTCTGA
Found at i:372333 original size:14 final size:14
Alignment explanation
Indices: 372295--372325 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
372285 AAATAATTAA
*
372295 AATAATATATTTAT
1 AATAATATATTCAT
372309 AATAATATATTCAT
1 AATAATATATTCAT
372323 AAT
1 AAT
372326 TATTTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
AATAATATATTCAT
Found at i:372403 original size:30 final size:30
Alignment explanation
Indices: 372339--372404 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
372329 TTATTATTTT
* * *
372339 TAAATGATTAAATTAATATATCTTGTAATG
1 TAAATAATTAAATTAATATATCTTATAATA
*
372369 TAAATAATTAAA-TAATATATTTTAATAATA
1 TAAATAATTAAATTAATATATCTT-ATAATA
372399 TAAATA
1 TAAATA
372405 TAAAAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.42
Consensus pattern (30 bp):
TAAATAATTAAATTAATATATCTTATAATA
Found at i:372407 original size:24 final size:24
Alignment explanation
Indices: 372380--372436 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
372370 AAATAATTAA
*
372380 ATAATATATTTTAATAATA-TAAAT
1 ATAATATATCTTAA-AATATTAAAT
* *
372404 ATAAAAAATCTTAAAATATTAAAT
1 ATAATATATCTTAAAATATTAAAT
*
372428 ATACTATAT
1 ATAATATAT
372437 ATATATATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATATATCTTAAAATATTAAAT
Found at i:372472 original size:32 final size:32
Alignment explanation
Indices: 372436--372497 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
372426 ATATACTATA
372436 TATATATATATATTATCACCTTTGACGATTTC
1 TATATATATATATTATCACCTTTGACGATTTC
* *
372468 TATATTTCTATATTATCACCTTTGACGATT
1 TATATATATATATTATCACCTTTGACGATT
372498 GAAATGTCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (32 bp):
TATATATATATATTATCACCTTTGACGATTTC
Found at i:374689 original size:17 final size:17
Alignment explanation
Indices: 374669--374728 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 17
374659 ATTTATTTAT
374669 ATATTTTATTTAGAATAA
1 ATATTTTATTTAGAAT-A
374687 TATAATTTTATTTAGAAT-
1 -AT-ATTTTATTTAGAATA
*
374705 ATATTAATATTTA-AATTA
1 ATATT-TTATTTAGAA-TA
374723 ATATTT
1 ATATTT
374729 AATACTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
16 5 0.14
17 9 0.26
18 5 0.14
19 2 0.06
20 14 0.40
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATTTTATTTAGAATA
Found at i:374696 original size:20 final size:21
Alignment explanation
Indices: 374666--374705 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
374656 CTAATTTATT
374666 TATATATTTTATTTAGAATAA
1 TATATATTTTATTTAGAATAA
374687 TATA-ATTTTATTTAGAATA
1 TATATATTTTATTTAGAATA
374706 TATTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATATATTTTATTTAGAATAA
Found at i:374760 original size:12 final size:13
Alignment explanation
Indices: 374739--374793 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
374729 AATACTATTA
374739 ATTT-TTATATA-
1 ATTTATTATATAT
374750 ATTTATTATATAT
1 ATTTATTATATAT
*
374763 ATATATATATATAT
1 ATTTAT-TATATAT
*
374777 ATTT-TATATTTAT
1 ATTTAT-TATATAT
374790 ATTT
1 ATTT
374794 CATTTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 4 0.11
12 7 0.18
13 17 0.45
14 10 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTATTATATAT
Found at i:374806 original size:10 final size:10
Alignment explanation
Indices: 374784--374817 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
374774 TATATTTTAT
374784 ATTTATATTTC
1 ATTTAT-TTTC
374795 ATTTATTTTC
1 ATTTATTTTC
374805 ATTTA-TTTC
1 ATTTATTTTC
374814 ATTT
1 ATTT
374818 GCATTTCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 8 0.35
10 9 0.39
11 6 0.26
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATTTTC
Found at i:376753 original size:30 final size:31
Alignment explanation
Indices: 376717--376792 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
376707 TTTATTTAAG
*
376717 TATTTAAAGTATTTTTTTTA-TCAAAATAAA
1 TATTTAAAGTATTTTTTTTAGACAAAATAAA
* *
376747 TATTTAAAGT-TATCTTTTTAGACAAAATAGA
1 TATTTAAAGTAT-TTTTTTTAGACAAAATAAA
**
376778 TACATAAAGTATTTT
1 TATTTAAAGTATTTT
376793 ATATTATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
29 1 0.03
30 17 0.46
31 18 0.49
32 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (31 bp):
TATTTAAAGTATTTTTTTTAGACAAAATAAA
Found at i:376773 original size:31 final size:30
Alignment explanation
Indices: 376717--376790 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
376707 TTTATTTAAG
* *
376717 TATTTAAAGTATTTTTTTTATCAAAATAAA
1 TATTTAAAGTATTCTTTTTAACAAAATAAA
*
376747 TATTTAAAGT-TATCTTTTTAGACAAAATAGA
1 TATTTAAAGTAT-TCTTTTTA-ACAAAATAAA
**
376778 TACATAAAGTATT
1 TATTTAAAGTATT
376791 TTATATTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.03
30 17 0.47
31 17 0.47
32 1 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (30 bp):
TATTTAAAGTATTCTTTTTAACAAAATAAA
Found at i:384184 original size:84 final size:84
Alignment explanation
Indices: 384089--384245 Score: 262
Period size: 84 Copynumber: 1.9 Consensus size: 84
384079 GGGGGAATCA
*
384089 GTTCCCTCCGAGCATACTGGAATTTCTCGA-AGCCAAACTATTCAGGGGGAATCGGTACCCCCTT
1 GTTCCCTCCGAGCATACTGGAATTTCT-GAGAGCCAAACCATTCAGGGGGAATCGGTACCCCCTT
384153 GGGGGGGGGGGGAGGAGTCG
65 GGGGGGGGGGGGAGGAGTCG
* *
384173 GTTCCCTCCGAGCATACTGGAATTTCTGAGAGCCAAACCATTTAGGGGGAATCGGTACCCTCTTG
1 GTTCCCTCCGAGCATACTGGAATTTCTGAGAGCCAAACCATTCAGGGGGAATCGGTACCCCCTTG
*
384238 GGTGGGGG
66 GGGGGGGG
384246 AATCGGTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
83 2 0.03
84 66 0.97
ACGTcount: A:0.20, C:0.24, G:0.34, T:0.22
Consensus pattern (84 bp):
GTTCCCTCCGAGCATACTGGAATTTCTGAGAGCCAAACCATTCAGGGGGAATCGGTACCCCCTTG
GGGGGGGGGGGAGGAGTCG
Found at i:388797 original size:22 final size:21
Alignment explanation
Indices: 388755--388794 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
388745 GAGTTTGTTT
*
388755 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
388776 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
388795 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:390292 original size:19 final size:19
Alignment explanation
Indices: 390268--390312 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
390258 CCAAATTCTT
*
390268 GAGAACACTCTCTCCTAAA
1 GAGAACACTCTCTCCCAAA
390287 GAGAACACTCTCTCCCAAA
1 GAGAACACTCTCTCCCAAA
390306 GAGAACA
1 GAGAACA
390313 ATACAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.31, G:0.13, T:0.16
Consensus pattern (19 bp):
GAGAACACTCTCTCCCAAA
Found at i:390815 original size:77 final size:76
Alignment explanation
Indices: 390720--390885 Score: 262
Period size: 77 Copynumber: 2.2 Consensus size: 76
390710 CGACCGTTGA
*
390720 TCAGGGGGAATCGGTACCCCCTTGGGGGGGAA-TCGGTTCCCTCCGAGCATACGGGAATTTCTCA
1 TCAGGGGGAATCGATACCCCCTT-GGGGGGAAGTCGGTTCCCTCCGAGCATACGGGAATTTCTCA
390784 GAGCCAAACCAT
65 GAGCCAAACCAT
* ** *
390796 TCAGGGGGGAATCGATACCCCCTTGGGGGGAAGTCGGTTCCCTTCGAGCATATTGGAATTTCTCG
1 TCA-GGGGGAATCGATACCCCCTTGGGGGGAAGTCGGTTCCCTCCGAGCATACGGGAATTTCTCA
390861 GAGCCAAACCAT
65 GAGCCAAACCAT
390873 TCAGGGGGAATCG
1 TCAGGGGGAATCG
390886 GTTCCCTCTG
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
76 21 0.25
77 62 0.75
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.21
Consensus pattern (76 bp):
TCAGGGGGAATCGATACCCCCTTGGGGGGAAGTCGGTTCCCTCCGAGCATACGGGAATTTCTCAG
AGCCAAACCAT
Found at i:392015 original size:46 final size:46
Alignment explanation
Indices: 391963--392265 Score: 457
Period size: 46 Copynumber: 6.6 Consensus size: 46
391953 TGTTATCATC
** * *
391963 AAGGCATGAAATAATGTCATAACTAAAATGCATGAACGTATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
*
392009 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGAT-TATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
*
392054 AAGGCATGAAAGGATGCCATAATTAAAATGCATGAACGGATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* ** *
392100 AAGGCGTGAAAGGATGCCATAACTAAAATGCATGAACAAATACATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* * *
392146 AAGGCATGAAAGAATGTCATAACTAAAATGCATGAACGAATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
392192 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
1 AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
* *
392238 AAGGCATGAAA-GAGGCTATAACTAAAAT
1 AAGGCATGAAAGGATGCCATAACTAAAAT
392266 TAATTAATAA
Statistics
Matches: 234, Mismatches: 22, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
45 58 0.25
46 176 0.75
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (46 bp):
AAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATT
Found at i:392294 original size:138 final size:137
Alignment explanation
Indices: 391980--392265 Score: 385
Period size: 137 Copynumber: 2.1 Consensus size: 137
391970 GAAATAATGT
* ** * * ** *
391980 CATAACTAAAATGCATGAACGTATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAA
1 CATAACTAAAATGAATGAACAAATACATGAAGAAATGAAAGAATGCCATAACTAAAATGCATGAA
* * * *
392045 CGGATTATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACGGATGCATTAAGGCGTGAA
66 CGAATCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAA
*
392110 AGGATGC
131 AGGAGGC
* * ** *
392117 CATAACTAAAATGCATGAACAAATACATTAAGGCATGAAAGAATGTCATAACTAAAATGCATGAA
1 CATAACTAAAATGAATGAACAAATACATGAAGAAATGAAAGAATGCCATAACTAAAATGCATGAA
392182 CGAATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGA
66 CGAAT-CATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGA
392247 AA-GAGGC
130 AAGGAGGC
*
392254 TATAACTAAAAT
1 CATAACTAAAAT
392266 TAATTAATAA
Statistics
Matches: 137, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
137 79 0.58
138 58 0.42
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (137 bp):
CATAACTAAAATGAATGAACAAATACATGAAGAAATGAAAGAATGCCATAACTAAAATGCATGAA
CGAATCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAA
AGGAGGC
Found at i:394897 original size:15 final size:15
Alignment explanation
Indices: 394879--394908 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
394869 TTTGACTATG
*
394879 GATATTTTAATGGAA
1 GATATTTCAATGGAA
394894 GATATTTCAATGGAA
1 GATATTTCAATGGAA
394909 ATTGGTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (15 bp):
GATATTTCAATGGAA
Found at i:396447 original size:21 final size:20
Alignment explanation
Indices: 396425--396473 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
396415 GATTTTGATA
396425 AAACTCATAGGTTCGGGTCT
1 AAACTCATAGGTTCGGGTCT
* * *
396445 AAATTCATTGGGTTCGGGTCG
1 AAACTCA-TAGGTTCGGGTCT
396466 AAACTCAT
1 AAACTCAT
396474 GGGTAATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (20 bp):
AAACTCATAGGTTCGGGTCT
Found at i:396877 original size:2 final size:2
Alignment explanation
Indices: 396870--396901 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
396860 TTTTTCATGT
396870 TA TA 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
396902 CATGAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:397327 original size:20 final size:20
Alignment explanation
Indices: 397291--397342 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
397281 TAGTCAAATT
*
397291 ACCCATGAGTTTCGACCCGA
1 ACCCATGAGTTTAGACCCGA
397311 ACCCAATGA-TTTAGACCCGA
1 ACCC-ATGAGTTTAGACCCGA
*
397331 ACCTATGAGTTT
1 ACCCATGAGTTT
397343 TTCAAAATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (20 bp):
ACCCATGAGTTTAGACCCGA
Found at i:398873 original size:14 final size:15
Alignment explanation
Indices: 398846--398874 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
398836 AATTACCAAT
398846 TTCCATTGAAATATC
1 TTCCATTGAAATATC
398861 TTCCATT-AAATATC
1 TTCCATTGAAATATC
398875 CATAGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.41
Consensus pattern (15 bp):
TTCCATTGAAATATC
Done.