Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 15 of 109
Found at i:2477374 original size:216 final size:216
Alignment explanation
Indices: 2476992--2477386 Score: 496
Period size: 215 Copynumber: 1.8 Consensus size: 216
2476982 TAATTTAATC
* * *
2476992 TTTAATGAAAAAGAAATTTTATTATATTGAATATTTTCTATAAATATTCCAATACACTGGTAATA
1 TTTAATGAAAAAAAAATTTTATTATATCGAATATTTTCTATAAATACTCCAATACACTGGTAATA
* * * *
2477057 TTTTTAAAAAATCTTCTCATCTAGAGATTTCATAAAGTATCATTACTCGAAATACTTTTAGAATT
66 TTTTTAAAAAATATTATCATCTAGAGATTTCATAAAGCATCATTACTCGAAATACTTTTAGAATC
** * * * *
2477122 TCATCATTGGGTAAAATTTTCTTTTTTCTTATTTTTATT-ACTTTATTTTATTTTTTTTATAAAA
131 TCATCAACGGATAAAAATTTCCTTTTCCTTATTTTTATTAACTTTATTTTATTTTTTTTATAAAA
2477186 GTTAATTTTATTTTACTAGTT
196 GTTAATTTTATTTTACTAGTT
* * * * *
2477207 TTTAAT-AAAAAAAAATTTTATTGTATCGAGA-ATTTTTTATAAATACTCGAATACATTGGTAGT
1 TTTAATGAAAAAAAAATTTTATTATATCGA-ATATTTTCTATAAATACTCCAATACACTGGTAAT
* * *
2477270 ATTTTTTAAAAAAATATTATCA-CATAGAGATTTCAT-AGGCATCATTACTCGGAGTACCTTTT-
65 A-TTTTT-AAAAAATATTATCATC-TAGAGATTTCATAAAGCATCATTACTCGAAATA-CTTTTA
*
2477332 GAATCTCATCAACGGATAAAAATTTCCTTTTCCTTCATTTTTATTAATTTTATTT
126 GAATCTCATCAACGGATAAAAATTTCCTTTTCCTT-ATTTTTATTAACTTTATTT
2477387 AATTAAAATT
Statistics
Matches: 151, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
214 48 0.32
215 57 0.38
216 38 0.25
217 8 0.05
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.47
Consensus pattern (216 bp):
TTTAATGAAAAAAAAATTTTATTATATCGAATATTTTCTATAAATACTCCAATACACTGGTAATA
TTTTTAAAAAATATTATCATCTAGAGATTTCATAAAGCATCATTACTCGAAATACTTTTAGAATC
TCATCAACGGATAAAAATTTCCTTTTCCTTATTTTTATTAACTTTATTTTATTTTTTTTATAAAA
GTTAATTTTATTTTACTAGTT
Found at i:2478291 original size:21 final size:21
Alignment explanation
Indices: 2478265--2478304 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2478255 GTAATAAGCA
2478265 CTATTTATAGAAAAATCTGCG
1 CTATTTATAGAAAAATCTGCG
2478286 CTATTTATAGAAAAATCTG
1 CTATTTATAGAAAAATCTG
2478305 GGATTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
CTATTTATAGAAAAATCTGCG
Found at i:2478507 original size:14 final size:14
Alignment explanation
Indices: 2478485--2478516 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2478475 AGGAAAGAAG
2478485 AAAAGAAAAAAATA
1 AAAAGAAAAAAATA
*
2478499 AAAATAAAAAAATA
1 AAAAGAAAAAAATA
2478513 AAAA
1 AAAA
2478517 ATATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (14 bp):
AAAAGAAAAAAATA
Found at i:2478825 original size:49 final size:48
Alignment explanation
Indices: 2478698--2478858 Score: 209
Period size: 49 Copynumber: 3.4 Consensus size: 48
2478688 TTAAAAATTT
* * * *
2478698 AAAAGGCTCATCTGAGCTGAGGCTCAACAACTTTAAAATC-CATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * *
2478745 AAAAAGCT-CTTTAAGCAGAAGCTCAACAACTTTAAAATTCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTG
*
2478793 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATATTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
*
2478842 GAAAAGCTCCTCTCAGC
1 AAAAAGCTCCTCTCAGC
2478859 TTTAAAAATC
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
46 24 0.24
47 9 0.09
48 15 0.15
49 47 0.47
50 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
Found at i:2478862 original size:35 final size:35
Alignment explanation
Indices: 2478823--2478893 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
2478813 GGCTCAACAA
*
2478823 CTTTAAAAATCTCATATTGGAAAAGCTCCTCTCAG
1 CTTTAAAAATCTCATATTGGAAAAGCTCATCTCAG
* *
2478858 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAG
1 CTTTAAAAATCTCATATTGGAAAAGCTCATCTCAG
2478893 C
1 C
2478894 AGAGGCTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
CTTTAAAAATCTCATATTGGAAAAGCTCATCTCAG
Found at i:2478884 original size:84 final size:84
Alignment explanation
Indices: 2478774--2478933 Score: 257
Period size: 84 Copynumber: 1.9 Consensus size: 84
2478764 AGCTCAACAA
* *
2478774 CTTTAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
1 CTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
*
2478839 TTGGAAAAGCTCCTCTCAG
66 TTGAAAAAGCTCCTCTCAG
* * * *
2478858 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCATC
1 CTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
2478923 TTGAAAAAGCT
66 TTGAAAAAGCT
2478934 TCTTTCAACA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 69 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (84 bp):
CTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
TTGAAAAAGCTCCTCTCAG
Found at i:2478904 original size:133 final size:132
Alignment explanation
Indices: 2478724--2479137 Score: 422
Period size: 133 Copynumber: 3.0 Consensus size: 132
2478714 CTGAGGCTCA
* * *
2478724 ACAACTTT-AAAATCCATCTTGAAAAAGCTCTTTAAGCAGAAGCTCAACAACTTTAAAATTCTCA
1 ACAACTTTAAAAATCCATCTTGAAAAAGCTCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCA
*
2478788 TCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATATTGGAAAAGCTCCT
66 TCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTCCT
2478853 CT
131 CT
* * *
2478855 -CAGCTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCT
1 ACAACTTTAAAAATC-CATCTTGAAAAAGCTC-TCTCAGCAGAGGCTCAACAACTTTAAAATTCT
* * * * *
2478919 CATCTTGAAAAAGCTTCTTTCAACAGAGGCTCAACAACTTT-AAAATTTCATCTTGAAAAAAGAT
64 CATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG-GAAAAG--
*
2478983 TCTCTCAGCAGAGGCTT
126 ---CTC--C----TC-T
* * * * *
2479000 AACAACGTTTAAAAATCCATCTTAAAAAAAGTTCCTCTCAGTAGAGACTTAACAACTTTGAAAA-
1 -ACAAC-TTTAAAAATCCATCTT-GAAAAAGCT-CTCTCAGCAGAGGCTCAACAACTTT-AAAAT
* *
2479064 TCTCATCTTGGAAAAAGCTCCTCTCAGCAAAGGACTCAACAACTTTAAAAATCTTATCTTGGAAA
61 TCTCATCTT-GAAAAAGCTCCTCTCAGCAGAGG-CTCAACAACTTTAAAAATCTCATCTTGGAAA
2479129 AGCTCCTCT
124 AGCTCCTCT
2479138 TAGCAGAAGC
Statistics
Matches: 229, Mismatches: 29, Indels: 43
0.76 0.10 0.14
Matches are distributed among these distances:
130 6 0.03
131 6 0.03
132 26 0.11
133 72 0.31
138 4 0.02
139 1 0.00
140 1 0.00
143 1 0.00
144 1 0.00
145 4 0.02
147 9 0.04
148 45 0.20
149 24 0.10
150 17 0.07
151 12 0.05
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (132 bp):
ACAACTTTAAAAATCCATCTTGAAAAAGCTCTCTCAGCAGAGGCTCAACAACTTTAAAATTCTCA
TCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTGGAAAAGCTCCT
CT
Found at i:2478920 original size:49 final size:49
Alignment explanation
Indices: 2478858--2479177 Score: 358
Period size: 49 Copynumber: 6.5 Consensus size: 49
2478848 CTCCTCTCAG
* * *
2478858 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGCAGAGGCTCAACAA
1 CTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * * *
2478907 CTTTAAAATTCTCATCTTGAAAAAGCTTCTTTCAACAGAGGCTCAACAA
1 CTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * * *
2478956 CTTT-AAAATTTCATCTTGAAAAAAGATTCTCTCAGCAGAGGCTTAACAA
1 CTTTAAAAATCTCATCTTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* * * * *
2479005 CGTTTAAAAATC-CATCTTAAAAAAAGTTCCTCTCAGTAGAGACTTAACAA
1 C-TTTAAAAATCTCATCTT-GAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
* *
2479055 CTTTGAAAATCTCATCTTGGAAAAAGCTCCTCTCAGCAAAGGACTCAACAA
1 CTTTAAAAATCTCATCTT-GAAAAAGCTCCTCTCAGCAGAGG-CTCAACAA
* * * * *
2479106 CTTTAAAAATCTTATCTTGGAAAAGCTCCTCTTAGCAGAAGCTCAATAA
1 CTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
*
2479155 CTTT-AAAATTTCATCTTGAAAAA
1 CTTTAAAAATCTCATCTTGAAAAA
2479178 AATTGAGTTC
Statistics
Matches: 228, Mismatches: 37, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
48 28 0.12
49 93 0.41
50 79 0.35
51 28 0.12
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.29
Consensus pattern (49 bp):
CTTTAAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA
Found at i:2480898 original size:6 final size:6
Alignment explanation
Indices: 2480878--2480951 Score: 51
Period size: 6 Copynumber: 11.5 Consensus size: 6
2480868 TTAATTATTC
* * *
2480878 TTTTAT CTTTA- TTTTATT TTTTAT TTTTATT TTTTATT TTAGTTAC TTTTCT
1 TTTTAT TTTTAT TTTTA-T TTTTAT TTTTA-T TTTTA-T TT--TTAT TTTTAT
*
2480930 TTATTTT TTTTAT TTTTAT TTT
1 TT-TTAT TTTTAT TTTTAT TTT
2480952 CAACTTTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
5 4 0.07
6 26 0.47
7 20 0.36
8 2 0.04
9 3 0.05
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:2480899 original size:18 final size:19
Alignment explanation
Indices: 2480872--2480910 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
2480862 TTTATTTTAA
2480872 TTATTCTTTTATCTTTATT
1 TTATTCTTTTATCTTTATT
*
2480891 TTATT-TTTTATTTTTATT
1 TTATTCTTTTATCTTTATT
2480909 TT
1 TT
2480911 TTATTTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (19 bp):
TTATTCTTTTATCTTTATT
Found at i:2480911 original size:19 final size:19
Alignment explanation
Indices: 2480872--2480951 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 19
2480862 TTTATTTTAA
*
2480872 TTATTCTTTTATCTTTA-TT
1 TTATT-TTTTATTTTTATTT
2480891 TTATTTTTTATTTTTATTTT
1 TTATTTTTTATTTTTA-TTT
* *
2480911 TTATTTTAGTTACTTTTCTTT
1 TTATTTT--TTATTTTTATTT
2480932 ATT-TTTTTTATTTTTATTT
1 -TTATTTTTTATTTTTATTT
2480951 T
1 T
2480952 CAACTTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
18 11 0.22
19 15 0.29
20 9 0.18
21 7 0.14
22 9 0.18
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (19 bp):
TTATTTTTTATTTTTATTT
Found at i:2480968 original size:29 final size:27
Alignment explanation
Indices: 2480928--2480987 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
2480918 AGTTACTTTT
*
2480928 CTTTATTTTTTT-TATTTTTATTTTCAA
1 CTTTATTTTTTTATA-TTTTAGTTTCAA
2480955 CTTTATTTTGTTTTATATTTTAGTTTCAA
1 CTTTA-TTT-TTTTATATTTTAGTTTCAA
2480984 -TTTA
1 CTTTA
2480988 AAATAAATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.17
28 7 0.24
29 15 0.52
30 2 0.07
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (27 bp):
CTTTATTTTTTTATATTTTAGTTTCAA
Found at i:2481221 original size:60 final size:59
Alignment explanation
Indices: 2481059--2481338 Score: 292
Period size: 61 Copynumber: 4.7 Consensus size: 59
2481049 AAAATATATA
*
2481059 TTTCAAAAAAGGT-TTTTTA-G-AAAAGTTAAAAGTAT-AATTTTCCTCGAAATTAAAAGT
1 TTTCAAAAAA--TATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGT
* *
2481116 TTTCAAAAAATATTTTTGGGGAAAAGTTGATAAGTATTCAATTTTCCTCGAAATTAAAAGT
1 TTTCAAAAAATATTTTTAGGAAAAAGTTGA-AAGTA-TCAATTTTCCTCGAAATTAAAAGT
* * ** *
2481177 TTCCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-T
1 TTTCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGT
* *
2481234 TTTC-AAAAATGAATTTTT-GAGAAAAAGTTGAAAATTATCAATTTTCCTCGAAATTTAAAG-
1 TTTCAAAAAAT--ATTTTTAG-GAAAAAGTTG-AAAGTATCAATTTTCCTCGAAATTAAAAGT
* *
2481294 TTTCAAAAGAATATTTTTGGGGAAAAGTTG-AAGTATCCAATTTTC
1 TTTCAAAA-AATATTTTTAGGAAAAAGTTGAAAGTAT-CAATTTTC
2481339 TTGCACAAAA
Statistics
Matches: 190, Mismatches: 17, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
55 1 0.01
56 11 0.06
57 16 0.08
58 32 0.17
59 46 0.24
60 28 0.15
61 53 0.28
62 3 0.02
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (59 bp):
TTTCAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGT
Found at i:2481237 original size:118 final size:118
Alignment explanation
Indices: 2481072--2481338 Score: 323
Period size: 118 Copynumber: 2.3 Consensus size: 118
2481062 CAAAAAAGGT
* * *
2481072 TTTTTA-GAAAAGTTAAAAGTAT-AATTTTCCTCGAAATTAAAAGTTTTCAAAAA-ATATTTTTG
1 TTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTCAAAAATA-ATTTTTG
* * *
2481134 GGGAAAAGTTGATAAGTATTCAATTTTCCTCGAAATTAAAAGTTTCCAAAA-AATA
65 AGAAAAAGTTGAAAAGTA-TCAATTTTCCTCGAAATTAAAAGTTT-CAAAAGAATA
* *
2481189 TTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTCAAAAATGAATTTTT
1 TTTTTAGG-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTCAAAAAT-AATTTTT
* *
2481252 GAGAAAAAGTTGAAAATTATCAATTTTCCTCGAAATTTAAAGTTTCAAAAGAATA
64 GAGAAAAAGTTGAAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCAAAAGAATA
*
2481307 TTTTTGGGGAAAAGTTG-AAGTATCCAATTTTC
1 TTTTT-AGGAAAAGTTGAAAGTAT-CAATTTTC
2481339 TTGCACAAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 15
0.83 0.08 0.10
Matches are distributed among these distances:
117 17 0.13
118 60 0.46
119 40 0.31
120 13 0.10
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (118 bp):
TTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTCAAAAATAATTTTTGA
GAAAAAGTTGAAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCAAAAGAATA
Found at i:2481921 original size:18 final size:17
Alignment explanation
Indices: 2481898--2481940 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
2481888 AGAAATTCAA
2481898 AAATCTTGTGAATCTTTG
1 AAATCTTG-GAATCTTTG
*
2481916 AAATCTCAGGAATCTTTG
1 AAATCT-TGGAATCTTTG
*
2481934 AATTCTT
1 AAATCTT
2481941 ATAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (17 bp):
AAATCTTGGAATCTTTG
Found at i:2481940 original size:27 final size:26
Alignment explanation
Indices: 2481873--2481941 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
2481863 AAAATTTTGT
*
2481873 AAATCTTT-AGTTCTTAGAAATTCAA
1 AAATCTTTGAATTCTTAGAAATTCAA
* *
2481898 AAATCTTGTGAA-TCTTTGAAATCTCAG
1 AAATCTT-TGAATTCTTAGAAAT-TCAA
*
2481925 GAATCTTTGAATTCTTA
1 AAATCTTTGAATTCTTA
2481942 TAAAATTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 7 0.20
26 14 0.40
27 14 0.40
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (26 bp):
AAATCTTTGAATTCTTAGAAATTCAA
Found at i:2482058 original size:22 final size:21
Alignment explanation
Indices: 2482033--2482083 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2482023 CAAGTCATTG
*
2482033 AATTTCAATTTGTAAAC-CTTTA
1 AATTTCAAGTTG-AAACTC-TTA
*
2482055 AATTTCAAGTTGAAATTCTTA
1 AATTTCAAGTTGAAACTCTTA
2482076 AATTTCAA
1 AATTTCAA
2482084 ATTTCAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (21 bp):
AATTTCAAGTTGAAACTCTTA
Found at i:2484525 original size:20 final size:20
Alignment explanation
Indices: 2484497--2484535 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2484487 AAAAAATCAT
2484497 AAACGAACATAAACAAACCA
1 AAACGAACATAAACAAACCA
* *
2484517 AAACTAACATAAATAAACC
1 AAACGAACATAAACAAACC
2484536 TTAAAATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.23, G:0.03, T:0.10
Consensus pattern (20 bp):
AAACGAACATAAACAAACCA
Found at i:2485275 original size:21 final size:21
Alignment explanation
Indices: 2485245--2485286 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2485235 TATTTGTATC
2485245 CGAGGCCAATCAAACCGTGTT
1 CGAGGCCAATCAAACCGTGTT
* * *
2485266 CGAGGTCAATCAGATCGTGTT
1 CGAGGCCAATCAAACCGTGTT
2485287 TTATTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (21 bp):
CGAGGCCAATCAAACCGTGTT
Found at i:2485302 original size:3 final size:3
Alignment explanation
Indices: 2485287--2485372 Score: 81
Period size: 3 Copynumber: 29.7 Consensus size: 3
2485277 AGATCGTGTT
* * *
2485287 TTA TTA TTT TTA TTA -TA TTA -TA GTA TTA TTA TCA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
2485332 GTA -TA TTG TATA GTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2485373 GTCATCATCA
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
2 7 0.10
3 60 0.88
4 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2485337 original size:33 final size:36
Alignment explanation
Indices: 2485287--2485374 Score: 114
Period size: 35 Copynumber: 2.6 Consensus size: 36
2485277 AGATCGTGTT
* *
2485287 TTATTATTTTTATTATA-T-TATAGTATTATTATCA
1 TTATTATTATTAGTATATTGTATAGTATTATTATCA
*
2485321 -TATTATTATTAGTATATTGTATAGTATTATTATTA
1 TTATTATTATTAGTATATTGTATAGTATTATTATCA
2485356 TTATTATTATTA-T-TATTGT
1 TTATTATTATTAGTATATTGT
2485375 CATCATCATC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 14 0.29
34 7 0.15
35 16 0.33
36 11 0.23
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (36 bp):
TTATTATTATTAGTATATTGTATAGTATTATTATCA
Found at i:2485355 original size:30 final size:31
Alignment explanation
Indices: 2485287--2485371 Score: 91
Period size: 33 Copynumber: 2.7 Consensus size: 31
2485277 AGATCGTGTT
* * *
2485287 TTATTATTTTTATTATATTATAGTATTATTA
1 TTATTATTATTAGTATATTATAGTAGTATTA
*
2485318 TCATATTATTATTAGTATATTGTA-TAGTATTA
1 T--TATTATTATTAGTATATTATAGTAGTATTA
*
2485350 TTATTATTATTATTATTATTAT
1 TTATTATTATTAGTA-TATTAT
2485372 TGTCATCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 13 0.29
31 6 0.13
32 8 0.18
33 18 0.40
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (31 bp):
TTATTATTATTAGTATATTATAGTAGTATTA
Found at i:2486147 original size:2 final size:2
Alignment explanation
Indices: 2486140--2486170 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
2486130 AATTGAGGCT
2486140 AG AG AG AG AG AG AG AG AG AG AG AG CAG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG -AG AG AG
2486171 GTTATAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2486317 original size:18 final size:18
Alignment explanation
Indices: 2486289--2486333 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2486279 CCCAATGGCA
2486289 ATTTT-TTTTTC-ATTTCC
1 ATTTTATTTTTCAATTT-C
2486306 ATTTTATTTTTCAATTTC
1 ATTTTATTTTTCAATTTC
*
2486324 ATTTCATTTT
1 ATTTTATTTT
2486334 ATTTTGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 16 0.64
19 4 0.16
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTATTTTTCAATTTC
Found at i:2486366 original size:19 final size:18
Alignment explanation
Indices: 2486329--2486371 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
2486319 ATTTCATTTC
*
2486329 ATTTTATTTTGTTTATTA
1 ATTTTAATTTGTTTATTA
2486347 AGTTTTAATTT-TTTATTTA
1 A-TTTTAATTTGTTTA-TTA
2486366 ATTTTA
1 ATTTTA
2486372 CTAGTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
ATTTTAATTTGTTTATTA
Found at i:2492180 original size:13 final size:13
Alignment explanation
Indices: 2492158--2492197 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
2492148 AATGAGAATC
*
2492158 ATCACCAAAAAAA
1 ATCACAAAAAAAA
2492171 ATCACAAAAAAAA
1 ATCACAAAAAAAA
2492184 ATCA-AAAACAAAA
1 ATCACAAAA-AAAA
2492197 A
1 A
2492198 CTTGAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.75, C:0.17, G:0.00, T:0.07
Consensus pattern (13 bp):
ATCACAAAAAAAA
Found at i:2492702 original size:8 final size:8
Alignment explanation
Indices: 2492654--2492682 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2492644 TAAGTTTTGC
2492654 TTTTTA-T
1 TTTTTATT
2492661 TTTTTATT
1 TTTTTATT
2492669 TTTTTATT
1 TTTTTATT
2492677 TTTTTA
1 TTTTTA
2492683 GGTTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:2493479 original size:3 final size:3
Alignment explanation
Indices: 2493471--2493496 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2493461 AATGATAAAT
2493471 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
2493497 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:2497759 original size:13 final size:13
Alignment explanation
Indices: 2497741--2497770 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2497731 CTTGCCCACT
*
2497741 TTTTTTTCTTTTC
1 TTTTTTTCTTTGC
2497754 TTTTTTTCTTTGC
1 TTTTTTTCTTTGC
2497767 TTTT
1 TTTT
2497771 CACCTCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTTTTCTTTGC
Found at i:2497810 original size:26 final size:26
Alignment explanation
Indices: 2497742--2497824 Score: 63
Period size: 26 Copynumber: 3.3 Consensus size: 26
2497732 TTGCCCACTT
*
2497742 TTTTTTCTT-TTCTTT-TTTTCTTTGC
1 TTTTTTCTTCCTCTTTATTTTCTTT-C
* *
2497767 --TTTTC-ACCTCTTTATTTT-TTTT
1 TTTTTTCTTCCTCTTTATTTTCTTTC
2497789 TTTTGTTCTTCCTCTTCT-TTTTCTTTC
1 TTTT-TTCTTCCTCTT-TATTTTCTTTC
2497816 TTTTTTCTT
1 TTTTTTCTT
2497825 TTTCAAGCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
23 13 0.29
24 6 0.13
25 3 0.07
26 15 0.33
27 8 0.18
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTTTCTTCCTCTTTATTTTCTTTC
Found at i:2497857 original size:9 final size:9
Alignment explanation
Indices: 2497843--2497898 Score: 60
Period size: 9 Copynumber: 6.0 Consensus size: 9
2497833 TAGCTAGAAT
2497843 TTTTTTTCA
1 TTTTTTTCA
2497852 TTTTTTTCA
1 TTTTTTTCA
*
2497861 TTTTTTACAA
1 TTTTTTTC-A
*
2497871 TTTTTTT-T
1 TTTTTTTCA
2497879 TTGTTTTTCCA
1 TT-TTTTT-CA
2497890 TTTTTTTCA
1 TTTTTTTCA
2497899 AGCTCCAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 23 0.59
10 12 0.31
11 2 0.05
ACGTcount: A:0.12, C:0.11, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:2502771 original size:10 final size:10
Alignment explanation
Indices: 2502738--2502764 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2502728 AAAAAGGAAA
2502738 AGAAAAAAAT
1 AGAAAAAAAT
2502748 AGAAAAAAAT
1 AGAAAAAAAT
2502758 AGAAAAA
1 AGAAAAA
2502765 TAAAGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (10 bp):
AGAAAAAAAT
Found at i:2503068 original size:49 final size:48
Alignment explanation
Indices: 2502954--2503115 Score: 218
Period size: 49 Copynumber: 3.4 Consensus size: 48
2502944 TTAAAAATTT
* * * *
2502954 AAAAGGCTCATCTGAGCAGAGGCTCAACAGCTTTAAAATC-CATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * *
2503001 AAAAAGCTCTTCTAAGCAGAAGCTCAACAACTTTAAAATTCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTG
*
2503050 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATATTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
*
2503099 GAAAAGCTCCTCTCAGC
1 AAAAAGCTCCTCTCAGC
2503116 TTTAAAAATC
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 33 0.32
48 2 0.02
49 63 0.62
50 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
Found at i:2503119 original size:35 final size:35
Alignment explanation
Indices: 2503080--2503150 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
2503070 GGCTCAACAA
*
2503080 CTTTAAAAATCTCATATTGGAAAAGCTCCTCTCAG
1 CTTTAAAAATCTCATATTGGAAAAGCTCATCTCAG
* *
2503115 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAG
1 CTTTAAAAATCTCATATTGGAAAAGCTCATCTCAG
2503150 C
1 C
2503151 AGAGGTACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
CTTTAAAAATCTCATATTGGAAAAGCTCATCTCAG
Found at i:2503177 original size:49 final size:47
Alignment explanation
Indices: 2503115--2503481 Score: 344
Period size: 49 Copynumber: 7.5 Consensus size: 47
2503105 CTCCTCTCAG
* *
2503115 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGCAGAGGTACAACAA
1 CTTTAAAAATCTCATCTTGAAAAAGCTC-TCTCAGCAGAGGT-CAACAA
* *
2503164 CTTTAAAATTCTCATCTTGAAAAAGCTTCTCTCAACAGAGGCTCAACAA
1 CTTTAAAAATCTCATCTTGAAAAAGC-TCTCTCAGCAGAGG-TCAACAA
* * * *
2503213 CTTT-AAAATTTCATCTTGAAAAAAGATTCTCTCAGCAAAGGCTTAACAA
1 CTTTAAAAATCTCATCTTG-AAAAAG-CTCTCTCAGCAGAGG-TCAACAA
* * *
2503262 CTTTAAAAAT-TCATCTTGAAAAAAGTTCTTCTCAGCAGAGACTTAACAA
1 CTTTAAAAATCTCATCTTG-AAAAAGCTC-TCTCAGCAGAG-GTCAACAA
* * *
2503311 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTAAGTAGAGGCTCAACAA
1 CTTTAAAAATCTCATCTTGAAAAAGCTC-TCTCAGCAGAGG-TCAACAA
* * * *
2503360 CTTTAAAATTCTTATCTTGAAAAAAGCTCCTCTCAGCAAAGACTCAACAA
1 CTTTAAAAATCTCATCTTG-AAAAAGCT-CTCTCAGCAGAG-GTCAACAA
* * * * *
2503410 CTTTAAAAATCTTATCTTGGAAAAGCTCCTCTTAGCAAAAGCTCAACAA
1 CTTTAAAAATCTCATCTTGAAAAAGCT-CTCTCAGC-AGAGGTCAACAA
*
2503459 CTTT-AAAATTTCATCTTGAAAAA
1 CTTTAAAAATCTCATCTTGAAAAA
2503482 AATTGAGTTC
Statistics
Matches: 273, Mismatches: 32, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
48 31 0.11
49 181 0.66
50 60 0.22
51 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (47 bp):
CTTTAAAAATCTCATCTTGAAAAAGCTCTCTCAGCAGAGGTCAACAA
Found at i:2503177 original size:84 final size:84
Alignment explanation
Indices: 2503031--2503197 Score: 246
Period size: 84 Copynumber: 2.0 Consensus size: 84
2503021 AGCTCAACAA
* *
2503031 CTTTAAAATTCTCATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
1 CTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
*
2503096 TTGGAAAAGCTCCTCTCAG
66 TTGAAAAAGCTCCTCTCAG
* * *
2503115 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGCAGAGG-TACAACAACTTTAAAATTCTCAT
1 CTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCT-CAACAACTTTAAAAATCTCAT
* *
2503179 CTTGAAAAAGCTTCTCTCA
65 ATTGAAAAAGCTCCTCTCA
2503198 ACAGAGGCTC
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 1 0.01
84 73 0.99
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (84 bp):
CTTTAAAAATCTCATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATA
TTGAAAAAGCTCCTCTCAG
Found at i:2503237 original size:133 final size:133
Alignment explanation
Indices: 2502981--2503396 Score: 418
Period size: 133 Copynumber: 3.0 Consensus size: 133
2502971 AGAGGCTCAA
* *
2502981 CAGCTTT-AAAATC-CATCTTGAAAAAGCTCTTCTAAGCAGAAGCT-CAACAACTTTAAAATTCT
1 CAGCTTTAAAAATCTCATCTTGAAAAAGCTCTTCTCAGCAG-AGGTACAACAACTTTAAAATTCT
* * * * *
2503043 CATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTCATATTG-GAAAAGCT
65 CATCTTGAAAAAGCTTCTCTCAACAGAGGCTCAACAACTTT-AAAATTTCATCTTGAAAAAAGCT
2503107 CCTCT
129 CCTCT
* * *
2503112 CAGCTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGCAGAGGTACAACAACTTTAAAATTCTC
1 CAGCTTTAAAAATCTCATCTTGAAAAAGCTCTTCTCAGCAGAGGTACAACAACTTTAAAATTCTC
2503177 ATCTTGAAAAAGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGATTC
66 ATCTTGAAAAAGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAG----
*
2503242 TCTCAGCAAAGGCTT
127 -CTC--C----TC-T
* *
2503257 AACAACTTTAAAAAT-TCATCTTGAAAAAAGTTCTTCTCAGCAGA-G-ACTTAACAACTTTAAAA
1 --CAGCTTTAAAAATCTCATCTTG-AAAAAGCTCTTCTCAGCAGAGGTAC--AACAACTTTAAAA
* * * *
2503319 ATCTCATCTTGGAAAAGC-TCATCT-AAGTAGAGGCTCAACAACTTTAAAATTCTTATCTTGAAA
61 TTCTCATCTTGAAAAAGCTTC-TCTCAA-CAGAGGCTCAACAACTTTAAAATT-TCATCTTGAAA
2503382 AAAGCTCCTCT
123 AAAGCTCCTCT
2503393 CAGC
1 CAGC
2503397 AAAGACTCAA
Statistics
Matches: 239, Mismatches: 22, Indels: 45
0.78 0.07 0.15
Matches are distributed among these distances:
131 7 0.03
132 21 0.09
133 84 0.35
134 3 0.01
136 1 0.00
137 1 0.00
138 3 0.01
140 1 0.00
141 1 0.00
143 3 0.01
144 1 0.00
145 3 0.01
146 13 0.05
147 83 0.35
148 14 0.06
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (133 bp):
CAGCTTTAAAAATCTCATCTTGAAAAAGCTCTTCTCAGCAGAGGTACAACAACTTTAAAATTCTC
ATCTTGAAAAAGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATTTCATCTTGAAAAAAGCTCC
TCT
Found at i:2503351 original size:147 final size:147
Alignment explanation
Indices: 2503115--2503481 Score: 460
Period size: 147 Copynumber: 2.5 Consensus size: 147
2503105 CTCCTCTCAG
* *
2503115 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGCAGAGGTAC-AACAACTTTAAAATTCTCAT
1 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAGA-G-ACTAACAACTTTAAAAATCTCAT
*
2503179 CTTGAAAAAGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATT-TCATCTTGAAAAAAGATTCT
64 CTTGAAAAAGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAAGATCCT
* *
2503243 CTCAGCAAAGGCTTAACAA
129 CTCAGCAAAGACTCAACAA
* * *
2503262 CTTTAAAAAT-TCATCTTGAAAAAAGTTCTTCTCAGCAGAGACTTAACAACTTTAAAAATCTCAT
1 CTTTAAAAATCTCATCTTG-GAAAAGCTCATCTCAGCAGAGAC-TAACAACTTTAAAAATCTCAT
* * * *
2503326 CTTGGAAAAGC-TCATCT-AAGTAGAGGCTCAACAACTTTAAAATTCTTATCTTGAAAAAAGCTC
64 CTTGAAAAAGCTTC-TCTCAA-CAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAAGATC
2503389 CTCTCAGCAAAGACTCAACAA
127 CTCTCAGCAAAGACTCAACAA
* * * * *
2503410 CTTTAAAAATCTTATCTTGGAAAAGCTCCTCTTAGCA-AAAGCTCAACAACTTT-AAAATTTCAT
1 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAGAGA-CT-AACAACTTTAAAAATCTCAT
2503473 CTTGAAAAA
64 CTTGAAAAA
2503482 AATTGAGTTC
Statistics
Matches: 191, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
145 2 0.01
146 13 0.07
147 101 0.53
148 68 0.36
149 7 0.04
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (147 bp):
CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAGAGACTAACAACTTTAAAAATCTCATCT
TGAAAAAGCTTCTCTCAACAGAGGCTCAACAACTTTAAAATTCTCATCTTGAAAAAAGATCCTCT
CAGCAAAGACTCAACAA
Found at i:2503403 original size:99 final size:99
Alignment explanation
Indices: 2503115--2503482 Score: 469
Period size: 98 Copynumber: 3.7 Consensus size: 99
2503105 CTCCTCTCAG
* *
2503115 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGCAGAGG-TACAACAACTTTAAAATTCTCAT
1 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAAAGGCT-CAACAACTTTAAAATTCTCAT
* * *
2503179 CTTG-AAAAAGCTTCTCTCAACAGAGGCTCAACAA
65 CTTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAA
* * * * *
2503213 CTTT-AAAATTTCATCTTGAAAAAAGATTC-TCTCAGCAAAGGCTTAACAACTTTAAAAAT-TCA
1 CTTTAAAAATCTCATCTTG-GAAAAG-CTCATCTCAGCAAAGGCTCAACAACTTTAAAATTCTCA
* * *
2503275 TCTTGAAAAAAGTTCTTCTCAGCAGAGACTTAACAA
64 TCTTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAA
* * * *
2503311 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAATTCTTATC
1 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTCTCATC
*
2503376 TTGAAAAAAGCTCCTCTCAGCAAAGACTCAACAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAA
* * * *
2503410 CTTTAAAAATCTTATCTTGGAAAAGCTCCTCTTAGCAAAAGCTCAACAACTTTAAAATT-TCATC
1 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTCTCATC
2503474 TTGAAAAAA
66 TTGAAAAAA
2503483 ATTGAGTTCT
Statistics
Matches: 230, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
97 23 0.10
98 104 0.45
99 103 0.45
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (99 bp):
CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTCTCATC
TTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAA
Found at i:2503483 original size:99 final size:99
Alignment explanation
Indices: 2503115--2503482 Score: 451
Period size: 99 Copynumber: 3.7 Consensus size: 99
2503105 CTCCTCTCAG
* * *
2503115 CTTTAAAAATCTCATCTTGGACAAGCTCATCTCAGC-AGAGGTACAACAACTTTAAAATTCTCAT
1 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAAAAGCT-CAACAACTTTAAAATTCTCAT
* * *
2503179 CTTG-AAAAAGCTTCTCTCAACAGAGGCTCAACAA
65 CTTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAA
* * * * * *
2503213 CTTT-AAAATTTCATCTTGAAAAAAGATTC-TCTCAGCAAAGGCTTAACAACTTTAAAAAT-TCA
1 CTTTAAAAATCTCATCTTG-GAAAAG-CTCATCTCAGCAAAAGCTCAACAACTTTAAAATTCTCA
* * *
2503275 TCTTGAAAAAAGTTCTTCTCAGCAGAGACTTAACAA
64 TCTTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAA
* * * * *
2503311 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTAAGTAGAGGCTCAACAACTTTAAAATTCTTATC
1 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAAAAGCTCAACAACTTTAAAATTCTCATC
*
2503376 TTGAAAAAAGCTCCTCTCAGCAAAGACTCAACAA
66 TTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAA
* * *
2503410 CTTTAAAAATCTTATCTTGGAAAAGCTCCTCTTAGCAAAAGCTCAACAACTTTAAAATT-TCATC
1 CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAAAAGCTCAACAACTTTAAAATTCTCATC
2503474 TTGAAAAAA
66 TTGAAAAAA
2503483 ATTGAGTTCT
Statistics
Matches: 228, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
97 23 0.10
98 100 0.44
99 105 0.46
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (99 bp):
CTTTAAAAATCTCATCTTGGAAAAGCTCATCTCAGCAAAAGCTCAACAACTTTAAAATTCTCATC
TTGAAAAAAGCTCCTCTCAGCAGAGACTCAACAA
Found at i:2506099 original size:2 final size:2
Alignment explanation
Indices: 2506094--2506118 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2506084 TAATATATGC
2506094 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2506119 CTAGTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2510824 original size:2 final size:2
Alignment explanation
Indices: 2510819--2510847 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2510809 TAATATATGC
2510819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2510848 CTAGTGTAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2511342 original size:821 final size:795
Alignment explanation
Indices: 2508974--2511366 Score: 2830
Period size: 799 Copynumber: 3.0 Consensus size: 795
2508964 CTCTTGAATC
* * * *
2508974 TTATCAACATATTGAAAGATATTCTTTCAAATGAAATATTAAATAATTTGATTTAAGTGCTTATA
1 TTATCAATA-ATTGAAAGATATTCTTTCAAATGAAATATTAAATAATTTGATTAAAGT-ATTTTA
* * *
2509039 AAATAAATTATCAAGGGAATTCAAATCATTAACCTACTAAAAAATTTTATTTTTAATGATTCAAA
64 AAATAAATTATCAAAGGAATTCAAATCATTAATCTACTAAAAAATTTTATTTTTAATGATTTAAA
*
2509104 AATAAAAATACATCCAAATCAATATATGGGTTGAGTGACAATTATAACTAGG-A-A-T---ATGT
129 AATAAAAATACATCCAAATCAATATATGGGTTGAGTGACAATTATAACTAGGAATATTAAAATAT
* * * *
2509163 A-CAAGTAGAAAAGTGCATACATAGTTTTCAATATCCCCAGTTTTCTAAAACCAAGAAAAT-TAT
194 ATAAAGTACAAAAGTGCATACATAGTTTTCAATATCCCCAGTTTTCTAAAACAAAAAAAATATAT
* * * * *
2509226 A-AATATGCTAGTACAATAAGGCACCTACTTTTCATTAATGTATAAAATCAATCGATTTCTAGTA
259 ATAATATACTAGTGCAATAAAGCACCTACTTTTCATT-CTGTATAAAATCAATCAATTTCTAGTA
* *
2509290 AATCCAAGATTAGTGGGG-CAATGAAACAATGCCAAACGGAGATCAAAGTCTAGACTTTATTGTA
323 AATCCAAGACTAGTGGGGACAATGAAATAATGCCAAACGGAGATCAAAGTCTAGACTTTATTGTA
*
2509354 GTTAATTTCTTGTTGAAATGAAATGAAATGTAATAGTGTTTGAAGAAACATTGAGAA-AATGTGA
388 GTTAATTTCAT-TTGAAATGAAAT--AA-GTAATAGTGTTTGAAGAAACATTGA-AAGAATGTGA
*
2509418 GGATCCATAACATGACATGAGATTGAAAAGTGACTCATCCCATGAAATAATTTACTCTATAATCT
448 GGATCCATGACATGACATGAGATTGAAAAGTGACTCATCCCATGAAATAATTTACTCTATAATCT
* * * * **
2509483 AAGATTAAAATATCAAGTATTATCATT-TCAAAAA-A-AA----AAAACTATTTTTATA-TCGAA
513 AATATTGAAATATCAAGTATT-TCATTGTTAAAAATATAACTTTAAAA-AAAATTTATACT-GAA
*
2509540 ATAAATTTGACAAAATAGTTTCTATCATATCTAAAAATTCTGATTAAGTTTGGTTTTATGAATAG
575 ATAAATTTGACAAAATAGTTTCTATCATATCTAAAAATTCTGATTAAGTTT-ATTTTATGAATAG
* * * *
2509605 ACTGGCATCAATTTAGTTGTCAAAGGTGAAAGACCATGGCAACCAACCATTCCTTGAATCTTACC
639 AGTGGCATCAATTTAGTTGTCAAAGGTGAAAGACCATAGCAGCCAACCCTTCCTTGAATCTTACC
* * *
2509670 AATATATTATTGATAAAAAAATATATGTTTAGAAAAGAAATAGTTCTGTTGAATTTTATCAACAT
704 AACATATTATTGAT-AAAAAATATATGTTTAGAAAAGAAATAGTTCTCTTGAATCTTATCAACAT
2509735 ATTTGAAAAA-ATATTTAGATAAAAAATT
768 A-TTGAAAAATATATTTAGATAAAAAATT
* * *
2509763 TTAAC-AT-ATTGAAAGATATTCCTTCAAATGAAATATTAAATACTTTGATTAAAGTATTTTCAA
1 TTATCAATAATTGAAAGATATTCTTTCAAATGAAATATTAAATAATTTGATTAAAGTATTTT-AA
2509826 AATAAATTATCAAAGGAATTCAAATCATTAATCTACTAAAAAATTTTA---TTAATGATTTAAAA
65 AATAAATTATCAAAGGAATTCAAATCATTAATCTACTAAAAAATTTTATTTTTAATGATTTAAAA
* * *
2509888 ATAAAAATACATCCATATCAATGTATGGGTTGAGTGACAATTATAACTAGG-A-A-T---ATGTA
130 ATAAAAATACATCCAAATCAATATATGGGTTGAGTGACAATTATAACTAGGAATATTAAAATATA
* * ** * *
2509947 -CAAGTAGAAAAGCACATACATAGTTTTCAATATCCCCAATTTTCTTAAAA-AAAAAACAAAAT-
195 TAAAGTACAAAAGTGCATACATAGTTTTCAATATCCCCAGTTTTC-TAAAACAAAAAA-AATATA
2510009 TATAAATATACTAGTGCAATAAAGCACCTACTTTTCATTCATGTATAAAATCAATCAATTTCTAG
258 TAT-AATATACTAGTGCAATAAAGCACCTACTTTTCATTC-TGTATAAAATCAATCAATTTCTAG
* *
2510074 TAAATCCAAGACTAGTGGGGACAATGAAACT-ATGCCAAACGGAGATGAAAGTCTAAACTTTATT
321 TAAATCCAAGACTAGTGGGGACAATGAAA-TAATGCCAAACGGAGATCAAAGTCTAGACTTTATT
* * * * * * *
2510138 GCAATAAATTTTTAGTTGAAATGAAAATAAATGTAATAGTATTTGAAGAAACATTGAGAGAATGT
385 GTAGTTAA-TTTCATTTGAAATG-AAAT-AA-GTAATAGTGTTTGAAGAAACATTGAAAGAATGT
* *
2510203 GAGGATCCGTGACATGACATGAGATTGAAAAGTGATTCATCCCATGAAATAATTTACTCTATAAT
446 GAGGATCCATGACATGACATGAGATTGAAAAGTGACTCATCCCATGAAATAATTTACTCTATAAT
*
2510268 CT-ATGATTGAAATATCAAGTATTTCATTGTTAAAAAATATCACTTTGAAAAAAAAAACTATTTT
511 CTAAT-ATTGAAATATCAAGTATTTCATTGTT-AAAAATATAACTTT----AAAAAAA--A--TT
** * * * *
2510332 TATACCAAAATAAATTTGACAACAT--TGTCTATCATATTTAAAAATTCTGATTAGGTTTGATTT
566 TATACTGAAATAAATTTGACAAAATAGTTTCTATCATATCTAAAAATTCTGATTAAGTTT-ATTT
* * * *
2510395 TATGAATAGAGTGGCATCAATTTAGTTGTCAAAGATGAAAGACCATAGTAGCCAACGCTTCTTTG
630 TATGAATAGAGTGGCATCAATTTAGTTGTCAAAGGTGAAAGACCATAGCAGCCAACCCTTCCTTG
*
2510460 AATCTTACCAACATATTATTGATAGAAAAATATATGTTTTA-AAAAGAAATAATTCTCTTGAATC
695 AATCTTACCAACATATTATTGATA-AAAAATATATG-TTTAGAAAAGAAATAGTTCTCTTGAATC
* * *
2510524 TTATCAACATATTCAAAAATATATTTAGATGAAACATT
758 TTATCAACATATTGAAAAATATATTTAGATAAAAAATT
* *
2510562 TTATCAATAATTGAAAAATATTCTTTCAAATGAAATATTAAATAATTTGATTGAAGTATTTCTAA
1 TTATCAATAATTGAAAGATATTCTTTCAAATGAAATATTAAATAATTTGATTAAAGTATTT-TAA
* *
2510627 AATAAAATATCAAAGGAATTCAAATCATTAATCTACTTAAAAATTTTATTTTTAATGATTTAAAA
65 AATAAATTATCAAAGGAATTCAAATCATTAATCTACTAAAAAATTTTATTTTTAATGATTTAAAA
* * *
2510692 AGAAAAATACTTCCAAATCAA-ACATGGGTTGAGTGACAATTATAACTAGGAATATATATATATA
130 ATAAAAATACATCCAAATCAATATATGGGTTGAGTGACAATTATAACTAGG-A-ATAT-TA-A-A
* *
2510756 TATATATATAAGTACAAAAGTGCATACATTGTTTTCAATATCCCTAGTTTTCATAATATATGCAT
190 -ATATATA-AAGTACAAAAGTGCATACATAGTTTTCAATATCCCCAGTTTTC-TAA-A-A--CA-
* * *
2510821 ATATATATATATATATATATATATATACTAGTGTAATAAAACACAC-ACTTTTCATTCT-TACAC
247 A-A-A-A-A-A-ATATATATA-ATATACTAGTGCAATAAAGCAC-CTACTTTTCATTCTGTATA-
* * * *
2510884 CAAATCAATCAATTTCAAGTAAAAATCCTAGACTAATGGGGACAATGAAATAATGCCAAACAGAG
303 -AAATCAATCAATTTCTAGT--AAATCCAAGACTAGTGGGGACAATGAAATAATGCCAAACGGAG
* * * *
2510949 ATCAAA-TATTGGACTTTATTGTAGTTAATTTCCATTTGAAATGAAAT-A-TAACAGTGTTTAAA
365 ATCAAAGT-CTAGACTTTATTGTAGTTAATTT-CATTTGAAATGAAATAAGTAATAGTGTTTGAA
* *
2511011 GAAACATTGAAAGATTGTGAGGATCCATGACATGACATGTA-ATTGAAAAATGACTCA-CCTCAT
428 GAAACATTGAAAGAATGTGAGGATCCATGACATGACATG-AGATTGAAAAGTGACTCATCC-CAT
* *
2511074 GAAATAATTTACTCTATAATTTAATATTGAAATATCAGGTATTTCATTGTTAAGAAATATAACTT
491 GAAATAATTTACTCTATAATCTAATATTGAAATATCAAGTATTTCATTGTTAA-AAATATAAC-T
* *
2511139 TTAAAAAAAATTTATACTGAAATAAATTTGACAAAATAGTTTCTATCATATCTAAAAATTTTGAA
554 TTAAAAAAAATTTATACTGAAATAAATTTGACAAAATAGTTTCTATCATATCTAAAAATTCTGAT
* * * *
2511204 TAAGTTTATTTTTACGAGTATAGTGGCATCAATTTAGTTGTCAAAGGTG-AAGAACCATAACAGC
619 TAAGTTTA-TTTTATGAATAGAGTGGCATCAATTTAGTTGTCAAAGGTGAAAG-ACCATAGCAGC
* * *
2511268 CAACCCTTCCTTGAATCTTACCAACGTATTATTTATAAAAAAGTATATGTTTAGAAAAAAAATAG
682 CAACCCTTCCTTGAATCTTACCAACATATTATTGATAAAAAA-TATATGTTTAGAAAAGAAATAG
* *
2511333 TTCTCTTGAATCTTATTAACATATTGAAAGATAT
746 TTCTCTTGAATCTTATCAACATATTGAAAAATAT
2511367 TCTTTCAAAT
Statistics
Matches: 1379, Mismatches: 140, Indels: 138
0.83 0.08 0.08
Matches are distributed among these distances:
783 115 0.08
784 9 0.01
785 4 0.00
786 174 0.13
787 167 0.12
788 13 0.01
789 5 0.00
790 1 0.00
797 1 0.00
798 12 0.01
799 175 0.13
800 6 0.00
801 119 0.09
802 1 0.00
803 27 0.02
804 32 0.02
806 1 0.00
807 1 0.00
809 1 0.00
815 4 0.00
817 40 0.03
818 1 0.00
819 25 0.02
820 13 0.01
821 153 0.11
822 1 0.00
823 8 0.01
824 1 0.00
825 5 0.00
826 119 0.09
827 11 0.01
828 6 0.00
829 52 0.04
830 10 0.01
831 66 0.05
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (795 bp):
TTATCAATAATTGAAAGATATTCTTTCAAATGAAATATTAAATAATTTGATTAAAGTATTTTAAA
ATAAATTATCAAAGGAATTCAAATCATTAATCTACTAAAAAATTTTATTTTTAATGATTTAAAAA
TAAAAATACATCCAAATCAATATATGGGTTGAGTGACAATTATAACTAGGAATATTAAAATATAT
AAAGTACAAAAGTGCATACATAGTTTTCAATATCCCCAGTTTTCTAAAACAAAAAAAATATATAT
AATATACTAGTGCAATAAAGCACCTACTTTTCATTCTGTATAAAATCAATCAATTTCTAGTAAAT
CCAAGACTAGTGGGGACAATGAAATAATGCCAAACGGAGATCAAAGTCTAGACTTTATTGTAGTT
AATTTCATTTGAAATGAAATAAGTAATAGTGTTTGAAGAAACATTGAAAGAATGTGAGGATCCAT
GACATGACATGAGATTGAAAAGTGACTCATCCCATGAAATAATTTACTCTATAATCTAATATTGA
AATATCAAGTATTTCATTGTTAAAAATATAACTTTAAAAAAAATTTATACTGAAATAAATTTGAC
AAAATAGTTTCTATCATATCTAAAAATTCTGATTAAGTTTATTTTATGAATAGAGTGGCATCAAT
TTAGTTGTCAAAGGTGAAAGACCATAGCAGCCAACCCTTCCTTGAATCTTACCAACATATTATTG
ATAAAAAATATATGTTTAGAAAAGAAATAGTTCTCTTGAATCTTATCAACATATTGAAAAATATA
TTTAGATAAAAAATT
Found at i:2512360 original size:2 final size:2
Alignment explanation
Indices: 2512353--2512377 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2512343 GGTTTTCATA
2512353 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2512378 CTAGTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2514116 original size:18 final size:20
Alignment explanation
Indices: 2514082--2514129 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
2514072 TTCTACTTTT
2514082 TTTTTTGTTTCTGCAG-AA-C
1 TTTTTT-TTTCTGCAGAAAGC
2514101 TTTTTTTTTC-GACAGAAAGC
1 TTTTTTTTTCTG-CAGAAAGC
2514121 TTTTTTTTT
1 TTTTTTTTT
2514130 TGTAAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 7 0.27
19 8 0.31
20 10 0.38
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.58
Consensus pattern (20 bp):
TTTTTTTTTCTGCAGAAAGC
Found at i:2514240 original size:23 final size:24
Alignment explanation
Indices: 2514201--2514247 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2514191 GCTTTATTTA
*
2514201 TAGAGTTTTTTGAGATTCAAATCC
1 TAGAGCTTTTTGAGATTCAAATCC
*
2514225 TAGAGCTTTTTG-GATTCGAATCC
1 TAGAGCTTTTTGAGATTCAAATCC
2514248 CATTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (24 bp):
TAGAGCTTTTTGAGATTCAAATCC
Found at i:2514403 original size:19 final size:19
Alignment explanation
Indices: 2514379--2514418 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
2514369 TGAACCGGAT
2514379 AAGAAAGAAG-AAGAAAGAA
1 AAGAAAGAAGAAAGAAA-AA
2514398 AAGAAAGAAGAAAGAAAAA
1 AAGAAAGAAGAAAGAAAAA
2514417 AA
1 AA
2514419 ATATTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAGAAAAA
Found at i:2514407 original size:16 final size:15
Alignment explanation
Indices: 2514382--2514415 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
2514372 ACCGGATAAG
2514382 AAAGAAGAAGAAAGA
1 AAAGAAGAAGAAAGA
2514397 AAAGAAAGAAGAAAGA
1 AAAG-AAGAAGAAAGA
2514413 AAA
1 AAA
2514416 AAAATATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAAGA
Found at i:2514741 original size:49 final size:51
Alignment explanation
Indices: 2514688--2514800 Score: 167
Period size: 51 Copynumber: 2.3 Consensus size: 51
2514678 CTCAGTAGAG
* *
2514688 GCTCAACAACTTTAAAATTC-TT-ATCTTGTAAAAGCTCCTTTCAGCAAAA
1 GCTCAACAACTTTAAAAATCTTTCATCTTGGAAAAGCTCCTTTCAGCAAAA
* *
2514737 GCTCAACAACTTTAAAAATCTTTCATCTTGGAAAAGCTCCTTTCAGCAGAG
1 GCTCAACAACTTTAAAAATCTTTCATCTTGGAAAAGCTCCTTTCAGCAAAA
*
2514788 GCTCAATAACTTT
1 GCTCAACAACTTT
2514801 GTTCGGGTGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 19 0.33
50 2 0.04
51 36 0.63
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (51 bp):
GCTCAACAACTTTAAAAATCTTTCATCTTGGAAAAGCTCCTTTCAGCAAAA
Found at i:2518848 original size:15 final size:14
Alignment explanation
Indices: 2518815--2518847 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2518805 GGTAGGCCCA
*
2518815 TTTTAATTTTTATT
1 TTTTTATTTTTATT
2518829 TTTTTATTTTTATT
1 TTTTTATTTTTATT
2518843 TTTTT
1 TTTTT
2518848 TCTAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:2518863 original size:3 final size:3
Alignment explanation
Indices: 2518857--2518993 Score: 75
Period size: 3 Copynumber: 42.7 Consensus size: 3
2518847 TTCTAAATTT
* * *
2518857 TTA TTA TTTA TTA TTA CTA TTA TTA TTTA TTA ATA -TA CATA TATA TTTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA T-TA -TTA
**
2518906 TTTA TCTA TTA ACA TATA TTA TTA -TA TATA TT- TTA TTA TTA TTA TTTA
1 -TTA T-TA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA
*
2518954 TCTA TTA TTA TTA TTA TTTA TCTA TTA -TA TTA TTT TTA TT
1 T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TT
2518994 TTTTCTTTTT
Statistics
Matches: 108, Mismatches: 10, Indels: 32
0.72 0.07 0.21
Matches are distributed among these distances:
2 8 0.07
3 63 0.58
4 36 0.33
5 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2518916 original size:44 final size:42
Alignment explanation
Indices: 2518857--2518994 Score: 129
Period size: 42 Copynumber: 3.2 Consensus size: 42
2518847 TTCTAAATTT
2518857 TTATTATTTAT-TATTACTATTATTATTTAT-TAATATACATA
1 TTATTATTTATCTATTACTATTATTATTTATATAATATA-ATA
* * *
2518898 TATATTTATTTATCTATTAAC-ATATATTATTATATATATTTTATTA
1 T-TA-TTATTTATCTATT-ACTAT-TATTATT-TATATAATATAATA
* * * *
2518944 TTATTATTTATCTATTATTATTATTATTTATCTATTATATTA
1 TTATTATTTATCTATTACTATTATTATTTATATAATATAATA
*
2518986 TTTTTATTT
1 TTATTATTT
2518995 TTTCTTTTTC
Statistics
Matches: 82, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 22 0.27
43 16 0.20
44 21 0.26
45 11 0.13
46 6 0.07
47 5 0.06
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (42 bp):
TTATTATTTATCTATTACTATTATTATTTATATAATATAATA
Found at i:2518941 original size:14 final size:13
Alignment explanation
Indices: 2518919--2518993 Score: 52
Period size: 14 Copynumber: 5.8 Consensus size: 13
2518909 ATCTATTAAC
*
2518919 ATATATTATTATAT
1 ATATTTTATTAT-T
2518933 ATATTTTATTATT
1 ATATTTTATTATT
2518946 AT-TATTTATCTATT
1 ATAT-TTTAT-TATT
*
2518960 AT-TATTATTATT
1 ATATTTTATTATT
2518972 -TATCTATTA-TATT
1 ATAT-T-TTATTATT
2518985 AT-TTTTATT
1 ATATTTTATT
2518994 TTTTCTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
11 4 0.08
12 8 0.16
13 17 0.33
14 22 0.43
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
ATATTTTATTATT
Found at i:2518942 original size:17 final size:15
Alignment explanation
Indices: 2518922--2518993 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 15
2518912 TATTAACATA
2518922 TATTATTATATATATTT
1 TATTATTAT-TAT-TTT
2518939 TATTATTATTATTTAT
1 TATTATTATTATTT-T
2518955 CTATTATTATTATTATT
1 -TATTATTATTATT-TT
2518972 TATCTATTATATTATTTT
1 TAT-TA-T-TATTATTTT
2518990 TATT
1 TATT
2518994 TTTTCTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.04
16 7 0.14
17 26 0.53
18 7 0.14
19 7 0.14
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTATTATTATTTT
Found at i:2518945 original size:20 final size:20
Alignment explanation
Indices: 2518922--2518992 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
2518912 TATTAACATA
*
2518922 TATTATTATATATATTTTAT
1 TATTATTATATCTATTTTAT
2518942 TATTATTATTTATCTATTATTAT
1 TATTATTA--TATCTATT-TTAT
*
2518965 TATTATT-TATCTATTATAT
1 TATTATTATATCTATTTTAT
*
2518984 TATTTTTAT
1 TATTATTAT
2518993 TTTTTCTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
19 9 0.20
20 17 0.39
22 7 0.16
23 11 0.25
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATTATATCTATTTTAT
Found at i:2519756 original size:17 final size:17
Alignment explanation
Indices: 2519730--2519857 Score: 68
Period size: 17 Copynumber: 7.3 Consensus size: 17
2519720 TCCAAGGTTT
2519730 TTTTTCATTTATTTTTTA
1 TTTTT-ATTTATTTTTTA
*
2519748 TTTTTATTTATTTATTA
1 TTTTTATTTATTTTTTA
* *
2519765 TTATTA-TTATTATTTA
1 TTTTTATTTATTTTTTA
* * **
2519781 TTAGATTAGAATTATTTAATA
1 TT---TT-TATTTATTTTTTA
*
2519802 TTTCTTATTT-TATTTTA
1 TTT-TTATTTATTTTTTA
2519819 -TTTTACTTT-TTATTTTA
1 TTTTTA-TTTATT-TTTTA
2519836 TTTTTATTT-TATTTTTA
1 TTTTTATTTAT-TTTTTA
2519853 TTTTT
1 TTTTT
2519858 TGATTTTCTT
Statistics
Matches: 85, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
15 3 0.04
16 16 0.19
17 39 0.46
18 15 0.18
19 2 0.02
20 1 0.01
21 9 0.11
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTATTTATTTTTTA
Found at i:2519777 original size:23 final size:21
Alignment explanation
Indices: 2519736--2519782 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
2519726 GTTTTTTTTC
*
2519736 ATTTATTTTTTATTTTTATTT
1 ATTTATTTTTTATTATTATTT
2519757 ATTTATTATTATTATTATTATTT
1 ATTTATT-TT-TTATTATTATTT
2519780 ATT
1 ATT
2519783 AGATTAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
22 2 0.09
23 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (21 bp):
ATTTATTTTTTATTATTATTT
Found at i:2519816 original size:5 final size:5
Alignment explanation
Indices: 2519806--2519856 Score: 66
Period size: 5 Copynumber: 9.4 Consensus size: 5
2519796 TTAATATTTC
2519806 TTATT TTATT TTATT TTACTTT TTATT TTATTT TTATT TTATTT TTATT
1 TTATT TTATT TTATT TTA--TT TTATT TTA-TT TTATT TTA-TT TTATT
2519855 TT
1 TT
2519857 TTGATTTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
5 27 0.64
6 10 0.24
7 5 0.12
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:2519833 original size:22 final size:22
Alignment explanation
Indices: 2519800--2519856 Score: 89
Period size: 22 Copynumber: 2.5 Consensus size: 22
2519790 AATTATTTAA
2519800 TATTTCTTATTTTA-TTTTATTT
1 TATTT-TTATTTTATTTTTATTT
2519822 TACTTTTTATTTTATTTTTATTT
1 TA-TTTTTATTTTATTTTTATTT
2519845 TATTTTTATTTT
1 TATTTTTATTTT
2519857 TTGATTTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (22 bp):
TATTTTTATTTTATTTTTATTT
Found at i:2523198 original size:15 final size:15
Alignment explanation
Indices: 2523178--2523209 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2523168 TTTGCATACA
*
2523178 TGCATTTTCATTCAT
1 TGCATTTTCACTCAT
2523193 TGCATTTTCACTCAT
1 TGCATTTTCACTCAT
2523208 TG
1 TG
2523210 TACTTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.09, T:0.50
Consensus pattern (15 bp):
TGCATTTTCACTCAT
Found at i:2530442 original size:7 final size:7
Alignment explanation
Indices: 2530432--2530498 Score: 68
Period size: 7 Copynumber: 9.7 Consensus size: 7
2530422 AAAAAAAAGA
2530432 GAAAAAT
1 GAAAAAT
2530439 G--AAAT
1 GAAAAAT
2530444 GAAAAAAAT
1 G-AA-AAAT
2530453 GAAAAAT
1 GAAAAAT
*
2530460 AAAAAAT
1 GAAAAAT
2530467 GAAAAAT
1 GAAAAAT
*
2530474 AAAAAAT
1 GAAAAAT
*
2530481 AAAAAAT
1 GAAAAAT
2530488 -AAAAAT
1 GAAAAAT
2530494 GAAAA
1 GAAAA
2530499 GAAAAAGGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
5 5 0.10
6 6 0.12
7 34 0.65
8 2 0.04
9 5 0.10
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (7 bp):
GAAAAAT
Found at i:2530450 original size:14 final size:13
Alignment explanation
Indices: 2530433--2530504 Score: 83
Period size: 14 Copynumber: 5.2 Consensus size: 13
2530423 AAAAAAAGAG
*
2530433 AAAAATGAAATGAA
1 AAAAATGAAA-AAA
2530447 AAAAATGAAAAATA
1 AAAAATGAAAAA-A
2530461 AAAAATGAAAAATA
1 AAAAATGAAAAA-A
2530475 AAAAAT-AAAAAA
1 AAAAATGAAAAAA
2530487 TAAAAATGAAAAGAA
1 -AAAAATGAAAA-AA
2530502 AAA
1 AAA
2530505 GGAACAGGGA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
12 1 0.02
13 12 0.23
14 38 0.72
15 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AAAAATGAAAAAA
Found at i:2530471 original size:21 final size:20
Alignment explanation
Indices: 2530447--2530498 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 20
2530437 ATGAAATGAA
2530447 AAAAATGAAAAATAAAAAAT
1 AAAAATGAAAAATAAAAAAT
*
2530467 GAAAAATAAAAAATAAAAAAT
1 -AAAAATGAAAAATAAAAAAT
2530488 AAAAATGAAAA
1 AAAAATGAAAA
2530499 GAAAAAGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (20 bp):
AAAAATGAAAAATAAAAAAT
Found at i:2531617 original size:43 final size:42
Alignment explanation
Indices: 2531540--2531728 Score: 150
Period size: 43 Copynumber: 4.2 Consensus size: 42
2531530 TTAATCGTCA
*
2531540 AGGAGC-ATTTA-TTTTCAAAGTCATGGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTTCAAAGCCATGGTTGCCTCTGTTTAG
*
2531580 AGGAGCAATTTATTTTTCTAAAGCCATGGTTGTCTCTGTTTAG
1 AGGAGCAATTTATTTTTC-AAAGCCATGGTTGCCTCTGTTTAG
* *
2531623 AGGAGCAATGTATTATTTTATTTTATTTTCAAAGTCATGG-TACCTCTGTTTAG
1 AGGAGC-----A--A-TTTA---T-TTTTCAAAGCCATGGTTGCCTCTGTTTAG
* * *
2531676 AGGAACAATTTATTTTTCAACAGTCATGGTTGCCTCCGTTTAG
1 AGGAGCAATTTATTTTTCAA-AGCCATGGTTGCCTCTGTTTAG
* *
2531719 AAGAGAAATT
1 AGGAGCAATT
2531729 CATTGTTCCC
Statistics
Matches: 121, Mismatches: 11, Indels: 31
0.74 0.07 0.19
Matches are distributed among these distances:
40 6 0.05
41 12 0.10
42 14 0.12
43 46 0.38
45 4 0.03
46 1 0.01
48 2 0.02
50 1 0.01
51 4 0.03
53 16 0.13
54 10 0.08
55 5 0.04
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (42 bp):
AGGAGCAATTTATTTTTCAAAGCCATGGTTGCCTCTGTTTAG
Found at i:2531877 original size:42 final size:40
Alignment explanation
Indices: 2531738--2531978 Score: 194
Period size: 41 Copynumber: 5.8 Consensus size: 40
2531728 TCATTGTTCC
* * * **
2531738 CAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTATTTT
1 CAAAATCGTTGAGCCTCTGATTAGAGGAGC--AATTTATTTT
* * * * *
2531780 CCAAAGTCGTTGACCCTCTGATAAGAGAAGCCATTTATCTTT
1 -CAAAATCGTTGAGCCTCTGATTAGAGGAGCAATTTAT-TTT
*
2531822 CAAAATCGTTGAGCCTTTGATTAGAGGAGCAATTTACTTTT
1 CAAAATCGTTGAGCCTCTGATTAGAGGAGCAATTTA-TTTT
* * *
2531863 CAAAAATCGTTGAGCCTCTAATTAGAAGAGCTATTTATTTT
1 C-AAAATCGTTGAGCCTCTGATTAGAGGAGCAATTTATTTT
* * **
2531904 CAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGTTTTT
1 CAAAATCGTTGAGCCTCTGATTAGAGGAGC--AATTTA---TTTT
* * *
2531949 CAAAGTCGTTGAGCTTCTGCTTAGAGGAGC
1 CAAAATCGTTGAGCCTCTGATTAGAGGAGC
2531979 TTTAATCAAA
Statistics
Matches: 165, Mismatches: 25, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
40 25 0.15
41 44 0.27
42 40 0.24
43 25 0.15
45 31 0.19
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (40 bp):
CAAAATCGTTGAGCCTCTGATTAGAGGAGCAATTTATTTT
Found at i:2531927 original size:82 final size:83
Alignment explanation
Indices: 2531738--2531934 Score: 229
Period size: 82 Copynumber: 2.4 Consensus size: 83
2531728 TCATTGTTCC
* * ** * * *
2531738 CAAAGTCGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTATTTTCCAAAGTCGTTGACCCTCTGATA
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGC-TAATTTATTTTCAAAAATCGTTGACCCTCTAATA
2531803 AGAGAAGCCATTTATCTTT
65 AGAGAAGCCATTTATCTTT
* * * *
2531822 CAAAATCGTTGAGCCTTTGATTAGAGGAGC-AATTTACTTTTCAAAAATCGTTGAGCCTCTAATT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTAATTTA-TTTTCAAAAATCGTTGACCCTCTAATA
*
2531886 AGA-AGAGCTATTTAT-TTT
65 AGAGA-AGCCATTTATCTTT
*
2531904 CAAAGTTGTTGAGCCTCTGATTAGAGGAGCT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCT
2531935 TTGTTTATGT
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
82 35 0.37
83 34 0.36
84 26 0.27
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (83 bp):
CAAAGTCGTTGAGCCTCTGATTAGAGGAGCTAATTTATTTTCAAAAATCGTTGACCCTCTAATAA
GAGAAGCCATTTATCTTT
Found at i:2532186 original size:3 final size:3
Alignment explanation
Indices: 2532166--2532459 Score: 123
Period size: 3 Copynumber: 91.7 Consensus size: 3
2532156 AGGCCCATTT
* * * * * * *
2532166 TTA TTT TTA TTA TT- TTA TTA TTT TTA TTT TTA TTT TTT TTC TAAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * *
2532211 TTT TTA TTA TTTA TTA TTA GTA TTA TTA TTTA TTA ATA -TA CATA TATA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA T-TA
**
2532259 TTTA TTTA TCTA TTA ACA TATA TTA TTA TATA TT- TTA TTA TTTA TCTA
1 -TTA -TTA T-TA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA -TTA T-TA
* *
2532307 TTA TTA TTA TTA TTA TTTA TTA TTA CTA TTA TTA TTTA TTA ATA -TA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* ** *
2532353 CATA TATA TTTA TTTA TCTA TTA ACA TATA TTA TTA TATA TT- TTT TTA
1 -TTA T-TA -TTA -TTA T-TA TTA TTA T-TA TTA TTA T-TA TTA TTA TTA
* *
2532401 TTA TTTA TCTA TTA TTA TTA TTA TTTA TCTA TTA -TA TTA TTT TTA TTT
1 TTA -TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA
*
2532449 TTA TTT TTA TT
1 TTA TTA TTA TT
2532460 TTTTTTCTTC
Statistics
Matches: 226, Mismatches: 36, Indels: 58
0.71 0.11 0.18
Matches are distributed among these distances:
2 12 0.05
3 145 0.64
4 67 0.30
5 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2532192 original size:23 final size:23
Alignment explanation
Indices: 2532162--2532244 Score: 87
Period size: 23 Copynumber: 3.4 Consensus size: 23
2532152 GGGTAGGCCC
2532162 ATTTTTATTTTTATTATTTTATT
1 ATTTTTATTTTTATTATTTTATT
*
2532185 ATTTTTATTTTTATT-TTTTTTCT
1 ATTTTTATTTTTATTATTTTAT-T
*
2532208 AAATTTTTATTATTTATTATTAGTATT
1 --ATTTTTATT-TTTATTATT-TTATT
2532235 ATTATTTATT
1 ATT-TTTATT
2532245 AATATACATA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
22 5 0.10
23 16 0.32
25 12 0.24
26 12 0.24
27 3 0.06
28 2 0.04
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (23 bp):
ATTTTTATTTTTATTATTTTATT
Found at i:2532315 original size:32 final size:32
Alignment explanation
Indices: 2532164--2532424 Score: 143
Period size: 29 Copynumber: 7.9 Consensus size: 32
2532154 GTAGGCCCAT
*
2532164 TTTTATT-TTTAT-TATT-TTATTATT-TTTA
1 TTTTATTATTTATCTATTATTATTATTATATA
* * * *
2532192 TTTTTATTTTTTTTCTA-AATTTTTATTAT-T-
1 -TTTTATTATTTATCTATTATTATTATTATATA
* * * *
2532222 TATTATTA-GTAT-TATTATTTATTAATATACA
1 TTTTATTATTTATCTATTA-TTATTATTATATA
*
2532253 TATATATTTATTTATCTATTAACATATATTATTATATA
1 T-TTTA-TTATTTATCTATT---AT-TATTATTATATA
2532291 TTTTATTATTTATCTATTATTATTATTAT-TA
1 TTTTATTATTTATCTATTATTATTATTATATA
2532322 -TTTATTA-TTA-CTATTATTATTTATTAATATACA
1 TTTTATTATTTATCTATTATTA-TTATT-ATAT--A
*
2532355 TATATATTTATTTATCTATTAACATATATTATTATATA
1 T-TTTA-TTATTTATCTATT---AT-TATTATTATATA
2532393 TTTTTTTATTATTTATCTATTATTATTATTAT
1 ---TTTTATTATTTATCTATTATTATTATTAT
2532425 TTATCTATTA
Statistics
Matches: 180, Mismatches: 19, Indels: 60
0.69 0.07 0.23
Matches are distributed among these distances:
27 2 0.01
28 12 0.07
29 29 0.16
30 13 0.07
31 14 0.08
32 12 0.07
33 6 0.03
34 3 0.02
35 16 0.09
36 18 0.10
37 7 0.04
38 18 0.10
39 13 0.07
40 7 0.04
41 8 0.04
42 2 0.01
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (32 bp):
TTTTATTATTTATCTATTATTATTATTATATA
Found at i:2532345 original size:102 final size:101
Alignment explanation
Indices: 2532214--2532447 Score: 400
Period size: 102 Copynumber: 2.3 Consensus size: 101
2532204 TTCTAAATTT
2532214 TTATTATTTATTATTAGTATTATTATTTATTAATATACATATATATTTATTTATCTATTAACATA
1 TTATTATTTATTATTA-TATTATTATTTATTAATATACATATATATTTATTTATCTATTAACATA
2532279 TATTATTATATATTTTATTATTTATCTAT-TATTATTA
65 TATTATTATATATTTTATTA-TTATCTATCTATTATTA
2532316 TTATTATTTATTATTACTATTATTATTTATTAATATACATATATATTTATTTATCTATTAACATA
1 TTATTATTTATTATTA-TATTATTATTTATTAATATACATATATATTTATTTATCTATTAACATA
* *
2532381 TATTATTATATATTTTTTTATTATTTATCTATTATTA
65 TATTATTATATATTTTATTATTATCTATCTATTATTA
2532418 TTATTATTTATCTATTATATTATT-TTTATT
1 TTATTATTTAT-TATTATATTATTATTTATT
2532448 TTTATTTTTA
Statistics
Matches: 127, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
101 13 0.10
102 109 0.86
103 5 0.04
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (101 bp):
TTATTATTTATTATTATATTATTATTTATTAATATACATATATATTTATTTATCTATTAACATAT
ATTATTATATATTTTATTATTATCTATCTATTATTA
Found at i:2532381 original size:20 final size:21
Alignment explanation
Indices: 2532215--2532446 Score: 151
Period size: 19 Copynumber: 11.5 Consensus size: 21
2532205 TCTAAATTTT
*
2532215 TATTATTTAT-TATTAGTAT-
1 TATTATTTATCTATTATTATA
*
2532234 TATTATTTAT-TAATATACATATA
1 TATTATTTATCT-AT-TA-TTATA
**
2532257 TATTTATTTATCTATTAACATA
1 TA-TTATTTATCTATTATTATA
2532279 TATTA-TTA--TA-TATT-T-
1 TATTATTTATCTATTATTATA
2532294 TATTATTTATCTATTATTAT-
1 TATTATTTATCTATTATTATA
*
2532314 TATTA-TTATTTATTATTACTA
1 TATTATTTATCTATTATTA-TA
*
2532335 TTATTATTTAT-TAATATACATATA
1 -TATTATTTATCT-AT-TA-TTATA
**
2532359 TATTTATTTATCTATTAACATA
1 TA-TTATTTATCTATTATTATA
* *
2532381 TATTA-TTATATATT-TT-TT
1 TATTATTTATCTATTATTATA
2532399 TATTATTTATCTATTATTAT-
1 TATTATTTATCTATTATTATA
2532419 TATTATTTATCTATTA-TAT-
1 TATTATTTATCTATTATTATA
2532438 TATT-TTTAT
1 TATTATTTAT
2532447 TTTTATTTTT
Statistics
Matches: 178, Mismatches: 12, Indels: 47
0.75 0.05 0.20
Matches are distributed among these distances:
15 5 0.03
16 4 0.02
17 2 0.01
18 15 0.08
19 42 0.24
20 38 0.21
21 9 0.05
22 21 0.12
23 14 0.08
24 24 0.13
25 4 0.02
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTATTTATCTATTATTATA
Found at i:2532463 original size:20 final size:21
Alignment explanation
Indices: 2532391--2532474 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
2532381 TATTATTATA
*
2532391 TATT-TTTTTATTATTTATCTAT
1 TATTATTTTTATT-TTTAT-TTT
* *
2532413 TATTATTATTATTTATCTA-TTA
1 TATTATTTTTATTT-T-TATTTT
2532435 TATTATTTTTATTTTTATTTT
1 TATTATTTTTATTTTTATTTT
* * *
2532456 TATTTTTTTTCTTCTTATT
1 TATTATTTTTATTTTTATT
2532475 CAGCTGGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 2 0.04
21 19 0.38
22 19 0.38
23 8 0.16
24 2 0.04
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (21 bp):
TATTATTTTTATTTTTATTTT
Found at i:2533212 original size:4 final size:4
Alignment explanation
Indices: 2533191--2533237 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
2533181 GTTTTTTTTC
* *
2533191 ATTT A-TT ATTT GTTT ATTT ATTT ATTT ATTT ATTT TTATT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATT
2533238 GATTAGATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 3 0.08
4 31 0.84
5 3 0.08
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:2533275 original size:5 final size:5
Alignment explanation
Indices: 2533265--2533307 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
2533255 TTAATATTTC
*
2533265 TTATT TTATT TTATTT TTCTT TTATT TTATT TT-TT TTAATT TT
1 TTATT TTATT TTA-TT TTATT TTATT TTATT TTATT TT-ATT TT
2533308 CTTTGAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
4 4 0.12
5 21 0.64
6 8 0.24
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:2533287 original size:11 final size:11
Alignment explanation
Indices: 2533259--2533307 Score: 50
Period size: 10 Copynumber: 4.5 Consensus size: 11
2533249 AATTATTTAA
2533259 TATTTCTTATTT
1 TATTT-TTATTT
2533271 TA-TTTTATTT
1 TATTTTTATTT
2533281 T-TCTTTTATTT
1 TAT-TTTTATTT
2533292 TATTTTT-TTT
1 TATTTTTATTT
*
2533302 AATTTT
1 TATTTT
2533308 CTTTGAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 15 0.45
11 15 0.45
12 3 0.09
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:2533289 original size:16 final size:15
Alignment explanation
Indices: 2533268--2533307 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
2533258 ATATTTCTTA
2533268 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
2533283 CTTTTATTTTATTTTT
1 -TTTTATTTTATTTTT
*
2533299 TTTAATTTT
1 TTTTATTTT
2533308 CTTTGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTTTT
Found at i:2533366 original size:28 final size:28
Alignment explanation
Indices: 2533335--2533422 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 28
2533325 TCTCAAAATA
2533335 TTTTTGAAGAAAAGTTAAAAATATCAAT
1 TTTTTGAAGAAAAGTTAAAAATATCAAT
*
2533363 TTTTTTAA-AATAAGTTTTCAAAAA-A--AAT
1 TTTTTGAAGAA-AAG--TT-AAAAATATCAAT
** *
2533391 ATTTTTGGGGAAAAGTTGAAAATATCAAT
1 -TTTTTGAAGAAAAGTTAAAAATATCAAT
2533420 TTT
1 TTT
2533423 CCTTGAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
26 4 0.09
27 5 0.11
28 16 0.35
29 11 0.24
30 5 0.11
31 5 0.11
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.40
Consensus pattern (28 bp):
TTTTTGAAGAAAAGTTAAAAATATCAAT
Found at i:2533472 original size:64 final size:59
Alignment explanation
Indices: 2533329--2533609 Score: 313
Period size: 60 Copynumber: 4.7 Consensus size: 59
2533319 GTTTTTTCTC
* *
2533329 AAAATATTTTTGAAGAAAAGTTAAAAATATCAATTTTT-TT-AAAATAAGTTTTCAAAA
1 AAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTCAAAA
* *
2533386 AAAATATTTTTGGGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAGTTTTCAAAAA
1 AAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTC-AAAA
* * * *
2533446 TATATATATATTTTTTAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAGTTTTCAAAA
1 -A-A-A-ATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTCAAAA
* * * **
2533509 AAAGATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAG-TTTC-AGG
1 AAA-ATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAAT-AAGTTTTCAAAA
*
2533568 AAAATATTTTCT-AAGAAAAGTT-AAAAGTATCAATTTTTCTTG
1 AAAATATTTT-TGAGGAAAAGTTGAAAA-TATCAATTTTTCTTG
2533610 TACAAAAGCA
Statistics
Matches: 193, Mismatches: 21, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
57 37 0.19
58 33 0.17
59 17 0.09
60 48 0.25
61 5 0.03
62 2 0.01
63 5 0.03
64 46 0.24
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (59 bp):
AAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTGAAAATAAGTTTTCAAAA
Found at i:2533541 original size:124 final size:122
Alignment explanation
Indices: 2533332--2533563 Score: 340
Period size: 124 Copynumber: 1.9 Consensus size: 122
2533322 TTTTCTCAAA
*
2533332 ATATTTTTGAAGAAAAGTTAAAAATATCAATTTTTTTAAAATAAGTTTTCAAAAAAAATATTTTT
1 ATATTTTTGAAGAAAAGTTAAAAATATCAATTTTTTTAAAATAAGTTTTCAAAAAAAATATTTTC
*
2533397 GGGGAAAAGTTGAAAATATCAATTTTCCTTGAAAAT-AAGTTTTCAAAAATATATAT
66 GAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAAGTTTTCAAAAATATATAT
* * * * *
2533453 ATATTTTTTAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAGTTTTCAAAAAAAGATATT
1 ATATTTTTGAAGAAAAGTTAAAAATATCAATTTTT-TT-AAAATAAGTTTTCAAAAAAA-ATATT
* * *
2533518 TTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAGTTT
63 TTCGAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAAGTTT
2533564 CAGGAAAATA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
121 30 0.31
122 2 0.02
123 20 0.21
124 39 0.40
125 6 0.06
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (122 bp):
ATATTTTTGAAGAAAAGTTAAAAATATCAATTTTTTTAAAATAAGTTTTCAAAAAAAATATTTTC
GAGGAAAAGTTGAAAATATCAATTTTCCTTGAAAATAAAGTTTTCAAAAATATATAT
Found at i:2536844 original size:17 final size:17
Alignment explanation
Indices: 2536822--2536864 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2536812 AAGAACTATT
*
2536822 TTTTTTAATCA-TATATA
1 TTTTTTAATCAGTA-AGA
*
2536839 TTTTTTTATCAGTAAGA
1 TTTTTTAATCAGTAAGA
2536856 TTTTTTAAT
1 TTTTTTAAT
2536865 ACATTGGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (17 bp):
TTTTTTAATCAGTAAGA
Found at i:2537160 original size:62 final size:61
Alignment explanation
Indices: 2537045--2537161 Score: 137
Period size: 61 Copynumber: 1.9 Consensus size: 61
2537035 GTTTACAGTT
* * * * * **
2537045 TTCTGATATGTTGTTAAGGTTTTATTTTTACTTCTAAAATTATTTTTTTAATTTTAAAACC
1 TTCTAATATGATGGTAAGATTTTATTTTTACTTCAAAAATTATTTTTCAAATTTTAAAACC
*
2537106 TTCTAATATGATGGTAAGATTTTACTTTTTATTTTCAAAAATTA-TTTTCAAATTTT
1 TTCTAATATGATGGTAAGATTTTA-TTTTTA-CTTCAAAAATTATTTTTCAAATTTT
2537162 TTTATTTTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
61 20 0.43
62 16 0.35
63 10 0.22
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (61 bp):
TTCTAATATGATGGTAAGATTTTATTTTTACTTCAAAAATTATTTTTCAAATTTTAAAACC
Found at i:2537569 original size:66 final size:66
Alignment explanation
Indices: 2537471--2537627 Score: 170
Period size: 66 Copynumber: 2.4 Consensus size: 66
2537461 AATCAAAGTC
* * *
2537471 TGAAAATGAGATGACTTAGACAAAGCCAAAGTCTAAAAATAAGAAAACTTGCACTCAACCAAACT
1 TGAAAATGAAATGACTTGGACTAAGCCAAAGTCTAAAAATAAGAAAACTTGCACTCAACCAAACT
2537536 T
66 T
* * * * * ** ** * * *
2537537 TGAAAATGAAATGACTTGGACTGAGTCTAAGTCTAATAGTAAGATGACTTGGTCTGAGCCAAAGT
1 TGAAAATGAAATGACTTGGACTAAGCCAAAGTCTAAAAATAAGAAAACTTGCACTCAACCAAACT
2537602 T
66 T
*
2537603 TGAAAATGAAATAACTTGGACTAAG
1 TGAAAATGAAATGACTTGGACTAAG
2537628 TGAAGGTCAA
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (66 bp):
TGAAAATGAAATGACTTGGACTAAGCCAAAGTCTAAAAATAAGAAAACTTGCACTCAACCAAACT
T
Found at i:2537620 original size:33 final size:33
Alignment explanation
Indices: 2537464--2537624 Score: 105
Period size: 33 Copynumber: 4.9 Consensus size: 33
2537454 AAGACTTAAT
* * * **
2537464 CAAAGTCTGAAAATGAGATGACTTAGACAAAGC
1 CAAAGTTTGAAAATGAAATGACTTGGACTGAGC
* * * * *
2537497 CAAAGTCTAAAAATAAGAAA--ACTTGCACTCAAC
1 CAAAGTTTGAAAAT--GAAATGACTTGGACTGAGC
* *
2537530 CAAACTTTGAAAATGAAATGACTTGGACTGAGT
1 CAAAGTTTGAAAATGAAATGACTTGGACTGAGC
* * * *
2537563 CTAAGTCT-AATA-GTAAGATGACTTGGTCTGAGC
1 CAAAGTTTGAAAATG-AA-ATGACTTGGACTGAGC
*
2537596 CAAAGTTTGAAAATGAAATAACTTGGACT
1 CAAAGTTTGAAAATGAAATGACTTGGACT
2537625 AAGTGAAGGT
Statistics
Matches: 95, Mismatches: 25, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
31 5 0.05
32 5 0.05
33 76 0.80
34 5 0.05
35 4 0.04
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (33 bp):
CAAAGTTTGAAAATGAAATGACTTGGACTGAGC
Found at i:2541333 original size:29 final size:29
Alignment explanation
Indices: 2541228--2541333 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 29
2541218 TATTAAATCA
* * * *
2541228 TATTTGAATATAAATTAAAAGATAAAATTTT
1 TATTTAAATA-AAATAAAAATATAAAA-ATT
* *
2541259 TATTTGAATATAAAATAAATAT-TAAAAACT
1 TATTT-AA-ATAAAATAAAAATATAAAAATT
**
2541289 TATTTAAATACGATAAAAATATAAAAATT
1 TATTTAAATAAAATAAAAATATAAAAATT
2541318 TATTTAAATAAAATAA
1 TATTTAAATAAAATAA
2541334 TAAAATTTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
28 10 0.17
29 23 0.38
30 6 0.10
31 10 0.17
32 8 0.13
33 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (29 bp):
TATTTAAATAAAATAAAAATATAAAAATT
Found at i:2541859 original size:17 final size:17
Alignment explanation
Indices: 2541837--2541869 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2541827 TGCTCCTACG
*
2541837 TGCTTATGACATTATCA
1 TGCTTACGACATTATCA
2541854 TGCTTACGACATTATC
1 TGCTTACGACATTATC
2541870 TCGATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (17 bp):
TGCTTACGACATTATCA
Found at i:2545004 original size:21 final size:21
Alignment explanation
Indices: 2544978--2545020 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2544968 CTAAAGACAC
2544978 AATGTGTGCTTGTATTAAGCA
1 AATGTGTGCTTGTATTAAGCA
2544999 AATGTGTGCTTGTATTAAGCA
1 AATGTGTGCTTGTATTAAGCA
2545020 A
1 A
2545021 GTGTAAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.37
Consensus pattern (21 bp):
AATGTGTGCTTGTATTAAGCA
Found at i:2545603 original size:24 final size:25
Alignment explanation
Indices: 2545576--2545624 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2545566 ATAGAAAGAA
2545576 TAGCTGCCAT-GATATGTCAATCCT
1 TAGCTGCCATAGATATGTCAATCCT
2545600 TAGCTGCCATAGATATGTCAATCCT
1 TAGCTGCCATAGATATGTCAATCCT
2545625 CTACCTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (25 bp):
TAGCTGCCATAGATATGTCAATCCT
Found at i:2545983 original size:30 final size:30
Alignment explanation
Indices: 2545949--2546013 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
2545939 CTTCAATGAT
*
2545949 TTTTGCCACTGTATTTTCAATTTAGTTGAA
1 TTTTGCCACTGTACTTTCAATTTAGTTGAA
** * *
2545979 TTTTGCCTTTGTACTTTCAATTTTGTTGAT
1 TTTTGCCACTGTACTTTCAATTTAGTTGAA
2546009 TTTTG
1 TTTTG
2546014 GTCATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.12, G:0.14, T:0.57
Consensus pattern (30 bp):
TTTTGCCACTGTACTTTCAATTTAGTTGAA
Found at i:2547870 original size:13 final size:13
Alignment explanation
Indices: 2547852--2547883 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2547842 AAAGTGTTTT
2547852 TAGAAAATAAAAA
1 TAGAAAATAAAAA
2547865 TAGAAAATAAAAA
1 TAGAAAATAAAAA
*
2547878 TGGAAA
1 TAGAAA
2547884 TGGATTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
TAGAAAATAAAAA
Found at i:2551569 original size:33 final size:34
Alignment explanation
Indices: 2551457--2551580 Score: 155
Period size: 34 Copynumber: 3.7 Consensus size: 34
2551447 ACAAATTTTT
2551457 AAAAATAAATTTTCAAAAAATTAT-AAACCTTTTC
1 AAAAATAAATTTTCAAAAAATTATAAAACC-TTTC
* * * *
2551491 AAAAATAATTTTTTAAAATATTATATAA-CTTTC
1 AAAAATAAATTTTCAAAAAATTATAAAACCTTTC
*
2551524 TAAAAATAAATTTTTAAAAAATTATAAAACCTTTC
1 -AAAAATAAATTTTCAAAAAATTATAAAACCTTTC
*
2551559 -GAAATAAATTTTCAAAAAATTA
1 AAAAATAAATTTTCAAAAAATTA
2551581 ACTTTTCAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
33 24 0.31
34 47 0.60
35 7 0.09
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.38
Consensus pattern (34 bp):
AAAAATAAATTTTCAAAAAATTATAAAACCTTTC
Found at i:2551578 original size:15 final size:16
Alignment explanation
Indices: 2551563--2551627 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
2551553 CCTTTCGAAA
2551563 TAAATTTTCAAAAAAT
1 TAAATTTTCAAAAAAT
* *
2551579 TAACTTTTCAAAATATTT
1 TAAATTTTCAAAA-A-AT
2551597 TATAATTTTTC-AAAAAT
1 TA-AA-TTTTCAAAAAAT
*
2551614 T-TATTTTCAAAAAA
1 TAAATTTTCAAAAAA
2551628 ATTTATGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
14 5 0.13
15 6 0.15
16 12 0.31
17 3 0.08
18 4 0.10
19 4 0.10
20 5 0.13
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAATTTTCAAAAAAT
Found at i:2551612 original size:35 final size:34
Alignment explanation
Indices: 2551562--2551674 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 34
2551552 ACCTTTCGAA
* * *
2551562 ATAAATTTTCAAAAAATTAACTTTTCAAAATATTTT
1 ATAATTTTTC-AAAAATTAA-TTTTCAAAAAAATTT
*
2551598 ATAATTTTTCAAAAATTTATTTTCAAAAAAATTT
1 ATAATTTTTCAAAAATTAATTTTCAAAAAAATTT
* * * *
2551632 ATGATTTTT-GAAAACTAATTTT-TAAAAAATTAT
1 ATAATTTTTCAAAAATTAATTTTCAAAAAAATT-T
*
2551665 ATGATTTTTC
1 ATAATTTTTC
2551675 GAATTTTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
32 8 0.12
33 20 0.30
34 21 0.32
35 8 0.12
36 9 0.14
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (34 bp):
ATAATTTTTCAAAAATTAATTTTCAAAAAAATTT
Found at i:2554328 original size:2 final size:2
Alignment explanation
Indices: 2554323--2554350 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2554313 CATATATGTG
2554323 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2554351 AAACTCTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2554411 original size:25 final size:24
Alignment explanation
Indices: 2554373--2554425 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
2554363 AAATAGTACT
* *
2554373 TTTTGACAAGAAAGTATGTATATC
1 TTTTGACAAAAAAGCATGTATATC
* *
2554397 TTTTGACGAAAAAAGCGTGTATATT
1 TTTTGAC-AAAAAAGCATGTATATC
2554422 TTTT
1 TTTT
2554426 TATTATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (24 bp):
TTTTGACAAAAAAGCATGTATATC
Found at i:2557708 original size:23 final size:22
Alignment explanation
Indices: 2557690--2557735 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
2557680 GTAAAAAAGG
2557690 TCAAAAA-AATAAAACAAAACAAA
1 TCAAAAATAA-AAAACAAAA-AAA
*
2557713 TCAAAAATAAAAAGCAAAAAAA
1 TCAAAAATAAAAAACAAAAAAA
2557735 T
1 T
2557736 TCACACACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 15 0.71
24 2 0.10
ACGTcount: A:0.76, C:0.11, G:0.02, T:0.11
Consensus pattern (22 bp):
TCAAAAATAAAAAACAAAAAAA
Found at i:2572685 original size:29 final size:27
Alignment explanation
Indices: 2572630--2572685 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
2572620 TTAAAATTTT
*
2572630 TTAAAAATTTTATTAACTATTTTAATA
1 TTAAAAATTTTATTAACTATTCTAATA
* *
2572657 TTAAAAATTATTTTTAAATTATTCTAATA
1 TTAAAAATT-TTATT-AACTATTCTAATA
2572686 CGTTAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.38
28 4 0.17
29 11 0.46
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAAAATTTTATTAACTATTCTAATA
Found at i:2573410 original size:20 final size:21
Alignment explanation
Indices: 2573362--2573416 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
2573352 TTTGTAAGTT
* *
2573362 AATAACAAATTTTAAATAAATA
1 AATAA-AAATTTAAAAAAAATA
*
2573384 AATAAAAATTTAAAAAAAATT
1 AATAAAAATTTAAAAAAAATA
*
2573405 AA-AAAAACTTAA
1 AATAAAAATTTAA
2573417 TTTTTGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.31
21 15 0.52
22 5 0.17
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAAAAATTTAAAAAAAATA
Found at i:2575024 original size:17 final size:18
Alignment explanation
Indices: 2575002--2575035 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2574992 GTCGAACCTT
*
2575002 CTTTTTTTTTAT-TTTTA
1 CTTTTTTATTATCTTTTA
2575019 CTTTTTTATTATCTTTT
1 CTTTTTTATTATCTTTT
2575036 TCTAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (18 bp):
CTTTTTTATTATCTTTTA
Found at i:2575044 original size:3 final size:3
Alignment explanation
Indices: 2575038--2575077 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2575028 TATCTTTTTC
2575038 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2575078 GGTAAAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:2575136 original size:26 final size:27
Alignment explanation
Indices: 2575107--2575160 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 27
2575097 ATTGAGAAAT
2575107 AAAATAAAATAA-AAAT-AGATAAATAA
1 AAAATAAAA-AATAAATAAGATAAATAA
2575133 AAAATAAAAAATAAATAAGATAAATAA
1 AAAATAAAAAATAAATAAGATAAATAA
2575160 A
1 A
2575161 TATAATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 2 0.08
26 13 0.50
27 11 0.42
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (27 bp):
AAAATAAAAAATAAATAAGATAAATAA
Found at i:2575148 original size:4 final size:4
Alignment explanation
Indices: 2575119--2575162 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
2575109 AATAAAATAA
*
2575119 AAAT AGAT AAAT AAA- AAAT AAA- AAAT AAAT AAGAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT A
2575163 TAATGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 6 0.17
4 25 0.71
5 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:2575159 original size:13 final size:12
Alignment explanation
Indices: 2575119--2575162 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
2575109 AATAAAATAA
*
2575119 AAATAGATAAAT
1 AAATAAATAAAT
2575131 AAA-AAATAAA-
1 AAATAAATAAAT
2575141 AAATAAATAAGAT
1 AAATAAATAA-AT
2575154 AAATAAATA
1 AAATAAATA
2575163 TAATGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 3 0.11
11 12 0.43
12 4 0.14
13 9 0.32
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (12 bp):
AAATAAATAAAT
Found at i:2575161 original size:31 final size:31
Alignment explanation
Indices: 2575103--2575162 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
2575093 GATGATTGAG
* *
2575103 AAATAAAATAAAATAAAAATAGATAAATAAA
1 AAATAAAAAAAAATAAAAATAAATAAATAAA
*
2575134 AAATAAAAAATAAAT-AAGATAAATAAATA
1 AAATAAAAAA-AAATAAAAATAAATAAATA
2575163 TAATGATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (31 bp):
AAATAAAAAAAAATAAAAATAAATAAATAAA
Found at i:2575173 original size:12 final size:12
Alignment explanation
Indices: 2575156--2575180 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2575146 AATAAGATAA
2575156 ATAAATATAATG
1 ATAAATATAATG
2575168 ATAAATATAATG
1 ATAAATATAATG
2575180 A
1 A
2575181 CAAAGATTAA
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATAAATATAATG
Found at i:2575482 original size:22 final size:22
Alignment explanation
Indices: 2575457--2575542 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 22
2575447 TAAGGATTCA
*
2575457 CAATTTGAAAATAAAAAATTTG
1 CAATTTGAAATTAAAAAATTTG
* * *
2575479 CAA-TTGAACTTCAAAATTTTG
1 CAATTTGAAATTAAAAAATTTG
* * * * *
2575500 CATTTTGGAATTCAAAAGTTTCA
1 CAATTTGAAATTAAAAAATTT-G
2575523 CAATTTGAAATTAAAAAATT
1 CAATTTGAAATTAAAAAATT
2575543 CATAACAATA
Statistics
Matches: 49, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
21 16 0.33
22 17 0.35
23 16 0.33
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (22 bp):
CAATTTGAAATTAAAAAATTTG
Found at i:2575604 original size:18 final size:18
Alignment explanation
Indices: 2575580--2575632 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
2575570 TAAAGTTTAG
2575580 AGGTTTGCAAAATTTTCA
1 AGGTTTGCAAAATTTTCA
* * * *
2575598 TGGTTTGTAAAAGTTTGA
1 AGGTTTGCAAAATTTTCA
*
2575616 AGATTTGCAAAAATTTT
1 AGGTTTGC-AAAATTTT
2575633 TAATATTCGC
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.42
Consensus pattern (18 bp):
AGGTTTGCAAAATTTTCA
Found at i:2575644 original size:19 final size:19
Alignment explanation
Indices: 2575615--2575659 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
2575605 TAAAAGTTTG
*
2575615 AAGATTTGCAAAAATTTTT
1 AAGATTCGCAAAAATTTTT
* *
2575634 AATATTCGCAAAAGTTTTT
1 AAGATTCGCAAAAATTTTT
2575653 AAGATTC
1 AAGATTC
2575660 ATAAAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (19 bp):
AAGATTCGCAAAAATTTTT
Found at i:2575665 original size:19 final size:19
Alignment explanation
Indices: 2575623--2575667 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
2575613 TGAAGATTTG
* *
2575623 CAAAAATTTTTAATATTCG
1 CAAAAATTTTTAAGATTCA
*
2575642 CAAAAGTTTTTAAGATTCA
1 CAAAAATTTTTAAGATTCA
*
2575661 TAAAAAT
1 CAAAAAT
2575668 CCAAAGGTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (19 bp):
CAAAAATTTTTAAGATTCA
Found at i:2575725 original size:18 final size:18
Alignment explanation
Indices: 2575653--2575839 Score: 124
Period size: 18 Copynumber: 10.4 Consensus size: 18
2575643 AAAAGTTTTT
* * *
2575653 AAGATTCATAAAAATCCA
1 AAGATTCACAAGAATTCA
* *
2575671 AAGGTTCGCAAGAATTCA
1 AAGATTCACAAGAATTCA
* ** * *
2575689 ATGATTTGCAAAAACTCA
1 AAGATTCACAAGAATTCA
*
2575707 AAAATTCACAAGAATTCA
1 AAGATTCACAAGAATTCA
* * *
2575725 AATATTCATAAGATTTCA
1 AAGATTCACAAGAATTCA
*
2575743 AAGATTCGCAAGAATTCA
1 AAGATTCACAAGAATTCA
* *
2575761 AATATTCTCAAGAATTCA
1 AAGATTCACAAGAATTCA
* * * *
2575779 ATGATTCACAAAAACTCT
1 AAGATTCACAAGAATTCA
** * *
2575797 AAGATTTGCGAG-ATTTA
1 AAGATTCACAAGAATTCA
* *
2575814 AAGATTCACAATAGTTCA
1 AAGATTCACAAGAATTCA
2575832 AAGATTCA
1 AAGATTCA
2575840 TAATCATAAA
Statistics
Matches: 123, Mismatches: 45, Indels: 2
0.72 0.26 0.01
Matches are distributed among these distances:
17 10 0.08
18 113 0.92
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (18 bp):
AAGATTCACAAGAATTCA
Found at i:2575786 original size:54 final size:54
Alignment explanation
Indices: 2575680--2575907 Score: 149
Period size: 54 Copynumber: 4.3 Consensus size: 54
2575670 AAAGGTTCGC
* *
2575680 AAGAATTCAATGATTTGCAAAAACTCAAAAATTCACAAGAATTCAAATATTCAT
1 AAGAATTCAAAGATTCGCAAAAACTCAAAAATTCACAAGAATTCAAATATTCAT
* * * * * *
2575734 AAGATTTCAAAGATTCGCAAGAATTCAAATATTCTCAAGAATTC-AATGATTCAC
1 AAGAATTCAAAGATTCGCAAAAACTCAAAAATTCACAAGAATTCAAAT-ATTCAT
* * * * * * * * * * * *
2575788 AAAAACTCTAAGATTTGC-GAGATTTAAAGATTCACAATAGTTCAAAGATTCAT
1 AAGAATTCAAAGATTCGCAAAAACTCAAAAATTCACAAGAATTCAAATATTCAT
** * * * * * *
2575841 AATCA-T-AAAGATTTGTAAGATCTCACAAATTCGCAAGAATTCAAATATTCAT
1 AAGAATTCAAAGATTCGCAAAAACTCAAAAATTCACAAGAATTCAAATATTCAT
* *
2575893 AAAAACTCAAAGATT
1 AAGAATTCAAAGATT
2575908 TGTAAGATTT
Statistics
Matches: 128, Mismatches: 41, Indels: 10
0.72 0.23 0.06
Matches are distributed among these distances:
51 8 0.06
52 27 0.21
53 29 0.23
54 64 0.50
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (54 bp):
AAGAATTCAAAGATTCGCAAAAACTCAAAAATTCACAAGAATTCAAATATTCAT
Found at i:2575897 original size:105 final size:104
Alignment explanation
Indices: 2575764--2575958 Score: 266
Period size: 105 Copynumber: 1.9 Consensus size: 104
2575754 GAATTCAAAT
* * * * *
2575764 ATTCTCAAGAATTCAATGATTCACAAAAACTCTAAGATTTGCGAGATTTAAAGATTCACAATAGT
1 ATTCGCAAGAATTCAATGATTCACAAAAACTCAAAGATTTGCAAGATTTAAAAATTCACAAGAGT
* *
2575829 TCAAAGATTCATAATCATAAAGATTTGTAAGATCTCACAA
66 TCAAA-ATTCACAACCATAAAGATTTGTAAGATCTCACAA
* * *
2575869 ATTCGCAAGAATTCAAAT-ATTCATAAAAACTCAAAGATTTGTAAGATTTAAAAATTCATAAGAG
1 ATTCGCAAGAATTC-AATGATTCACAAAAACTCAAAGATTTGCAAGATTTAAAAATTCACAAGAG
*
2575933 TTGAAAATTCACAACCATAAAGATTT
65 TTCAAAATTCACAACCATAAAGATTT
2575959 ATAAATAATT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
104 18 0.23
105 57 0.73
106 3 0.04
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (104 bp):
ATTCGCAAGAATTCAATGATTCACAAAAACTCAAAGATTTGCAAGATTTAAAAATTCACAAGAGT
TCAAAATTCACAACCATAAAGATTTGTAAGATCTCACAA
Found at i:2576142 original size:23 final size:23
Alignment explanation
Indices: 2576106--2576176 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
2576096 TTTGAAAAAA
*
2576106 AAAAATT-TAAGATTCACATTTT
1 AAAAATTCAAAGATTCACATTTT
* *
2576128 CAAATTTCAAAGATTCACATTTT
1 AAAAATTCAAAGATTCACATTTT
*
2576151 AAAAATTCAAATATTCACA-TTT
1 AAAAATTCAAAGATTCACATTTT
2576173 AAAA
1 AAAA
2576177 TTTAGAGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.29
23 30 0.71
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.37
Consensus pattern (23 bp):
AAAAATTCAAAGATTCACATTTT
Found at i:2576192 original size:21 final size:21
Alignment explanation
Indices: 2576168--2576239 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
2576158 CAAATATTCA
2576168 CATTTAAAATTTAGAGATTTT
1 CATTTAAAATTTAGAGATTTT
*
2576189 CATTCAAAAAATTTAGAGA-TTT
1 CATT--TAAAATTTAGAGATTTT
* * **
2576211 -ATTTAAAATTCAAAGATTCG
1 CATTTAAAATTTAGAGATTTT
2576231 CATTTAAAA
1 CATTTAAAA
2576240 AAGATTCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 10 0.24
20 1 0.02
21 15 0.37
22 3 0.07
23 12 0.29
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (21 bp):
CATTTAAAATTTAGAGATTTT
Found at i:2576240 original size:42 final size:43
Alignment explanation
Indices: 2576105--2576241 Score: 107
Period size: 44 Copynumber: 3.1 Consensus size: 43
2576095 ATTTGAAAAA
* *
2576105 AAAAAATT-TAAGATTCACATTTTCAAATTTCAAAGATTCACATTT
1 AAAAAATTCAAAGATT-ACA-TTT-AAAATTCAAAGATTCACATTT
* * * * ** *
2576150 TAAAAATTCAAATATTCACATTTAAAATTTAGAGATTTTCATTC
1 AAAAAATTCAAAGATT-ACATTTAAAATTCAAAGATTCACATTT
* * * *
2576194 AAAAAATTTAGAGATT-TATTTAAAATTCAAAGATTCGCATTT
1 AAAAAATTCAAAGATTACATTTAAAATTCAAAGATTCACATTT
2576236 AAAAAA
1 AAAAAA
2576242 GATTCAAATA
Statistics
Matches: 72, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
42 26 0.36
44 27 0.38
45 10 0.14
46 9 0.12
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (43 bp):
AAAAAATTCAAAGATTACATTTAAAATTCAAAGATTCACATTT
Found at i:2577285 original size:24 final size:24
Alignment explanation
Indices: 2577239--2577282 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2577229 TCAATTTGAA
2577239 TTTTTTTTATTTCATCATTTTTCT
1 TTTTTTTTATTTCATCATTTTTCT
*
2577263 TTTTTTTTCTTT--TCATTTTT
1 TTTTTTTTATTTCATCATTTTT
2577283 TTCACTGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTTTATTTCATCATTTTTCT
Found at i:2583048 original size:34 final size:34
Alignment explanation
Indices: 2583000--2583075 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 34
2582990 AAATTCCTTT
2583000 GTAAAAG--TGTATACCAACAAAAAATCTCATCA
1 GTAAAAGTTTGTATACCAACAAAAAATCTCATCA
2583032 GTAAAAGTTTGTATACCAACAAAAAATCTCATCA
1 GTAAAAGTTTGTATACCAACAAAAAATCTCATCA
*
2583066 GTAAATGTTT
1 GTAAAAGTTT
2583076 ATATTTTGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 7 0.17
34 34 0.83
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (34 bp):
GTAAAAGTTTGTATACCAACAAAAAATCTCATCA
Found at i:2586774 original size:17 final size:17
Alignment explanation
Indices: 2586752--2586784 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2586742 TGCTCCTACG
*
2586752 TGCTTATGACATTATCA
1 TGCTTACGACATTATCA
2586769 TGCTTACGACATTATC
1 TGCTTACGACATTATC
2586785 CCGATTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (17 bp):
TGCTTACGACATTATCA
Found at i:2590500 original size:24 final size:25
Alignment explanation
Indices: 2590473--2590521 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
2590463 ATAGAAAGAA
2590473 TAGCTGCCAT-GATATGTCAATCCT
1 TAGCTGCCATAGATATGTCAATCCT
2590497 TAGCTGCCATAGATATGTCAATCCT
1 TAGCTGCCATAGATATGTCAATCCT
2590522 CTACCTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (25 bp):
TAGCTGCCATAGATATGTCAATCCT
Found at i:2592780 original size:12 final size:13
Alignment explanation
Indices: 2592750--2592774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2592740 AAAGTGTTTT
2592750 TAGAAAATAAAAA
1 TAGAAAATAAAAA
2592763 TAGAAAATAAAA
1 TAGAAAATAAAA
2592775 TGGAAATGGA
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
TAGAAAATAAAAA
Found at i:2594695 original size:29 final size:29
Alignment explanation
Indices: 2594653--2594712 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
2594643 GACACTAACA
2594653 TAGAGTTAAAATAAATAATAAAGTTTGTT
1 TAGAGTTAAAATAAATAATAAAGTTTGTT
2594682 TAGAGTTAAAATAAATAATAAAGTTTGTT
1 TAGAGTTAAAATAAATAATAAAGTTTGTT
2594711 TA
1 TA
2594713 TAGATAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.38
Consensus pattern (29 bp):
TAGAGTTAAAATAAATAATAAAGTTTGTT
Done.