Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 17 of 160
Found at i:4914893 original size:21 final size:21
Alignment explanation
Indices: 4914869--4914908 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4914859 TATATTTTGA
4914869 ATATCT-AAAATTTATTTTTTT
1 ATATCTGAAAA-TTATTTTTTT
*
4914890 ATATTTGAAAATTATTTTT
1 ATATCTGAAAATTATTTTT
4914909 ACTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
ATATCTGAAAATTATTTTTTT
Found at i:4926361 original size:158 final size:157
Alignment explanation
Indices: 4926067--4926376 Score: 423
Period size: 158 Copynumber: 2.0 Consensus size: 157
4926057 AATATAGCGG
* * *
4926067 CGTTTATAATGTAAACACCACTAACAAGCATTTTTGCACATTTTAAAAAACTCTTAAAATGCTAG
1 CGTTTATAATGTAAACACCACTAACAAGCATTTTTGCACATTTAAAAAAACTCTTAAAAAGCTAA
* * *
4926132 AAGAAAGGATCAAACTTAGGACCTTATGGTTAATAGTCATATGCTCTAACCGACTGAACTACTGC
66 AAGAAAGGATCAAACTTAGGACCTTATGGTTAATAGCCATATACTCTAACCAACTGAACTACTGC
4926197 AATGTTTTTAGCAAAGGATTATTCAAGA
131 AATGTTTTTAGCAAA-GATTATTCAAGA
* * *
4926225 CGTTTATAATGTAAACATCGCTAACATGCATTTTTGCAC-TCCTTAAAAAAACT-TTCAAAAAGC
1 CGTTTATAATGTAAACACCACTAACAAGCATTTTTGCACAT--TTAAAAAAACTCTT-AAAAAGC
* *
4926288 TAAAAAGAAA-GATCAAACTTAGGACCTTATGGTTAATAGCCTTATACTCTAACTAAC-GAACTA
63 T-AAAAGAAAGGATCAAACTTAGGACCTTATGGTTAATAGCCATATACTCTAACCAACTGAACTA
*
4926351 CT-CTAGTGTTTTTAGCAAAGATTATT
127 CTGC-AATGTTTTTAGCAAAGATTATT
4926377 TAAAGTATTT
Statistics
Matches: 135, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
157 9 0.07
158 60 0.44
159 59 0.44
160 7 0.05
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (157 bp):
CGTTTATAATGTAAACACCACTAACAAGCATTTTTGCACATTTAAAAAAACTCTTAAAAAGCTAA
AAGAAAGGATCAAACTTAGGACCTTATGGTTAATAGCCATATACTCTAACCAACTGAACTACTGC
AATGTTTTTAGCAAAGATTATTCAAGA
Found at i:4926517 original size:61 final size:60
Alignment explanation
Indices: 4926369--4926536 Score: 153
Period size: 61 Copynumber: 2.7 Consensus size: 60
4926359 TTTTTAGCAA
* * * * * *
4926369 AGATTATTTAAAGTATTTTTTACCAAAAAC-GTCTTGAATAATCTCTAATAAAAATTAGAGG
1 AGATTATTTAAAGTA-TTTTGATCAAAAACACT-TTGAATAATCTCCAATAAAAAATAAAGG
*
4926430 AGATTATTCAAGACGT-TTTCTG-TCAAAAACACTTTGAATAATCTCCAATAAAAAATAAAGG
1 AGATTATTTAA-A-GTATTT-TGATCAAAAACACTTTGAATAATCTCCAATAAAAAATAAAGG
* * * *
4926491 GGATTATTTAAAGTATTTTGGATCAAAATATACCTTAAATAATCTC
1 AGATTATTTAAAGTATTTT-GATCAAAA-ACACTTTGAATAATCTC
4926537 ATTTAATTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
59 3 0.03
60 5 0.06
61 60 0.69
62 17 0.20
63 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (60 bp):
AGATTATTTAAAGTATTTTGATCAAAAACACTTTGAATAATCTCCAATAAAAAATAAAGG
Found at i:4926853 original size:61 final size:60
Alignment explanation
Indices: 4926785--4926999 Score: 195
Period size: 61 Copynumber: 3.5 Consensus size: 60
4926775 AAAAGAATGG
* * *
4926785 AAGGGATTATTCAAGGCATTTTATGTCAGAAACGAATTGAATAACGCTATTCAATTTTTTT
1 AAGGGATTATTCAAGGCATTTT-TGTCAAAAACGCATTGAATAACACTATTCAATTTTTTT
* * * **
4926846 AAGGGATTATTCAAGGCTTTTTTTGCCCAAAAACGCCTTGAATAATCACT-TTTTATTTTTTT
1 AAGGGATTATTCAAGGC-ATTTTTG-TCAAAAACGCATTGAATAA-CACTATTCAATTTTTTT
* * * *
4926908 TA--GATTATTCAAGGTATTTTTGGT-AAAAACGCATTGAATAACCCCATTCAATTTTTTGT
1 AAGGGATTATTCAAGGCATTTTT-GTCAAAAACGCATTGAATAACACTATTCAATTTTTT-T
* * *
4926967 GAGGGATTATTCGAGGCCTTTTTAGGTCAAAAA
1 AAGGGATTATTCAAGGCATTTTT--GTCAAAAA
4927000 TACCTTTAAT
Statistics
Matches: 123, Mismatches: 21, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
57 2 0.02
58 25 0.20
59 7 0.06
60 13 0.11
61 35 0.28
62 33 0.27
63 8 0.07
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (60 bp):
AAGGGATTATTCAAGGCATTTTTGTCAAAAACGCATTGAATAACACTATTCAATTTTTTT
Found at i:4926998 original size:121 final size:121
Alignment explanation
Indices: 4926789--4927013 Score: 292
Period size: 121 Copynumber: 1.9 Consensus size: 121
4926779 GAATGGAAGG
* * *
4926789 GATTATTCAAGGCATTTTATGTCAGAAACGAATTGAATAACGCTATTCAATTTTTTTAAGGGATT
1 GATTATTCAAGGCATTTTATGTCAAAAACGAATTGAATAACCCCATTCAATTTTTTTAAGGGATT
* * *
4926854 ATTCAAGGCTTTTTTTGCCCAAAAACGCCTTGAATAATCACTTTTTATTTTTTTTA
66 ATTCAAGGCCTTTTTAGCCCAAAAACACCTTGAATAATCACTTTTTATTTTTTTTA
* * *
4926910 GATTATTCAAGGTATTTT-TGGT-AAAAACGCATTGAATAACCCCATTCAATTTTTTGTGAGGGA
1 GATTATTCAAGGCATTTTAT-GTCAAAAACGAATTGAATAACCCCATTCAATTTTTT-TAAGGGA
* ** * *
4926973 TTATTCGAGGCCTTTTTAGGTCAAAAATACCTTTAATAATC
64 TTATTCAAGGCCTTTTTAGCCCAAAAACACCTTGAATAATC
4927014 TCAAAAAAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
120 30 0.34
121 58 0.66
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (121 bp):
GATTATTCAAGGCATTTTATGTCAAAAACGAATTGAATAACCCCATTCAATTTTTTTAAGGGATT
ATTCAAGGCCTTTTTAGCCCAAAAACACCTTGAATAATCACTTTTTATTTTTTTTA
Found at i:4927291 original size:91 final size:92
Alignment explanation
Indices: 4927119--4927301 Score: 219
Period size: 91 Copynumber: 2.0 Consensus size: 92
4927109 CGAAAAATGC
* ** *
4927119 CTTGAATAACACTATTTAATTTTTTGTAAGAGATTATTCAAGGTATTTTCTGATAAAAAATGCAT
1 CTTGAATAACACTATTTAATTTTTTATAAGAGATTATTCAAGACATTTTCTGACAAAAAATGCAT
**
4927184 TGAATAATCC-CCAAAAAATGAAAGAT
66 TGAATAATCCAAAAAAAAATGAAAGAT
* * * *
4927210 CTTGAATAACCCTATTTAATTTTTTATAAGGGATTATTCAAGACATTTTTTGGCCAAAAATAT-C
1 CTTGAATAACACTATTTAATTTTTTATAAGAGATTATTCAAGACATTTTCT-GACAAAAA-ATGC
* *
4927274 -TTGAATAATCTAAAAAAAAATGGAAGAT
64 ATTGAATAATCCAAAAAAAAATGAAAGAT
4927302 GATTATTCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
91 55 0.71
92 20 0.26
93 2 0.03
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (92 bp):
CTTGAATAACACTATTTAATTTTTTATAAGAGATTATTCAAGACATTTTCTGACAAAAAATGCAT
TGAATAATCCAAAAAAAAATGAAAGAT
Found at i:4927369 original size:57 final size:60
Alignment explanation
Indices: 4927240--4927371 Score: 171
Period size: 57 Copynumber: 2.2 Consensus size: 60
4927230 TTTTTATAAG
* * * * *
4927240 GGATTATTCAAGACATTTTTTGGCCAAAAATATCTTGAATAATCTAAAAAAAAATGGAAGA
1 GGATTATTCAAGGCATTATTTGGCCAAAAACACCTTGAATAA-CTAAAAAAAAATGGAACA
* *
4927301 TGATTATTCAAGGCA-TATTTGGCCAGAAACACCTTGAATAA-T-AAAAAAAATGGAACA
1 GGATTATTCAAGGCATTATTTGGCCAAAAACACCTTGAATAACTAAAAAAAAATGGAACA
4927358 GGATTATTCAAGGC
1 GGATTATTCAAGGC
4927372 GTCTTATTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 27 0.43
58 1 0.02
60 22 0.35
61 13 0.21
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (60 bp):
GGATTATTCAAGGCATTATTTGGCCAAAAACACCTTGAATAACTAAAAAAAAATGGAACA
Found at i:4928587 original size:34 final size:34
Alignment explanation
Indices: 4928544--4928618 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 34
4928534 TTAAATGCCA
*
4928544 AAATATAGTGGCACTTTCTACTATAAATACCACT
1 AAATTTAGTGGCACTTTCTACTATAAATACCACT
** * **
4928578 AAATTTAGTGGCGTTTTTTACTATAAATGTCACT
1 AAATTTAGTGGCACTTTCTACTATAAATACCACT
4928612 AAATTTA
1 AAATTTA
4928619 ACGGCATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (34 bp):
AAATTTAGTGGCACTTTCTACTATAAATACCACT
Found at i:4928629 original size:34 final size:34
Alignment explanation
Indices: 4928553--4928629 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 34
4928543 AAAATATAGT
* * **
4928553 GGCACTTTCTACTATAAATACCACTAAATTTAGT
1 GGCATTTTTTACTATAAATACCACTAAATTTAAC
* **
4928587 GGCGTTTTTTACTATAAATGTCACTAAATTTAAC
1 GGCATTTTTTACTATAAATACCACTAAATTTAAC
4928621 GGCATTTTT
1 GGCATTTTT
4928630 ATCAATTAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (34 bp):
GGCATTTTTTACTATAAATACCACTAAATTTAAC
Found at i:4932416 original size:3 final size:3
Alignment explanation
Indices: 4932408--4932443 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
4932398 TTCCGTTTAT
*
4932408 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4932444 CATAGAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4943313 original size:13 final size:13
Alignment explanation
Indices: 4943297--4943336 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
4943287 AATAATTTAA
4943297 TAAAAATTAAAAT
1 TAAAAATTAAAAT
*
4943310 TAAAAATCAAAAT
1 TAAAAATTAAAAT
4943323 TAATAAATTGAAAA
1 TAA-AAATT-AAAA
4943337 ATCTTGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 15 0.65
14 4 0.17
15 4 0.17
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:4945077 original size:20 final size:20
Alignment explanation
Indices: 4945039--4945077 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4945029 CCATTTTAAT
**
4945039 ATTATACCCAAAATTAAACC
1 ATTATACCCAAAACAAAACC
*
4945059 ATTATACCCAGAACAAAAC
1 ATTATACCCAAAACAAAAC
4945078 TGAAAGTACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.21
Consensus pattern (20 bp):
ATTATACCCAAAACAAAACC
Found at i:4946229 original size:19 final size:19
Alignment explanation
Indices: 4946205--4946241 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
4946195 TAGTTATATA
4946205 ATATATTA-AATACAAATTT
1 ATATATTATAATA-AAATTT
4946224 ATATATTATAATAAAATT
1 ATATATTATAATAAAATT
4946242 CAATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATATTATAATAAAATTT
Found at i:4947711 original size:17 final size:17
Alignment explanation
Indices: 4947676--4947708 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4947666 AAAATAACAA
4947676 AAAAATGAAAAAAATTT
1 AAAAATGAAAAAAATTT
*
4947693 AAAAAT-AAAAATATTT
1 AAAAATGAAAAAAATTT
4947709 TAATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAAATGAAAAAAATTT
Found at i:4950696 original size:17 final size:17
Alignment explanation
Indices: 4950674--4950709 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4950664 AAGCTTTTGT
4950674 TTTTGTGTTTAGAAACA
1 TTTTGTGTTTAGAAACA
4950691 TTTTGTGTTTAGAAACA
1 TTTTGTGTTTAGAAACA
4950708 TT
1 TT
4950710 ATATCCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (17 bp):
TTTTGTGTTTAGAAACA
Found at i:4960221 original size:2 final size:2
Alignment explanation
Indices: 4960216--4960268 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
4960206 TATATATATA
4960216 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
4960258 TG TT TG TG TG T
1 TG TG TG TG TG T
4960269 CTATGTATGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:4963506 original size:24 final size:24
Alignment explanation
Indices: 4963476--4963540 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 24
4963466 AGATTATTAG
4963476 AAATTAATAATTAAGTGAAAAA-AA
1 AAATTAATAATTAAG-GAAAAATAA
* *
4963500 TATTTAATAAATTTTAAGGAAAAATAA
1 AAATTAAT-AA--TTAAGGAAAAATAA
4963527 AAATTAATAATTAA
1 AAATTAATAATTAA
4963541 ATAGTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 10 0.30
25 2 0.06
26 8 0.24
27 13 0.39
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (24 bp):
AAATTAATAATTAAGGAAAAATAA
Found at i:4965035 original size:22 final size:22
Alignment explanation
Indices: 4965007--4965069 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 22
4964997 TTGCAAAAGT
4965007 TATCATGCAAAATAATATAATA
1 TATCATGCAAAATAATATAATA
4965029 TATCATGC--AAT--TATAATA
1 TATCATGCAAAATAATATAATA
*
4965047 TAGTCATGCAAAGACAATATAAT
1 TA-TCATGCAAA-ATAATATAAT
4965070 TATACAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 9 0.26
19 6 0.18
20 3 0.09
21 1 0.03
22 9 0.26
24 6 0.18
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (22 bp):
TATCATGCAAAATAATATAATA
Found at i:4965065 original size:19 final size:18
Alignment explanation
Indices: 4965025--4965067 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
4965015 AAAATAATAT
** *
4965025 AATATATCATGCAATTAT
1 AATATATCATGCAAAGAC
4965043 AATATAGTCATGCAAAGAC
1 AATATA-TCATGCAAAGAC
4965062 AATATA
1 AATATA
4965068 ATTATACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.30
Consensus pattern (18 bp):
AATATATCATGCAAAGAC
Found at i:4965125 original size:18 final size:19
Alignment explanation
Indices: 4965095--4965149 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
4965085 TATATAAATT
*
4965095 ATCATGCATTTAATATAAA
1 ATCATGCAATTAATATAAA
4965114 AT-ATGCAATTAAT-TAATA
1 ATCATGCAATTAATATAA-A
*
4965132 ATCATGC-ATAAATATAAA
1 ATCATGCAATTAATATAAA
4965150 TAAAAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 3 0.10
18 19 0.61
19 9 0.29
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCATGCAATTAATATAAA
Found at i:4965290 original size:6 final size:6
Alignment explanation
Indices: 4965281--4965326 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
4965271 ATAAAAAACA
*
4965281 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA- GAAAAT AGAAAA- AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAA
4965327 ACCTACGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 8 0.22
6 24 0.67
7 4 0.11
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:4965296 original size:12 final size:11
Alignment explanation
Indices: 4965273--4965326 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 11
4965263 GAGATAGAAT
*
4965273 AAAAAACAA-A
1 AAAAAAAAATA
*
4965283 AAATAAAAATA
1 AAAAAAAAATA
4965294 AAAATAAAAATA
1 AAAA-AAAAATA
*
4965306 AAAAGAAAATA
1 AAAAAAAAATA
4965317 GAAAAAAAAA
1 -AAAAAAAAA
4965327 ACCTACGATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 7 0.19
11 10 0.28
12 19 0.53
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:4965688 original size:14 final size:13
Alignment explanation
Indices: 4965668--4965692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4965658 CATTGAAAAT
4965668 TTTAAAAATTCAA
1 TTTAAAAATTCAA
4965681 TTTAAAAATTCA
1 TTTAAAAATTCA
4965693 GTCAAAACCC
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTAAAAATTCAA
Found at i:4966665 original size:33 final size:33
Alignment explanation
Indices: 4966628--4966691 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
4966618 AAATTTTCAA
*
4966628 AGATTCAAGATTT-GCAAAGGTTCCAAATTCATT
1 AGATTCAAG-TTTCACAAAGGTTCCAAATTCATT
* * *
4966661 AGATTTAAGTTTCACAAAGTTTCCAGATTCA
1 AGATTCAAGTTTCACAAAGGTTCCAAATTCA
4966692 CAAAAATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 3 0.12
33 23 0.88
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (33 bp):
AGATTCAAGTTTCACAAAGGTTCCAAATTCATT
Found at i:4966883 original size:19 final size:20
Alignment explanation
Indices: 4966856--4966895 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
4966846 TCACAATAGA
*
4966856 TTCAGATTTGCAAG-ATTTT
1 TTCAAATTTGCAAGAATTTT
4966875 TTCAAATTTGCAAGAATTTT
1 TTCAAATTTGCAAGAATTTT
4966895 T
1 T
4966896 AAGTTCGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTCAAATTTGCAAGAATTTT
Found at i:4966924 original size:17 final size:17
Alignment explanation
Indices: 4966898--4966942 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4966888 GAATTTTTAA
* *
4966898 GTTCGTAAGAACTTCAT
1 GTTCGCAAGAACTTCAG
*
4966915 GTTCGCAAGAATTTCAG
1 GTTCGCAAGAACTTCAG
4966932 GTTCGCAAGAA
1 GTTCGCAAGAA
4966943 ATTGTAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (17 bp):
GTTCGCAAGAACTTCAG
Found at i:4966963 original size:27 final size:26
Alignment explanation
Indices: 4966921--4966977 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
4966911 TCATGTTCGC
* *
4966921 AAGAATTTCAGGTTCGCAAGAAATTGT
1 AAGAATTTCAGATTCGCAAG-AATTGA
*
4966948 AAGAGTTTCAGATTCGCAAGAATTGA
1 AAGAATTTCAGATTCGCAAGAATTGA
4966974 AAGA
1 AAGA
4966978 TTCGTAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (26 bp):
AAGAATTTCAGATTCGCAAGAATTGA
Found at i:4967361 original size:23 final size:23
Alignment explanation
Indices: 4967334--4967407 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
4967324 TTTCACAACC
4967334 AAAATTCAAAGATTCTCATTCGA
1 AAAATTCAAAGATTCTCATTCGA
*
4967357 AAAATAT-ATAGA-T-TCATAT-GA
1 AAAAT-TCAAAGATTCTCAT-TCGA
* *
4967378 AAATTTTCAAAGATTCGCATTCGA
1 AAA-ATTCAAAGATTCTCATTCGA
4967402 AAAATT
1 AAAATT
4967408 TTAGAGATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
21 10 0.26
22 7 0.18
23 13 0.33
24 9 0.23
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (23 bp):
AAAATTCAAAGATTCTCATTCGA
Found at i:4967388 original size:45 final size:47
Alignment explanation
Indices: 4967325--4967439 Score: 141
Period size: 45 Copynumber: 2.6 Consensus size: 47
4967315 GATTTCAAGT
* * *
4967325 TTCACAACCAAAA--TTCAAAGATTCTCATTCGAAAAA-TATATAGA
1 TTCACATCCAAAATTTTCAAAGATTCGCATTCGAAAAATTATAGAGA
* * *
4967369 TTCATAT-GAAAATTTTCAAAGATTCGCATTCGAAAAATTTTAGAGA
1 TTCACATCCAAAATTTTCAAAGATTCGCATTCGAAAAATTATAGAGA
4967415 TTCACATCCAAAATTTT-AAAGATTC
1 TTCACATCCAAAATTTTCAAAGATTC
4967440 AAAAAAAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
43 4 0.07
44 5 0.08
45 22 0.37
46 20 0.34
47 8 0.14
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (47 bp):
TTCACATCCAAAATTTTCAAAGATTCGCATTCGAAAAATTATAGAGA
Found at i:4967415 original size:24 final size:22
Alignment explanation
Indices: 4967377--4967471 Score: 79
Period size: 22 Copynumber: 4.3 Consensus size: 22
4967367 GATTCATATG
*
4967377 AAAATTTTCAAAGATTCGCATTCGA
1 AAAATTTT-AAAGATTCACA-TC-A
* *
4967402 AAAATTTTAGAGATTCACATCC
1 AAAATTTTAAAGATTCACATCA
4967424 AAAATTTTAAAGATTCA-A--A
1 AAAATTTTAAAGATTCACATCA
* * * *
4967443 AAAAATTTAAATATTCATATCT
1 AAAATTTTAAAGATTCACATCA
4967465 AAAATTT
1 AAAATTT
4967472 CAAAAGTCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
19 15 0.26
20 1 0.02
21 1 0.02
22 22 0.38
23 2 0.03
24 9 0.16
25 8 0.14
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (22 bp):
AAAATTTTAAAGATTCACATCA
Found at i:4967437 original size:46 final size:45
Alignment explanation
Indices: 4967325--4967439 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 45
4967315 GATTTCAAGT
* * * *
4967325 TTCACAACCAAAA-TTCAAAGATTCTCATTCGAAAAATATATAGA
1 TTCACATCCAAAATTTTAAAGATTCGCATTCGAAAAATATAGAGA
* * *
4967369 TTCATAT-GAAAATTTTCAAAGATTCGCATTCGAAAAATTTTAGAGA
1 TTCACATCCAAAATTTT-AAAGATTCGCATTCGAAAAA-TATAGAGA
4967415 TTCACATCCAAAATTTTAAAGATTC
1 TTCACATCCAAAATTTTAAAGATTC
4967440 AAAAAAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
43 4 0.07
44 7 0.12
45 19 0.33
46 20 0.34
47 8 0.14
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (45 bp):
TTCACATCCAAAATTTTAAAGATTCGCATTCGAAAAATATAGAGA
Found at i:4972509 original size:17 final size:16
Alignment explanation
Indices: 4972483--4972517 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4972473 TGCGCAAATG
*
4972483 AATGATAAATATATAA
1 AATGATAAATAAATAA
4972499 AATGAATAAATAAATAA
1 AATG-ATAAATAAATAA
4972516 AA
1 AA
4972518 CAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
AATGATAAATAAATAA
Found at i:4972523 original size:17 final size:17
Alignment explanation
Indices: 4972487--4972525 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4972477 CAAATGAATG
* **
4972487 ATAAATATATAAAATGA
1 ATAAATAAATAAAACAA
4972504 ATAAATAAATAAAACAA
1 ATAAATAAATAAAACAA
4972521 ATAAA
1 ATAAA
4972526 ATAGAAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAAATAAATAAAACAA
Found at i:4973331 original size:13 final size:14
Alignment explanation
Indices: 4973298--4973330 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
4973288 TAAAATAAAA
*
4973298 CAAAAATTATCTTG
1 CAAAAATTATCATG
4973312 CAAAAATTATCATG
1 CAAAAATTATCATG
4973326 CAAAA
1 CAAAA
4973331 TAATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (14 bp):
CAAAAATTATCATG
Found at i:4973347 original size:22 final size:22
Alignment explanation
Indices: 4973319--4973381 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
4973309 TTGCAAAAAT
4973319 TATCATGCAAAATAATATAATA
1 TATCATGCAAAATAATATAATA
4973341 TATCATGC--AAT--TATAATA
1 TATCATGCAAAATAATATAATA
*
4973359 TAGTCATACAAAGATAATATAAT
1 TA-TCATGCAAA-ATAATATAAT
4973382 TATGCAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 9 0.26
19 5 0.15
20 3 0.09
21 1 0.03
22 10 0.29
24 6 0.18
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (22 bp):
TATCATGCAAAATAATATAATA
Found at i:4973375 original size:19 final size:18
Alignment explanation
Indices: 4973335--4973379 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4973325 GCAAAATAAT
* **
4973335 ATAATATATCATGCAATT
1 ATAATATATCATACAAAG
4973353 ATAATATAGTCATACAAAG
1 ATAATATA-TCATACAAAG
4973372 ATAATATA
1 ATAATATA
4973380 ATTATGCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (18 bp):
ATAATATATCATACAAAG
Found at i:4973543 original size:3 final size:3
Alignment explanation
Indices: 4973535--4973563 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4973525 ATAAATAAAT
4973535 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
4973564 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:4973568 original size:3 final size:3
Alignment explanation
Indices: 4973562--4973617 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
4973552 CAACAACAAC
4973562 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4973610 AAT AAT AA
1 AAT AAT AA
4973618 AACACAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4973644 original size:14 final size:14
Alignment explanation
Indices: 4973625--4973670 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
4973615 TAAAACACAA
4973625 AAAATCAAAAATAG
1 AAAATCAAAAATAG
*
4973639 AAAATCAAAAACA-
1 AAAATCAAAAATAG
*
4973652 AAAATAAAAAAATAG
1 AAAAT-CAAAAATAG
4973667 AAAA
1 AAAA
4973671 AAAGCTTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 5 0.19
14 18 0.67
15 4 0.15
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (14 bp):
AAAATCAAAAATAG
Found at i:4973662 original size:20 final size:21
Alignment explanation
Indices: 4973624--4973662 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4973614 ATAAAACACA
*
4973624 AAAAATCAAAAATAGAAAATC
1 AAAAATCAAAAATAAAAAATC
4973645 AAAAA-CAAAAATAAAAAA
1 AAAAATCAAAAATAAAAAA
4973663 ATAGAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (21 bp):
AAAAATCAAAAATAAAAAATC
Found at i:4973670 original size:7 final size:6
Alignment explanation
Indices: 4973565--4973661 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
4973555 CAACAACAAT
* * * * * * * *
4973565 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
* *
4973613 AATAAA ACACAAAA AATCAAA AATAGAA AATCAAA AACAAA AATAAA AA
1 AATAAA A-A-TAAA AAT-AAA AATA-AA AAT-AAA AATAAA AATAAA AA
4973662 AATAGAAAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
6 59 0.73
7 17 0.21
8 5 0.06
ACGTcount: A:0.72, C:0.05, G:0.01, T:0.22
Consensus pattern (6 bp):
AATAAA
Found at i:4977093 original size:28 final size:29
Alignment explanation
Indices: 4977037--4977094 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
4977027 TAATCATGTA
* *
4977037 AAAATACTAAAATAAACAAACACATAAAT
1 AAAATACTAAAATAAACAAACAAAAAAAT
4977066 AAAATACT-AAATAAA-AATACAAAAAAAT
1 AAAATACTAAAATAAACAA-ACAAAAAAAT
4977094 A
1 A
4977095 GAAACAGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 2 0.08
28 16 0.62
29 8 0.31
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.17
Consensus pattern (29 bp):
AAAATACTAAAATAAACAAACAAAAAAAT
Found at i:4977841 original size:9 final size:8
Alignment explanation
Indices: 4977824--4977848 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4977814 AACTCAGCAC
4977824 TTATTTTT
1 TTATTTTT
4977832 TTATTTTT
1 TTATTTTT
4977840 TTATTTTT
1 TTATTTTT
4977848 T
1 T
4977849 ATTAACAAAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:4978078 original size:44 final size:43
Alignment explanation
Indices: 4978022--4978230 Score: 197
Period size: 43 Copynumber: 4.8 Consensus size: 43
4978012 ATAAAAACTG
* *
4978022 CTCTAAACAGAGGCTCTATGACTTTGAAAAAGTAAAGAAAGCTC
1 CTCTAAACAGAGGCTCAATGACTTTGAAAAA-TAAATAAAGCTC
* * * *
4978066 ATCTAAATAGAGGCTCAATGACTCTGGAAAAAATAAATCAAGCTC
1 CTCTAAACAGAGGCTCAATGACT-TTG-AAAAATAAATAAAGCTC
* **
4978111 CTCTAAACAAAGGCTCAACAACTTTGAAAAATAAATAAAGCTC
1 CTCTAAACAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
* * * * *
4978154 CTCTAAGC-GAAGGCTCAAAGACTTTGAAACA-AAACAAACCTC
1 CTCTAAACAG-AGGCTCAATGACTTTGAAAAATAAATAAAGCTC
* * ** *
4978196 CTCTAAGCAGAGGCTTAACAATTTTGAAAAATAAA
1 CTCTAAACAGAGGCTCAATGACTTTGAAAAATAAA
4978231 AGCTTTTCTA
Statistics
Matches: 135, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
42 33 0.24
43 45 0.33
44 22 0.16
45 30 0.22
46 5 0.04
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (43 bp):
CTCTAAACAGAGGCTCAATGACTTTGAAAAATAAATAAAGCTC
Found at i:4978155 original size:43 final size:43
Alignment explanation
Indices: 4978022--4978385 Score: 233
Period size: 40 Copynumber: 8.7 Consensus size: 43
4978012 ATAAAAACTG
* ** *
4978022 CTCTAAACAGAGGCTCTATGACTTTGAAAAAGTAAAGAAAGCTC
1 CTCTAAACAGAGGCTCAACAACTTTGAAAAA-TAAATAAAGCTC
* * ** * *
4978066 ATCTAAATAGAGGCTCAATGACTCTGGAAAAAATAAATCAAGCTC
1 CTCTAAACAGAGGCTCAACAACT-TTG-AAAAATAAATAAAGCTC
*
4978111 CTCTAAACAAAGGCTCAACAACTTTGAAAAATAAATAAAGCTC
1 CTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTC
* * * *
4978154 CTCTAAGC-GAAGGCTCAA-AGACTTTGAAACA-AAACAAACCTC
1 CTCTAAACAG-AGGCTCAACA-ACTTTGAAAAATAAATAAAGCTC
* * * *
4978196 CTCTAAGCAGAGGCTTAACAATTTTGAAAAAT--A-AAAGCTT
1 CTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTC
* * * * *
4978236 TTCTAATCAGAGACTTAACAA-TTT--TAAA-AAATAAAGGCTC
1 CTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAA-GCTC
* * * * *
4978276 TTTTAAATAAAGGCT-AACAACTTTGAAAAAT--A-AAGGCTC
1 CTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTC
* * *
4978315 ATCTAAACAGAGGCACAACAACTTTGAAAAAT-AA-AGA-CTC
1 CTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTC
* *
4978355 CTATAAACAGA-GATACAACAACTTTGAAAAA
1 CTCTAAACAGAGGCT-CAACAACTTTGAAAAA
4978386 AAAAGCTCAT
Statistics
Matches: 256, Mismatches: 46, Indels: 40
0.75 0.13 0.12
Matches are distributed among these distances:
37 3 0.01
38 1 0.00
39 26 0.10
40 85 0.33
41 4 0.02
42 37 0.14
43 43 0.17
44 22 0.09
45 30 0.12
46 5 0.02
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (43 bp):
CTCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAAGCTC
Found at i:4990340 original size:9 final size:8
Alignment explanation
Indices: 4990315--4990339 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4990305 TTTTTATTAA
4990315 TATTTTTT
1 TATTTTTT
4990323 TATTTTTT
1 TATTTTTT
4990331 TATTTTTT
1 TATTTTTT
4990339 T
1 T
4990340 TGGTTTGAAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:4990444 original size:26 final size:24
Alignment explanation
Indices: 4990415--4990487 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 24
4990405 TAAATTCATA
*
4990415 AAAAATTTCTCACCTAATAATTTTAT
1 AAAAATTTCTCA-TTAATAATTTT-T
* * *
4990441 AAAAATTTATCATTTACAATTTTT
1 AAAAATTTCTCATTAATAATTTTT
4990465 AAAAATTTCATCATTTAATAATT
1 AAAAATTTC-TCA-TTAATAATT
4990488 AATACTCATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 9 0.24
25 11 0.29
26 18 0.47
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAAATTTCTCATTAATAATTTTT
Found at i:4990472 original size:24 final size:26
Alignment explanation
Indices: 4990433--4990481 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
4990423 CTCACCTAAT
4990433 AATTTTATAAAAATTT-ATCATTTAC
1 AATTTTATAAAAATTTCATCATTTAC
4990458 AATTTT-TAAAAATTTCATCATTTA
1 AATTTTATAAAAATTTCATCATTTA
4990482 ATAATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (26 bp):
AATTTTATAAAAATTTCATCATTTAC
Found at i:4994084 original size:26 final size:26
Alignment explanation
Indices: 4994055--4994108 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
4994045 TGATGAAAAA
*
4994055 AATA-AAAAAAAATCAACATAAAAATC
1 AATACAAAAAAAAT-AAAATAAAAATC
* *
4994081 AATACAAAATAAATAAAATCAAAATC
1 AATACAAAAAAAATAAAATAAAAATC
4994107 AA
1 AA
4994109 AATAGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (26 bp):
AATACAAAAAAAATAAAATAAAAATC
Found at i:4994986 original size:3 final size:3
Alignment explanation
Indices: 4994978--4995032 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
4994968 TGTTTTAAAG
* *
4994978 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAC AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4995025 AAT AAT AA
1 AAT AAT AA
4995033 AAAAAATTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:4995252 original size:39 final size:39
Alignment explanation
Indices: 4995208--4995501 Score: 201
Period size: 39 Copynumber: 7.5 Consensus size: 39
4995198 CGAGATTATA
* * * *
4995208 AAACTTTAAATTTAAAAAGCTCCTCTCACTAGAGGCAAC
1 AAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAAC
* ** * *
4995247 AAACTTTAAATTAAAAAAACTCATTTAACCAAAGGCAAC
1 AAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAAC
* * * *
4995286 AAACTTTAAATATTAAAAGGCTCTTCTGACCAGAGGCAAT
1 AAACTTTAAAT-TTAAAAGGCTCCTCTAACCAAAGGCAAC
* * * * * * * * *
4995326 GAACTTTAAATTTTAAAGGTTCCTTTGACTAGAGGTAAT
1 AAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAAC
* * * * * * *
4995365 GAACTTTAAATTCAAAAAGCTTCTTTAACCAAAGGTAAT
1 AAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAAC
** * *
4995404 AAACTTTAAATTGCAAAGGCTTCTCTGACCAAAGGCAAC
1 AAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAAC
* ** * * *
4995443 GAACTTTAAATCCAAAAGGCTCATTTAACCAAAAGCAAC
1 AAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAAC
* *
4995482 AAATTTTAAATGTTGAAAGG
1 AAACTTTAAAT-TTAAAAGG
4995502 GTCTTCTCAC
Statistics
Matches: 201, Mismatches: 52, Indels: 3
0.79 0.20 0.01
Matches are distributed among these distances:
39 166 0.83
40 35 0.17
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (39 bp):
AAACTTTAAATTTAAAAGGCTCCTCTAACCAAAGGCAAC
Found at i:4995359 original size:118 final size:117
Alignment explanation
Indices: 4995209--4995453 Score: 305
Period size: 118 Copynumber: 2.1 Consensus size: 117
4995199 GAGATTATAA
4995209 AACTTTAAATTTAAAAAGCTCCTCTCACTAGAGGCAACAAACTTTAAATTAAAAAAAC-TCATTT
1 AACTTTAAATTTAAAAAGCTCCTCTCACTAGAGGCAACAAACTTTAAATTAAAAAAACTTC-TTT
* * *
4995273 AACCAAAGGCAACAAACTTTAAATATTAAAAGGC-TCTTCTGACCAGAGGCAATG
65 AACCAAAGGCAACAAACTTTAAAT-TGAAAAGGCTTC-TCTGACCAAAGGCAACG
* * * * * * ** * *
4995327 AACTTTAAATTTTAAAGGTTCCTTTGACTAGAGGTAATGAACTTTAAATTCAAAAAGCTTCTTTA
1 AACTTTAAATTTAAAAAGCTCCTCTCACTAGAGGCAACAAACTTTAAATTAAAAAAACTTCTTTA
* * *
4995392 ACCAAAGGTAATAAACTTTAAATTGCAAAGGCTTCTCTGACCAAAGGCAACG
66 ACCAAAGGCAACAAACTTTAAATTGAAAAGGCTTCTCTGACCAAAGGCAACG
4995444 AACTTTAAAT
1 AACTTTAAAT
4995454 CCAAAAGGCT
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
117 32 0.29
118 75 0.69
119 2 0.02
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.29
Consensus pattern (117 bp):
AACTTTAAATTTAAAAAGCTCCTCTCACTAGAGGCAACAAACTTTAAATTAAAAAAACTTCTTTA
ACCAAAGGCAACAAACTTTAAATTGAAAAGGCTTCTCTGACCAAAGGCAACG
Found at i:4995422 original size:78 final size:75
Alignment explanation
Indices: 4995287--4995570 Score: 249
Period size: 78 Copynumber: 3.7 Consensus size: 75
4995277 AAAGGCAACA
* * * * *
4995287 AACTTTAAATATTAAAAGGCTCTTCTGACCAGAGGCAATGAACTTTAAATTTTAAAGGTTCCTTT
1 AACTTTAAAT-TCAAAAGGCTCTT-TAACCAAAGGCAATAAACTTTAAA-TTGAAAGGTT-CTTT
*
4995352 GACTAGAGGTAATG
62 GACTAGAGGCAATG
* * *
4995366 AACTTTAAATTCAAAAAGCTTCTTTAACCAAAGGTAATAAACTTTAAATTGCAAAGGCTTCTCTG
1 AACTTTAAATTCAAAAGGC-TCTTTAACCAAAGGCAATAAACTTTAAATTG-AAAGG-TTCTTTG
* * *
4995431 ACCAAAGGCAACG
63 ACTAGAGGCAATG
* * * * *
4995444 AACTTTAAATCCAAAAGGCTCATTTAACCAAAAGCAACAAATTTTAAATGTTGAAAGGGTCTTCT
1 AACTTTAAATTCAAAAGGCTC-TTTAACCAAAGGCAATAAACTTTAAA--TTGAAAGGTTCTT-T
*
4995509 CACTAGAGGCAATG
62 GACTAGAGGCAATG
4995523 AACTTTAAA-T-----GGCTCATTTAACCAAAGGCAATAAACTTTAAATT-AAAG
1 AACTTTAAATTCAAAAGGCTC-TTTAACCAAAGGCAATAAACTTTAAATTGAAAG
4995571 ATCTGATAGG
Statistics
Matches: 170, Mismatches: 28, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
70 4 0.02
71 2 0.01
73 29 0.17
77 4 0.02
78 87 0.51
79 41 0.24
80 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (75 bp):
AACTTTAAATTCAAAAGGCTCTTTAACCAAAGGCAATAAACTTTAAATTGAAAGGTTCTTTGACT
AGAGGCAATG
Found at i:4995490 original size:117 final size:118
Alignment explanation
Indices: 4995242--4995492 Score: 274
Period size: 117 Copynumber: 2.1 Consensus size: 118
4995232 CTCACTAGAG
*
4995242 GCAACAAACTTTAAATTAAAAAAACTCATTTAACCAAAGGCAACAAACTTTAAATATTAAAAGGC
1 GCAACAAACTTTAAATTAAAAAAACTCATTTAACCAAAGGCAACAAACTTTAAATATGAAAAGGC
* * *** * * * * * *
4995307 TCTTCTGACCAGAGGCAATGAACTTTAAATTTTAAAGGTTCCTTTGACTAGAG
66 TCTTCTGACCAAAGGCAACGAACTTTAAATCCAAAAGGCTCATTTAACCAAAA
* ** * * * * *
4995360 GTAATGAACTTTAAATTCAAAAAGCTTC-TTTAACCAAAGGTAATAAACTTTAAAT-TGCAAAGG
1 GCAACAAACTTTAAATTAAAAAAAC-TCATTTAACCAAAGGCAACAAACTTTAAATATGAAAAGG
4995423 CT-TCTCTGACCAAAGGCAACGAACTTTAAATCCAAAAGGCTCATTTAACCAAAA
65 CTCT-TCTGACCAAAGGCAACGAACTTTAAATCCAAAAGGCTCATTTAACCAAAA
*
4995477 GCAACAAATTTTAAAT
1 GCAACAAACTTTAAAT
4995493 GTTGAAAGGG
Statistics
Matches: 107, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
116 1 0.01
117 59 0.55
118 45 0.42
119 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (118 bp):
GCAACAAACTTTAAATTAAAAAAACTCATTTAACCAAAGGCAACAAACTTTAAATATGAAAAGGC
TCTTCTGACCAAAGGCAACGAACTTTAAATCCAAAAGGCTCATTTAACCAAAA
Found at i:4995718 original size:39 final size:38
Alignment explanation
Indices: 4995654--4995732 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 38
4995644 AAGACTCTTG
* *
4995654 AAATTAAAAAGCTCATCTGATCAGAGGCAACGAACTTT
1 AAATTAAAAAGCTCATCTGACCAGAGGCAACAAACTTT
* * *
4995692 AAATTCAAAAGGCTCATTTGACCAGAGGTAACAAACTTT
1 AAATT-AAAAAGCTCATCTGACCAGAGGCAACAAACTTT
4995731 AA
1 AA
4995733 TCTGACCAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 5 0.14
39 30 0.86
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (38 bp):
AAATTAAAAAGCTCATCTGACCAGAGGCAACAAACTTT
Found at i:4995738 original size:25 final size:25
Alignment explanation
Indices: 4995710--4995757 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4995700 AAGGCTCATT
**
4995710 TGACCAGAGGTAACAAACTTTAATC
1 TGACCAGAGACAACAAACTTTAATC
*
4995735 TGACCAGAGACAACGAACTTTAA
1 TGACCAGAGACAACAAACTTTAA
4995758 ATTCAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (25 bp):
TGACCAGAGACAACAAACTTTAATC
Found at i:5004187 original size:8 final size:8
Alignment explanation
Indices: 5004174--5004202 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
5004164 CACACATATG
5004174 ATGCATGA
1 ATGCATGA
5004182 ATGCATGA
1 ATGCATGA
5004190 ATGCATGA
1 ATGCATGA
5004198 ATGCA
1 ATGCA
5004203 AAGGATGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (8 bp):
ATGCATGA
Found at i:5008262 original size:14 final size:14
Alignment explanation
Indices: 5008240--5008298 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 14
5008230 ATCATGAAAA
5008240 AAAATAAAAAAATC
1 AAAATAAAAAAATC
*
5008254 AACATAAAAATCAATAC
1 AAAATAAAAA--AAT-C
5008271 AAAATAAATAAAATC
1 AAAATAAA-AAAATC
5008286 AAAATAATAAAAA
1 AAAATAA-AAAAA
5008299 AAAACCTGCG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 9 0.24
15 12 0.32
16 7 0.18
17 8 0.21
18 2 0.05
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATAAAAAAATC
Found at i:5009097 original size:3 final size:3
Alignment explanation
Indices: 5009089--5009114 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5009079 TATTTTAAAG
5009089 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
5009115 AGAAAATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5013100 original size:17 final size:19
Alignment explanation
Indices: 5013068--5013107 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
5013058 TTACTTCAAC
5013068 TAAAATATTGATTTATAT-
1 TAAAATATTGATTTATATA
*
5013086 TAAAA-ATTTATTTATATA
1 TAAAATATTGATTTATATA
5013104 TAAA
1 TAAA
5013108 TTAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TAAAATATTGATTTATATA
Found at i:5013141 original size:23 final size:23
Alignment explanation
Indices: 5013114--5013166 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
5013104 TAAATTAAAT
* *
5013114 ATTAAAGGCTTATTTGAATATAA
1 ATTAAAAGCTTATTTAAATATAA
* *
5013137 GTTAAAAGTTTATTTAAATATAA
1 ATTAAAAGCTTATTTAAATATAA
5013160 ATTAAAA
1 ATTAAAA
5013167 ATTAAAAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (23 bp):
ATTAAAAGCTTATTTAAATATAA
Found at i:5013189 original size:53 final size:53
Alignment explanation
Indices: 5013085--5013189 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
5013075 TTGATTTATA
* * ** * **
5013085 TTAAAAATTTATTTATATATAAATTAAATATTAAAGGCTTATTTGAATATAAG
1 TTAAAAATTTATTTAAATATAAATTAAAAATTAAAAACTTAATAAAATATAAG
*
5013138 TTAAAAGTTTATTTAAATATAAATTAAAAATTAAAAAC-TAATAAAAGTATAA
1 TTAAAAATTTATTTAAATATAAATTAAAAATTAAAAACTTAATAAAA-TATAA
5013190 ATTTTTATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
52 5 0.12
53 38 0.88
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (53 bp):
TTAAAAATTTATTTAAATATAAATTAAAAATTAAAAACTTAATAAAATATAAG
Found at i:5017689 original size:10 final size:10
Alignment explanation
Indices: 5017674--5017717 Score: 79
Period size: 10 Copynumber: 4.4 Consensus size: 10
5017664 TTATGAATAA
5017674 TAAATAAATT
1 TAAATAAATT
5017684 TAAATAAATT
1 TAAATAAATT
5017694 TAAATAAATT
1 TAAATAAATT
*
5017704 TAAATAAATA
1 TAAATAAATT
5017714 TAAA
1 TAAA
5017718 CAAACATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAATAAATT
Found at i:5017737 original size:11 final size:10
Alignment explanation
Indices: 5017675--5017745 Score: 63
Period size: 10 Copynumber: 6.8 Consensus size: 10
5017665 TATGAATAAT
*
5017675 AAATAAATTT
1 AAATAAATTA
*
5017685 AAATAAATTT
1 AAATAAATTA
*
5017695 AAATAAATTT
1 AAATAAATTA
5017705 AAATAAATATA
1 AAATAAAT-TA
5017716 AACA-AACATTA
1 AA-ATAA-ATTA
5017727 AAATAAGATTA
1 AAATAA-ATTA
*
5017738 TAATAAAT
1 AAATAAAT
5017746 AATAAAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
10 31 0.57
11 20 0.37
12 3 0.06
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.32
Consensus pattern (10 bp):
AAATAAATTA
Found at i:5024141 original size:31 final size:31
Alignment explanation
Indices: 5024094--5024230 Score: 131
Period size: 31 Copynumber: 4.5 Consensus size: 31
5024084 CGTATTTTCT
*
5024094 TAAAATTCGAAACCCCTAAAATCCAAAATCCGC
1 TAAAA-TCCAAACCCCTAAAATCCAAAATCC-C
* *
5024127 T-AAATCCAAACCCCTAAAATTCAAAACCCC
1 TAAAATCCAAACCCCTAAAATCCAAAATCCC
*
5024157 TAAAATCCAAA-CCCAAAAATCC-AAATCCC
1 TAAAATCCAAACCCCTAAAATCCAAAATCCC
* * *
5024186 TAAAATCCAAAATCCATAAAATTC-AAA-CCC
1 TAAAATCC-AAACCCCTAAAATCCAAAATCCC
* *
5024216 TTAAATCAAAACCCC
1 TAAAATCCAAACCCC
5024231 AAACCACAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
29 19 0.22
30 23 0.26
31 42 0.48
32 3 0.03
33 1 0.01
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (31 bp):
TAAAATCCAAACCCCTAAAATCCAAAATCCC
Found at i:5024151 original size:15 final size:16
Alignment explanation
Indices: 5024103--5024230 Score: 119
Period size: 16 Copynumber: 8.4 Consensus size: 16
5024093 TTAAAATTCG
5024103 AAACCCCTAAAATCCA
1 AAACCCCTAAAATCCA
*
5024119 AAATCCGCT-AAATCC-
1 AAA-CCCCTAAAATCCA
*
5024134 AAACCCCTAAAATTCA
1 AAACCCCTAAAATCCA
5024150 AAACCCCTAAAATCC-
1 AAACCCCTAAAATCCA
*
5024165 AAA-CCCAAAAATCC-
1 AAACCCCTAAAATCCA
*
5024179 AAATCCCTAAAATCCA
1 AAACCCCTAAAATCCA
* * *
5024195 AAATCCATAAAATTC-
1 AAACCCCTAAAATCCA
*
5024210 AAA-CCCTTAAAT-CA
1 AAACCCCTAAAATCCA
5024224 AAACCCC
1 AAACCCC
5024231 AAACCACAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
13 1 0.01
14 27 0.28
15 27 0.28
16 36 0.38
17 4 0.04
ACGTcount: A:0.49, C:0.34, G:0.01, T:0.16
Consensus pattern (16 bp):
AAACCCCTAAAATCCA
Found at i:5024222 original size:45 final size:45
Alignment explanation
Indices: 5024094--5024230 Score: 141
Period size: 45 Copynumber: 3.0 Consensus size: 45
5024084 CGTATTTTCT
* * *
5024094 TAAAATTCGAAACCCCTAAAATCCAAAATCCGC-TAAATCCAAACCCC
1 TAAAATCCAAAACCCATAAAATCC-AAA-CC-CATAAATCCAAACCCC
* * * *
5024141 TAAAATTCAAAACCCCTAAAATCCAAACCCAAAAATCCAAATCCC
1 TAAAATCCAAAACCCATAAAATCCAAACCCATAAATCCAAACCCC
* * * *
5024186 TAAAATCCAAAATCCATAAAATTCAAACCCTTAAATCAAAACCCC
1 TAAAATCCAAAACCCATAAAATCCAAACCCATAAATCCAAACCCC
5024231 AAACCACAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 51 0.65
46 3 0.04
47 23 0.29
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.18
Consensus pattern (45 bp):
TAAAATCCAAAACCCATAAAATCCAAACCCATAAATCCAAACCCC
Found at i:5026086 original size:19 final size:20
Alignment explanation
Indices: 5026053--5026091 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
5026043 TCCAACAAGC
*
5026053 CAAAAAAATAAAAAGGTTTT
1 CAAAAAAATAAAAAGATTTT
*
5026073 CAAAAAAAT-CAAAGATTTT
1 CAAAAAAATAAAAAGATTTT
5026092 TCTTAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (20 bp):
CAAAAAAATAAAAAGATTTT
Found at i:5032162 original size:33 final size:33
Alignment explanation
Indices: 5032107--5032532 Score: 433
Period size: 33 Copynumber: 13.1 Consensus size: 33
5032097 CTAAAAAAAA
*
5032107 TAAGCCCAATTTATCTGGCCATCAATGAAGTTT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTT
* * * *
5032140 TAAGTCCAGTTTATCTGACCATCAATAAAATTT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTT
*
5032173 TAAGCCCAG-TTATCTAGCC-TCAAATGAAGTTT
1 TAAGCCCAGTTTATCTGGCCATC-AATGAAGTTT
* * **
5032205 TAAGTCCAATTTATCTGGCCATCAATGAAACTT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTT
* * *
5032238 TAAACCTAGTTTATCTAGCCATCAATGAAGTTT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTT
*
5032271 TAAGCCCAGTTT-TCTGGCCATTAATGAAGTTT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTT
5032303 TAAG-CCAGTTTATCTGGCCATCAATGACA--TT
1 TAAGCCCAGTTTATCTGGCCATCAATGA-AGTTT
* * * * *
5032334 TAAGTCCAATTTTATTTGACCATCAATGAAGCTT
1 TAAG-CCCAGTTTATCTGGCCATCAATGAAGTTT
* *
5032368 TAAGCTCAATTTATCTGGCCATCAATGAAGTTT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTT
* *
5032401 TAAGCCCAGTTTATTTGGCTATCAATGACA--TT
1 TAAGCCCAGTTTATCTGGCCATCAATGA-AGTTT
* *
5032433 TAAGCCCAGTTTATCTGACC-TCAAATGAGGTTT
1 TAAGCCCAGTTTATCTGGCCATC-AATGAAGTTT
* * **
5032466 TAAGCCCAGTTTAACTGGCCTTCAAT-AAAATT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTT
* * *
5032498 TAATCCCAGTTTATTTGGCC-TCAAAAGAAGTTT
1 TAAGCCCAGTTTATCTGGCCATC-AATGAAGTTT
5032531 TA
1 TA
5032533 GAGTTTCAAA
Statistics
Matches: 321, Mismatches: 56, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
31 19 0.06
32 106 0.33
33 185 0.58
34 11 0.03
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (33 bp):
TAAGCCCAGTTTATCTGGCCATCAATGAAGTTT
Found at i:5032204 original size:65 final size:65
Alignment explanation
Indices: 5032107--5032532 Score: 445
Period size: 65 Copynumber: 6.5 Consensus size: 65
5032097 CTAAAAAAAA
* * * *
5032107 TAAGCCCAATTTATCTGGCCATCAATGAAGTTTTAAGTCCAGTTTATCTGACCATCAATAAAATT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTTTAAGCCCAGTTTATCTGGCCATCAATGAAA-T
5032172 T
65 T
* * *
5032173 TAAGCCCAG-TTATCTAGCC-TCAAATGAAGTTTTAAGTCCAATTTATCTGGCCATCAATGAAAC
1 TAAGCCCAGTTTATCTGGCCATC-AATGAAGTTTTAAGCCCAGTTTATCTGGCCATCAATGAAA-
5032236 TT
64 TT
* * * * *
5032238 TAAACCTAGTTTATCTAGCCATCAATGAAGTTTTAAGCCCAGTTT-TCTGGCCATTAATGAAGTT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTTTAAGCCCAGTTTATCTGGCCATCAATGAA-AT
5032302 T
65 T
* * * *
5032303 TAAG-CCAGTTTATCTGGCCATCAATGACA--TTTAAGTCCAATTTTATTTGACCATCAATGAAG
1 TAAGCCCAGTTTATCTGGCCATCAATGA-AGTTTTAAG-CCCAGTTTATCTGGCCATCAATGAA-
*
5032365 CTT
63 ATT
* * * * *
5032368 TAAGCTCAATTTATCTGGCCATCAATGAAGTTTTAAGCCCAGTTTATTTGGCTATCAATGACATT
1 TAAGCCCAGTTTATCTGGCCATCAATGAAGTTTTAAGCCCAGTTTATCTGGCCATCAATGAAATT
* * * * *
5032433 TAAGCCCAGTTTATCTGACC-TCAAATGAGGTTTTAAGCCCAGTTTAACTGGCCTTCAATAAAAT
1 TAAGCCCAGTTTATCTGGCCATC-AATGAAGTTTTAAGCCCAGTTTATCTGGCCATCAATGAAAT
5032497 T
65 T
* * *
5032498 TAATCCCAGTTTATTTGGCC-TCAAAAGAAGTTTTA
1 TAAGCCCAGTTTATCTGGCCATC-AATGAAGTTTTA
5032533 GAGTTTCAAA
Statistics
Matches: 305, Mismatches: 44, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
63 6 0.02
64 31 0.10
65 181 0.59
66 79 0.26
67 8 0.03
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (65 bp):
TAAGCCCAGTTTATCTGGCCATCAATGAAGTTTTAAGCCCAGTTTATCTGGCCATCAATGAAATT
Found at i:5032281 original size:98 final size:97
Alignment explanation
Indices: 5032107--5032521 Score: 448
Period size: 98 Copynumber: 4.3 Consensus size: 97
5032097 CTAAAAAAAA
* * *
5032107 TAAGCCCAATTTATCTGGCCATCAATGAAGTTTTAAGTCCAGTTTATCTGACCATCAATAAAATT
1 TAAGCCCAATTTATCTGGCCATCAATGAA-ATTTAAGTCCAGTTTATCTGACCATCAATGAAGTT
*
5032172 TTAAGCCCAGTTATCTAGCC-TCAAATGAAGTTT
65 TTAAGCCCAGTTATCTGGCCATC-AATGAAGTTT
* *
5032205 TAAGTCCAATTTATCTGGCCATCAATGAAACTTTAA-ACCTAGTTTATCT-AGCCATCAATGAAG
1 TAAGCCCAATTTATCTGGCCATCAATGAAA-TTTAAGTCC-AGTTTATCTGA-CCATCAATGAAG
* *
5032268 TTTTAAGCCCAGTTTTCTGGCCATTAATGAAGTTT
63 TTTTAAGCCCAGTTATCTGGCCATCAATGAAGTTT
* * * * *
5032303 TAAG-CCAGTTTATCTGGCCATCAATGACATTTAAGTCCAATTTTATTTGACCATCAATGAAGCT
1 TAAGCCCAATTTATCTGGCCATCAATGAAATTTAAGTCC-AGTTTATCTGACCATCAATGAAGTT
* *
5032367 TTAAGCTCAATTTATCTGGCCATCAATGAAGTTT
65 TTAAGC-CCAGTTATCTGGCCATCAATGAAGTTT
* * * * * *
5032401 TAAGCCCAGTTTATTTGGCTATCAATGACATTTAAGCCCAGTTTATCTGACC-TCAAATGAGGTT
1 TAAGCCCAATTTATCTGGCCATCAATGAAATTTAAGTCCAGTTTATCTGACCATC-AATGAAGTT
* * **
5032465 TTAAGCCCAGTTTAACTGGCCTTCAAT-AAAATT
65 TTAAGCCCAG-TTATCTGGCCATCAATGAAGTTT
* * *
5032498 TAATCCCAGTTTATTTGGCC-TCAA
1 TAAGCCCAATTTATCTGGCCATCAA
5032522 AAGAAGTTTT
Statistics
Matches: 273, Mismatches: 34, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
96 9 0.03
97 80 0.29
98 152 0.56
99 32 0.12
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (97 bp):
TAAGCCCAATTTATCTGGCCATCAATGAAATTTAAGTCCAGTTTATCTGACCATCAATGAAGTTT
TAAGCCCAGTTATCTGGCCATCAATGAAGTTT
Found at i:5033245 original size:87 final size:87
Alignment explanation
Indices: 5033128--5033289 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
5033118 ATTCACGGTG
* *
5033128 TTATCCCGATCGATTCATTATTCTCGACTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCG
1 TTATCCCAATCGATTCATTATTCTCAACTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCG
5033193 GGCATAATTTTAATTTGTGTTA
66 GGCATAATTTTAATTTGTGTTA
* * *
5033215 TTATCCCAATCGATTCATTATTCTCAACTTATGGTGTTGTCCCAGTCGATTTTGTAAGACCTCCG
1 TTATCCCAATCGATTCATTATTCTCAACTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCG
*
5033280 GGCGTAATTT
66 GGCATAATTT
5033290 CTGTAAGACC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (87 bp):
TTATCCCAATCGATTCATTATTCTCAACTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTCCG
GGCATAATTTTAATTTGTGTTA
Found at i:5033313 original size:24 final size:23
Alignment explanation
Indices: 5033262--5033314 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
5033252 TGTCCCAGTC
* *
5033262 GATTTTGTAAGACCTCCGGGCGT
1 GATTTTGTAAGACCTCCAGGCAT
* *
5033285 AATTTCTGTAAGACCTTCAGGCAT
1 GATTT-TGTAAGACCTCCAGGCAT
5033309 GATTTT
1 GATTTT
5033315 AATTCGTGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (23 bp):
GATTTTGTAAGACCTCCAGGCAT
Found at i:5033675 original size:24 final size:21
Alignment explanation
Indices: 5033622--5033666 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
5033612 TATATTTTTA
5033622 TAATCTAAAAAAATTAATTAAT
1 TAAT-TAAAAAAATTAATTAAT
5033644 TAATTAAAAAAATT-ATTAAT
1 TAATTAAAAAAATTAATTAAT
5033664 TAA
1 TAA
5033667 AGTTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.39
21 10 0.43
22 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTAAAAAAATTAATTAAT
Found at i:5034964 original size:16 final size:18
Alignment explanation
Indices: 5034943--5034975 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
5034933 GAAGGGAATA
5034943 AAAAAT-ATTT-TTCTAC
1 AAAAATAATTTCTTCTAC
5034959 AAAAATAATTTCTTCTA
1 AAAAATAATTTCTTCTA
5034976 GATGTTGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATAATTTCTTCTAC
Found at i:5035157 original size:16 final size:16
Alignment explanation
Indices: 5035132--5035238 Score: 93
Period size: 16 Copynumber: 6.9 Consensus size: 16
5035122 AAATTCGAAG
5035132 CCCCTAAAATCTAAAAT
1 CCCCTAAAATC-AAAAT
5035149 CCCCT-AAATCAAAA-
1 CCCCTAAAATCAAAAT
* *
5035163 CTCATAAAATTCAAAA-
1 CCCCTAAAA-TCAAAAT
*
5035179 CCCCTAAAATCCAAA-
1 CCCCTAAAATCAAAAT
*
5035194 CCCC-AAAATCCAAAT
1 CCCCTAAAATCAAAAT
5035209 -CCCTAAAATCCAAAAT
1 CCCCTAAAAT-CAAAAT
5035225 -CCCTAAAATTCAAA
1 CCCCTAAAA-TCAAA
5035239 CCCTTAAATC
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
14 16 0.21
15 21 0.27
16 35 0.45
17 6 0.08
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCCTAAAATCAAAAT
Found at i:5035172 original size:15 final size:15
Alignment explanation
Indices: 5035136--5035270 Score: 77
Period size: 15 Copynumber: 9.0 Consensus size: 15
5035126 TCGAAGCCCC
*
5035136 TAAAATCTAAAATCCCC
1 TAAAATC-AAAA-CCCA
*
5035153 T-AAATCAAAACTCA
1 TAAAATCAAAACCCA
*
5035167 TAAAATTCAAAACCCC
1 TAAAA-TCAAAACCCA
*
5035183 TAAAATCCAAACCC-
1 TAAAATCAAAACCCA
* *
5035197 CAAAATCCAAATCCC-
1 TAAAAT-CAAAACCCA
5035212 TAAAATCCAAAATCCC-
1 TAAAAT-CAAAA-CCCA
5035228 TAAAATTC-AAACCC-
1 TAAAA-TCAAAACCCA
*
5035242 TTAAATCAAAACCC-
1 TAAAATCAAAACCCA
**
5035256 TAAACCCAAAACCCA
1 TAAAATCAAAACCCA
5035271 AACCCTAAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.02
14 32 0.33
15 34 0.35
16 27 0.28
17 2 0.02
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (15 bp):
TAAAATCAAAACCCA
Found at i:5035203 original size:14 final size:14
Alignment explanation
Indices: 5035180--5035259 Score: 97
Period size: 14 Copynumber: 5.5 Consensus size: 14
5035170 AATTCAAAAC
5035180 CCCTAAAATCCAAA
1 CCCTAAAATCCAAA
*
5035194 CCCCAAAATCCAAA
1 CCCTAAAATCCAAA
5035208 TCCCTAAAATCCAAAA
1 -CCCTAAAATCC-AAA
*
5035224 TCCCTAAAATTCAAA
1 -CCCTAAAATCCAAA
* *
5035239 CCCTTAAATCAAAA
1 CCCTAAAATCCAAA
5035253 CCCTAAA
1 CCCTAAA
5035260 CCCAAAACCC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
14 30 0.53
15 13 0.23
16 14 0.25
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (14 bp):
CCCTAAAATCCAAA
Found at i:5035223 original size:45 final size:44
Alignment explanation
Indices: 5035132--5035269 Score: 152
Period size: 45 Copynumber: 3.1 Consensus size: 44
5035122 AAATTCGAAG
* * *
5035132 CCCCTAAAATCTAAAATCCCCTAAATCAAAACTCATAAAATTCAAAA
1 CCCCTAAAATC-CAAA-CCCCTAAATCAAAAC-CCTAAAATCCAAAA
* *
5035179 CCCCTAAAATCCAAACCCCAAAATCCAAATCCCTAAAATCCAAAA
1 CCCCTAAAATCCAAACCCCTAAAT-CAAAACCCTAAAATCCAAAA
* * * *
5035224 TCCCTAAAATTCAAACCCTTAAATCAAAACCCT-AAACCCAAAA
1 CCCCTAAAATCCAAACCCCTAAATCAAAACCCTAAAATCCAAAA
5035267 CCC
1 CCC
5035270 AAACCCTAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
43 11 0.14
44 8 0.10
45 40 0.51
46 8 0.10
47 11 0.14
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (44 bp):
CCCCTAAAATCCAAACCCCTAAATCAAAACCCTAAAATCCAAAA
Found at i:5037929 original size:9 final size:8
Alignment explanation
Indices: 5037917--5037941 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5037907 AATTTAAAGA
5037917 TTTTTTAT
1 TTTTTTAT
5037925 TTTTTTAT
1 TTTTTTAT
5037933 TTTTTTAT
1 TTTTTTAT
5037941 T
1 T
5037942 AAAAAGATTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTAT
Found at i:5038917 original size:22 final size:20
Alignment explanation
Indices: 5038892--5038943 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
5038882 AATTTTTTAA
5038892 AAAAAAAACTTTTTCTCTCTCT
1 AAAAAAAAC--TTTCTCTCTCT
5038914 AAAAAAGAA-TTTCTCTCTCT
1 AAAAAA-AACTTTCTCTCTCT
5038934 AAAAAGAAAC
1 AAAAA-AAAC
5038944 CAGCCCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 18 0.67
21 1 0.04
22 6 0.22
23 2 0.07
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAAAAACTTTCTCTCTCT
Found at i:5040943 original size:23 final size:23
Alignment explanation
Indices: 5040898--5040943 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
5040888 TGACTCAACC
*
5040898 TATTTTTAATTATATAATATATA
1 TATTTTTAATTATAGAATATATA
*
5040921 TATTTTTTATTATAG-ATAT-TA
1 TATTTTTAATTATAGAATATATA
5040942 TA
1 TA
5040944 ACATATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 4 0.19
23 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTTTTAATTATAGAATATATA
Found at i:5045032 original size:19 final size:19
Alignment explanation
Indices: 5045004--5045045 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
5044994 AATTAAAAGT
5045004 AATTAAATCAAAATTAA-A
1 AATTAAATCAAAATTAATA
5045022 AATTAAAATCAAAATTAATA
1 AATT-AAATCAAAATTAATA
5045042 AATT
1 AATT
5045046 GAAAGGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAAATCAAAATTAATA
Found at i:5045125 original size:14 final size:12
Alignment explanation
Indices: 5045110--5045157 Score: 62
Period size: 12 Copynumber: 3.8 Consensus size: 12
5045100 TTATATATAT
5045110 ATTTTTAGATAAA
1 ATTTTTA-ATAAA
5045123 TATTTTTAATAAA
1 -ATTTTTAATAAA
5045136 ATTATTT-ATAAA
1 ATT-TTTAATAAA
5045148 ATTTTTAATA
1 ATTTTTAATA
5045158 TTGAATAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.09
12 14 0.44
13 8 0.25
14 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
ATTTTTAATAAA
Found at i:5045148 original size:12 final size:11
Alignment explanation
Indices: 5045074--5045154 Score: 58
Period size: 12 Copynumber: 7.0 Consensus size: 11
5045064 ATTAGATGTG
5045074 TAAAA-TTTTA
1 TAAAATTTTTA
* *
5045084 AAAAATTTTAA
1 TAAAATTTTTA
*
5045095 T-AAATTTATA
1 TAAAATTTTTA
*
5045105 TATATATTTTTAGA
1 TA-AAATTTTT--A
5045119 TAAATATTTTTAA
1 TAAA-ATTTTT-A
5045132 TAAAATTATTTA
1 TAAAATT-TTTA
5045144 TAAAATTTTTA
1 TAAAATTTTTA
5045155 ATATTGAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
10 12 0.22
11 8 0.15
12 17 0.31
13 9 0.16
14 9 0.16
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (11 bp):
TAAAATTTTTA
Found at i:5047910 original size:49 final size:50
Alignment explanation
Indices: 5047850--5047948 Score: 130
Period size: 49 Copynumber: 2.0 Consensus size: 50
5047840 ATGGACAAGA
*
5047850 GACTTGCAAAAGAATAATTCTAACAAAAAAA-ATT-TTAATATGCAAGTTT
1 GACTTGCAAAAGAA-AATTCTAACAAAAAAATATTCTTAATAAGCAAGTTT
* * * *
5047899 GACTTGTAAAAGAAAATTTTAAGAAAAAAATATTCTTAATAAGTAAGTTT
1 GACTTGCAAAAGAAAATTCTAACAAAAAAATATTCTTAATAAGCAAGTTT
5047949 TTGTGCTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
48 14 0.33
49 16 0.37
50 13 0.30
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.32
Consensus pattern (50 bp):
GACTTGCAAAAGAAAATTCTAACAAAAAAATATTCTTAATAAGCAAGTTT
Found at i:5050583 original size:8 final size:8
Alignment explanation
Indices: 5050546--5050584 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
5050536 ACATTTTTAA
5050546 TTTTATTT
1 TTTTATTT
**
5050554 TTTGGTTT
1 TTTTATTT
*
5050562 TTTTACTT
1 TTTTATTT
5050570 TTTTATTT
1 TTTTATTT
5050578 TTTTATT
1 TTTTATT
5050585 ATATTTAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Found at i:5050676 original size:27 final size:26
Alignment explanation
Indices: 5050645--5050701 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
5050635 TTTATACAAA
5050645 ATTTTTTT-CT-TTT-ATTTTTTTTT
1 ATTTTTTTACTCTTTCATTTTTTTTT
5050668 ACTTTTTTTACTCTTTCATTTTTTTTT
1 A-TTTTTTTACTCTTTCATTTTTTTTT
5050695 ATTTTTT
1 ATTTTTT
5050702 CATACAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 1 0.03
24 7 0.23
25 2 0.07
26 9 0.30
27 11 0.37
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (26 bp):
ATTTTTTTACTCTTTCATTTTTTTTT
Found at i:5050885 original size:19 final size:19
Alignment explanation
Indices: 5050861--5050898 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5050851 GATATCCACG
*
5050861 TTATATCAATGATATACAA
1 TTATATCAATGACATACAA
5050880 TTATATCAATGACATACAA
1 TTATATCAATGACATACAA
5050899 CATATTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (19 bp):
TTATATCAATGACATACAA
Found at i:5051106 original size:15 final size:15
Alignment explanation
Indices: 5051084--5051121 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
5051074 ATCTGAATTT
*
5051084 ATTTTTTTATTTTTAA
1 ATTTTTTTAGTTTT-A
5051100 ATTTTTTTAGTTTTA
1 ATTTTTTTAGTTTTA
5051115 ATTTTTT
1 ATTTTTT
5051122 AATTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
ATTTTTTTAGTTTTA
Found at i:5051494 original size:61 final size:58
Alignment explanation
Indices: 5051334--5051494 Score: 151
Period size: 61 Copynumber: 2.7 Consensus size: 58
5051324 CCTTAGTTGG
** * * * *
5051334 CCAAAATTACTATAATACCTACAATTATAATTATAGAAATGTCCTCATATTATCATTTG
1 CCAAAATTACTATAATACCTTTAACTATAATTATA-AAATATCCTCATATTATAATTTA
* * * * * *
5051393 CCAAAATGATTATAACACCCTTTTACCATAATTACAAAAATATCCTTCATATTATAATTTA
1 CCAAAATTACTATAATA-CCTTTAACTATAATTA-TAAAATATCC-TCATATTATAATTTA
*
5051454 CTAAAATTACTATAATACTCTTTAACTATAATTATGAAAAT
1 CCAAAATTACTATAATAC-CTTTAACTATAATTAT-AAAAT
5051495 GCTTTCTTAT
Statistics
Matches: 78, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
59 14 0.18
60 19 0.24
61 45 0.58
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (58 bp):
CCAAAATTACTATAATACCTTTAACTATAATTATAAAATATCCTCATATTATAATTTA
Found at i:5051739 original size:25 final size:25
Alignment explanation
Indices: 5051710--5051761 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
5051700 TATTACTTCA
*
5051710 TAATTACGCATTAAATTTTAATATT
1 TAATTACACATTAAATTTTAATATT
5051735 TAATTACACATTAAATTTTAATATT
1 TAATTACACATTAAATTTTAATATT
5051760 TA
1 TA
5051762 TATAATAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (25 bp):
TAATTACACATTAAATTTTAATATT
Found at i:5051912 original size:26 final size:26
Alignment explanation
Indices: 5051879--5051934 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
5051869 GATTAACTAA
* *
5051879 AATTACTATACTATCCCTCTTAACAT
1 AATTACTAAAATATCCCTCTTAACAT
* *
5051905 AATTACTAAAATATCCCTTTTACCAT
1 AATTACTAAAATATCCCTCTTAACAT
5051931 AATT
1 AATT
5051935 TTTCAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.39
Consensus pattern (26 bp):
AATTACTAAAATATCCCTCTTAACAT
Found at i:5052108 original size:25 final size:25
Alignment explanation
Indices: 5052056--5052107 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
5052046 CATATTATAA
* *
5052056 TTTACCAAAATTACTATAATACTCT
1 TTTACCAAAATTACAAAAATACTCT
*
5052081 TTTACCATAATTACAAAAATA-TCT
1 TTTACCAAAATTACAAAAATACTCT
5052105 TTT
1 TTT
5052108 TTATTACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTACCAAAATTACAAAAATACTCT
Found at i:5052113 original size:61 final size:62
Alignment explanation
Indices: 5051877--5052103 Score: 219
Period size: 61 Copynumber: 3.7 Consensus size: 62
5051867 ATGATTAACT
* * * * **
5051877 AAAATTACTATACTATCC-CTCTTAACATAATTACTAAAATATCCCTTTTACCATAATTTTTC
1 AAAATTACTATAATA-CCTCTCTTAACATAATTACAAAAATATCCCTCTTATCATAATTTACC
* * * * * * * *
5051939 AAAATTAATATAATACCTTTATAAACATAATTACGAAAATA-CCCTCCTATCATTATTCACC
1 AAAATTACTATAATACCTCTCTTAACATAATTACAAAAATATCCCTCTTATCATAATTTACC
* * * * *
5052000 AAAATGACTATAATACCTCTCCTACCATAATTACAAAAATA-CCACTCATATTATAATTTACC
1 AAAATTACTATAATACCTCTCTTAACATAATTACAAAAATATCC-CTCTTATCATAATTTACC
* *
5052062 AAAATTACTATAATA-CTCTTTTACCATAATTACAAAAATATC
1 AAAATTACTATAATACCTCTCTTAACATAATTACAAAAATATC
5052104 TTTTTTATTA
Statistics
Matches: 134, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
61 73 0.54
62 61 0.46
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.35
Consensus pattern (62 bp):
AAAATTACTATAATACCTCTCTTAACATAATTACAAAAATATCCCTCTTATCATAATTTACC
Found at i:5054065 original size:3 final size:3
Alignment explanation
Indices: 5054052--5054105 Score: 99
Period size: 3 Copynumber: 17.7 Consensus size: 3
5054042 TATTTTATAT
5054052 TTA TGTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5054098 TTA TTA TT
1 TTA TTA TT
5054106 CCAATAGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5054448 original size:14 final size:14
Alignment explanation
Indices: 5054429--5054455 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5054419 GAAAATAGAG
5054429 GAATATTATTTAAA
1 GAATATTATTTAAA
5054443 GAATATTATTTAA
1 GAATATTATTTAA
5054456 TTATGAGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (14 bp):
GAATATTATTTAAA
Found at i:5056516 original size:33 final size:33
Alignment explanation
Indices: 5056486--5056724 Score: 205
Period size: 33 Copynumber: 7.2 Consensus size: 33
5056476 CAATACTTAA
*
5056486 CCTGCTTATAGGGGCATCATCCCTGCTACTTGA
1 CCTGCTTATAGGGGCATCATCCCTGCTACTTGG
* * ** *
5056519 CCAGCTAATACCGGCATCATCACTGCTACTTGG
1 CCTGCTTATAGGGGCATCATCCCTGCTACTTGG
* *
5056552 CCTGCTTATAGGGGTATCATCCCTACTACTTGG
1 CCTGCTTATAGGGGCATCATCCCTGCTACTTGG
* *
5056585 GCTGTTTATAGGGGCATCATCCCTAG-TACTTGGG
1 CCTGCTTATAGGGGCATCATCCCT-GCTACTT-GG
* * *
5056619 CC-GCTTATAGAGGCATCAT-CCGGACTACTTGT
1 CCTGCTTATAGGGGCATCATCCCTG-CTACTTGG
* * * *
5056651 CCTGCTTAAAGGAGCATCATCCCTACTACTTGT
1 CCTGCTTATAGGGGCATCATCCCTGCTACTTGG
** * * ** * *
5056684 CGGGCTTAAAGGAGCATCATCCCCACTAATTGT
1 CCTGCTTATAGGGGCATCATCCCTGCTACTTGG
5056717 CCTGCTTA
1 CCTGCTTA
5056725 CAGTGGTATC
Statistics
Matches: 167, Mismatches: 33, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
31 1 0.01
32 5 0.03
33 156 0.93
34 5 0.03
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (33 bp):
CCTGCTTATAGGGGCATCATCCCTGCTACTTGG
Found at i:5056682 original size:99 final size:99
Alignment explanation
Indices: 5056491--5056682 Score: 255
Period size: 99 Copynumber: 1.9 Consensus size: 99
5056481 CTTAACCTGC
* *
5056491 TTATAGGGGCATCATCCCTGCTACTTGACCAGCTAATACCGGCATCATCACTGCTACTTGGCCTG
1 TTATAGGGGCATCATCCCTGCTACTTGACCAGCTAATACAGGCATCATCACGGCTACTTGGCCTG
* * *
5056556 CTTATAGGGGTATCATCCCTACTACTTGGGCTGT
66 CTTAAAGGAGCATCATCCCTACTACTTGGGCTGT
* * * *
5056590 TTATAGGGGCATCATCCCTAG-TACTTGGGCC-GCTTATAGAGGCATCATC-CGGACTACTTGTC
1 TTATAGGGGCATCATCCCT-GCTACTT-GACCAGCTAATACAGGCATCATCACGG-CTACTTGGC
5056652 CTGCTTAAAGGAGCATCATCCCTACTACTTG
63 CTGCTTAAAGGAGCATCATCCCTACTACTTG
5056683 TCGGGCTTAA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
98 2 0.02
99 75 0.93
100 4 0.05
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (99 bp):
TTATAGGGGCATCATCCCTGCTACTTGACCAGCTAATACAGGCATCATCACGGCTACTTGGCCTG
CTTAAAGGAGCATCATCCCTACTACTTGGGCTGT
Found at i:5062448 original size:21 final size:22
Alignment explanation
Indices: 5062424--5062469 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
5062414 TAATATGACA
5062424 TAAAATT-AAAATA-ATATAATT
1 TAAAATTAAAAATATATA-AATT
*
5062445 TAAATTTAAAAATATATAAATT
1 TAAAATTAAAAATATATAAATT
5062467 TAA
1 TAA
5062470 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 13 0.59
23 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAATTAAAAATATATAAATT
Found at i:5066712 original size:16 final size:16
Alignment explanation
Indices: 5066684--5066718 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5066674 CTAATTATTT
5066684 TTTTCCTTTAAAAATAA
1 TTTTCCTTTAAAAA-AA
5066701 TTTTCC-TTAAAAAAA
1 TTTTCCTTTAAAAAAA
5066716 TTT
1 TTT
5066719 ATTATGGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 7 0.39
17 6 0.33
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTCCTTTAAAAAAA
Found at i:5067153 original size:2 final size:2
Alignment explanation
Indices: 5067148--5067177 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5067138 GGTATACCTA
*
5067148 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5067178 TTACAGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5067909 original size:12 final size:13
Alignment explanation
Indices: 5067873--5067909 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
5067863 AAATATTTAA
5067873 AATATTTTTAT-T
1 AATATTTTTATAT
*
5067885 AATATTTTAATAT
1 AATATTTTTATAT
5067898 -ATATTTTTATAT
1 AATATTTTTATAT
5067910 TACAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 21 0.95
13 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTTTATAT
Found at i:5072532 original size:12 final size:11
Alignment explanation
Indices: 5072515--5072562 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
5072505 GACTTGTTTA
5072515 AAATTTAACAAT
1 AAATTTAA-AAT
*
5072527 AAATTTGAAAT
1 AAATTTAAAAT
5072538 AAAATTTAATAAT
1 -AAATTTAA-AAT
*
5072551 AAATTTGAAAT
1 AAATTTAAAAT
5072562 A
1 A
5072563 TTCATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 7 0.23
12 21 0.68
13 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:5072545 original size:24 final size:24
Alignment explanation
Indices: 5072513--5072562 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
5072503 TAGACTTGTT
5072513 TAAAATTTAACAATAAATTTGAAA
1 TAAAATTTAACAATAAATTTGAAA
*
5072537 TAAAATTTAATAATAAATTTGAAA
1 TAAAATTTAACAATAAATTTGAAA
5072561 TA
1 TA
5072563 TTCATATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (24 bp):
TAAAATTTAACAATAAATTTGAAA
Found at i:5072913 original size:28 final size:28
Alignment explanation
Indices: 5072882--5072950 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
5072872 TTTAATTCAC
* *
5072882 ATATATACAAATATTAAAAATAAAAATT
1 ATATATACAAAAATTAAAAACAAAAATT
**
5072910 ATATATGTAAAAATTAAAAACAAAAATT
1 ATATATACAAAAATTAAAAACAAAAATT
5072938 ATATA-ACATAAAA
1 ATATATACA-AAAA
5072951 ATAATTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (28 bp):
ATATATACAAAAATTAAAAACAAAAATT
Found at i:5078841 original size:2 final size:2
Alignment explanation
Indices: 5078834--5078858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5078824 GTGCATTTGC
5078834 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5078859 AAGACACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5082894 original size:15 final size:16
Alignment explanation
Indices: 5082864--5082897 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
5082854 TGCGTATTAA
*
5082864 ATTGTAAGTATTTTAT
1 ATTGTAAATATTTTAT
5082880 ATTGTAAAT-TTTTAT
1 ATTGTAAATATTTTAT
5082895 ATT
1 ATT
5082898 TTTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTGTAAATATTTTAT
Found at i:5082963 original size:17 final size:17
Alignment explanation
Indices: 5082943--5082986 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
5082933 ATTTATGTAT
5082943 TTTTATTTTTTAAAATA
1 TTTTATTTTTTAAAATA
* ** *
5082960 TTTTATATAATATAATA
1 TTTTATTTTTTAAAATA
5082977 TTTTATTTTT
1 TTTTATTTTT
5082987 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTTTTTAAAATA
Found at i:5090949 original size:2 final size:2
Alignment explanation
Indices: 5090942--5090973 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5090932 TGAAATTAGA
5090942 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5090974 TCATGTCTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5100422 original size:41 final size:42
Alignment explanation
Indices: 5100348--5100433 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 42
5100338 ATGGGTGAAA
5100348 CATCTCTTCCTATAATTTATGTTCACTAGCGAAGACCTAAGT
1 CATCTCTTCCTATAATTTATGTTCACTAGCGAAGACCTAAGT
5100390 CATCTCTTCCTAT-ATTTATGTTCAC-AGCCGAAGACCTAAGT
1 CATCTCTTCCTATAATTTATGTTCACTAG-CGAAGACCTAAGT
5100431 CAT
1 CAT
5100434 GTTCTACTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
40 2 0.05
41 28 0.65
42 13 0.30
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (42 bp):
CATCTCTTCCTATAATTTATGTTCACTAGCGAAGACCTAAGT
Found at i:5101999 original size:31 final size:31
Alignment explanation
Indices: 5101954--5102026 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
5101944 TGTGAAAATT
*
5101954 TAAATTTAA-ATTTATA-TATTATAATTCATA
1 TAAATTTAATTTTTATATTATTATAATTCA-A
* *
5101984 TAAATTTAATTTTTATATTATTTTAATTTAA
1 TAAATTTAATTTTTATATTATTATAATTCAA
*
5102015 TAATTTTAATTT
1 TAAATTTAATTT
5102027 AACTATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 9 0.24
31 18 0.49
32 10 0.27
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
TAAATTTAATTTTTATATTATTATAATTCAA
Found at i:5102267 original size:31 final size:31
Alignment explanation
Indices: 5102188--5102268 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
5102178 ATGTATTTAA
* * * *
5102188 ATAAAATTTAAAATTTAATCTTTGTACTTAT
1 ATAAAATTTGAAATTTAGTCCTTATACTTAT
*
5102219 ATGAAATTTGAAATTTAGTCCTTATACTCT-T
1 ATAAAATTTGAAATTTAGTCCTTATACT-TAT
5102250 ATAAAATTTGAAATTTAGT
1 ATAAAATTTGAAATTTAGT
5102269 TCATTTAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (31 bp):
ATAAAATTTGAAATTTAGTCCTTATACTTAT
Found at i:5102371 original size:33 final size:31
Alignment explanation
Indices: 5102317--5102383 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 31
5102307 TTTAATATTA
* *
5102317 AATATTAAAAATTACCATAATATTTTGTCAC
1 AATATTAAAAATTACCATAATATTCTATCAC
**
5102348 AATATTGAAAAATCTATTATAATATTCTATCAC
1 AATATT-AAAAAT-TACCATAATATTCTATCAC
5102381 AAT
1 AAT
5102384 TTTTTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 6 0.20
32 6 0.20
33 18 0.60
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (31 bp):
AATATTAAAAATTACCATAATATTCTATCAC
Found at i:5111354 original size:5 final size:5
Alignment explanation
Indices: 5111346--5111388 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
5111336 TTATTTAAAG
5111346 AAAAT AAAAT --AAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
5111389 ATATTAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
5 27 0.77
6 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:5111382 original size:21 final size:19
Alignment explanation
Indices: 5111346--5111391 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 19
5111336 TTATTTAAAG
5111346 AAAATAAAATAATAAAATA
1 AAAATAAAATAATAAAATA
5111365 AAAATAAAATAAAATAAAATA
1 AAAATAAAAT--AATAAAATA
5111386 AAAATA
1 AAAATA
5111392 TTAAACAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 10 0.40
21 15 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAAAATAATAAAATA
Found at i:5111415 original size:3 final size:3
Alignment explanation
Indices: 5111407--5111455 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
5111397 CAGTTCAAAT
* *
5111407 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5111455 A
1 A
5111456 ATAAATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5112004 original size:11 final size:11
Alignment explanation
Indices: 5111990--5112026 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
5111980 CCGAAATCTG
*
5111990 AAAATTTTCCA
1 AAAATTTTCAA
5112001 AAAATTTTCAA
1 AAAATTTTCAA
*
5112012 AAAATATTCAA
1 AAAATTTTCAA
5112023 AAAA
1 AAAA
5112027 AATTCTCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATTTTCAA
Found at i:5112350 original size:21 final size:20
Alignment explanation
Indices: 5112325--5112436 Score: 107
Period size: 21 Copynumber: 5.4 Consensus size: 20
5112315 AGAAAATCAA
* *
5112325 AAAAATATTAATAGATAATT
1 AAAAATAATAATAGATAAAT
*
5112345 AAAAAAAATAATCAGATAAAT
1 AAAAATAATAAT-AGATAAAT
* *
5112366 AAAAATATTAACAGATAAAT
1 AAAAATAATAATAGATAAAT
5112386 AAAAATAAATAATAGATAAAT
1 AAAAAT-AATAATAGATAAAT
* * *
5112407 TATATTATATAAATAGATAAAT
1 AAAAATA-AT-AATAGATAAAT
*
5112429 AATAATAA
1 AAAAATAA
5112437 ATACATATAT
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
20 25 0.33
21 34 0.45
22 16 0.21
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATAATAATAGATAAAT
Found at i:5112370 original size:41 final size:41
Alignment explanation
Indices: 5112325--5112453 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 41
5112315 AGAAAATCAA
* *
5112325 AAAAATATTAATAGATAATTAAAAA-AAATAATCAGATAAAT
1 AAAAATATTAACAGATAAATAAAAATAAATAAT-AGATAAAT
5112366 AAAAATATTAACAGATAAATAAAAATAAATAATAGATAAATT
1 AAAAATATTAACAGATAAATAAAAATAAATAATAGATAAA-T
** * * * *
5112408 ATATTATATAAATAGATAAATAATAATAAATACATATATATAAT
1 A-AAAATATTAACAGATAAATAAAAATAAATA-ATAGATA-AAT
5112452 AA
1 AA
5112454 TATATAAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
41 30 0.40
42 9 0.12
43 26 0.35
44 8 0.11
45 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (41 bp):
AAAAATATTAACAGATAAATAAAAATAAATAATAGATAAAT
Done.