Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008113.1 Hibiscus syriacus cultivar Beakdansim tig00110652_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: 992058
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 5 of 5
Found at i:841803 original size:21 final size:19
Alignment explanation
Indices: 841717--841811 Score: 82
Period size: 21 Copynumber: 4.6 Consensus size: 19
841707 TCTTTTTTTT
*
841717 ACTATCGCAACGAATTTGG
1 ACTATCGCAACGAACTTGG
** *
841736 AAAATCGCAACGACAACTGTAG
1 ACTATCGCAACG--AACT-TGG
*
841758 ACTATCGCAACGAATTTGG
1 ACTATCGCAACGAACTTGG
841777 AAACTATCGCAACGACAACTTGG
1 --ACTATCGCAACG--AACTTGG
841800 ACTATCGCAACG
1 ACTATCGCAACG
841812 CGAAATGCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
19 12 0.20
20 3 0.05
21 27 0.45
22 12 0.20
23 6 0.10
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (19 bp):
ACTATCGCAACGAACTTGG
Found at i:842419 original size:16 final size:16
Alignment explanation
Indices: 842398--842435 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
842388 ATGCTGGTCA
842398 AGTTTGTCTGGGTTTT
1 AGTTTGTCTGGGTTTT
842414 AGTTTGTCTGGGTTTT
1 AGTTTGTCTGGGTTTT
*
842430 AATTTG
1 AGTTTG
842436 AGACGCTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.11, C:0.05, G:0.29, T:0.55
Consensus pattern (16 bp):
AGTTTGTCTGGGTTTT
Found at i:856287 original size:172 final size:171
Alignment explanation
Indices: 856002--856345 Score: 654
Period size: 172 Copynumber: 2.0 Consensus size: 171
855992 TCATCTGAAA
*
856002 AATTCCTAATGGAGCTGCATAAACAATTTTGATGGTGAGGTTCATTTGGATCTCCTAAGACTGTC
1 AATTCCTAATGGAGCTGCATAAACAATTTTGATGGTGAGGTTCATTTGGAGCTCCTAAGACTGTC
856067 AGTTCTGTGGAAGGTTATGAGAGGTTTGCCATCATTTTTGGTACCTTCCTCTGAAGAAATTCATG
66 AGTTCTGTGGAAGGTTATGAGAGGTTTGCCATCATTTTTGGTACCTTCCTCTGAAGAAATTCATG
856132 TTGGAACCACAATAAACACTGCTGACAGTGAGCTTCTCTTG
131 TTGGAACCACAATAAACACTGCTGACAGTGAGCTTCTCTTG
856173 AATTCCTAATGGAGCTGCATTAAACAATTTTGATGGTGAGGTTCATTTGGGAGCTCCTAAGACTG
1 AATTCCTAATGGAGCTGCA-TAAACAATTTTGATGGTGAGGTTCATTT-GGAGCTCCTAAGACTG
856238 TCAGTTCTGTGGAAGGTTATGAGA-GTTTGCCATCATTTTTGGTACCTTCCTCTGAAGAAATTCA
64 TCAGTTCTGTGGAAGGTTATGAGAGGTTTGCCATCATTTTTGGTACCTTCCTCTGAAGAAATTCA
856302 TGTTGGAACCACAATAAACACTGCTGACAGTGAGCTTCTCTTG
129 TGTTGGAACCACAATAAACACTGCTGACAGTGAGCTTCTCTTG
856345 A
1 A
856346 GTAGACCTGA
Statistics
Matches: 170, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
171 19 0.11
172 112 0.66
173 39 0.23
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (171 bp):
AATTCCTAATGGAGCTGCATAAACAATTTTGATGGTGAGGTTCATTTGGAGCTCCTAAGACTGTC
AGTTCTGTGGAAGGTTATGAGAGGTTTGCCATCATTTTTGGTACCTTCCTCTGAAGAAATTCATG
TTGGAACCACAATAAACACTGCTGACAGTGAGCTTCTCTTG
Found at i:857153 original size:342 final size:342
Alignment explanation
Indices: 856523--857213 Score: 1005
Period size: 342 Copynumber: 2.0 Consensus size: 342
856513 TGTGTTCAAA
*
856523 GAACAAATACCTGATACAGCTGCATGTTCTATGCTTGCTGAAGAGGTCCCTTTGGTAGAACCTGA
1 GAACAAATACCTGATACAGCTGCATGTTCTATGC-T-CT--AGAGGTCCCTTTGGCAGAACCTGA
* *
856588 AACTGCTCCTAGTGAAGTCCTCGAAGGTGGTATTGTTCAAAGGGTGAATGATGGAACAAGTCCCT
62 AACTGCTCCTAGTAAAGTCCTCGAAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCT
* * *
856653 AAGAAATGACCACAGGATAGTGTACTATGCACTATGAAGAGGGAACAAATACCTGATACAGATGT
127 AAGAAATGACCACAGGATAGTGTACAATGCACTATGAACAGGGAACAAATACCTGATACAGATGC
* *
856718 ATGTTCTACGCCTGCTGAAGAGGTCCCTTTGGCTGAACCTGAAGCTGCTCCTAGTGAAGTCCTCA
192 ATGTTCTACGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCA
* * * *
856783 AGGATGGCAATGTTCAAAGGGTGAATGATGGAACAAGTTCCATTGAAAATGGCCAGCAGGATAGT
257 AGGATGGCAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATAGT
856848 GTACGATGCACTATGAACAGG
322 GTACGATGCACTATGAACAGG
* *
856869 GAACAAATACCTGATACAGCTGCATGTTCTATGC-CT-GCGGTCCCTTTTGCAGAACCTGAAACT
1 GAACAAATACCTGATACAGCTGCATGTTCTATGCTCTAGAGGTCCCTTTGGCAGAACCTGAAACT
*
856932 GCTCCTAGTAAAGTCCTC-AACGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCC-ACT
66 GCTCCTAGTAAAGTCCTCGAA-GGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCTA-A
* * *
856995 GAAAATGACCAGCAGGATAGTGTACAATGCATTATGAACAGGGAACAAATACCTGATATAGCTGC
129 G-AAATGACCA-CAGGATAGTGTACAATGCACTATGAACAGGGAACAAATACCTGATACAGATGC
* * * * *
857060 ATGTTCTATGCCTTCT-ACAGAGTTTCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTT
192 ATGTTCTACGCCTGCTGA-AGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTC
* * * *
857124 GAGGGTGGTAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATGG
256 AAGGATGGCAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATAG
* *
857189 TGTACTATGCTCTATGAACAGG
321 TGTACGATGCACTATGAACAGG
857211 GAA
1 GAA
857214 TCTGTACTCC
Statistics
Matches: 311, Mismatches: 29, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
339 3 0.01
340 80 0.26
341 10 0.03
342 182 0.59
343 2 0.01
346 34 0.11
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (342 bp):
GAACAAATACCTGATACAGCTGCATGTTCTATGCTCTAGAGGTCCCTTTGGCAGAACCTGAAACT
GCTCCTAGTAAAGTCCTCGAAGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCTAAGA
AATGACCACAGGATAGTGTACAATGCACTATGAACAGGGAACAAATACCTGATACAGATGCATGT
TCTACGCCTGCTGAAGAGGTCCCTTTGGCAGAACCTGAAACTGCTCCTAGTGAAGTCCTCAAGGA
TGGCAATGTTCAAAGGGAGAATGATGGAACAAGTCCCAGTGAAAATGACCAGCAGGATAGTGTAC
GATGCACTATGAACAGG
Found at i:857166 original size:174 final size:173
Alignment explanation
Indices: 856523--857213 Score: 979
Period size: 174 Copynumber: 4.0 Consensus size: 173
856513 TGTGTTCAAA
*
856523 GAACAAATACCTGATACAGCTGCATGTTCTATGCTTGCTGAAGAGGTCCCTTTGGTAGAACCTGA
1 GAACAAATACCTGATACAGCTGCATGTTCTATGCTT-CTGAAGAGGTCCCTTTGGCAGAACCTGA
*
856588 AACTGCTCCTAGTGAAGTCCTCGAA-GGTGGTATTGTTCAAAGGGTGAATGATGGAACAAGT-CC
65 AACTGCTCCTAGTGAAGTCCTC-AAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCC
* *
856651 -CTAAGAAATGACCA-CAGGATAGTGTACTATGCACTATGAAGAGG
129 ACTGA-AAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
* * * * *
856695 GAACAAATACCTGATACAGATGTATGTTCTACGCCTGCTGAAGAGGTCCCTTTGGCTGAACCTGA
1 GAACAAATACCTGATACAGCTGCATGTTCTATG-CTTCTGAAGAGGTCCCTTTGGCAGAACCTGA
* * * *
856760 AGCTGCTCCTAGTGAAGTCCTCAAGGATGGCAATGTTCAAAGGGTGAATGATGGAACAAGTTCCA
65 AACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCA
* * *
856825 TTGAAAATGGCCAGCAGGATAGTGTACGATGCACTATGAACAGG
130 CTGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
* *
856869 GAACAAATACCTGATACAGCTGCATGTTCTATGC--CT---GCGGTCCCTTTTGCAGAACCTGAA
1 GAACAAATACCTGATACAGCTGCATGTTCTATGCTTCTGAAGAGGTCCCTTTGGCAGAACCTGAA
* *
856929 ACTGCTCCTAGTAAAGTCCTCAACGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCAC
66 ACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCAC
* *
856994 TGAAAATGACCAGCAGGATAGTGTACAATGCATTATGAACAGG
131 TGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
* * *
857037 GAACAAATACCTGATATAGCTGCATGTTCTATGCCTTCT-ACAGAGTTTCCTTTGGCAGAACCTG
1 GAACAAATACCTGATACAGCTGCATGTTCTATG-CTTCTGA-AGAGGTCCCTTTGGCAGAACCTG
** *
857101 AAACTGCTCCTAGTGAAGTCCTTGAGGGTGGTAATGTTCAAAGGGAGAATGATGGAACAAGTCCC
64 AAACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCC
* * *
857166 AGTGAAAATGACCAGCAGGATGGTGTACTATGCTCTATGAACAGG
129 ACTGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
857211 GAA
1 GAA
857214 TCTGTACTCC
Statistics
Matches: 462, Mismatches: 46, Indels: 20
0.88 0.09 0.04
Matches are distributed among these distances:
168 151 0.33
169 1 0.00
171 6 0.01
172 110 0.24
173 13 0.03
174 181 0.39
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (173 bp):
GAACAAATACCTGATACAGCTGCATGTTCTATGCTTCTGAAGAGGTCCCTTTGGCAGAACCTGAA
ACTGCTCCTAGTGAAGTCCTCAAGGGTGGTAATGTTCAAAGGGTGAATGATGGAACAAGTCCCAC
TGAAAATGACCAGCAGGATAGTGTACTATGCACTATGAACAGG
Found at i:862101 original size:17 final size:17
Alignment explanation
Indices: 862079--862114 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
862069 CGTGAAGTAG
862079 ATTAGGATTAGTTTAAT
1 ATTAGGATTAGTTTAAT
*
862096 ATTAGGTTTAGTTTAAT
1 ATTAGGATTAGTTTAAT
862113 AT
1 AT
862115 ATATATATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (17 bp):
ATTAGGATTAGTTTAAT
Found at i:864719 original size:23 final size:23
Alignment explanation
Indices: 864693--864737 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
864683 CACCACAGCT
*
864693 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
864716 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
864738 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:864975 original size:149 final size:149
Alignment explanation
Indices: 864716--865019 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
864706 CGAAGTGCCC
* *
864716 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
864781 CATATACATATACTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
864846 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
864865 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
864930 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
864995 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
865014 CGTAGA
1 CGTAGA
865020 CCCTCGACTC
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:865863 original size:18 final size:18
Alignment explanation
Indices: 865840--865874 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
865830 TCCCATCTAG
865840 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
865858 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
865875 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:866484 original size:21 final size:21
Alignment explanation
Indices: 866454--866498 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
866444 ATTCTGTCGT
* *
866454 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
866475 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
866496 TTG
1 TTG
866499 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:869774 original size:23 final size:23
Alignment explanation
Indices: 869748--869792 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
869738 CACCACAGCT
*
869748 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
869771 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
869793 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:870030 original size:149 final size:149
Alignment explanation
Indices: 869771--870074 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
869761 CGAAGTGCCC
* *
869771 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
869836 CATATACATATGCTAGGGATCAAGTATGTGTATTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTATTTCCAGACTTCACACATGTTCCAAAGAATATA
869901 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
869920 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
* *
869985 CATATACATATACTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCTAAAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTATTTCCAGACTTCACACATGTTCCAAAGAATATA
870050 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
870069 CGTAGA
1 CGTAGA
870075 CCCTCGACTC
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTATTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:870920 original size:18 final size:18
Alignment explanation
Indices: 870897--870931 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
870887 ACCCATCTAG
870897 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
870915 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
870932 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:871541 original size:21 final size:21
Alignment explanation
Indices: 871511--871555 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
871501 ATTCTGTCGT
* *
871511 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
871532 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
871553 TTG
1 TTG
871556 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:875133 original size:6 final size:6
Alignment explanation
Indices: 875119--875170 Score: 77
Period size: 6 Copynumber: 8.3 Consensus size: 6
875109 AATGACACCT
*
875119 TTTGTA TTTGCA TTTGGCA TTTGCA TTTGCA TTTGGCA TTTGCA TTTGCA
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA TTT-GCA TTTGCA TTTGCA
875169 TT
1 TT
875171 GTATGTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
6 31 0.72
7 12 0.28
ACGTcount: A:0.15, C:0.13, G:0.19, T:0.52
Consensus pattern (6 bp):
TTTGCA
Found at i:875142 original size:13 final size:12
Alignment explanation
Indices: 875119--875170 Score: 77
Period size: 13 Copynumber: 4.2 Consensus size: 12
875109 AATGACACCT
*
875119 TTTGTATTTGCA
1 TTTGCATTTGCA
875131 TTTGGCATTTGCA
1 TTT-GCATTTGCA
875144 TTTGCATTTGGCA
1 TTTGCATTT-GCA
875157 TTTGCATTTGCA
1 TTTGCATTTGCA
875169 TT
1 TT
875171 GTATGTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 14 0.38
13 23 0.62
ACGTcount: A:0.15, C:0.13, G:0.19, T:0.52
Consensus pattern (12 bp):
TTTGCATTTGCA
Found at i:875146 original size:19 final size:19
Alignment explanation
Indices: 875119--875170 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
875109 AATGACACCT
*
875119 TTTGTATTTGCATTTGGCA
1 TTTGCATTTGCATTTGGCA
875138 TTTGCATTTGCATTTGGCA
1 TTTGCATTTGCATTTGGCA
875157 TTTGCATTTGCATT
1 TTTGCATTTGCATT
875171 GTATGTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.15, C:0.13, G:0.19, T:0.52
Consensus pattern (19 bp):
TTTGCATTTGCATTTGGCA
Found at i:879436 original size:39 final size:38
Alignment explanation
Indices: 879382--879495 Score: 155
Period size: 34 Copynumber: 3.1 Consensus size: 38
879372 AAAGTCAAGT
* *
879382 CTTCACCAAAGAGTAGTAAAGCAAATCCATTTTGTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCA-TCTGTAAGC
879421 CTTCACCAAAGAGTAGTGAAGC--A-CCATCT-TAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATCTGTAAGC
**
879455 CTTCACGGAAGAGTAGTGAAGCAAATCCATCTGTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATCTGTAAGC
879493 CTT
1 CTT
879496 TAGAGCAAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
34 25 0.37
35 2 0.03
36 4 0.06
37 7 0.10
38 8 0.12
39 21 0.31
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (38 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCCATCTGTAAGC
Found at i:879707 original size:42 final size:41
Alignment explanation
Indices: 879641--879742 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
879631 TTCACAATTT
* * * *
879641 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
879682 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
*
879724 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
879743 CATAAAACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:880250 original size:53 final size:53
Alignment explanation
Indices: 880192--880401 Score: 233
Period size: 53 Copynumber: 3.9 Consensus size: 53
880182 AGAATCACAC
* * **
880192 CAGAAGATTGTTCGAGTTCTATTCCCTGAAGCAAGAGGGAGTGAACCCGTGGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
*
880245 CAGAAGATTGTTCGAGTTCTACCCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * * * * ***
880298 CAGAAGATTATTCGAGTTCTACTCCCTGAAGAAATAGGGAACGAACCCATTTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * * * *
880351 TAGAAGATTGTTCGAGTTCCTTAATCCCTTAA-CAGGAGGGAGCGGACCCGT
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCGAACCCGT
880402 CATTTGAAGA
Statistics
Matches: 131, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
53 108 0.82
54 14 0.11
55 9 0.07
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:881515 original size:17 final size:17
Alignment explanation
Indices: 881493--881528 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
881483 CGTGAAGTAG
881493 ATTAGGATTAGTTTAAT
1 ATTAGGATTAGTTTAAT
*
881510 ATTAGGTTTAGTTTAAT
1 ATTAGGATTAGTTTAAT
881527 AT
1 AT
881529 ATATCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (17 bp):
ATTAGGATTAGTTTAAT
Found at i:911306 original size:28 final size:27
Alignment explanation
Indices: 911232--911306 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 27
911222 AGTTGAATGC
* *
911232 CTAATTGCACCCAAAAAAATGTTGGGTA
1 CTAATTGCA-CCAAAAAAAAGTTAGGTA
* * *
911260 CGAAATTGCATCATTAAAAAAGTTAGGTA
1 C-TAATTGCACCA-AAAAAAAGTTAGGTA
*
911289 CTAATTGCACCAGAAAAA
1 CTAATTGCACCAAAAAAA
911307 GCTGGAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
27 5 0.14
28 12 0.32
29 20 0.54
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (27 bp):
CTAATTGCACCAAAAAAAAGTTAGGTA
Found at i:911418 original size:49 final size:49
Alignment explanation
Indices: 911346--911443 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
911336 AGGTAGCAAA
911346 AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
1 AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
911395 AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
1 AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
911444 TGAGATTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (49 bp):
AGTTATATTAACCCTAATTTAATCTATACTTATGGTAAGGAGATTGTTT
Found at i:922598 original size:23 final size:23
Alignment explanation
Indices: 922572--922639 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
922562 TTCATGTTTG
* ** *
922572 TTTATTTATTGTTCGTGAACATT
1 TTTATTTAATGTTCACGAACATA
922595 TTTATTTAATGTTCACGAACATA
1 TTTATTTAATGTTCACGAACATA
* * *
922618 TTCATTTAGTGTTCACAAACAT
1 TTTATTTAATGTTCACGAACAT
922640 GTTCGTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.47
Consensus pattern (23 bp):
TTTATTTAATGTTCACGAACATA
Found at i:922648 original size:23 final size:23
Alignment explanation
Indices: 922589--922650 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
922579 ATTGTTCGTG
* * *
922589 AACATTTTTATTTAATGTTCACG
1 AACATATTCATTTAATGTTCACA
*
922612 AACATATTCATTTAGTGTTCACA
1 AACATATTCATTTAATGTTCACA
* *
922635 AACATGTTCGTTTAAT
1 AACATATTCATTTAAT
922651 ATTTATTTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (23 bp):
AACATATTCATTTAATGTTCACA
Found at i:923101 original size:41 final size:41
Alignment explanation
Indices: 923044--923126 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
923034 TAACAAATAG
923044 TTAATTGAACGCTGAGTTGATTTACACCCTTACGTTTAGGT
1 TTAATTGAACGCTGAGTTGATTTACACCCTTACGTTTAGGT
* *
923085 TTAATTGAACGTTGAGTTGATTTACTCCCTTACGTTTAGGT
1 TTAATTGAACGCTGAGTTGATTTACACCCTTACGTTTAGGT
923126 T
1 T
923127 ACCCAGAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (41 bp):
TTAATTGAACGCTGAGTTGATTTACACCCTTACGTTTAGGT
Found at i:927727 original size:29 final size:29
Alignment explanation
Indices: 927685--927740 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
927675 CAAGTTCCCC
927685 CCCCCTTTTTTTCTGCTTTGTACTCTAGA
1 CCCCCTTTTTTTCTGCTTTGTACTCTAGA
927714 CCCCCTTTTTTTCTGCTTTGTACTCTA
1 CCCCCTTTTTTTCTGCTTTGTACTCTA
927741 AAAAAGGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.09, C:0.32, G:0.09, T:0.50
Consensus pattern (29 bp):
CCCCCTTTTTTTCTGCTTTGTACTCTAGA
Found at i:929417 original size:21 final size:20
Alignment explanation
Indices: 929331--929488 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
929321 AAATGACCAA
**
929331 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
929350 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
929370 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
929390 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
929411 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
929432 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
929452 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
929473 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
929489 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:929504 original size:40 final size:40
Alignment explanation
Indices: 929455--929609 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
929445 CGATTTTCCA
* ** *
929455 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
929495 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
929535 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
929575 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
929610 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:929517 original size:20 final size:20
Alignment explanation
Indices: 929455--929608 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
929445 CGATTTTCCA
* ** *
929455 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
929475 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
929495 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
929515 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
929535 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
929555 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
929575 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
929596 AAATCGCAACGCG
1 AAATCGCAACGCG
929609 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:930030 original size:33 final size:33
Alignment explanation
Indices: 929991--930061 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
929981 TTCACTTAGA
*
929991 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
930024 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
930057 TTTCA
1 TTTCA
930062 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:930185 original size:20 final size:20
Alignment explanation
Indices: 930141--930250 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
930131 TGCAGAAGAG
*
930141 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
930162 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
930182 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
930203 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
930217 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
930236 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
930251 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:930198 original size:41 final size:38
Alignment explanation
Indices: 930134--930250 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
930124 TTCAATTTGC
* *
930134 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
930172 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
930213 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
930246 AGAAT
1 AGAAT
930251 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:930220 original size:14 final size:14
Alignment explanation
Indices: 930201--930257 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
930191 GAGAAATGAA
930201 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
930215 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
930234 AATCGCAACGAGAG
1 AATCGCAACGAGAG
930248 AATCGCAACG
1 AATCGCAACG
930258 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:930233 original size:33 final size:33
Alignment explanation
Indices: 930193--930273 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
930183 CGCAACGAGA
930193 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
930226 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
930259 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
930274 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:930291 original size:19 final size:19
Alignment explanation
Indices: 930269--930360 Score: 122
Period size: 19 Copynumber: 5.1 Consensus size: 19
930259 GAAACCAAAA
*
930269 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
930288 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
930307 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
930321 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
930340 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
930359 TC
1 TC
930361 AACCAAAAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
14 9 0.14
16 3 0.05
17 3 0.05
19 48 0.76
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:932341 original size:93 final size:93
Alignment explanation
Indices: 932057--932769 Score: 1396
Period size: 93 Copynumber: 7.7 Consensus size: 93
932047 TAGATTGCTT
*
932057 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
932122 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
932150 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCT-AACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
932214 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
932242 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
932307 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
932335 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
932400 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
932428 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
932493 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
932521 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
932586 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
932614 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
932679 TTTGTCTTTGTTTTGT-TTTT-GTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
932705 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
932770 AAGTAATGCA
Statistics
Matches: 618, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
91 71 0.11
92 96 0.16
93 451 0.73
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:932906 original size:33 final size:32
Alignment explanation
Indices: 932859--932951 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
932849 CGCGAAACCA
**
932859 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
932891 AGAATCGCAATGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
932924 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
932952 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.96
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:932949 original size:52 final size:52
Alignment explanation
Indices: 932823--932957 Score: 134
Period size: 52 Copynumber: 2.6 Consensus size: 52
932813 TAGTTTACTT
** *
932823 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAATGCGAAACCAAAATCGCAACGCGAAA
* * *
932875 T-G-AAAATCGCAACGACAGAATCGCAATGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAATGCGAAACCAAAATCGCAACG-CGAA-A
* *
932928 TCGCAACGCGAAAC-CAAAATCGCATTGCGA
1 TCGCAACACGAAACACAAAATCGCAATGCGA
932958 TTTTCATTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
50 3 0.05
51 6 0.09
52 46 0.70
53 3 0.05
54 6 0.09
55 2 0.03
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.10
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAATGCGAAACCAAAATCGCAACGCGAAA
Found at i:932957 original size:19 final size:19
Alignment explanation
Indices: 932823--932951 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
932813 TAGTTTACTT
* *
932823 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
932843 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
932862 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
932881 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
*
932895 TCGCAATGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
932914 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
932928 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
932947 TCGCA
1 TCGCA
932952 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:932969 original size:19 final size:19
Alignment explanation
Indices: 932947--933081 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
932937 GAAACCAAAA
*
932947 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
932966 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
932982 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
932999 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
933015 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
933032 TCGCGTTGCAATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
933051 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
933071 TCGTGTTGCGA
1 TCGCGTTGCGA
933082 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 44 0.47
20 12 0.13
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:932988 original size:14 final size:14
Alignment explanation
Indices: 932969--933025 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
932959 TTTCATTTCG
932969 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
932983 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
933000 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
933016 CGTTGCGATT
1 CGTTGCGATT
933026 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:932994 original size:33 final size:33
Alignment explanation
Indices: 932952--933040 Score: 160
Period size: 33 Copynumber: 2.7 Consensus size: 33
932942 CAAAATCGCA
*
932952 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
932985 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
933018 TTGCGATTTTCATTTCGCGTTGC
1 TTGCGATTTTCATTTCGCGTTGC
933041 AATTTTGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:933456 original size:19 final size:19
Alignment explanation
Indices: 933432--933616 Score: 220
Period size: 19 Copynumber: 10.5 Consensus size: 19
933422 AAGTCTCCGT
*
933432 ATTGCGATTTTAATTTCGC
1 ATTGCGATTTTCATTTCGC
*
933451 ATTGCGA--TTC-TCTCG-
1 ATTGCGATTTTCATTTCGC
933466 -TTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
933484 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
*
933503 ATTGCGA--TTC-TCTCG-
1 ATTGCGATTTTCATTTCGC
933518 -TTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
933536 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
933555 ATTGCGATTTTCATTTCCGC
1 ATTGCGATTTTCATTT-CGC
933575 ATTGCGATTTTCA--T-G-
1 ATTGCGATTTTCATTTCGC
*
933590 -TTGGGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
933608 ATTGCGATT
1 ATTGCGATT
933617 CTCTCGTTGC
Statistics
Matches: 143, Mismatches: 7, Indels: 32
0.79 0.04 0.18
Matches are distributed among these distances:
14 23 0.16
16 16 0.11
17 14 0.10
18 1 0.01
19 73 0.51
20 16 0.11
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
ATTGCGATTTTCATTTCGC
Found at i:933494 original size:52 final size:52
Alignment explanation
Indices: 933432--933630 Score: 282
Period size: 52 Copynumber: 3.8 Consensus size: 52
933422 AAGTCTCCGT
*
933432 ATTGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGC
933484 ATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGC
*
933536 ATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCA--T-G-
1 ATTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTTCGC
*
933590 -TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
933631 GTAATTTCCG
Statistics
Matches: 137, Mismatches: 4, Indels: 17
0.87 0.03 0.11
Matches are distributed among these distances:
47 8 0.06
49 2 0.01
50 2 0.01
51 3 0.02
52 77 0.56
53 24 0.18
54 3 0.02
55 3 0.02
56 3 0.02
58 12 0.09
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGC
Found at i:933638 original size:33 final size:33
Alignment explanation
Indices: 933485--933630 Score: 195
Period size: 33 Copynumber: 4.2 Consensus size: 33
933475 TCATTTCGCA
933485 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
933518 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
*
933554 CATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 --TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
933590 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
933623 TTGCGATT
1 TTGCGATT
933631 GTAATTTCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
32 1 0.01
33 47 0.47
34 14 0.14
35 3 0.03
36 6 0.06
37 3 0.03
38 15 0.15
39 10 0.10
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:936092 original size:24 final size:23
Alignment explanation
Indices: 936053--936098 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
936043 CTGAAACATC
936053 ATCAAATCCGTGTATTGACCAAT
1 ATCAAATCCGTGTATTGACCAAT
936076 ATCAAAGTCCG-GATATTGACCAA
1 ATCAAA-TCCGTG-TATTGACCAA
936099 GACCAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (23 bp):
ATCAAATCCGTGTATTGACCAAT
Found at i:936805 original size:20 final size:20
Alignment explanation
Indices: 936777--937046 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
936767 AAATTTCAGT
* * *
936777 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
936797 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
936817 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
936837 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
936857 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
936877 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
936897 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
936917 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
936937 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
936957 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
936977 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
936997 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
937017 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
937037 GTTGCGATTT
1 GTTGCGATTT
937047 TGGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:937063 original size:21 final size:21
Alignment explanation
Indices: 937033--937115 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
937023 ATTTTCATAT
*
937033 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
937054 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
937075 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
937096 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
937116 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:937106 original size:42 final size:43
Alignment explanation
Indices: 937013--937111 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
937003 ATTTATGTGT
* *
937013 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
937054 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
937096 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
937112 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:939483 original size:20 final size:19
Alignment explanation
Indices: 939425--939483 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
939415 GATTGAAGTA
*
939425 GTATCGATACTGAAGTGAAG
1 GTATCGATACTAAAGT-AAG
* *
939445 GTAACGATACCAAAGGTAAG
1 GTATCGATACTAAA-GTAAG
939465 GTATCGATACTATAAGTAA
1 GTATCGATACTA-AAGTAA
939484 AGATGAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 28 0.88
21 4 0.12
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (19 bp):
GTATCGATACTAAAGTAAG
Found at i:939971 original size:15 final size:15
Alignment explanation
Indices: 939943--940034 Score: 103
Period size: 15 Copynumber: 6.1 Consensus size: 15
939933 GTTTGTGAGT
* *
939943 ATGTTTTATATGAAA
1 ATGTTCTATGTGAAA
939958 ATGTTCTATGTGAAA
1 ATGTTCTATGTGAAA
* * *
939973 ATGTGCTAAGTTAAA
1 ATGTTCTATGTGAAA
939988 ATGTTCTATGTGAAA
1 ATGTTCTATGTGAAA
* * *
940003 ATATGCTAAGTGAAA
1 ATGTTCTATGTGAAA
*
940018 ATGTTCTATGTTAAA
1 ATGTTCTATGTGAAA
940033 AT
1 AT
940035 ACCCTATGTG
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 62 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.39
Consensus pattern (15 bp):
ATGTTCTATGTGAAA
Found at i:940016 original size:45 final size:45
Alignment explanation
Indices: 939943--940034 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
939933 GTTTGTGAGT
* * * *
939943 ATGTTTTATATGAAAATGTTCTATGTGAAAATGTGCTAAGTTAAA
1 ATGTTCTATATGAAAATATGCTAAGTGAAAATGTGCTAAGTTAAA
* * *
939988 ATGTTCTATGTGAAAATATGCTAAGTGAAAATGTTCTATGTTAAA
1 ATGTTCTATATGAAAATATGCTAAGTGAAAATGTGCTAAGTTAAA
940033 AT
1 AT
940035 ACCCTATGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.39
Consensus pattern (45 bp):
ATGTTCTATATGAAAATATGCTAAGTGAAAATGTGCTAAGTTAAA
Found at i:940042 original size:45 final size:45
Alignment explanation
Indices: 939953--940046 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
939943 ATGTTTTATA
* * * ***
939953 TGAAAATGTTCTATGTGAAAATGTGCTAAGTTAAAATGTTCTATG
1 TGAAAATATGCTAAGTGAAAATGTGCTAAGTTAAAATACCCTATG
* *
939998 TGAAAATATGCTAAGTGAAAATGTTCTATGTTAAAATACCCTATG
1 TGAAAATATGCTAAGTGAAAATGTGCTAAGTTAAAATACCCTATG
940043 TGAA
1 TGAA
940047 TGTGCTCTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (45 bp):
TGAAAATATGCTAAGTGAAAATGTGCTAAGTTAAAATACCCTATG
Found at i:940046 original size:30 final size:30
Alignment explanation
Indices: 939953--940035 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
939943 ATGTTTTATA
*
939953 TGAAAATGTTCTATGTGAAAATGTGCTAAG
1 TGAAAATGTTCTATGTGAAAATATGCTAAG
*
939983 TTAAAATGTTCTATGTGAAAATATGCTAAG
1 TGAAAATGTTCTATGTGAAAATATGCTAAG
*
940013 TGAAAATGTTCTATGTTAAAATA
1 TGAAAATGTTCTATGTGAAAATA
940036 CCCTATGTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (30 bp):
TGAAAATGTTCTATGTGAAAATATGCTAAG
Found at i:940465 original size:22 final size:22
Alignment explanation
Indices: 940426--940467 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
940416 CCATATTGCC
**
940426 CAGATGGTACCGGTACCCCCCT
1 CAGATGGTACCGACACCCCCCT
940448 CAGATGGTACCGACACCCCC
1 CAGATGGTACCGACACCCCC
940468 ATGACAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.43, G:0.21, T:0.14
Consensus pattern (22 bp):
CAGATGGTACCGACACCCCCCT
Found at i:946341 original size:23 final size:22
Alignment explanation
Indices: 946315--946368 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
946305 CTAGGTATCA
* * *
946315 ATACCCCCTTTGCATGGGTACTG
1 ATACCCCC-TTGAATGGATACCG
*
946338 ATACCATCCTTGAATGGATACCG
1 ATACC-CCCTTGAATGGATACCG
946361 ATACCCCC
1 ATACCCCC
946369 ATGAGGGTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.08
23 21 0.84
24 2 0.08
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (22 bp):
ATACCCCCTTGAATGGATACCG
Found at i:946849 original size:13 final size:13
Alignment explanation
Indices: 946824--946864 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
946814 TGAAAACTAC
946824 ACATTGATTTTCAA
1 ACATTG-TTTTCAA
*
946838 ATATTGTTTTCAA
1 ACATTGTTTTCAA
*
946851 ACATAGTTTTCAA
1 ACATTGTTTTCAA
946864 A
1 A
946865 ATTTACCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (13 bp):
ACATTGTTTTCAA
Found at i:947039 original size:20 final size:20
Alignment explanation
Indices: 947016--947055 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
947006 GACATCCTCT
947016 AGTTGTTCAAACCATCCACC
1 AGTTGTTCAAACCATCCACC
947036 AGTTGTTCAAACCATCCACC
1 AGTTGTTCAAACCATCCACC
947056 TAACCCACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.35, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTTGTTCAAACCATCCACC
Found at i:949822 original size:24 final size:24
Alignment explanation
Indices: 949790--949859 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
949780 TAACTCAACA
949790 CTACGTGGTCCTTCGGGACAAATT
1 CTACGTGGTCCTTCGGGACAAATT
*
949814 CTACGTGGTCATTC-GGACAAA-T
1 CTACGTGGTCCTTCGGGACAAATT
*
949836 CTATGTGG-CACTTCGGTG-CAAATT
1 CTACGTGGTC-CTTCGG-GACAAATT
949860 ATATGAGCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 1 0.03
22 11 0.28
23 12 0.31
24 15 0.38
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (24 bp):
CTACGTGGTCCTTCGGGACAAATT
Found at i:949843 original size:22 final size:23
Alignment explanation
Indices: 949790--949851 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
949780 TAACTCAACA
*
949790 CTACGTGGTCCTTCGGGACAAATT
1 CTACGTGGTCATTC-GGACAAATT
949814 CTACGTGGTCATTCGGACAAA-T
1 CTACGTGGTCATTCGGACAAATT
*
949836 CTATGTGG-CACTTCGG
1 CTACGTGGTCA-TTCGG
949852 TGCAAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 13 0.37
23 7 0.20
24 13 0.37
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (23 bp):
CTACGTGGTCATTCGGACAAATT
Found at i:958298 original size:15 final size:15
Alignment explanation
Indices: 958280--958309 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
958270 CCACGGTGCT
958280 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
958295 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
958310 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:961608 original size:20 final size:19
Alignment explanation
Indices: 961583--961680 Score: 117
Period size: 20 Copynumber: 5.0 Consensus size: 19
961573 AAATGACCAA
961583 CAAATTCGCAACGCGAATT
1 CAAATTCGCAACGCGAATT
*
961602 CCAAATTCGCAACGCGATAGT
1 -CAAATTCGCAACGCGA-ATT
*
961623 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCG-AATT
**
961643 CAAATTCGCAAC-TAAATTT
1 CAAATTCGCAACGCGAA-TT
961662 CAAATTCGCAACGCGAATT
1 CAAATTCGCAACGCGAATT
961681 TAATTTTGCA
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.03
19 15 0.22
20 48 0.71
21 3 0.04
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (19 bp):
CAAATTCGCAACGCGAATT
Found at i:962623 original size:24 final size:24
Alignment explanation
Indices: 962596--962649 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
962586 GTATTCGAAA
* *
962596 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGATCAATACTCAGAC
*
962620 TTTGATCTTGATCAATACTCAGAT
1 TTTGATCTTGATCAATACTCAGAC
962644 TTTGAT
1 TTTGAT
962650 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGATCAATACTCAGAC
Found at i:965289 original size:20 final size:20
Alignment explanation
Indices: 965266--965318 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
965256 AAGCGTTGCG
965266 AATTTGACTATCGCGTAGCA
1 AATTTGACTATCGCGTAGCA
* * * *
965286 AATTTTACTTTCGCGTTGCG
1 AATTTGACTATCGCGTAGCA
965306 AATTTGACTATCG
1 AATTTGACTATCG
965319 TAACGCTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (20 bp):
AATTTGACTATCGCGTAGCA
Found at i:965448 original size:25 final size:25
Alignment explanation
Indices: 965410--965459 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
965400 AAATCAATTA
*
965410 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
965435 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
965460 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:965868 original size:18 final size:18
Alignment explanation
Indices: 965847--965883 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
965837 ATAATTGGAG
965847 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
965865 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
965883 T
1 T
965884 ACAAATTTCG
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:965891 original size:24 final size:24
Alignment explanation
Indices: 965839--965887 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
965829 TTTCATATAT
* *
965839 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATTAC
*
965863 AATTTGAGTTTGAATTTCAA-TAC
1 AATTTGAGTTTGAATTTAAATTAC
965886 AA
1 AA
965888 ATTTCGGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATTAC
Found at i:966196 original size:39 final size:39
Alignment explanation
Indices: 966153--966239 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
966143 TTCGATGCTC
*
966153 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
*
966192 ATCAAAATCCAAATCTCATATGGTGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
966231 ATCAAAATC
1 ATCAAAATC
966240 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):
ATCAAAATCCAAAGCTCATATGGTGCCAAACAAAAGGAA
Found at i:966536 original size:20 final size:20
Alignment explanation
Indices: 966511--966548 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
966501 GCAAAGCTTA
*
966511 TTTCGCGTTGTGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
966531 TTTCGCGTTGCGAATTTG
1 TTTCGCGTTGCGAATTTG
966549 TACCTTCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.16, G:0.26, T:0.45
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:968216 original size:42 final size:42
Alignment explanation
Indices: 968120--968219 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
968110 GGCGGGACCA
* * ** * *
968120 CTTGAATGATGACAGTGGCCTCTTGAACGGTAGGAGGGGCTT
1 CTTGAATGATGATAGGGGCCTCTTGAACAATAGGAGGCGCCT
968162 CTTCG-ATGATGATAGGGGCCTCTTGAACAATAGGAGGCGCCT
1 CTT-GAATGATGATAGGGGCCTCTTGAACAATAGGAGGCGCCT
968204 CTTGAATGATGATAGG
1 CTTGAATGATGATAGG
968220 TGCATCAGTC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 48 0.96
43 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (42 bp):
CTTGAATGATGATAGGGGCCTCTTGAACAATAGGAGGCGCCT
Found at i:970474 original size:13 final size:13
Alignment explanation
Indices: 970456--970487 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
970446 GGGTTTCTTC
970456 AACAAAAAGACAA
1 AACAAAAAGACAA
970469 AACAAAAAGACAA
1 AACAAAAAGACAA
*
970482 AGCAAA
1 AACAAA
970488 GACAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.16, G:0.09, T:0.00
Consensus pattern (13 bp):
AACAAAAAGACAA
Found at i:970729 original size:22 final size:22
Alignment explanation
Indices: 970701--970748 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
970691 GATGGAGATA
970701 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
* *
970723 GACGGATTTTGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
970745 GACG
1 GACG
970749 AATGTCGCCG
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:0.21, C:0.12, G:0.44, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:970904 original size:20 final size:20
Alignment explanation
Indices: 970879--970963 Score: 125
Period size: 20 Copynumber: 4.2 Consensus size: 20
970869 GCGTAAAAAC
* *
970879 ATTTGACTTTTGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
970899 ATTTGACTATCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
* *
970919 ATTTGATTATCGCGTTGAGA
1 ATTTGACTATCGCGTTGCGA
*
970939 ATTTGACTACCGCGTTGCGA
1 ATTTGACTATCGCGTTGCGA
970959 ATTTG
1 ATTTG
970964 GAATATCGCA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (20 bp):
ATTTGACTATCGCGTTGCGA
Found at i:970924 original size:40 final size:40
Alignment explanation
Indices: 970890--970972 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 40
970880 TTTGACTTTT
* *
970890 GCGTTGCGAATTTGACTATCGCGTTGCGAATTTGATTATC
1 GCGTTGAGAATTTGACTACCGCGTTGCGAATTTGATTATC
*
970930 GCGTTGAGAATTTGACTACCGCGTTGCGAATTTGGAATATC
1 GCGTTGAGAATTTGACTACCGCGTTGCGAATTT-GATTATC
970971 GC
1 GC
970973 AACGCGAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 31 0.79
41 8 0.21
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (40 bp):
GCGTTGAGAATTTGACTACCGCGTTGCGAATTTGATTATC
Found at i:970981 original size:21 final size:21
Alignment explanation
Indices: 970955--971000 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
970945 CTACCGCGTT
*
970955 GCGAATTTGGAATATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
970976 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
970997 GCGA
1 GCGA
971001 TTTTACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.20
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:977357 original size:32 final size:32
Alignment explanation
Indices: 977321--977402 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
977311 ATAATATAAT
977321 ATATATCACATCAATATTTT-AAGTAACATATC
1 ATATATCACATCAATATTTTGAA-TAACATATC
* * *
977353 ATATATCACAT-TATCATTTTGAATAATATATT
1 ATATATCACATCAAT-ATTTTGAATAACATATC
* *
977385 ATATATCAAATCATTATT
1 ATATATCACATCAATATT
977403 ATAGGTATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
31 2 0.05
32 36 0.88
33 3 0.07
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (32 bp):
ATATATCACATCAATATTTTGAATAACATATC
Found at i:980835 original size:40 final size:42
Alignment explanation
Indices: 980778--980890 Score: 178
Period size: 42 Copynumber: 2.8 Consensus size: 42
980768 CCCGAAATCT
* *
980778 CGTG-TTGTTTCATGTAATTCGTTTT-CGGAAAATGTTTT-C
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
*
980817 CGTGTTTGTTTCAGGTAATTCGTTTTCCGGAAAATATTTTCC
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
980859 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 CGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
980891 TGTAATTCAT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 4 0.06
40 20 0.29
41 12 0.18
42 32 0.47
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (42 bp):
CGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATATTTTCC
Found at i:981064 original size:26 final size:24
Alignment explanation
Indices: 980960--981093 Score: 87
Period size: 25 Copynumber: 5.4 Consensus size: 24
980950 CAAAACAAAA
*
980960 ATAAAATAAATTTATTTTAATATTA-
1 ATAAAATATATTTA--TTAATATTAT
* *
980985 ATAAAATAT-TTTAAT-ATCATTTTT
1 ATAAAATATATTTATTAAT-A-TTAT
* *
981009 ATCAAAATATTAATTATTAA-AATAT
1 AT-AAAATA-TATTTATTAATATTAT
*
981034 TTAAAATATATTTATTAATATTTAT
1 ATAAAATATATTTATTAATA-TTAT
* *
981059 AATAAATATATTTTTTTTAATATTAT
1 -ATAAA-ATATATTTATTAATATTAT
981085 ATAAAATAT
1 ATAAAATAT
981094 TATATTATAA
Statistics
Matches: 85, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
21 2 0.02
22 2 0.02
23 11 0.13
24 17 0.20
25 25 0.29
26 10 0.12
27 17 0.20
28 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (24 bp):
ATAAAATATATTTATTAATATTAT
Found at i:981070 original size:21 final size:21
Alignment explanation
Indices: 981029--981070 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
981019 TAATTATTAA
* *
981029 AATATTTAAAATATATTTATT
1 AATATTTAAAATAAATATATT
*
981050 AATATTTATAATAAATATATT
1 AATATTTAAAATAAATATATT
981071 TTTTTTAATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTAAAATAAATATATT
Found at i:981071 original size:25 final size:24
Alignment explanation
Indices: 981037--981119 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 24
981027 AAAATATTTA
981037 AAATATATTTATTAATATTTATAAT
1 AAATATATTTATTAATA-TTATAAT
*
981062 AAATATATTTTTTTTAATATTAT-AT
1 AAATATA--TTTATTAATATTATAAT
981087 AAA-ATATTATATT-ATA--ATAAT
1 AAATATATT-TATTAATATTATAAT
981108 -AATATATTTATT
1 AAATATATTTATT
981120 TTAAAATATA
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
20 8 0.16
21 7 0.14
22 5 0.10
23 3 0.06
24 3 0.06
25 12 0.24
26 4 0.08
27 9 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
AAATATATTTATTAATATTATAAT
Found at i:981090 original size:51 final size:48
Alignment explanation
Indices: 980963--981167 Score: 160
Period size: 49 Copynumber: 4.2 Consensus size: 48
980953 AACAAAAATA
* * * *
980963 AAATAAATTTATTTTAATAT-TAATAAAATATTTTAATATCATTT-TTAT
1 AAATATATTTATTTTAAAATAT-ATAAAATATTTTATTAT-ATTTATAAT
* *
981011 CAAA-ATATTAATTATTAAAATATTTAAAATATATTTATTAATATTTATAAT
1 -AAATATATTTATT-TTAAAATATATAAAATAT-TTTATT-ATATTTATAAT
* * *
981062 AAATATATTTTTTTTAATATTATATAAAATATTATATTATA---ATAAT
1 AAATATATTTATTTTAA-AATATATAAAATATTTTATTATATTTATAAT
981108 -AATATATTTATTTTAAAATATAT-AAAT-TTTT-TTATATTTAATAAT
1 AAATATATTTATTTTAAAATATATAAAATATTTTATTATATTT-ATAAT
981153 GAATAATATATTTAT
1 --A-AATATATTTAT
981168 ATATTAAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 30
0.74 0.08 0.18
Matches are distributed among these distances:
41 5 0.04
42 3 0.02
43 4 0.03
44 6 0.05
45 20 0.16
46 5 0.04
48 7 0.06
49 31 0.24
50 22 0.17
51 24 0.19
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (48 bp):
AAATATATTTATTTTAAAATATATAAAATATTTTATTATATTTATAAT
Found at i:981098 original size:17 final size:19
Alignment explanation
Indices: 981078--981112 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
981068 ATTTTTTTTA
981078 ATATTAT-ATAA-AATATT
1 ATATTATAATAATAATATT
981095 ATATTATAATAATAATAT
1 ATATTATAATAATAATAT
981113 ATTTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTATAATAATAATATT
Found at i:981112 original size:26 final size:27
Alignment explanation
Indices: 981012--981113 Score: 87
Period size: 26 Copynumber: 4.0 Consensus size: 27
981002 CATTTTTATC
*
981012 AAAATATTA-ATTATTAA-AA-TATTT
1 AAAATATTATATTATTAATAATTATAT
*
981036 AAAATA-TAT-TTATTAATATTTATAAT
1 AAAATATTATATTATTAATAATTAT-AT
*
981062 AAATATATT-T-TTTTTAAT-ATTATAT
1 AAA-ATATTATATTATTAATAATTATAT
*
981087 AAAATATTATATTA-TAATAATAATAT
1 AAAATATTATATTATTAATAATTATAT
981113 A
1 A
981114 TTTATTTTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
23 9 0.14
24 12 0.19
25 13 0.21
26 17 0.27
27 11 0.17
28 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AAAATATTATATTATTAATAATTATAT
Found at i:981114 original size:21 final size:19
Alignment explanation
Indices: 981085--981131 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
981075 TTAATATTAT
*
981085 ATAAAATATTATATTATAATA
1 ATAATATATT-TATTATAA-A
*
981106 ATAATATATTTATTTTAAA
1 ATAATATATTTATTATAAA
981125 AT-ATATA
1 ATAATATA
981132 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 3 0.12
20 7 0.29
21 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAATATATTTATTATAAA
Found at i:981114 original size:45 final size:47
Alignment explanation
Indices: 981046--981167 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 47
981036 AAAATATATT
* *
981046 TATTAATATTT-ATAAT-A-AATATATTTTTTTTAATATTATATAAA-A
1 TATT-ATATTTAATAATAATAATATATTTATTTTAA-AATATATAAATA
*
981091 TATTATA-TT-ATAATAATAATATATTTATTTTAAAATATATAAATTT
1 TATTATATTTAATAATAATAATATATTTATTTTAAAATATATAAA-TA
*
981137 TTTTATATTTAATAATGAATAATATATTTAT
1 TATTATATTTAATAAT-AATAATATATTTAT
981168 ATATTAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
43 7 0.11
44 13 0.20
45 19 0.29
46 6 0.09
47 2 0.03
48 5 0.08
49 14 0.21
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (47 bp):
TATTATATTTAATAATAATAATATATTTATTTTAAAATATATAAATA
Found at i:981132 original size:26 final size:26
Alignment explanation
Indices: 981015--981132 Score: 76
Period size: 23 Copynumber: 4.8 Consensus size: 26
981005 TTTTATCAAA
* *
981015 ATATTAATTATTAAAATATTTAA-AAT
1 ATATTTATT-TTAAAATATATAATAAT
* *
981041 ATATTTA--TTAATATTTATAATAAAT
1 ATATTTATTTTAAAATATATAAT-AAT
* * *
981066 ATATTTTTTTTAATAT-TAT-ATAAA
1 ATATTTATTTTAAAATATATAATAAT
*
981090 ATA-TTATATT---ATA-ATAATAAT
1 ATATTTATTTTAAAATATATAATAAT
981111 ATATTTATTTTAAAATATATAA
1 ATATTTATTTTAAAATATATAA
981133 ATTTTTTTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
20 4 0.06
21 7 0.10
22 6 0.08
23 15 0.21
24 5 0.07
25 14 0.20
26 13 0.18
27 7 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATATTTATTTTAAAATATATAATAAT
Found at i:981158 original size:49 final size:45
Alignment explanation
Indices: 981057--981181 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 45
981047 ATTAATATTT
* *
981057 ATAATAAATATATTTTTTTTAATATTATATAAAATATTATATTATA
1 ATAAT-AATATATTTATTTTAATAATATATAAAATATTATATTATA
* *
981103 ATAATAATATATTTATTTTAA-AATATATAAATTTTTTTATATTTAATA
1 ATAATAATATATTTATTTTAATAATATATAAA--ATATTATA-TT-ATA
981151 ATGAATAATATATTTATATATTAAATAATAT
1 AT-AATAATATATTTAT-T-TT-AATAATAT
981182 TTTCGTAAAG
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
44 9 0.14
45 15 0.23
46 11 0.17
47 2 0.03
48 5 0.08
49 14 0.21
50 1 0.02
51 2 0.03
52 2 0.03
53 5 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (45 bp):
ATAATAATATATTTATTTTAATAATATATAAAATATTATATTATA
Found at i:981177 original size:27 final size:25
Alignment explanation
Indices: 981038--981180 Score: 85
Period size: 22 Copynumber: 5.9 Consensus size: 25
981028 AAATATTTAA
*
981038 AATATATTTATTAATATTTATAAT-A-
1 AATATATTTA-T-ATATTAATAATAAT
* *
981063 AATATATTT-T-TTTTAATATTATAT
1 AATATATTTATATATTAATAATA-AT
*
981087 AA-A-ATAT-TATATT-ATAATAAT
1 AATATATTTATATATTAATAATAAT
981108 AATATATTTAT-T-TTAA-AATATAT
1 AATATATTTATATATTAATAATA-AT
* *
981131 AA-ATTTTTTTATATTTAATAATGAAT
1 AATATATTTATATA-TTAATAAT-AAT
981157 AATATATTTATATATTAAATAATA
1 AATATATTTATATATT-AATAATA
981181 TTTTCGTAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 31
0.68 0.08 0.23
Matches are distributed among these distances:
21 11 0.12
22 22 0.24
23 16 0.18
24 3 0.03
25 13 0.14
26 10 0.11
27 16 0.18
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.52
Consensus pattern (25 bp):
AATATATTTATATATTAATAATAAT
Found at i:981179 original size:20 final size:19
Alignment explanation
Indices: 981140--981181 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
981130 TAAATTTTTT
*
981140 TATATTTAATAATGAATAA
1 TATATTTAATAATAAATAA
*
981159 TATATTTATATATTAAATAA
1 TATATTTA-ATAATAAATAA
981179 TAT
1 TAT
981182 TTTCGTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TATATTTAATAATAAATAA
Found at i:981213 original size:16 final size:17
Alignment explanation
Indices: 981195--981228 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
981185 CGTAAAGATA
*
981195 TTTAAAATATACTATATT
1 TTTAAAATATAATATA-T
981213 TTTAAAATATAATATA
1 TTTAAAATATAATATA
981229 ACACTATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAAATATAATATAT
Found at i:983719 original size:16 final size:16
Alignment explanation
Indices: 983698--983762 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
983688 TAATAAATAA
983698 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
983714 ACGAACATAAGCGAAT
1 ACGAACATAAACGAAC
*
983730 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
983746 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
983762 A
1 A
983763 TAAACGTTGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.55, C:0.22, G:0.14, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:984828 original size:14 final size:14
Alignment explanation
Indices: 984811--984855 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
984801 GATTGGGTTA
984811 AACATAACCGAACG
1 AACATAACCGAACG
984825 AACAT-A---AACG
1 AACATAACCGAACG
984835 AACATAACCGAACG
1 AACATAACCGAACG
984849 AACATAA
1 AACATAA
984856 ACAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 9 0.33
11 1 0.04
13 1 0.04
14 16 0.59
ACGTcount: A:0.56, C:0.24, G:0.11, T:0.09
Consensus pattern (14 bp):
AACATAACCGAACG
Found at i:984843 original size:24 final size:24
Alignment explanation
Indices: 984810--984872 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
984800 AGATTGGGTT
984810 AAACATAACCGAACGAACATAAAC
1 AAACATAACCGAACGAACATAAAC
*
984834 GAACATAACCGAACGAACATAAAC
1 AAACATAACCGAACGAACATAAAC
984858 AAACATAACCGAACG
1 AAACATAACCGAACG
984873 TTCACGAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.56, C:0.25, G:0.11, T:0.08
Consensus pattern (24 bp):
AAACATAACCGAACGAACATAAAC
Found at i:986209 original size:21 final size:20
Alignment explanation
Indices: 986185--986226 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
986175 ATATAAAAAA
*
986185 TTATTTTTTATTAAATATTTT
1 TTATATTTTATTAAAT-TTTT
*
986206 TTATATTTTATTTAATTTTT
1 TTATATTTTATTAAATTTTT
986226 T
1 T
986227 AAATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATATTTTATTAAATTTTT
Found at i:989459 original size:2 final size:2
Alignment explanation
Indices: 989454--989485 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
989444 TTAATCATTA
989454 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
989486 ATTACTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Done.