Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009081.1 Hibiscus syriacus cultivar Beakdansim tig00112523_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1718667
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:933034 original size:19 final size:19
Alignment explanation
Indices: 933012--933048 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
933002 GACCGGTTCG
933012 AACCAGTCTGACCGGTCTT
1 AACCAGTCTGACCGGTCTT
* *
933031 AACCGGTTTGACCGGTCT
1 AACCAGTCTGACCGGTCT
933049 GACCCGACCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.30, G:0.24, T:0.27
Consensus pattern (19 bp):
AACCAGTCTGACCGGTCTT
Found at i:933091 original size:17 final size:17
Alignment explanation
Indices: 933069--933105 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
933059 AACCCGACCA
*
933069 ACCCGACCCGTCCGTTG
1 ACCCGACCCGACCGTTG
933086 ACCCGACCCGACCGTTG
1 ACCCGACCCGACCGTTG
933103 ACC
1 ACC
933106 GTTGACCTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.49, G:0.22, T:0.14
Consensus pattern (17 bp):
ACCCGACCCGACCGTTG
Found at i:940319 original size:19 final size:18
Alignment explanation
Indices: 940264--940343 Score: 70
Period size: 19 Copynumber: 4.2 Consensus size: 18
940254 GTGGCTGAAA
*
940264 ACCGGTTTGACCGGTTTTG
1 ACCGATTTGACCGG-TTTG
*
940283 AACCGATTTTGACTGGTTTG
1 -ACCGA-TTTGACCGGTTTG
*
940303 ACTGATTTCGACCGGTTCTG
1 ACCGATTT-GACCGGTT-TG
* *
940323 ACCGGTTTGACCGGTCTG
1 ACCGATTTGACCGGTTTG
940341 ACC
1 ACC
940344 CAACCCGACC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
18 8 0.16
19 18 0.36
20 16 0.32
21 8 0.16
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.34
Consensus pattern (18 bp):
ACCGATTTGACCGGTTTG
Found at i:940327 original size:10 final size:9
Alignment explanation
Indices: 940264--940343 Score: 70
Period size: 9 Copynumber: 8.3 Consensus size: 9
940254 GTGGCTGAAA
940264 ACCGGTTTG
1 ACCGGTTTG
940273 ACCGGTTTTG
1 ACCGG-TTTG
*
940283 AACCGATTTTG
1 -ACCG-GTTTG
*
940294 ACTGGTTTG
1 ACCGGTTTG
* *
940303 ACTGATTTCG
1 ACCGGTTT-G
940313 ACCGGTTCTG
1 ACCGGTT-TG
940323 ACCGGTTTG
1 ACCGGTTTG
*
940332 ACCGGTCTG
1 ACCGGTTTG
940341 ACC
1 ACC
940344 CAACCCGACC
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
9 29 0.49
10 21 0.36
11 9 0.15
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.34
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:943071 original size:64 final size:63
Alignment explanation
Indices: 942974--943114 Score: 167
Period size: 64 Copynumber: 2.2 Consensus size: 63
942964 CATATTCAAT
* * *
942974 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAATTGGTGCATCGATGCATAAGAA
1 GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAAGAA
* * * * ** *
943037 GTGCATCGATGCATCCCCTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCCTTAAAGAAG-AAACATCGAAGGCAATTGGTGCATCGATGCATAAGAA
943101 GTGCATCGATGCAC
1 GTGCATCGATGCAC
943115 ATGTTAAAGA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
63 16 0.24
64 50 0.76
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAATTGGTGCATCGATGCATAAGAA
Found at i:943147 original size:20 final size:22
Alignment explanation
Indices: 943102--943159 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
943092 GCATGGGTAG
943102 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
943126 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
943146 TGCATCGATGCACT
1 TGCATCGATGCACT
943160 TCAAGGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.53
22 1 0.03
23 2 0.06
24 13 0.38
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:959223 original size:6 final size:6
Alignment explanation
Indices: 959212--959240 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
959202 CAAACCAAGT
959212 TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
959241 CTCGACTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.34, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCA
Found at i:959873 original size:85 final size:86
Alignment explanation
Indices: 959753--959925 Score: 321
Period size: 85 Copynumber: 2.0 Consensus size: 86
959743 GAAGAGCTTT
*
959753 AATAGTGAAGAGAGAGTAAGGGGTAGCTTTTGGATGGTAGATGAAAATAGAGAGTATATTTAGTA
1 AATAGTGAAGAGAGAGTAAGGGGTAGCTTTTGGATGGTAGATGAAAATAGAGAGCATATTTAGTA
959818 GAAGATGGGAGTTTGATGGAG
66 GAAGATGGGAGTTTGATGGAG
959839 AATAGTGAAGAGAGAGT-AGGGGTAGCTTTTGGATGGTAGATGAAAATAGAGAGCATATTTAGTA
1 AATAGTGAAGAGAGAGTAAGGGGTAGCTTTTGGATGGTAGATGAAAATAGAGAGCATATTTAGTA
*
959903 GAAGATGGGAGTTTGCTGGAG
66 GAAGATGGGAGTTTGATGGAG
959924 AA
1 AA
959926 GAATCAAGCA
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 68 0.80
86 17 0.20
ACGTcount: A:0.36, C:0.02, G:0.36, T:0.26
Consensus pattern (86 bp):
AATAGTGAAGAGAGAGTAAGGGGTAGCTTTTGGATGGTAGATGAAAATAGAGAGCATATTTAGTA
GAAGATGGGAGTTTGATGGAG
Found at i:960118 original size:26 final size:27
Alignment explanation
Indices: 960089--960148 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
960079 TTTGATAATT
**
960089 TTTAGTTTTTGAGTTTTCGAG-TTGAG
1 TTTAGTTTTAAAGTTTTCGAGTTTGAG
*
960115 TTTACTTTTAAAGTTTTCGAGTTTGAG
1 TTTAGTTTTAAAGTTTTCGAGTTTGAG
*
960142 TTGAGTT
1 TTTAGTT
960149 CAACAATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.18, C:0.05, G:0.23, T:0.53
Consensus pattern (27 bp):
TTTAGTTTTAAAGTTTTCGAGTTTGAG
Found at i:960604 original size:14 final size:14
Alignment explanation
Indices: 960585--960612 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
960575 TAACTAACTG
960585 TTTTCATCCACATA
1 TTTTCATCCACATA
960599 TTTTCATCCACATA
1 TTTTCATCCACATA
960613 ACGTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTTCATCCACATA
Found at i:966092 original size:20 final size:21
Alignment explanation
Indices: 966069--966113 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
966059 CATTATATGT
**
966069 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
966089 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
966110 ATAT
1 ATAT
966114 CACTAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:967548 original size:3 final size:3
Alignment explanation
Indices: 967540--967643 Score: 163
Period size: 3 Copynumber: 34.7 Consensus size: 3
967530 TTAATATATT
* * *
967540 TAA TAA TAA TAG TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
967588 TAA TAA TAA TAA TAT TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
967636 TAA TAA TA
1 TAA TAA TA
967644 TGGATAAAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:968611 original size:340 final size:339
Alignment explanation
Indices: 967934--968909 Score: 1588
Period size: 340 Copynumber: 2.9 Consensus size: 339
967924 AGATAATATC
* * * *
967934 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * * * ***
967998 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAA-GTTGAAC
66 TCATT-ATGAACCTTCTCTGGAAATGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAAC
* * *
968062 AAGTT-TTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCT
130 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
*
968126 CTGGTAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
195 CTGGAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
968191 AA-C-C-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCA
260 AACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCA
968253 TCAAATGATGAATTT
325 TCAAATGATGAATTT
968268 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
968333 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACA
66 TCATTATGAACCTTCTCTGGAAATGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACA
968398 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCT
131 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT-ATGAACTTTCT
*
968463 CTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
195 CTGGAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
968528 AACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCA
260 AACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCA
968593 TCAAATGATGAATTT
325 TCAAATGATGAATTT
968608 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
968673 TCATTATGAA-CTCTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAAC
66 TCATTATGAACCT-TCTCTGGAAATGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAAC
*
968737 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACTTTCT
130 AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
* * * * * *** * *
968802 CTGGAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATG
195 CTGGAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
*
968867 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
260 AACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
968910 TCTACCTTGC
Statistics
Matches: 602, Mismatches: 32, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
334 48 0.08
335 72 0.12
336 47 0.08
337 76 0.13
338 1 0.00
339 110 0.18
340 248 0.41
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (339 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACCTTCTCTGGAAATGTTGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACA
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGA
ACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCAT
CAAATGATGAATTT
Found at i:968826 original size:453 final size:448
Alignment explanation
Indices: 967938--968910 Score: 1689
Period size: 453 Copynumber: 2.2 Consensus size: 448
967928 AATATCAAAC
** *
967938 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTTTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
968003 CATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAAGTTT
66 CATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAAGTTT
968068 TCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAA
131 TCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAA
968133 TGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCT
196 TGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCT
* * * *
968198 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATG
261 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCACCAAATGATG
* *
968263 AATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGT
326 AATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGT
* * * *
968328 TCTTCTCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGGATTCAGGTA
391 TCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
968386 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
968451 CATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTT
66 CATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAAC-AAAAGTTGAACAAGTT
968516 CTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGT
130 -TTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGT
968581 AATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCT
194 AATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAA-C-
968646 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTCTCTCTGGAAAAGATGATCCACCAA
257 C-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCT-TCTCTGGAAAAGATGATCCACCAA
* *** * *
968710 ATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
320 ATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAG
* *
968775 ATGAGTTCTTTTCATTATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
385 ATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
968839 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
968904 -ATGAACT
66 CATGAACT
968911 CTACCTTGCA
Statistics
Matches: 498, Mismatches: 21, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
448 110 0.22
449 16 0.03
450 126 0.25
451 1 0.00
452 10 0.02
453 235 0.47
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (448 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
CATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGTTGAACAAGTTT
TCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGTAA
TGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCACCAAATGATG
AATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGT
TCTTCTCATTATGAACCTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
Found at i:968910 original size:113 final size:113
Alignment explanation
Indices: 967934--968910 Score: 1498
Period size: 113 Copynumber: 8.7 Consensus size: 113
967924 AGATAATATC
* * * *
967934 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
967998 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
968047 AAAC-AAAAGTTGAACAAGTT-TTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
968110 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
968158 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAA-C-C-TCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
968220 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
968268 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
968333 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGGATTC
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*** * * *
968381 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
968446 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
968495 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
968560 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
968608 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * * * * * *
968673 TCATTATGAACTCTCTCTGGAAAAGATGATCCACCAAATGATGGATTC
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*** * * * *
968721 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * * * * *
968786 TCATTATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTC
66 TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*** * * *
968834 AGGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
968899 TCATTATGAACT
66 TCATTATGAACT
968911 CTACCTTGCA
Statistics
Matches: 815, Mismatches: 43, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
110 108 0.13
111 47 0.06
112 64 0.08
113 493 0.60
114 103 0.13
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACTTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
Found at i:969661 original size:130 final size:130
Alignment explanation
Indices: 969501--969928 Score: 811
Period size: 130 Copynumber: 3.3 Consensus size: 130
969491 CACTTCTTCG
* *
969501 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
969566 CTTGATTCTGTCCAATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 CTTGATTCTGTCCAATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
969631 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
*
969696 CTTGATTCTGCCCAATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 CTTGATTCTGTCCAATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
969761 GATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
*
969826 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 CTTGATTCTGTCCAATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
969891 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
969929 GTTCTGTCCA
Statistics
Matches: 291, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 291 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (130 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATATTCTAAATTCAATG
CTTGATTCTGTCCAATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:969911 original size:52 final size:52
Alignment explanation
Indices: 969840--969980 Score: 282
Period size: 52 Copynumber: 2.7 Consensus size: 52
969830 ATTCTGTCCA
969840 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
969892 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
969944 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
969981 TGGCATATTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:971161 original size:10 final size:9
Alignment explanation
Indices: 971131--971205 Score: 64
Period size: 9 Copynumber: 8.0 Consensus size: 9
971121 CCTTGACCCC
971131 TTTTCTTTT
1 TTTTCTTTT
971140 TCTTCTCTTTT
1 T-TT-TCTTTT
*
971151 TTTT-TCATT
1 TTTTCT-TTT
* *
971160 TTCTATTTT
1 TTTTCTTTT
971169 TTTTCTTCTT
1 TTTTCTT-TT
971179 TTTTCTTTT
1 TTTTCTTTT
971188 TTCTTC-TTT
1 TT-TTCTTTT
971197 TTTTCTTTT
1 TTTTCTTTT
971206 CTCTTCAAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 4 0.07
9 26 0.48
10 17 0.31
11 7 0.13
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:971163 original size:18 final size:17
Alignment explanation
Indices: 971130--971197 Score: 59
Period size: 19 Copynumber: 3.9 Consensus size: 17
971120 ACCTTGACCC
971130 CTTTTCTTTTTC--TTCT
1 CTTTT-TTTTTCTTTTCT
971146 CTTTTTTTTTCATTTTCT
1 CTTTTTTTTTC-TTTTCT
* *
971164 ATTTTTTTTCTTCTTTTTT
1 -CTTTTTTT-TTCTTTTCT
*
971183 CTTTTTTCTTCTTTT
1 CTTTTTTTTTCTTTT
971198 TTTCTTTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
15 6 0.14
16 5 0.12
17 7 0.16
18 10 0.23
19 12 0.28
20 3 0.07
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTTTTTTCTTTTCT
Found at i:971167 original size:7 final size:7
Alignment explanation
Indices: 971131--971207 Score: 54
Period size: 8 Copynumber: 10.9 Consensus size: 7
971121 CCTTGACCCC
971131 TTTTC-T
1 TTTTCTT
971137 TTTTCTT
1 TTTTCTT
971144 CTCTTT-TT
1 -T-TTTCTT
*
971152 TTTTC-A
1 TTTTCTT
971158 TTTTCTAT
1 TTTTCT-T
971166 TTTT-TT
1 TTTTCTT
*
971172 TCTTCTT
1 TTTTCTT
971179 TTTTCTT
1 TTTTCTT
971186 TTTTCTT
1 TTTTCTT
*
971193 CTTTTTTT
1 -TTTTCTT
971201 CTTTTCT
1 -TTTTCT
971208 CTTCAAGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
6 17 0.30
7 18 0.32
8 19 0.33
9 3 0.05
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:971176 original size:32 final size:31
Alignment explanation
Indices: 971130--971210 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
971120 ACCTTGACCC
971130 CTTTTCTTTTTCTTCTCTTTTT-TTTTCATT-TT
1 CTTTT-TTTTTCTTCTCTTTTTCTTTT--TTCTT
971162 CTATTTTTTTTCTTCT-TTTTTCTTTTTTCTT
1 CT-TTTTTTTTCTTCTCTTTTTCTTTTTTCTT
971193 CTTTTTTTCTT-TTCTCTT
1 CTTTTTTT-TTCTTCTCTT
971211 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
30 12 0.27
31 13 0.30
32 16 0.36
33 3 0.07
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (31 bp):
CTTTTTTTTTCTTCTCTTTTTCTTTTTTCTT
Found at i:971181 original size:28 final size:26
Alignment explanation
Indices: 971131--971205 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 26
971121 CCTTGACCCC
*
971131 TTTTCTTTTTCTTCTCTTTTTTTT-TCA
1 TTTTCTTTTT-TTTTCTTTTTTTTCT-A
*
971158 TTTTCTATTTTTTTTCTTCTTTTTTCTT
1 TTTTCT-TTTTTTTTCTT-TTTTTTCTA
971186 TTTTCTTCTTTTTTTCTTTT
1 TTTTCTT-TTTTTTTCTTTT
971206 CTCTTCAAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 15 0.36
28 26 0.62
29 1 0.02
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (26 bp):
TTTTCTTTTTTTTTCTTTTTTTTCTA
Found at i:971187 original size:17 final size:19
Alignment explanation
Indices: 971145--971212 Score: 70
Period size: 17 Copynumber: 3.7 Consensus size: 19
971135 CTTTTTCTTC
*
971145 TCTTTTTTTTTCATTTTCTA
1 TCTTTTTTCTTCATTTT-TA
*
971165 TTTTTTTTCTTC-TTTTT-
1 TCTTTTTTCTTCATTTTTA
*
971182 TCTTTTTTCTTC-TTTTTT
1 TCTTTTTTCTTCATTTTTA
*
971200 TCTTTTCTCTTCA
1 TCTTTTTTCTTCA
971213 AGCATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 16 0.38
18 12 0.29
19 4 0.10
20 10 0.24
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (19 bp):
TCTTTTTTCTTCATTTTTA
Found at i:971198 original size:18 final size:18
Alignment explanation
Indices: 971131--971211 Score: 78
Period size: 18 Copynumber: 4.4 Consensus size: 18
971121 CCTTGACCCC
*
971131 TTTTCTT-TTTCTTCTCTT
1 TTTTCTTCTTT-TTTTCTT
*
971149 TTTTTTTCATTTTCTATT-TT
1 TTTTCTTC-TTTT-T-TTCTT
971169 TTTTCTTC-TTTTTTCTT
1 TTTTCTTCTTTTTTTCTT
971186 TTTTCTTCTTTTTTTCTT
1 TTTTCTTCTTTTTTTCTT
*
971204 TTCTCTTC
1 TTTTCTTC
971212 AAGCATAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
16 2 0.04
17 11 0.21
18 25 0.47
19 1 0.02
20 13 0.25
21 1 0.02
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTCTTCTTTTTTTCTT
Found at i:971203 original size:11 final size:10
Alignment explanation
Indices: 971130--971200 Score: 63
Period size: 10 Copynumber: 6.8 Consensus size: 10
971120 ACCTTGACCC
971130 CTTTTCTTTTT
1 CTTTT-TTTTT
971141 CTTCTCTTTTTT
1 CTT-T-TTTTTT
**
971153 -TTTCATTTT
1 CTTTTTTTTT
971162 CTATTTTTTTT
1 CT-TTTTTTTT
*
971173 CTTCTTTTTT
1 CTTTTTTTTT
*
971183 CTTTTTTCTT
1 CTTTTTTTTT
971193 CTTTTTTT
1 CTTTTTTT
971201 CTTTTCTCTT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
9 4 0.08
10 24 0.50
11 13 0.27
12 6 0.12
13 1 0.02
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:983960 original size:3 final size:3
Alignment explanation
Indices: 983952--984058 Score: 153
Period size: 3 Copynumber: 35.7 Consensus size: 3
983942 TTAATATATT
* * *
983952 TAA TAA TAA TAG TAA AAA TAA TAA TAA AAA TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
983999 TAA TAA TAAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
984045 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
984059 TGGATAAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.02
3 87 0.95
4 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:985493 original size:30 final size:30
Alignment explanation
Indices: 985458--985516 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
985448 TAATAAATTG
* *
985458 GCATAAATATATATTTGGTCCTTAATATTA
1 GCATAAATATACATTTGATCCTTAATATTA
*
985488 GCATAATTATACATTTGATCCTTAATATT
1 GCATAAATATACATTTGATCCTTAATATT
985517 TACATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (30 bp):
GCATAAATATACATTTGATCCTTAATATTA
Found at i:985686 original size:223 final size:228
Alignment explanation
Indices: 985326--985777 Score: 853
Period size: 223 Copynumber: 2.0 Consensus size: 228
985316 GGAGACCATC
985326 AAATTATATTCATTAATCGATCTTACCACCGAACTATTTTTTGTCTCAATTCGACCATCAAACTT
1 AAATTATATTCATTAATCGATCTTACCACCGAACTATTTTTTGTCTCAATTCGACCATCAAACTT
985391 TTTAATTGATTCAATCATACCACTCTGTTAAAAAAACGGAGAATCCGACGCGGCCGTTAATAAAT
66 TTTAATTGATTCAATCATACCACTCTGTTAAAAAAACGGAGAATCCGACGCGGCCGTTAATAAAT
985456 TGGCATAAATATATATTTGGTCCTTAATATTAGCATAATTATACATTTGATCCTTAATATTTACA
131 TGGCATAAATATATATTTGGTCCTTAATATTAGCATAATTATACATTTGATCCTTAATATTTACA
985521 TATTTTTATCAATTTAGTCACTA-TTTAATTCA
196 TATTTTTATCAATTTAGTCACTATTTTAATTCA
985553 AAATT-TATTCATTAATCGATCTTA-C-CCGAACTATTTTTTGTCTCAATT-GACCATCAAAC-T
1 AAATTATATTCATTAATCGATCTTACCACCGAACTATTTTTTGTCTCAATTCGACCATCAAACTT
985613 TTTAATTGATTCAATCATACCACTCTGTTAAAAAAAACGGAGAATCCGACGCGGCCGTTAATAAA
66 TTTAATTGATTCAATCATACCACTCTGTT-AAAAAAACGGAGAATCCGACGCGGCCGTTAATAAA
985678 TTGGCATAAATATATATTTGGTCCTTAATATTAGCATAATTATACATTTGATCCTTAATATTTAC
130 TTGGCATAAATATATATTTGGTCCTTAATATTAGCATAATTATACATTTGATCCTTAATATTTAC
985743 ATATTTTTATCAATTTAGTCACTATTTTAATTCA
195 ATATTTTTATCAATTTAGTCACTATTTTAATTCA
985777 A
1 A
985778 TTAAATAAAT
Statistics
Matches: 223, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
222 30 0.13
223 135 0.61
224 33 0.15
225 1 0.00
226 19 0.09
227 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (228 bp):
AAATTATATTCATTAATCGATCTTACCACCGAACTATTTTTTGTCTCAATTCGACCATCAAACTT
TTTAATTGATTCAATCATACCACTCTGTTAAAAAAACGGAGAATCCGACGCGGCCGTTAATAAAT
TGGCATAAATATATATTTGGTCCTTAATATTAGCATAATTATACATTTGATCCTTAATATTTACA
TATTTTTATCAATTTAGTCACTATTTTAATTCA
Found at i:985716 original size:30 final size:30
Alignment explanation
Indices: 985681--985739 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
985671 TAATAAATTG
* *
985681 GCATAAATATATATTTGGTCCTTAATATTA
1 GCATAAATATACATTTGATCCTTAATATTA
*
985711 GCATAATTATACATTTGATCCTTAATATT
1 GCATAAATATACATTTGATCCTTAATATT
985740 TACATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.44
Consensus pattern (30 bp):
GCATAAATATACATTTGATCCTTAATATTA
Found at i:986211 original size:81 final size:81
Alignment explanation
Indices: 986125--986297 Score: 278
Period size: 81 Copynumber: 2.1 Consensus size: 81
986115 ACCGAACCAA
*
986125 ATTAACCGAATGTTTTTTCTTTAA-CATCAATCCAACCGAAATTATTTGACCGTTAATCGAAC-C
1 ATTAACCGAAT-TTTTTTCTTTAACCATCAATCCAACCAAAATTATTTGACCGTTAATCGAACAC
986188 GAAATTTATTTGAAAATT
65 -AAATTTATTTGAAAATT
* * *
986206 TTTAACCGAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACACA
1 ATTAACCGAATTTTTTTCTTTAACCATCAATCCAACCAAAATTATTTGACCGTTAATCGAACACA
986271 AATTTATTTGAAAATT
66 AATTTATTTGAAAATT
986287 ATTAACCGAAT
1 ATTAACCGAAT
986298 AAAATAAATT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
80 12 0.14
81 72 0.85
82 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.38
Consensus pattern (81 bp):
ATTAACCGAATTTTTTTCTTTAACCATCAATCCAACCAAAATTATTTGACCGTTAATCGAACACA
AATTTATTTGAAAATT
Found at i:986339 original size:65 final size:66
Alignment explanation
Indices: 986254--986412 Score: 207
Period size: 65 Copynumber: 2.4 Consensus size: 66
986244 AAATTATTTG
*
986254 ACCGTTAATCGAACACAAATTTATTTGAAAATTATTAACCGAATAAAAT-AA-AT-TATTTTTCT
1 ACCGTTAATCGAAC-CAAATTTATTTGAAAATTATTAACCGAACAAAATCAACATCT-TTTTTCT
986316 TTA
64 TTA
* * * *
986319 ATCGTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAACCAAATCAACCTCTTTTTTCTT
1 ACCGTTAATCGAACC-AAATTTATTTGAAAATTATTAACCGAACAAAATCAACATCTTTTTTCTT
986384 TA
65 TA
* *
986386 ACCATTAATCGAACCAAAATTATTTGA
1 ACCGTTAATCGAACCAAATTTATTTGA
986413 CCGTTAATCG
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 1 0.01
65 43 0.53
66 12 0.15
67 24 0.30
68 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (66 bp):
ACCGTTAATCGAACCAAATTTATTTGAAAATTATTAACCGAACAAAATCAACATCTTTTTTCTTT
A
Found at i:986424 original size:93 final size:93
Alignment explanation
Indices: 986321--986505 Score: 255
Period size: 93 Copynumber: 2.0 Consensus size: 93
986311 TTTCTTTAAT
* * * * * *
986321 CGTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAACCAAATCAACCTCTTTTTTCTTTA
1 CGTTAATCGAACCAAAATTTATTTCAAAACTATTAACCGAACAAAAT-AAACTATTTTTTCCTTA
986386 ACCATTAATCGAACCAAAA-TTATTTGAC
65 ACCATTAATCGAACCAAAATTTATTTGAC
* * * *
986414 CGTTAATCGAATCAAAATTTATTTGAAAACTATTAACCGAATAAAATAAATTATTTTTTCCTTAA
1 CGTTAATCGAACCAAAATTTATTTCAAAACTATTAACCGAACAAAATAAACTATTTTTTCCTTAA
*
986479 CCGTTAATCGAACCAAAATTTATTTGA
66 CCATTAATCGAACCAAAATTTATTTGA
986506 AAATTATTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 31 0.39
93 49 0.61
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (93 bp):
CGTTAATCGAACCAAAATTTATTTCAAAACTATTAACCGAACAAAATAAACTATTTTTTCCTTAA
CCATTAATCGAACCAAAATTTATTTGAC
Found at i:986496 original size:66 final size:69
Alignment explanation
Indices: 986412--986573 Score: 206
Period size: 66 Copynumber: 2.4 Consensus size: 69
986402 AAATTATTTG
* * **
986412 ACCGTTAATCGAATCAAAATTTATTTGAAAACTATTAACCGAAT-AAAATAA-ATTATTTT-TTC
1 ACCGTTAATCGAACCAAAATTTATTTGAAAACTATTAACCAAATCAAAATAACAGAATTTTGTTC
986474 CTTA
66 CTTA
* * *
986478 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAATCAAATTAACCGAATTTTGTTC
1 ACCGTTAATCGAACCAAAATTTATTTGAAAACTATTAACCAAATCAAAATAACAGAATTTTGTTC
*
986543 TTTA
66 CTTA
* *
986547 ACCATTAATCGAACCGAAA-TTATTTGA
1 ACCGTTAATCGAACCAAAATTTATTTGA
986574 TCGTTAATCG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
66 41 0.49
67 6 0.07
68 13 0.16
69 23 0.28
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.36
Consensus pattern (69 bp):
ACCGTTAATCGAACCAAAATTTATTTGAAAACTATTAACCAAATCAAAATAACAGAATTTTGTTC
CTTA
Found at i:986595 original size:161 final size:158
Alignment explanation
Indices: 986207--986612 Score: 625
Period size: 158 Copynumber: 2.5 Consensus size: 158
986197 TTGAAAATTT
986207 TTAACCGAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACACAA
1 TTAACCGAA-TTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAAC-CAA
* * *
986272 ATTTATTTGAAAATTATTAACCGAATAAAATAAATTATTTTTCTTTAATCGTTAATCGAACCGAA
64 ATTTATTTGAAAATTATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCGAACCAAA
*
986337 ATTTATTTCAAAATTATTAACCGAACCAAA
129 ATTTATTTCAAAATTATTAACCAAACCAAA
* ** *
986367 TCAACC-TCTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAATCAAAA
1 TTAACCGAATTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAA-CCAAA
*
986431 TTTATTTGAAAACTATTAACCGAATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAACCAAA
65 TTTATTTGAAAATTATTAACCGAATAAAATAAATTA-TTTTTCCTTAACCGTTAATCGAACCAAA
* *
986496 ATTTATTTGAAAATTATTAACCAAATCAAA
129 ATTTATTTCAAAATTATTAACCAAACCAAA
* *
986526 TTAACCGAATTTTGTTCTTTAACCATTAATCGAACCGAAATTATTTGATCGTTAATCGAACCGAA
1 TTAACCGAATTTT-TTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACC-AA
*
986591 ATTTACTTGAAAATTATTAACC
64 ATTTATTTGAAAATTATTAACC
986613 AAAATTTTTT
Statistics
Matches: 222, Mismatches: 19, Indels: 9
0.89 0.08 0.04
Matches are distributed among these distances:
158 88 0.40
159 58 0.26
160 10 0.05
161 66 0.30
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (158 bp):
TTAACCGAATTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAT
TTATTTGAAAATTATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCGAACCAAAAT
TTATTTCAAAATTATTAACCAAACCAAA
Found at i:986611 original size:81 final size:80
Alignment explanation
Indices: 986525--986695 Score: 270
Period size: 81 Copynumber: 2.1 Consensus size: 80
986515 ACCAAATCAA
* *
986525 ATTAACCGAATTTTGTTCTTTAACCATTAATCGAACCGAAATTATTTGATCGTTAATCGAACCGA
1 ATTAACCGAATTTT-TTCTTTAACCATTAATCGAACCGAAATTATTTGACCATTAATCGAACCGA
986590 AATTTACTTGAAAATT
65 AATTTACTTGAAAATT
* * *
986606 ATTAACCAAAATTTTTTCTTTAACCATTAATCGAACCGAAGTTATTTGACCATTAATCGAACTGA
1 ATTAACC-GAATTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCATTAATCGAACCGA
*
986671 AATTTATTTGAAAATT
65 AATTTACTTGAAAATT
986687 ATTAACCGA
1 ATTAACCGA
986696 TTAACGATTA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 75 0.91
82 6 0.07
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (80 bp):
ATTAACCGAATTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCATTAATCGAACCGAA
ATTTACTTGAAAATT
Found at i:986687 original size:27 final size:27
Alignment explanation
Indices: 986549--986687 Score: 115
Period size: 26 Copynumber: 5.2 Consensus size: 27
986539 GTTCTTTAAC
*
986549 CATTAATCGAACCGAAA-TTATTTGAT
1 CATTAATCGAACCGAAATTTATTTGAA
* *
986575 CGTTAATCGAACCGAAATTTACTTGAA
1 CATTAATCGAACCGAAATTTATTTGAA
* * * * *
986602 AATT-AT-TAACCAAAATTTTTTCTTTAA
1 CATTAATCGAACCGAAA-TTTAT-TTGAA
* *
986629 CCATTAATCGAACCG-AAGTTATTTGAC
1 -CATTAATCGAACCGAAATTTATTTGAA
*
986656 CATTAATCGAACTGAAATTTATTTGAA
1 CATTAATCGAACCGAAATTTATTTGAA
*
986683 AATTA
1 CATTA
986688 TTAACCGATT
Statistics
Matches: 85, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
25 7 0.08
26 34 0.40
27 30 0.35
28 6 0.07
29 4 0.05
30 4 0.05
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (27 bp):
CATTAATCGAACCGAAATTTATTTGAA
Found at i:998578 original size:23 final size:24
Alignment explanation
Indices: 998543--998595 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
998533 ATGACATATA
*
998543 TTCTTATGCTTTTATAATATGTTT
1 TTCTTATGCTTTTATAACATGTTT
* *
998567 TTCTT-TGTTTTTATGACATGTTT
1 TTCTTATGCTTTTATAACATGTTT
998590 TT-TTAT
1 TTCTTAT
998596 CATTCGACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 2 0.08
23 18 0.72
24 5 0.20
ACGTcount: A:0.17, C:0.08, G:0.09, T:0.66
Consensus pattern (24 bp):
TTCTTATGCTTTTATAACATGTTT
Found at i:1004775 original size:17 final size:17
Alignment explanation
Indices: 1004749--1004790 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1004739 ATTTTGATTC
1004749 ATTT-TTATTTTAAATA
1 ATTTATTATTTTAAATA
* **
1004765 TTTTATTATTTTTTATA
1 ATTTATTATTTTAAATA
1004782 ATTTATTAT
1 ATTTATTAT
1004791 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTATTATTTTAAATA
Found at i:1006985 original size:12 final size:11
Alignment explanation
Indices: 1006967--1007006 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
1006957 TCTCTCTTTC
1006967 GTTTTGATTTT
1 GTTTTGATTTT
1006978 GATTTTGATTTTT
1 G-TTTTGA-TTTT
1006991 GTTTTG-TTTT
1 GTTTTGATTTT
1007001 GTTTTG
1 GTTTTG
1007007 TTTGGGGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 10 0.37
11 1 0.04
12 11 0.41
13 5 0.19
ACGTcount: A:0.07, C:0.00, G:0.20, T:0.72
Consensus pattern (11 bp):
GTTTTGATTTT
Found at i:1006997 original size:5 final size:5
Alignment explanation
Indices: 1006967--1007009 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
1006957 TCTCTCTTTC
1006967 GTTTT GATTTT GATTTT GATTTTT GTTTT GTTTT GTTTT GTTT
1 GTTTT G-TTTT G-TTTT G--TTTT GTTTT GTTTT GTTTT GTTT
1007010 GGGGTATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
5 19 0.54
6 11 0.31
7 5 0.14
ACGTcount: A:0.07, C:0.00, G:0.19, T:0.74
Consensus pattern (5 bp):
GTTTT
Found at i:1012615 original size:84 final size:85
Alignment explanation
Indices: 1012419--1012619 Score: 287
Period size: 84 Copynumber: 2.4 Consensus size: 85
1012409 AATTAGATTC
* * * *
1012419 ATACACATAAAGAAAACAATTTCATTTTGGATTTGAAATTTTGGTTTCCCAAAAGAGCAATGCAA
1 ATACATATAACGAAAACAATTTCATTTTGGATTTGAAATGTTGGTTTCCC-AAAGAGCAATGAAA
* *
1012484 AAGTAGCGATTCATCAAATTT
65 AAATAGCGAGTCATCAAATTT
* * *
1012505 ATACGTATAGCGAAAACGATTTCATTTTGGATTTGAAATGTTGGTTTCCC-AAGAGCAATGAAAA
1 ATACATATAACGAAAACAATTTCATTTTGGATTTGAAATGTTGGTTTCCCAAAGAGCAATGAAAA
*
1012569 AATTGCGAGTCATCAAATTT
66 AATAGCGAGTCATCAAATTT
*
1012589 ATACATATAACGAAAACAATTGCATTTTGGA
1 ATACATATAACGAAAACAATTTCATTTTGGA
1012620 ACACTTATAT
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 57 0.56
86 44 0.44
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (85 bp):
ATACATATAACGAAAACAATTTCATTTTGGATTTGAAATGTTGGTTTCCCAAAGAGCAATGAAAA
AATAGCGAGTCATCAAATTT
Found at i:1016557 original size:15 final size:17
Alignment explanation
Indices: 1016531--1016563 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1016521 ATAGATATCA
1016531 AAGTACA-TTTTTAAAT
1 AAGTACATTTTTTAAAT
1016547 AAGTA-ATTTTTTAAAT
1 AAGTACATTTTTTAAAT
1016563 A
1 A
1016564 TTATATCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (17 bp):
AAGTACATTTTTTAAAT
Found at i:1016598 original size:30 final size:29
Alignment explanation
Indices: 1016555--1016668 Score: 111
Period size: 32 Copynumber: 3.7 Consensus size: 29
1016545 ATAAGTAATT
** *
1016555 TTTTAAATATTATATCATAATTATTAAAA
1 TTTTAAATATTATAAAATAATCATTAAAA
1016584 TTTTAAACTATTATAAAATAATCATTAAAA
1 TTTTAAA-TATTATAAAATAATCATTAAAA
* *
1016614 TTTATCAAATTATTATAAAATAATCATTTAAC
1 TTT-T-AAA-TATTATAAAATAATCATTAAAA
* *
1016646 TTATCAAAATATTATATAATAAT
1 TT-T-TAAATATTATAAAATAAT
1016669 ATTTAAACTC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.10
30 22 0.31
31 14 0.19
32 28 0.39
33 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTTAAATATTATAAAATAATCATTAAAA
Found at i:1016633 original size:32 final size:32
Alignment explanation
Indices: 1016559--1016668 Score: 127
Period size: 30 Copynumber: 3.5 Consensus size: 32
1016549 GTAATTTTTT
** *
1016559 AAATATTATATCATAATTATTAAAATTT-T-A
1 AAATATTATAAAATAATCATTAAAATTTATCA
*
1016589 AACTATTATAAAATAATCATTAAAATTTATCA
1 AAATATTATAAAATAATCATTAAAATTTATCA
* * *
1016621 AATTATTATAAAATAATCATT-TAACTTATCA
1 AAATATTATAAAATAATCATTAAAATTTATCA
*
1016652 AAATATTATATAATAAT
1 AAATATTATAAAATAAT
1016669 ATTTAAACTC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
30 24 0.35
31 24 0.35
32 21 0.30
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (32 bp):
AAATATTATAAAATAATCATTAAAATTTATCA
Found at i:1016686 original size:31 final size:32
Alignment explanation
Indices: 1016592--1016686 Score: 122
Period size: 31 Copynumber: 3.0 Consensus size: 32
1016582 AATTTTAAAC
* * *
1016592 TATTATAAAATAATCATTAAAATTTATCAAAT
1 TATTATAAAATAATCATTTAAACTTATCAAAA
1016624 TATTATAAAATAATCATTT-AACTTATCAAAA
1 TATTATAAAATAATCATTTAAACTTATCAAAA
* * *
1016655 TATTATATAATAAT-ATTTAAACTCATAAAAA
1 TATTATAAAATAATCATTTAAACTTATCAAAA
1016686 T
1 T
1016687 TAATTACTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 4 0.07
31 34 0.61
32 18 0.32
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (32 bp):
TATTATAAAATAATCATTTAAACTTATCAAAA
Found at i:1016875 original size:3 final size:3
Alignment explanation
Indices: 1016867--1016905 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1016857 TGCTTATTCG
1016867 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1016906 CAACCGCGTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1024735 original size:21 final size:21
Alignment explanation
Indices: 1024690--1024738 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1024680 ATTGTTAAAG
* *
1024690 ACTGTCATGTTAGCACCATGG
1 ACTGTCATGTTAACACCATGA
**
1024711 ACTGTCATGTTAACACTGTGA
1 ACTGTCATGTTAACACCATGA
1024732 ACTGTCA
1 ACTGTCA
1024739 CGTCAGTACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (21 bp):
ACTGTCATGTTAACACCATGA
Found at i:1027571 original size:30 final size:31
Alignment explanation
Indices: 1027535--1027594 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
1027525 TAATTTAACT
* *
1027535 TTTAGATAGAATACTATTTTAAC-CCTAAAA
1 TTTAGATAAAATACTAATTTAACACCTAAAA
*
1027565 TTTAGATAAAATATTAATTTAACACCTAAA
1 TTTAGATAAAATACTAATTTAACACCTAAA
1027595 CTAGTAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.37
Consensus pattern (31 bp):
TTTAGATAAAATACTAATTTAACACCTAAAA
Found at i:1027670 original size:30 final size:31
Alignment explanation
Indices: 1027613--1027675 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
1027603 CTATAGATAA
1027613 AATACTTTATCTAAAGTTTAGTGGGTTAAATT
1 AATACTTTATCTAAAGTTTA-TGGGTTAAATT
* *
1027645 AATATTTTATTTAAAGTTT-TGGGTTAAATT
1 AATACTTTATCTAAAGTTTATGGGTTAAATT
1027675 A
1 A
1027676 GTGTTTGTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 12 0.41
32 17 0.59
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (31 bp):
AATACTTTATCTAAAGTTTATGGGTTAAATT
Found at i:1030957 original size:25 final size:25
Alignment explanation
Indices: 1030912--1030960 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1030902 TAACTGAGTA
*
1030912 TATATTATTGTAATAATAATATTAT
1 TATATTATTGTAATAAAAATATTAT
*
1030937 TATATTATAT-TATTAAAAATATTA
1 TATATTAT-TGTAATAAAAATATTA
1030961 ATAAATATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTATTGTAATAAAAATATTAT
Found at i:1032783 original size:5 final size:5
Alignment explanation
Indices: 1032773--1032807 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
1032763 CTTTATCTCT
1032773 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1032808 ATTTCCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:1039115 original size:19 final size:20
Alignment explanation
Indices: 1039091--1039141 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1039081 AATGACCAAT
1039091 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
1039110 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
1039130 AAAATCGCAACG
1 AAAATCGCAACG
1039142 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:1039135 original size:20 final size:20
Alignment explanation
Indices: 1039091--1039388 Score: 170
Period size: 20 Copynumber: 14.6 Consensus size: 20
1039081 AATGACCAAT
* *
1039091 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
1039110 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
1039130 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
1039150 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
1039170 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
1039191 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
1039214 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
1039234 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
1039254 AGAATCGCAAAGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* * *
1039274 AGAGTCGCAACGCGATCTAGAAG
1 AAAATCGCAACGCGAT-T--TAG
* * *
1039297 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
1039317 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
1039337 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
1039357 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
1039377 AAAATCGCAACG
1 AAAATCGCAACG
1039389 TGAATTTTCT
Statistics
Matches: 221, Mismatches: 46, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
19 17 0.08
20 160 0.72
21 15 0.07
22 1 0.00
23 28 0.13
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:1039270 original size:40 final size:40
Alignment explanation
Indices: 1039195--1039386 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 40
1039185 GCTTCCAAGT
* *
1039195 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAA
* * *
1039238 TCGCAATGCGATTTATAGAATCGCAAAGCGATTGAGAGAG
1 TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* * *
1039278 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAA
*
1039321 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAA
1 TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
* *
1039361 TCGCAACGCGATTTAGAAAATCGCAA
1 TCGCAACGCGATTTATAGAATCGCAA
1039387 CGTGAATTTT
Statistics
Matches: 128, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
40 76 0.59
41 2 0.02
42 4 0.03
43 46 0.36
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (40 bp):
TCGCAACGCGATTTATAGAATCGCAATGCGATTGAGAGAA
Found at i:1039306 original size:83 final size:83
Alignment explanation
Indices: 1039195--1039378 Score: 323
Period size: 83 Copynumber: 2.2 Consensus size: 83
1039185 GCTTCCAAGT
* *
1039195 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
*
1039260 GCAAAGCGATTGAGAGAG
66 GCAAAGCGATTGAGAGAA
*
1039278 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
*
1039343 GCAATGCGATTGAGAGAA
66 GCAAAGCGATTGAGAGAA
1039361 TCGCAACGCGATTTAGAA
1 TCGCAACGCGATTTAGAA
1039379 AATCGCAACG
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 95 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (83 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATC
GCAAAGCGATTGAGAGAA
Found at i:1039452 original size:6 final size:6
Alignment explanation
Indices: 1039442--1039519 Score: 99
Period size: 6 Copynumber: 13.5 Consensus size: 6
1039432 GACACGTATT
* * * *
1039442 ACCACT ACCACT ACCACT ACCACT ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1039490 ACCACG ACCACG ACC-CG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1039520 CGAGACGAGA
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
5 15 0.21
6 56 0.79
ACGTcount: A:0.31, C:0.53, G:0.12, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:1040251 original size:6 final size:6
Alignment explanation
Indices: 1040210--1040364 Score: 257
Period size: 6 Copynumber: 26.5 Consensus size: 6
1040200 TCTCGTCTCG
*
1040210 GGTCG- GGTCG- GGTCG- GGTCG- GGTCG- GGGCGGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC-GT GGTCGT GGTCGT
1040254 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1040302 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1040350 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
1040365 AATACGTGTC
Statistics
Matches: 146, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
5 23 0.16
6 120 0.82
7 3 0.02
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:1040467 original size:20 final size:20
Alignment explanation
Indices: 1040442--1040485 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
1040432 TTTTTAACTA
*
1040442 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
1040462 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
1040482 TTCT
1 TTCT
1040486 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:1040495 original size:20 final size:20
Alignment explanation
Indices: 1040472--1040809 Score: 178
Period size: 20 Copynumber: 16.6 Consensus size: 20
1040462 TTCTTTTTAA
1040472 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
1040492 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
1040512 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1040532 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1040552 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1040572 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* *
1040592 CATTGCGATTTTCTTCTAGATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
1040615 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
1040635 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
1040655 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
1040675 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
1040698 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
1040719 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
1040737 ACCGTTGCGATTTTCTTTTTTA
1 --CGTTGCGATTTTCTAAATCG
1040759 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
1040779 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
1040798 CGTTGCGATTTT
1 CGTTGCGATTTT
1040810 ATTGGTCATT
Statistics
Matches: 262, Mismatches: 45, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
18 2 0.01
19 17 0.06
20 195 0.74
21 14 0.05
22 7 0.03
23 27 0.10
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:1040518 original size:40 final size:40
Alignment explanation
Indices: 1040474--1040705 Score: 293
Period size: 40 Copynumber: 5.7 Consensus size: 40
1040464 CTTTTTAACG
* *
1040474 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* *
1040514 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
1040554 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
1040594 TTGCGATTTTCTTCTAGATCGCGTTGCGACTCTCTCAATCGCA
1 TTGCGA--TTC-TCTAAATCGCATTGCGATTCTCTCAATCGCA
* *
1040637 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
*
1040677 TTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGA--TTC-TCTAAATCGCATTGCGA
1040706 ACTTGGAAGC
Statistics
Matches: 166, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
40 111 0.67
41 3 0.02
42 6 0.04
43 46 0.28
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (40 bp):
TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:1040641 original size:83 final size:83
Alignment explanation
Indices: 1040474--1040705 Score: 335
Period size: 83 Copynumber: 2.8 Consensus size: 83
1040464 CTTTTTAACG
* * * *
1040474 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGA--TTC-TATAAATCGCATT
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
* *
1040536 GCGATTCTCTCAGTCGCA
66 GCGACTCTCTCAATCGCA
* * * *
1040554 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAGATCGCGTT
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
1040619 GCGACTCTCTCAATCGCA
66 GCGACTCTCTCAATCGCA
* *
1040637 TTGCGATTCTATAAATCGCATTGCGATTCTATCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
1040702 GCGA
66 GCGA
1040706 ACTTGGAAGC
Statistics
Matches: 133, Mismatches: 16, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
80 41 0.31
82 3 0.02
83 89 0.67
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (83 bp):
TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAATCGCGTT
GCGACTCTCTCAATCGCA
Found at i:1040799 original size:19 final size:20
Alignment explanation
Indices: 1040759--1040809 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
1040749 TTCTTTTTTA
*
1040759 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
1040779 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
1040798 CGTTGCGATTTT
1 CGTTGCGATTTT
1040810 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:1042878 original size:36 final size:37
Alignment explanation
Indices: 1042819--1042889 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
1042809 TATGTGCAGG
*
1042819 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCTC
1 GGGAACAAATTCCCCCCTGGGGGGGTATCGATTCCTC
1042856 GGGAACAAATT-CCCCCTGGGGGGGTATCGATTCC
1 GGGAACAAATTCCCCCCTGGGGGGGTATCGATTCC
1042890 CCCTTAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 23 0.70
37 10 0.30
ACGTcount: A:0.18, C:0.28, G:0.32, T:0.21
Consensus pattern (37 bp):
GGGAACAAATTCCCCCCTGGGGGGGTATCGATTCCTC
Found at i:1043312 original size:22 final size:21
Alignment explanation
Indices: 1043287--1043359 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 21
1043277 TTATATGAAA
1043287 TGATATATGAATATGCAATACG
1 TGATATATGAATATG-AATACG
* * **
1043309 TGATACATGTGATATGATATGAAA
1 TGATATATG-AATATGA-AT-ACG
*
1043333 TGACATATGAATATGTAATACG
1 TGATATATGAATATG-AATACG
1043355 TGATA
1 TGATA
1043360 CATGTGATAT
Statistics
Matches: 37, Mismatches: 10, Indels: 8
0.67 0.18 0.15
Matches are distributed among these distances:
22 14 0.38
23 14 0.38
24 9 0.24
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (21 bp):
TGATATATGAATATGAATACG
Found at i:1043324 original size:23 final size:22
Alignment explanation
Indices: 1043297--1043371 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
1043287 TGATATATGA
1043297 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
1043320 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
1043342 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
1043366 ATATGA
1 ATATGA
1043372 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:1043341 original size:46 final size:46
Alignment explanation
Indices: 1043271--1043383 Score: 187
Period size: 46 Copynumber: 2.5 Consensus size: 46
1043261 GAGATAAGCT
*
1043271 ATGTGAT-T-ATATGAAATGATATATGAATATGCAATACGTGATAC
1 ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
*
1043315 ATGTGATATGATATGAAATGACATATGAATATGTAATACGTGATAC
1 ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
1043361 ATGTGATATGATATGAAAT-ACAT
1 ATGTGATATGATATGAAATGACAT
1043384 GGTTACACAT
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
44 7 0.11
45 5 0.08
46 53 0.82
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.34
Consensus pattern (46 bp):
ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
Found at i:1043588 original size:38 final size:38
Alignment explanation
Indices: 1043532--1043622 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 38
1043522 TATAAGACAT
* * *
1043532 ATGATAGGTCCTACGAGACACAGATTACATCCTTCG-G
1 ATGATAGGTCCTTCGAGACACAAATGACATCCTTCGAG
*
1043569 AATGACAGGTCCTTCGAGACACAAATGACATCCTTCGAG
1 -ATGATAGGTCCTTCGAGACACAAATGACATCCTTCGAG
*
1043608 ATGATAGGTCTTTCG
1 ATGATAGGTCCTTCG
1043623 GGATATTTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 45 0.98
39 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (38 bp):
ATGATAGGTCCTTCGAGACACAAATGACATCCTTCGAG
Found at i:1043817 original size:20 final size:21
Alignment explanation
Indices: 1043781--1043822 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
1043771 TGGCATGATT
*
1043781 TATATATATGTCATATTGAAA
1 TATATACATGTCATATTGAAA
1043802 TATATACATG-CATATTGAAA
1 TATATACATGTCATATTGAAA
1043822 T
1 T
1043823 GTTATGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
TATATACATGTCATATTGAAA
Found at i:1045196 original size:24 final size:24
Alignment explanation
Indices: 1045113--1045213 Score: 98
Period size: 23 Copynumber: 4.3 Consensus size: 24
1045103 GAGTTGAGGG
* *
1045113 TTCTACGCGATCCTTTAAGACAAA
1 TTCTACGCGATCCTTCAGGACAAA
* * *
1045137 -TCTATGTGATCCTTCAGGAC-AT
1 TTCTACGCGATCCTTCAGGACAAA
* * *
1045159 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGCGATCCTTCAGGACAAA
**
1045183 TTCTACGCGATCCTTTGGGACAAA
1 TTCTACGCGATCCTTCAGGACAAA
1045207 TTCTACG
1 TTCTACG
1045214 TGGCACTTCG
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.02
23 33 0.52
24 29 0.46
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (24 bp):
TTCTACGCGATCCTTCAGGACAAA
Found at i:1045229 original size:24 final size:23
Alignment explanation
Indices: 1045159--1045229 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
1045149 TTCAGGACAT
1045159 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGTGG-CCTTCGGGACAAA
* * *
1045183 TTCTACGCGATCCTTTGGGACAAA
1 TTCTACGTG-GCCTTCGGGACAAA
*
1045207 TTCTACGTGGCACTTCGGTACAA
1 TTCTACGTGGC-CTTCGGGACAA
1045230 TTTAAATGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.03
24 37 0.97
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (23 bp):
TTCTACGTGGCCTTCGGGACAAA
Found at i:1051560 original size:171 final size:171
Alignment explanation
Indices: 1051264--1052029 Score: 1009
Period size: 171 Copynumber: 4.5 Consensus size: 171
1051254 GGTTAATTTG
* * *
1051264 TTTCCAACACCAGGACTCGGACCGGAGTCAGTAAACTTGTTCCCTACACCAGGGCTC-GCCCCTC
1 TTTCCCACACCAGGACTCGGACCGGAGTCGGTAAACTTGTTCCCTACGCCAGGGCTCGGCCCC-C
* * * * * *
1051328 CATTCTTGATGCCTCCAATGGTCTGACTATCAATTAACTTAATTCCCACACCAGGACTTGAACCG
65 CATTCTTAATGCCTCCAATGATCTGACTATCAATTAACTTATTTCCAACATCAGAACTTGAACCG
* *
1051393 AAGTTTTTAATGCCACCTAGAGTGAAGCTATTAGTAAACTTA
130 GAGTTTTTAATGCCACCTAGAGTGAAGCTATCAGTAAACTTA
* * *
1051435 TTTCCCACACCAGGACTCGGACCAGAGTCGGTAAACTTGTTCCCTACTCCAGGACTCGGCCCCCC
1 TTTCCCACACCAGGACTCGGACCGGAGTCGGTAAACTTGTTCCCTACGCCAGGGCTCGGCCCCCC
* * *
1051500 ATTCTTCATGCCTCCAATGATCTGACTGTCAGTTAACTTATTTCCAACATCAGAACTTGAACCGG
66 ATTCTTAATGCCTCCAATGATCTGACTATCAATTAACTTATTTCCAACATCAGAACTTGAACCGG
* * *
1051565 AGGTTTTAATTCCACCTAGAGTGAAGCTATCAGTAAATTTA
131 AGTTTTTAATGCCACCTAGAGTGAAGCTATCAGTAAACTTA
* * * *
1051606 TTTCCCACACCAGGACTCGGACCGGAGTCGGTGAACCTGCTCCCTACGCCAGGGCTTGGCCCCCC
1 TTTCCCACACCAGGACTCGGACCGGAGTCGGTAAACTTGTTCCCTACGCCAGGGCTCGGCCCCCC
* * * * * * * * *
1051671 ATTCTTTATGCCTCCAATGATCGGACTATGAGTCAACTTATTTTCAACATCAGGATTTGAATCGG
66 ATTCTTAATGCCTCCAATGATCTGACTATCAATTAACTTATTTCCAACATCAGAACTTGAACCGG
*
1051736 AGTTTTTAATGCCACCTAGAGTGAAGCTATCAGTAAATTTA
131 AGTTTTTAATGCCACCTAGAGTGAAGCTATCAGTAAACTTA
* * *
1051777 TTTCCCACACCAGGACTCGGACCGGAGTCGGTAAACTTGTTCCCTACGCCGGGGCTCGACCCTCC
1 TTTCCCACACCAGGACTCGGACCGGAGTCGGTAAACTTGTTCCCTACGCCAGGGCTCGGCCCCCC
* *
1051842 ATTCTTAATGCCTCCAATGATCTGAATATCAATTAACTTATGTCCAACATCA-AGACTTGAACCG
66 ATTCTTAATGCCTCCAATGATCTGACTATCAATTAACTTATTTCCAACATCAGA-ACTTGAACCG
*
1051906 GAGTTTTTAATGCCACCTAGGGTGAAGCTATCAGTAAACTTA
130 GAGTTTTTAATGCCACCTAGAGTGAAGCTATCAGTAAACTTA
** * * * * * * * *
1051948 TTTCCCACACCAGGA-TTTGAGTCGGAATCGATTAATTTATTCCCTACACCAGGGCTCGAG-CCA
1 TTTCCCACACCAGGACTCGGA-CCGGAGTCGGTAAACTTGTTCCCTACGCCAGGGCTCG-GCCCC
*
1052011 ACATTCTTAATGCCTCCAA
64 CCATTCTTAATGCCTCCAA
1052030 AGGTCAGACT
Statistics
Matches: 522, Mismatches: 69, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
170 3 0.01
171 514 0.98
172 5 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (171 bp):
TTTCCCACACCAGGACTCGGACCGGAGTCGGTAAACTTGTTCCCTACGCCAGGGCTCGGCCCCCC
ATTCTTAATGCCTCCAATGATCTGACTATCAATTAACTTATTTCCAACATCAGAACTTGAACCGG
AGTTTTTAATGCCACCTAGAGTGAAGCTATCAGTAAACTTA
Found at i:1054732 original size:19 final size:20
Alignment explanation
Indices: 1054689--1054736 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1054679 GTGCGTATGA
*
1054689 ATCGATACTCTAGGGTAAGT
1 ATCGATACTCTAGGGAAAGT
* *
1054709 TTCGATACTCT-TGGAAAGT
1 ATCGATACTCTAGGGAAAGT
1054728 ATCGATACT
1 ATCGATACT
1054737 AAAATGGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (20 bp):
ATCGATACTCTAGGGAAAGT
Found at i:1054779 original size:19 final size:19
Alignment explanation
Indices: 1054755--1054833 Score: 106
Period size: 19 Copynumber: 4.1 Consensus size: 19
1054745 TTATGTTGCT
*
1054755 GAAAGTATTGATACTCTTG
1 GAAAGTATCGATACTCTTG
1054774 GAAAGTATCGATACT-TTGAG
1 GAAAGTATCGATACTCTT--G
1054794 GTAAAGTATCGATACTCTTG
1 G-AAAGTATCGATACTCTTG
*
1054814 AAAAGTATCGATACTCTTG
1 GAAAGTATCGATACTCTTG
1054833 G
1 G
1054834 CCTGAAATCC
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
18 2 0.04
19 32 0.60
20 3 0.06
21 14 0.26
22 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (19 bp):
GAAAGTATCGATACTCTTG
Found at i:1056700 original size:18 final size:19
Alignment explanation
Indices: 1056679--1056716 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1056669 TTGTTTTATT
1056679 TGTTACTATTACTGA-TTA
1 TGTTACTATTACTGAGTTA
* *
1056697 TGTTTCTGTTACTGAGTTA
1 TGTTACTATTACTGAGTTA
1056716 T
1 T
1056717 TATTGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.53
Consensus pattern (19 bp):
TGTTACTATTACTGAGTTA
Found at i:1057414 original size:21 final size:21
Alignment explanation
Indices: 1057373--1057414 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1057363 TCTTGGAAAG
**
1057373 TATCGATACTTTGAGGTAAAA
1 TATCGATACTTTGAGCCAAAA
1057394 TATCGATACTCTT-AGCCAAAA
1 TATCGATACT-TTGAGCCAAAA
1057415 ATGGGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (21 bp):
TATCGATACTTTGAGCCAAAA
Found at i:1057810 original size:27 final size:24
Alignment explanation
Indices: 1057778--1057826 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 24
1057768 ATGAGGGAGG
1057778 AAGAGAAAATGAGAAGATAGGAAAATA
1 AAGAGAAAATG-G-AGAT-GGAAAATA
1057805 AAGAGAAAATGGAGATGGAAAA
1 AAGAGAAAATGGAGATGGAAAA
1057827 GATAAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 1 0.05
27 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.29, T:0.10
Consensus pattern (24 bp):
AAGAGAAAATGGAGATGGAAAATA
Found at i:1058520 original size:3 final size:3
Alignment explanation
Indices: 1058512--1058541 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1058502 ATTCACACAA
1058512 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1058542 TAAAATAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1059411 original size:23 final size:23
Alignment explanation
Indices: 1059368--1059411 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1059358 TAACTCGTTC
**
1059368 AGTACCTAAATTATCGGTTTTGT
1 AGTACCTAAATTATCAATTTTGT
1059391 AGTACCTAAACTT-TCAATTTT
1 AGTACCTAAA-TTATCAATTTT
1059412 TCCAAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (23 bp):
AGTACCTAAATTATCAATTTTGT
Found at i:1067438 original size:24 final size:24
Alignment explanation
Indices: 1067404--1067477 Score: 91
Period size: 22 Copynumber: 3.2 Consensus size: 24
1067394 CCTTTTGATT
1067404 AAAAGACTTAACCTTTAATTTATG
1 AAAAGACTTAACCTTTAATTTATG
* * * *
1067428 AAAAGATTTAACC--TCATTCATA
1 AAAAGACTTAACCTTTAATTTATG
1067450 AAAAGACTTAA-CTTTAATTTATG
1 AAAAGACTTAACCTTTAATTTATG
1067473 AAAAG
1 AAAAG
1067478 TTATGATCGA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 16 0.40
23 11 0.28
24 12 0.30
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (24 bp):
AAAAGACTTAACCTTTAATTTATG
Found at i:1074239 original size:59 final size:60
Alignment explanation
Indices: 1074161--1074301 Score: 180
Period size: 59 Copynumber: 2.4 Consensus size: 60
1074151 TGAATTTGGG
* * *
1074161 GATGAAATT-GAAATATTCAAAAGTTTTG-GGACTAATTTATAAAGAGGGTC-AAGTTTAGA
1 GATGAAATTAG-AATATTCAAAAG-TTTGAGGACCAATTTAGAAAGAGAGTCTAAGTTTAGA
* * *
1074220 GATGAAATTAGAATGTTCAAAAGTTTGAGGACCAATTTAGAATGAGAGTCTCAGTTTAGA
1 GATGAAATTAGAATATTCAAAAGTTTGAGGACCAATTTAGAAAGAGAGTCTAAGTTTAGA
*
1074280 GATGGAATTAGAATATTCAAAA
1 GATGAAATTAGAATATTCAAAA
1074302 ATATAAGGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
58 4 0.06
59 38 0.54
60 29 0.41
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.30
Consensus pattern (60 bp):
GATGAAATTAGAATATTCAAAAGTTTGAGGACCAATTTAGAAAGAGAGTCTAAGTTTAGA
Found at i:1080775 original size:20 final size:20
Alignment explanation
Indices: 1080750--1080790 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1080740 ATGATAACTA
1080750 AAAATATT-TATTATAAATAT
1 AAAATATTATATTA-AAATAT
1080770 AAAATATTAATATTAAAATAT
1 AAAATATT-ATATTAAAATAT
1080791 TGTTTACGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAATATTATATTAAAATAT
Found at i:1086179 original size:25 final size:24
Alignment explanation
Indices: 1086134--1086182 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
1086124 ATTTAACTCA
1086134 AATTTAATGAATTTTGATTTAATTT
1 AATTTAATGAATTTT-ATTTAATTT
1086159 AATTTAATGAAATTATT-TTTAATT
1 AATTTAATG-AATT-TTATTTAATT
1086183 GTATAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 16 0.73
26 4 0.18
27 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (24 bp):
AATTTAATGAATTTTATTTAATTT
Found at i:1086207 original size:21 final size:19
Alignment explanation
Indices: 1086155--1086198 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1086145 TTTTGATTTA
1086155 ATTTAATT-TAATGAAATTAT
1 ATTTAATTGT-AT-AAATTAT
*
1086175 TTTTAATTGTATAAATTAT
1 ATTTAATTGTATAAATTAT
1086194 ATTTA
1 ATTTA
1086199 TATATGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 11 0.52
20 9 0.43
21 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTAATTGTATAAATTAT
Found at i:1096147 original size:58 final size:58
Alignment explanation
Indices: 1096077--1096191 Score: 230
Period size: 58 Copynumber: 2.0 Consensus size: 58
1096067 GTGGATATCT
1096077 TGTCATTGGGAAGTGATCCACAAAGTTTTTGGTGAAAACAGTGACAAAAGCCCAGCAC
1 TGTCATTGGGAAGTGATCCACAAAGTTTTTGGTGAAAACAGTGACAAAAGCCCAGCAC
1096135 TGTCATTGGGAAGTGATCCACAAAGTTTTTGGTGAAAACAGTGACAAAAGCCCAGCA
1 TGTCATTGGGAAGTGATCCACAAAGTTTTTGGTGAAAACAGTGACAAAAGCCCAGCA
1096192 AATTATAAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (58 bp):
TGTCATTGGGAAGTGATCCACAAAGTTTTTGGTGAAAACAGTGACAAAAGCCCAGCAC
Found at i:1099002 original size:25 final size:25
Alignment explanation
Indices: 1098968--1099027 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
1098958 GAGGTGGTAA
1098968 ACGGGTCATTCAGATTGGGTTTGGG
1 ACGGGTCATTCAGATTGGGTTTGGG
*
1098993 ACGGGTCATTCGGATTGGGTTTGGG
1 ACGGGTCATTCAGATTGGGTTTGGG
*
1099018 ACGGATCATT
1 ACGGGTCATT
1099028 TCAGGTCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.17, C:0.13, G:0.38, T:0.32
Consensus pattern (25 bp):
ACGGGTCATTCAGATTGGGTTTGGG
Found at i:1100469 original size:97 final size:97
Alignment explanation
Indices: 1100363--1100556 Score: 388
Period size: 97 Copynumber: 2.0 Consensus size: 97
1100353 GACTTGGGAA
1100363 GATAATGAGAAAAAACGAAGGAGAAGAAGTGGACGACGATGATGAGGAAAAAGGAGAAGAACTAG
1 GATAATGAGAAAAAACGAAGGAGAAGAAGTGGACGACGATGATGAGGAAAAAGGAGAAGAACTAG
1100428 AGGAAGATAGTGAAGATGAAGAAGAACATAGG
66 AGGAAGATAGTGAAGATGAAGAAGAACATAGG
1100460 GATAATGAGAAAAAACGAAGGAGAAGAAGTGGACGACGATGATGAGGAAAAAGGAGAAGAACTAG
1 GATAATGAGAAAAAACGAAGGAGAAGAAGTGGACGACGATGATGAGGAAAAAGGAGAAGAACTAG
1100525 AGGAAGATAGTGAAGATGAAGAAGAACATAGG
66 AGGAAGATAGTGAAGATGAAGAAGAACATAGG
1100557 ATTAAGCTTA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.51, C:0.05, G:0.34, T:0.10
Consensus pattern (97 bp):
GATAATGAGAAAAAACGAAGGAGAAGAAGTGGACGACGATGATGAGGAAAAAGGAGAAGAACTAG
AGGAAGATAGTGAAGATGAAGAAGAACATAGG
Found at i:1106017 original size:19 final size:20
Alignment explanation
Indices: 1105983--1106021 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1105973 TTTAATTTAT
*
1105983 AATATTATTTAATAAAATAA
1 AATATTATTAAATAAAATAA
1106003 AATATTA-TAAATAAAATAA
1 AATATTATTAAATAAAATAA
1106022 TTTTAGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATTATTAAATAAAATAA
Found at i:1108378 original size:25 final size:25
Alignment explanation
Indices: 1108327--1108379 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
1108317 ATTATATTTG
* *
1108327 AATTTGATTTGATTTCAATTTTAAT
1 AATTTGATCTGATTTCAATTTAAAT
1108352 AATTTGATCTGATTT-AATTTAATAT
1 AATTTGATCTGATTTCAATTTAA-AT
1108377 AAT
1 AAT
1108380 ACAATGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (25 bp):
AATTTGATCTGATTTCAATTTAAAT
Found at i:1108934 original size:27 final size:25
Alignment explanation
Indices: 1108900--1108954 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 25
1108890 TTTATATTTG
*
1108900 AATTTGATTTGATTTCAATTTTAATAT
1 AATTTGATCTGATTT-AA-TTTAATAT
1108927 AATTTGATCTGATTTAATTTAATAT
1 AATTTGATCTGATTTAATTTAATAT
1108952 AAT
1 AAT
1108955 ACAATGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 11 0.41
26 2 0.07
27 14 0.52
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (25 bp):
AATTTGATCTGATTTAATTTAATAT
Found at i:1109151 original size:571 final size:562
Alignment explanation
Indices: 1108024--1109122 Score: 1645
Period size: 571 Copynumber: 1.9 Consensus size: 562
1108014 ATTGTCACGA
1108024 TATGTGTCAGTATATGATTGCGATTATAAATTTTATTGTAATTTAAATATTTTTTATTTAAAATT
1 TATGTGTCAGTATATGATTGCGATTATAAATTTTATTGTAATTTAAATATTTTTTATTTAAAATT
1108089 AATAATTTCTATTAAAATATCAAAATTTTCTTACTCGAAATAACTCTACATATATTGTCCAGTGA
66 AATAATTTCTATTAAAATATCAAAATTTTCTTACTCGAAATAACTCTACATATATTGTCCAGTGA
1108154 ATGAACCTAGCTTTATTCAGATGAAAACATTATTCATTATTATTCTCTTCGCTATTAGATCCGTC
131 ATGAACCTAGCTTTATTCAGATGAAAACATTATTCATTATTATTCTCTTCGCTATTAGATCCGTC
1108219 AATTGATCAGAAATGATATATAATATAGTTTGAACTTATCCTTGATTAGGGATGGGCGAACTTTT
196 AATTGATCAGAAATGATATATAATATAGTTTGAACTTATCCTTGATTAGGGATGGGCGAACTTTT
1108284 AGCTATCGATCGGGATAAAAATTTAAAATTTATATTATATTTGAATTTGATTTGATTTCAATTTT
261 AGCTATCGATCGGGATAAAAATTTAAAATTTATATTATATTTGAATTTGATTTGATTTCAATTTT
1108349 AATAATTTGATCTGATTTAATTTAATATAATACAATGAAAATACAATTTGATCTTAGAATTTCAA
326 AATAATTTGATCTGATTTAATTTAATATAATACAATGAAAATACAATTTGATCTTAGAATTTCAA
** *** * **
1108414 TAATAAATTTATGTTTCCCCCCAAAAAATTAATAAATTCGTTTGTTGATACAGTCAAATCTGTTC
391 TAATAAATTTATGTTTCCCCCCAAAAAATTAATAAAACCAAATGATGATACAGTCAAA--T-TAA
* ** **** * *** * * ** * * * * ** * * * **
1108479 GTATTTACCTTTTATCTAAGTTTATTTTGTTAGATTTTTTTAACTTTTCATTGTATGGTTCTTGT
453 ATATAAAAAAATAAAAAAAATGTATTTAATAAAAATATTGAAACATTTCATTGTATGATTATTAA
**
1108544 AAATTTAAGTGACTAATTTTCTCATGTTTTAAAAAATATCTTTAT
518 AAAAATAAGTGACTAATTTTCTCATGTTTTAAAAAATATCTTTAT
1108589 TATGTGTTCAGTATATGATTGCGATTATAAAATTTTATTGTAATTTAAATATTTTTTATTTAAAA
1 TATGTG-TCAGTATATGATTGCGATTAT-AAATTTTATTGTAATTTAAATATTTTTTATTTAAAA
1108654 TTAATAATTTCTATTAAAAATATCAAAATTTTCTTACTCGAAATAACTCTACATATATTGTCCAA
64 TTAATAATTTCTATT-AAAATATCAAAATTTTCTTACTCGAAATAACTCTACATATATTGTCC-A
1108719 GTGAATGAACCTAGCTTTATTCAGATGAAAACATTATCTTCATTATTATTCTCTTCGCTATTAGA
127 GTGAATGAACCTAGCTTTATTCAGATGAAAACATTA--TTCATTATTATTCTCTTCGCTATTAGA
1108784 TCCGTCAATTGATCAGAAATGATATATAATATAGTTTGAACTTATCCTTGATTAGGGATGGGCGA
190 TCCGTCAATTGATCAGAAATGATATATAATATAGTTTGAACTTATCCTTGATTAGGGATGGGCGA
1108849 ACTTTTAGCTATCGATCGGGATAAAAAATTTAAAATTTATATTTATATTTGAATTTGATTTGATT
255 ACTTTTAGCTATCGATCGGGAT-AAAAATTTAAAATTTATA-TTATATTTGAATTTGATTTGATT
1108914 TCAATTTTAATATAATTTGATCTGATTTAATTTAATATAATACAATGAAAATACAATTTGATCTT
318 TCAATTTT-A-ATAATTTGATCTGATTTAATTTAATATAATACAATGAAAATACAATTTGATCTT
*
1108979 AGAATTTCAATAATAAATTTAATGTTTCCCCCCAAAAAATTAATAAAAACCAAAT-ATGTTACA-
381 AGAATTTCAATAATAAATTT-ATGTTTCCCCCCAAAAAATTAAT-AAAACCAAATGATGATACAG
1109042 T-AAA-TAAATATAAAAAAATAAAAAAAATGT-TTTAATAAAAATATTGAAACAAATTTCATT-T
444 TCAAATTAAATATAAAAAAATAAAAAAAATGTATTTAATAAAAATATTGAAAC--ATTTCATTGT
1109103 A-GATAATATTAAAAAAATAA
507 ATGAT--TATTAAAAAAATAA
1109123 TATTTTTTCT
Statistics
Matches: 481, Mismatches: 37, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
565 6 0.01
566 21 0.04
567 51 0.11
568 47 0.10
569 51 0.11
570 13 0.03
571 130 0.27
572 18 0.04
573 31 0.06
574 4 0.01
575 75 0.16
576 29 0.06
577 5 0.01
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (562 bp):
TATGTGTCAGTATATGATTGCGATTATAAATTTTATTGTAATTTAAATATTTTTTATTTAAAATT
AATAATTTCTATTAAAATATCAAAATTTTCTTACTCGAAATAACTCTACATATATTGTCCAGTGA
ATGAACCTAGCTTTATTCAGATGAAAACATTATTCATTATTATTCTCTTCGCTATTAGATCCGTC
AATTGATCAGAAATGATATATAATATAGTTTGAACTTATCCTTGATTAGGGATGGGCGAACTTTT
AGCTATCGATCGGGATAAAAATTTAAAATTTATATTATATTTGAATTTGATTTGATTTCAATTTT
AATAATTTGATCTGATTTAATTTAATATAATACAATGAAAATACAATTTGATCTTAGAATTTCAA
TAATAAATTTATGTTTCCCCCCAAAAAATTAATAAAACCAAATGATGATACAGTCAAATTAAATA
TAAAAAAATAAAAAAAATGTATTTAATAAAAATATTGAAACATTTCATTGTATGATTATTAAAAA
AATAAGTGACTAATTTTCTCATGTTTTAAAAAATATCTTTAT
Found at i:1109205 original size:2 final size:2
Alignment explanation
Indices: 1109198--1109246 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1109188 TATCAACATG
1109198 AT AT AT AT AT AT AT AT AT -T 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
1109239 AT AT AT AT
1 AT AT AT AT
1109247 TATCAATACA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1113961 original size:20 final size:19
Alignment explanation
Indices: 1113930--1113995 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 19
1113920 TAATATTGTA
*
1113930 TTGATTATTTTATTATAAT
1 TTGATAATTTTATTATAAT
**
1113949 TTGATACATTTTAAAATAAT
1 TTGATA-ATTTTATTATAAT
* *
1113969 TTTATAA-TTTATTAAAAT
1 TTGATAATTTTATTATAAT
*
1113987 TTAATAATT
1 TTGATAATT
1113996 AAAATAATCA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 14 0.38
19 7 0.19
20 16 0.43
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
TTGATAATTTTATTATAAT
Found at i:1114842 original size:95 final size:97
Alignment explanation
Indices: 1114737--1114948 Score: 351
Period size: 95 Copynumber: 2.2 Consensus size: 97
1114727 TTTTAATAAA
1114737 ATTAGAATTTAATATTTATTTTATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAG
1 ATTAGAATTTAATATTTATTTTATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAG
*
1114802 ATGCGATA-TTTTTAGTTTTACATTC-TTTTC
66 ATGCGATATTTTTTAGCTTTACATTCTTTTTC
1114832 ATTAGAATTTAATATTTATTTTATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAG
1 ATTAGAATTTAATATTTATTTTATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAG
* *
1114897 ATGTGATATTTTTTTAGCTTTACATTCTTTTTT
66 ATGCGATA-TTTTTTAGCTTTACATTCTTTTTC
1114930 ATT-GAATTCTAAT-TTTATT
1 ATTAGAATT-TAATATTTATT
1114949 AAAAATGAAT
Statistics
Matches: 110, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
95 72 0.65
97 27 0.25
98 11 0.10
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (97 bp):
ATTAGAATTTAATATTTATTTTATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAG
ATGCGATATTTTTTAGCTTTACATTCTTTTTC
Found at i:1114908 original size:48 final size:48
Alignment explanation
Indices: 1114759--1114910 Score: 116
Period size: 48 Copynumber: 3.2 Consensus size: 48
1114749 TATTTATTTT
*
1114759 ATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAGATGCG
1 ATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAGATGTG
*** * ** * *** * *
1114807 ATA-TTTTTAGTTTTACATTCTTTTCATTAG-A-A-TTT-AATATTTATTTT
1 ATATTTTTTAAAATTA-A-T-ATTAGA-AAGAATATTTTAAATAAAGATGTG
1114854 ATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAGATGTG
1 ATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAGATGTG
1114902 ATATTTTTT
1 ATATTTTTT
1114911 TAGCTTTACA
Statistics
Matches: 70, Mismatches: 25, Indels: 18
0.62 0.22 0.16
Matches are distributed among these distances:
44 2 0.03
45 4 0.06
46 2 0.03
47 22 0.31
48 32 0.46
49 2 0.03
50 4 0.06
51 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (48 bp):
ATATTTTTTAAAATTAATATTAGAAAGAATATTTTAAATAAAGATGTG
Found at i:1122003 original size:19 final size:20
Alignment explanation
Indices: 1121956--1122004 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
1121946 GGAATTTGAA
*
1121956 TTCTGGGAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1121976 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
1121996 TTCT-GAAAA
1 TTCTGGAAAA
1122005 ACATCTGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:1122198 original size:49 final size:50
Alignment explanation
Indices: 1122101--1122199 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
1122091 TACAAATATT
*
1122101 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
1122151 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
1122200 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:1122366 original size:29 final size:26
Alignment explanation
Indices: 1122332--1122393 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
1122322 TTACTAAAAT
*
1122332 ATTATTGAAATATATAAATAATATTATTC
1 ATTATT-AAATATA-AAAAAAT-TTATTC
1122361 ATTATTAAATATAAAAAAATTTATT-
1 ATTATTAAATATAAAAAAATTTATTC
1122386 ATATATTA
1 AT-TATTA
1122394 TTAAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 2 0.06
26 10 0.32
27 6 0.19
28 7 0.23
29 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTAAATATAAAAAAATTTATTC
Found at i:1122471 original size:22 final size:23
Alignment explanation
Indices: 1122446--1122489 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1122436 GATTATTTTA
1122446 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
1122468 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
1122490 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:1122490 original size:26 final size:24
Alignment explanation
Indices: 1122461--1122523 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
1122451 TATTAAAAAT
1122461 ATAATATTATATTATTATAA-ATATTA
1 ATAATA-TATATT-TTA-AATATATTA
*
1122487 ATAA-ATATATTTTAAATATTTTA
1 ATAATATATATTTTAAATATATTA
1122510 ATAAT-TAATATTTT
1 ATAATAT-ATATTTT
1122524 GATGAAAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 13 0.39
24 13 0.39
25 1 0.03
26 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATAATATATATTTTAAATATATTA
Found at i:1122494 original size:22 final size:22
Alignment explanation
Indices: 1122450--1122506 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
1122440 ATTTTATATA
* *
1122450 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
1122471 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
1122493 ATATTTTAAATATT
1 ATATTATAAATATT
1122507 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:1122496 original size:29 final size:28
Alignment explanation
Indices: 1122330--1122497 Score: 86
Period size: 29 Copynumber: 6.0 Consensus size: 28
1122320 CTTTACTAAA
*
1122330 ATATTATT-GAAATAT-ATAAATAATATT
1 ATATTATTATAAATATAATAAAT-ATATT
* * *
1122357 AT-TCATTATTAAATATAAAAAAATTTATT
1 ATATTATTA-TAAATAT-AATAAATATATT
*
1122386 ATA-TATTATTAAA-ATAA-AAATATAAT
1 ATATTATTA-TAAATATAATAAATATATT
* * *
1122412 ATCTT-TTATTATTATAATATAAT-TGATT
1 ATATTATTATAAATATAATA-AATAT-ATT
* *
1122440 ATTTTA-TAT-AATATTAAAAATATAATATT
1 ATATTATTATAAATA-TAATAA-AT-ATATT
1122469 ATATTATTATAAATATTAATAAATATATT
1 ATATTATTATAAATA-TAATAAATATATT
1122498 TTAAATATTT
Statistics
Matches: 108, Mismatches: 16, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
25 2 0.02
26 20 0.19
27 11 0.10
28 26 0.24
29 28 0.26
30 11 0.10
31 10 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
ATATTATTATAAATATAATAAATATATT
Found at i:1122505 original size:52 final size:51
Alignment explanation
Indices: 1122386--1122506 Score: 124
Period size: 54 Copynumber: 2.3 Consensus size: 51
1122376 AAAATTTATT
* **
1122386 ATATATTATTAAA-A-TAAAAATATAATATCTTTTATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
1122437 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
1122491 ATATATTTTAAATATT
1 ATATATTTTAAATATT
1122507 TTAATAATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 19 0.32
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:1122764 original size:42 final size:42
Alignment explanation
Indices: 1122698--1122814 Score: 164
Period size: 42 Copynumber: 2.8 Consensus size: 42
1122688 AATTACATTC
* * *
1122698 CGAAAAACGAATTACGTGATACAAACACGGGAAAACGTTTTT
1 CGAAAAACGAATTACGTGAAACAAACACGGAAAAACATTTTT
* * *
1122740 CGGAAAATGAATTACGTGAAACAAACACGGAAAAATATTTTT
1 CGAAAAACGAATTACGTGAAACAAACACGGAAAAACATTTTT
*
1122782 CGAAAAACGAATTACGTAAAACAAACAC-GAAAA
1 CGAAAAACGAATTACGTGAAACAAACACGGAAAA
1122815 TTCAGGGAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 5 0.08
42 61 0.92
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (42 bp):
CGAAAAACGAATTACGTGAAACAAACACGGAAAAACATTTTT
Found at i:1130421 original size:21 final size:20
Alignment explanation
Indices: 1130397--1130436 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1130387 TTATTTCATT
1130397 TTTTCCGTTGACTGTAGTTTG
1 TTTTCCGTTGACTGT-GTTTG
*
1130418 TTTTCCTTTGACTGTGTTT
1 TTTTCCGTTGACTGTGTTT
1130437 TCCTTTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.07, C:0.15, G:0.20, T:0.57
Consensus pattern (20 bp):
TTTTCCGTTGACTGTGTTTG
Found at i:1130682 original size:18 final size:19
Alignment explanation
Indices: 1130647--1130683 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1130637 CATGGAATGT
1130647 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1130667 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1130684 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1135798 original size:16 final size:16
Alignment explanation
Indices: 1135768--1135811 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1135758 TAGTGAATTC
*
1135768 TTAAA-ATATTAAAGT
1 TTAAATATATTTAAGT
1135783 TTAAATATATTTAAGT
1 TTAAATATATTTAAGT
*
1135799 GTATAATATATTT
1 TTA-AATATATTT
1135812 GCACAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (16 bp):
TTAAATATATTTAAGT
Found at i:1136215 original size:2 final size:2
Alignment explanation
Indices: 1136210--1136239 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1136200 TGTGTGTGTG
1136210 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1136240 AAGGTTGAAA
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):
TA
Found at i:1139495 original size:2 final size:2
Alignment explanation
Indices: 1139490--1139523 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1139480 ACTAGGTTTT
1139490 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1139524 CAAAAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1141069 original size:2 final size:2
Alignment explanation
Indices: 1141062--1141097 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1141052 TTCTGCCTCC
1141062 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
1141098 GAAAATTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1148846 original size:19 final size:19
Alignment explanation
Indices: 1148822--1148859 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1148812 TTCTAAATAT
1148822 GTCAAAGGTTGAATATAAA
1 GTCAAAGGTTGAATATAAA
1148841 GTCAAAGGTTGAATATAAA
1 GTCAAAGGTTGAATATAAA
1148860 ATGCATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.26
Consensus pattern (19 bp):
GTCAAAGGTTGAATATAAA
Found at i:1149167 original size:59 final size:59
Alignment explanation
Indices: 1149068--1149196 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 59
1149058 CAGCAGGCTG
* ** * *
1149068 CATATTCGGGAATACACTAAAGGATATCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
1149127 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
*
1149186 CATACTCGGGA
1 CATATTCGGGA
1149197 TTGCACTACG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:1149397 original size:45 final size:46
Alignment explanation
Indices: 1149272--1149432 Score: 281
Period size: 46 Copynumber: 3.5 Consensus size: 46
1149262 TGTCTATGGT
*
1149272 TTACAAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
1 TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
1149318 TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
1 TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
* *
1149364 TTACGAGCTTATGG-ATTAAATGATAAGTATATTGGTAAAATAAAC
1 TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
1149409 TTACGAGCTTATGGAA-TAAATGGT
1 TTACGAGCTTATGGAATTAAATGGT
1149433 TTATGGCATT
Statistics
Matches: 110, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
45 50 0.45
46 60 0.55
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (46 bp):
TTACGAGCTTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGC
Found at i:1151373 original size:2 final size:2
Alignment explanation
Indices: 1151366--1151413 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
1151356 TAAATTTAAA
1151366 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
1151408 A- AT AT A
1 AT AT AT A
1151414 ATTGAAAAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1154181 original size:40 final size:41
Alignment explanation
Indices: 1154125--1154202 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 41
1154115 TCTAATGAAG
1154125 ATAGAAATTATATTGTGAATAAT-AAAAATTTAAAAACTTA
1 ATAGAAATTATATTGTGAATAATAAAAAATTTAAAAACTTA
* *
1154165 ATAGAAATTATGTTGTGAATATTAAAAAATTTAAAAAC
1 ATAGAAATTATATTGTGAATAATAAAAAATTTAAAAAC
1154203 AACAATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 21 0.60
41 14 0.40
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.35
Consensus pattern (41 bp):
ATAGAAATTATATTGTGAATAATAAAAAATTTAAAAACTTA
Found at i:1154932 original size:33 final size:33
Alignment explanation
Indices: 1154886--1154953 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
1154876 ACTGCTTTAA
1154886 AAAAATGGGTTTTTTTG-TACCTTCTTCATGCG
1 AAAAATGGGTTTTTTTGTTACCTTCTTCATGCG
1154918 AAAAATGGGTTTTTTTGTTACCTTCTTCATGCG
1 AAAAATGGGTTTTTTTGTTACCTTCTTCATGCG
1154951 AAA
1 AAA
1154954 CACCCTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 17 0.49
33 18 0.51
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (33 bp):
AAAAATGGGTTTTTTTGTTACCTTCTTCATGCG
Found at i:1162174 original size:5 final size:6
Alignment explanation
Indices: 1162150--1162181 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1162140 AGACACATAT
1162150 GACCAC GACCAC GACCAC G-CCAC G-CCAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
1162182 CGAGACGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.28, C:0.53, G:0.19, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:1162836 original size:20 final size:20
Alignment explanation
Indices: 1162808--1162880 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
1162798 TTTTGGACTA
1162808 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
1162828 TCGCGTTGCGATTTTGGAC-TA-
1 TCGCATTGCGA-TTT--ACATAT
1162849 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
1162869 TCGCATTGCGAT
1 TCGCATTGCGAT
1162881 AGTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 25 0.54
21 13 0.28
22 2 0.04
23 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:1162847 original size:41 final size:41
Alignment explanation
Indices: 1162790--1162880 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
1162780 TACCACCAGT
*
1162790 CGTTGAGATTTTGGACTATCGCATTGCGATTTACATATTCG
1 CGTTGCGATTTTGGACTATCGCATTGCGATTTACATATTCG
1162831 CGTTGCGATTTTGGACTATCGCATTGCGATTTACATATTCG
1 CGTTGCGATTTTGGACTATCGCATTGCGATTTACATATTCG
*
1162872 CATTGCGAT
1 CGTTGCGAT
1162881 AGTCCAAGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTTGGACTATCGCATTGCGATTTACATATTCG
Found at i:1162857 original size:21 final size:21
Alignment explanation
Indices: 1162796--1162862 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 21
1162786 CAGTCGTTGA
1162796 GATTTTGGACTATCGCATTGC
1 GATTTTGGACTATCGCATTGC
*
1162817 GA-TTT--ACATATTCGCGTTGC
1 GATTTTGGAC-TA-TCGCATTGC
1162837 GATTTTGGACTATCGCATTGC
1 GATTTTGGACTATCGCATTGC
1162858 GATTT
1 GATTT
1162863 ACATATTCGC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 13 0.33
21 18 0.46
22 2 0.05
23 2 0.05
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (21 bp):
GATTTTGGACTATCGCATTGC
Found at i:1162894 original size:21 final size:21
Alignment explanation
Indices: 1162868--1162914 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1162858 GATTTACATA
* *
1162868 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTACGATAATCCAAG
*
1162889 TTCGCATTACGATAATCGAAG
1 TTCGCATTACGATAATCCAAG
1162910 TTCGC
1 TTCGC
1162915 GTTTCGAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (21 bp):
TTCGCATTACGATAATCCAAG
Done.