Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008594.1 Hibiscus syriacus cultivar Beakdansim tig00111543_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: 1173925
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:663481 original size:51 final size:49
Alignment explanation
Indices: 663261--663480 Score: 368
Period size: 49 Copynumber: 4.4 Consensus size: 49
663251 CTAAGACACA
* *
663261 TTAAACAAATATATATGTATATGAACAAAGAATCAGTTTCCAAGACATG
1 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
663310 TTAAACAAATATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
1 TTAAAC-AA-ATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
663361 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
1 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
**
663410 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACACA
1 TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
* *
663459 TTAAATATATATATATATATAT
1 TTAAACAAATATATATATATAT
663481 ATATACACGT
Statistics
Matches: 163, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
49 114 0.70
50 4 0.02
51 45 0.28
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.30
Consensus pattern (49 bp):
TTAAACAAATATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
Found at i:663588 original size:295 final size:296
Alignment explanation
Indices: 663051--663589 Score: 880
Period size: 295 Copynumber: 1.8 Consensus size: 296
663041 ATGCCTATTC
663051 TTCCTAAGACATGTTAAACAAATATATATATATATATATGAACAAAAAAAATCAGTTTCCAAGAC
1 TTCCTAAGACATGTTAAAC-AATATATATATATATATATGAAC-AAAAAAATCAGTTTCCAAGAC
663116 ACATTAAATAAATATATATATATATATATGAACAAAAAATCAGTTTCCAAGACACATTAAATAAA
64 ACATTAAATAAATATATATATATATATATGAACAAAAAATCAGTTTCCAAGACACATTAAATAAA
*
663181 AATATATATATACGTTTAACAAATATCCAACTAAGCTATATGTTAAACAAATAAATAATGGCTAT
129 AATATATATATACGTTTAACAAATATCCAACTAAACTATATGTTAAACAAATAAATAATGGCTAT
*
663246 TCTTCCTAAGACACATTAAACAAATATATATGTATATGAACAAAGAATCAGTTTCCAAGACATGT
194 TCTTCCTAAAACACATTAAACAAATATATATGTATATGAACAAAGAATCAGTTTCCAAGACATGT
663311 TAAACAAATATATATATATATATGAACAAAAAATCAGT
259 TAAACAAATATATATATATATATGAACAAAAAATCAGT
*
663349 TTCC-AAGACATGTTAAAC-A-A-ATATATATATATATGAAC-AAAAAATCAGTTTCCAAGACAT
1 TTCCTAAGACATGTTAAACAATATATATATATATATATGAACAAAAAAATCAGTTTCCAAGACAC
* *
663409 GTT-AA-ACA-A-ATATATATATATATGAACAAAAAATCAGTTTCCAAGACACATTAAATATATA
66 ATTAAATAAATATATATATATATATATGAACAAAAAATCAGTTTCCAAGACACATT-AA-ATA-A
663470 TATATATATATATATACACGTTTAACAAATATCCAACTAAACTATATGTTAAACAAATAAATAAT
128 -A-A-ATATATATAT--ACGTTTAACAAATATCCAACTAAACTATATGTTAAACAAATAAATAAT
663535 GGCTATTCTTCCTAAAACACATTAAACAAATATATATGTATATGAACAAAGAATC
188 GGCTATTCTTCCTAAAACACATTAAACAAATATATATGTATATGAACAAAGAATC
663590 TAAACAAGCA
Statistics
Matches: 228, Mismatches: 5, Indels: 19
0.90 0.02 0.08
Matches are distributed among these distances:
287 43 0.19
288 3 0.01
289 5 0.02
290 3 0.01
291 24 0.11
292 1 0.00
293 28 0.12
294 1 0.00
295 102 0.45
297 14 0.06
298 4 0.02
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (296 bp):
TTCCTAAGACATGTTAAACAATATATATATATATATATGAACAAAAAAATCAGTTTCCAAGACAC
ATTAAATAAATATATATATATATATATGAACAAAAAATCAGTTTCCAAGACACATTAAATAAAAA
TATATATATACGTTTAACAAATATCCAACTAAACTATATGTTAAACAAATAAATAATGGCTATTC
TTCCTAAAACACATTAAACAAATATATATGTATATGAACAAAGAATCAGTTTCCAAGACATGTTA
AACAAATATATATATATATATGAACAAAAAATCAGT
Found at i:664052 original size:15 final size:15
Alignment explanation
Indices: 664032--664064 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
664022 TAGTGTGACT
664032 AAAATATAAATA-TTA
1 AAAATA-AAATACTTA
664047 AAAATAAAATACTTA
1 AAAATAAAATACTTA
664062 AAA
1 AAA
664065 CAAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAATACTTA
Found at i:665417 original size:3 final size:3
Alignment explanation
Indices: 665411--665471 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
665401 TAAATACACT
* *
665411 TAA TAA TAC TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
665459 TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TA
665472 TTTTTTAACT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
2 1 0.02
3 50 0.98
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:665775 original size:105 final size:105
Alignment explanation
Indices: 665641--665875 Score: 436
Period size: 105 Copynumber: 2.2 Consensus size: 105
665631 TCTCGTGGAT
*
665641 GAGTTCTTCTCATTATGAACTCTTTTGGAAACGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAACGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
665706 AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
66 AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
* *
665746 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGATCCAAATCCTTTTTCGGTGGACTTAGAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAACGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
665811 AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
66 AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
665851 GAGTTCTTCTCATTATGAACT-TTCT
1 GAGTTCTTCTCATTATGAACTCTTCT
665876 CCTTTAGGAC
Statistics
Matches: 127, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
104 4 0.03
105 123 0.97
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAACGTTGATCCAAATCCTTTTGCGGTGGACTTAGAA
AGAACATGTTTTTCTCATTATGAACTTTCTCCTTTAGGAC
Found at i:665868 original size:35 final size:35
Alignment explanation
Indices: 665822--665906 Score: 170
Period size: 35 Copynumber: 2.4 Consensus size: 35
665812 GAACATGTTT
665822 TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
1 TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
665857 TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
1 TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
665892 TTCTCATTATGAACT
1 TTCTCATTATGAACT
665907 CTTCACTGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (35 bp):
TTCTCATTATGAACTTTCTCCTTTAGGACGAGTTC
Found at i:666063 original size:136 final size:136
Alignment explanation
Indices: 665855--666191 Score: 540
Period size: 136 Copynumber: 2.5 Consensus size: 136
665845 TAGGACGAGT
* * * *
665855 TCTTCTCATTATGAAC-T-TTCT-CCT-T-TAGGACGAGTTCTTCTCATTATGAACTCTTCACTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
** * * *
665915 GAAATGTTGATCCCTCAAGCGAGGTGTCACTGATTCGAAATGTTATGAATCGAGTGATAGGTCGA
66 GAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGATAGGTCGA
665980 ACAAGC
131 ACAAGC
665986 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
* *
666051 GAAATACTGATCCTTCAAGCAAGGTGTCACTGATTCAAAATGTCGTGAATCGAGTGATAGGTCGA
66 GAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGATAGGTCGA
666116 ACAAGC
131 ACAAGC
666122 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
1 TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
666187 GAAAT
66 GAAAT
666192 GCTGGTTCAC
Statistics
Matches: 190, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
131 16 0.08
132 1 0.01
133 4 0.02
134 3 0.02
135 1 0.01
136 165 0.87
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (136 bp):
TCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTG
GAAATACTGATCCCTCAAGCAAGGTGTCACTGATTCAAAATGTCATGAATCGAGTGATAGGTCGA
ACAAGC
Found at i:667091 original size:13 final size:14
Alignment explanation
Indices: 667074--667113 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
667064 CCTTTTTCTC
667074 TTTTCATTTTTTCA
1 TTTTCATTTTTTCA
*
667088 -TTTCTTTTTTTCA
1 TTTTCATTTTTTCA
667101 TTTTTCATTTTTT
1 -TTTTCATTTTTT
667114 TTCATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 12 0.55
15 10 0.45
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCATTTTTTCA
Found at i:667097 original size:20 final size:20
Alignment explanation
Indices: 667074--667176 Score: 101
Period size: 20 Copynumber: 5.2 Consensus size: 20
667064 CCTTTTTCTC
667074 TTTTCA-TTTTTTCATTTCTTT
1 TTTTCATTTTTTTCA-TT-TTT
667095 TTTTCA--TTTTTCA-TTTT
1 TTTTCATTTTTTTCATTTTT
667112 TTTTCATTTTTTTTCA-TTTT
1 TTTTCA-TTTTTTTCATTTTT
667132 TTTTCATTTTTTTTCATTTTT
1 TTTTCA-TTTTTTTCATTTTT
* **
667153 TTTT-TTTTTTTTCCCTTTT
1 TTTTCATTTTTTTCATTTTT
667172 TTTTC
1 TTTTC
667177 TTCAAGCATA
Statistics
Matches: 74, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
17 9 0.12
18 1 0.01
19 16 0.22
20 34 0.46
21 14 0.19
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCATTTTTTTCATTTTT
Found at i:667105 original size:10 final size:10
Alignment explanation
Indices: 667101--667176 Score: 118
Period size: 10 Copynumber: 7.6 Consensus size: 10
667091 CTTTTTTTCA
667101 TTTTTCATTT
1 TTTTTCATTT
667111 TTTTTCATTT
1 TTTTTCATTT
667121 TTTTTCATTT
1 TTTTTCATTT
667131 TTTTTCATTT
1 TTTTTCATTT
667141 TTTTTCATTT
1 TTTTTCATTT
*
667151 TTTTT-TTTT
1 TTTTTCATTT
*
667160 TTTTTCCCTTT
1 TTTTT-CATTT
667171 TTTTTC
1 TTTTTC
667177 TTCAAGCATA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
9 8 0.13
10 46 0.74
11 8 0.13
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:667164 original size:30 final size:30
Alignment explanation
Indices: 667080--667176 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
667070 TCTCTTTTCA
* **
667080 TTTTTTCATTTCTTTTTTTCATTTTTCATT
1 TTTTTTCATTTTTTTTTTTTTTTTTTCATT
**
667110 TTTTTTCATTTTTTTTCATTTTTTTTCATT
1 TTTTTTCATTTTTTTTTTTTTTTTTTCATT
* *
667140 TTTTTTCATTTTTTTTTTTTTTTTTCCCTT
1 TTTTTTCATTTTTTTTTTTTTTTTTTCATT
667170 TTTTTTC
1 TTTTTTC
667177 TTCAAGCATA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (30 bp):
TTTTTTCATTTTTTTTTTTTTTTTTTCATT
Found at i:678933 original size:24 final size:24
Alignment explanation
Indices: 678906--678951 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
678896 AATGGAACAT
678906 TATACTTATTAAATAAATGATAAC
1 TATACTTATTAAATAAATGATAAC
678930 TATACTTATTAAATAAATGATA
1 TATACTTATTAAATAAATGATA
678952 TAAAGAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
TATACTTATTAAATAAATGATAAC
Found at i:679405 original size:47 final size:47
Alignment explanation
Indices: 679324--679534 Score: 350
Period size: 47 Copynumber: 4.4 Consensus size: 47
679314 CTAAGACACA
*
679324 TTAAACAAATATATATGTATATGAACAAAGAATCAGTTTCCAAGACATG
1 TTAAACAAATATATA--TATATGAACAAAAAATCAGTTTCCAAGACATG
679373 TTAAACAAATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
1 TTAAACAAATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
679420 TTAAACAAATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
1 TTAAACAAATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
**
679467 TTAAACAAATATATATATATGAACAAAAAATCAGTTTCCAAGACACA
1 TTAAACAAATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
* *
679514 TTATAATATATATATATATAT
1 TTA-AACAAATATATATATAT
679535 ATATATATAT
Statistics
Matches: 156, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
47 126 0.81
48 15 0.10
49 15 0.10
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.30
Consensus pattern (47 bp):
TTAAACAAATATATATATATGAACAAAAAATCAGTTTCCAAGACATG
Found at i:679526 original size:2 final size:2
Alignment explanation
Indices: 679515--679547 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
679505 CAAGACACAT
679515 TA TA -A 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
679548 GTTTAACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:680109 original size:15 final size:15
Alignment explanation
Indices: 680089--680121 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
680079 TAGTGTGACT
680089 AAAATATAAATA-TTA
1 AAAATA-AAATACTTA
680104 AAAATAAAATACTTA
1 AAAATAAAATACTTA
680119 AAA
1 AAA
680122 CAAAATAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAATACTTA
Found at i:681469 original size:3 final size:3
Alignment explanation
Indices: 681463--681508 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
681453 TAAATACACT
* *
681463 TAA TAA TAC TAA TAA TAA TAA TAA TAA TAA TAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
681509 TTTTTTAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:683464 original size:84 final size:84
Alignment explanation
Indices: 683299--684530 Score: 1274
Period size: 84 Copynumber: 14.9 Consensus size: 84
683289 TCTTAGACAA
* * * * * * *
683299 CATTTACAGCATAACTCAAGACTAGAAGGGTTATATGCCAA-CATAGACCTTCGAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
683363 GCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCATAT
*
683382 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACCAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
683447 GCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCATAT
* * * * ** * *
683466 CATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAATAAAAGACCTTTGAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
683531 GCTCAGCTCCGAGGCACAT
66 GCTCAGCTCCAAGGCATAT
* * *
683550 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * *
683611 ACTCAGCTTCGAGGGCATAT
66 GCTCAGC-TCCAAGGCATAT
* * * * *
683631 CATTTGCAGCATAACTTAAGTCTAGAAGGGTTGTCAGCCAACAAAAGACCTTTGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
683696 GCTCAGCTCCGAGGCACAT
66 GCTCAGCTCCAAGGCATAT
* * * ***
683715 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCTTCAAGTT-TTTTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * *
683775 ACTTAGCTTCGAGGGCATAT
66 GCTCAGC-TCCAAGGCATAT
* * * *
683795 CATTTGCAGCATAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* * * *
683860 ACTCAGCTTCGAGGGCACAT
66 GCTCAGC-TCCAAGGCATAT
* *
683880 CATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
*
683945 GCTCAGCACCAAGGCATAT
66 GCTCAGCTCCAAGGCATAT
* * * * *
683964 CATTTGCAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
684029 GCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCATAT
* * * * * * * *
684048 CATTTACAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTAG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
* *
684113 GCTCAGCTCCGAGGCACAT
66 GCTCAGCTCCAAGGCATAT
* * * *
684132 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CTA--AAAGA-GTTCGA-TT--AC-A-
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
** *
684188 -CTCAGCTCTGAGGCACAT
66 GCTCAGCTCCAAGGCATAT
* * * *
684206 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTACCTG----CCAAAGA-CTCTCGAGTTCGATTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCT-TCGAGTTCGACTA
* * * *
684266 CACTCAGCTTCGAGGGCACAT
65 CGCTCAGC-TCCAAGGCATAT
* * * * **
684287 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTCGAGTTCGACTA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTCGAGTTCGACTA
684351 CGCTCAGCTCCAAGGCATAT
65 CGCTCAGCTCCAAGGCATAT
* * * * *
684371 CATTTGCAACATAACTTAAGTCGAGAAGGGTTACCTACCAACCGAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
** * * *
684436 ATTCAGCTCAAAGGCAAAA
66 GCTCAGCTCCAAGGCATAT
* * * * *
684455 CAAATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCGAAGACCTTCGAGTTCGATT
1 C--ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
*
684520 ACACTCAGCTC
64 ACGCTCAGCTC
684531 AGAGGCAAAC
Statistics
Matches: 968, Mismatches: 151, Indels: 57
0.82 0.13 0.05
Matches are distributed among these distances:
73 6 0.01
74 57 0.06
75 2 0.00
76 1 0.00
77 3 0.00
78 1 0.00
79 10 0.01
80 90 0.09
81 84 0.09
83 38 0.04
84 467 0.48
85 141 0.15
86 68 0.07
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (84 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCATAT
Found at i:683844 original size:249 final size:250
Alignment explanation
Indices: 683299--684529 Score: 1363
Period size: 249 Copynumber: 5.0 Consensus size: 250
683289 TCTTAGACAA
* * * * *
683299 CATTTACAGCATAACTCAAGACTAGAAGGGTTATATGCCAAC-ATAGACCTTCGAGTTTGACTAC
1 CATTTACAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
*
683363 GCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
66 GCTCAGCTTCGAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
* * * * * *
683427 AGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCATATCATTTGCAGTACAACTTAAGTCTAGA
131 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
* * * * * *
683492 AGGGTTGTCTGCCAATAAAAGACCTTTGAGTTTGACTACGCTCAGCTCCGA-GGCACAT
196 AGGGCTATCTGCC----AAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACAT
* * * * *
683550 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * * * *
683611 ACTCAGCTTCGAGGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGGGTTGTCAGCCAACAAA
66 GCTCAGCTTCGAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
* *
683676 AGACCTTTGAGTTCGACTACGCTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
131 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
* *** * *
683741 AGGGCTATCTGCCAAAGACCTTCAAGTT-TTTTACACTTAGCTTCGAGGGCATAT
196 AGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACAT
* * *
683795 CATTTGCAGCATAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * *
683860 ACTCAGCTTCGAGGGCACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
66 GCTCAGCTTCGAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
* * * * * * *
683925 AGACCTTCGAGTTTGACTACGCTCAGCACCAAGGCATATCATTTGCAGTACAACTTAAGTCTAGA
131 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
* * * * * *
683990 AGGGTTGTCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATAT
196 AGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACAT
* * * * *
684048 CATTTACAGTACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTAG
1 CATTTACAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * * *
684113 GCTCAGCTCCG-AGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CTA--AA
66 GCTCAGCTTCGAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
* **
684174 AGA-GTTCGA-TT--AC-A--CTCAGCTCTGAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
131 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
* *
684232 AGGGCTACCTGCCAAAGA-CTCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
196 AGGGCTATCTGCCAAAGACCT-TCGAGTTCGACTACACTCAGCTTCGAGGGCACAT
* * ** *
684287 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
* * * * *
684352 GCTCAGC-TCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGGTTACCTACCAACCGA
66 GCTCAGCTTCGAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
* ** * * * *
684416 AGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAAAACAAATTTGTAGCATAGCTTAAGTCGA
131 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC--ATTTGCAGCATAGCTTAAGTCGA
*
684481 GAAGGGCTATCTGCCAACCGAAGACCTTCGAGTTCGATTACACTCAGCT
194 GAAGGGCTATCTGCC-A---AAGACCTTCGAGTTCGACTACACTCAGCT
684530 CAGAGGCAAA
Statistics
Matches: 825, Mismatches: 124, Indels: 58
0.82 0.12 0.06
Matches are distributed among these distances:
237 2 0.00
238 25 0.03
239 111 0.13
240 2 0.00
241 1 0.00
242 48 0.06
243 5 0.01
244 15 0.02
245 54 0.07
246 2 0.00
247 3 0.00
248 32 0.04
249 284 0.34
250 2 0.00
251 68 0.08
252 43 0.05
253 92 0.11
254 8 0.01
255 26 0.03
256 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (250 bp):
CATTTACAGCATAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTTCGAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAA
AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
AGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACACTCAGCTTCGAGGGCACAT
Found at i:684222 original size:74 final size:74
Alignment explanation
Indices: 684114--684400 Score: 286
Period size: 74 Copynumber: 3.6 Consensus size: 74
684104 TTCGACTAGG
* *
684114 CTCAGCTCCGAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAAGAGT
1 CTCAGCTCCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAAGAGT
684179 TCGATTACA
66 TCGATTACA
* * *
684188 CTCAGCTCTGAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTACCTGCCAAAGACTC
1 CTCAGCTCCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAA-A---
684253 TCGAGTTCGATTACA
62 --GAGTTCGATTACA
* * * * * *
684268 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
1 CTCAGCTCCGA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC--TG-CCAAAA
*
684333 GACCTTCGAGTTCGACTA
62 GA-GTTCGA-TT--AC-A
* * *
684351 CGCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGG
1 --CTCAGCTCCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
684401 TTACCTACCA
Statistics
Matches: 175, Mismatches: 21, Indels: 24
0.80 0.10 0.11
Matches are distributed among these distances:
74 57 0.33
75 1 0.01
78 2 0.01
79 5 0.03
80 24 0.14
81 35 0.20
82 2 0.01
83 4 0.02
84 36 0.21
85 9 0.05
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (74 bp):
CTCAGCTCCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAAGAGT
TCGATTACA
Found at i:684517 original size:86 final size:84
Alignment explanation
Indices: 684175--684579 Score: 390
Period size: 86 Copynumber: 4.8 Consensus size: 84
684165 TCTGCTAAAA
** * *
684175 GAGTTCGATTACACTCAGCTCTGAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAC
1 GAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
684240 CTGCC-A---AAGA-CTCTC
66 CTGCCAACCGAAGACCT-TC
* * * * * * * * *
684255 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTA
1 GAGTTCGATTACACTCAGC-TCAAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
** *
684320 TCTG-TGACCAAAAGACCTTC
65 TCTGCCAACC-GAAGACCTTC
* * * * * * * *
684340 GAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAACATAACTTAAGTCGAGAAGGGTTAC
1 GAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
*
684405 CTACCAACCGAAGACCTTC
66 CTGCCAACCGAAGACCTTC
* * *
684424 GAGTTCGATTACATTCAGCTCAAAGGCAAAACAAATTTGTAGCATAGCTTAAGTCGAGAAGGGCT
1 GAGTTCGATTACACTCAGCTCAAAGGCAAATC--ATTTGCAGCATAGCTTAAGTCGAGAAGGGCT
684489 ATCTGCCAACCGAAGACCTTC
64 ATCTGCCAACCGAAGACCTTC
* * * * * * *
684510 GAGTTCGATTACACTCAGCTCAGAGGCAAACCAAGTTTACAGAATAGCTCAAGGCAAGAAGGGCT
1 GAGTTCGATTACACTCAGCTCAAAGGCAAATC-A-TTTGCAGCATAGCTTAAGTCGAGAAGGGCT
684575 ATCTG
64 ATCTG
684580 TCAAAAAAAT
Statistics
Matches: 267, Mismatches: 47, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
80 19 0.07
81 40 0.15
84 74 0.28
85 28 0.10
86 106 0.40
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (84 bp):
GAGTTCGATTACACTCAGCTCAAAGGCAAATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
CTGCCAACCGAAGACCTTC
Found at i:685172 original size:2 final size:2
Alignment explanation
Indices: 685165--685205 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
685155 TTTTATTTAG
685165 AT AT AT AT AT 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 AT AT AT AT AT A
685206 ATTTTGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:685358 original size:38 final size:38
Alignment explanation
Indices: 685189--685520 Score: 360
Period size: 38 Copynumber: 8.8 Consensus size: 38
685179 ATATATATAT
* *
685189 ATATATATATATATATAATTTTGAAAACATTTTG-AAA-
1 ATATATATAT-TATATAGTTTTTAAAACATTTTGAAAAC
*
685226 A-ATATATAGTATATAGTTTTTAAAACATTTTTGAAAAC
1 ATATATATATTATATAGTTTTTAAAACA-TTTTGAAAAC
685264 ATATATATATTATATAGTTTTTAAAACATTTTGAAAA-
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAAAC
685301 A-A-ATATATTATATAGTTTTTAAAACATTTTGAAAAC
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAAAC
* *
685337 ATATATATATTATATAATTTTTAAAACATTTTAAAAAC
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAAAC
* * * *
685375 ATATATATGTTATATAATTTTTAAAACGTGTTTGAAAAT
1 ATATATATATTATATAGTTTTTAAAACAT-TTTGAAAAC
* * *
685414 ATAAATATAATATATGGTTTTTAAAACAATTTTTG-AAA-
1 ATATATATATTATATAGTTTTTAAAAC-A-TTTTGAAAAC
* * * ***
685452 ATATATATAATATATAGTTTTAAAAATTATTTTTTTAAC
1 ATATATATATTATATAGTTTTTAAAA-CATTTTGAAAAC
* *
685491 --ATATATATTATATAGTTTTAAAAATATTTT
1 ATATATATATTATATAGTTTTTAAAACATTTT
685521 TCATTGTATT
Statistics
Matches: 259, Mismatches: 23, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
35 49 0.19
36 20 0.08
37 33 0.13
38 95 0.37
39 57 0.22
40 4 0.02
41 1 0.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (38 bp):
ATATATATATTATATAGTTTTTAAAACATTTTGAAAAC
Found at i:685597 original size:36 final size:37
Alignment explanation
Indices: 685527--685597 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 37
685517 TTTTTCATTG
* *
685527 TATTTATTTATTTATTATTATTATTTCATTTTTTTTA
1 TATTTATTTACTTATTATTATTATTTCATCTTTTTTA
* *
685564 TATTTA-TTACTTATTATTATTTTTTC-TCCTTTTT
1 TATTTATTTACTTATTATTATTATTTCATCTTTTTT
685598 CTCGTTTAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 6 0.20
36 18 0.60
37 6 0.20
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (37 bp):
TATTTATTTACTTATTATTATTATTTCATCTTTTTTA
Found at i:693090 original size:27 final size:27
Alignment explanation
Indices: 693060--693141 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
693050 CAACACACAC
*
693060 ACTTTGGTTTTGAAGATTTCGAACGCA
1 ACTTTGGTTATGAAGATTTCGAACGCA
** * *
693087 ACTTT-GTTAACAAG--GT--AACACA
1 ACTTTGGTTATGAAGATTTCGAACGCA
*
693109 CACTTTGGTTCTGAAGATTTCGAACGCA
1 -ACTTTGGTTATGAAGATTTCGAACGCA
693137 ACTTT
1 ACTTT
693142 AGTCAGAGGT
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
22 5 0.13
23 5 0.13
24 7 0.18
26 7 0.18
27 10 0.26
28 5 0.13
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (27 bp):
ACTTTGGTTATGAAGATTTCGAACGCA
Found at i:697188 original size:13 final size:12
Alignment explanation
Indices: 697172--697215 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
697162 GTTAAAGAAT
*
697172 TATAGTAAATAAA
1 TATAATAAA-AAA
697185 TATAATAAAAAA
1 TATAATAAAAAA
* *
697197 TGTTATAAAAAA
1 TATAATAAAAAA
697209 TATAATA
1 TATAATA
697216 TTTTTATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 18 0.69
13 8 0.31
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (12 bp):
TATAATAAAAAA
Found at i:699018 original size:15 final size:15
Alignment explanation
Indices: 699000--699032 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
698990 AAATTCTAAA
699000 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
699015 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
699030 TAT
1 TAT
699033 ATTTGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:699875 original size:58 final size:58
Alignment explanation
Indices: 699784--699900 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
699774 GAATAAAACT
* * *
699784 TAACTAAACTATATAGGAATTACAATCTGGGATTTTAAACCCAAATCACTAGCAACCC
1 TAACTAAACTACATAGAAATTACAATCTAGGATTTTAAACCCAAATCACTAGCAACCC
699842 TAACTAAACTACATAGAAATTACAATCTAGGATTTTAAACCCAAATCACTAGCAACCC
1 TAACTAAACTACATAGAAATTACAATCTAGGATTTTAAACCCAAATCACTAGCAACCC
699900 T
1 T
699901 TAAACATCTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.43, C:0.23, G:0.09, T:0.26
Consensus pattern (58 bp):
TAACTAAACTACATAGAAATTACAATCTAGGATTTTAAACCCAAATCACTAGCAACCC
Found at i:703532 original size:3 final size:3
Alignment explanation
Indices: 703524--703565 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
703514 TTGATTACCA
703524 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
703566 GTAAGGGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:715977 original size:3 final size:3
Alignment explanation
Indices: 715969--716047 Score: 124
Period size: 3 Copynumber: 26.0 Consensus size: 3
715959 TGGGCTTGTG
*
715969 ATA ATA ATA ATA TTA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
716015 ATA ATA ATA ATA ATA ATA ATA AT- ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
716048 TTTAAATAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
2 2 0.03
3 64 0.90
4 5 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:716053 original size:11 final size:12
Alignment explanation
Indices: 715971--716056 Score: 85
Period size: 12 Copynumber: 7.4 Consensus size: 12
715961 GGCTTGTGAT
*
715971 AATAATAATATT
1 AATAATAATATA
715983 AATAATAA-AT-
1 AATAATAATATA
715993 AATAATAATA-A
1 AATAATAATATA
716004 TAATAATAATA-A
1 -AATAATAATATA
716016 TAATAATAATA-A
1 -AATAATAATATA
716028 TAATAATAATATA
1 -AATAATAATATA
*
716041 AATAAT-ATTTA
1 AATAATAATATA
716052 AATAA
1 AATAA
716057 AAAAATGAGT
Statistics
Matches: 69, Mismatches: 1, Indels: 9
0.87 0.01 0.11
Matches are distributed among these distances:
10 8 0.12
11 12 0.17
12 48 0.70
13 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AATAATAATATA
Found at i:716412 original size:124 final size:124
Alignment explanation
Indices: 716183--716475 Score: 375
Period size: 124 Copynumber: 2.4 Consensus size: 124
716173 GTTGAATAAA
* * *
716183 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---GGATCATGTTGAC
1 TTCTT-TCTTT-TTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGATCATGCTAAC
* * * * * *
716245 CTATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTC
63 ATATCTCCTTCTGTGATAAAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
* * *
716307 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATATA
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATCATGCTAACATA
* *
716372 TCTCCTTCTGTGATAAAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTC
66 TCTCCTTCTGTGATAAAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
*
716431 TTC-TTC---TTCAGATGAGTTTTTCTCATTATGAACTTTCTCTGGAAA
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA
716476 AGCTGATCCA
Statistics
Matches: 151, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
120 38 0.25
121 5 0.03
122 30 0.20
123 8 0.05
124 70 0.46
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (124 bp):
TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGATCATGCTAACATA
TCTCCTTCTGTGATAAAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
Found at i:716733 original size:113 final size:113
Alignment explanation
Indices: 716394--717064 Score: 892
Period size: 113 Copynumber: 6.0 Consensus size: 113
716384 ATAAAATTAT
* * * *
716394 GCAAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAGTTTTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** * * * *
716455 ATTATGAACTTTCTCTGGAAAAGCTGATCCATC-AAGTGATGGATTTGA
66 ATTATGAACTCTAACTGGCAATGCTGATCCATCGAA-TGATGAATTTAA
* *
716503 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGACGAGTTCTT
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * *
716564 CTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTTAA
63 CTCATTATGAACTCTAACTGGCAATGCTGATCCATCGAATGATGAATTTAA
* * * *
716615 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
716680 ATTATGAACTCGAACTGGTAATGCTGATCCATTGAATGATGAATTCAA
66 ATTATGAACTCTAACTGGCAATGCTGATCCATCGAATGATGAATTTAA
*
716728 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
716793 ATTATGAACTCTAACTGGCACTGCTGTTCCACCGAGTGATGAATTTAA
66 ATTATGAACTCTAACTGGCAATGCTGATCCATCGAATGATGAATTTAA
716841 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
716906 ATTATGAACTCTAACTGGCACTGTTGTTCCACCGAGTGATGAATTTAA
66 ATTATGAACTCTAACTGGCAATGCTGATCCATCGAATGATGAATTTAA
716954 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * *
717019 ATTATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGGATTT
66 ATTATGAACTCTAACTGGCAATGCTGATCCATCGAATGATGAATTT
717065 TAATCTTTGC
Statistics
Matches: 509, Mismatches: 44, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
109 46 0.09
112 79 0.16
113 367 0.72
114 1 0.00
115 5 0.01
116 11 0.02
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTAACTGGCAATGCTGATCCATCGAATGATGAATTTAA
Found at i:718559 original size:8 final size:7
Alignment explanation
Indices: 718532--718573 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
718522 TCTTGACCCC
718532 CTTTTTT
1 CTTTTTT
*
718539 CTCTTTT
1 CTTTTTT
718546 -TTTTTT
1 CTTTTTT
718552 CTTATTTT
1 CTT-TTTT
*
718560 ATTTTTT
1 CTTTTTT
718567 CTTTTTT
1 CTTTTTT
718574 TTTCTTCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 5 0.17
7 18 0.62
8 6 0.21
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (7 bp):
CTTTTTT
Found at i:718574 original size:15 final size:14
Alignment explanation
Indices: 718533--718576 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
718523 CTTGACCCCC
*
718533 TTTTTTC-TCTTTT
1 TTTTTTCTTATTTT
718546 TTTTTTCTTATTTT
1 TTTTTTCTTATTTT
718560 ATTTTTTCTT-TTTT
1 -TTTTTTCTTATTTT
718574 TTT
1 TTT
718577 CTTCAAGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 10 0.36
14 9 0.32
15 9 0.32
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTCTTATTTT
Found at i:730083 original size:27 final size:27
Alignment explanation
Indices: 730053--730128 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
730043 TTATATGACT
* **
730053 ATATATAATAATAAAAATAATATTTAA
1 ATATATAATAATAAAAATAAAACGTAA
* *
730080 ATATA-AACAAGTAAAATTAAAACGTAA
1 ATATATAATAA-TAAAAATAAAACGTAA
730107 ATA-ATTAATAATAAAAATAAAA
1 ATATA-TAATAATAAAAATAAAA
730129 TTAGAACTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
26 5 0.13
27 30 0.77
28 4 0.10
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (27 bp):
ATATATAATAATAAAAATAAAACGTAA
Found at i:731059 original size:3 final size:3
Alignment explanation
Indices: 731051--731125 Score: 98
Period size: 3 Copynumber: 24.7 Consensus size: 3
731041 TTTGGGCTTG
* *
731051 TAA TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
731097 TTA TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
731126 TTTAAATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 56 0.89
4 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:732392 original size:20 final size:20
Alignment explanation
Indices: 732368--732418 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
732358 TAATCATACT
732368 AATTTTTTTGTAAT-TTTTCG
1 AATTTTTTT-TAATCTTTTCG
* *
732388 GATTTTTTTTAATCTTTTCT
1 AATTTTTTTTAATCTTTTCG
732408 AATTTTTTTTA
1 AATTTTTTTTA
732419 TATTTCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (20 bp):
AATTTTTTTTAATCTTTTCG
Found at i:734221 original size:3 final size:3
Alignment explanation
Indices: 734213--734275 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
734203 TGATTGGTTT
734213 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
734261 TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA
734276 GGAGGAGGAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:736640 original size:16 final size:16
Alignment explanation
Indices: 736621--736656 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
736611 TTGATTTTTT
* *
736621 GATCGGGTCAGTATCG
1 GATCGGGTCAATACCG
736637 GATCGGGTCAATACCG
1 GATCGGGTCAATACCG
736653 GATC
1 GATC
736657 AGTTGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (16 bp):
GATCGGGTCAATACCG
Found at i:737059 original size:19 final size:19
Alignment explanation
Indices: 737024--737091 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
737014 ATGAGAACTA
737024 TTTTA-TAAAGAAA-TAATT
1 TTTTATTAAA-AAATTAATT
737042 TTTTATTAAAAAATTAATT
1 TTTTATTAAAAAATTAATT
** * *
737061 TTCCAATTATAAATTTAATAT
1 TT-TTATTAAAAAATTAAT-T
737082 TTTTATTAAA
1 TTTTATTAAA
737092 TTTTAAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 8 0.21
19 11 0.28
20 17 0.44
21 3 0.08
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (19 bp):
TTTTATTAAAAAATTAATT
Found at i:737460 original size:16 final size:16
Alignment explanation
Indices: 737439--737483 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
737429 GTTGCTTTGA
737439 TTCGGGTTAATTTCAG
1 TTCGGGTTAATTTCAG
**
737455 TTCGGGTTGCTTTCAG
1 TTCGGGTTAATTTCAG
*
737471 TTCAGGTTAATTT
1 TTCGGGTTAATTT
737484 TGGTTCTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.16, C:0.13, G:0.24, T:0.47
Consensus pattern (16 bp):
TTCGGGTTAATTTCAG
Found at i:738270 original size:17 final size:17
Alignment explanation
Indices: 738250--738288 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
738240 TAATAGTGAG
738250 TTATTATAAATATATTT
1 TTATTATAAATATATTT
738267 TTATTATAAATATATTT
1 TTATTATAAATATATTT
738284 TTATT
1 TTATT
738289 TGTATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTATAAATATATTT
Found at i:738339 original size:3 final size:3
Alignment explanation
Indices: 738331--738357 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
738321 ATATTTATAT
738331 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
738358 TCTCAAGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:739382 original size:26 final size:26
Alignment explanation
Indices: 739329--739382 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
739319 ATTAGGAGAT
* * *
739329 AAATTTTTAAATTTTTAAAAATAGAA
1 AAATTTATAAAATTTTAAAAACAGAA
739355 AAATTTATAAAATTTTAACAAACA-AA
1 AAATTTATAAAATTTTAA-AAACAGAA
739381 AA
1 AA
739383 CAAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (26 bp):
AAATTTATAAAATTTTAAAAACAGAA
Found at i:739407 original size:20 final size:20
Alignment explanation
Indices: 739363--739407 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
739353 AAAAATTTAT
739363 AAAATTTTAACAAACAAAAA
1 AAAATTTTAACAAACAAAAA
* *
739383 CAAATTTTAATAAA-AAATAA
1 AAAATTTTAACAAACAAA-AA
739403 AAAAT
1 AAAAT
739408 ATGAGATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATTTTAACAAACAAAAA
Found at i:743458 original size:14 final size:14
Alignment explanation
Indices: 743439--743472 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
743429 TTTCAATATC
743439 CTGAACCCGATCTT
1 CTGAACCCGATCTT
743453 CTGAACCCGATCTT
1 CTGAACCCGATCTT
*
743467 TTGAAC
1 CTGAAC
743473 ATTTCCTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (14 bp):
CTGAACCCGATCTT
Found at i:745710 original size:107 final size:106
Alignment explanation
Indices: 745519--745724 Score: 342
Period size: 107 Copynumber: 1.9 Consensus size: 106
745509 CCGTAAACTC
* *
745519 TGATTTCTTACTTACTAGACTTCTGCTATGTGAGCATGTAACATTTTTGTAACACCCCCATGCCG
1 TGATCTCTTACTTACTAGACTTCTGATATGTGAGCATGTAACATTTTTGTAACACCCCCAT-CCG
745584 TACCCGACCCAGATACGAATCCGAGGTGTCACATAAACCTGA
65 TACCCGACCCAGATACGAATCCGAGGTGTCACATAAACCTGA
*
745626 TGATCTCTTACTTACTAGACTTCTGATATGTGAGCATGTAATATTTTTGTAACACCCCTCA-CTC
1 TGATCTCTTACTTACTAGACTTCTGATATGTGAGCATGTAACATTTTTGTAACACCCC-CATC-C
*
745690 GTACCCGACCCGGATACGAATCCGAGGTGTCACAT
64 GTACCCGACCCAGATACGAATCCGAGGTGTCACAT
745725 TAACTATTCA
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
106 1 0.01
107 90 0.97
108 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (106 bp):
TGATCTCTTACTTACTAGACTTCTGATATGTGAGCATGTAACATTTTTGTAACACCCCCATCCGT
ACCCGACCCAGATACGAATCCGAGGTGTCACATAAACCTGA
Found at i:746708 original size:64 final size:64
Alignment explanation
Indices: 746635--746858 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 64
746625 TGTTTGAATG
* * * **
746635 TGCACCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTC
746698 A
64 A
* * * **
746699 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
** ** * ** *
746763 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
*
746827 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
746859 ACCTTCATTA
Statistics
Matches: 132, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
63 1 0.01
64 124 0.94
65 7 0.05
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:747182 original size:12 final size:12
Alignment explanation
Indices: 747164--747199 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
747154 TATATATGTT
747164 CATGTGATATGA
1 CATGTGATATGA
*
747176 TATGTGATATGA
1 CATGTGATATGA
*
747188 CCTGTGATATGA
1 CATGTGATATGA
747200 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:747257 original size:29 final size:29
Alignment explanation
Indices: 747215--747288 Score: 114
Period size: 29 Copynumber: 2.6 Consensus size: 29
747205 TGATATGAAG
747215 TGACATGAGCTACATGATCACAAAAGAAA
1 TGACATGAGCTACATGATCACAAAAGAAA
**
747244 TGACATGAGCTACATGATCACAAGTGAAA
1 TGACATGAGCTACATGATCACAAAAGAAA
*
747273 GGACATGAG-TACATGA
1 TGACATGAGCTACATGA
747289 ATATATGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 7 0.17
29 35 0.83
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAAAGAAA
Found at i:747393 original size:15 final size:15
Alignment explanation
Indices: 747373--747435 Score: 90
Period size: 15 Copynumber: 4.2 Consensus size: 15
747363 GAGGGTATGA
747373 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
747388 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
* *
747403 TATTCTTTCGGGACG
1 TAGTCCTTCGGGACG
*
747418 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
747433 TAG
1 TAG
747436 GAGTCCTACG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 41 1.00
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.33
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:753672 original size:64 final size:64
Alignment explanation
Indices: 753604--753824 Score: 185
Period size: 64 Copynumber: 3.5 Consensus size: 64
753594 TTGTTTGAAT
* ** * **
753604 GTGCACCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATT
1 GTGCATCGATGCATAAGTAATACATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATT
753667 C
64 C
* * * *
753668 GTGCATCGATGCATAAGTAGTACATCGATGCATCCCATTAATAGTGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAAGTAATACATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTC
* * * * * ** * ** *
753732 GTGCATCGATGTATAAGGAGTGCATCGATGCATCCCAGTAATAATACTACATCGAATACCTTTT
1 GTGCATCGATGCATAAGTAATACATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTC
* * * *
753796 ATGCATCGATGCATCAGTAGTGCATCGAT
1 GTGCATCGATGCATAAGTAATACATCGAT
753825 TCATACCTTC
Statistics
Matches: 129, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
64 124 0.96
65 5 0.04
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAATACATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTC
Found at i:754152 original size:12 final size:12
Alignment explanation
Indices: 754135--754171 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
754125 ATATATGTTC
754135 ATGTGATATGAT
1 ATGTGATATGAT
*
754147 ATGTGATATGAC
1 ATGTGATATGAT
*
754159 CTGTGATATGAT
1 ATGTGATATGAT
754171 A
1 A
754172 ACATGATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:754218 original size:29 final size:29
Alignment explanation
Indices: 754185--754258 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
754175 TGATATGAAG
754185 TGACATGAGCTACATGATCACAAAAGAAA
1 TGACATGAGCTACATGATCACAAAAGAAA
**
754214 TGACATGAGCTACATGATCACAAGTGAAA
1 TGACATGAGCTACATGATCACAAAAGAAA
754243 -GCACATGAG-TACATGA
1 TG-ACATGAGCTACATGA
754259 ATATATGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
28 8 0.19
29 34 0.81
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAAAGAAA
Found at i:754361 original size:15 final size:15
Alignment explanation
Indices: 754343--754390 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
754333 GAGGGTATGA
754343 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
754358 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
754373 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
754388 TAG
1 TAG
754391 GAGTCCTACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:754403 original size:33 final size:30
Alignment explanation
Indices: 754343--754405 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 30
754333 GAGGGTATGA
*
754343 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
1 TAGTCCTTCGGGATGTAGTCCTACGGGACG
754373 TAGTCCTTCGGGATGTAGGAGTCCTACGGGACG
1 TAGTCCTTCGGGATGT---AGTCCTACGGGACG
754406 AATACTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 16 0.55
33 13 0.45
ACGTcount: A:0.16, C:0.22, G:0.35, T:0.27
Consensus pattern (30 bp):
TAGTCCTTCGGGATGTAGTCCTACGGGACG
Found at i:755501 original size:22 final size:22
Alignment explanation
Indices: 755476--755517 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
755466 GGCATGTGAA
755476 ATTTATCCCGAAGGACCTATGT
1 ATTTATCCCGAAGGACCTATGT
* *
755498 ATTTGTCTCGAAGGACCTAT
1 ATTTATCCCGAAGGACCTAT
755518 ATAACCCTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (22 bp):
ATTTATCCCGAAGGACCTATGT
Found at i:756287 original size:21 final size:21
Alignment explanation
Indices: 756261--756308 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
756251 TTGGTCTTAA
*
756261 GGTATCGGTACCCATTTATAG
1 GGTATCGGTACCCATTCATAG
756282 GGTATCGGTACCCATTCATAG
1 GGTATCGGTACCCATTCATAG
756303 GGTATC
1 GGTATC
756309 AATACCACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
GGTATCGGTACCCATTCATAG
Found at i:756314 original size:21 final size:21
Alignment explanation
Indices: 756269--756314 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
756259 AAGGTATCGG
* **
756269 TACCCATTTATAGGGTATCGG
1 TACCCATTCATAGGGTATCAA
756290 TACCCATTCATAGGGTATCAA
1 TACCCATTCATAGGGTATCAA
756311 TACC
1 TACC
756315 ACTTGCCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (21 bp):
TACCCATTCATAGGGTATCAA
Found at i:760049 original size:22 final size:22
Alignment explanation
Indices: 760021--760062 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
760011 ATGTGAAATT
*
760021 TGTCCCGAATGACCTATGTATA
1 TGTCCCGAAGGACCTATGTATA
760043 TGTCCCGAAGGACCTATGTA
1 TGTCCCGAAGGACCTATGTA
760063 ACCCTCGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (22 bp):
TGTCCCGAAGGACCTATGTATA
Found at i:763803 original size:23 final size:23
Alignment explanation
Indices: 763772--763817 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
763762 CACCACATCT
* *
763772 CGTATAAATACACTGAAGTGCCA
1 CGTAGAAATACACCGAAGTGCCA
*
763795 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATACACCGAAGTGCCA
763818 TATAAAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (23 bp):
CGTAGAAATACACCGAAGTGCCA
Found at i:763848 original size:23 final size:21
Alignment explanation
Indices: 763822--763883 Score: 52
Period size: 23 Copynumber: 2.8 Consensus size: 21
763812 GTGCCATATA
*
763822 AAATGTCCATAAGGACCACATAG
1 AAAT-TCC-TAAGGACCACATAC
* *
763845 AAATCTCCTTAAGAACCATATAC
1 AAAT-TCC-TAAGGACCACATAC
*
763868 ATATTCCTAAGGACCA
1 AAATTCCTAAGGACCA
763884 ATTATGTGTC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 8 0.25
22 3 0.09
23 21 0.66
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (21 bp):
AAATTCCTAAGGACCACATAC
Found at i:763929 original size:21 final size:21
Alignment explanation
Indices: 763904--763952 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
763894 TCGAAAGACC
* *
763904 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGACT
*
763925 ACATATATGTCCCGAAGGACT
1 ACATATATGTCCCAAAGGACT
*
763946 ACGTATA
1 ACATATA
763953 CCCTCGACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGACT
Found at i:768377 original size:42 final size:42
Alignment explanation
Indices: 768319--768406 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
768309 CCGCTCTTCA
768319 TCATGCCTGGCCAGGGCAGGTGAATTGCTACCACCATCAGGT
1 TCATGCCTGGCCAGGGCAGGTGAATTGCTACCACCATCAGGT
768361 TCATGCCTGGCCAGGGCAGGTGAATTGCTACCACCATCAGGT
1 TCATGCCTGGCCAGGGCAGGTGAATTGCTACCACCATCAGGT
768403 TCAT
1 TCAT
768407 CACCTCTCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.23
Consensus pattern (42 bp):
TCATGCCTGGCCAGGGCAGGTGAATTGCTACCACCATCAGGT
Found at i:769306 original size:23 final size:23
Alignment explanation
Indices: 769280--769347 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
769270 TCACACAGCT
*
769280 CGTATAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCAAAGTGCCA
* * * * *
769303 CGTAGAAATGGACCGAATTACCG
1 CGTAGAAATGCACCAAAGTGCCA
*
769326 CGTAGAAAT-CAACAAAGTGCCA
1 CGTAGAAATGCACCAAAGTGCCA
769348 TATAAAATAT
Statistics
Matches: 33, Mismatches: 12, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
22 7 0.21
23 26 0.79
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (23 bp):
CGTAGAAATGCACCAAAGTGCCA
Found at i:770401 original size:20 final size:20
Alignment explanation
Indices: 770378--770425 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
770368 TACTTACTAG
*
770378 CTCATAATCATA-TAATTTAT
1 CTCATAAT-ATATTAATATAT
* *
770398 CTCATAGTATATTCATATAT
1 CTCATAATATATTAATATAT
770418 CTCATAAT
1 CTCATAAT
770426 TCATTATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.44
Consensus pattern (20 bp):
CTCATAATATATTAATATAT
Found at i:771042 original size:43 final size:41
Alignment explanation
Indices: 770951--771043 Score: 107
Period size: 43 Copynumber: 2.2 Consensus size: 41
770941 TCAATACCCT
* * *
770951 CAGTATCGATATTACTCCTTTGGTATCGATACTCCTTGAAC
1 CAGTATCGAAATTACTCCTTTGGTATCGATACTCATTCAAC
* *
770992 AATTATCGAAATTTA-TGCCTTATGGTATCGATACTCATTCAAC
1 CAGTATCGAAA-TTACT-CCTT-TGGTATCGATACTCATTCAAC
771035 CAGTATCGA
1 CAGTATCGA
771044 TACCCATGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 9 0.21
42 7 0.17
43 26 0.62
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (41 bp):
CAGTATCGAAATTACTCCTTTGGTATCGATACTCATTCAAC
Found at i:772476 original size:23 final size:23
Alignment explanation
Indices: 772421--772476 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
772411 TAATTTTACG
* * *
772421 TGGTCCTTCGGGACATTTCTATG
1 TGGTCCTTCGGGACAATACTATA
* * *
772444 CGATCTTTCGGGACAATACTATA
1 TGGTCCTTCGGGACAATACTATA
772467 TGGTCCTTCG
1 TGGTCCTTCG
772477 AGGCATTTAT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (23 bp):
TGGTCCTTCGGGACAATACTATA
Found at i:772513 original size:24 final size:24
Alignment explanation
Indices: 772481--772535 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
772471 CCTTCGAGGC
*
772481 ATTTATATGTGGCACTTCGGTGCA
1 ATTTATATGCGGCACTTCGGTGCA
*
772505 ATTTCTATGCGGCACTTCGGTGCA
1 ATTTATATGCGGCACTTCGGTGCA
772529 ATTTATA
1 ATTTATA
772536 CAAGTTGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (24 bp):
ATTTATATGCGGCACTTCGGTGCA
Found at i:772724 original size:24 final size:23
Alignment explanation
Indices: 772681--772725 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
772671 GTGCTTAATG
*
772681 ATATATGTATTCTTGTTAATTGC
1 ATATATGTATTCTTGGTAATTGC
772704 ATATATGATATT-TTAGGTAATT
1 ATATATG-TATTCTT-GGTAATT
772726 AGTGAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
ATATATGTATTCTTGGTAATTGC
Found at i:776586 original size:32 final size:33
Alignment explanation
Indices: 776542--776603 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
776532 ATGAATCTCG
* *
776542 ATTGAAAAATATCAAGCCATGAGTTTCATGATA
1 ATTGAAAAATATCAAGACATGAATTTCATGATA
776575 ATTG-AAAATATCAAGACATGAATTTCATG
1 ATTGAAAAATATCAAGACATGAATTTCATG
776604 GTATACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (33 bp):
ATTGAAAAATATCAAGACATGAATTTCATGATA
Found at i:786067 original size:15 final size:15
Alignment explanation
Indices: 786047--786076 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
786037 GGTGGAGAGA
786047 TTATATGATACATAT
1 TTATATGATACATAT
*
786062 TTATATGGTACATAT
1 TTATATGATACATAT
786077 GGTGCAATTC
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:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
TTATATGATACATAT
Found at i:786134 original size:24 final size:25
Alignment explanation
Indices: 786078--786179 Score: 134
Period size: 25 Copynumber: 4.1 Consensus size: 25
786068 GGTACATATG
786078 GTGCAATTCTACGAGGCATTTTCGA
1 GTGCAATTCTACGAGGCATTTTCGA
* ** *
786103 GTGCAATTCTATGAGGTGTTTT-TA
1 GTGCAATTCTACGAGGCATTTTCGA
*
786127 GTGCAATTCTACGAGGCACTTTCGA
1 GTGCAATTCTACGAGGCATTTTCGA
* *
786152 GTGCAATTTTACGAGGCACTTTCGA
1 GTGCAATTCTACGAGGCATTTTCGA
786177 GTG
1 GTG
786180 AAAATATTTC
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
24 19 0.29
25 47 0.71
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (25 bp):
GTGCAATTCTACGAGGCATTTTCGA
Found at i:786200 original size:29 final size:26
Alignment explanation
Indices: 786084--786202 Score: 93
Period size: 25 Copynumber: 4.6 Consensus size: 26
786074 TATGGTGCAA
* *
786084 TTCTACGAGGCATTTTCGAGTGCAA-
1 TTCTACGAGGCACTTTCGAGTGAAAT
* ** ** *
786109 TTCTATGAGG-TGTTTTTAGTGCAA-
1 TTCTACGAGGCACTTTCGAGTGAAAT
*
786133 TTCTACGAGGCACTTTCGAGTGCAAT
1 TTCTACGAGGCACTTTCGAGTGAAAT
786159 TT-TACGAGGCACTTTCGAGTGAAAATAT
1 TTCTACGAGGCACTTTCGAGTG--AA-AT
*
786187 TTCTACGAGACACTTT
1 TTCTACGAGGCACTTT
786203 TAAGTGCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
24 19 0.25
25 38 0.50
26 2 0.03
27 1 0.01
28 4 0.05
29 12 0.16
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (26 bp):
TTCTACGAGGCACTTTCGAGTGAAAT
Found at i:791710 original size:16 final size:17
Alignment explanation
Indices: 791682--791713 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
791672 ATCGCCGACA
791682 AAATTTCACTATTCACG
1 AAATTTCACTATTCACG
791699 AAATTT-ACTATTCAC
1 AAATTTCACTATTCAC
791714 ATGAATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTCACTATTCACG
Found at i:797011 original size:20 final size:20
Alignment explanation
Indices: 796924--797016 Score: 89
Period size: 20 Copynumber: 4.6 Consensus size: 20
796914 AACATGTTGA
*
796924 AATTTGA-AAAATTCGGTTTC
1 AATTTGACAAAA-CCGGTTTC
* **
796944 AATTTGACAAAACAGGTAAC
1 AATTTGACAAAACCGGTTTC
* **
796964 GAATTTGACAAAACCGATTGG
1 -AATTTGACAAAACCGGTTTC
*
796985 AAATTGACAAAACCGGTTTC
1 AATTTGACAAAACCGGTTTC
797005 AATTTGACAAAA
1 AATTTGACAAAA
797017 TCAGTAAAGA
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
20 38 0.67
21 19 0.33
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (20 bp):
AATTTGACAAAACCGGTTTC
Found at i:798139 original size:146 final size:147
Alignment explanation
Indices: 797860--798222 Score: 446
Period size: 147 Copynumber: 2.5 Consensus size: 147
797850 ATATCAATAC
* * * *
797860 TTTTATTCCAGTATGTTTGTCAAACAATTTGCACGTCAAATGTATCGATACACATTATTAAAATA
1 TTTTATTCCAGTATTTTTCTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAAAGTA
* *
797925 AAGATATTTATAATTTCAAAAAAAATGTATGCAAAGTATCAAAATGTCCAAGTATCGATACTTTT
66 TAGATATTTATAATTTCAAAAAAAATGTATGCAAAGTATCAAAATGTCCAAGTATCGATACTTCT
797990 TATG-CGGTATGGATAA
131 TATGCCGGTATGGATAA
* * * * *
798006 TTTTATTCCAATATATTTTTTCGAACAATGTGCACACCAAATGTATCGATACACATTATTAAAGT
1 TTTTATTCCAGTAT-TTTTCTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAAAGT
* * ** * * * *
798071 ATTGGTATTTATAATTT-TGAAACAATGTATGTAAAGTATGAAAATGTCCAAGTATTGATACTTC
65 ATAGATATTTATAATTTCAAAAAAAATGTATGCAAAGTATCAAAATGTCCAAGTATCGATACTTC
* *
798135 TTATGCCGGTGTGGATAC
130 TTATGCCGGTATGGATAA
* * * *
798153 TTTCATT-CAGTATTATTCTCAAACAATTTGCATGCAAAATGTATCGATACACA-TATATAAAGT
1 TTTTATTCCAGTATTTTTCTCAAACAATTTGCACGCCAAATGTATCGATACACATTAT-TAAAGT
*
798216 ATCGATA
65 ATAGATA
798223 CTTGGAATTT
Statistics
Matches: 183, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
144 3 0.02
145 44 0.24
146 63 0.34
147 73 0.40
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (147 bp):
TTTTATTCCAGTATTTTTCTCAAACAATTTGCACGCCAAATGTATCGATACACATTATTAAAGTA
TAGATATTTATAATTTCAAAAAAAATGTATGCAAAGTATCAAAATGTCCAAGTATCGATACTTCT
TATGCCGGTATGGATAA
Found at i:798457 original size:198 final size:198
Alignment explanation
Indices: 798118--798822 Score: 1022
Period size: 199 Copynumber: 3.5 Consensus size: 198
798108 ATGAAAATGT
* *** * * **
798118 CCAAGTATTGATACTTCTTATGCCGGTGTGGATACTTTCATT-CAGTATTATTCTCAAACAATTT
1 CCAAGTATCGATACTT-TTATATAGGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTT
*
798182 GCA-TGCAAAATGTATCGATACACATATATAAAGTATCGATACTTGGAATTTCGGAACCTATTAC
65 GCACT-CAAAATGTATCGATA-ACATATATAAAGTATCGATACTTGGAATTTCAGAACCTATTAC
* *
798246 TTTAAAGTAATAGGTAAATTAACAATGCAAACGGTAAAAGTCTACCGGTATAATGATAATAGGCA
128 TTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTATAATGATAATAGGCG
798311 TAAATA
193 TAAATA
* *
798317 CCAAGTATTGATACTCTTTATATAGGTATGGATACTTTTATTCCAATATGCTTCTCAAACAATTT
1 CCAAGTATCGATACT-TTTATATAGGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTT
* * *
798382 GCACTCAAAATGTATTGAT-ACATGTATAACGTATCGATACTTGGAATTTCAGAACCTATTACTT
65 GCACTCAAAATGTATCGATAACATATATAAAGTATCGATACTTGGAATTTCAGAACCTATTACTT
* *
798446 TAAAGTAATAGGTAAATTAACAATGTAAATGGTAAAAGTCTACCAGTATAATGATAATAGGCGTA
130 TAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTA
798511 AATA
195 AATA
* * *
798515 CCAAGTATCGATACTTTTATATAGGTATCGATACTTTTATTCTAGTATGCTTCTCAAATAATTTG
1 CCAAGTATCGATACTTTTATATAGGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTTG
* * * * *
798580 CACGCAAAATGTATCGATACACATATATAAAGTATCGATACTTGAAATTT-TGAAACATATTATT
66 CACTCAAAATGTATCGATA-ACATATATAAAGTATCGATACTTGGAATTTCAG-AACCTATTACT
* * *
798644 TTAAAGTAATAGGTAAATTAACAATGTAAACAGTAAAAGTCTACCGATACAATGATAATAGGCGT
129 TTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTATAATGATAATAGGCGT
798709 AAATA
194 AAATA
* *
798714 TCAAGTATCGATACTTTTATATAGGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATGTG
1 CCAAGTATCGATACTTTTATATAGGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTTG
*
798779 CACTCAAAATGTATCGATAGAAAATATATAAAGTATCGATACTT
66 CACTCAAAATGTATCGAT--AACATATATAAAGTATCGATACTT
798823 TAAAATAATA
Statistics
Matches: 457, Mismatches: 41, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
197 62 0.14
198 122 0.27
199 213 0.47
200 58 0.13
201 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (198 bp):
CCAAGTATCGATACTTTTATATAGGTATGGATACTTTTATTCCAGTATGCTTCTCAAACAATTTG
CACTCAAAATGTATCGATAACATATATAAAGTATCGATACTTGGAATTTCAGAACCTATTACTTT
AAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTACCGGTATAATGATAATAGGCGTAA
ATA
Found at i:799524 original size:129 final size:128
Alignment explanation
Indices: 799360--799808 Score: 659
Period size: 129 Copynumber: 3.5 Consensus size: 128
799350 ACACAAACTA
799360 TATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGG
1 TATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGG
*
799425 TAAACGTTTCTACCGGTATAATGAATATAGGCGTAAATGTCCAAGTATCGATACTCATACAAAG
66 TAAACGTTTCTACCGGTATAATGAAAATAGGCGTAAATGTCCAAGTATCGATACTCATA-AAAG
* * * *
799489 TATCTATACTTATAATTTTAAAACCTATTAATTTAAAGTAATATGTAAATTAACAATGTACA-GG
1 TATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGG
* * * * *
799553 TAAA-GTTTTTACCGATAGAATGAAAATATGCGTAAATGTCCAAGTGTCGATACTCATATATAAA
66 TAAACGTTTCTACCGGTATAATGAAAATAGGCGTAAATGTCCAAGTATCGATACTC--ATA-AAA
799617 G
128 G
* *
799618 TATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAAGTAAATTAACAATGTACACGG
1 TATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGG
* ** * * *
799683 TAAACATTTCTACTAGTATAATGAAAATAGGCGTAAATGTACAAGTATCGATATTGTCATATAAG
66 TAAACGTTTCTACCGGTATAATGAAAATAGGCGTAAATGTCCAAGTATCGATA--CTCATAAAAG
*
799748 TATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAC
1 TATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTAC
799809 GCGATAATAT
Statistics
Matches: 286, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
127 45 0.16
128 6 0.02
129 122 0.43
130 69 0.24
131 42 0.15
133 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (128 bp):
TATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACACGG
TAAACGTTTCTACCGGTATAATGAAAATAGGCGTAAATGTCCAAGTATCGATACTCATAAAAG
Found at i:800880 original size:18 final size:19
Alignment explanation
Indices: 800857--800900 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
800847 CCAGTAATCC
* *
800857 TATTCC-CTGGTAATCTTT
1 TATTCCACTGATAATCTTA
800875 TATTCCCACTGATAATCTTA
1 TATT-CCACTGATAATCTTA
800895 TATTCC
1 TATTCC
800901 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 4 0.18
20 14 0.64
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (19 bp):
TATTCCACTGATAATCTTA
Found at i:801299 original size:17 final size:18
Alignment explanation
Indices: 801262--801299 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
801252 TAATATCTAA
801262 TATAATATGCAATACTATT
1 TATAATATGCAATA-TATT
801281 TATAATATGCAAT-TATT
1 TATAATATGCAATATATT
801298 TA
1 TA
801300 ATATGAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (18 bp):
TATAATATGCAATATATT
Found at i:805290 original size:16 final size:16
Alignment explanation
Indices: 805269--805308 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
805259 GATGAGTTTC
805269 AATAAAATATTTTTTT
1 AATAAAATATTTTTTT
805285 AATAAAATATTTTTTT
1 AATAAAATATTTTTTT
*
805301 ATTAAAAT
1 AATAAAAT
805309 TTATCATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAAAATATTTTTTT
Found at i:808049 original size:24 final size:24
Alignment explanation
Indices: 808019--808064 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
808009 ACTTCTTAAC
808019 TTTTTAATATTATAGTAATATACT
1 TTTTTAATATTATAGTAATATACT
*
808043 TTTTTAATATTATAGTTATATA
1 TTTTTAATATTATAGTAATATA
808065 GTCAATATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTTAATATTATAGTAATATACT
Found at i:809594 original size:23 final size:23
Alignment explanation
Indices: 809579--809634 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
809569 TTCTAAAAGA
809579 TCCAATCAGCGTCTTCCAGAAGG
1 TCCAATCAGCGTCTTCCAGAAGG
809602 TCCAATCAGCGTCTTCCAGAAGG
1 TCCAATCAGCGTCTTCCAGAAGG
809625 TCCAATCAGC
1 TCCAATCAGC
809635 ATTACTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (23 bp):
TCCAATCAGCGTCTTCCAGAAGG
Found at i:814018 original size:3 final size:3
Alignment explanation
Indices: 814012--814051 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
814002 TTTTCATTTG
814012 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
814052 CTAAATAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:814383 original size:20 final size:20
Alignment explanation
Indices: 814354--814391 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
814344 CAGCTATTAG
* *
814354 GGTGAGTCACCACATAGCTC
1 GGTGACTCACCAAATAGCTC
814374 GGTGACTCACCAAATAGC
1 GGTGACTCACCAAATAGC
814392 CACCCTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (20 bp):
GGTGACTCACCAAATAGCTC
Found at i:815485 original size:11 final size:11
Alignment explanation
Indices: 815445--815493 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
815435 TAAGTAATAT
815445 TTATTTAT-AA
1 TTATTTATAAA
815455 TCCTATTTATAAA
1 T--TATTTATAAA
815468 -T-TTTATAAA
1 TTATTTATAAA
815477 TTATTTATAAA
1 TTATTTATAAA
815488 TTATTT
1 TTATTT
815494 CAATTATGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 8 0.24
10 3 0.09
11 14 0.41
12 7 0.21
13 2 0.06
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:815601 original size:19 final size:19
Alignment explanation
Indices: 815557--815604 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
815547 TATTTTCTGA
*
815557 TATTTTAAAAAATATATAT
1 TATTTTAAAAAATATATAC
*
815576 TACTTTTATAAAACTATAT-C
1 TA-TTTTA-AAAAATATATAC
815596 TATTTTAAA
1 TATTTTAAA
815605 TAATTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 7 0.28
21 9 0.36
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTTAAAAAATATATAC
Found at i:818316 original size:33 final size:33
Alignment explanation
Indices: 818256--818354 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
818246 CTCATGTGCA
* *
818256 AAGTTGGCCACCTACCAAATATTAATTTTCCAAT
1 AAGTTGGCCACCAACC-AATATGAATTTTCCAAT
818290 AAGTTGGCCACCAACCAATATGAATTTTCCAAT
1 AAGTTGGCCACCAACCAATATGAATTTTCCAAT
*
818323 AAGTTGGCCACCAACCAAGATGAATTTTCCAA
1 AAGTTGGCCACCAACCAATATGAATTTTCCAA
818355 CTTGCCAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 47 0.76
34 15 0.24
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (33 bp):
AAGTTGGCCACCAACCAATATGAATTTTCCAAT
Found at i:824889 original size:27 final size:26
Alignment explanation
Indices: 824859--824910 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
824849 TTTTTCCTAA
* *
824859 CCATTTGTTTTTTCTTATGTTTTATTG
1 CCATTTATTTCTTCTTAT-TTTTATTG
*
824886 CCATTTATTTCTTGTTATTTTTATT
1 CCATTTATTTCTTCTTATTTTTATT
824911 TATTTCCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.13, C:0.12, G:0.08, T:0.67
Consensus pattern (26 bp):
CCATTTATTTCTTCTTATTTTTATTG
Found at i:835747 original size:105 final size:105
Alignment explanation
Indices: 835174--835739 Score: 1060
Period size: 105 Copynumber: 5.4 Consensus size: 105
835164 CAGGTTTTAC
835174 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
835239 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATT
*
835279 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
835344 GACGAAGGGACCGCTGGTTGTCGACGAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATT
*
835384 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
835449 GACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATT
835489 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
835554 GACAAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATT
**
835594 TCAGAGCCAATTTCTGCTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
835659 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATT
835699 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
835740 GAAACAACAC
Statistics
Matches: 449, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 449 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATT
Found at i:839269 original size:42 final size:40
Alignment explanation
Indices: 839218--839368 Score: 126
Period size: 42 Copynumber: 3.6 Consensus size: 40
839208 AGGTTAAACA
*
839218 ATAGTGGCGTTTATAGTAAAAACGCCGCAATATAGTAGACAT
1 ATAGCGGCGTTTATAGTAAAAACGCCGCAATATAGT-GA-AT
839260 ATAGCGGCGTTT-TAGCT-AAAACGCCGCAATATAGTGTTAAT
1 ATAGCGGCGTTTATAG-TAAAAACGCCGCAATATAGTG--AAT
* ** * * * *
839301 TTAGCGGCGTTTATACCAAAAACACCGTAATAGAGTGATAA
1 ATAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTGA-AT
* * *
839342 ATTAGCGGCGTTTTTTGTATAAACGCC
1 A-TAGCGGCGTTTATAGTAAAAACGCC
839369 ATAAAAAACA
Statistics
Matches: 87, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
40 2 0.02
41 35 0.40
42 50 0.57
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (40 bp):
ATAGCGGCGTTTATAGTAAAAACGCCGCAATATAGTGAAT
Found at i:839306 original size:41 final size:41
Alignment explanation
Indices: 839223--839354 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 41
839213 AAACAATAGT
*
839223 GGCGTTTATAG-TAAAAACGCCGCAATATAGTAG-ACATATAGC
1 GGCGTTTATAGCT-AAAACGCCGCAATATAGT-GTA-ATTTAGC
839265 GGCGTTT-TAGCTAAAACGCCGCAATATAGTGTTAATTTAGC
1 GGCGTTTATAGCTAAAACGCCGCAATATAGTG-TAATTTAGC
* * * * * *
839306 GGCGTTTATACCAAAAACACCGTAATAGAGTGATAAATTAGC
1 GGCGTTTATAGCTAAAACGCCGCAATATAGTG-TAATTTAGC
839348 GGCGTTT
1 GGCGTTT
839355 TTTGTATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
40 1 0.01
41 34 0.44
42 43 0.55
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (41 bp):
GGCGTTTATAGCTAAAACGCCGCAATATAGTGTAATTTAGC
Found at i:840487 original size:52 final size:52
Alignment explanation
Indices: 840422--840580 Score: 309
Period size: 52 Copynumber: 3.1 Consensus size: 52
840412 TACTGAACAA
840422 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
*
840474 TATGTTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
840526 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
1 TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
840578 TAT
1 TAT
840581 TTTGTTGTTA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 105 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (52 bp):
TATGGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATG
Found at i:843689 original size:43 final size:43
Alignment explanation
Indices: 843621--843754 Score: 182
Period size: 43 Copynumber: 3.1 Consensus size: 43
843611 TAATTAGCGA
* *
843621 CGTTTGTATCCAAAAATGCCACTATAGATCTGACCTTTTGCAG
1 CGTTTGTATCCAAAAACGCCTCTATAGATCTGACCTTTTGCAG
843664 CGTTTGTATCCAAAAACGCCTCTATAGATCTGACCTTTTGCGAG
1 CGTTTGTATCCAAAAACGCCTCTATAGATCTGACCTTTTGC-AG
* * * *
843708 -GTTTGTTTCCAAAAACGCCGT-TATAGGTCTAACCTTTTGCGG
1 CGTTTGTATCCAAAAACGCC-TCTATAGATCTGACCTTTTGCAG
843750 CGTTT
1 CGTTT
843755 TGAACTAGAA
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
42 1 0.01
43 78 0.95
44 3 0.04
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (43 bp):
CGTTTGTATCCAAAAACGCCTCTATAGATCTGACCTTTTGCAG
Found at i:843911 original size:43 final size:41
Alignment explanation
Indices: 843864--844078 Score: 128
Period size: 43 Copynumber: 5.0 Consensus size: 41
843854 TCACAAAATA
*
843864 TCAAAACCTATTGCGGCGGTTTTAAGTAAAACGCCGCTACATC
1 TCAAAACCTATTGCGGCGTTTTTAAG-AAAACGCCGCTA-ATC
* * * *
843907 TCAAAACC-ATTTACGGCGTTTTTTTCTA-AAAACGCCGTTAAAC
1 TCAAAACCTA-TTGCGGCG--TTTTT-AAGAAAACGCCGCTAATC
** ** *
843950 ATCAACGCCTATTGCGGCGTTTTTCTGACAAACGCCGCTAAATA
1 -TCAAAACCTATTGCGGCGTTTTTAAGA-AAACGCCGCT-AATC
* * * *
843994 ACAAATCCTATTGCGGCGTTTGTTCAGAAAACGCCGCTATATG
1 TCAAAACCTATTGCGGCGTTT-TTAAGAAAACGCCGCTA-ATC
*** *
844037 TTGTAACCTATTGCGGCGTTTTTTTAAAAAAAACGCCGCTAA
1 TCAAAACCTATTGCGGCG--TTTTT-AAGAAAACGCCGCTAA
844079 CTTTAGCGGC
Statistics
Matches: 133, Mismatches: 25, Indels: 27
0.72 0.14 0.15
Matches are distributed among these distances:
42 8 0.06
43 69 0.52
44 34 0.26
45 21 0.16
46 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (41 bp):
TCAAAACCTATTGCGGCGTTTTTAAGAAAACGCCGCTAATC
Found at i:849808 original size:25 final size:25
Alignment explanation
Indices: 849774--849823 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
849764 GAATGCAAGA
849774 ACCTTGAAAGTACAACTCCCAGTTT
1 ACCTTGAAAGTACAACTCCCAGTTT
849799 ACCTTGAAAGTACAACTCCCAGTTT
1 ACCTTGAAAGTACAACTCCCAGTTT
849824 TATTTACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (25 bp):
ACCTTGAAAGTACAACTCCCAGTTT
Found at i:851409 original size:294 final size:292
Alignment explanation
Indices: 850874--851465 Score: 868
Period size: 294 Copynumber: 2.0 Consensus size: 292
850864 TAAAAGGAAC
*
850874 CCTTCGGGGTTCTAAACACTGCGGCGTTTTATTTAAAAAACGTCATTGAGTAATCCTCATTTTGG
1 CCTTCGGGGTTCTAAACACTACGGCGTTTTATTTAAAAAACGTCATTGAGTAATCCTCATTTTGG
* * **
850939 TGTTTATTACTAAAACGCCACTAAAGTATATGTTTGTAGCGGCGTTTCTATAAAATGACACCCTT
66 TGTTTATTACTAAAACGCCACTAAAGAACATGTTTGTAGCGGCGTTTCTATAAAACAACACCCTT
*
851004 TATTGATTTATTTCGACGTTTTTTCGAAAACGACACTAAAGATACCTGTCTAATGTGGTGTGTTC
131 TATTGATTTATTGCGACGTTTTTT--------ACACTAAAGATACCTGTCTAATGTGGTGTGTTC
* *
851069 ACTTAAACACCGCTGTTGTTTTCATTTTGTGGAGTTTTTATTATAAAC-CACATATAATAAAAAT
188 ACTCAAACACCGCTATTGTTTTCATTTTGTGGAGTTTTTATTATAAACGC-CATATAATAAAAAT
851133 TAGTGTTGTTTACTC-AAAAACTGTTGCTAGTGTAGTGTCGT
252 TAGTGTTGTTTACTCAAAAAAC-GTTGCTAGTGTAGTGTCGT
* *
851174 CCTTCGGGGTTCTGAACACTACGGTGTTTTATTTAAAAAACGTCATTGAGTAATCCTCATTTT-G
1 CCTTCGGGGTTCTAAACACTACGGCGTTTTATTTAAAAAACGTCATTGAGTAATCCTCATTTTGG
* *
851238 TGGCATTTATTACTAAAATGCCACTAAAGAACATGTTTTTAGCGGCGTTTCTATAAAAACAACAC
66 T-G--TTTATTACTAAAACGCCACTAAAGAACATGTTTGTAGCGGCGTTTCTAT-AAAACAACAC
* **
851303 CCTTTATTGATTTATTGCGACGTTTTTT-CACTAAAGGTACCTGTCTGTTGTGGTGTGTTCACTC
127 CCTTTATTGATTTATTGCGACGTTTTTTACACTAAAGATACCTGTCTAATGTGGTGTGTTCACTC
* * *
851367 AAACGCTGCTATTGTTTTTATTTTGTGGAGTTTTTATTATAAACGCCATATAATAAAAATTAGTG
192 AAACACCGCTATTGTTTTCATTTTGTGGAGTTTTTATTATAAACGCCATATAATAAAAATTAGTG
851432 TTGTTTACTCAAAAAACGTTGCTAGTGTAGTGTC
257 TTGTTTACTCAAAAAACGTTGCTAGTGTAGTGTC
851466 ATATTTTTTC
Statistics
Matches: 268, Mismatches: 18, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
294 118 0.44
295 7 0.03
299 2 0.01
300 61 0.23
302 45 0.17
303 35 0.13
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (292 bp):
CCTTCGGGGTTCTAAACACTACGGCGTTTTATTTAAAAAACGTCATTGAGTAATCCTCATTTTGG
TGTTTATTACTAAAACGCCACTAAAGAACATGTTTGTAGCGGCGTTTCTATAAAACAACACCCTT
TATTGATTTATTGCGACGTTTTTTACACTAAAGATACCTGTCTAATGTGGTGTGTTCACTCAAAC
ACCGCTATTGTTTTCATTTTGTGGAGTTTTTATTATAAACGCCATATAATAAAAATTAGTGTTGT
TTACTCAAAAAACGTTGCTAGTGTAGTGTCGT
Found at i:857440 original size:45 final size:45
Alignment explanation
Indices: 857389--857529 Score: 205
Period size: 45 Copynumber: 3.1 Consensus size: 45
857379 CTTATTAATT
** * *
857389 TACTTACTATTCATCCCATAAACTCGTAAGCTTATTTTACCAATA
1 TACTTACTATTTTTTCCATAAGCTCGTAAGCTTATTTTACCAATA
857434 TACTTAC-ATTTTTTTCCATAAGCTCGTAAGCTTATTTTACCAATA
1 TACTTACTA-TTTTTTCCATAAGCTCGTAAGCTTATTTTACCAATA
*
857479 TACTTATCT-TTTTTTCCATAAGCTCGTAAGCTTATTTTACTAATA
1 TACTTA-CTATTTTTTCCATAAGCTCGTAAGCTTATTTTACCAATA
857524 TACTTA
1 TACTTA
857530 TAATTAACCT
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
44 1 0.01
45 86 0.98
46 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.44
Consensus pattern (45 bp):
TACTTACTATTTTTTCCATAAGCTCGTAAGCTTATTTTACCAATA
Found at i:857530 original size:45 final size:46
Alignment explanation
Indices: 857404--857530 Score: 222
Period size: 45 Copynumber: 2.8 Consensus size: 46
857394 ACTATTCATC
*
857404 CCATAAACTCGTAAGCTTATTTTACCAATATACTTA-CATTTTTTT
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTATCATTTTTTT
857449 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTATC-TTTTTTT
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTATCATTTTTTT
*
857494 CCATAAGCTCGTAAGCTTATTTTACTAATATACTTAT
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTAT
857531 AATTAACCTC
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
45 78 0.99
46 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (46 bp):
CCATAAGCTCGTAAGCTTATTTTACCAATATACTTATCATTTTTTT
Found at i:860178 original size:39 final size:39
Alignment explanation
Indices: 860133--860208 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
860123 GTTGTAAGAT
860133 TTGATGAAGAACCTTAGGATGAAGTTAAAGAAAACAGAA
1 TTGATGAAGAACCTTAGGATGAAGTTAAAGAAAACAGAA
860172 TTGATGAAGAACCTTAGGATGAAGTTAAAGAAAACAG
1 TTGATGAAGAACCTTAGGATGAAGTTAAAGAAAACAG
860209 TTTAGTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.21
Consensus pattern (39 bp):
TTGATGAAGAACCTTAGGATGAAGTTAAAGAAAACAGAA
Found at i:861226 original size:59 final size:58
Alignment explanation
Indices: 861119--861275 Score: 174
Period size: 59 Copynumber: 2.6 Consensus size: 58
861109 TATTGAAAAT
* *
861119 ATGGATTTCCAGATAGGGCAATTTTATGTGCTACAAA-GATAAAGAAATCATACTAATGGC
1 ATGGATTTTCA-ATAGGGC-ATTTCATGTGCTA-AAATGATAAAGAAATCATACTAATGGC
* *
861179 ATGGATTTTCACATAAGGCATTTCATGTGCTAAAATGATAACA-AAATCATACTAATGGT
1 ATGGATTTTCA-ATAGGGCATTTCATGTGCTAAAATGATAA-AGAAATCATACTAATGGC
* * * *
861238 ATGAATTTTTTAATAGGGCACTTCGTGTGCTAAAATGA
1 ATGGA-TTTTCAATAGGGCATTTCATGTGCTAAAATGA
861276 AAGGGGAAGC
Statistics
Matches: 84, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
58 3 0.04
59 59 0.70
60 22 0.26
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (58 bp):
ATGGATTTTCAATAGGGCATTTCATGTGCTAAAATGATAAAGAAATCATACTAATGGC
Found at i:861452 original size:44 final size:44
Alignment explanation
Indices: 861398--861571 Score: 251
Period size: 44 Copynumber: 3.9 Consensus size: 44
861388 TAAATGAGAT
* **
861398 TAATGGCAAGTATATTGGTAAAATAATATTACGAGCTTATGGAA
1 TAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
*
861442 TAATGACAAGTATATTGGTAAAATAAGCTTATGAGCTTATGGAA
1 TAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
* * *
861486 TAATGAAAAGCATATTGGTAAAATAAGCTTACGAGCTTATGAAAAA
1 TAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATG--GAA
*
861532 AAATG-CAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 TAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
861572 AGATGAATGG
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
44 78 0.67
45 33 0.28
46 6 0.05
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.30
Consensus pattern (44 bp):
TAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAA
Found at i:861570 original size:89 final size:88
Alignment explanation
Indices: 861409--861571 Score: 256
Period size: 89 Copynumber: 1.8 Consensus size: 88
861399 AATGGCAAGT
* * * *
861409 ATATTGGTAAAATAATATTACGAGCTTATGGAATAATGACAAGTATATTGGTAAAATAAGCTTAT
1 ATATTGGTAAAATAAGATTACGAGCTTATGAAAAAATGACAAGTATATTGGTAAAATAAGCTTAC
861474 GAGCTTATGGAATAATGAAAAGC
66 GAGCTTATGGAATAATGAAAAGC
*
861497 ATATTGGTAAAATAAGCTTACGAGCTTATGAAAAAAAATG-CAAGTATATTGGTAAAATAAGCTT
1 ATATTGGTAAAATAAGATTACGAGCTTATG--AAAAAATGACAAGTATATTGGTAAAATAAGCTT
861561 ACGAGCTTATG
64 ACGAGCTTATG
861572 AGATGAATGG
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
88 28 0.41
89 34 0.50
90 6 0.09
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (88 bp):
ATATTGGTAAAATAAGATTACGAGCTTATGAAAAAATGACAAGTATATTGGTAAAATAAGCTTAC
GAGCTTATGGAATAATGAAAAGC
Found at i:861587 original size:45 final size:44
Alignment explanation
Indices: 861391--861592 Score: 230
Period size: 44 Copynumber: 4.5 Consensus size: 44
861381 TGATTGATAA
**
861391 ATGAGATTAATGGCAAGTATATTGGTAAAATAATATTACGAGCTT
1 ATGAGA-TAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTT
* *
861436 ATG-GAATAATGACAAGTATATTGGTAAAATAAGCTTATGAGCTT
1 ATGAG-ATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTT
** *
861480 ATG-GAATAATGAAAAGCATATTGGTAAAATAAGCTTACGAGCTT
1 ATGAG-ATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTT
* *
861524 ATGAAAAAAAAT-GCAAGTATATTGGTAAAATAAGCTTACGAGCTT
1 ATG--AGATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTT
* *
861569 ATGAGATGAATGGTAAGTAGATTG
1 ATGAGAT-AATGGCAAGTATATTG
861593 ATAAGAAATG
Statistics
Matches: 135, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
43 2 0.01
44 82 0.61
45 47 0.35
46 4 0.03
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (44 bp):
ATGAGATAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTT
Found at i:864320 original size:15 final size:15
Alignment explanation
Indices: 864300--864329 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
864290 GAATGATATA
*
864300 ATAAGAAGTTATGGG
1 ATAAGAAGATATGGG
864315 ATAAGAAGATATGGG
1 ATAAGAAGATATGGG
864330 TTTATGTGAT
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:0.43, C:0.00, G:0.33, T:0.23
Consensus pattern (15 bp):
ATAAGAAGATATGGG
Found at i:864788 original size:31 final size:32
Alignment explanation
Indices: 864703--864795 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
864693 AGTCGAGGGT
*
864703 TTACCTATGTTCTACGGAACATATGGACAGAA
1 TTACCTATGTTCTAAGGAACATATGGACAGAA
* * * **
864735 TTACTTATGTCTTTCAGG-ACATATGGACATTA
1 TTACCTATGT-TCTAAGGAACATATGGACAGAA
864767 -TACCTATGTTCTAAGGAACATATGGACAG
1 TTACCTATGTTCTAAGGAACATATGGACAG
864796 TTTATCTAGG
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
30 5 0.10
31 19 0.39
32 21 0.43
33 4 0.08
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTAAGGAACATATGGACAGAA
Found at i:864809 original size:31 final size:31
Alignment explanation
Indices: 864701--864809 Score: 114
Period size: 31 Copynumber: 3.5 Consensus size: 31
864691 AGAGTCGAGG
*
864701 GTTTACCTATGTTCTACGGAACATATGGACA
1 GTTTACCTATGTTCTAAGGAACATATGGACA
* * * *
864732 GAATTACTTATGTCTTTCAGG-ACATATGGACA
1 G-TTTACCTATGT-TCTAAGGAACATATGGACA
864764 -TTATACCTATGTTCTAAGGAACATATGGACA
1 GTT-TACCTATGTTCTAAGGAACATATGGACA
* *
864795 GTTTATCTAGGTTCT
1 GTTTACCTATGTTCT
864810 TCGGGACCTA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
30 6 0.10
31 30 0.48
32 22 0.35
33 4 0.06
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTAAGGAACATATGGACA
Found at i:866368 original size:13 final size:13
Alignment explanation
Indices: 866352--866388 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
866342 TTTCAAAGGG
866352 TAATTTCAAAACT
1 TAATTTCAAAACT
866365 TAATTTCAAAACT
1 TAATTTCAAAACT
*
866378 TGATTTCAAAA
1 TAATTTCAAAA
866389 ATGATTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.38
Consensus pattern (13 bp):
TAATTTCAAAACT
Found at i:866399 original size:13 final size:13
Alignment explanation
Indices: 866354--866395 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
866344 TCAAAGGGTA
* *
866354 ATTTCAAAACTTA
1 ATTTCAAAACATG
*
866367 ATTTCAAAACTTG
1 ATTTCAAAACATG
866380 ATTTCAAAA-ATG
1 ATTTCAAAACATG
866392 ATTT
1 ATTT
866396 TCAATTAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.40
Consensus pattern (13 bp):
ATTTCAAAACATG
Found at i:866739 original size:20 final size:20
Alignment explanation
Indices: 866714--866751 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
866704 TAGATTGCCT
866714 AGAGGGTACCGATACCCCCA
1 AGAGGGTACCGATACCCCCA
866734 AGAGGGTACCGATACCCC
1 AGAGGGTACCGATACCCC
866752 TATGTAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.34, G:0.26, T:0.11
Consensus pattern (20 bp):
AGAGGGTACCGATACCCCCA
Found at i:871060 original size:21 final size:23
Alignment explanation
Indices: 871021--871079 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
871011 CCAAAATAAT
* *
871021 AATAAAAATATTAT-TTTTATTC
1 AATAAAAATAATATATTTAATTC
*
871043 AATAAAAATAATA-ATTTAATTG
1 AATAAAAATAATATATTTAATTC
*
871065 AA-AAAAATAAAATAT
1 AATAAAAATAATATAT
871080 ATATAGGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.29
22 22 0.71
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
AATAAAAATAATATATTTAATTC
Found at i:871647 original size:34 final size:35
Alignment explanation
Indices: 871604--871672 Score: 113
Period size: 34 Copynumber: 2.0 Consensus size: 35
871594 CCACGATACA
*
871604 AATTAAGAGCACCTAGGATC-ATATTGATCGAGAT
1 AATTAAGAGCACCTAGGACCAATATTGATCGAGAT
*
871638 AATTAAGAGCATCTAGGACCAATATTGATCGAGAT
1 AATTAAGAGCACCTAGGACCAATATTGATCGAGAT
871673 GTAAATGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.56
35 14 0.44
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
AATTAAGAGCACCTAGGACCAATATTGATCGAGAT
Found at i:872976 original size:15 final size:16
Alignment explanation
Indices: 872948--872979 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
872938 TAATTTGATC
872948 TGAAAAAATATATTTA
1 TGAAAAAATATATTTA
872964 TGAAAAAAT-TATTTA
1 TGAAAAAATATATTTA
872979 T
1 T
872980 TTTATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
TGAAAAAATATATTTA
Found at i:874679 original size:7 final size:7
Alignment explanation
Indices: 874669--874709 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
874659 TTATTGAGTA
874669 TTATTTT
1 TTATTTT
874676 TTATTTT
1 TTATTTT
*
874683 TTAATTT
1 TTATTTT
874690 TTATTTT
1 TTATTTT
*
874697 TAATTTAT
1 TTATTT-T
874705 TTATT
1 TTATT
874710 GAATTTTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (7 bp):
TTATTTT
Found at i:874681 original size:21 final size:21
Alignment explanation
Indices: 874655--874705 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
874645 AAATACATCA
*
874655 TTATTTATTGAGTATTATTTT
1 TTATTTATTAAGTATTATTTT
* * *
874676 TTATTTTTTAATTTTTATTTT
1 TTATTTATTAAGTATTATTTT
*
874697 TAATTTATT
1 TTATTTATT
874706 TATTGAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TTATTTATTAAGTATTATTTT
Found at i:874696 original size:13 final size:14
Alignment explanation
Indices: 874673--874702 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
874663 TGAGTATTAT
874673 TTTTTATTTTTTAA
1 TTTTTATTTTTTAA
874687 TTTTTA-TTTTTAA
1 TTTTTATTTTTTAA
874700 TTT
1 TTT
874703 ATTTATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTTTTAA
Found at i:878572 original size:3 final size:3
Alignment explanation
Indices: 878566--878616 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
878556 TTAGTATTAT
*
878566 TAA TAA TAA T-A TAT TAA T-A TAA TAA TAA TAA TAA TAA TAA TCAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
878610 T-A TAA TA
1 TAA TAA TA
878617 TATATTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 6 0.14
3 33 0.79
4 3 0.07
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:879032 original size:55 final size:55
Alignment explanation
Indices: 878888--879174 Score: 364
Period size: 55 Copynumber: 5.2 Consensus size: 55
878878 ATAGAACTAG
* * * * * * *
878888 ATCTTCAACAAACGTATCCGCT-TCCTATTCCTTCAGAGAGTTTAGGACTTGAACAA
1 ATCTTCAACAATCGTGTCTGCTCT-CTATTTCTTCAGAGAGTATAAGACTCGAAC-A
*
878944 ATCTTCAACAAAT-GTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACA
1 ATCTTCAAC-AATCGTGTCTGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * * *
878999 ATTTTCAACATTCGTGTTTGTTCTCTATTTCTTCAGAGAGTATAAGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACA
* * *
879054 ATTTTCAACAATCGTGTCTACTCTCTAATTCTTCAGAGAGTATAAGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACA
* *
879109 ATCTTCAACAATCGTGTATG-TTTCCTATTTCTTCAGAGAGTATAAGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCT-CTATTTCTTCAGAGAGTATAAGACTCGAACA
879164 ATCTTCAACAA
1 ATCTTCAACAA
879175 ACGGGTTCGC
Statistics
Matches: 204, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
54 4 0.02
55 156 0.76
56 42 0.21
57 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (55 bp):
ATCTTCAACAATCGTGTCTGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAACA
Found at i:879242 original size:54 final size:53
Alignment explanation
Indices: 879172--879442 Score: 335
Period size: 54 Copynumber: 5.0 Consensus size: 53
879162 CAATCTTCAA
* * * *
879172 CAAACGGGTTCGCTCCCTCATTCTCTAGGAAGCATGGAACTCGAACATCTTCTT
1 CAAACGGGTTCGCTCCCTCTTTCT-TAGGAAGTATAGAACTCGGACATCTTCTT
** * *
879226 CTTACGGGTTCACTCCCTCTTTCTTCAGGAAGTATAAAACTCGGACATCTTCTT
1 CAAACGGGTTCGCTCCCTCTTTCTT-AGGAAGTATAGAACTCGGACATCTTCTT
*
879280 CAAACGGGTTAGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCTTCTT
1 CAAACGGGTTCGCTCCCTCTTTCTT-AGGAAGTATAGAACTCGGACATCTTCTT
* * * *
879334 CAAATGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAAAACTCGGACATCTTTTT
1 CAAACGGGTTCGCTCCCTCTTTCT-TAGGAAGTATAGAACTCGGACATCTTCTT
* * * * *
879388 CAAACGGGTTCGCTCCCCCTTTATATAGGGAGTATGGAACTCGAACATCTTCTT
1 CAAACGGGTTCGCTCCCTCTTTCT-TAGGAAGTATAGAACTCGGACATCTTCTT
879442 C
1 C
879443 TTGCTTCACT
Statistics
Matches: 189, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.01
54 187 0.99
55 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (53 bp):
CAAACGGGTTCGCTCCCTCTTTCTTAGGAAGTATAGAACTCGGACATCTTCTT
Done.