Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008344.1 Hibiscus syriacus cultivar Beakdansim tig00111071_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: 332991
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 2 of 3
Found at i:161611 original size:19 final size:18
Alignment explanation
Indices: 161589--161632 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
161579 GTAGGGTTAA
161589 TTTGTATAAGATTTATAAT
1 TTTGTATAAGATTTAT-AT
*
161608 TTTGTATACGATTTATAT
1 TTTGTATAAGATTTATAT
161626 TTTGTAT
1 TTTGTAT
161633 GTGAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTGTATAAGATTTATAT
Found at i:162526 original size:197 final size:197
Alignment explanation
Indices: 161757--163033 Score: 2391
Period size: 197 Copynumber: 6.5 Consensus size: 197
161747 GGCCAAAAGG
161757 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
161822 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCA-C
*
161887 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAATATCATCGAACCCAAAAGTATAATG
129 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
161952 TAAT
194 TAAT
161956 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
162021 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTACACTC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC-C
162086 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
162151 AAT
195 AAT
*
162154 ATGTAATTTTTCAATATAACCGGTACAATTATACCGG-TTTATGTGAGAATA-GTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
162217 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
162282 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
162347 AAT
195 AAT
*
162350 ATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
162415 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
*
162480 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATATA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
162545 AT
196 AT
*
162547 ATGTAATTTTTCAATCTAACCGGTAAAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
162612 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
162677 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
162742 AT
196 AT
162744 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
* * *
162809 TGTCGACACTAATATAGTTTGTGTCGATACTAATTT--AAATATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGA-ATGAATGGAAAACAGGGTGCACC
162872 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
162937 AAT
195 AAT
162940 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
163005 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
163034 CTAATTTAAA
Statistics
Matches: 1060, Mismatches: 13, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
195 2 0.00
196 364 0.34
197 391 0.37
198 209 0.20
199 94 0.09
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (197 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
AT
Found at i:164514 original size:18 final size:18
Alignment explanation
Indices: 164493--164554 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
164483 AGCGGTCGCA
164493 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
164511 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
164529 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
164547 GAAGATGA
1 GAAGATGA
164555 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:164517 original size:6 final size:6
Alignment explanation
Indices: 164493--164578 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
164483 AGCGGTCGCA
* * * * * *
164493 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * *
164541 GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
164579 TGATCCAAAC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:164528 original size:3 final size:3
Alignment explanation
Indices: 164508--164582 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
164498 TGAAGCTGAC
* * * * * ** *
164508 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
164556 GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
164583 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:164547 original size:36 final size:36
Alignment explanation
Indices: 164496--164574 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
164486 GGTCGCAGAA
*
164496 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
164532 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
164568 GATGAAG
1 GATGAAG
164575 ATGATGATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:164582 original size:12 final size:12
Alignment explanation
Indices: 164496--164578 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
164486 GGTCGCAGAA
*
164496 GATGAAGCTGAC
1 GATGAAGATGAC
164508 GATGAAGATGAC
1 GATGAAGATGAC
*
164520 GATGATGATGAC
1 GATGAAGATGAC
* *
164532 GATGAAGCTGGC
1 GATGAAGATGAC
*
164544 GATGAAGATGAT
1 GATGAAGATGAC
* * *
164556 GACGATGATGAT
1 GATGAAGATGAC
164568 GATGAAGATGA
1 GATGAAGATGA
164579 TGATCCAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:165740 original size:18 final size:18
Alignment explanation
Indices: 165719--165755 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
165709 GTAATTGGAG
165719 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
165737 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
165755 T
1 T
165756 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:165763 original size:24 final size:24
Alignment explanation
Indices: 165711--165757 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
165701 TTTCATATGT
* *
165711 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
165735 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
165758 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:166054 original size:39 final size:39
Alignment explanation
Indices: 166011--166094 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
166001 TCCGATGCTC
*
166011 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
166050 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
166089 ATCAAA
1 ATCAAA
166095 TCTACAACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:167151 original size:19 final size:19
Alignment explanation
Indices: 167129--167170 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
167119 ATGAATAAAT
167129 AAAAATA-GAAATAAAA-G
1 AAAAATATGAAATAAAAGG
*
167146 AGAAAATATTAAATAAAAGG
1 A-AAAATATGAAATAAAAGG
167166 AAAAA
1 AAAAA
167171 GAAAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 6 0.29
19 12 0.57
20 2 0.10
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (19 bp):
AAAAATATGAAATAAAAGG
Found at i:167153 original size:18 final size:17
Alignment explanation
Indices: 167130--167178 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
167120 TGAATAAATA
167130 AAAATAGAAATAAAAGAG
1 AAAATAGAAATAAAAG-G
*
167148 AAAATATTAAATAAAAGG
1 AAAATA-GAAATAAAAGG
167166 AAAA-AGAAA-AAAA
1 AAAATAGAAATAAAA
167179 CATAGATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 1 0.04
18 11 0.39
19 9 0.32
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAATAGAAATAAAAGG
Found at i:167219 original size:11 final size:11
Alignment explanation
Indices: 167203--167260 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
167193 GAAGCTAGTA
167203 AAAAATATGAT
1 AAAAATATGAT
**
167214 AAAAATAAAAT
1 AAAAATATGAT
**
167225 AAAAATAAAAT
1 AAAAATATGAT
*
167236 AAAAACATGA-
1 AAAAATATGAT
167246 AAAAATAATGAT
1 AAAAAT-ATGAT
167258 AAA
1 AAA
167261 TAAAAAGTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
10 5 0.13
11 31 0.79
12 3 0.08
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (11 bp):
AAAAATATGAT
Found at i:168623 original size:5 final size:5
Alignment explanation
Indices: 168578--168605 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
168568 AAAAAAAAAC
168578 AATTA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AAT
168606 GAATAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:168773 original size:36 final size:37
Alignment explanation
Indices: 168726--169032 Score: 189
Period size: 36 Copynumber: 8.5 Consensus size: 37
168716 AAAAATTTCC
*
168726 AAAACTATATATTATATA-GTTTTCAAAAATG-ATTT
1 AAAAATATATATTATATATGTTTTCAAAAATGTATTT
* * *
168761 AAAAATAT-TA-TATA-A-GATTTAAAAATATGTTTTT
1 AAAAATATATATTATATATGTTTTCAAAA-ATGTATTT
* * *
168795 AAAACTATATATTATATAATTTTTTCAAAAATGTTTTTT
1 AAAAATATATATTATAT-ATGTTTTCAAAAATG-TATTT
*
168834 AAAAACTATATATTATATATATTTTC-AAAATG-ATTT
1 AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * *
168870 CAAAACTATATATTATATATATTTTC--AAATGCATTTT
1 -AAAAATATATATTATATATGTTTTCAAAAATGTA-TTT
* *
168907 CAAAAACTATACATTATATATGTTTTC-AAAAT-TTTTT
1 -AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * *
168944 AAAAAACTATATACTATATATATTTTC-GAAATGT-TTT
1 -AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * * * ** *
168981 CAAAACTATATAGTACATATATTTT-AAAAA-AAATTC
1 -AAAAATATATATTATATATGTTTTCAAAAATGTATTT
169017 AAAAAT-TATATTATAT
1 AAAAATATATATTATAT
169033 TGCTATAAAA
Statistics
Matches: 222, Mismatches: 33, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
32 9 0.04
33 7 0.03
34 20 0.09
35 19 0.09
36 50 0.23
37 49 0.22
38 29 0.13
39 27 0.12
40 12 0.05
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
AAAAATATATATTATATATGTTTTCAAAAATGTATTT
Found at i:168807 original size:38 final size:37
Alignment explanation
Indices: 168726--168992 Score: 168
Period size: 38 Copynumber: 7.3 Consensus size: 37
168716 AAAAATTTCC
* *
168726 AAAACTATATATTATAT-AGTTTTCAAAAATG-ATTT
1 AAAACTATATATTATATAAGATTTCAAAAATGTTTTT
*
168761 -AAA--A-ATATTATATAAGATTTAAAAATATGTTTTT
1 AAAACTATATATTATATAAGATTTCAAAA-ATGTTTTT
**
168795 AAAACTATATATTATATAATTTTTTCAAAAATGTTTTTT
1 AAAACTATATATTATATAA-GATTTCAAAAATG-TTTTT
* * *
168834 AAAAACTATATATTATATATA-TTTTC-AAAATGATTTC
1 -AAAACTATATATTATATA-AGATTTCAAAAATGTTTTT
* *
168871 AAAACTATATATTATATATA-TTTTC--AAATGCATTTTCA
1 AAAACTATATATTATATA-AGATTTCAAAAATG--TTTT-T
* * *
168909 AAAACTATACATTATATATGTTTTC-AAAAT-TTTTT
1 AAAACTATATATTATATAAGATTTCAAAAATGTTTTT
* * * *
168944 AAAAAACTATATACTATATATA-TTTTC-GAAATGTTTTC
1 --AAAACTATATATTATATA-AGATTTCAAAAATGTTTTT
168982 AAAACTATATA
1 AAAACTATATA
168993 GTACATATAT
Statistics
Matches: 194, Mismatches: 18, Indels: 39
0.77 0.07 0.16
Matches are distributed among these distances:
31 9 0.05
32 10 0.05
33 3 0.02
34 6 0.03
35 8 0.04
36 40 0.21
37 32 0.16
38 46 0.24
39 21 0.11
40 18 0.09
41 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
AAAACTATATATTATATAAGATTTCAAAAATGTTTTT
Found at i:169737 original size:84 final size:83
Alignment explanation
Indices: 169620--169919 Score: 402
Period size: 84 Copynumber: 3.6 Consensus size: 83
169610 CCGAGGGTCT
* * * * * *
169620 TTGGCAGATAGCCTTTCTCGACTTAAGCTATGCTGCAAATGATGTGCTTTAGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGT
*
169685 CAAACTCGAAGGTCTTTTG
65 CGAACTCGAAGGTCTTTTG
* ** * * * *
169704 GTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGT
*
169769 CGAACTCAAAGGTCTTTTG
65 CGAACTCGAAGGTCTTTTG
* *
169788 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGT
169853 CGAACTCGAAGGTCTTTTG
65 CGAACTCGAAGGTCTTTTG
* *
169872 TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCC
1 TTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC
169920 CTCGAACTCG
Statistics
Matches: 189, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
83 2 0.01
84 185 0.98
85 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (83 bp):
TTGGCAGACAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTG
Found at i:170391 original size:164 final size:165
Alignment explanation
Indices: 169931--170511 Score: 900
Period size: 165 Copynumber: 3.5 Consensus size: 165
169921 TCGAACTCGG
* * *
169931 GGGTCTTTGGCAGATAGCCCTTCTCGTCTTAAGCTATACTACAAATGATGTGCCTTGGAGCTGAG
1 GGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAG
* * ** *** * * *
169996 CGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGCCAACCCTTCTAGACTTAAGTTGTGCTGTAAAT
66 CGTAGTCGAACTCAAAGGTCTTTTGCTAACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
* * * * * *
170061 GATATGCCCTCGGAGCTGAGCGTAGTCGAACTCGAA
131 GTTATGCCCTTGAAGCTGAGTGTAATCGAACT-TAA
* *
170097 -GGTCTTTGGCAGATAGC-CATTCTCGACGTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTG
1 GGGTCTTTGGCAGATAGCTC-TTCTCGACTTAAGCTATACTGCAAATGATGTGCC-TTGGAGCTG
*
170159 AGCGTAGTCGAACTCAAAGGTCTTTTGCTAACATATAACCCTTCTAGCCTTGAGTTATGCTGTAA
64 AGCGTAGTCGAACTCAAAGGTCTTTTGCTAACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAA
170224 ATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAA
129 ATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAA
170261 GGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTT-GAGCTGAG
1 GGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAG
170325 CGTAGTCGAACTCAAAGGTCTTTTGCTAACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
66 CGTAGTCGAACTCAAAGGTCTTTTGCTAACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
170390 GTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAA
131 GTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAA
170425 GGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAG
1 GGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAG
*
170490 CGTAGTCGAACTCGAAGGTCTT
66 CGTAGTCGAACTCAAAGGTCTT
170512 GGTGGGCAGA
Statistics
Matches: 386, Mismatches: 24, Indels: 11
0.92 0.06 0.03
Matches are distributed among these distances:
164 168 0.44
165 215 0.56
166 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (165 bp):
GGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAG
CGTAGTCGAACTCAAAGGTCTTTTGCTAACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
GTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAA
Found at i:172401 original size:10 final size:11
Alignment explanation
Indices: 172371--172396 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
172361 CCCAAACATG
172371 AAAAAAAAATA
1 AAAAAAAAATA
172382 AAAAAAAAATA
1 AAAAAAAAATA
172393 AAAA
1 AAAA
172397 CAAATTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:175378 original size:19 final size:17
Alignment explanation
Indices: 175357--175406 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
175347 TGAATAAATA
175357 AAAATAGAAATAAAAGAG
1 AAAATAGAAATAAAA-AG
*
175375 AAAATATTAAATAAAAAGG
1 AAAATA-GAAATAAAAA-G
175394 AAAA-AGAAA-AAAA
1 AAAATAGAAATAAAA
175407 CATAGATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 4 0.14
17 3 0.11
18 8 0.29
19 13 0.46
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAATAGAAATAAAAAG
Found at i:175447 original size:13 final size:13
Alignment explanation
Indices: 175428--175477 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
175418 ACGAAGCTAG
175428 TAAAAAATATAAAA
1 TAAAAAATA-AAAA
175442 -AAAAAATAAAAA
1 TAAAAAATAAAAA
*
175454 TAAAATAA-AAACA
1 TAAAA-AATAAAAA
175467 TGAAAAAATAA
1 T-AAAAAATAA
175478 TGATAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 4 0.13
13 19 0.61
14 8 0.26
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:175454 original size:19 final size:21
Alignment explanation
Indices: 175430--175477 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
175420 GAAGCTAGTA
175430 AAAAATATAAA-AAAAAAAT-
1 AAAAATATAAATAAAAAAATG
*
175449 AAAAATA-AAATAAAAACATG
1 AAAAATATAAATAAAAAAATG
175469 AAAAA-ATAA
1 AAAAATATAA
175478 TGATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 15 0.60
20 7 0.28
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (21 bp):
AAAAATATAAATAAAAAAATG
Found at i:176994 original size:36 final size:37
Alignment explanation
Indices: 176947--177254 Score: 178
Period size: 36 Copynumber: 8.5 Consensus size: 37
176937 AAAAATTTCC
*
176947 AAAACTATATATTATATA-GTTTTCAAAAATG-ATTT
1 AAAAATATATATTATATATGTTTTCAAAAATGTATTT
* * *
176982 AAAAATAT-TA-TATA-A-GATTTAAAAATATGTTTTT
1 AAAAATATATATTATATATGTTTTCAAAA-ATGTATTT
* * *
177016 AAAACTATATATTATATAATTTTTTCAAAAATGTTTTTT
1 AAAAATATATATTATAT-ATGTTTTCAAAAATG-TATTT
* *
177055 AAAAACTATATATTATATATATATTC-AAAATG-ATTT
1 AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * *
177091 CAAAACTATATATTATATATATTTTC--AAATGCATTTT
1 -AAAAATATATATTATATATGTTTTCAAAAATGTA-TTT
* * * *
177128 CAAAAACTATACATTATATATGTTTTC-AAATTTTTTTT
1 -AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * *
177166 AAAAACTATATACTATATATATTTTC-GAAATGT-TTT
1 AAAAA-TATATATTATATATGTTTTCAAAAATGTATTT
* * * * *** *
177202 CAAAACTATATAGTACATATATTTT-AAAAAAAAATTC
1 -AAAAATATATATTATATATGTTTTCAAAAATGTATTT
177239 AAAAAT-TATATTATAT
1 AAAAATATATATTATAT
177255 TGCTATAAAA
Statistics
Matches: 218, Mismatches: 38, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
32 9 0.04
33 7 0.03
34 12 0.06
35 22 0.10
36 55 0.25
37 45 0.21
38 31 0.14
39 25 0.11
40 12 0.06
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
AAAAATATATATTATATATGTTTTCAAAAATGTATTT
Found at i:177028 original size:38 final size:37
Alignment explanation
Indices: 176947--177213 Score: 166
Period size: 38 Copynumber: 7.3 Consensus size: 37
176937 AAAAATTTCC
* *
176947 AAAACTATATATTATAT-AGTTTTCAAAAATG-ATTT
1 AAAACTATATATTATATAAGATTTCAAAAATGTTTTT
*
176982 -AAA--A-ATATTATATAAGATTTAAAAATATGTTTTT
1 AAAACTATATATTATATAAGATTTCAAAA-ATGTTTTT
**
177016 AAAACTATATATTATATAATTTTTTCAAAAATGTTTTTT
1 AAAACTATATATTATATAA-GATTTCAAAAATG-TTTTT
* * *
177055 AAAAACTATATATTATAT-ATATATTC-AAAATGATTTC
1 -AAAACTATATATTATATAAGAT-TTCAAAAATGTTTTT
* *
177092 AAAACTATATATTATATATA-TTTTC--AAATGCATTTTCA
1 AAAACTATATATTATATA-AGATTTCAAAAATG--TTTT-T
* * * * *
177130 AAAACTATACATTATATATGTTTTC-AAATTTTTTTT
1 AAAACTATATATTATATAAGATTTCAAAAATGTTTTT
* * * *
177166 AAAAACTATATACTATATATA-TTTTC-GAAATGTTTTC
1 -AAAACTATATATTATATA-AGATTTCAAAAATGTTTTT
177203 AAAACTATATA
1 AAAACTATATA
177214 GTACATATAT
Statistics
Matches: 188, Mismatches: 24, Indels: 39
0.75 0.10 0.16
Matches are distributed among these distances:
31 9 0.05
32 10 0.05
33 3 0.02
34 6 0.03
35 8 0.04
36 31 0.16
37 40 0.21
38 45 0.24
39 19 0.10
40 17 0.09
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
AAAACTATATATTATATAAGATTTCAAAAATGTTTTT
Found at i:178313 original size:19 final size:19
Alignment explanation
Indices: 178280--178345 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
178270 AATGTTTTTA
* *
178280 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
*
178299 TAAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* * *
178318 TGAATAGTAAATCACTATG
1 TGAACAGTAAATTACTATT
178337 TGAACAGTA
1 TGAACAGTA
178346 CCCCGATGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:178552 original size:21 final size:21
Alignment explanation
Indices: 178519--178558 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
178509 TTTTTGTAGA
*
178519 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
178541 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
178559 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:179727 original size:19 final size:20
Alignment explanation
Indices: 179703--179750 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
179693 AACGATTTTC
*
179703 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
179722 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
179742 TTTTGAAAA
1 TTTTGAAAA
179751 AGGTTTTAGA
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:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:181153 original size:19 final size:19
Alignment explanation
Indices: 181126--181191 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
181116 AATGTTTTTA
* *
181126 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
181145 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
** *
181164 TGAACAGTAAATCGCTATG
1 TGAACAGTAAATTACTATT
181183 TGAACAGTA
1 TGAACAGTA
181192 CCCCCGATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:181339 original size:21 final size:21
Alignment explanation
Indices: 181299--181340 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
181289 ATTTGAATAT
* * *
181299 TATGAAGGTGTATCGTTTCCC
1 TATGAAGGGGTACCGATTCCC
181320 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
181341 CCTATTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:181388 original size:21 final size:21
Alignment explanation
Indices: 181355--181394 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
181345 TTTTTGTAGA
*
181355 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
181377 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
181395 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:182192 original size:25 final size:26
Alignment explanation
Indices: 182164--182235 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 26
182154 ATTTTATTAC
182164 ATTTAA-TATTTTGTTTTTT-TAATTT
1 ATTTAATTATTTT-TTTTTTATAATTT
* *
182189 ATTTAATTATTTAAATTTTTTAATATTTT
1 ATTTAATTATTT---TTTTTTTATAATTT
182218 ATTTAATTATTTTTTTTT
1 ATTTAATTATTTTTTTTT
182236 GCAGAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 6 0.15
26 11 0.28
28 5 0.12
29 18 0.45
ACGTcount: A:0.28, C:0.00, G:0.01, T:0.71
Consensus pattern (26 bp):
ATTTAATTATTTTTTTTTTATAATTT
Found at i:182210 original size:17 final size:17
Alignment explanation
Indices: 182184--182216 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
182174 TTGTTTTTTT
182184 AATTTATTTAATTATTTA
1 AATTTATTTAA-TATTTA
182202 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
182217 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:188887 original size:108 final size:109
Alignment explanation
Indices: 188692--188909 Score: 402
Period size: 108 Copynumber: 2.0 Consensus size: 109
188682 TAATTGGTTG
*
188692 ACAAAAAAACAGAAATATGTGAATAGTTCGTGACTAAAACGTAATTTAATTTTTTTTAAATATAT
1 ACAAAAAAACAGAAATATGTGAATAGTTCGTGACTAAAACGTAATTTAATTTTTTTAAAATATAT
*
188757 TATTTAAATATCTAATTTATTTTATAAATTTAATTAAAATGTTA
66 TATTTAAATATCTAATTTATTTTATAAATTTAATTAAAATATTA
*
188801 ACAAAAAAACAGAAATATGTGAATAGTTCGTGACTAATACGTAATTTAA-TTTTTTAAAATATAT
1 ACAAAAAAACAGAAATATGTGAATAGTTCGTGACTAAAACGTAATTTAATTTTTTTAAAATATAT
188865 TATTTAAATATCTAATTTATTTTATAAATTTAATTAAAATATTA
66 TATTTAAATATCTAATTTATTTTATAAATTTAATTAAAATATTA
188909 A
1 A
188910 ACTTTATTTT
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
108 58 0.55
109 48 0.45
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (109 bp):
ACAAAAAAACAGAAATATGTGAATAGTTCGTGACTAAAACGTAATTTAATTTTTTTAAAATATAT
TATTTAAATATCTAATTTATTTTATAAATTTAATTAAAATATTA
Found at i:191374 original size:36 final size:38
Alignment explanation
Indices: 191318--191390 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 38
191308 ATATTTCAAC
191318 AAACATCTACCAAACTTTGAAAAACCA-TTTTTCAAAG
1 AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAG
* *
191355 AAACATTTACCAAAC-TTGAAAAATCATTTTTTCAAA
1 AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAA
191391 ATTTATTGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 10 0.30
37 23 0.70
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (38 bp):
AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAG
Found at i:194140 original size:11 final size:11
Alignment explanation
Indices: 194121--194187 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
194111 CCAAAAGAAA
*
194121 ATATGAAAAAT
1 ATATTAAAAAT
*
194132 ATATTAAAATT
1 ATATTAAAAAT
194143 ATA-TAAAAAT
1 ATATTAAAAAT
*
194153 -TA--AAAGAAA
1 ATATTAAA-AAT
*
194162 ATATGAAAAAT
1 ATATTAAAAAT
*
194173 ATATTAAAATT
1 ATATTAAAAAT
194184 ATAT
1 ATAT
194188 ACAAATTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
8 3 0.07
9 4 0.09
10 8 0.18
11 27 0.60
12 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (11 bp):
ATATTAAAAAT
Found at i:194158 original size:41 final size:42
Alignment explanation
Indices: 194113--194199 Score: 158
Period size: 41 Copynumber: 2.1 Consensus size: 42
194103 TTAGATCACC
194113 AAAAGAAAATATGAAAAATATATTAAAATTATATA-AAAATT
1 AAAAGAAAATATGAAAAATATATTAAAATTATATACAAAATT
*
194154 AAAAGAAAATATGAAAAATATATTAAAATTATATACAAATTT
1 AAAAGAAAATATGAAAAATATATTAAAATTATATACAAAATT
194196 AAAA
1 AAAA
194200 ATTTTAAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 35 0.80
42 9 0.20
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAAGAAAATATGAAAAATATATTAAAATTATATACAAAATT
Found at i:195810 original size:8 final size:9
Alignment explanation
Indices: 195797--195850 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
195787 GTCCGGCTAC
195797 TATA-ATTA
1 TATATATTA
*
195805 TATA-ATTTG
1 TATATA-TTA
195814 TATATATTA
1 TATATATTA
195823 TATATA-TA
1 TATATATTA
195831 TATATATATA
1 TATATAT-TA
195841 TATATATTA
1 TATATATTA
195850 T
1 T
195851 CATTACATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
8 13 0.32
9 17 0.43
10 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (9 bp):
TATATATTA
Found at i:195819 original size:2 final size:2
Alignment explanation
Indices: 195814--195847 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
195804 ATATAATTTG
195814 TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
195848 TATCATTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:196474 original size:45 final size:43
Alignment explanation
Indices: 196398--196485 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 43
196388 TTTGGAAGCC
*
196398 CGACGGTCACCATTTTTTGAAGGTACAGTTTGGAAAGTGAAGA
1 CGACGGTCACCATTTTTTGAAGCTACAGTTTGGAAAGTGAAGA
*
196441 CGACGGTCACTATTTTTTTCGAAGCTACAGTTTGGAAAGTGAAGA
1 CGACGGTCACCA-TTTTTT-GAAGCTACAGTTTGGAAAGTGAAGA
196486 GCCCCGAAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 11 0.27
44 6 0.15
45 24 0.59
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
CGACGGTCACCATTTTTTGAAGCTACAGTTTGGAAAGTGAAGA
Found at i:196992 original size:17 final size:18
Alignment explanation
Indices: 196972--197008 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
196962 AGACTGAATA
196972 TTTTTCTT-CATTTTTAT
1 TTTTTCTTACATTTTTAT
196989 TTTTTCTTAACATTTTTAT
1 TTTTTCTT-ACATTTTTAT
197008 T
1 T
197009 GTTATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTCTTACATTTTTAT
Found at i:197161 original size:19 final size:18
Alignment explanation
Indices: 197134--197170 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
197124 AATTATTTCG
197134 AATTGAAATTTTAAGTTTT
1 AATTGAAATTTTAA-TTTT
*
197153 AATTTAAATTTTAATTTT
1 AATTGAAATTTTAATTTT
197171 CGCAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
AATTGAAATTTTAATTTT
Found at i:202453 original size:100 final size:104
Alignment explanation
Indices: 202272--202511 Score: 276
Period size: 100 Copynumber: 2.3 Consensus size: 104
202262 ATTTCAGTTG
* * * * *
202272 AATTTAAACTTCACAGCGAAGGATATTGAACCCAAGACAACACAAGCTCAACTTCAAGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTG-ACTCGAGACAACACAAGCTCAACTTCAAGACGAAAG
* * * **
202337 GGCGGCTGATTGTCAAC-AA-AATTT-CA-TT-CAGAGTC
65 GGCGGCTAACTATCAACAAATAATTTCCAGTTCCAGAACC
202372 AATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAG-CGAAA
1 AATTTCAACTTCACAACGAAGGATATT-GACTCGAGACAACACAAGCTCAACTTCA-AGACGAAA
*
202436 GGGTGGCTAACTATCAACAAATAATTTCCCAGTTCCAGAACC
64 GGGCGGCTAACTATCAACAAATAATTT-CCAGTTCCAGAACC
* *
202478 AATTTCAACTTCACGACGGAGGATATTGGACTCG
1 AATTTCAACTTCACAACGAAGGATATT-GACTCG
202512 GAACAATACT
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
100 68 0.58
101 5 0.04
102 5 0.04
104 2 0.02
105 2 0.02
106 36 0.31
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (104 bp):
AATTTCAACTTCACAACGAAGGATATTGACTCGAGACAACACAAGCTCAACTTCAAGACGAAAGG
GCGGCTAACTATCAACAAATAATTTCCAGTTCCAGAACC
Found at i:202646 original size:149 final size:149
Alignment explanation
Indices: 202439--202738 Score: 546
Period size: 149 Copynumber: 2.0 Consensus size: 149
202429 AGCGAAAGGG
202439 TGGCTAACTATCAACAAATAATTTCCCAGTTCCAGAACCAATTTCAACTTCACGACGGAGGATAT
1 TGGCTAACTATCAACAAATAATTTCCCAGTTCCAGAACCAATTTCAACTTCACGACGGAGGATAT
* *
202504 TGGACTCGGAACAATACTTGGATTTCAACTTCAAGATGAAGGATATCCAATTCTCAGGCTCAATT
66 TGGACTCGGAACAATACTTGGATTTCAACTTCAAGACGAAGGATATCCAATTCTCAGGCTCAACT
202569 TCACGACGAAGGGGCCACC
131 TCACGACGAAGGGGCCACC
* *
202588 TGGCTGACTGTCAACAAATAATTTCCCAGTTCCAGAACCAATTTCAACTTCACGACGGAGGATAT
1 TGGCTAACTATCAACAAATAATTTCCCAGTTCCAGAACCAATTTCAACTTCACGACGGAGGATAT
*
202653 TGGACTCGGAACAATACTTGGATTTCAACTTCACGACGAAGGATATCCAATTCTCAGGCTCAACT
66 TGGACTCGGAACAATACTTGGATTTCAACTTCAAGACGAAGGATATCCAATTCTCAGGCTCAACT
*
202718 TCATGACGAAGGGGCCACC
131 TCACGACGAAGGGGCCACC
202737 TG
1 TG
202739 CGGTTTCAAC
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 145 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (149 bp):
TGGCTAACTATCAACAAATAATTTCCCAGTTCCAGAACCAATTTCAACTTCACGACGGAGGATAT
TGGACTCGGAACAATACTTGGATTTCAACTTCAAGACGAAGGATATCCAATTCTCAGGCTCAACT
TCACGACGAAGGGGCCACC
Found at i:202758 original size:32 final size:32
Alignment explanation
Indices: 202712--202792 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
202702 ATTCTCAGGC
*
202712 TCAACTTCATGACGAAGGGGCCACCTGCGGTT
1 TCAACTTCACGACGAAGGGGCCACCTGCGGTT
202744 TCAACTTCACGACGAAGGGGCCACCTGCGGTT
1 TCAACTTCACGACGAAGGGGCCACCTGCGGTT
*
202776 TCAACTTCACAACGAAG
1 TCAACTTCACGACGAAG
202793 AGAATCGTGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.20
Consensus pattern (32 bp):
TCAACTTCACGACGAAGGGGCCACCTGCGGTT
Found at i:203104 original size:111 final size:111
Alignment explanation
Indices: 202950--203170 Score: 345
Period size: 111 Copynumber: 2.0 Consensus size: 111
202940 GCAACTTACA
* * *
202950 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCAT
1 TTGGATTTCAACTTCACGACAAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
203015 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAAC
66 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAAC
* ** **
203061 TTGGATTTCAACTTCAC-AGCAAAGGATATTCAAGTCAAGGCTCAACTTCATGACTTAGGGGCCA
1 TTGGATTTCAACTTCACGA-CAAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCA
*
203125 TCCACGGTTTCAATTTCACGACGAAGGGAATCGTGCTCACCAGCAA
65 TCCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAA
203171 TATTCATCTT
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 1 0.01
111 99 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (111 bp):
TTGGATTTCAACTTCACGACAAAGGATATCCAAGTCAAGGCTCAACTTCACAACGAAGGGGCCAT
CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAAC
Found at i:203336 original size:36 final size:36
Alignment explanation
Indices: 203284--203368 Score: 129
Period size: 36 Copynumber: 2.4 Consensus size: 36
203274 TTGAATATTT
203284 TTTC-CTTGAAACAAATTTCGTCTCC-CTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTC-CCTCTTGAGACAG
* *
203319 TTTCTTTTGAAACAAATTTTGTCCCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCCCTCTTGAGACAG
203355 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
203369 CAAAAAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 6 0.13
36 39 0.87
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTCGTCCCTCTTGAGACAG
Found at i:203415 original size:40 final size:40
Alignment explanation
Indices: 203366--203441 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
203356 TTCTCTTGAA
203366 ACACAAAAAAACCCTCGAAATTGTTTCTCTTGAAACACAC
1 ACACAAAAAAACCCTCGAAATTGTTTCTCTTGAAACACAC
* * * *
203406 ACACAAAAAAGCCTTTGAAATTTTTTCTCTTGAAAC
1 ACACAAAAAAACCCTCGAAATTGTTTCTCTTGAAAC
203442 CCAAATACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.28
Consensus pattern (40 bp):
ACACAAAAAAACCCTCGAAATTGTTTCTCTTGAAACACAC
Found at i:204056 original size:17 final size:17
Alignment explanation
Indices: 204019--204056 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
204009 TAATTTGTAT
*
204019 ATATATTATATATATAT
1 ATATATTATATATATAC
204036 ATATATTATATCAT-TAC
1 ATATATTATAT-ATATAC
204053 ATAT
1 ATAT
204057 TGCATCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATTATATATATAC
Found at i:204678 original size:45 final size:43
Alignment explanation
Indices: 204595--204682 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 43
204585 TTTGGAAGTC
*
204595 CGACGGTCACCATTTTTTGAAGGTACAGTTTAGAAAGTGAAGA
1 CGACGGTCACCATTTTTTGAAGCTACAGTTTAGAAAGTGAAGA
* * *
204638 CGACGGTCACTATTTTTTTCGAAGCTACATTTTGGAAAGTGAAGA
1 CGACGGTCACCA-TTTTTT-GAAGCTACAGTTTAGAAAGTGAAGA
204683 GCCCCGAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 11 0.28
44 6 0.15
45 22 0.56
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (43 bp):
CGACGGTCACCATTTTTTGAAGCTACAGTTTAGAAAGTGAAGA
Found at i:205186 original size:17 final size:18
Alignment explanation
Indices: 205166--205202 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
205156 AGACTGGATA
205166 TTTTTCTT-CATTTTTAT
1 TTTTTCTTACATTTTTAT
205183 TTTTTCTTAACATTTTTAT
1 TTTTTCTT-ACATTTTTAT
205202 T
1 T
205203 GTTATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTCTTACATTTTTAT
Found at i:207796 original size:18 final size:19
Alignment explanation
Indices: 207758--207805 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
207748 AACAAAACCA
*
207758 AAAATTACTAGAATTTAAAT
1 AAAATTATTA-AATTTAAAT
*
207778 AAAA-TATTAAATTTGAAT
1 AAAATTATTAAATTTAAAT
207796 AAAATTATTA
1 AAAATTATTA
207806 GATCCATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 12 0.48
19 9 0.36
20 4 0.16
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAATTTAAAT
Found at i:210090 original size:17 final size:16
Alignment explanation
Indices: 210074--210122 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
210064 GGTTATTTAT
210074 TTTAAATAATTTATTA
1 TTTAAATAATTTATTA
* *
210090 -TAAAATATGATTGATTA
1 TTTAAATA--ATTTATTA
210107 TTTAAATAATTTATTA
1 TTTAAATAATTTATTA
210123 GTATGGATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
17 7 0.27
18 6 0.23
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
TTTAAATAATTTATTA
Found at i:210162 original size:19 final size:20
Alignment explanation
Indices: 210124--210164 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
210114 AATTTATTAG
210124 TATGGATTGATTATTTTAAA
1 TATGGATTGATTATTTTAAA
210144 TATGGA-TGAATTA-TTTAAA
1 TATGGATTG-ATTATTTTAAA
210163 TA
1 TA
210165 ATTTATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
TATGGATTGATTATTTTAAA
Found at i:210250 original size:80 final size:80
Alignment explanation
Indices: 210157--210678 Score: 488
Period size: 80 Copynumber: 6.5 Consensus size: 80
210147 GGATGAATTA
*
210157 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATTGATTGATTTATTATTGTAGTT-
1 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-TTA
210221 GTATGAATTGATTTAT
65 GTATGAATTGATTTAT
* *
210237 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTATTTG
1 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTATTAG
*
210302 TATGGATTGATTTAT
66 TATGAATTGATTTAT
* * *
210317 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGGATTGA-TTATT-TTAAATAAT
1 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATT--GT-A-
*
210380 TTATTATGAATTGATTTAT
62 TTAGTATGAATTGATTTAT
* * * * * * *
210399 TTTAAAATATAGATTGATTA-TTTTAA-TAATTTA--TT--AGTATGAATTGATTTTTTAAATAA
1 TTT--AA-ATA-ATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT--AT--
*
210458 CT-TATTAGTATGGATTGATTTAT
58 -TGTATTAGTATGAATTGATTTAT
** ** *
210481 TTTAAA-ATATGGATT-G-ATTTATT-ATTGTA-TTT---GTATGGATTGATTTATTTTAAATAA
1 TTTAAATA-ATTTATTAGTATGAATTGATT-TATTTTAAAATATGGATTGATTTA--TT--AT--
*
210538 TTTATTAGTATGAATTGATTTAT
58 TGTATTAGTATGAATTGATTTAT
210561 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTT-
1 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTA-TTA
*
210625 GTATGGATTGATTTAT
65 GTATGAATTGATTTAT
*
210641 TTTAAATAATTTATTAGTATGTATTGATTTATTTTAAA
1 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
210679 TAATTTATTA
Statistics
Matches: 375, Mismatches: 35, Indels: 64
0.79 0.07 0.14
Matches are distributed among these distances:
77 6 0.02
78 25 0.07
79 12 0.03
80 226 0.60
81 9 0.02
82 50 0.13
83 7 0.02
84 12 0.03
85 6 0.02
86 21 0.06
87 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTATTAG
TATGAATTGATTTAT
Found at i:210266 original size:18 final size:18
Alignment explanation
Indices: 210245--210292 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
210235 ATTTTAAATA
*
210245 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
210263 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
210285 ATTTATTA
1 ATTTATTA
210293 TTGTATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:210305 original size:26 final size:26
Alignment explanation
Indices: 210168--210641 Score: 115
Period size: 32 Copynumber: 17.8 Consensus size: 26
210158 TTAAATAATT
*
210168 TATTAGTATGAATTGATTTA-T-TT-
1 TATTAGTATGGATTGATTTATTATTG
* * *
210191 TA-AAATATTGATTGATTTATTATTG
1 TATTAGTATGGATTGATTTATTATTG
* *
210216 TAGTT-GTATGAATTGATTTATTTTAAATAATT
1 TA-TTAGTATGGATTGATTTA--TT--AT--TG
210248 TATTAGTATGGATTGATTTA-T-TT-
1 TATTAGTATGGATTGATTTATTATTG
* *
210271 TA-AAATATGGATTGATTTATTATTG
1 TATTAGTATGGATTGATTTATTATTG
* *
210296 TATTTGTATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTA--TT--AT--TG
210328 TATTAGTATGGATTGATTTA-T-TT-
1 TATTAGTATGGATTGATTTATTATTG
* * * *
210351 TA-AAATACGGATTGA-TTATT-TTAAA
1 TATTAGTATGGATTGATTTATTATT--G
* * *
210376 TAATTTATTATGAATTGATTTATT-TTAA
1 T-A-TTAGTATGGATTGATTTATTATT-G
* * *
210404 AATATAG-ATTGATT-ATTTTAATAATT-
1 TAT-TAGTATGGATTGA-TTT-ATTATTG
* *
210430 TATTAGTATGAATTGATTTTTTAAATAACT-
1 TATTAGTATGGATTGATTTATT--AT---TG
210460 TATTAGTATGGATTGATTTA-T-TT-
1 TATTAGTATGGATTGATTTATTATTG
* *
210483 TA-AAATATGGATTGATTTATTATTG
1 TATTAGTATGGATTGATTTATTATTG
* *
210508 TATTTGTATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTA--TT--AT--TG
* *
210540 TATTAGTATGAATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTA--TT--AT--TG
*
210572 TATTAGTATGAATTGATTTA-T-TT-
1 TATTAGTATGGATTGATTTATTATTG
* *
210595 TA-AAATATGGATTGATTTATTATTG
1 TATTAGTATGGATTGATTTATTATTG
210620 TAGTT-GTATGGATTGATTTATT
1 TA-TTAGTATGGATTGATTTATT
210642 TTAAATAATT
Statistics
Matches: 346, Mismatches: 49, Indels: 109
0.69 0.10 0.22
Matches are distributed among these distances:
21 3 0.01
22 70 0.20
23 15 0.04
24 11 0.03
25 14 0.04
26 80 0.23
27 8 0.02
28 19 0.05
29 11 0.03
30 25 0.07
31 2 0.01
32 88 0.25
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (26 bp):
TATTAGTATGGATTGATTTATTATTG
Found at i:210346 original size:112 final size:112
Alignment explanation
Indices: 210221--210688 Score: 653
Period size: 112 Copynumber: 4.3 Consensus size: 112
210211 TATTGTAGTT
210221 GTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
210286 TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTA
66 TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTA
* * ** * * *
210333 GTATGGATTGATTTATTTTAAAATACGGATTGATTA-T-T---TT-AAATAATTT--ATTATGAA
1 GTATGAATTGATTTATTTT-AAATA---ATTTATTAGTATGGATTGATTTATTTTAAAATATGGA
*** *
210390 TTGATTTA-T-TT-TA-AAATATAGATTGA-TTATTTT-AATAATTTATTA
62 TTGATTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTA
*
210435 GTATGAATTGA-TT-TTTTAAATAACTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
210498 TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTA
66 TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTA
*
210545 GTATGAATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGA
1 GTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
*
210610 TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
66 TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTA
*
210657 GTATGTATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
210689 TTGTAGTTAT
Statistics
Matches: 309, Mismatches: 27, Indels: 40
0.82 0.07 0.11
Matches are distributed among these distances:
96 6 0.02
97 1 0.00
98 1 0.00
99 5 0.02
100 4 0.01
101 4 0.01
102 28 0.09
103 7 0.02
104 23 0.07
105 3 0.01
106 4 0.01
107 3 0.01
108 23 0.07
109 7 0.02
110 29 0.09
111 4 0.01
112 143 0.46
113 5 0.02
114 1 0.00
115 1 0.00
116 7 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (112 bp):
GTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
TTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:210445 original size:30 final size:30
Alignment explanation
Indices: 210411--210597 Score: 132
Period size: 32 Copynumber: 6.5 Consensus size: 30
210401 TAAAATATAG
*
210411 ATTGATTATTTTAATAATTTATTAGTATGA
1 ATTGATTATTTTAATAACTTATTAGTATGA
*
210441 ATTGATT-TTTTAAATAACTTATTAGTATGG
1 ATTGATTATTTT-AATAACTTATTAGTATGA
210471 ATTGATTTATTTTAA-AA--TA-T-G---G-
1 ATTGA-TTATTTTAATAACTTATTAGTATGA
* * * * *
210493 ATTGATT-TATTATTG---TATTTGTATGG
1 ATTGATTATTTTAATAACTTATTAGTATGA
*
210519 ATTGATTTATTTTAAATAATTTATTAGTATGA
1 ATTGA-TTATTTT-AATAACTTATTAGTATGA
*
210551 ATTGATTTATTTTAAATAATTTATTAGTATGA
1 ATTGA-TTATTTT-AATAACTTATTAGTATGA
210583 ATTGATTTATTTTAA
1 ATTGA-TTATTTTAA
210598 AATATGGATT
Statistics
Matches: 131, Mismatches: 10, Indels: 31
0.76 0.06 0.18
Matches are distributed among these distances:
20 6 0.05
21 3 0.02
22 6 0.05
23 1 0.01
25 1 0.01
26 6 0.05
27 3 0.02
28 5 0.04
29 6 0.05
30 30 0.23
31 6 0.05
32 58 0.44
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (30 bp):
ATTGATTATTTTAATAACTTATTAGTATGA
Found at i:210452 original size:50 final size:52
Alignment explanation
Indices: 210082--210566 Score: 314
Period size: 50 Copynumber: 9.2 Consensus size: 52
210072 ATTTTAAATA
* * *
210082 ATTTATTATAAAATAT-GATTGATTATTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGGATTGATTATTTTAATAATTTATTAGTATGAATTG
*
210133 A-TTATTTT-AAATATGGA-TGAATTATTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAAATATGGATTG-ATTATTTTAATAATTTATTAGTATGAATTG
* * *
210183 ATTTATTTTAAAATATTGATTGATT-TATT-AT--TGTAGTT-GTATGAATTG
1 ATTTATTTTAAAATATGGATTGATTATTTTAATAATTTA-TTAGTATGAATTG
* * * * *
210231 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT-AT--TTTA-AAATATGGATTG
1 ATTTATTTT-AA-AA--TA-T-GGATTGATT-ATTTTAATAATTTATTAGTATGAATTG
*** *
210285 ATTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTA-T-TT-TA-AAATATGGATTGA-TTATTTT-AATAATTTATTAGTATGAATTG
*
210343 ATTTATTTTAAAATACGGATTGATTATTTTAAATAATTTA-T--TATGAATTG
1 ATTTATTTTAAAATATGGATTGATTATTTT-AATAATTTATTAGTATGAATTG
*
210393 ATTTATTTTAAAATATAGATTGATTATTTTAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAAATATGGATTGATTATTTTAATAATTTATTAGTATGAATTG
* * * * * *
210445 ATTT-TTTAAATAACTTATTAGTATGGATTGA-TTT-AT--TTTA-AAATATGGATTG
1 ATTTATTTTAA-AA--TA-T-GGATTGATT-ATTTTAATAATTTATTAGTATGAATTG
***
210497 ATTTATTATTGTATTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTA-T-TT-TA-AAATATGGATTGA-TTATTTT-AATAATTTATTAGTATGAATTG
210555 ATTTATTTTAAA
1 ATTTATTTTAAA
210567 TAATTTATTA
Statistics
Matches: 341, Mismatches: 46, Indels: 91
0.71 0.10 0.19
Matches are distributed among these distances:
48 22 0.06
49 21 0.06
50 79 0.23
51 15 0.04
52 54 0.16
53 36 0.11
54 35 0.10
55 21 0.06
56 17 0.05
57 12 0.04
58 29 0.09
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.52
Consensus pattern (52 bp):
ATTTATTTTAAAATATGGATTGATTATTTTAATAATTTATTAGTATGAATTG
Found at i:210503 original size:212 final size:211
Alignment explanation
Indices: 210098--210566 Score: 742
Period size: 212 Copynumber: 2.2 Consensus size: 211
210088 TATAAAATAT
*
210098 GATTGA-TTA-TTTAAATAATTTATTAGTATGGATTGA-TTATTTT-AAATATGGATGAATTATT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGGATGAATTATT
*
210159 TAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATTGATTGATTTATTATTGTAGTTGTA
66 TAAATAATTTATTA-TATGAATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTGTA
*
210224 TGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
130 TGAATTGATTTATTTTAAATAACTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
210289 ATTATTGTATTTGTATG
195 ATTATTGTATTTGTATG
210306 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGGATTG-ATTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGGA-TGAATTA-
* *
210370 TTTAAATAATTTA-T-TATGAATTGATTTATTTTAAAATATAGATTGATTATTTTAATAATTTA-
64 TTTAAATAATTTATTATATGAATTGATTTATTTTAAAATATAGATTGATT-TATT-AT--TGTAG
210432 TTAGTATGAATTGA-TT-TTTTAAATAACTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
125 TT-GTATGAATTGATTTATTTTAAATAACTTATTAGTATGGATTGATTTATTTTAAAATATGGAT
210495 TGATTTATTATTGTATTTGTATG
189 TGATTTATTATTGTATTTGTATG
*
210518 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
210567 TAATTTATTA
Statistics
Matches: 244, Mismatches: 6, Indels: 18
0.91 0.02 0.07
Matches are distributed among these distances:
208 6 0.02
209 3 0.01
210 60 0.25
211 10 0.04
212 132 0.54
213 19 0.08
214 14 0.06
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (211 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGGATGAATTATT
TAAATAATTTATTATATGAATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTGTAT
GAATTGATTTATTTTAAATAACTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA
TTATTGTATTTGTATG
Found at i:210540 original size:14 final size:14
Alignment explanation
Indices: 210523--210575 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
210513 GTATGGATTG
210523 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
210537 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
210555 ATTTATTTTAAATA
1 ATTTATTTTAAATA
210569 ATTTATT
1 ATTTATT
210576 AGTATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:210555 original size:32 final size:32
Alignment explanation
Indices: 210508--210598 Score: 164
Period size: 32 Copynumber: 2.8 Consensus size: 32
210498 TTTATTATTG
* *
210508 TATTTGTATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGAATTGATTTATTTTAAATAATT
210540 TATTAGTATGAATTGATTTATTTTAAATAATT
1 TATTAGTATGAATTGATTTATTTTAAATAATT
210572 TATTAGTATGAATTGATTTATTTTAAA
1 TATTAGTATGAATTGATTTATTTTAAA
210599 ATATGGATTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (32 bp):
TATTAGTATGAATTGATTTATTTTAAATAATT
Found at i:210560 original size:18 final size:18
Alignment explanation
Indices: 210537--210593 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
210527 ATTTTAAATA
210537 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
210555 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
210569 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
210587 ATTTATT
1 ATTTATT
210594 TTAAAATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 10 0.32
15 1 0.03
16 2 0.06
17 1 0.03
18 17 0.55
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:210667 original size:32 final size:32
Alignment explanation
Indices: 210625--210688 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
210615 TATTGTAGTT
210625 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
210657 GTATGTATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
210689 TTGTAGTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:210759 original size:30 final size:31
Alignment explanation
Indices: 210703--210760 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
210693 AGTTATATTG
* *
210703 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
210734 ATTATTTAAATCTCA-TATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
210761 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:211659 original size:20 final size:19
Alignment explanation
Indices: 211634--211687 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
211624 CGATCTCAAA
211634 TTCGCAATGCGAATTCCAAT
1 TTCGCAA-GCGAATTCCAAT
* * *
211654 TTCGCAACCCAGTTTCCAAT
1 TTCGCAAGCGA-ATTCCAAT
211674 TTCGCAACGCGAAT
1 TTCGCAA-GCGAAT
211688 ATGTAAATCG
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (19 bp):
TTCGCAAGCGAATTCCAAT
Found at i:212366 original size:12 final size:12
Alignment explanation
Indices: 212349--212381 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
212339 ATATAACCCT
212349 GAAGAAGAAAAA
1 GAAGAAGAAAAA
212361 GAAGAAGAAAAA
1 GAAGAAGAAAAA
212373 GAAGAAGAA
1 GAAGAAGAA
212382 TGAGTCCCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:214463 original size:12 final size:12
Alignment explanation
Indices: 214446--214486 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
214436 AGCAAAAGGA
*
214446 AATCAAAATCGC
1 AATCAAAATCAC
*
214458 AATCAAAATCAA
1 AATCAAAATCAC
*
214470 AATCAAAATCCC
1 AATCAAAATCAC
214482 AATCA
1 AATCA
214487 CAACCGGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (12 bp):
AATCAAAATCAC
Found at i:214467 original size:6 final size:6
Alignment explanation
Indices: 214445--214479 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
214435 AAGCAAAAGG
* *
214445 AAATCA AAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
214480 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:214800 original size:20 final size:20
Alignment explanation
Indices: 214772--214841 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
214762 ATGTTGCGAT
214772 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
214792 CAACACGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
214812 CAACGTC-AAAGTCAAATTTG
1 CAACG-CGAAAGTCAAATTCG
214832 CAACGCGAAA
1 CAACGCGAAA
214842 TAAGCCTTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:214877 original size:20 final size:20
Alignment explanation
Indices: 214852--214937 Score: 118
Period size: 20 Copynumber: 4.3 Consensus size: 20
214842 TAAGCCTTGC
* *
214852 GAATTTGACTATCGCGTAGA
1 GAATTTGACTTTCGCGTTGA
*
214872 GAATTTGACTTTCGCGTTGT
1 GAATTTGACTTTCGCGTTGA
* *
214892 GAATTTGACTTTCGCATTGC
1 GAATTTGACTTTCGCGTTGA
*
214912 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGA
214932 GAATTT
1 GAATTT
214938 ACCTTCAACA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGA
Found at i:214916 original size:40 final size:40
Alignment explanation
Indices: 214848--214937 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
214838 GAAATAAGCC
*
214848 TTGCGAATTTGACTATCGCGTAGAGAATTTGACTTTCGCG
1 TTGCGAATTTGACTATCGCATAGAGAATTTGACTTTCGCG
* * * *
214888 TTGTGAATTTGACTTTCGCATTGCGAATTTGACTTTCGCG
1 TTGCGAATTTGACTATCGCATAGAGAATTTGACTTTCGCG
214928 TTGCGAATTT
1 TTGCGAATTT
214938 ACCTTCAACA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (40 bp):
TTGCGAATTTGACTATCGCATAGAGAATTTGACTTTCGCG
Found at i:215041 original size:25 final size:25
Alignment explanation
Indices: 215003--215054 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
214993 AAATCAATTA
*
215003 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
215028 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
215053 AA
1 AA
215055 AAAATAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:215452 original size:18 final size:18
Alignment explanation
Indices: 215431--215467 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
215421 GAAATTGGAG
215431 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
215449 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
215467 T
1 T
215468 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:215474 original size:24 final size:23
Alignment explanation
Indices: 215412--215475 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
215402 ATTTAAATTC
*
215412 ATTTAATATGAAATTGGAGTTTGA
1 ATTTAATAT-AAATTTGAGTTTGA
* *
215436 ATTTAAATTTCAATTTGAGTTTGA
1 ATTT-AATATAAATTTGAGTTTGA
215460 ATTTCAATATAAATTT
1 ATTT-AATATAAATTT
215476 CGGCTCCACT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 29 0.88
25 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (23 bp):
ATTTAATATAAATTTGAGTTTGA
Found at i:215821 original size:39 final size:39
Alignment explanation
Indices: 215778--215864 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
215768 TCCGATGCTC
*
215778 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
*
215817 ATCAAAATCCAAATCTCATATAGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
215856 ATCAAAATC
1 ATCAAAATC
215865 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATAGTGCCAAGCAAAAGGAA
Found at i:216065 original size:20 final size:20
Alignment explanation
Indices: 216040--216116 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 20
216030 ATGTTGCGAT
216040 CAACGCGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
216060 CAACGCGAAA-T--AA---G
1 CAACGCGAAAGTCAAATTCG
*** *
216074 CGTTGCGATAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
216094 CAACACGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
216114 CAA
1 CAA
216117 ACCAAAAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 12
0.67 0.14 0.19
Matches are distributed among these distances:
14 7 0.17
15 1 0.02
17 4 0.10
19 1 0.02
20 29 0.69
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.17
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:216387 original size:61 final size:63
Alignment explanation
Indices: 216253--216393 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 63
216243 TTTTAGAAAC
*
216253 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATCAATT--A-AAGCAAAAAAATAAATCTTATTTACAAATCAAATT
216318 A
63 A
* * * **
216319 AACAAATCAACTTTTACAAGTCAATT-AATC-AAAAAATAAATCTTATTTCCTCATC-AATTA
1 AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
216379 AACAAAATCAACTTT
1 AAC-AAATCAACTTT
216394 CAATGTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 8 0.12
61 32 0.47
62 3 0.04
66 25 0.37
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.30
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAAGCAAAAAAATAAATCTTATTTACAAATCAAATTA
Found at i:217833 original size:21 final size:21
Alignment explanation
Indices: 217762--217857 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
217752 GACGAGACCA
*
217762 CTTGAATGATGACAGGGGCCT
1 CTTGAATGATGAGAGGGGCCT
* * * * *
217783 CTTCAACGGTGGGAGGGGCTT
1 CTTGAATGATGAGAGGGGCCT
217804 CTTCG-ATGATGAGAGGGGCCT
1 CTT-GAATGATGAGAGGGGCCT
**
217825 CTTGAATGAT-AGGAGGCACCT
1 CTTGAATGATGA-GAGGGGCCT
217846 CTTGAATGATGA
1 CTTGAATGATGA
217858 TAGGTGCATC
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.03
21 55 0.95
22 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (21 bp):
CTTGAATGATGAGAGGGGCCT
Found at i:217855 original size:42 final size:42
Alignment explanation
Indices: 217762--217857 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
217752 GACGAGACCA
* * ** *
217762 CTTGAATGATGACAGGGGCCTCTTCAACGGTGGGAGGGGCTT
1 CTTGAATGATGACAGGGGCCTCTTCAACGATAGGAGGCACCT
* * *
217804 CTTCG-ATGATGAGAGGGGCCTCTTGAATGATAGGAGGCACCT
1 CTT-GAATGATGACAGGGGCCTCTTCAACGATAGGAGGCACCT
217846 CTTGAATGATGA
1 CTTGAATGATGA
217858 TAGGTGCATC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 42 0.95
43 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.25
Consensus pattern (42 bp):
CTTGAATGATGACAGGGGCCTCTTCAACGATAGGAGGCACCT
Found at i:218022 original size:4 final size:4
Alignment explanation
Indices: 218001--218042 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
217991 GGGCCGCTGA
* *
218001 AAAT AAAT TAAT ATAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
218043 TGCTGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:220352 original size:22 final size:22
Alignment explanation
Indices: 220324--220371 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
220314 GGAGATAGAT
220324 GGATTTCGTCGAAAATGGGGAC
1 GGATTTCGTCGAAAATGGGGAC
* *
220346 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGAAAATGGGGAC
220368 GGAT
1 GGAT
220372 GTCGCCGTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.12, G:0.42, T:0.23
Consensus pattern (22 bp):
GGATTTCGTCGAAAATGGGGAC
Found at i:220524 original size:20 final size:20
Alignment explanation
Indices: 220499--220643 Score: 179
Period size: 20 Copynumber: 7.2 Consensus size: 20
220489 GCATAAAAAC
220499 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
220519 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
220539 ATTTGAC-TTCTGTGTTGCG-
1 ATTTGACTTTC-GCGTTGCGA
* *
220558 ATTT-ACAAATCCGCGTTGCGA
1 ATTTGAC--TTTCGCGTTGCGA
220579 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
**
220599 ATTTGACTTTCATGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
220619 ATTTGACTTTCCCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
220639 ATTTG
1 ATTTG
220644 GAAAATCGCA
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
18 2 0.02
19 6 0.06
20 92 0.85
21 6 0.06
22 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:220719 original size:20 final size:19
Alignment explanation
Indices: 220507--220724 Score: 125
Period size: 20 Copynumber: 10.8 Consensus size: 19
220497 ACATTTGACT
*
220507 TTCGCGTTGCGAATTTGAC
1 TTCGCGTTGCGAATTTGAA
*
220526 TATCGCGTTGCGAATTTGAC
1 T-TCGCGTTGCGAATTTGAA
* *
220546 TTCTGTGTTGCG-ATTTACAAA
1 TTC-GCGTTGCGAATTT--GAA
* *
220567 TCCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGA-A
*
220587 TTCGCGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGA-A
** *
220607 TTCATGTTGCGAATTTGACT
1 TTCGCGTTGCGAATTTGA-A
*
220627 TTCCCGTTGCGAATTTGGAAA
1 TTCGCGTTGCGAATTT-G-AA
* ** *
220648 ATCGCAATGCG-ATTTACATA
1 TTCGCGTTGCGAATTT-GA-A
*
220668 TTCGCGTTGCGAAATTGGAAA
1 TTCGCGTTGCG-AATTTG-AA
* * *
220689 CTGGGGTTGCGAAATTTGAA
1 TTCGCGTTGCG-AATTTGAA
220709 TTCGCGTTGCGAATTT
1 TTCGCGTTGCGAATTT
220725 ATTGGTCATT
Statistics
Matches: 156, Mismatches: 31, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
19 14 0.09
20 107 0.69
21 30 0.19
22 5 0.03
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (19 bp):
TTCGCGTTGCGAATTTGAA
Found at i:236209 original size:25 final size:25
Alignment explanation
Indices: 236181--236235 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
236171 AAATTCTCAA
* *
236181 TTCCGGTTGCAACCTAATATATGAT
1 TTCCAGTTGCAACCTAATATATAAT
*
236206 TTCCAGTTGCAACCTAATATTTAAT
1 TTCCAGTTGCAACCTAATATATAAT
236231 TTCCA
1 TTCCA
236236 ATATCAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (25 bp):
TTCCAGTTGCAACCTAATATATAAT
Found at i:246265 original size:19 final size:19
Alignment explanation
Indices: 246241--246321 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 19
246231 ACAAAACCGG
246241 TTGCAACCTAAATTCTCAA
1 TTGCAACCTAAATTCTCAA
* *
246260 TTGCAACCTAATTTCTCATTTCCGG
1 TTGCAACCTAAATTCTCA------A
246285 TTGCAACCTAAATTCTCAA
1 TTGCAACCTAAATTCTCAA
*
246304 TTGCAACCTAATTTCTCA
1 TTGCAACCTAAATTCTCA
246322 TTTCCGGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
19 34 0.67
25 17 0.33
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (19 bp):
TTGCAACCTAAATTCTCAA
Found at i:246294 original size:25 final size:25
Alignment explanation
Indices: 246260--246363 Score: 121
Period size: 25 Copynumber: 4.4 Consensus size: 25
246250 AAATTCTCAA
246260 TTGCAACCTAATTTCTCATTTCCGG
1 TTGCAACCTAATTTCTCATTTCCGG
* *
246285 TTGCAACCTAAATTCTCA------A
1 TTGCAACCTAATTTCTCATTTCCGG
246304 TTGCAACCTAATTTCTCATTTCCGG
1 TTGCAACCTAATTTCTCATTTCCGG
* * *
246329 TTGCAACCTAATATCTTATTTCCAG
1 TTGCAACCTAATTTCTCATTTCCGG
246354 TTGCAACCTA
1 TTGCAACCTA
246364 CTATTTTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
19 17 0.26
25 49 0.74
ACGTcount: A:0.26, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
TTGCAACCTAATTTCTCATTTCCGG
Found at i:246300 original size:44 final size:44
Alignment explanation
Indices: 246237--246339 Score: 206
Period size: 44 Copynumber: 2.3 Consensus size: 44
246227 CAAGACAAAA
246237 CCGGTTGCAACCTAAATTCTCAATTGCAACCTAATTTCTCATTT
1 CCGGTTGCAACCTAAATTCTCAATTGCAACCTAATTTCTCATTT
246281 CCGGTTGCAACCTAAATTCTCAATTGCAACCTAATTTCTCATTT
1 CCGGTTGCAACCTAAATTCTCAATTGCAACCTAATTTCTCATTT
246325 CCGGTTGCAACCTAA
1 CCGGTTGCAACCTAA
246340 TATCTTATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (44 bp):
CCGGTTGCAACCTAAATTCTCAATTGCAACCTAATTTCTCATTT
Found at i:246372 original size:25 final size:24
Alignment explanation
Indices: 246304--246377 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
246294 AAATTCTCAA
*
246304 TTGCAACCTA-ATTTCTCATTTCCGG
1 TTGCAACCTATATTT-T-ATTTCCAG
*
246329 TTGCAACCTAATATCTTATTTCCAG
1 TTGCAACCT-ATATTTTATTTCCAG
246354 TTGCAACCTACTATTTTATTTCCA
1 TTGCAACCTA-TATTTTATTTCCA
246378 ATATCAAACT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 37 0.86
26 2 0.05
27 3 0.07
ACGTcount: A:0.24, C:0.26, G:0.08, T:0.42
Consensus pattern (24 bp):
TTGCAACCTATATTTTATTTCCAG
Found at i:253631 original size:21 final size:21
Alignment explanation
Indices: 253582--253631 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
253572 GTTAGGGGAG
*
253582 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAGTACT
** *
253603 TTGTGTGATGAGTTCAGTACT
1 TTACGTGATGAGGTCAGTACT
253624 TTACGTGA
1 TTACGTGA
253632 CGACAATGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:254082 original size:42 final size:42
Alignment explanation
Indices: 254035--254150 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
254025 GATTCACCTG
* * * *
254035 TCATCGTTCAAGATGCCTC-TCCTATCA-TTCAAGAGGCCCCTT
1 TCATCGTTCAAGAGGCC-CATCCCA-CAGTTCAAAAGGCCCCTC
254077 TCATCGTTCAAGAGGCCCATCCCACAGTTCAAAAGGCCCCTC
1 TCATCGTTCAAGAGGCCCATCCCACAGTTCAAAAGGCCCCTC
*
254119 TCATCGTTCAAGAGGTCCC-TCCCACCGTTCAA
1 TCATCGTTCAAGAGG-CCCATCCCACAGTTCAA
254151 GAGCCCGATT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
41 3 0.05
42 60 0.91
43 3 0.05
ACGTcount: A:0.23, C:0.36, G:0.16, T:0.25
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCATCCCACAGTTCAAAAGGCCCCTC
Found at i:254086 original size:21 final size:21
Alignment explanation
Indices: 254036--254153 Score: 121
Period size: 21 Copynumber: 5.6 Consensus size: 21
254026 ATTCACCTGT
* *
254036 CATCGTTCAAGATGCCTCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * **
254057 TATCATTCAAGAGGCCCCTTT
1 CATCGTTCAAGAGGCCCCTCC
*
254078 CATCGTTCAAGAGGCCCATCC
1 CATCGTTCAAGAGGCCCCTCC
* *
254099 CA-CAGTTCAAAAGGCCCCTCT
1 CATC-GTTCAAGAGGCCCCTCC
*
254120 CATCGTTCAAGAGGTCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
254141 CACCGTTCAAGAG
1 CATCGTTCAAGAG
254154 CCCGATTCAC
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 1 0.01
21 75 0.97
22 1 0.01
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.24
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:257584 original size:24 final size:24
Alignment explanation
Indices: 257550--257603 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
257540 CTGAAACATC
257550 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
257574 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
257598 ATCAAA
1 ATCAAA
257604 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:258366 original size:16 final size:16
Alignment explanation
Indices: 258345--258375 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
258335 AAATCATTGA
258345 AAAATTATATAAAAAT
1 AAAATTATATAAAAAT
*
258361 AAAATTATGTAAAAA
1 AAAATTATATAAAAA
258376 AAATTAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAATTATATAAAAAT
Found at i:258381 original size:14 final size:15
Alignment explanation
Indices: 258344--258378 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
258334 GAAATCATTG
258344 AAAAATTATATAAAA
1 AAAAATTATATAAAA
*
258359 ATAAAATTATGTAAAA
1 A-AAAATTATATAAAA
258375 AAAA
1 AAAA
258379 TTAGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:258563 original size:20 final size:19
Alignment explanation
Indices: 258519--258602 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
258509 CAAAACATTT
*
258519 GTGTTGCGAAAATAAAAGC
1 GTGTTGCGAAAATAAAATC
*
258538 -TGTTGCGAAATTAAAATTC
1 GTGTTGCGAAAATAAAA-TC
*
258557 GTGTTGCG-AATTCGAAAATC
1 GTGTTGCGAAAAT--AAAATC
* * *
258577 GAGTTACGAAAACAAAATTC
1 GTGTTGCGAAAATAAAA-TC
258597 GTGTTG
1 GTGTTG
258603 TGATTTAGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
18 15 0.29
19 9 0.18
20 21 0.41
21 6 0.12
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.29
Consensus pattern (19 bp):
GTGTTGCGAAAATAAAATC
Found at i:258627 original size:40 final size:40
Alignment explanation
Indices: 258538--258628 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
258528 AAATAAAAGC
** *
258538 TGTTGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCG
1 TGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCG
* * * * *
258578 AGTTACGAAAACAAAATTCGTGTTGTGATTTAGAAAATCT
1 TGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCG
258618 TGTTGCGAAAA
1 TGTTGCGAAAA
258629 GGAAACTTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (40 bp):
TGTTGCGAAAACAAAATTCGTGTTGCGAATTAGAAAATCG
Found at i:258776 original size:21 final size:20
Alignment explanation
Indices: 258658--258786 Score: 109
Period size: 20 Copynumber: 6.4 Consensus size: 20
258648 AAGAAATTCA
**
258658 CGTTGCGAATTCAGAAATCG
1 CGTTGCGAATTTGGAAATCG
* *
258678 AGTTACGAA-TT-GAAATTTCG
1 CGTTGCGAATTTGGAAA--TCG
* *
258698 TGTTGTGAATTTGGAAATCG
1 CGTTGCGAATTTGGAAATCG
* *
258718 CATTGCAAATTTGGAAATCG
1 CGTTGCGAATTTGGAAATCG
* * *
258738 CGTTGTGAATTTGAAAATTG
1 CGTTGCGAATTTGGAAATCG
*
258758 CGTTGCGAATTTGGAAAATCA
1 CGTTGCGAATTTGG-AAATCG
258779 CGTTGCGA
1 CGTTGCGA
258787 GAAAGAAATT
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
18 4 0.05
19 1 0.01
20 62 0.73
21 14 0.16
22 4 0.05
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
CGTTGCGAATTTGGAAATCG
Found at i:263561 original size:355 final size:355
Alignment explanation
Indices: 262910--263622 Score: 1327
Period size: 355 Copynumber: 2.0 Consensus size: 355
262900 AAATGTCTTA
*
262910 TCAAAGTAATTATAAATTAACCCTCAAAACATAAAACATAGCAATAAAATCCATAAATTATAACC
1 TCAAAGTAATAATAAATTAACCCTCAAAACATAAAACATAGCAATAAAATCCATAAATTATAACC
* *
262975 TAGATAACTAAAAATAAACATAAGTTGATAGGGTTTAGTACGATCAATGAAAACTTGTGGACTTA
66 TAGATAACTAAAAATAAACATAAGTTGATAGAGTTTAGTACGATCAATGAAAACTTATGGACTTA
*
263040 ATTATTTCCTTCATGAGTAAAATAAAAATCAGTAGTTTCCAAGTGGGTTGTATTGCTAGCATCAA
131 ATTATTTCCTTCATGAGTAAAATAAAAATCAATAGTTTCCAAGTGGGTTGTATTGCTAGCATCAA
263105 AATCACCTTCTCCATTTTCATACACAAGATTTGTCTATACTTTCTTTCCCTTTGTTTTAGTGATT
196 AATCACCTTCTCCATTTTCATACACAAGATTTGTCTATACTTTCTTTCCCTTTGTTTTAGTGATT
** * *
263170 GCTGATAAAGATCAATTAGGTTCTTTTGAGTATGACATAGACGTGACCAATGTCCTTTTCCTCTA
261 GCTGATAAAGATCAATTAGGTGATTTTGAGTATGACATAGACGTAACCAATGGCCTTTTCCTCTA
263235 CAACGATAGCATTTATTAGTAATATTGTTT
326 CAACGATAGCATTTATTAGTAATATTGTTT
*
263265 TCAAAGTAATAATAAATTGACCCTCAAAACATAAAACATAGCAATAAAATCCATAAATTATAACC
1 TCAAAGTAATAATAAATTAACCCTCAAAACATAAAACATAGCAATAAAATCCATAAATTATAACC
263330 TAGATAACTAAAAATAAACATAAGTTGATAGAGTTTAGTACGATCAATGAAAACTTATGGACTTA
66 TAGATAACTAAAAATAAACATAAGTTGATAGAGTTTAGTACGATCAATGAAAACTTATGGACTTA
*
263395 ATTATTTCCTTCATGAGTAAAATAAAAATCAATAGTTTCCAAGTGTGTTGTATTGCTAGCATCAA
131 ATTATTTCCTTCATGAGTAAAATAAAAATCAATAGTTTCCAAGTGGGTTGTATTGCTAGCATCAA
*
263460 AATCACCTTCTCCATTTTCATACACAAGATTTGTCTATATTTTCTTTCCCTTTGTTTTAGTGATT
196 AATCACCTTCTCCATTTTCATACACAAGATTTGTCTATACTTTCTTTCCCTTTGTTTTAGTGATT
263525 GCTGATAAAGATCAATTAGGTGATTTTGAGTATGACATAGACGTAACCAATGGCCTTTTCCTCTA
261 GCTGATAAAGATCAATTAGGTGATTTTGAGTATGACATAGACGTAACCAATGGCCTTTTCCTCTA
263590 CAACGATAGCATTTATTAGTAATATTGTTT
326 CAACGATAGCATTTATTAGTAATATTGTTT
263620 TCA
1 TCA
263623 TTTTCTTTTT
Statistics
Matches: 347, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
355 347 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (355 bp):
TCAAAGTAATAATAAATTAACCCTCAAAACATAAAACATAGCAATAAAATCCATAAATTATAACC
TAGATAACTAAAAATAAACATAAGTTGATAGAGTTTAGTACGATCAATGAAAACTTATGGACTTA
ATTATTTCCTTCATGAGTAAAATAAAAATCAATAGTTTCCAAGTGGGTTGTATTGCTAGCATCAA
AATCACCTTCTCCATTTTCATACACAAGATTTGTCTATACTTTCTTTCCCTTTGTTTTAGTGATT
GCTGATAAAGATCAATTAGGTGATTTTGAGTATGACATAGACGTAACCAATGGCCTTTTCCTCTA
CAACGATAGCATTTATTAGTAATATTGTTT
Found at i:267582 original size:407 final size:406
Alignment explanation
Indices: 266828--268043 Score: 2106
Period size: 407 Copynumber: 3.0 Consensus size: 406
266818 TTCATTATTG
266828 TATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCT
1 TATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCT
* *
266893 ATTTAATTGAAACATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCA-TTTTTTTTGG
66 ATTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCACTTTTTTTTTG
* * *
266957 CAATTTATACGTGGATCACTTCCATAAAAAGAATGGATGATTTGTATGTTAAATCATTAATTTAA
131 CAATTTATACGTGGATCGCTTTCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTTAA
* *
267022 TTTTAATTTTAATAATAAATCTGAATTTAATTCAATAACGTCATTTAATTTTTATTAATGATAAA
196 TTTTAATTTTAATAATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATAAA
* *
267087 CTTAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACATAAACTATCAGTTTTGATC
261 CTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGATC
* *
267152 TGTTTTAGTACCTAAACTTTTAATTTTTTTAAAACCATACCTAAAATTTACTTTTTGTTTCATTT
326 TGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCATTT
267217 TAATATATAAATATATA
391 TAATATAT-AATATATA
267234 TATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCT
1 TATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCT
* *
267299 ATTTAATTGAAAGATTTCGTTAGATGTCAATGTCTAATGGCATGCCTTTTATCACTTTTTTTTTG
66 ATTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCACTTTTTTTTTG
267364 CAATTTATACGTGGATCGCTTTCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTTAA
131 CAATTTATACGTGGATCGCTTTCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTTAA
*
267429 TTTTAATTTTAATCATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATAAA
196 TTTTAATTTTAATAATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATAAA
267494 CTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGATC
261 CTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGATC
267559 TGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTC----
326 TGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCATTT
267620 ------AT--T-T-TA
391 TAATATATAATATATA
*
267626 -ATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTATCATTCT
1 TATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCT
*
267690 ATTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCATTTTGTCACTTTTTTTTTG
66 ATTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCACTTTTTTTTT-
267755 GCAATTTATACGTGGATCG-TTTCCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTT
130 GCAATTTATACGTGGATCGCTTT-CATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTT
* **
267819 AATTTTAATTTTAATAATATATAGGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATA
194 AATTTTAATTTTAATAATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATA
267884 AACTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGA
259 AACTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGA
267949 TCTGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCAT
324 TCTGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCAT
268014 TTTAATATATATATATATA
389 TTTAATATATA-ATATATA
268033 TATATATATAT
1 TATATATATAT
268044 ATATATTGGA
Statistics
Matches: 769, Mismatches: 22, Indels: 36
0.93 0.03 0.04
Matches are distributed among these distances:
391 127 0.17
392 251 0.33
393 1 0.00
394 1 0.00
397 2 0.00
402 2 0.00
405 1 0.00
406 117 0.15
407 257 0.33
408 10 0.01
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (406 bp):
TATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCT
ATTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCACTTTTTTTTTG
CAATTTATACGTGGATCGCTTTCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTTAA
TTTTAATTTTAATAATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATAAA
CTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGATC
TGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCATTT
TAATATATAATATATA
Found at i:267958 original size:392 final size:392
Alignment explanation
Indices: 266829--268027 Score: 2055
Period size: 392 Copynumber: 3.0 Consensus size: 392
266819 TCATTATTGT
266829 ATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCTA
1 ATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCTA
*
266894 TTTAATTGAAACATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCA--TTTTTTTTGG
66 TTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCACTTTTTTTTTGG
** *
266957 CAATTTATACGTGGATCACTTCCATAAAAAGAATGGATGATTTGTATGTTAAATCATTAATTTAA
131 CAATTTATACGTGGATCGTTTCCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTTAA
* *
267022 TTTTAATTTTAATAATAAATCTGAATTTAATTCAATAACGTCATTTAATTTTTATTAATGATAAA
196 TTTTAATTTTAATAATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATAAA
* *
267087 CTTAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACATAAACTATCAGTTTTGATC
261 CTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGATC
* *
267152 TGTTTTAGTACCTAAACTTTTAATTTTTTTAAAACCATACCTAAAATTTACTTTTTGTTTCATTT
326 TGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTC----
267217 TAATATATAAATATATA
387 ------AT---T-T-TA
267234 TATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCT
1 -ATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCT
* *
267299 ATTTAATTGAAAGATTTCGTTAGATGTCAATGTCTAATGGCATGCCTTTTATCACTTTTTTTTT-
65 ATTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCACTTTTTTTTTG
267363 GCAATTTATACGTGGATCGCTTT-CATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTT
130 GCAATTTATACGTGGATCG-TTTCCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTT
*
267427 AATTTTAATTTTAATCATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATA
194 AATTTTAATTTTAATAATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATA
267492 AACTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGA
259 AACTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGA
267557 TCTGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCAT
324 TCTGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCAT
267622 TTTA
389 TTTA
*
267626 ATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTATCATTCTA
1 ATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCTA
*
267691 TTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCATTTTGTCACTTTTTTTTTGG
66 TTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCACTTTTTTTTTGG
267756 CAATTTATACGTGGATCGTTTCCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTTAA
131 CAATTTATACGTGGATCGTTTCCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTTAA
* **
267821 TTTTAATTTTAATAATATATAGGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATAAA
196 TTTTAATTTTAATAATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATAAA
267886 CTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGATC
261 CTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGATC
267951 TGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCATTT
326 TGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCATTT
268016 TA
391 TA
268018 ATATATATAT
1 ATATATATAT
268028 ATATATATAT
Statistics
Matches: 767, Mismatches: 21, Indels: 24
0.94 0.03 0.03
Matches are distributed among these distances:
391 127 0.17
392 267 0.35
393 1 0.00
394 1 0.00
397 2 0.00
406 115 0.15
407 244 0.32
408 10 0.01
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (392 bp):
ATATATATATTAAATCAAAAGAATTATTATGATTTAAGTTTTGATATATTTTAATTGTCATTCTA
TTTAATTGAAAGATTTCGTTAGATGTCAATGCCTAATGGCATGCCTTTTGTCACTTTTTTTTTGG
CAATTTATACGTGGATCGTTTCCATAAAAAGAATGGATGATTTGTATTTTAAATCATTAATTTAA
TTTTAATTTTAATAATAAATCTGAATTTAATTAAATAACGTCATTTAATTTTTATTATTGATAAA
CTAAATCATTCATATTAATATAAGGGCAAATTATATATTTAGTACCTAAACTATCAGTTTTGATC
TGTTTTAGTACCTAAAATTTTAATTTTTTTAAAACCATACCTAAAGTTTACTTTTTGTTTCATTT
TA
Found at i:268025 original size:2 final size:2
Alignment explanation
Indices: 268018--268049 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
268008 TTTCATTTTA
268018 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
268050 TGGAACCGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:268429 original size:11 final size:11
Alignment explanation
Indices: 268392--268435 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
268382 ATGTTAATAT
268392 GATAATAAAAA
1 GATAATAAAAA
268403 -ATGAA-AAAATA
1 GAT-AATAAAA-A
268414 GATAATAAAAA
1 GATAATAAAAA
268425 GATAATAAAAA
1 GATAATAAAAA
268436 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 6 0.21
11 17 0.59
12 6 0.21
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (11 bp):
GATAATAAAAA
Found at i:269855 original size:25 final size:24
Alignment explanation
Indices: 269814--269896 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 24
269804 ATAATAAAAC
269814 AAAAAATTAAAATTAAAATTAATAAT
1 AAAAAA-TAAAA-TAAAATTAATAAT
*
269840 AAAAAATAACAATAAAA-TAACAAT
1 AAAAAATAA-AATAAAATTAATAAT
269864 AAATAAATAATAA-AAATATTATTATAAT
1 AAA-AAATAA-AATAAA-ATTA--ATAAT
269892 AAAAA
1 AAAAA
269897 TATTTTCCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
24 12 0.25
25 17 0.35
26 10 0.21
27 2 0.04
28 7 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAAAATAAAATAAAATTAATAAT
Found at i:269858 original size:11 final size:11
Alignment explanation
Indices: 269842--269866 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
269832 TTAATAATAA
269842 AAAATAACAAT
1 AAAATAACAAT
269853 AAAATAACAAT
1 AAAATAACAAT
269864 AAA
1 AAA
269867 TAAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAACAAT
Found at i:269869 original size:31 final size:30
Alignment explanation
Indices: 269804--269884 Score: 76
Period size: 31 Copynumber: 2.6 Consensus size: 30
269794 TTGGACCCTG
*
269804 ATAATAAAACAAAAAATTAAAATTAAAATTA
1 ATAATAAAA-AAAAAATTAAAATTAAAATAA
269835 ATAATAAAAAATAACAA-TAAAA-TAACAATAA
1 ATAATAAAAAA-AA-AATTAAAATTAA-AATAA
* *
269866 ATAAATAATAAAAATATTA
1 AT-AATAAAAAAAAAATTA
269885 TTATAATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
30 6 0.14
31 26 0.62
32 10 0.24
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (30 bp):
ATAATAAAAAAAAAATTAAAATTAAAATAA
Found at i:269873 original size:14 final size:13
Alignment explanation
Indices: 269814--269873 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
269804 ATAATAAAAC
269814 AAAAAATTAA-AAT
1 AAAAAA-TAACAAT
* * *
269827 TAAAATTAATAAT
1 AAAAAATAACAAT
269840 AAAAAATAACAAT
1 AAAAAATAACAAT
269853 --AAAATAACAAT
1 AAAAAATAACAAT
269864 AAATAAATAA
1 AAA-AAATAA
269874 TAAAAATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 11 0.29
12 3 0.08
13 18 0.47
14 6 0.16
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAAATAACAAT
Found at i:269958 original size:35 final size:36
Alignment explanation
Indices: 269892--269988 Score: 115
Period size: 35 Copynumber: 2.6 Consensus size: 36
269882 TTATTATAAT
*
269892 AAAAATATTTTCCAAAAACCTATATAATATATATTTCAA
1 AAAAATATTTT-C-AAAA-TTATATAATATATATTTCAA
* **
269931 AAAAATATTTT-AAAATTATATATTATATATTTTTA
1 AAAAATATTTTCAAAATTATATAATATATATTTCAA
*
269966 AAAAATATTTTCTAAATTATATA
1 AAAAATATTTTCAAAATTATATA
269989 GTTTTCGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
35 27 0.52
36 14 0.27
39 11 0.21
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (36 bp):
AAAAATATTTTCAAAATTATATAATATATATTTCAA
Found at i:270017 original size:25 final size:25
Alignment explanation
Indices: 269989--270038 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
269979 AAATTATATA
*
269989 GTTTTCGAAAATG-TTTTAAAACTAT
1 GTTTTC-AAAATGATTTCAAAACTAT
270014 GTTTTCAAAATGATTTCAAAACTAT
1 GTTTTCAAAATGATTTCAAAACTAT
270039 ATATTATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (25 bp):
GTTTTCAAAATGATTTCAAAACTAT
Found at i:270092 original size:38 final size:37
Alignment explanation
Indices: 270015--270241 Score: 136
Period size: 38 Copynumber: 6.2 Consensus size: 37
270005 TAAAACTATG
* * * **
270015 TTTTCAAAATG-ATTTCAAAACTATATATTATATGTA
1 TTTTCAAAATGTTTTTCAAAACCATATAATATATACA
270051 TTTTCAAAATGTTTTTCAAAATCCATATAATATATACA
1 TTTTCAAAATGTTTTTCAAAA-CCATATAATATATACA
* **
270089 TTTTTAAAATGTTTTTCAAAA--A-AT-ATATA-ATG
1 TTTTCAAAATGTTTTTCAAAACCATATAATATATACA
* * *
270121 TTTTC-AAACGTTTTTCAAAAACTATATATTATATATGC-
1 TTTTCAAAATGTTTTTC-AAAACCATATA--ATATATACA
* * *
270159 TTTTCAAAATATTTTT-TAAACCATATATTATATA-A
1 TTTTCAAAATGTTTTTCAAAACCATATAATATATACA
* * *
270194 GTTTTCTAAAAATATTTTT-AAAAGTCATATATTATATA-A
1 -TTTTC--AAAATGTTTTTCAAAA-CCATATAATATATACA
*
270233 TTTCCAAAA
1 TTTTCAAAA
270242 ATGATTTCAA
Statistics
Matches: 154, Mismatches: 21, Indels: 32
0.74 0.10 0.15
Matches are distributed among these distances:
31 10 0.06
32 9 0.06
33 5 0.03
34 3 0.02
35 8 0.05
36 20 0.13
37 17 0.11
38 60 0.39
39 22 0.14
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTCAAAATGTTTTTCAAAACCATATAATATATACA
Found at i:270114 original size:31 final size:31
Alignment explanation
Indices: 270079--270148 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
270069 AAATCCATAT
*
270079 AATATATACAT-TTTTAAAATGTTTTTCAAAA
1 AATATATA-ATGTTTTAAAACGTTTTTCAAAA
*
270110 AATATATAATGTTTTCAAACGTTTTTCAAAA
1 AATATATAATGTTTTAAAACGTTTTTCAAAA
*
270141 ACTATATA
1 AATATATA
270149 TTATATATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 2 0.06
31 33 0.94
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (31 bp):
AATATATAATGTTTTAAAACGTTTTTCAAAA
Found at i:270212 original size:37 final size:36
Alignment explanation
Indices: 270139--270266 Score: 118
Period size: 37 Copynumber: 3.5 Consensus size: 36
270129 CGTTTTTCAA
* *
270139 AAACTATATATTATATATGCTTTTC-AAAATATTTTTT
1 AAACCATATATTATATAAG-TTTTCAAAAATA-TTTTT
270176 AAACCATATATTATATAAGTTTTCTAAAAATATTTTT
1 AAACCATATATTATATAAGTTTTC-AAAAATATTTTT
* * *
270213 AAAAGTCATATATTATATAA-TTTCCAAAAATGA-TTTC
1 -AAA-CCATATATTATATAAGTTTTCAAAAAT-ATTTTT
* *
270250 AAACTATATATAATATA
1 AAACCATATATTATATA
270267 TACTAAAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
35 11 0.14
36 8 0.10
37 31 0.40
38 14 0.18
39 14 0.18
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.44
Consensus pattern (36 bp):
AAACCATATATTATATAAGTTTTCAAAAATATTTTT
Found at i:270978 original size:84 final size:84
Alignment explanation
Indices: 270890--272048 Score: 1065
Period size: 84 Copynumber: 13.8 Consensus size: 84
270880 TTTACCTCTG
* * * * *
270890 AGCTGAGTGTAATCGAACTCGAAGGT-TTTCGGTGACAGATAACCCTTATCGAATTAAGTTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* * *
270954 TGTAAATGATGTGCCCTAGA
65 TGCAAATGATATGCCCTTGA
** * * *
270974 AGCTGAATGTAATCGAACTCGAAGGTATTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
*
271039 GCAAATGATATG-CCTTGG
66 GCAAATGATATGCCCTTGA
* * * * * *
271057 AGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTGTCAGATAACCCTTCTAGCCTTGAGTTATGT
1 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
*
271122 TGTAAATGATATGCCCTTGA
65 TGCAAATGATATGCCCTTGA
** * * * * *
271142 AGCTGATTGTAATCGAGCTTGAGGGTC-TT--TGGCAGATATCCCTTCTCGACTTAAGTTATGCT
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
* * * *
271204 GTAAATGATGTG-CATTGG
66 GCAAATGATATGCCCTTGA
* * * *
271222 AGTTGAGAGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATTC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGC
* *
271287 TGCAAATGATAT-ACCTTGG
65 TGCAAATGATATGCCCTTGA
* * * * *
271306 AGCTGAGCGTAGCCGAACTCGAAGGTCTTTTGGTTGTAGATAGCCCTTCTCGACTTAAGCTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* * * * *
271371 TACAAAGGATTTACCCTCGA
65 TGCAAATGATATGCCCTTGA
** ** * * **
271391 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTATTAACAGATAACCCTTCTAGCCTTGGGTTATGCT
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
* * *
271456 GTAAATGATGTGCCTTTGA
66 GCAAATGATATGCCCTTGA
* * * * * * *
271475 AGCTAAGTGTAATCAAACTC-AGGGGATCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
1 AGCTGAGCGTAGTCGAACTCGA-AGG-TCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTAT
* * ***
271539 GCTGCAAATGCTGTGTTGTTG-
63 GCTGCAAATGATATGCCCTTGA
* * * * * *
271560 AGCTGAGCGTAGTCAAACTCAAAGGTCTTTTGTTGGTAGATAACCCTTCTAGACTTAAGTTATGT
1 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* *
271625 TGCAAATGTTATG-CCTTGG
65 TGCAAATGATATGCCCTTGA
* * ** *
271644 AGCTGAGCGTAGTCAAACTTGGGGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGC
* * *
271709 TGCAAATGATGTGTCGTT-A
65 TGCAAATGATATGCCCTTGA
* * * * * * *
271728 AGCTGAGCGTAGTCAAACTCAAAGGTCTTTTGTTGGCAGATAACCTTTCTAGCCTTGAGTTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* * * *
271793 TGTAAATGTTAT-ACCTTGG
65 TGCAAATGATATGCCCTTGA
* *
271812 AGCTGAGCGTAGTCGAACTCGAAGGTC-TT--TGGCAGATAGCCCTTCTCAACTTAAGTTATGCT
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
* *
271874 GCAAATGATGGTG-CCTTGG
66 GCAAATGAT-ATGCCCTTGA
* * * *
271893 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGATGGCAGATATCCATTCTCGACTTAAGCTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGC
*
271958 TGCAAATGATATGCCCTCGA
65 TGCAAATGATATGCCCTTGA
* * * * *
271978 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGACATATAACCCTTCTAGTCTTGAA-TTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTT-AAGTTATGC
*
272042 TGAAAAT
65 TGCAAAT
272049 AGATTCTTTA
Statistics
Matches: 872, Mismatches: 175, Indels: 56
0.79 0.16 0.05
Matches are distributed among these distances:
80 57 0.07
81 74 0.08
82 2 0.00
83 41 0.05
84 490 0.56
85 169 0.19
86 39 0.04
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (84 bp):
AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
GCAAATGATATGCCCTTGA
Found at i:271259 original size:249 final size:249
Alignment explanation
Indices: 270890--272048 Score: 1183
Period size: 249 Copynumber: 4.6 Consensus size: 249
270880 TTTACCTCTG
* * * * * * *
270890 AGCTGAGTGTAATCGAACTCGAAGGTTTTCGGTGACAGATAACCCTTATCGAATTAAGTTATGCT
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
* * * *
270955 GTAAATGATGTGCCCTAGAAGCTGA-ATGTAATCGAACTCGAAGGTATTTGTTGGCAGATAACCC
65 GTAAATGATGTGCCCTTGAAGCTGAGA-GTAGTCAAACTCGAAGGTCTTTGTTGGCAGATAACCC
*
271019 TTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC
129 TTCTCGACTTAAGTTATGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC
* * * *
271084 TTTTGGTGTCAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATATGCCCTTGA
194 TTTTGGTGT-AGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGA
** * * * * *
271142 AGCTGATTGTAATCGAGCTTGAGGGTC-T-TTGGCAGATATCCCTTCTCGACTTAAGTTATGCTG
1 AGCTGAGCGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
* * *
271205 TAAATGATGTG-CATTGGAGTTGAGAGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCT
66 TAAATGATGTGCCCTTGAAGCTGAGAGTAGTCAAACTCGAAGGTCTTT-GTTGGCAGATAACCCT
* * *
271269 TCTCGACTTAAGTTATTCTGCAAATGATATACCTTGGAGCTGAGCGTAGCCGAACTCGAAGGTCT
130 TCTCGACTTAAGTTATGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCT
* * * * * * * *
271334 TTTGGTTGTAGATAGCCCTTCTCGACTTAAGCTATGCTACAAAGGATTTACCCTCGA
195 TTTGG-TGTAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT-GCCTTGA
* ** * * **
271391 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTATTAACAGATAACCCTTCTAGCCTTGGGTTATGCT
1 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
* * * * * *
271456 GTAAATGATGTGCCTTTGAAGCTAAGTGTAATCAAACTC-AGGGGATCTTTGGTTGGCAGATAGC
65 GTAAATGATGTGCCCTTGAAGCTGAGAGTAGTCAAACTCGA-AGG-TCTTT-GTTGGCAGATAAC
* * * * *
271520 CCTTCTCGACTTAAGCTATGCTGCAAATGCTGT--GTTGTTGAGCTGAGCGTAGTCAAACTCAAA
127 CCTTCTCGACTTAAGTTATGCTGCAAATGATATACCTTG--GAGCTGAGCGTAGTCAAACTCGAA
* * * *
271583 GGTCTTTTGTTGGTAGATAACCCTTCTAGACTTAAGTTATGTTGCAAATGTTATGCCTTGG
190 GGTCTTTTGGT-GTAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGA
* * ** *
271644 AGCTGAGCGTAGTCAAACTTGGGGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* * * * *
271709 TGCAAATGATGTGTCGTT-AAGCTGAGCGTAGTCAAACTCAAAGGTCTTTTGTTGGCAGATAACC
64 TGTAAATGATGTGCCCTTGAAGCTGAGAGTAGTCAAACTCGAAGGTC-TTTGTTGGCAGATAACC
* * * * * * *
271773 TTTCTAGCCTTGAGTTATGCTGTAAATGTTATACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT
128 CTTCTCGACTTAAGTTATGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCAAACTCGAAGGT
* * * *
271838 C-TTT-G-GCAGATAGCCCTTCTCA-ACTTAAGTTATGCTGCAAATGATGGTGCCTTGG
193 CTTTTGGTGTAGATAACCCTTCT-AGACTTAAGTTATGCTGCAAATGAT-ATGCCTTGA
* * * *
271893 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGATGGCAGATATCCATTCTCGACTTAAGCTATGC
1 AGCTGAGCGTAGTCGAACTCGAAGGTC--TTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
* * * * * * *
271958 TGCAAATGATATGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTTGACATATAACCC
64 TGTAAATGATGTGCCCTTGAAGCTGAGAGTAGTCAAACTCGAAGGTCTTTGTTGGCAGATAACCC
* * *
272023 TTCTAGTCTTGAA-TTATGCTGAAAAT
129 TTCTCGACTT-AAGTTATGCTGCAAAT
272049 AGATTCTTTA
Statistics
Matches: 753, Mismatches: 131, Indels: 49
0.81 0.14 0.05
Matches are distributed among these distances:
248 61 0.08
249 292 0.39
250 33 0.04
251 5 0.01
252 130 0.17
253 76 0.10
254 156 0.21
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (249 bp):
AGCTGAGCGTAGTCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTG
TAAATGATGTGCCCTTGAAGCTGAGAGTAGTCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTT
CTCGACTTAAGTTATGCTGCAAATGATATACCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTT
TTGGTGTAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGA
Found at i:273316 original size:83 final size:87
Alignment explanation
Indices: 273185--273411 Score: 248
Period size: 95 Copynumber: 2.6 Consensus size: 87
273175 GGCTAGCTGA
* * * *
273185 ATCCGTAAAGTCGAGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAA-TAT-GTA-AA-CACC
1 ATCCATAAAGACGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATAGTATAATCACC
* * *
273246 TTTATCATGTTAGCTGAATCTT
66 TTTATCAGGCTAGCTGAATATT
* *
273268 ATCCATAAAGCCGGGGCGTTTAACCAATTGC-CTTAGAGGGACATCTCAAGCTTTATTGTATAGT
1 ATCCATAAAGACGGGGCGTTTAACCAATTGCTC-TAGAGGGACAACTC-A-----A-T-TATAGT
273332 ATAATCACCTTTATCAGGCTAGCTGAATATT
57 ATAATCACCTTTATCAGGCTAGCTGAATATT
*
273363 ATCCATAAAGACGGGGCGTTTAACCAATTTCTCTAGAGGGACAACTCAA
1 ATCCATAAAGACGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAA
273412 GCTTTATTGT
Statistics
Matches: 120, Mismatches: 10, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
82 1 0.01
83 41 0.34
84 1 0.01
89 2 0.02
92 3 0.03
93 3 0.03
94 3 0.03
95 65 0.54
96 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (87 bp):
ATCCATAAAGACGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATAGTATAATCACC
TTTATCAGGCTAGCTGAATATT
Found at i:273405 original size:95 final size:95
Alignment explanation
Indices: 273242--273424 Score: 296
Period size: 95 Copynumber: 1.9 Consensus size: 95
273232 AATATGTAAA
* * * *
273242 CACCTTTATCATGTTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCCTTAGAGG
1 CACCTTTATCAGGCTAGCTGAATATTATCCATAAAGACGGGGCGTTTAACCAATTGCCTTAGAGG
*
273307 GACATCTCAAGCTTTATTGTATAGTATAAT
66 GACAACTCAAGCTTTATTGTATAGTATAAT
*
273337 CACCTTTATCAGGCTAGCTGAATATTATCCATAAAGACGGGGCGTTTAACCAATT-TCTCTAGAG
1 CACCTTTATCAGGCTAGCTGAATATTATCCATAAAGACGGGGCGTTTAACCAATTGCCT-TAGAG
273401 GGACAACTCAAGCTTTATTGTATA
65 GGACAACTCAAGCTTTATTGTATA
273425 TTTATAATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 2 0.02
95 79 0.98
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (95 bp):
CACCTTTATCAGGCTAGCTGAATATTATCCATAAAGACGGGGCGTTTAACCAATTGCCTTAGAGG
GACAACTCAAGCTTTATTGTATAGTATAAT
Found at i:275381 original size:14 final size:14
Alignment explanation
Indices: 275362--275392 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
275352 CCCATACGGA
275362 GAATAAATTCCCAC
1 GAATAAATTCCCAC
*
275376 GAATAAATTTCCAC
1 GAATAAATTCCCAC
275390 GAA
1 GAA
275393 GACGTCGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.23
Consensus pattern (14 bp):
GAATAAATTCCCAC
Found at i:276012 original size:12 final size:12
Alignment explanation
Indices: 275991--276025 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
275981 ATGTTAATAT
275991 GATAATAAAAAA
1 GATAATAAAAAA
276003 -ATAGATAAAAAA
1 GATA-ATAAAAAA
276015 GATAATAAAAA
1 GATAATAAAAA
276026 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (12 bp):
GATAATAAAAAA
Found at i:276056 original size:43 final size:43
Alignment explanation
Indices: 275998--276091 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
275988 TATGATAATA
* * * *
275998 AAAAAATAGATAAAAAA-GATAATAA-AAATGAAA-AAAATATTTT
1 AAAAAATA-CTAAAAAATAATAATAATAAA--AAACAAAATAATGT
276041 AAAAAATACTAAAAAATAATAATAATAAAAAACAAAATAATGT
1 AAAAAATACTAAAAAATAATAATAATAAAAAACAAAATAATGT
276084 AAAAAATA
1 AAAAAATA
276092 ATAGCAAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
42 10 0.23
43 31 0.70
44 3 0.07
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (43 bp):
AAAAAATACTAAAAAATAATAATAATAAAAAACAAAATAATGT
Found at i:276094 original size:15 final size:16
Alignment explanation
Indices: 276045--276094 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
276035 TATTTTAAAA
*
276045 AATACTAAAAAATAAT
1 AATAATAAAAAATAAT
*
276061 AATAATAAAAAACAA-
1 AATAATAAAAAATAAT
276076 AATAATGTAAAAAATAAT
1 AATAA--TAAAAAATAAT
276094 A
1 A
276095 GCAAAAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 5 0.18
16 13 0.46
17 9 0.32
18 1 0.04
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (16 bp):
AATAATAAAAAATAAT
Done.