Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009141.1 Hibiscus syriacus cultivar Beakdansim tig00112649_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: 919200
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:609219 original size:33 final size:33
Alignment explanation
Indices: 609177--609303 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
609167 ATCGCAACCT
609177 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
609210 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
609242 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
609276 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
609304 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:609253 original size:66 final size:66
Alignment explanation
Indices: 609178--609310 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
609168 TCGCAACCTA
*
609178 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
609243 T
66 T
*
609244 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
609309 T
66 T
609310 T
1 T
609311 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:609485 original size:14 final size:14
Alignment explanation
Indices: 609466--609502 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
609456 CATCAATTAA
609466 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
609480 ACAAATCACCTTTT
1 ACAAATCAACTTTT
609494 ACAAATCAA
1 ACAAATCAA
609503 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:610940 original size:42 final size:41
Alignment explanation
Indices: 610855--610977 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
610845 GTGAATCGGG
* * * *
610855 CTCTTGAATGGTGGGA-GGGACCTCTGCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTCT-CGAGGATGACAGGGGC
*
610897 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
610939 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
610978 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 3 0.04
42 58 0.87
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:613006 original size:20 final size:19
Alignment explanation
Indices: 612975--613115 Score: 104
Period size: 19 Copynumber: 7.8 Consensus size: 19
612965 TCTTTTGGTT
612975 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
612994 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
613015 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
613034 G--A-G--AATCGCAACGT
1 GAAATGAAAATCGCAACGA
** *
613048 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
613067 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
613081 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
613100 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
613116 TGGGATTTTT
Statistics
Matches: 97, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 19 0.20
16 4 0.04
17 4 0.04
19 39 0.40
20 29 0.30
21 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:613057 original size:33 final size:33
Alignment explanation
Indices: 613000--613098 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
612990 ACGAGATAAT
613000 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
* *
613034 GAGAATCGCAACGTGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
613067 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
613099 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 46 0.78
34 13 0.22
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:613143 original size:19 final size:19
Alignment explanation
Indices: 613121--613182 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
613111 CGCAATGGGA
*
613121 TTTTTGTTTCGCGTTGCGT
1 TTTTTATTTCGCGTTGCGT
*
613140 TTTTTATTTCGCGTTGCGA
1 TTTTTATTTCGCGTTGCGT
**
613159 TAGTTATTTCCGCGTTGCGAT
1 TTTTTATTT-CGCGTTGCG-T
613180 TTT
1 TTT
613183 CATTCTCGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 24 0.71
20 9 0.26
21 1 0.03
ACGTcount: A:0.08, C:0.16, G:0.23, T:0.53
Consensus pattern (19 bp):
TTTTTATTTCGCGTTGCGT
Found at i:613751 original size:20 final size:20
Alignment explanation
Indices: 613703--613755 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
613693 GCGCTATGTA
*
613703 AATCGCGTTACGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
613723 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
613743 TATCTCGTTGCGA
1 AATCGCGTTGCGA
613756 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:613805 original size:24 final size:20
Alignment explanation
Indices: 613764--613837 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
613754 GATTTTGTAT
* *
613764 TATCGCATTGTGATAGTAAG
1 TATCACATTGCGATAGTAAG
613784 TATCACATTGCGATAGTAAG
1 TATCACATTGCGATAGTAAG
*
613804 TATCACATTGCGATAGTCAG
1 TATCACATTGCGATAGTAAG
*
613824 TATCGCATTGCGAT
1 TATCACATTGCGAT
613838 TTTTCCAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (20 bp):
TATCACATTGCGATAGTAAG
Found at i:617195 original size:15 final size:15
Alignment explanation
Indices: 617177--617210 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
617167 ATTTATTTAT
617177 GATTCTATTATTCCA
1 GATTCTATTATTCCA
617192 GATTCTATTATTCCA
1 GATTCTATTATTCCA
617207 GATT
1 GATT
617211 TAATCACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (15 bp):
GATTCTATTATTCCA
Found at i:620078 original size:218 final size:219
Alignment explanation
Indices: 619713--620131 Score: 641
Period size: 218 Copynumber: 1.9 Consensus size: 219
619703 GCACTGAAGT
* * * *
619713 CTTATGGATGGCCCAAAGGACTTACAAATCAAGAAACTCCCGAAGGCTTAGTTTCTTTGTTGTCA
1 CTTATAGATGACCCAAAGGACTTAAAAATCAAGAAACTCCCGAAGGCTTAGTTTCTTAGTTGTCA
* * * *
619778 AGGAACCCCTTTGTAAGGCTTATCTTCCTTTAACAACCCTTTTGAGATATTTAAGAAACCCTCGA
66 AGGAACCCATTTGTAAGGCTTAGCTTCCTTTAACAACCCTTTTGAGATAATTAAGAAACCCCCGA
619843 AGGCTTAGTTTCTAAAATCTCATTTGAAAACA-TCTTG-TACTGAAGGTCTTATGGATGGCCTGA
131 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATTC-TGCT-CTGAAGGTCTTATGGATGGCCTGA
*
619906 AGGACTTAAACATCATCCTTGAAAAA
194 ACGACTTAAACATCATCCTTGAAAAA
* *
619932 CTTATAGATGACCCGAAGGATTTAAAAATCAAGAAAC-CCCTGAAGGCTTAGTTTCTTAGTTGTC
1 CTTATAGATGACCCAAAGGACTTAAAAATCAAGAAACTCCC-GAAGGCTTAGTTTCTTAGTTGTC
* * *
619996 AAGGAA-CCATTTGTTAGGCTTAGCTTTCTTTAACAACTCTTTTGAGATAATT-AGTAAACCCCC
65 AAGGAACCCATTTGTAAGGCTTAGCTTCCTTTAACAACCCTTTTGAGATAATTAAG-AAACCCCC
620059 GAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATTCTGCTCTGAAGGTCTTATGGATGGCCTGA
129 GAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATTCTGCTCTGAAGGTCTTATGGATGGCCTGA
620124 ACGACTTA
194 ACGACTTA
620132 TAAATCAAGA
Statistics
Matches: 182, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
217 2 0.01
218 117 0.64
219 63 0.35
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (219 bp):
CTTATAGATGACCCAAAGGACTTAAAAATCAAGAAACTCCCGAAGGCTTAGTTTCTTAGTTGTCA
AGGAACCCATTTGTAAGGCTTAGCTTCCTTTAACAACCCTTTTGAGATAATTAAGAAACCCCCGA
AGGCTTAGTTTCTAAAATCTCATTTGAAAACATTCTGCTCTGAAGGTCTTATGGATGGCCTGAAC
GACTTAAACATCATCCTTGAAAAA
Found at i:620176 original size:174 final size:175
Alignment explanation
Indices: 619932--621014 Score: 971
Period size: 174 Copynumber: 6.2 Consensus size: 175
619922 CCTTGAAAAA
* * * * * *
619932 CTTATAGATGACCCGAAGGATTTAAAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAGTTGTCA
1 CTTATGGATGGCCTGAAGGACTTATAAATCAAGAAACCCC-GAAGGCTTAGTTTCTTAGTTGTTA
* *
619997 AGGAA-CCATTTGTTAGGCTTAGCTTTCTTTAACAACTCTTTTGAGATAATTAGTAAACCCCCGA
65 AGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG-AAACCCCCGA
* *
620061 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATTCTGCTCTGAAGGT
129 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
* *
620108 CTTATGGATGGCCTGAACGACTTATAAATCAAGAAACCCCGAAGTCTTAG-TTCTTAGTTGTTAA
1 CTTATGGATGGCCTGAAGGACTTATAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGTTGTTAA
* * *
620172 GGAACCCTTTTGTTAGGATTAGCTTCCTTTAACAACACTTTTGAGATAATTAGAAAACCCCC-AA
66 GGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG-AAACCCCCGAA
*
620236 TGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
130 GGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
* * * * * * ** * *
620282 CTTATAGATGACCCGAAGGACTTAAAAATAAAGAAACCCTCGAATGCTTAGTTT-TTAAAATCTC
1 CTTATGGATGGCCTGAAGGACTTATAAATCAAGAAACCC-CGAAGGCTTAGTTTCTT-AGTTGTT
** ** * * * * * ** ** * *
620346 ATTTGAAAACATCATGCACTAAAGGTCTTATGGATGGCC-CGAAGGA--C--TT-A-AAAATCAA
64 A-AGGAACCCCT-TTG---T-TAGG-CTTA--GCT-TCCTTTAACAACTCTTTTGAGATAAT-TA
* * ** * * * ** *
620404 GAAA-CCCTGAAGG-TGTAGTTTCTTAGTTGTCA--AG-GAAC--CC--CTTTGTTAGG-
118 GAAACCCCCGAAGGCT-TAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTG-AAGGT
* * * ** * * *
620454 CTTA--GCT-TCCTTTAACAATTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTCTTA
1 CTTATGGATGGCC-TGAAGGA--CTTAT-AAATCA--AG-AAA-CCCCGAAGGCTTAGTTTCTTA
* *
620516 GTTGTTAAGGAATCCCTTTGTTAGGCTTAGCTTTCTTTAACAACTCTTTTGAGATAATTAGGAAA
58 GTTGTTAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTA-GAAA
* *
620581 -CCCCGAAGGCTTAGTTTTTAAAAT-TCATTTGAAAACATCCTGCACTGAATGT
122 CCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
* *
620633 CTTATAGATGG-CTCGAAGGACTTATAAATCAAGAAACCCCAAAGGCTTAGTTTCTTAGTTGTTA
1 CTTATGGATGGCCT-GAAGGACTTATAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGTTGTTA
*
620697 AGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGGAACCCTCCGA
65 AGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGAAACCC-CCGA
*
620762 AGGCTTAGTTTCTAAAATCTCATTTGAAAATATCCTGCACTGAAGGT
129 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
620809 CTTATGGATGGGCC-GAAGGACTTATAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTT
1 CTTATGGAT-GGCCTGAAGGACTTATAAATCAAGAAA-CCCCGAAGGCTTAGTTTCTTAGTTGTT
* * * * * *
620873 AACGAATCCCTTTGTTAAGCTTAACTTCCTTTAAAAACTCTTTTGAGATAATTAGGAAACCCCTG
64 AAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTA-GAAACCCCCG
** *
620938 AATACTTAGTTTCTAAAATCTCATTTGAAAATATCCTGCACTGAAGGT
128 AAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
* * *
620986 CTTATGGATAGCCCGAAGGACTTACAAAT
1 CTTATGGATGGCCTGAAGGACTTATAAAT
621015 TTGGGAAATA
Statistics
Matches: 727, Mismatches: 124, Indels: 111
0.76 0.13 0.12
Matches are distributed among these distances:
166 1 0.00
167 5 0.01
169 7 0.01
170 8 0.01
171 3 0.00
172 15 0.02
173 36 0.05
174 181 0.25
175 106 0.15
176 124 0.17
177 161 0.22
178 19 0.03
179 34 0.05
180 4 0.01
181 9 0.01
182 3 0.00
183 4 0.01
185 5 0.01
186 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (175 bp):
CTTATGGATGGCCTGAAGGACTTATAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGTTGTTAA
GGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGAAACCCCCGAAG
GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
Found at i:620376 original size:90 final size:90
Alignment explanation
Indices: 620226--620411 Score: 302
Period size: 90 Copynumber: 2.1 Consensus size: 90
620216 GATAATTAGA
* *
620226 AAACCC-CCAATGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATAGA
1 AAACCCTCCAATGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTAAAGGTCTTATAGA
620290 TGACCCGAAGGACTTAAAAATAAAG
66 TGACCCGAAGGACTTAAAAATAAAG
* * *
620315 AAACCCTCGAATGCTTAGTTTTTAAAATCTCATTTGAAAACATCATGCACTAAAGGTCTTATGGA
1 AAACCCTCCAATGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTAAAGGTCTTATAGA
* *
620380 TGGCCCGAAGGACTTAAAAATCAAG
66 TGACCCGAAGGACTTAAAAATAAAG
620405 AAACCCT
1 AAACCCT
620412 GAAGGTGTAG
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 6 0.07
90 83 0.93
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (90 bp):
AAACCCTCCAATGCTTAGTTTCTAAAATCTCATTTGAAAACATCATGCACTAAAGGTCTTATAGA
TGACCCGAAGGACTTAAAAATAAAG
Found at i:620558 original size:87 final size:86
Alignment explanation
Indices: 620404--620597 Score: 309
Period size: 87 Copynumber: 2.2 Consensus size: 86
620394 TAAAAATCAA
*
620404 GAAACCCTGAAGG-TGTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTA
1 GAAACCCCGAAGGCT-TAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTA
*
620468 ACAATTCTTTTGAGATAATTAG
65 ACAACTCTTTTGAGATAATTAG
* * * *
620490 TAAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAAGGAATCCCTTTGTTAGGCTTAGCTTTCTTTA
1 GAAA-CCCCGAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTA
620555 ACAACTCTTTTGAGATAATTAG
65 ACAACTCTTTTGAGATAATTAG
620577 GAAACCCCGAAGGCTTAGTTT
1 GAAACCCCGAAGGCTTAGTTT
620598 TTAAAATTCA
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
86 20 0.20
87 78 0.79
88 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (86 bp):
GAAACCCCGAAGGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAA
CAACTCTTTTGAGATAATTAG
Found at i:620702 original size:261 final size:260
Alignment explanation
Indices: 619963--620774 Score: 975
Period size: 261 Copynumber: 3.1 Consensus size: 260
619953 TTAAAAATCA
* * *
619963 AGAAACCCCTGAAGGCTTAGTTTCTTAGTTGTCAAGGAA-CCATTTGTTAGGCTTAGCTTTCTTT
1 AGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAAGGAATCCCTTTGTTAGGCTTAGCTTTCTTT
* *
620027 AACAACTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTCTAAAATCTCATTTGAAAAC
66 AACAACTCTTTTGAGATAATTAGGAAA-CCCCGAAGGCTTAGTTTTTAAAATCTCATTTGAAAAC
* * * *
620092 ATTCTGCTCTGAAGGTCTTATGGATGGCCTGAACGACTTATAAATCAAGAAACCCCGAAGTCTTA
130 ATCCTGCACTGAAGGTCTTATGGATGGCC-GAAGGACTTATAAATCAAGAAACCCCGAAGGCTTA
* * *
620157 G-TTCTTAGTTGTTAAGGAACCCTTTTGTTAGGATTAGCTTCCTTTAACAACACTTTTGAGATAA
194 GTTTCTTAGTTGTTAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAA
620221 TT
259 TT
* * * * * ** *
620223 AGAAAACCCCC-AATGCTTAGTTTCTAAAATCTCATTTGAA-AACATCCTGCACTG-AAGGTCTT
1 AG-AAACCCCCGAAGGCTTAGTTTCT-TAGT-T--GTT-AAGGA-ATCC--CTTTGTTAGG-C-T
* ** *** ** * * * *
620285 ATAGATGACCCGAAGGA--C--TT-A-AAAATAAAGAAACCCTCGAATGCTTAGTTTTTAAAATC
55 -TAGCTTTCTTTAACAACTCTTTTGAGATAATTAGGAAACCC-CGAAGGCTTAGTTTTTAAAATC
* * *
620344 TCATTTGAAAACATCATGCACTAAAGGTCTTATGGATGGCCCGAAGGACTTAAAAATCAAGAAAC
118 TCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGG-CCGAAGGACTTATAAATCAAGAAAC
* * *
620409 CCTGAAGG-TGTAGTTTCTTAGTTGTCAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAAT
182 CCCGAAGGCT-TAGTTTCTTAGTTGTTAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAAC
620473 TCTTTTGAGATAATT
246 TCTTTTGAGATAATT
620488 AGTAAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAAGGAATCCCTTTGTTAGGCTTAGCTTTCTT
1 AG-AAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAAGGAATCCCTTTGTTAGGCTTAGCTTTCTT
620553 TAACAACTCTTTTGAGATAATTAGGAAACCCCGAAGGCTTAGTTTTTAAAAT-TCATTTGAAAAC
65 TAACAACTCTTTTGAGATAATTAGGAAACCCCGAAGGCTTAGTTTTTAAAATCTCATTTGAAAAC
* * *
620617 ATCCTGCACTGAATGTCTTATAGATGGCTCGAAGGACTTATAAATCAAGAAACCCCAAAGGCTTA
130 ATCCTGCACTGAAGGTCTTATGGATGGC-CGAAGGACTTATAAATCAAGAAACCCCGAAGGCTTA
620682 GTTTCTTAGTTGTTAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAA
194 GTTTCTTAGTTGTTAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAA
620747 TT
259 TT
*
620749 AGGAACCCTCCGAAGGCTTAGTTTCT
1 AGAAACCC-CCGAAGGCTTAGTTTCT
620775 AAAATCTCAT
Statistics
Matches: 454, Mismatches: 69, Indels: 57
0.78 0.12 0.10
Matches are distributed among these distances:
257 8 0.02
258 1 0.00
259 5 0.01
260 24 0.05
261 167 0.37
262 26 0.06
263 16 0.04
264 96 0.21
265 78 0.17
266 17 0.04
267 3 0.01
268 4 0.01
269 1 0.00
270 8 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (260 bp):
AGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAAGGAATCCCTTTGTTAGGCTTAGCTTTCTTT
AACAACTCTTTTGAGATAATTAGGAAACCCCGAAGGCTTAGTTTTTAAAATCTCATTTGAAAACA
TCCTGCACTGAAGGTCTTATGGATGGCCGAAGGACTTATAAATCAAGAAACCCCGAAGGCTTAGT
TTCTTAGTTGTTAAGGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATT
Found at i:620848 original size:351 final size:350
Alignment explanation
Indices: 619932--621014 Score: 1115
Period size: 351 Copynumber: 3.1 Consensus size: 350
619922 CCTTGAAAAA
*
619932 CTTATAGATGACCCGAAGGATTTAAAAATCAAGAAACCCCTGAAGGCTTAGTTTCTTAGTTGTCA
1 CTTATAGATGACCCGAAGGACTTAAAAATCAAGAAACCCC-GAAGGCTTAGTTTCTTAGTTGTCA
*
619997 AGGAACCATTTGTTAGGCTTAGCTTTCTTTAACAACTCTTTTGAGATAATTAGTAAACCC-CCGA
65 AGGAACCATTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAG-AAACCCTCCGA
*
620061 AGGCTTAGTTTCTAAAATCTCATTTGAAAACATTCTGCTCTGAAGGTCTTATGGATGGCCTGAAC
129 AGGCTTAGTTTCTAAAATCTCATTTGAAAA-ATCCTGCTCTGAAGGTCTTATGGATGGCCTGAAC
*
620126 GACTTATAAATCAAGAAA-CCCCGAAGTCTTAG-TTCTTAGTTGTTAAGGAA-CCCTTTTGTTAG
193 GACTTATAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAAGGAATCCC-TTTGTTAG
* * * *
620188 GATTAGCTTCCTTTAACAACACTTTTGAGATAATTAGAAAACCCCCAATGCTTAGTTTCTAAAAT
257 GCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGGAAACCCCGAATGCTTAGTTTCTAAAAT
620253 CTCATTTGAAAACATCCTGCACTGAAGGT
322 CTCATTTGAAAACATCCTGCACTGAAGGT
* * ** *
620282 CTTATAGATGACCCGAAGGACTTAAAAATAAAGAAACCCTCGAATGCTTAGTTT-TTAAAATCTC
1 CTTATAGATGACCCGAAGGACTTAAAAATCAAGAAACCC-CGAAGGCTTAGTTTCTT-AGTTGTC
* * * * * * * ** ** * *
620346 ATTTGAAAACATCATGCACTAAAGGTCTTATGGATGGCC-CGAAGGA--C--TT-A-AAAATCAA
64 A--AGGAACCAT-TTG---T-TAGG-CTTA--GCT-TCCTTTAACAACTCTTTTGAGATAAT-TA
* ** * ** * * *
620404 GAAACCCT--GAAGG-TGTAGTTTCTTAGTTGTCA----AGGAA-CC-CCTTTGTTAGG-CTTA-
117 GAAACCCTCCGAAGGCT-TAGTTTCTAAAATCTCATTTGAAAAATCCTGCTCTG-AAGGTCTTAT
* * * * * * *
620458 -GCT-TCCTTTAACAATTCTTTTGAGATAATTAGTAAACCCCCGAAGGCTTAGTTTCTTAGTTGT
180 GGATGGCC-TGAACGA--CTTAT-AAATCA--AG-AAACCCCCGAAGGCTTAGTTTCTTAGTTGT
*
620521 TAAGGAATCCCTTTGTTAGGCTTAGCTTTCTTTAACAACTCTTTTGAGATAATTAGGAAACCCCG
238 TAAGGAATCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGGAAACCCCG
* * *
620586 AAGGCTTAGTTTTTAAAAT-TCATTTGAAAACATCCTGCACTGAATGT
303 AATGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
* * * * *
620633 CTTATAGATGGCTCGAAGGACTTATAAATCAAGAAACCCCAAAGGCTTAGTTTCTTAGTTGTTAA
1 CTTATAGATGACCCGAAGGACTTAAAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGTTGTCAA
* *
620698 GGAACCCCTTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGGAACCCTCCGAA
66 GGAA-CCATTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGAAACCCTCCGAA
* *
620763 GGCTTAGTTTCTAAAATCTCATTTGAAAATATCCTGCACTGAAGGTCTTATGGATGGGCC-GAAG
130 GGCTTAGTTTCTAAAATCTCATTTGAAAA-ATCCTGCTCTGAAGGTCTTATGGAT-GGCCTGAAC
* *
620827 GACTTATAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAACGAATCCCTTTGTTAAG
193 GACTTATAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAAGGAATCCCTTTGTTAGG
* * *
620892 CTTAACTTCCTTTAAAAACTCTTTTGAGATAATTAGGAAACCCCTGAATACTTAGTTTCTAAAAT
258 CTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGGAAACCCC-GAATGCTTAGTTTCTAAAAT
*
620957 CTCATTTGAAAATATCCTGCACTGAAGGT
322 CTCATTTGAAAACATCCTGCACTGAAGGT
* *
620986 CTTATGGAT-AGCCCGAAGGACTTACAAAT
1 CTTATAGATGA-CCCGAAGGACTTAAAAAT
621015 TTGGGAAATA
Statistics
Matches: 576, Mismatches: 103, Indels: 105
0.73 0.13 0.13
Matches are distributed among these distances:
340 2 0.00
341 5 0.01
343 7 0.01
344 10 0.02
345 3 0.01
346 21 0.04
347 12 0.02
348 24 0.04
349 9 0.02
350 73 0.13
351 167 0.29
352 112 0.19
353 74 0.13
354 19 0.03
355 14 0.02
356 3 0.01
357 8 0.01
358 5 0.01
359 2 0.00
360 5 0.01
361 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (350 bp):
CTTATAGATGACCCGAAGGACTTAAAAATCAAGAAACCCCGAAGGCTTAGTTTCTTAGTTGTCAA
GGAACCATTTGTTAGGCTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAGAAACCCTCCGAAG
GCTTAGTTTCTAAAATCTCATTTGAAAAATCCTGCTCTGAAGGTCTTATGGATGGCCTGAACGAC
TTATAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAGTTGTTAAGGAATCCCTTTGTTAGGCTT
AGCTTCCTTTAACAACTCTTTTGAGATAATTAGGAAACCCCGAATGCTTAGTTTCTAAAATCTCA
TTTGAAAACATCCTGCACTGAAGGT
Found at i:624017 original size:7 final size:7
Alignment explanation
Indices: 624005--624121 Score: 97
Period size: 7 Copynumber: 16.9 Consensus size: 7
623995 CTTGATTCAA
624005 TTTCTTT
1 TTTCTTT
624012 TTTCTTTT
1 TTTC-TTT
624020 TTTCTTT
1 TTTCTTT
624027 TTTC--T
1 TTTCTTT
*
624032 TTTCTCT
1 TTTCTTT
624039 TTTC-TT
1 TTTCTTT
624045 TTTC-TT
1 TTTCTTT
624051 TTTC-TT
1 TTTCTTT
624057 TTTC-TT
1 TTTCTTT
624063 TTTCGTTCT
1 TTTC-TT-T
624072 CTTTC-TT
1 -TTTCTTT
624079 TTTCTTT
1 TTTCTTT
624086 TTTCTTT
1 TTTCTTT
624093 CTTT-TTT
1 -TTTCTTT
624100 TCATTCTTT
1 T--TTCTTT
*
624109 TCTCTTT
1 TTTCTTT
624116 TTTCTT
1 TTTCTT
624122 CTCTTTTTTT
Statistics
Matches: 95, Mismatches: 3, Indels: 24
0.78 0.02 0.20
Matches are distributed among these distances:
5 5 0.05
6 28 0.29
7 39 0.41
8 14 0.15
9 5 0.05
10 4 0.04
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (7 bp):
TTTCTTT
Found at i:624027 original size:6 final size:6
Alignment explanation
Indices: 624018--624117 Score: 93
Period size: 6 Copynumber: 16.8 Consensus size: 6
624008 CTTTTTTCTT
624018 TTTTTC TTTTT- TCTTTTC TCTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC T-TTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * * *
624067 --GTTC TCTTTC TTTTTC TTTTT- TCTTTC TTTTT- TTCATTC TTTTCTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTT-TC
624113 TTTTT
1 TTTTT
624118 TCTTCTCTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
4 3 0.04
5 7 0.09
6 53 0.67
7 16 0.20
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:624036 original size:12 final size:12
Alignment explanation
Indices: 624005--624130 Score: 84
Period size: 12 Copynumber: 10.2 Consensus size: 12
623995 CTTGATTCAA
*
624005 TTTCTTTT-TTC
1 TTTCTTTTCTTT
624016 TTT-TTTTCTTT
1 TTTCTTTTCTTT
*
624027 TTTCTTTTCTCT
1 TTTCTTTTCTTT
624039 TTTCTTTT-TCTT
1 TTTCTTTTCT-TT
624051 TTTCTTTTTCTTTT
1 TTTC-TTTTC-TTT
624065 TCGTTCTCTTTC-TT
1 T--TTCT-TTTCTTT
*
624079 TTTCTTTT-TTC
1 TTTCTTTTCTTT
624090 TTTCTTTT-TTT
1 TTTCTTTTCTTT
*
624101 CATTCTTTTCTCTTT
1 -TTTC-TTT-TCTTT
*
624116 TTTCTTCTCTTT
1 TTTCTTTTCTTT
624128 TTT
1 TTT
624131 TCTCTGATAG
Statistics
Matches: 93, Mismatches: 8, Indels: 27
0.73 0.06 0.21
Matches are distributed among these distances:
10 4 0.04
11 23 0.25
12 35 0.38
13 9 0.10
14 10 0.11
15 5 0.05
16 7 0.08
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:624083 original size:52 final size:52
Alignment explanation
Indices: 624007--624131 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 52
623997 TGATTCAATT
* *
624007 TCTTTTTTCTT-TTTTTCTTTTTTCTTTTCTCTTTTCTTTTTCTT-TTTCTTTT-
1 TCTTTTTTCTTCTCTTTC-TTTTTCTTTTCTC-TTTCTTTTT-TTCATTCTTTTC
*
624059 TC-TTTTTCGTTCTCTTTCTTTTTCTTTTTTCTTTCTTTTTTTCATTCTTTTC
1 TCTTTTTTC-TTCTCTTTCTTTTTCTTTTCTCTTTCTTTTTTTCATTCTTTTC
624111 TCTTTTTTCTTCTCTTT-TTTT
1 TCTTTTTTCTTCTCTTTCTTTT
624132 CTCTGATAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
50 2 0.03
51 26 0.40
52 26 0.40
53 11 0.17
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (52 bp):
TCTTTTTTCTTCTCTTTCTTTTTCTTTTCTCTTTCTTTTTTTCATTCTTTTC
Found at i:627853 original size:6 final size:6
Alignment explanation
Indices: 627844--627895 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
627834 TGCAAGTGCA
* * *
627844 AAAATG AAAATG -AAGTG -AAATG TAAAATA AAAATA AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG -AAAATG AAAATG AAAATG AAAATG
627891 AAAAT
1 AAAAT
627896 ATAAAAATGC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
5 8 0.20
6 28 0.70
7 4 0.10
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.19
Consensus pattern (6 bp):
AAAATG
Found at i:627901 original size:20 final size:19
Alignment explanation
Indices: 627861--627921 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
627851 AAATGAAGTG
627861 AAATGTAAAAT-AAAAATAA
1 AAATG-AAAATGAAAAATAA
627880 AAATGAAAATGAAAATATAA
1 AAATGAAAATGAAAA-ATAA
* *
627900 AAATGCAAATGCAAACATAA
1 AAATGAAAATG-AAAAATAA
627920 AA
1 AA
627922 GTACAAATGC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.14
19 9 0.24
20 20 0.54
21 3 0.08
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.18
Consensus pattern (19 bp):
AAATGAAAATGAAAAATAA
Found at i:627928 original size:20 final size:20
Alignment explanation
Indices: 627876--627934 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
627866 TAAAATAAAA
* *
627876 ATAAAAATGA-AAATGAAAAT
1 ATAAAAAT-ACAAATGCAAAC
*
627896 ATAAAAATGCAAATGCAAAC
1 ATAAAAATACAAATGCAAAC
*
627916 ATAAAAGTACAAATGCAAA
1 ATAAAAATACAAATGCAAA
627935 ATGCAAATGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.17
Consensus pattern (20 bp):
ATAAAAATACAAATGCAAAC
Found at i:632702 original size:14 final size:14
Alignment explanation
Indices: 632683--632709 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
632673 ATTGGGTTTG
632683 TAATAATAATAATT
1 TAATAATAATAATT
632697 TAATAATAATAAT
1 TAATAATAATAAT
632710 AATAAGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAATAATT
Found at i:636059 original size:2 final size:2
Alignment explanation
Indices: 636052--636088 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
636042 AAAAGAGTGT
636052 TA TA TA TA TA 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 TA T
636089 TAATATTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:643140 original size:25 final size:25
Alignment explanation
Indices: 643079--643148 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
643069 ATTCTTAAGG
*
643079 AATTTCTATGTGGTCCTTCGGGACA
1 AATTTCTATGCGGTCCTTCGGGACA
643104 AA-TTCTATGCGGTCCTTCGGGACA
1 AATTTCTATGCGGTCCTTCGGGACA
*
643128 AATTTCTACGCGG-CACTTCGG
1 AATTTCTATGCGGTC-CTTCGG
643149 TGTAAAATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 24 0.59
25 17 0.41
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (25 bp):
AATTTCTATGCGGTCCTTCGGGACA
Found at i:658602 original size:15 final size:16
Alignment explanation
Indices: 658570--658609 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
658560 ATAAGATATG
*
658570 ATATG-ATATATGATT
1 ATATGCATATGTGATT
658585 ATATGCATATGTGA-T
1 ATATGCATATGTGATT
658600 ATATGC-TATG
1 ATATGCATATG
658610 AGACATGACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 12 0.52
16 7 0.30
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (16 bp):
ATATGCATATGTGATT
Found at i:658823 original size:18 final size:18
Alignment explanation
Indices: 658796--658865 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
658786 GGGTATTGTA
*
658796 GTCCTTCGGGACGTAGTG
1 GTCCTACGGGACGTAGTG
* *
658814 GTCCTACGGGACATATATAGTA
1 GTCCTACGGGAC----GTAGTG
*
658836 GTCCTTCGGGACGTAGTG
1 GTCCTACGGGACGTAGTG
658854 GTCCTACGGGAC
1 GTCCTACGGGAC
658866 ATATATAGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
18 26 0.63
22 15 0.37
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.26
Consensus pattern (18 bp):
GTCCTACGGGACGTAGTG
Found at i:658839 original size:22 final size:22
Alignment explanation
Indices: 658809--658886 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
658799 CTTCGGGACG
*
658809 TAGTGGTCCTACGGGACATATA
1 TAGTAGTCCTACGGGACATATA
* *
658831 TAGTAGTCCTTCGGGAC----G
1 TAGTAGTCCTACGGGACATATA
*
658849 TAGTGGTCCTACGGGACATATA
1 TAGTAGTCCTACGGGACATATA
*
658871 TAGTAGTCCTTCGGGA
1 TAGTAGTCCTACGGGA
658887 TTAATGCCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
18 15 0.34
22 29 0.66
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (22 bp):
TAGTAGTCCTACGGGACATATA
Found at i:658848 original size:40 final size:40
Alignment explanation
Indices: 658793--658886 Score: 188
Period size: 40 Copynumber: 2.4 Consensus size: 40
658783 CGAGGGTATT
658793 GTAGTCCTTCGGGACGTAGTGGTCCTACGGGACATATATA
1 GTAGTCCTTCGGGACGTAGTGGTCCTACGGGACATATATA
658833 GTAGTCCTTCGGGACGTAGTGGTCCTACGGGACATATATA
1 GTAGTCCTTCGGGACGTAGTGGTCCTACGGGACATATATA
658873 GTAGTCCTTCGGGA
1 GTAGTCCTTCGGGA
658887 TTAATGCCCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (40 bp):
GTAGTCCTTCGGGACGTAGTGGTCCTACGGGACATATATA
Found at i:669514 original size:14 final size:14
Alignment explanation
Indices: 669495--669524 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
669485 GCACTCTTCA
669495 ACTTCAAACCTCCT
1 ACTTCAAACCTCCT
669509 ACTTCAAACCTCCT
1 ACTTCAAACCTCCT
669523 AC
1 AC
669525 AAACATGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.43, G:0.00, T:0.27
Consensus pattern (14 bp):
ACTTCAAACCTCCT
Found at i:671648 original size:24 final size:24
Alignment explanation
Indices: 671616--671665 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
671606 TCAAAAGTGC
* *
671616 TTGAATTATGTGCACCACTTGCAT
1 TTGAATTATGTACACCACGTGCAT
671640 TTGAATTATGTACACCACGTGCAT
1 TTGAATTATGTACACCACGTGCAT
671664 TT
1 TT
671666 AACTCTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (24 bp):
TTGAATTATGTACACCACGTGCAT
Found at i:671713 original size:39 final size:39
Alignment explanation
Indices: 671670--671756 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
671660 GCATTTAACT
* *
671670 CTTCAACATGAGTGCCATTATTATTTAATTCACATGTGC
1 CTTCAACATGAGTGCCATTATTACTTAATTCACATGCGC
* * * *
671709 CTTCAATATGAGTGGCATTATTGCTTAATTCACGTGCGC
1 CTTCAACATGAGTGCCATTATTACTTAATTCACATGCGC
671748 CTTCAACAT
1 CTTCAACAT
671757 TCTCATTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (39 bp):
CTTCAACATGAGTGCCATTATTACTTAATTCACATGCGC
Found at i:682966 original size:18 final size:18
Alignment explanation
Indices: 682921--682967 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
682911 GTAGAGAGAA
*
682921 TTTATAAAATTTTAATAT
1 TTTAAAAAATTTTAATAT
*
682939 ATTAATAAAA-TTTATATAT
1 TTTAA-AAAATTTTA-ATAT
682958 TTTAAAAAAT
1 TTTAAAAAAT
682968 ACGTACGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTAAAAAATTTTAATAT
Found at i:690719 original size:28 final size:28
Alignment explanation
Indices: 690678--690731 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
690668 CTCAACTTTG
*
690678 TATGTAGGGTTGCATCAACACTCAGCCT
1 TATGTAGGGCTGCATCAACACTCAGCCT
690706 TATGTAGGGCTGCATCAACACTCAGC
1 TATGTAGGGCTGCATCAACACTCAGC
690732 TTCGGATGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (28 bp):
TATGTAGGGCTGCATCAACACTCAGCCT
Found at i:691272 original size:42 final size:42
Alignment explanation
Indices: 691238--691329 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
691228 AGATAATTGT
* *
691238 GGCATTTCAAGCCAAAAACGTCACTAAAGATAAGAGAATTAGC
1 GGCATTT-AAGCAAAAAACGCCACTAAAGATAAGAGAATTAGC
* * *
691281 GGCGTTTAAGGAAAAAACGCCACTAAAGACAAGAGAATTAGC
1 GGCATTTAAGCAAAAAACGCCACTAAAGATAAGAGAATTAGC
*
691323 GGTATTT
1 GGCATTT
691330 GTGAACAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 36 0.86
43 6 0.14
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (42 bp):
GGCATTTAAGCAAAAAACGCCACTAAAGATAAGAGAATTAGC
Found at i:691345 original size:42 final size:41
Alignment explanation
Indices: 691251--691347 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 41
691241 ATTTCAAGCC
* * *
691251 AAAAACGTCACTAAAGATAAGAGAATTAGCGGCGTTTAAGGA
1 AAAAACGCCACTAAAGACAAGAGAATTAGCGGCATTT-AGGA
*
691293 AAAAACGCCACTAAAGACAAGAGAATTAGCGGTATTT-GTGA
1 AAAAACGCCACTAAAGACAAGAGAATTAGCGGCATTTAG-GA
*
691334 ACAAAATGCCACTA
1 A-AAAACGCCACTA
691348 TAAATCATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.02
41 3 0.06
42 44 0.92
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (41 bp):
AAAAACGCCACTAAAGACAAGAGAATTAGCGGCATTTAGGA
Found at i:692959 original size:2 final size:2
Alignment explanation
Indices: 692952--692980 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
692942 GCTCAATTCT
692952 TA 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 T
692981 TCTCTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:693304 original size:23 final size:23
Alignment explanation
Indices: 693260--693302 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
693250 ATATAAAATA
693260 ATTTAATAAATTTAATTATTTAT
1 ATTTAATAAATTTAATTATTTAT
* *
693283 ATTTAA-AATTTTCATTATTT
1 ATTTAATAAATTTAATTATTT
693303 TAATCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTAATAAATTTAATTATTTAT
Found at i:693364 original size:11 final size:13
Alignment explanation
Indices: 693345--693381 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 13
693335 CCAGAAAATA
693345 TTATATTACTTT-
1 TTATATTACTTTC
693357 TT-TATTACTTTC
1 TTATATTACTTTC
693369 TTGATATTACTTT
1 TT-ATATTACTTT
693382 GATCCGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.41
12 4 0.18
14 9 0.41
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.65
Consensus pattern (13 bp):
TTATATTACTTTC
Found at i:695657 original size:87 final size:87
Alignment explanation
Indices: 695469--695628 Score: 221
Period size: 87 Copynumber: 1.8 Consensus size: 87
695459 ACAAAATCGA
* * * * *
695469 TGAATTCATCAAATCCGTCTCACAAGAACCACCCAAATCCTGAGCTATGAACTCATTAAGTGCGT
1 TGAATTCATCAAGTCTGTCTCACTAGAACCACCCAAATCATGAGCTATGAACTCATTAAGAGCGT
695534 AAAACTCAACATCTCAAGCCAG
66 AAAACTCAACATCTCAAGCCAG
* * * * *
695556 TGAATTCATCAAGTCTGTCTCACTCGAACCACCCAAATCATGGGCTATGAATTCATTGAGAGTGT
1 TGAATTCATCAAGTCTGTCTCACTAGAACCACCCAAATCATGAGCTATGAACTCATTAAGAGCGT
*
695621 AAAGCTCA
66 AAAACTCA
695629 TTCTTTCACG
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 62 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.24
Consensus pattern (87 bp):
TGAATTCATCAAGTCTGTCTCACTAGAACCACCCAAATCATGAGCTATGAACTCATTAAGAGCGT
AAAACTCAACATCTCAAGCCAG
Found at i:695664 original size:87 final size:87
Alignment explanation
Indices: 695469--695667 Score: 213
Period size: 87 Copynumber: 2.3 Consensus size: 87
695459 ACAAAATCGA
* * * * *
695469 TGAATTCATCAAATCCGTCTCACAAGAACCACCCAAATCCTGAGCTATGAACTCATTAAGTGCGT
1 TGAATTCATCAAGTCCTTCTCACTAGAACCACCCAAATCATGAGCTATGAACTCATTAAGAGCGT
695534 AAAACTCAACATCTCAAGCCAG
66 AAAACTCAACATCTCAAGCCAG
* * * * *
695556 TGAATTCATCAAGT-CTGTCTCACTCGAACCACCCAAATCATGGGCTATGAATTCATTGAGAGTG
1 TGAATTCATCAAGTCCT-TCTCACTAGAACCACCCAAATCATGAGCTATGAACTCATTAAGAGCG
* * * * **
695620 TAAAGCTCATTC-TTTCACGTTAG
65 TAAAACTCA-ACATCTCAAGCCAG
*
695643 TGGATTCATCAAGTCCTTCTCACTA
1 TGAATTCATCAAGTCCTTCTCACTA
695668 AGACCAACCA
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
86 1 0.01
87 87 0.96
88 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (87 bp):
TGAATTCATCAAGTCCTTCTCACTAGAACCACCCAAATCATGAGCTATGAACTCATTAAGAGCGT
AAAACTCAACATCTCAAGCCAG
Found at i:701919 original size:8 final size:9
Alignment explanation
Indices: 701901--701942 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
701891 GTTAGAGGAT
701901 AAATTTATA
1 AAATTTATA
701910 AAATTT-TA
1 AAATTTATA
** *
701918 AAAAATATT
1 AAATTTATA
701927 AAATTTATA
1 AAATTTATA
701936 AAATTTA
1 AAATTTA
701943 GAAGACGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
8 6 0.23
9 20 0.77
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAATTTATA
Found at i:702007 original size:26 final size:26
Alignment explanation
Indices: 701963--702013 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
701953 CAAATAATCA
701963 ATATAAAATATAAATATTTTTAAAAT
1 ATATAAAATATAAATATTTTTAAAAT
*
701989 ATATGAAAATTTAAA-ATTTTTAAAA
1 ATAT-AAAATATAAATATTTTTAAAA
702014 GATGAATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATAAAATATAAATATTTTTAAAAT
Found at i:702373 original size:17 final size:17
Alignment explanation
Indices: 702351--702389 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
702341 ATTCAAGGTT
*
702351 AATTCAAGTTCGGATGG
1 AATTCAAGGTCGGATGG
702368 AATTC-AGGTCGGATGG
1 AATTCAAGGTCGGATGG
702384 AATTCA
1 AATTCA
702390 GATCGGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (17 bp):
AATTCAAGGTCGGATGG
Found at i:702381 original size:16 final size:16
Alignment explanation
Indices: 702360--702395 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
702350 TAATTCAAGT
*
702360 TCGGATGGAATTCAGG
1 TCGGATGGAATTCAGA
702376 TCGGATGGAATTCAGA
1 TCGGATGGAATTCAGA
702392 TCGG
1 TCGG
702396 GTCACATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (16 bp):
TCGGATGGAATTCAGA
Found at i:706091 original size:26 final size:26
Alignment explanation
Indices: 706059--706122 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
706049 TTAATCTCAA
706059 TTTTCCATTAAACAAGTGTTTTAATT
1 TTTTCCATTAAACAAGTGTTTTAATT
706085 TTTTCCATTAAACAAGTGTTTTAATT
1 TTTTCCATTAAACAAGTGTTTTAATT
706111 TTTTCCATTAAA
1 TTTTCCATTAAA
706123 TTTAAATAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (26 bp):
TTTTCCATTAAACAAGTGTTTTAATT
Found at i:706728 original size:182 final size:181
Alignment explanation
Indices: 706435--706913 Score: 658
Period size: 182 Copynumber: 2.6 Consensus size: 181
706425 CAATCCAAAT
* * * * * *
706435 TAAAAATGTATCGATCCATATCAATATAATAGGTAAAAATATAATAAAACCGGTCACTAGAA-GA
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGT-ATTA-AATGA
* * *
706499 CAATACCGGTAAAGTC-CTACCAGATATATTGAACGTGTCGATACTTTAATAT-AATGATCGACA
64 TAAAACCGGTAAAG-CGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAAT-ATCGACA
*
706562 CTTTGTGAATTTAAAAGAAAAGTAGTTTTAACGCCTATAAAGTGTCAATACTTTA
127 CTTTGTGAATTTAAAAGAAAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTA
* *
706617 TAAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTATTGAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATT-AAATGAT
** * * * *
706682 AAAATTGGTAAAGCGCTACCATATATTTTTAAAGTGTCGGTACTTTAATATAAATATCGACACTT
65 AAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAATATCGACACTT
* * * *
706747 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATATTTTA
130 TGTGAATTTAAAAGAAAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTA
* *
706799 TAAAAATGTATCGATCCACAACGATATAACAGGTAAATATATGATAAAACCGGTATCAAAATGAT
1 TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTAT-TAAATGAT
*
706864 AAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
65 AAAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATA
706914 AGTACGTGTA
Statistics
Matches: 259, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
181 5 0.02
182 251 0.97
183 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (181 bp):
TAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATTAAATGATA
AAACCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATACTTTAATATAAATATCGACACTTT
GTGAATTTAAAAGAAAAGCAGTTTTAACGCCTATAAAGTGTCAATACTTTA
Found at i:706853 original size:20 final size:18
Alignment explanation
Indices: 706839--706875 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
706829 AGGTAAATAT
706839 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGGTA--AAA
706859 ATGATAAAACCGGTAAA
1 ATGATAAAACCGGTAAA
706876 GCGCTACCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
20 15 0.88
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (18 bp):
ATGATAAAACCGGTAAAA
Found at i:709141 original size:21 final size:21
Alignment explanation
Indices: 709117--709182 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
709107 AAGATAATCA
709117 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
709138 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* * *
709159 AGAGTCAAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
709180 AGA
1 AGA
709183 CATAAGGGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.44, C:0.11, G:0.30, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:709252 original size:33 final size:33
Alignment explanation
Indices: 709215--709280 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
709205 AAATAGATGG
*
709215 AGTGGTGAAAGAAG-TAAAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAAA-GTGTTAAGGGGTGA
*
709248 AGTGGTGAAAGAAGTTGAAGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTTAAAGTGTTAAGGGGTGA
709281 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTAAAGTGTTAAGGGGTGA
Found at i:710671 original size:64 final size:66
Alignment explanation
Indices: 710513--710672 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 66
710503 AAATAAATTG
* * *
710513 AACATCGAATGCATTTCATGCATCGATGCA-CATATCATGCACCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGA
710577 A
66 A
* * * * *
710578 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGTACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGAT-TTTATG
710641 -A
65 AA
*
710642 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
710673 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 31 0.37
65 48 0.57
66 5 0.06
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (66 bp):
AACATCGAATGCATTTGATGCATCGATGCACCATACCATGCACCGATGCACTCAGGATTTTATGA
A
Found at i:710688 original size:64 final size:64
Alignment explanation
Indices: 710513--710692 Score: 190
Period size: 65 Copynumber: 2.8 Consensus size: 64
710503 AAATAAATTG
* * * *
710513 AACATCGAATGCATTTCATGCATCGATGCACATATCA-TGCACCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCAC-TCT-AGTGCACCGATGTACTCAGGATTTTATGA
710577 A
64 A
* * *
710578 AACATCGAATGCATTTGATGCATCGATGCAC-C-AGCCATGCATCGATGTACTCTGGCTATTT-T
1 AACATCGAATGCATTTGATGCATCGATGCACTCTAG---TGCACCGATGTACTCAGGAT-TTTAT
710640 G-A
62 GAA
*
710642 AACATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGTACT
1 AACATCGAATGCATTTGATGCATCGATGCACTC-TAGTGCACCGATGTACT
710693 AAGGGTTCAA
Statistics
Matches: 98, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
61 1 0.01
64 44 0.45
65 48 0.49
66 3 0.03
67 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCTAGTGCACCGATGTACTCAGGATTTTATGAA
Found at i:714509 original size:15 final size:15
Alignment explanation
Indices: 714489--714518 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
714479 GTCATCAAAG
714489 GAAGAAACGAAAGAT
1 GAAGAAACGAAAGAT
714504 GAAGAAACGAAAGAT
1 GAAGAAACGAAAGAT
714519 CCTCTCGAGA
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:0.60, C:0.07, G:0.27, T:0.07
Consensus pattern (15 bp):
GAAGAAACGAAAGAT
Found at i:716543 original size:45 final size:43
Alignment explanation
Indices: 716492--716594 Score: 125
Period size: 43 Copynumber: 2.3 Consensus size: 43
716482 CACTTAAAAG
* * ***
716492 TGCATCGATGCATCCCTTTGAATGTACATCGATTCATCATGTTGA
1 TGCATCGATGCATCCC-TTGAATGTACATCGATGCA-CAGGGACA
* *
716537 TGCATCGATGCATGCCTTGAATGTGCATCGATGCACAGGGACA
1 TGCATCGATGCATCCCTTGAATGTACATCGATGCACAGGGACA
716580 TGCATCGATGCATCC
1 TGCATCGATGCATCC
716595 GTCGGGTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
43 18 0.36
44 17 0.34
45 15 0.30
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (43 bp):
TGCATCGATGCATCCCTTGAATGTACATCGATGCACAGGGACA
Found at i:718143 original size:21 final size:21
Alignment explanation
Indices: 718101--718144 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
718091 ACCCCGGGAG
*
718101 CTAGCTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
*
718122 CTAGCTCTTCTC-ATGCTCCTC
1 CTAGCTCTTCACGA-GCTCCTC
718143 CT
1 CT
718145 CCTCCTCCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.11, C:0.41, G:0.14, T:0.34
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:719224 original size:65 final size:64
Alignment explanation
Indices: 719155--719334 Score: 213
Period size: 65 Copynumber: 2.8 Consensus size: 64
719145 AAATAAATTG
* *
719155 AACATCGAATGCATTTCATGCATCGATGCACATATTATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACATATTATGCACCGATGCACTCAGGATATTT-TG-
719219 A
64 A
* * * * *
719220 AACATCGAATGCATTTGATGCATCGATGCACCA-GTCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CATATTATGCACCGATGCACTCAGGATATTTTGA
* * *
719284 AACATCGAATGCACTTGATGCATCGCTGCAC-TCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACATATTA-TGCACCGATGCACT
719335 AAGGGTTCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
63 3 0.03
64 42 0.42
65 49 0.49
66 5 0.05
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATATTATGCACCGATGCACTCAGGATATTTTGA
Found at i:719722 original size:19 final size:19
Alignment explanation
Indices: 719695--719747 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
719685 TTTTCTTTGT
*
719695 TTTAGAATTTTGTATAAGA
1 TTTATAATTTTGTATAAGA
*
719714 TTTATAATTTTGTATATGA
1 TTTATAATTTTGTATAAGA
719733 TTTATAATTTTGTAT
1 TTTATAATTTTGTAT
719748 GTGAATGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTATAATTTTGTATAAGA
Found at i:720222 original size:200 final size:200
Alignment explanation
Indices: 719989--721146 Score: 1910
Period size: 200 Copynumber: 5.8 Consensus size: 200
719979 GTAAGCATAT
* *
719989 GTGTCGATCCATATATAAAAAGTATCGATCCCAGAAATATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * * * * * *
720054 TGTAATTTTTCAATGTAACCAGTATAAATTTACCAGTTTTATGAGATAATAGGTCTACAACATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
720119 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
720184 ATAAA
196 ATAAA
*
720189 GTGTCGATTCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * *
720254 GGTAAATTTTCAATGTAACCCGTATAAATATATCGGTTTTACGAGAGAATAGGTCTACAACATTT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
* *
720319 ATCGACACTTTTTAACTTTGTGTCGATACTTTTGGTCCAGAATAAATGCCAAAAAGGGTGCAACC
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
720384 ATAAA
196 ATAAA
*
720389 GTGTCGATCTATTTATAAAAAGTATCGATCCCAGAAACATCGAAA-CCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* *
720453 GGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTACGAGAGAATAGGTCTACAACATGT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
* * **
720518 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGATCCAGAATGAATGACAAAAAATGTGCAACC
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
720583 ATAAA
196 ATAAA
*
720588 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* *
720653 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTGTACAACATAT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
* * * *
720718 ATC-AAACCTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATGAATGCAAAAAAAGGTGCAAC
131 ATCGACA-CTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAAC
720782 CATAAA
195 CATAAA
** **
720788 GTGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATAAAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * *
720853 GGTAATTTTTCAATGTAACCGGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATAT
66 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
*
720918 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATCCCAAAAAGGGTGCAACC
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
720983 ATAAA
196 ATAAA
*
720988 GTGTCGGTCCATTTATAAAAAGTATCGAT-CCAGAAACA-CGGAAACCCATAAGTATAATGTAAT
1 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATC-GAAACCCATAAGTATAATGTAAT
* *
721051 AGGTAAATTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACAACATG
65 AGGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATG
721116 TATCGACACTTTTTAATTTTGTGTCGATACT
130 TATCGACACTTTTTAATTTTGTGTCGATACT
721147 AATTTAAATA
Statistics
Matches: 896, Mismatches: 58, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
199 312 0.35
200 582 0.65
201 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (200 bp):
GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAACATGT
ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
ATAAA
Found at i:720706 original size:399 final size:400
Alignment explanation
Indices: 719989--721146 Score: 1955
Period size: 399 Copynumber: 2.9 Consensus size: 400
719979 GTAAGCATAT
* * *
719989 GTGTCGATCCATATATAAAAAGTATCGATCCCAGAAATATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCTATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* * * * *
720054 TGTAATTTTTCAATGTAACCAGTATAAATTTACCAGTTTTATGAGATAATAGGTCTACAACATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATGT
720119 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
*
720184 ATAAAGTGTCGATTCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATG
196 ATAAAGTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATG
* *
720249 TAATAGGTAAATTTTCAATGTAACCCGTATAAATATATCGGTTTTACGAGAGAATAGGTCTACAA
261 TAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAA
* * * * *
720314 CATTTATCGACACTTTTTAACTTTGTGTCGATACTTTTGGTCCAGAATAAATGCCAAAAAGGGTG
326 CATATATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATAAATGCAAAAAAAGGTG
720379 CAACCATAAA
391 CAACCATAAA
720389 GTGTCGATCTATTTATAAAAAGTATCGATCCCAGAAACATCGAAA-CCATAAGTATAATGTAATA
1 GTGTCGATCTATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
* *
720453 GGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTACGAGAGAATAGGTCTACAACATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATGT
* * **
720518 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGATCCAGAATGAATGACAAAAAATGTGCAACC
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
*
720583 ATAAAGTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATG
196 ATAAAGTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATG
*
720648 TAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTGTACAA
261 TAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAA
* *
720713 CATATATC-AAACCTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATGAATGCAAAAAAAGGT
326 CATATATCGACA-CTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATAAATGCAAAAAAAGGT
720777 GCAACCATAAA
390 GCAACCATAAA
* **
720788 GTGTCGATATATTTATAAAAAGTATCGATCCCAGAAACATAAAAACCCATAAGTATAATGTAATA
1 GTGTCGATCTATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
*
720853 GGTAATTTTTCAATGTAACCGGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATAT
66 GGTAATTTTTCAATGTAACCGGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATGT
*
720918 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATCCCAAAAAGGGTGCAACC
131 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
*
720983 ATAAAGTGTCGGTCCATTTATAAAAAGTATCGAT-CCAGAAACA-CGGAAACCCATAAGTATAAT
196 ATAAAGTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATC-GAAACCCATAAGTATAAT
* *
721046 GTAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTACA
260 GTAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACA
*
721111 ACATGTATCGACACTTTTTAATTTTGTGTCGATACT
325 ACATATATCGACACTTTTTAATTTTGTGTCGATACT
721147 AATTTAAATA
Statistics
Matches: 710, Mismatches: 44, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
398 3 0.00
399 489 0.69
400 218 0.31
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (400 bp):
GTGTCGATCTATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTACAACATGT
ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
ATAAAGTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATG
TAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAA
CATATATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATAAATGCAAAAAAAGGTG
CAACCATAAA
Found at i:721126 original size:599 final size:599
Alignment explanation
Indices: 719989--721146 Score: 1964
Period size: 599 Copynumber: 1.9 Consensus size: 599
719979 GTAAGCATAT
* *
719989 GTGTCGATCCATATATAAAAAGTATCGATCCCAGAAATATCGAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATATATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
* * * * * *
720054 TGTAATTTTTCAATGTAACCAGTATAAATTTACCAGTTTTATGAGATAATAGGTCTACAACATGT
66 GGTAAATTTTCAATGTAACCAGTATAAATATACCAGTTTTACGAGAGAATAGGTCTACAACATAT
* * * *
720119 ATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGCAACC
131 ATCAACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATGAATGCAAAAAAAGGTGCAACC
**
720184 ATAAAGTGTCGATTCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCCATAAGTATAATG
196 ATAAAGTGTCGATTCATTTATAAAAAGTATCGATCCCAGAAACATAAAAACCCATAAGTATAATG
*
720249 TAATAGGTAAATTTTCAATGTAACCCGTATAAATATATCGGTTTTACGAGAGAATAGGTCTACAA
261 TAATAGGTAAATTTTCAATGTAACCCGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAA
* *
720314 CATTTATCGACACTTTTTAACTTTGTGTCGATACTTTTGGTCCAGAATAAATGCCAAAAAGGGTG
326 CATATATCGACACTTTTTAACTTTGTGTCGATACTTTTGGTCCAGAATAAATCCCAAAAAGGGTG
*
720379 CAACCATAAAGTGTCGATCTATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCATAAGTAT
391 CAACCATAAAGTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCATAAGTAT
* * *
720444 AATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGGTTTTACGAGAGAATAGGTCT
456 AATGTAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGATTTTACGAGAGAATAGGTCT
720509 ACAACATGTATCGACACTTTTTAATTTTGTGTCGATACTTTTGATCCAGAATGAATGACAAAAAA
521 ACAACATGTATCGACACTTTTTAATTTTGTGTCGATACTTTTGATCCAGAATGAATGACAAAAAA
720574 TGTGCAACCATAAA
586 TGTGCAACCATAAA
*
720588 GTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
1 GTGTCGATCCATATATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
* * *
720653 GGTAAATTTTCAATGTAACCGGTATAAATATACCGGTTTTACGAGAGAATAGGTGTACAACATAT
66 GGTAAATTTTCAATGTAACCAGTATAAATATACCAGTTTTACGAGAGAATAGGTCTACAACATAT
720718 ATCAA-ACCTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATGAATGCAAAAAAAGGTGCAAC
131 ATCAACA-CTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATGAATGCAAAAAAAGGTGCAAC
720782 CATAAAGTGTCGATAT-ATTTATAAAAAGTATCGATCCCAGAAACATAAAAACCCATAAGTATAA
195 CATAAAGTGTCGAT-TCATTTATAAAAAGTATCGATCCCAGAAACATAAAAACCCATAAGTATAA
* * *
720846 TGTAATAGGTAATTTTTCAATGTAACCGGTATAAATTTACCGGTTTTACGAGAGAATAGGTCTAC
259 TGTAATAGGTAAATTTTCAATGTAACCCGTATAAATATACCGGTTTTACGAGAGAATAGGTCTAC
* *
720911 AACATATATCGACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAGAATGAATCCCAAAAAGGG
324 AACATATATCGACACTTTTTAACTTTGTGTCGATACTTTTGGTCCAGAATAAATCCCAAAAAGGG
*
720976 TGCAACCATAAAGTGTCGGTCCATTTATAAAAAGTATCGAT-CCAGAAACA-CGGAAACCCATAA
389 TGCAACCATAAAGTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATC-GAAA-CCATAA
*
721039 GTATAATGTAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGATTTTATGAGAGAATAG
452 GTATAATGTAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGATTTTACGAGAGAATAG
721104 GTCTACAACATGTATCGACACTTTTTAATTTTGTGTCGATACT
517 GTCTACAACATGTATCGACACTTTTTAATTTTGTGTCGATACT
721147 AATTTAAATA
Statistics
Matches: 523, Mismatches: 32, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
597 1 0.00
598 14 0.03
599 507 0.97
600 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (599 bp):
GTGTCGATCCATATATAAAAAGTATCGATCCCAGAAACATCAAAACCCATAAGTATAATGTAATA
GGTAAATTTTCAATGTAACCAGTATAAATATACCAGTTTTACGAGAGAATAGGTCTACAACATAT
ATCAACACTTTTTAATTTTGTGTCGATACTTTTGGTCCAAAATGAATGCAAAAAAAGGTGCAACC
ATAAAGTGTCGATTCATTTATAAAAAGTATCGATCCCAGAAACATAAAAACCCATAAGTATAATG
TAATAGGTAAATTTTCAATGTAACCCGTATAAATATACCGGTTTTACGAGAGAATAGGTCTACAA
CATATATCGACACTTTTTAACTTTGTGTCGATACTTTTGGTCCAGAATAAATCCCAAAAAGGGTG
CAACCATAAAGTGTCGATCCATTTATAAAAAGTATCGATCCCAGAAACATCGAAACCATAAGTAT
AATGTAATAGGTAAATTTTCAATGTAACCGGTATAAATATACCGATTTTACGAGAGAATAGGTCT
ACAACATGTATCGACACTTTTTAATTTTGTGTCGATACTTTTGATCCAGAATGAATGACAAAAAA
TGTGCAACCATAAA
Found at i:722649 original size:3 final size:3
Alignment explanation
Indices: 722623--722709 Score: 102
Period size: 3 Copynumber: 29.0 Consensus size: 3
722613 GGTCAATAAA
* * *
722623 GAT GAA GAT GAC GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * * * *
722671 GAT GCT GTT GCT GAT GAT GAT GAT GAT AAC GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
722710 CCAAACAAGT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.33, C:0.05, G:0.32, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:724216 original size:51 final size:53
Alignment explanation
Indices: 724160--724269 Score: 120
Period size: 51 Copynumber: 2.1 Consensus size: 53
724150 ATAATGGATG
* * *
724160 CCAAAAAGGG-TGAACGTACAAAGTGTCGATATATTT-TCAAAGAGTGTCGAT-
1 CCAAAAAGGGTTGAACGCACAAAGTGTCGATACATTTATCAAA-AGTGTCAATC
* * * *
724211 CC-AAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCAATC
1 CCAAAAAGGGTTGAACGCACAAAGTGTCGATACATTTATCAAAAGTGTCAATC
724263 CCAAAAA
1 CCAAAAA
724270 CATCAAAACC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
50 7 0.15
51 31 0.65
52 6 0.12
53 4 0.08
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (53 bp):
CCAAAAAGGGTTGAACGCACAAAGTGTCGATACATTTATCAAAAGTGTCAATC
Found at i:724412 original size:252 final size:250
Alignment explanation
Indices: 724012--724464 Score: 692
Period size: 252 Copynumber: 1.8 Consensus size: 250
724002 AAGTAAGGAC
* * * *
724012 CCCAAAAACATCGAAACCGATAATTATAATGTAATTGGTAATTTTTCAATGTAACCGGTATAAAT
1 CCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAATTTTTCAATATAACCGGTATAAAT
* * *
724077 AAACCGGTTTTATGAAAAATAGGTCTACAACATGTATCGACACTTATCAATATTGTGTCGATACT
66 AAACCAGTTTTATGAAAAATAGGTCTACAACATATATCGACACTTATCAATATTGTGTCGATAAT
* * * * *
724142 TTTTGTTCATAATGGATGCCAAAAAGGGTGAACGTACAAAGTGTCGATATATTTTCAAAGAGTGT
131 TTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTCAAAAAGTGT
*
724207 CGATCCAAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCAAT
196 CAATCCAAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCAAT
*
724262 CCCAAAAACATCAAAACCCCATAATTATAATGTAATAGGTAATTTTGT-AATATAACCGGTATAC
1 CCCAAAAACATCAAAA-CCCATAATTATAATGTAATAGGTAATTTT-TCAATATAACCGGTATAA
* * * * *
724326 ATATACCAGTTTTATGAGAGAATAGGTCTATAACATATATCGACACTTCTTAATATTGTGTCGAT
64 ATAAACCAGTTTTATGA-AAAATAGGTCTACAACATATATCGACACTTATCAATATTGTGTCGAT
*
724391 AATTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAG
128 AATTTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTCAAAAAG
724456 TGTCAATCC
193 TGTCAATCC
724465 CGAAAACATC
Statistics
Matches: 180, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
250 15 0.08
251 56 0.31
252 109 0.61
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (250 bp):
CCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTAATTTTTCAATATAACCGGTATAAAT
AAACCAGTTTTATGAAAAATAGGTCTACAACATATATCGACACTTATCAATATTGTGTCGATAAT
TTTTGTCCAGAATGGATGCCAAAAAGGGTGAACGCACAAAGTGTCGATACATTTTCAAAAAGTGT
CAATCCAAAAGGGTTGCACGCATAAAGTTTCGATACATTTATTAAAAGTGTCAAT
Found at i:724537 original size:177 final size:177
Alignment explanation
Indices: 724334--724681 Score: 511
Period size: 177 Copynumber: 2.0 Consensus size: 177
724324 ACATATACCA
* *
724334 GTTTTATGAGAGAATAGGTCTATAACATATATCGACACT-TCT-TAATATTGTGTCGATAATTTT
1 GTTTTATGAGAGAATAGGTCTATAACATACATCGACACTATATAT-AT-TTGTGTCGATAATTTT
* * * *
724397 TGTCCAGAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAAAAAGTGTCAA
64 TGTACAGAATGGATGCCAAAAAGGATGAACGCACAAAATGTCGATACATTTTCAAAAAGTGTCAA
*
724462 TCCCGAAAACATCGAAACCCATAATTATAATGTAATAGGTAATATATCG
129 TCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATATATCG
* * * *
724511 GTTTTATGAGAGAATATGTCTATAACATGCATCGACACTATATATATTTGTGTTGATACTTTTTG
1 GTTTTATGAGAGAATAGGTCTATAACATACATCGACACTATATATATTTGTGTCGATAATTTTTG
* * **
724576 TACAGAATGGATGCCAAAAAGGATGAACGCACAAAATGTCGATATATTTTCAAAGAGTGTTGATC
66 TACAGAATGGATGCCAAAAAGGATGAACGCACAAAATGTCGATACATTTTCAAAAAGTGTCAATC
* *
724641 CTAAAAACATTGAAACCCATAATTATAATGTAATAGGTAAT
131 CCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAT
724682 TTTGTAATAT
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
177 147 0.97
178 4 0.03
179 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (177 bp):
GTTTTATGAGAGAATAGGTCTATAACATACATCGACACTATATATATTTGTGTCGATAATTTTTG
TACAGAATGGATGCCAAAAAGGATGAACGCACAAAATGTCGATACATTTTCAAAAAGTGTCAATC
CCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATATATCG
Found at i:727736 original size:200 final size:200
Alignment explanation
Indices: 727337--728067 Score: 659
Period size: 200 Copynumber: 3.6 Consensus size: 200
727327 CCTAAATATT
* * *
727337 TGTCGATACATTT-TATACAAGTATCGA-CCCAAAAAATATCAAAACCAATAATTATAATGTAAT
1 TGTCGATACATTTAT-TAAAAGTATCGATCCC-AAAAACATCGAAA-CAATAATTATAATGTAAT
* * * * * * *
727400 AGGTAAATTAACAATGTAACCGGTATAAATATA-TCGGTTAATTAGAAAACAGGTCAATATAATG
63 AGGTAAATTTACAATGTAACCGGTATAAATATACCCGTTTTATGAGAAAATAGGTCAATATAAAG
* * *
727464 TATCGGCACTTGTGGAATTTGTGTTGATACTTATTGTCCATGATGAATGCACAAACAAGGTGCAC
128 TATCGACACTTGTGAAATTTGTATTGATACTTATTGTCCATGATGAATGCACAAACAAGGTGCAC
727529 GCATAAAG
193 GCATAAAG
*
727537 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAGATAATTATAATGTATTAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACA-ATAATTATAATGTAATAG
* * * *
727602 GTAAATTTACAATGTAACTGATATAAATATACCCGTTTTATGATAAAATAGGTCAGCT-TAAAGT
65 GTAAATTTACAATGTAACCGGTATAAATATACCCGTTTTATGAGAAAATAGGTCA-ATATAAAGT
727666 ATCGACACTTGCT-AAATTTGTATTGATACTT-TTGGTCCA-GAATGAATGC-CAAA-AAGGGTG
129 ATCGACACTTG-TGAAATTTGTATTGATACTTATT-GTCCATG-ATGAATGCACAAACAA-GGTG
727726 CAAC-CATAAAG
190 C-ACGCATAAAG
* * * ** * * *
727737 TGTCGATACATTTATAAAAATTATCCATCTTAGAAACATCGAAACCTATAAGTATAATGTAATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAA-CAATAATTATAATGTAATAG
* * * * * *
727802 GTAAATTTTCAATGTAACGGGTATAAATATACCGGTTTTAAGAGAGAATAGGTCTAA-ATAATGT
65 GTAAATTTACAATGTAACCGGTATAAATATACCCGTTTTATGAGAAAATAGGTC-AATATAAAGT
* * * * * * *
727866 ATCGACACTT-TGTTAGTTTGTGTCGATACTT-TTTTCCAGAATGAAATATGAATGC-CCAACCA
129 ATCGACACTTGTG-AAATTTGTATTGATACTTATTGTCC---ATG----ATGAATGCACAAACAA
* *
727928 GGTGCAAGCATAAAA
186 GGTGCACGCATAAAG
* * * ** * *
727943 TGTCGATACATTTA--AAATTGTGTTGATCTAAAAAACATAGAAACCAATAATAATAATGTAATA
1 TGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAA-CAATAATTATAATGTAATA
* * * **
728006 GGTAAATTTGCAATGTTACCGGTATAAATATACCAG-TTTACTTCGAAAATAGGTCAATATAA
64 GGTAAATTTACAATGTAACCGGTATAAATATACCCGTTTTA-TGAGAAAATAGGTCAATATAA
728068 GCGCTATCTA
Statistics
Matches: 439, Mismatches: 65, Indels: 49
0.79 0.12 0.09
Matches are distributed among these distances:
198 1 0.00
199 7 0.02
200 231 0.53
201 69 0.16
202 3 0.01
203 1 0.00
204 9 0.02
205 81 0.18
206 36 0.08
207 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (200 bp):
TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAATAATTATAATGTAATAGG
TAAATTTACAATGTAACCGGTATAAATATACCCGTTTTATGAGAAAATAGGTCAATATAAAGTAT
CGACACTTGTGAAATTTGTATTGATACTTATTGTCCATGATGAATGCACAAACAAGGTGCACGCA
TAAAG
Found at i:728196 original size:23 final size:23
Alignment explanation
Indices: 728146--728190 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
728136 TGCCTATTTT
*
728146 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
728169 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
728191 TGTTATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:728208 original size:87 final size:87
Alignment explanation
Indices: 728062--728224 Score: 308
Period size: 87 Copynumber: 1.9 Consensus size: 87
728052 AAATAGGTCA
*
728062 ATATAAGCGCTATCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
728127 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
*
728149 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
728214 CCGGTTAAATG
66 CCGGTTAAATG
728225 ATATAACATT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:728871 original size:43 final size:43
Alignment explanation
Indices: 728745--728872 Score: 109
Period size: 43 Copynumber: 2.9 Consensus size: 43
728735 ATCATGCATG
* * *
728745 TATATAATGTATACACTATACTTATATATATATATATATATATAATG
1 TATATAA-CTATACATTATACTTATA-A-ATATATA-ATATATAATA
* * *
728792 T-TAT-GC-ATACATTATAAGTATATAATTATATAAATATATAATA
1 TATATAACTATACATTAT-ACT-TATAAATATAT-AATATATAATA
*
728835 TATATAACTATACATTATACTTATAAGTATATAATATA
1 TATATAACTATACATTATACTTATAAATATATAATATA
728873 AGTATAAAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
43 29 0.44
44 17 0.26
45 7 0.11
46 12 0.18
47 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (43 bp):
TATATAACTATACATTATACTTATAAATATATAATATATAATA
Found at i:728872 original size:19 final size:17
Alignment explanation
Indices: 728773--728916 Score: 104
Period size: 16 Copynumber: 8.4 Consensus size: 17
728763 TACTTATATA
728773 TATATATATATATATAATG
1 TATATA-ATATATATAA-G
* *
728792 T-TATGCATACATTATAAG
1 TATAT-AATATA-TATAAG
*
728810 TATATAAT-TATATAAA
1 TATATAATATATATAAG
*
728826 TATATAATATATATAAC
1 TATATAATATATATAAG
* *
728843 TATACATTATACTTATAAG
1 TATATAATATA--TATAAG
728862 TATATAATATAAGTATAA-
1 TATATAATAT-A-TATAAG
728880 -AGTAT-A-ATATATAAG
1 TA-TATAATATATATAAG
728895 TATAT-ATATATATAAG
1 TATATAATATATATAAG
728911 TATATA
1 TATATA
728917 TGTATGATGT
Statistics
Matches: 101, Mismatches: 12, Indels: 26
0.73 0.09 0.19
Matches are distributed among these distances:
14 5 0.05
15 5 0.05
16 30 0.30
17 19 0.19
18 14 0.14
19 27 0.27
20 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
TATATAATATATATAAG
Found at i:728921 original size:8 final size:8
Alignment explanation
Indices: 728804--728921 Score: 65
Period size: 8 Copynumber: 15.1 Consensus size: 8
728794 ATGCATACAT
728804 TATAAGTA
1 TATAAGTA
*
728812 TATAATTA
1 TATAAGTA
*
728820 TATAAATA
1 TATAAGTA
*
728828 TATAATATA
1 TATAA-GTA
*
728837 TATAACTA
1 TATAAGTA
*
728845 TACATTA-TA
1 T--ATAAGTA
728854 CTTATAAGTA
1 --TATAAGTA
728864 TAT-A--A
1 TATAAGTA
728869 TATAAGTA
1 TATAAGTA
728877 TA-AAG--
1 TATAAGTA
728882 TATAA-TA
1 TATAAGTA
728889 TATAAGTA
1 TATAAGTA
728897 TATATA-TA
1 TATA-AGTA
728905 TATAAGTA
1 TATAAGTA
*
728913 TATATGTA
1 TATAAGTA
728921 T
1 T
728922 GATGTGTGCA
Statistics
Matches: 89, Mismatches: 6, Indels: 30
0.71 0.05 0.24
Matches are distributed among these distances:
5 6 0.07
6 3 0.03
7 10 0.11
8 50 0.56
9 14 0.16
10 5 0.06
11 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.42
Consensus pattern (8 bp):
TATAAGTA
Found at i:728937 original size:2 final size:2
Alignment explanation
Indices: 728767--728917 Score: 55
Period size: 2 Copynumber: 79.5 Consensus size: 2
728757 ACACTATACT
* * * *
728767 TA TA TA TA TA TA TA TA TA TA TA -A TG T- TA TG CA TA CA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
728806 TA -A GTA TA TA -A T- TA TA TA AA TA TA TA -A TA TA TA TA -A CTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* *
728845 TA CA T- TA TA CT- TA TA -A GTA TA TA -A TA TA -A GTA TA AA GTA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA -TA
728884 TA -A TA TA TA -A GTA TA TA TA TA TA TA -A GTA TA TA T
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA T
728918 GTATGATGTG
Statistics
Matches: 112, Mismatches: 13, Indels: 48
0.65 0.08 0.28
Matches are distributed among these distances:
1 16 0.14
2 88 0.79
3 8 0.07
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.42
Consensus pattern (2 bp):
TA
Found at i:729309 original size:20 final size:20
Alignment explanation
Indices: 729284--729377 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 20
729274 AATTTGGAAA
*
729284 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
729304 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
729324 TTCGCAATGCGATACTGAAT
1 ATCGCAACGCGATACTGACT
* * *
729344 TTCGTAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
729364 TTCGCAACGAGATA
1 ATCGCAACGCGATA
729378 ATACATAATC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:729336 original size:40 final size:40
Alignment explanation
Indices: 729285--729370 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
729275 ATTTGGAAAA
*
729285 TCGCAATGCGATACTGACTATCGCAACGCGATACTGACTT
1 TCGCAATGCGATACTGAATATCGCAACGCGATACTGACTT
* * *
729325 TCGCAATGCGATACTGAATTTCGTAACGCGATTCTGACTT
1 TCGCAATGCGATACTGAATATCGCAACGCGATACTGACTT
729365 TCGCAA
1 TCGCAA
729371 CGAGATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
TCGCAATGCGATACTGAATATCGCAACGCGATACTGACTT
Found at i:729592 original size:22 final size:22
Alignment explanation
Indices: 729564--729607 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
729554 CACTCTCTCA
729564 CCCATCTCCAACGAAATCCGTC
1 CCCATCTCCAACGAAATCCGTC
***
729586 CCCATCTCTGGCGAAATCCGTC
1 CCCATCTCCAACGAAATCCGTC
729608 TATCTCCATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.43, G:0.14, T:0.20
Consensus pattern (22 bp):
CCCATCTCCAACGAAATCCGTC
Found at i:729915 original size:20 final size:20
Alignment explanation
Indices: 729861--729934 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
729851 AAATCGCAAC
* *
729861 GCGATTTT-ATTCTCTCGTT
1 GCGATTTTCATTTTCGCGTT
** **
729880 GCGATAGTCAAATTCGCGTT
1 GCGATTTTCATTTTCGCGTT
*
729900 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
729920 GCGATTTTCATTTTC
1 GCGATTTTCATTTTC
729935 AGAAACTATT
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 6 0.14
20 37 0.86
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:730125 original size:25 final size:26
Alignment explanation
Indices: 730071--730125 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
730061 TGTTTATTAT
* *
730071 TGTTTTTGGTATATCTTCACATTGTA
1 TGTTTTGGGTATATCTTAACATTGTA
730097 -GTTTTGGGTATATC-TAAC-TTAGTA
1 TGTTTTGGGTATATCTTAACATT-GTA
730121 TGTTT
1 TGTTT
730126 ATTGTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 6 0.24
25 17 0.68
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (26 bp):
TGTTTTGGGTATATCTTAACATTGTA
Found at i:731765 original size:19 final size:19
Alignment explanation
Indices: 731731--731832 Score: 106
Period size: 19 Copynumber: 5.6 Consensus size: 19
731721 AAACTTACTT
**
731731 TCGCAACGCGGAAATGACTA
1 TCGCAACGC-GAAATGAAAA
731751 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
731770 TCGCAATGCAAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
731789 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
731803 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
731822 TCGCAATGCGA
1 TCGCAACGCGA
731833 TTTGTGTTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 1 0.01
18 1 0.01
19 45 0.65
20 9 0.13
ACGTcount: A:0.44, C:0.23, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:731863 original size:14 final size:14
Alignment explanation
Indices: 731844--731935 Score: 67
Period size: 14 Copynumber: 5.9 Consensus size: 14
731834 TTGTGTTTCG
731844 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
731858 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
731875 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
* *
731891 CATTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
731908 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
731924 CGTTGCGATTTT
1 CGTTGCGATTTT
731936 CATTTCGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 24 0.39
15 6 0.10
16 7 0.11
17 7 0.11
18 6 0.10
19 12 0.19
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:731876 original size:33 final size:33
Alignment explanation
Indices: 731839--731954 Score: 214
Period size: 33 Copynumber: 3.5 Consensus size: 33
731829 GCGATTTGTG
*
731839 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
731872 TTTCGCATTGCGATTTTGTCATTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
731905 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
731938 TTTCGCATTGCGATTTT
1 TTTCGCATTGCGATTTT
731955 CATTTCGCGT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:731884 original size:19 final size:19
Alignment explanation
Indices: 731860--731970 Score: 125
Period size: 19 Copynumber: 6.4 Consensus size: 19
731850 GATTTTGTCG
731860 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
731879 TTGCGA-TTT--TGT--CA
1 TTGCGATTTTCATTTCGCA
731893 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
731912 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
731926 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
731945 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
731964 TTGCGAT
1 TTGCGAT
731971 AGCCATTTCC
Statistics
Matches: 77, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
14 14 0.18
15 6 0.08
16 6 0.08
17 6 0.08
18 6 0.08
19 39 0.51
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:731977 original size:19 final size:19
Alignment explanation
Indices: 731924--732029 Score: 104
Period size: 20 Copynumber: 5.4 Consensus size: 19
731914 GCGATTTTGT
**
731924 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* **
731943 CATTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
731962 CGTTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
731982 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
* *
732002 CGTTGCGAAAGTAAGTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
732022 TGTTGCGA
1 CGTTGCGA
732030 AAGTAAACTA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
19 31 0.41
20 41 0.55
21 3 0.04
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:732462 original size:21 final size:21
Alignment explanation
Indices: 732438--732504 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
732428 TCATTCCTCG
732438 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
732459 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
732480 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
732501 AGAG
1 AGAG
732505 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:732462 original size:42 final size:42
Alignment explanation
Indices: 732411--732504 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
732401 CCACTTCTAT
* *
732411 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * *
732453 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
732495 CATTCAAGAG
1 CGTTCAAGAG
732505 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:733890 original size:14 final size:14
Alignment explanation
Indices: 733848--733884 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
733838 TTTTGTTTAA
*
733848 TTGATTTGTAAAAG
1 TTGATTTGTAAAAT
*
733862 ATGATTTGTAAAAT
1 TTGATTTGTAAAAT
733876 TTGATTTGT
1 TTGATTTGT
733885 TTAATTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAT
Found at i:734013 original size:19 final size:19
Alignment explanation
Indices: 733991--734084 Score: 73
Period size: 19 Copynumber: 5.5 Consensus size: 19
733981 AAAAATGACT
733991 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
734010 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
734024 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
734043 ATCGCAA--CG--A-GATA
1 ATCGCAATGCGAAATGAAA
**
734057 ATCGCGTTGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
734076 ATCGCAATG
1 ATCGCAATG
734085 ACAAAATCGC
Statistics
Matches: 57, Mismatches: 8, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
14 18 0.32
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 27 0.47
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:734036 original size:33 final size:33
Alignment explanation
Indices: 733991--734098 Score: 144
Period size: 33 Copynumber: 3.3 Consensus size: 33
733981 AAAAATGACT
* *
733991 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
*
734024 ATCGCAACGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
*** * *
734057 ATCGCGTTGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
734090 ATCGCAACG
1 ATCGCAACG
734099 TAAAGCTAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
Found at i:734126 original size:19 final size:19
Alignment explanation
Indices: 734087--734132 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
734077 TCGCAATGAC
*
734087 AAAATCGCAACGTAAAGCT
1 AAAATCGCAACGGAAAGCT
*
734106 AAATTCGCAACGCGAAA-CT
1 AAAATCGCAACG-GAAAGCT
734125 AAAATCGC
1 AAAATCGC
734133 GTTGCGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.46, C:0.24, G:0.15, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACGGAAAGCT
Found at i:734558 original size:21 final size:21
Alignment explanation
Indices: 734532--734580 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
734522 TGGCTATCGT
734532 AATGCGATTTT-CCAATTTCGC
1 AATGCGATTTTCCCAA-TTCGC
*
734553 ATTGCGATTTTCCCAATTCGC
1 AATGCGATTTTCCCAATTCGC
734574 AATGCGA
1 AATGCGA
734581 ATAAGTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (21 bp):
AATGCGATTTTCCCAATTCGC
Found at i:734613 original size:21 final size:20
Alignment explanation
Indices: 734570--734618 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
734560 TTTTCCCAAT
*
734570 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
734590 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
734611 TCGCAATG
1 TCGCAATG
734619 TGATACTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:734635 original size:20 final size:20
Alignment explanation
Indices: 734610--734744 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
734600 AATTTGGAAA
* *
734610 ATCGCAATGTGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
734630 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
734651 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
734671 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
734691 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
734711 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
734731 ATCGCAACGAGATA
1 ATCGCAACGCGATA
734745 ATACAGAATT
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
19 2 0.02
20 82 0.81
21 15 0.15
22 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:734683 original size:41 final size:42
Alignment explanation
Indices: 734607--734719 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 42
734597 GCGAATTTGG
* * *
734607 AAAATCGCAATGTGATACTGACTATCGCAACGCGATAAT-AC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
**
734648 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATTCTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
** *
734690 --TTTCGCAACGCGATTCTGACTTTCGCAACG
1 AAAATCGCAACGCGATACTGACTTTCGCAACG
734720 AGATTCTGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 27 0.43
41 34 0.54
42 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATGAC
Found at i:734709 original size:40 final size:40
Alignment explanation
Indices: 734651--734744 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
734641 ATAATACAAA
*
734651 ATCGCAACGCGATACTGACTTTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACTTTCGCAACGAGATTCTGACT
* *
734691 TTCGCAACGCGATTCTGACTTTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACTTTCGCAACGAGATTCTGACT
*
734731 ATCGCAACGAGATA
1 ATCGCAACGCGATA
734745 ATACAGAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
ATCGCAACGCGATACTGACTTTCGCAACGAGATTCTGACT
Found at i:737925 original size:20 final size:20
Alignment explanation
Indices: 737900--737975 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
737890 CAACAGGGAA
737900 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
737920 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
737940 ATCGCAACGCGAAAATGCCT
1 ATCGCAACGCGAAAATGACT
*
737960 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
737976 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:737986 original size:34 final size:34
Alignment explanation
Indices: 737881--737987 Score: 108
Period size: 40 Copynumber: 3.0 Consensus size: 34
737871 GACATTCATT
*
737881 TGACTATCGCAAC-AGGGAAATCGCAACGCGAAAA
1 TGACTATCGCAACGA-GAAAATCGCAACGCGAAAA
*
737915 TGACTATCGCAACGCGAAAATGGCTATCGCAACGCGAAAA
1 TGACTATCGCAACGAG-AAA-----ATCGCAACGCGAAAA
* *
737955 TGCCTATCGCAACGAGAAAATCGCAATGCGAAA
1 TGACTATCGCAACGAGAAAATCGCAACGCGAAA
737988 TGAAAATCGC
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
34 27 0.44
35 2 0.03
39 3 0.05
40 29 0.48
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.14
Consensus pattern (34 bp):
TGACTATCGCAACGAGAAAATCGCAACGCGAAAA
Found at i:738035 original size:19 final size:16
Alignment explanation
Indices: 737994--738052 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 16
737984 GAAATGAAAA
737994 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
738010 TCG--TTGCGATTTTC
1 TCGCATTGCGATTTTC
738024 ATTTCGCATTGCGA--TTC
1 ---TCGCATTGCGATTTTC
*
738041 TCTCATTGCGAT
1 TCGCATTGCGAT
738053 AGTCAGTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
14 21 0.58
16 3 0.08
17 6 0.17
19 6 0.17
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (16 bp):
TCGCATTGCGATTTTC
Found at i:739677 original size:41 final size:42
Alignment explanation
Indices: 739632--739710 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
739622 CGATGACAAT
*
739632 GGCCTCATGAACG-GTGGGGGGGACTCTTGAGGGATGATAGG
1 GGCCTCATGAACGAGTGGAGGGGACTCTTGAGGGATGATAGG
* *
739673 GGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGATGA
1 GGCCTCATGAACGAGTGGAGGGGACTCTTGAGGGATGA
739711 CAGGTGAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 12 0.35
42 22 0.65
ACGTcount: A:0.20, C:0.15, G:0.43, T:0.22
Consensus pattern (42 bp):
GGCCTCATGAACGAGTGGAGGGGACTCTTGAGGGATGATAGG
Found at i:739679 original size:21 final size:21
Alignment explanation
Indices: 739650--739710 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
739640 GAACGGTGGG
*
739650 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
739671 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
739692 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
739711 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:742266 original size:20 final size:20
Alignment explanation
Indices: 742241--742316 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
742231 CAACAGGGAA
742241 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
742261 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
742281 ATCGCAACGCGAAAATGCCT
1 ATCGCAACGCGAAAATGACT
*
742301 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
742317 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:742327 original size:34 final size:34
Alignment explanation
Indices: 742222--742328 Score: 108
Period size: 40 Copynumber: 3.0 Consensus size: 34
742212 GATATTCATT
*
742222 TGACTATCGCAAC-AGGGAAATCGCAACGCGAAAA
1 TGACTATCGCAACGA-GAAAATCGCAACGCGAAAA
*
742256 TGACTATCGCAACGCGAAAATGGCTATCGCAACGCGAAAA
1 TGACTATCGCAACGAG-AAA-----ATCGCAACGCGAAAA
* *
742296 TGCCTATCGCAACGAGAAAATCGCAATGCGAAA
1 TGACTATCGCAACGAGAAAATCGCAACGCGAAA
742329 TGAAAATTGC
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
34 27 0.44
35 2 0.03
39 3 0.05
40 29 0.48
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.14
Consensus pattern (34 bp):
TGACTATCGCAACGAGAAAATCGCAACGCGAAAA
Found at i:742359 original size:14 final size:14
Alignment explanation
Indices: 742340--742393 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
742330 GAAAATTGCA
742340 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
742354 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
*
742371 CATTGCGATTCTCTCG
1 --TTGCGATTTTCTCG
742387 TTGCGAT
1 TTGCGAT
742394 AGTCAGTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:744013 original size:40 final size:42
Alignment explanation
Indices: 743969--744059 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
743959 CCTCTTCAAC
*
743969 GATGACAGTGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
744009 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
744051 GATGACAGG
1 GATGACAGG
744060 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 20 0.44
41 3 0.07
42 22 0.49
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:744024 original size:21 final size:21
Alignment explanation
Indices: 743995--744055 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
743985 TGAACGGTGG
*
743995 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
744016 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
744037 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
744056 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:744448 original size:20 final size:20
Alignment explanation
Indices: 744405--744491 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
744395 TAGTTTACTT
* * * *
744405 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
*
744425 TCGCAATGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
744445 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
**
744465 TCGCAACGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
744484 TCGCAACG
1 TCGCAACG
744492 ACAAAATCGC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
19 14 0.25
20 42 0.75
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:744486 original size:19 final size:19
Alignment explanation
Indices: 744425--744527 Score: 81
Period size: 19 Copynumber: 5.6 Consensus size: 19
744415 AAACTTACTT
* **
744425 TCGCAATGCGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
744445 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
744465 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
744484 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
744498 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
744517 TCGCAATGCGA
1 TCGCAACGCGA
744528 TTTGTGTTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 27 0.39
20 25 0.36
21 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.22, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:744559 original size:14 final size:14
Alignment explanation
Indices: 744540--744597 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 14
744530 TGTGTTTCGC
744540 GTTGCGATTTTGTT
1 GTTGCGATTTTGTT
*
744554 GTTGCGATTTTTATTT
1 GTTGCGA-TTTT-GTT
*
744570 CGCATTGCGATTTTGTC
1 -G--TTGCGATTTTGTT
744587 GTTGCGATTTT
1 GTTGCGATTTT
744598 CATTTCGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 17 0.47
15 4 0.11
16 3 0.08
17 2 0.06
18 4 0.11
19 6 0.17
ACGTcount: A:0.10, C:0.12, G:0.24, T:0.53
Consensus pattern (14 bp):
GTTGCGATTTTGTT
Found at i:744571 original size:33 final size:33
Alignment explanation
Indices: 744523--744616 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 33
744513 AAAATCGCAA
* * * *
744523 TGCGATTTGTGTTTCGCGTTGCGATTTTGTTGT
1 TGCGATTTTTATTTCGCATTGCGATTTTGTCGT
744556 TGCGATTTTTATTTCGCATTGCGATTTTGTCGT
1 TGCGATTTTTATTTCGCATTGCGATTTTGTCGT
* *
744589 TGCGATTTTCATTTCGTATTGCGATTTT
1 TGCGATTTTTATTTCGCATTGCGATTTT
744617 CATTTCGCGT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (33 bp):
TGCGATTTTTATTTCGCATTGCGATTTTGTCGT
Found at i:744579 original size:19 final size:19
Alignment explanation
Indices: 744555--744671 Score: 82
Period size: 19 Copynumber: 6.3 Consensus size: 19
744545 GATTTTGTTG
*
744555 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
744574 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
*
744588 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
*
744607 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
* *** *
744626 TTGTGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
**
744646 TTGCGATAGTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
744666 TTGCGA
1 TTGCGA
744672 AAGTAAGTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 13
0.77 0.11 0.12
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 4 0.05
17 4 0.05
18 3 0.04
19 34 0.43
20 23 0.29
21 3 0.04
ACGTcount: A:0.15, C:0.19, G:0.21, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:744647 original size:20 final size:19
Alignment explanation
Indices: 744617--744671 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
744607 TTGCGATTTT
*
744617 CATTTCGCGTTGTGATAGC
1 CATTTCGCGTTGCGATAGC
*
744636 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
744656 CATTTTCGCATTGCGA
1 CA-TTTCGCGTTGCGA
744672 AAGTAAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:744682 original size:20 final size:20
Alignment explanation
Indices: 744659--744697 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
744649 CGATAGTCAT
*
744659 TTTCGCATTGCGAAAGTAAG
1 TTTCACATTGCGAAAGTAAG
**
744679 TTTCATGTTGCGAAAGTAA
1 TTTCACATTGCGAAAGTAA
744698 ACTATTCTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (20 bp):
TTTCACATTGCGAAAGTAAG
Found at i:745255 original size:17 final size:18
Alignment explanation
Indices: 745233--745278 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
745223 GAGTCGAACG
745233 GGTGATGGCTCT-GGTGA
1 GGTGATGGCTCTGGGTGA
*
745250 GGTGATAGCTCTGGGTGA
1 GGTGATGGCTCTGGGTGA
745268 GGTGATGGCTC
1 GGTGATGGCTC
745279 CCGAAGTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.13, C:0.13, G:0.46, T:0.28
Consensus pattern (18 bp):
GGTGATGGCTCTGGGTGA
Found at i:746646 original size:20 final size:20
Alignment explanation
Indices: 746598--746656 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
746588 AATAGTTTCT
* *
746598 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
746618 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
746638 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
746657 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:746951 original size:22 final size:22
Alignment explanation
Indices: 746924--746967 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
746914 GATGGAGATA
746924 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
746946 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
746968 TGAGAGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:747240 original size:20 final size:20
Alignment explanation
Indices: 747154--747248 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
747144 GATTATGTAT
* *
747154 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
747174 AATCGCATTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
747194 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
747215 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
747235 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
747249 TTTCCAAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 42 0.69
21 14 0.23
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:747267 original size:41 final size:41
Alignment explanation
Indices: 747175--747269 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
747165 GAAAGTCAGA
* * ** *
747175 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCAAAT
*
747216 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT
1 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT-CAAAT
747258 -TCGCATTGCGAT
1 ATCGCATTGCGAT
747270 TTACTTATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCAAAT
Found at i:747281 original size:20 final size:21
Alignment explanation
Indices: 747237--747288 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
747227 ATAGTCAGTA
*
747237 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
747258 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
747278 TCGCATTGCGA
1 TCGCATTGCGA
747289 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:747330 original size:21 final size:22
Alignment explanation
Indices: 747278--747330 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
747268 ATTTACTTAT
747278 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
747299 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
747320 TCGCATTGCGA
1 TCGCATTGCGA
747331 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:747948 original size:44 final size:43
Alignment explanation
Indices: 747882--747970 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 43
747872 ACATTTGGCG
* *
747882 AAAAAAATAAAATTCCCCTCTTCCCTTTTCTATATTCCCAAAA
1 AAAAAAATAAAATTCCCCTCTTCCCTCTTCTAAATTCCCAAAA
* * * * *
747925 AAAAAAATCAAATTTTCTCTCTTCTCTCTTCTAAATTCTCAAAA
1 AAAAAAAT-AAAATTCCCCTCTTCCCTCTTCTAAATTCCCAAAA
747969 AA
1 AA
747971 TCAATTTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 8 0.21
44 30 0.79
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (43 bp):
AAAAAAATAAAATTCCCCTCTTCCCTCTTCTAAATTCCCAAAA
Found at i:752723 original size:54 final size:50
Alignment explanation
Indices: 752641--752780 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 50
752631 GGACATTCCT
* *
752641 GGTGCGATATCTTGTGGAATCAACCCACCTTCGTCGATGGTTGTGCCTGTTTCA
1 GGTGCGAGATCTTGTGGAATCAACCCACCTTCGTCGAT--ATG-G-CTGTTTCA
*
752695 GGTGCGAGATCTTGTGGAATCAACCCACCCTCGTC-A-ATGGCTGTTTCA
1 GGTGCGAGATCTTGTGGAATCAACCCACCTTCGTCGATATGGCTGTTTCA
* *
752743 GGTGCGAGATCTTCT-GAAGTTAACCCACCGTT-GTCGAT
1 GGTGCGAGATCTTGTGGAA-TCAACCCACC-TTCGTCGAT
752781 TAGGGTAGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
47 3 0.04
48 34 0.45
49 3 0.04
50 2 0.03
53 1 0.01
54 33 0.43
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (50 bp):
GGTGCGAGATCTTGTGGAATCAACCCACCTTCGTCGATATGGCTGTTTCA
Found at i:760877 original size:29 final size:29
Alignment explanation
Indices: 760835--760894 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
760825 ATTCTACAGT
760835 GATCTCGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
*
760864 GATCTTGTAGGACGCCATGCAATCCAGGC
1 GATCTCGTAGGACGCCATGCAATCCAGGC
760893 GA
1 GA
760895 CATACGGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.18
Consensus pattern (29 bp):
GATCTCGTAGGACGCCATGCAATCCAGGC
Done.