Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001466.1 Hibiscus syriacus cultivar Beakdansim tig00002841_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: 1236886
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:888311 original size:24 final size:24
Alignment explanation
Indices: 888255--888327 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
888245 TCGTATAAAA
888255 TATATTTTTAAAA-AT-TATTTAATT
1 TATATTTTTAAAATATATATTT--TT
*
888279 GA-ATGTTTTAAAATATATATTTTT
1 TATAT-TTTTAAAATATATATTTTT
*
888303 TATATTTTTAATAATAATAAATTTT
1 TATATTTTTAA-AAT-ATATATTTT
888328 AAATAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 2 0.05
24 18 0.45
25 7 0.17
26 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (24 bp):
TATATTTTTAAAATATATATTTTT
Found at i:888332 original size:17 final size:17
Alignment explanation
Indices: 888306--888342 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
888296 TATTTTTTAT
*
888306 ATTTTTAATAATAATAA
1 ATTTTAAATAATAATAA
888323 ATTTTAAATAATAATAA
1 ATTTTAAATAATAATAA
888340 ATT
1 ATT
888343 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTAAATAATAATAA
Found at i:898758 original size:277 final size:277
Alignment explanation
Indices: 898264--898817 Score: 1108
Period size: 277 Copynumber: 2.0 Consensus size: 277
898254 GCCATCAGAG
898264 AACACTGTAAGACCACCCATACCAGTTCCAACAAGCACTCCAGTTCGCTCCTTATTGATCTACAA
1 AACACTGTAAGACCACCCATACCAGTTCCAACAAGCACTCCAGTTCGCTCCTTATTGATCTACAA
898329 CAAATACAAGAGCTGAAATTTTAAAGCAAAGCAAAAGAACTAAAGTAAATTAAAGATGGAGTAGA
66 CAAATACAAGAGCTGAAATTTTAAAGCAAAGCAAAAGAACTAAAGTAAATTAAAGATGGAGTAGA
898394 TAAGCTATATCACTTGATGAGAGAAAGAATGAGAACAATCAATCCAACCTCGTAGGAACTCAAAC
131 TAAGCTATATCACTTGATGAGAGAAAGAATGAGAACAATCAATCCAACCTCGTAGGAACTCAAAC
898459 AATTCTAAGAACTGATATCACTTTAAACATATTGCTTTTTTCTTGAATCTGTCGATTCTCTAGGG
196 AATTCTAAGAACTGATATCACTTTAAACATATTGCTTTTTTCTTGAATCTGTCGATTCTCTAGGG
898524 TAAGAGAAATCATCCAT
261 TAAGAGAAATCATCCAT
898541 AACACTGTAAGACCACCCATACCAGTTCCAACAAGCACTCCAGTTCGCTCCTTATTGATCTACAA
1 AACACTGTAAGACCACCCATACCAGTTCCAACAAGCACTCCAGTTCGCTCCTTATTGATCTACAA
898606 CAAATACAAGAGCTGAAATTTTAAAGCAAAGCAAAAGAACTAAAGTAAATTAAAGATGGAGTAGA
66 CAAATACAAGAGCTGAAATTTTAAAGCAAAGCAAAAGAACTAAAGTAAATTAAAGATGGAGTAGA
898671 TAAGCTATATCACTTGATGAGAGAAAGAATGAGAACAATCAATCCAACCTCGTAGGAACTCAAAC
131 TAAGCTATATCACTTGATGAGAGAAAGAATGAGAACAATCAATCCAACCTCGTAGGAACTCAAAC
898736 AATTCTAAGAACTGATATCACTTTAAACATATTGCTTTTTTCTTGAATCTGTCGATTCTCTAGGG
196 AATTCTAAGAACTGATATCACTTTAAACATATTGCTTTTTTCTTGAATCTGTCGATTCTCTAGGG
898801 TAAGAGAAATCATCCAT
261 TAAGAGAAATCATCCAT
898818 CCCATAAACA
Statistics
Matches: 277, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
277 277 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (277 bp):
AACACTGTAAGACCACCCATACCAGTTCCAACAAGCACTCCAGTTCGCTCCTTATTGATCTACAA
CAAATACAAGAGCTGAAATTTTAAAGCAAAGCAAAAGAACTAAAGTAAATTAAAGATGGAGTAGA
TAAGCTATATCACTTGATGAGAGAAAGAATGAGAACAATCAATCCAACCTCGTAGGAACTCAAAC
AATTCTAAGAACTGATATCACTTTAAACATATTGCTTTTTTCTTGAATCTGTCGATTCTCTAGGG
TAAGAGAAATCATCCAT
Found at i:901822 original size:182 final size:181
Alignment explanation
Indices: 901532--902004 Score: 768
Period size: 182 Copynumber: 2.6 Consensus size: 181
901522 TACAAATGAA
* *
901532 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGATAAAACCGGTGTCATTATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAA-CGGTGTCATTATGATAAA
* *
901597 ACCGGTAAATCGCTACCGGATATATTGAAAATGTCGATAAATTAATATAAGTATCGACACTTTTG
65 ACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
* *
901662 TAATTTAAAAGAGAATAAGTTATAGCGTATATAAAGTGTCGATACTTTATAC
130 TAATTTAAAAGAGAATAAGTTATAGCGCATAAAAAGTGTCGATACTTTATAC
*
901714 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAATCGGTGTCATTATAATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAA-CGGTGTCATTATGATAAA
*
901779 ACCGGTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
65 ACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTG
* *
901844 TAATTTAAAAGAGAATAAGTTATAGCGCCTAAAAAGTGTCGATATTTTATAC
130 TAATTTAAAAGAGAATAAGTTATAGCGCATAAAAAGTGTCGATACTTTATAC
* * * *
901896 AAATGTATCGATCCATAGCAATATAAGAGGTAATAATATGACAAAACATGTCTCGA-AATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAAC-GGTGTC-ATTATGATAA
*
901960 AACCGGTAAAAAGCTACCGGATATATTGAAAGTGTCGATAAATTA
64 AACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATAAATTA
902005 GGGTGTGTTT
Statistics
Matches: 272, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
181 1 0.00
182 270 0.99
183 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (181 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACGGTGTCATTATGATAAAA
CCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTTGT
AATTTAAAAGAGAATAAGTTATAGCGCATAAAAAGTGTCGATACTTTATAC
Found at i:902119 original size:42 final size:42
Alignment explanation
Indices: 902055--902154 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
902045 TTTCCCCGAA
*
902055 TTCCATTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
1 TTCCATTGTTTGTTTCACGTAATTCATTTTCCAGAAAATG-TT
*
902098 TTCC-TTGTTTGTTTCATGTAATTCATTTTCCAGAAAATGTT
1 TTCCATTGTTTGTTTCACGTAATTCATTTTCCAGAAAATGTT
*
902139 TTCCAGTGTTTGTTTC
1 TTCCATTGTTTGTTTC
902155 TCGTTATTGG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
41 6 0.11
42 43 0.81
43 4 0.08
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (42 bp):
TTCCATTGTTTGTTTCACGTAATTCATTTTCCAGAAAATGTT
Found at i:902424 original size:31 final size:32
Alignment explanation
Indices: 902357--902437 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
902347 AAATATTATT
902357 TATT-TATTTATTAATATTTATAATAATATAA
1 TATTATATTTATTAATATTTATAATAATATAA
*
902388 TATTATATTT-TTAATATTCTATAA-AATAATCA
1 TATTATATTTATTAATATT-TATAATAAT-ATAA
*
902420 -ATTATATTATAATAATAT
1 TATTATATT-TATTAATAT
902438 AAGATATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
31 23 0.53
32 14 0.33
33 6 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
TATTATATTTATTAATATTTATAATAATATAA
Found at i:902492 original size:28 final size:28
Alignment explanation
Indices: 902461--902524 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
902451 TTTATTTTAA
*
902461 TAATATAT-AATAAAAATCTTTATATATT
1 TAATA-ATGAATAAAAATATTTATATATT
* *
902489 TAATAATGAATAATATTATTTATATATT
1 TAATAATGAATAAAAATATTTATATATT
902517 TAAATAAT
1 T-AATAAT
902525 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 23 0.74
29 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (28 bp):
TAATAATGAATAAAAATATTTATATATT
Found at i:902504 original size:19 final size:19
Alignment explanation
Indices: 902482--902534 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
902472 AAAAATCTTT
*
902482 ATATATTTAATAATGAATA
1 ATATATTTAATAATAAATA
*
902501 ATATTATTTATATATTTAAATA
1 ATA-TATTTA-ATA-ATAAATA
902523 ATAT-TTTAATAA
1 ATATATTTAATAA
902535 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATTTAATAATAAATA
Found at i:902555 original size:23 final size:23
Alignment explanation
Indices: 902529--902573 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
902519 AATAATATTT
902529 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
902552 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
902574 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:902708 original size:49 final size:50
Alignment explanation
Indices: 902654--902752 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
902644 AAATTATTAA
*
902654 TAAAATTATAAAAATAA-TATTTACTAATAAATAA-ATTATTT-TAATATTT
1 TAAAATAATAAAAATAAGT-TTTA-TAATAAATAATATTATTTATAATATTT
* * * *
902703 TAAAATAATAATATTAAGTTTTATGATAAATAATATTATTTATTATATTT
1 TAAAATAATAAAAATAAGTTTTATAATAAATAATATTATTTATAATATTT
902753 AATATTTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (50 bp):
TAAAATAATAAAAATAAGTTTTATAATAAATAATATTATTTATAATATTT
Found at i:902955 original size:15 final size:15
Alignment explanation
Indices: 902913--902956 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
902903 TTTAAGAAAT
902913 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
* **
902928 G-AATTTAAATTCCA
1 GTAATTCATTTTCCA
902942 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
902957 ATTCCAGTAA
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:902959 original size:21 final size:21
Alignment explanation
Indices: 902935--902976 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
902925 CCAGAATTTA
902935 AATTCCAGTAATTCATTTTCC
1 AATTCCAGTAATTCATTTTCC
902956 AATTCCAGTAATTCATTTTCC
1 AATTCCAGTAATTCATTTTCC
902977 GGAAAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.43
Consensus pattern (21 bp):
AATTCCAGTAATTCATTTTCC
Found at i:903322 original size:182 final size:182
Alignment explanation
Indices: 903009--903445 Score: 745
Period size: 182 Copynumber: 2.4 Consensus size: 182
902999 AAACAGACCC
*
903009 TTAATATAAGTATCGACACTTTTG-ATATTTAAAAGAGAAGAAGTTACAGCGCCTAAAAAGTGTC
1 TTAATATAAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTC
* * *
903073 TATACTTTATACAAATGTATCGATCCATATCAATATAACAGGTAATAATATGACAAAACAGGTCT
66 GATATTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCT
* *
903138 CAAAATGATAAAATCGGTAAAAAGATACCGGATATATTAAAAGTGTCGATAAA
131 CAAAATGATAAAACCGGT-AAAAGATACCAGATATATTAAAAGTGTCGATAAA
*
903191 TTAATATAAGTATCAACACTTTTGTA-ATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTC
1 TTAATATAAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTC
*
903255 GATATTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACATGTCT
66 GATATTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCT
* *
903320 CAAAATGATAAAACCGGTAAAAGCTACCAGATATATTGAAAGTGTCGATAAA
131 CAAAATGATAAAACCGGTAAAAGATACCAGATATATTAAAAGTGTCGATAAA
*
903372 TTAATATAATTATCGACACTTTT-TATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTC
1 TTAATATAAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTC
903436 GATATTTTAT
66 GATATTTTAT
903446 TATAAAACAA
Statistics
Matches: 241, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
180 2 0.01
181 100 0.41
182 138 0.57
183 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (182 bp):
TTAATATAAGTATCGACACTTTTGTATATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTC
GATATTTTATACAAATGTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTCT
CAAAATGATAAAACCGGTAAAAGATACCAGATATATTAAAAGTGTCGATAAA
Found at i:905724 original size:198 final size:197
Alignment explanation
Indices: 905406--905881 Score: 552
Period size: 198 Copynumber: 2.4 Consensus size: 197
905396 CAAAGAGACT
* * *
905406 GATAATTATAATGTAATAGGTAAATTT-CTAATATAACC-GATAGAAATATACCGGGTTCATGAG
1 GATAATTATAATGTAATAGGTAAATTTAC-AATGTAACCGGTTA-AAATATACC-GGTTAATGAG
* * *
905469 AGAATAGGTCAACATAAAGTATCGACACTTTTTTAATTTGTGTCGATACATTTTTCCAAAATGAA
63 AGAATAGGTCAACATAAAGTATCGACACTCTTTAAATATGTGTCGATACATTTTTCCAAAAT-AA
* ** *
905534 TG-GTAAACGAGGTGTACGCATAAAGTGTCGATACATTTGTAAAA-AGTATCAATCCTCG-AAAC
127 AGCACAAACGAGGTGCACGCATAAAGTGTCGATACA-TT-TAAAATAGTATCAATCC-CGAAAAC
*
905596 ATCGAAATC
189 ATCGAAACC
* * *
905605 GATAATTATTATGTAACAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATTAGCA-
1 GATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAG-AG
* * * *
905669 AATAGGTCTACATTATGTATCGACACTCTTTAAATATGTGTCGATACTTTTTTCCAAAATAAAGC
65 AATAGGTCAACATAAAGTATCGACACTCTTTAAATATGTGTCGATACATTTTTCCAAAATAAAGC
* * *
905734 ACAAACGAGTTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCGAAAACATCGAA
130 ACAAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATAGTATCAATCCCGAAAACATCGAA
905799 ACC
195 ACC
* * * * * *
905802 GAT-ATACATAATGTAATAGGTCAATTTATAATGTAACCGGTTTAAATTTACCGGTTTTATGAGA
1 GATAAT-TATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCGG-TTAATGAGA
* *
905866 AAATAGGTCAATATAA
64 GAATAGGTCAACATAA
905882 GCGCTATCTA
Statistics
Matches: 235, Mismatches: 33, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
196 9 0.04
197 71 0.30
198 108 0.46
199 43 0.18
200 4 0.02
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (197 bp):
GATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTTAAAATATACCGGTTAATGAGAGA
ATAGGTCAACATAAAGTATCGACACTCTTTAAATATGTGTCGATACATTTTTCCAAAATAAAGCA
CAAACGAGGTGCACGCATAAAGTGTCGATACATTTAAAATAGTATCAATCCCGAAAACATCGAAA
CC
Found at i:905980 original size:87 final size:87
Alignment explanation
Indices: 905876--906038 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
905866 AAATAGGTCA
* * * *
905876 ATATAAGCGCTATCTATTACATTGTATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
905941 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
*
905963 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
906028 CCGGTTAAATG
66 CCGGTTAAATG
906039 ATATAATATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGATACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:906010 original size:23 final size:23
Alignment explanation
Indices: 905960--906004 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
905950 TGCCTATTTT
* *
905960 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGATACCTAATAC
905983 ATTATATAAGCGATACCTAATA
1 ATTATATAAGCGATACCTAATA
906005 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGATACCTAATAC
Found at i:909549 original size:23 final size:23
Alignment explanation
Indices: 909521--909627 Score: 124
Period size: 23 Copynumber: 4.7 Consensus size: 23
909511 CTCATATAAA
*
909521 TGCACCGAAGTGCCATATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
909544 TGCACCGAAGTACCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
909567 TGCACCGAAGTGTCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* * * *
909590 TGCACCGTAGTGCCGCGTAGAAA
1 TGCACCGAAGTGCCACATAGAAT
*
909613 TGCACTGAAGTGCCA
1 TGCACCGAAGTGCCA
909628 TATAAGGTTG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:909588 original size:46 final size:46
Alignment explanation
Indices: 909518--909627 Score: 148
Period size: 46 Copynumber: 2.4 Consensus size: 46
909508 CAGCTCATAT
*
909518 AAATGCACCGAAGTGCCATATAGAATTGCACCGAAGTACCACGTAG
1 AAATGCACCGAAGTGCCACATAGAATTGCACCGAAGTACCACGTAG
* * * * * *
909564 AATTGCACCGAAGTGTCACGTAGAATTGCACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACATAGAATTGCACCGAAGTACCACGTAG
*
909610 AAATGCACTGAAGTGCCA
1 AAATGCACCGAAGTGCCA
909628 TATAAGGTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.19
Consensus pattern (46 bp):
AAATGCACCGAAGTGCCACATAGAATTGCACCGAAGTACCACGTAG
Found at i:914747 original size:21 final size:23
Alignment explanation
Indices: 914722--914840 Score: 98
Period size: 23 Copynumber: 5.3 Consensus size: 23
914712 CACCACAGCT
914722 CATATA-AA-TGCACCGAAGTTC
1 CATATAGAATTGCACCGAAGTTC
*
914743 CATATAGAATTGCACCGAAGTAC
1 CATATAGAATTGCACCGAAGTTC
** **
914766 CACGTAGAATTGCACCGAAGGGC
1 CATATAGAATTGCACCGAAGTTC
** * *
914789 CACGTAGAATTGCACCGTAGTGC
1 CATATAGAATTGCACCGAAGTTC
*** * *
914812 CGCGTAGAAATGCACCGAAGTGC
1 CATATAGAATTGCACCGAAGTTC
914835 CATATA
1 CATATA
914841 AGGTTGTCCC
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
21 6 0.07
22 2 0.02
23 75 0.90
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (23 bp):
CATATAGAATTGCACCGAAGTTC
Found at i:914758 original size:23 final size:23
Alignment explanation
Indices: 914730--914836 Score: 124
Period size: 23 Copynumber: 4.7 Consensus size: 23
914720 CTCATATAAA
* *
914730 TGCACCGAAGTTCCATATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
914753 TGCACCGAAGTACCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* *
914776 TGCACCGAAGGGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* * * *
914799 TGCACCGTAGTGCCGCGTAGAAA
1 TGCACCGAAGTGCCACATAGAAT
914822 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
914837 TATAAGGTTG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:914797 original size:46 final size:46
Alignment explanation
Indices: 914727--914836 Score: 139
Period size: 46 Copynumber: 2.4 Consensus size: 46
914717 CAGCTCATAT
** **
914727 AAATGCACCGAAGTTCCATATAGAATTGCACCGAAGTACCACGTAG
1 AAATGCACCGAAGGGCCACGTAGAATTGCACCGAAGTACCACGTAG
* * * *
914773 AATTGCACCGAAGGGCCACGTAGAATTGCACCGTAGTGCCGCGTAG
1 AAATGCACCGAAGGGCCACGTAGAATTGCACCGAAGTACCACGTAG
*
914819 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGGGCCA
914837 TATAAGGTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (46 bp):
AAATGCACCGAAGGGCCACGTAGAATTGCACCGAAGTACCACGTAG
Found at i:915301 original size:2 final size:2
Alignment explanation
Indices: 915294--915321 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
915284 ATTCATCTTC
915294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
915322 CATTTTTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:919976 original size:23 final size:23
Alignment explanation
Indices: 919948--920054 Score: 151
Period size: 23 Copynumber: 4.7 Consensus size: 23
919938 CTCATATAAA
*
919948 TGCACCGAAGTGCCATATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
919971 TGCACCGAAGTACCACATAGAAT
1 TGCACCGAAGTGCCACATAGAAT
*
919994 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACATAGAAT
* * * *
920017 TGCACCGTAGTGCCGCGTAGAAA
1 TGCACCGAAGTGCCACATAGAAT
920040 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
920055 TATAAGGTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 75 1.00
ACGTcount: A:0.32, C:0.26, G:0.24, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACATAGAAT
Found at i:920348 original size:2 final size:2
Alignment explanation
Indices: 920341--920383 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
920331 TGTCTTATCC
920341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
920383 T
1 T
920384 TCACATGTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:920453 original size:2 final size:2
Alignment explanation
Indices: 920446--920512 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
920436 TTCATCTTCC
920446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
920488 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
920513 TTTTCCTATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:921189 original size:226 final size:226
Alignment explanation
Indices: 920795--921246 Score: 868
Period size: 226 Copynumber: 2.0 Consensus size: 226
920785 CATCATACAA
920795 CCCATATATCATAATTTTATTTAAGCATATGTATCTTTCCCATCTAACTCATCTTATATGTTCCT
1 CCCATATATCATAATTTTATTTAAGCATATGTATCTTTCCCATCTAACTCATCTTATATGTTCCT
*
920860 ATTATCACTTATGTTCAAGTCTCGTATCATCATATATGTCAATATTATATATCTTGTTTCAATTC
66 ATTATCACTTATGTTCAAGTCTCATATCATCATATATGTCAATATTATATATCTTGTTTCAATTC
*
920925 TCATTCAATGATATAATTCTATTTTACTATTTCACATAAATGTTCATACCACTATTCACTTACCT
131 TCATTCAATGATATAATTATATTTTACTATTTCACATAAATGTTCATACCACTATTCACTTACCT
920990 AACTCACATTCTTATTGTTTATATAACCTTT
196 AACTCACATTCTTATTGTTTATATAACCTTT
921021 CCCATATATCATAATTTTATTTAAGCATATGTATCTTTCCCATCTAACTCATCTTATATGTTCCT
1 CCCATATATCATAATTTTATTTAAGCATATGTATCTTTCCCATCTAACTCATCTTATATGTTCCT
921086 ATTATCACTTATGTTCAAGTCTCATATCATCATATATGTCAATATTATATATCTTGTTTCAATTC
66 ATTATCACTTATGTTCAAGTCTCATATCATCATATATGTCAATATTATATATCTTGTTTCAATTC
* *
921151 TCATTCAATGATATAATTATATTTTACTATTTCACATAAATGTTCATATCACTATTCACTTATCT
131 TCATTCAATGATATAATTATATTTTACTATTTCACATAAATGTTCATACCACTATTCACTTACCT
921216 AACTCACATTCTTATTGTTTATATAACCTTT
196 AACTCACATTCTTATTGTTTATATAACCTTT
921247 ACACTTGAGT
Statistics
Matches: 222, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
226 222 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.46
Consensus pattern (226 bp):
CCCATATATCATAATTTTATTTAAGCATATGTATCTTTCCCATCTAACTCATCTTATATGTTCCT
ATTATCACTTATGTTCAAGTCTCATATCATCATATATGTCAATATTATATATCTTGTTTCAATTC
TCATTCAATGATATAATTATATTTTACTATTTCACATAAATGTTCATACCACTATTCACTTACCT
AACTCACATTCTTATTGTTTATATAACCTTT
Found at i:930779 original size:42 final size:42
Alignment explanation
Indices: 930727--930847 Score: 197
Period size: 42 Copynumber: 2.9 Consensus size: 42
930717 ACCCCCGTTA
* * *
930727 CCACTCCGACATTACCCGACACGAATCCCTCCCCTACCATCC
1 CCACCCCGACATTACCCGACACAAATCCCTCCCCGACCATCC
*
930769 CTACCCCGACATTACCCGACACAAATCCCTCCCCGACCATCC
1 CCACCCCGACATTACCCGACACAAATCCCTCCCCGACCATCC
*
930811 CCACCCCGACATTACCCGACAAAAATCCCTCCCCGAC
1 CCACCCCGACATTACCCGACACAAATCCCTCCCCGAC
930848 TCTTCCCACT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.26, C:0.52, G:0.07, T:0.14
Consensus pattern (42 bp):
CCACCCCGACATTACCCGACACAAATCCCTCCCCGACCATCC
Found at i:936298 original size:35 final size:36
Alignment explanation
Indices: 936250--936317 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
936240 TAACAATCTC
*
936250 TTACGAACGTAAGAAGTAAAATTTTTAT-TTAATTG
1 TTACGAACATAAGAAGTAAAATTTTTATGTTAATTG
**
936285 TTACGAACATAAGAAGTAATTTTTTTATGTTAA
1 TTACGAACATAAGAAGTAAAATTTTTATGTTAA
936318 ATGATGAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (36 bp):
TTACGAACATAAGAAGTAAAATTTTTATGTTAATTG
Found at i:939061 original size:21 final size:21
Alignment explanation
Indices: 938946--939061 Score: 67
Period size: 21 Copynumber: 5.6 Consensus size: 21
938936 GCGAAATAAA
*
938946 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTCTCCAG
** * *
938966 AATCGCAAATC-AGTCTCCAA
1 AATCGCAACGCGATTCTCCAG
** *
938986 AATCGCAACGCGATTCTTGAC
1 AATCGCAACGCGATTCTCCAG
* ** *
939007 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTCTCCAG
** *
939027 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTCTCCAG
939049 AATCGCAACGCGA
1 AATCGCAACGCGA
939062 ATATGAAAAT
Statistics
Matches: 71, Mismatches: 21, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.35
21 43 0.61
22 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (21 bp):
AATCGCAACGCGATTCTCCAG
Found at i:939074 original size:20 final size:20
Alignment explanation
Indices: 939049--939241 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
939039 GATTTTCCAG
* ** *
939049 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
939069 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
939089 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
939109 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
939129 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
939149 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
939169 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
939189 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
939210 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
939230 AATCGCAACGCG
1 AATCGCAACGCG
939242 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
19 1 0.01
20 131 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:939659 original size:33 final size:33
Alignment explanation
Indices: 939620--939690 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
939610 TTCACTTAGA
939620 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
939653 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
939686 TTTCA
1 TTTCA
939691 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:939796 original size:21 final size:20
Alignment explanation
Indices: 939770--939876 Score: 102
Period size: 21 Copynumber: 5.5 Consensus size: 20
939760 TGCAGAAGAG
939770 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
939791 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
939811 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
939833 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
939847 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
939866 TCGCAACGAGA
1 TCGCAACGAGA
939877 GAATCGCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 25 0.36
22 10 0.14
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:939850 original size:14 final size:14
Alignment explanation
Indices: 939831--939887 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
939821 GAAAAATGAA
939831 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
939845 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
939864 AATCGCAACGAGAG
1 AATCGCAACGAGAG
939878 AATCGCAACG
1 AATCGCAACG
939888 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:939862 original size:33 final size:33
Alignment explanation
Indices: 939824--939903 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
939814 GCAACGAGAA
939824 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
939857 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
939890 AAACCAAAATCGCA
1 AAATGAAAATCGCA
939904 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:939921 original size:19 final size:19
Alignment explanation
Indices: 939899--940026 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
939889 GAAACCAAAA
*
939899 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
939918 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
939932 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
939951 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
939965 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
939985 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
940005 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
940025 TC
1 TC
940027 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:939940 original size:14 final size:14
Alignment explanation
Indices: 939921--939977 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
939911 TTTCATTTCG
939921 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
939935 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
939954 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
939968 CGTTGCGATT
1 CGTTGCGATT
939978 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:939946 original size:33 final size:33
Alignment explanation
Indices: 939904--940026 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
939894 CAAAATCGCA
939904 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
939937 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
939970 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
940011 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
940027 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:939988 original size:21 final size:21
Alignment explanation
Indices: 939962--940026 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
939952 CGCGTTGCGA
939962 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
939983 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
940003 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
940024 TTC
1 TTC
940027 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:941870 original size:93 final size:93
Alignment explanation
Indices: 941711--942026 Score: 605
Period size: 93 Copynumber: 3.4 Consensus size: 93
941701 TAGATTGCTT
*
941711 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
941776 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
941804 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTTTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
941869 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
941897 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
941962 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
941990 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
942027 AATACCCTGA
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 219 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:942161 original size:14 final size:14
Alignment explanation
Indices: 942142--942198 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
942132 CGAAACTTAA
942142 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
942156 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
942175 AATCGCAACGACAG
1 AATCGCAACGAGAG
942189 AATCGCAACG
1 AATCGCAACG
942199 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:942180 original size:19 final size:18
Alignment explanation
Indices: 942156--942247 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
942146 GCAACGAGAG
942156 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
942175 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
942189 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
942208 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
942222 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
942241 AATCGCA
1 AATCGCA
942248 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:942182 original size:33 final size:33
Alignment explanation
Indices: 942124--942247 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
942114 TAGTTTACTT
* * *
942124 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
942158 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
942191 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
942224 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
942248 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:942224 original size:14 final size:14
Alignment explanation
Indices: 942173--942231 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
942163 ACGCGAAATG
942173 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
942187 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
942206 AAAATCGCAACGAC
1 AAAATCGCAACGAC
942220 AAAATCGCAACG
1 AAAATCGCAACG
942232 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:942265 original size:19 final size:19
Alignment explanation
Indices: 942243--942415 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
942233 GAAACCAAAA
*
942243 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
942262 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
942276 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
942295 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
942311 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
942328 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
942347 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
942366 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
942385 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
942405 TCGTGTTGCGA
1 TCGCGTTGCGA
942416 AAGTAAACTA
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
16 8 0.06
17 8 0.06
19 81 0.64
20 12 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:942284 original size:14 final size:14
Alignment explanation
Indices: 942265--942321 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
942255 TTTCATTTCG
942265 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
942279 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
*
942296 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTCT
942312 CGTTGCGATT
1 CGTTGCGATT
942322 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:942373 original size:38 final size:38
Alignment explanation
Indices: 942243--942415 Score: 168
Period size: 33 Copynumber: 4.8 Consensus size: 38
942233 GAAACCAAAA
*
942243 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
942278 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* **
942311 T--CGTTGCGATTTTCATTTCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
** *
942347 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
* *
942385 TCGCGTTGCGATTTTAAGTTTCGTGTTGCGA
1 TCGCGTTGCGATTTTCA-TTTCGCGTTGCGA
942416 AAGTAAACTA
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
31 2 0.02
32 1 0.01
33 52 0.45
34 1 0.01
35 2 0.02
36 2 0.02
38 44 0.38
39 11 0.10
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCATT
Found at i:942892 original size:21 final size:21
Alignment explanation
Indices: 942868--942934 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
942858 TCATTCCTCG
942868 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * *
942889 AGAGGCCACTGTCATCATTGA
1 AGAGTCCCCTCCCACCATTCA
942910 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCATTCA
942931 AGAG
1 AGAG
942935 CCCGATTCAC
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:944468 original size:19 final size:19
Alignment explanation
Indices: 944444--944531 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
944434 GCATTATGTT
944444 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
944463 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
944480 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
944496 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
944515 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
944532 CGAGAGAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 29 0.48
20 16 0.26
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:944563 original size:53 final size:53
Alignment explanation
Indices: 944444--944550 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
944434 GCATTATGTT
944444 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
944496 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
944549 GA
1 GA
944551 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 19 0.35
53 35 0.65
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:944627 original size:72 final size:69
Alignment explanation
Indices: 944541--944834 Score: 271
Period size: 72 Copynumber: 4.2 Consensus size: 69
944531 ACGAGAGAAT
* *
944541 CGCAATGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGTGATTCTCTCGTTGCGATT
1 CGCATTGCGATTTTC-TTTCG--TTGCGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATT
944606 TTCATTT-
62 TTCATTTC
* * * * *
944613 CGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGA
1 CGCATTGCGATTTTC-TTTCG--TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGA
944675 TTTTCATTTC
60 TTTTCATTTC
* *
944685 CGCATTGCGA--TTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
1 CGCATTGCGATTTTCTTTCGTTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGAT
944748 TTTCATTTC
61 TTTCATTTC
* * *
944757 CGCATTGCGATTTTC-TT-GTTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTGTAA
1 CGCATTGCGATTTTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
944820 TTTC
66 TTTC
**
944824 CGTGTTGCGAT
1 CGCATTGCGAT
944835 AGTCAAATGC
Statistics
Matches: 187, Mismatches: 21, Indels: 33
0.78 0.09 0.14
Matches are distributed among these distances:
65 9 0.05
66 3 0.02
67 31 0.17
68 2 0.01
69 8 0.04
70 8 0.04
71 18 0.10
72 95 0.51
73 6 0.03
74 7 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (69 bp):
CGCATTGCGATTTTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA
TTTC
Found at i:944666 original size:105 final size:109
Alignment explanation
Indices: 944546--944815 Score: 425
Period size: 105 Copynumber: 2.6 Consensus size: 109
944536 AGAATCGCAA
*
944546 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGTGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
944611 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TCT-CG-T
66 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGAT
944651 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
944716 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
66 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCCG-AT
*
944762 TGCGATTTTC--TT-G--TTGGGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATT
944816 GTAATTTCCG
Statistics
Matches: 156, Mismatches: 3, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
105 121 0.78
106 14 0.09
107 3 0.02
108 3 0.02
109 4 0.03
111 11 0.07
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (109 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCTCCGAT
Found at i:944830 original size:53 final size:52
Alignment explanation
Indices: 944546--944815 Score: 406
Period size: 53 Copynumber: 5.1 Consensus size: 52
944536 AGAATCGCAA
*
944546 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGTGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
944599 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
944651 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
944704 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--T
*
944762 TGCGATTTTC--TT-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
944809 TGCGATT
1 TGCGATT
944816 GTAATTTCCG
Statistics
Matches: 206, Mismatches: 4, Indels: 20
0.90 0.02 0.09
Matches are distributed among these distances:
47 8 0.04
49 2 0.01
50 2 0.01
51 3 0.01
52 61 0.30
53 109 0.53
54 3 0.01
55 3 0.01
56 4 0.02
58 11 0.05
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:945445 original size:20 final size:20
Alignment explanation
Indices: 945417--945645 Score: 235
Period size: 20 Copynumber: 11.4 Consensus size: 20
945407 AAATTTCAGT
* * *
945417 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
945437 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
945457 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
945477 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
945497 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
945517 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
945537 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
945557 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
945577 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
945597 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
945617 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
945637 GTTGCGATT
1 GTTGCGATT
945646 CTTGAAAATC
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:945698 original size:21 final size:20
Alignment explanation
Indices: 945613--945710 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
945603 ATTTATGTGT
* *
945613 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
945633 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
945654 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
945675 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
945696 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
945711 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:945706 original size:42 final size:43
Alignment explanation
Indices: 945613--945711 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
945603 ATTTATGTGT
* *
945613 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
945654 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
945696 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
945712 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:950187 original size:21 final size:21
Alignment explanation
Indices: 950161--950207 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
950151 ATTGTTATGG
950161 ATCGATACATTTTTATAAAGT
1 ATCGATACATTTTTATAAAGT
950182 ATCGATACATTTTTATAAAGT
1 ATCGATACATTTTTATAAAGT
950203 ATCGA
1 ATCGA
950208 CACTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (21 bp):
ATCGATACATTTTTATAAAGT
Found at i:950268 original size:13 final size:13
Alignment explanation
Indices: 950250--950276 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
950240 AAATTCTAAA
950250 AGCGTCGATACTT
1 AGCGTCGATACTT
950263 AGCGTCGATACTT
1 AGCGTCGATACTT
950276 A
1 A
950277 TAATAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (13 bp):
AGCGTCGATACTT
Found at i:950364 original size:20 final size:20
Alignment explanation
Indices: 950314--950366 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
950304 TTAAGTGGCG
950314 TTTTACCTGTTTTGTCATTT
1 TTTTACCTGTTTTGTCATTT
* **
950334 ATAGACCTGTTTTGTCATTT
1 TTTTACCTGTTTTGTCATTT
*
950354 TTTTACATGTTTT
1 TTTTACCTGTTTT
950367 ATTGTTATGG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.60
Consensus pattern (20 bp):
TTTTACCTGTTTTGTCATTT
Found at i:950548 original size:111 final size:112
Alignment explanation
Indices: 950279--950852 Score: 855
Period size: 112 Copynumber: 5.1 Consensus size: 112
950269 GATACTTATA
* * *** * * *
950279 ATAAAGTATCGACACTATCAACATATTAAGTGGCGTTTTACCTGTTTTGTCATTTATAGACCTGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
950344 TTTGTCATTTTTTTACATGTTTTATTGTTATGGATCGATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* *
950391 ATAAAGTATCGACACTATCAATATATCCGGTAGCGCTTTACTTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
950456 TTTTTCATTTTTTTACCTGTTATATTGTTATGGATCGATATA-TTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* *
950502 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* ** *
950567 TCTGTCATTTTTTTTACCTGTTATATTGTTATGGATTAATACATTTTT
66 TTTGTCA-TTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* *
950615 ATAAAGTATCGATACTTTCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
950680 TTTGTCA-TTTTTTACCTGTTATATTGTTATGCATAGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* *
950726 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACTTATTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * *
950791 TTTGTCATTTTTTTACTTATTATATTGTTATAGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
950838 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
950853 AAACCGACAA
Statistics
Matches: 420, Mismatches: 39, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
111 174 0.41
112 175 0.42
113 71 0.17
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
Found at i:951753 original size:20 final size:21
Alignment explanation
Indices: 951730--951769 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
951720 TGTTCATTAG
951730 TTATAAAAATGAAT-TATAAT
1 TTATAAAAATGAATGTATAAT
* *
951750 TTATATAAATTAATGTATAA
1 TTATAAAAATGAATGTATAA
951770 AAAAGTGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
TTATAAAAATGAATGTATAAT
Found at i:961855 original size:125 final size:125
Alignment explanation
Indices: 961633--962139 Score: 924
Period size: 125 Copynumber: 4.0 Consensus size: 125
961623 GGGCATAAAT
* *
961633 ATCTACCTTCAGAATTTATCTTGGTAGTTTACAAGATTAACCAGGCAACCAGATTTTTGCAGAAA
1 ATCTACCTTCAGAACTTATCTTGGTAGTTTACAAGGTTAACCAGGCAACCAGATTTTTGCAGAAA
*
961698 AAATGTTCACTTAATGCCACTTCAATCAACGTATAAAACTCATTTATGCAACATCAGTCA
66 AAATGTTCAGTTAATGCCACTTCAATCAACGTATAAAACTCATTTATGCAACATCAGTCA
961758 ATCTACCTTCAGAACTTATCTTGGTAGTTTACAAGGTTAACCAGGCAACCAGATTTTTGCAGAAA
1 ATCTACCTTCAGAACTTATCTTGGTAGTTTACAAGGTTAACCAGGCAACCAGATTTTTGCAGAAA
961823 AAATGTTCAGTTAATGCCACTTCAATCAACGTATAAAACTCATTTATGCAACATCAGTCA
66 AAATGTTCAGTTAATGCCACTTCAATCAACGTATAAAACTCATTTATGCAACATCAGTCA
* *
961883 ATCTACCTTCAGAACTTATCTTGGTAGTTTACAAGGTTAACCAGGCAATCAGAATTTTGCAGAAA
1 ATCTACCTTCAGAACTTATCTTGGTAGTTTACAAGGTTAACCAGGCAACCAGATTTTTGCAGAAA
*
961948 AAATGTTCAGTTAATGCCACTTCAATCAACGTATAAAACTCATTTCTGCAACATCAGTCA
66 AAATGTTCAGTTAATGCCACTTCAATCAACGTATAAAACTCATTTATGCAACATCAGTCA
*
962008 ATCTACCTTCAGAACTTAACTTGGTAGTTTACAAGGTTAACCAGGCAACCAGATTTTTTGCAGAA
1 ATCTACCTTCAGAACTTATCTTGGTAGTTTACAAGGTTAACCAGGCAACCAGA-TTTTTGCAGAA
* *
962073 AAAATGTTCAGTTAATGCCATTTCAATCAATGTATAAAACTCATTTATGCAACATCAGTCA
65 AAAATGTTCAGTTAATGCCACTTCAATCAACGTATAAAACTCATTTATGCAACATCAGTCA
962134 ATCTAC
1 ATCTAC
962140 AGCTATCAAC
Statistics
Matches: 369, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
125 295 0.80
126 74 0.20
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (125 bp):
ATCTACCTTCAGAACTTATCTTGGTAGTTTACAAGGTTAACCAGGCAACCAGATTTTTGCAGAAA
AAATGTTCAGTTAATGCCACTTCAATCAACGTATAAAACTCATTTATGCAACATCAGTCA
Found at i:969001 original size:16 final size:16
Alignment explanation
Indices: 968980--969019 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
968970 TTACTCGGTG
968980 TGTTATTTCAATATTT
1 TGTTATTTCAATATTT
* *
968996 TGTTATGTCAATTTTT
1 TGTTATTTCAATATTT
*
969012 TTTTATTT
1 TGTTATTT
969020 TTTTATTGGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (16 bp):
TGTTATTTCAATATTT
Found at i:972107 original size:21 final size:21
Alignment explanation
Indices: 972082--972125 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
972072 AATTTAGTTA
972082 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
972103 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
972124 AT
1 AT
972126 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:972139 original size:28 final size:28
Alignment explanation
Indices: 972102--972155 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
972092 TAGTATAAAT
*
972102 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAGTTTAAGTTATATTA
972130 TATTAATTTGTTAGTTTAAGTTATAT
1 TATTAATTTGTTAGTTTAAGTTATAT
972156 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAATTTGTTAGTTTAAGTTATATTA
Found at i:974453 original size:23 final size:23
Alignment explanation
Indices: 974427--974471 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
974417 CACCACAGCT
*
974427 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* * *
974450 CGTAGAATTGCATCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
974472 ATATAATGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:979314 original size:41 final size:42
Alignment explanation
Indices: 979257--979342 Score: 156
Period size: 41 Copynumber: 2.0 Consensus size: 42
979247 CTTTGTCCAC
979257 CTGAGTACTATGCCCTAACGGATTAGTTAC-TCATTACATTA
1 CTGAGTACTATGCCCTAACGGATTAGTTACATCATTACATTA
979298 CTGAGTACTATGCCCTAACGGATTAGTTACTATCATTACATTA
1 CTGAGTACTATGCCCTAACGGATTAGTTAC-ATCATTACATTA
979341 CT
1 CT
979343 CGTAGCTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 30 0.70
43 13 0.30
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (42 bp):
CTGAGTACTATGCCCTAACGGATTAGTTACATCATTACATTA
Found at i:982094 original size:20 final size:20
Alignment explanation
Indices: 982069--982106 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
982059 TTTTTATACA
982069 TGGGGGAATCAGTTCCCCCC
1 TGGGGGAATCAGTTCCCCCC
* *
982089 TGGGGGTATCGGTTCCCC
1 TGGGGGAATCAGTTCCCC
982107 TTGAATGGGT
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:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCAGTTCCCCCC
Found at i:984277 original size:60 final size:59
Alignment explanation
Indices: 984206--985032 Score: 623
Period size: 60 Copynumber: 14.2 Consensus size: 59
984196 TTTATAAGAT
* * *
984206 TTAGTAATGATTAGAAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAA--TGA
*
984267 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
984325 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* * * * * *
984385 TTAGTAAT-AAT-GAAATTAT--TATTAATATTTAATGATTTGAT-ATTAATGATTAGTAAT-A
1 TTAGTAATGATTAGTAATAATGAAATTATTA-TTAAT-ATTTAATGATT--TGA-TAGTAATGA
* * * * ** * *
984443 AT-GAAATTATTATTAAT-ATTTAATGA-T-TTGATA-TTAATGA-TT--TAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* * * * * * * * *
984494 TTAGTAAT-AAT-GAAATTAT--TATTAATATTTAATGATTTGAT-A-TTAAT-G-ATTTA
1 TTAGTAATGATTAGTAATAATGAAATTATTA-TTAAT-ATTTAATGATTTGATAGTAATGA
* * * * *
984547 GTAATGAT---TAGTAATAATGAAATCATTATTAATTTTTAATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
984603 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* *
984663 TTAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* * * ** * ** *
984721 TTTAGTAATGATTTGATAGTAATG-ATTTACGACTTGAACAATGAACAATG-TTTGGT--TCAAT
1 -TTAGTAATGATTAG-TAATAATGAAATTATTA-TT-AA-TAT--TTAATGATTTGATAGT-AAT
984782 --
58 GA
* ** * * * * * *
984782 TAACCATAT-TTTCGTTACATAACTAGTAATGA-AATT-ATA-ATAATGATTTGATAGTAATGA
1 TTAGTA-ATGATTAG-TA-ATAA-T-GAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
984842 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
984902 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
* *
984962 TTAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATATTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
985020 TTTAGTAATGATT
1 -TTAGTAATGATT
985033 TGATAGTAAT
Statistics
Matches: 623, Mismatches: 85, Indels: 118
0.75 0.10 0.14
Matches are distributed among these distances:
49 3 0.00
50 11 0.02
51 7 0.01
52 19 0.03
53 19 0.03
54 14 0.02
55 13 0.02
56 18 0.03
57 34 0.05
58 89 0.14
59 94 0.15
60 264 0.42
61 13 0.02
62 6 0.01
63 7 0.01
64 8 0.01
65 4 0.01
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (59 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
Found at i:984374 original size:109 final size:107
Alignment explanation
Indices: 984261--984729 Score: 577
Period size: 109 Copynumber: 4.2 Consensus size: 107
984251 TTTAATAGTA
*
984261 ATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGAT
1 ATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-
*
984326 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATG
65 TTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTTAATG
*
984370 ATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGAT
1 ATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
* * * * * *
984435 TAGTAAT-AAT-GAAATTAT-TATTAATATTTAATGATTTGAT-
66 TAGTAATGATTAGTAATAATAAATTATTA-TTAAT-ATTTAATG
*
984475 ATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAA
1 ATT--TGA--TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAA
* *
984540 TGATTTAGTAATGATTAGTAATAATGAAATCATTATTAATTTTTAATGATTTG
62 TGA-TTAGTAATGATTAGTAATAAT-AAATTATTATTAATATTT-A--A--TG
*
984593 ATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGT
1 AT--T--TGA--TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGT
*
984658 AATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATG
60 AATGATTAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATG
*
984706 ATTTGATATTAATGATTTAGTAAT
1 ATTTGATAGTAATGA-TTAGTAAT
984730 GATTTGATAG
Statistics
Matches: 317, Mismatches: 23, Indels: 41
0.83 0.06 0.11
Matches are distributed among these distances:
104 6 0.02
105 8 0.03
106 11 0.03
107 13 0.04
108 16 0.05
109 123 0.39
110 8 0.03
111 3 0.01
112 9 0.03
113 9 0.03
114 5 0.02
115 2 0.01
117 2 0.01
118 17 0.05
119 21 0.07
120 64 0.20
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (107 bp):
ATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGAT
TAGTAATGATTAGTAATAATAAATTATTATTAATATTTAATG
Found at i:984395 original size:27 final size:27
Alignment explanation
Indices: 984365--984491 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 27
984355 TATTAATTTT
*
984365 TAATGATTTGATAGTAATGATTAGTAA
1 TAATGATTTGATATTAATGATTAGTAA
*
984392 TAATGAAATT-ATTATTAAT-A-T--T--
1 TAATG-ATTTGA-TATTAATGATTAGTAA
984414 TAATGATTTGATATTAATGATTAGTAA
1 TAATGATTTGATATTAATGATTAGTAA
*
984441 TAATGAAATT-ATTATTAAT-A-T--T--
1 TAATG-ATTTGA-TATTAATGATTAGTAA
984463 TAATGATTTGATATTAATGATTTAGTAA
1 TAATGATTTGATATTAATGA-TTAGTAA
984491 T
1 T
984492 GATTAGTAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 37
0.64 0.04 0.31
Matches are distributed among these distances:
21 20 0.26
22 14 0.18
23 1 0.01
24 3 0.04
25 1 0.01
26 3 0.04
27 14 0.18
28 20 0.26
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (27 bp):
TAATGATTTGATATTAATGATTAGTAA
Found at i:984619 original size:10 final size:10
Alignment explanation
Indices: 984594--984680 Score: 54
Period size: 10 Copynumber: 8.7 Consensus size: 10
984584 AATGATTTGA
984594 TAGTAATGATT
1 TAGTAATGA-T
984605 TAGTAATGAT
1 TAGTAATGAT
*
984615 TAGTAAT-AA
1 TAGTAATGAT
* *
984624 T-GAAATTAT
1 TAGTAATGAT
* **
984633 TATTAATTTT
1 TAGTAATGAT
* *
984643 TAATGATTTGAT
1 TAGT-A-ATGAT
984655 -AGTAATGAT
1 TAGTAATGAT
984664 TAGTAATGAT
1 TAGTAATGAT
984674 TAGTAAT
1 TAGTAAT
984681 AATAATTTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
8 4 0.07
9 8 0.14
10 33 0.56
11 12 0.20
12 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:984704 original size:21 final size:22
Alignment explanation
Indices: 984680--984749 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
984670 TGATTAGTAA
984680 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
984701 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
984724 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
984748 TA
1 TA
984750 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:984717 original size:14 final size:14
Alignment explanation
Indices: 984701--984748 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
984691 TATTAATATT
*
984701 TAATGATTTGATAT
1 TAATGATTTGATAG
984715 TAATGA-TT--TAG
1 TAATGATTTGATAG
984726 TAATGATTTGATAG
1 TAATGATTTGATAG
984740 TAATGATTT
1 TAATGATTT
984749 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:984730 original size:25 final size:25
Alignment explanation
Indices: 984701--984749 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
984691 TATTAATATT
*
984701 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
984726 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
984750 CGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:984849 original size:11 final size:11
Alignment explanation
Indices: 984833--984920 Score: 54
Period size: 11 Copynumber: 7.6 Consensus size: 11
984823 AATGATTTGA
984833 TAGTAATGATT
1 TAGTAATGATT
984844 TAGTAATGATT
1 TAGTAATGATT
* *
984855 AGTAATAATGAAAT
1 --TAGTAATG-ATT
* * *
984869 TATTATTAATT
1 TAGTAATGATT
*
984880 T-TTAATGATTT
1 TAGTAATGA-TT
984891 GATAGTAATGATT
1 --TAGTAATGATT
984904 TAGTAATGA-T
1 TAGTAATGATT
984914 TAGTAAT
1 TAGTAAT
984921 AATGAAATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
10 13 0.21
11 25 0.41
12 5 0.08
13 10 0.16
14 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (11 bp):
TAGTAATGATT
Found at i:984855 original size:299 final size:299
Alignment explanation
Indices: 984245--985133 Score: 1293
Period size: 299 Copynumber: 3.0 Consensus size: 299
984235 TATTAATATT
*
984245 TAATGATTTAATAGTAAT--TTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAA
1 TAATGATTTGATAGTAATGATT--TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAA
984308 TGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATT
64 TGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATT
*
984373 TGATAGTAATGATTAG---T-A--A-TAATGA-AA-TTATTATTAATATTTAATGATTTGATATT
129 TGATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATT
* * * * * ** *
984429 AATGATTAGTAATAATGAAATT-ATTATTAAT-ATTTAATGATTTG----AT-ATTAATGATTTA
194 AATGATT--TAGTAATG-ATTTGA-TAGTAATGATTT-ACGACTTGAACAATGAACAATG-TTTG
* * * * * *
984487 G-T-AA-T-----GA--TTAG-TA-ATAA-T-GAAATTATTATTAATATT
253 GTTCAATTAACCATATTTTCGTTACATAACTAGTAATGA-AATT-ATA-A
* *
984523 TAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATCATTATTAATTTTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATG
984588 ATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG
66 ATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG
984653 ATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAA
131 ATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAA
984718 TGATTTAGTAATGATTTGATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATT
196 TGATTTAGTAATGATTTGATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATT
984783 AACCATATTTTCGTTACATAACTAGTAATGAAATTATAA
261 AACCATATTTTCGTTACATAACTAGTAATGAAATTATAA
984822 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATG
984887 ATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG
66 ATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG
984952 ATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAA
131 ATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAA
985017 TGATTTAGTAATGATTTGATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATT
196 TGATTTAGTAATGATTTGATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATT
985082 AACCATATTTTCGTTACATAACTAGTAATGAAATTATAA
261 AACCATATTTTCGTTACATAACTAGTAATGAAATTATAA
985121 TAATGATTTGATA
1 TAATGATTTGATA
985134 CTAAAAATCA
Statistics
Matches: 559, Mismatches: 20, Indels: 43
0.90 0.03 0.07
Matches are distributed among these distances:
278 137 0.25
280 2 0.00
281 1 0.00
282 1 0.00
284 16 0.03
285 17 0.03
286 2 0.00
287 36 0.06
288 6 0.01
289 6 0.01
290 2 0.00
291 1 0.00
296 1 0.00
298 3 0.01
299 312 0.56
300 7 0.01
301 4 0.01
302 5 0.01
ACGTcount: A:0.40, C:0.02, G:0.13, T:0.45
Consensus pattern (299 bp):
TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATG
ATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG
ATAGTAATGATTAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGATATTAA
TGATTTAGTAATGATTTGATAGTAATGATTTACGACTTGAACAATGAACAATGTTTGGTTCAATT
AACCATATTTTCGTTACATAACTAGTAATGAAATTATAA
Found at i:984857 original size:21 final size:20
Alignment explanation
Indices: 984833--984921 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 20
984823 AATGATTTGA
984833 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
* * *
984854 TAGTAATA-AT-GAAATTAT
1 TAGTAATATTTAGTAATGAT
* * * *
984872 TATTAATTTTTAATGATTTGA-
1 TAGTAATATTTAGT-A-ATGAT
984893 TAGTAATGATTTAGTAATGAT
1 TAGTAAT-ATTTAGTAATGAT
984914 TAGTAATA
1 TAGTAATA
984922 ATGAAATTAT
Statistics
Matches: 48, Mismatches: 14, Indels: 13
0.64 0.19 0.17
Matches are distributed among these distances:
18 12 0.25
19 2 0.04
20 5 0.10
21 22 0.46
22 7 0.15
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
TAGTAATATTTAGTAATGAT
Found at i:984858 original size:10 final size:10
Alignment explanation
Indices: 984833--984979 Score: 54
Period size: 10 Copynumber: 14.7 Consensus size: 10
984823 AATGATTTGA
984833 TAGTAATGATT
1 TAGTAATGA-T
984844 TAGTAATGAT
1 TAGTAATGAT
*
984854 TAGTAAT-AA
1 TAGTAATGAT
* *
984863 T-GAAATTAT
1 TAGTAATGAT
* **
984872 TATTAATTTT
1 TAGTAATGAT
* *
984882 TAATGATTTGAT
1 TAGT-A-ATGAT
984894 -AGTAATGATT
1 TAGTAATGA-T
984904 TAGTAATGAT
1 TAGTAATGAT
*
984914 TAGTAAT-AA
1 TAGTAATGAT
* *
984923 T-GAAATTAT
1 TAGTAATGAT
* **
984932 TATTAATTTT
1 TAGTAATGAT
* *
984942 TAATGATTTGAT
1 TAGT-A-ATGAT
984954 -AGTAATGAT
1 TAGTAATGAT
984963 TAGTAATGAT
1 TAGTAATGAT
984973 TAGTAAT
1 TAGTAAT
984980 AATAATTTAT
Statistics
Matches: 101, Mismatches: 24, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
8 8 0.08
9 15 0.15
10 51 0.50
11 23 0.23
12 4 0.04
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:985003 original size:21 final size:22
Alignment explanation
Indices: 984979--985048 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
984969 TGATTAGTAA
984979 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
985000 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
985023 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
985047 TA
1 TA
985049 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:985016 original size:14 final size:14
Alignment explanation
Indices: 985000--985047 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
984990 TATTAATATT
*
985000 TAATGATTTGATAT
1 TAATGATTTGATAG
985014 TAATGA-TT--TAG
1 TAATGATTTGATAG
985025 TAATGATTTGATAG
1 TAATGATTTGATAG
985039 TAATGATTT
1 TAATGATTT
985048 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:985029 original size:25 final size:25
Alignment explanation
Indices: 985000--985048 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
984990 TATTAATATT
*
985000 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
985025 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
985049 CGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:987390 original size:30 final size:30
Alignment explanation
Indices: 987356--987425 Score: 115
Period size: 30 Copynumber: 2.3 Consensus size: 30
987346 TCCCTTAAAC
*
987356 AACTAATAAACTATTCTTTAATATAACGTT-
1 AACTAATAAACTATTCTTTAATATAA-ATTA
987386 AACTAATAAACTATTCTTTAATATAAATTA
1 AACTAATAAACTATTCTTTAATATAAATTA
987416 AACTAATAAA
1 AACTAATAAA
987426 TGATTTTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 2 0.05
30 36 0.95
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.37
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAAATTA
Found at i:987658 original size:21 final size:21
Alignment explanation
Indices: 987634--987673 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
987624 TTTCTATATG
987634 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
987655 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
987674 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:987754 original size:18 final size:18
Alignment explanation
Indices: 987701--987755 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
987691 TTGTTTTACC
*
987701 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
987719 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
987731 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
987748 CTAATTTA
1 CTAATTTA
987756 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:987817 original size:34 final size:37
Alignment explanation
Indices: 987775--987845 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
987765 TCTTTTATAT
987775 AACTT-AA-ACTAATAAACT-A-TTTTTATTATAATAA
1 AACTTAAACACTAATAAACTAATTTTTTA-TATAATAA
987809 AACTTAAACTACTAATAAACTAATTTTTTATATAATA
1 AACTTAAAC-ACTAATAAACTAATTTTTTATATAATA
987846 TAAATTCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
34 5 0.16
35 2 0.06
37 11 0.34
38 8 0.25
39 6 0.19
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (37 bp):
AACTTAAACACTAATAAACTAATTTTTTATATAATAA
Found at i:987905 original size:27 final size:29
Alignment explanation
Indices: 987870--987934 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
987860 AAAATATAAC
*
987870 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
987897 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
987925 TTAATTATTT
1 TTAAATATTT
987935 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:988048 original size:9 final size:9
Alignment explanation
Indices: 988016--988053 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
988006 CTAACAAACT
988016 AATAATTTAA
1 AATAA-TTAA
988026 AATAA-TAA
1 AATAATTAA
*
988034 ACTAATTAA
1 AATAATTAA
988043 AATAATTAA
1 AATAATTAA
988052 AA
1 AA
988054 AAAACTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:988254 original size:12 final size:11
Alignment explanation
Indices: 988223--988258 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
988213 ACGTTCACGG
988223 GCTGCAATAAT
1 GCTGCAATAAT
*
988234 GCAGCAATAAGT
1 GCTGCAATAA-T
988246 GCTGCAATAAT
1 GCTGCAATAAT
988257 GC
1 GC
988259 AGTTGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (11 bp):
GCTGCAATAAT
Found at i:988402 original size:29 final size:29
Alignment explanation
Indices: 988355--988416 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 29
988345 AAAGGCATAG
988355 GTCGTTGGGATCCCTTGGCGACCTACAAT
1 GTCGTTGGGATCCCTTGGCGACCTACAAT
988384 GTCGTTGGGATGCCC-TGGCGACCTACAAT
1 GTCGTTGGGAT-CCCTTGGCGACCTACAAT
988413 GTCG
1 GTCG
988417 CATGCATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.16, C:0.27, G:0.31, T:0.26
Consensus pattern (29 bp):
GTCGTTGGGATCCCTTGGCGACCTACAAT
Found at i:988425 original size:29 final size:29
Alignment explanation
Indices: 988370--988425 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
988360 TGGGATCCCT
* *
988370 TGGCGACCTACAATGTCGTTGGGATGCCC
1 TGGCGACCTACAATGTCGATGGCATGCCC
988399 TGGCGACCTACAATGTCGCAT-GCATGC
1 TGGCGACCTACAATGTCG-ATGGCATGC
988426 ACGGCCATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.23
Consensus pattern (29 bp):
TGGCGACCTACAATGTCGATGGCATGCCC
Found at i:996274 original size:3 final size:3
Alignment explanation
Indices: 996268--996294 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
996258 TTTCTCCAAC
996268 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
996295 AATGGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:1005014 original size:2 final size:2
Alignment explanation
Indices: 1005007--1005045 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1004997 CTTTGTTTAC
1005007 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 A
1005046 CAGCAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1016006 original size:6 final size:6
Alignment explanation
Indices: 1015995--1016021 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1015985 TGAGGCAACA
1015995 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1016022 TGGTTACGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:1027436 original size:21 final size:20
Alignment explanation
Indices: 1027350--1027506 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
1027340 AAATGACCAA
**
1027350 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1027369 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1027389 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1027409 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
1027430 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
1027450 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1027470 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1027491 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1027507 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1027459 original size:41 final size:41
Alignment explanation
Indices: 1027350--1027506 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
1027340 AAATGACCAA
* **
1027350 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
1027389 CAGAATCGCAAATC-AGTTTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
1027430 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
1027471 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
1027507 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:1027566 original size:20 final size:20
Alignment explanation
Indices: 1027473--1027682 Score: 192
Period size: 20 Copynumber: 10.5 Consensus size: 20
1027463 CGATTTTCCA
* ** *
1027473 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1027493 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
1027513 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1027533 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1027553 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTATCCGT
*
1027573 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1027593 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1027613 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1027633 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
1027653 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
1027673 AAATCACAAC
1 AAATCGCAAC
1027683 ACTGAAATTT
Statistics
Matches: 156, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 152 0.97
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1028404 original size:24 final size:24
Alignment explanation
Indices: 1028365--1028411 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1028355 AAATTTGGTC
1028365 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1028389 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1028412 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1028603 original size:12 final size:12
Alignment explanation
Indices: 1028586--1028610 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1028576 ATATAATCCT
1028586 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1028598 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1028610 G
1 G
1028611 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1030916 original size:19 final size:19
Alignment explanation
Indices: 1030894--1031058 Score: 180
Period size: 19 Copynumber: 9.4 Consensus size: 19
1030884 CGGAAATTAC
*
1030894 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1030913 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1030927 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1030947 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1030966 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1030980 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1030999 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1031018 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1031032 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1031051 AATCGCAA
1 AATCGCAA
1031059 CGAGAGAATC
Statistics
Matches: 124, Mismatches: 6, Indels: 32
0.77 0.04 0.20
Matches are distributed among these distances:
14 32 0.26
15 2 0.02
16 5 0.04
17 5 0.04
18 2 0.02
19 62 0.50
20 16 0.13
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1031016 original size:52 final size:52
Alignment explanation
Indices: 1030894--1031058 Score: 278
Period size: 52 Copynumber: 3.2 Consensus size: 52
1030884 CGGAAATTAC
* * *
1030894 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
1030947 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1030999 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1031051 AATCGCAA
1 AATCGCAA
1031059 CGAGAGAATC
Statistics
Matches: 108, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
52 68 0.63
53 39 0.36
54 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:1031036 original size:33 final size:33
Alignment explanation
Indices: 1030894--1031080 Score: 179
Period size: 33 Copynumber: 5.5 Consensus size: 33
1030884 CGGAAATTAC
* *
1030894 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
1030927 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGC-GAAATGAAAATCGCAA--CG--A-GAA
*
1030966 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
1030999 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
*
1031032 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
1031065 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
1031081 TATAAACGCA
Statistics
Matches: 138, Mismatches: 5, Indels: 22
0.84 0.03 0.13
Matches are distributed among these distances:
33 90 0.65
34 17 0.12
35 2 0.01
36 4 0.03
37 2 0.01
38 10 0.07
39 13 0.09
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:1031037 original size:14 final size:14
Alignment explanation
Indices: 1031018--1031072 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1031008 GCGAAATGAA
1031018 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1031032 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1031051 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1031065 AATCGCAA
1 AATCGCAA
1031073 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1031199 original size:52 final size:53
Alignment explanation
Indices: 1031087--1031202 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
1031077 AAATTATAAA
1031087 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1031140 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1031192 CGCATTGCGAT
1 CGCATTGCGAT
1031203 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:1031210 original size:19 final size:19
Alignment explanation
Indices: 1031105--1031202 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1031095 GATTCTCTCG
1031105 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1031125 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1031144 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1031158 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1031177 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1031196 TTGCGAT
1 TTGCGAT
1031203 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1031328 original size:14 final size:14
Alignment explanation
Indices: 1031309--1031345 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1031299 CATCAATTAC
1031309 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1031323 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1031337 ACAAATCAA
1 ACAAATCAA
1031346 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1033348 original size:14 final size:14
Alignment explanation
Indices: 1033329--1033385 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1033319 GCGAAATGAA
*
1033329 AATCGCAACGACAG
1 AATCGCAACGAAAG
1033343 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1033360 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1033376 AATCGCAACG
1 AATCGCAACG
1033386 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1033356 original size:33 final size:33
Alignment explanation
Indices: 1033310--1033402 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1033300 GCGAAACCAA
*
1033310 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1033343 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1033376 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1033403 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1033367 original size:19 final size:19
Alignment explanation
Indices: 1033273--1033407 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1033263 TAGTTTACTT
* *
1033273 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1033293 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1033312 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1033331 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1033345 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1033364 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1033378 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1033397 TCGCAATGCGA
1 TCGCAACGCGA
1033408 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1033425 original size:19 final size:18
Alignment explanation
Indices: 1033403--1033512 Score: 83
Period size: 19 Copynumber: 6.3 Consensus size: 18
1033393 AAAATCGCAA
1033403 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1033422 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
1033436 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1033455 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
1033469 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1033488 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
1033508 TGCGA
1 TGCGA
1033513 AAGTAAACTA
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
14 22 0.31
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 31 0.43
20 12 0.17
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.45
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:1033445 original size:33 final size:33
Alignment explanation
Indices: 1033403--1033494 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1033393 AAAATCGCAA
1033403 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1033436 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1033469 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1033495 TTAAGTTTCG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1033715 original size:93 final size:93
Alignment explanation
Indices: 1033556--1033934 Score: 717
Period size: 93 Copynumber: 4.1 Consensus size: 93
1033546 TTGAATGGAT
1033556 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1033621 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
1033649 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1033714 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
1033742 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1033805 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1033833 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
1033898 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
1033926 AAATTTACT
1 AAATTTACT
1033935 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
91 89 0.32
93 190 0.68
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1033867 original size:184 final size:185
Alignment explanation
Indices: 1033556--1033934 Score: 715
Period size: 184 Copynumber: 2.0 Consensus size: 185
1033546 TTGAATGGAT
1033556 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-ACAGTGTTAAAGAATACAC
1033621 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
1033686 TACTATTTCACAGTGTTATAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
*
1033742 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT-CAGTGTTAAAGAATATACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
1033806 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
*
1033871 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
1033926 AAATTTACT
1 AAATTTACT
1033935 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 145 0.76
186 45 0.24
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1035660 original size:14 final size:14
Alignment explanation
Indices: 1035641--1035730 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1035631 TTGAAATGAA
1035641 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1035655 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1035672 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1035688 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1035707 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1035721 AATCGCAACG
1 AATCGCAACG
1035731 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1035678 original size:33 final size:33
Alignment explanation
Indices: 1035633--1035747 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1035623 TCTTTTGGTT
1035633 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1035666 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1035699 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1035732 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1035748 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1035679 original size:19 final size:18
Alignment explanation
Indices: 1035640--1035752 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
1035630 GTTGAAATGA
1035640 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1035655 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1035672 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1035688 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1035705 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
1035721 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
1035738 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
1035753 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1035781 original size:19 final size:19
Alignment explanation
Indices: 1035748--1035792 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1035738 AAAATCGCAA
**
1035748 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
1035767 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
1035786 TGCGATT
1 TGCGATT
1035793 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:1035850 original size:41 final size:41
Alignment explanation
Indices: 1035790--1035867 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
1035780 TCGCGTTGCG
* *
1035790 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
1035831 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1035868 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:1035866 original size:21 final size:21
Alignment explanation
Indices: 1035791--1035866 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1035781 CGCGTTGCGA
*
1035791 TTCTCTCGTTGCGCTTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
1035812 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
1035832 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
1035853 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
1035867 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:1035993 original size:33 final size:33
Alignment explanation
Indices: 1035946--1036016 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
1035936 AATACTAACT
* *
1035946 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1035979 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1036012 TGAAA
1 TGAAA
1036017 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1036250 original size:22 final size:22
Alignment explanation
Indices: 1036198--1036252 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1036188 TGGTTGTGAG
**
1036198 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1036220 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1036242 GGATTTCTTCG
1 GGATTTCTTCG
1036253 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Done.