Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 19 of 126
Found at i:6192396 original size:2 final size:2
Alignment explanation
Indices: 6192389--6192414 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6192379 AGAACAGGCT
6192389 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6192415 AGAGGCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6209665 original size:30 final size:31
Alignment explanation
Indices: 6209598--6209671 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
6209588 AATATAACAT
* *
6209598 TTGGTACCTGAACTTGACACTTTTTCCTAAC
1 TTGGTACATAAACTTGACACTTTTTCCTAAC
* *
6209629 TTGGTACATAAACTTGACACTTTTT-TTAAG
1 TTGGTACATAAACTTGACACTTTTTCCTAAC
*
6209659 TTGGTACTTAAAC
1 TTGGTACATAAAC
6209672 CTTTTGGGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 15 0.39
31 23 0.61
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (31 bp):
TTGGTACATAAACTTGACACTTTTTCCTAAC
Found at i:6210869 original size:17 final size:17
Alignment explanation
Indices: 6210823--6210877 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 17
6210813 CATCCAGTTC
6210823 TATTAAATAAATAATTAAAA
1 TATTAAA-AAATAA--AAAA
*
6210843 TTTTATAAAAATAAAAAA
1 TATTA-AAAAATAAAAAA
6210861 TATTAAAAAATAAAAAA
1 TATTAAAAAATAAAAAA
6210878 ATTTGGTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 12 0.38
18 8 0.25
20 10 0.31
21 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TATTAAAAAATAAAAAA
Found at i:6210878 original size:18 final size:18
Alignment explanation
Indices: 6210823--6210879 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
6210813 CATCCAGTTC
*
6210823 TATTAAATAAATAATTAAAA
1 TATTAAA-AAATAA-AAAAA
*
6210843 TTTTATAAAAAT-AAAAAA
1 TATTA-AAAAATAAAAAAA
6210861 TATTAAAAAATAAAAAAA
1 TATTAAAAAATAAAAAAA
6210879 T
1 T
6210880 TTGGTTCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 6 0.19
18 15 0.47
19 1 0.03
20 8 0.25
21 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TATTAAAAAATAAAAAAA
Found at i:6211120 original size:22 final size:21
Alignment explanation
Indices: 6211086--6211129 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
6211076 ATTAGTTGAA
* * *
6211086 ATCCAAATCTAAATTTGAATT
1 ATCCAAATATAAAATTAAATT
6211107 ATCCAAATAATAAAATTAAATT
1 ATCCAAAT-ATAAAATTAAATT
6211129 A
1 A
6211130 ATTTAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (21 bp):
ATCCAAATATAAAATTAAATT
Found at i:6215599 original size:16 final size:18
Alignment explanation
Indices: 6215578--6215610 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
6215568 ATCAAAATCT
6215578 ATCTTC-CCAC-ATCAAC
1 ATCTTCACCACAATCAAC
6215594 ATCTTCACCACAATCAA
1 ATCTTCACCACAATCAA
6215611 AATAAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.24
Consensus pattern (18 bp):
ATCTTCACCACAATCAAC
Found at i:6218517 original size:228 final size:228
Alignment explanation
Indices: 6217795--6219132 Score: 1395
Period size: 228 Copynumber: 5.9 Consensus size: 228
6217785 ATTCAAATAG
* * * * * * * * *
6217795 ATGCAAATTTTCGTCAAGACCCTCACCGGCAAGACCATCACCCTT-GAGGTGGAAAGCTCCGACA
1 ATGCAAATTTTTGTGAAGACTCTGACCGGAAAGACCATCA-CTTTGGAGGTTGAGAGCTCGGACA
* * * * * * *
6217859 CCATCGATAATGTCAAGGCCAAGATCCAAGATAAAGAAGG-AATCCCACCAGATCAACAGAGGCT
65 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATTCCC-CCAGACCAGCAGAGG-T
* * * * * * * *
6217923 T-ATCTTTGCTGGTAAGCAGCTAGAGGATGGTCGTACACTTGCTGACTACAACATTCAGAAGGAG
128 TGATCTTTGCTGGTAAGCAGCTTGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAA
* *
6217987 TCCACCCTCCACTTGGTCCTTCGT-TTGCGGGGTGGT
193 TCCACCCTCCACTTGGTGCTTCGTCTT-CGTGGTGGT
* * * * * * ** * * *
6218023 ATGCAAATCTTTGTTAAGACCCTCACCGGCAAGACTATCACCCTCGAGGTGGAAAGCTCGGACAC
1 ATGCAAATTTTTGTGAAGACTCTGACCGGAAAGACCATCACTTTGGAGGTTGAGAGCTCGGACAC
* * * *
6218088 CATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGG-ATACCTCCAGACCAGCAGAGACTT
66 CATTGATAATGTCAAGGCCAAGATCCAAGACAAGG-AGGGTATTCCCCCAGACCAGCAGAG-GTT
* * * * * * * * *
6218152 -ATCTTTGCCGGTAAACAGCTCGAGGATGGCCGTACCCTGGCTGATTATAACAATCCAAAAGGAG
129 GATCTTTGCTGGTAAGCAGCTTGAAGATGGCCGCACACTGGCTGACTACAAC-ATCCAAAAGGAA
* * * * *
6218216 TCCACCCTCCATTTGGTGCTCCGCCTTCGTGGAGGA
193 TCCACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
* * * * * * *
6218252 ATGCAAATCTTTGTTAAGAC-CTTGACTGGAAAGACCATTACTTTGGAGGTTGAGAGTTCAGATA
1 ATGCAAATTTTTGTGAAGACTC-TGACCGGAAAGACCATCACTTTGGAGGTTGAGAGCTCGGACA
* * ** *
6218316 CCATTGACAATGTCAAGGCTAAGATCCATTACTAGGAGGGTATTCCCCCAGACCAGCAGAGGTTG
65 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATTCCCCCAGACCAGCAGAGGTTG
*
6218381 ATCTTTGCTGGTAAGCAGCTTGAAGATGGCCGCACTCTGGCTGACTACAACATCCAAAAGGAATC
130 ATCTTTGCTGGTAAGCAGCTTGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATC
6218446 CACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
195 CACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
* * * *
6218480 ATGCAAATTTTTGTGAAGACTCTGACCGGAAAGACCATTACTTTGGAGGTTGAGAGTTCAGATAC
1 ATGCAAATTTTTGTGAAGACTCTGACCGGAAAGACCATCACTTTGGAGGTTGAGAGCTCGGACAC
* * *
6218545 CATTGACAATGTCAAGGCTAAGATCCAGGACAAGGAGGGTATTCCCCCAGACCAGCAGAGGTTGA
66 CATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATTCCCCCAGACCAGCAGAGGTTGA
* * *
6218610 TCTTTGCTGGCAAGCAACTTGAAGATGGCCGCACTCTGGCTGACTACAACATCCAAAAGGAATCC
131 TCTTTGCTGGTAAGCAGCTTGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATCC
*
6218675 ACTCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
196 ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
* * * * *
6218708 ATGCAGATTTTTGTGAAGACTCTTACCGGGAAA-ACCATCACCTTAGAAGTTGAGAGCTCGGACA
1 ATGCAAATTTTTGTGAAGACTCTGACC-GGAAAGACCATCACTTTGGAGGTTGAGAGCTCGGACA
* * * * *
6218772 CCATTGATAATGTGAAGGCCAAAATCCAGGACAAGGAAGGTA-TCCCTCCAGACCAACAGAGGTT
65 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATTCCC-CCAGACCAGCAGAGGTT
* * * * * * * *
6218836 GATTTTTCGCAGGTAAGCAGCTTGAGGATGGCAGGACACTTGCAGACTACAACATTCAGAAA-GA
129 GATCTTT-GCTGGTAAGCAGCTTGAAGATGGCCGCACACTGGCTGACTACAACATCCA-AAAGGA
* * * *
6218900 GTCGACCCCCTCCATTTGGTGCTTCGTCTTCGTGGTGGG
192 ATC--CACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
* * * *
6218939 ATGCAAATTTTTGTGAAAACAT-TGACAGGAAAGACCATCACTTTGGAAGTTGAAAGCTCGGACA
1 ATGCAAATTTTTGTGAAGAC-TCTGACCGGAAAGACCATCACTTTGGAGGTTGAGAGCTCGGACA
* * * *
6219003 CCATTGATAATGTGAAGGCCAAGATCCAAGATAAGGAAGGAATTCCCCCAGACCAGCAGAGGTTG
65 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATTCCCCCAGACCAGCAGAGGTTG
* * * ** * * *
6219068 ATCTTTGCGGGGAAGCAACTTGAAGATGGAAGGAC-CTTGGCAGACTACAACATCCAGAAGGAAT
130 ATCTTTGCTGGTAAGCAGCTTGAAGATGGCCGCACAC-TGGCTGACTACAACATCCAAAAGGAAT
6219132 C
194 C
6219133 GACTCTGCAC
Statistics
Matches: 960, Mismatches: 130, Indels: 38
0.85 0.12 0.03
Matches are distributed among these distances:
227 7 0.01
228 519 0.54
229 235 0.24
230 55 0.06
231 139 0.14
232 5 0.01
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (228 bp):
ATGCAAATTTTTGTGAAGACTCTGACCGGAAAGACCATCACTTTGGAGGTTGAGAGCTCGGACAC
CATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATTCCCCCAGACCAGCAGAGGTTGA
TCTTTGCTGGTAAGCAGCTTGAAGATGGCCGCACACTGGCTGACTACAACATCCAAAAGGAATCC
ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGT
Found at i:6218651 original size:457 final size:455
Alignment explanation
Indices: 6217795--6219132 Score: 1463
Period size: 457 Copynumber: 2.9 Consensus size: 455
6217785 ATTCAAATAG
* * * * * * * * *
6217795 ATGCAAAT-TTTCGTCAAGACCCTCACCGGCAAGACCATCACCCTT-GAGGTGGAAAGCTCCGAC
1 ATGCAAATCTTT-GTGAAGACTCTTACCGGGAAAACCATCA-CCTTAGAAGTTGAGAGCTCAGAC
* * * * * * * *
6217858 ACCATCGATAATGTCAAGGCCAAGATCCAAGATAAAGAAGGAATCCCACCAGATCAACAGAGGCT
64 ACCATTGACAATGTCAAGGCCAAAATCCAGGACAAGGAAGGTATCCCACCAGACCAACAGAGG-T
* * * *
6217923 T-ATCTTTGCTGGTAAGCAGCTAGAGGATGGTCGTACACTTGCTGACTACAACATTCAGAAGGAG
128 TGATCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACACTTGCTGACTACAACATTCAAAAGGAG
* * * * * *
6217987 TCCACCCTCCACTTGGTCCTTCGT-TTGCGGGGTGGTATGCAAATCTTTGTTAAGACCCTCACCG
193 TCCACCCTCCACTTGGTGCTTCGTCTT-CGTGGTGGTATGCAAATTTTTGTGAAGACTCTGACCG
* * ** * * *
6218051 GCAAGACTATCACCCTCGAGGTGGAAAGCTCGGACACCATCGATAATGTCAAGGCCAAGATCCAA
257 GAAAGACCATCACTTTGGAGGTTGAAAGCTCGGACACCATTGATAATGTCAAGGCCAAGATCCAA
* * * * * * * *
6218116 GACAAGGAAGGGATACCTCCAGACCAGCAGAGACTT-ATCTTTGCCGGTAAACAGCTCGAGGATG
322 GACAAGG-AGGGATTCCCCCAGACCAGCAGAG-GTTGATCTTTGCCGGCAAGCAACTTGAAGATG
* * * * *
6218180 GCCGTACCCTGGCTGATTATAACAATCCAAAAGGAGTCCACCCTCCATTTGGTGCTCCGCCTTCG
385 GCCGCACCCTGGCTGACTACAAC-ATCCAAAAGGAATCCACCCTCCACTTGGTGCTCCGCCTTCG
6218245 TGGAGGA
449 TGGAGGA
* * * * * * * *
6218252 ATGCAAATCTTTGTTAAGAC-CTTGA-CTGGAAAGACCATTACTTTGGAGGTTGAGAGTTCAGAT
1 ATGCAAATCTTTGTGAAGACTCTT-ACCGGGAAA-ACCATCACCTTAGAAGTTGAGAGCTCAGAC
* * ** * * *
6218315 ACCATTGACAATGTCAAGGCTAAGATCCATTACTAGGAGGGTATTCCC-CCAGACCAGCAGAGGT
64 ACCATTGACAATGTCAAGGCCAAAATCCAGGACAAGGAAGGTA-TCCCACCAGACCAACAGAGGT
* * * * *
6218379 TGATCTTTGCTGGTAAGCAGCTTGAAGATGGCCGCACTCTGGCTGACTACAACATCCAAAAGGAA
128 TGATCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACACTTGCTGACTACAACATTCAAAAGGAG
6218444 TCCACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGTATGCAAATTTTTGTGAAGACTCTGACCGG
193 TCCACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGTATGCAAATTTTTGTGAAGACTCTGACCGG
* * * * * * * *
6218509 AAAGACCATTACTTTGGAGGTTGAGAGTTCAGATACCATTGACAATGTCAAGGCTAAGATCCAGG
258 AAAGACCATCACTTTGGAGGTTGAAAGCTCGGACACCATTGATAATGTCAAGGCCAAGATCCAAG
*
6218574 ACAAGGAGGGTATTCCCCCAGACCAGCAGAGGTTGATCTTTGCTGGCAAGCAACTTGAAGATGGC
323 ACAAGGAGGG-ATTCCCCCAGACCAGCAGAGGTTGATCTTTGCCGGCAAGCAACTTGAAGATGGC
* * * *
6218639 CGCACTCTGGCTGACTACAACATCCAAAAGGAATCCACTCTCCACTTGGTGCTTCGTCTTCGTGG
387 CGCACCCTGGCTGACTACAACATCCAAAAGGAATCCACCCTCCACTTGGTGCTCCGCCTTCGTGG
* *
6218704 TGGT
452 AGGA
* * *
6218708 ATGCAGATTTTTGTGAAGACTCTTACCGGGAAAACCATCACCTTAGAAGTTGAGAGCTCGGACAC
1 ATGCAAATCTTTGTGAAGACTCTTACCGGGAAAACCATCACCTTAGAAGTTGAGAGCTCAGACAC
* * *
6218773 CATTGATAATGTGAAGGCCAAAATCCAGGACAAGGAAGGTATCCCTCCAGACCAACAGAGGTTGA
66 CATTGACAATGTCAAGGCCAAAATCCAGGACAAGGAAGGTATCCCACCAGACCAACAGAGGTTGA
* * * * *
6218838 TTTTTCGCAGGTAAGCAGCTTGAGGATGGCAGGACACTTGCAGACTACAACATTCAGAAA-GAGT
131 TCTTT-GCTGGTAAGCAGCTTGAGGATGGCCGCACACTTGCTGACTACAACATTCA-AAAGGAGT
* * * * *
6218902 CGACCCCCTCCATTTGGTGCTTCGTCTTCGTGGTGGGATGCAAATTTTTGTGAAAACAT-TGACA
194 C--CACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGTATGCAAATTTTTGTGAAGAC-TCTGACC
* *
6218966 GGAAAGACCATCACTTTGGAAGTTGAAAGCTCGGACACCATTGATAATGTGAAGGCCAAGATCCA
256 GGAAAGACCATCACTTTGGAGGTTGAAAGCTCGGACACCATTGATAATGTCAAGGCCAAGATCCA
* * * *
6219031 AGATAAGGAAGGAATTCCCCCAGACCAGCAGAGGTTGATCTTTGCGGGGAAGCAACTTGAAGATG
321 AGACAAGG-AGGGATTCCCCCAGACCAGCAGAGGTTGATCTTTGCCGGCAAGCAACTTGAAGATG
** * * * *
6219096 GAAGGACCTTGGCAGACTACAACATCCAGAAGGAATC
385 GCCGCACCCTGGCTGACTACAACATCCAAAAGGAATC
6219133 GACTCTGCAC
Statistics
Matches: 733, Mismatches: 130, Indels: 34
0.82 0.14 0.04
Matches are distributed among these distances:
455 4 0.01
456 156 0.21
457 361 0.49
458 12 0.02
459 196 0.27
460 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (455 bp):
ATGCAAATCTTTGTGAAGACTCTTACCGGGAAAACCATCACCTTAGAAGTTGAGAGCTCAGACAC
CATTGACAATGTCAAGGCCAAAATCCAGGACAAGGAAGGTATCCCACCAGACCAACAGAGGTTGA
TCTTTGCTGGTAAGCAGCTTGAGGATGGCCGCACACTTGCTGACTACAACATTCAAAAGGAGTCC
ACCCTCCACTTGGTGCTTCGTCTTCGTGGTGGTATGCAAATTTTTGTGAAGACTCTGACCGGAAA
GACCATCACTTTGGAGGTTGAAAGCTCGGACACCATTGATAATGTCAAGGCCAAGATCCAAGACA
AGGAGGGATTCCCCCAGACCAGCAGAGGTTGATCTTTGCCGGCAAGCAACTTGAAGATGGCCGCA
CCCTGGCTGACTACAACATCCAAAAGGAATCCACCCTCCACTTGGTGCTCCGCCTTCGTGGAGGA
Found at i:6220566 original size:32 final size:31
Alignment explanation
Indices: 6220500--6220586 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 31
6220490 TATTGTATTA
*
6220500 TATTTTATAATTTTTTTTA-A--AAATATCT
1 TATTTTATTATTTTTTTTAGATTAAATATCT
*
6220528 CA-TTTATTATTTTTTTTAGATTAAATATCTT
1 TATTTTATTATTTTTTTTAGATTAAATATC-T
* * *
6220559 TATTTTATTCTTTATTTCAGAGTTAAAT
1 TATTTTATTATTTTTTTTAGA-TTAAAT
6220587 CATCGGATCT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
27 15 0.32
28 2 0.04
30 7 0.15
31 2 0.04
32 15 0.32
33 6 0.13
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (31 bp):
TATTTTATTATTTTTTTTAGATTAAATATCT
Found at i:6221738 original size:1 final size:1
Alignment explanation
Indices: 6221734--6221771 Score: 67
Period size: 1 Copynumber: 38.0 Consensus size: 1
6221724 GTATTTTTTT
*
6221734 GGGGGGGGGAGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
6221772 CAAAGAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.03, C:0.00, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:6223067 original size:228 final size:228
Alignment explanation
Indices: 6222670--6224036 Score: 1132
Period size: 228 Copynumber: 6.0 Consensus size: 228
6222660 GACACAACAG
* * * * * *
6222670 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATCTTTGTGAAAACCCTTACTGGAAAGACCATCACCTTGGAGGTGGAGAGCTCTGACAC
* *
6222735 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTT-
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGTATCCCACCTGACCAACAGAGG-TTG
* * * * * * *
6222799 ATCTTCGCTGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTC
130 ATTTTTGCTGGGAAACAGCTGGAGGATGGCAGGACCCTTGCTGACTATAACATTCAAAAGGAGTC
* *
6222864 CACCCTCCACCTT-GTCCTTCGTCTCAGAGGTGGC
195 AACCCTCCA-CTTGGTCCTTCGTCTCAGTGGTGGC
* * * * * *
6222898 ATGCAGATCTTCGTGAAAACCCTTACTGGCAAGACAATCACCCTT-GAGGTTGAAAGCTCCGACA
1 ATGCAGATCTTTGTGAAAACCCTTACTGGAAAGACCATCA-CCTTGGAGGTGGAGAGCTCTGACA
* *
6222962 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACCAACAGAGGCTT
65 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGTATCCCACCTGACCAACAGAGG-TT
* * * * * * *
6223027 -ATCTTTGCTGGTAAACAACTGGAGGATGGCCGCACCCTTGCTGACTACAACATCCAGAAA-GAG
129 GATTTTTGCTGGGAAACAGCTGGAGGATGGCAGGACCCTTGCTGACTATAACATTCA-AAAGGAG
* * *
6223090 TCTACCCTCCACCTT-GTCCTTCGTCTTAGGGGTGGC
193 TCAACCCTCCA-CTTGGTCCTTCGTCTCAGTGGTGGC
* * * * * * * *
6223126 ATGCAGATCTTTGTAAAAACACTCACTGGAAAAACCATCACTTTAGAGGTGGAGAGTTCTGATAC
1 ATGCAGATCTTTGTGAAAACCCTTACTGGAAAGACCATCACCTTGGAGGTGGAGAGCTCTGACAC
* * * * * * * * * *
6223191 AATTGATAACGTTAAGGCCAAGATTCAGGACAAGGAGGGCATACCACCAGACCAGCAGAGGTTAA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGTATCCCACCTGACCAACAGAGGTTGA
* * * * *
6223256 TTTTTGCTGGGAAACAGCTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCT
131 TTTTTGCTGGGAAACAGCTGGAGGATGGCAGGACCCTTGCTGACTATAACATTCAAAAGGAGTCA
* * * *
6223321 ACCCTCCATTTGGT-GTTGCGTCTCCGTGGTGGT
196 ACCCTCCACTTGGTCCTT-CGTCTCAGTGGTGGC
* * * * * * * * * * *
6223354 ATGCAAATTTTTGTGAAGACCCTCACAGGAAAGACTATTACCTTGGAAGTTGAGAGTTCTGATAC
1 ATGCAGATCTTTGTGAAAACCCTTACTGGAAAGACCATCACCTTGGAGGTGGAGAGCTCTGACAC
* * * * * * * * * *
6223419 GATTGACAATGTGAAAGCTAAGATCCAGGACAAGGAAGGTATTCCACCGGATCAGCAGAGGTTGA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGTATCCCACCTGACCAACAGAGGTTGA
* * * * *
6223484 TTTTTGCTGGCAAGCAGCTGGAGGATGGGAGGACCCTTGCTGATTATAATATTCAGAAA-GAGTC
131 TTTTTGCTGGGAAACAGCTGGAGGATGGCAGGACCCTTGCTGACTATAACATTCA-AAAGGAGTC
* * *
6223548 AACCCTCCACTTGGTGCTTCGCCTGC-GTGGTGGA
195 AACCCTCCACTTGGTCCTTCGTCT-CAGTGGTGGC
* * * *
6223582 ATGCAGATATTTGTGAAAA-CTTTGACTGGTAAA-ACCATTACGTTGGAGGTGGAGAGCTCTGAC
1 ATGCAGATCTTTGTGAAAACCCTT-ACTGG-AAAGACCATCACCTTGGAGGTGGAGAGCTCTGAC
* * * *
6223645 ACGATTGATAATGTTAAGGCCAAGATCCAAGATAAGGAGGGTATCCCACCTGACCAACAGAGGTT
64 ACAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGTATCCCACCTGACCAACAGAGGTT
* * * * *
6223710 GATTTTTGC-CGGAAAGCAGCTCGAGGATGGGAGGACTCTTGCAGACTATAACATTCAAAAGGAG
129 GATTTTTGCTGGGAAA-CAGCTGGAGGATGGCAGGACCCTTGCTGACTATAACATTCAAAAGGAG
* * * * * * * *
6223774 TCAACCCTGCATTTGGT-TTTGCGCCTTAGAGGAGGG
193 TCAACCCTCCACTTGGTCCTT-CGTCTCAGTGGTGGC
* * * * * * *
6223810 ATGCAGATATTTGTCAAGA-CCTTGACTGGGAAA-ACCATCACCCTGGAGGTTGAGAGCTCGGAT
1 ATGCAGATCTTTGTGAAAACCCTT-ACT-GGAAAGACCATCACCTTGGAGGTGGAGAGCTCTGAC
* * * * * * * * * * * *
6223873 ACGATTGACAATGTAAAAGCGAAGATTCAGGACAAGGAGGGAATTCCC-CCGGATCAGCAGAGGT
64 ACAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGTA-TCCCACCTGACCAACAGAGGT
* * * * * * * * * *
6223937 TGATCTTTGCTGGGAAGCAGTTGGAGGACGGTC-GAACTCTAGCTGACTACAATATTCAGAAGGA
128 TGATTTTTGCTGGGAAACAGCTGGAGGATGG-CAGGACCCTTGCTGACTATAACATTCAAAAGGA
* * * * *
6224001 GTCTACTCTGCATCTT-GTCCTTCGCCTCCGTGGTGG
192 GTCAACCCTCCA-CTTGGTCCTTCGTCTCAGTGGTGG
6224037 TTTCTGATTT
Statistics
Matches: 941, Mismatches: 176, Indels: 44
0.81 0.15 0.04
Matches are distributed among these distances:
227 22 0.02
228 890 0.95
229 29 0.03
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (228 bp):
ATGCAGATCTTTGTGAAAACCCTTACTGGAAAGACCATCACCTTGGAGGTGGAGAGCTCTGACAC
AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGTATCCCACCTGACCAACAGAGGTTGA
TTTTTGCTGGGAAACAGCTGGAGGATGGCAGGACCCTTGCTGACTATAACATTCAAAAGGAGTCA
ACCCTCCACTTGGTCCTTCGTCTCAGTGGTGGC
Found at i:6224035 original size:456 final size:451
Alignment explanation
Indices: 6222670--6224036 Score: 1441
Period size: 456 Copynumber: 3.0 Consensus size: 451
6222660 GACACAACAG
* * * * *
6222670 ATGCAGATCTTTGTGAAAACTCTTACTGGTAAGACCATCACCCTCGAGGTGGAAAGCTCCGACAC
1 ATGCAGATCTTTGTGAAAACT-TTACTGGTAAAACCATCACCTTAGAGGTGGAGAGCTCTGACAC
* *
6222735 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCCCCTGACCAACAGAGGCTTA
65 AATTGATAATGTTAAGGCCAAGATCCAAGACAAGG-AGGGATCCCACCTGACCAACAGAGG-TTA
* * * * * * * *
6222800 TCTTCGCTGGGAAACAGCTTGAGGATGGCCGTACCCTTGCTGACTACAACATCCAAAAGGAGTCC
128 TTTTTGCTGGGAAACAGCTTGAGGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCA
* * * * *
6222865 ACCCTCCACCTT-GTCCTT-CGTCTCAGAGGTGGCATGCAGATCTTCGTGAAAACCCTTACTGGC
193 ACCCTCCA-TTTGGT-CTTGCGTCTCAGAGGTGGCATGCAGATATTTGTGAAGA-CCTTACTGGG
* * * * * * * * *
6222928 AAGACAATCACCCTTGAGGTTGAAAGCTCCGACACAATTGATAATGTCAAGGCCAAGATCCAAGA
255 AAAACAATCACCCTGGAGGTTGAGAGCTCCGATACGATTGACAATGTAAAAGCCAAGATCCAGGA
* * * * * * *
6222993 CAAAGAAGGTA-TCCCTCCTGACCAACAGAGGCTT-ATCTTTGCTGGTAAACAACTGGAGGATGG
320 CAAGGAAGGTATTCCC-CCGGATCAGCAGAGG-TTGATCTTTGCTGGCAAGCAGCTGGAGGATGG
* * * * ** *
6223056 CCGCACCCTTGCTGACTACAACATCCAGAAAGAGTCTACCCTCCACCTTGTCCTTCGTCTTAGGG
383 CCGAACCCTTGCTGACTACAATATTCAGAAAGAGTCTACCCTCCA-CTTGTCCTTCGCCTCCGTG
*
6223121 GTGGC
447 GTGGA
* * * * * * *
6223126 ATGCAGATCTTTGTAAAAACACTCACTGGAAAAACCATCACTTTAGAGGTGGAGAGTTCTGATAC
1 ATGCAGATCTTTGTGAAAAC-TTTACTGGTAAAACCATCACCTTAGAGGTGGAGAGCTCTGACAC
* * * * * *
6223191 AATTGATAACGTTAAGGCCAAGATTCAGGACAAGGAGGGCATACCACCAGACCAGCAGAGGTTAA
65 AATTGATAATGTTAAGGCCAAGATCCAAGACAAGGAGGG-ATCCCACCTGACCAACAGAGGTT-A
* *
6223256 TTTTTGCTGGGAAACAGCTTGAAGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCT
128 TTTTTGCTGGGAAACAGCTTGAGGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCA
* * * * * * * *
6223321 ACCCTCCATTTGGTGTTGCGTCTCCGTGGTGGTATGCAAATTTTTGTGAAGACCCTCAC-AGGAA
193 ACCCTCCATTTGGTCTTGCGTCTCAGAGGTGGCATGCAGATATTTGTGAAGA-CCTTACTGGGAA
* * * * * * * *
6223385 AGACTATTACCTTGGAAGTTGAGAGTTCTGATACGATTGACAATGTGAAAGCTAAGATCCAGGAC
257 A-ACAATCACCCTGGAGGTTGAGAGCTCCGATACGATTGACAATGTAAAAGCCAAGATCCAGGAC
* * **
6223450 AAGGAAGGTATTCCACCGGATCAGCAGAGGTTGATTTTTGCTGGCAAGCAGCTGGAGGATGGGAG
321 AAGGAAGGTATTCCCCCGGATCAGCAGAGGTTGATCTTTGCTGGCAAGCAGCTGGAGGATGGCCG
* * * * * *
6223515 GACCCTTGCTGATTATAATATTCAGAAAGAGTCAACCCTCCACTTGGTGCTTCGCCTGCGTGGTG
386 AACCCTTGCTGACTACAATATTCAGAAAGAGTCTACCCTCCACTT-GTCCTTCGCCTCCGTGGTG
6223580 GA
450 GA
* * * *
6223582 ATGCAGATATTTGTGAAAACTTTGACTGGTAAAACCATTACGTTGGAGGTGGAGAGCTCTGACAC
1 ATGCAGATCTTTGTGAAAACTTT-ACTGGTAAAACCATCACCTTAGAGGTGGAGAGCTCTGACAC
* *
6223647 GATTGATAATGTTAAGGCCAAGATCCAAGATAAGGAGGGTATCCCACCTGACCAACAGAGGTTGA
65 AATTGATAATGTTAAGGCCAAGATCCAAGACAAGGAGGG-ATCCCACCTGACCAACAGAGGTT-A
* * * * *
6223712 TTTTTGC-CGGAAAGCAGCTCGAGGATGGGAGGACTCTTGCAGACTATAACATTCAAAAGGAGTC
128 TTTTTGCTGGGAAA-CAGCTTGAGGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTC
* * * * * * *
6223776 AACCCTGCATTTGGTTTTGCGCCTTAGAGGAGGGATGCAGATATTTGTCAAGACCTTGACTGGGA
192 AACCCTCCATTTGGTCTTGCGTCTCAGAGGTGGCATGCAGATATTTGTGAAGACCTT-ACTGGGA
* * * *
6223841 AAACCATCACCCTGGAGGTTGAGAGCTCGGATACGATTGACAATGTAAAAGCGAAGATTCAGGAC
256 AAACAATCACCCTGGAGGTTGAGAGCTCCGATACGATTGACAATGTAAAAGCCAAGATCCAGGAC
* * * * * *
6223906 AAGGAGGGAATTCCCCCGGATCAGCAGAGGTTGATCTTTGCTGGGAAGCAGTTGGAGGACGGTCG
321 AAGGAAGGTATTCCCCCGGATCAGCAGAGGTTGATCTTTGCTGGCAAGCAGCTGGAGGATGGCCG
* * * * *
6223971 AACTCTAGCTGACTACAATATTCAGAAGGAGTCTACTCTGCATCTTGTCCTTCGCCTCCGTGGTG
386 AACCCTTGCTGACTACAATATTCAGAAAGAGTCTACCCTCCA-CTTGTCCTTCGCCTCCGTGGTG
6224036 G
450 G
6224037 TTTCTGATTT
Statistics
Matches: 748, Mismatches: 149, Indels: 28
0.81 0.16 0.03
Matches are distributed among these distances:
455 27 0.04
456 710 0.95
457 11 0.01
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (451 bp):
ATGCAGATCTTTGTGAAAACTTTACTGGTAAAACCATCACCTTAGAGGTGGAGAGCTCTGACACA
ATTGATAATGTTAAGGCCAAGATCCAAGACAAGGAGGGATCCCACCTGACCAACAGAGGTTATTT
TTGCTGGGAAACAGCTTGAGGATGGCAGAACCCTTGCAGACTATAACATTCAAAAGGAGTCAACC
CTCCATTTGGTCTTGCGTCTCAGAGGTGGCATGCAGATATTTGTGAAGACCTTACTGGGAAAACA
ATCACCCTGGAGGTTGAGAGCTCCGATACGATTGACAATGTAAAAGCCAAGATCCAGGACAAGGA
AGGTATTCCCCCGGATCAGCAGAGGTTGATCTTTGCTGGCAAGCAGCTGGAGGATGGCCGAACCC
TTGCTGACTACAATATTCAGAAAGAGTCTACCCTCCACTTGTCCTTCGCCTCCGTGGTGGA
Found at i:6228026 original size:22 final size:23
Alignment explanation
Indices: 6227976--6228026 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
6227966 TTTTAATTTT
* *
6227976 ATAT-AATATAAAATATATATAT
1 ATATGAATAAAAAATATATATAA
6227998 ATATGAATAAAAAATAT-TATAA
1 ATATGAATAAAAAATATATATAA
*
6228020 ATTTGAA
1 ATATGAA
6228027 AATAAATCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
ATATGAATAAAAAATATATATAA
Found at i:6243122 original size:27 final size:27
Alignment explanation
Indices: 6243092--6243145 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
6243082 TAAATATATA
6243092 TTTTTTTAAAAAGT-ATTTTTAATTCAT
1 TTTTTTTAAAAA-TAATTTTTAATTCAT
* *
6243119 TTTTTTTAATAATAATTTTTTATTCAT
1 TTTTTTTAAAAATAATTTTTAATTCAT
6243146 AAAATCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (27 bp):
TTTTTTTAAAAATAATTTTTAATTCAT
Found at i:6243454 original size:13 final size:13
Alignment explanation
Indices: 6243438--6243469 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6243428 ATTAGAAAAA
6243438 ATAAATATTAAAT
1 ATAAATATTAAAT
*
6243451 ATAAATATTATAT
1 ATAAATATTAAAT
6243464 ATAAAT
1 ATAAAT
6243470 GAAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAAATATTAAAT
Found at i:6246208 original size:5 final size:5
Alignment explanation
Indices: 6246198--6246225 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6246188 CTCTTTCTCT
6246198 CTCCC CTCCC CTCCC CTCCC CTCCC CTC
1 CTCCC CTCCC CTCCC CTCCC CTCCC CTC
6246226 GCCGCGCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.79, G:0.00, T:0.21
Consensus pattern (5 bp):
CTCCC
Found at i:6251294 original size:29 final size:31
Alignment explanation
Indices: 6251247--6251308 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
6251237 TTGATTTAAT
* *
6251247 GTGTAATTATATACATG-AACTTTAATT-TG
1 GTGTAATTATACACATGAAACTCTAATTGTG
**
6251276 GTGTAATTATACATGTGAAACTCTAATTGTG
1 GTGTAATTATACACATGAAACTCTAATTGTG
6251307 GT
1 GT
6251309 TCAAATGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.52
30 9 0.33
31 4 0.15
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (31 bp):
GTGTAATTATACACATGAAACTCTAATTGTG
Found at i:6265294 original size:3 final size:3
Alignment explanation
Indices: 6265286--6265324 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6265276 CCATATACAA
6265286 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6265325 GAGGAGGAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6265329 original size:3 final size:3
Alignment explanation
Indices: 6265323--6265376 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
6265313 AAGAAGAAGA
*
6265323 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AAGT AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG -AGG AGG AGG AGG
6265369 AGG AGG AG
1 AGG AGG AG
6265377 AAGAAGAAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.63, T:0.02
Consensus pattern (3 bp):
AGG
Found at i:6265381 original size:3 final size:3
Alignment explanation
Indices: 6265375--6265399 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6265365 GAGGAGGAGG
6265375 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
6265400 TTAGGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6268146 original size:3 final size:3
Alignment explanation
Indices: 6268138--6268219 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
6268128 GACCATCTAC
6268138 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
6268186 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
6268220 AGGTTTTTTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6278590 original size:7 final size:7
Alignment explanation
Indices: 6278580--6278616 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
6278570 TTCTCTATTC
6278580 TTTTCCA
1 TTTTCCA
6278587 TTTTCCA
1 TTTTCCA
6278594 TTTTCCA
1 TTTTCCA
6278601 TTTTCCA
1 TTTTCCA
6278608 TTTTCCA
1 TTTTCCA
6278615 TT
1 TT
6278617 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.14, C:0.27, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTCCA
Found at i:6281580 original size:3 final size:3
Alignment explanation
Indices: 6281572--6281596 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6281562 TTATATCCTA
6281572 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
6281597 ATGCCATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:6283407 original size:4 final size:4
Alignment explanation
Indices: 6283398--6283424 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6283388 GGGGGGAAGA
6283398 ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG
6283425 CACCAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:6286769 original size:14 final size:13
Alignment explanation
Indices: 6286752--6286781 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
6286742 ATGACTATAT
6286752 AAAAAAATTTAATA
1 AAAAAAATTTAA-A
6286766 AAAAAAATTTAAA
1 AAAAAAATTTAAA
6286779 AAA
1 AAA
6286782 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAAATTTAAA
Found at i:6292476 original size:344 final size:343
Alignment explanation
Indices: 6291443--6293503 Score: 3955
Period size: 344 Copynumber: 6.0 Consensus size: 343
6291433 CAAGAAATTG
6291443 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAA-
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6291507 TTTTTTT-TTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
66 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
6291571 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
131 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
*
6291636 GACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTAGGGTAAAAAAACCCTAAAAT
196 GACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAAT
*
6291701 TTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAAAAATGTCATGTCAACAA
261 TTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACAA
6291766 AAACCCTCAACAGTTTTC
326 AAACCCTCAACAGTTTTC
*
6291784 AAATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6291849 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
66 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
6291914 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
131 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
6291979 GACATGGTAATCACTTTTTACAGAAAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAA
196 GACATGGTAATCACTTTTTACAG--AAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAA
6292044 ATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAAC
259 ATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAAC
*
6292109 AAAAACTCTCAACAGTTTTC
324 AAAAACCCTCAACAGTTTTC
6292129 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6292194 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
66 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
6292259 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
131 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
6292324 GACATGGTAATCACTTTTTACAGAAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAA
196 GACATGGTAATCACTTTTTACAG-AAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAA
6292389 TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACA
260 TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACA
*
6292454 AAAACTCTCAACAGTTTTC
325 AAAACCCTCAACAGTTTTC
6292473 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6292538 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
66 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
6292603 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
131 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
***
6292668 GACATGGTAATCACTTTTTACAGAAAAAAAAAAAAAATTTATTTTGGGTAAAAAAACCCTAAAAT
196 GACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAAT
6292733 TTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACAA
261 TTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACAA
*
6292798 AAACTCTCAACAGTTTTC
326 AAACCCTCAACAGTTTTC
6292816 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6292881 TTTTTTTATTTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
66 TTTTTTTA-TTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
6292946 TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
130 TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
6293011 AGACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAA
195 AGACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAA
6293076 TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACA
260 TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACA
6293141 AAAACCCTCAACAGTTTTC
325 AAAACCCTCAACAGTTTTC
6293160 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6293225 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
66 TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
*
6293290 TTGATCTAATTTGCTAAACATAAAAAATTTCTAATCATTCCTAAAATAAATCTATGAAGCTAGGA
131 TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
*
6293355 GACATGGTAATCACTTTTTATAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAAT
196 GACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAAT
* *
6293420 TTGAAATCTATTTGATGATTATAAAAATAATTGTAAAAAAGTGCAAAAAAATGTCATGTCAACAA
261 TTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACAA
6293485 AAACCCTCAACAGTTTTC
326 AAACCCTCAACAGTTTTC
6293503 A
1 A
6293504 ACTTGACAAT
Statistics
Matches: 1699, Mismatches: 16, Indels: 8
0.99 0.01 0.00
Matches are distributed among these distances:
341 63 0.04
342 7 0.00
343 607 0.36
344 683 0.40
345 339 0.20
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.37
Consensus pattern (343 bp):
AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
TTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAAT
TTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGGA
GACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAAT
TTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACAA
AAACCCTCAACAGTTTTC
Found at i:6293125 original size:687 final size:687
Alignment explanation
Indices: 6291443--6293503 Score: 3959
Period size: 687 Copynumber: 3.0 Consensus size: 687
6291433 CAAGAAATTG
6291443 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAA-
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6291507 -TTTTTT-TTTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
66 TTTTTTTATTTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
6291570 TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
131 TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
*
6291635 AGACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTAGGGTAAAAAAACCCTAAAA
196 AGACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAA
*
6291700 TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAAAAATGTCATGTCAACA
261 TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACA
*
6291765 AAAACCCTCAACAGTTTTCAAATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGA
326 AAAACCCTCAACAGTTTTCAGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGA
6291830 TCCAGTGGTAAATTTTAATTTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATAT
391 TCCAGTGGTAAATTTTAATTTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATAT
6291895 TAGTATCCTTAAGTTCAATTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAA
456 TAGTATCCTTAAGTTCAATTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAA
6291960 TAAATCTATGAAGCTAGGAGACATGGTAATCACTTTTTACAGAAAAAAAAAACTTAAATTTATTT
521 TAAATCTATGAAGCTAGGAGACATGGTAATCACTTTTTACAGAAAAAAAAAA--TAAATTTATTT
6292025 TGGGTAAAAAAACCCTAAAATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGC
584 TGGGTAAAAAAACCCTAAAATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGC
6292090 AAAGAAATGTCATGTCAACAAAAACTCTCAACAGTTTTC
649 AAAGAAATGTCATGTCAACAAAAACTCTCAACAGTTTTC
6292129 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6292194 TTTTTTTA-TTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
66 TTTTTTTATTTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
6292258 TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
131 TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
6292323 AGACATGGTAATCACTTTTTACAGAAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAA
196 AGACATGGTAATCACTTTTTACAG-AAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAA
6292388 ATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAAC
260 ATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAAC
*
6292453 AAAAACTCTCAACAGTTTTCAGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGG
325 AAAAACCCTCAACAGTTTTCAGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGG
6292518 ATCCAGTGGTAAATTTTAATTTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATA
390 ATCCAGTGGTAAATTTTAATTTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATA
6292583 TTAGTATCCTTAAGTTCAATTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAA
455 TTAGTATCCTTAAGTTCAATTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAA
*
6292648 ATAAATCTATGAAGCTAGGAGACATGGTAATCACTTTTTACAGAAAAAAAAAAAAAATTTATTTT
520 ATAAATCTATGAAGCTAGGAGACATGGTAATCACTTTTTACAGAAAAAAAAAATAAATTTATTTT
6292713 GGGTAAAAAAACCCTAAAATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCA
585 GGGTAAAAAAACCCTAAAATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCA
6292778 AAGAAATGTCATGTCAACAAAAACTCTCAACAGTTTTC
650 AAGAAATGTCATGTCAACAAAAACTCTCAACAGTTTTC
6292816 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
1 AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
6292881 TTTTTTTATTTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
66 TTTTTTTATTTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
6292946 TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
131 TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
6293011 AGACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAA
196 AGACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAA
6293076 TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACA
261 TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACA
6293141 AAAACCCTCAACAGTTTTCAGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGA
326 AAAACCCTCAACAGTTTTCAGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGA
6293206 TCCAGTGGTAAATTTTAATTTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATAT
391 TCCAGTGGTAAATTTTAATTTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATAT
*
6293271 TAGTATCCTTAAGTTCAATTTGATCTAATTTGCTAAACATAAAAAATTTCTAATCATTCCTAAAA
456 TAGTATCCTTAAGTTCAATTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAA
* **
6293336 TAAATCTATGAAGCTAGGAGACATGGTAATCACTTTTTATAGAAAAAAAACTTAAATTTATTTTG
521 TAAATCTATGAAGCTAGGAGACATGGTAATCACTTTTTACAGAAAAAAAAAATAAATTTATTTTG
*
6293401 GGTAAAAAAACCCTAAAATTTGAAATCTATTTGATGATTATAAAAATAATTGTAAAAAAGTGCAA
586 GGTAAAAAAACCCTAAAATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAA
* *
6293466 AAAAATGTCATGTCAACAAAAACCCTCAACAGTTTTC
651 AGAAATGTCATGTCAACAAAAACTCTCAACAGTTTTC
6293503 A
1 A
6293504 ACTTGACAAT
Statistics
Matches: 1356, Mismatches: 14, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
686 64 0.05
687 647 0.48
688 296 0.22
689 349 0.26
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.37
Consensus pattern (687 bp):
AGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGATCCAGTGGTAAATTTTAAT
TTTTTTTATTTTTTTTCATATTTTTTGATACTTTGTTAGAAACATATTAGTATCCTTAAGTTCAA
TTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAATAAATCTATGAAGCTAGG
AGACATGGTAATCACTTTTTACAGAAAAAAAACTTAAATTTATTTTGGGTAAAAAAACCCTAAAA
TTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAAAGAAATGTCATGTCAACA
AAAACCCTCAACAGTTTTCAGATTAATTATAATCAATTAGGGGTAAATCCTCTTCCTGAAATGGA
TCCAGTGGTAAATTTTAATTTTTTTTATTTTTTTCATATTTTTTGATACTTTGTTAGAAACATAT
TAGTATCCTTAAGTTCAATTTGATCTAATTTGCTAAACATAAAAAATTTCTAGTCATTCCTAAAA
TAAATCTATGAAGCTAGGAGACATGGTAATCACTTTTTACAGAAAAAAAAAATAAATTTATTTTG
GGTAAAAAAACCCTAAAATTTGAAATCTATTTGATGATTATCAAAATAATTGTAAAAAAGTGCAA
AGAAATGTCATGTCAACAAAAACTCTCAACAGTTTTC
Found at i:6296975 original size:27 final size:26
Alignment explanation
Indices: 6296945--6296995 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
6296935 GTGCAAGTAG
* *
6296945 CATTTGTATCATATAATGAAGTTTTAC
1 CATTTGCATCACATAATG-AGTTTTAC
*
6296972 CATTTGCATTACATAATGAGTTTT
1 CATTTGCATCACATAATGAGTTTT
6296996 TACTTCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (26 bp):
CATTTGCATCACATAATGAGTTTTAC
Found at i:6299167 original size:3 final size:3
Alignment explanation
Indices: 6299161--6299186 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6299151 AAAAACTTAA
6299161 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
6299187 TGTGTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:6299811 original size:36 final size:36
Alignment explanation
Indices: 6299771--6299839 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
6299761 GGTGAAAATC
*
6299771 CTAAAAATTGAGTTTCCGTTATGAAAGTGAACGCAA
1 CTAAAAATCGAGTTTCCGTTATGAAAGTGAACGCAA
*
6299807 CTAAAAATCGAGTTTCCGTTATGCAAGTGAACG
1 CTAAAAATCGAGTTTCCGTTATGAAAGTGAACG
6299840 TAAGTGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (36 bp):
CTAAAAATCGAGTTTCCGTTATGAAAGTGAACGCAA
Found at i:6306135 original size:60 final size:59
Alignment explanation
Indices: 6306032--6306336 Score: 303
Period size: 59 Copynumber: 5.2 Consensus size: 59
6306022 CAAAAATTGT
* * * *
6306032 ATTTTATCCCCAAAACTTTCCAATATCCCA-TTTTGACCCCGATTTCACCAAAAATTGCC
1 ATTTTA-CCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACC
* * *
6306091 ATTTTACCCCCCAAACTTTCTAAAATTCCATTTTTGACCTCGATTTCACCAAAAATTACT
1 ATTTTA-CCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACC
** * * * * *
6306151 ATTTTACCCCTGAGCTTTCCAAAATTCTATTTTTAACCTCGATTTTACCAAAAATTACC
1 ATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACC
* * * * * *
6306210 ATTTTATCCCCGAACTTTCCAAAATTCTATTTTTGACCCCAATTTTACCAAAAATTATC
1 ATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACC
** * * * **
6306269 ATTTTACCCCTGAACCTTCCAAAATCCCATTTTTAACCCAAATTTTC-CC-AAAATTA-C
1 ATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGA-TTTCACCAAAAATTACC
*
6306326 ATTTTTCCCCC
1 ATTTTACCCCC
6306337 GAAAGTCAAA
Statistics
Matches: 211, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
57 10 0.05
58 7 0.03
59 159 0.75
60 35 0.17
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (59 bp):
ATTTTACCCCCAAACTTTCCAAAATTCCATTTTTGACCCCGATTTCACCAAAAATTACC
Found at i:6306146 original size:30 final size:28
Alignment explanation
Indices: 6306112--6306265 Score: 77
Period size: 30 Copynumber: 5.2 Consensus size: 28
6306102 CAAACTTTCT
6306112 AAAATTCCATTTTTGACCTCGATTTCACCA
1 AAAATTCCATTTTT-ACCTCGATTT-ACCA
* *
6306142 AAAATTAC-TATTTTACCCCTGAGCTTT-CC-
1 AAAATTCCAT-TTTTACCTC-GA--TTTACCA
*
6306171 AAAATTCTATTTTTAACCTCGATTTTACCA
1 AAAATTCCATTTTT-ACCTCGA-TTTACCA
*
6306201 AAAATTACCA-TTTTATCCCCGAACTTT-CC-
1 AAAATT-CCATTTTTA-CCTCG-A-TTTACCA
* * *
6306230 AAAATTCTATTTTTGACCCCAATTTTACCA
1 AAAATTCCATTTTT-ACCTCGA-TTTACCA
6306260 AAAATT
1 AAAATT
6306266 ATCATTTTAC
Statistics
Matches: 97, Mismatches: 12, Indels: 30
0.70 0.09 0.22
Matches are distributed among these distances:
28 9 0.09
29 36 0.37
30 43 0.44
31 6 0.06
32 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (28 bp):
AAAATTCCATTTTTACCTCGATTTACCA
Found at i:6306234 original size:118 final size:117
Alignment explanation
Indices: 6306021--6306335 Score: 352
Period size: 118 Copynumber: 2.7 Consensus size: 117
6306011 CCTAAACTTC
* ** * * * * *
6306021 CCAAAAATTGT-ATTTTATCCCCAAAACTTTCCAATATCCCATTTTGACCCCGATTTCACCAAAA
1 CCAAAAATTATCATTTTA-CCCCTGAACCTTCCAAAATCCCATTTTTAACCCGATTTTACCAAAA
* * * * *
6306085 ATTGCCATTTTACCCCCCAAACTTTCTAAAATTCCATTTTTGACCTCGATTTCA
65 ATTACCATTTTA-TCCCCAAACTTTCCAAAATTCCATTTTTGACCCCAATTTCA
* * * *
6306139 CCAAAAATTA-CTATTTTACCCCTGAGCTTTCCAAAATTCTATTTTTAACCTCGATTTTACCAAA
1 CCAAAAATTATC-ATTTTACCCCTGAACCTTCCAAAATCCCATTTTTAACC-CGATTTTACCAAA
* * *
6306203 AATTACCATTTTATCCCCGAACTTTCCAAAATTCTATTTTTGACCCCAATTTTA
64 AATTACCATTTTATCCCCAAACTTTCCAAAATTCCATTTTTGACCCCAATTTCA
* *
6306257 CCAAAAATTATCATTTTACCCCTGAACCTTCCAAAATCCCATTTTTAACCCAAATTTT-CCCAAA
1 CCAAAAATTATCATTTTACCCCTGAACCTTCCAAAATCCCATTTTTAACCC-GATTTTACCAAAA
6306321 ATTA-CATTTT-TCCCC
65 ATTACCATTTTATCCCC
6306336 CGAAAGTCAA
Statistics
Matches: 168, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
115 5 0.03
116 6 0.04
117 10 0.06
118 116 0.69
119 31 0.18
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (117 bp):
CCAAAAATTATCATTTTACCCCTGAACCTTCCAAAATCCCATTTTTAACCCGATTTTACCAAAAA
TTACCATTTTATCCCCAAACTTTCCAAAATTCCATTTTTGACCCCAATTTCA
Found at i:6306291 original size:30 final size:29
Alignment explanation
Indices: 6306139--6306292 Score: 97
Period size: 30 Copynumber: 5.2 Consensus size: 29
6306129 CTCGATTTCA
*
6306139 CCAAAAATTA-CTATTTTACCCCTGAGCTTT
1 CCAAAAATTATC-ATTTTACCCC-GAACTTT
* * *
6306169 CC-AAAATTCT-ATTTTTAACCTCG-ATTTT
1 CCAAAAATTATCA-TTTT-ACCCCGAACTTT
*
6306197 ACCAAAAATTACCATTTTATCCCCGAACTTT
1 -CCAAAAATTATCATTTTA-CCCCGAACTTT
* *
6306228 CC-AAAATTCT-ATTTTTGACCCC-AATTTT
1 CCAAAAATTATCA-TTTT-ACCCCGAACTTT
*
6306256 ACCAAAAATTATCATTTTACCCCTGAACCTT
1 -CCAAAAATTATCATTTTACCCC-GAACTTT
6306287 CCAAAA
1 CCAAAA
6306293 TCCCATTTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
28 10 0.11
29 35 0.37
30 40 0.42
31 10 0.11
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (29 bp):
CCAAAAATTATCATTTTACCCCGAACTTT
Found at i:6306292 original size:29 final size:28
Alignment explanation
Indices: 6306142--6306293 Score: 89
Period size: 29 Copynumber: 5.2 Consensus size: 28
6306132 GATTTCACCA
*
6306142 AAAATTA-CTATTTTACCCCTGAGCTTTCC
1 AAAATTATC-ATTTTACCCC-GAACTTTCC
* * *
6306171 AAAATTCT-ATTTTTAACCTCG-ATTTTACC
1 AAAATTATCA-TTTT-ACCCCGAACTTT-CC
*
6306200 AAAAATTACCATTTTATCCCCGAACTTTCC
1 -AAAATTATCATTTTA-CCCCGAACTTTCC
* *
6306230 AAAATTCT-ATTTTTGACCCC-AATTTTACC
1 AAAATTATCA-TTTT-ACCCCGAACTTT-CC
*
6306259 AAAAATTATCATTTTACCCCTGAACCTTCC
1 -AAAATTATCATTTTACCCC-GAACTTTCC
6306289 AAAAT
1 AAAAT
6306294 CCCATTTTTA
Statistics
Matches: 94, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
28 10 0.11
29 40 0.43
30 34 0.36
31 10 0.11
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAATTATCATTTTACCCCGAACTTTCC
Found at i:6311077 original size:14 final size:15
Alignment explanation
Indices: 6311055--6311085 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6311045 TTTAAGGTAT
6311055 GATTTTTTTTTCAAA
1 GATTTTTTTTTCAAA
6311070 GATTTTTTTTTCAAA
1 GATTTTTTTTTCAAA
6311085 G
1 G
6311086 TCACTTACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (15 bp):
GATTTTTTTTTCAAA
Found at i:6311381 original size:4 final size:4
Alignment explanation
Indices: 6311372--6311402 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6311362 GGAATAAAGA
6311372 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
6311403 AATTTTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:6316002 original size:15 final size:15
Alignment explanation
Indices: 6315978--6316013 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
6315968 TATTTGGTCC
6315978 AAAATTGAAATTT-T
1 AAAATTGAAATTTAT
6315992 AAAACTTGAAATTTAT
1 AAAA-TTGAAATTTAT
6316008 AAAATT
1 AAAATT
6316014 TAAAAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 11 0.55
16 5 0.25
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (15 bp):
AAAATTGAAATTTAT
Found at i:6323227 original size:15 final size:16
Alignment explanation
Indices: 6323199--6323228 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6323189 TTCCCCTAAG
6323199 AAAATAATGAAATATC
1 AAAATAATGAAATATC
6323215 AAAATAA-GAAATAT
1 AAAATAATGAAATAT
6323229 GTACAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (16 bp):
AAAATAATGAAATATC
Found at i:6328507 original size:8 final size:8
Alignment explanation
Indices: 6328484--6328537 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
6328474 GATAAATTAA
6328484 AAAAAG-G
1 AAAAAGAG
6328491 AAAAGAGAG
1 AAAA-AGAG
6328500 AAAAAGAG
1 AAAAAGAG
*
6328508 AAAAAGAA
1 AAAAAGAG
6328516 AAAGAAGAG
1 AAA-AAGAG
*
6328525 AAGAAAAAG
1 AA-AAAGAG
6328534 AAAA
1 AAAA
6328538 GAGGAGGTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
7 4 0.10
8 18 0.45
9 17 0.43
10 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AAAAAGAG
Found at i:6328511 original size:25 final size:27
Alignment explanation
Indices: 6328483--6328542 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 27
6328473 AGATAAATTA
*
6328483 AAAAAAGGAAAAG-AGAGAA-AAAGAG
1 AAAAAAGGAAAAGAAGAGAAGAAAAAG
*
6328508 -AAAAAGAAAAAGAAGAGAAGAAAAAG
1 AAAAAAGGAAAAGAAGAGAAGAAAAAG
*
6328534 AAAAGAGGA
1 AAAAAAGGA
6328543 GGTCGAGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 11 0.39
25 6 0.21
26 5 0.18
27 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (27 bp):
AAAAAAGGAAAAGAAGAGAAGAAAAAG
Found at i:6328517 original size:14 final size:14
Alignment explanation
Indices: 6328498--6328535 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6328488 AGGAAAAGAG
6328498 AGAAAAAG-AGAAAA
1 AGAAAAAGAAG-AAA
*
6328512 AGAAAAAGAAGAGA
1 AGAAAAAGAAGAAA
6328526 AGAAAAAGAA
1 AGAAAAAGAA
6328536 AAGAGGAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAGAAA
Found at i:6329517 original size:50 final size:50
Alignment explanation
Indices: 6329454--6329599 Score: 193
Period size: 50 Copynumber: 2.9 Consensus size: 50
6329444 ATCTTTTACC
* * *
6329454 CCTAAAGCAGTGGAGGTGTAGATTGAAACTGCAACGGTAAATCTCATACA
1 CCTAAAGCTGTGGAGGTGCAGATTGAAACTGCAATGGTAAATCTCATACA
* *
6329504 CCTAAAGCTGTGGAGGTGCAGATTGAAACCGCAATGGAAAATCTCATACA
1 CCTAAAGCTGTGGAGGTGCAGATTGAAACTGCAATGGTAAATCTCATACA
* * * * * *
6329554 CCAAAAGCTGTAGAGGGGCAGAATGAAGCTGTAATGGTAAATCTCA
1 CCTAAAGCTGTGGAGGTGCAGATTGAAACTGCAATGGTAAATCTCA
6329600 ATCATTTAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (50 bp):
CCTAAAGCTGTGGAGGTGCAGATTGAAACTGCAATGGTAAATCTCATACA
Found at i:6329920 original size:80 final size:80
Alignment explanation
Indices: 6329704--6331531 Score: 2912
Period size: 80 Copynumber: 22.8 Consensus size: 80
6329694 TTACCCTAAC
* * * *
6329704 CCGATCTTTTACCCTGATCATGAGCCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
*
6329769 AAGAATGAAGACCAT
66 AAGATTGAAGACCAT
* * * *
6329784 CCGATATTTTACCCCCGATCATGGGGCAAATTGAAGAAATCTAATCTTTTAACCTAACTAGAGGG
1 CCGATCTTTTA-CCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGG
*
6329849 TAAGATTGAAGACCAT
65 CAAGATTGAAGACCAT
* *
6329865 CCAATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6329930 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* * * * *
6329945 CCGATCTTTTA-CCCAATCATGGGGCAGATTGAAAAAATTTAATCTTTTACCCTAACAAGAGGGT
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
*
6330009 AAGATTAAAGACCAT
66 AAGATTGAAGACCAT
* * * *
6330024 TCGATCTTTTACCCCGATCATGAGACAGATTGAAGAAATCTAATCTTTTACCCTAACTAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330089 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* * *
6330104 CCGATCTTTTAGATCACCCGATCATAGGGCAGATTG-A-AAATCCAATATTTTACCCTAACCAGA
1 CCGATCTTTT--A-C-CCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGA
6330167 GGGCAAGATTGAAGACCAT
62 GGGCAAGATTGAAGACCAT
* * *
6330186 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACAAGAGGGT
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330251 AAGATT-AAGACCAT
66 AAGATTGAAGACCAT
*
6330265 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACGAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330330 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* * * *
6330345 CCGATCTTTTATCCCGATCATGGGGTAGATTGAAGAAATC-CATCTTTTACCCTAACGAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330409 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* *
6330424 CCGATCTTTTACCCCGATCATGGGGTAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330489 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
*
6330504 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACGAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330569 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* * * *
6330584 CCGATCTTTTATCCCGATCATGGGGTAGATTGAAGAAATCCAATCTTTTACCCTAACGAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330649 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* *
6330664 CCGATCTTTTACCCCGATCATGGGGTAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330729 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
*
6330744 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAG-AATCTAATCTTTTACCCTAACGAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330808 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* * * *
6330823 CCGATCTTTTATCCCGATCATGGGGTAGATTGAAGAAATCCAATCTTTTACCCTAACGAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330888 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* * *
6330903 CCGATCTTTTACCCTGATCATGGGGTAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6330968 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* *
6330983 CCGATCTTTTACCCCGATCATGAGGCAGATTGAAGAAATCTAATCTTTTACCCTAACAAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
* *
6331048 AAGATTAAATACCAT
66 AAGATTGAAGACCAT
* *
6331063 CCGATCTTTTACCCCGATCATAGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACTAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6331128 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* * * * *
6331143 CCGATCTTTTACCTCGATCATGGAGCAGATTGAAAAAATCCAATCTTTTACCCTAACCACCAGAG
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCA-GAG-G
6331208 GCAAGATTGAAGACCAT
64 GCAAGATTGAAGACCAT
* *
6331225 CCGATCTTTTACCTCGATCATGGAGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
*
6331290 AAGATTAAAGACCAT
66 AAGATTGAAGACCAT
* * * *
6331305 CCGATCTTTTACCCGGATCATGGGGCAAATTAAAGAAATCTAATCTTTTACCCTAACGAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6331370 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
* *
6331385 CCGATTTTTTACCTCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6331450 AAGATTGAAGACCAT
66 AAGATTGAAGACCAT
*
6331465 CCGATCTTTTACCCCGATCATGGGGTAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
1 CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
6331530 AA
66 AA
6331532 TCTAATCTTT
Statistics
Matches: 1625, Mismatches: 110, Indels: 26
0.92 0.06 0.01
Matches are distributed among these distances:
78 19 0.01
79 301 0.19
80 1085 0.67
81 73 0.04
82 128 0.08
83 2 0.00
84 17 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (80 bp):
CCGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
AAGATTGAAGACCAT
Found at i:6331543 original size:29 final size:29
Alignment explanation
Indices: 6331501--6331560 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
6331491 AGATTGAAGA
6331501 AATCTAATCTTTTACCCTAACCAGAGGGC
1 AATCTAATCTTTTACCCTAACCAGAGGGC
6331530 AATCTAATCTTTTACCCTAACCAGAGGGC
1 AATCTAATCTTTTACCCTAACCAGAGGGC
6331559 AA
1 AA
6331561 GATTGAAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (29 bp):
AATCTAATCTTTTACCCTAACCAGAGGGC
Found at i:6331612 original size:109 final size:109
Alignment explanation
Indices: 6331421--6331639 Score: 420
Period size: 109 Copynumber: 2.0 Consensus size: 109
6331411 AGATTGAAGA
6331421 AATCTAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCAT
1 AATCTAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCAT
*
6331486 GGGGTAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGC
66 GGGGTAGATTGAAGAAATCTAATCTTTTACCCTAACCAAAGGGC
*
6331530 AATCTAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCGT
1 AATCTAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCAT
6331595 GGGGTAGATTGAAGAAATCTAATCTTTTACCCTAACCAAAGGGC
66 GGGGTAGATTGAAGAAATCTAATCTTTTACCCTAACCAAAGGGC
6331639 A
1 A
6331640 GATTGAAGAC
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (109 bp):
AATCTAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCAT
GGGGTAGATTGAAGAAATCTAATCTTTTACCCTAACCAAAGGGC
Found at i:6331679 original size:40 final size:39
Alignment explanation
Indices: 6331535--6331705 Score: 123
Period size: 39 Copynumber: 4.3 Consensus size: 39
6331525 AGGGCAATCT
* *
6331535 AATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACCATCC
1 AATCTTTTACCC-GACCATG-GGGC-AGATTGAAGACCATCA
* * * * * *
6331576 GATCTTTTACCCCGATCGTGGGGTAGATTGAAGA-AATCT
1 AATCTTTTA-CCCGACCATGGGGCAGATTGAAGACCATCA
* **
6331615 AATCTTTTACCCTAACCAAAGGGCAGATTGAAGACCATCA
1 AATCTTTTACCC-GACCATGGGGCAGATTGAAGACCATCA
* * * *
6331655 AATCTCTTACCTCGACCATGGGGCAAATTGAA-ACAATCT
1 AATCTTTTACC-CGACCATGGGGCAGATTGAAGACCATCA
*
6331694 AATTTTTTACCC
1 AATCTTTTACCC
6331706 TAAAGTTATA
Statistics
Matches: 100, Mismatches: 25, Indels: 13
0.72 0.18 0.09
Matches are distributed among these distances:
38 4 0.04
39 40 0.40
40 38 0.38
41 14 0.14
42 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (39 bp):
AATCTTTTACCCGACCATGGGGCAGATTGAAGACCATCA
Found at i:6331685 original size:79 final size:80
Alignment explanation
Indices: 6331529--6331708 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 80
6331519 AACCAGAGGG
* ** * * *
6331529 CAATCTAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCG
1 CAATCTAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGACCATCAAATCTCTTACCCCGACCA
* *
6331594 TGGGGTAGATTGAAGA
66 TGGGGCAAATTGAA-A
*
6331610 -AATCTAATCTTTTACCCTAACCAAAGGGC-AGATTGAAGACCATCAAATCTCTTACCTCGACCA
1 CAATCTAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGACCATCAAATCTCTTACCCCGACCA
6331673 TGGGGCAAATTGAAA
66 TGGGGCAAATTGAAA
*
6331688 CAATCTAATTTTTTACCCTAA
1 CAATCTAATCTTTTACCCTAA
6331709 AGTTATAGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 59 0.67
80 28 0.32
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (80 bp):
CAATCTAATCTTTTACCCTAACCAAAGGGCAAGATTGAAGACCATCAAATCTCTTACCCCGACCA
TGGGGCAAATTGAAA
Found at i:6334626 original size:22 final size:22
Alignment explanation
Indices: 6334601--6334643 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6334591 TGGATGCATT
*
6334601 AATTTTTTTATATATATAATAC
1 AATTTATTTATATATATAATAC
* *
6334623 AATTTATTTGTGTATATAATA
1 AATTTATTTATATATATAATA
6334644 TATGTAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
AATTTATTTATATATATAATAC
Found at i:6341115 original size:18 final size:18
Alignment explanation
Indices: 6341092--6341134 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
6341082 GTTCAAGTTG
6341092 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
6341110 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
6341128 TAATTAA
1 TAATTAA
6341135 AAATCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:6356986 original size:17 final size:15
Alignment explanation
Indices: 6356954--6356989 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
6356944 ATATTCATAA
6356954 AATAATAAATAAATT
1 AATAATAAATAAATT
6356969 AATAATAAAATAAAATT
1 AATAAT-AAAT-AAATT
6356986 AATA
1 AATA
6356990 TTATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 4 0.21
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAAATAAATT
Found at i:6357004 original size:63 final size:67
Alignment explanation
Indices: 6356889--6357042 Score: 239
Period size: 67 Copynumber: 2.4 Consensus size: 67
6356879 TTAATTATTT
6356889 ATAAT-AATAAATAAATAATAAAATAAAATTAATATTATTTTACATTTATTTATTTATATTCAT-
1 ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACA-TTATTTATTTATATTCATA
6356952 AAA
65 AAA
*
6356955 ATAATAAATAAATTAATAATAAAATAAAATTAATATTA-TTTA-A-TATTTATTTATATTCATAA
1 ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACATTATTTATTTATATTCATAA
6357017 AA
66 AA
6357019 ATAA-AAATAAATAAATAAATAAAA
1 ATAATAAATAAATAAAT-AATAAAA
6357043 ATAATAAGAA
Statistics
Matches: 83, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
63 28 0.34
64 14 0.17
65 1 0.01
66 9 0.11
67 31 0.37
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (67 bp):
ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACATTATTTATTTATATTCATAA
AA
Found at i:6357056 original size:18 final size:18
Alignment explanation
Indices: 6357015--6357056 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6357005 TTATATTCAT
6357015 AAAAATAAAAATAAATAA
1 AAAAATAAAAATAAATAA
*
6357033 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
6357050 GAAAAAT
1 -AAAAAT
6357057 GGAATTGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:6357117 original size:15 final size:16
Alignment explanation
Indices: 6357097--6357126 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6357087 GGGTTTGTAC
6357097 ATATTTC-TTATTTTG
1 ATATTTCATTATTTTG
6357112 ATATTTCATTATTTT
1 ATATTTCATTATTTT
6357127 CTTGGGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (16 bp):
ATATTTCATTATTTTG
Found at i:6360547 original size:17 final size:15
Alignment explanation
Indices: 6360515--6360550 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
6360505 ATATTCATAA
6360515 AATAATAAATAAATT
1 AATAATAAATAAATT
6360530 AATAATAAAATAAAATT
1 AATAAT-AAAT-AAATT
6360547 AATA
1 AATA
6360551 TTATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 4 0.21
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAAATAAATT
Found at i:6360565 original size:63 final size:67
Alignment explanation
Indices: 6360450--6360603 Score: 239
Period size: 67 Copynumber: 2.4 Consensus size: 67
6360440 TTAATTATTT
6360450 ATAAT-AATAAATAAATAATAAAATAAAATTAATATTATTTTACATTTATTTATTTATATTCAT-
1 ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACA-TTATTTATTTATATTCATA
6360513 AAA
65 AAA
*
6360516 ATAATAAATAAATTAATAATAAAATAAAATTAATATTA-TTTA-A-TATTTATTTATATTCATAA
1 ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACATTATTTATTTATATTCATAA
6360578 AA
66 AA
6360580 ATAA-AAATAAATAAATAAATAAAA
1 ATAATAAATAAATAAAT-AATAAAA
6360604 ATAATAAGAA
Statistics
Matches: 83, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
63 28 0.34
64 14 0.17
65 1 0.01
66 9 0.11
67 31 0.37
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (67 bp):
ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACATTATTTATTTATATTCATAA
AA
Found at i:6360617 original size:18 final size:18
Alignment explanation
Indices: 6360576--6360617 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6360566 TTATATTCAT
6360576 AAAAATAAAAATAAATAA
1 AAAAATAAAAATAAATAA
*
6360594 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
6360611 GAAAAAT
1 -AAAAAT
6360618 GGAATTGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:6360678 original size:15 final size:16
Alignment explanation
Indices: 6360658--6360687 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6360648 GGGTTTGTAC
6360658 ATATTTC-TTATTTTG
1 ATATTTCATTATTTTG
6360673 ATATTTCATTATTTT
1 ATATTTCATTATTTT
6360688 CTTGGGGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (16 bp):
ATATTTCATTATTTTG
Found at i:6364108 original size:17 final size:15
Alignment explanation
Indices: 6364076--6364111 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
6364066 ATATTCATAA
6364076 AATAATAAATAAATT
1 AATAATAAATAAATT
6364091 AATAATAAAATAAAATT
1 AATAAT-AAAT-AAATT
6364108 AATA
1 AATA
6364112 TTATTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 4 0.21
17 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAAATAAATT
Found at i:6364126 original size:63 final size:67
Alignment explanation
Indices: 6364011--6364164 Score: 230
Period size: 67 Copynumber: 2.4 Consensus size: 67
6364001 TTAATTATTT
6364011 ATAAT-AATAAATAAATAATAAAATAAAATTAATATTATTTTACATTTATTTATTTATATTCAT-
1 ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACA-TTATTTATTTATATTCATA
6364074 AAA
65 AAA
* *
6364077 ATAATAAATAAATTAATAATAAAATAAAATTAATATTA-TTTA-A-TATTTATTTATGTTCATAA
1 ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACATTATTTATTTATATTCATAA
6364139 AA
66 AA
6364141 ATAA-AAATAAATAAATAAATAAAA
1 ATAATAAATAAATAAAT-AATAAAA
6364165 ATAATAAGAA
Statistics
Matches: 82, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
63 27 0.33
64 14 0.17
65 1 0.01
66 9 0.11
67 31 0.38
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.40
Consensus pattern (67 bp):
ATAATAAATAAATAAATAATAAAATAAAATTAATATTATTTTACATTATTTATTTATATTCATAA
AA
Found at i:6364178 original size:18 final size:18
Alignment explanation
Indices: 6364137--6364178 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
6364127 TTATGTTCAT
6364137 AAAAATAAAAATAAATAA
1 AAAAATAAAAATAAATAA
*
6364155 ATAAATAAAAAT-AATAA
1 AAAAATAAAAATAAATAA
6364172 GAAAAAT
1 -AAAAAT
6364179 GGAATTGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAAATAAAAATAAATAA
Found at i:6364239 original size:15 final size:16
Alignment explanation
Indices: 6364219--6364248 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6364209 GGGTTTGTAC
6364219 ATATTTC-TTATTTTG
1 ATATTTCATTATTTTG
6364234 ATATTTCATTATTTT
1 ATATTTCATTATTTT
6364249 CTTGGGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (16 bp):
ATATTTCATTATTTTG
Found at i:6370582 original size:15 final size:15
Alignment explanation
Indices: 6370554--6370589 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
6370544 ATGATTTTTA
6370554 AATTTTATAAATTTC
1 AATTTTATAAATTTC
6370569 AAGTTTTA-AAATTTC
1 AA-TTTTATAAATTTC
6370584 AATTTT
1 AATTTT
6370590 GGACCAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 11 0.55
16 5 0.25
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (15 bp):
AATTTTATAAATTTC
Found at i:6370626 original size:2 final size:2
Alignment explanation
Indices: 6370619--6370673 Score: 96
Period size: 2 Copynumber: 28.5 Consensus size: 2
6370609 AAATTTGTCA
6370619 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6370660 AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT A
6370674 ATTTTACTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 49 0.96
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6370785 original size:15 final size:15
Alignment explanation
Indices: 6370757--6370792 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
6370747 ATGATTTTTA
6370757 AATTTTATAAATTTC
1 AATTTTATAAATTTC
6370772 AAGTTTTA-AAATTTC
1 AA-TTTTATAAATTTC
6370787 AATTTT
1 AATTTT
6370793 GGACCAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 11 0.55
16 5 0.25
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (15 bp):
AATTTTATAAATTTC
Found at i:6370829 original size:2 final size:2
Alignment explanation
Indices: 6370822--6370867 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
6370812 AAATTTGTCA
6370822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6370864 AT AT
1 AT AT
6370868 TAATATTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6373909 original size:34 final size:33
Alignment explanation
Indices: 6373866--6373929 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
6373856 TTAAAAAATA
*
6373866 TATAAAATTGAATCAAAACAAAATTTCATGTGTG
1 TATAAAATTGAAGCAAAACAAAA-TTCATGTGTG
* * *
6373900 TATATAATTGTAGCAAATCAAAATTCATGT
1 TATAAAATTGAAGCAAAACAAAATTCATGT
6373930 ATCAGATTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 7 0.27
34 19 0.73
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (33 bp):
TATAAAATTGAAGCAAAACAAAATTCATGTGTG
Found at i:6376573 original size:16 final size:17
Alignment explanation
Indices: 6376540--6376573 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6376530 CATCTACAAA
*
6376540 AAAAGTTTAATTTATCT
1 AAAAGTTTAATCTATCT
6376557 AAAAGTTT-ATCTATCT
1 AAAAGTTTAATCTATCT
6376573 A
1 A
6376574 TCTATCTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (17 bp):
AAAAGTTTAATCTATCT
Found at i:6378134 original size:17 final size:17
Alignment explanation
Indices: 6378064--6378138 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 17
6378054 GTAAAAAATA
* *
6378064 GTTACAAGAATATGAAAA
1 GTTA-AAGAATATGGAAG
* *
6378082 GTTAAGGAAGATGGAAG
1 GTTAAAGAATATGGAAG
** * *
6378099 GTTAAAGGTTAAGGGAG
1 GTTAAAGAATATGGAAG
6378116 GTTAAAGAATATGGAAG
1 GTTAAAGAATATGGAAG
6378133 GTTAAA
1 GTTAAA
6378139 AGTCAAAAGA
Statistics
Matches: 43, Mismatches: 14, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
17 39 0.91
18 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.31, T:0.23
Consensus pattern (17 bp):
GTTAAAGAATATGGAAG
Found at i:6382986 original size:33 final size:34
Alignment explanation
Indices: 6382949--6383012 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
6382939 TCATATAAAT
* * *
6382949 ATAAGTAGTCCTTTAAC-AAACTTTCAAGCAAAC
1 ATAAGTAATCCCTTAACAAAACTTGCAAGCAAAC
6382982 ATAAGTAATCCCTTAACAAAACTTGCAAGCA
1 ATAAGTAATCCCTTAACAAAACTTGCAAGCA
6383013 TAATATAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 15 0.56
34 12 0.44
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (34 bp):
ATAAGTAATCCCTTAACAAAACTTGCAAGCAAAC
Found at i:6386744 original size:101 final size:101
Alignment explanation
Indices: 6386607--6386828 Score: 390
Period size: 101 Copynumber: 2.2 Consensus size: 101
6386597 GTATCCTAAT
* *
6386607 AGCTTGTGTGAGAAGCATCGCAAGTTGACAGATTCTGAATGAATACTGAATTGTGGACCCCTCCG
1 AGCTTGTGTGAGCAGCATCGCAAGTTGACAGATTCTGAATGAATACTGAATTGTGAACCCCTCCG
* *
6386672 ATGGCTGAGTCTTCGCGTATGTTGCAAATTTTCATC
66 ATGGCTGAGTCTTCGCGTATGTTGCAAATTCTCACC
*
6386708 AGCTTGTGTGAGCAGCATCGCAAGTTGACAGATTCTGAATGAATACTGAATTGTGAACCTCTCCG
1 AGCTTGTGTGAGCAGCATCGCAAGTTGACAGATTCTGAATGAATACTGAATTGTGAACCCCTCCG
*
6386773 ATGGCTGAGTCTTCGCGTATGTTGCGAATTCTCACC
66 ATGGCTGAGTCTTCGCGTATGTTGCAAATTCTCACC
6386809 AGCTTGTGTGAGCAGCATCG
1 AGCTTGTGTGAGCAGCATCG
6386829 AGAGTGGGAA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 115 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (101 bp):
AGCTTGTGTGAGCAGCATCGCAAGTTGACAGATTCTGAATGAATACTGAATTGTGAACCCCTCCG
ATGGCTGAGTCTTCGCGTATGTTGCAAATTCTCACC
Found at i:6386948 original size:24 final size:24
Alignment explanation
Indices: 6386920--6386993 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
6386910 GTATACTCGT
6386920 TAACCATTTTGGGCTCGTAAGAGC
1 TAACCATTTTGGGCTCGTAAGAGC
* * *
6386944 TAACCATTCT-AGCTCGTAAGAGT
1 TAACCATTTTGGGCTCGTAAGAGC
*
6386967 TAACCATTTTGGGCTCGTGAGAGC
1 TAACCATTTTGGGCTCGTAAGAGC
6386991 TAA
1 TAA
6386994 TGTTGTCTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 20 0.48
24 22 0.52
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (24 bp):
TAACCATTTTGGGCTCGTAAGAGC
Found at i:6398497 original size:216 final size:216
Alignment explanation
Indices: 6398123--6398770 Score: 1287
Period size: 216 Copynumber: 3.0 Consensus size: 216
6398113 TTAAGATATG
6398123 ATTAAAATATATTTTTATTATTTTTCTGTTGATTTACAATCGCGATTTACTGTATACAAGATTTT
1 ATTAAAATATATTTTTATTATTTTTCTGTTGATTTACAATCGCGATTTACTGTATACAAGATTTT
6398188 CAGAATTTTACGGATTACAATACAGTTCGCGATATTATACAATACAGTTTGTAATTCTAAACCGA
66 CAGAATTTTACGGATTACAATACAGTTCGCGATATTATACAATACAGTTTGTAATTCTAAACCGA
6398253 GTGAATCCATTAGTTTTAATTACAAAATTTGAGTGCAGACATTTTATTTTGGAAATTTTAACTCA
131 GTGAATCCATTAGTTTTAATTACAAAATTTGAGTGCAGACATTTTATTTTGGAAATTTTAACTCA
6398318 CTCAGACAATAAAAGTGTTTA
196 CTCAGACAATAAAAGTGTTTA
6398339 ATTAAAATATATTTTTATTATTTTTCTGTTGATTTACAATCGCGATTTACTGTATACAAGATTTT
1 ATTAAAATATATTTTTATTATTTTTCTGTTGATTTACAATCGCGATTTACTGTATACAAGATTTT
6398404 CAGAATTTTACGGATTACAATACAGTTCGCGATATTATACAATACAGTTTGTAATTCTAAACCGA
66 CAGAATTTTACGGATTACAATACAGTTCGCGATATTATACAATACAGTTTGTAATTCTAAACCGA
6398469 GTGAATCCATTAGTTTTAATTACAAAATTTGAGTGCAGACATTTTATTTTGGAAATTTTAACTCA
131 GTGAATCCATTAGTTTTAATTACAAAATTTGAGTGCAGACATTTTATTTTGGAAATTTTAACTCA
6398534 CTCAGACAATAAAAGTGTTTA
196 CTCAGACAATAAAAGTGTTTA
6398555 ATTAAAATATATTTTTATTATTTTTCTGTTGATTTACAATCGCGATTTACTGTATACAAGATTTT
1 ATTAAAATATATTTTTATTATTTTTCTGTTGATTTACAATCGCGATTTACTGTATACAAGATTTT
6398620 CAGAATTTTACGGATTACAATACAGTTCGCGATATTATACAATACAGTTTGTAATTCTAAACCGA
66 CAGAATTTTACGGATTACAATACAGTTCGCGATATTATACAATACAGTTTGTAATTCTAAACCGA
6398685 GTGAATCCATTAGTTTTAATTACAAAATTTGAGTGCAGACATTTTATTTTGGAAATTTTAACTCA
131 GTGAATCCATTAGTTTTAATTACAAAATTTGAGTGCAGACATTTTATTTTGGAAATTTTAACTCA
6398750 CTCAGACAATAAAAAGTGTTT
196 CTCAGACAAT-AAAAGTGTTT
6398771 TGTTATTTGT
Statistics
Matches: 431, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
216 421 0.98
217 10 0.02
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (216 bp):
ATTAAAATATATTTTTATTATTTTTCTGTTGATTTACAATCGCGATTTACTGTATACAAGATTTT
CAGAATTTTACGGATTACAATACAGTTCGCGATATTATACAATACAGTTTGTAATTCTAAACCGA
GTGAATCCATTAGTTTTAATTACAAAATTTGAGTGCAGACATTTTATTTTGGAAATTTTAACTCA
CTCAGACAATAAAAGTGTTTA
Found at i:6404695 original size:32 final size:31
Alignment explanation
Indices: 6404643--6404704 Score: 97
Period size: 32 Copynumber: 2.0 Consensus size: 31
6404633 ATTTTTAAAA
* *
6404643 GGTTATTTATACAAATCCTTGAAGAAATTAT
1 GGTTATTAATACAAACCCTTGAAGAAATTAT
6404674 GGTTGATTAATACAAACCCTTGAAGAAATTA
1 GGTT-ATTAATACAAACCCTTGAAGAAATTA
6404705 AGATCGATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 4 0.14
32 24 0.86
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (31 bp):
GGTTATTAATACAAACCCTTGAAGAAATTAT
Found at i:6404714 original size:32 final size:32
Alignment explanation
Indices: 6404651--6404714 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
6404641 AAGGTTATTT
* * * *
6404651 ATACAAATCCTTGAAGAAATTATGGTTGATTA
1 ATACAAACCCTTGAAGAAATTAAGATCGATTA
6404683 ATACAAACCCTTGAAGAAATTAAGATCGATTA
1 ATACAAACCCTTGAAGAAATTAAGATCGATTA
6404715 GAAAATTTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (32 bp):
ATACAAACCCTTGAAGAAATTAAGATCGATTA
Found at i:6405089 original size:17 final size:18
Alignment explanation
Indices: 6405046--6405084 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
6405036 ATTACTTCTC
*
6405046 AAAAATACTTTTAAAATA
1 AAAAATATTTTTAAAATA
6405064 AAAAATATTTTTAAAATA
1 AAAAATATTTTTAAAATA
6405082 AAA
1 AAA
6405085 GTATTACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATATTTTTAAAATA
Found at i:6405180 original size:21 final size:19
Alignment explanation
Indices: 6405155--6405210 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
6405145 TAAAAAATAC
6405155 TTTTTTAATCAAAAAAATT
1 TTTTTTAATCAAAAAAATT
** *
6405174 TAATTTTTTCTCAAAAATATT
1 T--TTTTTAATCAAAAAAATT
6405195 TTTTTTAACTCAAAAA
1 TTTTTTAA-TCAAAAA
6405211 CACTTTTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 6 0.21
20 7 0.24
21 16 0.55
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTTTAATCAAAAAAATT
Found at i:6405200 original size:20 final size:21
Alignment explanation
Indices: 6405157--6405210 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
6405147 AAAAATACTT
6405157 TTTTAA-TCAAAAAAATTTAA
1 TTTTAACTCAAAAAAATTTAA
** * *
6405177 TTTTTTCTCAAAAATATTT-T
1 TTTTAACTCAAAAAAATTTAA
6405197 TTTTAACTCAAAAA
1 TTTTAACTCAAAAA
6405211 CACTTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTTAACTCAAAAAAATTTAA
Found at i:6407432 original size:27 final size:27
Alignment explanation
Indices: 6407398--6407460 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
6407388 TTCATATTTT
* * *
6407398 TTTTTAAAATCGATTTATATCTC-TAAA
1 TTTTTAAAAGCAACTTATATC-CATAAA
*
6407425 TTTTTAAAAGCAACTTATTTCCATAAA
1 TTTTTAAAAGCAACTTATATCCATAAA
6407452 TTTTTAAAA
1 TTTTTAAAA
6407461 ACACAATCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (27 bp):
TTTTTAAAAGCAACTTATATCCATAAA
Found at i:6419141 original size:16 final size:17
Alignment explanation
Indices: 6419120--6419155 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6419110 ATTTACATCG
*
6419120 ATATTTTATATAATT-A
1 ATATTTTAAATAATTCA
6419136 ATATTTTAAATAATTCA
1 ATATTTTAAATAATTCA
6419153 ATA
1 ATA
6419156 GTAGAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTTTAAATAATTCA
Found at i:6419843 original size:7 final size:7
Alignment explanation
Indices: 6419831--6419859 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
6419821 ATCTGAAAAG
6419831 AAAATAA
1 AAAATAA
6419838 AAAATAA
1 AAAATAA
6419845 AAAATAA
1 AAAATAA
6419852 AAAA-AA
1 AAAATAA
6419858 AA
1 AA
6419860 GAATGCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (7 bp):
AAAATAA
Found at i:6419850 original size:14 final size:13
Alignment explanation
Indices: 6419826--6419859 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
6419816 TTGACATCTG
*
6419826 AAAAGAAAATAAA
1 AAAAAAAAATAAA
6419839 AAATAAAAAATAAA
1 AAA-AAAAAATAAA
6419853 AAAAAAA
1 AAAAAAA
6419860 GAATGCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (13 bp):
AAAAAAAAATAAA
Found at i:6420396 original size:16 final size:16
Alignment explanation
Indices: 6420375--6420405 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6420365 CATGTTATAG
6420375 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
6420391 CATATATATTTGAAA
1 CATATAAATTTGAAA
6420406 ATTTTTCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:6421159 original size:23 final size:21
Alignment explanation
Indices: 6421108--6421159 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
6421098 TATCAATTAT
*
6421108 TTTA-TTTTATATTTATTAAT
1 TTTATTTTTATATTTATTAAA
6421128 TTCTCATTTTTATATTATATTAAAA
1 TT-T-ATTTTTATATT-TATT-AAA
6421153 TTTATTT
1 TTTATTT
6421160 AATTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.08
21 1 0.04
22 1 0.04
23 13 0.50
24 5 0.19
25 4 0.15
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTTTTATATTTATTAAA
Found at i:6433660 original size:15 final size:15
Alignment explanation
Indices: 6433637--6433666 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6433627 AACAACCTGC
*
6433637 TCAACATCATCTCTG
1 TCAAAATCATCTCTG
6433652 TCAAAATCATCTCTG
1 TCAAAATCATCTCTG
6433667 CCCTGGCTGC
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:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (15 bp):
TCAAAATCATCTCTG
Found at i:6434311 original size:90 final size:90
Alignment explanation
Indices: 6434210--6434392 Score: 357
Period size: 90 Copynumber: 2.0 Consensus size: 90
6434200 AAGTTAACTT
6434210 GAACCCATATTCTATTATACATTTTTTAAATATTTTATTTTCTTAAATAAAAAATAAAGAAAAGA
1 GAACCCATATTCTATTATACATTTTTTAAATATTTTATTTTCTTAAATAAAAAATAAAGAAAAGA
6434275 TGTAACGACCAATTTTATTAGTGTC
66 TGTAACGACCAATTTTATTAGTGTC
6434300 GAACCCATATTCTATTATACATTTTTTAAATATTTTATTTTCTTAAATAAAAAATAAAGAAAAGA
1 GAACCCATATTCTATTATACATTTTTTAAATATTTTATTTTCTTAAATAAAAAATAAAGAAAAGA
*
6434365 TGTAACGATCAATTTTATTAGTGTC
66 TGTAACGACCAATTTTATTAGTGTC
6434390 GAA
1 GAA
6434393 AAATTTAATT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 92 1.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (90 bp):
GAACCCATATTCTATTATACATTTTTTAAATATTTTATTTTCTTAAATAAAAAATAAAGAAAAGA
TGTAACGACCAATTTTATTAGTGTC
Found at i:6437955 original size:13 final size:13
Alignment explanation
Indices: 6437937--6437961 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6437927 AACCGACATT
6437937 ACTTTAAAATATC
1 ACTTTAAAATATC
6437950 ACTTTAAAATAT
1 ACTTTAAAATAT
6437962 GAATTGTGTT
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
ACTTTAAAATATC
Found at i:6441745 original size:82 final size:82
Alignment explanation
Indices: 6441604--6441794 Score: 260
Period size: 82 Copynumber: 2.3 Consensus size: 82
6441594 CAACATATAA
* * * * * *
6441604 GCTAAAAGTCAGA-TCAATAGTGGCGTTTATGAGCAAGCGCAGCTAAAGATCAAATCAATAGCGG
1 GCTAAAGGTCAGAGT-AATAGCGGCGCTGATGAGCAAGCGCAGCTAAAAATCAAAGCAATAGCGG
6441668 CGTTTATTGGCAAGCGCC
65 CGTTTATTGGCAAGCGCC
* * *
6441686 GCTAAAGGTCAGAGTAATAGCGGCGCTGATGATCAAGCGCTA-CTAAAAATCAGAGCAATAGTGG
1 GCTAAAGGTCAGAGTAATAGCGGCGCTGATGAGCAAGCGC-AGCTAAAAATCAAAGCAATAGCGG
6441750 CGTTTATTGGCAAGCGCC
65 CGTTTATTGGCAAGCGCC
*
6441768 GCTAAAGGTCAGAGTAATAGCGACGCT
1 GCTAAAGGTCAGAGTAATAGCGGCGCT
6441795 TTTGGGTGAG
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
82 95 0.98
83 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.21
Consensus pattern (82 bp):
GCTAAAGGTCAGAGTAATAGCGGCGCTGATGAGCAAGCGCAGCTAAAAATCAAAGCAATAGCGGC
GTTTATTGGCAAGCGCC
Found at i:6441780 original size:41 final size:41
Alignment explanation
Indices: 6441604--6441872 Score: 206
Period size: 41 Copynumber: 6.6 Consensus size: 41
6441594 CAACATATAA
* * * *
6441604 GCTAAAAGTCAGATCAATAGTGGCGTTTATGAGCAAGCGCA
1 GCTAAAGGTCAGAGCAATAGCGGCGTTTATGAGCAAGCGCC
* * *
6441645 GCTAAAGATCAAATCAATAGCGGCGTTTATTG-GCAAGCGCC
1 GCTAAAGGTCAGAGCAATAGCGGCGTTTA-TGAGCAAGCGCC
* * * * *
6441686 GCTAAAGGTCAGAGTAATAGCGGCGCTGATGATCAAGCGCT
1 GCTAAAGGTCAGAGCAATAGCGGCGTTTATGAGCAAGCGCC
* ** *
6441727 ACTAAAAATCAGAGCAATAGTGGCGTTTATTG-GCAAGCGCC
1 GCTAAAGGTCAGAGCAATAGCGGCGTTTA-TGAGCAAGCGCC
* * * ** *
6441768 GCTAAAGGTCAGAGTAATAGCGACGCTTT-TGGGTGAGTGCC
1 GCTAAAGGTCAGAGCAATAGCGGCG-TTTATGAGCAAGCGCC
* * ***
6441809 GCTAAAGGTTAAAGCAATAGCGGCGCTTCCCGA--AATGCGCC
1 GCTAAAGGTCAGAGCAATAGCGGCG-TTTATGAGCAA-GCGCC
*
6441850 GCTAAAGTTCAGAGCAATAGCGG
1 GCTAAAGGTCAGAGCAATAGCGG
6441873 TTCTTATGGG
Statistics
Matches: 178, Mismatches: 43, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
40 5 0.03
41 165 0.93
42 8 0.04
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (41 bp):
GCTAAAGGTCAGAGCAATAGCGGCGTTTATGAGCAAGCGCC
Found at i:6441828 original size:123 final size:123
Alignment explanation
Indices: 6441605--6441835 Score: 297
Period size: 123 Copynumber: 1.9 Consensus size: 123
6441595 AACATATAAG
* * *
6441605 CTAAAAGTCAGATCAATAGTGGCGTTTATGAGCAAGCGCAGCTAAAGATCAAATCAATAGCGGCG
1 CTAAAAATCAGAGCAATAGTGGCGTTTATGAGCAAGCGCAGCTAAAGATCAAATCAATAGCGACG
* * *
6441670 TTTATTGGCAAGCGCCGCTAAAGGTCAGAGTAATAGCGGCGCTGATGATCAAGCGCTA
66 TTTATGGGCAAGCGCCGCTAAAGGTCAAAGCAATAGCGGCGCTGATGATCAAGCGCTA
* * *
6441728 CTAAAAATCAGAGCAATAGTGGCGTTTATTG-GCAAGCGCCGCTAAAGGTCAGAGT-AATAGCGA
1 CTAAAAATCAGAGCAATAGTGGCGTTTA-TGAGCAAGCGCAGCTAAAGATCA-AATCAATAGCGA
** * *
6441791 CGCTTT-TGGGTGAGTGCCGCTAAAGGTTAAAGCAATAGCGGCGCT
64 CG-TTTATGGGCAAGCGCCGCTAAAGGTCAAAGCAATAGCGGCGCT
6441836 TCCCGAAATG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
123 85 0.92
124 7 0.08
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (123 bp):
CTAAAAATCAGAGCAATAGTGGCGTTTATGAGCAAGCGCAGCTAAAGATCAAATCAATAGCGACG
TTTATGGGCAAGCGCCGCTAAAGGTCAAAGCAATAGCGGCGCTGATGATCAAGCGCTA
Found at i:6441855 original size:123 final size:122
Alignment explanation
Indices: 6441604--6441869 Score: 270
Period size: 123 Copynumber: 2.2 Consensus size: 122
6441594 CAACATATAA
* * *
6441604 GCTAAAAGTCAGATCAATAGTGGCGTTTATGAGCAAGCGCAGCTAAAGATCAAATCAATAGCGGC
1 GCTAAAAATCAGAGCAATAGTGGCGTTTATGAGCAAGCGCAGCTAAAGATCAAATCAATAGCGAC
* * * * * *
6441669 GTTTATTGGCAAGCGCCGCTAAAGGTCAGAGTAATAGCGGCGCTGATGATCAAGCGCT
66 GTTTATGGGCAAGCGCCGCTAAAGGTCAAAGCAATAGCGGCGCTCACGA-CAAGCGCC
* * * *
6441727 ACTAAAAATCAGAGCAATAGTGGCGTTTATTG-GCAAGCGCCGCTAAAGGTCAGAGT-AATAGCG
1 GCTAAAAATCAGAGCAATAGTGGCGTTTA-TGAGCAAGCGCAGCTAAAGATCA-AATCAATAGCG
** * * *
6441790 ACGCTTT-TGGGTGAGTGCCGCTAAAGGTTAAAGCAATAGCGGCGCTTCCCGA-AATGCGCC
64 ACG-TTTATGGGCAAGCGCCGCTAAAGGTCAAAGCAATAGCGGCGC-TCACGACAA-GCGCC
**
6441850 GCTAAAGTTCAGAGCAATAG
1 GCTAAAAATCAGAGCAATAG
6441870 CGGTTCTTAT
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
122 2 0.02
123 105 0.90
124 10 0.09
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (122 bp):
GCTAAAAATCAGAGCAATAGTGGCGTTTATGAGCAAGCGCAGCTAAAGATCAAATCAATAGCGAC
GTTTATGGGCAAGCGCCGCTAAAGGTCAAAGCAATAGCGGCGCTCACGACAAGCGCC
Found at i:6442415 original size:182 final size:179
Alignment explanation
Indices: 6442104--6442821 Score: 800
Period size: 182 Copynumber: 4.0 Consensus size: 179
6442094 GCTATGAATT
* * * *
6442104 AAGTATCACGTGTTGTAATCAGGCTTCGGTTAGTTTAGTTTCTTTTTAGGAAGCAATTTGAAATT
1 AAGTATCACATGTTGTAATCAGGCTTCAGTCAGTTTAGTTTCTTTTTA-GAAGCAA-TTGCAA-T
* ** ** * * * **
6442169 C-ATCAAGAAGATGCAAATTGCAGCTAATATTAAGCTTGGTCGAGTGCTAGAAATTGAGTTAAAT
63 CAATCAAGAAGCTGTGAATTGCAGCTAATATTAAGCTTAATGGAGTGTTAAAAATCAAGTTAAAT
** * ** **
6442233 TGACAAAAATAATCTGTTTATGTATATATTTGTCTTGGAAAGGGAGAAAGTTG
128 TGATGAAAATAGTCCATTTATGTATATATTTGTCTCAGAAA-GGAGAAAGTTG
*
6442286 AAGTATCACGTGTTGTAATCAGGCTTCAGTCAGTTTAGTTTCTTTCTTAGAAGCAACTTGCAATC
1 AAGTATCACATGTTGTAATCAGGCTTCAGTCAGTTTAGTTTCTTT-TTAGAAGCAA-TTGCAATC
*
6442351 AATCAAGAAGCTGTGAATTGCAGCTAATATTAAGCTTAATGGAGTGTTAAAAATCAAATTAAATT
64 AATCAAGAAGCTGTGAATTGCAGCTAATATTAAGCTTAATGGAGTGTTAAAAATCAAGTTAAATT
* * * *
6442416 GATGAAAATAGTCCATTTATGTTTACATTTGTCTCAG-AA-GAG-GA-TTC
129 GATGAAAATAGTCCATTTATGTATATATTTGTCTCAGAAAGGAGAAAGTTG
* * ** * * * *
6442463 AAGTATCAAATGTTGTAACCAGGCTTGGGTCAGTTTAGTTTCTTTTTCAGTAACCAGTTGCTATT
1 AAGTATCACATGTTGTAATCAGGCTTCAGTCAGTTTAGTTTCTTTTT-AG-AAGCAATTGCAATC
* * ** * *
6442528 AATCAAGAAGCTCTGAATTGCAGCT-ATATTAAGCTTAATGGAGGGTTAAATGTCGAGTTAATTT
64 AATCAAGAAGCTGTGAATTGCAGCTAATATTAAGCTTAATGGAGTGTTAAAAATCAAGTTAAATT
* * *
6442592 GATGAAAATGGTCCATTCATGTATATATGTGTCTCAGAAAAGGAGAAAGTTG
129 GATGAAAATAGTCCATTTATGTATATATTTGTCTCAG-AAAGGAGAAAGTTG
* * *
6442644 AAGTATTACATGTTGTAATCAGGCTTCAGTCAGTTAAGTTTCTATTTTAGAAGCATATTGCAATT
1 AAGTATCACATGTTGTAATCAGGCTTCAGTCAGTTTAGTTTCT-TTTTAGAAGCA-ATTGCAATC
* *
6442709 AATCAAGAAGCTGTGAATTGCAGCTAATATTAAGCTTAATGGAGTGTTAAAAATCAGGTTAAGTT
64 AATCAAGAAGCTGTGAATTGCAGCTAATATTAAGCTTAATGGAGTGTTAAAAATCAAGTTAAATT
* * * * *
6442774 GATGAAAGTAATCCATTTATGTATTTGTTTGTGTCAGAAAAGGAGAAA
129 GATGAAAATAGTCCATTTATGTATATATTTGTCTCAG-AAAGGAGAAA
6442822 AGTAATGGAA
Statistics
Matches: 451, Mismatches: 73, Indels: 24
0.82 0.13 0.04
Matches are distributed among these distances:
176 67 0.15
177 74 0.16
178 7 0.02
179 6 0.01
180 5 0.01
181 76 0.17
182 213 0.47
183 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (179 bp):
AAGTATCACATGTTGTAATCAGGCTTCAGTCAGTTTAGTTTCTTTTTAGAAGCAATTGCAATCAA
TCAAGAAGCTGTGAATTGCAGCTAATATTAAGCTTAATGGAGTGTTAAAAATCAAGTTAAATTGA
TGAAAATAGTCCATTTATGTATATATTTGTCTCAGAAAGGAGAAAGTTG
Found at i:6445060 original size:43 final size:42
Alignment explanation
Indices: 6444986--6445155 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 42
6444976 TTTGTTAATG
* *
6444986 TTAGTGGCGTTTGTGAAAAAATGCCGCTAAAGACCATATTCT
1 TTAGCGGCGTTTGTGAAAAAGTGCCGCTAAAGACCATATTCT
* * * * * *
6445028 TTAGTGGCGTTCGTGAGATAAGTGCCGCTAAAGACCTTGTTTT
1 TTAGCGGCGTTTGTGA-AAAAGTGCCGCTAAAGACCATATTCT
* ** * * *
6445071 TTAGCGGCGTTTTTGGGAAAGCGTCGCTAAAGAACATGA-TCT
1 TTAGCGGCGTTTGTGAAAAAGTGCCGCTAAAGACCAT-ATTCT
* *
6445113 TTAGCGGCGTTTGTGCAAAAAGTGCCTCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTG-AAAAAGTGCCGCTAAAGACCATATTCT
6445156 ATAACAGCAT
Statistics
Matches: 98, Mismatches: 26, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
42 46 0.47
43 52 0.53
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TTAGCGGCGTTTGTGAAAAAGTGCCGCTAAAGACCATATTCT
Found at i:6445169 original size:85 final size:85
Alignment explanation
Indices: 6445010--6445169 Score: 189
Period size: 85 Copynumber: 1.9 Consensus size: 85
6445000 GAAAAAATGC
* * * * * * *
6445010 CGCTAAAGACCATATTCTTTAGTGGCGTTCGTGAGATAAGTGCCGCTAAAGACCTTGTTTTTTAG
1 CGCTAAAGAACATATTCTTTAGCGGCGTTCGTGAGAAAAGTGCCGCTAAAGACCATGTTCTATAA
* *
6445075 CGGCGTTTTTGGGAAAGCGT
66 CAGCATTTTTGGGAAAGCGT
* *
6445095 CGCTAAAGAACATGA-TCTTTAGCGGCGTTTGTGCA-AAAAGTGCCTCTAAAGACCATGTTCTAT
1 CGCTAAAGAACAT-ATTCTTTAGCGGCGTTCGTG-AGAAAAGTGCCGCTAAAGACCATGTTCTAT
6445158 AACAGCATTTTT
64 AACAGCATTTTT
6445170 CCTCATAAAC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 60 0.97
86 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (85 bp):
CGCTAAAGAACATATTCTTTAGCGGCGTTCGTGAGAAAAGTGCCGCTAAAGACCATGTTCTATAA
CAGCATTTTTGGGAAAGCGT
Found at i:6446471 original size:36 final size:35
Alignment explanation
Indices: 6446414--6446489 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 35
6446404 AAACCCCAAA
*
6446414 CTCGAACCTTGAACATATAACCCCCAACTCTTAAAC
1 CTCGAACCTTAAACATATAACCCCCAAC-CTTAAAC
* **
6446450 CTCGAACCTTAAAC-TCGTAACCCGTAACCTTAAAC
1 CTCGAACCTTAAACAT-ATAACCCCCAACCTTAAAC
6446485 C-CGAA
1 CTCGAA
6446490 TCTTTGAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 4 0.11
35 9 0.26
36 22 0.63
ACGTcount: A:0.36, C:0.36, G:0.08, T:0.21
Consensus pattern (35 bp):
CTCGAACCTTAAACATATAACCCCCAACCTTAAAC
Found at i:6447173 original size:21 final size:20
Alignment explanation
Indices: 6447149--6447194 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
6447139 TAAAACCCTT
* *
6447149 AACCTTAAACTCAAAATATAA
1 AACCCTAAAC-CAAAACATAA
*
6447170 AACCCTAAACCAAAACATTA
1 AACCCTAAACCAAAACATAA
6447190 AACCC
1 AACCC
6447195 ATAACCCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCTAAACCAAAACATAA
Found at i:6448118 original size:9 final size:9
Alignment explanation
Indices: 6448104--6448141 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
6448094 TTGAGGTATA
6448104 TAATATAAT
1 TAATATAAT
6448113 TAATATAA-
1 TAATATAAT
6448121 TAATATGAAT
1 TAATAT-AAT
6448131 T-ATATAAT
1 TAATATAAT
6448139 TAA
1 TAA
6448142 CAAAAGTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 10 0.38
9 15 0.58
10 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (9 bp):
TAATATAAT
Found at i:6448125 original size:17 final size:17
Alignment explanation
Indices: 6448103--6448138 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
6448093 ATTGAGGTAT
6448103 ATAATAT-AATTAATATA
1 ATAATATGAATT-ATATA
6448120 ATAATATGAATTATATA
1 ATAATATGAATTATATA
6448137 AT
1 AT
6448139 TAACAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
ATAATATGAATTATATA
Found at i:6452432 original size:25 final size:23
Alignment explanation
Indices: 6452404--6452449 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
6452394 GTTGGATCTA
6452404 AATTAAATTCTAAAAAAATAATTAG
1 AATTAAA-TCT-AAAAAATAATTAG
*
6452429 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
6452450 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 3 0.15
25 7 0.35
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:6455215 original size:29 final size:29
Alignment explanation
Indices: 6455171--6455230 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
6455161 GGAATAATAA
* *
6455171 TTAGGGTTCTTGTCTTGTCTATTTCGAAG
1 TTAGGGTTCCTATCTTGTCTATTTCGAAG
6455200 TTAGGGTTCCTATCTTGTCTATTTCGAAG
1 TTAGGGTTCCTATCTTGTCTATTTCGAAG
6455229 TT
1 TT
6455231 CGATTAGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.48
Consensus pattern (29 bp):
TTAGGGTTCCTATCTTGTCTATTTCGAAG
Found at i:6456156 original size:26 final size:26
Alignment explanation
Indices: 6456103--6456157 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
6456093 ACCTTTTTTT
* * *
6456103 AAATCTATTTAATTTTTTTAAAAGAA
1 AAATATATTTAATTTTTTAAAAACAA
6456129 AAATATATTT-ATTTTTTAAATAACAA
1 AAATATATTTAATTTTTTAAA-AACAA
6456155 AAA
1 AAA
6456158 AAGGACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
AAATATATTTAATTTTTTAAAAACAA
Found at i:6456223 original size:2 final size:2
Alignment explanation
Indices: 6456218--6456247 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6456208 TAAAAAAAAA
6456218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6456248 GGACTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6456587 original size:11 final size:11
Alignment explanation
Indices: 6456571--6456596 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6456561 TTTTTTCATG
6456571 ATTTATTATTT
1 ATTTATTATTT
6456582 ATTTATTATTT
1 ATTTATTATTT
6456593 ATTT
1 ATTT
6456597 TTTAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
ATTTATTATTT
Found at i:6456782 original size:90 final size:92
Alignment explanation
Indices: 6456576--6456798 Score: 258
Period size: 95 Copynumber: 2.4 Consensus size: 92
6456566 TCATGATTTA
* *
6456576 TTATTTATTTATTATTTATTTTTTAAAAATTTAAATTTTTTTTTGGTGGTGCCATATAATATAGC
1 TTATTTATTTATTATTTATTTTTTAAAAATTTAAA-TTTTTGTGGGTGGTGCCATATAATATAGC
* *
6456641 GCCACCACTTCTCCAACAAATTTCAGCT
65 ACCACCACTTCTCCAACAAATGTCAGCT
* *
6456669 TTTTTAAATGATTTATTATTTATTTTTT-TAAATTTAAATTTTTGTGGGTGGTGCCATATTAA-A
1 TTATT---T-ATTTATTATTTATTTTTTAAAAATTTAAATTTTTGTGGGTGGTGCCATA-TAATA
* **
6456732 TGGCACCATTACTTC-CCTAA-AACATGTCA-CT
61 TAGCACCACCACTTCTCC-AACAA-ATGTCAGCT
6456763 TTATTTATTTATTATTTATTTTTTAAAAATTTAAAT
1 TTATTTATTTATTATTTATTTTTTAAAAATTTAAAT
6456799 AACTTAACTT
Statistics
Matches: 111, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
90 18 0.16
91 11 0.10
93 4 0.04
94 10 0.09
95 37 0.33
96 13 0.12
97 18 0.16
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.50
Consensus pattern (92 bp):
TTATTTATTTATTATTTATTTTTTAAAAATTTAAATTTTTGTGGGTGGTGCCATATAATATAGCA
CCACCACTTCTCCAACAAATGTCAGCT
Found at i:6456937 original size:42 final size:42
Alignment explanation
Indices: 6456875--6456958 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
6456865 AATAAAAACT
* ** *
6456875 TGTAACATCCGCGTTTTTGAACCGGAGTTGGAACAGTAATAG
1 TGTAACATCAGCGTGCTTGAACCGGAGTTAGAACAGTAATAG
* * *
6456917 TGTAACATCAGCGTGCTTGAATCGGATTTAGAACAGTGATAG
1 TGTAACATCAGCGTGCTTGAACCGGAGTTAGAACAGTAATAG
6456959 AGTACAATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAACATCAGCGTGCTTGAACCGGAGTTAGAACAGTAATAG
Found at i:6460373 original size:16 final size:15
Alignment explanation
Indices: 6460334--6460374 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
6460324 AGAGTTTCAA
6460334 AAAATAAATAATAAT
1 AAAATAAATAATAAT
*
6460349 -AAA-ACATAATAAT
1 AAAATAAATAATAAT
6460362 AAAATTAAATAAT
1 AAAA-TAAATAAT
6460375 GAAAAGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
13 9 0.43
14 6 0.29
16 6 0.29
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAATAATAAT
Found at i:6461202 original size:14 final size:14
Alignment explanation
Indices: 6461172--6461200 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6461162 TCTCTAAAAA
6461172 TTAAAAAGATTATT
1 TTAAAAAGATTATT
6461186 TTAAAAA-ATTATT
1 TTAAAAAGATTATT
6461199 TT
1 TT
6461201 TAGCCCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TTAAAAAGATTATT
Found at i:6472900 original size:129 final size:129
Alignment explanation
Indices: 6472742--6473002 Score: 522
Period size: 129 Copynumber: 2.0 Consensus size: 129
6472732 GAGAATGACA
6472742 ATGACTTCAAAACAAAACATCAAATATTTAATAACTTTCAAATTCAAAAGCAGTTTAAGTCATAC
1 ATGACTTCAAAACAAAACATCAAATATTTAATAACTTTCAAATTCAAAAGCAGTTTAAGTCATAC
6472807 TTGAATCACAGTCATTGATATATCTAAGACAAGTTTCCCGAATAAATATGTTCAATATGTTAAG
66 TTGAATCACAGTCATTGATATATCTAAGACAAGTTTCCCGAATAAATATGTTCAATATGTTAAG
6472871 ATGACTTCAAAACAAAACATCAAATATTTAATAACTTTCAAATTCAAAAGCAGTTTAAGTCATAC
1 ATGACTTCAAAACAAAACATCAAATATTTAATAACTTTCAAATTCAAAAGCAGTTTAAGTCATAC
6472936 TTGAATCACAGTCATTGATATATCTAAGACAAGTTTCCCGAATAAATATGTTCAATATGTTAAG
66 TTGAATCACAGTCATTGATATATCTAAGACAAGTTTCCCGAATAAATATGTTCAATATGTTAAG
6473000 ATG
1 ATG
6473003 TTTGGACAAT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 132 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (129 bp):
ATGACTTCAAAACAAAACATCAAATATTTAATAACTTTCAAATTCAAAAGCAGTTTAAGTCATAC
TTGAATCACAGTCATTGATATATCTAAGACAAGTTTCCCGAATAAATATGTTCAATATGTTAAG
Found at i:6478679 original size:5 final size:5
Alignment explanation
Indices: 6478669--6478694 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
6478659 AGGCTAAAAC
6478669 CCTTT CCTTT CCTTT CCTTT CCTTT C
1 CCTTT CCTTT CCTTT CCTTT CCTTT C
6478695 TTTTACGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (5 bp):
CCTTT
Found at i:6481386 original size:3 final size:3
Alignment explanation
Indices: 6481378--6481422 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
6481368 GTCTTCATCC
* * * *
6481378 TCT TCT TCT TCT TCT TCT TCT TCT TCA TCG TCG TCG TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
6481423 CCTTGTGGTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.02, C:0.33, G:0.07, T:0.58
Consensus pattern (3 bp):
TCT
Found at i:6483820 original size:29 final size:31
Alignment explanation
Indices: 6483770--6483846 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 31
6483760 TATTTTTTTG
* *
6483770 AATTTTTA-TAATTTTAATAGATTAAATTA-
1 AATTTTTATTATTTTTAATAGATTAAAATAT
*
6483799 AATTTTTATTATTTTTGA-AGATTAAAATAT
1 AATTTTTATTATTTTTAATAGATTAAAATAT
*
6483829 AA-TTTTATTATTATTAAT
1 AATTTTTATTATTTTTAAT
6483847 TTAAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 31 0.77
30 9 0.22
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (31 bp):
AATTTTTATTATTTTTAATAGATTAAAATAT
Found at i:6484009 original size:29 final size:30
Alignment explanation
Indices: 6483966--6484042 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
6483956 TTATTTTTTT
* *
6483966 TAATTTTTATAATTTTAAAAGATTAAATTA
1 TAATTTTTATTATTTTAAAAGATTAAAATA
** *
6483996 -AATTTTTATTATTTTTGAAGGTTAAAATA
1 TAATTTTTATTATTTTAAAAGATTAAAATA
6484025 TAA-TTTTATTATTATTAA
1 TAATTTTTATTATT-TTAA
6484043 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
TAATTTTTATTATTTTAAAAGATTAAAATA
Found at i:6488668 original size:29 final size:28
Alignment explanation
Indices: 6488630--6488685 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
6488620 TTAATATTAA
6488630 AAAAATAATTAATTACAAAAATAAGATG
1 AAAAATAATTAATTACAAAAATAAGATG
**
6488658 AAAAATAAATTAATTGTAAAAATAAGAT
1 AAAAAT-AATTAATTACAAAAATAAGAT
6488686 ATTTGTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (28 bp):
AAAAATAATTAATTACAAAAATAAGATG
Found at i:6490777 original size:2 final size:2
Alignment explanation
Indices: 6490770--6490821 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
6490760 ATCTTCCATT
6490770 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6490811 TA TA TA TA TA T
1 TA TA TA TA TA T
6490822 TTGTAAAATA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6496486 original size:32 final size:31
Alignment explanation
Indices: 6496397--6496492 Score: 113
Period size: 31 Copynumber: 3.0 Consensus size: 31
6496387 AGATGATAAA
** *
6496397 AGAGATAGCTAAGAGTAATTCAAAACA-TAAT
1 AGAGATAGCTAAG-CCAATTCAAAATACTAAT
6496428 AGAGATAGCTAAGCCAATTCAAAATACTAAT
1 AGAGATAGCTAAGCCAATTCAAAATACTAAT
* *
6496459 AGAGATGGCTAAGTCCAGTTCAAAATACTTAAT
1 AGAGATAGCTAAG-CCAATTCAAAATAC-TAAT
6496492 A
1 A
6496493 AAATAACAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
30 10 0.18
31 29 0.51
32 13 0.23
33 5 0.09
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (31 bp):
AGAGATAGCTAAGCCAATTCAAAATACTAAT
Found at i:6501710 original size:13 final size:13
Alignment explanation
Indices: 6501692--6501722 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
6501682 TATATATTAA
6501692 TTGGTTAACTGAG
1 TTGGTTAACTGAG
6501705 TTGGTTAACTGAG
1 TTGGTTAACTGAG
6501718 TTGGT
1 TTGGT
6501723 ATCACTCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.32, T:0.42
Consensus pattern (13 bp):
TTGGTTAACTGAG
Found at i:6504223 original size:19 final size:18
Alignment explanation
Indices: 6504190--6504250 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 18
6504180 AAATAATAGT
6504190 ATTTTAATATGTTTTAATA
1 ATTTTAATAT-TTTTAATA
6504209 ATTTCTAATATTTTTAATA
1 ATTT-TAATATTTTTAATA
* *
6504228 ATTTGT-ATAATTTTAATT
1 ATTT-TAATATTTTTAATA
6504246 ATTTT
1 ATTTT
6504251 TTAGAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 1 0.03
18 14 0.37
19 17 0.45
20 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTAATATTTTTAATA
Found at i:6504226 original size:9 final size:9
Alignment explanation
Indices: 6504191--6504251 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
6504181 AATAATAGTA
6504191 TTTTAATAT
1 TTTTAATAT
6504200 GTTTTAATAAT
1 -TTTTAAT-AT
*
6504211 TTCTAATAT
1 TTTTAATAT
6504220 TTTTAATAAT
1 TTTTAAT-AT
* *
6504230 TTGT-ATAA
1 TTTTAATAT
6504238 TTTTAATTAT
1 TTTTAA-TAT
6504248 TTTT
1 TTTT
6504252 TAGAATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
8 4 0.10
9 11 0.27
10 24 0.59
11 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTAATAT
Found at i:6504241 original size:18 final size:19
Alignment explanation
Indices: 6504201--6504249 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
6504191 TTTTAATATG
*
6504201 TTTTAATAATTTCTAATAT
1 TTTTAATAATTTCTAATAA
*
6504220 TTTTAATAATTTGT-ATAA
1 TTTTAATAATTTCTAATAA
*
6504238 TTTTAATTATTT
1 TTTTAATAATTT
6504250 TTTAGAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTAATAATTTCTAATAA
Found at i:6504258 original size:28 final size:28
Alignment explanation
Indices: 6504206--6504259 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
6504196 ATATGTTTTA
*
6504206 ATAATTTCTAATATTTTTAATAATTTGT
1 ATAATTTCTAATATTTTTAAGAATTTGT
*
6504234 ATAATTT-TAATTATTTTTTAGAATTT
1 ATAATTTCTAA-TATTTTTAAGAATTT
6504260 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (28 bp):
ATAATTTCTAATATTTTTAAGAATTTGT
Done.