Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008610.1 Hibiscus syriacus cultivar Beakdansim tig00111566_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: 2108335
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:846860 original size:83 final size:84
Alignment explanation
Indices: 846696--846861 Score: 228
Period size: 83 Copynumber: 2.0 Consensus size: 84
846686 AAATACAATC
* * *
846696 ATGACACACGAATGTGTGTCATCTTCATTTATGATGGGGGCTTCAATGACATGCAATGTAAGTCA
1 ATGACACAC-AATGTATGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCA
* * *
846761 TAAATGCGTGTTATAAATTT
65 TAAATACGCGTCATAAATTT
* *
846781 ATGACACA-AATGTATGTCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATG-AGCGTCA
1 ATGACACACAATGTATGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTA-AGTCA
846844 TAAATACGCGTCATAAAT
65 TAAATACGCGTCATAAAT
846862 GCGTGTCATA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
82 1 0.01
83 63 0.88
85 8 0.11
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (84 bp):
ATGACACACAATGTATGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCAT
AAATACGCGTCATAAATTT
Found at i:846883 original size:83 final size:83
Alignment explanation
Indices: 846713--846883 Score: 200
Period size: 83 Copynumber: 2.1 Consensus size: 83
846703 ACGAATGTGT
* * * * *
846713 GTCATCTTCATTTATGATGGGGGCTTCAATGACATGCAATGTAAGTCATAAATGCGTGTTATAAA
1 GTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATACGCGTCATAAA
** * *
846778 TTTATGACACAAATGTAT
66 TGCATGACACAAATGCAC
* *
846796 GTCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATG-AGCGTCATAAATACGCGTCATAA
1 GTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTA-AGTCATAAATACGCGTCATAA
* * *
846860 ATGCGTGTCATAAATGCAC
65 ATGCATGACACAAATGCAC
846879 GTCAT
1 GTCAT
846884 AGATTTATGA
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
82 1 0.01
83 72 0.99
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (83 bp):
GTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATACGCGTCATAAA
TGCATGACACAAATGCAC
Found at i:849811 original size:21 final size:22
Alignment explanation
Indices: 849762--849817 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
849752 CTGCATGAAC
849762 AGTATCGATACCATAAGGAAGG
1 AGTATCGATACCATAAGGAAGG
* *
849784 AGTATCGATACCA-ATGTGGAGG
1 AGTATCGATACCATAAG-GAAGG
849806 -GTATCGATACCA
1 AGTATCGATACCA
849818 GGGAACATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (22 bp):
AGTATCGATACCATAAGGAAGG
Found at i:850733 original size:18 final size:18
Alignment explanation
Indices: 850703--850751 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
850693 GTGATATGTT
850703 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
* *
850721 GTCTTTCGAGACATAGTG
1 GTCCTTCGGGACATAGTG
850739 GTCCTTCGGGACA
1 GTCCTTCGGGACA
850752 AATTCTACGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (18 bp):
GTCCTTCGGGACATAGTG
Found at i:852440 original size:23 final size:23
Alignment explanation
Indices: 852414--852482 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
852404 CACCACAACT
* *
852414 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
* *
852437 CGTAGAATTACACCGGAGTGCCG
1 CGTAGAATTACACCGAAGTGCCA
*
852460 CGTAGAATTACACCGTAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
852483 TATAATAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCA
Found at i:852669 original size:103 final size:102
Alignment explanation
Indices: 852501--852818 Score: 573
Period size: 103 Copynumber: 3.1 Consensus size: 102
852491 TGTCCAAAAG
* * **
852501 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGAC
852566 TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
852603 TGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGA
1 -GACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGA
852668 CTTCACACATGTTCCAAAGAATACATATATGTCCCGAAA
65 CTTCACACATGTTCCAAAGAATACATATATGTCCCG-AA
852707 GACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGAC
852772 TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
852809 GAACCACATA
1 G-ACCACATA
852819 GACCCTCGAC
Statistics
Matches: 209, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
102 3 0.01
103 204 0.98
104 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (102 bp):
GACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAA
Found at i:854210 original size:22 final size:21
Alignment explanation
Indices: 854185--854244 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
854175 TTCGCTTGAG
*
854185 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
854207 GGGTACCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
854227 GGGTACCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
854245 CCCAGAAATC
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 17 0.47
21 9 0.25
22 10 0.28
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.30
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:855029 original size:4 final size:4
Alignment explanation
Indices: 855020--856204 Score: 2230
Period size: 4 Copynumber: 296.5 Consensus size: 4
855010 TGATATGAGC
855020 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855068 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855116 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855164 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855212 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855260 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855308 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
855356 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATTT ATGT ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
855404 ATGG ATGT ATGT ATGT ATGT ATGT ATGG ATGG ATGT ATGG ATGT ATGG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * *
855452 ATGT ATGG ATGG ATGT ATGG ATGT ATGT ATGT ATGG ATGG ATGT AATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT -ATGT
*
855501 ATTT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855549 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855597 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855645 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855693 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855741 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855789 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855837 ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855883 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855931 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
855979 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
856027 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
856075 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
856123 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
856171 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
856205 AAGAATTATA
Statistics
Matches: 1160, Mismatches: 18, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
2 2 0.00
4 1154 0.99
5 4 0.00
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:857686 original size:36 final size:36
Alignment explanation
Indices: 857646--857714 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
857636 TAATGATGTT
* * *
857646 GAAGATGTTGTGAAACAATTACAGTTTGGAACTCAA
1 GAAGATATTGGGAAACAATGACAGTTTGGAACTCAA
**
857682 GAAGATATTGGGAAACAATGATTGTTTGGAACT
1 GAAGATATTGGGAAACAATGACAGTTTGGAACT
857715 TCAGCTAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.29
Consensus pattern (36 bp):
GAAGATATTGGGAAACAATGACAGTTTGGAACTCAA
Found at i:858112 original size:114 final size:113
Alignment explanation
Indices: 857907--858129 Score: 290
Period size: 114 Copynumber: 2.0 Consensus size: 113
857897 AAATAAAAAC
**
857907 AATGCTATGAGGTAGTTTGTCGTAATATTACTTCAAAAGTTGGCCATTAACTTTGAACAAGATTT
1 AATGCTATGAGGTAGTTTGTCACAATA-TACTTCAAAAGTTGGCCATTAACTTTGAACAAGATTT
*
857972 CATCCCTTAAGTTCTTGACCAACACTGT-CCTATGAGGAAATGATTTGGT
65 CATCCCTTAAGTTCTTGACCAACACTGTGCC-ATGAGAAAATGATTTGGT
* *
858021 AATGCTATGAGGTAGTTTGTCACAATA-ACGTTTCAAATGTTGGCCATTAACTTTGAA-AATGCT
1 AATGCTATGAGGTAGTTTGTCACAATATAC--TTCAAAAGTTGGCCATTAACTTTGAACAA-GAT
* * * * *
858084 TTCATCCTTTAAGTTTTTTATCAGCACTGTGCCATGAGAAAATGAT
63 TTCATCCCTTAAGTTCTTGACCAACACTGTGCCATGAGAAAATGAT
858130 CCAGATACTT
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
112 2 0.02
113 2 0.02
114 89 0.94
115 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (113 bp):
AATGCTATGAGGTAGTTTGTCACAATATACTTCAAAAGTTGGCCATTAACTTTGAACAAGATTTC
ATCCCTTAAGTTCTTGACCAACACTGTGCCATGAGAAAATGATTTGGT
Found at i:858636 original size:32 final size:31
Alignment explanation
Indices: 858599--858687 Score: 124
Period size: 32 Copynumber: 2.8 Consensus size: 31
858589 TAAAAGTTTA
* *
858599 GGTACTAAAATGAAACAAAAAGTTAATAATG
1 GGTACTAAAATGAAACAAAAAGTAAACAATG
**
858630 GAGTACTAAAATGAAACAAAAAGTAAACGTTG
1 G-GTACTAAAATGAAACAAAAAGTAAACAATG
*
858662 GGTACTAAAATGAAAAAAAAAGTAAA
1 GGTACTAAAATGAAACAAAAAGTAAA
858688 TGTTAGGTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
31 25 0.48
32 27 0.52
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (31 bp):
GGTACTAAAATGAAACAAAAAGTAAACAATG
Found at i:858670 original size:31 final size:31
Alignment explanation
Indices: 858599--858696 Score: 133
Period size: 31 Copynumber: 3.1 Consensus size: 31
858589 TAAAAGTTTA
* **
858599 GGTACTAAAATGAAACAAAAAGTTAATAATG
1 GGTACTAAAATGAAACAAAAAGTAAATGTTG
*
858630 GAGTACTAAAATGAAACAAAAAGTAAACGTTG
1 G-GTACTAAAATGAAACAAAAAGTAAATGTTG
* *
858662 GGTACTAAAATGAAAAAAAAAGTAAATGTTA
1 GGTACTAAAATGAAACAAAAAGTAAATGTTG
858693 GGTA
1 GGTA
858697 TGATTTTGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 32 0.54
32 27 0.46
ACGTcount: A:0.54, C:0.06, G:0.18, T:0.21
Consensus pattern (31 bp):
GGTACTAAAATGAAACAAAAAGTAAATGTTG
Found at i:862501 original size:13 final size:13
Alignment explanation
Indices: 862485--862536 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
862475 ATGGGTTAAT
862485 GGGTCGGGTCAAC
1 GGGTCGGGTCAAC
862498 GGGTCAGTCGAGTCAAC
1 GGGTC-G--G-GTCAAC
*
862515 GGGTCGGGTCAAT
1 GGGTCGGGTCAAC
*
862528 AGGTCGGGT
1 GGGTCGGGT
862537 TGTAACCGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 18 0.55
14 2 0.06
16 2 0.06
17 11 0.33
ACGTcount: A:0.17, C:0.19, G:0.44, T:0.19
Consensus pattern (13 bp):
GGGTCGGGTCAAC
Found at i:862512 original size:17 final size:17
Alignment explanation
Indices: 862487--862519 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
862477 GGGTTAATGG
*
862487 GTCGGGTCAACGGGTCA
1 GTCGAGTCAACGGGTCA
862504 GTCGAGTCAACGGGTC
1 GTCGAGTCAACGGGTC
862520 GGGTCAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.39, T:0.18
Consensus pattern (17 bp):
GTCGAGTCAACGGGTCA
Found at i:864709 original size:43 final size:43
Alignment explanation
Indices: 864651--864745 Score: 190
Period size: 43 Copynumber: 2.2 Consensus size: 43
864641 CCTCCAACCA
864651 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
864694 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
864737 AACACACCA
1 AACACACCA
864746 AGTAAGGCCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.37, C:0.38, G:0.11, T:0.15
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
Found at i:867346 original size:13 final size:13
Alignment explanation
Indices: 867328--867357 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
867318 GGTCAACGTC
867328 GGTCAACGGGTCG
1 GGTCAACGGGTCG
867341 GGTCAACGGGTCG
1 GGTCAACGGGTCG
867354 GGTC
1 GGTC
867358 GGGTTGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:870900 original size:131 final size:131
Alignment explanation
Indices: 870666--870935 Score: 540
Period size: 131 Copynumber: 2.1 Consensus size: 131
870656 TTAGTACTAA
870666 AGTGTATTCAAGACCAAGATCATCCATCTTTAAAATTACATGTTTGAACTTAGTACACATTTGAT
1 AGTGTATTCAAGACCAAGATCATCCATCTTTAAAATTACATGTTTGAACTTAGTACACATTTGAT
870731 GAAAATGAAAACCTAGTCACAAGTTCTTTCTTGTGATAACCACAATGAGAACTTCAAACATAAAA
66 GAAAATGAAAACCTAGTCACAAGTTCTTTCTTGTGATAACCACAATGAGAACTTCAAACATAAAA
870796 T
131 T
870797 AGTGTATTCAAGACCAAGATCATCCATCTTTAAAATTACATGTTTGAACTTAGTACACATTTGAT
1 AGTGTATTCAAGACCAAGATCATCCATCTTTAAAATTACATGTTTGAACTTAGTACACATTTGAT
870862 GAAAATGAAAACCTAGTCACAAGTTCTTTCTTGTGATAACCACAATGAGAACTTCAAACATAAAA
66 GAAAATGAAAACCTAGTCACAAGTTCTTTCTTGTGATAACCACAATGAGAACTTCAAACATAAAA
870927 T
131 T
870928 AGTGTATT
1 AGTGTATT
870936 TATAACACAA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 139 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (131 bp):
AGTGTATTCAAGACCAAGATCATCCATCTTTAAAATTACATGTTTGAACTTAGTACACATTTGAT
GAAAATGAAAACCTAGTCACAAGTTCTTTCTTGTGATAACCACAATGAGAACTTCAAACATAAAA
T
Found at i:871668 original size:13 final size:13
Alignment explanation
Indices: 871652--871680 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
871642 TCTTTCTAAA
871652 TATTTTTACAAAG
1 TATTTTTACAAAG
871665 TATTTTTACAAAG
1 TATTTTTACAAAG
871678 TAT
1 TAT
871681 CTTGTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTTTTACAAAG
Found at i:873867 original size:22 final size:23
Alignment explanation
Indices: 873787--873868 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 23
873777 CCTCAATTAA
*
873787 AATA-AAATATTTTTAAATTAAGTT
1 AATATAAATATATTT-AA-TAAGTT
873811 AATAATAAAATATATTTAATAAGTT
1 AAT-AT-AAATATATTTAATAAGTT
* *
873836 AATATAAAATATTTTTAA-AATTT
1 AATAT-AAATATATTTAATAAGTT
873859 AATATAAATA
1 AATATAAATA
873869 AAACATTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
22 5 0.10
23 9 0.17
24 17 0.33
25 10 0.19
26 2 0.04
27 9 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AATATAAATATATTTAATAAGTT
Found at i:875048 original size:15 final size:14
Alignment explanation
Indices: 875017--875063 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
875007 TAAATTTTAG
*
875017 AAAACTATAAAATTT
1 AAAA-TATAAAAATT
875032 AAAAT-TGAACAAATT
1 AAAATAT-AA-AAATT
875047 AAAATATAAAAATT
1 AAAATATAAAAATT
875061 AAA
1 AAA
875064 TTTATAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
13 1 0.04
14 11 0.39
15 15 0.54
16 1 0.04
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:875692 original size:17 final size:17
Alignment explanation
Indices: 875670--875703 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
875660 TTATATTTTA
*
875670 GAAAATACAAAGTAAAT
1 GAAAATACAAAGAAAAT
875687 GAAAATACAAAGAAAAT
1 GAAAATACAAAGAAAAT
875704 TCATCTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.12, T:0.15
Consensus pattern (17 bp):
GAAAATACAAAGAAAAT
Found at i:882729 original size:21 final size:18
Alignment explanation
Indices: 882705--882752 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
882695 TATGTGTAAC
882705 TAAAATTTATAATATTATT
1 TAAAA-TTATAATATTATT
882724 AATAAAA-TA-AATATTATT
1 --TAAAATTATAATATTATT
882742 TAAAATTATAA
1 TAAAATTATAA
882753 AATATACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.20
17 2 0.08
18 11 0.44
19 2 0.08
21 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATTATAATATTATT
Found at i:887450 original size:2 final size:2
Alignment explanation
Indices: 887443--887480 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
887433 AATAATTTCC
887443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
887481 TTTTCAGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:888410 original size:9 final size:8
Alignment explanation
Indices: 888358--888445 Score: 52
Period size: 8 Copynumber: 10.1 Consensus size: 8
888348 TAGGTCCTTA
*
888358 TTTTATAT
1 TTTTTTAT
888366 TTATTTTAT
1 TT-TTTTAT
888375 TTTTATCCTATT
1 TTTT-T--TA-T
888387 TTTTTTACT
1 TTTTTTA-T
888396 TTTTTTAT
1 TTTTTTAT
*
888404 TTCTTT-T
1 TTTTTTAT
*
888411 TTATTTAT
1 TTTTTTAT
*
888419 TTATTTAT
1 TTTTTTAT
*
888427 TATTTGTTAA
1 T-TTT-TTAT
888437 TTTTTTAT
1 TTTTTTAT
888445 T
1 T
888446 AAGCTTATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
7 6 0.09
8 24 0.37
9 23 0.35
10 4 0.06
11 3 0.05
12 5 0.08
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTTTTAT
Found at i:888410 original size:19 final size:18
Alignment explanation
Indices: 888363--888445 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 18
888353 CCTTATTTTA
*
888363 TATTTATTTTATTTTTATCC
1 TATTTATTTT-TTTTTAT-T
888383 TATTT-TTTTTACTTTT-TT
1 TATTTATTTTT--TTTTATT
*
888401 TATTTCTTTTTTATTTATT
1 TATTTATTTTTT-TTTATT
* *
888420 TATTTATTATTTGTTAATT
1 TATTTATT-TTTTTTTATT
888439 T-TTTATT
1 TATTTATT
888446 AAGCTTATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
17 1 0.02
18 15 0.28
19 25 0.47
20 12 0.23
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (18 bp):
TATTTATTTTTTTTTATT
Found at i:888419 original size:15 final size:15
Alignment explanation
Indices: 888395--888445 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
888385 TTTTTTTTAC
*
888395 TTTT-TTTATTTCTT
1 TTTTATTTATTTATT
888409 TTTTATTTATTTATT
1 TTTTATTTATTTATT
* * *
888424 TATTATTTGTTAATT
1 TTTTATTTATTTATT
888439 TTTTATT
1 TTTTATT
888446 AAGCTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 4 0.13
15 27 0.87
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTATTTATTTATT
Found at i:890973 original size:22 final size:22
Alignment explanation
Indices: 890930--890973 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
890920 TAAATTGTAC
*
890930 TTTTCTATTTTAGATCATATCA
1 TTTTCTATTTTAGATCAAATCA
*
890952 TTTTCATATTTTA-TTCAAATCA
1 TTTTC-TATTTTAGATCAAATCA
890974 GATCTTTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTCTATTTTAGATCAAATCA
Found at i:891061 original size:37 final size:37
Alignment explanation
Indices: 891008--891112 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
890998 CATTTTCGTC
891008 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
891045 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
891082 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
891113 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:891627 original size:20 final size:20
Alignment explanation
Indices: 891602--891639 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
891592 ATTATTATTA
891602 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
891622 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
891640 ATTTTACTCA
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:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:897653 original size:183 final size:183
Alignment explanation
Indices: 897217--897752 Score: 950
Period size: 183 Copynumber: 2.9 Consensus size: 183
897207 ATTAAATCCG
897217 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
897282 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCTACTGC-T
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
* *
897346 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTTAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCCC
897399 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
897464 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
897529 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCCC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCCC
* *
897582 TAAAGCTAAGCTATTCCACTAAGGCAATTAGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
897647 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGAAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
897711 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
897753 TAAACCTGAT
Statistics
Matches: 340, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
182 128 0.38
183 212 0.62
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCCC
Found at i:899004 original size:72 final size:76
Alignment explanation
Indices: 898911--899054 Score: 181
Period size: 72 Copynumber: 1.9 Consensus size: 76
898901 CTAAAATTTG
* * ** * *
898911 TTTTTCTTAAAACATACTTTGTCTTACTTGAGACTGTTTT-TCTCGAAAGAA-G-ATTT-ATTTT
1 TTTTTCTTAAAACATAATTTGTCTCACTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTTC
898972 ACTCAAGATTA
66 ACTCAAGATTA
*
898983 TTTTTCTTAAAACA-AGATTTGTCTCGCTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTT
1 TTTTTCTTAAAACATA-ATTTGTCTCACTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTT
899047 CACTCAAG
65 CACTCAAG
899055 GCTGTTTTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
71 1 0.02
72 33 0.55
73 10 0.17
74 1 0.02
75 4 0.07
76 11 0.18
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (76 bp):
TTTTTCTTAAAACATAATTTGTCTCACTTGAGACCATTTTCACTCGAAAGAAGGCATTTCATTTC
ACTCAAGATTA
Found at i:899126 original size:39 final size:39
Alignment explanation
Indices: 899083--899235 Score: 117
Period size: 39 Copynumber: 3.6 Consensus size: 39
899073 TTTTATCTTG
899083 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * * * *
899122 CTTGAGACAGTTTCTCTTGAAAACATTTCCCTTGAAATTAATTTTTTATCT
1 CTTGAGACAGTTTCCCTCG-AAACA--------G-AA--AATTTTGTCTCC
* *
899173 CCTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* *
899212 CTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTCGAAACA
899236 TAAACATTGA
Statistics
Matches: 86, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
39 46 0.53
40 5 0.06
41 2 0.02
42 1 0.01
48 1 0.01
49 2 0.02
50 5 0.06
51 24 0.28
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (39 bp):
CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
Found at i:899248 original size:104 final size:106
Alignment explanation
Indices: 899138--899457 Score: 510
Period size: 106 Copynumber: 3.1 Consensus size: 106
899128 ACAGTTTCTC
*
899138 TTGAAAACATTTCCCTTGAAATTAATTTTTTATCTC-C-TGAGATAGTTTCCCTCGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAA
899201 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * *
899242 TTGAAAACATTTCCCTTGAAATGATTTTTTTCTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAA
899307 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* *
899348 TTGAAAACATTTCCCTTGAAATGAA--TTTTATCTCGCTTGAAATAGTTTCCCTTGAAAC-G--A
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAA
** *
899408 ATTTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
899449 TTGAAAACA
1 TTGAAAACA
899458 ATTTAATGAA
Statistics
Matches: 203, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
101 48 0.24
103 1 0.00
104 62 0.31
105 1 0.00
106 91 0.45
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (106 bp):
TTGAAAACATTTCCCTTGAAATGAATTTTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAA
ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:899397 original size:36 final size:36
Alignment explanation
Indices: 899352--899432 Score: 110
Period size: 36 Copynumber: 2.3 Consensus size: 36
899342 TAAACATTGA
* *
899352 AAACA-TTTCCCTTGAAATGAATTTTATCTCGCTTG
1 AAACAGTTTCCCTTGAAACGAATTTTATCTCCCTTG
* *
899387 AAATAGTTTCCCTTGAAACGAATTTTGTCTCCCTTG
1 AAACAGTTTCCCTTGAAACGAATTTTATCTCCCTTG
*
899423 AGACAGTTTC
1 AAACAGTTTC
899433 TCTCCAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 4 0.10
36 35 0.90
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (36 bp):
AAACAGTTTCCCTTGAAACGAATTTTATCTCCCTTG
Found at i:899830 original size:105 final size:105
Alignment explanation
Indices: 899632--900262 Score: 905
Period size: 105 Copynumber: 6.0 Consensus size: 105
899622 ATATCGTGAC
* * * ** *
899632 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
*
899697 AATTTCAGAGACAATTTCAACTTCACAACGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
899738 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTACTCGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
899803 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
899843 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
899908 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
899948 ACTCCAGACAACGCAGGTTCAACTTCAAGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
900013 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
900053 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCACTGCTTGTCAACAA-AA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* *
900114 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * * *
900153 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGTTGGTTGTCAACAAACAATTTC-C
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
*** * *
900217 CGGTTCTAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 AATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
900259 ACTC
1 ACTC
900263 GGAACAATGC
Statistics
Matches: 479, Mismatches: 39, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
100 79 0.16
101 3 0.01
102 3 0.01
103 5 0.01
104 2 0.00
105 307 0.64
106 80 0.17
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:901284 original size:2 final size:2
Alignment explanation
Indices: 901279--901307 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
901269 TTAGTGTTAT
901279 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
901308 TCTATTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:901405 original size:24 final size:23
Alignment explanation
Indices: 901342--901409 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
901332 ATATTACTTT
901342 TGATTTT-CTTTTTT-TATTATTA
1 TGATTTTACTTTTTTATA-TATTA
* * *
901364 TTATTTTACTTATATATATATATA
1 TGATTTTACTTTTTTATATAT-TA
*
901388 TGCTTTTACTTTTTTATATATT
1 TGATTTTACTTTTTTATATATT
901410 TTACTCATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
22 6 0.17
23 9 0.25
24 21 0.58
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (23 bp):
TGATTTTACTTTTTTATATATTA
Found at i:913610 original size:70 final size:71
Alignment explanation
Indices: 913488--913643 Score: 212
Period size: 70 Copynumber: 2.2 Consensus size: 71
913478 AGTCGAAGAA
* * *
913488 GAAAAACAAAAAGAAAA--AAGAAAAGCAAAAAGAACATTTAGGGTGAAAACCCGAAA-GGCGCC
1 GAAAAA-AAAAAGAAAAGCAAAAAAAGCAAAAAAAACATTTAGAGTGAAAACCCGAAAGGGCGCC
913550 CTAAATT
65 CTAAATT
* * *
913557 GAAAAGAAAATAGAAAAGCAAAAAAAG-AAAAAAAACGTTTAGAGTGAAAACCCGAAAGGGCGTC
1 GAAAA-AAAAAAGAAAAGCAAAAAAAGCAAAAAAAACATTTAGAGTGAAAACCCGAAAGGGCGCC
913621 CTAAATT
65 CTAAATT
913628 GAAAAAAAAAAGAAAA
1 GAAAAAAAAAAGAAAA
913644 AATAATAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
69 14 0.18
70 38 0.50
71 24 0.32
ACGTcount: A:0.60, C:0.12, G:0.19, T:0.10
Consensus pattern (71 bp):
GAAAAAAAAAAGAAAAGCAAAAAAAGCAAAAAAAACATTTAGAGTGAAAACCCGAAAGGGCGCCC
TAAATT
Found at i:916477 original size:9 final size:8
Alignment explanation
Indices: 916451--916629 Score: 51
Period size: 9 Copynumber: 20.5 Consensus size: 8
916441 AATTTAGCCC
916451 TTTTATTT
1 TTTTATTT
916459 GTATTATATTT
1 -T-TT-TATTT
916470 TTTCTATTT
1 TTT-TATTT
916479 ATTTT-TTT
1 -TTTTATTT
*
916487 ATTTATGTT
1 TTTTAT-TT
916496 TTTTATTT
1 TTTTATTT
916504 TTATTACTTT
1 TT-TTA-TTT
*
916514 TATTA-TT
1 TTTTATTT
*
916521 TATTATTT
1 TTTTATTT
*
916529 TTACTATTT
1 TT-TTATTT
916538 TTTCT-TTT
1 TTT-TATTT
* *
916546 TGGTT-TCT
1 T-TTTATTT
916554 TTTTATTAT
1 TTTTATT-T
*
916563 TATTATTAT
1 TTTTATT-T
*
916572 TATTATTAT
1 TTTTATT-T
*
916581 TATTATTAT
1 TTTTATT-T
*
916590 TATTATTAT
1 TTTTATT-T
*
916599 TATTATATT
1 TTTTAT-TT
*
916608 TTTTATTCA
1 TTTTATT-T
916617 TTTTATTT
1 TTTTATTT
916625 ATTTT
1 -TTTT
916630 TAAATATTTG
Statistics
Matches: 139, Mismatches: 15, Indels: 32
0.75 0.08 0.17
Matches are distributed among these distances:
7 12 0.09
8 21 0.15
9 90 0.65
10 11 0.08
11 5 0.04
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTATTT
Found at i:916489 original size:12 final size:12
Alignment explanation
Indices: 916460--916503 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 12
916450 CTTTTATTTG
916460 TATTATATTTTTT
1 TATT-TATTTTTT
916473 CTATTTATTTTTT
1 -TATTTATTTTTT
916486 TATTTATGTTTTT
1 TATTTAT-TTTTT
916499 TATTT
1 TATTT
916504 TTATTACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 7 0.24
13 18 0.62
14 4 0.14
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (12 bp):
TATTTATTTTTT
Found at i:916497 original size:27 final size:28
Alignment explanation
Indices: 916462--916517 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
916452 TTTATTTGTA
* *
916462 TTATATTTTTTCTATTTATT-TTTTTAT
1 TTATATTTTTTATATTTATTACTTTTAT
* *
916489 TTATGTTTTTTATTTTTATTACTTTTAT
1 TTATATTTTTTATATTTATTACTTTTAT
916517 T
1 T
916518 ATTTATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.77
Consensus pattern (28 bp):
TTATATTTTTTATATTTATTACTTTTAT
Found at i:916564 original size:3 final size:3
Alignment explanation
Indices: 916556--916623 Score: 99
Period size: 3 Copynumber: 23.7 Consensus size: 3
916546 TGGTTTCTTT
916556 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
916604 -TA TT- TT- TTA TTCA TT- TTA TT
1 TTA TTA TTA TTA TT-A TTA TTA TT
916624 TATTTTTAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 8 0.13
3 50 0.82
4 3 0.05
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:916890 original size:9 final size:9
Alignment explanation
Indices: 916867--916914 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
916857 TGTTTTTATA
916867 TTTATTTTGT
1 TTTATTTT-T
916877 TTTATTTTT
1 TTTATTTTT
*
916886 TTTATTTAT
1 TTTATTTTT
**
916895 TCAATTTTT
1 TTTATTTTT
916904 TTTATTTTT
1 TTTATTTTT
916913 TT
1 TT
916915 CACTTTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (9 bp):
TTTATTTTT
Found at i:916891 original size:23 final size:22
Alignment explanation
Indices: 916859--916957 Score: 74
Period size: 26 Copynumber: 4.1 Consensus size: 22
916849 ATCTTCCTTG
*
916859 TTTTTATATTTATTTTGTTTTAT
1 TTTTTTTATTTATTTTGTTTT-T
*
916882 TTTTTTTATTTATTCAATTTTTTTT
1 TTTTTTTATTTATT---TTGTTTTT
*
916907 ATTTTTTTCACTTTATTTGAGTTTGTT
1 -TTTTTTT-A-TTTATTT-TGTTT-TT
*
916934 TTATTTTA-TTATTTTGTTTTT
1 TTTTTTTATTTATTTTGTTTTT
916955 TTT
1 TTT
916958 AAGATTAGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
21 4 0.07
22 4 0.07
23 19 0.31
25 3 0.05
26 22 0.36
27 3 0.05
28 6 0.10
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTTATTTTGTTTTT
Found at i:916893 original size:29 final size:29
Alignment explanation
Indices: 916865--916940 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 29
916855 CTTGTTTTTA
*
916865 TATTT-ATTTTGTTTTATTTTTTTTA-TT
1 TATTTAATTTTGTTTTATTTTTTTCACTT
*
916892 TATTCAATTTT-TTTTATTTTTTTCACTT
1 TATTTAATTTTGTTTTATTTTTTTCACTT
* *
916920 TATTTGAGTTTGTTTTATTTT
1 TATTTAATTTTGTTTTATTTT
916941 ATTATTTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 17 0.41
28 15 0.37
29 9 0.22
ACGTcount: A:0.16, C:0.04, G:0.05, T:0.75
Consensus pattern (29 bp):
TATTTAATTTTGTTTTATTTTTTTCACTT
Found at i:916921 original size:28 final size:28
Alignment explanation
Indices: 916870--916940 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
916860 TTTTATATTT
*
916870 ATTTTGTTTTATTTTTTTTATTTATTCA
1 ATTTTGTTTTATTTTTTTCATTTATTCA
**
916898 ATTTT-TTTTATTTTTTTCACTTTATTTG
1 ATTTTGTTTTATTTTTTTCA-TTTATTCA
*
916926 AGTTTGTTTTATTTT
1 ATTTTGTTTTATTTT
916941 ATTATTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 13 0.35
28 15 0.41
29 9 0.24
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (28 bp):
ATTTTGTTTTATTTTTTTCATTTATTCA
Found at i:918537 original size:29 final size:29
Alignment explanation
Indices: 918494--918576 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
918484 CTCACCTAAC
918494 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
918524 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
918553 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
918577 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:923305 original size:29 final size:29
Alignment explanation
Indices: 923262--923344 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
923252 CTCACCTAAC
923262 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
923292 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
923321 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
923345 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:926379 original size:20 final size:21
Alignment explanation
Indices: 926332--926379 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
926322 TTACTTTGGG
*
926332 AATCATTGATTTATTTTATATTT
1 AATC-TTG-TTTATTTTATATGT
926355 AATCTTGTTTATTTT-TATGT
1 AATCTTGTTTATTTTATATGT
926375 AATCT
1 AATCT
926380 GTGATACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 8 0.33
22 3 0.12
23 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.60
Consensus pattern (21 bp):
AATCTTGTTTATTTTATATGT
Found at i:929470 original size:18 final size:19
Alignment explanation
Indices: 929447--929503 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
929437 TCAGTAATCC
*
929447 TATTCT-CTGGTAATCTTT
1 TATTCTACTGCTAATCTTT
929465 TATTCTCACTGCTAATCTTT
1 TATTCT-ACTGCTAATCTTT
*
929485 TATTCCCACTGCTAATCTT
1 TATT-CTACTGCTAATCTT
929504 ACATTCCGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.18
20 27 0.79
21 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.07, T:0.49
Consensus pattern (19 bp):
TATTCTACTGCTAATCTTT
Found at i:929482 original size:20 final size:20
Alignment explanation
Indices: 929457--929503 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
929447 TATTCTCTGG
*
929457 TAATCTTTTATTCTCACTGC
1 TAATCTTTTATTCCCACTGC
929477 TAATCTTTTATTCCCACTGC
1 TAATCTTTTATTCCCACTGC
929497 TAATCTT
1 TAATCTT
929504 ACATTCCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.26, G:0.04, T:0.49
Consensus pattern (20 bp):
TAATCTTTTATTCCCACTGC
Found at i:929509 original size:20 final size:20
Alignment explanation
Indices: 929466--929510 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
929456 GTAATCTTTT
* **
929466 ATTCTCACTGCTAATCTTTT
1 ATTCCCACTGCTAATCTTAC
929486 ATTCCCACTGCTAATCTTAC
1 ATTCCCACTGCTAATCTTAC
929506 ATTCC
1 ATTCC
929511 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.31, G:0.04, T:0.42
Consensus pattern (20 bp):
ATTCCCACTGCTAATCTTAC
Found at i:930131 original size:29 final size:29
Alignment explanation
Indices: 930088--930170 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
930078 CTCACCTAAC
930088 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
930118 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
* *
930147 TAAATGATGTAAGTAATGATATCA
1 TAAATGATGTAAGCAATGACATCA
930171 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:934900 original size:29 final size:29
Alignment explanation
Indices: 934857--934939 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
934847 CTCACCTAAC
934857 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
934887 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
934916 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
934940 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:942825 original size:16 final size:16
Alignment explanation
Indices: 942804--942842 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
942794 GATATTACCC
*
942804 GACTTGTTATCAACCT
1 GACTTGTTATAAACCT
* *
942820 GACTTGTTGTAAACTT
1 GACTTGTTATAAACCT
942836 GACTTGT
1 GACTTGT
942843 AATTGACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (16 bp):
GACTTGTTATAAACCT
Found at i:943286 original size:24 final size:23
Alignment explanation
Indices: 943259--943333 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 23
943249 TTAGAACATA
943259 AAATATATATATAAAAAAGAAAAC
1 AAATATA-ATATAAAAAAGAAAAC
*
943283 AAATA-AAAATAAAAACAGAAAAC
1 AAATATAATATAAAAA-AGAAAAC
943306 AAA-ATAA-ACTAGAAAACA-AAAAC
1 AAATATAATA-TA-AAAA-AGAAAAC
943329 AAATA
1 AAATA
943334 AAAAATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
22 10 0.22
23 23 0.51
24 12 0.27
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.13
Consensus pattern (23 bp):
AAATATAATATAAAAAAGAAAAC
Found at i:943302 original size:23 final size:22
Alignment explanation
Indices: 943269--943360 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 22
943259 AAATATATAT
943269 ATAAAAA-AGAAAACAAATAAAA
1 ATAAAAACA-AAAACAAATAAAA
943291 ATAAAAACAGAAAACAAA-ATAAA
1 ATAAAAACA-AAAACAAATA-AAA
*
943314 CTAGAAAACAAAAACAAATAAAAA
1 ATA-AAAACAAAAACAAAT-AAAA
*
943338 ATTAAAAACAAATA-AAATAAAA
1 A-TAAAAACAAAAACAAATAAAA
943360 A
1 A
943361 CCAAATAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
22 13 0.21
23 27 0.44
24 18 0.30
25 3 0.05
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.11
Consensus pattern (22 bp):
ATAAAAACAAAAACAAATAAAA
Found at i:943311 original size:18 final size:17
Alignment explanation
Indices: 943295--943326 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
943285 ATAAAAATAA
943295 AAAC-AGAAAACAAAAT
1 AAACTAGAAAACAAAAT
943311 AAACTAGAAAACAAAA
1 AAACTAGAAAACAAAA
943327 ACAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.75, C:0.12, G:0.06, T:0.06
Consensus pattern (17 bp):
AAACTAGAAAACAAAAT
Found at i:943324 original size:40 final size:36
Alignment explanation
Indices: 943278--943409 Score: 126
Period size: 40 Copynumber: 3.5 Consensus size: 36
943268 TATAAAAAAG
943278 AAAACAAATAAAAATAAAAACAGAAAACAAAATAAACTA
1 AAAACAAAT-AAAATAAAAA-AGAAAACAAAATAAA-TA
* *
943317 GAAAACAAAAACAAATAAAAAATTAAAA-ACAAATAAAATA
1 -AAAACAAATA-AAATAAAAAA-GAAAACA-AAAT-AAATA
*
943357 AAAACCAAATAAAATATAAAAGAAAAC-AAATAAA-A
1 AAAA-CAAATAAAATAAAAAAGAAAACAAAATAAATA
*
943392 TAAACAAATAAAATAAAA
1 AAAACAAATAAAATAAAA
943410 TAAAATAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
34 13 0.16
35 4 0.05
36 3 0.04
37 4 0.05
38 4 0.05
39 16 0.20
40 32 0.41
41 3 0.04
ACGTcount: A:0.77, C:0.08, G:0.02, T:0.12
Consensus pattern (36 bp):
AAAACAAATAAAATAAAAAAGAAAACAAAATAAATA
Found at i:943375 original size:23 final size:22
Alignment explanation
Indices: 943351--943421 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
943341 AAAAACAAAT
*
943351 AAAATAAAAACCAAATAAAATAT
1 AAAATAAAAA-CAAATAAAATAA
*
943374 AAAA-GAAAACAAATAAAATAA
1 AAAATAAAAACAAATAAAATAA
943395 ACAAATAAAATA-AAATAAAATAA
1 A-AAATAAAA-ACAAATAAAATAA
943418 AAAA
1 AAAA
943422 AGTAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 12 0.29
22 10 0.24
23 19 0.45
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.01, T:0.14
Consensus pattern (22 bp):
AAAATAAAAACAAATAAAATAA
Found at i:943377 original size:18 final size:16
Alignment explanation
Indices: 943269--943420 Score: 97
Period size: 16 Copynumber: 9.4 Consensus size: 16
943259 AAATATATAT
943269 ATAAAAA-AGAAAACAA
1 ATAAAAATA-AAAACAA
*
943285 ATAAAAATAAAAACAG
1 ATAAAAATAAAAACAA
* *
943301 A-AAACA-AAATA-AA
1 ATAAAAATAAAAACAA
* *
943314 CTAGAAAACAAAAACAA
1 ATA-AAAATAAAAACAA
943331 ATAAAAAATTAAAAACAA
1 AT-AAAAA-TAAAAACAA
943349 AT-AAAATAAAAACCAA
1 ATAAAAATAAAAA-CAA
943365 ATAAAATATAAAAGA-AA
1 ATAAAA-ATAAAA-ACAA
*
943382 ACAAATAA-AATAAACAA
1 ATAAA-AATAA-AAACAA
943399 AT-AAAATAAAATA-AA
1 ATAAAAATAAAA-ACAA
943414 ATAAAAA
1 ATAAAAA
943421 AAGTAAAAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 34
0.71 0.07 0.22
Matches are distributed among these distances:
13 1 0.01
14 5 0.05
15 21 0.19
16 39 0.36
17 23 0.21
18 18 0.17
19 1 0.01
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (16 bp):
ATAAAAATAAAAACAA
Found at i:943422 original size:18 final size:18
Alignment explanation
Indices: 943273--943428 Score: 70
Period size: 18 Copynumber: 8.2 Consensus size: 18
943263 ATATATATAA
*
943273 AAAAGAAAACAAATAAAAAT
1 AAAATAAAA-AAAT-AAAAT
* *
943293 AAAA-ACAGAAAACAAAAT
1 AAAATA-AAAAAATAAAAT
* *
943311 AAACTAGAAAACA-AAAA-
1 AAAATA-AAAAAATAAAAT
* *
943328 CAAATAAAAAATTAAAA-
1 AAAATAAAAAAATAAAAT
*
943345 ACAAATAAAATAAAAACCAAAT
1 A-AAATAAAA-AAATA--AAAT
*
943367 AAAATATAAAAGAAAACAAAT
1 AAAATA-AAAA-AATA-AAAT
*
943388 AAAATAAACAAATAAAAT
1 AAAATAAAAAAATAAAAT
943406 AAAATAAAATAAA-AAAAGT
1 AAAATAAAA-AAATAAAA-T
943425 AAAA
1 AAAA
943429 AAATAGTGAT
Statistics
Matches: 108, Mismatches: 16, Indels: 25
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.04
17 8 0.07
18 36 0.33
19 23 0.21
20 9 0.08
21 20 0.19
22 8 0.07
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAATAAAAAAATAAAAT
Found at i:944455 original size:18 final size:17
Alignment explanation
Indices: 944432--944469 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
944422 ATATATATAG
*
944432 ATACTTATATTATACATT
1 ATACTTATAATATAC-TT
944450 ATACTTATAATATACTT
1 ATACTTATAATATACTT
944467 ATA
1 ATA
944470 AGTATATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
ATACTTATAATATACTT
Found at i:944493 original size:18 final size:16
Alignment explanation
Indices: 944484--944876 Score: 262
Period size: 13 Copynumber: 27.5 Consensus size: 16
944474 TATACATACT
944484 TATATATATATATATA
1 TATATATATATATATA
944500 TATATATATATATATA
1 TATATATATATATATA
*
944516 TATATATATATATGTA
1 TATATATATATATATA
944532 T-TA-ATATAT-TATA
1 TATATATATATATATA
*
944545 -AGTATA-ATGTATATA
1 TA-TATATATATATATA
944560 TATATATATATATATA
1 TATATATATATATATA
*
944576 TATA-AGTATA-ATGTA
1 TATATA-TATATATATA
*
944591 TACTAT-TTTATATACT-
1 TA-TATATATATATA-TA
*
944607 TATATA-AGTATAAATA
1 TATATATA-TATATATA
944623 TA-ACTATATATATATA
1 TATA-TATATATATATA
*
944639 TAT-TATATTTATAT-
1 TATATATATATATATA
944653 TA-AT-TATATAT-TA
1 TATATATATATATATA
* * *
944666 TATTTATATTTATATT
1 TATATATATATATATA
* *
944682 TATTTATATTTATAT-
1 TATATATATATATATA
944697 TATAT-TATAT-TATA
1 TATATATATATATATA
944711 T-TATAT-TAT-TAT-
1 TATATATATATATATA
944723 TAT-TATAT-TATAT-
1 TATATATATATATATA
944736 TATAT-TATAT-TATA
1 TATATATATATATATA
944750 TAT-TATAT-TATAT-
1 TATATATATATATATA
944763 TATAT-TATAT-TATA
1 TATATATATATATATA
944777 T-TATATAT-TATAT-
1 TATATATATATATATA
944790 TATAT-TATAT-TATA
1 TATATATATATATATA
944804 T-TATAT-TATAT-TA
1 TATATATATATATATA
944817 TAT-TATAT-TATAT-
1 TATATATATATATATA
944830 TATAT-TATAT-TATA
1 TATATATATATATATA
944844 T-TATAT-TATAT-TA
1 TATATATATATATATA
944857 TAT-TATAT-TA-ATA
1 TATATATATATATATA
944870 TAT-TATA
1 TATATATA
944877 AGTATAATGT
Statistics
Matches: 307, Mismatches: 17, Indels: 109
0.71 0.04 0.25
Matches are distributed among these distances:
12 6 0.02
13 106 0.35
14 58 0.19
15 46 0.15
16 89 0.29
17 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (16 bp):
TATATATATATATATA
Found at i:944497 original size:10 final size:10
Alignment explanation
Indices: 944484--944876 Score: 262
Period size: 8 Copynumber: 44.0 Consensus size: 10
944474 TATACATACT
944484 TATATATATA
1 TATATATATA
944494 TATATATATA
1 TATATATATA
944504 TATATATATA
1 TATATATATA
944514 TATATATATA
1 TATATATATA
*
944524 TATATGTAT-
1 TATATATATA
944533 TA-ATATAT-
1 TATATATATA
944541 TATA-AGTATA
1 TATATA-TATA
*
944551 -ATGTATATA
1 TATATATATA
944560 TATATATATA
1 TATATATATA
944570 TATATATATA
1 TATATATATA
*
944580 -AGTATA-ATG
1 TA-TATATATA
*
944589 TATACTAT-TT
1 TATA-TATATA
944599 TATATACT-TA
1 TATATA-TATA
944609 TATA-AGTATA
1 TATATA-TATA
*
944619 AATATA-ACTA
1 TATATATA-TA
944629 TATATATATA
1 TATATATATA
*
944639 TAT-TATATT
1 TATATATATA
944648 TATAT-TA-A
1 TATATATATA
944656 T-TATATAT-
1 TATATATATA
*
944664 TATATTTATA
1 TATATATATA
* *
944674 TTTATATTTA
1 TATATATATA
* *
944684 TTTATATTTA
1 TATATATATA
944694 TAT-TATAT-
1 TATATATATA
944702 TATAT-TATA
1 TATATATATA
944711 T-TATAT-TA
1 TATATATATA
944719 T-TAT-TAT-
1 TATATATATA
944726 TATAT-TATA
1 TATATATATA
944735 T-TATAT-TA
1 TATATATATA
944743 TAT-TATATA
1 TATATATATA
944752 T-TATAT-TA
1 TATATATATA
944760 TAT-TATAT-
1 TATATATATA
944768 TATAT-TATA
1 TATATATATA
944777 T-TATATAT-
1 TATATATATA
944785 TATAT-TATA
1 TATATATATA
944794 T-TATAT-TA
1 TATATATATA
944802 TAT-TATAT-
1 TATATATATA
944810 TATAT-TATA
1 TATATATATA
944819 T-TATAT-TA
1 TATATATATA
944827 TAT-TATAT-
1 TATATATATA
944835 TATAT-TATA
1 TATATATATA
944844 T-TATAT-TA
1 TATATATATA
944852 TAT-TATAT-
1 TATATATATA
944860 TATAT-TA-A
1 TATATATATA
944868 TATAT-TATA
1 TATATATATA
944877 AGTATAATGT
Statistics
Matches: 313, Mismatches: 18, Indels: 105
0.72 0.04 0.24
Matches are distributed among these distances:
7 5 0.02
8 114 0.36
9 80 0.26
10 112 0.36
11 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (10 bp):
TATATATATA
Found at i:944538 original size:20 final size:20
Alignment explanation
Indices: 944484--944876 Score: 200
Period size: 18 Copynumber: 21.3 Consensus size: 20
944474 TATACATACT
944484 TATATATATATA-T-ATATA
1 TATATATATATATTAATATA
944502 TATATATATATA-T-ATATA
1 TATATATATATATTAATATA
*
944520 TATATATATGTATTAATATA
1 TATATATATATATTAATATA
*
944540 T-TATAAGTATAATGTATATATATA
1 TATAT-A-TAT-ATAT-TA-ATATA
944564 TATATATATATATATAAGTATA
1 TATATATATATAT-TAA-TATA
* *
944586 -ATGTATACTAT-TTTATATA
1 TATATATA-TATATTAATATA
944605 CT-TATATA-AGTA-TAA-ATA
1 -TATATATATA-TATTAATATA
944623 TA-ACTATATATA-T-ATATA
1 TATA-TATATATATTAATATA
*
944641 T-TATATTTATATTAAT-TA
1 TATATATATATATTAATATA
*
944659 TATAT-TATAT-TTATATTTA
1 TATATATATATATTA-ATATA
* *
944678 TATTTATTTATATT--TATA
1 TATATATATATATTAATATA
944696 T-TATAT-TATATT-ATAT-
1 TATATATATATATTAATATA
*
944712 TATAT-TAT-TATTATTATA
1 TATATATATATATTAATATA
944730 T-TATAT-TATATT-ATAT-
1 TATATATATATATTAATATA
944746 TATATAT-TATATT-ATAT-
1 TATATATATATATTAATATA
944763 TATATTATATTATATT-ATATA
1 TATA-TATA-TATATTAATATA
944784 T-TATAT-TATATT-ATAT-
1 TATATATATATATTAATATA
*
944800 TATAT-TATAT-TATATTATA
1 TATATATATATAT-TAATATA
944819 T-TATAT-TATATT-ATAT-
1 TATATATATATATTAATATA
*
944835 TATAT-TATAT-TATATTATA
1 TATATATATATAT-TAATATA
944854 T-TATAT-TATATTAATATA
1 TATATATATATATTAATATA
944872 T-TATA
1 TATATA
944877 AGTATAATGT
Statistics
Matches: 303, Mismatches: 20, Indels: 104
0.71 0.05 0.24
Matches are distributed among these distances:
16 19 0.06
17 80 0.26
18 98 0.32
19 32 0.11
20 30 0.10
21 14 0.05
22 15 0.05
23 5 0.02
24 7 0.02
25 3 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (20 bp):
TATATATATATATTAATATA
Found at i:944629 original size:33 final size:35
Alignment explanation
Indices: 944484--944872 Score: 194
Period size: 35 Copynumber: 11.1 Consensus size: 35
944474 TATACATACT
944484 TATATA-TATATATATATATA-TATAT-A-TAT-A
1 TATATACTATATATATATATATTATATAAGTATAA
*
944514 TATATA-TATATATATGTATTAATATATTATAAGTATAA
1 TATATACTATATATATATA-T-AT-TA-TATAAGTATAA
*
944552 TGTATA-TATATATATATATATATATATAAGTATAA
1 TATATACTATATATATATATAT-TATATAAGTATAA
*
944587 TGTATACTAT-T-T-TATATACTTATATAAGTATAA
1 TATATACTATATATATATATA-TTATATAAGTATAA
*
944620 -ATATAACTATATATATATATATTATATTTA-TATTAA
1 TATAT-ACTATATATATATATATTATA-TAAGTA-TAA
* * * * **
944656 TTATATATTATATTTATATTTA-TATTTATTTAT-A
1 -TATATACTATATATATATATATTATATAAGTATAA
* * * * *
944690 TTTATATTATAT-TATATTATATTATATTATTATTA
1 TATATACTATATATATA-TATATTATATAAGTATAA
* *
944725 T-TATATTATAT-TATATTATATTATATATTA-TATTA
1 TATATACTATATATATA-TATATTATATA--AGTATAA
* * *
944760 TATTATATTATATTATATTATATATTATATTA-TATTA
1 TA-TATACTATA-TATA-TATATATTATATAAGTATAA
* * *
944797 TATTATATTATAT-TATATTATATTATATTA-TATTA
1 TA-TATACTATATATATA-TATATTATATAAGTATAA
* *
944832 TATTATATTATAT-TATATTATATTATATTA-TATTAA
1 TA-TATACTATATATATA-TATATTATATAAGTA-TAA
944868 TATAT
1 TATAT
944873 TATAAGTATA
Statistics
Matches: 309, Mismatches: 19, Indels: 57
0.80 0.05 0.15
Matches are distributed among these distances:
30 17 0.06
31 1 0.00
32 8 0.03
33 38 0.12
34 41 0.13
35 93 0.30
36 31 0.10
37 44 0.14
38 22 0.07
39 12 0.04
40 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (35 bp):
TATATACTATATATATATATATTATATAAGTATAA
Found at i:944647 original size:5 final size:5
Alignment explanation
Indices: 944627--944876 Score: 334
Period size: 5 Copynumber: 48.8 Consensus size: 5
944617 TAAATATAAC
944627 TATA- TATAT ATATAT TATATT TATAT TA-ATT ATATAT TATATT TATATT
1 TATAT TATAT -TATAT TATA-T TATAT TATA-T -TATAT TATA-T TATA-T
944676 TATAT T-TATT TATATT TATAT TATAT TATAT TATAT TATA- T-TAT TATTAT
1 TATAT TATA-T TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT
944726 TATAT TATAT TATAT TATATT ATATAT TATAT TATAT TATAT TATAT TATATT
1 TATAT TATAT TATAT TATA-T -TATAT TATAT TATAT TATAT TATAT TATA-T
944779 ATATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
944830 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-A- TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
944877 AGTATAATGT
Statistics
Matches: 228, Mismatches: 0, Indels: 35
0.87 0.00 0.13
Matches are distributed among these distances:
3 4 0.02
4 11 0.05
5 163 0.71
6 41 0.18
7 9 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:944969 original size:2 final size:2
Alignment explanation
Indices: 944957--944989 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
944947 AACATTCATC
944957 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
944990 TGTTTTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:947324 original size:21 final size:21
Alignment explanation
Indices: 947298--947348 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
947288 ATGTTATGGA
947298 AATGTGAACCTTGAACAAATG
1 AATGTGAACCTTGAACAAATG
* *
947319 AATGTGAACCTTGAACCAGTG
1 AATGTGAACCTTGAACAAATG
947340 AATGTGAAC
1 AATGTGAAC
947349 ATACTCTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (21 bp):
AATGTGAACCTTGAACAAATG
Found at i:950481 original size:23 final size:23
Alignment explanation
Indices: 950433--950490 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
950423 TCTTATTTGG
*
950433 CACTTCGGTGCAATTCTACGCTA
1 CACTTCGGTGCAAATCTACGCTA
* *
950456 CACTTTGGTGCAAATCTAC-TTGA
1 CACTTCGGTGCAAATCTACGCT-A
950479 CACTTCGGTGCA
1 CACTTCGGTGCA
950491 TTTATATGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 1 0.03
23 29 0.97
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (23 bp):
CACTTCGGTGCAAATCTACGCTA
Found at i:950717 original size:3 final size:3
Alignment explanation
Indices: 950709--950737 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
950699 ATTATATTTC
950709 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
950738 GCCTCATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:963955 original size:19 final size:21
Alignment explanation
Indices: 963909--963955 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
963899 AAATTAAAAT
*
963909 TATTACAATATCTAAAAACAA
1 TATTAAAATATCTAAAAACAA
* *
963930 TAATAAAATAT-T-AAAACAC
1 TATTAAAATATCTAAAAACAA
963949 TATTAAA
1 TATTAAA
963956 GATTTAAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 12 0.55
20 1 0.05
21 9 0.41
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
TATTAAAATATCTAAAAACAA
Found at i:965435 original size:15 final size:15
Alignment explanation
Indices: 965415--965444 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
965405 CGTTAATTGA
*
965415 AGATAAAATAGATAT
1 AGATAAAATAAATAT
965430 AGATAAAATAAATAT
1 AGATAAAATAAATAT
965445 CATCTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (15 bp):
AGATAAAATAAATAT
Found at i:966088 original size:26 final size:26
Alignment explanation
Indices: 966059--966111 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
966049 CCTATTTTAT
*
966059 ATTAGTGGTGCATTTCAAT-ATATGTC
1 ATTAGTGGTACATTTCAATGA-ATGTC
966085 ATTAGTGGTACATTTCAATGAATGTC
1 ATTAGTGGTACATTTCAATGAATGTC
966111 A
1 A
966112 GTAATTGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (26 bp):
ATTAGTGGTACATTTCAATGAATGTC
Found at i:969751 original size:24 final size:23
Alignment explanation
Indices: 969657--969756 Score: 76
Period size: 24 Copynumber: 4.2 Consensus size: 23
969647 ATAGTTTATC
* *
969657 TGATTTCTGATTTGAATTTTGTTT
1 TGATATCTGATCTGAA-TTTGTTT
* *
969681 TGACATCTGATCTGAAATTTGTTC
1 TGATATCTGATCTG-AATTTGTTT
* * * *
969705 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATT-TGTTT
969729 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATT-TGTTT
969753 TGAT
1 TGAT
969757 TTTTGATATC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
23 4 0.07
24 51 0.88
25 3 0.05
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (23 bp):
TGATATCTGATCTGAATTTGTTT
Found at i:971847 original size:15 final size:16
Alignment explanation
Indices: 971827--971860 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
971817 ATGACTCGAC
971827 CCGTTGACC-CATTGA
1 CCGTTGACCGCATTGA
971842 CCGTTGACCGGCATTGA
1 CCGTTGACC-GCATTGA
971859 CC
1 CC
971861 ACTGTTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (16 bp):
CCGTTGACCGCATTGA
Found at i:975782 original size:21 final size:22
Alignment explanation
Indices: 975751--975804 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
975741 TTTATATTAA
975751 CTTAATTTAAAATAT-TTTATT
1 CTTAATTTAAAATATATTTATT
*
975772 -TTAATTTTAAATATATTTATT
1 CTTAATTTAAAATATATTTATT
975793 CTT-ATTTAAAAT
1 CTTAATTTAAAAT
975805 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.45
21 14 0.48
22 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
CTTAATTTAAAATATATTTATT
Found at i:975887 original size:30 final size:27
Alignment explanation
Indices: 975762--975931 Score: 112
Period size: 30 Copynumber: 6.0 Consensus size: 27
975752 TTAATTTAAA
975762 ATATTTTATTTTAATTTTAAATATATT
1 ATATTTTATTTTAATTTTAAATATATT
*
975789 -TATTCTTATTTAAAATTTTAAAAATATATT
1 ATATT-TTATTT-TAATTTT--AAATATATT
* * * **
975819 TTATTATATTTTAACTTTTCAACGTA-T
1 ATATTTTATTTTAA-TTTTAAATATATT
* *
975846 GTGTTTTATTTTAATTTACTAAATATATT
1 ATATTTTATTTTAATTT--TAAATATATT
*
975875 ATATTATTATTTTAAATTATTCAATATATT
1 ATATT-TTATTTT-AATT-TTAAATATATT
* * *
975905 TTATTCTTATCTTAATTTCAAA-ATATT
1 ATATT-TTATTTTAATTTTAAATATATT
975932 TTAACATAAA
Statistics
Matches: 111, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
26 7 0.06
27 23 0.21
28 18 0.16
29 10 0.09
30 44 0.40
31 8 0.07
32 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (27 bp):
ATATTTTATTTTAATTTTAAATATATT
Found at i:975992 original size:26 final size:24
Alignment explanation
Indices: 975938--976018 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 24
975928 TATTTTAACA
* *
975938 TAAAATAGATATTTTTAAATTAAAAT
1 TAAAATAAATA-TTTTAAATT-AAGT
975964 TAAAATATAATATTTTAAAATTAAGT
1 TAAAATA-AATATTTT-AAATTAAGT
*
975990 TAATAACAAAAATATTTTAAA-TAAGT
1 T-A-AA-ATAAATATTTTAAATTAAGT
976016 TAA
1 TAA
976019 TATACAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
24 1 0.02
25 1 0.02
26 21 0.45
27 12 0.26
28 10 0.21
29 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAAATAAATATTTTAAATTAAGT
Found at i:976033 original size:26 final size:28
Alignment explanation
Indices: 975972--976027 Score: 89
Period size: 26 Copynumber: 2.0 Consensus size: 28
975962 ATTAAAATAT
975972 AATATTTTAAAATTAAGTTAATAACAAA
1 AATATTTTAAAATTAAGTTAATAACAAA
976000 AATATTTT-AAA-TAAGTTAATATACAAA
1 AATATTTTAAAATTAAGTTAATA-ACAAA
976027 A
1 A
976028 TGTTTTTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 10 0.37
27 9 0.33
28 8 0.30
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (28 bp):
AATATTTTAAAATTAAGTTAATAACAAA
Found at i:976034 original size:27 final size:27
Alignment explanation
Indices: 975976--976036 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
975966 AAATATAATA
*
975976 TTTTAAAATTAAGTTAATAACAAAAAT
1 TTTTTAAATTAAGTTAATAACAAAAAT
*
976003 ATTTTAAA-TAAGTTAATATAC-AAAAT
1 TTTTTAAATTAAGTTAATA-ACAAAAAT
976029 GTTTTTAA
1 -TTTTTAA
976037 GTTTATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (27 bp):
TTTTTAAATTAAGTTAATAACAAAAAT
Found at i:976433 original size:22 final size:22
Alignment explanation
Indices: 976389--976433 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
976379 ATTGAAAATA
* *
976389 TTATTAAAAAGTTTAATATTTT
1 TTATTAAAAAATATAATATTTT
976411 TTATTAAAAAAATATAATATTTT
1 TTATT-AAAAAATATAATATTTT
976434 AAATTGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTATTAAAAAATATAATATTTT
Found at i:976873 original size:24 final size:23
Alignment explanation
Indices: 976841--976933 Score: 66
Period size: 23 Copynumber: 4.0 Consensus size: 23
976831 TGTTAAAAAC
*
976841 ATAAA-TAATATTATTCATTATTA
1 ATAAATTAATAATATT-ATTATTA
* *
976864 ATAATTTAATAATATTATTTTTA
1 ATAAATTAATAATATTATTATTA
* *
976887 TTAAATTAATAA-ATAATATATATA
1 ATAAATTAATAATATTAT-TAT-TA
* *
976911 TATATATTATTAATATT-TTATTA
1 -ATAAATTAATAATATTATTATTA
976934 TATATTATTA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
22 4 0.07
23 24 0.44
24 14 0.26
25 10 0.19
26 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAAATTAATAATATTATTATTA
Found at i:976901 original size:27 final size:26
Alignment explanation
Indices: 976841--976905 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
976831 TGTTAAAAAC
976841 ATAAATAATATTATTCATTATTAATA
1 ATAAATAATATTATTCATTATTAATA
* *
976867 ATTTAATAATATTATT-TTTATTAAATTA
1 A-TAAATAATATTATTCATTATT-AA-TA
976895 ATAAATAATAT
1 ATAAATAATAT
976906 ATATATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 6 0.18
27 24 0.73
28 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
ATAAATAATATTATTCATTATTAATA
Found at i:976924 original size:21 final size:21
Alignment explanation
Indices: 976900--976944 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
976890 AATTAATAAA
976900 TAATA-TATATATATATATTAT
1 TAATATTATAT-TATATATTAT
*
976921 TAATATTTTATTATATATTAT
1 TAATATTATATTATATATTAT
976942 TAA
1 TAA
976945 AGTAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTATATTATATATTAT
Found at i:976931 original size:11 final size:11
Alignment explanation
Indices: 976900--976944 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
976890 AATTAATAAA
976900 TAATATA-TA-
1 TAATATATTAT
976909 TATATATATTAT
1 TA-ATATATTAT
*
976921 TAATATTTTAT
1 TAATATATTAT
976932 T-ATATATTAT
1 TAATATATTAT
976942 TAA
1 TAA
976945 AGTAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 2 0.07
10 14 0.47
11 12 0.40
12 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TAATATATTAT
Found at i:976988 original size:54 final size:51
Alignment explanation
Indices: 976877--977025 Score: 130
Period size: 54 Copynumber: 2.8 Consensus size: 51
976867 ATTTAATAAT
*
976877 ATTATT-T-TTATTAAATTAATAAATAATATATATATATATATTA-TTAATATTTT
1 ATTATTATATTATTAAATTAA-AAAT-ATA-ATAT-T-TATATTATTTAATATTTG
*
976930 ATTA-TATATTATTAAAGTAAAAATATAATATCTTATATTATTGTAATATAATTG
1 ATTATTATATTATTAAATTAAAAATATAATAT-TTATATTATT-TAATAT--TTG
*
976984 ATTATTTTATTA-TAATATTAAAAAGTATAATA-TTATATTATT
1 ATTATTATATTATTAA-ATTAAAAA-TATAATATTTATATTATT
977026 ATTCAATAAA
Statistics
Matches: 82, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
50 7 0.09
51 6 0.07
52 10 0.12
53 9 0.11
54 30 0.37
55 13 0.16
56 7 0.09
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (51 bp):
ATTATTATATTATTAAATTAAAAATATAATATTTATATTATTTAATATTTG
Found at i:977803 original size:22 final size:22
Alignment explanation
Indices: 977757--977831 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
977747 TTTTTGTTAT
* * *
977757 TTTTTAATTTTAAGTAATTAAAA
1 TTTTTAAATTTAATTAATT-TAA
*
977780 TTTTTAAATTT-TTTATATTTAA
1 TTTTTAAATTTAATTA-ATTTAA
*
977802 -TTTTAATATTTAATTAATTTTA
1 TTTTTAA-ATTTAATTAATTTAA
977824 TTTTTAAA
1 TTTTTAAA
977832 ATGAAATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
21 6 0.14
22 14 0.33
23 22 0.52
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (22 bp):
TTTTTAAATTTAATTAATTTAA
Found at i:978531 original size:18 final size:18
Alignment explanation
Indices: 978510--978556 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
978500 AAAATTATAT
* *
978510 ATTTTTAAAAAACATAAA
1 ATTTTGAAAAAACACAAA
*
978528 ATTTTGAAATAAACCCAAA
1 ATTTTGAAA-AAACACAAA
978547 ATTTTGAAAA
1 ATTTTGAAAA
978557 CATTCATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (18 bp):
ATTTTGAAAAAACACAAA
Found at i:979458 original size:2 final size:2
Alignment explanation
Indices: 979453--979495 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
979443 AAAAACATAA
979453 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
979495 A
1 A
979496 CATACACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:985084 original size:8 final size:9
Alignment explanation
Indices: 985063--985088 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
985053 TTGGTGACGA
985063 AAAAATTAC
1 AAAAATTAC
985072 AAAAATTAC
1 AAAAATTAC
985081 AAAAATTA
1 AAAAATTA
985089 TTTTCAAGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATTAC
Found at i:985781 original size:309 final size:309
Alignment explanation
Indices: 985222--985838 Score: 1189
Period size: 309 Copynumber: 2.0 Consensus size: 309
985212 AAGGCGACCA
985222 CCATTGGAATCAGGACTACACCAAAGACATGATGGTATGGGCGGTGAACTAAACGTAGCAACGGT
1 CCATTGGAATCAGGACTACACCAAAGACATGATGGTATGGGCGGTGAACTAAACGTAGCAACGGT
** *
985287 CGGTGGTAAATTGGCGATCAAAGTTTTCTTGGGATAAGTTTACTAAAAATGGAAAGCTTGAAGAA
66 CGACGGTAAATTGGCGATCAAAGTTTTCCTGGGATAAGTTTACTAAAAATGGAAAGCTTGAAGAA
* *
985352 AGAAAATCTAATTTTCAAACGAGGAAACTTTAGGAAAAATGGGTTTTATAGCCACCATACTTAAA
131 AGAAAATATAATTTTCAAACGAGGAAACTTTAGGAAAAATGGGTTTTATAGCCACCACACTTAAA
985417 AAATGGATAAATTATGCCATAAGTCCCTCAAGCTTAGAACTTTCAGATTTTGGACCTGAAATTAA
196 AAATGGATAAATTATGCCATAAGTCCCTCAAGCTTAGAACTTTCAGATTTTGGACCTGAAATTAA
985482 TTAAAATTCCATTTTGGTTTTTAAATTTTACCAAAAATTCAAATTAATT
261 TTAAAATTCCATTTTGGTTTTTAAATTTTACCAAAAATTCAAATTAATT
985531 CCATTGGAATCAGGACTACACCAAAGACATGATGGTATGGGCGGTGAACTAAACGTAGCAACGGT
1 CCATTGGAATCAGGACTACACCAAAGACATGATGGTATGGGCGGTGAACTAAACGTAGCAACGGT
985596 CGACGGTAAATTGGCGATCAAAGTTTTCCTGGGATAAGTTTACTAAAAATGGAAAGCTTGAAGAA
66 CGACGGTAAATTGGCGATCAAAGTTTTCCTGGGATAAGTTTACTAAAAATGGAAAGCTTGAAGAA
985661 AGAAAATATAATTTTCAAACGAGGAAACTTTAGGAAAAATGGGTTTTATAGCCACCACACTTAAA
131 AGAAAATATAATTTTCAAACGAGGAAACTTTAGGAAAAATGGGTTTTATAGCCACCACACTTAAA
985726 AAATGGATAAATTATGCCATAAGTCCCTCAAGCTTAGAACTTTCAGATTTTGGACCTGAAATTAA
196 AAATGGATAAATTATGCCATAAGTCCCTCAAGCTTAGAACTTTCAGATTTTGGACCTGAAATTAA
985791 TTAAAATTCCATTTTGGTTTTTAAATTTTACCAAAAATTCAAATTAAT
261 TTAAAATTCCATTTTGGTTTTTAAATTTTACCAAAAATTCAAATTAAT
985839 CCTCAAAATA
Statistics
Matches: 303, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
309 303 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (309 bp):
CCATTGGAATCAGGACTACACCAAAGACATGATGGTATGGGCGGTGAACTAAACGTAGCAACGGT
CGACGGTAAATTGGCGATCAAAGTTTTCCTGGGATAAGTTTACTAAAAATGGAAAGCTTGAAGAA
AGAAAATATAATTTTCAAACGAGGAAACTTTAGGAAAAATGGGTTTTATAGCCACCACACTTAAA
AAATGGATAAATTATGCCATAAGTCCCTCAAGCTTAGAACTTTCAGATTTTGGACCTGAAATTAA
TTAAAATTCCATTTTGGTTTTTAAATTTTACCAAAAATTCAAATTAATT
Found at i:986138 original size:18 final size:20
Alignment explanation
Indices: 986107--986147 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
986097 TATATATTAA
986107 AAATAAAACCCAAAA-TTTG
1 AAATAAAACCCAAAACTTTG
*
986126 AAAT-AAACTCAAAACTTTG
1 AAATAAAACCCAAAACTTTG
986145 AAA
1 AAA
986148 ACCTTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.59, C:0.15, G:0.05, T:0.22
Consensus pattern (20 bp):
AAATAAAACCCAAAACTTTG
Found at i:1003553 original size:58 final size:56
Alignment explanation
Indices: 1003465--1003582 Score: 166
Period size: 58 Copynumber: 2.1 Consensus size: 56
1003455 CGAATTATAT
**
1003465 AATTAAGAAATCATGAACAAGAATAGAAGAGCTTATTCAATCATGTGAGAA-GGAAG
1 AATTAAGAAATCATGAACAAGAATAGAAGAGCTTACCCAATCATGTGA-AAGGGAAG
* *
1003521 AATTAAGGAAAATCATGAACTAGAATAGAAGAGCTTACCCCATCATGTGAAAGGGAAG
1 AATTAA-G-AAATCATGAACAAGAATAGAAGAGCTTACCCAATCATGTGAAAGGGAAG
1003579 AATT
1 AATT
1003583 CAAAATACAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
56 6 0.11
57 3 0.05
58 46 0.84
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (56 bp):
AATTAAGAAATCATGAACAAGAATAGAAGAGCTTACCCAATCATGTGAAAGGGAAG
Found at i:1003714 original size:92 final size:90
Alignment explanation
Indices: 1003529--1003707 Score: 240
Period size: 92 Copynumber: 2.0 Consensus size: 90
1003519 AGAATTAAGG
* * * *
1003529 AAAATCATGAACTAGAATAGAAGAGCTTACCCCATCATGTGAAAGGGAAGAATTCAAAATACAAT
1 AAAATCATGAACTAAAATAAAAGAGCTTACCCCATCATATGAAAAGGAAGAATTC--AATACAAT
*
1003594 TACAACTAGTTAATATAAGATTAAAAA
64 TACAACTAGTTAATATAAAATTAAAAA
*
1003621 AAAATCATGAACTAAAATAAAAGAGCTTATCCCATCATATGAAAAAGGAAGAATTC-A-A-AA-T
1 AAAATCATGAACTAAAATAAAAGAGCTTACCCCATCATATG-AAAAGGAAGAATTCAATACAATT
*
1003682 ACAACTTGTTAATATAAAATTAAAAA
65 ACAACTAGTTAATATAAAATTAAAAA
1003708 TTAAAAATTA
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
87 25 0.32
88 2 0.03
89 1 0.01
90 1 0.01
92 37 0.47
93 13 0.16
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (90 bp):
AAAATCATGAACTAAAATAAAAGAGCTTACCCCATCATATGAAAAGGAAGAATTCAATACAATTA
CAACTAGTTAATATAAAATTAAAAA
Found at i:1004523 original size:13 final size:13
Alignment explanation
Indices: 1004479--1004523 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
1004469 TACTTTCTAT
1004479 ATTAATTATAATC
1 ATTAATTATAATC
*
1004492 CTTATATTATAAATC
1 ATTA-ATTAT-AATC
1004507 -TTAATTATAATC
1 ATTAATTATAATC
1004519 ATTAA
1 ATTAA
1004524 ATTAATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:1005078 original size:4 final size:4
Alignment explanation
Indices: 1005071--1005150 Score: 142
Period size: 4 Copynumber: 20.0 Consensus size: 4
1005061 ATATATAGCA
1005071 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG CACG
* *
1005119 CACG CACG CACG CACA CACG CACA CACG CACG
1 CACG CACG CACG CACG CACG CACG CACG CACG
1005151 TACATATATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 72 1.00
ACGTcount: A:0.28, C:0.50, G:0.23, T:0.00
Consensus pattern (4 bp):
CACG
Found at i:1010797 original size:136 final size:135
Alignment explanation
Indices: 1010600--1011237 Score: 877
Period size: 136 Copynumber: 4.7 Consensus size: 135
1010590 TAAAATGCCA
* * * *
1010600 TGAATCGAGCAATAGGTCAAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCTGTCGGATGAG
1 TGAATCGAGCAATAGTTCGAACAAGTTCTTCTCATTATGAAC-TCTTCTCCCTCTATCGGATGAG
* **
1010665 TTCTTCTCATTATGAACTCTCCATTGGAAATATCAATCCCTCAAGCGAGGCGTTACTGATTCAAA
65 TTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCGTTGTTGATTCAAA
1010730 GTATCG
130 GTATCG
*
1010736 TGAGTCGAG-AAGTAGTTCGAACAAGTTCTTCTCATTATGAATCTCTTCTCCCTCTATCGGATGA
1 TGAATCGAGCAA-TAGTTCGAACAAGTTCTTCTCATTATGAA-CTCTTCTCCCTCTATCGGATGA
* * **
1010800 GTTCTTCTCATTATGAACTCTCCATTAGAAATGTCAATCCCTCAAGCGAGGCGTTGTTAATTTGA
64 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCGTTGTTGATTCAA
1010865 AGTATCG
129 AGTATCG
* * * * * * *
1010872 TGATTCGAACAATA-TATAGAATAAGTTATTCTCATTATGAACCTCTTCTCCCTCTGTCGAATGA
1 TGAATCGAGCAATAGT-TCGAACAAGTTCTTCTCATTATGAA-CTCTTCTCCCTCTATCGGATGA
* * * * *
1010936 GTTTTTATCATTTTGAACTCTCCATTGGAAATGTCAACCCCTCAAGCGAGGCATTGTTGATTCAA
64 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCGTTGTTGATTCAA
* *
1011001 AGTGTCT
129 AGTATCG
*
1011008 TGAATCAAGCAATAGGTT-GAACAAGTTCTTCTCATTATGAACCTCTTCTCCCTCTATCGGATGA
1 TGAATCGAGCAATA-GTTCGAACAAGTTCTTCTCATTATGAA-CTCTTCTCCCTCTATCGGATGA
* *
1011072 GTTCTTCTCATTATGAACTCTCTATTGGAAATGTCAATCCCTCAAGCGAGGCTTTGTTGATTCAA
64 GTTCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCGTTGTTGATTCAA
*
1011137 AGTGTCG
129 AGTATCG
* * *
1011144 TGAATCGAGCAATAGGTCAAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCTATCGGATGAG
1 TGAATCGAGCAATAGTTCGAACAAGTTCTTCTCATTATGAAC-TCTTCTCCCTCTATCGGATGAG
*
1011209 TTCTTCTCATTATGAAATCTCCATTGGAA
65 TTCTTCTCATTATGAACTCTCCATTGGAA
1011238 TGTTGATTGA
Statistics
Matches: 443, Mismatches: 51, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
135 6 0.01
136 432 0.98
137 4 0.01
138 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (135 bp):
TGAATCGAGCAATAGTTCGAACAAGTTCTTCTCATTATGAACTCTTCTCCCTCTATCGGATGAGT
TCTTCTCATTATGAACTCTCCATTGGAAATGTCAATCCCTCAAGCGAGGCGTTGTTGATTCAAAG
TATCG
Found at i:1012268 original size:10 final size:10
Alignment explanation
Indices: 1012241--1012299 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 10
1012231 CTTGAACTTC
1012241 TCTTT-TTTT
1 TCTTTCTTTT
*
1012250 TCATT-TTTT
1 TCTTTCTTTT
1012259 TCTTTCTTTT
1 TCTTTCTTTT
1012269 T-TCTTCTTTT
1 TCT-TTCTTTT
*
1012279 CGCTTTCTTTT
1 -TCTTTCTTTT
1012290 TCTTTTCTTT
1 TC-TTTCTTT
1012300 CTTAGGCGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 13 0.32
10 13 0.32
11 14 0.34
12 1 0.02
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:1012278 original size:21 final size:20
Alignment explanation
Indices: 1012245--1012302 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1012235 AACTTCTCTT
*
1012245 TTTTTTCATTTTTTTCTTTC
1 TTTTTTCTTTTTTTTCTTTC
**
1012265 TTTTTTCTTCTTTTCGCTTTC
1 TTTTTTCTT-TTTTTTCTTTC
*
1012286 -TTTTTCTTTTCTTTCTT
1 TTTTTTCTTTTTTTTCTT
1012303 AGGCGTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 6 0.19
20 16 0.52
21 9 0.29
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTCTTTC
Found at i:1015722 original size:7 final size:7
Alignment explanation
Indices: 1015710--1015740 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1015700 ATATTGGAAT
1015710 ATAAAGA
1 ATAAAGA
1015717 ATAAAGA
1 ATAAAGA
*
1015724 ATATAGA
1 ATAAAGA
1015731 ATAAAGA
1 ATAAAGA
1015738 ATA
1 ATA
1015741 TGATACAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (7 bp):
ATAAAGA
Found at i:1030228 original size:20 final size:20
Alignment explanation
Indices: 1030203--1030248 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
1030193 TTTTAGATGA
1030203 TTAATTTTAATTCTGGAAGT
1 TTAATTTTAATTCTGGAAGT
1030223 TTAATTTTAATTCTGGAAGT
1 TTAATTTTAATTCTGGAAGT
1030243 TTAATT
1 TTAATT
1030249 AAATGATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.52
Consensus pattern (20 bp):
TTAATTTTAATTCTGGAAGT
Found at i:1034589 original size:37 final size:37
Alignment explanation
Indices: 1034543--1034620 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
1034533 TATAAACTTC
* * *
1034543 TTCAACTAAATCCTCTTGCAAGAAGGCATTAAAGACA
1 TTCAACTAAACCCCCTAGCAAGAAGGCATTAAAGACA
*
1034580 TTCAGCTAAACCCCCTAGCAAGAAGGCATTAAAGACA
1 TTCAACTAAACCCCCTAGCAAGAAGGCATTAAAGACA
1034617 TTCA
1 TTCA
1034621 TTTGACAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (37 bp):
TTCAACTAAACCCCCTAGCAAGAAGGCATTAAAGACA
Found at i:1038520 original size:17 final size:17
Alignment explanation
Indices: 1038498--1038547 Score: 100
Period size: 17 Copynumber: 2.9 Consensus size: 17
1038488 TTTAAGCTTT
1038498 ATTCAAGCTCGAACTCG
1 ATTCAAGCTCGAACTCG
1038515 ATTCAAGCTCGAACTCG
1 ATTCAAGCTCGAACTCG
1038532 ATTCAAGCTCGAACTC
1 ATTCAAGCTCGAACTC
1038548 AAACTCGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (17 bp):
ATTCAAGCTCGAACTCG
Found at i:1041785 original size:21 final size:22
Alignment explanation
Indices: 1041760--1041821 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
1041750 CACATAATCA
1041760 GATTTAGGGTTTAAGGTTTAAT
1 GATTTAGGGTTTAAGGTTTAAT
* *
1041782 -ATTTATGGTTTAGGGTTT-AT
1 GATTTAGGGTTTAAGGTTTAAT
* *
1041802 GATTTAGGTTTTATGGTTTA
1 GATTTAGGGTTTAAGGTTTA
1041822 GGTTTTAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (22 bp):
GATTTAGGGTTTAAGGTTTAAT
Found at i:1041800 original size:14 final size:14
Alignment explanation
Indices: 1041762--1041828 Score: 71
Period size: 14 Copynumber: 4.8 Consensus size: 14
1041752 CATAATCAGA
*
1041762 TTTAGGGTTTAAGG
1 TTTAGGGTTTATGG
***
1041776 TTTAATATTTATGG
1 TTTAGGGTTTATGG
*
1041790 TTTAGGGTTTATGA
1 TTTAGGGTTTATGG
*
1041804 TTTAGGTTTTATGG
1 TTTAGGGTTTATGG
*
1041818 TTTAGGTTTTA
1 TTTAGGGTTTA
1041829 GATTTTTAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.21, C:0.00, G:0.25, T:0.54
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:1041828 original size:21 final size:21
Alignment explanation
Indices: 1041790--1041834 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1041780 ATATTTATGG
* *
1041790 TTTAGGGTTTATGATTTAGGT
1 TTTAGGGTTTAGGATTTAGAT
* *
1041811 TTTATGGTTTAGGTTTTAGAT
1 TTTAGGGTTTAGGATTTAGAT
1041832 TTT
1 TTT
1041835 TAGGTTCACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (21 bp):
TTTAGGGTTTAGGATTTAGAT
Found at i:1042355 original size:11 final size:11
Alignment explanation
Indices: 1042341--1042399 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
1042331 TATAGAATTA
1042341 TTAATATATTT
1 TTAATATATTT
1042352 TTAA-A-ATTT
1 TTAATATATTT
**
1042361 TATAAT-TATCA
1 T-TAATATATTT
* *
1042372 ATAATGTATTT
1 TTAATATATTT
1042383 TTAATATATTT
1 TTAATATATTT
1042394 TTAATA
1 TTAATA
1042400 ATGTAATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
9 5 0.14
10 8 0.22
11 24 0.65
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
TTAATATATTT
Found at i:1044750 original size:21 final size:21
Alignment explanation
Indices: 1044708--1044772 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 21
1044698 TATAATTTTT
1044708 TATTTTTTAAAAGAATTAAAAA
1 TATTTTTTAAAA-AATTAAAAA
1044730 TATTATTTTAAAAAA-TAAAAA
1 TATT-TTTTAAAAAATTAAAAA
*
1044751 TATTGTTTAAAAAAATTAAAAA
1 TATT-TTTTAAAAAATTAAAAA
1044773 GAAAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.49
22 12 0.31
23 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TATTTTTTAAAAAATTAAAAA
Found at i:1052426 original size:16 final size:17
Alignment explanation
Indices: 1052394--1052427 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1052384 TGTCTTGTTG
1052394 GTGGAGATAGTGTTGGTA
1 GTGGAGATAG-GTTGGTA
1052412 GTGGAGATA-GTTGGTA
1 GTGGAGATAGGTTGGTA
1052428 CTGCTGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (17 bp):
GTGGAGATAGGTTGGTA
Found at i:1052956 original size:66 final size:66
Alignment explanation
Indices: 1052852--1053465 Score: 1025
Period size: 66 Copynumber: 9.3 Consensus size: 66
1052842 TCTGCTTTTG
* * * * * *
1052852 CTGAAGGGAATATTAGATC-TGG-GGATTTGATCCATTGAATCAAAACAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1052915 T
66 T
* *
1052916 CTGATGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1052981 T
66 T
*
1052982 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTTCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1053047 T
66 T
* * *
1053048 CTGAAGGGAATATCAAATGTTGGAGAAATTGATCCATTGAATTGAAGCAAACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1053113 T
66 T
* *
1053114 CTGAAAGGAATATCAAATGTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1053179 T
66 T
* *
1053180 CTAAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1053245 T
66 T
1053246 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1053311 T
66 T
* * *
1053312 CTGAAGGGAATATCAAATCTTGGAGAAGTTGATCCATTGAACCGAAGAAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1053377 T
66 T
* *
1053378 CTGAAGGGAATATCAAATCTTTGAGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1 CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
1053443 T
66 T
1053444 CTGAAGGGAATATCAAATCTTG
1 CTGAAGGGAATATCAAATCTTG
1053466 TAAAAGAGAG
Statistics
Matches: 518, Mismatches: 30, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
64 16 0.03
65 3 0.01
66 499 0.96
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (66 bp):
CTGAAGGGAATATCAAATCTTGGAGAAATTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
T
Found at i:1053583 original size:19 final size:19
Alignment explanation
Indices: 1053541--1053583 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1053531 ATTGGGATCA
*
1053541 AACCAGAAAATTAAACATT
1 AACCTGAAAATTAAACATT
1053560 AACCTGAAAATTAAACATT
1 AACCTGAAAATTAAACATT
1053579 AACCT
1 AACCT
1053584 TTATTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.53, C:0.19, G:0.05, T:0.23
Consensus pattern (19 bp):
AACCTGAAAATTAAACATT
Found at i:1067370 original size:18 final size:17
Alignment explanation
Indices: 1067331--1067373 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1067321 ATTATATGGA
1067331 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
1067347 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
1067365 TATTATTAT
1 TATTATTAT
1067374 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:1071724 original size:183 final size:183
Alignment explanation
Indices: 1071416--1072135 Score: 1289
Period size: 183 Copynumber: 3.9 Consensus size: 183
1071406 ATTAAATCCG
*
1071416 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTAGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
1071481 ATAGATTATGTTCAAACTATGACACTGCTAGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
1071546 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
* * * *
1071599 TAAAGCTGAGTTATTCCAATAAGGCAATTAGTTATAGAGGAAACTCGAAAGCCCTGTCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
1071664 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTTCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
* *
1071729 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTT
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
1071782 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
1071847 ATAGATTATGTTCAAACTATGACACAGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
1071912 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
1071965 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
1072030 ATAGATTACATTCAAA-TCATGACATTGCTCGTACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
1072094 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
1072136 TAAACCTGAT
Statistics
Matches: 513, Mismatches: 23, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
182 1 0.00
183 512 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:1073367 original size:72 final size:75
Alignment explanation
Indices: 1073276--1073451 Score: 209
Period size: 72 Copynumber: 2.4 Consensus size: 75
1073266 ATGCAGATGA
* * ** *
1073276 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGATTGTTTT-TCTC
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTC
1073338 GAAAGAA-G-AT
64 GAAAGAAGGCAT
*
1073348 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
1073413 AAGAAGGCAT
66 AAGAAGGCAT
** *
1073423 TTCATTTCACTCAAGGCTGTTTTTTTTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
1073452 GAAGATTTTA
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
71 1 0.01
72 49 0.55
73 11 0.12
74 1 0.01
75 4 0.04
76 23 0.26
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.43
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:1073405 original size:36 final size:36
Alignment explanation
Indices: 1073291--1073398 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 36
1073281 TCACTCAAAT
*
1073291 TTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGA
1 TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGA
** * * * **
1073327 TTGTTTTTCTCGAAAGAAGATTTATTTCACTCAAGA
1 TTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGA
*
1073363 TTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGA
1 TTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGA
1073399 CCGTTTTCAC
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
35 1 0.02
36 54 0.98
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (36 bp):
TTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGA
Found at i:1073510 original size:39 final size:39
Alignment explanation
Indices: 1073467--1073619 Score: 110
Period size: 39 Copynumber: 3.6 Consensus size: 39
1073457 TTTTATCTTG
*
1073467 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * *
1073506 CTTGAGACAGTTTCTCTTGAAAACATTAACATTGAAATTAATTTTTTCTCTC
1 CTTGAGACAGTTTCCCTCG-----A--AACA--G-AA--AATTTTGTCTC-C
* *
1073558 C-TGAGATAGTTTCCCTCGAAACAAAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* *
1073596 CTTGAGACAGTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTCGAAACA
1073620 TAAACATTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
38 2 0.02
39 45 0.51
41 2 0.02
44 5 0.06
46 5 0.06
48 1 0.01
49 2 0.02
51 24 0.27
52 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (39 bp):
CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
Found at i:1073609 original size:90 final size:89
Alignment explanation
Indices: 1073469--1073631 Score: 299
Period size: 90 Copynumber: 1.8 Consensus size: 89
1073459 TTATCTTGCT
* *
1073469 TGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAACATTA
1 TGAGATAGTTTCCCTCGAAACAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AAACATAA
1073534 ACATTGAAATTAATTTTTTCTCTCC
65 ACATTGAAATTAATTTTTTCTCTCC
1073559 TGAGATAGTTTCCCTCGAAACAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1 TGAGATAGTTTCCCTCGAAACAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
1073624 CATTGAAA
66 CATTGAAA
1073632 ACATTTCCCT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 16 0.23
90 55 0.77
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (89 bp):
TGAGATAGTTTCCCTCGAAACAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA
CATTGAAATTAATTTTTTCTCTCC
Found at i:1073705 original size:106 final size:102
Alignment explanation
Indices: 1073546--1073821 Score: 402
Period size: 106 Copynumber: 2.7 Consensus size: 102
1073536 ATTGAAATTA
*
1073546 ATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAAAAAATTTTGTCTCCCTTGAGACAGTTTCT
1 ATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAAC-AAAAATTTTGTCTCCCTTGAGACAGTTTCT
1073611 CTTGAAACATAAACATTGAAAACATTTCCCTTAAAATG
65 CTTGAAACATAAACATTGAAAACATTTCCCTTAAAATG
1073649 ATTTTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTT
1 A---TTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACA-AAAATTTTGTCTCCCTTGAGACAGTT
*
1073714 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATG
62 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTAAAATG
* * *
1073755 A-ATTTTATCT-TTGA-ATATGTTTTCCTTC-AAAC--AAATTTTGTCTCCCTTGAGACAGTTTC
1 ATTTTTTCTCTCTTGAGATA-G-TTTCCCTCGAAACAAAAATTTTGTCTCCCTTGAGACAGTTTC
1073814 TCTTGAAA
64 TCTTGAAA
1073822 TGACACAATT
Statistics
Matches: 162, Mismatches: 5, Indels: 17
0.88 0.03 0.09
Matches are distributed among these distances:
98 35 0.22
100 3 0.02
101 9 0.06
102 14 0.09
103 1 0.01
105 1 0.01
106 99 0.61
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (102 bp):
ATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAAAAATTTTGTCTCCCTTGAGACAGTTTCTC
TTGAAACATAAACATTGAAAACATTTCCCTTAAAATG
Done.