Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold113
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: 3764034
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Warning! 4009 characters in sequence are not A, C, G, or T
File 7 of 23
Found at i:992695 original size:132 final size:132
Alignment explanation
Indices: 992199--993760 Score: 1459
Period size: 132 Copynumber: 11.8 Consensus size: 132
992189 AAGAAGAATC
* * * * * * * *
992199 TGACCAGGGTGGTAACCATATGTCAGACCGAAATGAGAAA-AG-TTTTACGAGGGTGGTAACTAA
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAA-G-GAAAGGGATTTGACCAGGGTGGTAAC-CA
* * * * * *
992262 TATGTCAAATCAGAATAAGATGAATCTGACTAGGGTGGTAACCATATGTTAGACCGGAATGAGAA
63 TACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAA
992327 AAGTT
128 AAGTT
* * * *
992332 TGACTAAGGTGGTAACCATACGTCATACA-AAAAGAAACAGGATTTGACCAGGGTGGTAACCATA
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAA-GGGATTTGACCAGGGTGGTAACCATA
* * * * * * * * * * * *
992396 TGTCAGA-CTAAAATGAGAA-ACGTTTTACGAGGGTGGTAACTAATACGTTA-AATCAGAATAAG
65 CGTCAAATC-AGAATAAGAAGA-ATCTGACCAGGGTGGTAAC-CATACGTTAGACTGA-AATGAG
*
992458 AAGAA-TC
126 AA-AAGTT
* * * * * * *
992465 TGACTAGGGTGGTAACCATATGTCAGACCGAAATGAGAAA-AG-TTTTACGAGGGTGGTAACTAA
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAA-G-GAAAGGGATTTGACCAGGGTGGTAAC-CA
* * * *
992528 TACATCAAATCAGAATAAAAAGAATCTGACTAGGGTGGTAACCATATGTTAGACTGAAATGAGAA
63 TACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAA
992593 AAGTT
128 AAGTT
* * * * * *
992598 TGACTAAGGTGGTAACCATACGTCAAACAAAAAAGAAAGGGATTTGACCAGAGTGATAACCATAT
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATAC
* * * * *
992663 GTCAAATCAGGATAAGAAGAATCTAACCAGGGTGGTAACCATACATCAGA-TCGAACTGAGAAAA
66 GTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACT-GAAATGAGAAAA
992727 GTT
130 GTT
* * **
992730 TGACTAGGGTGGTAACCATACGTCAAATAGAAAGGAAAGGGATTTTACCAGGGTAATAACCATAC
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATAC
* * * * * * *
992795 GTCAAAGCAGAATAAAAAGAATCTGACTAGGGTGGTAACCAAATGTCAGACTAAAATGAGAAAAG
66 GTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAAAAG
992860 TT
131 TT
* * * * *
992862 TGACCAGGGTGGTAACCATACGTCAAACAGAAAAGAAAGGGATTTGACTAAGGTGGTAACCATAT
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATAC
* * * * * ** * * *
992927 GTCAAATCAAAAAAAGAAGAATATGAGCAAGGTGGTAAAAATACGTCAGACTAAAATGAGAAACG
66 GTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAAAAG
992992 TT
131 TT
* * * * *
992994 TGACCAGAGTGGTAACCGTACGTCAAACAGAAAGGAAAGGGATTTGACTAGGGTCGTAACCATAC
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATAC
* * *
993059 GTCAAATCAGAATAAGAAGAATTTGACTAGGGTGGTAACCATATG-TAGACTGAAATGAGAAAAG
66 GTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAAAAG
993123 TT
131 TT
* * ** * ** *
993125 TAACTAGGGTGGTAACCATATGTCAAACAGAAAGGAAACAGATTTGACCAAGGTCATAACCATAT
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATAC
* * * * * * *
993190 GTTAAATAAAAATAAGAAGAATCTGACCAGAGTGGTAATCATACGTTAGGCTAAAATGAGAAAAG
66 GTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAAAAG
993255 TT
131 TT
* * * ** * * * * * *
993257 TAACCATGGTGGTAATTATATGCCAAATAGAATGGAAAAGGATTTGACAAGGGTGGTAACCATAC
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATAC
* * * * * *
993322 GTCAAATCAGAATAGGAAGAATCTGACTAGGGTGGTAACTATAAGTTAGACTAAAATGAGAAAAA
66 GTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAAAAG
993387 TT
131 TT
* *
993389 TGACTAGGGTGGTAACCATACGTCAAACAAAAATG-AAGGGAATTTGACCAGGGTGGTAACCATA
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGG-ATTTGACCAGGGTGGTAACCATA
** * * * * * **
993453 AATCAAATCAGACTAAGAAGAATTTGACCAGGGTGGTAACCATATGTCAGA-TAGAAAAGAG-GT
65 CGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACT-GAAATGAGAAA
993516 AGATT
129 AG-TT
* * * *
993521 TGACTAGGGTGGTAATCATACGTCAAATCAG-AAGGAAAAGAATCTGACCAGGGTGGTAACCATA
1 TGACTAGGGTGGTAACCATACGTCAAA-CAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATA
* * * * * * *
993585 CGCCAGA-CA-AA-AAGAAAGCAGATTTGACCAAGGTGGTAACCATACGTCAGACTGAAAGGAAA
65 CGTCAAATCAGAATAAG-AAG-A-ATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGA
993647 AAAGTT
127 AAAGTT
* * * * * * *
993653 TGACCAGGGTGGTAACTATACGTTAAATAGAAAGGAAAGGAATTTGACTAAGGTGGTAACCATAC
1 TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATAC
* * *
993718 GTCAAATTAGAATACGAAGAATCTGACCAAGGTGGTAACCATA
66 GTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATA
993761 AATTAGACAG
Statistics
Matches: 1159, Mismatches: 235, Indels: 71
0.79 0.16 0.05
Matches are distributed among these distances:
129 3 0.00
130 8 0.01
131 127 0.11
132 806 0.70
133 164 0.14
134 43 0.04
135 4 0.00
136 4 0.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (132 bp):
TGACTAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGGATTTGACCAGGGTGGTAACCATAC
GTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAAAAG
TT
Found at i:993796 original size:132 final size:131
Alignment explanation
Indices: 992059--994414 Score: 1216
Period size: 132 Copynumber: 17.9 Consensus size: 131
992049 AAATTGGAAT
* * * *
992059 GAAAAGAATCTGACCAGGGTGGTAACCATACGTCATACCGAAATGAGCAAA-G--TTTAACC-AG
1 GAAAAG-ATTTGACCAGGGTGGTAACCATACGTCAAACAGAAA-G-G-AAAGGAATTTGACCAAG
* * * * * * *
992120 CGT-GTAACCATACATCAAAT-AGAA-AGGAAAAGGAT-TTACCAGGGTGGTAACTATACGTCAA
62 -GTGGTAACCATACGTCAAATCAGAATA--AGAAGAATCTGACCAGGGTGGTAACCATACGTTAG
992181 ATCA-AA-A
124 A-CAGAAGA
* * * * * * * * *
992188 TAAGAAGAATCTGACCAGGGTGGTAACCATATGTCAGACCGAAATGAGAAA--AGTTTTACGAGG
1 GAA-AAG-ATTTGACCAGGGTGGTAACCATACGTCAAACAGAAA-G-GAAAGGAATTTGACCAAG
* * * * *
992251 GTGGTAACTAATATGTCAAATCAGAATAAGATGAATCTGACTAGGGTGGTAACCATATGTTAGAC
62 GTGGTAAC-CATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGA-
*
992316 CGGAATGA
125 CAGAA-GA
* * * * * *
992324 GAAAAG-TTTGACTAAGGTGGTAACCATACGTCATACAAAAAGAAACAGG-ATTTGACCAGGGTG
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAA-AGGAATTTGACCAAGGTG
* * * * * * * * * *
992387 GTAACCATATGTCAGA-CTAAAATGAGAA-ACGTTTTACGAGGGTGGTAACTAATACGTTAAATC
65 GTAACCATACGTCAAATC-AGAATAAGAAGA-ATCTGACCAGGGTGGTAAC-CATACGTTAGA-C
*
992450 AGAATA
126 AGAAGA
* * * * * * * * * *
992456 -AGAAGAATCTGACTAGGGTGGTAACCATATGTCAGACCGAAATGAGAAA--AGTTTTACGAGGG
1 GAAAAG-ATTTGACCAGGGTGGTAACCATACGTCAAACAGAAA-G-GAAAGGAATTTGACCAAGG
* * * * * *
992518 TGGTAACTAATACATCAAATCAGAATAAAAAGAATCTGACTAGGGTGGTAACCATATGTTAGACT
63 TGGTAAC-CATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACA
992583 GAAATGA
127 G-AA-GA
* * * * *
992590 GAAAAG-TTTGACTAAGGTGGTAACCATACGTCAAACAAAAAAGAAAGGGATTTGACC-AGAGTG
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGAATTTGACCAAG-GTG
* * * * * *
992653 ATAACCATATGTCAAATCAGGATAAGAAGAATCTAACCAGGGTGGTAACCATACATCAGATC-GA
65 GTAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGA-CAGA
992717 ACTGA
129 A--GA
* * * * * **
992722 GAAAAG-TTTGACTAGGGTGGTAACCATACGTCAAATAGAAAGGAAAGGGATTTTACCAGGGTAA
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGAATTTGACCAAGGTGG
* * * * * * *
992786 TAACCATACGTCAAAGCAGAATAAAAAGAATCTGACTAGGGTGGTAACCAAATGTCAGACTAAAA
66 TAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGAC-AGAA
992851 TGA
130 -GA
* * *
992854 GAAAAG-TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAAGAAAGGGATTTGACTAAGGTGG
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGAATTTGACCAAGGTGG
* * * * * * ** * *
992918 TAACCATATGTCAAATCAAAAAAAGAAGAATATGAGCAAGGTGGTAAAAATACGTCAGACTAAAA
66 TAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGAC-AGAA
992983 TGA
130 -GA
* * * * * * *
992986 GAAACG-TTTGACCAGAGTGGTAACCGTACGTCAAACAGAAAGGAAAGGGATTTGACTAGGGTCG
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGAATTTGACCAAGGTGG
* * * *
993050 TAACCATACGTCAAATCAGAATAAGAAGAATTTGACTAGGGTGGTAACCATATG-TAGACTGAAA
66 TAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACAG-AA
993114 TGA
130 -GA
* * * * *
993117 GAAAAG-TTTAACTAGGGTGGTAACCATATGTCAAACAGAAAGGAAA-CAGATTTGACCAAGGTC
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGA-ATTTGACCAAGGTG
* * * * * * * * *
993180 ATAACCATATGTTAAATAAAAATAAGAAGAATCTGACCAGAGTGGTAATCATACGTTAGGCTAAA
65 GTAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGAC-AGA
993245 ATGA
129 A-GA
* * ** * * * *
993249 GAAAAG-TTTAACCATGGTGGTAATTATATGCCAAATAGAATGGAAAAGG-ATTTGA-CAAGGGT
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGG-AAAGGAATTTGACCAA-GGT
* * * * *
993311 GGTAACCATACGTCAAATCAGAATAGGAAGAATCTGACTAGGGTGGTAACTATAAGTTAGACTAA
64 GGTAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGAC-AG
993376 AATGA
128 AA-GA
* * * * *
993381 GAAAA-ATTTGACTAGGGTGGTAACCATACGTCAAACAAAAATGAAGGGAATTTGACCAGGGTGG
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGAATTTGACCAAGGTGG
** * * * * * *
993445 TAACCATAAATCAAATCAGACTAAGAAGAATTTGACCAGGGTGGTAACCATATGTCAGATAGAAA
66 TAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACAGAAG
993510 A
131 A
** * * * * *
993511 GAGGTAGATTTGACTAGGGTGGTAATCATACGTCAAATCAG-AAGGAAAAGAATCTGACCAGGGT
1 GA-AAAGATTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAGGAAAGGAATTTGACCAAGGT
* * * * *
993575 GGTAACCATACGCCAGA-CA-AA-AAGAAAGCAGATTTGACCAAGGTGGTAACCATACGTCAGAC
64 GGTAACCATACGTCAAATCAGAATAAG-AAG-A-ATCTGACCAGGGTGGTAACCATACGTTAGAC
*
993637 TGAA-A
126 AGAAGA
* * * * *
993642 GGAAAAAAGTTTGACCAGGGTGGTAACTATACGTTAAATAGAAAGGAAAGGAATTTGACTAAGGT
1 -GAAAAGA-TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGAATTTGACCAAGGT
* * * **
993707 GGTAACCATACGTCAAATTAGAATACGAAGAATCTGACCAAGGTGGTAACCATAAATTAGACAGA
64 GGTAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACAGA
993772 AGA
129 AGA
** ** * ** ** * ** * * * *
993775 GAGGCAGATTCAACCATGGTGGTAACCATATATCAAATTGGAA-GAAAAAAATCTAACTAGGGTG
1 GA-AAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGAATTTGACCAAGGTG
** * * * * * * ** *
993839 GTAATTATACG-CTAAA-CAAGAAGAA-AATAGATTTGA-CTGAGGTAGTAACCATATGCCAAAT
65 GTAACCATACGTC-AAATC-AGAATAAGAAGA-ATCTGACCAG-GGTGGTAACCATACGTTAGA-
993900 CAGAATGA
125 CAGAA-GA
* * * * * * * * *
993908 -AAATAG-TTTGACTAGAGTGGTATCTATACGTTAGACA-AGAAGGAGATGG-ATTTGACTAGGG
1 GAAA-AGATTTGACCAGGGTGGTAACCATACGTCAAACAGA-AAGGA-AAGGAATTTGACCAAGG
* * *
993969 TGGTAGCCATACATCAAATCAGAATGAA-AAGAATCTGACTAGGGTGGTAACCATACGTTAGACA
63 TGGTAACCATACGTCAAATCAGAAT-AAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGAC-
994033 AGAATGA
126 AGAA-GA
** * * * * * * * * *
994040 G-GTAGATTTGGCCAAGGTGGTGACCATACGTCAAATTAG-AATGAAAAGAATCTGACTAGGGTG
1 GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAGGAAAGGAATTTGACCAAGGTG
* * * * * * * * *
994103 GTTACCATACG-CTAGA-CAAGAAGAAGGCA-AATTTGACTAGTGTGGTAACCATACGTCAAATC
65 GTAACCATACGTC-AAATC-AGAATAA-GAAGAATCTGACCAGGGTGGTAACCATACGTTAGA-C
*
994165 -GAAACA
126 AG-AAGA
* * * * * * * * * * *
994171 AAAAAAATCTGACC-GGGATGGCAACTATATGTCAGATATGAGAGAGATA-G-ATTTGACCAGGG
1 GAAAAGATTTGACCAGGG-TGGTAACCATACGTCAAACA-GAAAG-GAAAGGAATTTGACCAAGG
* * * * *
994233 TGGTAACCATATGTCAAAT-TGAAATGAA-AAGAATCTAACCAAGGTGGTAACCATACGCTAGAT
63 TGGTAACCATACGTCAAATCAG-AAT-AAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGA-
*
994296 AAGAA-A
125 CAGAAGA
* * * *
994302 -AAGGCAGATTTGACCAGGGCGGTAACCATACGTCAAATCAG-AA-CAAA--AA---GAACCAGG
1 GAA--AAGATTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAGGAAAGGAATTTG-ACCAAG
* * *
994359 GT-GTAACTATACGTCAAATTAGAATAA-AA-AATCTGGCCAGGGTGGTAACCATACGT
62 GTGGTAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGT
994415 CAAATCTGAA
Statistics
Matches: 1715, Mismatches: 407, Indels: 215
0.73 0.17 0.09
Matches are distributed among these distances:
124 23 0.01
125 4 0.00
126 19 0.01
127 9 0.01
129 11 0.01
130 63 0.04
131 237 0.14
132 1072 0.63
133 218 0.13
134 43 0.03
135 13 0.01
136 3 0.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (131 bp):
GAAAAGATTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAGGAATTTGACCAAGGTGG
TAACCATACGTCAAATCAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTTAGACAGAAG
A
Found at i:994389 original size:39 final size:39
Alignment explanation
Indices: 994314--994420 Score: 110
Period size: 38 Copynumber: 2.7 Consensus size: 39
994304 GGCAGATTTG
*
994314 ACCAGGGCGGTAACCATACGTCAAATCAGAACAAAAAGA
1 ACCAGGGCGGTAACCATACGTCAAATCAGAAAAAAAAGA
* * *
994353 ACCAGGG-TGTAACTATACGTCAAATTAGAATAAAAAATCTG-
1 ACCAGGGCGGTAACCATACGTCAAATCAGAA-AAAAAA---GA
* *
994394 GCCAGGGTGGTAACCATACGTCAAATC
1 ACCAGGGCGGTAACCATACGTCAAATC
994421 TGAATGAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
38 20 0.36
39 12 0.22
41 6 0.11
42 17 0.31
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (39 bp):
ACCAGGGCGGTAACCATACGTCAAATCAGAAAAAAAAGA
Found at i:994843 original size:13 final size:13
Alignment explanation
Indices: 994825--994850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
994815 TACACCAAGT
994825 ATGTATCGATACA
1 ATGTATCGATACA
994838 ATGTATCGATACA
1 ATGTATCGATACA
994851 CAAAAACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:997099 original size:21 final size:21
Alignment explanation
Indices: 997066--997110 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
997056 TTGCAAGTTG
*
997066 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
997088 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
997108 AAA
1 AAA
997111 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:998941 original size:15 final size:15
Alignment explanation
Indices: 998923--998952 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
998913 TCAAATTGGG
998923 GAAGCTCAAAATGAA
1 GAAGCTCAAAATGAA
*
998938 GAAGCTCCAAATGAA
1 GAAGCTCAAAATGAA
998953 ATTGATGAAC
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:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (15 bp):
GAAGCTCAAAATGAA
Found at i:1001041 original size:13 final size:13
Alignment explanation
Indices: 1001023--1001048 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1001013 ACATTTTTCT
1001023 TTGTATCGATACA
1 TTGTATCGATACA
1001036 TTGTATCGATACA
1 TTGTATCGATACA
1001049 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1002739 original size:46 final size:46
Alignment explanation
Indices: 1002678--1002780 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
1002668 TTGCTTGACT
*
1002678 TTATTTGCATTGCACTTTGACTTTTATTGAATATTTTGAATGTTATG
1 TTATTTCCA-TGCACTTTGACTTTTATTGAATATTTTGAATGTTATG
1002725 TTATTTCCATGCACTTTGACTTTTATTGAATATTTTGAATGTTATG
1 TTATTTCCATGCACTTTGACTTTTATTGAATATTTTGAATGTTATG
1002771 TTATTTCCAT
1 TTATTTCCAT
1002781 TATGATCTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 47 0.85
47 8 0.15
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.53
Consensus pattern (46 bp):
TTATTTCCATGCACTTTGACTTTTATTGAATATTTTGAATGTTATG
Found at i:1003642 original size:20 final size:18
Alignment explanation
Indices: 1003592--1003648 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
1003582 TGGCAGTAGC
1003592 CAAACTTGTATCGATACA
1 CAAACTTGTATCGATACA
* *
1003610 CCAAGTATGTATCGATACA
1 CAAACT-TGTATCGATACA
1003629 CAAAAACTTGTATCGATACA
1 C--AAACTTGTATCGATACA
1003649 TTGGCTTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 12 0.38
21 3 0.09
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.26
Consensus pattern (18 bp):
CAAACTTGTATCGATACA
Found at i:1004533 original size:88 final size:87
Alignment explanation
Indices: 1004414--1004748 Score: 252
Period size: 88 Copynumber: 3.8 Consensus size: 87
1004404 AGGAATGAGG
* *
1004414 CAGATTTGACCAGGGTGGTAAACATACGTCAAATCAGAATGAAAAGAATTTAACCACAGTGGTAA
1 CAGATTTGACCAGGGTGGT-AACATACGTCAAATCAGAACGAAAAGAATCTAACCACAGTGGTAA
*
1004479 CCATATGC-CTGACA-AGGAGAAAA
65 CCATATGCTC-GACAGAAGAG-AAA
* * * * *
1004502 CAGATTTGACTAGGGTGGTAACGATACGTCAAAT-TGAAACGAAAAGAATCTGACTAGC-GTGAT
1 CAGATTTGACCAGGGTGGTAAC-ATACGTCAAATCAG-AACGAAAAGAATCTAACCA-CAGTGGT
* * **
1004565 AACCATACGTTCGACAGAAGAGAGG
63 AACCATATGCTCGACAGAAGAGAAA
* *
1004590 CAGATATGACCAGGGTGGTAACCATATGTCAAATCA-AAGCGAAAAGAATCTAACCA-AGGTGGT
1 CAGATTTGACCAGGGTGGTAA-CATACGTCAAATCAGAA-CGAAAAGAATCTAACCACA-GTGGT
* * * **
1004653 AACCATATGTTAGACAAAAGAGAGG
63 AACCATATGCTCGACAGAAGAGAAA
* * ** * * * * * ** *
1004678 CA-AATTGACCAAGGTTATAACAATACATCAAATCATAATGAAAATAATCTAACTAGGGTGGTTA
1 CAGATTTGACCAGGGTGGTAAC-ATACGTCAAATCAGAACGAAAAGAATCTAACCACAGTGGTAA
1004742 CCATATG
65 CCATATG
1004749 TCAGACAATA
Statistics
Matches: 200, Mismatches: 34, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
86 1 0.00
87 57 0.28
88 135 0.68
89 7 0.04
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (87 bp):
CAGATTTGACCAGGGTGGTAACATACGTCAAATCAGAACGAAAAGAATCTAACCACAGTGGTAAC
CATATGCTCGACAGAAGAGAAA
Found at i:1004888 original size:47 final size:48
Alignment explanation
Indices: 1004780--1004895 Score: 135
Period size: 47 Copynumber: 2.4 Consensus size: 48
1004770 TTGACTAGGC
* * * * * * *
1004780 CCTAACACCAATACAGTGAAATGAGGGATGAAAAGAGTTTGGCCAGGT
1 CCTAACACCAATACAGTCAAATAAAGGATGAAAAAAATTTGACCAAGT
* * *
1004828 CTTAACGCTAATACAGTCAAATAAAGG-TGAAAAAAATTTGACCAAGT
1 CCTAACACCAATACAGTCAAATAAAGGATGAAAAAAATTTGACCAAGT
1004875 CCTAACACCAATACAGTCAAA
1 CCTAACACCAATACAGTCAAA
1004896 CGAGGTAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
47 34 0.62
48 21 0.38
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (48 bp):
CCTAACACCAATACAGTCAAATAAAGGATGAAAAAAATTTGACCAAGT
Found at i:1005965 original size:20 final size:20
Alignment explanation
Indices: 1005942--1006010 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
1005932 TAAAGTGGCT
*
1005942 AATGCATATTAAATGATGCA
1 AATGCATGTTAAATGATGCA
**
1005962 AATGCCAATGTTATCTGAATGCA
1 AATG-C-ATGTTAAATG-ATGCA
* *
1005985 AATGCATGTAAAATGATACA
1 AATGCATGTTAAATGATGCA
1006005 AATGCA
1 AATGCA
1006011 AGCATCAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
20 14 0.36
21 8 0.21
22 8 0.21
23 9 0.23
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGCATGTTAAATGATGCA
Found at i:1007190 original size:22 final size:22
Alignment explanation
Indices: 1007165--1007206 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1007155 TCTATATTTC
*
1007165 ATTCTTCTTTCTTTTTTTTTTA
1 ATTCTTCTTTCTTTCTTTTTTA
* *
1007187 ATTCTTTTTTGTTTCTTTTT
1 ATTCTTCTTTCTTTCTTTTT
1007207 CCCTTTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (22 bp):
ATTCTTCTTTCTTTCTTTTTTA
Found at i:1012006 original size:50 final size:50
Alignment explanation
Indices: 1011938--1012072 Score: 216
Period size: 50 Copynumber: 2.7 Consensus size: 50
1011928 AAAAATGCTT
1011938 GAATGTATCGATACAATGAAGAATGTATCGATACATCTAGGTAAAAACCA
1 GAATGTATCGATACAATGAAGAATGTATCGATACATCTAGGTAAAAACCA
* * * *
1011988 GAATGTATTGATATAATGAATAATGTATCGATACATCTAGGTAAAACCCA
1 GAATGTATCGATACAATGAAGAATGTATCGATACATCTAGGTAAAAACCA
* *
1012038 GAATGTATCCATACAATGAAGAATGTATCTATACA
1 GAATGTATCGATACAATGAAGAATGTATCGATACA
1012073 AATTGTGAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAGAATGTATCGATACATCTAGGTAAAAACCA
Found at i:1012444 original size:8 final size:8
Alignment explanation
Indices: 1012414--1012443 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1012404 ACGACATTTG
1012414 ATTTTTCA
1 ATTTTTCA
1012422 ATTTTTCA
1 ATTTTTCA
*
1012430 ATTTTTTA
1 ATTTTTCA
1012438 ATTTTT
1 ATTTTT
1012444 TTTGGTGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTTTCA
Found at i:1012797 original size:42 final size:42
Alignment explanation
Indices: 1012742--1013213 Score: 214
Period size: 42 Copynumber: 11.2 Consensus size: 42
1012732 CTTCTCCTTG
* * * * *
1012742 AGGACAAATGGAAAAAGAGTATGTCTTACTCTTCGAGGACAA
1 AGGAAAAAAGGAAAAAGAGTGTGTCTTGCTCTTTGAGGACAA
* * *
1012784 AGGAAAAAAGG-AAATGAAGTGTGTCTTGCTCTTTGAAGATAA
1 AGGAAAAAAGGAAAAAG-AGTGTGTCTTGCTCTTTGAGGACAA
* * *
1012826 AGGAGAAAAGGAAATAA-AGTGCGTCTTGCTCTTTGGGGACAA
1 AGGAAAAAAGGAAA-AAGAGTGTGTCTTGCTCTTTGAGGACAA
* * * *
1012868 AGGGAAAATAAGGAAATGAAATAG-GT-TC-TACTCCTTGAGGATAA
1 A-GGAAAA-AAGG-AA--AAAGAGTGTGTCTTGCTCTTTGAGGACAA
* ** * * *
1012912 AGGAAAAAAAAAAGAAAAAGGAAAGTGTCCTGTTCCTTGAGGACAA
1 AGG---AAAAAAGGAAAAA-GAGTGTGTCTTGCTCTTTGAGGACAA
* * *
1012958 ATGG----AA--AAAAAGTA-CGT-TC-TGCTTTTTGAAGACAA
1 A-GGAAAAAAGGAAAAAG-AGTGTGTCTTGCTCTTTGAGGACAA
* * * *
1012993 AGGAAAAAA-GAAAATAAAGTGTG-CCTGCTCTCTAAGGACAA
1 AGGAAAAAAGGAAAA-AGAGTGTGTCTTGCTCTTTGAGGACAA
* * * * *
1013034 AGGAGAAAAGGAAATAAG-CTATGTCCTACTCTTTGAGGACAA
1 AGGAAAAAAGGAAA-AAGAGTGTGTCTTGCTCTTTGAGGACAA
*
1013076 AGGGAAAATAAGGAAATGAA-A-TGTGTCTTGCTCTTTGAGGATAA
1 A-GGAAAA-AAGGAAA--AAGAGTGTGTCTTGCTCTTTGAGGACAA
* * * *
1013120 AGGAAAAAA--AAAATGAAATATGTCCTGCTCTTTGAGGACAA
1 AGGAAAAAAGGAAAAAG-AGTGTGTCTTGCTCTTTGAGGACAA
** *
1013161 AGGAAAAAAAAGGAAATAA-AGTGCATCCTGCTCTTTGAGGACAA
1 AGG--AAAAAAGGAAA-AAGAGTGTGTCTTGCTCTTTGAGGACAA
1013205 AGGAAAAAA
1 AGGAAAAAA
1013214 AGAGAAGGCG
Statistics
Matches: 329, Mismatches: 59, Indels: 84
0.70 0.12 0.18
Matches are distributed among these distances:
34 2 0.01
35 13 0.04
36 2 0.01
37 3 0.01
38 9 0.03
39 5 0.02
40 10 0.03
41 50 0.15
42 93 0.28
43 28 0.09
44 73 0.22
45 14 0.04
46 22 0.07
47 5 0.02
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.21
Consensus pattern (42 bp):
AGGAAAAAAGGAAAAAGAGTGTGTCTTGCTCTTTGAGGACAA
Found at i:1013000 original size:209 final size:207
Alignment explanation
Indices: 1012626--1013137 Score: 614
Period size: 208 Copynumber: 2.5 Consensus size: 207
1012616 CTTTGAGGAT
* * * **
1012626 AAAGGACAATGAG-TACATCTTGCTCTTCGAGGACAAA-GG-AAA-AAGGAGAACAAAATGGGTT
1 AAAGGA-AATAAGCTACGTCTTGCTCTTTGAGGACAAAGGGAAAATAAGGA-AATGAAAT-GGTT
*
1012687 CTGCAT-CTTGAGGACAAAGG-AAAAAAAAAGAAAAAGGAAAGTGTCCTTCTCCTTGAGGACAAA
63 CTGC-TCCTTGAGGATAAAGGAAAAAAAAAAGAAAAAGGAAAGTGTCCTTCTCCTTGAGGACAAA
* * * * * *
1012750 TGGAAAAAGAGTATGTCTTACTCTTCGAGGACAAAGGAAAAAAGGAAATGAAGTGTGTCTTGCTC
127 TGGAAAAAAAGTACGTCTTACTCTTCGAAGACAAAGGAAAAAAGAAAATAAAGTGTG-CCTGCTC
* *
1012815 TTTGAA-GATAAAGGAGA
191 TCT-AAGGACAAAGGAGA
* *
1012832 AAAGGAAATAAAG-TGCGTCTTGCTCTTTGGGGACAAAGGGAAAATAAGGAAATGAAATAGGTTC
1 AAAGGAAAT-AAGCTACGTCTTGCTCTTTGAGGACAAAGGGAAAATAAGGAAATGAAAT-GGTTC
*
1012896 TACTCCTTGAGGATAAAGGAAAAAAAAAAGAAAAAGGAAAGTGTCCTGT-TCCTTGAGGACAAAT
64 TGCTCCTTGAGGATAAAGGAAAAAAAAAAGAAAAAGGAAAGTGTCCT-TCTCCTTGAGGACAAAT
* * *
1012960 GGAAAAAAAGTACGT-TCTGCTTTTTGAAGACAAAGGAAAAAAGAAAATAAAGTGTGCCTGCTCT
128 GGAAAAAAAGTACGTCT-TACTCTTCGAAGACAAAGGAAAAAAGAAAATAAAGTGTGCCTGCTCT
1013024 CTAAGGACAAAGGAGA
192 CTAAGGACAAAGGAGA
* * *
1013040 AAAGGAAATAAGCTATGTCCTACTCTTTGAGGACAAAGGGAAAATAAGGAAATGAAAT-GTGTCT
1 AAAGGAAATAAGCTACGTCTTGCTCTTTGAGGACAAAGGGAAAATAAGGAAATGAAATGGT-TC-
*
1013104 TGCTCTTTGAGGATAAAGGAAAAAAAAAATGAAA
64 TGCTCCTTGAGGATAAAGGAAAAAAAAAA-GAAA
1013138 TATGTCCTGC
Statistics
Matches: 265, Mismatches: 28, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
205 3 0.01
206 30 0.11
207 10 0.04
208 124 0.47
209 97 0.37
210 1 0.00
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (207 bp):
AAAGGAAATAAGCTACGTCTTGCTCTTTGAGGACAAAGGGAAAATAAGGAAATGAAATGGTTCTG
CTCCTTGAGGATAAAGGAAAAAAAAAAGAAAAAGGAAAGTGTCCTTCTCCTTGAGGACAAATGGA
AAAAAAGTACGTCTTACTCTTCGAAGACAAAGGAAAAAAGAAAATAAAGTGTGCCTGCTCTCTAA
GGACAAAGGAGA
Found at i:1013021 original size:41 final size:42
Alignment explanation
Indices: 1012976--1013246 Score: 254
Period size: 41 Copynumber: 6.5 Consensus size: 42
1012966 AAAGTACGTT
* * *
1012976 CTGCTTTTTGAAGACAAAGGAAAAAAGAAAATAAAGTGTG-C
1 CTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGTGTC
* * * *
1013017 CTGCTCTCTAAGGACAAAGGAGAAAAGGAAAT-AAGCTATGTC
1 CTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAG-TGTGTC
*
1013059 CTACTCTTTGAGGACAAAGGGAAAATAAGGAAATGAAA-TGTGTC
1 CTGCTCTTTGAGGACAAA-GGAAAA-AAGGAAAT-AAAGTGTGTC
* * * *
1013103 TTGCTCTTTGAGGATAAAGGAAAAAA-AAAATGAAA-TATGTC
1 CTGCTCTTTGAGGACAAAGGAAAAAAGGAAAT-AAAGTGTGTC
**
1013144 CTGCTCTTTGAGGACAAAGGAAAAAAAAGGAAATAAAGTGCATC
1 CTGCTCTTTGAGGACAAAGG--AAAAAAGGAAATAAAGTGTGTC
* * *
1013188 CTGCTCTTTGAGGACAAAGGAAAAAA--AGA-GAAG-GCGTC
1 CTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGTGTC
1013226 CTGCTCTTTGAGGACTAAAGG
1 CTGCTCTTTGAGGAC-AAAGG
1013247 GTGCCACCAA
Statistics
Matches: 193, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
38 19 0.10
39 8 0.04
40 5 0.03
41 60 0.31
42 24 0.12
43 20 0.10
44 55 0.28
46 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (42 bp):
CTGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGTGTC
Found at i:1013110 original size:44 final size:41
Alignment explanation
Indices: 1012770--1013246 Score: 316
Period size: 44 Copynumber: 11.4 Consensus size: 41
1012760 GTATGTCTTA
* * *
1012770 CTCTTCGAGGACAAAGGAAAAAAGGAAATGAAGTGTGTCTTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAAT-AAATGTGTCCTG
* * * * *
1012812 CTCTTTGAAGATAAAGGAGAAAAGGAAATAAAGTGCGTCTTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATAAA-TGTGTCCTG
* * *
1012854 CTCTTTGGGGACAAAGGGAAAATAAGGAAATGAAATAG-GTTCTA
1 CTCTTTGAGGACAAA-GGAAAA-AAGGAAAT-AAAT-GTGTCCTG
* * * * *
1012898 CTCCTTGAGGATAAAGGAAAAAAAAAAGAAAAAGGAAAGTGTCCTG
1 CTCTTTGAGGACAAAGG---AAAAAAGGAAATA--AATGTGTCCTG
* * * *
1012944 TTCCTTGAGGACAAATGG-AAAAA--AAGT--ACGT-T-CTG
1 CTCTTTGAGGACAAA-GGAAAAAAGGAAATAAATGTGTCCTG
* * *
1012979 CTTTTTGAAGACAAAGGAAAAAAGAAAATAAA-GTGTGCCTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATAAATGTGT-CCTG
* * * * * *
1013020 CTCTCTAAGGACAAAGGAGAAAAGGAAATAAGCTATGTCCTA
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATAA-ATGTGTCCTG
*
1013062 CTCTTTGAGGACAAAGGGAAAATAAGGAAATGAAATGTGTCTTG
1 CTCTTTGAGGACAAA-GGAAAA-AAGGAAAT-AAATGTGTCCTG
* * *
1013106 CTCTTTGAGGATAAAGGAAAAAA-AAAATGAAATATGTCCTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAAT-AAATGTGTCCTG
1013147 CTCTTTGAGGACAAAGGAAAAAAAAGGAAATAAA-GTGCATCCTG
1 CTCTTTGAGGACAAAGG--AAAAAAGGAAATAAATGTG--TCCTG
* * * *
1013191 CTCTTTGAGGACAAAGGAAAAAA--AGA-GAAGGCGTCCTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATAAATGTGTCCTG
1013229 CTCTTTGAGGACTAAAGG
1 CTCTTTGAGGAC-AAAGG
1013247 GTGCCACCAA
Statistics
Matches: 346, Mismatches: 57, Indels: 67
0.74 0.12 0.14
Matches are distributed among these distances:
34 2 0.01
35 19 0.05
36 1 0.00
37 6 0.02
38 19 0.05
39 9 0.03
40 4 0.01
41 63 0.18
42 71 0.21
43 35 0.10
44 79 0.23
45 13 0.04
46 23 0.07
47 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (41 bp):
CTCTTTGAGGACAAAGGAAAAAAGGAAATAAATGTGTCCTG
Found at i:1013151 original size:85 final size:82
Alignment explanation
Indices: 1012770--1013247 Score: 316
Period size: 85 Copynumber: 5.7 Consensus size: 82
1012760 GTATGTCTTA
* * * * * * * *
1012770 CTCTTCGAGGACAAAGGAAAAAAGGAAATGAAGTGTGTCTTGCTCTTTGAAGATAAA-GGAGAAA
1 CTCTTTGAGGACAAAGGAAAAAA-AAAATGAAATATGTCCTGCTCTTTGAGGACAAAGGGAAAAA
*
1012834 AGGAAATAAAGTGCGTCTTG
65 AGGAAATAAAGT--GTCCTG
* * * * * * * *
1012854 CTCTTTGGGGACAAAGGGAAAATAAGGAAATGAAATAGGTTCTACTCCTTGAGGATAAAGGAAAA
1 CTCTTTGAGGACAAA-GGAAAA-AA-AAAATGAAATATGTCCTGCTCTTTGAGGACAAAGG---G
* *
1012919 AAAAAAGAAAAAGGAAAGTGTCCTG
60 AAAAAAG-GAAA-TAAAGTGTCCTG
* * * * * *
1012944 TTCCTTGAGGACAAATGG---AAAAAAA-G---TACGTTCTGCTTTTTGAAGACAAA-GGAAAAA
1 CTCTTTGAGGACAAA-GGAAAAAAAAAATGAAATATGTCCTGCTCTTTGAGGACAAAGGGAAAAA
*
1013001 AGAAAATAAAGTGTGCCTG
65 AGGAAATAAAGTGT-CCTG
* * ** * *
1013020 CTCTCTAAGGACAAAGGAGAAAAGGAAAT-AAGCTATGTCCTACTCTTTGAGGACAAAGGGAAAA
1 CTCTTTGAGGACAAAGGA-AAAAAAAAATGAA-ATATGTCCTGCTCTTTGAGGACAAAGGGAAAA
*
1013084 TAAGGAAATGAAATGTGTCTTG
64 -AAGGAAAT-AAA-GTGTCCTG
* *
1013106 CTCTTTGAGGATAAAGGAAAAAAAAAATGAAATATGTCCTGCTCTTTGAGGACAAAGGAAAAAAA
1 CTCTTTGAGGACAAAGGAAAAAAAAAATGAAATATGTCCTGCTCTTTGAGGACAAAGG-GAAAAA
1013171 AGGAAATAAAGTGCATCCTG
65 AGGAAATAAAGTG--TCCTG
* ***
1013191 CTCTTTGAGGACAAAGG-AAAAAAAGA-G-AAGGCGTCCTGCTCTTTGAGGACTAAAGGG
1 CTCTTTGAGGACAAAGGAAAAAAAAAATGAAATATGTCCTGCTCTTTGAGGAC-AAAGGG
1013248 TGCCACCAAC
Statistics
Matches: 311, Mismatches: 56, Indels: 56
0.74 0.13 0.13
Matches are distributed among these distances:
75 9 0.03
76 19 0.06
77 7 0.02
79 5 0.02
80 1 0.00
81 18 0.06
82 20 0.06
83 28 0.09
84 31 0.10
85 77 0.25
86 57 0.18
87 6 0.02
90 25 0.08
91 3 0.01
92 5 0.02
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (82 bp):
CTCTTTGAGGACAAAGGAAAAAAAAAATGAAATATGTCCTGCTCTTTGAGGACAAAGGGAAAAAA
GGAAATAAAGTGTCCTG
Found at i:1013300 original size:62 final size:62
Alignment explanation
Indices: 1013218--1014393 Score: 1377
Period size: 62 Copynumber: 18.9 Consensus size: 62
1013208 AAAAAAAGAG
* *
1013218 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * *
1013280 AAGGTGTCTTACTCTTTGAGGA-TAAAAGGATGCCACCAACTCATGTGGGCTTTGATAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
*
1013342 AAGGTGTCCTGCTCTTTGAGGAGTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * *
1013404 AA-TTCGTCCTGCTCTTTGAGGACAAAAGGATGCCACCAACTCGTGTGGGCTTTGAAAAGGAA
1 AAGGT-GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* ** * * * *
1013466 ATGGTGTCCTATTCTTTAAGGACTAAAGGGTGCCAACAACTCGTGTGAGCTTTCAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * *
1013528 AAAGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAAGTTGTGTGGGCTTTTAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * ** * *
1013590 CAGGCGTCCTGCTCTTTGAGGAAAAAAGGATGCCACCAACTCGTGTGGGCGTTGAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
** * * * * *
1013652 AAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATATAGGCTTTAAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
** *
1013714 AAGGCATCCTGCTCTTTGAGGACTAAACGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAA-GGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * * * * *
1013777 AATGCGTCTTGCTCTTTGAGGACTAAAAGGTAGCTACCAACTTGTGTGGGCTTTAAAAAGGAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGT-GCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* *
1013840 AAGGTGTCCTGCTCTTTGAGGACTAAAAGGGTCCCACCAACGCGTGTGGGCTTTGAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * ** *
1013903 AAGGTGTCATGTTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTCCAAAAGGAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * ** *
1013965 AAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTAGTGTGGGCTTCCAAAAGGAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* *
1014027 AAGGCT-TCCTACTCTTTGAGGACTAAAGGGTACCACCAACTCGTGTGGGCTTTGAAAAGAAA
1 AAGG-TGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * *
1014089 AAAGTGTCCTGCTCTTTGAGGACTAAAATGGTGCCATCAACTCGTGTGGGCTTTGAAAAGAAAA
1 AAGGTGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAG-AAA
** * * * * ** * * *
1014153 AAGGCATCCTGCTCTTTGAAGACTAAAAGGTACCATCAACTTATGTGGACTTTAAAAAGGAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
** * * * ** * * * *
1014215 AAGGCATCCTGCTCTTTGAAGACTAAAAGGTACCACCAGTTCATGTGGACTTTAAAAAGGAA
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* *
1014277 AAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAA
1 AAGGTGTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
* * * * * *
1014340 AAGGTGTCTTGTTCTTTGAGGACTAAAAGGTGCCTACTAAATCGTGTGGACTTT
1 AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCC-ACCAACTCGTGTGGGCTTT
1014394 CCAAAGGAAA
Statistics
Matches: 961, Mismatches: 140, Indels: 25
0.85 0.12 0.02
Matches are distributed among these distances:
61 3 0.00
62 650 0.68
63 279 0.29
64 29 0.03
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (62 bp):
AAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAA
Found at i:1014450 original size:170 final size:170
Alignment explanation
Indices: 1014245--1014585 Score: 551
Period size: 170 Copynumber: 2.0 Consensus size: 170
1014235 GACTAAAAGG
* *
1014245 TACCACCAGTTCATGTGGACTTTAAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTG
1 TACCACCAGTTCATGTGGACTTTAAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGGTG
* * *
1014310 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGG-TGTCTTGTTCTTTGAGGACTAAAAGGTGCC
66 CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCAGTCCTGTTATTTGAGGACTAAAAGGTGCC
* *
1014374 TACTAAATCGTGTGGACTTTCCAAAGGAAAATGCGTCCTGC
131 -ACCAAATCGTGTGGACTTTCAAAAGGAAAATGCGTCCTGC
*
1014415 TACCACCAGCTT-ATGTGGATTTTAAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGGT
1 TACCACCAG-TTCATGTGGACTTTAAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGGT
* *
1014479 GCCACGAATTCATGTGGGCTTTGAAAAGAAAAAGGCAGTCCTGTTATTTGAGGACTAAAAGGTGC
65 GCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCAGTCCTGTTATTTGAGGACTAAAAGGTGC
*
1014544 CACCAACTCGTGTGGACTTTCAAAAGGAAAATGCGTCCTGC
130 CACCAAATCGTGTGGACTTTCAAAAGGAAAATGCGTCCTGC
1014585 T
1 T
1014586 TTTTGAGGAC
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
170 129 0.82
171 29 0.18
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (170 bp):
TACCACCAGTTCATGTGGACTTTAAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGGTG
CCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCAGTCCTGTTATTTGAGGACTAAAAGGTGCC
ACCAAATCGTGTGGACTTTCAAAAGGAAAATGCGTCCTGC
Found at i:1014605 original size:62 final size:62
Alignment explanation
Indices: 1014439--1015042 Score: 672
Period size: 62 Copynumber: 9.7 Consensus size: 62
1014429 GTGGATTTTA
* * * *
1014439 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGGTGCCACGAATTCATGTGGGCTTTG
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTG
* * * *
1014502 AAAAGAAAAAGGCAGTCCTGTTATTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTC
1 AAAAGAAAAAGGCA-TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG
* * * * * *
1014565 AAAAGGAAAATGCGTCCTGCTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTC
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG
* *** * *
1014627 AAAAGGAAAAGATGTCCTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG
* * * * * * * *
1014689 TAAAGAAAAAAGCATCCTTCTCTTTAAGTA-TAAAAGGATGCCACCAATTTGTATGGGCTTTG
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGG-TGCCACCAACTCGTGTGGGCTTTG
* * * * *
1014751 AAAAGACAAAGGCGTCTTGCTCTTTGAGGA-TAAAAGGATGCCACCAACTCATATGGGCTTTG
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGG-TGCCACCAACTCGTGTGGGCTTTG
** * * * *
1014813 AAAAGAAAAAGGTGTCCAGCTCTTTGAAGACTAAAAGGTGCCACCAACCCGTAGTGGGCTTTT
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGT-GTGGGCTTTG
* * * ** *
1014876 AAAAGAAAAAGGCATCCTACTCTTTGAAGACTAAAAGGGTGCCATCAACTTATGTGGGCTTTA
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAA-GGTGCCACCAACTCGTGTGGGCTTTG
* * *
1014939 AAAAGAAAAAGGCATCATACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTA
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG
* * *
1015001 AAAAGGAAAAGGTATCCTACTCTTTGAGGACTTAAAAGGTGC
1 AAAAGAAAAAGGCATCCTGCTCTTTGAGGAC-TAAAAGGTGC
1015043 TACTGTCGTA
Statistics
Matches: 465, Mismatches: 70, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
61 7 0.02
62 281 0.60
63 149 0.32
64 28 0.06
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (62 bp):
AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTG
Found at i:1017267 original size:20 final size:21
Alignment explanation
Indices: 1017235--1017281 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1017225 GGAGGTGCTG
1017235 AACATGCTGT-AAATGCATGA
1 AACATGCTGTAAAATGCATGA
1017255 AACATAGCT-TAAAATGCATGA
1 AACAT-GCTGTAAAATGCATGA
*
1017276 ATCATG
1 AACATG
1017282 GGCTGTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (21 bp):
AACATGCTGTAAAATGCATGA
Found at i:1018199 original size:52 final size:52
Alignment explanation
Indices: 1018121--1018249 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1018111 CGAAATATGA
* *
1018121 AAATTTGCCTACATGTATCGATACATTCCATAGTGTATTGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTCCATAGTGTATCGATACATCTAGGC
* * *
1018173 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTCCATAGTGTATCGATACATCTAGGC
1018225 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1018250 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTCCATAGTGTATCGATACATCTAGGC
Found at i:1018260 original size:52 final size:52
Alignment explanation
Indices: 1018121--1018269 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 52
1018111 CGAAATATGA
* * *
1018121 AAATTTGCCTACATGTATCGATACATTCCATAGTGTATTGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTACATAGTGTATCGATACATCTAGGC
* * *
1018173 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTACATAGTGTATCGATACATCTAGGC
* *
1018225 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTACAT-AGTGTATCGATACA
1018270 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTACATAGTGTATCGATACATCTAGGC
Found at i:1018276 original size:13 final size:13
Alignment explanation
Indices: 1018258--1018282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1018248 CAAAGATCAG
1018258 TGTATCGATACAA
1 TGTATCGATACAA
1018271 TGTATCGATACA
1 TGTATCGATACA
1018283 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1018349 original size:19 final size:18
Alignment explanation
Indices: 1018325--1018422 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
1018315 TAGCTTATAT
1018325 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1018344 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1018357 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1018376 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1018389 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1018409 TGTATCGATACAAA
1 TGTATCGATACAAA
1018423 TCATTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1018362 original size:13 final size:13
Alignment explanation
Indices: 1018344--1018400 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1018334 ACAAAACTTA
1018344 TGTATCGATACAT
1 TGTATCGATACAT
1018357 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1018375 ATGTATCGATACAT
1 -TGTATCGATACAT
1018389 TGTATCGATACA
1 TGTATCGATACA
1018401 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1018364 original size:32 final size:32
Alignment explanation
Indices: 1018323--1018420 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
1018313 AGTAGCTTAT
*
1018323 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
1018355 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
1018387 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
1018420 A
1 A
1018421 AATCATTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:1019377 original size:55 final size:52
Alignment explanation
Indices: 1019283--1019983 Score: 423
Period size: 49 Copynumber: 14.8 Consensus size: 52
1019273 GTGATAAAAA
* * * * * **
1019283 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAGG
* * *
1019337 ATGTCAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* *
1019390 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
1019433 TGCCAATGTGCTGATTCAAGGGCCAGCTACATTGGACTTAAAGA---AGAAGG
1 TGCCAATATGCTGATTCAA-GGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * * *
1019483 TGCCAATATGCTGATTCAAGGCTAGCAATATTGGAC-T-----T---AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
1019526 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-CG--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
1019575 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC-T-----T---AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
*
1019618 TGCCAATGTGCTGATTCAAGGCCAGCTACATT-AGACTTAAAGAT-G--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGA-ACTTAAAGATGGAAAAGG
* *
1019667 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* *** *
1019716 TGCCAATATGCTGATTCAAGGCCAACGGTATTGGAC-T-----T--AAAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
1019759 TGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAT-G--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
1019808 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
1019851 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* * *
1019900 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
* *
1019943 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAA
1019984 AATGTAATTT
Statistics
Matches: 532, Mismatches: 63, Indels: 110
0.75 0.09 0.16
Matches are distributed among these distances:
43 200 0.38
44 23 0.04
45 1 0.00
46 1 0.00
48 7 0.01
49 204 0.38
50 22 0.04
51 1 0.00
52 31 0.06
53 6 0.01
54 1 0.00
55 35 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
Found at i:1019546 original size:21 final size:21
Alignment explanation
Indices: 1019479--1019546 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
1019469 CTTAAAGAAG
1019479 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
*
1019500 AAGGCTAG-CAATAT--TGGACTTA
1 AAGG-T-GCCAATATGCT-GA-TTC
*
1019522 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATATGCTGATTC
1019543 AAGG
1 AAGG
1019547 CCAGCTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 14
0.69 0.06 0.26
Matches are distributed among these distances:
20 2 0.05
21 18 0.49
22 15 0.41
23 2 0.05
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:1019602 original size:92 final size:91
Alignment explanation
Indices: 1019332--1019983 Score: 731
Period size: 92 Copynumber: 7.0 Consensus size: 91
1019322 AAGATGAGAA
* * *
1019332 AAAGGATGTCAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--G--AAGGTGCCAAT
*
1019397 ATGCTGATTCAAGGCCAGCTATATTGGACTT
61 ATGCTGATTCAAGGCCAGCTACATTGGACTT
1019428 AAAGGTGCCAATGTGCTGATTCAAGGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAA-GGCCAGCTACATTGGACTTAAAG-AGAAGGTGCCAATATG
* * *
1019493 CTGATTCAAGGCTAGCAATATTGGACTT
64 CTGATTCAAGGCCAGCTACATTGGACTT
1019521 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-GAAGGTGCCAATATGC
* *
1019586 TGATTCAAGGCCAGCAATATTGGACTT
65 TGATTCAAGGCCAGCTACATTGGACTT
*
1019613 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-GAAGGTGCCAATATGC
1019678 TGATTCAAGGCCAGCTACATTGGACTT
65 TGATTCAAGGCCAGCTACATTGGACTT
* * ***
1019705 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGGTATTGGACTT--A-A-AA-GTGCCAA
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAA
* *
1019765 TGTGCTGATTCAAGGTCAGCTACATTGGACTT
60 TATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
1019797 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAA
*
1019857 TGTGCTGATTCAAGGCCAGCTACATTGGACTT
60 TATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
1019889 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAA
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAA
*
1019949 TGTGCTGATTCAAGGCCAGCTACATTGGACTT
60 TATGCTGATTCAAGGCCAGCTACATTGGACTT
1019981 AAA
1 AAA
1019984 AATGTAATTT
Statistics
Matches: 513, Mismatches: 23, Indels: 46
0.88 0.04 0.08
Matches are distributed among these distances:
87 1 0.00
88 1 0.00
89 2 0.00
90 1 0.00
91 7 0.01
92 345 0.67
93 69 0.13
94 1 0.00
95 23 0.04
96 28 0.05
97 3 0.01
98 32 0.06
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (91 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAATATGCT
GATTCAAGGCCAGCTACATTGGACTT
Found at i:1019732 original size:233 final size:231
Alignment explanation
Indices: 1019385--1019984 Score: 923
Period size: 233 Copynumber: 2.6 Consensus size: 231
1019375 TAAAGATGGA
* * *
1019385 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1019444 TGATTCAAGGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCTAGC
66 TGATTCAA-GGCCAGCTACATTGGACTTAAAG-AGAA-GTGCCAATATGCTGATTCAAGGCCAGC
*
1019509 AATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACGAAG
128 AATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACGAAG
1019574 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
193 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
*
1019613 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1019678 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACG
66 TGATTCAAGGCCAGCTACATTGGACTTAAAGA-GAAG-TGCCAATATGCTGATTCAAGGCCAGCA
* * *
1019743 GTATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGAAGG
129 ATATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACGAAGG
*
1019808 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
194 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
*
1019846 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * * *
1019911 TGATTCAAGGCCAGCGATATTGGACTT-AA-AG--GTGCCAATGTGCTGATTCAAGGCCAGCTAC
66 TGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGTGCCAATATGCTGATTCAAGGCCAGCAAT
1019972 ATTGGACTTAAAA
131 ATTGGACTTAAAA
1019985 ATGTAATTTT
Statistics
Matches: 343, Mismatches: 21, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
227 37 0.11
228 41 0.12
230 1 0.00
231 1 0.00
232 5 0.01
233 236 0.69
234 22 0.06
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (231 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGTGCCAATATGCTGATTCAAGGCCAGCAAT
ATTGGACTTAAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACGAAGGTG
CCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
Found at i:1019764 original size:184 final size:184
Alignment explanation
Indices: 1019384--1019983 Score: 812
Period size: 184 Copynumber: 3.3 Consensus size: 184
1019374 TTAAAGATGG
*
1019384 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATT
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATT
* * *
1019449 CAAGGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCTAGCAATAT
66 CAA-GGCCAGCTACATTGGACTTAAAG-AGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACAT
* * *
1019514 TGGACTT-AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
129 TGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
1019564 AAAGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGC
1 --A-A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGC
*
1019629 TGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
61 TGATTCAAGGCCAGCTACATTGGACTTAAAGA-GAAGGTGCCAATATGCTGATTCAAGGCCAGCT
* *
1019694 ACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGGTATTGGACTT
125 ACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
1019754 AAAA-GTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAATGTG
* * *
1019818 CTGATTCAAGGCCAGCGATATTGGACTT----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCT
60 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
1019878 ACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
125 ACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
1019938 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1019984 AATGTAATTT
Statistics
Matches: 379, Mismatches: 22, Indels: 38
0.86 0.05 0.09
Matches are distributed among these distances:
178 2 0.01
180 1 0.00
182 1 0.00
183 5 0.01
184 223 0.59
185 69 0.18
186 2 0.01
187 2 0.01
188 2 0.01
189 1 0.00
190 71 0.19
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (184 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGATT
CAAGGCCAGCTACATTGGACTTAAAGAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
GACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:1020275 original size:62 final size:62
Alignment explanation
Indices: 1020199--1020813 Score: 758
Period size: 62 Copynumber: 9.9 Consensus size: 62
1020189 GTCTACAGCT
* *
1020199 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCC
* *
1020261 ACCAACTCGTGTGGGCTTTCTAAAGGAAAAA-GCATCCTACTCTTTGAGGACTAAAAGGTGCC
1 ACCAACTCGTGTGGGCTTT-GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCC
* * * * * *
1020323 ACCAACTCGTGTAGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGAATAAAAAGTGCC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCC
* * *
1020385 ACCAACTCGTGTCGGCTTTGAAAA-AAAAA--CATCCTATTCTTTGAGGACTAAAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCC
* * * * * *
1020444 ACCAACTCGTGTGAGCTTTGAAAAGAAAATGTCATCCTGCTCTTTGAAGACTAAAATGTGCC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCC
* * * *
1020506 ACCAACTCATGTGAGCTGTGAAAAGAAAAAGGCATCTTACTCTTTGAGGACTAAAAAGGTGCC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACT-AAAAGGTGCC
* * * *
1020569 ACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGCTCTTTGAGGACT-AAAGAGTGCC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAG-GTGCC
* * * ** * *
1020631 ACCAACTCATGTGGGCTTTCAAAAGGAAAAGGTGTCCTACTTTTTGAGGACTAAAAAGTGCC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCC
* * * * *
1020693 ATCAACTTGTGTGAGCTTTGAAAAGAAAAAGGCCTTCCTACTCTTTGAGGAC-AAAATGGTACC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGG-CATCCTACTCTTTGAGGACTAAAA-GGTGCC
* *
1020756 -CTCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGG
1 AC-CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGG
1020814 CTAAAAGGGG
Statistics
Matches: 473, Mismatches: 68, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
59 45 0.10
60 4 0.01
61 18 0.04
62 288 0.61
63 118 0.25
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (62 bp):
ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAGGTGCC
Found at i:1020593 original size:125 final size:125
Alignment explanation
Indices: 1020199--1020811 Score: 778
Period size: 125 Copynumber: 4.9 Consensus size: 125
1020189 GTCTACAGCT
**
1020199 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAATGTGCCACC
* *
1020264 AACTCGTGTGGGCTTTCTAAAGGAAAAA-GCATCCTACTCTTTGAGGACT-AAAAGGTGCC
66 AACTCGTGTGGGCTTT-GAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGGTGCC
* * * * *
1020323 ACCAACTCGTGTAGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGAATAAAAAGTGCCACC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAATGTGCCACC
* * *
1020388 AACTCGTGTCGGCTTTGAAAA-AAAAA--CATCCTATTCTTTGAGGACT-AAAGGGTGCC
66 AACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGGTGCC
* * * *
1020444 ACCAACTCGTGTGAGCTTTGAAAAGAAAATGTCATCCTGCTCTTTGAAGACTAAAATGTGCCACC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAATGTGCCACC
* * * *
1020509 AACTCATGTGAGCTGTGAAAAGAAAAAGGCATCTTACTCTTTGAGGACTAAAAAGGTGCC
66 AACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGGTGCC
* * *
1020569 ACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGCTCTTTGAGGACTAAAGA-GTGCCAC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA-ATGTGCCAC
* * * ** *
1020633 CAACTCATGTGGGCTTTCAAAAGGAAAAGGTGTCCTACTTTTTGAGGACTAAAAA-GTGCC
65 CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGGTGCC
* * * * * *
1020693 ATCAACTTGTGTGAGCTTTGAAAAGAAAAAGGCCTTCCTACTCTTTGAGGAC-AAAATGGTACC-
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGG-CATCCTGCTCTTTGAGGACTAAAAT-GTGCCA
* *
1020756 CTCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAA
64 C-CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAA
1020812 GGCTAAAAGG
Statistics
Matches: 426, Mismatches: 54, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
121 101 0.24
122 10 0.02
123 4 0.01
124 131 0.31
125 179 0.42
126 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (125 bp):
ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAATGTGCCACC
AACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTACTCTTTGAGGACTAAAAAGGTGCC
Found at i:1020708 original size:187 final size:187
Alignment explanation
Indices: 1020199--1020810 Score: 844
Period size: 187 Copynumber: 3.3 Consensus size: 187
1020189 GTCTACAGCT
1020199 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACC
* * *
1020264 AACTCGTGTGGGCTTTCTAAAGGAAAAAGCATCCTACTCTTTGAGGACTAAAAGGTGCCACCAAC
66 AACTCGTGTGGGCTTTCAAAAGGAAAAAGTATCCTACTCTTTGAGGACTAAAAAGTGCCACCAAC
* * *
1020329 TCGTGT-AGGCTTTGAAAAGAAAAAGGCGTCTTGCTCTTTGAGGAATAAAAA-GTGCC
131 TCGTGTGA-GCTTTGAAAAGAAAAAGGCATCTTACTCTTTGAGGACTAAAAAGGTGCC
* **
1020385 ACCAACTCGTGTCGGCTTTGAAAA-AAAAA--CATCCTATTCTTTGAGGACTAAAGGGTGCCACC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACC
* * * * * *
1020447 AACTCGTGTGAGCTTTGAAAA-GAAAATGTCATCCTGCTCTTTGAAGACTAAAATGTGCCACCAA
66 AACTCGTGTGGGCTTTCAAAAGGAAAAAGT-ATCCTACTCTTTGAGGACTAAAAAGTGCCACCAA
* *
1020511 CTCATGTGAGCTGTGAAAAGAAAAAGGCATCTTACTCTTTGAGGACTAAAAAGGTGCC
130 CTCGTGTGAGCTTTGAAAAGAAAAAGGCATCTTACTCTTTGAGGACTAAAAAGGTGCC
* * * *
1020569 ACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCGTCATGCTCTTTGAGGACTAAAGAGTGCCACC
1 ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACC
* * * * *
1020634 AACTCATGTGGGCTTTCAAAAGGAAAAGGTGTCCTACTTTTTGAGGACTAAAAAGTGCCATCAAC
66 AACTCGTGTGGGCTTTCAAAAGGAAAAAGTATCCTACTCTTTGAGGACTAAAAAGTGCCACCAAC
* * * * *
1020699 TTGTGTGAGCTTTGAAAAGAAAAAGGCCTTCCTACTCTTTGAGGAC-AAAATGGTACC
131 TCGTGTGAGCTTTGAAAAGAAAAAGG-CATCTTACTCTTTGAGGACTAAAAAGGTGCC
*
1020756 -CTCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAA
1 AC-CAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAA
1020811 AGGCTAAAAG
Statistics
Matches: 375, Mismatches: 42, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
182 6 0.02
183 125 0.33
184 28 0.07
185 10 0.03
186 24 0.06
187 158 0.42
188 24 0.06
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (187 bp):
ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACC
AACTCGTGTGGGCTTTCAAAAGGAAAAAGTATCCTACTCTTTGAGGACTAAAAAGTGCCACCAAC
TCGTGTGAGCTTTGAAAAGAAAAAGGCATCTTACTCTTTGAGGACTAAAAAGGTGCC
Found at i:1027017 original size:79 final size:79
Alignment explanation
Indices: 1026903--1027336 Score: 439
Period size: 79 Copynumber: 5.5 Consensus size: 79
1026893 CGATGGTGGC
* * * * * *
1026903 AAATTGGTG-TTT-GTAAATAAAATCAGGGTTAGAGTATCCCCTCAAAAATAATGGGGTTGGGGT
1 AAATTGGTGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAGT
**
1026966 ATCCCTAATTGTGAA
65 ATCCCCGATTGTGAA
*
1026981 AAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATTCCC-TCAAAAATAACAGGGTTAGAGT
1 AAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTA-TCCCTTCAAAAATAACGGGGTTAGAGT
*
1027045 ATCCCCGATTGTGTA
65 ATCCCCGATTGTGAA
* * * * *
1027060 AAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATTACGAGGTTGGAGTA
1 AAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAGTA
*
1027125 TCCTCGA-TGATGAA
66 TCCCCGATTG-TGAA
* * * * * * *
1027139 AAATTAGTGTTTCAAAAATAAAATCAGGGTTGGAGTAT-CCTTGCGAAATTAACAGGGTTAGAGT
1 AAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCTT-CAAAAATAACGGGGTTAGAGT
* *
1027203 ATCCCCGATGGTGGA
65 ATCCCCGATTGTGAA
* * * * * *
1027218 AAATTAGTGTTTTAAAAATAAAATCGGGGTTGGGGTATCCCTTTAGAAATAACGGGGTTAGAGCA
1 AAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAGTA
** * *
1027283 TCAACGATGGTGGA
66 TCCCCGATTGTGAA
** *
1027297 AAATCAGTGTTTTAGAAATAAAA-CTGGAGTTGGAGTATCC
1 AAATTGGTGTTTTAGAAATAAAATC-GGGGTTGGAGTATCC
1027337 TCGAGATGAA
Statistics
Matches: 300, Mismatches: 47, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
78 20 0.07
79 270 0.90
80 10 0.03
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
AAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTAGAGTA
TCCCCGATTGTGAA
Found at i:1027205 original size:158 final size:155
Alignment explanation
Indices: 1026868--1027337 Score: 491
Period size: 158 Copynumber: 3.0 Consensus size: 155
1026858 ATCCCCTTTG
* * * * *
1026868 AAATAACGAGGGGTTGGAGGATGCCCGATGGTGGCAAATTG-GTGTTTGT--AAATAAAATCAGG
1 AAATAAC-A-GGGTTAGAGTATCCCCGATGGTGG-AAAATGAGTGTTT-TAAAAATAAAATCGGG
* * * * * *
1026930 GTTAGAGTATCCCCTCAAAAATAATGGGGTTGGGGTATCCCTAATTGTGAAAAATTGGTGTTTTA
62 GTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCC-GA-TGTGAAAAATTAGTGTTTTA
* *
1026995 GAAATAAAATCGGGGTTGGAGTATTCCCTCAA
125 GAAATAAAATCAGGGTTGGAGTA-TCCTTCAA
* * *
1027027 AAATAACAGGGTTAGAGTATCCCCGATTGTGTAAAATCGA-TGTTTTAGAAATAAAATCGGGGTT
1 AAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAAT-GAGTGTTTTAAAAATAAAATCGGGGTT
* * * *
1027091 GGAGTATCCCTTCAAAAATTACGAGGTTGGAGTATCCTCGATGATGAAAAATTAGTGTTTCAAAA
65 GGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCC-CGATG-TGAAAAATTAGTGTTTTAGAA
*
1027156 ATAAAATCAGGGTTGGAGTATCCTTGCGA
128 ATAAAATCAGGGTTGGAGTATCCTT-CAA
* *
1027185 AATTAACAGGGTTAGAGTATCCCCGATGGTGGAAAATTAGTGTTTTAAAAATAAAATCGGGGTTG
1 AAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATGAGTGTTTTAAAAATAAAATCGGGGTTG
* * * * * * * *
1027250 GGGTATCCCTTTAGAAATAACGGGGTTAGAGCATCAACGATGGTGGAAAATCAGTGTTTTAGAAA
66 GAGTATCCCTTCAAAAATAACGGGGTTGGAGTATC-CCGAT-GTGAAAAATTAGTGTTTTAGAAA
*
1027315 TAAAA-CTGGAGTTGGAGTATCCT
129 TAAAATCAGG-GTTGGAGTATCCT
1027338 CGAGATGAAA
Statistics
Matches: 262, Mismatches: 38, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
156 5 0.02
157 35 0.13
158 213 0.81
159 9 0.03
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (155 bp):
AAATAACAGGGTTAGAGTATCCCCGATGGTGGAAAATGAGTGTTTTAAAAATAAAATCGGGGTTG
GAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCGATGTGAAAAATTAGTGTTTTAGAAATA
AAATCAGGGTTGGAGTATCCTTCAA
Found at i:1030745 original size:28 final size:29
Alignment explanation
Indices: 1030709--1030767 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
1030699 CTTTTGCCTC
* * **
1030709 ATTTGCAATTTAGTCC-TAAATTTTCAAA
1 ATTTACAATTTAATCCTTAAACATTCAAA
1030737 ATTTACAATTTAATCCTTAAACATTCAAA
1 ATTTACAATTTAATCCTTAAACATTCAAA
1030766 AT
1 AT
1030768 ATCACTCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (29 bp):
ATTTACAATTTAATCCTTAAACATTCAAA
Found at i:1031399 original size:13 final size:13
Alignment explanation
Indices: 1031381--1031407 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1031371 ACATTATGCT
1031381 TTGTATCGATACA
1 TTGTATCGATACA
1031394 TTGTATCGATACA
1 TTGTATCGATACA
1031407 T
1 T
1031408 GTTCATTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1031441 original size:20 final size:19
Alignment explanation
Indices: 1031391--1031443 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1031381 TTGTATCGAT
*
1031391 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
1031410 TCATTGTGTCGATACATGC
1 ACATTGTATCGATACATGC
1031429 ACAATTGTATCGATA
1 AC-ATTGTATCGATA
1031444 TATGAAACTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1031536 original size:33 final size:33
Alignment explanation
Indices: 1031477--1031539 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1031467 TACCACTATT
*
1031477 TGTATCGATACATGGCACATTGTATCGATATAA
1 TGTATCGATACATGGCACATTATATCGATATAA
1031510 TGTATCGATACATGATG-A-ATTATATCGATA
1 TGTATCGATACATG--GCACATTATATCGATA
1031540 CACTACTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTATATCGATATAA
Found at i:1033049 original size:19 final size:19
Alignment explanation
Indices: 1032989--1033051 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
1032979 TTTTTCTCTT
1032989 TTCTTTGCTGTTTTGTTTC
1 TTCTTTGCTGTTTTGTTTC
* *
1033008 TTCCTCTT--TATTTT-TTTAT
1 TT-CT-TTGCTGTTTTGTTT-C
1033027 TTCTTTGCTGTTTTGTTTC
1 TTCTTTGCTGTTTTGTTTC
1033046 TTCTTT
1 TTCTTT
1033052 CCTCCTCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
17 2 0.06
18 5 0.15
19 20 0.59
20 5 0.15
21 2 0.06
ACGTcount: A:0.03, C:0.16, G:0.10, T:0.71
Consensus pattern (19 bp):
TTCTTTGCTGTTTTGTTTC
Found at i:1033909 original size:62 final size:62
Alignment explanation
Indices: 1033814--1033981 Score: 282
Period size: 62 Copynumber: 2.7 Consensus size: 62
1033804 TTAAGTTTTC
1033814 ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTAAGCATGAAATGCAATGCA
1 ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTAAGCATGAAATGCAATGCA
* * * *
1033876 ATGCAATGTAATGCCACCTAGCAAGCTTTTGTGGTAACAAATTAAGCATGAAATGCAATGCA
1 ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTAAGCATGAAATGCAATGCA
* *
1033938 ATGCAATCCAATGCCACCTAGAAAGCTTAGGTGGCAACAAATTA
1 ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTA
1033982 TGTAGAAATC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 96 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (62 bp):
ATGCAATGCAATGCCACCTAGAAAGCTTATGTGGCAACAAATTAAGCATGAAATGCAATGCA
Found at i:1034763 original size:8 final size:8
Alignment explanation
Indices: 1034750--1034774 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
1034740 GTAAGCAAAT
1034750 TCTTTAAA
1 TCTTTAAA
1034758 TCTTTAAA
1 TCTTTAAA
1034766 TCTTTAAA
1 TCTTTAAA
1034774 T
1 T
1034775 GTTCAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (8 bp):
TCTTTAAA
Found at i:1034782 original size:16 final size:17
Alignment explanation
Indices: 1034745--1034792 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
1034735 TTTTTGTAAG
1034745 CAAATTCTTTAAATCTT
1 CAAATTCTTTAAATCTT
* *
1034762 TAAA-TCTTTAAATGTT
1 CAAATTCTTTAAATCTT
*
1034778 CAAATTCTTTGAATC
1 CAAATTCTTTAAATC
1034793 AATATGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.46
Consensus pattern (17 bp):
CAAATTCTTTAAATCTT
Found at i:1035788 original size:20 final size:20
Alignment explanation
Indices: 1035763--1035802 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1035753 TTTTGAAAAC
1035763 TTAAAGAATATATCAATACA
1 TTAAAGAATATATCAATACA
* *
1035783 TTAAAGATTGTATCAATACA
1 TTAAAGAATATATCAATACA
1035803 ATATTTATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
TTAAAGAATATATCAATACA
Found at i:1035814 original size:11 final size:11
Alignment explanation
Indices: 1035798--1035825 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1035788 GATTGTATCA
1035798 ATACAATATTT
1 ATACAATATTT
1035809 ATACAATATTT
1 ATACAATATTT
1035820 ATACAA
1 ATACAA
1035826 ACCCTAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (11 bp):
ATACAATATTT
Found at i:1037413 original size:22 final size:22
Alignment explanation
Indices: 1037367--1037413 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1037357 ATTTTTAACC
*
1037367 AATTTGTAAAAAATATCCTACA
1 AATTTGTAAAAAATATCCTAAA
*
1037389 AATTTGTAAAAATTAAT-CTAAA
1 AATTTGTAAAAAAT-ATCCTAAA
1037411 AAT
1 AAT
1037414 AATTTCTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (22 bp):
AATTTGTAAAAAATATCCTAAA
Found at i:1039502 original size:76 final size:76
Alignment explanation
Indices: 1039340--1039490 Score: 187
Period size: 76 Copynumber: 2.0 Consensus size: 76
1039330 TCAAATAGCC
* * * * * *
1039340 CTAATAGAGATGTATCGACATGAAGGCTCCCACATGATTATAGAATCAATTTTAAAGTGCTATTA
1 CTAATAGACATGTTTCAACATGAAAGCTCCCACATGATCATAGAATCAATTTTAAAGTGCTACTA
*
1039405 CCGAAATGACT
66 CAGAAATGACT
* * * *
1039416 CTAATAGACATGTTTCAACATGAAAGTTCCCACATGATCCTAGACTCAA-TTTAAAGGTGTTACT
1 CTAATAGACATGTTTCAACATGAAAGCTCCCACATGATCATAGAATCAATTTTAAA-GTGCTACT
1039480 ACAGAAATGAC
65 ACAGAAATGAC
1039491 CTTAATGGAC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
75 6 0.10
76 57 0.90
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (76 bp):
CTAATAGACATGTTTCAACATGAAAGCTCCCACATGATCATAGAATCAATTTTAAAGTGCTACTA
CAGAAATGACT
Found at i:1040866 original size:16 final size:16
Alignment explanation
Indices: 1040845--1040876 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1040835 AACCCCATTA
*
1040845 TTTTTTCTTTTTCTTC
1 TTTTTTCTTTTACTTC
1040861 TTTTTTCTTTTACTTC
1 TTTTTTCTTTTACTTC
1040877 CCCCTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTCTTTTACTTC
Found at i:1044129 original size:64 final size:62
Alignment explanation
Indices: 1044043--1044211 Score: 190
Period size: 64 Copynumber: 2.8 Consensus size: 62
1044033 ATGATAAATA
*
1044043 ATTAAAAATTGTTAAAAATATATTTATATTAAATAATAAATATATATAAATTATATTTATATTAT
1 ATTAAAAATTATTAAAAATATATTTATATTAAATAAT-AAT-TA-ATAAATTATATTTATATTAT
** *
1044108 ATTAAAAATTATT-AATTTATATTTATGTTAAATAATAATTAATAAATTATATTTATA-T-T
1 ATTAAAAATTATTAAAAATATATTTATATTAAATAATAATTAATAAATTATATTTATATTAT
* *
1044167 A--AATAATTATT-AAAATATTATTTATATTAAA-AATTATATAATAAA
1 ATTAAAAATTATTAAAAATA-TATTTATATTAAATAATAAT-TAATAAA
1044212 AATAAAAGGG
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
57 18 0.19
58 19 0.20
59 2 0.02
60 1 0.01
61 16 0.17
62 2 0.02
63 3 0.03
64 20 0.22
65 12 0.13
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (62 bp):
ATTAAAAATTATTAAAAATATATTTATATTAAATAATAATTAATAAATTATATTTATATTAT
Found at i:1044131 original size:31 final size:30
Alignment explanation
Indices: 1044045--1044197 Score: 159
Period size: 30 Copynumber: 5.0 Consensus size: 30
1044035 GATAAATAAT
* *
1044045 TAAAAATTGTTAAAAATATATTTATATTAAA
1 TAAAAATTATT-AAATTATATTTATATTAAA
*
1044076 TAATAAATATATATAAATTATATTTATATTATAT
1 TAA-AAAT-TAT-TAAATTATATTTATATTA-AA
* *
1044110 TAAAAATTATTAATTTATATTTATGTTAAA
1 TAAAAATTATTAAATTATATTTATATTAAA
* *
1044140 TAATAATTAATAAATTATATTTATATTAAA
1 TAAAAATTATTAAATTATATTTATATTAAA
*
1044170 T---AATTATTAAAATATTATTTATATTAAA
1 TAAAAATTATTAAATTA-TATTTATATTAAA
1044198 AATTATATAA
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
27 11 0.10
28 13 0.12
30 28 0.27
31 19 0.18
32 7 0.07
33 22 0.21
34 5 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
TAAAAATTATTAAATTATATTTATATTAAA
Found at i:1049558 original size:13 final size:13
Alignment explanation
Indices: 1049540--1049566 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1049530 ATATTACGCT
1049540 TTGTATCGATACA
1 TTGTATCGATACA
1049553 TTGTATCGATACA
1 TTGTATCGATACA
1049566 T
1 T
1049567 GCTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1049678 original size:20 final size:20
Alignment explanation
Indices: 1049632--1049680 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
1049622 ACCCTAAGTG
**
1049632 AAATGTATTGATACATGGGA
1 AAATGTATCAATACATGGGA
* * *
1049652 CATTGTATCAATACATGGTA
1 AAATGTATCAATACATGGGA
1049672 AAATGTATC
1 AAATGTATC
1049681 GATGCATTGT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (20 bp):
AAATGTATCAATACATGGGA
Found at i:1051281 original size:3 final size:3
Alignment explanation
Indices: 1051266--1051299 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1051256 AACTATAAAA
* *
1051266 GAT GAT GAA GAT GAT GAT GAT GAT AAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1051300 TTGACTCGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1055526 original size:13 final size:13
Alignment explanation
Indices: 1055491--1055528 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1055481 AATGTTCTAA
1055491 GTATCGATACAGT
1 GTATCGATACAGT
*
1055504 GTATCGATACATT
1 GTATCGATACAGT
1055517 GTATCGATACAG
1 GTATCGATACAG
1055529 GTTTACTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (13 bp):
GTATCGATACAGT
Found at i:1058109 original size:13 final size:13
Alignment explanation
Indices: 1058091--1058117 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1058081 ACATTATGCT
1058091 TTGTATCGATACA
1 TTGTATCGATACA
1058104 TTGTATCGATACA
1 TTGTATCGATACA
1058117 T
1 T
1058118 GCTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1058126 original size:19 final size:19
Alignment explanation
Indices: 1058102--1058157 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1058092 TGTATCGATA
* *
1058102 CATTGTATCGATACATGCT
1 CATTGTATTGATACATGCG
*
1058121 CATTGTATTGATACATACG
1 CATTGTATTGATACATGCG
1058140 CAATTGTATTGATACATG
1 C-ATTGTATTGATACATG
1058158 AGACTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
CATTGTATTGATACATGCG
Found at i:1059799 original size:113 final size:114
Alignment explanation
Indices: 1059656--1059996 Score: 338
Period size: 113 Copynumber: 3.0 Consensus size: 114
1059646 AAATTTACTC
* * *
1059656 AACATAATTAAATAAAATAGGCCCTAAATAAATTAATTAAATATGCA-AGTG-GGCCT-TATTAT
1 AACATAATTAAATAAAA-AAGCTCTAAATAAATTAATTAAATATGCACA-TGAGACCTATATTAT
* * ** *
1059718 ATCTAATGTATATTTTTCATAAGGCTT-AGCCTTAAATTGAATAATTTATAACCT
64 -T-TAATATATA-TTTTAATAAGAATTGA-CCTTAAATTAAATAATTTATAACCT
*
1059772 AA-ATAATTAAATAAAAAAG-TCTAAATAAGTTAATTAAATATGCACATGAGACCTATATTATTT
1 AACATAATTAAATAAAAAAGCTCTAAATAAATTAATTAAATATGCACATGAGACCTATATTATTT
* *
1059835 AATATATATTTTAATAAGAATTGACCTTAAATTAAATAATTTATGATCT
66 AATATATATTTTAATAAGAATTGACCTTAAATTAAATAATTTATAACCT
* * * ** * **
1059884 AACATAATTAAATAAAATAGCTCGAAATAAATTAATTAAATAAGCATGTGAGACCTATTTTAGCT
1 AACATAATTAAATAAAAAAGCTCTAAATAAATTAATTAAATATGCACATGAGACCTATATTATTT
* * * * * *
1059949 AACATATA-TTTCATAAGATGTTG-CCTTATATTAAATTATTTATGACCT
66 AATATATATTTTAATAAGA-ATTGACCTTAAATTAAATAATTTATAACCT
1059997 TATCTTAGCT
Statistics
Matches: 192, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
112 35 0.18
113 81 0.42
114 54 0.28
115 20 0.10
116 2 0.01
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (114 bp):
AACATAATTAAATAAAAAAGCTCTAAATAAATTAATTAAATATGCACATGAGACCTATATTATTT
AATATATATTTTAATAAGAATTGACCTTAAATTAAATAATTTATAACCT
Found at i:1064308 original size:19 final size:20
Alignment explanation
Indices: 1064284--1064336 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1064274 GTATCAATAC
1064284 ATTGTATCGATACACAGTG-
1 ATTGTATCGATACACAGTGA
*
1064303 ATTGTATCAATACACAGTGA
1 ATTGTATCGATACACAGTGA
* *
1064323 ACTATATCGATACA
1 ATTGTATCGATACA
1064337 TGAAACTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
ATTGTATCGATACACAGTGA
Found at i:1064315 original size:32 final size:34
Alignment explanation
Indices: 1064254--1064316 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
1064244 CTCCAACATA
* *
1064254 TATCGATACATAGTTGCTTAGTATCAATACATTG
1 TATCGATACACAGTTGATTAGTATCAATACATTG
1064288 TATCGATACACAG-TGATT-GTATCAATACA
1 TATCGATACACAGTTGATTAGTATCAATACA
1064317 CAGTGAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 11 0.41
33 4 0.15
34 12 0.44
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (34 bp):
TATCGATACACAGTTGATTAGTATCAATACATTG
Found at i:1074823 original size:30 final size:30
Alignment explanation
Indices: 1074789--1074872 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 30
1074779 TAGATTATGC
*
1074789 AAAATACTATAAATGGCCTTAAAAT-ACAAG
1 AAAATACTATAAATGTCCTTAAAATCA-AAG
1074819 AAAATAGC-A-AAATAGTCCTT-AAATCAAAG
1 AAAATA-CTATAAAT-GTCCTTAAAATCAAAG
1074848 AAAATGACT-TAAATGTCCTTAAAAT
1 AAAAT-ACTATAAATGTCCTTAAAAT
1074873 GCATGAAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
29 23 0.50
30 22 0.48
31 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (30 bp):
AAAATACTATAAATGTCCTTAAAATCAAAG
Found at i:1074868 original size:59 final size:58
Alignment explanation
Indices: 1074789--1074936 Score: 176
Period size: 59 Copynumber: 2.6 Consensus size: 58
1074779 TAGATTATGC
* * * *
1074789 AAAAT-ACTATAAATGGCCTTAAAATACAAGAAAATAGCAAAATAGTCCTTAAATCAAAG
1 AAAATGACT-TAAATGACCTTAAAATACATGAAAATA-CAAAATAATCCCTAAATCAAAG
* * * *
1074848 AAAATGACTTAAATGTCCTTAAAATGCATGAAATTACAAAATAATCCCTAAATCATAG
1 AAAATGACTTAAATGACCTTAAAATACATGAAAATACAAAATAATCCCTAAATCAAAG
*
1074906 -AAATGACTAAAATGACCTT-AAATACATGAAA
1 AAAATGACTTAAATGACCTTAAAATACATGAAA
1074937 TTGATAATAG
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
56 11 0.14
57 17 0.22
58 19 0.24
59 28 0.36
60 3 0.04
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.24
Consensus pattern (58 bp):
AAAATGACTTAAATGACCTTAAAATACATGAAAATACAAAATAATCCCTAAATCAAAG
Found at i:1074900 original size:28 final size:27
Alignment explanation
Indices: 1074869--1074938 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
1074859 AATGTCCTTA
1074869 AAATGCATGAAATTAC-AAAATAATCCCT
1 AAAT-CATGAAATTACTAAAATAA-CCCT
* * *
1074897 AAATCATAGAAATGACTAAAATGACCTT
1 AAATCAT-GAAATTACTAAAATAACCCT
1074925 AAATACATGAAATT
1 AAAT-CATGAAATT
1074939 GATAATAGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 3 0.09
28 23 0.66
29 9 0.26
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATCATGAAATTACTAAAATAACCCT
Found at i:1074926 original size:57 final size:58
Alignment explanation
Indices: 1074789--1075052 Score: 213
Period size: 57 Copynumber: 4.6 Consensus size: 58
1074779 TAGATTATGC
* * * * * *
1074789 AAAAT-ACTATAAATGGCCTTAAAATACAAGAAAATAGCAAAATAGTCCTTAAATCAAAG
1 AAAATGACTA-AAATGACCTTAAAATACATGAAATTA-CAAAATAATCCCTAAATCATAG
* * *
1074848 AAAATGACTTAAATGTCCTTAAAATGCATGAAATTACAAAATAATCCCTAAATCATAG
1 AAAATGACTAAAATGACCTTAAAATACATGAAATTACAAAATAATCCCTAAATCATAG
* * * *
1074906 -AAATGACTAAAATGACCTT-AAATACATGAAATT-GATAATAGTCCCCAAATCAT-G
1 AAAATGACTAAAATGACCTTAAAATACATGAAATTACAAAATAATCCCTAAATCATAG
* * * * *
1074960 AAAAATGACTAAAAT-A-TTCTAATAATATATGGAA-TACATAATAATCTCTAAATCAT-G
1 -AAAATGACTAAAATGACCT-TAA-AATACATGAAATTACAAAATAATCCCTAAATCATAG
* * * *
1075017 AAAACTTACTAGAATGACCCTAAAATGCATGAAATT
1 AAAA-TGACTAAAATGACCTTAAAATACATGAAATT
1075053 GGATAGTAGT
Statistics
Matches: 165, Mismatches: 29, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
54 2 0.01
55 18 0.11
56 32 0.19
57 59 0.36
58 24 0.15
59 27 0.16
60 3 0.02
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (58 bp):
AAAATGACTAAAATGACCTTAAAATACATGAAATTACAAAATAATCCCTAAATCATAG
Found at i:1074965 original size:113 final size:115
Alignment explanation
Indices: 1074848--1075062 Score: 251
Period size: 113 Copynumber: 1.9 Consensus size: 115
1074838 TAAATCAAAG
* * *
1074848 AAAATGACTTAAATGTCCTTAA-AATGCATGAAATTACAAAATAATCCCTAAATCAT-AGAAA-T
1 AAAATGACTAAAATATCC-TAATAATACATGAAA-TACAAAATAATCCCTAAATCATGA-AAACT
*
1074910 GACTAAAATGA-CCTTAAATACATGAAATT-GATAATAGTCCCCAAATCATGA
63 GACTAAAATGACCCTAAAATACATGAAATTGGATAATAGTCCCCAAATCATGA
* * * * * *
1074961 AAAATGACTAAAATATTCTAATAATATATGGAATACATAATAATCTCTAAATCATGAAAACTTAC
1 AAAATGACTAAAATATCCTAATAATACATGAAATACAAAATAATCCCTAAATCATGAAAACTGAC
* * *
1075026 TAGAATGACCCTAAAATGCATGAAATTGGATAGTAGT
66 TAAAATGACCCTAAAATACATGAAATTGGATAATAGT
1075063 ACTTAATTGC
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
112 26 0.31
113 34 0.40
114 16 0.19
115 8 0.10
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (115 bp):
AAAATGACTAAAATATCCTAATAATACATGAAATACAAAATAATCCCTAAATCATGAAAACTGAC
TAAAATGACCCTAAAATACATGAAATTGGATAATAGTCCCCAAATCATGA
Found at i:1082818 original size:19 final size:19
Alignment explanation
Indices: 1082775--1082847 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1082765 CATACCCAGC
*
1082775 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
1082795 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
1082814 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
1082834 TGTATCGATACATG
1 TGTATCGATACATG
1082848 AAACTGGTAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:1082913 original size:13 final size:13
Alignment explanation
Indices: 1082892--1082921 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1082882 CGATAAATAG
*
1082892 TACATTGTATCGA
1 TACAATGTATCGA
1082905 TACAATGTATCGA
1 TACAATGTATCGA
1082918 TACA
1 TACA
1082922 TGATGAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:1090819 original size:80 final size:80
Alignment explanation
Indices: 1090731--1090892 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
1090721 AATATCTCTC
*
1090731 ATATTTATGTCTTTTTCGTGGAAAATTATGTTTGATGACCAAATATGTTCATAATGTCAAATATG
1 ATATTTATGTCTTTTTCATGGAAAATTATGTTTGATGACCAAATATGTTCATAATGTCAAATATG
1090796 CATGTTTTTGGTCAT
66 CATGTTTTTGGTCAT
1090811 ATATTTATGTCTTTTTCATGGAAAATTATGTTTGATGACCAAATATGTTCATAATGTCAAATATG
1 ATATTTATGTCTTTTTCATGGAAAATTATGTTTGATGACCAAATATGTTCATAATGTCAAATATG
1090876 CATGTTTTTGGTCAT
66 CATGTTTTTGGTCAT
1090891 AT
1 AT
1090893 GGTATGTTAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (80 bp):
ATATTTATGTCTTTTTCATGGAAAATTATGTTTGATGACCAAATATGTTCATAATGTCAAATATG
CATGTTTTTGGTCAT
Found at i:1091145 original size:13 final size:13
Alignment explanation
Indices: 1091123--1091158 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1091113 ATGTTCATAT
*
1091123 TATCGATACATTG
1 TATCGATACACTG
*
1091136 TATTGATACACTG
1 TATCGATACACTG
1091149 TATCGATACA
1 TATCGATACA
1091159 AAGGCACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
TATCGATACACTG
Found at i:1092602 original size:19 final size:19
Alignment explanation
Indices: 1092559--1092614 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1092549 CTGCCAATTT
1092559 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* *
1092579 TATGTATCGATAGAATGAG
1 CATGTATCGATACAATGAG
1092598 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1092615 TATCGATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:1093343 original size:26 final size:26
Alignment explanation
Indices: 1093299--1093352 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
1093289 AAAGCTCTTC
** * *
1093299 TTTTGTTAAAATGATTTTCTCCCTCT
1 TTTTGTTAAAAAAAATTTCTCCCCCT
1093325 TTTTGTTAAAAAAAATTTCTCCCCCT
1 TTTTGTTAAAAAAAATTTCTCCCCCT
1093351 TT
1 TT
1093353 GTCAAATGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTGTTAAAAAAAATTTCTCCCCCT
Found at i:1101445 original size:19 final size:20
Alignment explanation
Indices: 1101406--1101454 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
1101396 CCATTTCATA
*
1101406 TATCGATACAATTGAGTATG
1 TATCGATACAATTGAGCATG
*
1101426 TATCGATATAA-TGAGCATG
1 TATCGATACAATTGAGCATG
*
1101445 TATTGATACA
1 TATCGATACA
1101455 TTGTATCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (20 bp):
TATCGATACAATTGAGCATG
Found at i:1103617 original size:13 final size:13
Alignment explanation
Indices: 1103599--1103629 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1103589 ACTTTTTACT
1103599 ATGTATCGATACA
1 ATGTATCGATACA
*
1103612 ATGTATCGATGCA
1 ATGTATCGATACA
1103625 ATGTA
1 ATGTA
1103630 CCATGTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1103637 original size:20 final size:20
Alignment explanation
Indices: 1103612--1103685 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
1103602 TATCGATACA
*
1103612 ATGTATCGATGCAATGTACC
1 ATGTATCGATACAATGTACC
*
1103632 ATGTATCAATACAATGTACC
1 ATGTATCGATACAATGTACC
*
1103652 ATGTATCGATACATTGTACC
1 ATGTATCGATACAATGTACC
* *
1103672 TTGTATCAATACAA
1 ATGTATCGATACAA
1103686 ATAGTGATAG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1106356 original size:13 final size:13
Alignment explanation
Indices: 1106335--1106365 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1106325 CCTTTATATT
*
1106335 GATATAATGTATC
1 GATACAATGTATC
1106348 GATACAATGTATC
1 GATACAATGTATC
1106361 GATAC
1 GATAC
1106366 TTAGAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
GATACAATGTATC
Found at i:1112527 original size:13 final size:13
Alignment explanation
Indices: 1112505--1112535 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1112495 ACTTTTTACT
1112505 ATGTAACGATACA
1 ATGTAACGATACA
*
1112518 ATGTATCGATACA
1 ATGTAACGATACA
1112531 ATGTA
1 ATGTA
1112536 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTAACGATACA
Found at i:1112542 original size:33 final size:33
Alignment explanation
Indices: 1112482--1112551 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1112472 AGTCGTTAGG
** * *
1112482 ACAATGTATCGATACTTTTTACTATGTAACGAT
1 ACAATGTATCGATACAATGTACCATGTAACGAT
*
1112515 ACAATGTATCGATACAATGTACCATGTATCGAT
1 ACAATGTATCGATACAATGTACCATGTAACGAT
1112548 ACAA
1 ACAA
1112552 ACAGTGATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTACCATGTAACGAT
Found at i:1113974 original size:20 final size:20
Alignment explanation
Indices: 1113949--1113987 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1113939 CTACCACTGT
*
1113949 TTGTATCGATACATGGTACA
1 TTGTATCAATACATGGTACA
*
1113969 TTGTATCAATACATTGTAC
1 TTGTATCAATACATGGTAC
1113988 TGACATATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
TTGTATCAATACATGGTACA
Found at i:1114788 original size:43 final size:43
Alignment explanation
Indices: 1114720--1114820 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
1114710 GCACACTCAA
* *
1114720 TTGTATTGATACATGAAACTGGCAGTAGCTACCCTATCACTGT
1 TTGTATCGATACATGAAACTGGCAGTAGCTACCCTATCACTAT
*
1114763 TTGTTTCGATACATGAAACTGGCAGTAGCTACCCTATCACTAT
1 TTGTATCGATACATGAAACTGGCAGTAGCTACCCTATCACTAT
1114806 TTGTATCGATACATG
1 TTGTATCGATACATG
1114821 GTACATTGTA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (43 bp):
TTGTATCGATACATGAAACTGGCAGTAGCTACCCTATCACTAT
Found at i:1114831 original size:20 final size:20
Alignment explanation
Indices: 1114806--1114859 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1114796 CTATCACTAT
* *
1114806 TTGTATCGATACATGGTACA
1 TTGTATCGATACATAGTAAA
*
1114826 TTGTATCAATACATAGTAAA
1 TTGTATCGATACATAGTAAA
**
1114846 AAGTATCGATACAT
1 TTGTATCGATACAT
1114860 TGTCCTAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAGTAAA
Found at i:1116260 original size:20 final size:19
Alignment explanation
Indices: 1116214--1116270 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1116204 TTGTATCAAT
* *
1116214 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
*
1116233 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1116252 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1116271 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1119280 original size:15 final size:15
Alignment explanation
Indices: 1119260--1119290 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1119250 TAAAAATGTC
*
1119260 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1119275 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1119290 C
1 C
1119291 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1121365 original size:20 final size:20
Alignment explanation
Indices: 1121296--1121375 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 20
1121286 AATGTCCAAA
* *
1121296 ATGTATCGATACATGTTTCT
1 ATGTATCGACACATTTTTCT
* *
1121316 GTGTATCGATACATTTGGAAATTCT
1 ATGTATCGACACATTT-----TTCT
1121341 ATGTATCGACACATTTTTCT
1 ATGTATCGACACATTTTTCT
* *
1121361 TTGTATCGATACATT
1 ATGTATCGACACATT
1121376 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGACACATTTTTCT
Found at i:1121379 original size:13 final size:13
Alignment explanation
Indices: 1121361--1121399 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1121351 ACATTTTTCT
1121361 TTGTATCGATACA
1 TTGTATCGATACA
1121374 TTGTATCGATACA
1 TTGTATCGATACA
*
1121387 CTGTATCGATACA
1 TTGTATCGATACA
1121400 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1123439 original size:108 final size:109
Alignment explanation
Indices: 1123203--1123437 Score: 420
Period size: 108 Copynumber: 2.2 Consensus size: 109
1123193 TTTTGATATG
*
1123203 AATTA-CTTGATTAAGGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAAAT
1 AATTACCTTGATTAA-GGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAAAC
1123267 TGCTACAATTACCTTATTAAGGGGGAGAATGTACAAACTCGTTAA
65 TGCTACAATTACCTTATTAAGGGGGAGAATGTACAAACTCGTTAA
1123312 AATTACCTT-ATTAAGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAAACT
1 AATTACCTTGATTAAGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAAACT
1123376 GCTACAATTACCTTATTAAGGGGGAGAATGTACAAACTCGTTAA
66 GCTACAATTACCTTATTAAGGGGGAGAATGTACAAACTCGTTAA
**
1123420 AATTATTTTGATTAAGGG
1 AATTACCTTGATTAAGGG
1123438 AGTAATAAAA
Statistics
Matches: 121, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
108 100 0.83
109 18 0.15
110 3 0.02
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (109 bp):
AATTACCTTGATTAAGGGGAGAATTATTAATAAACGGGGGAGATAAAGGGGAGAATGCGTAAACT
GCTACAATTACCTTATTAAGGGGGAGAATGTACAAACTCGTTAA
Found at i:1124081 original size:13 final size:13
Alignment explanation
Indices: 1124063--1124088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1124053 TACAGCAAGT
1124063 ATGTATCGATACA
1 ATGTATCGATACA
1124076 ATGTATCGATACA
1 ATGTATCGATACA
1124089 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1126099 original size:99 final size:99
Alignment explanation
Indices: 1125928--1126125 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
1125918 TTATACAATC
1125928 GATAGGGAGTAATGTCAACCAATTTTTTTTTTTAAGTTTTGTTTTATCAAAAAAGGGGGATTTGT
1 GATAGGGAGTAATGTCAACCAATTTTTTTTTTTAAGTTTTGTTTTATCAAAAAAGGGGGATTTGT
1125993 TAGGATCTTGGTTTTAATATAACAAAGTACGAAT
66 TAGGATCTTGGTTTTAATATAACAAAGTACGAAT
1126027 GATAGGGAGTAATGTCAACCAATTTTTTTTTTTAAGTTTTGTTTTATCAAAAAAGGGGGATTTGT
1 GATAGGGAGTAATGTCAACCAATTTTTTTTTTTAAGTTTTGTTTTATCAAAAAAGGGGGATTTGT
1126092 TAGGATCTTGGTTTTAATATAACAAAGTACGAAT
66 TAGGATCTTGGTTTTAATATAACAAAGTACGAAT
1126126 AAAACCGGAA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.40
Consensus pattern (99 bp):
GATAGGGAGTAATGTCAACCAATTTTTTTTTTTAAGTTTTGTTTTATCAAAAAAGGGGGATTTGT
TAGGATCTTGGTTTTAATATAACAAAGTACGAAT
Found at i:1126359 original size:54 final size:54
Alignment explanation
Indices: 1126277--1126385 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
1126267 TCAAGTAAAA
*
1126277 ATAATCTAAAGTATCGATACACAGGTATTTGTATCAATGCATTAAGGTTGACTT
1 ATAATCTAAAGTATCGATACACAGGTATTTGCATCAATGCATTAAGGTTGACTT
* *
1126331 ATAATCTAAAGTATCGATACATAGGTATTTGCATCGATGCATTAAGGTTGACTT
1 ATAATCTAAAGTATCGATACACAGGTATTTGCATCAATGCATTAAGGTTGACTT
1126385 A
1 A
1126386 GGCTACAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (54 bp):
ATAATCTAAAGTATCGATACACAGGTATTTGCATCAATGCATTAAGGTTGACTT
Found at i:1126474 original size:19 final size:19
Alignment explanation
Indices: 1126450--1126503 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
1126440 ACATTATGCT
*
1126450 TTGTATTGATACATGTCAA
1 TTGTATCGATACATGTCAA
**
1126469 TTGTATCGATACACACTCAA
1 TTGTATCGATACA-TGTCAA
1126489 TTGTATCGATACATG
1 TTGTATCGATACATG
1126504 AAACTAGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGTCAA
Found at i:1127605 original size:352 final size:353
Alignment explanation
Indices: 1126953--1127626 Score: 966
Period size: 352 Copynumber: 1.9 Consensus size: 353
1126943 TAAGGTTACT
** * *
1126953 TTCAACCTTGTTTTGCAATCTCTTAAGAATTTGGAGTATAATTCTTGAAGAGATTGTGAGGTTCT
1 TTCAACCTTGGGTTACAATCTCTTAAGAATTTGGAGTATAATTCTTGAAGAGATTGAGAGGTTCT
* *
1127018 TATCTTAGCCTTGAAAAGATAAGTGTTGTAAAGTTATACCTTTCCTAAAAGGTAAACAATTCGTG
66 TATCTTAGCCTTGAAAAGATAAGTGTTGTAAAGTTATACCTTTCCCAAAAGGTAAACAATTCATG
* * * * * *
1127083 TAGTGGATTGTGGTAACAGTCGACAAGGAAGTGTCGAGGAGAGAGGACGTAGGTGTTGTGTTTGG
131 TAGCGAATTGTGGTAACACTCGACAAGGAAGTGTCGAAGAGAAAGGACGTAGGTGTCGTGTTTGG
* * *
1127148 ATCGAACCTCTATTAACATTTTTATTGAGTTTTCTCTTTTCCCTACTCTTTCTATCTTCAAGTTG
196 ACCGAACCTCTATAAACATTTTTATCGAGTTTTCTCTTTTCCCTACTCTTTCTATCTTCAAGTTG
* * *
1127213 TTTTCGAAACAATTCTTACAAACTATTCAAATTACGAAAAGAACCAATTCGC-CCCCTCTTGGTT
261 TTTTCAAAACAATTCTTACAAAATATTCAAATTACGAAAAGAACCAATTCACTCCCCTCTTGGTT
1127277 CATCCATTCCTAGAGCTTTCAGGTTGCA
326 CATCCATTCCTAGAGCTTTCAGGTTGCA
*
1127305 TTCAACCTTGGGTTACAATCTCTTAAGAATTTGCG-GT-TAATTCTTGGAGAGATTGAGAGGTTC
1 TTCAACCTTGGGTTACAATCTCTTAAGAATTTG-GAGTATAATTCTTGAAGAGATTGAGAGGTTC
* * *
1127368 TTATCTTAGCCTTGAAAAGATAAGTGTTGTAAGGTTATACCTTTGCCCGAAAGGTAAATAATTCA
65 TTATCTTAGCCTTGAAAAGATAAGTGTTGTAAAGTTATACCTTT-CCCAAAAGGTAAACAATTCA
* * *
1127433 TGTTGCGAATTGTGGTAACACTCGACAAGGGAGTGTCGAAGAGAAAGGATGTAGGTGTCGTGTTT
129 TGTAGCGAATTGTGGTAACACTCGACAAGGAAGTGTCGAAGAGAAAGGACGTAGGTGTCGTGTTT
* * *
1127498 GGACCGAATCTTTATAAACATTTGTT-TCGAGCTTTT-TCTTTTCCCTACT-TTCTTTATCTTCA
194 GGACCGAACCTCTATAAACATTT-TTATCGAG-TTTTCTCTTTTCCCTACTCTT-TCTATCTTCA
* * *
1127560 AGTTGTTTTCAAAACAATTCTTTCAAAATCTTCAAATGT-CGAAAAGAACTAATTCACTCCCCTC
256 AGTTGTTTTCAAAACAATTCTTACAAAATATTCAAAT-TACGAAAAGAACCAATTCACTCCCCTC
1127624 TTG
320 TTG
1127627 ATTTATTCAA
Statistics
Matches: 284, Mismatches: 31, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
351 69 0.24
352 198 0.70
353 17 0.06
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (353 bp):
TTCAACCTTGGGTTACAATCTCTTAAGAATTTGGAGTATAATTCTTGAAGAGATTGAGAGGTTCT
TATCTTAGCCTTGAAAAGATAAGTGTTGTAAAGTTATACCTTTCCCAAAAGGTAAACAATTCATG
TAGCGAATTGTGGTAACACTCGACAAGGAAGTGTCGAAGAGAAAGGACGTAGGTGTCGTGTTTGG
ACCGAACCTCTATAAACATTTTTATCGAGTTTTCTCTTTTCCCTACTCTTTCTATCTTCAAGTTG
TTTTCAAAACAATTCTTACAAAATATTCAAATTACGAAAAGAACCAATTCACTCCCCTCTTGGTT
CATCCATTCCTAGAGCTTTCAGGTTGCA
Found at i:1129294 original size:14 final size:13
Alignment explanation
Indices: 1129261--1129290 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1129251 TTATTTTTCC
1129261 TTTTTC-TAGCTT
1 TTTTTCTTAGCTT
1129273 TTTTTCTTAGCTT
1 TTTTTCTTAGCTT
1129286 TTTTT
1 TTTTT
1129291 TCTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.07, C:0.13, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTTTCTTAGCTT
Found at i:1131379 original size:79 final size:79
Alignment explanation
Indices: 1131097--1131612 Score: 571
Period size: 79 Copynumber: 6.5 Consensus size: 79
1131087 ATCTCCCGAC
* * * * * *
1131097 GAGAAATTTAATATTTTGGAGATAATAA-CGGGGTTGGAGTATTCCCTCGAAAATAACAGGGTTA
1 GAGAAA-TTGATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
* *
1131161 GAGTATCCTCGATTGT
64 GAGTATCCCCGATTAT
* * * * * *
1131177 GAAAAATCGATGA-TTTAGAAATAAAATCGGGATTAGAGTATCCCCTCGGAAATAACGGGGTTGG
1 GAGAAATTGAT-ATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
*
1131241 AGTATCCCCGAATAT
65 AGTATCCCCGATTAT
* *
1131256 GA-AAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTC-AGAAATAACGGGGTTGG
1 GAGAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGG
*
1131319 AGTATCCCCAATTAT
65 AGTATCCCCGATTAT
* ** *
1131334 GAGAAATTAATATTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAA
1 GAGAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGA
1131399 GTATCCCCGATTAT
66 GTATCCCCGATTAT
* * * * *
1131413 GAGAAATTAATATTTTAGAAATAAAGCTGGGGTTGGGGGATCCCCTCGAAAATAACAGGGGGTTG
1 GAGAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAC--GGGGTTG
1131478 GAGTATCCCCG---AT
64 GAGTATCCCCGATTAT
* * * * * *
1131491 GAAAAATTGATGTTTTAGAAATAAAACCTGGGTTGGAGTGTCCCCTCGGAAATAACAGGGTTGGA
1 GAGAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGA
*
1131556 GTATCCCTGATTAT
66 GTATCCCCGATTAT
* * * *
1131570 GA-AAAGTTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GAGAAA-TTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
1131613 TTGATTATGA
Statistics
Matches: 370, Mismatches: 54, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
76 16 0.04
78 122 0.33
79 208 0.56
80 7 0.02
81 17 0.05
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
GAGAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGA
GTATCCCCGATTAT
Found at i:1131414 original size:157 final size:155
Alignment explanation
Indices: 1131107--1131612 Score: 581
Period size: 157 Copynumber: 3.2 Consensus size: 155
1131097 GAGAAATTTA
* * * * *
1131107 ATATTTTGGAGATAATAA-CGGGGTTGGAGTATTCCCTCGAAAATAACAGGGTTAGAGTATCCTC
1 ATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC-C
* * * * *
1131171 GATTGTGAAAAATCGATGA-TTTAGAAATAAAATCGGGATTAGAGTATCCCCTCGGAAATAACGG
64 CATTATGAAAAATTGAT-ATTTTAGAAATAAAACCGGG-TTGGAGTATCCCCTCGGAAATAACGG
*
1131235 GGTTGGAGTATCCCCGAATATGAAAATTG
127 GGTTGGAGTATCCCCGATTATGAAAATTG
* *
1131264 ATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCCC
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCC
* * * *
1131328 AATTATGAGAAATTAATATTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAACGGG
65 -ATTATGAAAAATTGATATTTTAGAAATAAAACC-GGGTTGGAGTATCCCCTCGGAAATAACGGG
* *
1131393 GTTGAAGTATCCCCGATTATGAGAAATTA
128 GTTGGAGTATCCCCGATTATGA-AAATTG
* * * *
1131422 ATATTTTAGAAATAAAGCTGGGGTTGGGGGATCCCCTCGAAAATAACAGGGGGTTGGAGTATCCC
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAAC--GGGGTTGGAGTATCCC
* * * *
1131487 C--GATGAAAAATTGATGTTTTAGAAATAAAACCTGGGTTGGAGTGTCCCCTCGGAAATAACAGG
64 CATTATGAAAAATTGATATTTTAGAAATAAAACC-GGGTTGGAGTATCCCCTCGGAAATAACGGG
*
1131550 GTTGGAGTATCCCTGATTATGAAAAGTTG
128 GTTGGAGTATCCCCGATTATGAAAA-TTG
* * * *
1131579 GTATTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 ATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
1131613 TTGATTATGA
Statistics
Matches: 294, Mismatches: 45, Indels: 20
0.82 0.13 0.06
Matches are distributed among these distances:
156 8 0.03
157 222 0.76
158 46 0.16
159 1 0.00
160 17 0.06
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (155 bp):
ATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCA
TTATGAAAAATTGATATTTTAGAAATAAAACCGGGTTGGAGTATCCCCTCGGAAATAACGGGGTT
GGAGTATCCCCGATTATGAAAATTG
Found at i:1131517 original size:236 final size:234
Alignment explanation
Indices: 1131097--1131612 Score: 632
Period size: 236 Copynumber: 2.2 Consensus size: 234
1131087 ATCTCCCGAC
* * *
1131097 GAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTATTCCCTCGAAAATAACAGGGTTAG
1 GAGAAAGTTAATATTTTGGAAATAA-AAC-GGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAG
* * * * *
1131162 AGTATCCTCGATTGTGAAAAATCGATGATTTAGAAATAAAATCGGGATTAGAGTATCCCCTCGGA
64 AGTATCCCCGATTATGAAAAATCAATGATTTAGAAATAAAATCGGGATTAGAGGATCCCCTCGAA
1131227 AATAACGGGGTTGGAGTATCCCCGAATATGAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGA
129 AATAACGGGGTTGGAGTATCCCCGAATA-GAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGA
*
1131292 GTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATTAT
193 GTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATTAT
* * *
1131334 GAGAAA-TTAATATTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAACGGGGTT-G
1 GAGAAAGTTAATATTTTGGAAATAAAA-C-GGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAG
* * * * * *
1131397 AAGTATCCCCGATTATGAGAAATTAAT-ATTTTAGAAAT-AAAGCTGGGGTTGGGGGATCCCCTC
64 -AGTATCCCCGATTATGAAAAATCAATGA-TTTAGAAATAAAATC-GGGATTAGAGGATCCCCTC
*
1131460 GAAAATAACAGGGGGTTGGAGTATCCCCG-AT-GAAAAATTGATGTTTTAGAAATAAAACCTGGG
126 GAAAATAAC--GGGGTTGGAGTATCCCCGAATAG-AAAATTGATGTTTTAGAAATAAAACCGGGG
* * * **
1131523 TTGGAGTGTCCCCTCGGAAATAACAGGGTTGGAGTATCCCTGATTAT
188 TTAGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATTAT
**
1131570 GA-AAAGTTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GAGAAAGTTAATATTTTGGAAATAAAA-CGG-GTTGGAGTATCC
1131613 TTGATTATGA
Statistics
Matches: 241, Mismatches: 29, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
235 13 0.05
236 202 0.84
237 8 0.03
238 18 0.07
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (234 bp):
GAGAAAGTTAATATTTTGGAAATAAAACGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAG
TATCCCCGATTATGAAAAATCAATGATTTAGAAATAAAATCGGGATTAGAGGATCCCCTCGAAAA
TAACGGGGTTGGAGTATCCCCGAATAGAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTA
TCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATTAT
Found at i:1131608 original size:51 final size:51
Alignment explanation
Indices: 1131550--1131715 Score: 226
Period size: 51 Copynumber: 3.3 Consensus size: 51
1131540 AAATAACAGG
* *
1131550 GTTGGAGTATCCCTGATTATGAAAAGTTGGTATTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCTGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
1131601 GTTGGAGTATCCTTGATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCTGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *
1131652 GTTGAAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAATCGG-
1 GTTGGAGTATCCCTGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
1131702 GATTGGAGTATCCC
1 G-TTGGAGTATCCC
1131716 CTCGAAAATA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 1 0.01
51 99 0.99
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCTGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1131819 original size:51 final size:51
Alignment explanation
Indices: 1131727--1131956 Score: 247
Period size: 51 Copynumber: 4.6 Consensus size: 51
1131717 TCGAAAATAA
1131727 CGGGGTTGGAGTAT-CCCG---ATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * * * * *
1131774 CGGGGTTGGAGTATCCTCGATTATGTAAAATCGGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * * *
1131825 CGGAGTT-GATGTATCCCCGATTATGAAAAATGGGTGTTTTAGAAATAAAAT
1 CGGGGTTGGA-GTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * * *
1131876 CGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
* * * *
1131927 CAGGATTAGAGTATCCCCGA-GATGAAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAAT
1131957 CTAGAAATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
47 14 0.09
48 3 0.02
50 10 0.06
51 125 0.81
52 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
Found at i:1131823 original size:177 final size:178
Alignment explanation
Indices: 1131474--1131893 Score: 564
Period size: 177 Copynumber: 2.4 Consensus size: 178
1131464 ATAACAGGGG
* * *
1131474 GTTGGAGTATCCCCGA-T-GAAAAATTGATGTTTTAGAAATAAAACCTGGG-TTGGAGTGTCCCC
1 GTTGAAGTATCCCCGATTAGAAAAATTGATGTTTTAGAAATAAAATC-GGGATTGGAGTATCCCC
* * * * *
1131536 TCGGAAATAACAGGGTTGGAGTATCCCTGATTATGAAAAGTTGGTATTTTGGAAATAAAATCGGA
65 TCGAAAATAACAGGGTTGGAGTATCCCTG--TATGAAAAATTGATATTTTAGAAATAAAACCGGA
* *
1131601 GTTGGAGTATCCTTGATTATGAAAAATGGGTGTTTTAGAAATAAAATCGGA
128 GTTGGAGTATCCTCGATTATGAAAAATCGGTGTTTTAGAAATAAAATCGGA
* *
1131652 GTTGAAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAATCGGGATTGGAGTATCCCC
1 GTTGAAGTATCCCCGATT-AGAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTATCCCC
* * *
1131717 TCGAAAATAACGGGGTTGGAGTATCCC-G-ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGT
65 TCGAAAATAACAGGGTTGGAGTATCCCTGTATGAAAAATTGATATTTTAGAAATAAAACCGGAGT
* *
1131780 TGGAGTATCCTCGATTATGTAAAATCGGTGTTTTGGAAATAAAATCGGA
130 TGGAGTATCCTCGATTATGAAAAATCGGTGTTTTAGAAATAAAATCGGA
* * *
1131829 GTTGATGTATCCCCGATTATGAAAAATGGGTGTTTTAGAAATAAAATC-GGAGTTGGAGTATCCC
1 GTTGAAGTATCCCCGATTA-GAAAAATTGATGTTTTAGAAATAAAATCGGGA-TTGGAGTATCCC
1131893 C
64 C
1131894 GATTAAGAAA
Statistics
Matches: 214, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
176 4 0.02
177 128 0.60
178 15 0.07
179 1 0.00
180 4 0.02
181 62 0.29
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (178 bp):
GTTGAAGTATCCCCGATTAGAAAAATTGATGTTTTAGAAATAAAATCGGGATTGGAGTATCCCCT
CGAAAATAACAGGGTTGGAGTATCCCTGTATGAAAAATTGATATTTTAGAAATAAAACCGGAGTT
GGAGTATCCTCGATTATGAAAAATCGGTGTTTTAGAAATAAAATCGGA
Found at i:1131921 original size:102 final size:101
Alignment explanation
Indices: 1131744--1131956 Score: 277
Period size: 102 Copynumber: 2.1 Consensus size: 101
1131734 GGAGTATCCC
* * * * * *
1131744 GATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCGATTATGTAAAATCGGT
1 GATGAAAAATGGATGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGAAAAATCGAT
*
1131809 GTTTTGGAAATAAAATC-GGAGTT-GATGTATCCCCGA
66 GTTTTGGAAATAAAACCAGGA-TTAGA-GTATCCCCGA
* * * *
1131845 TTATGAAAAATGGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGA
1 -GATGAAAAATGGATGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGAAAAATCGA
*
1131910 TGTTTTGGAAATGAAACCAGGATTAGAGTATCCCCGA
65 TGTTTTGGAAATAAAACCAGGATTAGAGTATCCCCGA
1131947 GATGAAAAAT
1 GATGAAAAAT
1131957 CTAGAAATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
101 9 0.09
102 82 0.85
103 5 0.05
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (101 bp):
GATGAAAAATGGATGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGAAAAATCGAT
GTTTTGGAAATAAAACCAGGATTAGAGTATCCCCGA
Found at i:1134240 original size:20 final size:19
Alignment explanation
Indices: 1134215--1134289 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 19
1134205 AAAATGCCTG
*
1134215 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1134235 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1134255 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
1134274 CAATGTATCGATACAA
1 -AATGTATCGATACAA
1134290 ATTGCAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.98
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1135161 original size:15 final size:17
Alignment explanation
Indices: 1135142--1135181 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
1135132 AATTACCTTT
1135142 TATTTAATT-AAGTCTA
1 TATTTAATTAAAGTCTA
*
1135158 -ATTTAATTAAATTCTA
1 TATTTAATTAAAGTCTA
1135174 TATTTAAT
1 TATTTAAT
1135182 CCAATAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 8 0.38
16 6 0.29
17 7 0.33
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTTAATTAAAGTCTA
Found at i:1141976 original size:51 final size:51
Alignment explanation
Indices: 1141887--1142003 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
1141877 TTTATGAGAA
* * * * * *
1141887 GATATTCCAAACCTAGTTTTATTTTTAAAATATCGATTTTTCTCCATTGGG
1 GATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCACCATTGGG
*
1141938 GATACTCCAACCCTGGTTTTATTTCTAAAACA-CTGATTTTCCACCATTGGG
1 GATACTCCAACCCTAGTTTTATTTCTAAAACATC-GATTTTCCACCATTGGG
1141989 GATACTCCAACCCTA
1 GATACTCCAACCCTA
1142004 TTATTTTTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 1 0.02
51 56 0.98
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (51 bp):
GATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTTTCCACCATTGGG
Found at i:1142020 original size:79 final size:78
Alignment explanation
Indices: 1141936--1142159 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 78
1141926 TTCTCCATTG
* * * *
1141936 GGGATACTCCAACC-CTGGTTTTATTTCTAAAACACTGATTTTCCACCATTGGGGATACTCCAAC
1 GGGATACTCCAACCTC-GATTTTATTTCCAAAACACCGATTTTCCACCATCGGGGATACTCCAAC
*
1142000 CCTATTATTTTTGA
65 CCCATTATTTTTGA
* * *
1142014 GAGGATACTACAACCTCGATTTTATTTCCAAAATACCGATTTTCCACCGTCGGGGATACTCCAAC
1 G-GGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTCCACCATCGGGGATACTCCAAC
*
1142079 CCCGTTATTTTTGA
65 CCCATTATTTTTGA
* * * * ** * * ** * *
1142093 GGAGATACTCTAGCCCCAATTTTATTTTTAAAACATCGATTTTTCACTGTCGGGTATACTCTAAC
1 GG-GATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTCCACCATCGGGGATACTCCAAC
1142158 CC
65 CC
1142160 TAGTTTTATT
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
78 2 0.02
79 118 0.98
80 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTCCACCATCGGGGATACTCCAACC
CCATTATTTTTGA
Found at i:1142069 original size:130 final size:130
Alignment explanation
Indices: 1141824--1142080 Score: 336
Period size: 130 Copynumber: 2.0 Consensus size: 130
1141814 TAATTGATGT
* * * *
1141824 TTTTATTTCTAAAACACCGATTTTCCATCGTCGTGGATACTCCAACCCTGTTATTTATGAGAAGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTATTATTTATGAGAAGA
* * ** * * * *
1141889 TATTCCAAACCTAGTTTTATTTTTAAAATATCGATTTTTCTCCATTGGGGATACTCCAACCCTGG
66 TACTACAAACCTAGTTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCTGG
* * * *
1141954 TTTTATTTCTAAAACACTGATTTTCCACCATTGGGGATACTCCAACCCTATTATTTTTGAGAGGA
1 TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTATTATTTATGAGAAGA
* *
1142019 TACTAC-AACCTCGATTTTATTTCCAAAATACCGATTTTCCACCGTCGGGGATACTCCAACCC
66 TACTACAAACCTAG-TTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCC
1142081 CGTTATTTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
129 6 0.06
130 102 0.94
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (130 bp):
TTTTATTTCTAAAACACCGATTTTCCACCATCGGGGATACTCCAACCCTATTATTTATGAGAAGA
TACTACAAACCTAGTTTTATTTCCAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCTGG
Found at i:1142201 original size:209 final size:208
Alignment explanation
Indices: 1141824--1142296 Score: 547
Period size: 209 Copynumber: 2.3 Consensus size: 208
1141814 TAATTGATGT
* * *
1141824 TTTTATTTCTAAAACACCGATTTTCCATCGTCGTGGATACTCCAACCCTGTTATTTATGAGAAGA
1 TTTTATTTCTAAAACACCGATTTTCCACCGTCGGGGATACTCCAACCCCGTTATTTATGAGAAGA
* * * * * * *
1141889 TATTCCAAACCTAGTTTTATTTTTAAAATATCGATTTTTCTCCATTGGGGATACTCCAACCCTGG
66 TACTCCAAACCCAATTTTATTTTTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTAG
** *
1141954 TTTTATTTCTAAAACACTGATTTTCCACCATTGGGGATACTCCAACCCTATTATTTTTG-AGAGG
131 TTTTATTTCTAAAACACTGATTTTCCACCACCGGGGATACTCCAACCCTATTA-TTTCGAAG-GG
1142018 ATACTACAAC-CTCGA
194 ATACTACAACTCT-GA
* * * *
1142033 TTTTATTTCCAAAATACCGATTTTCCACCGTCGGGGATACTCCAACCCCGTTATTTTTGAGGAGA
1 TTTTATTTCTAAAACACCGATTTTCCACCGTCGGGGATACTCCAACCCCGTTATTTATGAGAAGA
* ** ** * *
1142098 TACTCTAGCCCCAATTTTATTTTTAAAACATCGATTTTTCACTGTCGGGTATACTCTAACCCTAG
66 TACTCCAAACCCAATTTTATTTTTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTAG
* * * * * * *
1142163 TTTTATTTTTAAAACA-TCGATTTTTCATCGCCGGGGATACTCCAAGCTTGTTATTTCGAAGGGA
131 TTTTATTTCTAAAACACT-GATTTTCCACCACCGGGGATACTCCAACCCTATTATTTCGAAGGGA
*
1142227 TACTCCAACTCTGA
195 TACTACAACTCTGA
* * * * * *
1142241 TTTTATTTCTAAAACACTGATTCTCGACCATTGGGGATACTCTAACCCCGTTATTT
1 TTTTATTTCTAAAACACCGATTTTCCACCGTCGGGGATACTCCAACCCCGTTATTT
1142297 CCACGGCGAT
Statistics
Matches: 221, Mismatches: 40, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
208 66 0.30
209 155 0.70
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (208 bp):
TTTTATTTCTAAAACACCGATTTTCCACCGTCGGGGATACTCCAACCCCGTTATTTATGAGAAGA
TACTCCAAACCCAATTTTATTTTTAAAACATCGATTTTTCACCATCGGGGATACTCCAACCCTAG
TTTTATTTCTAAAACACTGATTTTCCACCACCGGGGATACTCCAACCCTATTATTTCGAAGGGAT
ACTACAACTCTGA
Found at i:1142203 original size:51 final size:51
Alignment explanation
Indices: 1142096--1142204 Score: 157
Period size: 51 Copynumber: 2.1 Consensus size: 51
1142086 TTTTTGAGGA
* *
1142096 GATACTCTAGCCCCAATTTTATTTTTAAAACATCGATTTTTCACTGTCGGG
1 GATACTCTAACCCCAATTTTATTTTTAAAACATCGATTTTTCACTGCCGGG
* * *
1142147 TATACTCTAACCCTAGTTTTATTTTTAAAACATCGATTTTTCA-TCGCCGGG
1 GATACTCTAACCCCAATTTTATTTTTAAAACATCGATTTTTCACT-GCCGGG
1142198 GATACTC
1 GATACTC
1142205 CAAGCTTGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 50 0.98
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (51 bp):
GATACTCTAACCCCAATTTTATTTTTAAAACATCGATTTTTCACTGCCGGG
Found at i:1150120 original size:55 final size:55
Alignment explanation
Indices: 1150054--1150163 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
1150044 AAATAAATTA
* *
1150054 AACCTTGAATGCTTTGATCTCTTGATGTTTCTTGAGTTATTCTCTTCAAGTTCAG
1 AACCTCGAATGCTTTGATCTCTTGATGTTTCTTGAGTTATTCTCATCAAGTTCAG
1150109 AACCTCGAATGCTTTGATCTCTTGATGTTTCTTGAGTTATTCTCATCAAGTTCAG
1 AACCTCGAATGCTTTGATCTCTTGATGTTTCTTGAGTTATTCTCATCAAGTTCAG
1150164 CTGTTGGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (55 bp):
AACCTCGAATGCTTTGATCTCTTGATGTTTCTTGAGTTATTCTCATCAAGTTCAG
Found at i:1150390 original size:13 final size:13
Alignment explanation
Indices: 1150374--1150398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1150364 CAATTTATCA
1150374 TGTATCGATACAT
1 TGTATCGATACAT
1150387 TGTATCGATACA
1 TGTATCGATACA
1150399 ATGTGCCACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1150412 original size:33 final size:33
Alignment explanation
Indices: 1150355--1150418 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1150345 TTGAAGCAAA
* * * *
1150355 GTATCGATACAATTTATCATGTATCGATACATT
1 GTATCGATACAATGTACCACGTATCAATACATT
*
1150388 GTATCGATACAATGTGCCACGTATCAATACA
1 GTATCGATACAATGTACCACGTATCAATACA
1150419 AACAGTGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (33 bp):
GTATCGATACAATGTACCACGTATCAATACATT
Found at i:1150473 original size:20 final size:20
Alignment explanation
Indices: 1150448--1150502 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
1150438 CTACCAGTTT
**
1150448 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
1150468 CATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGAA
*
1150487 CATGTGTCGATACAAT
1 CATGTATCGATACAAT
1150503 GTAACGATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1151461 original size:28 final size:28
Alignment explanation
Indices: 1151429--1151486 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
1151419 TGCACTAAAA
1151429 TGTTCA-TCCATACACTGCGAAAGTGAAG
1 TGTTCACT-CATACACTGCGAAAGTGAAG
***
1151457 TGTTCACTCATGTGCTGCGAAAGTGAAG
1 TGTTCACTCATACACTGCGAAAGTGAAG
1151485 TG
1 TG
1151487 ATCAACTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (28 bp):
TGTTCACTCATACACTGCGAAAGTGAAG
Found at i:1152979 original size:13 final size:13
Alignment explanation
Indices: 1152947--1152986 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
1152937 ATAGTAACTC
*
1152947 ATGTATCGATACA
1 ATGTATTGATACA
* *
1152960 ATATATTGATATA
1 ATGTATTGATACA
1152973 ATGTATTGATACA
1 ATGTATTGATACA
1152986 A
1 A
1152987 AGAATATTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:1153344 original size:23 final size:23
Alignment explanation
Indices: 1153318--1153364 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1153308 AAATACAAGT
1153318 ATGAGAGATTTAAAGAAAAACAA
1 ATGAGAGATTTAAAGAAAAACAA
1153341 ATGAGAGATTTAAAGAAAAACAA
1 ATGAGAGATTTAAAGAAAAACAA
1153364 A
1 A
1153365 CCCTTGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.62, C:0.04, G:0.17, T:0.17
Consensus pattern (23 bp):
ATGAGAGATTTAAAGAAAAACAA
Found at i:1153781 original size:13 final size:13
Alignment explanation
Indices: 1153763--1153787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1153753 CATAAAGTGT
1153763 TGTATCGATACAA
1 TGTATCGATACAA
1153776 TGTATCGATACA
1 TGTATCGATACA
1153788 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1153785 original size:33 final size:33
Alignment explanation
Indices: 1153743--1153809 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1153733 TTCAACGATT
1153743 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
1153776 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1153809 T
1 T
1153810 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1153868 original size:13 final size:13
Alignment explanation
Indices: 1153850--1153874 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1153840 ATTACTCAAA
1153850 TGTATCGATACAT
1 TGTATCGATACAT
1153863 TGTATCGATACA
1 TGTATCGATACA
1153875 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1162519 original size:13 final size:13
Alignment explanation
Indices: 1162503--1162527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1162493 CAATTTATCA
1162503 TGTATCGATACAT
1 TGTATCGATACAT
1162516 TGTATCGATACA
1 TGTATCGATACA
1162528 ATGTGCCCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.