Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1164
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: 144783
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:7 original size:2 final size:2
Alignment explanation
Indices: 1--25 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
26 CAGAACAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6830 original size:22 final size:24
Alignment explanation
Indices: 6794--6843 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
6784 ACTTGTTTGA
*
6794 ATATATCTTTACCAATT-ATTTAG
1 ATATATCTTTACCAATTCATATAG
6817 ATATATC-TTACCAATTCATATAG
1 ATATATCTTTACCAATTCATATAG
6840 ATAT
1 ATAT
6844 TTGATGGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (24 bp):
ATATATCTTTACCAATTCATATAG
Found at i:7121 original size:21 final size:21
Alignment explanation
Indices: 7095--7142 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
7085 TCAGGATTGA
7095 ATGTATTGATACATTTTGTGC
1 ATGTATTGATACATTTTGTGC
7116 ATGTATTGATACATTTTGTGC
1 ATGTATTGATACATTTTGTGC
7137 ATGTAT
1 ATGTAT
7143 CAATACATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (21 bp):
ATGTATTGATACATTTTGTGC
Found at i:7148 original size:21 final size:21
Alignment explanation
Indices: 7103--7150 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
7093 GAATGTATTG
**
7103 ATACATTTTGTGCATGTATTG
1 ATACATTTTGTGCATGTATCA
7124 ATACATTTTGTGCATGTATCA
1 ATACATTTTGTGCATGTATCA
7145 ATACAT
1 ATACAT
7151 ATGGTTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (21 bp):
ATACATTTTGTGCATGTATCA
Found at i:11263 original size:24 final size:22
Alignment explanation
Indices: 11219--11263 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
11209 ATGATAATAA
*
11219 ATTAAAATTTTATATTTGATAC
1 ATTAAAATTTTATATTAGATAC
11241 ATTAAAATTATATATATTAGATA
1 ATTAAAATT-T-TATATTAGATA
11264 TACGCTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTAAAATTTTATATTAGATAC
Found at i:12091 original size:2 final size:2
Alignment explanation
Indices: 12084--12146 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
12074 TCAGTGTATG
*
12084 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12126 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
12147 CAAAGCAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17311 original size:20 final size:19
Alignment explanation
Indices: 17259--17314 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
17249 TTAAAAATTA
*
17259 ATTTTATATAACAAAT-TA-
1 ATTTTATA-AATAAATATAG
*
17277 ATTTTATATATAAATATAG
1 ATTTTATAAATAAATATAG
17296 ATTTTAATAAATAAATATA
1 ATTTT-ATAAATAAATATA
17315 TAAAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 5 0.16
18 10 0.31
19 5 0.16
20 12 0.38
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTTATAAATAAATATAG
Found at i:22538 original size:28 final size:27
Alignment explanation
Indices: 22492--22643 Score: 135
Period size: 28 Copynumber: 5.4 Consensus size: 27
22482 GAGCTGTTGA
* * *
22492 CTTTGAAAGGATACTACTGACCTATGGG
1 CTTTGAAA-GATGCCACTGACTTATGGG
* * *
22520 CTTTGAAGAGATGCCACTGATTTGTTGG
1 CTTTGAA-AGATGCCACTGACTTATGGG
* * *
22548 ATGTGAAAGGATGCCACTGACTTGT-GG
1 CTTTGAAA-GATGCCACTGACTTATGGG
*
22575 CTTTGAATAGATGCCACTGACTTGTGGG
1 CTTTGAA-AGATGCCACTGACTTATGGG
*
22603 CTTTGAAATGATGCCACTAACTTATGGG
1 CTTTGAAA-GATGCCACTGACTTATGGG
*
22631 CTTTCAAAAGATG
1 CTTT-GAAAGATG
22644 AACATTCTAG
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
27 25 0.24
28 75 0.72
29 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (27 bp):
CTTTGAAAGATGCCACTGACTTATGGG
Found at i:22593 original size:55 final size:55
Alignment explanation
Indices: 22495--22643 Score: 156
Period size: 55 Copynumber: 2.7 Consensus size: 55
22485 CTGTTGACTT
* * * * *
22495 TGAAAGGATACTACTGACCTATG-GGCTTTGAAGAGATGCCACTGATTTGTTGGATG
1 TGAAAGGATGCCACTGA-CT-TGTGGCTTTGAAAAGATGCCACTGACTTGTGGGATG
* * *
22551 TGAAAGGATGCCACTGACTTGTGGCTTTGAATAGATGCCACTGACTTGTGGGCTT
1 TGAAAGGATGCCACTGACTTGTGGCTTTGAAAAGATGCCACTGACTTGTGGGATG
* * * *
22606 TGAAATGATGCCACTAACTTATGGGCTTTCAAAAGATG
1 TGAAAGGATGCCACTGACTTGT-GGCTTTGAAAAGATG
22644 AACATTCTAG
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 2 0.03
55 49 0.62
56 28 0.35
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (55 bp):
TGAAAGGATGCCACTGACTTGTGGCTTTGAAAAGATGCCACTGACTTGTGGGATG
Found at i:23920 original size:20 final size:19
Alignment explanation
Indices: 23878--23932 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
23868 TTTTACCCAG
*
23878 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TATCA
*
23898 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATT-ATCA
* *
23918 ATGTTTCGGTACATT
1 ATGTATCGATACATT
23933 TTACCTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTATCA
Found at i:24857 original size:20 final size:21
Alignment explanation
Indices: 24818--24857 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24808 TAGCCTTCAA
*
24818 CCATGCATTTTTGACTATGTT
1 CCATGCATTTTTAACTATGTT
24839 CCATGCATTTTTAAC-ATGT
1 CCATGCATTTTTAACTATGT
24858 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (21 bp):
CCATGCATTTTTAACTATGTT
Found at i:28123 original size:21 final size:21
Alignment explanation
Indices: 28097--28141 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
28087 TTTTGATTGA
*
28097 TGTTCATTCT-TTTATTTTTGT
1 TGTTCATTCTCATTATTTTT-T
28118 TGTTCATTCTCATTATTTTTT
1 TGTTCATTCTCATTATTTTTT
28139 TGT
1 TGT
28142 ATAGTCACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (21 bp):
TGTTCATTCTCATTATTTTTT
Found at i:33961 original size:21 final size:21
Alignment explanation
Indices: 33909--33969 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
33899 AAAAAAAAAT
*
33909 TTATCCAAATGTATCGATACA
1 TTATACAAATGTATCGATACA
***
33930 TT-TGTGGAATGTATCGATACA
1 TTAT-ACAAATGTATCGATACA
33951 TTATACAAATGTATCGATA
1 TTATACAAATGTATCGATA
33970 TAAGGTCCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (21 bp):
TTATACAAATGTATCGATACA
Found at i:34090 original size:13 final size:13
Alignment explanation
Indices: 34072--34097 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34062 CATTTTTCTG
34072 TGTATCGATACAT
1 TGTATCGATACAT
34085 TGTATCGATACAT
1 TGTATCGATACAT
34098 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34094 original size:33 final size:33
Alignment explanation
Indices: 34052--34118 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
34042 GCCAAGGAAA
***
34052 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
34085 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
34118 T
1 T
34119 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:36235 original size:10 final size:10
Alignment explanation
Indices: 36222--36246 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36212 ATATTTTTAG
36222 ATCGACCCTA
1 ATCGACCCTA
36232 ATCGACCCTA
1 ATCGACCCTA
36242 ATCGA
1 ATCGA
36247 GTGATGCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.36, G:0.12, T:0.20
Consensus pattern (10 bp):
ATCGACCCTA
Found at i:36533 original size:27 final size:28
Alignment explanation
Indices: 36495--36571 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
36485 CATCAGTTTT
*
36495 TCATCGAGGATACTCCAACCCCGTTA-A
1 TCATCGGGGATACTCCAACCCCGTTATA
*
36522 TCATCGGGGATACTCCAACCCCGTTATTT
1 TCATCGGGGATACTCCAACCCCGTTA-TA
*
36551 TCA-AGGGGATACTCCAACCCC
1 TCATCGGGGATACTCCAACCCC
36572 CGGCTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.56
28 17 0.38
29 3 0.07
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (28 bp):
TCATCGGGGATACTCCAACCCCGTTATA
Found at i:36695 original size:51 final size:51
Alignment explanation
Indices: 36635--36804 Score: 214
Period size: 52 Copynumber: 3.3 Consensus size: 51
36625 TTATCTCCGA
* * *
36635 GGGGATACTCCAACCCCGATTTTATTTCCAAATCATCGATTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
* * ** *
36686 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACCAATTTTCCTTTAAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCC-ACAATC
* * *
36738 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTCCACAATC
*
36790 GAGGATACTCCAACC
1 GGGGATACTCCAACC
36805 TCATTATTTC
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 40 0.40
52 44 0.44
53 15 0.15
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:36700 original size:79 final size:80
Alignment explanation
Indices: 36524--36703 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 80
36514 CCCGTTAATC
* * *
36524 ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAACCCCCGACTTTATTTCTAAAA
* *
36589 TATTAATTTCTCATA
66 TATGAATTTCTCACA
* * * *
36604 ATCGGGGATACTCCAACCTCGTTATCTCCGAGGGGATACTCCAA-CCCCGATTTTATTTC-CAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAACCCCCGACTTTATTTCTAAAA
*
36667 TCATCGATTTTC-CACA
66 T-AT-GAATTTCTCACA
36683 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
36704 ACTTTATTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 4 0.05
79 38 0.44
80 45 0.52
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAACCCCCGACTTTATTTCTAAAA
TATGAATTTCTCACA
Found at i:36911 original size:290 final size:285
Alignment explanation
Indices: 36396--36985 Score: 778
Period size: 290 Copynumber: 2.1 Consensus size: 285
36386 CAATTCTCCG
* * *
36396 CAATCGGGGATA-TCCCAACTCCGATTTCATTTTCAAAACACTAATTTTCTATAATCGGGGATAC
1 CAATCGGGGATACT-CCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAAACGGGGATAC
* * * * *
36460 TCCAACTCTGATTTTATTTCTAAAACATCAGTTTTTCATCGAGGATACTCCAACCCCGTTAATCA
65 TCCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATCGAGGATACTCCAACCCCATTAATCA
** * * *
36525 TCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAAT
130 TCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCCGGCTTTATTCCCAAAAT
* * *
36590 ATTAATTTCTCATAATCGGGGATACTCCAACCTCGTTATCTCCGAGGGGATACTCCAACCCCGAT
195 ATTAATTTCTCATAATCAGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAACCCCGAT
36655 -TTTATTTCCAAATCATCGATTT-TCCA
260 GTTT-TTTCCAAATCATCGATTTCT-CA
*
36681 CAATCGGGGATACTCCAACCCCGACTTT-ATTTTCAAAACACCAATTTTCCTTTAAACGGGGATA
1 CAATCGGGGATACTCCAACCCCGA-TTTCATTTTCAAAACACCAATTTT-CTATAAACGGGGATA
* *
36745 CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCTCATT
64 CTCCAACTCCGATTTTATTT-CAAAAACACCAATTTTT--C-ATCGAGGATACTCCAACCCCATT
* * *
36810 ATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAA-CCCCGGTTTTATTCC
125 A-ATCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCCGGCTTTATTCC
* *
36874 CAAAATATCT-ATTTCTCATAATTAGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAA
189 CAAAATAT-TAATTTCTCATAATCAGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAA
* * * *
36938 TCTCGATGTTTTTTTCTAATCATCGATTTCTCA
253 CCCCGATGTTTTTTCCAAATCATCGATTTCTCA
*
36971 CAACCGGGGATACTC
1 CAATCGGGGATACTC
36986 TAGCCCCGTC
Statistics
Matches: 265, Mismatches: 29, Indels: 17
0.85 0.09 0.05
Matches are distributed among these distances:
285 40 0.15
286 36 0.14
287 14 0.05
289 1 0.00
290 127 0.48
291 47 0.18
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (285 bp):
CAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAAACGGGGATACT
CCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATCGAGGATACTCCAACCCCATTAATCAT
CGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCCGGCTTTATTCCCAAAATA
TTAATTTCTCATAATCAGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAACCCCGATG
TTTTTTCCAAATCATCGATTTCTCA
Found at i:36931 original size:107 final size:108
Alignment explanation
Indices: 36738--36937 Score: 262
Period size: 107 Copynumber: 1.9 Consensus size: 108
36728 TCCTTTAAAC
* *
36738 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTCACAATTGAGGATACTCCAA
* *
36803 CCTCATTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCCATTATTTCATAGGGGATACTCCAACCCCGTTACCTCCGA
* * * * * *
36846 GGGGATACTCCAACCCCGGTTTTA-TTCCCAAAATATCTATTTCTCATAATT-AGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTCACAATTGA-GGATACTCCA
*
36909 ACCCCGTTATTTCCA-AGGGGATACTCCAA
65 ACCCCATTATTT-CATAGGGGATACTCCAA
36938 TCTCGATGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
106 1 0.01
107 54 0.68
108 24 0.30
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (108 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTCACAATTGAGGATACTCCAA
CCCCATTATTTCATAGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:36967 original size:79 final size:79
Alignment explanation
Indices: 36819--37039 Score: 200
Period size: 79 Copynumber: 2.8 Consensus size: 79
36809 TATTTCATCG
** * *
36819 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTCCCAAAATATCT
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTCCCAAAATATCG
* **
36884 ATTTCTCATAATTA
66 ATTTCTCACAACCA
* * * *
36898 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCTCGATGTTTT-TT-TC-TAATCA
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCG--GTTTTATTCCCAAAAT-A
*
36960 TCGATTTCTCACAACCG
63 TCGATTTCTCACAACCA
* * * * * *
36977 GGGATACTCTAGCCCCGTCATTTTCAAGGGGACACTTCAACCCC-GTTATTA-TCTCCAAAATAT
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTT-TTATTC-CCAAAATAT
37040 TAAATTTCTC
Statistics
Matches: 112, Mismatches: 22, Indels: 16
0.75 0.15 0.11
Matches are distributed among these distances:
76 3 0.03
77 3 0.03
78 3 0.03
79 93 0.83
80 5 0.04
81 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTCCCAAAATATCG
ATTTCTCACAACCA
Found at i:49475 original size:1 final size:1
Alignment explanation
Indices: 49394--49460 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
49384 CATTCTCTTC
* * ** * * * * *
49394 AAAAAAACAAAAAAAAAGAAAAAAAAAGTAAAAAAAAAACAAAACAAAAAAACAAAACAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
49459 AA
1 AA
49461 GAGAGAAAAG
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.87, C:0.07, G:0.04, T:0.01
Consensus pattern (1 bp):
A
Found at i:50593 original size:59 final size:59
Alignment explanation
Indices: 50443--50983 Score: 639
Period size: 59 Copynumber: 9.3 Consensus size: 59
50433 TCCGCTTTTT
* * **
50443 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGTCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
50504 AATCCTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
50563 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTAAAGGCCACACAAGTTGGTGACACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* **
50622 AGTCCTCAAAGAGC-GTGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
** *
50681 TAGTCCTCAAAGAGTGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
50741 AGTCCTCAAAGAGTAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * **
50801 AGTCCCCAAAGAGCAGGACACC-TTTC----AAGGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
50856 AGTCCTCAACA-AGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAA-AGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
** * *
50911 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACATGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
50966 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
50984 TACACCTTAT
Statistics
Matches: 430, Mismatches: 37, Indels: 32
0.86 0.07 0.06
Matches are distributed among these distances:
53 2 0.00
54 3 0.01
55 126 0.29
56 3 0.01
57 2 0.00
58 1 0.00
59 165 0.38
60 108 0.25
61 20 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:50609 original size:119 final size:119
Alignment explanation
Indices: 50443--50983 Score: 652
Period size: 119 Copynumber: 4.6 Consensus size: 119
50433 TCCGCTTTTT
* * ** *
50443 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGTCATTTTCCAATC
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTC
50508 CTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
64 CTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
50563 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTAAAGGCCACACAAGTTGGTGACACCTTCAGTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
** *
50628 CAAAGAGC-GTGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTC
66 CAAAGAGCAG-GACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** *
50681 TAGTCCTCAAAGAGTGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* * *
50746 TCAAAGAGTAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
65 TCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * **
50801 AGTCCCCAAAGAGCAGGACACC-TTTC----AAGGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCC
50861 TCAACA-AGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
65 TCAA-AGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
** * *
50911 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACATGAGTTGGTGGCACTTTTTAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCC
50971 TCAAAGAGCAGGA
65 TCAAAGAGCAGGA
50984 TACACCTTAT
Statistics
Matches: 374, Mismatches: 38, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
109 1 0.00
110 91 0.24
111 3 0.01
112 2 0.01
114 24 0.06
115 18 0.05
116 1 0.00
117 1 0.00
118 57 0.15
119 151 0.40
120 25 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (119 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:50743 original size:178 final size:179
Alignment explanation
Indices: 50443--50984 Score: 733
Period size: 178 Copynumber: 3.1 Consensus size: 179
50433 TCCGCTTTTT
* *
50443 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGTCATTTTCCAATC
1 AGTCCTCAAAGAGCAGGATGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
50508 CTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
65 CTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
* *
50573 GAGCAGGACACCTTTTCTTTTAAAGGCCACACAAGTTGGTGACACC-TTC
130 GAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTC
*
50622 AGTCCTCAAAGAGC-GTGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTC
1 AGTCCTCAAAGAGCAG-GATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
** **
50686 CTCAAAGAGTGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
65 CTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
* * *
50751 GAGTAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
130 GAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTC
* ** *
50801 AGTCCCCAAAGAGCAGGACACC-TTTC----AAGGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
50861 TCAACA-AGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
66 TCAA-AGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAA
** * * *
50920 AGAGCAGGACGCC-TTTC----AAAGCCCACATGAGTTGGTGGCACTTTTT
129 AGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTC
50966 AGTCCTCAAAGAGCAGGAT
1 AGTCCTCAAAGAGCAGGAT
50985 ACACCTTATT
Statistics
Matches: 329, Mismatches: 29, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
165 42 0.13
169 31 0.09
170 23 0.07
171 2 0.01
174 43 0.13
175 1 0.00
178 146 0.44
179 40 0.12
180 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (179 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
TCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGACACCTTTC
Found at i:51769 original size:21 final size:21
Alignment explanation
Indices: 51717--51779 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
51707 GAAAAAAAAT
*
51717 TTATCCAAATGTATCGATACA
1 TTATACAAATGTATCGATACA
***
51738 TT-TGTGGAATGTATCGATACA
1 TTAT-ACAAATGTATCGATACA
51759 TTATACAAATGTATCGATACA
1 TTATACAAATGTATCGATACA
51780 AGGTCCCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
TTATACAAATGTATCGATACA
Found at i:51898 original size:13 final size:13
Alignment explanation
Indices: 51880--51905 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51870 CATTTTTCTG
51880 TGTATCGATACAT
1 TGTATCGATACAT
51893 TGTATCGATACAT
1 TGTATCGATACAT
51906 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:51902 original size:33 final size:33
Alignment explanation
Indices: 51860--51926 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
51850 GCCAAGGAAA
***
51860 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
51893 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
51926 T
1 T
51927 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:52451 original size:10 final size:11
Alignment explanation
Indices: 52436--52466 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
52426 ATCCTTTAGC
52436 AAAAAAAC-CA
1 AAAAAAACACA
52446 AAAAAAACACA
1 AAAAAAACACA
52457 AAAAAAACAC
1 AAAAAAACAC
52467 TATTCCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACACA
Found at i:54417 original size:28 final size:28
Alignment explanation
Indices: 54344--54420 Score: 106
Period size: 27 Copynumber: 2.8 Consensus size: 28
54334 CATTAATTTT
54344 TCATC-GGGGATACTCCAACCCCGTTAA
1 TCATCAGGGGATACTCCAACCCCGTTAA
54371 TCATCA-GGGATACTCCAACCCCGTT-A
1 TCATCAGGGGATACTCCAACCCCGTTAA
**
54397 TTTTCGAGGGGATACTCCAACCCC
1 TCATC-AGGGGATACTCCAACCCC
54421 CGGCTTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
26 4 0.09
27 25 0.56
28 16 0.36
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (28 bp):
TCATCAGGGGATACTCCAACCCCGTTAA
Found at i:54544 original size:51 final size:52
Alignment explanation
Indices: 54484--54653 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 52
54474 TTATCTCCGA
* * *
54484 GGGGATACTCCAACCCCGGTTTTATTTCCAAATCATCGATTTTCC-ATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTATAATC
* * *
54535 GGGGATACTCCAACCCCGGCTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTATAATC
* * * * * * * *
54587 GAGGATACTTCAACTCTGATTTTATTTCCAAAAACACCAATTTTTC-ACAATT
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTCCTATAATC
*
54639 GAGGATACTCCAACC
1 GGGGATACTCCAACC
54654 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
51 40 0.41
52 43 0.44
53 15 0.15
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTCCTATAATC
Found at i:54549 original size:79 final size:80
Alignment explanation
Indices: 54377--54552 Score: 259
Period size: 80 Copynumber: 2.2 Consensus size: 80
54367 TTAATCATCA
* * *
54377 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATT
1 GGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATG
54442 AATTTCTCATAATCG
66 AATTTCTCATAATCG
* *
54457 GGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAA-CCCCGGTTTTATTTC-CAAATCAT
1 GGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAAT-AT
*
54520 CGATTTTC-CATAATCG
65 -GAATTTCTCATAATCG
54536 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
54553 GCTTTATTTT
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
78 4 0.05
79 41 0.47
80 43 0.49
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (80 bp):
GGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCCGGCTTTATTTCTAAAATATG
AATTTCTCATAATCG
Found at i:54812 original size:79 final size:78
Alignment explanation
Indices: 54668--54888 Score: 250
Period size: 79 Copynumber: 2.8 Consensus size: 78
54658 TATTTCATCG
** *
54668 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAATATCG
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTCCT-AAATATCG
* **
54733 ATTTCTCATAATTA
65 ATTTCTCACAACCA
* *
54747 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATGTTTT-TTTCT-AATCAT
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG--GTTTTATTCCTAAAT-AT
*
54810 CGATTTCTCACAACCG
63 CGATTTCTCACAACCA
* * * *
54826 GGGATACTCCAGCCCCGTCATTTTCAAGGGGATACTCCAACCCC-GTTATTATCTCCAAAATAT
1 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT-TTAT-TCCTAAATAT
54889 TAAATTTCTC
Statistics
Matches: 120, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
76 3 0.03
77 2 0.02
78 4 0.03
79 99 0.82
80 7 0.06
81 5 0.04
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (78 bp):
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAATATCGA
TTTCTCACAACCA
Found at i:61083 original size:28 final size:28
Alignment explanation
Indices: 61043--61264 Score: 259
Period size: 28 Copynumber: 7.9 Consensus size: 28
61033 CTAGAACGTT
* *
61043 CATCTCTTGAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
61071 CATCTTTTCAAAGCCTA-AAGGTCAATGG
1 CATCTTTTCAAAGCCCACAA-GTCAGTGG
* *
61099 CATCCTTTCAAAGCCTACAAGTC-GATGG
1 CATCTTTTCAAAGCCCACAAGTCAG-TGG
* *
61127 CATCTCTTCAAAGCCCACAGGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
61155 CATCCTTTCAAAGCCCACAGGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
61183 CATCTTTTCAAAGTCCACATGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
61211 CATCTTTTCAAAGTCCACATGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
*
61239 CATCTTTTCAAAGCCCACAGGTCAGT
1 CATCTTTTCAAAGCCCACAAGTCAGT
61265 TAGTGGCACC
Statistics
Matches: 169, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
27 2 0.01
28 164 0.97
29 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (28 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:61138 original size:56 final size:56
Alignment explanation
Indices: 61052--61264 Score: 293
Period size: 56 Copynumber: 3.8 Consensus size: 56
61042 TCATCTCTTG
* * * *
61052 AAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCTAAAGGTCAATGGCATCCTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAGGTCAGTGGCATCCTTTC
* * *
61108 AAAGCCTACAAG-TCGATGGCATCTCTTCAAAGCCCACAGGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTTAG-TGGCATCTTTTCAAAGCCCACAGGTCAGTGGCATCCTTTC
* * * *
61164 AAAGCCCACAGGTTAGTGGCATCTTTTCAAAGTCCACATGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAGGTCAGTGGCATCCTTTC
* *
61220 AAAGTCCACATGTTAGTGGCATCTTTTCAAAGCCCACAGGTCAGT
1 AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAGGTCAGT
61265 TAGTGGCACC
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
55 1 0.01
56 134 0.98
57 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (56 bp):
AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAGGTCAGTGGCATCCTTTC
Found at i:61184 original size:84 final size:84
Alignment explanation
Indices: 61043--61262 Score: 291
Period size: 84 Copynumber: 2.6 Consensus size: 84
61033 CTAGAACGTT
* * *
61043 CATCTCTTGAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCTAAAGGTCAATGGCATCCTTTC
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAGGTCAATGGCATCCTTTC
61108 AAAG-CCTACAAGTC-GATGG
66 AAAGTCC-ACAAGTCAG-TGG
* * * * *
61127 CATCTCTTCAAAGCCCACAGGTCAGTGGCATCCTTTCAAAGCCCACAGGTTAGTGGCATCTTTTC
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAGGTCAATGGCATCCTTTC
*
61192 AAAGTCCACATGTCAGTGG
66 AAAGTCCACAAGTCAGTGG
* * * *
61211 CATCTTTTCAAAGTCCACATGTTAGTGGCATCTTTTCAAAGCCCACAGGTCA
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAGGTCA
61263 GTTAGTGGCA
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
84 116 0.97
85 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (84 bp):
CATCTCTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAGGTCAATGGCATCCTTTC
AAAGTCCACAAGTCAGTGG
Found at i:61383 original size:28 final size:28
Alignment explanation
Indices: 61262--61384 Score: 86
Period size: 28 Copynumber: 4.4 Consensus size: 28
61252 CCCACAGGTC
* *** *
61262 AGTTAGTGGCACCCTTTTTAAGCCCACA
1 AGTTAATGGCACCCTTCCAAAGCCCATA
* * *
61290 AATCAATGGCACCCTTCCAAAGCCCACA
1 AGTTAATGGCACCCTTCCAAAGCCCATA
* * ***
61318 AG-CAAGTAGCACCCTTTTTAAGCCCATA
1 AGTTAA-TGGCACCCTTCCAAAGCCCATA
**
61346 AGTTGGTGGCACCCTTCCAAAGCCCATA
1 AGTTAATGGCACCCTTCCAAAGCCCATA
*
61374 GGTTAATGGCA
1 AGTTAATGGCA
61385 TCTTTTTTCA
Statistics
Matches: 71, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
27 3 0.04
28 68 0.96
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
AGTTAATGGCACCCTTCCAAAGCCCATA
Found at i:61706 original size:44 final size:43
Alignment explanation
Indices: 61611--61725 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 43
61601 GTCCAATATC
* * * * *
61611 ACTGGCCTTGAATCAGTACATTGGCACTCTTCTTTTCTTTTGT
1 ACTGGCCTTAAATCAGCACATTGGCACCCTTCTTATCTTTAGT
61654 AGCTGGCCTTAAATCAGCACATTGGCACCCTTCTTATCTTTAAGT
1 A-CTGGCCTTAAATCAGCACATTGGCACCCTTCTTATCTTT-AGT
*
61699 -CTAGGCCTTAAATCTGCACATTGGCAC
1 ACT-GGCCTTAAATCAGCACATTGGCAC
61726 ATCACAGACA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
43 3 0.05
44 58 0.92
45 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (43 bp):
ACTGGCCTTAAATCAGCACATTGGCACCCTTCTTATCTTTAGT
Found at i:62852 original size:125 final size:125
Alignment explanation
Indices: 62623--62876 Score: 418
Period size: 125 Copynumber: 2.0 Consensus size: 125
62613 GTAAAACATC
* * * * *
62623 AACATAAAAACATATAAAAAAGTCCATTCTCGTAGCTCCCTACGGCTCCCAAAAGAAACACCTCC
1 AACACAAAAACACATAAAAAAGTCCATTCCCATAGCTCCCTACGGCTCCCAAAAAAAACACCTCC
62688 AAACACTCCCTCCTTGGTCACTACACAACTCCAACCCATCTCTACCCATACTATCACCTA
66 AAACACTCCCTCCTTGGTCACTACACAACTCCAACCCATCTCTACCCATACTATCACCTA
* *
62748 AACACAAAAACACATAAAAATGTCCATTCCCATAGCTCCCTACGGCTCCCAAAAAAAATACCTCC
1 AACACAAAAACACATAAAAAAGTCCATTCCCATAGCTCCCTACGGCTCCCAAAAAAAACACCTCC
* * *
62813 AAACATTCCCTCCTTGGTCATTACACAACTCCAATCCATCTCTACCCATACTATCACCTA
66 AAACACTCCCTCCTTGGTCACTACACAACTCCAACCCATCTCTACCCATACTATCACCTA
62873 AACA
1 AACA
62877 TCCACTTTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 119 1.00
ACGTcount: A:0.37, C:0.36, G:0.06, T:0.21
Consensus pattern (125 bp):
AACACAAAAACACATAAAAAAGTCCATTCCCATAGCTCCCTACGGCTCCCAAAAAAAACACCTCC
AAACACTCCCTCCTTGGTCACTACACAACTCCAACCCATCTCTACCCATACTATCACCTA
Found at i:63211 original size:20 final size:22
Alignment explanation
Indices: 63171--63218 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
63161 TTGCCTTCGA
*
63171 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
63193 CCATGCA-TTTTTAAC-ATG-T
1 CCATGCATTTTTTAACTATGTT
63212 CCA-GCAT
1 CCATGCAT
63219 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 4 0.17
20 3 0.12
21 7 0.29
22 7 0.29
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:67024 original size:13 final size:13
Alignment explanation
Indices: 67006--67031 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66996 CAATTTTTTG
67006 TGTATCGATACAT
1 TGTATCGATACAT
67019 TGTATCGATACAT
1 TGTATCGATACAT
67032 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:67046 original size:32 final size:33
Alignment explanation
Indices: 66986--67050 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
66976 TACGAGCCAA
** *
66986 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
67019 TGTATCGATAC-ATACTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
67051 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:67701 original size:19 final size:18
Alignment explanation
Indices: 67677--67737 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
67667 CGATACAATA
67677 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
67696 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
67709 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
67728 TATCGATACA
1 TATCGATACA
67738 ATGTAAGCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:67712 original size:13 final size:13
Alignment explanation
Indices: 67694--67718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67684 ACATAAGTGT
67694 TGTATCGATACAA
1 TGTATCGATACAA
67707 TGTATCGATACA
1 TGTATCGATACA
67719 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:67740 original size:32 final size:32
Alignment explanation
Indices: 67651--67742 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 32
67641 TAGATCTTGA
*
67651 ACATAAAGTGTTGTATCGATACAATATATCGAT
1 ACAT-AAGTGTTGTATCGATACAATGTATCGAT
67684 ACATAAGTGTTGTATCGATACAATGTATCGAT
1 ACATAAGTGTTGTATCGATACAATGTATCGAT
*
67716 ACATAAGTTTTGTATCGATACAATGTA
1 ACATAAGTGTTGTATCGATACAATGTA
67743 AGCTACTGCC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 53 0.93
33 4 0.07
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (32 bp):
ACATAAGTGTTGTATCGATACAATGTATCGAT
Found at i:67856 original size:52 final size:52
Alignment explanation
Indices: 67813--67941 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
67803 CACTGATCTT
67813 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
67865 TGCATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
67917 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
67942 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:71764 original size:20 final size:20
Alignment explanation
Indices: 71739--71793 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
71729 TTTTCACAAT
* *
71739 TTGTATTGATACATTGTTCA
1 TTGTATCGATACATTATTCA
*
71759 TTGTATCGATGCATTATTCA
1 TTGTATCGATACATTATTCA
*
71779 TTGTATCGATGCATT
1 TTGTATCGATACATT
71794 CTAGGTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGTATCGATACATTATTCA
Found at i:74295 original size:79 final size:79
Alignment explanation
Indices: 74110--74497 Score: 491
Period size: 79 Copynumber: 4.9 Consensus size: 79
74100 ATTCATGTTT
* * * * * *
74110 TTATTTCCGAGGGGATACTCGAACCCCAGTTTTATTTCTAAAACACTAATTTTTCATAA-TAGGG
1 TTATTTCTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTAATTTTTCATAATTAGGG
*
74174 ATACTCCAA-CCCG
66 ATACTCCAACCCCA
* * *
74187 TTATTTCTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACATTAATTTTTCACAATTGGGG
1 TTATTTCTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTAATTTTTCATAATTAGGG
74252 ATACTCCAACCCCA
66 ATACTCCAACCCCA
* *
74266 TTATTTCTG-AGGGAATACTCCAACCTCGGTTTTATTTCCAAAACACTAGTTTTTCATAATTAAG
1 TTATTTCTGAAGGG-ATACTCCAACCTCGGTTTTATTTCCAAAACACTAATTTTTCATAATTAGG
* *
74330 GAAACTCCAACCCCG
65 GATACTCCAACCCCA
* * *
74345 TTATTTC-GAAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACTAATTTTTCATAA-TCGA
1 TTATTTCTGAA-GGGATACTCCAACCTCGGTTTTATTTCCAAAACACTAATTTTTCATAATTAGG
*
74408 GATACTCCAACCCTA
65 GATACTCCAACCCCA
* * * * * *
74423 TTATTT-TCGAAGGGATACTCTAACCTCGATTTTATTTCCAAAATACCAATTTTTCACAATCAGG
1 TTATTTCT-GAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTAATTTTTCATAATTAGG
74487 GATACTCCAAC
65 GATACTCCAAC
74498 TCTGATTTTA
Statistics
Matches: 269, Mismatches: 34, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
77 51 0.19
78 79 0.29
79 136 0.51
80 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (79 bp):
TTATTTCTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTAATTTTTCATAATTAGGG
ATACTCCAACCCCA
Found at i:74461 original size:157 final size:158
Alignment explanation
Indices: 74110--74497 Score: 511
Period size: 157 Copynumber: 2.5 Consensus size: 158
74100 ATTCATGTTT
* * * * *
74110 TTATTTCCGAGGGGATACTCGAACC-CCAGTTTTATTTCTAAAACACTAATTTTTCATAA-TAGG
1 TTATTTTCGAAGGGATACTCCAACCTCGA-TTTTATTTCCAAAACACTAATTTTTCATAATTAGG
*
74173 GATACTCCAA-CCCGTTATTTCTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACATTAAT
65 GATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTAAT
* *
74237 TTTTCACAATTGGGGATACTCCAACCCCA
130 TTTTCACAATTCGAGATACTCCAACCCCA
* * *
74266 TTA-TTTCTG-AGGGAATACTCCAACCTCGGTTTTATTTCCAAAACACTAGTTTTTCATAATTAA
1 TTATTTTC-GAAGGG-ATACTCCAACCTCGATTTTATTTCCAAAACACTAATTTTTCATAATTAG
* *
74329 GGAAACTCCAACCCCGTTATTTC-GAAGGGGATACTCCAACCTCGGTTTTATTTTCAAAACACTA
64 GGATACTCCAACCCCGTTATTTCTGAA-GGGATACTCCAACCTCGGTTTTATTTCCAAAACACTA
* *
74393 ATTTTTCATAA-TCGAGATACTCCAACCCTA
128 ATTTTTCACAATTCGAGATACTCCAACCCCA
* * * * *
74423 TTATTTTCGAAGGGATACTCTAACCTCGATTTTATTTCCAAAATACCAATTTTTCACAATCAGGG
1 TTATTTTCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACACTAATTTTTCATAATTAGGG
74488 ATACTCCAAC
66 ATACTCCAAC
74498 TCTGATTTTA
Statistics
Matches: 200, Mismatches: 24, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
155 6 0.03
156 42 0.21
157 88 0.44
158 64 0.32
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (158 bp):
TTATTTTCGAAGGGATACTCCAACCTCGATTTTATTTCCAAAACACTAATTTTTCATAATTAGGG
ATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCTCGGTTTTATTTCCAAAACACTAATT
TTTCACAATTCGAGATACTCCAACCCCA
Found at i:74493 original size:51 final size:52
Alignment explanation
Indices: 74433--74549 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 52
74423 TTATTTTCGA
* * *
74433 AGGGATACTCTAACCTC-GATTTTATTTCCAAAATACCAATTTTTCACAATC
1 AGGGATACTCCAACCTCTGATTTTATTTCCAAAACACCAAATTTTCACAATC
*
74484 AGGGATACTCCAA-CTCTGATTTTATTTTCAAAACACCAAATTTTCACAATC
1 AGGGATACTCCAACCTCTGATTTTATTTCCAAAACACCAAATTTTCACAATC
*
74535 GGGGATACTCCAACC
1 AGGGATACTCCAACC
74550 CCTTTATTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
50 3 0.05
51 55 0.93
52 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (52 bp):
AGGGATACTCCAACCTCTGATTTTATTTCCAAAACACCAAATTTTCACAATC
Found at i:74567 original size:79 final size:78
Alignment explanation
Indices: 74484--74747 Score: 262
Period size: 79 Copynumber: 3.3 Consensus size: 78
74474 TTTCACAATC
* * * *
74484 AGGGATACTCCAACTCTGATTTTATTTTCAAAACACCAAATTTTCACAATCGGGGATACTCCAAC
1 AGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAATTTTCAAAATCGGGGATACTCTAA-
74549 CCCTTTATTT-TCGA
65 CCCTTTATTTCT-GA
* * * *
74563 AGGGATACTTCAACCCCGATTTTATTTCCAAAACA-CTAATTTTCCAAAATCAGGGATACTCTAA
1 AGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAATTTT-CAAAATCGGGGATACTCTAA
*
74627 TCCCGTTATTTCTGA
65 -CCCTTTATTTCTGA
* * * * * * * *** *
74642 GGGGATACTCCAGCCCCGGTTTTATTTTTAACACACTAATTTTTCATTCTCGGGGATACTCTTAC
1 AGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAATTTTCAAAATCGGGGATACTCTAAC
74707 CCTATTATTTCTGA
66 CCT-TTATTTCTGA
* * *
74721 AAGGATACTTCAACCCTGATTTTATTT
1 AGGGATACTCCAACCCCGATTTTATTT
74748 CCAACATCGA
Statistics
Matches: 149, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
78 10 0.07
79 133 0.89
80 6 0.04
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (78 bp):
AGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAAATTTTCAAAATCGGGGATACTCTAAC
CCTTTATTTCTGA
Found at i:74588 original size:130 final size:129
Alignment explanation
Indices: 74356--74623 Score: 389
Period size: 130 Copynumber: 2.1 Consensus size: 129
74346 TATTTCGAAG
* * * *
74356 GGGATACTCCAACCTCGGTTTTATTTTCAAAACACTAATTTTTCATAATCGAGATACTCCAACCC
1 GGGATACTCCAACCTCGATTTTATTTTCAAAACACCAAATTTTCACAATCGAGATACTCCAACCC
* * * *
74421 TATTATTTTCGAAGGGATACTCTAACCTCGATTTTATTTCCAAAATACCAATTTTTCACAATCA
66 TATTATTTTCGAAGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCAAAATCA
*
74485 GGGATACTCCAA-CTCTGATTTTATTTTCAAAACACCAAATTTTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAACCTC-GATTTTATTTTCAAAACACCAAATTTTCACAATC-GAGATACTCCAA-
*
74549 CCCT-TTATTTTCGAAGGGATACT-TCAACCCCGATTTTATTTCCAAAACACTAATTTTCCAAAA
63 CCCTATTATTTTCGAAGGGATACTCT-AACCCCGATTTTATTTCCAAAACACCAATTTTCCAAAA
74612 TCA
127 TCA
74615 GGGATACTC
1 GGGATACTC
74624 TAATCCCGTT
Statistics
Matches: 125, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
128 3 0.02
129 43 0.34
130 75 0.60
131 4 0.03
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (129 bp):
GGGATACTCCAACCTCGATTTTATTTTCAAAACACCAAATTTTCACAATCGAGATACTCCAACCC
TATTATTTTCGAAGGGATACTCTAACCCCGATTTTATTTCCAAAACACCAATTTTCCAAAATCA
Found at i:77516 original size:79 final size:78
Alignment explanation
Indices: 77387--78046 Score: 526
Period size: 79 Copynumber: 8.4 Consensus size: 78
77377 AAAATATCGA
* * * * * * *
77387 TTTTCTACCATCGCGGACAGTCCAACCACGTTATTTTTGAGGCGAAACTCCAACCACAATTTTAT
1 TTTTC-ACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-CAATTTTAT
77452 TTCTAAAACACTGAT
64 TTCTAAAACACTGAT
*
77467 TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATT
1 TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC-AATTTTATT
*
77532 TCTAGAACACTGA-
65 TCTAAAACACTGAT
** * * * * * * * * * **
77545 TTTTGGCCATCAGGGATACCCCAAGCCCATTATTTCCAAAGGAATACTCTAACCCTGGTTTTATT
1 TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC-AATTTTATT
* * *
77610 TATAGAACA-TCAAT
65 TCTAAAACACT-GAT
* ** * * * *
77624 TTTTCACTATCAAGGATACTCTAACCTCGCTATTTTCGAGGGGATACTCTAACCCCAATTTTATT
1 TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCAATTTTATT
*
77689 TTTAAAACACTGAT
65 TCTAAAACACTGAT
* * * **
77703 TTTTCACCATCGGGGATACTCTAACCCCGTTA-TTTCTGAGAGTATACTCCAACCTCGGTTTTAT
1 TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACC-CAATTTTAT
* *
77767 TCCTAAAACA-TCAAT
64 TTCTAAAACACT-GAT
* ** * * * *
77782 TTTCCACCATCGGGGATACTCCAATGCTGTTATTTCCAAGGGTATACTCCAACCCCAATTTTA-T
1 TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCAATTTTATT
*
77846 TCATAAAACATTGAT
65 TC-TAAAACACTGAT
* ** * * * *
77861 TTTCCACCATCAAGGATACTCCAACCCTGTTATTTTCGAGAGGATACTCTAACCTCGATTTTATT
1 TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-CAATTTTATT
*
77926 TCTAAAACACCGAT
65 TCTAAAACACTGAT
* * * * *
77940 TTTCCACCATCGGGGACACTCCAACTCCATTA-TTTCTGAGGGGATACTCCAACCCTATTTTTAT
1 TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCC-AATTTTAT
* *
78004 TT-TCAAAATA-TCAAT
64 TTCT-AAAACACT-GAT
* * *
78019 TTCTCACCATTGGGGATACTCTAACCCC
1 TTTTCACCATCGGGGATACTCCAACCCC
78047 ATTTTTATCT
Statistics
Matches: 464, Mismatches: 98, Indels: 37
0.77 0.16 0.06
Matches are distributed among these distances:
77 1 0.00
78 80 0.17
79 365 0.79
80 18 0.04
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (78 bp):
TTTTCACCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCAATTTTATTT
CTAAAACACTGAT
Found at i:78004 original size:237 final size:236
Alignment explanation
Indices: 77407--78049 Score: 701
Period size: 237 Copynumber: 2.7 Consensus size: 236
77397 TCGCGGACAG
* * * * * *
77407 TCCAACCACGTTATTTTTGAG-GCGAAACTCCAACCACAATTTTATTTCTAAAACACTGATTTTT
1 TCCAACCTCGCTATTTTCGAGAG-GATACTCTAACCCCAATTTTATTTCTAAAACACTGATTTTT
*
77471 CACCATCGGGGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCTGATTTTATTTCT
65 CACCATCGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCTCATTTTA-TTCT
* * ** * * *
77535 AGAACA-CTGATTTT-GGCCATCAGGGATACCCCAAGCCCATTATTTCCAAAGGAATACTCTAAC
128 AAAACATC-AATTTTCCACCATCGGGGATACTCCAAGCCCATTATTTCCAAAGGAATACTCCAAC
*** * * * *
77598 CCTGGTTTTATTTATAGAACATCAATTTTTCACTATCAAGGATAC
192 CCCAATTTTATTCATAAAACATCAATTTTCCACCATCAAGGATAC
* * *
77643 TCTAACCTCGCTATTTTCGAGGGGATACTCTAACCCCAATTTTATTTTTAAAACACTGATTTTTC
1 TCCAACCTCGCTATTTTCGAGAGGATACTCTAACCCCAATTTTATTTCTAAAACACTGATTTTTC
* * * *
77708 ACCATCGGGGATACTCTAACCCCGTTATTTCTGAGAGTATACTCCAA-CCTCGGTTTTATTCCTA
66 ACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTC-ATTTTATT-CTA
** * *
77772 AAACATCAATTTTCCACCATCGGGGATACTCCAATG-CTGTTATTTCCAAGGGTATACTCCAACC
129 AAACATCAATTTTCCACCATCGGGGATACTCCAA-GCCCATTATTTCCAAAGGAATACTCCAACC
**
77836 CCAATTTTATTCATAAAACATTGATTTTCCACCATCAAGGATAC
193 CCAATTTTATTCATAAAACATCAATTTTCCACCATCAAGGATAC
* * * * *
77880 TCCAACC-CTGTTATTTTCGAGAGGATACTCTAACCTCGATTTTATTTCTAAAACACCGATTTTC
1 TCCAACCTC-GCTATTTTCGAGAGGATACTCTAACCCCAATTTTATTTCTAAAACACTGATTTTT
* * * *
77944 CACCATCGGGGACACTCCAACTCCATTATTTCTGAGGGGATACTCCAACCCT-ATTTTTATTTTC
65 CACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTCA-TTTTATTCT-
* * * *
78008 AAAATATCAA-TTTCTCACCATTGGGGATACTCTAACCCCATT
128 AAAACATCAATTTTC-CACCATCGGGGATACTCCAAGCCCATT
78050 TTTATCTCCA
Statistics
Matches: 339, Mismatches: 55, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
235 5 0.01
236 120 0.35
237 210 0.62
238 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (236 bp):
TCCAACCTCGCTATTTTCGAGAGGATACTCTAACCCCAATTTTATTTCTAAAACACTGATTTTTC
ACCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTCATTTTATTCTAAA
ACATCAATTTTCCACCATCGGGGATACTCCAAGCCCATTATTTCCAAAGGAATACTCCAACCCCA
ATTTTATTCATAAAACATCAATTTTCCACCATCAAGGATAC
Found at i:80059 original size:44 final size:44
Alignment explanation
Indices: 80009--80151 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 44
79999 GTTGGATTAG
*
80009 ACCCTAGTCAAACTTTTATCATTTT-AGTTT-AATGTATGGTTACC
1 ACCCTAGTCAAACTTTTCTCATTTTGA-TTTGAA-GTATGGTTACC
* * * * *
80053 ACCCTAGTTAGATTTTTCTTATTCTGATTTGAAGTATGGTTACC
1 ACCCTAGTCAAACTTTTCTCATTTTGATTTGAAGTATGGTTACC
** *
80097 ACCCTAGTCAAACTTTTCTCATTTCAATTCGGACA-TATGGTTACC
1 ACCCTAGTCAAACTTTTCTCATTTTGATT-TGA-AGTATGGTTACC
*
80142 ACCCTGGTCA
1 ACCCTAGTCA
80152 GATTCTTTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
44 55 0.69
45 24 0.30
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (44 bp):
ACCCTAGTCAAACTTTTCTCATTTTGATTTGAAGTATGGTTACC
Found at i:81010 original size:19 final size:19
Alignment explanation
Indices: 80982--81031 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
80972 CTTTTCAAGG
*
80982 TGTATTGATACTATA-AACA
1 TGTATCGATACTA-ACAACA
*
81001 TGTATCGATACTAAGCAATA
1 TGTATCGATACTAA-CAACA
81021 TGTATCGATAC
1 TGTATCGATAC
81032 ATCTGGGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 12 0.44
20 14 0.52
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (19 bp):
TGTATCGATACTAACAACA
Found at i:81372 original size:44 final size:45
Alignment explanation
Indices: 81322--81565 Score: 238
Period size: 44 Copynumber: 5.5 Consensus size: 45
81312 GATCCTAACA
81322 GTATGGTTACCACCCTAGTCAAATGCCTTTCCTTTCT-ATTTGAT
1 GTATGGTTACCACCCTAGTCAAATGCCTTTCCTTTCTGATTTGAT
*
81366 GTATGGTTACCACCCTAGTCATATG-CTTCTCCTTT-TGATTTGAT
1 GTATGGTTACCACCCTAGTCAAATGCCTT-TCCTTTCTGATTTGAT
* * * * *
81410 GTATGGTTACCACCCTGGTCATAT-CCATTTTCTTTCT-ATTTAAC
1 GTATGGTTACCACCCTAGTCAAATGCC-TTTCCTTTCTGATTTGAT
* * * *
81454 GTATGGTTACCACCCTAGTCAAA--CTTTTCTCATTT-TGGTCTGAC
1 GTATGGTTACCACCCTAGTCAAATGCCTTTC-C-TTTCTGATTTGAT
* * * * *
81498 ATATGGTTACCACCGTGGTCAGATG-C-TTCTTATTCTGATTTGAT
1 GTATGGTTACCACCCTAGTCAAATGCCTTTCCT-TTCTGATTTGAT
81542 GTATGGTTACCACCCTAGTCAAAT
1 GTATGGTTACCACCCTAGTCAAAT
81566 CTCTTTTCTT
Statistics
Matches: 163, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
42 4 0.02
43 9 0.06
44 147 0.90
45 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (45 bp):
GTATGGTTACCACCCTAGTCAAATGCCTTTCCTTTCTGATTTGAT
Found at i:81471 original size:88 final size:87
Alignment explanation
Indices: 81322--81570 Score: 286
Period size: 88 Copynumber: 2.8 Consensus size: 87
81312 GATCCTAACA
* *
81322 GTATGGTTACCACCCTAGTCAAATGCCTTTCCTTTCTATTTGATGTATGGTTACCACCCTAGTCA
1 GTATGGTTACCACCCTGGTCAAAT-CCTTTTCTTTCTATTTGATGTATGGTTACCACCCTAGTCA
* * * *
81387 TA-TGCTTCTCCTTTTGATTTGAT
65 AACT-CTTCTCATTTTGATCTGAC
* * *
81410 GTATGGTTACCACCCTGGTCATATCCATTTTCTTTCTATTTAACGTATGGTTACCACCCTAGTCA
1 GTATGGTTACCACCCTGGTCAAATCC-TTTTCTTTCTATTTGATGTATGGTTACCACCCTAGTCA
* *
81475 AACTTTTCTCATTTTGGTCTGAC
65 AACTCTTCTCATTTTGATCTGAC
* * * * *
81498 ATATGGTTACCACCGTGGTCAGATGCTTCTT-ATTCTGATTTGATGTATGGTTACCACCCTAGTC
1 GTATGGTTACCACCCTGGTCAAATCCTT-TTCTTTCT-ATTTGATGTATGGTTACCACCCTAGTC
81562 AAATCTCTT
64 AAA-CTCTT
81571 TTCTTCCTGT
Statistics
Matches: 137, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
87 8 0.06
88 124 0.91
89 5 0.04
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (87 bp):
GTATGGTTACCACCCTGGTCAAATCCTTTTCTTTCTATTTGATGTATGGTTACCACCCTAGTCAA
ACTCTTCTCATTTTGATCTGAC
Found at i:81584 original size:44 final size:43
Alignment explanation
Indices: 81322--81594 Score: 219
Period size: 44 Copynumber: 6.2 Consensus size: 43
81312 GATCCTAACA
* * * *
81322 GTATGGTTACCACCCTAGTCAAATGCCTTTCCTTTCTATTTGAT
1 GTATGGTTACCACCCTAGTCAAATGCTTTTTC-TTCTGTTTGAC
* * * * *
81366 GTATGGTTACCACCCTAGTCATATGCTTCTCCTTTTGATTTGAT
1 GTATGGTTACCACCCTAGTCAAATGCTTTTTCTTCTG-TTTGAC
* * * * * *
81410 GTATGGTTACCACCCTGGTCATATCCATTTTCTTTCTATTTAAC
1 GTATGGTTACCACCCTAGTCAAATGCTTTTTC-TTCTGTTTGAC
* *
81454 GTATGGTTACCACCCTAGTCAAA--CTTTTCTCATTTTGGTCTGAC
1 GTATGGTTACCACCCTAGTCAAATGCTTTT-TC-TTCT-GTTTGAC
* * * * * * *
81498 ATATGGTTACCACCGTGGTCAGATGCTTCTTATTCTGATTTGAT
1 GTATGGTTACCACCCTAGTCAAATGCTTTTTCTTCTG-TTTGAC
81542 GTATGGTTACCACCCTAGTCAAAT-CTCTTTTCTTCCTGTTTGAC
1 GTATGGTTACCACCCTAGTCAAATGCT-TTTTCTT-CTGTTTGAC
*
81586 ATATGGTTA
1 GTATGGTTA
81595 TTGTAGACAC
Statistics
Matches: 181, Mismatches: 39, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
42 4 0.02
43 11 0.06
44 155 0.86
45 7 0.04
46 4 0.02
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.41
Consensus pattern (43 bp):
GTATGGTTACCACCCTAGTCAAATGCTTTTTCTTCTGTTTGAC
Found at i:81878 original size:20 final size:21
Alignment explanation
Indices: 81838--81884 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
81828 TTCTATGATT
*
81838 TGTATCGATACAATTAGTGAA
1 TGTATCGATACAATAAGTGAA
*
81859 TGTATTGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
*
81879 AGTATC
1 TGTATC
81885 AAAACATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:81969 original size:20 final size:20
Alignment explanation
Indices: 81940--81991 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
81930 GTTAAAAAAT
* **
81940 TGTATGGATACATAAGTAAA
1 TGTATCGATACATAACCAAA
**
81960 TGTATCGATACATTTCCAAA
1 TGTATCGATACATAACCAAA
81980 TGTATCGATACA
1 TGTATCGATACA
81992 ATTTACTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAACCAAA
Found at i:83006 original size:20 final size:21
Alignment explanation
Indices: 82967--83006 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
82957 CAGCCCTTGA
* *
82967 TCATGCATTTTTTGCTATGTT
1 TCATGCACTTTTAGCTATGTT
82988 TCATGCACTTTTAGC-ATGT
1 TCATGCACTTTTAGCTATGT
83007 CCAGCATCCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (21 bp):
TCATGCACTTTTAGCTATGTT
Found at i:84777 original size:33 final size:33
Alignment explanation
Indices: 84739--84804 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
84729 TAAAGTACCC
* *
84739 ATGTATCGACACAAAGAACTCAATATCGATACA
1 ATGTATCAACACAAAGAACGCAATATCGATACA
* * *
84772 ATGTATCAATACTAAGAACGCAGTATCGATACA
1 ATGTATCAACACAAAGAACGCAATATCGATACA
84805 TCTGGGCTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.23
Consensus pattern (33 bp):
ATGTATCAACACAAAGAACGCAATATCGATACA
Found at i:91452 original size:44 final size:44
Alignment explanation
Indices: 91360--91674 Score: 202
Period size: 44 Copynumber: 7.2 Consensus size: 44
91350 GATCCTAACA
* * * * *
91360 GTATCGTTACCACCCTGGTCAAATCCCTTTCCT-TTCTG-TTTGAT
1 GTATGGTTACCACCTTGGTCAAAT-CC-TTCTTATTTTGATTTGAC
* *
91404 GTATGGTTACTACCTTGGT-AAGATGCTTCTTATTTTGATTTGAC
1 GTATGGTTACCACCTTGGTCAA-ATCCTTCTTATTTTGATTTGAC
* * *
91448 GTATGGTTACCACC-TGGTCAAATCCCTTTCCT-TTCT-ATTTGAT
1 GTATGGTTACCACCTTGGTCAAAT-CC-TTCTTATTTTGATTTGAC
* * * * *
91491 GTATGGTTGCCACCTTGGTCAAA-CTTTTCTCATTTCGATCTGAC
1 GTATGGTTACCACCTTGGTCAAATC-CTTCTTATTTTGATTTGAC
* * * * * * * **
91535 ATATGGTTACCACCTTGGTTAGATGCTTCTCAATCTGATTTGGT
1 GTATGGTTACCACCTTGGTCAAATCCTTCTTATTTTGATTTGAC
*
91579 GTATGGTTACCACCCTGGTCAAATCCCTCTCTT-TTTTG-TTTGAC
1 GTATGGTTACCACCTTGGTCAAAT-CCT-TCTTATTTTGATTTGAC
* * * *
91623 GTATGGTTACCACCCTGCTCAAATCTCTT-TTCTTCCTG-TTTGAC
1 GTATGGTTACCACCTTGGTCAAATC-CTTCTTATT-TTGATTTGAC
91667 GTATGGTT
1 GTATGGTT
91675 CTTATAGACA
Statistics
Matches: 211, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
42 10 0.05
43 38 0.18
44 151 0.72
45 9 0.04
46 3 0.01
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (44 bp):
GTATGGTTACCACCTTGGTCAAATCCTTCTTATTTTGATTTGAC
Found at i:91540 original size:87 final size:87
Alignment explanation
Indices: 91365--91549 Score: 257
Period size: 87 Copynumber: 2.1 Consensus size: 87
91355 TAACAGTATC
* *
91365 GTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGATGTATGGTTACTACCTTGGTAAGATGC
1 GTTACCA-CCTGGTCAAATCCCTTTCCTTTCTATTTGATGTATGGTTACCACCTTGGTAAGATGC
* * * *
91430 TTCTTATTTTGATTTGACGTATG
65 TTCTCATTTCGATCTGACATATG
*
91453 GTTACCACCTGGTCAAATCCCTTTCCTTTCTATTTGATGTATGGTTGCCACCTTGGTCAA-ACT-
1 GTTACCACCTGGTCAAATCCCTTTCCTTTCTATTTGATGTATGGTTACCACCTTGGT-AAGA-TG
*
91516 TTTCTCATTTCGATCTGACATATG
64 CTTCTCATTTCGATCTGACATATG
91540 GTTACCACCT
1 GTTACCACCT
91550 TGGTTAGATG
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
87 77 0.89
88 10 0.11
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (87 bp):
GTTACCACCTGGTCAAATCCCTTTCCTTTCTATTTGATGTATGGTTACCACCTTGGTAAGATGCT
TCTCATTTCGATCTGACATATG
Found at i:91671 original size:88 final size:87
Alignment explanation
Indices: 91360--91674 Score: 309
Period size: 88 Copynumber: 3.6 Consensus size: 87
91350 GATCCTAACA
* *
91360 GTATCGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGATGTATGGTTACTACCTTGGT-A
1 GTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGATGTATGGTTACCACCTTGGTCA
*
91424 AGATGCTTCTTATTTTGATTTGAC
66 A-ATCCTTCTT-TTTTGATTTGAC
* *
91448 GTATGGTTACCA-CCTGGTCAAATCCCTTTCCTTTCTATTTGATGTATGGTTGCCACCTTGGTCA
1 GTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGATGTATGGTTACCACCTTGGTCA
* * * *
91512 AA-CTTTTCTCATTTCGATCTGAC
66 AATC-CTTCT-TTTTTGATTTGAC
* * * * * ** * *
91535 ATATGGTTACCACCTTGGTTAGAT-GC-TTCTCAATCTGATTTGGTGTATGGTTACCACCCTGGT
1 GTATGGTTACCACCCTGGTCAAATCCCTTTC-CTTTCTG-TTTGATGTATGGTTACCACCTTGGT
91598 CAAATCCCTCTCTTTTTTG-TTTGAC
64 CAAAT-CCT-TCTTTTTTGATTTGAC
* * * * *
91623 GTATGGTTACCACCCTGCTCAAATCTCTTTTCTTCCTGTTTGACGTATGGTT
1 GTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGATGTATGGTT
91675 CTTATAGACA
Statistics
Matches: 180, Mismatches: 36, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
86 3 0.02
87 78 0.43
88 83 0.46
89 10 0.06
90 6 0.03
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (87 bp):
GTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGATGTATGGTTACCACCTTGGTCA
AATCCTTCTTTTTTGATTTGAC
Found at i:91959 original size:20 final size:21
Alignment explanation
Indices: 91920--91967 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
91910 TTTATGATTG
* *
91920 GTATCGATACAATTAGTGAAT
1 GTATCGATACAATAAGTGAAA
*
91941 GTATTGATAC-ATAAGTGAAA
1 GTATCGATACAATAAGTGAAA
91961 GTATCGA
1 GTATCGA
91968 AACATGTCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (21 bp):
GTATCGATACAATAAGTGAAA
Found at i:92050 original size:20 final size:20
Alignment explanation
Indices: 92021--92072 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
92011 GTCAAAAAAT
* *
92021 TGTATTGATACATAAGTAAA
1 TGTATCGATACATAAGGAAA
**
92041 TGTATCGATACATTTGGAAA
1 TGTATCGATACATAAGGAAA
92061 TGTATCGATACA
1 TGTATCGATACA
92073 ATTTTCTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATAAGGAAA
Found at i:94971 original size:44 final size:44
Alignment explanation
Indices: 94852--94992 Score: 153
Period size: 44 Copynumber: 3.2 Consensus size: 44
94842 CAATAATTAT
* * * *
94852 CACCTTGGTTAAACTTTTCTTAGTTTAGTCTGACGTATGGTTAC
1 CACCTTGGTTAAACTTTTCTTAGTTCAATTTGACATATGGTTAC
* * * * *
94896 CACCCTAGTCAAATCCCTTTTC-T--TTCTATTTGATATATGGTTAC
1 CACCTTGGTTAAA---CTTTTCTTAGTTCAATTTGACATATGGTTAC
94940 CACCTTGGTTAAACTTTTCTTAGTTCAATTTGACATATGGTTAC
1 CACCTTGGTTAAACTTTTCTTAGTTCAATTTGACATATGGTTAC
94984 CACCTTGGT
1 CACCTTGGT
94993 CAGATTCTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
41 6 0.08
42 1 0.01
44 63 0.82
46 1 0.01
47 6 0.08
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (44 bp):
CACCTTGGTTAAACTTTTCTTAGTTCAATTTGACATATGGTTAC
Found at i:95894 original size:13 final size:13
Alignment explanation
Indices: 95853--95901 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
95843 CCGTGACAAG
95853 CAATGTATCGATA
1 CAATGTATCGATA
*
95866 AAAT-T-TC-AT-
1 CAATGTATCGATA
95875 C-ATGTATCGATA
1 CAATGTATCGATA
95887 CAATGTATCGATA
1 CAATGTATCGATA
95900 CA
1 CA
95902 TTGTCCCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.07
9 1 0.03
10 4 0.14
11 4 0.14
12 2 0.07
13 16 0.55
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:95920 original size:33 final size:34
Alignment explanation
Indices: 95853--95922 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
95843 CCGTGACAAG
*
95853 CAATGTATCGATAAAATTTCATCATGTATCGATA
1 CAATGTATCGATAAAATTTCACCATGTATCGATA
* *
95887 CAATGTATCGAT-ACATTGTC-CCATGTATTGATA
1 CAATGTATCGATAAAATT-TCACCATGTATCGATA
95920 CAA
1 CAA
95923 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 18 0.56
34 14 0.44
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (34 bp):
CAATGTATCGATAAAATTTCACCATGTATCGATA
Found at i:95977 original size:20 final size:19
Alignment explanation
Indices: 95951--96023 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
95941 CTGTCAGTTT
*
95951 CATGTATCGATACAATTG-T
1 CATGTATCGATACAA-TGAG
95970 CTATGTATCGATACAATGAG
1 C-ATGTATCGATACAATGAG
*
95990 CATGTATCGATACAAAGCAG
1 CATGTATCGATACAATG-AG
*
96010 TATGTATCGATACA
1 CATGTATCGATACA
96024 TCTGGAAGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:96512 original size:18 final size:18
Alignment explanation
Indices: 96475--96508 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96465 CCCCCTTAAA
*
96475 TAAAAAAATCTCTCCTCT
1 TAAAAAAATCTCTCCCCT
96493 TAAAAAAAT-TCTCCCC
1 TAAAAAAATCTCTCCCC
96509 CTTACTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAAATCTCTCCCCT
Found at i:104598 original size:21 final size:21
Alignment explanation
Indices: 104572--104626 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
104562 GTTAGAAGCA
*
104572 ATGTATCGATACAATT-TCGTC
1 ATGTATCGATACAATTGTC-CC
104593 ATGTATCGATAC-ATTGTCCC
1 ATGTATCGATACAATTGTCCC
104613 ATGTATCGATACAA
1 ATGTATCGATACAA
104627 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTGTCCC
Found at i:104723 original size:20 final size:20
Alignment explanation
Indices: 104656--104727 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
104646 TTCCAGTTTC
*
104656 ATGTATCGATACAATTGT-CT
1 ATGTATCGATACAA-TGTAGT
*
104676 ATGTATCGATACAATG-AGC
1 ATGTATCGATACAATGTAGT
* *
104695 ATATATCGATACAAAGTAGT
1 ATGTATCGATACAATGTAGT
104715 ATGTATCGATACA
1 ATGTATCGATACA
104728 TCTGGAAGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.36
20 28 0.64
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGTAGT
Found at i:105291 original size:42 final size:42
Alignment explanation
Indices: 105113--105305 Score: 105
Period size: 42 Copynumber: 4.7 Consensus size: 42
105103 ATCCTTAGTT
* * * * *
105113 TGCCTGTCGGCTTTGACCTTGGAAACTTTTTTAT-CTTTTGTC
1 TGCCTATCAGCTTTGACCTGGGAGACTTTTTT-TCCCTTTGTC
** * * * * *
105155 TGCCCGTCAACCTTGA-CTCGGGAGAC-TTCTTTACCTTTACTC
1 TGCCTATCAGCTTTGACCT-GGGAGACTTTTTTTCCCTTT-GTC
** * *
105197 TGCC-AGTCAGCTTTGA-CTTTG-GA-TTTTTTTCCCTCTATC
1 TGCCTA-TCAGCTTTGACCTGGGAGACTTTTTTTCCCTTTGTC
**
105236 TG-CTAGTTTGCTTTGACCTGGGAGACTTTTTTTCCCTTTGTC
1 TGCCTA-TCAGCTTTGACCTGGGAGACTTTTTTTCCCTTTGTC
* *
105278 TGCCTATCAGCTTTAACTTGGGAGACTT
1 TGCCTATCAGCTTTGACCTGGGAGACTT
105306 CTTTGTCTTT
Statistics
Matches: 113, Mismatches: 28, Indels: 20
0.70 0.17 0.12
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 15 0.13
41 13 0.12
42 67 0.59
43 3 0.03
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (42 bp):
TGCCTATCAGCTTTGACCTGGGAGACTTTTTTTCCCTTTGTC
Found at i:106147 original size:24 final size:24
Alignment explanation
Indices: 106120--106172 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
106110 CAAACGGAAA
* * *
106120 AAATAACATGCAAATTAAAGCAGT
1 AAATAACAAGAAAATTAAAGCAGC
**
106144 AAATGGCAAGAAAATTAAAGCAGC
1 AAATAACAAGAAAATTAAAGCAGC
106168 AAATA
1 AAATA
106173 GTAAAGTCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (24 bp):
AAATAACAAGAAAATTAAAGCAGC
Found at i:106925 original size:35 final size:36
Alignment explanation
Indices: 106851--106945 Score: 126
Period size: 36 Copynumber: 2.7 Consensus size: 36
106841 ATCTTCCAAA
* *
106851 AAACAACAAAGAAAAAATGAGAGAAAGTAACAATCG
1 AAACAACAAAGAAAAAAAGAGAGAAAGCAACAATCG
106887 AAACAACAAAGAAAAAAAGAGAGAAAGCATA-AAT-G
1 AAACAACAAAGAAAAAAAGAGAGAAAGCA-ACAATCG
*
106922 AAACAA-TAAGAAAAAAAGA-AGAAA
1 AAACAACAAAGAAAAAAAGAGAGAAA
106946 ATGGAACCGA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
33 5 0.09
34 12 0.22
35 7 0.13
36 30 0.55
37 1 0.02
ACGTcount: A:0.69, C:0.08, G:0.16, T:0.06
Consensus pattern (36 bp):
AAACAACAAAGAAAAAAAGAGAGAAAGCAACAATCG
Found at i:107487 original size:21 final size:21
Alignment explanation
Indices: 107474--107539 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
107464 TAATATGATG
107474 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
*
107495 GGCATGG-A-AT---GATG--
1 GGCATGGAATATAAAAATGAA
107509 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
107530 GGCATGGAAT
1 GGCATGGAAT
107540 GATGGGCATG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
14 7 0.19
15 1 0.03
16 5 0.14
19 5 0.14
20 1 0.03
21 17 0.47
ACGTcount: A:0.44, C:0.06, G:0.30, T:0.20
Consensus pattern (21 bp):
GGCATGGAATATAAAAATGAA
Found at i:107564 original size:34 final size:34
Alignment explanation
Indices: 107427--107612 Score: 277
Period size: 35 Copynumber: 5.4 Consensus size: 34
107417 TAAAAAAAAA
*
107427 CATGGAATGATGGGCATGAAATAAAAAAATGAAGG
1 CATGGAATGATGGGCATGGAAT-AAAAAATGAAGG
*
107462 CAT-AATATGATGGGCATGGAATATAAAAATGAAGG
1 CATGGA-ATGATGGGCATGGAATA-AAAAATGAAGG
107497 CATGGAATGATGGGCATGGAATATAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATA-AAAAATGAAGG
107532 CATGGAATGATGGGCATGGAATAAAAAATGAAGG
1 CATGGAATGATGGGCATGGAATAAAAAATGAAGG
* *
107566 CAT-AATATGATGGGCATGGAATAAAAATTGAAGG
1 CATGGA-ATGATGGGCATGGAATAAAAAATGAAGG
107600 CATGGAATGATGG
1 CATGGAATGATGG
107613 ATAAAGATGA
Statistics
Matches: 140, Mismatches: 6, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
33 1 0.01
34 53 0.38
35 85 0.61
36 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.30, T:0.20
Consensus pattern (34 bp):
CATGGAATGATGGGCATGGAATAAAAAATGAAGG
Found at i:108912 original size:79 final size:79
Alignment explanation
Indices: 108820--109326 Score: 800
Period size: 79 Copynumber: 6.4 Consensus size: 79
108810 GTTAAGTTTC
*
108820 TCAATTTTTCACAATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
108885 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * *
108899 TTAATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
108964 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
108978 CCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
109043 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * * *
109057 TTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGCT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
109122 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * * * *
109136 TCAATTTTTCATAATCGGGGATACTCCAATCCCGTTATTTTCCAGGGGATACTCTAACCCCAGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
109201 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* * *
109215 CCAATTTTTCATAATCGGGGATACTCCAACCTCGTTATTTTCGA-GGGATACTCCAACCCCGGTT
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
*
109279 TTATTTCTAAAATA
66 TTATTTCTAAAACA
*
109293 TTAATTTTTCACAATCGGGGATACTCCAACCCCG
1 TCAATTTTTCACAATCGGGGATACTCCAACCCCG
109327 GTTTTATTTC
Statistics
Matches: 390, Mismatches: 38, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
78 61 0.16
79 329 0.84
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:109323 original size:51 final size:51
Alignment explanation
Indices: 109259--109386 Score: 202
Period size: 51 Copynumber: 2.5 Consensus size: 51
109249 TTATTTTCGA
* *
109259 GGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCG
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCG
*
109310 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCG
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCG
* * *
109361 GGGATAATCTAACCCCGATTTTATTT
1 GGGATACTCCAACCCCGGTTTTATTT
109387 TTTAGAACAC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (51 bp):
GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCG
Found at i:109408 original size:51 final size:51
Alignment explanation
Indices: 109259--109422 Score: 186
Period size: 51 Copynumber: 3.2 Consensus size: 51
109249 TTATTTTCGA
* * * * * *
109259 GGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCG
1 GGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCG
* * *
109310 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCG
1 GGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCG
* * * **
109361 GGGATAATCTAACCCCGATTTTATTTTTTAGAACA-CCGTTTTCCATAATCG
1 GGGATACTCTAACCCCGATTTTA-TTTCTAAAACATCAATTTTCCATAATCG
109412 GGGATACTCTA
1 GGGATACTCTA
109423 GCCCTGTTGT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
51 91 0.91
52 9 0.09
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (51 bp):
GGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCG
Found at i:110643 original size:46 final size:46
Alignment explanation
Indices: 110538--110632 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
110528 AATAATAAGG
* *
110538 ATAGAAAAGATGTAAATATAACCATACCTTAAGTCATTGTTCAAAT
1 ATAGAAAAGATTTACATATAACCATACCTTAAGTCATTGTTCAAAT
110584 ATAGAAAAGATTTACATATAACCATACCTTAAGTCATTGTTCAAAT
1 ATAGAAAAGATTTACATATAACCATACCTTAAGTCATTGTTCAAAT
110630 ATA
1 ATA
110633 TAACTTATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (46 bp):
ATAGAAAAGATTTACATATAACCATACCTTAAGTCATTGTTCAAAT
Found at i:111524 original size:28 final size:28
Alignment explanation
Indices: 111430--111629 Score: 256
Period size: 28 Copynumber: 6.9 Consensus size: 28
111420 CTTTTTTACC
111430 CAGTGGCACCCTTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
* * *
111458 CAGTGGCATACCTTTTCAAAACCCACACAAAT
1 CAGTGGC--ACCCTTTC-AAAGCC-CACAAGT
111490 CAGTGGCACCCTTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
* *
111518 CAATGGCATCCTTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
*
111546 CAGTGGCACCCTTTTCACAGCCCACAAGT
1 CAGTGGCACCC-TTTCAAAGCCCACAAGT
* *
111575 CAGTGGTACCCCTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGT
*
111603 TAGTGGCATCCCTTTTCAAAGCCCACA
1 CAGTGGCA-CCC-TTTCAAAGCCCACA
111630 CAAGTTGGTG
Statistics
Matches: 148, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
28 69 0.47
29 34 0.23
30 27 0.18
31 5 0.03
32 13 0.09
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.20
Consensus pattern (28 bp):
CAGTGGCACCCTTTCAAAGCCCACAAGT
Found at i:111591 original size:57 final size:56
Alignment explanation
Indices: 111430--111629 Score: 256
Period size: 57 Copynumber: 3.4 Consensus size: 56
111420 CTTTTTTACC
* * *
111430 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACCTTTTCAAAACCCACACAAAT
1 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGG--TACCCTTTC-AAAGCC-CACAAGT
* * *
111490 CAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGT
1 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGT
* *
111546 CAGTGGCACCCTTTTCACAGCCCACAAGTCAGTGGTACCCCTTCAAAGCCCACAAGT
1 CAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGT
*
111603 TAGTGGCATCCCTTTTCAAAGCCCACA
1 CAGTGGCA-CCC-TTTCAAAGCCCACA
111630 CAAGTTGGTG
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
56 17 0.14
57 52 0.42
58 23 0.18
60 33 0.26
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.20
Consensus pattern (56 bp):
CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGTACCCTTTCAAAGCCCACAAGT
Found at i:111844 original size:48 final size:48
Alignment explanation
Indices: 111777--111994 Score: 303
Period size: 48 Copynumber: 4.5 Consensus size: 48
111767 GGCACCTTTA
*
111777 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTATCCATTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTTCCC
* *
111825 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCA-CTTTCTCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTTC-CC
* * * *
111873 TTAGCTCAATTTCGCTGGCCTTAAATCAGCACATTGTCCACTTTTCCT
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTTCCC
* * * *
111921 TTAACTCAATGTCACTGGCCTTAAATCATCACATTGTCCATTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTTCCC
* *
111969 TTAGCTCGATGTCGTTGGCCTTGAAT
1 TTAGCTCAATGTCGCTGGCCTTGAAT
111995 TGGCATATTG
Statistics
Matches: 149, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
47 4 0.03
48 141 0.95
49 4 0.03
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.37
Consensus pattern (48 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTTCCC
Found at i:112783 original size:20 final size:20
Alignment explanation
Indices: 112758--112923 Score: 107
Period size: 20 Copynumber: 7.8 Consensus size: 20
112748 TTTTACCCAG
112758 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
* * *
112778 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTTA
112798 ATGTATCGATACATTCTGTCTTTTTACCCAA
1 ATGTATCGATACA-----T-TTTTT-----A
* * *
112829 ATGTATCGGTACAGTTTTCA
1 ATGTATCGATACATTTTTTA
* * *
112849 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTTA
* *
112869 ATGTATCGATACATTGTTCA
1 ATGTATCGATACATTTTTTA
* *
112889 ATGTATCGATACATTCTATA
1 ATGTATCGATACATTTTTTA
*
112909 ATGTATCGATCCATT
1 ATGTATCGATACATT
112924 CTGTCTTTTT
Statistics
Matches: 113, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
20 93 0.82
25 5 0.04
26 2 0.02
31 13 0.12
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTA
Found at i:112863 original size:71 final size:71
Alignment explanation
Indices: 112747--112883 Score: 238
Period size: 71 Copynumber: 1.9 Consensus size: 71
112737 AAAAATTATA
* * *
112747 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
112812 TCTGTC
66 TCTGTC
*
112818 TTTTTACCCAAATGTATCGGTACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
112883 T
66 T
112884 GTTCAATGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (71 bp):
TTTTTACCCAAATGTATCGATACAGTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTGTC
Found at i:112889 original size:40 final size:39
Alignment explanation
Indices: 112828--112923 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 39
112818 TTTTTACCCA
* *
112828 AATGTATCGGTACAGTTTTCAATGTATCGATACA-TGTAT
1 AATGTATCGATACA-TTTTCAATGTATCGATACATTCTAT
112867 GAATGTATCGATACATTGTTCAATGTATCGATACATTCTAT
1 -AATGTATCGATACATT-TTCAATGTATCGATACATTCTAT
*
112908 AATGTATCGATCCATT
1 AATGTATCGATACATT
112924 CTGTCTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
39 2 0.04
40 45 0.88
41 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.39
Consensus pattern (39 bp):
AATGTATCGATACATTTTCAATGTATCGATACATTCTAT
Found at i:122355 original size:17 final size:15
Alignment explanation
Indices: 122335--122385 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
122325 TTAGGTAAAA
122335 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
122352 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
* *
122366 AA-AAAGAAAAAAAA
1 AAGAAAGAAAGAAAG
122380 AAGAAA
1 AAGAAA
122386 AAAATATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:122386 original size:17 final size:17
Alignment explanation
Indices: 122332--122387 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
122322 GGGTTAGGTA
* *
122332 AAAAAGAAAGAAAGAAG
1 AAAAAGAAAAAAAAAAG
** * *
122349 ATGAAGAAGAAAGAAAG
1 AAAAAGAAAAAAAAAAG
122366 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
122383 AAAAA
1 AAAAA
122388 AATATGAAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:127621 original size:51 final size:51
Alignment explanation
Indices: 127554--127669 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
127544 AAATAACGGG
* * * * *
127554 GTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAACCGGA
1 GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGA
* * *
127605 GTTGGAATATCTCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGA
* *
127656 GTTAGAGTATCCCC
1 GTTGGAATATCCCC
127670 TCGAAAATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAACCGGA
Found at i:127622 original size:122 final size:124
Alignment explanation
Indices: 127356--127746 Score: 423
Period size: 122 Copynumber: 3.1 Consensus size: 124
127346 AATGGGGCTA
*
127356 GAGTATCCCCGATTATGAAAAATTGGTGTTCTAGAAATAAAAATCGGGGTTGGAGTATCCCCTCG
1 GAGTATCCTCGATTATGAAAAATT-G-G-T-T--AAAT-AAAATCGGGGTTGGAGTATCCCCTCG
* * ** * *
127421 AAAATAACAGGGTTGGAGTATCCCTGATTAT-AGAAAATCCGTATTTTGAAAATAAAATCGGAGT
59 AAAATAACAGGGTTGGAGTATCCCCGATTGTGAG-AAATTGGTGTTTTGGAAATAAAATCGGAGT
127485 TG
123 TG
* * *
127487 GAGTATCCTCGATTGTGGAAAATTGG-T-AATAAAGTCGGGGTTGGAGTATCCCCTC-AGAAATA
1 GAGTATCCTCGATTATGAAAAATTGGTTAAATAAAATCGGGGTTGGAGTATCCCCTCGA-AAATA
* *
127549 ACGGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAACCGGAGTTG
65 ACAGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTG
* *
127609 GAATAT-CTCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCG
1 GAGTATCCT-CGATTATGAAAAATTGG----TT--AAATAAAATCGGGGTTGGAGTATCCCCTCG
* * * * * *
127673 AAAATAACAGGATTAGAGTATCCCCGATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTT
59 AAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTT
127738 G
124 G
127739 GAGTATCC
1 GAGTATCC
127747 CCTCGAAAAT
Statistics
Matches: 221, Mismatches: 26, Indels: 26
0.81 0.10 0.10
Matches are distributed among these distances:
121 3 0.01
122 98 0.44
123 5 0.02
126 1 0.00
127 1 0.00
129 1 0.00
130 89 0.40
131 23 0.10
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (124 bp):
GAGTATCCTCGATTATGAAAAATTGGTTAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAA
CAGGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTG
Found at i:127748 original size:79 final size:79
Alignment explanation
Indices: 127612--127779 Score: 248
Period size: 79 Copynumber: 2.1 Consensus size: 79
127602 GGAGTTGGAA
* *
127612 TATCTCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAA
1 TATCCCCGATTATGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAA
127677 TAAC-AGGATTAGAG
66 TAACGA-GATTAGAG
* * * * *
127691 TATCCCCGATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGGGTTGGAGTATCCCCTCGAAAA
1 TATCCCCGATTATGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAA
*
127756 TAACGAGATTGGAG
66 TAACGAGATTAGAG
127770 TATCCCCGAT
1 TATCCCCGAT
127780 GACATAACAG
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 79 0.99
80 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (79 bp):
TATCCCCGATTATGAAAAACTGGTATTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAA
TAACGAGATTAGAG
Found at i:127805 original size:107 final size:107
Alignment explanation
Indices: 127652--128071 Score: 400
Period size: 107 Copynumber: 3.9 Consensus size: 107
127642 GAAATAAAAT
* * * * * **
127652 CGGGGTTAGAGTATCCCC--TCGAAAATAACAGGATTAGAGTATCCCCGATTGTGAAAAACTGGT
1 CGGGGTTGGAGTATCCCCGAT-G-AAATAACAGGGTTGGAGTACCCCCGATTATGAAAAA-TAAT
* * * *
127715 GTTTTGGGA-ATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAA
63 ATTTTGAGATATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
* * * *
127759 CGAGATTGGAGTATCCCCGATGACATAACAGGGTTGGAGTACCCCCGATTATGAACAATCAATAT
1 CGGGGTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTACCCCCGATTATGAAAAAT-AATAT
* *
127824 TTT-AGATATAAAGCCGGGGTTAGAGTATCCCCTCGGAAATAA
65 TTTGAGATATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
* * * * *
127866 TGGGGTGGGAATATCCTCGATGAAATAACGGGGTTGGAGTACCCCCCGATTATGAAAAAAATAAT
1 CGGGGTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTA-CCCCCGATTATG--AAAAATAAT
* * *
127931 ATTTTTAGATATAAAGCCGGGGTTGGAGTATCCTCTCGGAAATAA
63 ATTTTGAGATATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
** * * * * ** *
127976 CGGGGTTGGAGTATCCCCGATGAAATAATGGGGTTGGAGTATCCCCAATTGTGCAAAATTGGTGT
1 CGGGGTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTACCCCCGATTATG-AAAAATAATAT
* * *
128041 TTTG-GAAATAAAATCGGAGTTGGAGTATCCC
65 TTTGAGATATAAAACCGGGGTTGGAGTATCCC
128072 TGATTACGGT
Statistics
Matches: 258, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
106 3 0.01
107 136 0.53
108 23 0.09
109 18 0.07
110 78 0.30
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCGATGAAATAACAGGGTTGGAGTACCCCCGATTATGAAAAATAATATT
TTGAGATATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
Found at i:127972 original size:110 final size:107
Alignment explanation
Indices: 127731--128021 Score: 413
Period size: 110 Copynumber: 2.7 Consensus size: 107
127721 GGAATAAAAT
* * * * *
127731 CGGGGTTGGAGTATCCCCTCGAAAATAACGAGATTGGAGTATCCCCGATGACATAACAGGGTTGG
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGG
*
127796 AGTACCCCCGATTATGAACAATCAATATTTTAGATATAAAGC
66 AGTACCCCCGATTATGAAAAATCAATATTTTAGATATAAAGC
* * * * *
127838 CGGGGTTAGAGTATCCCCTCGGAAATAATGGGGTGGGAATATCCTCGATGAAATAACGGGGTTGG
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGG
127903 AGTACCCCCCGATTATGAAAAAAAT-AATATTTTTAGATATAAAGC
66 AGTA-CCCCCGATTATG--AAAAATCAATA-TTTTAGATATAAAGC
* *
127948 CGGGGTTGGAGTATCCTCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAATGGGGTTGG
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGG
*
128013 AGTATCCCC
66 AGTACCCCC
128022 AATTGTGCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
107 59 0.37
108 12 0.07
109 8 0.05
110 82 0.51
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGG
AGTACCCCCGATTATGAAAAATCAATATTTTAGATATAAAGC
Found at i:127988 original size:28 final size:27
Alignment explanation
Indices: 127948--128021 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
127938 GATATAAAGC
127948 CGGGGTTGGAGTATCCTCTCG-GAAATAA
1 CGGGGTTGGAGTATCC-C-CGAGAAATAA
127976 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGA-GAAATAA
*
128004 TGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
128022 AATTGTGCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 40 0.93
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGAAATAA
Found at i:130440 original size:20 final size:19
Alignment explanation
Indices: 130415--130571 Score: 110
Period size: 20 Copynumber: 7.8 Consensus size: 19
130405 AAAATGCCTG
*
130415 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
130435 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
130455 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
130475 AATGTATCGATACATCTAGGTAGACCCA
1 AATGTATCGATACA---A--T-GA---A
130503 GAATGTATCGATAC------
1 -AATGTATCGATACAATGAA
*
130517 AATGTATCGATGCAATGAA
1 AATGTATCGATACAATGAA
130536 CAATGTATCGATACAATGAA
1 -AATGTATCGATACAATGAA
130556 CAATGTATCGATACAA
1 -AATGTATCGATACAA
130572 ATTGTGAAAA
Statistics
Matches: 113, Mismatches: 5, Indels: 38
0.72 0.03 0.24
Matches are distributed among these distances:
13 12 0.11
19 1 0.01
20 81 0.72
21 1 0.01
23 1 0.01
25 2 0.02
26 1 0.01
28 1 0.01
29 13 0.12
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:130571 original size:13 final size:13
Alignment explanation
Indices: 130504--130533 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
130494 GTAGACCCAG
130504 AATGTATCGATAC
1 AATGTATCGATAC
*
130517 AATGTATCGATGC
1 AATGTATCGATAC
130530 AATG
1 AATG
130534 AACAATGTAT
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:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:131234 original size:41 final size:40
Alignment explanation
Indices: 131179--131278 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 40
131169 GCACTTTTTA
*
131179 AGGACAAAGG-AAAAGAGAATGAAA-TAGGTCTTGCTCCTTG
1 AGGACAAAGGAAAAAGAGAAGGAAAGTA--TCTTGCTCCTTG
* * *
131219 AGGATAAAGGAAAAAGGAAAAGGAAAGTATCTTGCTCTTTG
1 AGGACAAAGGAAAAA-GAGAAGGAAAGTATCTTGCTCCTTG
131260 AGGACAAAGTGAAAAAGAG
1 AGGACAAAG-GAAAAAGAG
131279 TACGTCCTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
40 9 0.18
41 25 0.50
42 14 0.28
43 2 0.04
ACGTcount: A:0.45, C:0.09, G:0.28, T:0.18
Consensus pattern (40 bp):
AGGACAAAGGAAAAAGAGAAGGAAAGTATCTTGCTCCTTG
Found at i:131342 original size:44 final size:42
Alignment explanation
Indices: 131281--131389 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 42
131271 AAAAAGAGTA
*
131281 CGTCCTACT-TTTCGAGGACAAAGGAAAAAAAGGAAAACGAAA-TG
1 CGTCCTGCTCTTT-GAGGACAAA--AAAAAAAGGAAAA-GAAAGTG
* * *
131325 CGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAAAAAAAGGAAAAGAAAGTG
*
131367 CGTCATGCTCTTTGAGGACAAAA
1 CGTCCTGCTCTTTGAGGACAAAA
131390 GGGAAAAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 3 0.05
42 35 0.60
44 17 0.29
45 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (42 bp):
CGTCCTGCTCTTTGAGGACAAAAAAAAAAGGAAAAGAAAGTG
Found at i:131521 original size:61 final size:60
Alignment explanation
Indices: 131436--131764 Score: 358
Period size: 61 Copynumber: 5.6 Consensus size: 60
131426 GATAAAAGAG
* * * *
131436 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* **
131497 GAAAAGAAAAGGCATCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGCACTTT
1 -AAAAGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
* ** * *
131559 -----AAAAGGCGTCCTGCTCTTTGAGGGTTGGAAAA-TGCCACCAACTTGTGTGGGTTTT
1 AAAAGAAAAGGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
*
131614 AAAAAGAAAAGGCATACTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
** *
131675 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
*
131736 -----AAAAGGCGTCCTGCTCTTTGAGGACTAAA
1 AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAA
131765 GGGTGAAAGG
Statistics
Matches: 228, Mismatches: 28, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
55 46 0.20
56 26 0.11
60 7 0.03
61 121 0.53
62 28 0.12
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (60 bp):
AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:131576 original size:117 final size:116
Alignment explanation
Indices: 131442--131740 Score: 370
Period size: 117 Copynumber: 2.5 Consensus size: 116
131432 AGAGAAAAGG
* * *
131442 AAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAA
* *
131507 GGCATCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGCACTTT-
65 GGCATACTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGCACTTTA
** * *
131559 AAAAGGCGTCCTGCTCTTTGAGGGTTGGAAAA-TGCCACCAACTTGTGTGGGTTTTAAAAAGAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAA
**
131623 AGGCATACTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAA
64 AGGCATACTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGCACTTT---A
* *
131679 GGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAAC-CTGTGTGGGCTTTAAAAG
1 --AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTC-GTGTGGGCTTTAAAAG
131741 GCGTCCTGCT
Statistics
Matches: 155, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
116 21 0.14
117 78 0.50
118 4 0.03
121 9 0.06
122 43 0.28
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (116 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAG
GCATACTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGCACTTTA
Found at i:131659 original size:178 final size:177
Alignment explanation
Indices: 131436--131758 Score: 506
Period size: 178 Copynumber: 1.8 Consensus size: 177
131426 GATAAAAGAG
* * *
131436 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAGGCTTTGAAA
1 AAAAAGAAAAGGCATACTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAGGCTTT-AAA
* *
131501 A-GAAAAGGCATCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGCACTTTAAAAGG
65 AGGAAAAGGCATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACCTGTGTGCACTTTAAAAGG
131565 CGTCCTGCTCTTTGAGGGTTGGAAAATGCCACCAACTTGTGTGGGTTTT
129 CGTCCTGCTCTTTGAGGGTTGGAAAATGCCACCAACTTGTGTGGGTTTT
* * *
131614 AAAAAGAAAAGGCATACTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAA
1 AAAAAGAAAAGGCATACTACTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTAGGCTTTAAA
* **
131678 AGGAAAAGGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACCTGTGTGGGCTTTAAAAGGC
65 AGGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACCTGTGTGCACTTTAAAAGGC
131743 GTCCTGCTCTTTGAGG
130 GTCCTGCTCTTTGAGG
131759 ACTAAAGGGT
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
177 52 0.39
178 76 0.58
179 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (177 bp):
AAAAAGAAAAGGCATACTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAGGCTTTAAAA
GGAAAAGGCATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACCTGTGTGCACTTTAAAAGGCG
TCCTGCTCTTTGAGGGTTGGAAAATGCCACCAACTTGTGTGGGTTTT
Found at i:131872 original size:61 final size:59
Alignment explanation
Indices: 131783--132265 Score: 473
Period size: 61 Copynumber: 8.3 Consensus size: 59
131773 GGAGAGAGAG
*
131783 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGAACGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-GAACGCA
* * *
131844 TCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG--CG--
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAACGCA
* * *
131899 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGG--CG--
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAACGCA
* * * *
131954 TCCTGCTTTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAACGCA
* * *
132015 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAA-G---GCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAACGCA
* ** * * * **
132070 TCCTGCTCTCTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACT--GGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAACGCA
* * * *
132133 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-GAACGCA
* *
132194 TCCTACTTTTTGAGGAC--GAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG--CG--
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAACGCA
132248 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
132266 AAAGGGTGAA
Statistics
Matches: 357, Mismatches: 47, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
54 19 0.05
55 108 0.30
56 5 0.01
57 26 0.07
58 5 0.01
59 8 0.02
60 30 0.08
61 134 0.38
62 4 0.01
63 18 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAACGCA
Found at i:132024 original size:116 final size:117
Alignment explanation
Indices: 131782--132265 Score: 489
Period size: 116 Copynumber: 4.2 Consensus size: 117
131772 AGGAGAGAGA
** *
131782 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGAACGCATCA
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA---G-A-GCATCC
* *
131847 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGGC
61 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
* * * *
131898 GTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAG-GCGTCCTGCTT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGCATCCTGCTC
* *
131962 TTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
66 TTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
* * ** *
132014 ATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAG-GCATCCTGCTC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGCATCCTGCTC
* * * * *
132078 TCTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAATGT
66 TTTGAGGACT--AGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
*
132132 GTCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATC
1 GTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG--AGCATC
* * * *
132196 CTACTTTTTGAGGACGAG-AAGTGCCACCAACTTGTGTGGGCTTT-AAAAG-----GC
60 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
132247 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
132266 AAAGGGTGAA
Statistics
Matches: 312, Mismatches: 39, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
109 5 0.02
110 39 0.12
113 1 0.00
115 21 0.07
116 115 0.37
117 1 0.00
118 74 0.24
119 3 0.01
120 8 0.03
121 27 0.09
122 1 0.00
124 17 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (117 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGCATCCTGCTC
TTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
Found at i:132392 original size:504 final size:503
Alignment explanation
Indices: 131445--132780 Score: 2021
Period size: 504 Copynumber: 2.7 Consensus size: 503
131435 GAAAAGGAAA
* * * * * *
131445 AGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAGGC
1 AGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
** ** ** *
131510 ATCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGCACTTTAAAAGGCGTCCTGCTC
66 ATCCTACTCTTTGAGGACT-GGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTC
* *** * * * *
131575 TTTGAGG-GT-TGGAAAATGCCACCAACTTGTGTGGGTTTTAAAAAGAAAAGGCATACTGCTCTT
130 TTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GCGTCCTGCTCTT
**
131638 TGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG-GAAAAGGCATCCTGCTCTTTGA
194 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAG-AAAGGCATCCTGCTCTTTGA
*
131702 GGACTGGAAAGTGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
258 GGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
*
131767 GTGAAAGGAGAGAGAGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAA
322 GTGAAAGGAGAGAGAGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
131832 AAGGTGAACGCATCATGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
387 AAGGAGAAAGCATCATGCCCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
* *
131897 CGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAG
452 CATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAC
* * *
131949 AGGCGTCCTGCTTTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGC
1 AGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
*
132014 ATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGCATCCTGCTCT
66 ATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
* *
132079 CTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAATGTGTCCTGCTCTTT
131 TTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-GCGTCCTGCTCTTT
* * *
132144 GAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GCATCCTACTTTTTGAG
195 GAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAAGGCATCCTGCTCTTTGAG
132208 GAC-GAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
259 GACTG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
* *
132272 TGAAAGGAGAGAGCGTCCTGCTTTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
323 TGAAAGGAGAGAGAGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAA
* *
132337 AGGAGAAAGCATCTTGCCCTTTGAGGACTGGAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGC
388 AGGAGAAAGCATCATGCCCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
* * *
132402 ATCTTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAAC
453 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAC
* *
132453 AGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCGCCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
1 AGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
*
132518 GTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
66 ATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
132583 TTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG----GCGTCCTGCTCTTTG
131 TTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCCTGCTCTTTG
*
132643 AGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-AGAAAAGGCGTCCTGCTCTTTGAG
196 AGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAG-AAAGGCATCCTGCTCTTTGAG
* **
132706 GACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTAAAAAG
259 GACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
132771 TGAAAGGAGA
323 TGAAAGGAGA
132781 AAGTTTAGAT
Statistics
Matches: 759, Mismatches: 63, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
496 2 0.00
497 7 0.01
498 64 0.08
499 66 0.09
500 1 0.00
503 49 0.06
504 463 0.61
505 99 0.13
506 7 0.01
507 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (503 bp):
AGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
ATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
TTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGCGTCCTGCTCTTTG
AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGGCATCCTGCTCTTTGAGGA
CTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGA
AAGGAGAGAGAGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
AGAAAGCATCATGCCCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATC
CTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAC
Found at i:132712 original size:173 final size:173
Alignment explanation
Indices: 132284--132769 Score: 766
Period size: 173 Copynumber: 2.8 Consensus size: 173
132274 AAAGGAGAGA
* * *
132284 GCGTCCTGCTTTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA-GC
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAGGC
* * * * * * *
132347 ATCTTGCCCTTTGAGGACTGGAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCTTGCTCT
64 GTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
***
132412 TTGAGGA-T-TGGAAAATGCCACCAACTTGTGTGGGCTTTAACAG
129 TTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTAACAG
* *
132455 GTGTCCTGCTCTTTGAGGACTGAAAGGTGCCGCCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
*
132520 CCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
66 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
132585 GAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AG
131 GAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTT-AACAG
132628 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
132693 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
66 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
132758 GAGGACTAAAAA
131 GAGGACTAAAAA
132770 GTGAAAGGAG
Statistics
Matches: 291, Mismatches: 19, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
170 6 0.02
171 114 0.39
172 1 0.00
173 168 0.58
174 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (173 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGT
CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
GAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTAACAG
Found at i:132759 original size:116 final size:110
Alignment explanation
Indices: 132287--132764 Score: 530
Period size: 116 Copynumber: 4.2 Consensus size: 110
132277 GGAGAGAGCG
* *
132287 TCCTGCTTTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCT
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT-AAA--AG---GCATCC
* * *
132351 TGCCCTTTGAGGACTGGAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
59 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * * **
132403 TCTTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTAACAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
* *
132468 TGAGGACT-GAAAGGTGCCGCCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
66 TGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
* *
132519 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
** * * *
132584 TGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
66 TGAGGACT--GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
*
132631 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCATCC
*
132695 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
59 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
132747 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
132765 AAAAAGTGAA
Statistics
Matches: 310, Mismatches: 34, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
109 4 0.01
110 39 0.13
111 3 0.01
112 48 0.15
113 2 0.01
115 4 0.01
116 160 0.52
118 47 0.15
119 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (110 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
TGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:132772 original size:55 final size:55
Alignment explanation
Indices: 132287--132772 Score: 517
Period size: 55 Copynumber: 8.5 Consensus size: 55
132277 GGAGAGAGCG
* *
132287 TCCTGCTTTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTT-AAA--AG---GCA
* * * * *
132348 TCTTGCCCTTTGAGGACTGGAAATTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * **
132403 TCTTGCTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTAACAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * *
132458 TCCTGCTCTTTGAGGACTGAAAGGTGCCGCCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
* **
132519 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * *
132574 TCCTGCTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT--GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
132631 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
**
132692 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
*
132747 TCCTGCTCTTTGAGGACTAAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAAGTG
132773 AAAGGAGAAA
Statistics
Matches: 364, Mismatches: 44, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
54 4 0.01
55 164 0.45
56 4 0.01
57 49 0.13
58 2 0.01
60 2 0.01
61 139 0.38
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:134059 original size:13 final size:13
Alignment explanation
Indices: 134041--134066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
134031 CAATTTTTAG
134041 TGTATCGATACAT
1 TGTATCGATACAT
134054 TGTATCGATACAT
1 TGTATCGATACAT
134067 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:134081 original size:32 final size:33
Alignment explanation
Indices: 134021--134082 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
134011 TACACGCCAA
**
134021 TGTATCGATACAATTTTTAGTGTATCGATACAT
1 TGTATCGATACAATACTTAGTGTATCGATACAT
*
134054 TGTATCGATAC-ATACTTGGTGTATCGATA
1 TGTATCGATACAATACTTAGTGTATCGATA
134083 GAAGTTTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 15 0.58
33 11 0.42
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (33 bp):
TGTATCGATACAATACTTAGTGTATCGATACAT
Found at i:134814 original size:21 final size:21
Alignment explanation
Indices: 134773--134816 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
134763 CTCCCCTTTA
* *
134773 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
134794 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
134815 TC
1 TC
134817 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:136640 original size:13 final size:13
Alignment explanation
Indices: 136622--136659 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
136612 ATAATCACCC
136622 TGTATCGATACAA
1 TGTATCGATACAA
136635 TGTATCGATACAA
1 TGTATCGATACAA
136648 TGTATCGATACA
1 TGTATCGATACA
136660 TTGAATTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:138184 original size:13 final size:13
Alignment explanation
Indices: 138166--138191 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
138156 TACAGCAAGT
138166 ATGTATCGATACA
1 ATGTATCGATACA
138179 ATGTATCGATACA
1 ATGTATCGATACA
138192 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:140442 original size:21 final size:21
Alignment explanation
Indices: 140409--140453 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
140399 TTGCAAGTTG
*
140409 AAATAAGGAAGTTGGCTAATGA
1 AAATAAGGAAGTTAGCTAA-GA
*
140431 AAATAATG-AGTTAGCTAAGA
1 AAATAAGGAAGTTAGCTAAGA
140451 AAA
1 AAA
140454 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.22
Consensus pattern (21 bp):
AAATAAGGAAGTTAGCTAAGA
Found at i:142277 original size:15 final size:15
Alignment explanation
Indices: 142257--142287 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
142247 TAAAAATGTC
*
142257 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
142272 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
142287 C
1 C
142288 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:144359 original size:20 final size:20
Alignment explanation
Indices: 144290--144369 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
144280 AATGTCCAAA
*
144290 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* * *
144310 GTATATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
144335 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
144355 TTGTATCGATACATT
1 ATGTATCGATACATT
144370 GTATCGATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 30 0.64
24 1 0.02
25 16 0.34
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Done.