Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1830
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: 215889
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:5301 original size:20 final size:20
Alignment explanation
Indices: 5254--5328 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
5244 AAAAAGACAT
*
5254 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
5273 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
5294 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
5314 AATGTATCGATACAT
1 AATGTATCGATACAT
5329 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:5322 original size:40 final size:39
Alignment explanation
Indices: 5251--5328 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
5241 GGTAAAAAGA
* *
5251 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
5290 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
5329 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:8101 original size:44 final size:44
Alignment explanation
Indices: 7944--8106 Score: 150
Period size: 44 Copynumber: 3.7 Consensus size: 44
7934 TTCGCTTTCA
* * * * * * *
7944 TTTGACATAATGGTTCTGCCTTAGTCAATCCCCTTTCACTTTTG
1 TTTGACGTGATGGTTCTACCTTGGTCAAACTCCTTTCATTTTTG
* * * **
7988 TTTGACGTGATGGTTCTTCCTTGATCAAACTCATTTC-TCTTTCA
1 TTTGACGTGATGGTTCTACCTTGGTCAAACTCCTTTCAT-TTTTG
* * *
8032 TTTGACGTGAGGGTTCTACCCTGGTCCAACTCCTTTCATTTTTG
1 TTTGACGTGATGGTTCTACCTTGGTCAAACTCCTTTCATTTTTG
*
8076 TTTGACGTGATGGTT-TAGCCTTGGTCGAACT
1 TTTGACGTGATGGTTCTA-CCTTGGTCAAACT
8107 TGTTACGTTT
Statistics
Matches: 94, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
43 2 0.02
44 91 0.97
45 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (44 bp):
TTTGACGTGATGGTTCTACCTTGGTCAAACTCCTTTCATTTTTG
Found at i:8824 original size:156 final size:158
Alignment explanation
Indices: 8633--8947 Score: 354
Period size: 156 Copynumber: 2.0 Consensus size: 158
8623 TTAGTGTCCA
* * * * * *
8633 TTAAGGTTACCGGGATACTTTCACATCAAAAGTATA-CCTTAGGAGCATTTTTGTAATTTTTTTA
1 TTAAGATTACCAGGATACTTTCACATCAAAAGTATACCCATAAGAGCATTTTCGTAA-TTTTCTA
8697 GAATCGAGTC-TTAAGTTGTCACTAAGCCCCCTTTTATG-CAAAAGATGGGTATTTAGG-TAGGT
65 GAATCGAGTCATT-AGTTGTCACTAAGCCCCCTTTTATGCCAAAAG-TGGGTATTTAGGATAGGT
*
8759 TTATCCCATATATAG-TCATTTTTAAGT-ATT
128 TCATCCCATATAT-GTTCATTTTTAAGTCATT
** * *
8789 TTAAGATTACCAGGATACTTTCATGTCGAAGGTATACCCATAAGAGCATTTTCGTAATTTTCTAG
1 TTAAGATTACCAGGATACTTTCACATCAAAAGTATACCCATAAGAGCATTTTCGTAATTTTCTAG
* * * ** ** * *
8854 AATTGAGTCATTGGTTGTCACTAGGTTCGTTTTTATGCCGAATGTGGGTATTTAGGATAGGTTCA
66 AATCGAGTCATTAGTTGTCACTAAGCCCCCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCA
* *
8919 TCCCATCTATGTTCTTTTTTAAGTCATT
131 TCCCATATATGTTCATTTTTAAGTCATT
8947 T
1 T
8948 AGGAGTATCG
Statistics
Matches: 131, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
156 77 0.59
157 50 0.38
158 4 0.03
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (158 bp):
TTAAGATTACCAGGATACTTTCACATCAAAAGTATACCCATAAGAGCATTTTCGTAATTTTCTAG
AATCGAGTCATTAGTTGTCACTAAGCCCCCTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCA
TCCCATATATGTTCATTTTTAAGTCATT
Found at i:8964 original size:156 final size:156
Alignment explanation
Indices: 8742--9031 Score: 335
Period size: 156 Copynumber: 1.9 Consensus size: 156
8732 ATGCAAAAGA
* *
8742 TGGGTATTTAGGTAGGTTTATCCCATATATAGTCATTTTTAAGTATTTTAAGATTACCAGGATAC
1 TGGGTATTTAGGTAGGTTCATCCCATATATAGTCATTTTTAAGTATTTTAAGAGTACCAGGATAC
* * *
8807 TT-TCATGTCGAAGGTA-TACCCATA-AGAGCATTTTCG-TAATTTTCTAGAATTGAGTCATTGG
66 TTCT-ACGTCGAACGTACT--CCATATAG-GCATTTTCGTTAATTTTCTAGAATTGAGTCATAGG
8868 TTGTCACTAGGTTCGTTTTTATGCCGAATG
127 TTGTCACTAGGTTCGTTTTTATGCCGAATG
* * * *
8898 TGGGTATTTAGGATAGGTTCATCCCATCTAT-GTTCTTTTTTAAGTCA-TTTAGGAGTATC--GA
1 TGGGTATTTAGG-TAGGTTCATCCCATATATAG-TCATTTTTAAGT-ATTTTAAGAGTACCAGGA
* * * *
8959 GTACTTCTACGTCGAACGTACTCCGTATAGGCATTTTCGTTATTTTTTTAGAATTGAGTCCTAGG
63 -TACTTCTACGTCGAACGTACTCCATATAGGCATTTTCGTTAATTTTCTAGAATTGAGTCATAGG
9024 TTGTCACT
127 TTGTCACT
9032 CTTATGCCAA
Statistics
Matches: 113, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
155 15 0.13
156 59 0.52
157 38 0.34
158 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (156 bp):
TGGGTATTTAGGTAGGTTCATCCCATATATAGTCATTTTTAAGTATTTTAAGAGTACCAGGATAC
TTCTACGTCGAACGTACTCCATATAGGCATTTTCGTTAATTTTCTAGAATTGAGTCATAGGTTGT
CACTAGGTTCGTTTTTATGCCGAATG
Found at i:21927 original size:16 final size:15
Alignment explanation
Indices: 21890--21933 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
21880 ACTATCAAAC
*
21890 AAAAAAACAAAAAAT
1 AAAAGAACAAAAAAT
21905 AAAAGAACAACAAAA-
1 AAAAGAACAA-AAAAT
21920 AAAGAGAACAAAAA
1 AAA-AGAACAAAAA
21934 CCATCTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.82, C:0.09, G:0.07, T:0.02
Consensus pattern (15 bp):
AAAAGAACAAAAAAT
Found at i:23390 original size:20 final size:20
Alignment explanation
Indices: 23365--23417 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
23355 GTTGGGCATA
*
23365 ATGTATCGATACAAT-TCTTC
1 ATGTATCGATACAATGTC-CC
23385 ATGTATCGATACAATGTCCC
1 ATGTATCGATACAATGTCCC
23405 ATGTATCGATACA
1 ATGTATCGATACA
23418 TTTCACTCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:23483 original size:12 final size:12
Alignment explanation
Indices: 23466--23490 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23456 TACAATTGAG
23466 CATGTATCGATA
1 CATGTATCGATA
23478 CATGTATCGATA
1 CATGTATCGATA
23490 C
1 C
23491 TAGGCATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:26050 original size:13 final size:13
Alignment explanation
Indices: 26032--26058 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26022 ATAGTAACCC
26032 ATGTATCGATACA
1 ATGTATCGATACA
26045 ATGTATCGATACA
1 ATGTATCGATACA
26058 A
1 A
26059 AGAACCTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:26071 original size:20 final size:20
Alignment explanation
Indices: 26046--26096 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
26036 ATCGATACAA
26046 TGTATCGATACAAAGAACCT
1 TGTATCGATACAAAGAACCT
*
26066 TGTATCAATACAAAGAACCT
1 TGTATCGATACAAAGAACCT
26086 TGTATCGATAC
1 TGTATCGATAC
26097 CTCTAGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGAACCT
Found at i:26995 original size:34 final size:34
Alignment explanation
Indices: 26952--27020 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
26942 AGCATATAAG
26952 GCTAGAGAGGATTCTTTAAGGTACCACAATCTTA
1 GCTAGAGAGGATTCTTTAAGGTACCACAATCTTA
26986 GCTAGAGAGGATTCTTTAAGGTACCACAATCTTA
1 GCTAGAGAGGATTCTTTAAGGTACCACAATCTTA
27020 G
1 G
27021 GTTTGGAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (34 bp):
GCTAGAGAGGATTCTTTAAGGTACCACAATCTTA
Found at i:32349 original size:20 final size:19
Alignment explanation
Indices: 32324--32371 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
32314 GTTGGGCATA
32324 ATGTATCGAAACAATTAAGC
1 ATGTATCGAAACAA-TAAGC
* * *
32344 ATGTATCGATACAATGAGT
1 ATGTATCGAAACAATAAGC
32363 ATGTATCGA
1 ATGTATCGA
32372 TAAAATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (19 bp):
ATGTATCGAAACAATAAGC
Found at i:32368 original size:19 final size:20
Alignment explanation
Indices: 32324--32373 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
32314 GTTGGGCATA
*
32324 ATGTATCGAAACAATTAAGC
1 ATGTATCGATACAATTAAGC
* *
32344 ATGTATCGATACAA-TGAGT
1 ATGTATCGATACAATTAAGC
32363 ATGTATCGATA
1 ATGTATCGATA
32374 AAATATATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATTAAGC
Found at i:33561 original size:146 final size:143
Alignment explanation
Indices: 33165--33778 Score: 579
Period size: 144 Copynumber: 4.2 Consensus size: 143
33155 GCATCAACTT
* *
33165 TCTACC-TTAGTCTTCAAAGAGCATGACA--CTTTTTCTTACCTACCTTGAAGCCCACAC-AATC
1 TCTACCTTTAGTCTTCAAAGAG-A-GA-ATGC-TTTTCTTACCTACCTTAAAGCTCACACAAAT-
* * *
33226 TGGTGGCACCTATCTACCTCCA-TCCTCAAAGAGCAAAATACTTTTCCTACCTACTACAAAGCCC
61 TGGT-GCACCTATCTACCTTCAGTCCTCAAAGAGCAAGA-ACTTTTCTTACCTACTACAAAGCCC
* *
33290 ACATAAGCTGGTAGCACCTA
124 ACACAAGCTGGTGGCACCTA
* * *
33310 TCTACC-TTAGTCTTCAAAGAGCAAAATGTTTTTCTTACCTACTTTAAAGCTCACACAAATTGGT
1 TCTACCTTTAGTCTTCAAAGAG-AGAATGCTTTTCTTACCTACCTTAAAGCTCACACAAATTGG-
* * *
33374 TGCACTTATCTACCTTCAGTCCTCAAAGAG-TAGAATGCTTTTCTTACCTACTACAAAGCCCATA
64 TGCACCTATCTACCTTCAGTCCTCAAAGAGCAAGAA--CTTTTCTTACCTACTACAAAGCCCACA
33438 CAAGCTGGTGGCACCTA
127 CAAGCTGGTGGCACCTA
* * * * * *
33455 TCTACCTTTAGTCCTCAAAGAGTAGAATGCTTTTCATACCTACCTTAAGGCTTACATAAGTTGGT
1 TCTACCTTTAGTCTTCAAAGAG-AGAATGCTTTTCTTACCTACCTTAAAGCTCACACAAATTGGT
* * *
33520 GACACCTATCTACCTTTAGTCCTCAAATAGCAAGACACTTTTCTTACCTACCT-TAAAGCCCACA
65 G-CACCTATCTACCTTCAGTCCTCAAAGAGCAAGA-ACTTTTCTTACCTA-CTACAAAGCCCACA
33584 CAAGCTGGTGGCACCTA
127 CAAGCTGGTGGCACCTA
** * * ** *
33601 TCTACCTCCAGTCTTCAAAGA-AGAATGCTTTTCTTACCTA-CTACAAAGCCCACACAAGCTAGT
1 TCTACCTTTAGTCTTCAAAGAGAGAATGCTTTTCTTACCTACCT-TAAAGCTCACACAAATTGGT
* * *
33664 GGCATCTACCTACCTTC-GATCCTCAAAGAGCAAGATGCTTTTCTTACCTACCTTA-AAA-CCCA
65 -GCACCTATCTACCTTCAG-TCCTCAAAGAGCAAGA-ACTTTTCTTACCTA-C-TACAAAGCCCA
* *
33726 CATAAGTTGGTGGCACCTA
125 CACAAGCTGGTGGCACCTA
* * ** * *
33745 TTTATCTCCAATTTTCAAAGAGCAGAATGCTTTT
1 TCTACCTTTAGTCTTCAAAGAG-AGAATGCTTTT
33779 TTGAACTACA
Statistics
Matches: 398, Mismatches: 52, Indels: 37
0.82 0.11 0.08
Matches are distributed among these distances:
143 5 0.01
144 156 0.39
145 91 0.23
146 140 0.35
147 5 0.01
148 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (143 bp):
TCTACCTTTAGTCTTCAAAGAGAGAATGCTTTTCTTACCTACCTTAAAGCTCACACAAATTGGTG
CACCTATCTACCTTCAGTCCTCAAAGAGCAAGAACTTTTCTTACCTACTACAAAGCCCACACAAG
CTGGTGGCACCTA
Found at i:33628 original size:217 final size:216
Alignment explanation
Indices: 33195--33745 Score: 664
Period size: 217 Copynumber: 2.5 Consensus size: 216
33185 GCATGACACT
** * **
33195 TTTTCTTACCTACCT-TGAAGCCCACACAATCTGGTGGCACCTATCTACCTCCA-TCCTCAAAGA
1 TTTTCTTACCTA-CTACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTTTAGTCCTCAAAGA
* * * *
33258 GCAAAATACTTTTCCTACCTA-CTACAAAGCCCACATAAGCTGGT-AGCACCTATCTACCTTAGT
65 GC-AAATGCTTTTCATACCTACCT-TAAAGCCCACATAAGTTGGTGA-CACCTATCTACCTTAGT
* *** * * * * *
33321 CTTCAAAGAGCAAAATGTTTTTCTTACCTACTTTAAAGCTCACACAAATTGGTTGCACTTATCTA
127 CCTCAAAGAGCAAAACACTTTTCTTACCTACCTTAAAGCCCACACAAACTGGTGGCACCTATCTA
*
33386 CCTTCAGTCCTCAAAGAGTAGAATGC
192 CCTCCAGTCCTCAAAGAG-AGAATGC
*
33412 TTTTCTTACCTACTACAAAGCCCATACAAGCTGGTGGCACCTATCTACCTTTAGTCCTCAAAGAG
1 TTTTCTTACCTACTACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTTTAGTCCTCAAAGAG
* * **
33477 TAGAATGCTTTTCATACCTACCTTAAGGCTTACATAAGTTGGTGACACCTATCTACCTTTAGTCC
66 CA-AATGCTTTTCATACCTACCTTAAAGCCCACATAAGTTGGTGACACCTATCTACC-TTAGTCC
* * *
33542 TCAAATAGCAAGACACTTTTCTTACCTACCTTAAAGCCCACACAAGCTGGTGGCACCTATCTACC
129 TCAAAGAGCAAAACACTTTTCTTACCTACCTTAAAGCCCACACAAACTGGTGGCACCTATCTACC
*
33607 TCCAGTCTTCAAAGA-AGAATGC
194 TCCAGTCCTCAAAGAGAGAATGC
* * * *
33629 TTTTCTTACCTACTACAAAGCCCACACAAGCTAGTGGCATCTACCTACC-TTCGATCCTCAAAGA
1 TTTTCTTACCTACTACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTTTAG-TCCTCAAAGA
* * *
33693 GCAAGATGCTTTTCTTACCTACCTTAAAACCCACATAAGTTGGTGGCACCTAT
65 GCAA-ATGCTTTTCATACCTACCTTAAAGCCCACATAAGTTGGTGACACCTAT
33746 TTATCTCCAA
Statistics
Matches: 286, Mismatches: 40, Indels: 16
0.84 0.12 0.05
Matches are distributed among these distances:
216 6 0.02
217 151 0.53
218 53 0.19
219 76 0.27
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (216 bp):
TTTTCTTACCTACTACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTTTAGTCCTCAAAGAG
CAAATGCTTTTCATACCTACCTTAAAGCCCACATAAGTTGGTGACACCTATCTACCTTAGTCCTC
AAAGAGCAAAACACTTTTCTTACCTACCTTAAAGCCCACACAAACTGGTGGCACCTATCTACCTC
CAGTCCTCAAAGAGAGAATGC
Found at i:33765 original size:290 final size:289
Alignment explanation
Indices: 33226--33778 Score: 679
Period size: 290 Copynumber: 1.9 Consensus size: 289
33216 CCACACAATC
* *
33226 TGGTGGCACCTATCTACCTCCATCCTCAAAGAGCAAAATACTTTTCCTACCTACTACAAAGCCCA
1 TGGTGACACCTATCTACCTCCATCCTCAAAGAGCAAAACACTTTTCCTACCTACTACAAAGCCCA
* * * **
33291 CATAAGCTGGTAGCACCTATCTACCTTAGTCTTCAAAGAGCAAAATGTTTTTCTTACCTACTTTA
66 CACAAGCTGGTAGCACCTATCTACCTCAGTCTTCAAAGA-CAAAATGCTTTTCTTACCTACTACA
* * * * * *
33356 AAGCTCACACAAATTGGTTGCACTTATCTACCTTCAGTCCTCAAAGAGTAGAATGCTTTTCTTAC
130 AAGCCCACACAAACTAGTGGCACTTACCTACCTTCAGTCCTCAAAGAGAAGAATGCTTTTCTTAC
* ** * *
33421 CTACTACAAAGCCCATACAAGCTGGTGGCACCTATCTACCTTTAGTCCTCAAAGAGTAGAATGCT
195 CTACTACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAATCCTCAAAGAGCAGAATGCT
33486 TTTCATACCTACCTTAAGGCTTACATAAGT
260 TTTCATACCTACCTTAAGGCTTACATAAGT
** * * * *
33516 TGGTGACACCTATCTACCTTTAGTCCTCAAATAGCAAGACACTTTTCTTACCTACCT-TAAAGCC
1 TGGTGACACCTATCTACCTCCA-TCCTCAAAGAGCAAAACACTTTTCCTACCTA-CTACAAAGCC
* *
33580 CACACAAGCTGGTGGCACCTATCTACCTCCAGTCTTCAAAGA-AGAATGCTTTTCTTACCTACTA
64 CACACAAGCTGGTAGCACCTATCTACCT-CAGTCTTCAAAGACAAAATGCTTTTCTTACCTACTA
*
33644 CAAAGCCCACACAAGCTAGTGGCA-TCTACCTACCTTC-GATCCTCAAAGAGCAAG-ATGCTTTT
128 CAAAGCCCACACAAACTAGTGGCACT-TACCTACCTTCAG-TCCTCAAAGAG-AAGAATGCTTTT
* * * * **
33706 CTTACCTACCTTA-AAA-CCCACATAAGTTGGTGGCACCTATTTATCTCCAATTTTCAAAGAGCA
190 CTTACCTA-C-TACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAATCCTCAAAGAGCA
33769 GAATGCTTTT
253 GAATGCTTTT
33779 TTGAACTACA
Statistics
Matches: 222, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
289 2 0.01
290 139 0.63
291 65 0.29
292 16 0.07
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (289 bp):
TGGTGACACCTATCTACCTCCATCCTCAAAGAGCAAAACACTTTTCCTACCTACTACAAAGCCCA
CACAAGCTGGTAGCACCTATCTACCTCAGTCTTCAAAGACAAAATGCTTTTCTTACCTACTACAA
AGCCCACACAAACTAGTGGCACTTACCTACCTTCAGTCCTCAAAGAGAAGAATGCTTTTCTTACC
TACTACAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAATCCTCAAAGAGCAGAATGCTT
TTCATACCTACCTTAAGGCTTACATAAGT
Found at i:33775 original size:73 final size:73
Alignment explanation
Indices: 33054--33778 Score: 567
Period size: 73 Copynumber: 9.9 Consensus size: 73
33044 GGATGCTTTT
* * * * *
33054 CTACCTTAAAGCCCATACAAGCTTGTGGCACCACCTACCTACCTT-AGTCCAT-AAAAAGCTAGA
1 CTACCTTAAAACCCACACAAGCTGGTGG---CACCTATCTACCTTCAGTCC-TCAAAGAGC-AGA
*
33117 CT-CTTTT-TTACC
61 ATGCTTTTCTTA-C
* * * * * *
33129 CCATCTTAAAACCCATA-AAGTTGGTGGCATCAACTTTCTACCTT-AGTCTTCAAAGAGCATGAC
1 CTACCTTAAAACCCACACAAGCTGGTGGCA-C--CTATCTACCTTCAGTCCTCAAAGAGCA-GA-
33192 A--CTTTTTCTTAC
61 ATGC-TTTTCTTAC
* * * * * *
33204 CTACCTTGAAGCCCACACAATCTGGTGGCACCTATCTACCTCCA-TCCTCAAAGAGCAAAATACT
1 CTACCTTAAAACCCACACAAGCTGGTGGCACCTATCTACCTTCAGTCCTCAAAGAGCAGAATGCT
*
33268 TTTCCTAC
66 TTTCTTAC
* * * *
33276 CTA-C-TACAAAGCCCACATAAGCTGGTAGCACCTATCTACCTT-AGTCTTCAAAGAGCAAAATG
1 CTACCTTA-AAA-CCCACACAAGCTGGTGGCACCTATCTACCTTCAGTCCTCAAAGAGCAGAATG
*
33338 TTTTTCTTAC
64 CTTTTCTTAC
* * * ** * * *
33348 CTACTTTAAAGCTCACACAAATTGGTTGCACTTATCTACCTTCAGTCCTCAAAGAGTAGAATGCT
1 CTACCTTAAAACCCACACAAGCTGGTGGCACCTATCTACCTTCAGTCCTCAAAGAGCAGAATGCT
33413 TTTCTTAC
66 TTTCTTAC
* * *
33421 CTA-C-TACAAAGCCCATACAAGCTGGTGGCACCTATCTACCTTTAGTCCTCAAAGAGTAGAATG
1 CTACCTTA-AAA-CCCACACAAGCTGGTGGCACCTATCTACCTTCAGTCCTCAAAGAGCAGAATG
*
33484 CTTTTCATAC
64 CTTTTCTTAC
** ** * * * * *
33494 CTACCTTAAGGCTTACATAAGTTGGTGACACCTATCTACCTTTAGTCCTCAAATAGCAAGACA--
1 CTACCTTAAAACCCACACAAGCTGGTGGCACCTATCTACCTTCAGTCCTCAAAGAGC-AGA-ATG
33557 CTTTTCTTAC
64 CTTTTCTTAC
* * *
33567 CTACCTTAAAGCCCACACAAGCTGGTGGCACCTATCTACCTCCAGTCTTCAAAGA--AGAATGCT
1 CTACCTTAAAACCCACACAAGCTGGTGGCACCTATCTACCTTCAGTCCTCAAAGAGCAGAATGCT
33630 TTTCTTAC
66 TTTCTTAC
* * *
33638 CTA-C-TACAAAGCCCACACAAGCTAGTGGCATCTACCTACCTTC-GATCCTCAAAGAGCA-AGA
1 CTACCTTA-AAA-CCCACACAAGCTGGTGGCACCTATCTACCTTCAG-TCCTCAAAGAGCAGA-A
33699 TGCTTTTCTTAC
62 TGCTTTTCTTAC
* * * * * * **
33711 CTACCTTAAAACCCACATAAGTTGGTGGCACCTATTTATCTCCAATTTTCAAAGAGCAGAATGCT
1 CTACCTTAAAACCCACACAAGCTGGTGGCACCTATCTACCTTCAGTCCTCAAAGAGCAGAATGCT
33776 TTT
66 TTT
33779 TTGAACTACA
Statistics
Matches: 522, Mismatches: 92, Indels: 74
0.76 0.13 0.11
Matches are distributed among these distances:
69 3 0.01
70 8 0.02
71 59 0.11
72 95 0.18
73 264 0.51
74 43 0.08
75 37 0.07
76 13 0.02
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (73 bp):
CTACCTTAAAACCCACACAAGCTGGTGGCACCTATCTACCTTCAGTCCTCAAAGAGCAGAATGCT
TTTCTTAC
Found at i:34796 original size:26 final size:26
Alignment explanation
Indices: 34767--34817 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
34757 AGTATCGATC
* * *
34767 TGAAAGCTTGTTCTTGGTATTAATAA
1 TGAAAACTTGATCTTGGTATCAATAA
34793 TGAAAACTTGATCTTGGTATCAATA
1 TGAAAACTTGATCTTGGTATCAATA
34818 TAGGCTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (26 bp):
TGAAAACTTGATCTTGGTATCAATAA
Found at i:35590 original size:20 final size:20
Alignment explanation
Indices: 35565--35642 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
35555 ACTGTCAAGG
* *
35565 AAATGTAGCGATACATTTTT
1 AAATGTATCGATACATTATT
**
35585 AAATGTATCGATACATGCTT
1 AAATGTATCGATACATTATT
*
35605 ACAATTGTATCAATACATTATT
1 A-AA-TGTATCGATACATTATT
*
35627 GAATGTATCGATACAT
1 AAATGTATCGATACAT
35643 GCAGTAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 30 0.62
21 4 0.08
22 14 0.29
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (20 bp):
AAATGTATCGATACATTATT
Found at i:40318 original size:22 final size:22
Alignment explanation
Indices: 40275--40319 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
40265 TTGGCCCATC
**
40275 AAATAATTTTTTCAAATTTTTT
1 AAATAATTTTTTCAAAAATTTT
40297 AAAT-ATTTTTCTCAAAAATTTT
1 AAATAATTTTT-TCAAAAATTTT
40319 A
1 A
40320 CCAAATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATAATTTTTTCAAAAATTTT
Found at i:40937 original size:20 final size:18
Alignment explanation
Indices: 40908--40978 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 18
40898 ATCCTAGAAA
*
40908 GTATCAATACATATCTAGAT
1 GTATCGATACATA-CTA-AT
* *
40928 GTATCGATACATGCTTATT
1 GTATCGATACATAC-TAAT
40947 GTATCGATACATACTCAATT
1 GTATCGATACATACT-AA-T
40967 GTATCGATACAT
1 GTATCGATACAT
40979 GAAATTGGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.02
19 16 0.37
20 26 0.60
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (18 bp):
GTATCGATACATACTAAT
Found at i:40951 original size:19 final size:20
Alignment explanation
Indices: 40927--40979 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
40917 CATATCTAGA
*
40927 TGTATCGATACATGCT-TAT
1 TGTATCGATACATGCTCAAT
*
40946 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
40966 TGTATCGATACATG
1 TGTATCGATACATG
40980 AAATTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:45946 original size:52 final size:51
Alignment explanation
Indices: 45805--45953 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 51
45795 CGAAATATGA
* *
45805 AAATTTGCCTGCATGTATCGATACATTGAATAGTGAATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* * *
45857 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
45909 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
45954 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:45960 original size:13 final size:13
Alignment explanation
Indices: 45942--45966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45932 CAAAGATCAG
45942 TGTATCGATACAA
1 TGTATCGATACAA
45955 TGTATCGATACA
1 TGTATCGATACA
45967 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46046 original size:13 final size:13
Alignment explanation
Indices: 46028--46052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46018 ACAAAACTTA
46028 TGTATCGATACAT
1 TGTATCGATACAT
46041 TGTATCGATACA
1 TGTATCGATACA
46053 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:46048 original size:32 final size:33
Alignment explanation
Indices: 46007--46072 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
45997 AGTAGCTTAA
46007 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
46039 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
46072 A
1 A
46073 AATTGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:50113 original size:52 final size:52
Alignment explanation
Indices: 50043--50163 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
50033 GAAAATTTAT
*
50043 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
50095 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
50147 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
50164 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:50176 original size:52 final size:51
Alignment explanation
Indices: 50043--50183 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
50033 GAAAATTTAT
50043 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
50095 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
50147 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
50184 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:50190 original size:13 final size:13
Alignment explanation
Indices: 50172--50196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50162 CAAAGATCAG
50172 TGTATCGATACAA
1 TGTATCGATACAA
50185 TGTATCGATACA
1 TGTATCGATACA
50197 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:50280 original size:13 final size:13
Alignment explanation
Indices: 50262--50286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50252 AAAAAAAATA
50262 TGTATCGATACAT
1 TGTATCGATACAT
50275 TGTATCGATACA
1 TGTATCGATACA
50287 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:51275 original size:52 final size:50
Alignment explanation
Indices: 51145--51346 Score: 208
Period size: 49 Copynumber: 3.9 Consensus size: 50
51135 GTGATAAAGA
* * * * * *
51145 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG--G---AAGG
* * *
51200 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGG--AAGG
* *
51253 TGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-GAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGG
* *
51302 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
51347 ATGATGAGAA
Statistics
Matches: 127, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
49 44 0.35
51 1 0.01
52 39 0.31
53 6 0.05
54 1 0.01
56 36 0.28
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (50 bp):
TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAGG
Found at i:51321 original size:49 final size:49
Alignment explanation
Indices: 51204--51347 Score: 216
Period size: 49 Copynumber: 2.9 Consensus size: 49
51194 AAAAGGATGT
*
51204 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
51256 CGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
51305 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
51348 TGATGAGAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
49 46 0.55
51 1 0.01
52 37 0.44
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:51323 original size:224 final size:213
Alignment explanation
Indices: 51079--51558 Score: 755
Period size: 224 Copynumber: 2.2 Consensus size: 213
51069 GAGATGATAA
* * * *
51079 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAG
1 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAG
*
51144 ATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGGATGTCAATG
66 ATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTT-AA-A-GATG---AAGG-TGCCAATG
* *
51209 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATTCAAGG
124 TGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGAT---AAAGGTGCCAATATGCTGATTCAAGG
51274 CCAGCTATATTGGACTTAAAGATG-AAGGT
186 CCAGCTATA-TGGACTTAAAGATGCAA-GT
51303 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAG
1 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAG
51368 ATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGAG
66 ATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGAG
*
51433 TCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
131 TCAAGGCCAGCTACATTGAACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
* *
51498 GGACTTAATGGTGCAAGT
196 GGACTTAAAGATGCAAGT
51516 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
51559 AAAAGTGCCA
Statistics
Matches: 245, Mismatches: 10, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
213 57 0.23
214 36 0.15
217 41 0.17
218 4 0.02
221 4 0.02
222 1 0.00
223 2 0.01
224 100 0.41
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (213 bp):
GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGAGAAAAGTGATAAAG
ATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGAG
TCAAGGCCAGCTACATTGAACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
GGACTTAAAGATGCAAGT
Found at i:51451 original size:49 final size:49
Alignment explanation
Indices: 51369--52039 Score: 835
Period size: 49 Copynumber: 13.8 Consensus size: 49
51359 GTGATAAAGA
* * * * * *
51369 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
51418 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
51467 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * *
51515 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
51564 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
51613 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
51662 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
51711 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
* * * *
51763 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
51812 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
*
51864 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
51907 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T--AGGTG-AGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
51952 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
52001 TGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTA
52040 GAAGGGTTGC
Statistics
Matches: 535, Mismatches: 70, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.00
43 38 0.07
45 38 0.07
46 1 0.00
48 46 0.09
49 327 0.61
50 2 0.00
51 1 0.00
52 81 0.15
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:51815 original size:101 final size:98
Alignment explanation
Indices: 51361--52039 Score: 1013
Period size: 98 Copynumber: 7.0 Consensus size: 98
51351 TGAGAAAAGT
* * * * * * * *
51361 GATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
51426 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
51459 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-GTGCCAAT
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTG-AAGGTGCCAAT
51522 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
65 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
51556 GATAAAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
51621 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
51654 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCAATG
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
51719 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
51752 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGCCA
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCA
51817 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
63 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
51853 GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-A-----AAGGTGCCA
1 GAT---AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCA
*
51912 ATGTGCTGATTCAAGGCCAGCTACATTGGAC-T--A
63 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * * * * *
51945 GGT-GAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATA
1 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
* * * *
52009 TGCTGATTCAGGGCCAGCTATATTGGGCTTA
66 TGCTGAGTCAAGGCCAGCTACATTGGACTTA
52040 GAAGGGTTGC
Statistics
Matches: 547, Mismatches: 20, Indels: 30
0.92 0.03 0.05
Matches are distributed among these distances:
88 40 0.07
89 1 0.00
92 3 0.01
94 37 0.07
95 40 0.07
97 92 0.17
98 190 0.35
100 1 0.00
101 143 0.26
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATG
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
Found at i:51920 original size:43 final size:44
Alignment explanation
Indices: 51860--52044 Score: 239
Period size: 45 Copynumber: 4.1 Consensus size: 44
51850 AAAGATGGAA
51860 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
* *
51903 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-TAGG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-G
* *
51947 TGAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-G
* *
51997 AAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTAG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
52041 AAGG
1 AAGG
52045 GTTGCCACCG
Statistics
Matches: 125, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.02
43 38 0.30
44 5 0.04
45 39 0.31
46 1 0.01
49 38 0.30
50 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (44 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAG
Found at i:51968 original size:45 final size:44
Alignment explanation
Indices: 51861--52034 Score: 226
Period size: 43 Copynumber: 3.8 Consensus size: 44
51851 AAGATGGAAA
*
51861 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT--TAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTAGT-G
* *
51904 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTAGGTG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTA-GTG
*
51949 AGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T--AG-TG
*
51997 AAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGG
1 -AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGG
52035 GCTTAGAAGG
Statistics
Matches: 117, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
43 38 0.32
45 38 0.32
46 2 0.02
47 1 0.01
48 3 0.03
49 35 0.30
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (44 bp):
AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTAGTG
Found at i:52083 original size:33 final size:33
Alignment explanation
Indices: 52039--52276 Score: 367
Period size: 33 Copynumber: 7.2 Consensus size: 33
52029 TATTGGGCTT
52039 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
52072 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
52104 GGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
52136 GGAAGGGATTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
52170 AGGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 A-GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
52203 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
*
52237 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
52270 A-AAGGGT
1 AGAAGGGT
52277 GAAAGATGCC
Statistics
Matches: 190, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
32 45 0.24
33 107 0.56
34 35 0.18
35 3 0.02
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:52116 original size:65 final size:67
Alignment explanation
Indices: 52040--52275 Score: 374
Period size: 67 Copynumber: 3.6 Consensus size: 67
52030 ATTGGGCTTA
*
52040 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAATGG-TTGCCACCAACTTGTGTGGGCTTT-
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
52103 GG
66 GG
*
52105 GAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
52169 GAG
66 G-G
* *
52172 GAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTTA
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
*
52236 GA
66 GG
*
52238 GAAGGTTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGG
1 GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG
52276 TGAAAGATGC
Statistics
Matches: 159, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
64 6 0.04
65 54 0.34
66 35 0.22
67 64 0.40
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (67 bp):
GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGATTGCCACCAACTTGTGTGGGCTTTA
GG
Found at i:52320 original size:33 final size:34
Alignment explanation
Indices: 52278--52791 Score: 553
Period size: 34 Copynumber: 15.4 Consensus size: 34
52268 AGAAAGGGTG
* * *
52278 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
52311 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GG-AA
*
52347 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
52381 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
52415 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
52449 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
52482 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * * *
52515 AAAGAGTGCCACGTAGTCGTGGACTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
52548 AAAGAGTGCCACGTAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
**
52579 ---G-GTGCCACGGAGTTGTGGGCTTTGAA--AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
52607 GAAG-GTGCCACGGAGTTGTGGGCTTTAACAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAA-AA-GGAA
*
52643 AAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCT-TAAAAGGAA
52678 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
** *
52714 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
52749 AAAGTGTGCCACAGAGTTGTGGGCTTTAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
52782 AAA-A-TGCCAC
1 AAAGAGTGCCAC
52792 TAAGTCGTGG
Statistics
Matches: 429, Mismatches: 31, Indels: 44
0.85 0.06 0.09
Matches are distributed among these distances:
27 20 0.05
28 1 0.00
31 26 0.06
32 3 0.01
33 116 0.27
34 133 0.31
35 40 0.09
36 29 0.07
37 61 0.14
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.19
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:52585 original size:27 final size:28
Alignment explanation
Indices: 52481--52596 Score: 90
Period size: 33 Copynumber: 3.8 Consensus size: 28
52471 GCTTAGAAGG
* *
52481 AAAAGAGTGCCACGTAGTTGTGGGCTTTAAA
1 AAAAGAGTGCCACGTAGTCGTGGAC-TT--A
52512 GGAAAAGAGTGCCACGTAGTCGTGGACTTAGAA
1 --AAAAGAGTGCCACGTAGTCGTGGACTT---A
52545 GGAAAAGAGTGCCACGTAGTCGTGGACTT-
1 --AAAAGAGTGCCACGTAGTCGTGGACTTA
* * *
52574 AAAAGGGTGCCACGGAGTTGTGG
1 AAAAGAGTGCCACGTAGTCGTGG
52597 GCTTTGAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
27 20 0.26
32 2 0.03
33 54 0.71
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.21
Consensus pattern (28 bp):
AAAAGAGTGCCACGTAGTCGTGGACTTA
Found at i:52680 original size:35 final size:34
Alignment explanation
Indices: 52574--52778 Score: 254
Period size: 37 Copynumber: 5.9 Consensus size: 34
52564 TCGTGGACTT
* *
52574 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
52608 ---AAGGTGCCACGGAGTTGTGGGCTTTAACAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAA-AA-AG
*
52641 AAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
52676 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
**
52712 AAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
52747 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
52779 GAAAAAATGC
Statistics
Matches: 150, Mismatches: 12, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
31 25 0.17
32 2 0.01
33 1 0.01
34 21 0.14
35 42 0.28
36 16 0.11
37 43 0.29
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:52817 original size:30 final size:30
Alignment explanation
Indices: 52782--52838 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
52772 CTTTAAAGAA
52782 AAAATGCCACTAAGTCGTGGACTTTGAGAC
1 AAAATGCCACTAAGTCGTGGACTTTGAGAC
*
52812 AAAATGCCACTGAGTCGTGGACTTTGA
1 AAAATGCCACTAAGTCGTGGACTTTGA
52839 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATGCCACTAAGTCGTGGACTTTGAGAC
Found at i:54101 original size:15 final size:15
Alignment explanation
Indices: 54083--54121 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
54073 CCTTTGCACT
*
54083 TTTTCTTTTTTTTTG
1 TTTTCTTTTTTTGTG
*
54098 TTTTATTTTTTTGTG
1 TTTTCTTTTTTTGTG
*
54113 TTTACTTTT
1 TTTTCTTTT
54122 GACTGTTCCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTTTGTG
Found at i:61082 original size:52 final size:52
Alignment explanation
Indices: 61015--61132 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 52
61005 AATTTATCTG
*
61015 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
* *
61067 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
61119 CATGTATCGATACA
1 CATGTATCGATACA
61133 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:61145 original size:52 final size:51
Alignment explanation
Indices: 61012--61152 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
61002 GAAAATTTAT
61012 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
61064 CTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
61116 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
61153 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:61159 original size:13 final size:13
Alignment explanation
Indices: 61141--61165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61131 CAAAGATCAG
61141 TGTATCGATACAA
1 TGTATCGATACAA
61154 TGTATCGATACA
1 TGTATCGATACA
61166 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61250 original size:13 final size:13
Alignment explanation
Indices: 61232--61256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61222 AAAAAAAATA
61232 TGTATCGATACAT
1 TGTATCGATACAT
61245 TGTATCGATACA
1 TGTATCGATACA
61257 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61664 original size:53 final size:55
Alignment explanation
Indices: 61569--61683 Score: 162
Period size: 53 Copynumber: 2.1 Consensus size: 55
61559 CGATATTGGG
* * *
61569 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATGAGAAAAAGGATGCCAATATGCTGATTCAAGGCCAACTACATTGAA
* * *
61624 CTTAAAGATG-GAAAAATG-TGCCAATATGCTGATTCAAGGCCAACTATATTGGA
1 CTTAAAGATGAGAAAAAGGATGCCAATATGCTGATTCAAGGCCAACTACATTGAA
61677 CTTAAAG
1 CTTAAAG
61684 GTGCCAATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 37 0.69
54 7 0.13
55 10 0.19
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (55 bp):
CTTAAAGATGAGAAAAAGGATGCCAATATGCTGATTCAAGGCCAACTACATTGAA
Found at i:61702 original size:43 final size:44
Alignment explanation
Indices: 61641--61728 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
61631 ATGGAAAAAT
*
61641 GTGCCAATATGCTGATTCAAGGCCAACTATATTGGACTTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAACTACATTGGACTTACAAG
* * *
61684 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTACAAG
1 GTGCCAATATGCTGATTCAAGGCCAACTACATTGGACTTACAAG
61728 G
1 G
61729 GTTGCCACCG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 36 0.90
44 4 0.10
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (44 bp):
GTGCCAATATGCTGATTCAAGGCCAACTACATTGGACTTACAAG
Found at i:61803 original size:28 final size:28
Alignment explanation
Indices: 61772--61897 Score: 180
Period size: 28 Copynumber: 4.4 Consensus size: 28
61762 GTTTGCATCA
* *
61772 ACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
*
61800 ACTTGTGGGCTTTTAAAGATTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
61828 ACTTGTGGGCTTTTAAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
* *
61856 ACTTGTGGGCTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTT--AAAGGTTGCCACTG
*
61886 ACTTGTAGGCTT
1 ACTTGTGGGCTT
61898 AAAAGGAAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 66 0.74
30 23 0.26
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (28 bp):
ACTTGTGGGCTTTTAAAGGTTGCCACTG
Found at i:61847 original size:56 final size:57
Alignment explanation
Indices: 61771--62112 Score: 197
Period size: 56 Copynumber: 5.8 Consensus size: 57
61761 GGTTTGCATC
* * *
61771 AACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTT-AAAGATTGCCACT
1 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTAAAAGAGTGCCACT
* *
61827 GACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACT
1 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTT-AAAAGAGTGCCACT
* * * * * * *
61885 AACTTGTAGGC-TTAAAAGGAAAAAGAGTGCTACGGAGTTGTGAGCTTATAAAATAAAAAGAGTG
1 AACTTGTGGGCTTTTAAA-G-----G-TTGCCACTGACTTGTGGGCTT-T----T-AAAAGAGTG
*
61949 CCACG
53 CCACT
* * * * * * * ** *
61954 GAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCAAAAAAGGGTGCCACT
1 AACTTGTGGGCTTT-TAAAGGTTGCCACTGACTTGTGGGCTT-TTAAAAGAGTGCCACT
* * * * * *
62013 GATTTGTGGGC-TTTGAAGGTTGCCACTAACTTGTGGACTTTGAAAA-AGATGCCACT
1 AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTAAAAGAG-TGCCACT
* * * *
62069 GACTTGTGGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTT
1 AACTTGTGGGCTTT-TAAAGGTTGCCACTGACTTGTGGGCTTTT
62113 GAAGGGTGAG
Statistics
Matches: 215, Mismatches: 52, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
55 1 0.00
56 61 0.28
57 27 0.13
58 45 0.21
59 21 0.10
63 1 0.00
64 32 0.15
65 2 0.01
69 20 0.09
70 2 0.01
71 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (57 bp):
AACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTAAAAGAGTGCCACT
Found at i:61989 original size:29 final size:29
Alignment explanation
Indices: 61939--62111 Score: 197
Period size: 29 Copynumber: 6.0 Consensus size: 29
61929 CTTATAAAAT
* * *
61939 AAAAAGAGTGCCACGGAGTTGTGGACTTTG
1 AAAAAGA-TGCCACTGACTTGTGGGCTTTG
* * **
61969 GAAAAGATGCCACCGACTTGTGGGCTTCA
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
* *
61998 AAAAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAA-GATGCCACTGACTTGTGGGCTTTG
* * * *
62028 --AAGGTTGCCACTAACTTGTGGACTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
62055 AAAAAGATGCCACTGACTTGTGGGCTTTG
1 AAAAAGATGCCACTGACTTGTGGGCTTTG
62084 AAAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAAGATGCCACTGACTTGTGGGCTTT
62112 TGAAGGGTGA
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
27 20 0.17
28 2 0.02
29 72 0.61
30 25 0.21
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
AAAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:62114 original size:86 final size:86
Alignment explanation
Indices: 61957--62117 Score: 252
Period size: 86 Copynumber: 1.9 Consensus size: 86
61947 TGCCACGGAG
* * *
61957 TTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCAAAAAAGGGTGCCACTGATTTGTGG
1 TTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCAAAAAAGGATGCCACTGACTTGTGG
62022 GCTTTGAAGGTTGCCACTAAC
66 GCTTTGAAGGTTGCCACTAAC
* **
62043 TTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAAAAA-GATGCCACTGACTTGTGG
1 TTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCAAAAAAGGATGCCACTGACTTGTGG
62107 GCTTTTGAAGG
66 GC-TTTGAAGG
62118 GTGAGGAACA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
85 18 0.26
86 50 0.74
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (86 bp):
TTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCAAAAAAGGATGCCACTGACTTGTGG
GCTTTGAAGGTTGCCACTAAC
Found at i:63613 original size:33 final size:31
Alignment explanation
Indices: 63562--63639 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 31
63552 TTTGTTGTTG
*
63562 TTGTTATTTTTTTTTTCTTTTTCGTTTT-TTAAT
1 TTGTT-TTTTTTTCTTCTTTTT--TTTTGTTAAT
*
63595 TTGTTTTTTTCTTCTTCTTTTTTTTTGTTTAT
1 TTGTTTTTTT-TTCTTCTTTTTTTTTGTTAAT
63627 TTGGTTTTTTTTT
1 TT-GTTTTTTTTT
63640 GTGGAGGACG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 4 0.10
32 13 0.32
33 23 0.57
ACGTcount: A:0.05, C:0.06, G:0.08, T:0.81
Consensus pattern (31 bp):
TTGTTTTTTTTTCTTCTTTTTTTTTGTTAAT
Found at i:63616 original size:27 final size:26
Alignment explanation
Indices: 63567--63618 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
63557 TGTTGTTGTT
*
63567 ATTTTTTTTTTCTTTTTCGTTTTTTA
1 ATTTTTTTTTTCTTCTTCGTTTTTTA
*
63593 ATTTGTTTTTTTCTTCTTCTTTTTTT
1 ATTT-TTTTTTTCTTCTTCGTTTTTT
63619 TTGTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.06, C:0.10, G:0.04, T:0.81
Consensus pattern (26 bp):
ATTTTTTTTTTCTTCTTCGTTTTTTA
Found at i:77552 original size:52 final size:52
Alignment explanation
Indices: 77474--77602 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
77464 CGAAATATGA
*
77474 AAATTTGCCTGCATGTATCGATACATTTAATAGTGAATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGAATCGATACATCTGGGC
* *
77526 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGAATCGATACATCTGGGC
77578 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
77603 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGAATCGATACATCTGGGC
Found at i:77615 original size:52 final size:51
Alignment explanation
Indices: 77474--77622 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
77464 CGAAATATGA
*
77474 AAATTTGCCTGCATGTATCGATACATTTAATAGTGAATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
77526 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
77578 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
77623 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:77629 original size:13 final size:13
Alignment explanation
Indices: 77611--77635 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77601 CAAAGATCAG
77611 TGTATCGATACAA
1 TGTATCGATACAA
77624 TGTATCGATACA
1 TGTATCGATACA
77636 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:77717 original size:32 final size:33
Alignment explanation
Indices: 77676--77741 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
77666 AGTAGCTTAA
*
77676 ATTGTATCGATACAAAAC-TTATGTATTGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
77708 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
77741 A
1 A
77742 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:82498 original size:50 final size:50
Alignment explanation
Indices: 82434--82543 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
82424 TTTATGTAGT
*
82434 ATTTAATATATTTTTTATGCCTTACCAACACATTTCCTTTATTGGTGACA
1 ATTTAATATTTTTTTTATGCCTTACCAACACATTTCCTTTATTGGTGACA
* * * * *
82484 ATTTAATATTTTTTTTATGCCTTACTAATATATTTCCTTTGTTGGTGATA
1 ATTTAATATTTTTTTTATGCCTTACCAACACATTTCCTTTATTGGTGACA
*
82534 ATTTTATATT
1 ATTTAATATT
82544 CATATTTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.53
Consensus pattern (50 bp):
ATTTAATATTTTTTTTATGCCTTACCAACACATTTCCTTTATTGGTGACA
Found at i:84090 original size:23 final size:23
Alignment explanation
Indices: 84064--84131 Score: 91
Period size: 23 Copynumber: 2.9 Consensus size: 23
84054 AATTGAAATG
84064 TAAAAATTATATATTTAAAATAA
1 TAAAAATTATATATTTAAAATAA
* *
84087 TAAAAATTATAAATATAAAGATAA
1 TAAAAATTATATATTTAAA-ATAA
*
84111 TAAAAATTATTTTATTTAAAA
1 TAAAAATTA-TATATTTAAAA
84132 GTAAATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 17 0.45
24 14 0.37
25 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (23 bp):
TAAAAATTATATATTTAAAATAA
Found at i:85943 original size:24 final size:24
Alignment explanation
Indices: 85899--85944 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
85889 ATAACTTTTT
* *
85899 ATATAATATGATATTATTTTTTGC
1 ATATAATATAATATAATTTTTTGC
85923 ATATAAT-TAATATAATATTTTT
1 ATATAATATAATATAAT-TTTTT
85945 AATTCTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATAATATAATATAATTTTTTGC
Found at i:86011 original size:16 final size:16
Alignment explanation
Indices: 85990--86020 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85980 CACAAAAAGG
*
85990 ATATAAAATTAATTTT
1 ATATAAAATCAATTTT
86006 ATATAAAATCAATTT
1 ATATAAAATCAATTT
86021 GTTAAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATAAAATCAATTTT
Found at i:86189 original size:55 final size:57
Alignment explanation
Indices: 86122--86236 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 57
86112 TTATAGTTTT
* * *
86122 AATTATGTATACATATAAATATAATTGCACATATTGAA-AA-TAAATCAAAATAGA-A
1 AATTATGCATACATATAAATATAATTGCACACATT-AATAATTAAATAAAAATAGACA
*
86177 AATTATGCATACATATAAATATAATTGTACACATTAATAATTAAATAAAAATAGACA
1 AATTATGCATACATATAAATATAATTGCACACATTAATAATTAAATAAAAATAGACA
86234 AAT
1 AAT
86237 GGCTATATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 2 0.04
55 34 0.64
56 13 0.25
57 4 0.08
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (57 bp):
AATTATGCATACATATAAATATAATTGCACACATTAATAATTAAATAAAAATAGACA
Found at i:87093 original size:4 final size:4
Alignment explanation
Indices: 87078--87107 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
87068 TTATCAAAGG
*
87078 AAAT ATAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
87108 TATTTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:88330 original size:79 final size:78
Alignment explanation
Indices: 88233--88427 Score: 221
Period size: 79 Copynumber: 2.5 Consensus size: 78
88223 TGGAGTACAT
* * * * * * **
88233 TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATTGGGGTTGGAGTATCCGTTC-GAAAAT
1 TCCCCGATTGTGAAAAATCGATGTTTT-AAAATAAAACTGAGGCTGGAGCATCCCCTCAG-AAAT
*
88297 AATCGGGTTGGAGTA
64 AATAGGGTTGGAGTA
*
88312 TCCCCGATTGTGAAAAATCGATGTTTTAAAAATAAAGCTGAGGCTGGAGCATCCCCTCAGAAATA
1 TCCCCGATTGTGAAAAATCGATGTTTT-AAAATAAAACTGAGGCTGGAGCATCCCCTCAGAAATA
88377 ATAGGGTTGGAGTA
65 ATAGGGTTGGAGTA
** * *
88391 TCTTCGATTGTGAAAAATTGGTGTTTTAGAAATAAAA
1 TCCCCGATTGTGAAAAATCGATGTTTTA-AAATAAAA
88428 ACCGGAGTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 96 0.98
80 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (78 bp):
TCCCCGATTGTGAAAAATCGATGTTTTAAAATAAAACTGAGGCTGGAGCATCCCCTCAGAAATAA
TAGGGTTGGAGTA
Found at i:88549 original size:131 final size:131
Alignment explanation
Indices: 88307--88558 Score: 332
Period size: 131 Copynumber: 1.9 Consensus size: 131
88297 AATCGGGTTG
* * * *
88307 GAGTATCCCCGATTGTGAAAAATCGATGTTTTAAAAATAAAGCTGAGGCTGGAGCATCCCCTCAG
1 GAGTATCCCCAATTATGAAAAATCGATGTTTTAAAAATAAAACTGAGGCTGGAGCATCCCCTCAA
** ** * *
88372 AAATAATAGGGTTGGAGTATCTTCGATTGTGAAAAATTGGTGTTTTAGAAATAAAAACCGGAGTT
66 AAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAAACCGGAGTT
88437 T
131 T
* *
88438 GAGTATCCCCAATTATGAAAAATC-AGTGTTTTAAAAATAAAACT-AGAGTTGGAGCATCTCCTC
1 GAGTATCCCCAATTATGAAAAATCGA-TGTTTTAAAAATAAAACTGAG-GCTGGAGCATCCCCTC
88501 AAAAATAA-AGGGGTTGGAGTATCCCCGATTGTG-AAAATTCAATATTTTAAAAATAAAA
64 AAAAATAATA-GGGTTGGAGTATCCCCGATTGTGAAAAATT-AATATTTTAAAAATAAAA
88559 TCAGGGTTGG
Statistics
Matches: 105, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
130 10 0.10
131 95 0.90
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (131 bp):
GAGTATCCCCAATTATGAAAAATCGATGTTTTAAAAATAAAACTGAGGCTGGAGCATCCCCTCAA
AAATAATAGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAAAAATAAAAACCGGAGTT
T
Found at i:88602 original size:210 final size:209
Alignment explanation
Indices: 88233--88767 Score: 652
Period size: 210 Copynumber: 2.6 Consensus size: 209
88223 TGGAGTACAT
*
88233 TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATTGGGGTTGGAGTATC-CGTTCGAAAAT
1 TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATTAGGGTTGGAGTATCTC-TTCGAAAAT
* * *
88297 AATCGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTAAAAAT-AAAGCTGAGGCTGGAG
65 AA-AGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAAGCAGAGGCTGGAG
* * *
88361 CATCCCCTCAGAAATAATAGGGTTGGAGTAT-CTTCGATTGTGAAAAATTGGTGTTTTAG-AAAT
129 CATCCCATCAGAAATAATAGGGTTAGAGTATCCTT-GATTGTGAAAAATCGGTGTTTT-GCAAAT
*
88424 AAAAACCGGAGTTTGAGTA
192 -AAAACCGGAGTTAGAGTA
** * * * * * *
88443 TCCCCAATTATGAAAAATC-AGTGTTTTAAAAATAAAACTAGAGTTGGAGCATCTCCTCAAAAAT
1 TCCCCAATGGTGAAAAATCGA-TGTTTTGAAAATAAAATTAGGGTTGGAGTATCTCTTCGAAAAT
* * * *
88507 AAAGGGGTTGGAGTATCCCCGATTGTGAAAATTCAATATTTTAAAAATAAAATCAG-GGTTGGAG
65 AAA-GGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAAGCAGAGGCTGGAG
* * *
88571 TATTCCATC-GAAAATAATGGGGTTAGAGTATCCTTGATTGTGAAAAATCGGTGTTTTGCAAATA
129 CATCCCATCAG-AAATAATAGGGTTAGAGTATCCTTGATTGTGAAAAATCGGTGTTTTGCAAATA
* *
88635 AAATCGGGGTTAGAGTA
193 AAACCGGAGTTAGAGTA
* *
88652 TCCCCAATGGTGAAAAATTGATATTTTGAAAATAAAATTAGGGTTGGAGTATCTCTTCGAAAATA
1 TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATTAGGGTTGGAGTATCTCTTCGAAAATA
* * * * *
88717 ACAGGATTAGAGTATCCCCGATGGTAAAAAATCGGTATTTTAAAAATAAAA
66 A-AGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAA
88768 ACATGAATAA
Statistics
Matches: 274, Mismatches: 42, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
209 113 0.41
210 152 0.55
211 9 0.03
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (209 bp):
TCCCCAATGGTGAAAAATCGATGTTTTGAAAATAAAATTAGGGTTGGAGTATCTCTTCGAAAATA
AAGGGTTGGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAAGCAGAGGCTGGAGCA
TCCCATCAGAAATAATAGGGTTAGAGTATCCTTGATTGTGAAAAATCGGTGTTTTGCAAATAAAA
CCGGAGTTAGAGTA
Found at i:88645 original size:79 final size:79
Alignment explanation
Indices: 88438--88653 Score: 247
Period size: 79 Copynumber: 2.7 Consensus size: 79
88428 ACCGGAGTTT
* * * *
88438 GAGTATCCCCAATTATGAAAAATCAGTGTTTTAAAAATAAAA-CTAGAGTTGGAGCATCTCCTCA
1 GAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAATC-AGGGTTGGAGTATCTCCTCA
*
88502 AAAATAAAGGGGTTG
65 AAAATAAAGGGGTTA
* * * *
88517 GAGTATCCCCGATTGTGAAAATTCAATATTTTAAAAATAAAATCAGGGTTGGAGTAT-TCCATCG
1 GAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAATCAGGGTTGGAGTATCTCC-TCA
*
88581 AAAATAATGGGGTTA
65 AAAATAAAGGGGTTA
** * ** * *
88596 GAGTATCCTTGATTGTGAAAAATCGGTGTTTTGCAAATAAAATCGGGGTTAGAGTATC
1 GAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAATCAGGGTTGGAGTATC
88654 CCCAATGGTG
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 3 0.03
79 110 0.96
80 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (79 bp):
GAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAATCAGGGTTGGAGTATCTCCTCAA
AAATAAAGGGGTTA
Found at i:88654 original size:130 final size:130
Alignment explanation
Indices: 88510--88767 Score: 331
Period size: 130 Copynumber: 2.0 Consensus size: 130
88500 CAAAAATAAA
* * *
88510 GGGGTTGGAGTATCCCCGATTGTG-AAAATTCAATATTTTAAAAATAAAATCAGGGTTGGAGTAT
1 GGGGTTAGAGTATCCCCAATGGTGAAAAATT-AATATTTTAAAAATAAAATCAGGGTTGGAGTAT
** * ** * * * **
88574 -TCCATCGAAAATAATGGGGTTAGAGTATCCTTGATTGTGAAAAATCGGTGTTTTGCAAATAAAA
65 CT-CATCGAAAATAACAGGATTAGAGTATCCCCGATGGTAAAAAATCGGTATTTTAAAAATAAAA
88638 TC
129 TC
* * *
88640 GGGGTTAGAGTATCCCCAATGGTGAAAAATTGATATTTTGAAAATAAAATTAGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCAATGGTGAAAAATTAATATTTTAAAAATAAAATCAGGGTTGGAGTATC
*
88705 TCTTCGAAAATAACAGGATTAGAGTATCCCCGATGGTAAAAAATCGGTATTTTAAAAATAAAA
66 TCATCGAAAATAACAGGATTAGAGTATCCCCGATGGTAAAAAATCGGTATTTTAAAAATAAAA
88768 ACATGAATAA
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
130 102 0.94
131 7 0.06
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.30
Consensus pattern (130 bp):
GGGGTTAGAGTATCCCCAATGGTGAAAAATTAATATTTTAAAAATAAAATCAGGGTTGGAGTATC
TCATCGAAAATAACAGGATTAGAGTATCCCCGATGGTAAAAAATCGGTATTTTAAAAATAAAATC
Found at i:88665 original size:51 final size:51
Alignment explanation
Indices: 88589--88704 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
88579 CGAAAATAAT
*** * * * *
88589 GGGGTTAGAGTATCCTTGATTGTGAAAAATCGGTGTTTTGCAAATAAAATC
1 GGGGTTAGAGTATCCCCAATGGTGAAAAATCGATATTTTGAAAATAAAATC
* *
88640 GGGGTTAGAGTATCCCCAATGGTGAAAAATTGATATTTTGAAAATAAAATT
1 GGGGTTAGAGTATCCCCAATGGTGAAAAATCGATATTTTGAAAATAAAATC
* *
88691 AGGGTTGGAGTATC
1 GGGGTTAGAGTATC
88705 TCTTCGAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.32
Consensus pattern (51 bp):
GGGGTTAGAGTATCCCCAATGGTGAAAAATCGATATTTTGAAAATAAAATC
Found at i:90690 original size:18 final size:17
Alignment explanation
Indices: 90663--90697 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
90653 GAGTATCAAG
90663 GGGATTTTTTTGCTGCT
1 GGGATTTTTTTGCTGCT
90680 GGGACTTTTTTTGCTGCT
1 GGGA-TTTTTTTGCTGCT
90698 AAAAGATCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.06, C:0.14, G:0.29, T:0.51
Consensus pattern (17 bp):
GGGATTTTTTTGCTGCT
Found at i:96343 original size:18 final size:19
Alignment explanation
Indices: 96306--96348 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
96296 TTTTAATACT
96306 TATTTAATATTAAAATTATA
1 TATTTAATATT-AAATTATA
*
96326 TATTTAATATT-TATTATA
1 TATTTAATATTAAATTATA
96344 TATTT
1 TATTT
96349 TAATTAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
20 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTAATATTAAATTATA
Found at i:97151 original size:19 final size:20
Alignment explanation
Indices: 97107--97158 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
97097 TTATAAGCCA
97107 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
97127 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
97146 ATGTATCGATACA
1 ATGTATCGATACA
97159 AACAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:99259 original size:20 final size:21
Alignment explanation
Indices: 99234--99275 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
99224 TGGAGGCTGC
*
99234 CCGGTCGCGACCTGG-GAGTG
1 CCGGTCGCAACCTGGTGAGTG
99254 CCGGTCGCAACCTGGTGAGTG
1 CCGGTCGCAACCTGGTGAGTG
99275 C
1 C
99276 TGCCTAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.12, C:0.31, G:0.40, T:0.17
Consensus pattern (21 bp):
CCGGTCGCAACCTGGTGAGTG
Found at i:104274 original size:3 final size:3
Alignment explanation
Indices: 104266--104296 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
104256 TCTGAGTCAC
*
104266 CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
104297 CTTGATGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:105952 original size:11 final size:12
Alignment explanation
Indices: 105935--105963 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
105925 GTATCGATAC
105935 ATGTATACATCT
1 ATGTATACATCT
105947 -TGTATACATCT
1 ATGTATACATCT
105958 ATGTAT
1 ATGTAT
105964 CGATACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (12 bp):
ATGTATACATCT
Found at i:106058 original size:13 final size:13
Alignment explanation
Indices: 106040--106064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106030 TATAGTGGTC
106040 ATGTATCGATACA
1 ATGTATCGATACA
106053 ATGTATCGATAC
1 ATGTATCGATAC
106065 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:106685 original size:32 final size:32
Alignment explanation
Indices: 106644--106736 Score: 143
Period size: 32 Copynumber: 2.9 Consensus size: 32
106634 TTTCAACAAT
*
106644 TTGTATCGATACAATGTATCGGTACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
106676 TTGTATCGATACAATGTATCAATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
106708 TTGTATCGATACAATGTATCGCTAC-TAAG
1 TTGTATCGATACAATGTATCGATACATAAG
106737 CTACTGCCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 4 0.07
32 52 0.93
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:106790 original size:13 final size:13
Alignment explanation
Indices: 106772--106797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106762 CATTATTCCA
106772 TGTATCGATACAT
1 TGTATCGATACAT
106785 TGTATCGATACAT
1 TGTATCGATACAT
106798 GGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:109970 original size:19 final size:20
Alignment explanation
Indices: 109933--109972 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
109923 ATAAAATTTA
*
109933 TAAAAAATACATTAAAATAT
1 TAAAAAACACATTAAAATAT
*
109953 TAAAAAACAC-TTATAATAT
1 TAAAAAACACATTAAAATAT
109972 T
1 T
109973 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAAACACATTAAAATAT
Found at i:110060 original size:32 final size:32
Alignment explanation
Indices: 110015--110078 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
110005 AATAAAATTT
*
110015 TATTTTAAATTAAAGTTTTATTAATAT-TAAA
1 TATTTTAAATTAAAATTTTATTAATATATAAA
* *
110046 TATTTATAATTTAAAATTTTATTTATATATAAA
1 TATTT-TAAATTAAAATTTTATTAATATATAAA
110079 CATATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 5 0.18
32 19 0.68
33 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (32 bp):
TATTTTAAATTAAAATTTTATTAATATATAAA
Found at i:111211 original size:20 final size:18
Alignment explanation
Indices: 111155--111212 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
111145 ATTTTAAGTT
*
111155 TAAAAAAT-AAATTTAAA
1 TAAAAAATAAAATTTTAA
111172 TAAAAAATAAAATTCGTTAA
1 TAAAAAATAAAATT--TTAA
111192 TAAAATAAGTAAAATTTTAA
1 TAAAA-AA-TAAAATTTTAA
111212 T
1 T
111213 TTTAATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 8 0.23
18 5 0.14
20 13 0.37
21 2 0.06
22 7 0.20
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAAAAATAAAATTTTAA
Found at i:111422 original size:11 final size:11
Alignment explanation
Indices: 111406--111458 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
111396 TATATTTTAA
111406 TAAAAATAAAT
1 TAAAAATAAAT
111417 TAAAAATATAA-
1 TAAAAATA-AAT
*
111428 TATAAATAATAT
1 TAAAAATAA-AT
111440 TAAAACTATAAAT
1 TAAAA--ATAAAT
111453 TAAAAA
1 TAAAAA
111459 ATATAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
10 1 0.03
11 17 0.49
12 6 0.17
13 7 0.20
14 4 0.11
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAAAATAAAT
Found at i:111435 original size:28 final size:27
Alignment explanation
Indices: 111352--111466 Score: 91
Period size: 27 Copynumber: 4.4 Consensus size: 27
111342 TTTTATATTT
* * *
111352 TAAAATTAAA-TAAAAATATTACATTAT
1 TAAAAATAAATTAAAAATA-TATATTAA
* *
111379 TAAAAATTAATTAAAAATATATTTTAA
1 TAAAAATAAATTAAAAATATATATTAA
111406 TAAAAATAAATTAAAAATATA-A-T-A
1 TAAAAATAAATTAAAAATATATATTAA
* *
111430 T--AAATAATATTAAAACTATAAATTAA
1 TAAAAATAA-ATTAAAAATATATATTAA
111456 -AAAATATAAAT
1 TAAAA-ATAAAT
111467 AAATTTAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
22 6 0.08
23 11 0.15
24 3 0.04
25 2 0.03
26 1 0.01
27 37 0.51
28 12 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAAAATAAATTAAAAATATATATTAA
Found at i:111456 original size:23 final size:23
Alignment explanation
Indices: 111403--111450 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
111393 AAATATATTT
*
111403 TAATAAAAATAA-ATTAAAAATA
1 TAATATAAATAATATTAAAAATA
*
111425 TAATATAAATAATATTAAAACTA
1 TAATATAAATAATATTAAAAATA
111448 TAA
1 TAA
111451 ATTAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
TAATATAAATAATATTAAAAATA
Found at i:111461 original size:23 final size:23
Alignment explanation
Indices: 111405--111480 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
111395 ATATATTTTA
*
111405 ATAAAAATAAATTAAAAATATAAT
1 ATAAAAA-ATATTAAAAATATAAT
* *
111429 ATAAATAATATTAAAACTATAA-
1 ATAAAAAATATTAAAAATATAAT
* *
111451 ATTAAAAAATATAAATAAATTTAA-
1 A-TAAAAAATATTAA-AAATATAAT
111475 ATAAAA
1 ATAAAA
111481 TTTAAATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 1 0.02
23 29 0.67
24 13 0.30
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAAAAATATTAAAAATATAAT
Found at i:111696 original size:12 final size:12
Alignment explanation
Indices: 111679--111721 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
111669 TTAAAAGTTG
111679 AATAAATACATA
1 AATAAATACATA
111691 AATAAAT-CATA
1 AATAAATACATA
111702 AATTAAATA-ATAA
1 AA-TAAATACAT-A
111715 AATAAAT
1 AATAAAT
111722 TTATATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 6 0.21
12 19 0.68
13 3 0.11
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAAATACATA
Found at i:112076 original size:27 final size:26
Alignment explanation
Indices: 112045--112095 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
112035 TTTTATTTTC
*
112045 ATAATTAATTTTACATTAATATTAAAA
1 ATAATAAATTTTACATTAAT-TTAAAA
*
112072 ATAATAAATTTTATATTAATTTAA
1 ATAATAAATTTTACATTAATTTAA
112096 TATAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
ATAATAAATTTTACATTAATTTAAAA
Found at i:112098 original size:11 final size:11
Alignment explanation
Indices: 112075--112110 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
112065 ATTAAAAATA
112075 ATAAATTTTAT
1 ATAAATTTTAT
* *
112086 ATTAATTTAAT
1 ATAAATTTTAT
112097 ATAAATTTTAT
1 ATAAATTTTAT
112108 ATA
1 ATA
112111 GAATAAACTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATAAATTTTAT
Found at i:112834 original size:4 final size:4
Alignment explanation
Indices: 112825--112853 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
112815 TGCTTTGATG
112825 ATTC ATTC ATTC ATTC ATTC ATTC ATTC A
1 ATTC ATTC ATTC ATTC ATTC ATTC ATTC A
112854 CCCAAAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTC
Found at i:112977 original size:45 final size:44
Alignment explanation
Indices: 112906--112992 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
112896 GTCAAACCTC
* * *
112906 TCTGATTAATTGCTTCTGCTGGTCCTTCTTATGATTTTATTTTTG
1 TCTGATTAACTGCTTCCGCTGATCCTTCTTATGATTTT-TTTTTG
112951 TCTGATTAACTGCTTCCGCTGATCCTTCTTATGATTTTTTTT
1 TCTGATTAACTGCTTCCGCTGATCCTTCTTATGATTTTTTTT
112993 GGCAAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 4 0.10
45 35 0.90
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.54
Consensus pattern (44 bp):
TCTGATTAACTGCTTCCGCTGATCCTTCTTATGATTTTTTTTTG
Found at i:113685 original size:21 final size:21
Alignment explanation
Indices: 113655--113699 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
113645 TTTTCTTTAT
113655 TCACTGTACTTGGGACTCATG
1 TCACTGTACTTGGGACTCATG
*
113676 TCACTTTACTTGGGACTCATG
1 TCACTGTACTTGGGACTCATG
113697 TCA
1 TCA
113700 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (21 bp):
TCACTGTACTTGGGACTCATG
Found at i:114620 original size:25 final size:25
Alignment explanation
Indices: 114592--114640 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
114582 TTTTTCTTTG
*
114592 TTTTTCATTTTTACTATTCTGCTTC
1 TTTTTCATTTTTACTATTATGCTTC
**
114617 TTTTTTTTTTTTACTATTATGCTT
1 TTTTTCATTTTTACTATTATGCTT
114641 GGAGATTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.12, C:0.14, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTTTCATTTTTACTATTATGCTTC
Found at i:118234 original size:2 final size:2
Alignment explanation
Indices: 118227--118255 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
118217 ATCTTCTTCG
118227 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
118256 TTAATGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:119027 original size:2 final size:2
Alignment explanation
Indices: 119022--119052 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
119012 TGGTGTGTAT
*
119022 AC AC AC AC AC AC AC AC AC AC GC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
119053 TATAACAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.48, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:122640 original size:20 final size:20
Alignment explanation
Indices: 122612--122683 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
122602 GCTTACAATG
122612 TATCGATACATTTTTTATTA
1 TATCGATACATTTTTTATTA
*
122632 TATCAATACATTTTTTATTA
1 TATCGATACATTTTTTATTA
*
122652 TATCGATACATTTTTCATTA
1 TATCGATACATTTTTTATTA
122672 TATCGATACATT
1 TATCGATACATT
122684 CTGGGTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.51
Consensus pattern (20 bp):
TATCGATACATTTTTTATTA
Found at i:126281 original size:23 final size:22
Alignment explanation
Indices: 126255--126303 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
126245 TAATTTTGAC
126255 ATGAA-AAATATGATAATCATACA
1 ATGAACAAAT-TGATAA-CATACA
* *
126278 ATGAACTAATTGATAACATTCA
1 ATGAACAAATTGATAACATACA
126300 ATGA
1 ATGA
126304 GATGCTGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 9 0.39
23 11 0.48
24 3 0.13
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (22 bp):
ATGAACAAATTGATAACATACA
Found at i:127016 original size:28 final size:28
Alignment explanation
Indices: 126976--127033 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
126966 TGGGATAGGT
126976 TGGTGGCTAATCCAACTCTAAAGTGTGA
1 TGGTGGCTAATCCAACTCTAAAGTGTGA
127004 TGGTGGCTAATCCAACTCTAAAGTGTGA
1 TGGTGGCTAATCCAACTCTAAAGTGTGA
127032 TG
1 TG
127034 ATGAAGGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (28 bp):
TGGTGGCTAATCCAACTCTAAAGTGTGA
Found at i:127314 original size:20 final size:20
Alignment explanation
Indices: 127285--127362 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
127275 GTAAAAAGAC
127285 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
127305 AGAATATATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
127325 TA-CATGTATGGATACATTGA
1 -AGAATGTATCGATACATTGA
* *
127345 AAAATGCATCGATACATT
1 AGAATGTATCGATACATT
127363 TGGGTACTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:128347 original size:28 final size:28
Alignment explanation
Indices: 128154--128619 Score: 432
Period size: 28 Copynumber: 16.0 Consensus size: 28
128144 GGCTAATAAA
* *
128154 GGTGTCACTAACTTGTGTAGGCTTTGAAAAG
1 GGTGCCACTGACTTGTG--GGCTTTG-AAAG
* *
128185 AGTTGCCACAGACTCGTGTGGGCTTTGAAAAG
1 -GGTGCCACTGACT--TGTGGGCTTTG-AAAG
* * *
128217 AGTTGCTACCGACTCGTGTGGGCTTTGAAAAG
1 -GGTGCCACTGACT--TGTGGGCTTTG-AAAG
* * *
128249 AGTTACCACTGGCTTGTGGGCTTTGAAAAG
1 -GGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
128279 AGTGCCACTGACTTGTAGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* *
128308 GGTGCCAATGACTTGTAGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
128336 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
128364 GATGCCACTGACTTGTGAGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
128392 GATGCCACTGACTTATGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * * *
128421 AGTTGTCACCGACTCGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
*
128450 GATGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
128479 AGTGCCACTG-CTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
128506 GGTGTCACTTACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
128534 GGTGTCACTGACATGCGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* ** * *
128563 AGTTAACACTAGGCTTGTGGGCTTTAAAAG
1 -GGTGCCACT-GACTTGTGGGCTTTGAAAG
128593 GGTGCCACTGACTTGTGGGCTTT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
128620 AGATGAACGT
Statistics
Matches: 374, Mismatches: 51, Indels: 23
0.83 0.11 0.05
Matches are distributed among these distances:
27 15 0.04
28 162 0.43
29 76 0.20
30 45 0.12
31 11 0.03
32 61 0.16
34 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:128443 original size:114 final size:115
Alignment explanation
Indices: 128151--128624 Score: 462
Period size: 114 Copynumber: 4.1 Consensus size: 115
128141 TTGGGCTAAT
* * * *
128151 AAAGG-TGTCACTAACTTGTGTAGGCTTTGAAAAGAGTTGCCACAGACTCGTGTGGGCTTTGAAA
1 AAAGGATGCCACTGACTTGTG--GGCTTTGAAAAG-GGTGCCACTGACTC--GTGGGCTTTGAAA
* * * * *
128215 AGAGTTGCTACCGACTCGTGTGGGCTTTGAAAAGAGTTACCACTGGCTTGTGGGCTTTG
61 AGAGTTGCCACTGACT--TGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTG
* * * * *
128274 AAAAGAGTGCCACTGACTTGTAGGCTTTGAAAAGGGTGCCAATGACTTGTAGGCTTTG-AAAG-G
1 AAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAG
* *
128337 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGAGCTTTG
65 TTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
128388 AAAGGATGCCACTGACTTATGGGCTTTGAAAAGAGTTGTCACCGACTCGTGGGCTTTG-AAAG-G
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAG-GGTGCCACTGACTCGTGGGCTTTGAAAAGAG
* *
128451 ATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG-CTTGTGGGCTTTG
65 TTGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG
* * * * *
128502 AAAGGGTGTCACTTACTTGTGGGCTTTG-AAAGGGTGTCACTGACAT-GCGGGCTTTGAAAAGAG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGAC-TCGTGGGCTTTGAAAAGAG
** * * *
128565 TTAACACTAGGCTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTT-
65 TTGCCACT-GACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
128616 AAAGAGATG
1 AAAG-GATG
128625 AACGTTCTAG
Statistics
Matches: 298, Mismatches: 43, Indels: 28
0.81 0.12 0.08
Matches are distributed among these distances:
112 19 0.06
113 34 0.11
114 129 0.43
115 44 0.15
116 11 0.04
118 10 0.03
119 4 0.01
120 9 0.03
122 10 0.03
123 16 0.05
125 12 0.04
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (115 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGT
TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:128456 original size:142 final size:143
Alignment explanation
Indices: 128169--128615 Score: 495
Period size: 142 Copynumber: 3.1 Consensus size: 143
128159 CACTAACTTG
* * * * *
128169 TGTAGGCTTTGAAAAGAGTTGCCACAGACTCGTGTGGGCTTTGAAAAGAGTTGCTACCGACTCGT
1 TGTAGGCTTTGAAAAG-GGTGCCACTGACT--TGTGGGCTTTG-AAAG-GATGCCACTGACT--T
* * * * * *
128234 GTGGGCTTTGAAAAGAGTTACCACTGGCTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTAGG
59 GTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGACACAGACTTGTGGG
*
128298 CTTTGAAAAGGGTGCCAATGACT
122 CTTTG-AAAGGGTGCCACTGACT
*
128321 TGTAGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGAGCT
1 TGTAGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
* * * *
128385 TTGAAAGGATGCCACTGACTTATGGGCTTTGAAAAGAGTTGTCACCGACTCGTGGGCTTTGAAAG
66 TTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGACACAGACTTGTGGGCTTTGAAAG
*
128450 GATGCCACTGACT
131 GGTGCCACTGACT
* * * * *
128463 TGTGGGCTTTGAAAAGAGTGCCACTG-CTTGTGGGCTTTGAAAGGGTGTCACTTACTTGTGGGCT
1 TGTAGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
* * * * * * *
128527 TTGAAAGGGTGTCACTGACATGCGGGCTTTGAAAAGAGTTAACACTAGGCTTGTGGGCTTTAAAA
66 TTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGACAC-AGACTTGTGGGCTTTGAAA
128592 GGGTGCCACTGACT
130 GGGTGCCACTGACT
*
128606 TGTGGGCTTT
1 TGTAGGCTTT
128616 AAAGAGATGA
Statistics
Matches: 258, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
142 124 0.48
143 73 0.28
144 10 0.04
146 10 0.04
147 4 0.02
148 11 0.04
150 11 0.04
151 4 0.02
152 11 0.04
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (143 bp):
TGTAGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCT
TTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGACACAGACTTGTGGGCTTTGAAAG
GGTGCCACTGACT
Found at i:129861 original size:15 final size:14
Alignment explanation
Indices: 129841--129889 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
129831 CTAGACCCTG
129841 TTTTTGTTTGTCTGT
1 TTTTTGTTTGT-TGT
*
129856 TTTTTGTTTGTTTT
1 TTTTTGTTTGTTGT
129870 TTGTTTGTTT-TTGGT
1 TT-TTTGTTTGTT-GT
129885 TTTTT
1 TTTTT
129890 CCTGTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 9 0.30
15 21 0.70
ACGTcount: A:0.00, C:0.02, G:0.18, T:0.80
Consensus pattern (14 bp):
TTTTTGTTTGTTGT
Found at i:129865 original size:4 final size:4
Alignment explanation
Indices: 129843--129879 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
129833 AGACCCTGTT
*
129843 TTTG TTTG TCTG TTT- TTTG TTTG TTT- TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
129880 TTGGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.00, C:0.03, G:0.19, T:0.78
Consensus pattern (4 bp):
TTTG
Found at i:129910 original size:10 final size:10
Alignment explanation
Indices: 129839--129912 Score: 62
Period size: 11 Copynumber: 7.3 Consensus size: 10
129829 ATCTAGACCC
*
129839 TGTTTTTGTT
1 TGTTTTTTTT
*
129849 TGTCTGTTTTT
1 TGT-TTTTTTT
129860 TGTTTGTTTTT
1 TGTTT-TTTTT
129871 TGTTTGTTTTT
1 TGTTT-TTTTT
* **
129882 GGTTTTTTCC
1 TGTTTTTTTT
129892 TG--TTTTTT
1 TGTTTTTTTT
129900 TGTTTTTTTT
1 TGTTTTTTTT
129910 TGT
1 TGT
129913 AAGAAGGACG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 6 0.12
10 17 0.33
11 28 0.55
ACGTcount: A:0.00, C:0.04, G:0.18, T:0.78
Consensus pattern (10 bp):
TGTTTTTTTT
Found at i:151074 original size:300 final size:300
Alignment explanation
Indices: 150531--151130 Score: 1083
Period size: 300 Copynumber: 2.0 Consensus size: 300
150521 GACGTCCTTC
* *
150531 GCTACATGAGGGACCAACAATATCCCAAAGATGCAATCGAGACTGATAAAAAGACCATCAGAAGA
1 GCTACATGAGGGACCAACAATATCCCAAAGATGCAACCGAGACTGATAAAAAAACCATCAGAAGA
* *
150596 TTGACTATGGGATTTGTTCTCGACGGAGAAATTCTGTACAAGAAAAGTTACGATCAGGTGCTACT
66 CTGACTATGGGATTTGTTCTCGACGGAGAAATTCTGTACAAGAAAAGTTACGATCAAGTGCTACT
*
150661 TAGATGCGTCGATGCTCTTGAAGCTAAAAGGATCTTAGAAGAAGTTCATGACGGGATTTACAGTA
131 TAGATGCGTCGATGCTCCTGAAGCTAAAAGGATCTTAGAAGAAGTTCATGACGGGATTTACAGTA
* *
150726 CGCATGCTAATGGACATCGAATGGCTAAGCAAATTATGAGAGCAGGTTATTATTGGTTGGCCCTT
196 CACATGCTAATGGACATCGAATGGCTAAGCAAATTATGAGAACAGGTTATTATTGGTTGGCCCTT
150791 GAGAAAGACTGTATTGATTATGCTCGAAAATGCCACAAAT
261 GAGAAAGACTGTATTGATTATGCTCGAAAATGCCACAAAT
* * *
150831 GCTACATGAGGGACTAACAATATCCCAAAGATGTAACCGAGACTGATAAAAAAACTATCAGAAGA
1 GCTACATGAGGGACCAACAATATCCCAAAGATGCAACCGAGACTGATAAAAAAACCATCAGAAGA
150896 CTGACTATGGGATTTGTTCTCGACGGAGAAATTCTGTACAAGAAAAGTTACGATCAAGTGCTACT
66 CTGACTATGGGATTTGTTCTCGACGGAGAAATTCTGTACAAGAAAAGTTACGATCAAGTGCTACT
* *
150961 TAGATGTGTCGATGCTCCTGAAGCTAAAAGGATCTTAGAAGAATTTCATGACGGGATTTACAGTA
131 TAGATGCGTCGATGCTCCTGAAGCTAAAAGGATCTTAGAAGAAGTTCATGACGGGATTTACAGTA
*
151026 CACATGCTAATGGACATCGGATGGCTAAGCAAATTATGAGAACAGGTTATTATTGGTTGGCCCTT
196 CACATGCTAATGGACATCGAATGGCTAAGCAAATTATGAGAACAGGTTATTATTGGTTGGCCCTT
151091 GAGAAAGACTGTATTGATTATGCTCGAAAATGCCACAAAT
261 GAGAAAGACTGTATTGATTATGCTCGAAAATGCCACAAAT
151131 ACCAAATTTA
Statistics
Matches: 287, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
300 287 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.26
Consensus pattern (300 bp):
GCTACATGAGGGACCAACAATATCCCAAAGATGCAACCGAGACTGATAAAAAAACCATCAGAAGA
CTGACTATGGGATTTGTTCTCGACGGAGAAATTCTGTACAAGAAAAGTTACGATCAAGTGCTACT
TAGATGCGTCGATGCTCCTGAAGCTAAAAGGATCTTAGAAGAAGTTCATGACGGGATTTACAGTA
CACATGCTAATGGACATCGAATGGCTAAGCAAATTATGAGAACAGGTTATTATTGGTTGGCCCTT
GAGAAAGACTGTATTGATTATGCTCGAAAATGCCACAAAT
Found at i:152090 original size:12 final size:12
Alignment explanation
Indices: 152065--152131 Score: 66
Period size: 13 Copynumber: 5.5 Consensus size: 12
152055 TCCTTCATAC
152065 CAAAAAAAAAAA
1 CAAAAAAAAAAA
*
152077 -AAACCAAAACAAA
1 CAAA--AAAAAAAA
*
152090 -AAACAAAAAAA
1 CAAAAAAAAAAA
152101 CAAAAAAAAAAA
1 CAAAAAAAAAAA
*
152113 CAAGAAAAAAAAG
1 CAA-AAAAAAAAA
152126 CAAAAA
1 CAAAAA
152132 GGGGTCCAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
11 9 0.20
12 16 0.35
13 21 0.46
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:152092 original size:20 final size:18
Alignment explanation
Indices: 152066--152112 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
152056 CCTTCATACC
*
152066 AAAAAAAAAAAAAACCAA
1 AAAAAAAAAAAAAAACAA
152084 AACAAAAAACAAAAAAACAA
1 AA-AAAAAA-AAAAAAACAA
152104 AAAAAAAAA
1 AAAAAAAAA
152113 CAAGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 12 0.46
20 11 0.42
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAACAA
Found at i:152111 original size:33 final size:33
Alignment explanation
Indices: 152069--152131 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
152059 TCATACCAAA
152069 AAAAAAAAAAACCAA-AACAAAAAA-CAAAAAAAC
1 AAAAAAAAAAA-CAAGAA-AAAAAAGCAAAAAAAC
152102 AAAAAAAAAAACAAGAAAAAAAAGCAAAAA
1 AAAAAAAAAAACAAGAAAAAAAAGCAAAAA
152132 GGGGTCCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (33 bp):
AAAAAAAAAAACAAGAAAAAAAAGCAAAAAAAC
Found at i:152113 original size:20 final size:20
Alignment explanation
Indices: 152066--152121 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
152056 CCTTCATACC
*
152066 AAAAAAAA-AAAAAACCAAA
1 AAAAAAAACAAAAAAACAAA
*
152085 ACAAAAAACAAAAAAACAAA
1 AAAAAAAACAAAAAAACAAA
152105 AAAAAAAACAAGAAAAA
1 AAAAAAAACAA-AAAAA
152122 AAAGCAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 7 0.22
20 20 0.62
21 5 0.16
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAAAAAAACAAA
Found at i:152130 original size:8 final size:7
Alignment explanation
Indices: 152067--152131 Score: 57
Period size: 7 Copynumber: 9.7 Consensus size: 7
152057 CTTCATACCA
*
152067 AAAAAAA
1 AAAAAAC
152074 AAAAAAC
1 AAAAAAC
*
152081 -CAAAAC
1 AAAAAAC
152087 AAAAAAC
1 AAAAAAC
152094 AAAAAA-
1 AAAAAAC
152100 ACAAAAA-
1 A-AAAAAC
152107 AAAAAAC
1 AAAAAAC
*
152114 AAGAAA-
1 AAAAAAC
*
152120 AAAAAGC
1 AAAAAAC
152127 AAAAA
1 AAAAA
152132 GGGGTCCAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
6 15 0.31
7 33 0.69
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:152131 original size:1 final size:1
Alignment explanation
Indices: 152066--152124 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
152056 CCTTCATACC
** * * * * *
152066 AAAAAAAAAAAAAACCAAAACAAAAAACAAAAAAACAAAAAAAAAAACAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
152125 GCAAAAAGGG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:153379 original size:28 final size:29
Alignment explanation
Indices: 153347--153751 Score: 342
Period size: 28 Copynumber: 13.8 Consensus size: 29
153337 CGTTCATCTC
153347 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCT
** *
153375 TTCAAAGCCCACAAG-CTAGTGATAACTCTT
1 TTCAAAGCCCACAAGTC-AGTG-GCACTCCT
* *
153405 TTCAAAACCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCT
*
153433 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * *
153462 TTTAAAGCCCACACGAGTCAATGGTAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGG-CACTCCT
** *
153494 TTCAAAATCCATAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCT
*
153522 TTCAAAGCCCACAAGTCAGTGGCA-TTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * *
153550 TGCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCCT
* *
153580 TTCAAAGCCCATAAGTCAGTGGCAC-ACT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCT
153608 TTCAAAGCCCACAAGTCAGT-GCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * *
153635 TTCAAAGTCCATAAGTCAGTAGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCCT
* * * * *
153664 TTTAAAGTCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CACTCCT
* *
153694 TTCAAAGCCCACATGAGTC-GATGGTAACTCTT
1 TTCAAAGCCCACA--AGTCAG-TGG-CACTCCT
*
153726 TTCAAAGCTCACACAAGTTAGTGGCA
1 TTCAAAGC-C-CACAAGTCAGTGGCA
153752 TATTTTTAAA
Statistics
Matches: 307, Mismatches: 51, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
27 25 0.08
28 115 0.37
29 42 0.14
30 66 0.21
31 10 0.03
32 43 0.14
33 2 0.01
34 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCCT
Found at i:153416 original size:58 final size:57
Alignment explanation
Indices: 153347--153706 Score: 350
Period size: 58 Copynumber: 6.2 Consensus size: 57
153337 CGTTCATCTC
*
153347 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG-CTAGTGATAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC-AGTG-GAACTCTT
* * *
153405 TTCAAAACCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTT
* * * * ** * * *
153462 TTTAAAGCCCACACGAGTCAATGGTAACTCTTTTCAAAATCCATAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACA--AGTCAGTGG-CAC-CCTTTCAAAGCCCACAAGTCAGTGGAACTCTT
** * * *
153522 TTCAAAGCCCACAAGTCAGTGGCATTCTTGCAAAGCCCACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG-AACTCTT
* * * *
153580 TTCAAAGCCCATAAGTCAGTGGCACACTTTCAAAGCCCACAAGTCAGT-GCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTT
* * * * * * *
153635 TTCAAAGTCCATAAGTCAGTAGCACTCTTTTTAAAGTCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGG-AACTCTT
153694 TTCAAAGCCCACA
1 TTCAAAGCCCACA
153707 TGAGTCGATG
Statistics
Matches: 244, Mismatches: 47, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
55 25 0.10
56 37 0.15
57 21 0.09
58 100 0.41
59 21 0.09
60 17 0.07
61 23 0.09
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGAACTCTT
Found at i:153447 original size:86 final size:86
Alignment explanation
Indices: 153347--153654 Score: 404
Period size: 86 Copynumber: 3.6 Consensus size: 86
153337 CGTTCATCTC
*
153347 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG-CTAGTGATAACTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC-AGTGGTAACTCTTTTCAAA
* *
153411 ACCCACAAGTTAGTGGCACCCT
65 ACCCATAAGTCAGTGGCACCCT
* * *
153433 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACACGAGTCAATGGTAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTGGTAACTCTTTTCA
* *
153498 AAATCCATAAGTCAGTGGCATCCT
63 AAACCCATAAGTCAGTGGCACCCT
** * * * * *
153522 TTCAAAGCCCACAAGTCAGTGGCATTCTTGCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAA
*
153587 CCCATAAGTCAGTGGCACACT
66 CCCATAAGTCAGTGGCACCCT
* *
153608 TTCAAAGCCCACAAGTCAGT-GCACCCTTTCAAAGTCCATAAGTCAGT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGT
153655 AGCACTCTTT
Statistics
Matches: 190, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
85 20 0.11
86 83 0.44
87 14 0.07
88 11 0.06
89 61 0.32
90 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (86 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAA
CCCATAAGTCAGTGGCACCCT
Found at i:153697 original size:86 final size:86
Alignment explanation
Indices: 153347--153706 Score: 379
Period size: 86 Copynumber: 4.2 Consensus size: 86
153337 CGTTCATCTC
*
153347 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAG-CTAGTGATAACTCTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC-AGT-AGAACTCTTTTCAAA
*
153411 ACCCACAAGTTAGTGGCAC-CCT
64 ACCCACAAGTCAGTGGCACTCCT
* * * *
153433 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTTAAAGCCCACACGAGTCAATGGTAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA--AGTCAGTAG-AACTCTTTTCA
* *
153498 AAATCCATAAGTCAGTGGCA-TCCT
62 AAACCCACAAGTCAGTGGCACTCCT
** * * * * *
153522 TTCAAAGCCCACAAGTCAGTGGCATTCTTGCAAAGCCCACGAGTCGGTGGCAACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAG-AACTCTTTTCAAAA
* *
153587 CCCATAAGTCAGTGGCAC-ACT
65 CCCACAAGTCAGTGGCACTCCT
* * * * **
153608 TTCAAAGCCCACAAGTCAGT-GCACCCTTTCAAAGTCCATAAGTCAGTAGCACTCTTTTTAAAGT
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGAACTCTTTTCAAAAC
* * *
153672 CCACAAGCCAGTGGTAACTCTT
66 CCACAAGTCAGTGG-CACTCCT
153694 TTCAAAGCCCACA
1 TTCAAAGCCCACA
153707 TGAGTCGATG
Statistics
Matches: 229, Mismatches: 36, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
84 24 0.10
85 23 0.10
86 97 0.42
87 14 0.06
88 11 0.05
89 59 0.26
90 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (86 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTAGAACTCTTTTCAAAAC
CCACAAGTCAGTGGCACTCCT
Found at i:161908 original size:22 final size:22
Alignment explanation
Indices: 161883--161938 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
161873 ACGAATTATC
161883 TAAAATTTAAATTATTTTAATT
1 TAAAATTTAAATTATTTTAATT
*
161905 TAAATATTT-AATTTTTTTAATT
1 TAAA-ATTTAAATTATTTTAATT
161927 T-AAA-TTAAATTA
1 TAAAATTTAAATTA
161939 AATTTAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 5 0.17
21 2 0.07
22 17 0.57
23 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAAATTTAAATTATTTTAATT
Found at i:164320 original size:20 final size:19
Alignment explanation
Indices: 164282--164350 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 19
164272 AAAAATTATA
164282 TATTTATATAATTTTTAAT
1 TATTTATATAATTTTTAAT
164301 TATTTA-ATAATCTGTTTAAT
1 TATTTATATAAT-T-TTTAAT
164321 AAATATTTATAATAATTTTT-A-
1 ---TATTTAT-ATAATTTTTAAT
164342 TATTTATAT
1 TATTTATAT
164351 TATATTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
17 2 0.05
18 12 0.28
19 7 0.16
20 6 0.14
22 1 0.02
23 9 0.21
24 1 0.02
25 5 0.12
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (19 bp):
TATTTATATAATTTTTAAT
Done.