Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001601.1 Hibiscus syriacus cultivar Beakdansim tig00003184_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: 115975
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:5820 original size:2 final size:2
Alignment explanation
Indices: 5813--5857 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
5803 GGTGGACGTG
5813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5855 TA T
1 TA T
5858 CGGGTCGAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7002 original size:228 final size:223
Alignment explanation
Indices: 6600--7043 Score: 730
Period size: 228 Copynumber: 2.0 Consensus size: 223
6590 GTAAATTATC
* * *
6600 TATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAATATTATTATTATCTTTAGTTAA
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATTATTATTATATTTAGTTAA
*
6665 TATTGTTAAATTTAAAATCTAAATAATATTTTATAAATATCAAAACAATCAAATAATTTTTTGTA
66 TATTGTTAAATTTAAAATCTAAATAATATTTTATAAATATCAAAACAATCAAATAATATTTTGTA
*
6730 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAA-AAATTGAAAC
131 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGAAAC
6794 ATAAATTACATAACTTTCAAAAAAGTATA
196 ATAAATTACATAACTTT-AAAAAAGTATA
*
6823 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TG-AAA-ATA-TTATTATTATATTTAG
*
6888 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAT-ATAAT
62 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTAT-AAATATCAAAACAATCAAATAAT-AT
* *
6952 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
125 TTTGTATAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
7017 TGAAACATAAATTACATAACTTTAAAA
190 TGAAACATAAATTACATAACTTTAAAA
7044 GCAGTTTTAA
Statistics
Matches: 205, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
223 35 0.17
224 2 0.01
225 3 0.01
226 3 0.01
227 53 0.26
228 82 0.40
229 27 0.13
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (223 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATTATTATTATATTTAGTTAA
TATTGTTAAATTTAAAATCTAAATAATATTTTATAAATATCAAAACAATCAAATAATATTTTGTA
TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGAAAC
ATAAATTACATAACTTTAAAAAAGTATA
Found at i:7142 original size:21 final size:20
Alignment explanation
Indices: 7107--7153 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
7097 AACGATACCA
*
7107 GGTAAAAATATGATAAAACC
1 GGTAAAAAAATGATAAAACC
7127 GGTAACAAAAATGATAAAACC
1 GGTAA-AAAAATGATAAAACC
7148 GGTAAA
1 GGTAAA
7154 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (20 bp):
GGTAAAAAAATGATAAAACC
Found at i:7298 original size:20 final size:20
Alignment explanation
Indices: 7275--7321 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
7265 CGATATAACA
*
7275 GGTAAAAATATGATAAAACC
1 GGTAAAAAAATGATAAAACC
7295 GGTAAAAAAATGATAAAACC
1 GGTAAAAAAATGATAAAACC
7315 GGTAAAA
1 GGTAAAA
7322 TGATACCGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (20 bp):
GGTAAAAAAATGATAAAACC
Found at i:7323 original size:17 final size:18
Alignment explanation
Indices: 7279--7326 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
7269 ATAACAGGTA
7279 AAAATATGATAAAACCGGT
1 AAAA-ATGATAAAACCGGT
7298 AAAAAAATGATAAAACCGGT
1 --AAAAATGATAAAACCGGT
7318 -AAAATGATA
1 AAAAATGATA
7327 CCGGATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.33
20 14 0.52
21 4 0.15
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (18 bp):
AAAAATGATAAAACCGGT
Found at i:9591 original size:21 final size:21
Alignment explanation
Indices: 9544--9608 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
9534 AAGACAATCA
* *
9544 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
9566 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
9586 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
9607 AG
1 AG
9609 GAATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:9684 original size:33 final size:34
Alignment explanation
Indices: 9642--9708 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
9632 AAATAGATGG
*
9642 AGTGGTGAAAGAAG-TAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAGAGGTGTTAAGGGGTGA
* *
9675 AGTGGTGAAAGAAGTTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTTAGAGGTGTTAAGGGGTGA
9709 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (34 bp):
AGTGGTGAAAGAAGTTAGAGGTGTTAAGGGGTGA
Found at i:11513 original size:19 final size:19
Alignment explanation
Indices: 11489--11537 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
11479 AATGTCGAGT
11489 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
11508 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
11527 TATTTTTGTAT
1 TAATTTTGTAT
11538 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:12484 original size:197 final size:199
Alignment explanation
Indices: 11654--13017 Score: 2602
Period size: 197 Copynumber: 6.9 Consensus size: 199
11644 CAATATGGCC
* *
11654 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
11719 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
11784 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
11849 TGGAA
195 TGGAA
11854 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
11919 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
11984 AATATGTCTAAATAATGTGTCGACACTAATATAGTTAGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12049 GGAA
196 GGAA
12053 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12118 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12182 AATATGTCTAAATAATGTGTCGACA-TAATATAGTTTGTGTCGATAC-TTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12245 GGAA
196 GGAA
12249 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12313 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12378 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12443 GG-A
196 GGAA
*
12446 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGACCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12511 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
12575 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCATAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12640 GG-A
196 GGAA
12643 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12708 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12773 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
12838 GGAA
196 GGAA
*
12842 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTTTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12906 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
12970 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
13018 AATTTAAATA
Statistics
Matches: 1149, Mismatches: 9, Indels: 15
0.98 0.01 0.01
Matches are distributed among these distances:
195 52 0.05
196 122 0.11
197 361 0.31
198 279 0.24
199 301 0.26
200 34 0.03
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (199 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAAT
GGAA
Found at i:12811 original size:395 final size:397
Alignment explanation
Indices: 11654--13017 Score: 2614
Period size: 395 Copynumber: 3.4 Consensus size: 397
11644 CAATATGGCC
* *
11654 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAATCATCGAAC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
11719 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
11784 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAA
11849 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
194 TGGAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
11914 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
259 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
*
11979 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTAGTGTCGATACTTTTTTCCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAA
12044 TGAATGGAA
389 TGAATGGAA
12053 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12118 CAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
12183 ATATGTCTAAATAATGTGTCGACA-TAATATAGTTTGTGTCGATAC-TTTTTCCCAGAATGAATG
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATG
12246 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
12310 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
12375 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
12440 AATGG-A
391 AATGGAA
*
12446 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGACCCCAAAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12511 CAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
*
12576 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCATAATGAATG
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATG
12641 G-AAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
12705 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
12770 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
12835 AATGGAA
391 AATGGAA
*
12842 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTTTCGATCCC-AAATCATCGAACC
1 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
12906 CAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
66 CAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
12971 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
131 ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACT
13018 AATTTAAATA
Statistics
Matches: 954, Mismatches: 7, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
393 154 0.16
394 217 0.23
395 360 0.38
396 71 0.07
397 66 0.07
398 52 0.05
399 34 0.04
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (397 bp):
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATGAATG
GAAAACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATACTTTTTTCCCAGAATG
AATGGAA
Found at i:14491 original size:3 final size:3
Alignment explanation
Indices: 14483--14557 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
14473 TGAAGCTGAC
* * * ** * *
14483 GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT GAC GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
14531 GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
14558 CCAAACAGTA
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.35, C:0.05, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:16058 original size:183 final size:183
Alignment explanation
Indices: 15750--16260 Score: 893
Period size: 183 Copynumber: 2.8 Consensus size: 183
15740 ACAAAGTTTC
* * *
15750 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAAT-GAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
* *
15814 AAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
66 AAAAAAGTGTCGACATT---TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAA
*
15877 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
15933 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
*
15998 AAAAAAGTGTCGACATTTACACATTGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
*
16063 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTTTATCG
131 AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
16116 ACACTTTCTAATATTGTGTCGGTACTTTATGTTCAGATTGGAAGAAAAATGTGTCGATACCATTT
1 ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
16181 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
66 AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
16246 AACCGGTATAAAAAT
131 AACCGGTATAAAAAT
16261 GTGTCGATAC
Statistics
Matches: 315, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
183 275 0.87
184 37 0.12
186 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (183 bp):
ACACTTTCTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTT
AAAAAAGTGTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAAAATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:16291 original size:21 final size:22
Alignment explanation
Indices: 16256--16296 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16246 AACCGGTATA
16256 AAAATGTGTCGATACCTTTTAT
1 AAAATGTGTCGATACCTTTTAT
* *
16278 AAAA-GTGTCTATACTTTTT
1 AAAATGTGTCGATACCTTTT
16297 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (22 bp):
AAAATGTGTCGATACCTTTTAT
Found at i:19445 original size:23 final size:23
Alignment explanation
Indices: 19414--19477 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
19404 ATAGGTAAAC
*
19414 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
19437 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
19460 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
19478 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:19484 original size:23 final size:23
Alignment explanation
Indices: 19414--19486 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
19404 ATAGGTAAAC
* **
19414 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
19437 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
19460 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
19483 ATAT
1 ATAT
19487 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:19873 original size:23 final size:23
Alignment explanation
Indices: 19842--19905 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
19832 ATAGGTAAAC
*
19842 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
19865 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
19888 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
19906 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:19912 original size:23 final size:23
Alignment explanation
Indices: 19842--19914 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
19832 ATAGGTAAAC
* **
19842 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
19865 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
19888 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
19911 ATAT
1 ATAT
19915 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:20113 original size:428 final size:429
Alignment explanation
Indices: 19316--20182 Score: 1652
Period size: 428 Copynumber: 2.0 Consensus size: 429
19306 AATTCGCAGT
19316 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
19380 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
19445 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
19510 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTGAGTGAGTTTTA
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTGAGTGAGTTTTA
*
19575 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGGTATATATTATTAT
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTAT
19640 TAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
326 TAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
19705 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
19744 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
19808 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
19873 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
19938 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC-TTTGAGTGAGTTTT
20002 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATT
260 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATTATT
* *
20067 ATTAAATT-AAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
324 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
*
20131 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
389 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
20172 ACACTGTTAAA
1 ACACTGTTAAA
20183 GTATCGATCC
Statistics
Matches: 432, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
427 35 0.08
428 334 0.77
429 63 0.15
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (429 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTGAGTGAGTTTTA
AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATTATTAT
TAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:22157 original size:16 final size:16
Alignment explanation
Indices: 22136--22184 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
22126 TAATAAATAA
*
22136 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
*
22152 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
22168 ACGATCATAAACGAAC
1 ACGAACATAAACGAAC
22184 A
1 A
22185 TAAACGTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.57, C:0.22, G:0.10, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:26478 original size:20 final size:20
Alignment explanation
Indices: 26453--26498 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
26443 CCATGGAAAC
* * *
26453 TATATACATATGTATGTATG
1 TATATACATATATATATATA
26473 TATATACATATATATATATA
1 TATATACATATATATATATA
26493 TATATA
1 TATATA
26499 TATGAGAGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (20 bp):
TATATACATATATATATATA
Found at i:26487 original size:4 final size:4
Alignment explanation
Indices: 26453--26501 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
26443 CCATGGAAAC
* * * * *
26453 TATA TACA TATG TATG TATG TATA TACA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
26501 T
1 T
26502 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (4 bp):
TATA
Found at i:26489 original size:6 final size:6
Alignment explanation
Indices: 26453--26501 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
26443 CCATGGAAAC
* * * * *
26453 TATATA CATATG TATGTA TGTATA TACATA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
26501 T
1 T
26502 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (6 bp):
TATATA
Found at i:30388 original size:21 final size:21
Alignment explanation
Indices: 30349--30422 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 21
30339 ACATAGAATA
* **
30349 TCCCGAAGGACTATATAGATG
1 TCCCGAAGGACCACGTAGATG
*
30370 TCTCGAAGGACCACGTAGAAATG
1 TCCCGAAGGACCACGTAG--ATG
*
30393 TCCCGGAGGACCACGTAGAATTG
1 TCCCGAAGGACCACGTAG-A-TG
30416 TCCCGAA
1 TCCCGAA
30423 AGATCGCGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 14 0.33
22 2 0.05
23 27 0.63
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (21 bp):
TCCCGAAGGACCACGTAGATG
Found at i:30402 original size:23 final size:23
Alignment explanation
Indices: 30367--30422 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
30357 GACTATATAG
*
30367 ATGTCTCGAAGGACCACGTAGAA
1 ATGTCCCGAAGGACCACGTAGAA
*
30390 ATGTCCCGGAGGACCACGTAGAA
1 ATGTCCCGAAGGACCACGTAGAA
*
30413 TTGTCCCGAA
1 ATGTCCCGAA
30423 AGATCGCGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (23 bp):
ATGTCCCGAAGGACCACGTAGAA
Found at i:30432 original size:23 final size:23
Alignment explanation
Indices: 30367--30435 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
30357 GACTATATAG
* *
30367 ATGTCTCGAAGGACCACGTAGAA
1 ATGTCCCGAAAGACCACGTAGAA
* *
30390 ATGTCCCGGAGGACCACGTAGAA
1 ATGTCCCGAAAGACCACGTAGAA
* * *
30413 TTGTCCCGAAAGATCGCGTAGAA
1 ATGTCCCGAAAGACCACGTAGAA
30436 CCCTCGACTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.32, C:0.23, G:0.28, T:0.17
Consensus pattern (23 bp):
ATGTCCCGAAAGACCACGTAGAA
Found at i:31318 original size:35 final size:35
Alignment explanation
Indices: 31272--31341 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
31262 CACTCTAAAA
31272 ATGGTACCGATACTTAT-A-TATTGGTATCGATACCC
1 ATGGTACCGATAC-TATCACT-TTGGTATCGATACCC
31307 ATGGTACCGATACTATCACTTTGGTATCGATACCC
1 ATGGTACCGATACTATCACTTTGGTATCGATACCC
31342 TATGAAGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 3 0.09
35 29 0.88
36 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (35 bp):
ATGGTACCGATACTATCACTTTGGTATCGATACCC
Found at i:33162 original size:35 final size:34
Alignment explanation
Indices: 33083--33162 Score: 81
Period size: 35 Copynumber: 2.3 Consensus size: 34
33073 TGCGAGAAGG
* * *
33083 TAATATTTCTATTTGGTTTTGATTTAAAATCTTAA
1 TAATATTT-TATTTGATTTTGATTAAAAATATTAA
*
33118 TTATAATTTTATTT-ATTTTGATTAAAAATAATTAA
1 TAAT-ATTTTATTTGATTTTGATTAAAAAT-ATTAA
33153 TGAATATTTT
1 T-AATATTTT
33163 TTAATTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
34 13 0.35
35 18 0.49
36 6 0.16
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (34 bp):
TAATATTTTATTTGATTTTGATTAAAAATATTAA
Found at i:34576 original size:20 final size:20
Alignment explanation
Indices: 34551--34588 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34541 AATTGATCCC
*
34551 CAACGGCTCCAAACAACCTT
1 CAACGGCTACAAACAACCTT
*
34571 CAACGGCTAGAAACAACC
1 CAACGGCTACAAACAACC
34589 ACAACAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.37, G:0.13, T:0.11
Consensus pattern (20 bp):
CAACGGCTACAAACAACCTT
Found at i:36331 original size:19 final size:19
Alignment explanation
Indices: 36295--36331 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36285 TGAAAATGAT
*
36295 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
36314 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
36332 AAGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:41356 original size:20 final size:20
Alignment explanation
Indices: 41331--41381 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
41321 CTTACTTTTG
41331 GTATCAGTACTATATGAACA
1 GTATCAGTACTATATGAACA
41351 GTATCAGTACTATATGAACA
1 GTATCAGTACTATATGAACA
*
41371 ATATCAGTACT
1 GTATCAGTACT
41382 GTTCATGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATCAGTACTATATGAACA
Found at i:42805 original size:19 final size:20
Alignment explanation
Indices: 42769--42806 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42759 TTCTAAATCA
**
42769 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATTAAATTTTG
42789 TTTTTCAAAA-TAAATTTT
1 TTTTTCAAAATTAAATTTT
42807 TGCTTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTTCAAAATTAAATTTTG
Found at i:44651 original size:20 final size:21
Alignment explanation
Indices: 44621--44660 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
44611 AGCCGTTGGG
44621 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
44642 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
44661 CTATGTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:55223 original size:30 final size:31
Alignment explanation
Indices: 55173--55230 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
55163 ATAAAATGGA
55173 AATATATATAAATTATATAATA-TAATTTTT
1 AATATATATAAATTATATAATATTAATTTTT
55203 AATATTATATAACA-TA-ATAATATTAATT
1 AATA-TATATAA-ATTATATAATATTAATT
55231 GAAACAGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
30 10 0.40
31 14 0.56
32 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
AATATATATAAATTATATAATATTAATTTTT
Found at i:58256 original size:11 final size:11
Alignment explanation
Indices: 58240--58277 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
58230 TTTAAGCTAC
58240 CTTAAGTTTTT
1 CTTAAGTTTTT
*
58251 CTTAAG-CTTT
1 CTTAAGTTTTT
58261 CTTAAGTTTTT
1 CTTAAGTTTTT
58272 CTTAAG
1 CTTAAG
58278 CTTTCTTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (11 bp):
CTTAAGTTTTT
Found at i:58261 original size:10 final size:10
Alignment explanation
Indices: 58248--58285 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
58238 ACCTTAAGTT
58248 TTTCTTAAGC
1 TTTCTTAAGC
*
58258 TTTCTTAAGTT
1 TTTCTTAAG-C
58269 TTTCTTAAGC
1 TTTCTTAAGC
58279 TTTCTTA
1 TTTCTTA
58286 TCACTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (10 bp):
TTTCTTAAGC
Found at i:58280 original size:21 final size:21
Alignment explanation
Indices: 58231--58285 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
58221 TCTTTGAGTT
**
58231 TTAAGCTACCTTAAGTTTTTC
1 TTAAGCTTTCTTAAGTTTTTC
58252 TTAAGCTTTCTTAAGTTTTTC
1 TTAAGCTTTCTTAAGTTTTTC
58273 TTAAGCTTTCTTA
1 TTAAGCTTTCTTA
58286 TCACTCCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (21 bp):
TTAAGCTTTCTTAAGTTTTTC
Found at i:62363 original size:85 final size:85
Alignment explanation
Indices: 62273--62517 Score: 321
Period size: 85 Copynumber: 2.9 Consensus size: 85
62263 GCTATACTGT
* *
62273 AAATTTGACATGCCCTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGACATATAGCCCTT
1 AAATTTGATATGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGACATATAGCCCTT
*
62338 TTCGCCTTGAGTTATGCTAC
66 CTCGCCTTGAGTTATGCTAC
* * * ** *
62358 GAATTTGATATGCCTTTGATCTGAATGCAATCGAACTCGAAGGTCTTTGCTGACATATAACCCTT
1 AAATTTGATATGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGACATATAGCCCTT
* **
62423 CTCGCCTTGATTTATGCTGT
66 CTCGCCTTGAGTTATGCTAC
* * * * * *
62443 AAATTTGATAGGCATTTGAGCTGAATGTAATTGAACTCGAA-GTCTTTATTGATAGATAGCCCTT
1 AAATTTGATATGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGACATATAGCCCTT
62507 CTCGCCTTGAG
66 CTCGCCTTGAG
62518 CTATACTGTA
Statistics
Matches: 136, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 28 0.21
85 108 0.79
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (85 bp):
AAATTTGATATGCCTTTGAGCTGAATGAAATCGAACTCGAAGGTCTTTATTGACATATAGCCCTT
CTCGCCTTGAGTTATGCTAC
Found at i:62930 original size:156 final size:156
Alignment explanation
Indices: 62646--62947 Score: 541
Period size: 156 Copynumber: 1.9 Consensus size: 156
62636 GCTCATTTAC
*
62646 TGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTGTGTAAGTT
1 TGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTATGTAAGTT
* * * *
62711 GCATTGTTTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCCGAATGAAACTGGAAAG
66 ACATTGTTTCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCCGAACGAAACGGGAAAG
62776 TTGTTTGTTGATAGACGCTCCTTCGT
131 TTGTTTGTTGATAGACGCTCCTTCGT
*
62802 TGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTATGTAAGTT
1 TGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTATGTAAGTT
*
62867 ACATTGTTTCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCTGAACGAAACGGGAAAG
66 ACATTGTTTCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCCGAACGAAACGGGAAAG
62932 TTGTTTGTTGATAGAC
131 TTGTTTGTTGATAGAC
62948 AATTTTTCTC
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
156 139 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (156 bp):
TGTGAAGTTGAGCATTGAATTGGATATCCTTCGTTATGAAGTTGAAATCCAATCTTATGTAAGTT
ACATTGTTTCGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGACTCCGAACGAAACGGGAAAG
TTGTTTGTTGATAGACGCTCCTTCGT
Found at i:63852 original size:96 final size:95
Alignment explanation
Indices: 63610--63856 Score: 296
Period size: 96 Copynumber: 2.6 Consensus size: 95
63600 GGCTAACTGG
* * * *
63610 ATCCATAAAGCCGGGGTGTTTAACCAATTACTCTAGAGGGATAGCTCAATATCATTGCATAGATA
1 ATCCATAAAGCAGGGGAGTTTAACCAATTTCTCTAGAGGGATAGCTC-A-AGC-TTGCATAGATA
63675 TTATAATCACCTTTATAAGGCTAGATGAATATT
63 TTATAATCACCTTTATAAGGCTAGATGAATATT
* * * * * * * * *
63708 ATTCATAAAGCAGGGGCGTTTAACAAATTTCTCTAGATGAATAACTCAAGCTTGTATATATTTTA
1 ATCCATAAAGCAGGGGAGTTTAACCAATTTCTCTAGAGGGATAGCTCAAGCTTGCATAGATATTA
* * *
63773 TAATCACCTTTATTAGGCTTAGCTGAATTTT
66 TAATCACCTTTATAAGGC-TAGATGAATATT
* *
63804 ATCCATAAAGCTGGGGAGTTTAACCAATTTCTCTAGAGGGACAGCTCAAGCTT
1 ATCCATAAAGCAGGGGAGTTTAACCAATTTCTCTAGAGGGATAGCTCAAGCTT
63857 TATTGTATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 28 0.22
96 57 0.46
97 1 0.01
98 39 0.31
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
ATCCATAAAGCAGGGGAGTTTAACCAATTTCTCTAGAGGGATAGCTCAAGCTTGCATAGATATTA
TAATCACCTTTATAAGGCTAGATGAATATT
Found at i:78435 original size:24 final size:24
Alignment explanation
Indices: 78408--78457 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
78398 TGGTGGTTGA
78408 TTTAATGGTTGT-TTGAACTTTATT
1 TTTAATGG-TGTATTGAACTTTATT
* *
78432 TTTAATGGTGTATTTAAGTTTATT
1 TTTAATGGTGTATTGAACTTTATT
78456 TT
1 TT
78458 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.60
Consensus pattern (24 bp):
TTTAATGGTGTATTGAACTTTATT
Found at i:82879 original size:2 final size:2
Alignment explanation
Indices: 82872--82918 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
82862 TTAAAATTAA
* *
82872 AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82914 AT AT A
1 AT AT A
82919 ATAAAACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:92241 original size:20 final size:19
Alignment explanation
Indices: 92195--92243 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
92185 ATGACCAACA
* *
92195 AATTCGCAACGCGATCTCG
1 AATTCGCAACGCGAACTCC
92214 AATTCGCAACGCGAACTCC
1 AATTCGCAACGCGAACTCC
92233 AATTTCGCAAC
1 AA-TTCGCAAC
92244 TCAGTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (19 bp):
AATTCGCAACGCGAACTCC
Found at i:92310 original size:21 final size:20
Alignment explanation
Indices: 92281--92319 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
92271 GTAAATCGCA
*
92281 TTGCAATTTTACGAATTCGAG
1 TTGCAATTTT-CAAATTCGAG
*
92302 TTGCGATTTTCAAATTCG
1 TTGCAATTTTCAAATTCG
92320 CAAAGCGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (20 bp):
TTGCAATTTTCAAATTCGAG
Found at i:92363 original size:20 final size:20
Alignment explanation
Indices: 92317--92363 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
92307 ATTTTCAAAT
*
92317 TCGCAAAGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
*
92337 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATATGTAAA
92357 TCGCAAC
1 TCGCAAC
92364 AAAGAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:92395 original size:20 final size:20
Alignment explanation
Indices: 92372--92463 Score: 62
Period size: 20 Copynumber: 4.5 Consensus size: 20
92362 ACAAAGAAGT
*
92372 CAAATTCGCAAAGCGATTTC
1 CAAATTCGCAAAGCGATTTA
* * * *
92392 CAAATGCACAACGTGATTTA
1 CAAATTCGCAAAGCGATTTA
*** *
92412 CAAATTCGCGTTGCAATTTA
1 CAAATTCGCAAAGCGATTTA
92432 CAAATTCGCAACA-CTGAATTT-
1 CAAATTCGCAA-AGC-G-ATTTA
92453 CAAATTCGCAA
1 CAAATTCGCAA
92464 CTCGATTTCT
Statistics
Matches: 53, Mismatches: 16, Indels: 5
0.72 0.22 0.07
Matches are distributed among these distances:
20 38 0.72
21 11 0.21
22 4 0.08
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAAAGCGATTTA
Found at i:92480 original size:20 final size:20
Alignment explanation
Indices: 92434--92500 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
92424 GCAATTTACA
* * *
92434 AATTCGCAACACTGAATTTCA
1 AATTCGCAACTC-GATTTTCG
92455 AATTCGCAACTCGA-TTTCTG
1 AATTCGCAACTCGATTTTC-G
*
92475 AATTCGCAACTCGGTTTTCG
1 AATTCGCAACTCGATTTTCG
92495 AATTCG
1 AATTCG
92501 TAACATGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.10
20 22 0.54
21 15 0.37
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (20 bp):
AATTCGCAACTCGATTTTCG
Found at i:92525 original size:20 final size:18
Alignment explanation
Indices: 92509--92543 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92499 CGTAACATGA
92509 ATTTTAATTTCGCAACAG
1 ATTTTAATTTCGCAACAG
* *
92527 GTTTTATTTTCGCAACA
1 ATTTTAATTTCGCAACA
92544 CAAATGTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (18 bp):
ATTTTAATTTCGCAACAG
Found at i:92702 original size:16 final size:16
Alignment explanation
Indices: 92681--92720 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
92671 TCCCCATCTC
*
92681 TAATTTTTTTTTTACA
1 TAATTTTTTTTCTACA
* *
92697 TAATTTTATTTCTATA
1 TAATTTTTTTTCTACA
92713 TAATTTTT
1 TAATTTTT
92721 CAAATATTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTTTTCTACA
Found at i:93505 original size:24 final size:24
Alignment explanation
Indices: 93473--93526 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
93463 GTATTCAAAA
*
93473 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
93497 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
93521 TTTGAT
1 TTTGAT
93527 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:95332 original size:63 final size:63
Alignment explanation
Indices: 95265--95396 Score: 192
Period size: 63 Copynumber: 2.1 Consensus size: 63
95255 AAAATCGCAA
* * * * * * *
95265 TGCGAATTTGACTTTCGCAACAATCGCAACGCGAAAATTGCAACGCGGATTTTACTTTCGCGT
1 TGCGAATTTGACTATCGCAACAATCGAAACGAGAAAATCGCAACACGAATTTGACTTTCGCGT
*
95328 TGCGAATTTGACTATCGCAACAATCGAAACGAGAAAATCGCAACACGAATTTGACTTTTGCGT
1 TGCGAATTTGACTATCGCAACAATCGAAACGAGAAAATCGCAACACGAATTTGACTTTCGCGT
95391 TGCGAA
1 TGCGAA
95397 AGTGTACCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (63 bp):
TGCGAATTTGACTATCGCAACAATCGAAACGAGAAAATCGCAACACGAATTTGACTTTCGCGT
Found at i:95851 original size:18 final size:18
Alignment explanation
Indices: 95830--95866 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
95820 GTAATTGGAG
95830 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
95848 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
95866 T
1 T
95867 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:95873 original size:24 final size:24
Alignment explanation
Indices: 95822--95874 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
95812 TTTCATATGT
* * *
95822 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
95846 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
95870 AATTT
1 AATTT
95875 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:97062 original size:18 final size:18
Alignment explanation
Indices: 97039--97074 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
97029 AAGCAAAAGG
*
97039 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
97057 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
97075 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:97279 original size:29 final size:29
Alignment explanation
Indices: 97246--97301 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
97236 AGATTTTTTG
97246 TTGCGATTGTTGCGAAAGTCAAATTCGTA
1 TTGCGATTGTTGCGAAAGTCAAATTCGTA
97275 TTGCGATTGTTGCGAAAGTCAAATTCG
1 TTGCGATTGTTGCGAAAGTCAAATTCG
97302 AAACGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (29 bp):
TTGCGATTGTTGCGAAAGTCAAATTCGTA
Found at i:97322 original size:13 final size:13
Alignment explanation
Indices: 97306--97330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
97296 AATTCGAAAC
97306 GTGAAATCGCAAT
1 GTGAAATCGCAAT
97319 GTGAAATCGCAA
1 GTGAAATCGCAA
97331 CGCGAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (13 bp):
GTGAAATCGCAAT
Found at i:97349 original size:20 final size:20
Alignment explanation
Indices: 97324--97383 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
97314 GCAATGTGAA
97324 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
97344 ATCGCAACGCGGATTTGACT
1 ATCGCAACGCGAATTTGACT
* ***
97364 TTCGCGTTGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
97384 TTTGCGTTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:97384 original size:20 final size:20
Alignment explanation
Indices: 97332--97396 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
97322 AAATCGCAAC
* ***
97332 GCGAATTTGACTATCGCAAC
1 GCGAATTTGACTTTCGCGTT
*
97352 GCGGATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
*
97372 GCGAATTTGACTTTTGCGTT
1 GCGAATTTGACTTTCGCGTT
97392 GCGAA
1 GCGAA
97397 AGTGTACCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCGTT
Found at i:97525 original size:14 final size:14
Alignment explanation
Indices: 97506--97539 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
97496 CATCAATTAA
97506 ACAAATCAACTTTT
1 ACAAATCAACTTTT
97520 ACAAATCAACTTTT
1 ACAAATCAACTTTT
97534 ACAAAT
1 ACAAAT
97540 ACATCAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:98925 original size:21 final size:21
Alignment explanation
Indices: 98901--98986 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
98891 GATCGGTGGG
*
98901 AGAGACCTCTTGAACGATGAC
1 AGAGGCCTCTTGAACGATGAC
* *
98922 AGAGGCCTCTTGAAGGATGAT
1 AGAGGCCTCTTGAACGATGAC
*
98943 A-AGGGCCTCTTGAACGAT-AGG
1 AGA-GGCCTCTTGAACGATGA-C
*
98964 AGAGGCCTCTTGAATGATGAC
1 AGAGGCCTCTTGAACGATGAC
98985 AG
1 AG
98987 GTGAATCGGG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 2 0.04
21 50 0.93
22 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (21 bp):
AGAGGCCTCTTGAACGATGAC
Found at i:99319 original size:63 final size:62
Alignment explanation
Indices: 99250--99371 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 62
99240 CGTAGAGCGG
* *
99250 CTACCTCATCACGTAAAGTA-GATACCTCACCACGTAAAGCACCATTGTCATCACGTAAAACCT
1 CTACCTCACCACGTAAAG-ACG-TACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACCT
* * * * *
99313 CTACCTCACCATGTAAAGACCGTACCTCATCACGCCATGCACCATTGTCTTCACGTAAA
1 CTACCTCACCACGTAAAGA-CGTACCTCACCACGCAAAGCACCATTGTCATCACGTAAA
99372 GTACTGACCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.02
63 48 0.96
64 1 0.02
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.23
Consensus pattern (62 bp):
CTACCTCACCACGTAAAGACGTACCTCACCACGCAAAGCACCATTGTCATCACGTAAAACCT
Found at i:101469 original size:22 final size:22
Alignment explanation
Indices: 101443--101489 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
101433 GAGATAGATA
101443 GATTTCGTCAGAGATGGGGACG
1 GATTTCGTCAGAGATGGGGACG
*
101465 GATTTCGTCGGAGATGGGGACG
1 GATTTCGTCAGAGATGGGGACG
101487 GAT
1 GAT
101490 GTCGCCGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (22 bp):
GATTTCGTCAGAGATGGGGACG
Found at i:101498 original size:22 final size:22
Alignment explanation
Indices: 101453--101500 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
101443 GATTTCGTCA
* *
101453 GAGATGGGGACGGATTTCGTCG
1 GAGATGGGGACGGATGTCGCCG
101475 GAGATGGGGACGGATGTCGCCG
1 GAGATGGGGACGGATGTCGCCG
101497 GAGA
1 GAGA
101501 GAGTGAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.48, T:0.17
Consensus pattern (22 bp):
GAGATGGGGACGGATGTCGCCG
Found at i:101669 original size:20 final size:20
Alignment explanation
Indices: 101644--101692 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
101634 TAAACGCGCT
101644 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
101664 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
101684 CTGCGAATT
1 TTGCGAATT
101693 ACGGATTCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:101708 original size:20 final size:20
Alignment explanation
Indices: 101685--101759 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
101675 ACTTCTGTGC
*
101685 TGCGAATTACGGATTCGCGT
1 TGCGAATTACAGATTCGCGT
*
101705 TGCGAATTACGGATTCGCGT
1 TGCGAATTACAGATTCGCGT
*
101725 TGCGATTTACAGATTCGCGT
1 TGCGAATTACAGATTCGCGT
*
101745 TGCGATTTACAGATT
1 TGCGAATTACAGATT
101760 ATCGCAACGC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (20 bp):
TGCGAATTACAGATTCGCGT
Done.