Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002716.1 Hibiscus syriacus cultivar Beakdansim tig00005605_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: 118769
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Found at i:1728 original size:47 final size:48
Alignment explanation
Indices: 1658--1749 Score: 134
Period size: 47 Copynumber: 1.9 Consensus size: 48
1648 TTTAATTCGC
* *
1658 TTTCTGAATAAATGCATGCGAACTAGAGATCATTAGGTTAGGTTTATT
1 TTTCTGAATAAATGCATGCGAACTAGAGAGCATGAGGTTAGGTTTATT
*
1706 TTTCTTGAAT-AAT-CATGCGAACTAGATAGCATGAGGTTAGGTTT
1 TTTC-TGAATAAATGCATGCGAACTAGAGAGCATGAGGTTAGGTTT
1750 TTTATGTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 28 0.70
48 7 0.17
49 5 0.12
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (48 bp):
TTTCTGAATAAATGCATGCGAACTAGAGAGCATGAGGTTAGGTTTATT
Found at i:14655 original size:65 final size:65
Alignment explanation
Indices: 14586--14713 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 65
14576 ACTAATTACA
* * * *
14586 TTCGATGATTCAAAAGAGCCATGAGTGCATTGATGCATGG-TCTGTGCATCGGTACACAAAATGG
1 TTCGATGATTAAAAAGAGCCAAGAGTGCATCGATGCATGGCT-TGTACATCGGTACACAAAATGG
14650 G
65 G
* * ** *
14651 TTCGATGTTTAAAAATATTCAAGAGTGCATCGATGCATGGCTTGTACATTGGTACACAAAATG
1 TTCGATGATTAAAAAGAGCCAAGAGTGCATCGATGCATGGCTTGTACATCGGTACACAAAATG
14714 CATTCGAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 52 0.98
66 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (65 bp):
TTCGATGATTAAAAAGAGCCAAGAGTGCATCGATGCATGGCTTGTACATCGGTACACAAAATGGG
Found at i:16388 original size:20 final size:20
Alignment explanation
Indices: 16350--16387 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16340 AAAATACAGT
16350 GAAGGGATCGATCCGTTTTG
1 GAAGGGATCGATCCGTTTTG
*
16370 GAAGGGGTCGATCC-TTTT
1 GAAGGGATCGATCCGTTTT
16388 TCACGGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
GAAGGGATCGATCCGTTTTG
Found at i:21984 original size:55 final size:57
Alignment explanation
Indices: 21901--22006 Score: 180
Period size: 55 Copynumber: 1.9 Consensus size: 57
21891 ATGGCACTAA
*
21901 GTGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTTT
1 GTGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTACGTATGGGCACTTT
*
21958 GTGTGC-AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
1 GTGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTACGTATGGG
22007 AAATATATGT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
55 36 0.77
56 5 0.11
57 6 0.13
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (57 bp):
GTGTGCAAAAACTTAAGAAATTCATACTAAGTGTATGAATTTACGTATGGGCACTTT
Found at i:22421 original size:81 final size:81
Alignment explanation
Indices: 22294--22658 Score: 516
Period size: 81 Copynumber: 4.5 Consensus size: 81
22284 GAGGCCTAAT
*
22294 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
*
22359 AGAATAGTGGCCTAGC
66 AGAATAATGGCCTAGC
* * * * *
22375 TGTGCATTTGGTAGAAAGGTTTCAATTATGCCACTTAGATGAACGGTTAAATACTGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
*
22440 AGAATAATGGCCTAGT
66 AGAATAATGGCCTAGC
* * * *
22456 TGTTCATTTGGAAGAAAGGTGTCAATTATGCCAATTAGATGAACAGTTAAATATCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
*
22521 AGAATAATGGCCTAGT
66 AGAATAATGGCCTAGC
* ** * * *
22537 TGTGCATTTGGCAAAAATATGTCAATTATGTCAGTTATATGAACAGTTAAATATCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
*
22602 AG-ATAAATGACCTAGC
66 AGAAT-AATGGCCTAGC
* *
22618 TGTGCAATTGGCAGAAAGGTGTCAATTATGCTAGTTAGATG
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
22659 CTCTGTTGTT
Statistics
Matches: 253, Mismatches: 30, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
80 2 0.01
81 251 0.99
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.31
Consensus pattern (81 bp):
TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
AGAATAATGGCCTAGC
Found at i:24436 original size:16 final size:16
Alignment explanation
Indices: 24415--24447 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24405 AATGTTAGAA
*
24415 ATCGAAACAAGTGATT
1 ATCGAAACAAATGATT
24431 ATCGAAACAAATGATT
1 ATCGAAACAAATGATT
24447 A
1 A
24448 CCTACAGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (16 bp):
ATCGAAACAAATGATT
Found at i:26442 original size:17 final size:18
Alignment explanation
Indices: 26412--26454 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
26402 TTCGTTTTCA
26412 TTTT-TTTTTGGATTT-T
1 TTTTATTTTTGGATTTGT
26428 TTTCTATTTTT-GATTTGT
1 TTT-TATTTTTGGATTTGT
26446 TTTTATTTT
1 TTTTATTTT
26455 ATTTTTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 9 0.38
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.79
Consensus pattern (18 bp):
TTTTATTTTTGGATTTGT
Found at i:26540 original size:20 final size:20
Alignment explanation
Indices: 26498--26540 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26488 AATTGAAATT
* *
26498 AAAATTGAAACAAAACTGAA
1 AAAATTGAAAAAAAACCGAA
26518 AAAATTGAAAAAGAAACCGAA
1 AAAATTGAAAAA-AAACCGAA
26539 AA
1 AA
26541 TGATTAACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.67, C:0.09, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAATTGAAAAAAAACCGAA
Found at i:33426 original size:17 final size:17
Alignment explanation
Indices: 33404--33437 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33394 AGTATCAATT
*
33404 ATGACATCTCAATGTCA
1 ATGACAACTCAATGTCA
*
33421 ATGACAACTCATTGTCA
1 ATGACAACTCAATGTCA
33438 TCAATCAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (17 bp):
ATGACAACTCAATGTCA
Found at i:33637 original size:13 final size:14
Alignment explanation
Indices: 33605--33641 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
33595 AATGTATTTA
33605 TTCAATA-AATATG
1 TTCAATACAATATG
*
33618 TTAAATACAATATG
1 TTCAATACAATATG
33632 -TCAATACAAT
1 TTCAATACAAT
33642 CATCATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (14 bp):
TTCAATACAATATG
Found at i:37094 original size:24 final size:24
Alignment explanation
Indices: 37062--37108 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
37052 GTCATCCACC
37062 ACATTCTCTTTCCCTGGATGATAT
1 ACATTCTCTTTCCCTGGATGATAT
37086 ACATTCTCTTTCCCTGGATGATA
1 ACATTCTCTTTCCCTGGATGATA
37109 CTCGATTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (24 bp):
ACATTCTCTTTCCCTGGATGATAT
Found at i:41590 original size:228 final size:228
Alignment explanation
Indices: 41163--41879 Score: 1296
Period size: 228 Copynumber: 3.1 Consensus size: 228
41153 GTTATATTGT
* * * *
41163 AAAGTATCTATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
41227 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
*
41292 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
41357 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
41391 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
41456 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
41521 TAATTTTTTGTGTAAATGAAATT-CTAAA-TAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT--
41584 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
194 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
41619 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATATATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
* *
41684 ATATTTGGTTAATATCGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
41749 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
41814 AAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
41847 AAAGTATATATCATTTTTATAAAAGTGTCCATA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATA
41880 TGTATAAAAG
Statistics
Matches: 473, Mismatches: 11, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
226 33 0.07
227 4 0.01
228 328 0.69
229 75 0.16
230 33 0.07
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:41952 original size:20 final size:19
Alignment explanation
Indices: 41929--41975 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
41919 CGATATACCT
41929 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
41949 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
41969 GGTAAAA
1 GGTAAAA
41976 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:42158 original size:17 final size:19
Alignment explanation
Indices: 42119--42161 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
42109 AGGTTAAAAT
42119 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
42139 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
42156 ATGATA
1 ATGATA
42162 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:44379 original size:21 final size:21
Alignment explanation
Indices: 44355--44398 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
44345 AAGACAATCA
44355 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
44376 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
44397 AG
1 AG
44399 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:44474 original size:33 final size:33
Alignment explanation
Indices: 44432--44497 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
44422 AAATAGATGG
*
44432 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
44465 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
44498 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:46314 original size:19 final size:19
Alignment explanation
Indices: 46290--46338 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
46280 AATGTAGGGT
46290 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
46309 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
46328 TATTTTTGTAT
1 TAATTTTGTAT
46339 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:46798 original size:199 final size:199
Alignment explanation
Indices: 46457--47805 Score: 2445
Period size: 199 Copynumber: 6.9 Consensus size: 199
46447 CAATATGGCC
* * *
46457 AACAGGGTGCAACCATAAAGTGTCGATCGATATACAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
46522 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
46587 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCTAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
46652 TGGAA
195 TGGAA
46657 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
46722 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
46787 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
46852 GGAA
196 GGAA
46856 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
46921 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
46986 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
47050 GGAA
196 GGAA
*
47054 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
47119 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
47184 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
47249 GGAA
196 GGAA
47253 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
47318 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
47383 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
47448 GGAA
196 GGAA
* *
47452 AACAGGGTGCAACCATAAAGTGTCGATCC-----CAAAAA----C-AT--C---GA-A-C---CC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
47497 AA-AAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
47561 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
47626 GGAA
196 GGAA
47630 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
47695 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
47760 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA
47806 CTAATTTAAA
Statistics
Matches: 1113, Mismatches: 14, Indels: 45
0.95 0.01 0.04
Matches are distributed among these distances:
178 159 0.14
179 3 0.00
182 1 0.00
183 6 0.01
184 1 0.00
187 2 0.00
188 2 0.00
189 2 0.00
190 2 0.00
193 1 0.00
194 6 0.01
195 1 0.00
198 200 0.18
199 668 0.60
200 59 0.05
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAA
Found at i:47192 original size:397 final size:397
Alignment explanation
Indices: 46457--47805 Score: 2461
Period size: 397 Copynumber: 3.4 Consensus size: 397
46447 CAATATGGCC
* * *
46457 AACAGGGTGCAACCATAAAGTGTCGATCGATATACAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
46522 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
46587 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCTAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
46652 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
195 TGGAAAACA-GGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
46717 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
259 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
46782 GAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAA
46847 TGAATGGAA
389 TGAATGGAA
46856 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
46921 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
46986 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
47050 GGAAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
196 GGAAAACA-GGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
47115 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
47180 AGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAAT
47245 GAATGGAA
390 GAATGGAA
47253 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
47318 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
47383 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
*
47448 GGAAAACA-G-G----------GTG-C-AACC----AT--AAAGTGTCGATCCCAAAAACATCGA
196 GGAAAACAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
47493 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
*
47558 GAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGGTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATG
47623 AATGGAA
391 AATGGAA
47630 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
47695 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
47760 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA
47806 CTAATTTAAA
Statistics
Matches: 941, Mismatches: 8, Indels: 24
0.97 0.01 0.02
Matches are distributed among these distances:
377 336 0.36
379 2 0.00
383 3 0.00
384 1 0.00
385 3 0.00
395 1 0.00
396 1 0.00
397 395 0.42
398 140 0.15
399 59 0.06
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (397 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAAAACAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATG
AATGGAA
Found at i:47519 original size:178 final size:178
Alignment explanation
Indices: 47290--47805 Score: 816
Period size: 178 Copynumber: 2.8 Consensus size: 178
47280 CCATATATAA
47290 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
47355 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTT
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTT
*
47420 GTGTCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCAT
131 GTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
47468 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
47533 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTT
66 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTT
47598 GTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
131 GTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
*
47646 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAA
1 AAAGTGTCGATCC--------CAA------A----A---ACATCGAACCCAAAAGTATAATGTAA
*
47711 TATGTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTTATGAGAGAATATGTCTAAATAAT
45 TATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAAT
47776 GTGTCGACACTATTTTAGTTTGTGTCGATA
110 GTGTCGACACTATTTTAGTTTGTGTCGATA
47806 CTAATTTAAA
Statistics
Matches: 314, Mismatches: 3, Indels: 21
0.93 0.01 0.06
Matches are distributed among these distances:
178 190 0.61
186 2 0.01
192 1 0.00
196 1 0.00
199 120 0.38
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (178 bp):
AAAGTGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTT
GTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCAT
Found at i:49292 original size:18 final size:18
Alignment explanation
Indices: 49271--49350 Score: 90
Period size: 18 Copynumber: 4.4 Consensus size: 18
49261 AGCGGTCGCA
49271 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
49289 GAAGATGATGATGATGAT
1 GAAGATGAAGCTGACGAT
*
49307 GACGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
*
49325 GAAGATGATGAC-GACGAT
1 GAAGATGAAG-CTGACGAT
*
49343 GATGATGA
1 GAAGATGA
49351 TGATGAAGAT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
18 50 0.98
19 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.20
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:49295 original size:6 final size:6
Alignment explanation
Indices: 49271--49362 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
49261 AGCGGTCGCA
* * * * * *
49271 GAAGAT GAAGCT GACGAT GAAGAT GATGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * *
49319 GACGAT GAAGAT GATGAC GACGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
49363 TGATCCAAAC
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:49300 original size:3 final size:3
Alignment explanation
Indices: 49286--49366 Score: 81
Period size: 3 Copynumber: 27.0 Consensus size: 3
49276 TGAAGCTGAC
* * * * * *
49286 GAT GAA GAT GAT GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * *
49334 GAC GAC GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
49367 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:49321 original size:36 final size:36
Alignment explanation
Indices: 49274--49350 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
49264 GGTCGCAGAA
* *
49274 GATGAAGCTGACGATGAAGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGATGACGACGATGAC
*
49310 GATGAAGCTGACGATGAAGATGATGACGACGATGAT
1 GATGAAGCTGACGATGAAGATGATGACGACGATGAC
49346 GATGA
1 GATGA
49351 TGATGAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGATGACGACGATGAC
Found at i:49366 original size:12 final size:12
Alignment explanation
Indices: 49274--49362 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
49264 GGTCGCAGAA
*
49274 GATGAAGCTGAC
1 GATGAAGATGAC
*
49286 GATGAAGATGAT
1 GATGAAGATGAC
*
49298 GATGATGATGAC
1 GATGAAGATGAC
*
49310 GATGAAGCTGAC
1 GATGAAGATGAC
*
49322 GATGAAGATGAT
1 GATGAAGATGAC
* * *
49334 GACGACGATGAT
1 GATGAAGATGAC
* *
49346 GATGATGATGAA
1 GATGAAGATGAC
49358 GATGA
1 GATGA
49363 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 64 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:50453 original size:39 final size:39
Alignment explanation
Indices: 50410--50496 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
50400 TCCGATGCTC
* *
50410 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATCCCAAGCAAAAGGAA
*
50449 ATCAAAATCCAAATCTCATATGATCCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATCCCAAGCAAAAGGAA
50488 ATCAAAATC
1 ATCAAAATC
50497 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.48, C:0.22, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATCCCAAGCAAAAGGAA
Found at i:50948 original size:23 final size:23
Alignment explanation
Indices: 50917--50989 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
50907 ATAGGTAAAA
*
50917 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
50940 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
50963 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
50986 ATAT
1 ATAT
50990 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:51379 original size:23 final size:23
Alignment explanation
Indices: 51348--51420 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
51338 ATAGGTAAAA
*
51348 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
51371 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
51394 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
51417 ATAT
1 ATAT
51421 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:51810 original size:23 final size:23
Alignment explanation
Indices: 51779--51851 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
51769 ATAGGTAAAA
*
51779 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
51802 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
51825 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
51848 ATAT
1 ATAT
51852 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:52239 original size:23 final size:23
Alignment explanation
Indices: 52208--52280 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
52198 ATAGGTAAAA
*
52208 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* **
52231 ATATAATGTAATAGGTATCTTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
52254 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
52277 ATAT
1 ATAT
52281 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:52388 original size:429 final size:431
Alignment explanation
Indices: 50715--53058 Score: 4362
Period size: 431 Copynumber: 5.5 Consensus size: 431
50705 GTTAATGTTG
* *
50715 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
50779 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTAAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
50843 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
50908 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
50973 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
51038 TGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
51103 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
51144 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAG
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
51209 ATGAAATTATTAAATTAATATTGTAGGTGGATAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
51274 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTTAATGTAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
51339 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
51404 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACCG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
51469 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
51534 CGTCTAATGATTTATTTTTTACGTTATGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
51575 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATATTTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
51640 ATGAAATTACTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
51705 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
51770 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
*
51835 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACCG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
51900 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
51965 CGTCTAATGATTTATTTTTTACGTTATGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
52006 TTAAATTAAAAATTCTAAATAATA-TTTATAAAATATCAAAACAATCAAATATTTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
52070 ATGAAATTACTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
52134 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
*
52199 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCTTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
52264 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTCTATAAAAGTGTCCATACTCTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
52329 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTAAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
52394 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
52435 TTAAATTAAAAATTCTAAATAATATTTT-TTAAATATCAAAACAATC-AATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
52498 ATG-AATTATT-AATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
52561 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
* *
52626 TAGGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTA
196 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
52691 ATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
261 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
52756 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
326 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
52821 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
* *
52862 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATGAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
52927 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
52992 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
131 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
53057 TA
196 TA
53059 TAATGTAATA
Statistics
Matches: 1867, Mismatches: 40, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
426 36 0.02
427 341 0.18
428 35 0.02
429 379 0.20
430 198 0.11
431 878 0.47
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:52434 original size:860 final size:861
Alignment explanation
Indices: 50715--53058 Score: 4360
Period size: 856 Copynumber: 2.7 Consensus size: 861
50705 GTTAATGTTG
* *
50715 TTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
50779 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTAAAACAT
66 ATGAAATTA-TAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
50843 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
50908 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
50973 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
51038 TGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
51103 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
*
51168 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAGATGAAATTATTAAATTAATATTGT
455 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
*
51233 AGGTGGATAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
520 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
* *
51298 ATCGATCCTTTTTATAAAAAGTATGGACACTTTTAATGTAATAGGTAAAAATATGATGTAATAGG
585 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
51363 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
650 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
* *
51428 TGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACCGTGGAAAACATTAATTTAAGGTTAT
715 TGTCTATCCTTTCTATAAAAGTGTCCATACTCTTTTCACCGTGGAAAACATTAATTTAAGGTTAT
*
51493 CTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
780 CTTTTGAGTGAGTTTTAAGATATTAATTAAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
*
51558 TATGATATATATTATTA
845 TACGATATATATTATTA
*
51575 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATATTTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
51640 ATGAAATTACTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
66 ATGAAATTA-TAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
51705 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAA
51770 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
51835 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACCG
260 ATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
51900 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
51965 CGTCTAATGATTTATTTTTTACGTTATGATATATATTATTATTAAATTAAAAATTCTAAATAATA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA
* *
52030 -TTTATAAAATATCAAAACAATCAAATATTTTTTTGTGCAAATGAAATTACTAAATTAATATTGT
455 TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGT
52094 AGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
520 AGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGT
52158 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
585 ATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGG
*
52223 TAGCGCTTATATAATGTAATAGGTATCTTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
650 TAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAG
*
52288 TGTCTATCCTTTCTATAAAAGTGTCCATACTCTTTTCACTGTGGAAAACATTAATTTAAGGTTAT
715 TGTCTATCCTTTCTATAAAAGTGTCCATACTCTTTTCACCGTGGAAAACATTAATTTAAGGTTAT
52353 CTTTTGAGTGAGTTTTAAGATATTAATTAAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
780 CTTTTGAGTGAGTTTTAAGATATTAATTAAGTAATTATAGGCGTCTAATGATTTATTTTTTACGT
52418 TACGATATATATTATTA
845 TACGATATATATTATTA
*
52435 TTAAATTAAAAATTCTAAATAATATTTT-TTAAATATCAAAACAATC-AATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
52498 ATG-AATTATTAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 ATGAAATTATAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
52562 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
* *
52627 AGGTAAAAATATGATGTATTAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
52692 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
52757 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
52822 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTAT
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
*
52887 TTTATAAAATATGAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
456 TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
52952 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
521 GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
53017 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
586 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
53059 TAATGTAATA
Statistics
Matches: 1444, Mismatches: 36, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
856 371 0.26
857 90 0.06
858 102 0.07
859 17 0.01
860 344 0.24
861 184 0.13
862 336 0.23
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (861 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATAT
TTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTA
GGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTA
TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
AGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGT
GTCTATCCTTTCTATAAAAGTGTCCATACTCTTTTCACCGTGGAAAACATTAATTTAAGGTTATC
TTTTGAGTGAGTTTTAAGATATTAATTAAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
ACGATATATATTATTA
Found at i:52666 original size:23 final size:23
Alignment explanation
Indices: 52635--52707 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
52625 ATAGGTAAAA
* *
52635 ATATGATGTATTAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
52658 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
52681 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
52704 ATAT
1 ATAT
52708 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:64728 original size:19 final size:19
Alignment explanation
Indices: 64704--64740 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
64694 ATTAAAAAGT
64704 CATTTAATTAGTTATAAGG
1 CATTTAATTAGTTATAAGG
64723 CATTTAATTAGTTATAAG
1 CATTTAATTAGTTATAAG
64741 AAAATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (19 bp):
CATTTAATTAGTTATAAGG
Found at i:73766 original size:8 final size:7
Alignment explanation
Indices: 73731--73783 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 7
73721 TCTTTTTGAA
73731 TTTC-TT
1 TTTCTTT
73737 TTTCTTT
1 TTTCTTT
73744 TCTTCTTT
1 T-TTCTTT
73752 TCTTCTTT
1 T-TTCTTT
73760 TTGTCTTT
1 TT-TCTTT
*
73768 TTT-TTC
1 TTTCTTT
73774 TTTCTTT
1 TTTCTTT
73781 TTT
1 TTT
73784 GCACTCCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
6 9 0.22
7 10 0.24
8 22 0.54
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:73772 original size:33 final size:31
Alignment explanation
Indices: 73717--73783 Score: 82
Period size: 34 Copynumber: 2.1 Consensus size: 31
73707 CTTGGCTTGC
73717 TTTCTCTTTTTGAATTTCTTTTTCTTTTCTTCT
1 TTTCTCTTTTTGAATTTCTTTTTC-TTTCTT-T
**
73750 TTTCTTCTTTTTGTCTTT-TTTTTCTTTCTTT
1 TTTC-TCTTTTTGAATTTCTTTTTCTTTCTTT
73781 TTT
1 TTT
73784 GCACTCCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.13
32 6 0.19
33 10 0.32
34 11 0.35
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (31 bp):
TTTCTCTTTTTGAATTTCTTTTTCTTTCTTT
Found at i:73783 original size:11 final size:11
Alignment explanation
Indices: 73731--73783 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
73721 TCTTTTTGAA
73731 TTTC-TTTTTC
1 TTTCTTTTTTC
73741 TTTTCTTCTTTTC
1 -TTTCTT-TTTTC
73754 -TTCTTTTTGTC
1 TTTCTTTTT-TC
73765 -TT-TTTTTTC
1 TTTCTTTTTTC
73774 TTTCTTTTTT
1 TTTCTTTTTT
73784 GCACTCCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.05
10 10 0.27
11 19 0.51
12 1 0.03
13 5 0.14
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:74042 original size:21 final size:22
Alignment explanation
Indices: 74018--74062 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
74008 TAAGAAAGGA
*
74018 ATAATAAATGAAAT-AATAAAG
1 ATAAGAAATGAAATAAATAAAG
74039 ATAAGAAATGAAATGAAATAAAG
1 ATAAGAAATGAAAT-AAATAAAG
74062 A
1 A
74063 AGGGATAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
23 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (22 bp):
ATAAGAAATGAAATAAATAAAG
Found at i:79568 original size:2 final size:2
Alignment explanation
Indices: 79561--79596 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
79551 TTAAAAAGTA
79561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79597 TATTCATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82513 original size:30 final size:30
Alignment explanation
Indices: 82494--82560 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
82484 TTTTTTTCCA
82494 TAAACTTCTCCAAATTTATAATTTAGCCAC
1 TAAACTTCTCCAAATTTATAATTTAGCCAC
* *
82524 TATACTTCTCCAAATTTATACTTTAGCCAC
1 TAAACTTCTCCAAATTTATAATTTAGCCAC
82554 TAAACTT
1 TAAACTT
82561 TAAAAACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAACTTCTCCAAATTTATAATTTAGCCAC
Found at i:92415 original size:25 final size:25
Alignment explanation
Indices: 92387--92452 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 25
92377 CACTAGGTAC
*
92387 CTAGCTAACTACCTACA-CTACCTAG
1 CTAGCTAACTACCTA-AGCTACATAG
92412 CTAG-T---TACCTAAGCTACATAG
1 CTAGCTAACTACCTAAGCTACATAG
* *
92433 CTAGCTAACCACCTATGCTA
1 CTAGCTAACTACCTAAGCTA
92453 GCTTCTTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
20 1 0.03
21 17 0.52
22 1 0.03
24 1 0.03
25 13 0.39
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.26
Consensus pattern (25 bp):
CTAGCTAACTACCTAAGCTACATAG
Found at i:92420 original size:21 final size:21
Alignment explanation
Indices: 92384--92439 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
92374 CGACACTAGG
*
92384 TACCTAGCTAACTACCTACA-C
1 TACCTAGCTAGCTACCTA-AGC
*
92405 TACCTAGCTAGTTACCTAAGC
1 TACCTAGCTAGCTACCTAAGC
*
92426 TACATAGCTAGCTA
1 TACCTAGCTAGCTA
92440 ACCACCTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (21 bp):
TACCTAGCTAGCTACCTAAGC
Found at i:92607 original size:20 final size:21
Alignment explanation
Indices: 92570--92611 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
92560 CTACCATATG
*
92570 ATTCATTAATATGGCATGTGC
1 ATTCATTAATAAGGCATGTGC
92591 ATTCATTAA-AAGGCATGTGC
1 ATTCATTAATAAGGCATGTGC
92611 A
1 A
92612 CTCTTTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
ATTCATTAATAAGGCATGTGC
Found at i:103672 original size:21 final size:21
Alignment explanation
Indices: 103646--103690 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
103636 GCCACCTATT
*
103646 AAAATT-AAATTATTAATTTCC
1 AAAATTAAAATTAATAA-TTCC
103667 AAAATTAAAATTAATAATTCC
1 AAAATTAAAATTAATAATTCC
103688 AAA
1 AAA
103691 CCATTTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTAAAATTAATAATTCC
Found at i:111371 original size:22 final size:21
Alignment explanation
Indices: 111343--111398 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
111333 ACTGAAAGGG
*
111343 AGTATCGATACCATAATATAGA
1 AGTATCGATACCATAAGATA-A
111365 AGTATCGATA-C-TAAGATAA
1 AGTATCGATACCATAAGATAA
111384 AGGTATCGATACCAT
1 A-GTATCGATACCAT
111399 GAATTACAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 2 0.07
22 11 0.37
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (21 bp):
AGTATCGATACCATAAGATAA
Found at i:111428 original size:34 final size:34
Alignment explanation
Indices: 111385--111463 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
111375 CTAAGATAAA
*
111385 GGTATCGATACCATGAATTACAGAATATAGAAAT
1 GGTATCGATACAATGAATTACAGAATATAGAAAT
* *
111419 GGTATCGATACAATGAATTATAGAATGTAGAAAT
1 GGTATCGATACAATGAATTACAGAATATAGAAAT
111453 GGTATCGATAC
1 GGTATCGATAC
111464 TAGAAAGGCG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (34 bp):
GGTATCGATACAATGAATTACAGAATATAGAAAT
Found at i:111921 original size:45 final size:46
Alignment explanation
Indices: 111872--111995 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 46
111862 GTTTTCATTA
*
111872 CATAAATGAAATGCATAACGATGCATTAAAGGCATTAAAAAAAT-T
1 CATAAATGAAATGCATAACGATGCATTAAAGGCATTAAAAAAATGC
* * **
111917 CATAAATGAAATGCATAACGGTGCATTAAAGGCA-TGAAAGGATGC
1 CATAAATGAAATGCATAACGATGCATTAAAGGCATTAAAAAAATGC
*
111962 CAT-GATGAAATGCATAAC-AGTGCATTAAAGGCAT
1 CATAAATGAAATGCATAACGA-TGCATTAAAGGCAT
111996 GAAAGGATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 33 0.48
45 36 0.52
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (46 bp):
CATAAATGAAATGCATAACGATGCATTAAAGGCATTAAAAAAATGC
Found at i:111985 original size:44 final size:44
Alignment explanation
Indices: 111872--112016 Score: 186
Period size: 44 Copynumber: 3.2 Consensus size: 44
111862 GTTTTCATTA
* ** *
111872 CATAAATGAAATGCATAACGATGCATTAAAGGCATTAAAAAAAT-T
1 CATAAATGAAATGCATAACG-TGCATTAAAGGCA-TGAAAGGATGC
111917 CATAAATGAAATGCATAACGGTGCATTAAAGGCATGAAAGGATGC
1 CATAAATGAAATGCATAAC-GTGCATTAAAGGCATGAAAGGATGC
* *
111962 CAT-GATGAAATGCATAACAGTGCATTAAAGGCATGAAAGGATGT
1 CATAAATGAAATGCATAAC-GTGCATTAAAGGCATGAAAGGATGC
112006 CATAAATGAAA
1 CATAAATGAAA
112017 ATAATGAATA
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
44 47 0.53
45 41 0.46
46 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (44 bp):
CATAAATGAAATGCATAACGTGCATTAAAGGCATGAAAGGATGC
Done.