Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 85 of 228
Found at i:25233830 original size:30 final size:30
Alignment explanation
Indices: 25233796--25233853 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25233786 AAACCTTTTA
*
25233796 TTTTCCCCCAAAATTTTTACTCCCTTCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCAC
* * *
25233826 TTTTCCCCTAAAACTTTTATTTCCTTCC
1 TTTTCCCCCAAAACTTTTACTCCCTTCC
25233854 CATCCCACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCAC
Found at i:25240749 original size:2 final size:2
Alignment explanation
Indices: 25240742--25240771 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
25240732 CTTTTAGCTT
25240742 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
25240772 CTTTCCATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25241238 original size:50 final size:50
Alignment explanation
Indices: 25241179--25241279 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
25241169 GATAAACTTA
25241179 TAGTAAACAGTGTTGAGAAGGAATAATTATGGGAAATTAGGAATATTATT
1 TAGTAAACAGTGTTGAGAAGGAATAATTATGGGAAATTAGGAATATTATT
25241229 TAGTAAACAGTGTTGAGAAGGAATAATTATGGGAAATTAGGAATATTATT
1 TAGTAAACAGTGTTGAGAAGGAATAATTATGGGAAATTAGGAATATTATT
25241279 T
1 T
25241280 GGTACAGTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.42, C:0.02, G:0.24, T:0.33
Consensus pattern (50 bp):
TAGTAAACAGTGTTGAGAAGGAATAATTATGGGAAATTAGGAATATTATT
Found at i:25242980 original size:9 final size:9
Alignment explanation
Indices: 25242946--25242996 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
25242936 CCACATTAGG
25242946 TTTT-GGGT
1 TTTTAGGGT
25242954 TTTTAGGGTT
1 TTTTAGGG-T
25242964 ATGGTTTAGGGT
1 -T--TTTAGGGT
*
25242976 TTTTAGGAT
1 TTTTAGGGT
25242985 TTTTAGGGT
1 TTTTAGGGT
25242994 TTT
1 TTT
25242997 GGAGAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
8 4 0.11
9 21 0.58
10 1 0.03
11 2 0.06
12 1 0.03
13 7 0.19
ACGTcount: A:0.12, C:0.00, G:0.31, T:0.57
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:25243421 original size:125 final size:125
Alignment explanation
Indices: 25243114--25243555 Score: 742
Period size: 125 Copynumber: 3.5 Consensus size: 125
25243104 GATAAAATCA
* * *
25243114 AAGCAGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGATTGTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
25243179 AGGTCCTGAAAAATTAATTTCGAGTTGACGTTTCTGAGAAAATAGTATAAAAGAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* *
25243240 AGGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
25243305 AGGTCTTGAAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
25243365 AAGCATGATGCTTTATCAAAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
25243430 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
25243489 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTAGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
25243554 AG
66 AG
25243556 CATGTTTGGG
Statistics
Matches: 296, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 74 0.25
125 114 0.39
126 108 0.36
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:25244407 original size:19 final size:19
Alignment explanation
Indices: 25244383--25244433 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 19
25244373 ATCTAACATT
25244383 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
**
25244402 TTG-T--TAATTTTATTAA
1 TTGTTAGTAAAATTATTAA
25244418 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
25244434 CAAATTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
16 13 0.52
17 1 0.04
18 1 0.04
19 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:25244604 original size:23 final size:24
Alignment explanation
Indices: 25244544--25244609 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
25244534 AGAGTTAGGT
* *
25244544 TTAGGTTTAGGGTTTTTGTTAAGA
1 TTAGGGTTAGGGTGTTTGTTAAGA
**
25244568 TTAGGGTTTTGGTGTTT-TTAAG-
1 TTAGGGTTAGGGTGTTTGTTAAGA
*
25244590 TTAAGGGTTAGGGTGATTGT
1 TT-AGGGTTAGGGTGTTTGT
25244610 GTCGGTGCTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.06
23 17 0.52
24 14 0.42
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.48
Consensus pattern (24 bp):
TTAGGGTTAGGGTGTTTGTTAAGA
Found at i:25245198 original size:7 final size:7
Alignment explanation
Indices: 25245188--25245220 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
25245178 TTATATACAT
25245188 AATACTA
1 AATACTA
25245195 AATACTA
1 AATACTA
25245202 AATACTA
1 AATACTA
25245209 AATACTA
1 AATACTA
25245216 AATAC
1 AATAC
25245221 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:25245595 original size:68 final size:66
Alignment explanation
Indices: 25245517--25245658 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 66
25245507 TCAAGTTTGT
*
25245517 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATAAAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAAAATT-A-ACAATTAATAATTTGAT
25245582 AAA
64 AAA
*
25245585 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAAAATTAACAATTAATAATTTGATAA
*
25245650 T
66 A
25245651 TTTACTAA
1 TTTACTAA
25245659 CAATTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 43 0.61
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATAAAATTAACAATTAATAATTTGATAA
A
Found at i:25245668 original size:16 final size:16
Alignment explanation
Indices: 25245647--25245688 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
25245637 AATAATTTGA
*
25245647 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
25245663 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
25245679 TAGTTTTAAT
1 TAATTTTAAT
25245689 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:25245672 original size:22 final size:23
Alignment explanation
Indices: 25245662--25245717 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
25245652 TTACTAACAA
* * *
25245662 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
25245684 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
25245707 TTAATTTTAAT
1 TTAATTTTAAT
25245718 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:25245677 original size:59 final size:66
Alignment explanation
Indices: 25245517--25245680 Score: 207
Period size: 68 Copynumber: 2.5 Consensus size: 66
25245507 TCAAGTTTGT
*
25245517 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATAAAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATAAAATTAATACAATTAATAATTTGAT
25245582 AAA
64 AAA
*
25245585 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATAAAATTAATACAATTAATAATTTGAT
*
25245648 AAT
64 AAA
*
25245651 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
25245681 GTTTTAATTT
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.30
67 1 0.01
68 42 0.46
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATAAAATTAATACAATTAATAATTTGATAA
A
Found at i:25245711 original size:6 final size:6
Alignment explanation
Indices: 25245702--25245730 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
25245692 ATTAAAAAAA
25245702 TAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATT
25245731 AAAAGTGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:25247291 original size:40 final size:40
Alignment explanation
Indices: 25247242--25247320 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
25247232 TAGGGGCGCG
* * *
25247242 CTACGTGGCAGCAAAACGCGTCC-CTTAAGGCGCGCTTTGC
1 CTACATGGCAACAAAACGCGTCCACATAA-GCGCGCTTTGC
*
25247282 CTACATGGCAACAAAGCGCGTCCACATAAGCGCGCTTTG
1 CTACATGGCAACAAAACGCGTCCACATAAGCGCGCTTTG
25247321 TTGCCACGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 30 0.88
41 4 0.12
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.19
Consensus pattern (40 bp):
CTACATGGCAACAAAACGCGTCCACATAAGCGCGCTTTGC
Found at i:25249648 original size:21 final size:21
Alignment explanation
Indices: 25249610--25249649 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25249600 TTGTCTAGCT
* * *
25249610 TTCAGCGGGGGTTGTGGTTGC
1 TTCAGCAGGGATTCTGGTTGC
25249631 TTCAGCAGGGATTCTGGTT
1 TTCAGCAGGGATTCTGGTT
25249650 CCTCTAGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.15, G:0.40, T:0.35
Consensus pattern (21 bp):
TTCAGCAGGGATTCTGGTTGC
Found at i:25249954 original size:18 final size:18
Alignment explanation
Indices: 25249912--25249954 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
25249902 GACTTGAAAA
* * *
25249912 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
*
25249930 AGAATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
25249948 AGGATAC
1 AGGATAC
25249955 GCACCTGGCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:25251483 original size:23 final size:23
Alignment explanation
Indices: 25251457--25251555 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
25251447 AATGTTATTA
25251457 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25251480 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25251503 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25251526 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
25251549 ATTAGTG
1 ATCAGTG
25251556 TGCCACTTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25254705 original size:11 final size:11
Alignment explanation
Indices: 25254689--25254741 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
25254679 AAATACGGAT
25254689 TTGAGAGAAAA
1 TTGAGAGAAAA
*
25254700 TTGAGAGCAAA
1 TTGAGAGAAAA
*
25254711 TTGAGAGGAAA
1 TTGAGAGAAAA
*
25254722 TTGAGAGGAAA
1 TTGAGAGAAAA
25254733 TT-AGAGAAA
1 TTGAGAGAAA
25254742 TGATTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
10 6 0.15
11 33 0.85
ACGTcount: A:0.49, C:0.02, G:0.30, T:0.19
Consensus pattern (11 bp):
TTGAGAGAAAA
Found at i:25254717 original size:22 final size:22
Alignment explanation
Indices: 25254689--25254741 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
25254679 AAATACGGAT
25254689 TTGAGAGAAAATTGAGAGCAAA
1 TTGAGAGAAAATTGAGAGCAAA
* *
25254711 TTGAGAGGAAATTGAGAGGAAA
1 TTGAGAGAAAATTGAGAGCAAA
25254733 TT-AGAGAAA
1 TTGAGAGAAA
25254742 TGATTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.49, C:0.02, G:0.30, T:0.19
Consensus pattern (22 bp):
TTGAGAGAAAATTGAGAGCAAA
Found at i:25255389 original size:13 final size:14
Alignment explanation
Indices: 25255366--25255394 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25255356 TGATTAGCGA
25255366 AATTAAATTTAATT
1 AATTAAATTTAATT
25255380 AATT-AATTTAATT
1 AATTAAATTTAATT
25255393 AA
1 AA
25255395 ATTATTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTAAATTTAATT
Found at i:25262204 original size:28 final size:26
Alignment explanation
Indices: 25262173--25262250 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 26
25262163 TAAAAGCTAT
* *
25262173 AAATATTATTAAATTTTAATAAAAATTC
1 AAATATTA-AAAATTATAA-AAAAATTC
25262201 AAATATTAAAAATTATAAAAAAATAT-
1 AAATATTAAAAATTATAAAAAAAT-TC
* *
25262227 AAAAATTGTAAAAAATATAAAAAA
1 AAATA-T-TAAAAATTATAAAAAA
25262251 TTGTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.23
27 10 0.23
28 23 0.53
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (26 bp):
AAATATTAAAAATTATAAAAAAATTC
Found at i:25262227 original size:10 final size:9
Alignment explanation
Indices: 25262201--25262251 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
25262191 ATAAAAATTC
25262201 AAATATTAAA
1 AAATA-TAAA
*
25262211 AATTATAAAA
1 AAATAT-AAA
25262221 AAATATAAA
1 AAATATAAA
* *
25262230 AATTGTAAA
1 AAATATAAA
25262239 AAATATAAA
1 AAATATAAA
25262248 AAAT
1 AAAT
25262252 TGTAAAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
9 22 0.65
10 12 0.35
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (9 bp):
AAATATAAA
Found at i:25262250 original size:19 final size:19
Alignment explanation
Indices: 25262201--25262298 Score: 85
Period size: 19 Copynumber: 5.2 Consensus size: 19
25262191 ATAAAAATTC
* *
25262201 AAATATTAAAAATTATAAA
1 AAATATAAAAAATTGTAAA
25262220 AAA-ATATAAAAATTGTAAA
1 AAATATA-AAAAATTGTAAA
25262239 AAATATAAAAAATTGT-AA
1 AAATATAAAAAATTGTAAA
* * * *
25262257 AATTTTATAAAGTTGTGAGAA
1 AAATATAAAAAATTGT-A-AA
*
25262278 AAATATACAAAA-TGTAAA
1 AAATATAAAAAATTGTAAA
25262296 AAA
1 AAA
25262299 AATATAATTT
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
18 21 0.33
19 27 0.42
20 6 0.09
21 10 0.16
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (19 bp):
AAATATAAAAAATTGTAAA
Found at i:25262257 original size:10 final size:10
Alignment explanation
Indices: 25262208--25262258 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
25262198 TTCAAATATT
25262208 AAAAATTATA
1 AAAAATTATA
*
25262218 AAAAAATAT-
1 AAAAATTATA
*
25262227 AAAAATTGTA
1 AAAAATTATA
25262237 AAAAA-TATA
1 AAAAATTATA
*
25262246 AAAAATTGTA
1 AAAAATTATA
25262256 AAA
1 AAA
25262259 TTTTATAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 15 0.44
10 19 0.56
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (10 bp):
AAAAATTATA
Found at i:25262379 original size:11 final size:11
Alignment explanation
Indices: 25262363--25262406 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
25262353 AAAGAAACAA
25262363 TTTATAATTTT
1 TTTATAATTTT
*
25262374 TTTATAACTTT
1 TTTATAATTTT
*
25262385 TAT-TAATTTT
1 TTTATAATTTT
*
25262395 TTTATCATTTT
1 TTTATAATTTT
25262406 T
1 T
25262407 CACCATATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTATAATTTT
Found at i:25262723 original size:87 final size:87
Alignment explanation
Indices: 25262626--25262821 Score: 225
Period size: 87 Copynumber: 2.2 Consensus size: 87
25262616 TTTAATAAGT
* * ** *
25262626 AGGGGCTTAATTATTTTTTTTGAAA-CATTTTAAGGGTTTTTTTAATGCATTTTGAAAGTTCAAG
1 AGGGGCTTAATTATTTTTTTT-AAAGAAGTTTAAGGGCCTTGTTAATGCATTTTGAAAGTTCAAG
* *
25262690 TACTCGATTGAGT-GAAAAAAGG
65 TACTCAATTGAGTAAAAAAAAGG
* ** * *
25262712 CATGGGCTTAATTGCTTTTTTTAAAGAAGTTTGAGGGCCTTGTTAATGTATTTTGAAAGTTCAAG
1 -AGGGGCTTAATTATTTTTTTTAAAGAAGTTTAAGGGCCTTGTTAATGCATTTTGAAAGTTCAAG
*
25262777 TGCTCAATTGAGTAAAAAAAAGG
65 TACTCAATTGAGTAAAAAAAAGG
25262800 AGGGGCTTAATTGCATTTTTTT
1 AGGGGCTTAATT--ATTTTTTT
25262822 CAAAAAATTT
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
86 3 0.03
87 72 0.81
88 8 0.09
89 6 0.07
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (87 bp):
AGGGGCTTAATTATTTTTTTTAAAGAAGTTTAAGGGCCTTGTTAATGCATTTTGAAAGTTCAAGT
ACTCAATTGAGTAAAAAAAAGG
Found at i:25274511 original size:14 final size:13
Alignment explanation
Indices: 25274489--25274522 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
25274479 AAAGTATTTT
*
25274489 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
25274503 AAAAATAAAAATA
1 AAAAATAAAAATA
25274516 AAAAATA
1 AAAAATA
25274523 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:25280239 original size:24 final size:24
Alignment explanation
Indices: 25280194--25280240 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25280184 TATATATACC
25280194 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
25280218 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
25280241 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:25280835 original size:26 final size:26
Alignment explanation
Indices: 25280803--25280854 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
25280793 TCCCTGTTTG
25280803 GTTTCTATCTTTCCTTCTTTTTATTT
1 GTTTCTATCTTTCCTTCTTTTTATTT
25280829 GTTTCTATCTTTCCTTCTTTTTATTT
1 GTTTCTATCTTTCCTTCTTTTTATTT
25280855 ATTCTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.08, C:0.19, G:0.04, T:0.69
Consensus pattern (26 bp):
GTTTCTATCTTTCCTTCTTTTTATTT
Found at i:25280883 original size:5 final size:5
Alignment explanation
Indices: 25280875--25280949 Score: 150
Period size: 5 Copynumber: 15.0 Consensus size: 5
25280865 TATTTTGTTT
25280875 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
25280925 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
25280950 ATTAAGTAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 70 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:25284181 original size:4 final size:4
Alignment explanation
Indices: 25284172--25284202 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
25284162 GAGTACTCTT
25284172 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
25284203 CTTTGTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:25287268 original size:3 final size:3
Alignment explanation
Indices: 25287260--25287292 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25287250 ATGTTAACAA
25287260 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25287293 GCAGTCCGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:25288609 original size:3 final size:3
Alignment explanation
Indices: 25288601--25288633 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25288591 AAACTAGACA
25288601 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
25288634 TTTAGGTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:25289893 original size:17 final size:18
Alignment explanation
Indices: 25289873--25289912 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
25289863 GTGGCAAAAG
*
25289873 GAAAATCT-TTGGAATCT
1 GAAAATCTCTTGGAAGCT
*
25289890 GAAAATGTCTTGGAAGCT
1 GAAAATCTCTTGGAAGCT
25289908 GAAAA
1 GAAAA
25289913 GAAACGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (18 bp):
GAAAATCTCTTGGAAGCT
Found at i:25292021 original size:32 final size:33
Alignment explanation
Indices: 25291985--25292050 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
25291975 ATTAGCCATT
*
25291985 TGCTGTTACATGCAT-TTTGCAATGTTTTCCTG
1 TGCTGTTACATGCATGTTTACAATGTTTTCCTG
* * *
25292017 TGCTGTTACTTGCATGTTTATAATGTTTTGCTG
1 TGCTGTTACATGCATGTTTACAATGTTTTCCTG
25292050 T
1 T
25292051 TGGCTTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (33 bp):
TGCTGTTACATGCATGTTTACAATGTTTTCCTG
Found at i:25292064 original size:35 final size:34
Alignment explanation
Indices: 25291984--25292086 Score: 113
Period size: 35 Copynumber: 3.1 Consensus size: 34
25291974 TATTAGCCAT
* * *
25291984 TTGCTGTTACATGCAT-TTTGCAATGTTTTCCTG
1 TTGCTGTTACTTGCATATTTGAAATGTTTTGCTG
*
25292017 -TGCTGTTACTTGCATGTTT-ATAATGTTTTGCTG
1 TTGCTGTTACTTGCATATTTGA-AATGTTTTGCTG
* *
25292050 TTGGCTTTTACTTGCATATTTGAAATGCTTTGCTG
1 TT-GCTGTTACTTGCATATTTGAAATGTTTTGCTG
25292085 TT
1 TT
25292087 TATTTGGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
32 14 0.24
33 14 0.24
34 1 0.02
35 29 0.49
36 1 0.02
ACGTcount: A:0.16, C:0.15, G:0.19, T:0.50
Consensus pattern (34 bp):
TTGCTGTTACTTGCATATTTGAAATGTTTTGCTG
Found at i:25296251 original size:108 final size:106
Alignment explanation
Indices: 25296064--25296263 Score: 283
Period size: 108 Copynumber: 1.9 Consensus size: 106
25296054 TGGATTAAGA
* * * * *
25296064 TTTAAGAGGATATTTGACTATTTGGTCAAATGAGAAATCGAAACCCATCACATTAGGGAACATTT
1 TTTAAAAGGATATTTGACTATTTGATCAAAAGAAAAATCGAAACCCAGCACATTAGGGAACATTT
* *
25296129 CCTCGAATTTCCAAACGCAAAATATTGTCTTACTTCGAAAT
66 CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
* * *
25296170 TTTAAAAGGATATTTGACTATTTGATCGAACAAGAAAAATCGAAACCTAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGACTATTTGATC-AA-AAGAAAAATCGAAACCCAGCACATTAGGGAACAT
*
25296235 TTTCTCGAATCTCCAAACGCAAAACATTG
64 TTCCTCGAATCTCCAAACGCAAAACATTG
25296264 CCTGATAGAG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 25 0.31
107 2 0.02
108 54 0.67
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (106 bp):
TTTAAAAGGATATTTGACTATTTGATCAAAAGAAAAATCGAAACCCAGCACATTAGGGAACATTT
CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCGAAAT
Found at i:25297187 original size:31 final size:31
Alignment explanation
Indices: 25297149--25297211 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
25297139 CCTTTTGGAC
*
25297149 TGAATTTTTACATAGAAAGTTATTCATAAAG
1 TGAATTTTTACATAGAAAATTATTCATAAAG
25297180 TGAATTTTTACATAGAAAATTATTCATAAAG
1 TGAATTTTTACATAGAAAATTATTCATAAAG
25297211 T
1 T
25297212 CAAAAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (31 bp):
TGAATTTTTACATAGAAAATTATTCATAAAG
Found at i:25298492 original size:108 final size:106
Alignment explanation
Indices: 25298305--25298504 Score: 310
Period size: 108 Copynumber: 1.9 Consensus size: 106
25298295 TGGATTAAGA
* * *
25298305 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGATCAAACGAAAAATCGAAACCCAGCACATTAGGGCACATTT
* *
25298370 CCTCGAATTTCCAAACGCAAAATATTGTCTTACTTCAAAAT
66 CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCAAAAT
* *
25298411 TTTAAAAGGATATTTGGCTATTTGATCGAACCAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGATC-AAAC-GAAAAATCGAAACCCAGCACATTAGGGCACAT
*
25298476 TTTCTCGAATCTCCAAACGCAAAACATTG
64 TTCCTCGAATCTCCAAACGCAAAACATTG
25298505 CCTTTATTAT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 25 0.30
107 3 0.04
108 56 0.67
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGATCAAACGAAAAATCGAAACCCAGCACATTAGGGCACATTT
CCTCGAATCTCCAAACGCAAAACATTGTCTTACTTCAAAAT
Found at i:25301316 original size:44 final size:44
Alignment explanation
Indices: 25301266--25301751 Score: 140
Period size: 42 Copynumber: 11.2 Consensus size: 44
25301256 GTGCTTAGGA
*
25301266 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * *
25301310 AGGCAAGA-CT-TTAT-TTTCGATCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAAGATCTGTTATCTTT-AACCAGCTCCACTG-CAACCG-ATGG
* *
25301352 AAGGCAAGATCTGTTATCTTTAACCCGCTCCACTGCAACCAATGG
1 -AGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
* * * *** * * * *
25301397 AAGCAAG-GCT-TTGT-TTTCGGTCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAAGATCTGTTATCTTT-AACCAGCTCCACTG-CAACCG-ATGG
* * *
25301439 AATGCAAAATATGTTATCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * *
25301484 AGGCAAGAT-T-TTAT-TTTCGAGCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAAGATCTGTTATCTTT-AACCAGCTCCACTG-CAACCG-ATGG
* * * * *
25301526 AAGGCAAGATCTGCTATATTTAACCAGCCCCACTACAACTGATGG
1 -AGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
* * * * *** **
25301571 AGGCAAG-GCT-TTGT-TTTCAATCTGCTTTGCTATTAA-CG-TAGG
1 AGGCAAGATCTGTTATCTTT-AACCAGCTCCACT-GCAACCGAT-GG
* *
25301613 AAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACCGATGG
1 -AGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * * * *
25301658 AGGCAAG-GCT-TTGT-TTTCGATCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAAGATCTGTTATCTTT-AACCAGCTCCACTG-CAACCG-ATGG
*
25301700 AAGGCAAGATCTGTTATCTTTAACCAGCTCTACTGCAACCGATGG
1 -AGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
25301745 AGGCAAG
1 AGGCAAG
25301752 GCTTTGTTTT
Statistics
Matches: 300, Mismatches: 97, Indels: 90
0.62 0.20 0.18
Matches are distributed among these distances:
41 16 0.05
42 73 0.24
43 59 0.20
44 64 0.21
45 72 0.24
46 16 0.05
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
AGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGG
Found at i:25301384 original size:87 final size:87
Alignment explanation
Indices: 25301262--25301767 Score: 778
Period size: 87 Copynumber: 5.8 Consensus size: 87
25301252 GCTAGTGCTT
* *
25301262 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGACTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
25301327 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * *
25301349 AGGAAGGCAAGATCTGTTATCTTTAACCCGCTCCACTGCAACCAATGGAAGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
25301414 CGGTCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * ** *
25301436 AGGAATGCAAAATATGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGATTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
25301501 CGAGCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* * * *
25301523 AGGAAGGCAAGATCTGCTATATTTAACCAGCCCCACTACAACTGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * * *
25301588 CAATCTGCTTTGCTATTAACGT
66 CGATCTGCTTCGCTGTTAACGC
*
25301610 AGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
25301675 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
25301697 AGGAAGGCAAGATCTGTTATCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
25301762 CGATCT
66 CGATCT
25301768 TCACTGATCT
Statistics
Matches: 373, Mismatches: 46, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 373 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:25303012 original size:21 final size:21
Alignment explanation
Indices: 25302988--25303033 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
25302978 TAGCCTCTCT
25302988 ATTTTTAC-TCTTTCATTTTTC
1 ATTTTTACAT-TTTCATTTTTC
* *
25303009 ATTTTTTCATTTTCGTTTTTC
1 ATTTTTACATTTTCATTTTTC
25303030 ATTT
1 ATTT
25303034 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.13, C:0.15, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTTACATTTTCATTTTTC
Found at i:25307261 original size:22 final size:20
Alignment explanation
Indices: 25307220--25307262 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
25307210 CCTTGAAAAG
*
25307220 TGATTTTTTAATAAACGATT
1 TGATTTTTTAAAAAACGATT
25307240 TGATTTTATTAAAACAACGATT
1 TGATTTT-TTAAAA-AACGATT
25307262 T
1 T
25307263 TGGTCCACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (20 bp):
TGATTTTTTAAAAAACGATT
Found at i:25307732 original size:22 final size:22
Alignment explanation
Indices: 25307707--25307798 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
25307697 AAATTCAATA
* *
25307707 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
25307729 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
25307751 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
25307772 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
25307795 TCAA
1 TCAA
25307799 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:25307764 original size:44 final size:44
Alignment explanation
Indices: 25307707--25307798 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
25307697 AAATTCAATA
* * *
25307707 TCAATTTCTTTCAAAAATTCTC-TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTC-CATCAATTTCCTTCCAAAA-TTCTC
*
25307751 TCAATTCCCTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
25307795 TCAA
1 TCAA
25307799 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 30 0.71
45 11 0.26
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.41
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
Found at i:25307814 original size:52 final size:52
Alignment explanation
Indices: 25307748--25307847 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 52
25307738 TTCAAAATTT
* *
25307748 CTCTCAATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTCTCAAA
*
25307800 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCT
25307848 AAATCCATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 3 0.07
52 30 0.71
53 9 0.21
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (52 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCTCAAA
Found at i:25307847 original size:22 final size:22
Alignment explanation
Indices: 25307800--25307841 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25307790 TTCTCTCAAA
*
25307800 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCAAAAATC
*
25307822 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCAAAAA
25307842 ATCTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAATC
Found at i:25307946 original size:31 final size:30
Alignment explanation
Indices: 25307884--25307947 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
25307874 TTAAATTTCA
*
25307884 TTTTTTAAAAAAATTTTAAAATTTTTTTAT
1 TTTTTTAAAAAAATTTTAAAATTTTTATAT
* *
25307914 TTTTTTTAAATAATTTTAAAATTTTTAATAT
1 TTTTTTAAAAAAATTTTAAAATTTTT-ATAT
25307945 TTT
1 TTT
25307948 CAACAATGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTTAAAAAAATTTTAAAATTTTTATAT
Found at i:25310237 original size:17 final size:18
Alignment explanation
Indices: 25310215--25310249 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25310205 TAAAATCCCT
25310215 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
25310232 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
25310250 TTAAAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:25310237 original size:23 final size:23
Alignment explanation
Indices: 25310203--25310291 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
25310193 ACATTATTTG
*
25310203 ATTAAAATCCCTAACCCTACTTA
1 ATTAAAAACCCTAACCCTACTTA
** *
25310226 ATTAAAAACCCTAA-TTTAATTAA
1 ATTAAAAACCCTAACCCTACTT-A
25310249 ATT-AAAACCCTAAACCCTACTTA
1 ATTAAAAACCCT-AACCCTACTTA
* *
25310272 ATTTTATAACCCTAACCCTA
1 A-TTAAAAACCCTAACCCTA
25310292 ACCTAATTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
22 12 0.23
23 21 0.40
24 13 0.25
25 7 0.13
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (23 bp):
ATTAAAAACCCTAACCCTACTTA
Found at i:25310320 original size:28 final size:28
Alignment explanation
Indices: 25310285--25310755 Score: 513
Period size: 28 Copynumber: 16.4 Consensus size: 28
25310275 TTATAACCCT
**
25310285 AACCCTAACCTAATTTAATTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
*
25310313 AACCCTAACCTAACCTAATTTAATTAAAA
1 AACCCTAACCTAACCTAATTAAATT-AAA
*
25310342 AACCCTAACCTAACCTACTTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
25310370 AACCCTAACCTAACCTAATTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
*** *
25310398 AACCCTAACCTTATTTTAATTGAATTAAA
1 AACCCTAACC-TAACCTAATTAAATTAAA
**
25310427 AACCCTAACCTAATTTTAATTAAATTAAAAA
1 AACCCTAACCTAA-CCTAATTAAATT--AAA
*
25310458 CGCTAACCCTAACCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAACCTAATTAAATTAAA
**
25310490 AACCCTAACCTAATTTTAATTAAATTAAAAA
1 AACCCTAACCTAA-CCTAATTAAATT--AAA
*
25310521 CCCTAACCCTAACCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAACCTAATTAAATTAAA
***
25310553 AA-CCTAACCTTATTTTAATTAAATTAAA
1 AACCCTAACC-TAACCTAATTAAATTAAA
* *
25310581 AACCCTAACCTAACCTAATTTAATAAAAA
1 AACCCTAACCTAACCTAATTAAAT-TAAA
*
25310610 AACCCTAACCTAACCTACTTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
25310638 AACCCTAACCTAACCTAATTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
*
25310666 AACCCTAACCTAACCTAATTTAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
***
25310694 AACCCTAACCTTATTTTAATTAAATTAAA
1 AACCCTAACC-TAACCTAATTAAATTAAA
25310723 AACCCTAACCTAA--T--TT-AATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAA
25310746 AACCCTAACC
1 AACCCTAACC
25310756 CTATTTAATT
Statistics
Matches: 383, Mismatches: 40, Indels: 45
0.82 0.09 0.10
Matches are distributed among these distances:
23 17 0.04
24 2 0.01
26 1 0.00
27 7 0.02
28 174 0.45
29 126 0.33
31 6 0.02
32 6 0.02
34 18 0.05
35 26 0.07
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (28 bp):
AACCCTAACCTAACCTAATTAAATTAAA
Found at i:25310371 original size:57 final size:56
Alignment explanation
Indices: 25310285--25310755 Score: 513
Period size: 57 Copynumber: 8.2 Consensus size: 56
25310275 TTATAACCCT
** *
25310285 AACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAA
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATT-AAA
*
25310342 AACCCTAACCTAACCTACTTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAA
*** * **
25310398 AACCCTAACCTTATTTTAATTGAATTAAAAACCCTAACCTAATTTTAATTAAATTAAAAA
1 AACCCTAACC-TAACCTAATTAAATTAAAAACCCTAACCTAA-CCTAATTAAATT--AAA
* **
25310458 CGCTAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTAATTTTAATTAAATTAAAAA
1 ----AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTAA-CCTAATTAAATT--AAA
* ***
25310521 CCCTAACCCTAACCTAACCTAATTTAATTAAAAA-CCTAACCTTATTTTAATTAAATTAAA
1 ----AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACC-TAACCTAATTAAATTAAA
* * *
25310581 AACCCTAACCTAACCTAATTTAATAAAAAAACCCTAACCTAACCTACTTAAATTAAA
1 AACCCTAACCTAACCTAATTAAAT-TAAAAACCCTAACCTAACCTAATTAAATTAAA
*
25310638 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAA
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAA
***
25310694 AACCCTAACCTTATTTTAATTAAATTAAAAACCCTAACCTAA--T--TT-AATTAAA
1 AACCCTAACC-TAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAA
25310746 AACCCTAACC
1 AACCCTAACC
25310756 CTATTTAATT
Statistics
Matches: 373, Mismatches: 29, Indels: 29
0.87 0.07 0.07
Matches are distributed among these distances:
52 17 0.05
53 2 0.01
55 1 0.00
56 76 0.20
57 145 0.39
58 17 0.05
60 6 0.02
62 19 0.05
63 80 0.21
64 10 0.03
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (56 bp):
AACCCTAACCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAA
Found at i:25310752 original size:18 final size:18
Alignment explanation
Indices: 25310731--25310783 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 18
25310721 AAAACCCTAA
25310731 CCTAATTTAATTAAAAAC
1 CCTAATTTAATTAAAAAC
25310749 CCTAACCCTATTTAATTAAAAAC
1 CCT-A----ATTTAATTAAAAAC
*
25310772 CCTAATTAAATT
1 CCTAATTTAATT
25310784 GTAGTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
18 10 0.34
19 1 0.03
22 1 0.03
23 17 0.59
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
CCTAATTTAATTAAAAAC
Found at i:25314060 original size:85 final size:85
Alignment explanation
Indices: 25313917--25314121 Score: 392
Period size: 85 Copynumber: 2.4 Consensus size: 85
25313907 CAAACTTGCT
*
25313917 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTACTCAGAAACGTCAAAAAAA
*
25313982 AATTATTTTCTACATGACCA
66 AATTATTTCCTACATGACCA
25314002 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTACTCAGAAACGTCAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTACTCAGAAACGTCAAAAAAA
25314067 AATTATTTCCTACATGACCA
66 AATTATTTCCTACATGACCA
25314087 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
25314122 CACAATTTCT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 118 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (85 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTACTCAGAAACGTCAAAAAAA
AATTATTTCCTACATGACCA
Found at i:25314253 original size:124 final size:125
Alignment explanation
Indices: 25314040--25314310 Score: 370
Period size: 124 Copynumber: 2.2 Consensus size: 125
25314030 GCGATTTGAC
25314040 ACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
1 ACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
* * * * **
25314105 CCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCAACCTGGTATCAGTGATTTTAT
66 CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCAACCTAGTAGAAGTGATTTTAT
*
25314165 ACTATTTCCTCAGAAAACGTC-AAAAAAAATTATTT-CTCACATGACC-ACTGTAGCGAAATCGC
1 ACTATTTACTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTAGCGAAATCGC
* * * ***
25314227 GTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAAGTGATTTCCC
64 GTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCAACCTAGTAGAAGTGATTTTAT
25314289 ACTATTTAAC-CAGAAACGTCAA
1 ACTATTT-ACTCAGAAACGTCAA
25314311 CTCGAAAAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
123 7 0.05
124 79 0.62
125 35 0.27
126 7 0.05
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.29
Consensus pattern (125 bp):
ACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGCGAAATCGCGT
CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCAACCTAGTAGAAGTGATTTTAT
Found at i:25318575 original size:20 final size:20
Alignment explanation
Indices: 25318540--25318592 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
25318530 ATTACTATTT
* *
25318540 ATGACATGACCTCGCTGTTC
1 ATGACTTGACCCCGCTGTTC
*
25318560 ATGACTTTACCCCGCTGTTC
1 ATGACTTGACCCCGCTGTTC
25318580 ATGACTTGACCCC
1 ATGACTTGACCCC
25318593 ACTATTTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.19, C:0.34, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGACTTGACCCCGCTGTTC
Found at i:25322136 original size:70 final size:70
Alignment explanation
Indices: 25321701--25322138 Score: 513
Period size: 70 Copynumber: 6.3 Consensus size: 70
25321691 AATGGACTCA
* * * * * * *
25321701 GCGAGCCTGAAGATTATAGCTAGGAGCTTTTAACTCTCGCTAATTATTTGAAGGTTGCGGTATTA
1 GCGAGCCTTAAAATGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTA
*
25321766 AACTT
66 AACCT
* * * *
25321771 GCGAGCCTTAAAATG-TCAGCTGGGAGCTTTTAGCTATCGCTAACTATTTGGAGGCTGTGGAATT
1 GCGAGCCTTAAAATGAT-AGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATT
25321835 AAACCT
65 AAACCT
* * * * * * * *
25321841 GCAAGCCTCAAAATGGTAGTTGGGAGCTTTTAACTCTCTCTAACCATTTGGAGGTTGTGGTATTA
1 GCGAGCCTTAAAATGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTA
25321906 AACCT
66 AACCT
* *
25321911 GCGAGCCTTAAAATTATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTAGAGGCTG-GGATATT
1 GCGAGCCTTAAAATGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGG-TATT
*
25321975 AAATCT
65 AAACCT
* * * *
25321981 GCAAGCCTTAAAATGATAGTTGGGAGCTTTTAACTCTTGCTAACTATTTGGAGGCTGCGATATT-
1 GCGAGCCTTAAAATGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTA
*
25322045 AACTTT
66 AAC-CT
*** * * * *
25322051 GCGAGCCTTAAAATGATAGCTCAAAGCTTTTAACTCTCACTAACTGTTTGGAGGCCGCAGTATTA
1 GCGAGCCTTAAAATGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTA
25322116 AACCT
66 AACCT
25322121 GCGAGCCTTAAAATGATA
1 GCGAGCCTTAAAATGATA
25322139 AGTACAAATA
Statistics
Matches: 311, Mismatches: 51, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
69 5 0.02
70 301 0.97
71 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (70 bp):
GCGAGCCTTAAAATGATAGCTGGGAGCTTTTAACTCTCGCTAACTATTTGGAGGCTGCGGTATTA
AACCT
Found at i:25325451 original size:52 final size:48
Alignment explanation
Indices: 25325432--25325732 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
25325422 TGACAAGTGG
* *
25325432 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* **
25325478 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
25325526 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
25325576 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
25325628 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
25325674 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
25325720 AAAGTGATAAGTG
1 AAAGTGATAAGTG
25325733 GCTACACTTA
Statistics
Matches: 226, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 141 0.62
52 85 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:25325486 original size:98 final size:98
Alignment explanation
Indices: 25325366--25325721 Score: 640
Period size: 98 Copynumber: 3.6 Consensus size: 98
25325356 TTTGAGTACT
*
25325366 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
25325431 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
25325464 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
25325529 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
25325562 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
25325627 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
25325660 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
25325722 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:25325740 original size:37 final size:37
Alignment explanation
Indices: 25325696--25325841 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
25325686 GATAGCTTTA
*
25325696 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
25325733 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
25325770 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* **
25325807 GCTACACTTATCTGCTC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
25325842 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:25327157 original size:49 final size:49
Alignment explanation
Indices: 25327096--25327239 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
25327086 ATGTGAACAT
* *
25327096 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
25327146 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
25327195 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
25327240 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:25330448 original size:52 final size:48
Alignment explanation
Indices: 25330429--25330729 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
25330419 TGACAAGTGG
* *
25330429 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* **
25330475 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
25330523 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
25330573 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
25330625 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
25330671 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
25330717 AAAGTGATAAGTG
1 AAAGTGATAAGTG
25330730 GCTACACTTA
Statistics
Matches: 226, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 141 0.62
52 85 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:25330483 original size:98 final size:98
Alignment explanation
Indices: 25330363--25330718 Score: 640
Period size: 98 Copynumber: 3.6 Consensus size: 98
25330353 TTTGAGTACT
*
25330363 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
25330428 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
25330461 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
25330526 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
25330559 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
25330624 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
25330657 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
25330719 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:25330737 original size:37 final size:37
Alignment explanation
Indices: 25330693--25330838 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
25330683 GATAGCTTTA
*
25330693 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
25330730 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
25330767 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* **
25330804 GCTACACTTATCTGCTC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
25330839 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:25332153 original size:49 final size:49
Alignment explanation
Indices: 25332092--25332235 Score: 225
Period size: 49 Copynumber: 2.9 Consensus size: 49
25332082 ATGTGAACAT
* *
25332092 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
25332142 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
25332191 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
25332236 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 84 0.95
50 4 0.05
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:25335444 original size:52 final size:48
Alignment explanation
Indices: 25335425--25335725 Score: 366
Period size: 46 Copynumber: 6.3 Consensus size: 48
25335415 TGACAAGTGG
* *
25335425 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* **
25335471 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
25335519 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
25335569 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
25335621 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
25335667 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
25335713 AAAGTGATAAGTG
1 AAAGTGATAAGTG
25335726 GCTACACTTA
Statistics
Matches: 226, Mismatches: 17, Indels: 24
0.85 0.06 0.09
Matches are distributed among these distances:
46 141 0.62
52 85 0.38
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:25335479 original size:98 final size:98
Alignment explanation
Indices: 25335359--25335714 Score: 640
Period size: 98 Copynumber: 3.6 Consensus size: 98
25335349 TTTGAGTACT
*
25335359 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
25335424 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
25335457 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
25335522 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
25335555 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
25335620 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
25335653 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
25335715 AGTGATAAGT
Statistics
Matches: 249, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 249 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:25335733 original size:37 final size:37
Alignment explanation
Indices: 25335689--25335834 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
25335679 GATAGCTTTA
*
25335689 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
25335726 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
25335763 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* **
25335800 GCTACACTTATCTGCTC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
25335835 ATCATACGTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 88 0.85
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:25340915 original size:20 final size:20
Alignment explanation
Indices: 25340892--25340931 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25340882 ATACATACTA
25340892 TTACTATTAATGACATGACC
1 TTACTATTAATGACATGACC
* * *
25340912 TTACTGTTCATGACTTGACC
1 TTACTATTAATGACATGACC
25340932 CCATTTTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (20 bp):
TTACTATTAATGACATGACC
Found at i:25344085 original size:18 final size:18
Alignment explanation
Indices: 25344062--25344099 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
25344052 GAAAGAACGA
25344062 GTGAGTTCCATCAGTGAT
1 GTGAGTTCCATCAGTGAT
25344080 GTGAGTTCCATCAGTGAT
1 GTGAGTTCCATCAGTGAT
25344098 GT
1 GT
25344100 TTCCGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (18 bp):
GTGAGTTCCATCAGTGAT
Found at i:25346437 original size:63 final size:63
Alignment explanation
Indices: 25346315--25346437 Score: 156
Period size: 63 Copynumber: 2.0 Consensus size: 63
25346305 CTACAATCCA
* *
25346315 GACAATCAAACAAAACTTAGTTTAATCAATTGAAACATAAAAATATTTGTCATTAGATGACCG
1 GACAATCAAACAAAACTTAGTTTAATCAATAGAAACATAAAAATATTTGTCATCAGATGACCG
* * * * * * * *
25346378 GACATTCAAACAAAACTTGGTTTCATCTATAGAAATATACAAATCTTTGTCATCGGATGA
1 GACAATCAAACAAAACTTAGTTTAATCAATAGAAACATAAAAATATTTGTCATCAGATGA
25346438 ACCAGACTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (63 bp):
GACAATCAAACAAAACTTAGTTTAATCAATAGAAACATAAAAATATTTGTCATCAGATGACCG
Found at i:25348099 original size:13 final size:13
Alignment explanation
Indices: 25348081--25348105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25348071 CAATATATTT
25348081 ATTAATTAAAAAC
1 ATTAATTAAAAAC
25348094 ATTAATTAAAAA
1 ATTAATTAAAAA
25348106 TAAAAAATCT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:25354150 original size:42 final size:42
Alignment explanation
Indices: 25354025--25354238 Score: 290
Period size: 42 Copynumber: 5.1 Consensus size: 42
25354015 ACTAACACTT
* * * * * *
25354025 AGCCTGCTAGACTTAAAGCCTGAT-TCAG-TACACTGGCATTT
1 AGCCTGCTAGACGTAAAGTCTGATAT-TGTTTCACCGGCATTA
* * *
25354066 AGCCTGCTAGACATATAGTCTGA-AATGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
25354107 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
* * *
25354149 AGTCTGCTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
25354191 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
25354233 AGCCTG
1 AGCCTG
25354239 ATAGGCATTG
Statistics
Matches: 153, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 51 0.33
42 101 0.66
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTA
Found at i:25372487 original size:30 final size:30
Alignment explanation
Indices: 25372453--25372510 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
25372443 AAACCTTTTA
*
25372453 TTTTCCCCCAAAATTTTTACTCCCTTCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCAC
* *
25372483 TTTTCCCCTAAAACTTTTATTCCCTTCC
1 TTTTCCCCCAAAACTTTTACTCCCTTCC
25372511 CATCCCACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.38, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCAC
Found at i:25372635 original size:17 final size:18
Alignment explanation
Indices: 25372596--25372651 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
25372586 ACTCCCCCTA
25372596 TTTACTTTCCCTC-AAAC-T
1 TTTA-TTTCCC-CAAAACTT
25372614 TTTA-TTCCCCAAAACTT
1 TTTATTTCCCCAAAACTT
*
25372631 TTTATTTTCCCCTAAACTT
1 TTTA-TTTCCCCAAAACTT
25372650 TT
1 TT
25372652 ACTTCTCACC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 1 0.03
16 9 0.27
17 5 0.15
18 4 0.12
19 14 0.42
ACGTcount: A:0.23, C:0.29, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTATTTCCCCAAAACTT
Found at i:25377700 original size:44 final size:42
Alignment explanation
Indices: 25377550--25377719 Score: 130
Period size: 43 Copynumber: 4.0 Consensus size: 42
25377540 TGTACAATGT
* * * * * *
25377550 CAACGCCCCAGACGTCGTCTTATATGTAATCAAATATCGATGT
1 CAACGTCCCAGACGTGGTCTTACACGAAATCAAATA-CGATGC
*
25377593 C-ACTGTCCCAGACAG-GGTCTTACACGAAATCATATACGATGC
1 CAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATACGATGC
* * * *
25377635 CAATGTCTCAGTCATGGTCTTACACGTAAATCTCAAATA-GATGC
1 CAACGTCCCAGACGTGGTCTTACACG-AAA--TCAAATACGATGC
* * *
25377679 CAACGTCCCAGACGTGATCTTACACGAGATCACATATCGAT
1 CAACGTCCCAGACGTGGTCTTACACGAAATCAAATA-CGAT
25377720 ATCCTATGTC
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
41 6 0.06
42 26 0.26
43 34 0.34
44 27 0.27
45 6 0.06
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTTACACGAAATCAAATACGATGC
Found at i:25385378 original size:42 final size:43
Alignment explanation
Indices: 25385307--25385418 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 43
25385297 TCTTATATGT
* *
25385307 AATCAAATATCGATGTCACTGTCCCAGACAAAGTCTTACACGA
1 AATCAAATATCGATGCCAATGTCCCAGACAAAGTCTTACACGA
* * ** *
25385350 AATCATATA-CGATGCCAATGTCTCAGACATGGTCTTACATGTA
1 AATCAAATATCGATGCCAATGTCCCAGACAAAGTCTTACACG-A
* *
25385393 AATCTCAA-ATCGATGCCAACGTCCCA
1 AATC-AAATATCGATGCCAATGTCCCA
25385419 TACGTGATCT
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
42 26 0.47
43 14 0.25
44 15 0.27
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATGTCCCAGACAAAGTCTTACACGA
Found at i:25391624 original size:29 final size:29
Alignment explanation
Indices: 25391544--25391623 Score: 99
Period size: 31 Copynumber: 2.7 Consensus size: 29
25391534 ATTTCAAAAT
* *
25391544 TATACATGAACTATGATTTAATGTACAATTG
1 TATACATGAACTTTGATTT--TGTGCAATTG
25391575 TATACATGAACTTTGATTTTGTGCAATTG
1 TATACATGAACTTTGATTTTGTGCAATTG
25391604 TATACAT-AACATTTTGATTT
1 TATACATGAAC--TTTGATTT
25391624 GATCCAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
28 3 0.07
29 16 0.36
30 8 0.18
31 18 0.40
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTGCAATTG
Found at i:25391632 original size:30 final size:29
Alignment explanation
Indices: 25391544--25391632 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 29
25391534 ATTTCAAAAT
* *
25391544 TATACATGAACTATGATTTAATGTACAATTG
1 TATACATGAACTTTGATTT--TGTCCAATTG
*
25391575 TATACATGAACTTTGATTTTGTGCAATTG
1 TATACATGAACTTTGATTTTGTCCAATTG
25391604 TATACAT-AACATTTTGA-TTTGATCCAATT
1 TATACATGAAC--TTTGATTTTG-TCCAATT
25391633 CTTGTAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
28 3 0.06
29 20 0.38
30 11 0.21
31 18 0.35
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTCCAATTG
Found at i:25395814 original size:19 final size:19
Alignment explanation
Indices: 25395792--25395850 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
25395782 AATTACAATT
25395792 TTTTTTCTCAACATGGAAG
1 TTTTTTCTCAACATGGAAG
* *
25395811 TTTTGTT-T-AA-AT-TACAT
1 TTTT-TTCTCAACATGGA-AG
25395828 TTTTTTCTCAACATGGAAG
1 TTTTTTCTCAACATGGAAG
25395847 TTTT
1 TTTT
25395851 GTTATATTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
16 3 0.10
17 8 0.27
18 4 0.13
19 12 0.40
20 3 0.10
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (19 bp):
TTTTTTCTCAACATGGAAG
Found at i:25395838 original size:36 final size:38
Alignment explanation
Indices: 25395782--25395853 Score: 130
Period size: 36 Copynumber: 1.9 Consensus size: 38
25395772 GACAGTTTTC
25395782 AATTACAATTTTTTTTCTCAACATGGAAGTTTTGTTTA
1 AATTACAATTTTTTTTCTCAACATGGAAGTTTTGTTTA
25395820 AATTAC-A-TTTTTTTCTCAACATGGAAGTTTTGTT
1 AATTACAATTTTTTTTCTCAACATGGAAGTTTTGTT
25395854 ATATTAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 27 0.79
37 1 0.03
38 6 0.18
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (38 bp):
AATTACAATTTTTTTTCTCAACATGGAAGTTTTGTTTA
Found at i:25396687 original size:85 final size:84
Alignment explanation
Indices: 25396595--25396802 Score: 229
Period size: 85 Copynumber: 2.5 Consensus size: 84
25396585 CGTTTATAGA
* * * *
25396595 AAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTAAGGAAATAAACGCCGCTAAAGATTAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-AGGAAAAAAACGCCACTAAAGATCAT
* * **
25396660 GTTCTTTAGTGGCGCTTAGG
65 ATACTTTAACGGCGCTTAGG
* * ** *
25396680 AAAAAACGCCGCCAAAGATCGTGTTCTTTAGCGGCGCTTTGAAAAAAACGCCACTAAAGATCGTA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAGGAAAAAAACGCCACTAAAGATCATA
*
25396745 TACTTTAACGGCGCTTTGG
66 TACTTTAACGGCGCTTAGG
* * *
25396764 AGGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCT
1 A-AAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCT
25396803 TGTTCAAAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
84 37 0.36
85 65 0.64
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAGGAAAAAAACGCCACTAAAGATCATA
TACTTTAACGGCGCTTAGG
Found at i:25396705 original size:42 final size:42
Alignment explanation
Indices: 25396595--25396846 Score: 251
Period size: 42 Copynumber: 6.0 Consensus size: 42
25396585 CGTTTATAGA
* *
25396595 AAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTAAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* *
25396637 AAATAAACGCCGCTAAAGATTATGTTCTTTAGTGGCGCTTAGG
1 AAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
25396680 AAAAAACGCCGCCAAAGATCGTGTTCTTTAGCGGCGCTTTGA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * * * *
25396722 AAAAAACGCCACTAAAGATCGTATACTTTAACGGCGCTTTGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
25396764 AGGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTT-GTT
1 A-AAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG-G
*
25396807 CAAAAACGCCGCTAATAG-T-AGTGTTCTTTAGCGGCGCTTA
1 AAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
25396847 TTTCACATAC
Statistics
Matches: 174, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
41 1 0.01
42 106 0.61
43 67 0.39
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:25396732 original size:127 final size:127
Alignment explanation
Indices: 25396593--25396845 Score: 316
Period size: 127 Copynumber: 2.0 Consensus size: 127
25396583 GGCGTTTATA
* * *
25396593 GAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTAAGGA-AATAAACGCCGCT-AAAGA
1 GAAAAAAACGCCACTAAAGATCATATACTTTAACGGCGCTAAGGAGAA-AAACGCCGCTAAAAG-
* * * *
25396656 TTATGTTCTTTAGTGGCGCTTAG-GAAAAAACGCCGCCAA-AGATCGTGTTCTTTAGCGGCGCTT
64 TAATGTTCTATAGCGGCGCTT-GTGAAAAAACGCCGCCAATAG-TAGTGTTCTTTAGCGGCGCTT
25396719 T
127 T
* ** *
25396720 GAAAAAAACGCCACTAAAGATCGTATACTTTAACGGCGCTTTGGAGGAAAACGCCGCTAAAAGTA
1 GAAAAAAACGCCACTAAAGATCATATACTTTAACGGCGCTAAGGAGAAAAACGCCGCTAAAAGTA
** *
25396785 ATGTTCTATAGCGGCGCTTGTTCAAAAACGCCGCTAATAGTAGTGTTCTTTAGCGGCGCTT
66 ATGTTCTATAGCGGCGCTTGTGAAAAAACGCCGCCAATAGTAGTGTTCTTTAGCGGCGCTT
25396846 ATTTCACATA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
126 1 0.01
127 100 0.93
128 7 0.06
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (127 bp):
GAAAAAAACGCCACTAAAGATCATATACTTTAACGGCGCTAAGGAGAAAAACGCCGCTAAAAGTA
ATGTTCTATAGCGGCGCTTGTGAAAAAACGCCGCCAATAGTAGTGTTCTTTAGCGGCGCTTT
Found at i:25397318 original size:21 final size:21
Alignment explanation
Indices: 25397294--25397362 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
25397284 GCTTCTATCG
*
25397294 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
25397315 CTGCTTCTCTCGCTGTAGCAT
1 CTGCTTCTCTCGCTGCAGCCT
* *
25397336 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
25397357 CTGCTT
1 CTGCTT
25397363 TAAGTTGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.03, C:0.42, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:25402897 original size:9 final size:9
Alignment explanation
Indices: 25402862--25403401 Score: 458
Period size: 9 Copynumber: 60.0 Consensus size: 9
25402852 TTAAACAATA
25402862 ATGTAAGTT
1 ATGTAAGTT
*
25402871 A-GGAAGGTT
1 ATGTAA-GTT
25402880 ATGT-A-TT
1 ATGTAAGTT
25402887 ATGTAAGTT
1 ATGTAAGTT
25402896 ATGTAAGTT
1 ATGTAAGTT
25402905 ATGTAAGTT
1 ATGTAAGTT
25402914 ATGTAAGTT
1 ATGTAAGTT
*
25402923 ATGTAATTT
1 ATGTAAGTT
25402932 ATGTAAGTT
1 ATGTAAGTT
25402941 ATGTAAGTT
1 ATGTAAGTT
25402950 ATGTAAGTT
1 ATGTAAGTT
* *
25402959 ATTTAATTT
1 ATGTAAGTT
25402968 ATGTAAGTT
1 ATGTAAGTT
*
25402977 ATGTAAGAT
1 ATGTAAGTT
25402986 ATGTAAGTT
1 ATGTAAGTT
25402995 ATGTAAGTT
1 ATGTAAGTT
*
25403004 ATTTAAGTT
1 ATGTAAGTT
25403013 ATGTAAGTT
1 ATGTAAGTT
25403022 A--TAAGTT
1 ATGTAAGTT
*
25403029 ATTTAAGTT
1 ATGTAAGTT
25403038 ATGTAAGTT
1 ATGTAAGTT
25403047 ATGTAAGTT
1 ATGTAAGTT
25403056 ATGTAAGTT
1 ATGTAAGTT
*
25403065 ATTTAA-TT
1 ATGTAAGTT
25403073 AATGTAAGTT
1 -ATGTAAGTT
25403083 ATGTAAGTT
1 ATGTAAGTT
* *
25403092 ATATAATTT
1 ATGTAAGTT
25403101 ATGTAAGCAATT
1 ATGTAAG---TT
* *
25403113 -TAGAAAAAATT
1 AT-G--TAAGTT
*
25403124 ATATAAGTT
1 ATGTAAGTT
25403133 ATGTACTAAGTT
1 ATG---TAAGTT
25403145 ATGT-A-TT
1 ATGTAAGTT
*
25403152 ATGTAAATT
1 ATGTAAGTT
25403161 ATGTACTAAGTT
1 ATG---TAAGTT
25403173 ATGT-A-TT
1 ATGTAAGTT
* *
25403180 ATGTAAATA
1 ATGTAAGTT
* *
25403189 ATTTAAGTA
1 ATGTAAGTT
*
25403198 ATGTATGTT
1 ATGTAAGTT
25403207 ATGTAAG-T
1 ATGTAAGTT
* *
25403215 AAGT-TGTT
1 ATGTAAGTT
25403223 ATGTAAGTT
1 ATGTAAGTT
* *
25403232 TTG-CA-TT
1 ATGTAAGTT
25403239 ATGTAAGTT
1 ATGTAAGTT
25403248 ATGTAAGTT
1 ATGTAAGTT
** *
25403257 ATCAAAGTA
1 ATGTAAGTT
*
25403266 ATGTATGTT
1 ATGTAAGTT
25403275 ATGTAAGTTGTT
1 ATGTAA---GTT
25403287 ATGTAAGTT
1 ATGTAAGTT
* *
25403296 TTG-CA-TT
1 ATGTAAGTT
25403303 ATGTAAGTT
1 ATGTAAGTT
25403312 ATGTAAGTT
1 ATGTAAGTT
25403321 ATGTAAGTT
1 ATGTAAGTT
25403330 AAATGT-A-TT
1 --ATGTAAGTT
25403339 ATG-AAGGTT
1 ATGTAA-GTT
25403348 ATGTAAGTT
1 ATGTAAGTT
*
25403357 GTGTAAGTT
1 ATGTAAGTT
25403366 ATGTAAGTT
1 ATGTAAGTT
25403375 ATGTAAGTT
1 ATGTAAGTT
25403384 AAATGT-A-TT
1 --ATGTAAGTT
25403393 ATGTAAGTT
1 ATGTAAGTT
25403402 TATATAAAAA
Statistics
Matches: 432, Mismatches: 55, Indels: 88
0.75 0.10 0.15
Matches are distributed among these distances:
7 42 0.10
8 23 0.05
9 317 0.73
10 7 0.02
11 11 0.03
12 30 0.07
14 2 0.00
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:25403162 original size:28 final size:28
Alignment explanation
Indices: 25403121--25403187 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
25403111 TTTAGAAAAA
* *
25403121 ATTATATAAGTTATGTACTAAGTTATGT
1 ATTATGTAAATTATGTACTAAGTTATGT
25403149 ATTATGTAAATTATGTACTAAGTTATGT
1 ATTATGTAAATTATGTACTAAGTTATGT
25403177 ATTATGTAAAT
1 ATTATGTAAAT
25403188 AATTTAAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.46
Consensus pattern (28 bp):
ATTATGTAAATTATGTACTAAGTTATGT
Found at i:25403230 original size:12 final size:12
Alignment explanation
Indices: 25403213--25403295 Score: 55
Period size: 12 Copynumber: 6.6 Consensus size: 12
25403203 TGTTATGTAA
25403213 GTAAGTTGTTAT
1 GTAAGTTGTTAT
25403225 GTAAGTTTTGCATTAT
1 GTAAG--TTG--TTAT
25403241 GTAA---GTTAT
1 GTAAGTTGTTAT
* * *
25403250 GTAAGTTATCAAA
1 GTAAGTTGT-TAT
25403263 GTAATGTATGTTAT
1 GTAA-GT-TGTTAT
25403277 GTAAGTTGTTAT
1 GTAAGTTGTTAT
25403289 GTAAGTT
1 GTAAGTT
25403296 TTGCATTATG
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
9 8 0.15
11 1 0.02
12 19 0.35
13 7 0.13
14 10 0.18
15 2 0.04
16 8 0.15
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (12 bp):
GTAAGTTGTTAT
Found at i:25403306 original size:64 final size:64
Alignment explanation
Indices: 25403193--25403384 Score: 241
Period size: 64 Copynumber: 3.0 Consensus size: 64
25403183 TAAATAATTT
25403193 AAGTAATGTATGTTATGTAAGTAAGTTGTTATGTAAGTTTTGCATTATGTAAGTTATGTAAGTTA
1 AAGTAATGTATGTTA--T--GTAAGTTGTTATGTAAGTTTTGCATTATGTAAGTTATGTAAGTTA
25403258 TCA
62 TCA
**
25403261 AAGTAATGTATGTTATGTAAGTTGTTATGTAAGTTTTGCATTATGTAAGTTATGTAAGTTATGT
1 AAGTAATGTATGTTATGTAAGTTGTTATGTAAGTTTTGCATTATGTAAGTTATGTAAGTTATCA
* *
25403325 AAGTTAAATGTA--TTATG-AAG--GTTATGTAAGTTGTGTAAGTTATGTAAGTTATGTAAGTTA
1 AAG-T-AATGTATGTTATGTAAGTTGTTATGTAAGTTTTG-CA-TTATGTAAGTTATGTAAGTTA
25403385 AATGTATTAT
Statistics
Matches: 116, Mismatches: 4, Indels: 13
0.87 0.03 0.10
Matches are distributed among these distances:
61 14 0.12
62 1 0.01
63 24 0.21
64 54 0.47
65 1 0.01
66 7 0.06
68 15 0.13
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (64 bp):
AAGTAATGTATGTTATGTAAGTTGTTATGTAAGTTTTGCATTATGTAAGTTATGTAAGTTATCA
Found at i:25403449 original size:23 final size:23
Alignment explanation
Indices: 25403418--25403461 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
25403408 AAAAAATTAT
*
25403418 AAGTTATGTATTATGTAAGTTAA
1 AAGTAATGTATTATGTAAGTTAA
25403441 AAGTAATGTATTATGTAAGTT
1 AAGTAATGTATTATGTAAGTT
25403462 TACATATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (23 bp):
AAGTAATGTATTATGTAAGTTAA
Found at i:25403528 original size:63 final size:63
Alignment explanation
Indices: 25403460--25403709 Score: 464
Period size: 63 Copynumber: 4.0 Consensus size: 63
25403450 ATTATGTAAG
*
25403460 TTTACATATATGTAAACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTAACATACTTAAAT
1 TTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTAACATACTTAAAT
*
25403523 TTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATTTATTTAAGTAACATACTTAAAT
1 TTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTAACATACTTAAAT
*
25403586 TTTACATATAAGTAAACTTACTTAAATTTTAATAAGTAATGTATTTAAGTAACATACTTAAAT
1 TTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTAACATACTTAAAT
*
25403649 TTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAA
1 TTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTAACATACTTAA
25403710 GTAATAGATT
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 181 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (63 bp):
TTTACATATAAGTAAACTTACTTAAATTTTAGTAAGTAATGTATTTAAGTAACATACTTAAAT
Found at i:25403699 original size:13 final size:13
Alignment explanation
Indices: 25403681--25403732 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
25403671 TAAATTTTAG
*
25403681 TAAGTAATGTATT
1 TAAGTAATATATT
*
25403694 TAAGTAACATATT
1 TAAGTAATATATT
*
25403707 TAAGTAATAGATT
1 TAAGTAATATATT
25403720 TAA-TATATATATT
1 TAAGTA-ATATATT
25403733 AGTAATAAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 2 0.06
13 31 0.94
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:25403731 original size:26 final size:26
Alignment explanation
Indices: 25403681--25403739 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
25403671 TAAATTTTAG
25403681 TAAGTAAT-GTATTTAAGTAACATATT
1 TAAGTAATAGTATTTAAGTAACATA-T
*
25403707 TAAGTAATAG-ATTTAA-TATATATAT
1 TAAGTAATAGTATTTAAGTA-ACATAT
25403732 T-AGTAATA
1 TAAGTAATA
25403740 AGTTAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.23
25 4 0.13
26 18 0.60
27 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (26 bp):
TAAGTAATAGTATTTAAGTAACATAT
Found at i:25404402 original size:16 final size:17
Alignment explanation
Indices: 25404377--25404411 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
25404367 AGTACATGGC
*
25404377 AAATGTAAAATAAG-TA
1 AAATGAAAAATAAGCTA
25404393 AAATGAAAAATAAGCTA
1 AAATGAAAAATAAGCTA
25404410 AA
1 AA
25404412 GGAAAACATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (17 bp):
AAATGAAAAATAAGCTA
Found at i:25405450 original size:11 final size:10
Alignment explanation
Indices: 25405416--25405446 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
25405406 GCAAAGTTAA
25405416 ATTAAAAAAT
1 ATTAAAAAAT
25405426 ATTAAAAAGAT
1 ATTAAAAA-AT
25405437 ATTAAAAAAT
1 ATTAAAAAAT
25405447 TATTTTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (10 bp):
ATTAAAAAAT
Found at i:25406378 original size:146 final size:147
Alignment explanation
Indices: 25406148--25406483 Score: 356
Period size: 146 Copynumber: 2.3 Consensus size: 147
25406138 AAATTAACCA
* * * *
25406148 TTTGCGGCGTTTATAAAT-AAGCGCCACTAACTATAAGTCGAAACGCAGTCGTTTCATCAACAAA
1 TTTGCGGCGTTT-TAAATAAAGCGCCACTAACTATAAATCAAAACACAGTCGCTTCATCAACAAA
* * ** * * * * **
25406212 TAGCGCACACTTGTGGCGTTTTTTAATAAA-CGCCACTAAT-A-ATACAGCAAAACGGCCTCGTA
65 TACCGCAAACCCGTGGCG-TTTTAAAAAAATCGCCACTAATAACATACA-AAAAACGACAGCGTA
*
25406274 TCGATAAATGTTAAAACATT
128 TCGATAAATGTTAAAACAAT
* **
25406294 TTTGCGGCGTTTTAATTAAAGCGCCACTAACTATAAATCAAAACACAGTCGCTTCATCAACACTT
1 TTTGCGGCGTTTTAAATAAAGCGCCACTAACTATAAATCAAAACACAGTCGCTTCATCAACAAAT
* ** * * *
25406359 ACCTCAAACCCGTGGCGTTTTAAAAAAATCGCCACTAATAACATTTAAAAAACGATAGCGTTTCT
66 ACCGCAAACCCGTGGCGTTTTAAAAAAATCGCCACTAATAACATACAAAAAACGACAGCGTATCG
*
25406424 ATAAATGTTAGAACAAT
131 ATAAATGTTAAAACAAT
* * *
25406441 GTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAA
1 TTTGCGGCGTTTTAAATAAAGCGCCACTAACTATAA-ATCAAA
25406484 CGAAGTCGTT
Statistics
Matches: 157, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
145 13 0.08
146 75 0.48
147 60 0.38
148 9 0.06
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (147 bp):
TTTGCGGCGTTTTAAATAAAGCGCCACTAACTATAAATCAAAACACAGTCGCTTCATCAACAAAT
ACCGCAAACCCGTGGCGTTTTAAAAAAATCGCCACTAATAACATACAAAAAACGACAGCGTATCG
ATAAATGTTAAAACAAT
Found at i:25406476 original size:147 final size:147
Alignment explanation
Indices: 25406274--25406613 Score: 391
Period size: 147 Copynumber: 2.3 Consensus size: 147
25406264 CGGCCTCGTA
* * *
25406274 TCGATAAATGTTAAAACATTTTTGCGGCGTTTTAATTAAAGCGCCACTAACTATAA-ATCAAAAC
1 TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATC-AAAC
* * *
25406338 -ACAGTCGCTTCATCAACACTTACCTCAAACCCGTGGCGTTT-TAAAAAAATCGCCACTAATAAC
65 GA-AGTCGCTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAAA-CGCCACTAATAAC
* * *
25406401 ATTTAAAAAACGATAGCGTT
128 ATTGAAAAAACGATAACATT
* * *
25406421 TCTATAAATGTTAGAACAATGTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACG
1 TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACG
* * * * ** * *
25406486 AAGTCGTTTCCCCAACATTTAACTCAAGCTTGTGGTGTTTCCAAAAAAACGCCACTAATACCATT
66 AAGTCGCTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAAACGCCACTAATAACATT
*
25406551 GACAAAACGATAACATT
131 GAAAAAACGATAACATT
** * *
25406568 TCGATAAA-CATAAATACAATTTTGCGGCATTTTATGTAAAGCGCCA
1 TCGATAAATGTTAAA-ACAATTTTGCGGCGTTTTAAGTAAAGCGCCA
25406614 GTAATAGCAA
Statistics
Matches: 161, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
146 3 0.02
147 147 0.91
148 11 0.07
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (147 bp):
TCGATAAATGTTAAAACAATTTTGCGGCGTTTTAAGTAAAGCGCCACTAAATATAAGATCAAACG
AAGTCGCTTCACCAACACTTAACTCAAACCCGTGGCGTTTCCAAAAAAACGCCACTAATAACATT
GAAAAAACGATAACATT
Found at i:25408212 original size:40 final size:41
Alignment explanation
Indices: 25408168--25408244 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
25408158 GTCTTAGGTT
* *
25408168 TCTTT-GCGGCGATTTATCAAAAACGCCGCTAAATCCTTGA
1 TCTTTAGCGGCGATTAATAAAAAACGCCGCTAAATCCTTGA
*
25408208 TCTTTAGCGGCGCTTAATAAAAAACGCCGCTAAATCC
1 TCTTTAGCGGCGATTAATAAAAAACGCCGCTAAATCC
25408245 CCGCATGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 5 0.15
41 28 0.85
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (41 bp):
TCTTTAGCGGCGATTAATAAAAAACGCCGCTAAATCCTTGA
Found at i:25409471 original size:21 final size:21
Alignment explanation
Indices: 25409446--25409500 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
25409436 ACAGCTGTGG
* *
25409446 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGATACTGTAA
* *
25409467 TGGTGAGATTGGATACTGTAA
1 CGGTGAGATTAGATACTGTAA
25409488 CGGTGAGATTAGA
1 CGGTGAGATTAGA
25409501 AATAGCGGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.07, G:0.35, T:0.31
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAA
Found at i:25409723 original size:11 final size:10
Alignment explanation
Indices: 25409682--25409725 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
25409672 TTTTAATAAT
25409682 AAATAATTAA
1 AAATAATTAA
*
25409692 AAATGAATTAT
1 AAAT-AATTAA
*
25409703 AGATAATTAA
1 AAATAATTAA
25409713 AAATGAATTAA
1 AAAT-AATTAA
25409724 AA
1 AA
25409726 CTAGAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 12 0.43
11 16 0.57
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (10 bp):
AAATAATTAA
Found at i:25410368 original size:11 final size:12
Alignment explanation
Indices: 25410339--25410371 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25410329 TTCAGCTTGG
*
25410339 ATGCTGGTCTGC
1 ATGCTGGTTTGC
25410351 ATGCTGGTTTGC
1 ATGCTGGTTTGC
25410363 -TGCTGGTTT
1 ATGCTGGTTT
25410372 CCTGTTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:25414018 original size:21 final size:22
Alignment explanation
Indices: 25413979--25414019 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25413969 TGCCAAGCCA
*
25413979 TTTTAGGGTTTTTAATTAGTAG
1 TTTTAGGGTATTTAATTAGTAG
*
25414001 TTTTA-GGTATTTATTTAGT
1 TTTTAGGGTATTTAATTAGT
25414020 TTTAGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (22 bp):
TTTTAGGGTATTTAATTAGTAG
Found at i:25418146 original size:21 final size:22
Alignment explanation
Indices: 25418105--25418146 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
25418095 ATCTTTATTA
25418105 TTCATATATACATAAGTACATT
1 TTCATATATACATAAGTACATT
* *
25418127 TTCATA-ATATATATGTACAT
1 TTCATATATACATAAGTACAT
25418147 ATATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TTCATATATACATAAGTACATT
Found at i:25418907 original size:108 final size:109
Alignment explanation
Indices: 25418652--25418974 Score: 393
Period size: 108 Copynumber: 2.9 Consensus size: 109
25418642 ACATTTTTCT
* * * * * *
25418652 AAATGAGGCAATATTTAGCATTTGGAAACTCGAAAAAAACGTGCCCTAATGTGCTGGGTTTCGAT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCG-AGAAAACGTGCCCTAATGTGCTGGGTTTCGA-
* *
25418717 TTTTCTTGTTCAACCAAATAGCTAAGA-ATCCTTTTTTTAAAAAAAAATTCA
64 TTTTCTCGTTCAACCAAATAGCCAA-ATATCC----TTT-AAAAAAAATTCA
25418768 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
* * *
25418833 TTCTCGTTCAACCAAATAGCCAAATATCCTTT-CAAAAATTTTA
66 TTCTCGTTCAACCAAATAGCCAAATATCCTTTAAAAAAAATTCA
* * *
25418876 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACATGCCCTAATGTGCTGTGTTTCGA-T
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
**
25418939 TTCTCGTTGGACCAAATAGCCAAATATCCTCTTAAA
66 TTCTCGTTCAACCAAATAGCCAAATATCCT-TTAAA
25418975 TTTTAATTCA
Statistics
Matches: 187, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
106 29 0.16
107 27 0.14
108 43 0.23
110 3 0.02
113 1 0.01
114 27 0.14
115 30 0.16
116 27 0.14
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
TTCTCGTTCAACCAAATAGCCAAATATCCTTTAAAAAAAATTCA
Found at i:25422930 original size:11 final size:11
Alignment explanation
Indices: 25422910--25422939 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
25422900 CAATGGAGGC
25422910 AAAA-AAAATA
1 AAAACAAAATA
25422920 AAAACAAAATA
1 AAAACAAAATA
25422931 AAAACAAAA
1 AAAACAAAA
25422940 AATAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAACAAAATA
Found at i:25422938 original size:26 final size:26
Alignment explanation
Indices: 25422909--25422962 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
25422899 GCAATGGAGG
*
25422909 CAAAAAA-AATAAAAACAAAATAAAAA
1 CAAAAAATAATAAAAA-AAAACAAAAA
*
25422935 CAAAAAATAATTAAAAAAAACAAAAA
1 CAAAAAATAATAAAAAAAAACAAAAA
25422961 CA
1 CA
25422963 CCTCTGCCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (26 bp):
CAAAAAATAATAAAAAAAAACAAAAA
Found at i:25423343 original size:18 final size:18
Alignment explanation
Indices: 25423309--25423393 Score: 93
Period size: 18 Copynumber: 4.6 Consensus size: 18
25423299 ATAAAATTTA
25423309 AAAAAAGAGAGAAAAAAGAAG
1 AAAAAAGA-AG-AAAAA-AAG
25423330 AAAAAAGAA-AAAAAGAAG
1 AAAAAAGAAGAAAAA-AAG
*
25423348 GAAAAAGAAGAAAAAAAG
1 AAAAAAGAAGAAAAAAAG
* *
25423366 AAAGAAGAAGAAGAAAAG
1 AAAAAAGAAGAAAAAAAG
25423384 AAAAAA-AAGA
1 AAAAAAGAAGA
25423394 GAGGCCAAGG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
17 4 0.07
18 40 0.69
19 5 0.09
20 1 0.02
21 8 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAGAAAAAAAG
Found at i:25423352 original size:28 final size:28
Alignment explanation
Indices: 25423308--25423393 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 28
25423298 AATAAAATTT
*
25423308 AAAAAAAGAGAGAAAAAAGAAGAAAAAAG
1 AAAAAAAGA-AGGAAAAAGAAGAAAAAAG
25423337 AAAAAAAGAAGGAAAAAGAAGAAAAAAAG
1 AAAAAAAGAAGGAAAAAGAAG-AAAAAAG
25423366 AAAGAAGAAGAA-G-AAAAGAA-AAAAAAG
1 AAA-AA-AAGAAGGAAAAAGAAGAAAAAAG
25423393 A
1 A
25423394 GAGGCCAAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
27 8 0.15
28 11 0.21
29 26 0.49
30 3 0.06
31 5 0.09
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (28 bp):
AAAAAAAGAAGGAAAAAGAAGAAAAAAG
Found at i:25423516 original size:31 final size:31
Alignment explanation
Indices: 25423481--25423549 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
25423471 AAATTTTGGA
25423481 TCAAATTGGGGCATGAGGTGATCAGAGCAGC
1 TCAAATTGGGGCATGAGGTGATCAGAGCAGC
*
25423512 TCAAATTGGGGTATGAGGTGATCAGAGCAGC
1 TCAAATTGGGGCATGAGGTGATCAGAGCAGC
25423543 TCAAATT
1 TCAAATT
25423550 TTGATCAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.23
Consensus pattern (31 bp):
TCAAATTGGGGCATGAGGTGATCAGAGCAGC
Found at i:25424879 original size:44 final size:44
Alignment explanation
Indices: 25424777--25425408 Score: 261
Period size: 44 Copynumber: 14.4 Consensus size: 44
25424767 TACTGACAGC
* *
25424777 GGAGCAGA-CTGAAGATTGCAGATCCTATCACTCTAAGTAGTAGT
1 GGAGCAGATC-GAAGATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * * * *
25424821 GGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTGAGCAGTAGT
1 GGAGCAGATCGAAGATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * * *
25424865 GGAGCAGATCGAAGATGGTG-A-ATCTTATCTTCCC-AATACAGTGGA
1 GGAGCAGATCGAAGAT--TGCAGATCCTATC-ACCCTAA-GCAGTAGT
* ** *
25424910 GAAGCAGATTTAAGCCATT--AG-TCCTATCACCCTAAGCAATAGT
1 GGAGCAGATCGAAG--ATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * * * *
25424953 GGAGTAGGTTGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGT
1 GGAGCAGATCGAAGATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * * *
25424997 GGAGCAGATCGAAGATGGTG-A-ATCTTATCTTCCC-AATACAGTGGA
1 GGAGCAGATCGAAGAT--TGCAGATCCTATC-ACCCTAA-GCAGTAGT
* **
25425042 GAAGCAGATTTAAGCTATT--AG-TCCTATCACCCTAAGCAGTAGT
1 GGAGCAGATCGAAG--ATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * * * * *
25425085 GGAGTAGGTTGAAAATTGCAGATTCTGTCACGCTAAGCAGTAGT
1 GGAGCAGATCGAAGATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * * *
25425129 GGAGCAGATCGAAGATGGTG-A-ATCTTATCTTCCC-AATACAGTGGA
1 GGAGCAGATCGAAGAT--TGCAGATCCTATC-ACCCTAA-GCAGTAGT
* * ** *
25425174 GAAGCACATTTAAGCCATT--AG-TCCTATCACTCTAAGCAGTAGT
1 GGAGCAGATCGAAG--ATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * * *
25425217 GGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
1 GGAGCAGATCGAAGATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * *
25425261 GGAGCAGATCGAAGATGGTG-A-ATCTTATCTTCCC-AATACAGTAGA
1 GGAGCAGATCGAAGAT--TGCAGATCCTATC-ACCCTAA-GCAGTAGT
* * ** * *
25425306 GAAGTAGATTTAAGTCATT--TG-TCCTATCACCCTAAGTAGTAGT
1 GGAGCAGATCGAAG--ATTGCAGATCCTATCACCCTAAGCAGTAGT
* * * *
25425349 GGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGT
1 GGAGCAGATCGAAGATTGCAGATCCTATCACCCTAAGCAGTAGT
25425393 GGAGCAGATCGAAGAT
1 GGAGCAGATCGAAGAT
25425409 GGTGAATCTT
Statistics
Matches: 423, Mismatches: 120, Indels: 90
0.67 0.19 0.14
Matches are distributed among these distances:
41 12 0.03
43 75 0.18
44 238 0.56
45 82 0.19
46 8 0.02
47 8 0.02
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
GGAGCAGATCGAAGATTGCAGATCCTATCACCCTAAGCAGTAGT
Found at i:25424953 original size:132 final size:132
Alignment explanation
Indices: 25424799--25425498 Score: 1193
Period size: 132 Copynumber: 5.3 Consensus size: 132
25424789 AGATTGCAGA
* * *
25424799 TCCTATCACTCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTGAGCAGTAG
1 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
25424864 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT
66 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT
25424929 AG
131 AG
* *
25424931 TCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATTCTGTCACCCTAAGCAGTAG
1 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
*
25424996 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCTATT
66 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT
25425061 AG
131 AG
* *
25425063 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAAATTGCAGATTCTGTCACGCTAAGCAGTAG
1 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
*
25425128 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCACATTTAAGCCATT
66 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT
25425193 AG
131 AG
*
25425195 TCCTATCACTCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
1 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
* * *
25425260 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTAGAGAAGTAGATTTAAGTCATT
66 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT
*
25425325 TG
131 AG
* *
25425327 TCCTATCACCCTAAGTAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
1 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
* * * *
25425392 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGGTTTAAACCATT
66 TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT
25425457 AG
131 AG
* **
25425459 TCCTATCACCCTAAGCAGTAGTGGAATAGGTCAAAGATTG
1 TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTG
25425499 TAGAGCAGAT
Statistics
Matches: 534, Mismatches: 34, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 534 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
TCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAG
TGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATT
AG
Found at i:25426964 original size:21 final size:22
Alignment explanation
Indices: 25426923--25426964 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
25426913 ATCTTTATTA
25426923 TTCATATATACATAAGTACATT
1 TTCATATATACATAAGTACATT
* *
25426945 TTCATA-ATATATATGTACAT
1 TTCATATATACATAAGTACAT
25426965 ATATATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
TTCATATATACATAAGTACATT
Found at i:25427388 original size:44 final size:43
Alignment explanation
Indices: 25427301--25427394 Score: 104
Period size: 44 Copynumber: 2.1 Consensus size: 43
25427291 TGCTTGATGA
25427301 TCATTTATTTATTTGTATATCAATAATTTTAATTTTTTAGTTAT
1 TCATTTATTTATTTGTATATCAATAATTTT-ATTTTTTAGTTAT
* *
25427345 TTATTTATTTATTATTGTATAT-ACATGATTTT-TTTTATT-GTTAT
1 TCATTTATTTA-T-TTGTATATCA-ATAATTTTATTTT-TTAGTTAT
25427389 TCATTT
1 TCATTT
25427395 TTTTTGCTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
44 24 0.56
45 4 0.09
46 15 0.35
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (43 bp):
TCATTTATTTATTTGTATATCAATAATTTTATTTTTTAGTTAT
Found at i:25434112 original size:29 final size:29
Alignment explanation
Indices: 25434054--25434112 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
25434044 TTGTTCATTG
*
25434054 ATATTGATAAAAAATATTTAAATATTTAA
1 ATATTGATAAAAAATATTTAAATATGTAA
*
25434083 ATATT-ATAAAAAAATGCTTTAAAT-TGTAA
1 ATATTGAT-AAAAAAT-ATTTAAATATGTAA
25434112 A
1 A
25434113 AACTAGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 2 0.08
29 17 0.65
30 7 0.27
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (29 bp):
ATATTGATAAAAAATATTTAAATATGTAA
Found at i:25434132 original size:29 final size:29
Alignment explanation
Indices: 25434060--25434132 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
25434050 ATTGATATTG
* * *
25434060 ATAAAAAAT-ATTTAAATATTTAAATATT
1 ATAAAAAATCATTTAAATATGTAAAAACT
25434088 ATAAAAAAATGC-TTTAAAT-TGTAAAAACT
1 AT-AAAAAAT-CATTTAAATATGTAAAAACT
25434117 AGTAAAAAATCATTTA
1 A-TAAAAAATCATTTA
25434133 TTTTTTTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.08
29 26 0.70
30 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (29 bp):
ATAAAAAATCATTTAAATATGTAAAAACT
Found at i:25442054 original size:105 final size:105
Alignment explanation
Indices: 25441943--25442169 Score: 280
Period size: 105 Copynumber: 2.2 Consensus size: 105
25441933 ATTAATGCAT
* * * *
25441943 TATATGTGACAACATCAGGCTCAATGCCTTTCTTTCTCATTGTATCAACAATATCTTCAGCTT-T
1 TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCGCATTGCATCAACAATATCTACAGCTTCT
25442007 AGAAACCATTCCCTC-T-TTGCAATGTGCATCAACCAATATAC
66 -GAAACCA--CCCTCTTCTTGCAATGTGCATCAACCAATATAC
* * * *
25442048 TGTATGTGACAACATTAGGTTCAATGCCTTGCTTTCGCATTGCATCAACAGTATCTACAGCTTCT
1 TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCGCATTGCATCAACAATATCTACAGCTTCT
* * * *
25442113 GAAATCACCCTCTTCTTGCAATGTGCATCTATCAATATAT
66 GAAACCACCCTCTTCTTGCAATGTGCATCAACCAATATAC
* *
25442153 TATACGTGACAATATCA
1 TATATGTGACAACATCA
25442170 AGAGAAATAT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
103 5 0.05
104 1 0.01
105 96 0.93
106 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (105 bp):
TATATGTGACAACATCAGGCTCAATGCCTTGCTTTCGCATTGCATCAACAATATCTACAGCTTCT
GAAACCACCCTCTTCTTGCAATGTGCATCAACCAATATAC
Found at i:25444455 original size:10 final size:10
Alignment explanation
Indices: 25444440--25444464 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25444430 GTTCTTAATG
25444440 TTTTTCATAA
1 TTTTTCATAA
25444450 TTTTTCATAA
1 TTTTTCATAA
25444460 TTTTT
1 TTTTT
25444465 GAAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTCATAA
Found at i:25456297 original size:23 final size:23
Alignment explanation
Indices: 25456268--25456311 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
25456258 CAGCACAAAG
*
25456268 AAACAACAAAAAGAAAGAAATGA
1 AAACAACAAAAAGAAAAAAATGA
*
25456291 AAACAACAGAAAGAAAAAAAT
1 AAACAACAAAAAGAAAAAAAT
25456312 AACAGAATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.75, C:0.09, G:0.11, T:0.05
Consensus pattern (23 bp):
AAACAACAAAAAGAAAAAAATGA
Found at i:25456315 original size:17 final size:18
Alignment explanation
Indices: 25456279--25456318 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
25456269 AACAACAAAA
25456279 AGAAAGAAATGAAAACAAC
1 AGAAAGAAA-GAAAACAAC
*
25456298 AGAAAGAAA-AAAATAAC
1 AGAAAGAAAGAAAACAAC
25456315 AGAA
1 AGAA
25456319 TAGGGGAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
19 9 0.45
ACGTcount: A:0.72, C:0.07, G:0.15, T:0.05
Consensus pattern (18 bp):
AGAAAGAAAGAAAACAAC
Found at i:25457640 original size:37 final size:37
Alignment explanation
Indices: 25457590--25457667 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
25457580 TTTCAATCCC
25457590 TATGCATTACTTATTTAAATTAATATATGTATATCAT
1 TATGCATTACTTATTTAAATTAATATATGTATATCAT
25457627 TATGCATTACTTATTTAAATTAATATATGTATATCAT
1 TATGCATTACTTATTTAAATTAATATATGTATATCAT
25457664 TATG
1 TATG
25457668 TACCTTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (37 bp):
TATGCATTACTTATTTAAATTAATATATGTATATCAT
Done.