Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 168 of 255
Found at i:55088203 original size:22 final size:23
Alignment explanation
Indices: 55088166--55088238 Score: 80
Period size: 22 Copynumber: 3.2 Consensus size: 23
55088156 TTACGGTTAC
55088166 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
* *
55088189 TTCA-TGTT-TATAATATGA-TTAC
1 TTAAGTGTTCTA-AATA-GATTTAA
55088211 TTAAGTGTTCTAAATAGATTTAA
1 TTAAGTGTTCTAAATAGATTTAA
55088234 GTTAA
1 -TTAA
55088239 ATTTCAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
21 2 0.05
22 16 0.40
23 16 0.40
24 6 0.15
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.45
Consensus pattern (23 bp):
TTAAGTGTTCTAAATAGATTTAA
Found at i:55088219 original size:23 final size:23
Alignment explanation
Indices: 55088162--55088232 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
55088152 TAAATTACGG
55088162 TTACTTAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
* *
55088185 TTAATTCA-TGTT-TATAATATGA-
1 TTACTTAAGTGTTCTA-AATA-GAT
55088207 TTACTTAAGTGTTCTAAATAGAT
1 TTACTTAAGTGTTCTAAATAGAT
55088230 TTA
1 TTA
55088233 AGTTAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
21 2 0.05
22 16 0.41
23 19 0.49
24 2 0.05
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (23 bp):
TTACTTAAGTGTTCTAAATAGAT
Found at i:55088592 original size:21 final size:20
Alignment explanation
Indices: 55088568--55088606 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55088558 TTCTTTTATT
55088568 TATTTATAATTTGTTTATTAC
1 TATTTAT-ATTTGTTTATTAC
*
55088589 TATTTATGTTTGTTTATT
1 TATTTATATTTGTTTATT
55088607 TATAAGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.23, C:0.03, G:0.08, T:0.67
Consensus pattern (20 bp):
TATTTATATTTGTTTATTAC
Found at i:55094015 original size:21 final size:21
Alignment explanation
Indices: 55093989--55094029 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55093979 AGACGAGCAA
* *
55093989 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
55094010 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
55094030 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:55097592 original size:32 final size:32
Alignment explanation
Indices: 55097556--55097616 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
55097546 AGAAAATTAA
55097556 AAAATTTCTAAAATTTTAACACGATTGAAGCT
1 AAAATTTCTAAAATTTTAACACGATTGAAGCT
55097588 AAAATTTCTAAAATTTTAACACGATTGAA
1 AAAATTTCTAAAATTTTAACACGATTGAA
55097617 AATTAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.34
Consensus pattern (32 bp):
AAAATTTCTAAAATTTTAACACGATTGAAGCT
Found at i:55098132 original size:13 final size:13
Alignment explanation
Indices: 55098114--55098141 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55098104 AATTAAAATA
55098114 ATTCGCAGCATTT
1 ATTCGCAGCATTT
55098127 ATTCGCAGCATTT
1 ATTCGCAGCATTT
55098140 AT
1 AT
55098142 GGGAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTCGCAGCATTT
Found at i:55098181 original size:40 final size:41
Alignment explanation
Indices: 55098137--55098213 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
55098127 ATTCGCAGCA
* *
55098137 TTTATGGGAAAAA-ACTGCTATTGCTTTACCTTTTGCGGCG
1 TTTATGAGAAAAATACCGCTATTGCTTTACCTTTTGCGGCG
* * *
55098177 TTTATGAGAAAAATGCCGTTATTGCTTTACTTTTTGC
1 TTTATGAGAAAAATACCGCTATTGCTTTACCTTTTGC
55098214 AAACGCAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 12 0.39
41 19 0.61
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (41 bp):
TTTATGAGAAAAATACCGCTATTGCTTTACCTTTTGCGGCG
Found at i:55099771 original size:22 final size:23
Alignment explanation
Indices: 55099729--55099771 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
55099719 TATATGAGAT
*
55099729 TAGTTAAAATATTTTACATATGA
1 TAGTTAAAATAGTTTACATATGA
*
55099752 TAGTTAAATTAGTTTA-ATAT
1 TAGTTAAAATAGTTTACATAT
55099772 TAGTAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (23 bp):
TAGTTAAAATAGTTTACATATGA
Found at i:55101087 original size:26 final size:26
Alignment explanation
Indices: 55101054--55101106 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
55101044 TCAATCAAAG
55101054 AGTTAGAAACGAAATATATAATTAAA
1 AGTTAGAAACGAAATATATAATTAAA
55101080 AGTTAGAAACGAAATATATAATTAAA
1 AGTTAGAAACGAAATATATAATTAAA
55101106 A
1 A
55101107 CAAATGCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.58, C:0.04, G:0.11, T:0.26
Consensus pattern (26 bp):
AGTTAGAAACGAAATATATAATTAAA
Found at i:55104291 original size:24 final size:25
Alignment explanation
Indices: 55104245--55104292 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
55104235 ATTTTGGCAT
*
55104245 ATCTGAATCTGATATCTGTATCTAA
1 ATCTGAAACTGATATCTGTATCTAA
*
55104270 ATCTGAAACTGA-GTCTGTATCTA
1 ATCTGAAACTGATATCTGTATCTA
55104293 TTTCTGATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.38
Consensus pattern (25 bp):
ATCTGAAACTGATATCTGTATCTAA
Found at i:55105873 original size:23 final size:25
Alignment explanation
Indices: 55105843--55105888 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55105833 ATAGATAAAC
55105843 AATATA-TT-TCTTTATGATAATTA
1 AATATATTTATCTTTATGATAATTA
*
55105866 AATATATTTATTTTTATGATAAT
1 AATATATTTATCTTTATGATAAT
55105889 ATTTATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 2 0.10
25 12 0.60
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (25 bp):
AATATATTTATCTTTATGATAATTA
Found at i:55106933 original size:35 final size:35
Alignment explanation
Indices: 55106894--55106967 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
55106884 CTTAATATCG
55106894 AAACTCAATCAATTGAACTAAAATAGCCTTTTTAA
1 AAACTCAATCAATTGAACTAAAATAGCCTTTTTAA
55106929 AAACTCAATCAATTGAACTAAAATAGCCTTTTTAA
1 AAACTCAATCAATTGAACTAAAATAGCCTTTTTAA
55106964 AAAC
1 AAAC
55106968 ATATAATTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (35 bp):
AAACTCAATCAATTGAACTAAAATAGCCTTTTTAA
Found at i:55108540 original size:19 final size:20
Alignment explanation
Indices: 55108503--55108543 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
55108493 TACAATGCAA
*
55108503 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
55108523 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
55108542 TT
1 TT
55108544 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:55108906 original size:6 final size:6
Alignment explanation
Indices: 55108883--55108954 Score: 56
Period size: 6 Copynumber: 11.2 Consensus size: 6
55108873 AAGCTGTGGG
* * *
55108883 TTCTTCT TTCTTT CTCTTT TTCTTT TTCTTT CTTTTTGT TTCGTTT TGCTTTT
1 TTCTT-T TTCTTT TTCTTT TTCTTT TTCTTT -TTCTT-T TTC-TTT TTC-TTT
55108936 TTCTTT CTT-TTT TTCTTT T
1 TTCTTT -TTCTTT TTCTTT T
55108955 ATTACTATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
5 2 0.04
6 27 0.51
7 21 0.40
8 3 0.06
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:55110467 original size:41 final size:40
Alignment explanation
Indices: 55110422--55110640 Score: 285
Period size: 41 Copynumber: 5.4 Consensus size: 40
55110412 CGTTTTACCA
* * * * *
55110422 AAAACACCGCTAAAAATAGAGCAATAGCGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCG-CTTTTGGT
*
55110463 AAAACGCCGCTAAAAACAGAGTATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
* *
55110503 AAAACGCCGCTAAAAATCAGAGAATTAACGGCGCTTTTGGT
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGT
* *
55110544 AAAACACCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGA
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGT
* * *
55110585 AAAACGCCGCTAAAAACCAGAGCATTAGCGGTGCTTTCGAT
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTTGGT
55110626 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
55110641 GTCATATAAT
Statistics
Matches: 159, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 22 0.14
41 137 0.86
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTGGT
Found at i:55110743 original size:17 final size:17
Alignment explanation
Indices: 55110695--55110744 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
55110685 ACTAATCTAT
55110695 AACCCCTAAAACACT--A
1 AACCCCT-AAACACTAAA
*
55110711 AACCTCTAAATC-CTAAA
1 AACCCCTAAA-CACTAAA
55110728 AACCCCTAAACACTAAA
1 AACCCCTAAACACTAAA
55110745 CTATAACCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 5 0.18
16 8 0.29
17 15 0.54
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (17 bp):
AACCCCTAAACACTAAA
Found at i:55112298 original size:26 final size:26
Alignment explanation
Indices: 55112267--55112374 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
55112257 TAAAATTTCC
55112267 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
55112293 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
55112319 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
55112345 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
55112371 ATCA
1 ATCA
55112375 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55119379 original size:26 final size:26
Alignment explanation
Indices: 55119340--55119447 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
55119330 TAAAATTTCC
*
55119340 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
*
55119366 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
55119392 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55119418 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55119444 ATCA
1 ATCA
55119448 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55122582 original size:6 final size:6
Alignment explanation
Indices: 55122542--55122595 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
55122532 ATTTAATCTA
* *
55122542 ATTTTT ATTATTT A-TTTT AGTTTTG ATTCTAT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATT-TTT ATTTTT A-TTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
55122592 ATTT
1 ATTT
55122596 GATAATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 24 0.60
7 12 0.30
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:55122631 original size:20 final size:20
Alignment explanation
Indices: 55122606--55122650 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
55122596 GATAATGAAT
55122606 TTTAATAGAAAATTTTTATA
1 TTTAATAGAAAATTTTTATA
55122626 TTTAATAGAAAATTTTTATA
1 TTTAATAGAAAATTTTTATA
55122646 TTTAA
1 TTTAA
55122651 ATCATGGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTAATAGAAAATTTTTATA
Found at i:55129320 original size:40 final size:40
Alignment explanation
Indices: 55129261--55129448 Score: 295
Period size: 40 Copynumber: 4.7 Consensus size: 40
55129251 GAGCATTGGA
*
55129261 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTG
* *
55129301 ATATATCCGGGCTATGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTG
* * *
55129341 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTG
*
55129381 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTG
* *
55129421 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
55129449 ATGTGTTTGC
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTACGCAAGTTG
Found at i:55132872 original size:41 final size:40
Alignment explanation
Indices: 55132793--55132914 Score: 172
Period size: 41 Copynumber: 3.0 Consensus size: 40
55132783 TGATACTTTG
* *
55132793 CTCAAAAACGCCGCTGTTGCTTACCTTTTGCGGTGTTTTT
1 CTCATAAACGCCGCTATTGCTTACCTTTTGCGGTGTTTTT
*
55132833 CTCATAAACGCCGCTATTGCTTGACCTTTTGTGGTGTTTTT
1 CTCATAAACGCCGCTATTGCTT-ACCTTTTGCGGTGTTTTT
* * *
55132874 CTCATAAACGCAGCTACTGCTTTACCTATTGCGGTGTTTTT
1 CTCATAAACGCCGCTATTGC-TTACCTTTTGCGGTGTTTTT
55132915 TCGTTAGCGC
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 20 0.27
41 51 0.70
42 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (40 bp):
CTCATAAACGCCGCTATTGCTTACCTTTTGCGGTGTTTTT
Found at i:55133227 original size:17 final size:17
Alignment explanation
Indices: 55133205--55133239 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55133195 CTCCTCCATT
55133205 TGGTAAGATAACCAAAA
1 TGGTAAGATAACCAAAA
55133222 TGGTAAGATAACCAAAA
1 TGGTAAGATAACCAAAA
55133239 T
1 T
55133240 ACTTATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.20
Consensus pattern (17 bp):
TGGTAAGATAACCAAAA
Found at i:55137301 original size:19 final size:18
Alignment explanation
Indices: 55137258--55137301 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
55137248 TTTTTTATAT
*
55137258 TTTTGTAATATAATTTTTC
1 TTTT-TAATATAATTTTTA
55137277 TATTTTAATATAATTTTGTA
1 T-TTTTAATATAATTTT-TA
55137297 TTTTT
1 TTTTT
55137302 TAATTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTTAATATAATTTTTA
Found at i:55137776 original size:20 final size:22
Alignment explanation
Indices: 55137741--55137780 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
55137731 TCCTTCCGCA
55137741 ATAAAAATATTAATTAAATTGT
1 ATAAAAATATTAATTAAATTGT
55137763 ATAAAAA-A-TAATTAAATT
1 ATAAAAATATTAATTAAATT
55137781 AAACATCGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (22 bp):
ATAAAAATATTAATTAAATTGT
Found at i:55137986 original size:15 final size:16
Alignment explanation
Indices: 55137966--55138000 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
55137956 ATCAATTTAA
*
55137966 TTTAATTTTATATT-T
1 TTTAATATTATATTAT
55137981 TTTAATATTATATTAT
1 TTTAATATTATATTAT
55137997 TTTA
1 TTTA
55138001 TAAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATATTATATTAT
Found at i:55138220 original size:15 final size:17
Alignment explanation
Indices: 55138183--55138218 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
55138173 ACTACTTAAC
55138183 TTTTCAATATTTAATTT
1 TTTTCAATATTTAATTT
55138200 TTTTCAATATTT-ATTT
1 TTTTCAATATTTAATTT
55138216 TTT
1 TTT
55138219 CAGTTTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTCAATATTTAATTT
Found at i:55140879 original size:16 final size:16
Alignment explanation
Indices: 55140848--55140877 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55140838 ATTTTTACGA
55140848 TAAAATAATAATAAAT
1 TAAAATAATAATAAAT
55140864 TAAAAT-ATAATAAA
1 TAAAATAATAATAAA
55140878 ATAGTAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATAATAATAAAT
Found at i:55142276 original size:6 final size:6
Alignment explanation
Indices: 55142229--55142290 Score: 54
Period size: 6 Copynumber: 9.7 Consensus size: 6
55142219 CAATATATAC
* *
55142229 TTTTAT TTATAT TTATATAT ATTATTAT TTTT-T GTTTAAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TT-T-TAT -TT-TTAT TTTTAT -TTTTAT TTTTAT TTTTAT
55142281 TTTTAT TTTT
1 TTTTAT TTTT
55142291 TCAAACGTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
5 1 0.02
6 33 0.70
7 3 0.06
8 6 0.13
9 4 0.09
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:55144641 original size:105 final size:102
Alignment explanation
Indices: 55144532--55144728 Score: 254
Period size: 105 Copynumber: 1.9 Consensus size: 102
55144522 ACACTCGTAG
* ** *
55144532 TGCCATAACCCAGTTATGTTCTTATCA-TCAGGATGTCATAGCCCAGCTATGGTCTTAC-TCTTA
1 TGCCATAACCCAGTTATGGTCTTATCACT-AAAATGCCATAGCCCAGCTATGGTCTTACAT-TTA
*
55144595 GACATATATTGCCATGGTCCAACTATGGTCTTACATTCACGA
64 -ACA-AT-TTGCCATGGTCCAACCATGGTCTTACATTCACGA
* * *
55144637 TGCCATAACCTAGTTATGGTCTTTTCACTAAAATGCCATAGCCCAGTTATGGTCTTACATTTAAC
1 TGCCATAACCCAGTTATGGTCTTATCACTAAAATGCCATAGCCCAGCTATGGTCTTACATTTAAC
*
55144702 ACTTTGCCATGGTCCAACCATGGTCTT
66 AATTTGCCATGGTCCAACCATGGTCTT
55144729 GTTCGTCAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
102 23 0.28
103 1 0.01
104 3 0.04
105 52 0.64
106 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (102 bp):
TGCCATAACCCAGTTATGGTCTTATCACTAAAATGCCATAGCCCAGCTATGGTCTTACATTTAAC
AATTTGCCATGGTCCAACCATGGTCTTACATTCACGA
Found at i:55144655 original size:33 final size:32
Alignment explanation
Indices: 55144618--55144697 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
55144608 ATGGTCCAAC
** *
55144618 TATGGTCTTACATTCACGATGCCATAACCTAGT
1 TATGGTCTTACATT-AAAATGCCATAACCCAGT
* * *
55144651 TATGGTCTTTTCACTAAAATGCCATAGCCCAGT
1 TATGGTC-TTACATTAAAATGCCATAACCCAGT
55144684 TATGGTCTTACATT
1 TATGGTCTTACATT
55144698 TAACACTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
32 5 0.13
33 28 0.74
34 5 0.13
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (32 bp):
TATGGTCTTACATTAAAATGCCATAACCCAGT
Found at i:55149975 original size:13 final size:12
Alignment explanation
Indices: 55149959--55150001 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
55149949 TATATTTTTC
55149959 CTAAATATTATCA
1 CTAAATA-TATCA
55149972 CTAAATA-ATC-
1 CTAAATATATCA
55149982 CTAAATATAATCA
1 CTAAATAT-ATCA
55149995 CTAAATA
1 CTAAATA
55150002 ATTGTAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (12 bp):
CTAAATATATCA
Found at i:55150027 original size:23 final size:23
Alignment explanation
Indices: 55149959--55150033 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
55149949 TATATTTTTC
*
55149959 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATT
*
55149982 CTAAATATAATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
* *
55150005 GTAGATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
55150028 CAAAAT
1 CTAAAT
55150034 TTAAAAATCA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:55152912 original size:13 final size:13
Alignment explanation
Indices: 55152894--55152918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55152884 TAATGGTATA
55152894 TTGAATCCATGAC
1 TTGAATCCATGAC
55152907 TTGAATCCATGA
1 TTGAATCCATGA
55152919 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:55153502 original size:27 final size:27
Alignment explanation
Indices: 55153464--55153642 Score: 173
Period size: 27 Copynumber: 6.6 Consensus size: 27
55153454 TAAATTGTAC
55153464 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *** *
55153491 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGGTTTGACTATGT
** * *
55153517 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGGTTTGACTATGT
*
55153545 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
* * *
55153573 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGGTTTGACTATGT
* *
55153600 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCG-GTTTGACTATGT
*
55153627 AGCACTGAGTGTGCGG
1 AGCACTAAGTGTGCGG
55153643 GCTCAATATA
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.82
28 22 0.17
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGTTTGACTATGT
Found at i:55153525 original size:54 final size:55
Alignment explanation
Indices: 55153464--55153641 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 55
55153454 TAAATTGTAC
* * *
55153464 AGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
* * ** * *
55153519 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * * *
55153573 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
*
55153627 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
55153642 GGCTCAATAT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
54 60 0.58
55 43 0.42
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:55153578 original size:82 final size:81
Alignment explanation
Indices: 55153465--55153620 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55153455 AAATTGTACA
* *
55153465 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
55153529 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
55153546 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
55153611 TGCGAGTTGA
65 TGCGAATTGA
55153621 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 52 0.78
83 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:55153632 original size:82 final size:81
Alignment explanation
Indices: 55153461--55153642 Score: 231
Period size: 82 Copynumber: 2.2 Consensus size: 81
55153451 GATTAAATTG
* *
55153461 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
55153526 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
55153542 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
55153606 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
55153624 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
55153643 GCTCAATATA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:55155152 original size:49 final size:50
Alignment explanation
Indices: 55154991--55155164 Score: 172
Period size: 49 Copynumber: 3.6 Consensus size: 50
55154981 GGGTGTTACA
*
55154991 GTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGT----GTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGC-ACCGATATGTGAGAGTCAGT
* *
55155035 GAAAGACCATGTCTGGGACATGGCATCGGCACCTATATGTGAGAG-CTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGTC-AGT
* * * *
55155085 GTAAGACTATGTTTGGGACATGGCGTCGGC-CTCGAT-T-TAGATAGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGT-GAGAGTCAGT
55155134 GTAAGACCATGTCTGGGACATGGCATCGGCA
1 GTAAGACCATGTCTGGGACATGGCATCGGCA
55155165 TTATACCCTA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
44 5 0.05
45 15 0.14
46 14 0.13
48 1 0.01
49 37 0.35
50 34 0.32
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGTCAGT
Found at i:55158183 original size:89 final size:89
Alignment explanation
Indices: 55158023--55158185 Score: 227
Period size: 89 Copynumber: 1.8 Consensus size: 89
55158013 AATCTCTACC
* * * * *
55158023 TTGACATGAATTCTCACAACGTCATCTGTGCCAAAACTCGCCACTGGCTTATCTTGAACTGTACA
1 TTGACATGAATTCTCACAACGCCATCTGTGCCAAAACTAGCCACGGGCCTATCCTGAACTGTACA
55158088 ACGAATTAACAGAGTCGAATCTGT
66 ACGAATTAACAGAGTCGAATCTGT
* * * * *
55158112 TTGACATGAATTCTCACAATGCCATCTTTGCCAAAGCTAGCCACGGGCCTATCCTGAATTGTGCA
1 TTGACATGAATTCTCACAACGCCATCTGTGCCAAAACTAGCCACGGGCCTATCCTGAACTGTACA
*
55158177 AGGAATTAA
66 ACGAATTAA
55158186 TTGAGTTAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 63 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (89 bp):
TTGACATGAATTCTCACAACGCCATCTGTGCCAAAACTAGCCACGGGCCTATCCTGAACTGTACA
ACGAATTAACAGAGTCGAATCTGT
Found at i:55159969 original size:24 final size:24
Alignment explanation
Indices: 55159936--55159987 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
55159926 TTCGTAGGTC
* * *
55159936 AAATAAATTATGCTTATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
55159960 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
55159984 AAAT
1 AAAT
55159988 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:55161744 original size:42 final size:43
Alignment explanation
Indices: 55161694--55161803 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 43
55161684 CCTTCCTTAT
* *
55161694 TTACGTGTAAGACCATGTCTGGGACATTTGCATCGTATATG-AG
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATCG-ATATGTAG
* *
55161737 TT-CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGTGG
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATGTAG
* * *
55161779 TTACATGTAAGACCATATCTAGGAC
1 TTACGTGTAAGACCATGTCTGGGAC
55161804 GTTGGTATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 5 0.09
42 32 0.56
43 20 0.35
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACAGTGGCATCGATATGTAG
Found at i:55168472 original size:13 final size:13
Alignment explanation
Indices: 55168454--55168478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55168444 GAATTGATAT
55168454 GTGTGAAAATTTC
1 GTGTGAAAATTTC
55168467 GTGTGAAAATTT
1 GTGTGAAAATTT
55168479 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:55169262 original size:12 final size:12
Alignment explanation
Indices: 55169245--55169269 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55169235 TTTTGGATGA
55169245 ATTTGATTAAAT
1 ATTTGATTAAAT
55169257 ATTTGATTAAAT
1 ATTTGATTAAAT
55169269 A
1 A
55169270 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTGATTAAAT
Found at i:55169640 original size:43 final size:43
Alignment explanation
Indices: 55169588--55169756 Score: 207
Period size: 43 Copynumber: 3.9 Consensus size: 43
55169578 ATAGGATTTT
*
55169588 GATATGTGATTTCGTGTAAGACCACGTCTGAGACATTGGCATC
1 GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
* * *
55169631 GATTTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGTATC
1 GATATGTGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATC
* * * *
55169675 G-TATATGAGTTCGTGTAAGACC-CTATCTGGGACAGTGGCATC
1 GATATGTGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATC
* * *
55169717 GATATGTGATTACATGTAAGACCACGTCTGGGACTTTGGC
1 GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGC
55169757 GTTGTACAAG
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
42 27 0.26
43 47 0.45
44 30 0.29
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
Found at i:55169725 original size:86 final size:85
Alignment explanation
Indices: 55169598--55169755 Score: 228
Period size: 86 Copynumber: 1.8 Consensus size: 85
55169588 GATATGTGAT
* * * * *
55169598 TTCGTGTAAGACCACGTCTGAGACATTGGCATCGATTTGTGATTTACGTGTAAGACCATGTCTGG
1 TTCGTGTAAGACCACATCTGAGACAGTGGCATCGATATGTGA-TTACATGTAAGACCACGTCTGG
55169663 GACATTGGTATCGTATATGAG
65 GACATTGGTATCGTATATGAG
*
55169684 TTCGTGTAAGACC-CTATCTGGGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGG
1 TTCGTGTAAGACCAC-ATCTGAGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGG
*
55169748 GACTTTGG
65 GACATTGG
55169756 CGTTGTACAA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
85 28 0.44
86 36 0.56
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (85 bp):
TTCGTGTAAGACCACATCTGAGACAGTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGG
ACATTGGTATCGTATATGAG
Found at i:55173802 original size:15 final size:15
Alignment explanation
Indices: 55173782--55173811 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
55173772 GAGTTAGTTG
55173782 CTCTTATGCTCGAAA
1 CTCTTATGCTCGAAA
55173797 CTCTTATGCTCGAAA
1 CTCTTATGCTCGAAA
55173812 GAGATATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (15 bp):
CTCTTATGCTCGAAA
Found at i:55176124 original size:10 final size:10
Alignment explanation
Indices: 55176105--55176151 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
55176095 AAACCTGTCG
55176105 AAAA-TAATC
1 AAAATTAATC
55176114 AAAATTAATC
1 AAAATTAATC
*
55176124 AAAATTAATTAT
1 AAAATTAA-T-C
*
55176136 AAAATTAATT
1 AAAATTAATC
55176146 AAAATT
1 AAAATT
55176152 CAACATGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 20 0.59
11 2 0.06
12 8 0.24
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATC
Found at i:55181555 original size:3 final size:3
Alignment explanation
Indices: 55181541--55181645 Score: 81
Period size: 3 Copynumber: 35.7 Consensus size: 3
55181531 AATGAGAACG
* * *
55181541 ATA ATA AGA ATA ATA ATA AT- ATAA ATA ATA ATA GTA GTA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
55181584 ATA CTA ATG ATA ATA ATA ATA GTC ATA ATA AGA ATA TTA ATG ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55181632 ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
55181646 GGTAAATAGA
Statistics
Matches: 79, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
2 6 0.08
3 71 0.90
4 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:55181924 original size:3 final size:3
Alignment explanation
Indices: 55181913--55181981 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
55181903 AAAAAAAGAA
* * * *
55181913 AAT AA- AAT AAT AAT AAT AAT AGT AAT AAT -AC AAT AGT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
55181959 AAT AAC GA- AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
55181982 GTATTAAATG
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
2 4 0.08
3 46 0.92
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:55181939 original size:23 final size:23
Alignment explanation
Indices: 55181913--55181989 Score: 57
Period size: 26 Copynumber: 3.3 Consensus size: 23
55181903 AAAAAAAGAA
55181913 AATAAAATAATAATAATAATAGT
1 AATAAAATAATAATAATAATAGT
* * *
55181936 AATAATACAATAGTGATAATAATAAT
1 AAT-A-A-AATAATAATAATAATAGT
** *
55181962 AACGAAATATTAATAATAAT-GT
1 AATAAAATAATAATAATAATAGT
*
55181984 ATTAAA
1 AATAAA
55181990 TGGTAAAAGA
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
22 4 0.10
23 16 0.40
24 2 0.05
25 1 0.03
26 17 0.43
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (23 bp):
AATAAAATAATAATAATAATAGT
Found at i:55182105 original size:12 final size:12
Alignment explanation
Indices: 55182050--55182132 Score: 57
Period size: 12 Copynumber: 7.0 Consensus size: 12
55182040 AATAAGATAA
55182050 TAATAATAATA-
1 TAATAATAATAG
*
55182061 TAAATAAAAATAAG
1 T-AATAATAAT-AG
55182075 -AATAA-AA-AG
1 TAATAATAATAG
*
55182084 ATAGTAATAATAG
1 -TAATAATAATAG
55182097 TAATAATAATAG
1 TAATAATAATAG
* * *
55182109 TGATAGTAAAAG
1 TAATAATAATAG
*
55182121 GAATAATAATAG
1 TAATAATAATAG
55182133 CAGTAATAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
9 2 0.04
11 7 0.13
12 43 0.78
13 3 0.05
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:55182163 original size:12 final size:12
Alignment explanation
Indices: 55182088--55182176 Score: 53
Period size: 12 Copynumber: 7.7 Consensus size: 12
55182078 AAAAAGATAG
*
55182088 TAATAATAGTAA
1 TAATAATAGGAA
55182100 TAATAATAGTG-A
1 TAATAATAG-GAA
* *
55182112 TAGTAAAAGGAA
1 TAATAATAGGAA
* *
55182124 TAATAATAGCAG
1 TAATAATAGGAA
* **
55182136 TAATAA-GGGCGT
1 TAATAATAGG-AA
55182148 TAATAATAGGAA
1 TAATAATAGGAA
55182160 TAAT-ATA--AA
1 TAATAATAGGAA
55182169 TAATAATA
1 TAATAATA
55182177 TATGTGTATG
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
9 6 0.10
10 3 0.05
11 5 0.09
12 42 0.72
13 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.16, T:0.28
Consensus pattern (12 bp):
TAATAATAGGAA
Found at i:55182350 original size:3 final size:3
Alignment explanation
Indices: 55182342--55182465 Score: 100
Period size: 3 Copynumber: 42.3 Consensus size: 3
55182332 ATGTGTATGT
* *
55182342 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATGG A-A ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* ** * *
55182387 A-A ATG GCA TTA A-A ATA A-A ATA A-A TATA AGT- ATA AGT- ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA A-TA ATA ATA
55182429 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
55182466 GGAAATGATA
Statistics
Matches: 97, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
2 10 0.10
3 83 0.86
4 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:55189604 original size:5 final size:5
Alignment explanation
Indices: 55189594--55189619 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
55189584 AGAATAGTAT
55189594 TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA T
55189620 CCAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:55197631 original size:3 final size:3
Alignment explanation
Indices: 55197604--55197709 Score: 74
Period size: 3 Copynumber: 35.3 Consensus size: 3
55197594 GATAATGTGT
* * * * *
55197604 TAA TAA GAA TAA TAG TAG TAG TAA TAA TAA -AA -AGA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * *
55197648 TAA AAA TAA AAA TAA AAA TAA AAA TAA TAG TAA T-A TAA CTAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -T-AA TAA
55197694 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
55197710 GTAGTAAAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
2 5 0.06
3 72 0.88
4 3 0.04
5 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:55197793 original size:7 final size:8
Alignment explanation
Indices: 55197776--55197800 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
55197766 CATAGTAGGC
55197776 AAATAAAA
1 AAATAAAA
55197784 AAATAAAA
1 AAATAAAA
55197792 AAATAAAA
1 AAATAAAA
55197800 A
1 A
55197801 TAGTGGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:55197873 original size:3 final size:3
Alignment explanation
Indices: 55197867--55197929 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
55197857 GATGATGATG
55197867 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55197915 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
55197930 TATTAAATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:55198609 original size:17 final size:17
Alignment explanation
Indices: 55198587--55198625 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
55198577 ATGTTAGTAG
*
55198587 ATAAAAAAGAAAATAAA
1 ATAAAAAAGAAAAGAAA
55198604 ATAAAAAAGAAAAGAAA
1 ATAAAAAAGAAAAGAAA
55198621 A-AAAA
1 ATAAAA
55198626 TACCCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
ATAAAAAAGAAAAGAAA
Found at i:55207799 original size:26 final size:26
Alignment explanation
Indices: 55207769--55207824 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
55207759 TGAAATGCCC
55207769 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55207795 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55207821 ATCA
1 ATCA
55207825 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55211192 original size:46 final size:46
Alignment explanation
Indices: 55211125--55211253 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
55211115 TGTAACCCGC
* * * *
55211125 CCATAAGCGAACTCGGACTCAACTCAACGAGATCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55211171 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55211217 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55211254 TGCCCAAACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55215938 original size:25 final size:27
Alignment explanation
Indices: 55215901--55215950 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
55215891 TCAAACATGC
55215901 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
55215927 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
55215951 ATAAAACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:55217470 original size:26 final size:26
Alignment explanation
Indices: 55217440--55217495 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
55217430 TGAAATGCCC
55217440 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55217466 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55217492 ATCA
1 ATCA
55217496 ATTTTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55217987 original size:13 final size:13
Alignment explanation
Indices: 55217969--55217999 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
55217959 ATATTTTAAT
55217969 ATTTTGTGTGAAA
1 ATTTTGTGTGAAA
55217982 ATTTTGTGTGAAA
1 ATTTTGTGTGAAA
55217995 ATTTT
1 ATTTT
55218000 ATCGTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (13 bp):
ATTTTGTGTGAAA
Found at i:55219265 original size:43 final size:44
Alignment explanation
Indices: 55219105--55219274 Score: 186
Period size: 43 Copynumber: 4.0 Consensus size: 44
55219095 TAGGATTTGG
* * * *
55219105 ATATGTGA-TTTCGTGTAAGACCATGTCCGGGACGTTGGCATCG
1 ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCC
* * *
55219148 ATTTGTGATTTATGTGTAAGACCATGTCTGGGACATTGGCAT-C
1 ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCC
* * * *
55219191 GTATATGAGTT-CGTGTAAGACCTTGTCTGGGACACTGGCATCC
1 ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCC
* * *
55219234 ATATGTGA-TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCAT
55219275 TGTATGAGCT
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 29 0.28
43 46 0.44
44 29 0.28
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (44 bp):
ATATGTGAGTTACGTGTAAGACCATGTCTGGGACATTGGCATCC
Found at i:55223568 original size:43 final size:43
Alignment explanation
Indices: 55223520--55223642 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
55223510 ATTGAGATGT
* *
55223520 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-A
* * *
55223563 GATTACGTGTAAGACCATGTCTGGGGCATTGGCATCGTTAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATA
* * * *
55223606 GATTTCATGTAAGACCCTGTCTGGGTCAGTGGCATCG
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG
55223643 ATAGGTGATA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 66 0.96
44 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATA
Found at i:55228276 original size:21 final size:20
Alignment explanation
Indices: 55228248--55228286 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
55228238 TAAAAGGTGG
55228248 TTTTTTTATTTCATTTTTTA
1 TTTTTTTATTTCATTTTTTA
*
55228268 TTTTGTTTATTTTATTTTT
1 TTTT-TTTATTTCATTTTT
55228287 GAAAAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTTTTATTTCATTTTTTA
Found at i:55229100 original size:3 final size:3
Alignment explanation
Indices: 55229077--55229187 Score: 80
Period size: 3 Copynumber: 37.3 Consensus size: 3
55229067 AATTTTAAAA
* * * * * * *
55229077 TAT TTT TAT TTT TAC TAT TAT TAT TAT CAT TAC TAT TAC TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * * * *
55229125 TAT TAT TAC TAC TAT TAT TAT TGC TAC TAT T-G TAT TTT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55229172 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
55229188 GCTATTTTAT
Statistics
Matches: 81, Mismatches: 26, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
2 1 0.01
3 80 0.99
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:55229193 original size:15 final size:15
Alignment explanation
Indices: 55229077--55229187 Score: 107
Period size: 15 Copynumber: 7.5 Consensus size: 15
55229067 AATTTTAAAA
* *
55229077 TATTTTTATTTTTAC
1 TATTATTATTATTAC
* *
55229092 TATTATTATTATCAT
1 TATTATTATTATTAC
* *
55229107 TACTATTACTATTAC
1 TATTATTATTATTAC
*
55229122 TATTATTATTACTAC
1 TATTATTATTATTAC
**
55229137 TATTATTATTGCTAC
1 TATTATTATTATTAC
* *
55229152 TATT-GTATTTTTAC
1 TATTATTATTATTAC
*
55229166 TATTATTATTATTAT
1 TATTATTATTATTAC
55229181 TATTATT
1 TATTATT
55229188 GCTATTTTAT
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
14 11 0.14
15 66 0.86
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:55229196 original size:32 final size:31
Alignment explanation
Indices: 55229125--55229196 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
55229115 CTATTACTAT
*
55229125 TATTATTACTACTATTATTATTGCTACTATTG
1 TATT-TTACTACTATTATTATTACTACTATTG
* * *
55229157 TATTTTTACTATTATTATTATTATTATTATTG
1 TA-TTTTACTACTATTATTATTACTACTATTG
55229189 CTATTTTA
1 -TATTTTA
55229197 TTTTCTCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (31 bp):
TATTTTACTACTATTATTATTACTACTATTG
Found at i:55233746 original size:15 final size:15
Alignment explanation
Indices: 55233697--55233769 Score: 92
Period size: 15 Copynumber: 4.9 Consensus size: 15
55233687 GAGATGACAT
*
55233697 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * *
55233712 GAAGTCCAGGACAAA
1 GAAATCCAAGATAAA
*
55233727 AAAATCCAAGATAAA
1 GAAATCCAAGATAAA
*
55233742 GAAATCCAAGATACA
1 GAAATCCAAGATAAA
55233757 GAAATCCAAGATA
1 GAAATCCAAGATA
55233770 CAATGTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.58, C:0.16, G:0.15, T:0.11
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:55233785 original size:25 final size:25
Alignment explanation
Indices: 55233756--55233810 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
55233746 TCCAAGATAC
*
55233756 AGAAA-TCCAAGATACAATG-TCATA
1 AGAAAGTCCAAGA-ACAACGCTCATA
*
55233780 ATGAAAGTCCCAGAACAACGCTCATA
1 A-GAAAGTCCAAGAACAACGCTCATA
55233806 AGAAA
1 AGAAA
55233811 AATATGAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 13 0.50
26 12 0.46
ACGTcount: A:0.49, C:0.20, G:0.15, T:0.16
Consensus pattern (25 bp):
AGAAAGTCCAAGAACAACGCTCATA
Found at i:55235468 original size:18 final size:19
Alignment explanation
Indices: 55235444--55235486 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
55235434 CGTGGGTAGG
*
55235444 CCGTGTGG-TCACACACGC
1 CCGTGTGGCTCAAACACGC
*
55235462 TCGTGTGGCTCAAACACGC
1 CCGTGTGGCTCAAACACGC
55235481 CCGTGT
1 CCGTGT
55235487 CCTCAGCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.16, C:0.35, G:0.28, T:0.21
Consensus pattern (19 bp):
CCGTGTGGCTCAAACACGC
Found at i:55235500 original size:13 final size:13
Alignment explanation
Indices: 55235479--55235512 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
55235469 GCTCAAACAC
55235479 GCCCGTGTCCTCA
1 GCCCGTGTCCTCA
*
55235492 GCTCGTGTCCTCA
1 GCCCGTGTCCTCA
55235505 GCCCGTGT
1 GCCCGTGT
55235513 AACTATCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.41, G:0.26, T:0.26
Consensus pattern (13 bp):
GCCCGTGTCCTCA
Found at i:55240815 original size:32 final size:32
Alignment explanation
Indices: 55240779--55240843 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
55240769 ATTTGATGTA
55240779 AATGCTCAATTTTTTGCATACCATATAATATT
1 AATGCTCAATTTTTTGCATACCATATAATATT
55240811 AATGCTCAATTTTTTGCATACCATATAATATT
1 AATGCTCAATTTTTTGCATACCATATAATATT
55240843 A
1 A
55240844 TATGTTTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.43
Consensus pattern (32 bp):
AATGCTCAATTTTTTGCATACCATATAATATT
Found at i:55240887 original size:16 final size:16
Alignment explanation
Indices: 55240866--55240897 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55240856 ACATCATACA
55240866 TAAATTTGGAATATCT
1 TAAATTTGGAATATCT
55240882 TAAATTTGGAATATCT
1 TAAATTTGGAATATCT
55240898 AAGCATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (16 bp):
TAAATTTGGAATATCT
Found at i:55242865 original size:42 final size:43
Alignment explanation
Indices: 55242818--55242934 Score: 166
Period size: 43 Copynumber: 2.7 Consensus size: 43
55242808 TACAGTACCA
*
55242818 ATGCCATATCCCAGATATGGTCTTACATGTGA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAAGTCTCATATCG
** * *
55242860 ATGCCAATAGACCAGCTATGGTCTTACATG-AAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAAGTCTCATATCG
55242903 ATGCCATATCCCAGATATGGTCTTACATGTAA
1 ATGCCATATCCCAGATATGGTCTTACATGTAA
55242935 ATTTCGATAG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 27 0.42
43 37 0.58
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAAGTCTCATATCG
Found at i:55250076 original size:42 final size:43
Alignment explanation
Indices: 55250029--55250142 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
55250019 ATGTGTTTTT
* *
55250029 GTGTAAGACCACGTCTGGGACATTGGCATTG-TATTTGATTTC
1 GTGTAAGACCACGTCTAGGACATTGGCATTGATATTTGATTAC
* *
55250071 GTGTAAGACC-CTGTCTAGGATAGTGGCA-TGATATTTGATTAC
1 GTGTAAGACCAC-GTCTAGGACATTGGCATTGATATTTGATTAC
* * *
55250113 ATGTAAGACCACGTCTAGGACGTTCGCATT
1 GTGTAAGACCACGTCTAGGACATTGGCATT
55250143 ATACGAGCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.05
42 54 0.92
43 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCACGTCTAGGACATTGGCATTGATATTTGATTAC
Found at i:55255061 original size:29 final size:29
Alignment explanation
Indices: 55255019--55255075 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
55255009 AAGATGATTG
55255019 TCTGAGATTCCAAGATCGGATCTATGTTT
1 TCTGAGATTCCAAGATCGGATCTATGTTT
55255048 TCTGAGATTCCAAGATCGGATCTATGTT
1 TCTGAGATTCCAAGATCGGATCTATGTT
55255076 CTGAGAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (29 bp):
TCTGAGATTCCAAGATCGGATCTATGTTT
Found at i:55257514 original size:42 final size:43
Alignment explanation
Indices: 55257465--55257574 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
55257455 TATGTGTTTT
* * *
55257465 CATGTAAGACCACGTCTAGGACATTGGCATC-ATATTTGATTT
1 CATGTAAGACCACATCTGGGACATTGGCATCGATATTTGATTA
** * *
55257507 TGTGTAAGACC-CTATCTGGGAAAATGGCATCGATATTTGATTA
1 CATGTAAGACCAC-ATCTGGGACATTGGCATCGATATTTGATTA
55257550 CATGTAAGACCACATCTGGGACATT
1 CATGTAAGACCACATCTGGGACATT
55257575 TTTATTGTAC
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.02
42 23 0.43
43 29 0.54
44 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACATCTGGGACATTGGCATCGATATTTGATTA
Found at i:55259375 original size:18 final size:18
Alignment explanation
Indices: 55259348--55259382 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55259338 GTGTCCGAAG
55259348 CCACACGGGCATGTGACA
1 CCACACGGGCATGTGACA
* *
55259366 CCACATGGGCGTGTGAC
1 CCACACGGGCATGTGAC
55259383 CCTCCAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.14
Consensus pattern (18 bp):
CCACACGGGCATGTGACA
Found at i:55260932 original size:40 final size:40
Alignment explanation
Indices: 55260888--55261115 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
55260878 GCTACTTGCT
*
55260888 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
55260928 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
55260968 CAAATGCTTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
55261008 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
55261048 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
55261087 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
55261116 CATCCGAATA
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 34 0.20
40 137 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:55260987 original size:80 final size:80
Alignment explanation
Indices: 55260855--55261111 Score: 371
Period size: 80 Copynumber: 3.2 Consensus size: 80
55260845 AAACCAAGTA
* * * *
55260855 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTT-GGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG-CTTTCGGGACTTAGCCCGGTTAT
55260917 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
55260934 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCTTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCTTTCGGGACTTAGCCCGGTTATAG
*
55260999 TAACTCACACAAATG
66 TAACTCGCACAAATG
* *
55261014 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG-AATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCTTTCGGGACTTAGCCCGGTTA-TA
* *
55261077 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
55261093 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55261112 TTATCATCCG
Statistics
Matches: 164, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
78 1 0.01
79 61 0.37
80 102 0.62
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCTTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:55274705 original size:39 final size:39
Alignment explanation
Indices: 55274651--55274776 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
55274641 TTCAGTGATG
* *
55274651 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
55274690 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
* * *
55274729 TATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
*
55274768 TATGTCCGG
1 TATATCCGG
55274777 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
Found at i:55274790 original size:78 final size:78
Alignment explanation
Indices: 55274651--55274794 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
55274641 TTCAGTGATG
* * * * **
55274651 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
55274716 TACGTGCTGGAAT
66 TACGTGCTGGAAT
* * *
55274729 TATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGG
55274793 CT
65 CT
55274795 TTGAGTTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 4 0.07
78 52 0.93
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TACGTGCTGGAAT
Found at i:55274792 original size:39 final size:39
Alignment explanation
Indices: 55274651--55274794 Score: 164
Period size: 39 Copynumber: 3.7 Consensus size: 39
55274641 TTCAGTGATG
** * * *
55274651 TATATCCGGACTTAGGGTCCGCAGGCTATGTGTTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
** *
55274690 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* *
55274729 TATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* *
55274768 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAAGT-CCGCAGGCT
55274795 TTGAGTTGGT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 5 0.05
39 90 0.95
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:55282509 original size:16 final size:17
Alignment explanation
Indices: 55282483--55282514 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55282473 AATTCAACCC
55282483 AAAATTTACATTTTTGT
1 AAAATTTACATTTTTGT
55282500 AAAA-TTACATTTTTG
1 AAAATTTACATTTTTG
55282515 CCCCCTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
AAAATTTACATTTTTGT
Found at i:55285575 original size:20 final size:20
Alignment explanation
Indices: 55285550--55285599 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
55285540 GTATCGATAC
* *
55285550 GGTATCGATACATTTTATTT
1 GGTATCGATACAATTTACTT
* * *
55285570 GGTATCGGTAGAATTTCCTT
1 GGTATCGATACAATTTACTT
55285590 GGTATCGATA
1 GGTATCGATA
55285600 TTGATGGTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (20 bp):
GGTATCGATACAATTTACTT
Found at i:55286866 original size:24 final size:25
Alignment explanation
Indices: 55286838--55286891 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
55286828 AGTAAGCCAC
55286838 ATTTCCAAATG-ATTCCATTTCTCT
1 ATTTCCAAATGTATTCCATTTCTCT
** *
55286862 ATTTCTGAATGTTTTCCATTTCTCT
1 ATTTCCAAATGTATTCCATTTCTCT
55286887 ATTTC
1 ATTTC
55286892 TATTCATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.20, C:0.22, G:0.06, T:0.52
Consensus pattern (25 bp):
ATTTCCAAATGTATTCCATTTCTCT
Found at i:55289240 original size:26 final size:26
Alignment explanation
Indices: 55289210--55289259 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
55289200 CACAATGCTT
55289210 TTGTTTCTG-TTTTGTAATTTTTCTTC
1 TTGTTTCTGCTTTTG-AATTTTTCTTC
*
55289236 TTGTTTTTGCTTTTGAATTTTTCT
1 TTGTTTCTGCTTTTGAATTTTTCT
55289260 AAATTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.08, C:0.10, G:0.12, T:0.70
Consensus pattern (26 bp):
TTGTTTCTGCTTTTGAATTTTTCTTC
Found at i:55289499 original size:14 final size:14
Alignment explanation
Indices: 55289482--55289528 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
55289472 TGGTTGGTTC
55289482 ATCAAAAAGGAGTT
1 ATCAAAAAGGAGTT
*
55289496 ATC-AAAATG-GTT
1 ATCAAAAAGGAGTT
55289508 CATCAAAAAGGAGTT
1 -ATCAAAAAGGAGTT
55289523 ATCAAA
1 ATCAAA
55289529 CTCAAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 8 0.29
14 14 0.50
15 3 0.11
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (14 bp):
ATCAAAAAGGAGTT
Found at i:55289514 original size:27 final size:27
Alignment explanation
Indices: 55289476--55289528 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
55289466 TCAATTTGGT
55289476 TGGTTCATCAAAAAGGAGTTATCAAAA
1 TGGTTCATCAAAAAGGAGTTATCAAAA
55289503 TGGTTCATCAAAAAGGAGTTATCAAA
1 TGGTTCATCAAAAAGGAGTTATCAAA
55289529 CTCAAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.26
Consensus pattern (27 bp):
TGGTTCATCAAAAAGGAGTTATCAAAA
Found at i:55293208 original size:93 final size:93
Alignment explanation
Indices: 55293093--55293263 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55293083 GCCCATAAGT
* *
55293093 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55293158 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
55293186 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55293251 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55293264 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:55293260 original size:46 final size:46
Alignment explanation
Indices: 55293085--55293260 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55293075 TGTAACCCGC
* * *
55293085 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55293131 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
55293181 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55293224 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55293261 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 64 0.58
47 29 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55294634 original size:45 final size:45
Alignment explanation
Indices: 55294579--55294753 Score: 194
Period size: 45 Copynumber: 3.9 Consensus size: 45
55294569 GTTTCAAATT
*
55294579 TAATGTCATAGTATCTTTCAACTATAGTCTTAT-TCGTTTCCGGTA
1 TAATGCCATAGTATCTTTCAACTATAGTCTT-TCTCGTTTCCGGTA
* * * * *
55294624 TAGTGCCATAGTATCTTTCAACTATAGTCTTAT-TCATCTCCAGAA
1 TAATGCCATAGTATCTTTCAACTATAGTCTT-TCTCGTTTCCGGTA
* *
55294669 TAATGCCATAGTATCTTTCAACTATGGTCTTTCTAG-TTCCGGGTA
1 TAATGCCATAGTATCTTTCAACTATAGTCTTTCTCGTTTCC-GGTA
* * * *
55294714 TAATGCCGTGGTATCTTTCAACCATGGTCTTTCTCGTTTC
1 TAATGCCATAGTATCTTTCAACTATAGTCTTTCTCGTTTC
55294754 TCAGGTCAAA
Statistics
Matches: 110, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
44 4 0.04
45 103 0.94
46 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (45 bp):
TAATGCCATAGTATCTTTCAACTATAGTCTTTCTCGTTTCCGGTA
Found at i:55294714 original size:90 final size:90
Alignment explanation
Indices: 55294579--55294744 Score: 228
Period size: 90 Copynumber: 1.8 Consensus size: 90
55294569 GTTTCAAATT
* * *
55294579 TAATGTCATAGTATCTTTCAACTATAGTCTTATTCGTTTCCGGTATAGTGCCATAGTATCTTTCA
1 TAATGCCATAGTATCTTTCAACTATAGTCTTATTAGTTTCCGGTATAATGCCATAGTATCTTTCA
*
55294644 ACTATAGTCTTATTCATCTCCAGAA
66 ACCATAGTCTTATTCATCTCCAGAA
* * *
55294669 TAATGCCATAGTATCTTTCAACTATGGTCTT-TCTAG-TTCCGGGTATAATGCCGTGGTATCTTT
1 TAATGCCATAGTATCTTTCAACTATAGTCTTAT-TAGTTTCC-GGTATAATGCCATAGTATCTTT
*
55294732 CAACCATGGTCTT
64 CAACCATAGTCTT
55294745 TCTCGTTTCT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
89 5 0.08
90 61 0.92
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (90 bp):
TAATGCCATAGTATCTTTCAACTATAGTCTTATTAGTTTCCGGTATAATGCCATAGTATCTTTCA
ACCATAGTCTTATTCATCTCCAGAA
Found at i:55314953 original size:41 final size:40
Alignment explanation
Indices: 55314908--55315085 Score: 144
Period size: 41 Copynumber: 4.3 Consensus size: 40
55314898 GCACAAACAT
* *
55314908 CCTTCGAAATCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGAAA-CAAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * * *
55314949 CCTTCGAGACCAAGCTCGGATTA-GACCACTGGCTCGAAGGC
1 CCTTCGA-AACAAGC-CCGATTATGAGCACTGGCTCAAAAGC
* * * *
55314990 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGAAAC-AAGCCCGATTATGAGCACTGGCTCAAAAGC
** * * *
55315030 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAGGC
1 CCTTCGAAAC-AAGCCCGATTATGAGCACTGGCTCAAAAGC
55315071 CCTTCGAAACCAAGC
1 CCTTCGAAA-CAAGC
55315086 TCGGATTTAA
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
40 42 0.38
41 62 0.56
42 7 0.06
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGAAACAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:55322876 original size:11 final size:10
Alignment explanation
Indices: 55322850--55322883 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
55322840 GGAGAGCACC
*
55322850 AAGAGTCAAA
1 AAGAGCCAAA
55322860 AAGAGCCAAA
1 AAGAGCCAAA
55322870 AATGAGCCAAA
1 AA-GAGCCAAA
55322881 AAG
1 AAG
55322884 GGACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.59, C:0.15, G:0.21, T:0.06
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:55328694 original size:46 final size:46
Alignment explanation
Indices: 55328514--55328775 Score: 189
Period size: 46 Copynumber: 5.6 Consensus size: 46
55328504 TTATTTTTGT
* * *
55328514 GCTAGTGTAAGACATGTCTGGGACATGCATCAACCAT-ATTAT-AAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CATGA-GATGTAGA
* * * * *
55328560 GCCAGTGTAAGAACATGTCTGGGACATGGTATCGGCATTAAGACG-AGA
1 GCTAGTGTAAG-ACATGTCTGGGACAT-GCATCGACA-TGAGATGTAGA
* * * * *
55328608 GCTAGTGTAAGACATATTTGAGACATGCATCGGCCTTGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACATGAGATGTAGA
*
55328654 GCTAGTGTAAGACATGTCTGGGACATGCATCTACTATGAGATGT-G-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGAC-ATGAGATGTAGA
* * *
55328699 TC-AGTGTAAGAACATGTCTGGGACATGGCATC-AGCACCGATATGTGAGA
1 GCTAGTGTAAG-ACATGTCTGGGACAT-GCATCGA-CA-TGAGATGT-AGA
*
55328748 GCTAGTGTAAGACCATGTCTAGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
55328776 GCGTCGGCCT
Statistics
Matches: 172, Mismatches: 26, Indels: 33
0.74 0.11 0.14
Matches are distributed among these distances:
44 8 0.05
45 19 0.11
46 68 0.40
47 32 0.19
48 20 0.12
49 4 0.02
50 21 0.12
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATGAGATGTAGA
Found at i:55328822 original size:49 final size:50
Alignment explanation
Indices: 55328698--55328831 Score: 166
Period size: 49 Copynumber: 2.7 Consensus size: 50
55328688 TATGAGATGT
*
55328698 GTCAGTGTAAGAACATGTCTGGGACATGGCATCAGCACCGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATATGTGAGA
* * * * *
55328748 G-CTAGTGTAAGACCATGTCTAGGACATGGCGTCGGC-CTCGAT-TTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-CGATATGTGAGA
*
55328797 GTCAGTGTAAGACCATTTCTGGGACATGGCATCAG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAG
55328832 TATTATACCC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
49 36 0.51
50 35 0.49
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATATGTGAGA
Found at i:55329359 original size:40 final size:40
Alignment explanation
Indices: 55329304--55329385 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
55329294 AGGCCAACGT
55329304 TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
1 TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
55329344 TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
1 TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
55329384 TT
1 TT
55329386 GAAAGTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (40 bp):
TTTGACTCATTTTGTACAAGGCCATGAAAAATGGCTAATA
Found at i:55343719 original size:13 final size:15
Alignment explanation
Indices: 55343691--55343722 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
55343681 TTACTCTTAA
55343691 AAAAGAGTTAAAAAG
1 AAAAGAGTTAAAAAG
55343706 AAAAGA-TT-AAAAG
1 AAAAGAGTTAAAAAG
55343719 AAAA
1 AAAA
55343723 AATATGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (15 bp):
AAAAGAGTTAAAAAG
Found at i:55351572 original size:10 final size:10
Alignment explanation
Indices: 55351557--55351590 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
55351547 TGATCATGAG
*
55351557 ATTATGGTAT
1 ATTATGTTAT
55351567 ATTATGTTAT
1 ATTATGTTAT
*
55351577 CTTATGTTAT
1 ATTATGTTAT
55351587 ATTA
1 ATTA
55351591 CTTGCATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (10 bp):
ATTATGTTAT
Found at i:55358225 original size:27 final size:27
Alignment explanation
Indices: 55358195--55358373 Score: 182
Period size: 27 Copynumber: 6.6 Consensus size: 27
55358185 ATATTGAGCC
* * * *
55358195 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAGTCATAT
* * *
55358222 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCATAT
*
55358249 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCATA-T
** *
55358277 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTACATAGTCATA-T
* * *
55358304 CGCACGCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCATAT
*
55358331 CGCACACTTAGTGCAACATAGTCATAT
1 CGCACACTTAGTGCTACATAGTCATAT
55358358 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
55358374 TACAATTTAA
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCATAT
Found at i:55358939 original size:13 final size:13
Alignment explanation
Indices: 55358921--55358945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55358911 TACTAAATTT
55358921 TCATGGATTCAAG
1 TCATGGATTCAAG
55358934 TCATGGATTCAA
1 TCATGGATTCAA
55358946 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:55360819 original size:13 final size:13
Alignment explanation
Indices: 55360779--55360812 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
55360769 TTTGAGTAGG
55360779 GTCACACGATCGT
1 GTCACACGATCGT
55360792 GTCACACGATCGT
1 GTCACACGATCGT
55360805 GTCACACG
1 GTCACACG
55360813 CCTGTGTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (13 bp):
GTCACACGATCGT
Found at i:55364912 original size:22 final size:22
Alignment explanation
Indices: 55364887--55364935 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
55364877 AAGCGTATCA
55364887 GTTGTGTAAAGCAGATTGCTTC
1 GTTGTGTAAAGCAGATTGCTTC
55364909 GTTGTGTAAAGCAGATTGCTTC
1 GTTGTGTAAAGCAGATTGCTTC
*
55364931 CTTGT
1 GTTGT
55364936 TGTACGTCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (22 bp):
GTTGTGTAAAGCAGATTGCTTC
Found at i:55367809 original size:176 final size:176
Alignment explanation
Indices: 55367504--55367862 Score: 664
Period size: 176 Copynumber: 2.0 Consensus size: 176
55367494 GTGAGAAAAC
*
55367504 TTAAAACCTAAGTTAGCAATAATCTCATCAACTTTAAAACCACTTACCCTTGTTTTTAGAAAACT
1 TTAAACCCTAAGTTAGCAATAATCTCATCAACTTTAAAACCACTTACCCTTGTTTTTAGAAAACT
55367569 AACAATATCAAGTTTGTACTCTCTATTATATTCACGAAAGATACGAGAAAATTTTAGATTCGCGC
66 AACAATATCAAGTTTGTACTCTCTATTATATTCACGAAAGATACGAGAAAATTTTAGATTCGCGC
55367634 ATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTG
131 ATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTG
* *
55367680 TTAAACCCTAGGTTAGCAATAATCTTATCAACTTTAAAACCACTTACCCTTGTTTTTAGAAAACT
1 TTAAACCCTAAGTTAGCAATAATCTCATCAACTTTAAAACCACTTACCCTTGTTTTTAGAAAACT
* *
55367745 AACAATATCAGGTTTGTACTCTCTATTATATTGACGAAAGATACGAGAAAATTTTAGATTCGCGC
66 AACAATATCAAGTTTGTACTCTCTATTATATTCACGAAAGATACGAGAAAATTTTAGATTCGCGC
*
55367810 ATCCGTAACAATTCCGAGAGAAAACTGTTAAATTTAGAGGAAATTG
131 ATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTG
55367856 TTAAACC
1 TTAAACC
55367863 TTAGTATTCT
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 177 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (176 bp):
TTAAACCCTAAGTTAGCAATAATCTCATCAACTTTAAAACCACTTACCCTTGTTTTTAGAAAACT
AACAATATCAAGTTTGTACTCTCTATTATATTCACGAAAGATACGAGAAAATTTTAGATTCGCGC
ATCCGTAACAATTCCGAGAGAAAACTGTTAAATTCAGAGGAAATTG
Found at i:55376780 original size:80 final size:80
Alignment explanation
Indices: 55376647--55376807 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
55376637 GAAATTTCTC
55376647 AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
1 AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
55376712 TGCTCGAAAATGTGT
66 TGCTCGAAAATGTGT
55376727 AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
1 AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
55376792 TGCTCGAAAATGTGT
66 TGCTCGAAAATGTGT
55376807 A
1 A
55376808 TCTGTTGAGA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (80 bp):
AATTTGAAACAAGGCTGCATGTCAGTTACTGAGTACAAAAGAAAGTTTGTTTGGCTCAGTAAATA
TGCTCGAAAATGTGT
Found at i:55383985 original size:11 final size:11
Alignment explanation
Indices: 55383966--55384000 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
55383956 TAAAACTACC
55383966 TTTTATTTTAT
1 TTTTATTTTAT
*
55383977 TTTTCTTTTAT
1 TTTTATTTTAT
*
55383988 TTTAATTTTAT
1 TTTTATTTTAT
55383999 TT
1 TT
55384001 CATCCTTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:55383986 original size:16 final size:17
Alignment explanation
Indices: 55383965--55383996 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55383955 TTAAAACTAC
55383965 CTTTTATTTT-ATTTTT
1 CTTTTATTTTAATTTTT
55383981 CTTTTATTTTAATTTT
1 CTTTTATTTTAATTTT
55383997 ATTTCATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
CTTTTATTTTAATTTTT
Found at i:55394628 original size:21 final size:19
Alignment explanation
Indices: 55394581--55394629 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
55394571 ATGCACAAAT
*
55394581 ATCTATAAATTTAATCTAA
1 ATCTATAAATATAATCTAA
*
55394600 AACATATAAATGATAATCATAA
1 ATC-TATAAAT-ATAATC-TAA
55394622 ATCTATAA
1 ATCTATAA
55394630 GAATTCATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 10 0.42
22 5 0.21
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (19 bp):
ATCTATAAATATAATCTAA
Found at i:55396716 original size:5 final size:5
Alignment explanation
Indices: 55396662--55396698 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
55396652 CAAAAAAGGA
55396662 AAAT- AAAT- AAATG AAATG AAATG AAATG AAATG AAAT
1 AAATG AAATG AAATG AAATG AAATG AAATG AAATG AAAT
55396699 AAAAAACAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.25
5 24 0.75
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.22
Consensus pattern (5 bp):
AAATG
Found at i:55397558 original size:30 final size:30
Alignment explanation
Indices: 55397524--55397586 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
55397514 CCAGGCCGTA
* *
55397524 TGGTCCACACAACCATGTCACACGTTCCTG
1 TGGTCCACACAACCATATCACACGCTCCTG
* * *
55397554 TGGTCCACACGACCGTATCACACGCTCGTG
1 TGGTCCACACAACCATATCACACGCTCCTG
55397584 TGG
1 TGG
55397587 ACTGGTTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.35, G:0.22, T:0.22
Consensus pattern (30 bp):
TGGTCCACACAACCATATCACACGCTCCTG
Found at i:55404609 original size:16 final size:16
Alignment explanation
Indices: 55404585--55404617 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55404575 TCCCAAGTTT
55404585 TATTCTTCTGAACTTC
1 TATTCTTCTGAACTTC
*
55404601 TATTTTTCTGAACTTC
1 TATTCTTCTGAACTTC
55404617 T
1 T
55404618 TCAATTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.55
Consensus pattern (16 bp):
TATTCTTCTGAACTTC
Found at i:55406171 original size:16 final size:16
Alignment explanation
Indices: 55406141--55406186 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
55406131 TATGAACCAC
*
55406141 TCCATTT-ACTTACTT
1 TCCATTTCATTTACTT
55406156 TCCATTTCATTTACTT
1 TCCATTTCATTTACTT
*
55406172 TCCATTCCATTTACT
1 TCCATTTCATTTACT
55406187 ATGCATAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.52
Consensus pattern (16 bp):
TCCATTTCATTTACTT
Found at i:55408483 original size:29 final size:29
Alignment explanation
Indices: 55408440--55408505 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
55408430 TACAAAACTC
*
55408440 AACCCATCTCATCAAAATTATTTCTTCAA
1 AACCCATCTCATCAAAACTATTTCTTCAA
* * *
55408469 AACCCATC-CAGTCAAAACTATTTTTTTAG
1 AACCCATCTCA-TCAAAACTATTTCTTCAA
55408498 AACCCATC
1 AACCCATC
55408506 ATGTACAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.32
Consensus pattern (29 bp):
AACCCATCTCATCAAAACTATTTCTTCAA
Found at i:55412505 original size:25 final size:25
Alignment explanation
Indices: 55412477--55412528 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
55412467 AGGACTATAT
55412477 GAGGTAAACAAATTTAACCTAAAGA
1 GAGGTAAACAAATTTAACCTAAAGA
55412502 GAGGTAAACAAATTTAACCTAAAGA
1 GAGGTAAACAAATTTAACCTAAAGA
55412527 GA
1 GA
55412529 TATTTAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.12, G:0.17, T:0.19
Consensus pattern (25 bp):
GAGGTAAACAAATTTAACCTAAAGA
Found at i:55416360 original size:35 final size:35
Alignment explanation
Indices: 55416314--55416385 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
55416304 ATCGAGAGTA
55416314 TAACCAAAATACATGATATTTGTGATGATGTTATG
1 TAACCAAAATACATGATATTTGTGATGATGTTATG
55416349 TAACCAAAATACATGATATTTGTGATGATGTTATG
1 TAACCAAAATACATGATATTTGTGATGATGTTATG
55416384 TA
1 TA
55416386 TTCGGCTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (35 bp):
TAACCAAAATACATGATATTTGTGATGATGTTATG
Found at i:55417493 original size:20 final size:20
Alignment explanation
Indices: 55417461--55417499 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
55417451 TTGTACTAAT
*
55417461 TTGCACTCTTGTGGCCTTGC
1 TTGCACTCTTGTGCCCTTGC
55417481 TTGCACT-TATGTGCCCTTG
1 TTGCACTCT-TGTGCCCTTG
55417500 TATCCACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.08, C:0.28, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCACTCTTGTGCCCTTGC
Done.