Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 86 of 378
Found at i:23313862 original size:25 final size:24
Alignment explanation
Indices: 23313820--23313988 Score: 227
Period size: 25 Copynumber: 7.0 Consensus size: 24
23313810 GCTTTATCAT
*
23313820 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
23313845 GTAACTGGGGCAAAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
23313870 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
23313895 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
23313920 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
23313943 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
23313966 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
23313989 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
23 43 0.32
24 12 0.09
25 78 0.59
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:23314104 original size:20 final size:20
Alignment explanation
Indices: 23314039--23314097 Score: 118
Period size: 20 Copynumber: 3.0 Consensus size: 20
23314029 TATGATTACA
23314039 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
23314059 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
23314079 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
23314098 ACCATGTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:23315331 original size:18 final size:17
Alignment explanation
Indices: 23315304--23315337 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
23315294 TAAGGAAGAA
23315304 AATAAGAAGAGAAAACT
1 AATAAGAAGAGAAAACT
23315321 AATACAGAAGAGAAAAC
1 AATA-AGAAGAGAAAAC
23315338 GGCACAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AATAAGAAGAGAAAACT
Found at i:23321729 original size:30 final size:30
Alignment explanation
Indices: 23321689--23321750 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
23321679 CCTTTTCATA
*
23321689 TTTCATATTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTCATAACACTGGGCCGAAGCCT
**
23321719 TTTCAAATTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTCATAACACTGGGCCGAAGCCT
23321749 TT
1 TT
23321751 ACGGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (30 bp):
TTTCAAATTCATAACACTGGGCCGAAGCCT
Found at i:23321987 original size:25 final size:23
Alignment explanation
Indices: 23321944--23322088 Score: 175
Period size: 25 Copynumber: 6.0 Consensus size: 23
23321934 TGCTTTATCA
*
23321944 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
23321968 TAGTAACTGGGGCAAAAGCCCTTT
1 TA-TAACTGGGGCATAAGCCCTTT
*
23321992 ATCATAACTAGGGCATAAGCCCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
23322017 ATCATAACTGGGGCATAAGCCCTTT
1 -T-ATAACTGGGGCATAAGCCCTTT
*
23322042 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
23322065 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
23322088 T
1 T
23322089 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
23 45 0.41
24 9 0.08
25 55 0.50
26 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:23322050 original size:23 final size:23
Alignment explanation
Indices: 23321966--23322087 Score: 181
Period size: 23 Copynumber: 5.1 Consensus size: 23
23321956 CCTAGCCTCT
* *
23321966 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
23321989 TTTATCATAACTAGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
23322014 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
23322039 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23322062 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
23322085 TTT
1 TTT
23322088 TGCACTTCCT
Statistics
Matches: 93, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 49 0.53
25 44 0.47
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:23322064 original size:48 final size:47
Alignment explanation
Indices: 23321966--23322087 Score: 183
Period size: 48 Copynumber: 2.6 Consensus size: 47
23321956 CCTAGCCTCT
* *
23321966 TTTAGTAACTGGGGCAAAAGCCCTTTATCATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTA-CATAACTAGGGCATAAGCCC
*
23322014 TTTATCATAACTGGGGCATAAGCCCTTTA-ATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCCTTTACATAACTAGGGCATAAGCCC
23322062 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCCTTT
23322088 TGCACTTCCT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
46 22 0.32
48 26 0.38
50 21 0.30
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTACATAACTAGGGCATAAGCCC
Found at i:23322163 original size:20 final size:20
Alignment explanation
Indices: 23322138--23322204 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
23322128 TTATGATTAC
23322138 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
23322158 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
23322178 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
23322198 ACCATGT
1 ATCATGT
23322205 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:23322169 original size:11 final size:11
Alignment explanation
Indices: 23322138--23322193 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
23322128 TTATGATTAC
23322138 ATCATGTGCAT
1 ATCATGTGCAT
*
23322149 ATCA--TACAT
1 ATCATGTGCAT
23322158 ATCATGTGCAT
1 ATCATGTGCAT
*
23322169 ATCA--TACAT
1 ATCATGTGCAT
*
23322178 GTCATGTGCAT
1 ATCATGTGCAT
23322189 ATCAT
1 ATCAT
23322194 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:23323438 original size:18 final size:17
Alignment explanation
Indices: 23323411--23323444 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
23323401 TAGGGAAGAA
23323411 AATAAGAAGAGAAAACT
1 AATAAGAAGAGAAAACT
23323428 AATACAGAAGAGAAAAC
1 AATA-AGAAGAGAAAAC
23323445 GGCACAGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.09, G:0.18, T:0.09
Consensus pattern (17 bp):
AATAAGAAGAGAAAACT
Found at i:23337750 original size:22 final size:21
Alignment explanation
Indices: 23337720--23337774 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
23337710 CATGGATACG
* * *
23337720 AAATTTAATTTCAATTTTAGTA
1 AAATATAATTTCAATTTCA-AA
*
23337742 AAATATAATTTTGAATTTCAAA
1 AAATATAA-TTTCAATTTCAAA
23337764 AAATATAATTT
1 AAATATAATTT
23337775 TTTTAATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 9 0.32
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
AAATATAATTTCAATTTCAAA
Found at i:23341066 original size:22 final size:20
Alignment explanation
Indices: 23341040--23341084 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
23341030 ATTTTGGAGT
23341040 TTTAATTCTCTATACATTTTAA
1 TTTAATTCTCT-TAC-TTTTAA
*
23341062 TTTAATTTTCTTACTTTTAA
1 TTTAATTCTCTTACTTTTAA
23341082 TTT
1 TTT
23341085 CTGCTCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 10 0.45
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTCTCTTACTTTTAA
Found at i:23342566 original size:3 final size:3
Alignment explanation
Indices: 23342558--23342584 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
23342548 AGTATTTAAT
23342558 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
23342585 CATTAATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23343855 original size:26 final size:25
Alignment explanation
Indices: 23343793--23343875 Score: 130
Period size: 26 Copynumber: 3.2 Consensus size: 25
23343783 TGATACAAAT
23343793 TGATAATAGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCA
*
23343818 TGATAATAGGTTACGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTT-CA
*
23343844 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATG-TTCA
23343870 TGATAA
1 TGATAA
23343876 GAATTTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
25 22 0.42
26 29 0.55
27 2 0.04
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATAGGTTAGGTAAATGTTCA
Found at i:23345386 original size:26 final size:26
Alignment explanation
Indices: 23345357--23345409 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
23345347 TTTACAGTTT
23345357 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
23345383 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
23345409 T
1 T
23345410 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:23352270 original size:68 final size:67
Alignment explanation
Indices: 23352179--23352359 Score: 236
Period size: 72 Copynumber: 2.6 Consensus size: 67
23352169 AAGTAGTATC
* *
23352179 AAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAATAGATAAAACAAATATACATAA
1 AAATTT-AAGATTT-AAAAGTAAAAGAATAATAAATAAATAAATAGATAAAACAAATATAAATAA
*
23352244 TATT
64 GATT
*
23352248 AAATTTAAGATTTAAGAAGTAAAAGGACAATAAATAAATAAATAAATCGATAAAACAAATATAAA
1 AAATTTAAGATTTAA-AAGTAAAA-G--AAT-AATAAATAAATAAATAGATAAAACAAATATAAA
23352313 TAAGATT
61 TAAGATT
*
23352320 AAATTTAAGTGTTTTAAAAGTAAAAGAATAATAAATAAAT
1 AAATTTAA--GATTTAAAAGTAAAAGAATAATAAATAAAT
23352360 CAATTAAATT
Statistics
Matches: 100, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
67 2 0.02
68 14 0.14
69 18 0.18
70 3 0.03
71 3 0.03
72 46 0.46
73 8 0.08
74 6 0.06
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (67 bp):
AAATTTAAGATTTAAAAGTAAAAGAATAATAAATAAATAAATAGATAAAACAAATATAAATAAGA
TT
Found at i:23352394 original size:44 final size:46
Alignment explanation
Indices: 23352308--23352411 Score: 153
Period size: 44 Copynumber: 2.3 Consensus size: 46
23352298 TAAAACAAAT
*
23352308 ATAAATAAGATTAAATTTAAGTGTTTTAAAAGTAAAAGAATAATAA
1 ATAAATAAGATTAAATTTAAGTGTTTAAAAAGTAAAAGAATAATAA
*
23352354 ATAAATCA-ATTAAATTTAAGTG-TTAAAAAGTAAAAGAATAATAA
1 ATAAATAAGATTAAATTTAAGTGTTTAAAAAGTAAAAGAATAATAA
*
23352398 ACAAAT-AGA-TAAAT
1 ATAAATAAGATTAAAT
23352412 AGATAAAACA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
43 6 0.11
44 27 0.50
45 14 0.26
46 7 0.13
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.30
Consensus pattern (46 bp):
ATAAATAAGATTAAATTTAAGTGTTTAAAAAGTAAAAGAATAATAA
Found at i:23353665 original size:17 final size:18
Alignment explanation
Indices: 23353640--23353677 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
23353630 TTATTTATTA
* *
23353640 TTTT-TTTTTTATTTTGG
1 TTTTCTTTTCTATTTGGG
23353657 TTTTCTTTTCTATTTGGG
1 TTTTCTTTTCTATTTGGG
23353675 TTT
1 TTT
23353678 CTGTTTGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.05, C:0.05, G:0.13, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTCTATTTGGG
Found at i:23353913 original size:44 final size:44
Alignment explanation
Indices: 23353864--23354267 Score: 309
Period size: 44 Copynumber: 9.1 Consensus size: 44
23353854 AAATGTATAG
* * * *
23353864 GATTTGTTGTTTCAATCTACTCCACTACAACTTTAGGGATATTA
1 GATTTGTTGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * * *
23353908 GATTTGTAGCTTT-AATTTGCTCCATTGCAACTTCAGGGCA-ATGA
1 GATTTGTTG-TTTCAATCTACTCCACTGCAACTTCAGGG-AGATAA
* * * *
23353952 GACTCGTAT-CTTCAATCTACTCCACTGCAACTTCAGGGAGATGA
1 GATTTGT-TGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* ***
23353996 GATTGGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTTGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * ** * * * *
23354040 GATTTG-TGACTTCAATCTATTTTACTACAACTTTAGAGAGACAA
1 GATTTGTTG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * * * * *
23354084 TATTTGCTATCATCAATCTACTCTACTACAACTTCAGAGAGATAA
1 GATTTGTTGT-TTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * *
23354129 GATTTGTGGCTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAA
1 GATTTGTTG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
*
23354173 GATTTGCTAT-TTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 GATTTG-T-TGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
* * * *
23354218 GATTTGTGGCTTT-AATCTACTCCACTACAATTTTAGGGAGATAA
1 GATTTGTTG-TTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
*
23354262 TATTTG
1 GATTTG
23354268 CCACGATAAC
Statistics
Matches: 293, Mismatches: 52, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
43 3 0.01
44 209 0.71
45 80 0.27
46 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
GATTTGTTGTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
Found at i:23354126 original size:89 final size:89
Alignment explanation
Indices: 23353864--23354268 Score: 377
Period size: 89 Copynumber: 4.6 Consensus size: 89
23353854 AAATGTATAG
* * * * * * * * * *
23353864 GATTTGTTG-TTTCAATCTACTCCACTACAACTTTAGGGATATTAGATTTG-TAGCTTTAATTTG
1 GATTTGTGGCTTT-AATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTA
* *
23353927 CTCCATTGCAACTTCAGGGCA-ATGA
65 CTCCACTGCAACTTCAGGG-AGATAA
* * ** * * * * * * * * *
23353952 GACTCGTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATGAGA-TTGGTAACTTCAATCTAC
1 GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTAC
23354016 TCCACTGCAACTTCAGGGAGATAA
66 TCCACTGCAACTTCAGGGAGATAA
* * * ** *
23354040 GATTTGTGACTTCAATCTATTTTACTACAACTTTAGAGAGACAATATTTGCTATCATCAATCTAC
1 GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTAC
* * *
23354105 TCTACTACAACTTCAGAGAGATAA
66 TCCACTGCAACTTCAGGGAGATAA
* * * * ** *
23354129 GATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGC
1 GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTAC
23354194 TCCACTGCAACTTCAGGGAGATAA
66 TCCACTGCAACTTCAGGGAGATAA
* *
23354218 GATTTGTGGCTTTAATCTACTCCACTACAATTTTAGGGAGATAATATTTGC
1 GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGC
23354269 CACGATAACT
Statistics
Matches: 257, Mismatches: 56, Indels: 7
0.80 0.17 0.02
Matches are distributed among these distances:
87 4 0.02
88 97 0.38
89 156 0.61
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (89 bp):
GATTTGTGGCTTTAATCTACTCCACTACAACTTTAGAGAGATAATATTTGCTATCATCAATCTAC
TCCACTGCAACTTCAGGGAGATAA
Found at i:23354235 original size:133 final size:131
Alignment explanation
Indices: 23353864--23354267 Score: 382
Period size: 133 Copynumber: 3.0 Consensus size: 131
23353854 AAATGTATAG
* * * * * *
23353864 GATTTGTTG-TTTCAATCTACTCCACTACAACTTTAGGGATATTAGATTTGTAGCTTT-AATTTG
1 GATTTGTAGCTTT-AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA--TTTCAATCTG
* * * * *
23353927 CTCCATTGCAACTTCAGGGCA-ATGAGACTCGTATCTTCAATCTACTCCACTGCAACTTCAGGGA
63 CTCCACTGCAACTTCAGGG-AGATAAGATTTGTATCTTCAATCTACTCCACTACAACTTCAGGGA
*
23353991 GATGA
127 GATAA
* * * * **
23353996 GATTGGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTGACTTCAATCTATT
1 GATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ATTTCAATCTGCT
** * * * * * * * *
23354061 TTACTACAACTTTAGAGAGACAATATTTGCTATCATCAATCTACTCTACTACAACTTCAGAGAGA
65 CCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTACTCCACTACAACTTCAGGGAGA
23354126 TAA
129 TAA
* * *
23354129 GATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATTTTCAATCTGC
1 GATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-TTTCAATCTGC
** * * *
23354194 TCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTACTCCACTACAATTTTAGGGAGA
64 TCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCCACTACAACTTCAGGGAGA
23354259 TAA
129 TAA
*
23354262 TATTTG
1 GATTTG
23354268 CCACGATAAC
Statistics
Matches: 212, Mismatches: 53, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
131 3 0.01
132 61 0.29
133 116 0.55
134 32 0.15
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (131 bp):
GATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTCAATCTGCTC
CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTACTCCACTACAACTTCAGGGAGATA
A
Found at i:23356063 original size:3 final size:3
Alignment explanation
Indices: 23356055--23356157 Score: 163
Period size: 3 Copynumber: 34.0 Consensus size: 3
23356045 TATTTATTTC
* *
23356055 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAC TAT CTAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT
23356101 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23356149 TAT TAT TAT
1 TAT TAT TAT
23356158 ATTTTTTTTG
Statistics
Matches: 94, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.02
3 87 0.93
4 5 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:23356348 original size:12 final size:12
Alignment explanation
Indices: 23356328--23356380 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
23356318 TTATTATTCG
*
23356328 TATTTTTACCAT
1 TATTATTACCAT
*
23356340 TATTATTACTATT
1 TATTATTACCA-T
* *
23356353 TGTTTTTACCAT
1 TATTATTACCAT
*
23356365 TATTATTACTAT
1 TATTATTACCAT
23356377 TATT
1 TATT
23356381 TTTGCTTTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 23 0.72
13 9 0.28
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATTACCAT
Found at i:23356358 original size:25 final size:25
Alignment explanation
Indices: 23356330--23356409 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
23356320 ATTATTCGTA
23356330 TTTTTACCATTATTATTACTATT-T
1 TTTTTACCATTATTATTACTATTAT
23356354 GTTTTTACCATTATTATTACTATTAT
1 -TTTTTACCATTATTATTACTATTAT
**
23356380 TTTTGCTTTCATTATTATTACTA-TAT
1 TTTT--TACCATTATTATTACTATTAT
23356406 TTTT
1 TTTT
23356410 ATTTTTATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
25 27 0.54
26 8 0.16
27 15 0.30
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.62
Consensus pattern (25 bp):
TTTTTACCATTATTATTACTATTAT
Found at i:23356371 original size:3 final size:3
Alignment explanation
Indices: 23356363--23356666 Score: 72
Period size: 3 Copynumber: 99.7 Consensus size: 3
23356353 TGTTTTTACC
* * * * *
23356363 ATT ATT ATT ACT ATT ATT TTT GCTT -TC ATT ATT ATT ACT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
23356407 TTT ATT TTT ATT -TCT ACT ATT ATC ATT ATT ATT AAT ACT AAT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * ** *
23356452 AAT ATT CTT ATT ATT CCT ATT ATT ATT -TT -TT ACT GCT AAT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * * *
23356496 ATT ATC ATT ATT GTT ACT ATT ATT -TT -TT ACT ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * * * *
23356540 ATT ATT TTT ACT ACT ATT ACTT A-T ATT CGTT ATT ATC ATT ATT AATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT -ATT ATT ATT ATT ATT -ATT
* * * *
23356587 -TT AACTGT ATT -TT CTTT ACT ATT ATT TTT ATT ATC ATT ATTT ATTT
1 ATT -A-T-T ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT
* *
23356633 ATTT ATTT ATTT ATT ATT ATT GTC A-T ATT ATT AT
1 A-TT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT AT
23356667 ATATGTTTTA
Statistics
Matches: 221, Mismatches: 59, Indels: 42
0.69 0.18 0.13
Matches are distributed among these distances:
2 19 0.09
3 162 0.73
4 37 0.17
5 2 0.01
6 1 0.00
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:23356530 original size:25 final size:27
Alignment explanation
Indices: 23356502--23356558 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
23356492 ATTTATTATC
23356502 ATTATT-GTTACTATTATTTTT-TACT
1 ATTATTAGTTACTATTATTTTTATACT
* *
23356527 ATTATTATTTATTATTATTTTTACTACT
1 ATTATTAGTTACTATTATTTTTA-TACT
23356555 ATTA
1 ATTA
23356559 CTTATATTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 6 0.22
26 13 0.48
28 8 0.30
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (27 bp):
ATTATTAGTTACTATTATTTTTATACT
Found at i:23356555 original size:41 final size:41
Alignment explanation
Indices: 23356346--23356629 Score: 124
Period size: 41 Copynumber: 7.0 Consensus size: 41
23356336 CCATTATTAT
* * *
23356346 TACTATT-TGTTTTTACCATTATTA-TTACTATTATTTTTGC
1 TACTATTAT-TTTTTACTATTATTATTTATTATTATTTTTAC
* * * *
23356386 T-TTCATTA-TTATTACTA-TATT-TTTATTTTTATTTCTAC
1 TACT-ATTATTTTTTACTATTATTATTTATTATTATTTTTAC
* * * * * * * *
23356424 TATTATCATTATTATTAATACTAATATTAATATTCTTATTATTCC
1 TACTATTATT-TT-TTACTATTATTATT--TATTATTATTTTTAC
* ** * * * **
23356469 TATTATTATTTTTTACTGCTAATATTTATTATCATTATTGT
1 TACTATTATTTTTTACTATTATTATTTATTATTATTTTTAC
23356510 TACTATTATTTTTTACTATTATTATTTATTATTATTTTTAC
1 TACTATTATTTTTTACTATTATTATTTATTATTATTTTTAC
* * * *
23356551 TACTATTACTTATATT-C-GTTATTA-TCATTATTAATTTTAAC
1 TACTATTA-TT-TTTTACTATTATTATTTATTATT-ATTTTTAC
* * *
23356592 T-GTATT-TTCTTTACTATTATT-TTTATTATCATTATTTA
1 TACTATTATTTTTTACTATTATTATTTATTATTATT-TTTA
23356630 TTTATTTATT
Statistics
Matches: 185, Mismatches: 41, Indels: 37
0.70 0.16 0.14
Matches are distributed among these distances:
37 2 0.01
38 26 0.14
39 25 0.14
40 16 0.09
41 71 0.38
42 6 0.03
43 17 0.09
44 2 0.01
45 20 0.11
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (41 bp):
TACTATTATTTTTTACTATTATTATTTATTATTATTTTTAC
Found at i:23356563 original size:25 final size:26
Alignment explanation
Indices: 23356513--23356563 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
23356503 TTATTGTTAC
* *
23356513 TATTATTTTTTACTATTATTATTTAT
1 TATTATTTTTTACTACTATTACTTAT
23356539 TATTA-TTTTTACTACTATTACTTAT
1 TATTATTTTTTACTACTATTACTTAT
23356564 ATTCGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (26 bp):
TATTATTTTTTACTACTATTACTTAT
Found at i:23356583 original size:66 final size:67
Alignment explanation
Indices: 23356459--23356616 Score: 151
Period size: 66 Copynumber: 2.3 Consensus size: 67
23356449 ATTAATATTC
* * * * * *
23356459 TTATTATTCCTATTATTATTTTTTACTGCTAATATTTATTATCATTATTGTTACTATTATTTTTT
1 TTATTATT--TATTATTA-TTTTTACTACTAATACTTATTATCATTATTATCACTATTAATTTTA
23356524 AC-TA
63 ACGTA
* * *
23356528 TTATTATTTATTATTATTTTTACTACTATTACTTA-TATTCGTTATTATCATTATTAATTTTAAC
1 TTATTATTTATTATTATTTTTACTACTAATACTTATTA-TCATTATTATCACTATTAATTTTAAC
23356592 TGTA
65 -GTA
* *
23356596 TT-TTCTTTACTATTATTTTTA
1 TTATTATTTATTATTATTTTTA
23356617 TTATCATTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
65 2 0.03
66 36 0.48
67 25 0.33
68 4 0.05
69 8 0.11
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (67 bp):
TTATTATTTATTATTATTTTTACTACTAATACTTATTATCATTATTATCACTATTAATTTTAACG
TA
Found at i:23356632 original size:4 final size:4
Alignment explanation
Indices: 23356623--23356647 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
23356613 TTTATTATCA
23356623 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
23356648 ATTATTGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:23368943 original size:15 final size:15
Alignment explanation
Indices: 23368923--23368952 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23368913 CATTTTATTT
*
23368923 ATATTAGGATAATTA
1 ATATTAAGATAATTA
23368938 ATATTAAGATAATTA
1 ATATTAAGATAATTA
23368953 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:23375353 original size:6 final size:6
Alignment explanation
Indices: 23375342--23375403 Score: 52
Period size: 6 Copynumber: 9.2 Consensus size: 6
23375332 AGGCAACCCA
*
23375342 ATTTTT ATTTTT ATTTTT ATTTTAT TTATTTT ATCTTATT ATTTTATT
1 ATTTTT ATTTTT ATTTTT ATTTT-T AT-TTTT AT-TT-TT A-TTT-TT
23375390 ATTTATT ATTTTT A
1 ATTT-TT ATTTTT A
23375404 GATATTAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
6 20 0.41
7 16 0.33
8 12 0.24
9 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:23375370 original size:21 final size:21
Alignment explanation
Indices: 23375345--23375403 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
23375335 CAACCCAATT
23375345 TTTATTTTTATTTTTATTTTA
1 TTTATTTTTATTTTTATTTTA
23375366 TTTA-TTTTATCTTATTATTTTA
1 TTTATTTTTAT-TT-TTATTTTA
23375388 -TTATTTATTATTTTTA
1 TTTATTT-TTATTTTTA
23375404 GATATTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 6 0.18
21 12 0.35
22 12 0.35
23 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATTTTTATTTTTATTTTA
Found at i:23375375 original size:14 final size:14
Alignment explanation
Indices: 23375351--23375389 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
23375341 AATTTTTATT
23375351 TTTATTTTTATTTTA
1 TTTA-TTTTATTTTA
*
23375366 TTTATTTTATCTTA
1 TTTATTTTATTTTA
23375380 -TTATTTTATT
1 TTTATTTTATT
23375390 ATTTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 9 0.41
14 9 0.41
15 4 0.18
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:23375397 original size:15 final size:15
Alignment explanation
Indices: 23375350--23375401 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
23375340 CAATTTTTAT
23375350 TTTTATT-TTTATTTTA
1 TTTTATTATTTA--TTA
*
23375366 TTTATTTTATCTTATTA
1 TTT-TATTAT-TTATTA
23375383 TTTTATTATTTATTA
1 TTTTATTATTTATTA
23375398 TTTT
1 TTTT
23375402 TAGATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
15 10 0.32
16 8 0.26
17 9 0.29
18 1 0.03
19 3 0.10
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTATTATTTATTA
Found at i:23376965 original size:15 final size:15
Alignment explanation
Indices: 23376945--23376974 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23376935 CATTTTATTT
*
23376945 ATATTAGGATAATTA
1 ATATTAAGATAATTA
23376960 ATATTAAGATAATTA
1 ATATTAAGATAATTA
23376975 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:23378218 original size:35 final size:34
Alignment explanation
Indices: 23378179--23378358 Score: 88
Period size: 34 Copynumber: 5.1 Consensus size: 34
23378169 GAAGTATAAG
23378179 TAATATCAAATTTAAATATTTAAAAAGTAAAAGAA
1 TAATAT-AAATTTAAATATTTAAAAAGTAAAAGAA
** * * *
23378214 TAATAAATAAA--TAAATAGATAAAAA--ATATGCA
1 TAAT--ATAAATTTAAATATTTAAAAAGTAAAAGAA
* *
23378246 TAATATTAAATTTAAGTATTTAAGAAGTAAAAGAA
1 TAATA-TAAATTTAAATATTTAAAAAGTAAAAGAA
* *
23378281 TAATAAATAAA--TAAATAAATTGATAAAACAAATATAA-AA
1 TAAT--ATAAATTTAAAT--ATT--T-AAA-AAGTAAAAGAA
* *
23378320 -AATATTAAATTTAAGTGTTTAAAAAGTAAAAGAA
1 TAATA-TAAATTTAAATATTTAAAAAGTAAAAGAA
23378354 TAATA
1 TAATA
23378359 AAGAAATAAA
Statistics
Matches: 105, Mismatches: 20, Indels: 40
0.64 0.12 0.24
Matches are distributed among these distances:
30 1 0.01
31 4 0.04
32 8 0.08
33 16 0.15
34 21 0.20
35 17 0.16
36 11 0.10
37 9 0.09
38 4 0.04
39 8 0.08
40 6 0.06
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (34 bp):
TAATATAAATTTAAATATTTAAAAAGTAAAAGAA
Found at i:23378333 original size:73 final size:72
Alignment explanation
Indices: 23378180--23378392 Score: 292
Period size: 73 Copynumber: 3.0 Consensus size: 72
23378170 AAGTATAAGT
* *
23378180 AATATCAAATTTAAATATTTAAAAAGTAAAAGAATAATAAATAAATAAAT--A-GAT-AAA-AAA
1 AATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATGATAAAACAAA
** *
23378240 TATGCAT
66 TATAAAA
*
23378247 AATATTAAATTTAAGTATTTAAGAAGTAAAAGAATAATAAATAAATAAATAAATTGATAAAACAA
1 AATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAA-TGATAAAACAA
23378312 ATATAAAA
65 ATATAAAA
* *
23378320 AATATTAAATTTAAGTGTTTAAAAAGTAAAAGAATAATAAAGAAATAAATAAATAGATAAAACAA
1 AATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAAT-GATAAAACAA
*
23378385 ATGTAAAA
65 ATATAAAA
23378393 GGATGAAATT
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
67 47 0.36
69 1 0.01
71 3 0.02
72 4 0.03
73 74 0.57
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.28
Consensus pattern (72 bp):
AATATTAAATTTAAGTATTTAAAAAGTAAAAGAATAATAAATAAATAAATAAATGATAAAACAAA
TATAAAA
Found at i:23381386 original size:32 final size:32
Alignment explanation
Indices: 23381350--23381413 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
23381340 AAAGAAATGA
23381350 AAGAATAAATATTTGAATACTTTTGTATCGAT
1 AAGAATAAATATTTGAATACTTTTGTATCGAT
23381382 AAGAATAAATATTTGAATACTTTTGTATCGAT
1 AAGAATAAATATTTGAATACTTTTGTATCGAT
23381414 CTTTATGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (32 bp):
AAGAATAAATATTTGAATACTTTTGTATCGAT
Found at i:23385807 original size:18 final size:18
Alignment explanation
Indices: 23385772--23385811 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23385762 TGAAATAGTG
** *
23385772 TAATATTATATGATTATA
1 TAATATTATACAAGTATA
23385790 TAATATTATACAAGTATA
1 TAATATTATACAAGTATA
23385808 TAAT
1 TAAT
23385812 GCTAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (18 bp):
TAATATTATACAAGTATA
Found at i:23386918 original size:8 final size:9
Alignment explanation
Indices: 23386868--23386952 Score: 64
Period size: 10 Copynumber: 9.0 Consensus size: 9
23386858 AATTTATGTT
23386868 TTTTTATAA
1 TTTTTATAA
*
23386877 ATTTTATAAA
1 TTTTTAT-AA
**
23386887 AGTTTATAA
1 TTTTTATAA
*
23386896 TTTATTAGAA
1 TTT-TTATAA
23386906 TTTTTAT-A
1 TTTTTATAA
23386914 TTTTTATAA
1 TTTTTATAA
23386923 TTTTGTATGAA
1 TTTT-TAT-AA
* *
23386934 CTTTTATACG
1 TTTTTATA-A
23386944 TTTTTATAA
1 TTTTTATAA
23386953 AATATAAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
8 8 0.13
9 18 0.30
10 29 0.48
11 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:23386926 original size:17 final size:19
Alignment explanation
Indices: 23386889--23386926 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
23386879 TTTATAAAAG
23386889 TTTATAATTTATTAGAATT
1 TTTATAATTTATTAGAATT
*
23386908 TTTAT-ATTT-TTATAATT
1 TTTATAATTTATTAGAATT
23386925 TT
1 TT
23386927 GTATGAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTATAATTTATTAGAATT
Found at i:23387048 original size:9 final size:9
Alignment explanation
Indices: 23387007--23387096 Score: 60
Period size: 10 Copynumber: 9.8 Consensus size: 9
23386997 AAAATGAATT
23387007 TTTTTATAAA
1 TTTTTAT-AA
23387017 TTTTTATAA
1 TTTTTATAA
* *
23387026 TATTTAAAA
1 TTTTTATAA
*
23387035 GTTTTTATGAT
1 -TTTTTAT-AA
23387046 TTTTTATAA
1 TTTTTATAA
*
23387055 GTTTATATCAA
1 -TTTTTAT-AA
*
23387066 TTTTAAT-A
1 TTTTTATAA
23387074 -TTTT-TAA
1 TTTTTATAA
*
23387081 TTTTAATAA
1 TTTTTATAA
23387090 TTTTTAT
1 TTTTTAT
23387097 GACTTTTAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
8 4 0.07
9 19 0.31
10 30 0.49
11 3 0.05
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:23387071 original size:39 final size:38
Alignment explanation
Indices: 23387006--23387079 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
23386996 AAAAATGAAT
*
23387006 TTTTTTATAAATTTTTATAATATTTAAAAGTTTTTATGA
1 TTTTTTATAAATTTATATAATATTTAAAA-TTTTTATGA
* *
23387045 TTTTTTATAAGTTTATATCAAT-TTTAATATTTTTA
1 TTTTTTATAAATTTATAT-AATATTTAAAATTTTTA
23387080 ATTTTAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 6 0.19
39 22 0.71
40 3 0.10
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (38 bp):
TTTTTTATAAATTTATATAATATTTAAAATTTTTATGA
Found at i:23387084 original size:15 final size:16
Alignment explanation
Indices: 23387064--23387095 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
23387054 AGTTTATATC
23387064 AATTTTAAT-ATTTTT
1 AATTTTAATAATTTTT
23387079 AATTTTAATAATTTTT
1 AATTTTAATAATTTTT
23387095 A
1 A
23387096 TGACTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTTAATAATTTTT
Found at i:23387587 original size:2 final size:2
Alignment explanation
Indices: 23387580--23387618 Score: 53
Period size: 2 Copynumber: 19.5 Consensus size: 2
23387570 AAAACTATTA
*
23387580 AT AT AT AT AT AT AT AT AT AT GT AT AT AT -T AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
23387619 ATAAAAGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 30 0.91
3 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23405862 original size:8 final size:8
Alignment explanation
Indices: 23405844--23405897 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
23405834 GTTTATGCAC
23405844 ATAATTTTA
1 ATAA-TTTA
23405853 ATAATTTA
1 ATAATTTA
23405861 ATAA-TT-
1 ATAATTTA
*
23405867 ATATTTTA
1 ATAATTTA
*
23405875 TTAATTTTA
1 ATAA-TTTA
23405884 ATAATTTA
1 ATAATTTA
23405892 ATAATT
1 ATAATT
23405898 ATATTTTATC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 3 0.08
7 4 0.11
8 20 0.53
9 11 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATAATTTA
Found at i:23405864 original size:17 final size:17
Alignment explanation
Indices: 23405844--23405897 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
23405834 GTTTATGCAC
23405844 ATAATTTTAATAATTTA
1 ATAATTTTAATAATTTA
*
23405861 ATAA--TT-ATATTTTA
1 ATAATTTTAATAATTTA
*
23405875 TTAATTTTAATAATTTA
1 ATAATTTTAATAATTTA
23405892 ATAATT
1 ATAATT
23405898 ATATTTTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 10 0.33
15 2 0.07
16 2 0.07
17 16 0.53
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATAATTTTAATAATTTA
Found at i:23405882 original size:31 final size:31
Alignment explanation
Indices: 23405845--23405906 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
23405835 TTTATGCACA
23405845 TAATTTTAATAATTTAATAATTATATTTTAT
1 TAATTTTAATAATTTAATAATTATATTTTAT
23405876 TAATTTTAATAATTTAATAATTATATTTTAT
1 TAATTTTAATAATTTAATAATTATATTTTAT
23405907 CTTTTATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (31 bp):
TAATTTTAATAATTTAATAATTATATTTTAT
Found at i:23405887 original size:23 final size:22
Alignment explanation
Indices: 23405847--23405889 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
23405837 TATGCACATA
23405847 ATTTTAATAATTTAATAATTAT
1 ATTTTAATAATTTAATAATTAT
*
23405869 ATTTTATTAATTTTAATAATT
1 ATTTTAATAA-TTTAATAATT
23405890 TAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTAATAATTTAATAATTAT
Found at i:23405905 original size:14 final size:14
Alignment explanation
Indices: 23405857--23405905 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
23405847 ATTTTAATAA
23405857 TTTAATAATTATAT
1 TTTAATAATTATAT
* *
23405871 TTTATTAATTTTAATAA
1 TTTAATAA--TT-ATAT
23405888 TTTAATAATTATAT
1 TTTAATAATTATAT
23405902 TTTA
1 TTTA
23405906 TCTTTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
14 14 0.50
15 2 0.07
16 2 0.07
17 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAATAATTATAT
Found at i:23407913 original size:48 final size:49
Alignment explanation
Indices: 23407859--23407969 Score: 140
Period size: 47 Copynumber: 2.3 Consensus size: 49
23407849 AATTTTTTTT
23407859 ATTTTTTTATAATTTTAATG-GTTTTAATTTTCTAAAAAATAG-TTCTAA
1 ATTTTTTTATAATTTTAATGAGTTTTAATTTT-TAAAAAATAGATTCTAA
* * * *
23407907 A-TTTTTTGTAATTTTAATGATTTTTAATTTTTAAAAAATAGATTTTAT
1 ATTTTTTTATAATTTTAATGAGTTTTAATTTTTAAAAAATAGATTCTAA
*
23407955 ATTTTTCTA-AATTTT
1 ATTTTTTTATAATTTT
23407970 TTAAATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
47 27 0.50
48 22 0.41
49 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (49 bp):
ATTTTTTTATAATTTTAATGAGTTTTAATTTTTAAAAAATAGATTCTAA
Found at i:23407979 original size:47 final size:48
Alignment explanation
Indices: 23407880--23407980 Score: 109
Period size: 48 Copynumber: 2.1 Consensus size: 48
23407870 ATTTTAATGG
* * *
23407880 TTTTAATTTTCTAAAAAATAGTTCTAAATTTTTTGTAATTTTAATGAT
1 TTTTAATTTTCTAAAAAATAGTTCTAAATTTTTTGAAATTTTAATAAA
* * *
23407928 TTTTAATTTT-TAAAAAATAGATTTTATATTTTTCT-AAATTTT-TTAAA
1 TTTTAATTTTCTAAAAAATAG-TTCTAAATTTTT-TGAAATTTTAATAAA
23407975 TTTTAA
1 TTTTAA
23407981 AAAATTAGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
47 18 0.40
48 26 0.58
49 1 0.02
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (48 bp):
TTTTAATTTTCTAAAAAATAGTTCTAAATTTTTTGAAATTTTAATAAA
Found at i:23410300 original size:17 final size:18
Alignment explanation
Indices: 23410262--23410302 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
23410252 GAATTCTTGT
*
23410262 TAAAATAAAATACAGTAG
1 TAAAATAAAATACAGAAG
23410280 TAAAATAAAATACA-AAG
1 TAAAATAAAATACAGAAG
23410297 TAAAAT
1 TAAAAT
23410303 CTATATAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.22
Consensus pattern (18 bp):
TAAAATAAAATACAGAAG
Found at i:23412241 original size:68 final size:65
Alignment explanation
Indices: 23412131--23412383 Score: 207
Period size: 68 Copynumber: 3.8 Consensus size: 65
23412121 ATATAGATGG
** * *
23412131 TATGTAGCTAGGTCACATGTATGGT-GT-TGACTGCACATCATGT-GTACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTATG--TGCACACCATGTAG-ACAAGAGAGCTAC-AGA
*
23412193 CATTA
62 GA-TA
*
23412198 TGATGTAGCTAGGTCACATGGGTGATACTATGTGCACACCATGTAGACAAGAGAGCTACAG-GAT
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGCACACCATGTAGACAAGAGAGCTACAGAGAT
23412262 A
65 A
* * * * * *
23412263 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACA-AG
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGCACACCATGTAGACAAGAGAGCTACAGAG
23412327 ATA
63 ATA
* * **
23412330 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGCACACCATGTAG-ACAAGAGAGC
23412384 CGAACTATAT
Statistics
Matches: 154, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.16
65 3 0.02
66 22 0.14
67 34 0.22
68 47 0.31
69 2 0.01
70 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (65 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGCACACCATGTAGACAAGAGAGCTACAGAGATA
Found at i:23413474 original size:2 final size:2
Alignment explanation
Indices: 23413467--23413496 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23413457 CATGACATGC
23413467 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
23413497 GACTAGTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23415524 original size:16 final size:17
Alignment explanation
Indices: 23415493--23415535 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
23415483 CAATTTCAAG
23415493 AAGCAATTATACAAATGA
1 AAGCAA-TATACAAATGA
*
23415511 AAGCAATA-ACAAATTA
1 AAGCAATATACAAATGA
*
23415527 AAGTAATAT
1 AAGCAATAT
23415536 TTAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 14 0.64
17 2 0.09
18 6 0.27
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (17 bp):
AAGCAATATACAAATGA
Found at i:23417283 original size:147 final size:147
Alignment explanation
Indices: 23416818--23417391 Score: 731
Period size: 147 Copynumber: 3.9 Consensus size: 147
23416808 AATAAGATCG
* ** * ** *
23416818 TCAATCTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACCACAACCGCCAACCTGCTATCT
1 TCAATCTTCAGTCTACTTCCTTACTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTCT
*
23416883 TACTACCTCAGAGAGATAAGGCTTGAGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAAA
66 TACTACCTCAGAGAGATAAGGCTTGAGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGA
* **
23416948 TTTGCCATCCCCAATCT
131 TTTGCCTTTTCCAATCT
* * * *
23416965 TCAATCTTCAGTCTGCTTCCTTGCTATCTGAGGAAGATAAGACTTCAATCTTCAACCTGCTCTCT
1 TCAATCTTCAGTCTACTTCCTTACTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTCT
* * * *
23417030 TGCTACCTTAGAGAGATAAGGCCTTGAGGCTTAAATCTGCTCCATTGCCGGTACATGGAGATAAG
66 TACTACCTCAGAGAGATAAGG-CTTGAGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAG
* *
23417095 ATTCGCCTCTTCCAATCT
130 ATTTGCCTTTTCCAATCT
* *
23417113 TCAATCTTCAGTTTGCTTCCTTACTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTCT
1 TCAATCTTCAGTCTACTTCCTTACTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTCT
* * *
23417178 TACTACATCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCTATTGCCGATACATGGAGATAAGA
66 TACTACCTCAGAGAGATAAGGCTTGAGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGA
*
23417243 TTTTCCTTTTCCAATCT
131 TTTGCCTTTTCCAATCT
* * * * * *
23417260 TCAATCTTCAGTCTACTTTCTTACTGCCTTAGAAAGATAAGAC-T-ATATCTTGAACTTGCTC-C
1 TCAATCTTCAGTCTACTTCCTTACTACCTCAGGAAGATAAGACTTCA-ATCTTCAACCTGCTCTC
* * * * * * * *
23417322 ACTGCAACTTCAGGGAGATAAGGCTAGTGACTTAAATCTGCTCCATTGCCGGTACATGGAGATAA
65 -TTACTACCTCAGAGAGATAAGGCTTGAGACTTAAATCTGCTCCATTGCCGATACATGGAGATAA
23417387 GATTT
129 GATTT
23417392 TTTGTCTTCG
Statistics
Matches: 375, Mismatches: 49, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
145 2 0.01
146 73 0.19
147 168 0.45
148 132 0.35
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (147 bp):
TCAATCTTCAGTCTACTTCCTTACTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTCT
TACTACCTCAGAGAGATAAGGCTTGAGACTTAAATCTGCTCCATTGCCGATACATGGAGATAAGA
TTTGCCTTTTCCAATCT
Found at i:23417472 original size:89 final size:89
Alignment explanation
Indices: 23417318--23417517 Score: 208
Period size: 89 Copynumber: 2.2 Consensus size: 89
23417308 CTTGAACTTG
* * * * *
23417318 CTCCACTGCAACTTCAGGGAGATAAGGCTAGTGACTTAAATCTGCTCCATTGCCGGTACATGGAG
1 CTCCACTGCAACTTCAGAGAGATAAGGCTAGTCACTTAAACCTGCTCCACTGCCGGTACAAGGAG
* *
23417383 ATAAGATTTTTTGTCTTCGATCTA
66 ATAAGATTTGTAGTCTTCGATCTA
* * *
23417407 CTCCACTGCAACTTCAGAGATATAAGGCCT-GTCACTTTAACCTGTTCCACTGCAAC-GT-CAAG
1 CTCCACTGCAACTTCAGAGAGATAAGG-CTAGTCACTTAAACCTGCTCCACTGC--CGGTACAAG
* *
23417469 GAGATAAGGTTTGTAGTCTTTGATCTA
63 GAGATAAGATTTGTAGTCTTCGATCTA
* * * *
23417496 TTCCGCTACAACTTCAAAGAGA
1 CTCCACTGCAACTTCAGAGAGA
23417518 CAAGATCTGA
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
89 86 0.95
90 4 0.04
91 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGAGAGATAAGGCTAGTCACTTAAACCTGCTCCACTGCCGGTACAAGGAG
ATAAGATTTGTAGTCTTCGATCTA
Found at i:23417684 original size:64 final size:64
Alignment explanation
Indices: 23417577--23417697 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 64
23417567 TCTGTAGACT
* * * *
23417577 TGATGTTTATGCCAAATGATTAGGATGCTATGATTAAAATGAATCTAATGCTCCTAACTAAATA
1 TGATGTTGATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAAATA
* * *
23417641 TGATGTTGATGTCAAATAATTAGGATGCTATGATCGAACTGAATCAAATGCTCCTAA
1 TGATGTTGATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAA
23417698 TTAGATGTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.33
Consensus pattern (64 bp):
TGATGTTGATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAAATA
Found at i:23418868 original size:6 final size:6
Alignment explanation
Indices: 23418859--23418892 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
23418849 TTTTTTGGTT
*
23418859 TTTTTA TTTTTA TTTCT- TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
23418893 TTAAAAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:23418878 original size:17 final size:16
Alignment explanation
Indices: 23418857--23418894 Score: 67
Period size: 17 Copynumber: 2.3 Consensus size: 16
23418847 CTTTTTTTGG
23418857 TTTTTTTATTTTTATT
1 TTTTTTTATTTTTATT
23418873 TCTTTTTTATTTTTATT
1 T-TTTTTTATTTTTATT
23418890 TTTTT
1 TTTTT
23418895 AAAAGTCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTATTTTTATT
Found at i:23423378 original size:135 final size:135
Alignment explanation
Indices: 23423136--23423418 Score: 548
Period size: 135 Copynumber: 2.1 Consensus size: 135
23423126 TATTGGGCCT
**
23423136 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
23423201 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
66 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
23423266 TATGC
131 TATGC
23423271 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
23423336 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
66 AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
23423401 TATGC
131 TATGC
23423406 AAGCCCATTTGGG
1 AAGCCCATTTGGG
23423419 GAGACTACTC
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 146 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAACA
TATGC
Found at i:23425300 original size:25 final size:26
Alignment explanation
Indices: 23425199--23425299 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
23425189 CATGAAATTC
23425199 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23425225 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23425251 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23425277 TTATCATG-AACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
23425300 TTTATCAATT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 15 0.21
26 58 0.79
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23431147 original size:26 final size:26
Alignment explanation
Indices: 23430986--23431139 Score: 263
Period size: 26 Copynumber: 5.9 Consensus size: 26
23430976 CATGAAATTC
*
23430986 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
23431012 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23431038 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23431064 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
23431090 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
23431116 TTATCATGAAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
23431140 TTTTATCAAT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 120 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:23433943 original size:16 final size:17
Alignment explanation
Indices: 23433912--23433954 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
23433902 CAATTTCAAG
23433912 AAGCAATTATACAAATGA
1 AAGCAA-TATACAAATGA
*
23433930 AAGCAATA-ACAAATTA
1 AAGCAATATACAAATGA
*
23433946 AAGTAATAT
1 AAGCAATAT
23433955 TTAAAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 14 0.64
17 2 0.09
18 6 0.27
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (17 bp):
AAGCAATATACAAATGA
Found at i:23434986 original size:15 final size:15
Alignment explanation
Indices: 23434966--23434996 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23434956 TTTTATATTA
*
23434966 TTTTTATTTTTGTTT
1 TTTTTATTTTGGTTT
23434981 TTTTTATTTTGGTTT
1 TTTTTATTTTGGTTT
23434996 T
1 T
23434997 GGTTTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (15 bp):
TTTTTATTTTGGTTT
Found at i:23434989 original size:21 final size:22
Alignment explanation
Indices: 23434948--23435006 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
23434938 CTTCTATTGT
*
23434948 TTTTGGGTTTTTATATTATTTTTA
1 TTTT-GGTTTTT-TATTATTTTGA
* *
23434972 TTTTTGTTTTTT-TTATTTTGG
1 TTTTGGTTTTTTATTATTTTGA
23434993 TTTTGGTTTTTTAT
1 TTTTGGTTTTTTAT
23435007 GGGCCCGGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 18 0.60
22 2 0.07
23 6 0.20
24 4 0.13
ACGTcount: A:0.10, C:0.00, G:0.14, T:0.76
Consensus pattern (22 bp):
TTTTGGTTTTTTATTATTTTGA
Found at i:23436408 original size:19 final size:19
Alignment explanation
Indices: 23436375--23436422 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23436365 GCAGAAAAAG
* *
23436375 ATCAAAAGAGAGGCTACAA
1 ATCAAAAGGGGGGCTACAA
* *
23436394 ATCTAAAGGGGGGCTACGA
1 ATCAAAAGGGGGGCTACAA
23436413 ATCAAAAGGG
1 ATCAAAAGGG
23436423 AAACCAACCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.29, T:0.12
Consensus pattern (19 bp):
ATCAAAAGGGGGGCTACAA
Found at i:23439189 original size:8 final size:9
Alignment explanation
Indices: 23439159--23439187 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
23439149 ATCAGGGACT
23439159 AAATTGTAA
1 AAATTGTAA
23439168 AAATTGTAA
1 AAATTGTAA
23439177 AAATTGTAA
1 AAATTGTAA
23439186 AA
1 AA
23439188 TTTAGGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (9 bp):
AAATTGTAA
Found at i:23444107 original size:129 final size:129
Alignment explanation
Indices: 23443678--23444197 Score: 567
Period size: 129 Copynumber: 4.0 Consensus size: 129
23443668 TGATTATTCA
* ** ** *** * *
23443678 TTTAAAAATTCTTTAAAACGAAGGCGATGTTCGACATTTGGCAATTCACGGAATCGTGCCCTAAC
1 TTTAAAAACTCTTTAAAACGAAGGAAATACTCGGTGTTTGGCAATTC-GGGAATCGTGCCCTATC
* * * * * * *
23443743 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCATTCATGT
65 GTGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATTCCTTT-GGATTTCATTCATGC
23443808 T
129 T
* * * *
23443809 TTCTAAAAACTCTTTAAAACGAAGGAAATATTCGATGATTGGCAATTCGGGGAATAGTGCCCTAT
1 TT-TAAAAACTCTTTAAAACGAAGGAAATACTCGGTGTTTGGCAATTC-GGGAATCGTGCCCTAT
* * * *
23443874 CGTGTTTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATTCCTCTGGTTTTTTATTCAT
64 CGTG-CTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGG-ATTTCATTCAT
23443939 GCT
127 GCT
* * *
23443942 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGGTGTTTGGCAAGTCGGGAATCGTGCCCTATCG
1 TTTAAAAACTCTTTAAAACGAAGGAAATACTCGGTGTTTGGCAATTCGGGAATCGTGCCCTATCG
** * * * * *
23444007 TGCTGGGTTGTGATTTCTTGTTTGTTCAAAACAATCAAATATTCCTTTGGGTTTCACTCATGCT
66 TGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGGATTTCATTCATGCT
*** * * *
23444071 TTTAAAAACTCCCCAAAACGAAGGTAATACTAGGTGTTTAGCAATTCGGGAATCGTGCCCTATCG
1 TTTAAAAACTCTTTAAAACGAAGGAAATACTCGGTGTTTGGCAATTCGGGAATCGTGCCCTATCG
* *
23444136 TGCTGGGTTGCAATCTC-CTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCA-TCATG
66 TGCTGGGTTGCAATCTCTC-GTTTGTTCAAAACAATCGAATATTCCTTT-GGATTTCATTCATG
23444198 TTCTCCAAAT
Statistics
Matches: 329, Mismatches: 55, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
129 114 0.35
130 47 0.14
131 21 0.06
132 95 0.29
133 52 0.16
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (129 bp):
TTTAAAAACTCTTTAAAACGAAGGAAATACTCGGTGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATTCCTTTGGATTTCATTCATGCT
Found at i:23448075 original size:25 final size:25
Alignment explanation
Indices: 23448041--23448090 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
23448031 TACTTTGGAA
23448041 GTAAGAATGCATTCGGCCTTGAGAC
1 GTAAGAATGCATTCGGCCTTGAGAC
23448066 GTAAGAATGCATTCGGCCTTGAGAC
1 GTAAGAATGCATTCGGCCTTGAGAC
23448091 AATCTATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (25 bp):
GTAAGAATGCATTCGGCCTTGAGAC
Found at i:23454336 original size:51 final size:51
Alignment explanation
Indices: 23454259--23454390 Score: 144
Period size: 51 Copynumber: 2.6 Consensus size: 51
23454249 CGGTGGGCTA
* *
23454259 CACATAGTACCACCCTTGT-AGTCAAAGCTACCTTATT-CACAAAGTGGCCTT
1 CACATAGTACCACACTTGTGA-TCAAAGCTACCTT-TTACACAAAGTGGCCTG
* * * *
23454310 CACATAGTACCACATTTGTGACCAAAGCTATCTTTTACACATAGTGGCCTG
1 CACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAAGTGGCCTG
* *
23454361 CA-ATTAGTATCACACTTGTGATCGAAGCTA
1 CACA-TAGTACCACACTTGTGATCAAAGCTA
23454391 TCGGGTACGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 3 0.04
51 64 0.94
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (51 bp):
CACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAAGTGGCCTG
Found at i:23480457 original size:46 final size:43
Alignment explanation
Indices: 23480367--23480487 Score: 118
Period size: 46 Copynumber: 2.7 Consensus size: 43
23480357 TATGTGTGCT
*
23480367 AGTGTAAGACATGTCTTGGACATGCATCGACCACATTATGAGAGCC
1 AGTGTAAGACATGTC-TGGACATGCATCG--CACATTATAAGAGCC
* *
23480413 AGTGTAAGACATGTCTAGGACATGCATCG-ATATTGAGGTAAGAGCT
1 AGTGTAAGACATGTCT-GGACATGCATCGCACATT-A--TAAGAGCC
* *
23480459 AATGTAAGACCTGTCTGAGACATGCATCG
1 AGTGTAAGACATGTCTG-GACATGCATCG
23480488 GCCTCGAGAT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
43 4 0.06
44 1 0.02
45 2 0.03
46 58 0.89
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGACATGCATCGCACATTATAAGAGCC
Found at i:23480606 original size:49 final size:47
Alignment explanation
Indices: 23480551--23480722 Score: 175
Period size: 49 Copynumber: 3.6 Consensus size: 47
23480541 TTTGTGTGTT
* *
23480551 AGTGTAAGACCTATCTGGGACATGACATCGACACTAATATATGAGAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATCG-CACT-ATATATGAAAGCC
* * * *
23480600 AGTGTAAGGCCTATCTGGGACATGGCATCGGCCTCTATATATAAAAGTC
1 AGTGTAAGACCTATCTGGGACATGGCATC-G-CACTATATATGAAAGCC
* * * **
23480649 AGTGTAAGACCTGTCTGGGACATGGCATTG-ACTTTGATATGCTAGCC
1 AGTGTAAGACCTATCTGGGACATGGCATCGCACTAT-ATATGAAAGCC
*
23480696 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TATCTGGGACATGGC
23480723 GTCGGCATCT
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
46 3 0.03
47 18 0.17
48 16 0.15
49 63 0.61
50 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGCACTATATATGAAAGCC
Found at i:23487763 original size:36 final size:36
Alignment explanation
Indices: 23487716--23487787 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
23487706 ATTATGGGAT
23487716 TACACACTGAGTTTTCGTAAACTCACCCATCTGTTA
1 TACACACTGAGTTTTCGTAAACTCACCCATCTGTTA
23487752 TACACACTGAGTTTTCGTAAACTCACCCATCTGTTA
1 TACACACTGAGTTTTCGTAAACTCACCCATCTGTTA
23487788 ACTGTGCAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (36 bp):
TACACACTGAGTTTTCGTAAACTCACCCATCTGTTA
Found at i:23495268 original size:98 final size:99
Alignment explanation
Indices: 23495090--23495327 Score: 304
Period size: 98 Copynumber: 2.4 Consensus size: 99
23495080 TCTATTGTGA
* *
23495090 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACTGTGTAGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACTGTGTAGT
* **
23495155 ACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
66 ACTAAGTGTAGGCTACTACGTGTACCAGATACTT
* * * *
23495189 AGGTCACGTGTGTAGTACTAAGTGCA-GCTACTACGTGTACCGGATAA-T-T-AGTCACGTGTGT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGA-TCAC-TGTGT
*
23495250 AGTACTAAGTGTAGGCTACTACGTGTACCGGATACTT
63 AGTACTAAGTGTAGGCTACTACGTGTACCAGATACTT
* * *
23495287 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
23495328 AGATAGCTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
96 1 0.01
97 27 0.22
98 52 0.43
99 17 0.14
100 23 0.19
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (99 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACTGTGTAGT
ACTAAGTGTAGGCTACTACGTGTACCAGATACTT
Found at i:23495327 original size:49 final size:49
Alignment explanation
Indices: 23495090--23495319 Score: 257
Period size: 49 Copynumber: 4.7 Consensus size: 49
23495080 TCTATTGTGA
* * * * *
23495090 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGGATACT-T
* * * * **
23495141 GATCAC-TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATACTT
* *
23495189 AGGTCACGTGTGTAGTACTAAGTGCA-GCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATACTT
* * *
23495238 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATACTT
* *
23495287 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
23495320 TGCGTACCAG
Statistics
Matches: 151, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
48 24 0.16
49 77 0.51
50 46 0.30
51 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATACTT
Found at i:23498347 original size:15 final size:15
Alignment explanation
Indices: 23498327--23498365 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
23498317 TATTGAATCT
23498327 TGGGTTTCTTTACTC
1 TGGGTTTCTTTACTC
*
23498342 TGGGTTTCTTTATTC
1 TGGGTTTCTTTACTC
23498357 TGGGTTTCT
1 TGGGTTTCT
23498366 CTATCTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.15, G:0.23, T:0.56
Consensus pattern (15 bp):
TGGGTTTCTTTACTC
Found at i:23498361 original size:30 final size:30
Alignment explanation
Indices: 23498327--23498395 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
23498317 TATTGAATCT
*
23498327 TGGGTTTCTTTA-CTCTGGGTTTCTTTATTC
1 TGGGTTTCTTTATCT-TGGATTTCTTTATTC
* *
23498357 TGGGTTTCTCTATCTTGGATTTCTTTTTTC
1 TGGGTTTCTTTATCTTGGATTTCTTTATTC
*
23498387 -GGTTTTCTT
1 TGGGTTTCTT
23498396 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 24 0.73
31 2 0.06
ACGTcount: A:0.06, C:0.16, G:0.19, T:0.59
Consensus pattern (30 bp):
TGGGTTTCTTTATCTTGGATTTCTTTATTC
Found at i:23500710 original size:40 final size:40
Alignment explanation
Indices: 23500620--23500834 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
23500610 TGGATGATAA
*
23500620 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTAAAT
23500661 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
23500701 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTT-CTTAA-
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
23500739 ----G---A-T-TCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
23500770 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
* *
23500810 CCGGGCTATGTCCTGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23500835 AACGAGTAGC
Statistics
Matches: 149, Mismatches: 11, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
29 21 0.14
30 4 0.03
31 1 0.01
35 1 0.01
38 1 0.01
39 5 0.03
40 85 0.57
41 27 0.18
42 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:23500749 original size:29 final size:29
Alignment explanation
Indices: 23500707--23500762 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
23500697 AAATCCAGAC
23500707 TAAGATCCGAAGGCATTTGTGCGAGTTCT
1 TAAGATCCGAAGGCATTTGTGCGAGTTCT
*
23500736 TAAGATTCGAAGGCATTTGTGCGAGTT
1 TAAGATCCGAAGGCATTTGTGCGAGTT
23500763 ACTAAATCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (29 bp):
TAAGATCCGAAGGCATTTGTGCGAGTTCT
Found at i:23500786 original size:69 final size:69
Alignment explanation
Indices: 23500674--23500802 Score: 215
Period size: 69 Copynumber: 1.9 Consensus size: 69
23500664 GGCTAAGTCC
23500674 CGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTCTTAA
1 CGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTCTTAA
23500739 GATT
66 GATT
* **
23500743 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTT
1 CGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTT
23500803 ACTATAACCG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 1 0.02
69 55 0.98
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (69 bp):
CGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTCTTAA
GATT
Found at i:23503442 original size:51 final size:49
Alignment explanation
Indices: 23503376--23503561 Score: 194
Period size: 50 Copynumber: 3.8 Consensus size: 49
23503366 TGAGGTCGCA
* * *
23503376 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAA-T-TGGTCACG
* * ***
23503427 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAATT-GGTCACG
* ** * * * *
23503477 TGTGTAGTACTACGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAATTGGTCACG
*
23503526 TGTGTAGTACTATGTGCAGGCTACTA-GCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
23503562 TAGCTTTGGC
Statistics
Matches: 114, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 7 0.06
49 31 0.27
50 43 0.38
51 33 0.29
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAATTGGTCACG
Found at i:23503581 original size:101 final size:101
Alignment explanation
Indices: 23503376--23503581 Score: 229
Period size: 101 Copynumber: 2.0 Consensus size: 101
23503366 TGAGGTCGCA
** *
23503376 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
* * * *
23503441 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGCGTACCAGATGCTTAGGTCAAG
* * * * * * *
23503477 TGTGTAGTACTACGTGCAGGCTACTACATGTACCGGATAA-T-TGGTCGCATGTGTAGTACTATG
1 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
*
23503540 TGCAGGCTACTA-GCGTACCAGATAGCTTTGGCTACAAG
66 TGCAGGCTACTACGCGTACCAGAT-GCTTAGG-T-CAAG
23503578 TGTG
1 TGTG
23503582 AAAATATGTG
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
98 9 0.10
99 35 0.40
100 2 0.02
101 41 0.47
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACACGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCAGATGCTTAGGTCAAG
Found at i:23507426 original size:18 final size:18
Alignment explanation
Indices: 23507403--23507445 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
23507393 TGGTGGATAA
*
23507403 TTTTTTGATTTTGTAAT-T
1 TTTTTTGATTTT-AAATAT
23507421 TTTTTT-ATTTTAAATAT
1 TTTTTTGATTTTAAATAT
23507438 TTTTTTGA
1 TTTTTTGA
23507446 GAACAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 12 0.55
18 7 0.32
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTTTTGATTTTAAATAT
Found at i:23513303 original size:59 final size:58
Alignment explanation
Indices: 23513227--23513391 Score: 188
Period size: 60 Copynumber: 2.8 Consensus size: 58
23513217 AGGGGTGTTA
23513227 CTTTTTCCTAATTGGTACCTAAACTTTTTTTGGTCCAATTTGGTACCTAAACTTGA-T
1 CTTTTTCCTAATTGGTACCTAAACTTTTTTTGGTCCAATTTGGTACCTAAACTTGACT
* * * ** * *
23513284 AGTTTTTCTTAAGTTGGTACTTAAACTTTTTGGGGGTCCAATTTGGTACTTGAACTTGACT
1 -CTTTTTCCTAA-TTGGTACCTAAACTTTTT-TTGGTCCAATTTGGTACCTAAACTTGACT
* * * *
23513345 CTTTTTCCTAATTTGGTACCTAATCTTTTTTTTGTTCGATTTGGTAC
1 CTTTTTCCTAA-TTGGTACCTAAACTTTTTTTGGTCCAATTTGGTAC
23513392 TTGTCAAACA
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
58 9 0.10
59 29 0.33
60 48 0.55
61 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (58 bp):
CTTTTTCCTAATTGGTACCTAAACTTTTTTTGGTCCAATTTGGTACCTAAACTTGACT
Found at i:23513803 original size:60 final size:56
Alignment explanation
Indices: 23513730--23513857 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 56
23513720 TAATAAATTT
* *
23513730 AGGTACCAAATTGGGCCTAAAAAAAGTTTAGGTATCAAATTAGGA-AAAAGTGTAAAGTTC
1 AGGTACCAAATTGGGCC-AAAAAAAGTTCAGGTACCAAATTAGGACAAAA----AAAGTTC
* *
23513790 AGGTACCAAATTGGGCCAAAAAAAGTTCAGGTACCAAATTGGGACAAAAAAAGTTT
1 AGGTACCAAATTGGGCCAAAAAAAGTTCAGGTACCAAATTAGGACAAAAAAAGTTC
23513846 AGGTACCAAATT
1 AGGTACCAAATT
23513858 AGAAAAAAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
56 18 0.29
59 24 0.38
60 21 0.33
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (56 bp):
AGGTACCAAATTGGGCCAAAAAAAGTTCAGGTACCAAATTAGGACAAAAAAAGTTC
Found at i:23513821 original size:28 final size:28
Alignment explanation
Indices: 23513730--23513857 Score: 150
Period size: 28 Copynumber: 4.4 Consensus size: 28
23513720 TAATAAATTT
*
23513730 AGGTACCAAATTGGGCCTAAAAAAAGTTT
1 AGGTACCAAATTGGGCC-AAAAAAAGTTC
* * *
23513759 AGGTATCAAATTAGG-AAAAAGTGTAAAGTTC
1 AGGTACCAAATTGGGCCAAAA----AAAGTTC
23513790 AGGTACCAAATTGGGCCAAAAAAAGTTC
1 AGGTACCAAATTGGGCCAAAAAAAGTTC
* *
23513818 AGGTACCAAATTGGGACAAAAAAAGTTT
1 AGGTACCAAATTGGGCCAAAAAAAGTTC
23513846 AGGTACCAAATT
1 AGGTACCAAATT
23513858 AGAAAAAAGT
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
27 4 0.05
28 45 0.53
29 13 0.15
31 19 0.22
32 4 0.05
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (28 bp):
AGGTACCAAATTGGGCCAAAAAAAGTTC
Found at i:23513979 original size:18 final size:19
Alignment explanation
Indices: 23513943--23513979 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23513933 AAAAAATAAT
*
23513943 TCAAAATATTTTTTAAAAA
1 TCAAAATATTTTATAAAAA
23513962 TCAAAATA-TTTATAAAAA
1 TCAAAATATTTTATAAAAA
23513980 AAAATCAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
TCAAAATATTTTATAAAAA
Found at i:23513979 original size:19 final size:19
Alignment explanation
Indices: 23513943--23513980 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23513933 AAAAAATAAT
* *
23513943 TCAAAATATTTTTTAAAAA
1 TCAAAATATTTATAAAAAA
23513962 TCAAAATATTTATAAAAAA
1 TCAAAATATTTATAAAAAA
23513981 AAATCAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TCAAAATATTTATAAAAAA
Found at i:23514036 original size:18 final size:18
Alignment explanation
Indices: 23514013--23514060 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
23514003 TTTAAAAATT
*
23514013 AAAAATTAAAAATTCTAA
1 AAAAATTAAAAATGCTAA
*
23514031 AAAAATTTAAAAATGCTTA
1 AAAAA-TTAAAAATGCTAA
*
23514050 AAAATTTAAAA
1 AAAAATTAAAA
23514061 TAATTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATTAAAAATGCTAA
Found at i:23514040 original size:19 final size:18
Alignment explanation
Indices: 23514013--23514060 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
23514003 TTTAAAAATT
*
23514013 AAAAA-TTAAAAATTCTAA
1 AAAAATTTAAAAATGCT-A
*
23514031 AAAAATTTAAAAATGCTT
1 AAAAATTTAAAAATGCTA
23514049 AAAAATTTAAAA
1 AAAAATTTAAAA
23514061 TAATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATTTAAAAATGCTA
Found at i:23514067 original size:17 final size:18
Alignment explanation
Indices: 23514009--23514069 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
23513999 TATTTTTAAA
23514009 AATTAAAAA-TTAAAAAT
1 AATTAAAAATTTAAAAAT
** *
23514026 TCTAAAAAAATTTAAAAAT
1 AAT-TAAAAATTTAAAAAT
**
23514045 GCTTAAAAATTT-AAAAT
1 AATTAAAAATTTAAAAAT
23514062 AATTAAAA
1 AATTAAAA
23514070 TAATAATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
17 12 0.34
18 13 0.37
19 10 0.29
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (18 bp):
AATTAAAAATTTAAAAAT
Found at i:23518450 original size:2 final size:2
Alignment explanation
Indices: 23518437--23518468 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
23518427 ATCTTAAAAC
23518437 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
23518469 GTATTTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23518610 original size:19 final size:19
Alignment explanation
Indices: 23518573--23518608 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23518563 TATAAAATTA
23518573 TTTAAAATTTTCATAAAAT
1 TTTAAAATTTTCATAAAAT
*
23518592 TTTAAGATTTTC-TAAAA
1 TTTAAAATTTTCATAAAA
23518609 ATATTCTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTAAAATTTTCATAAAAT
Found at i:23523722 original size:30 final size:31
Alignment explanation
Indices: 23523674--23523733 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
23523664 TTGTATAATA
* *
23523674 TCATATATATATCGATTCACTTTTAATAAAAT
1 TCATATATATAACGATTCA-ATTTAATAAAAT
23523706 TCATATA-ATAAC-ATTCAATTTAATAAAA
1 TCATATATATAACGATTCAATTTAATAAAA
23523734 AAATATACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 10 0.38
30 5 0.19
31 4 0.15
32 7 0.27
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (31 bp):
TCATATATATAACGATTCAATTTAATAAAAT
Found at i:23524793 original size:25 final size:25
Alignment explanation
Indices: 23524756--23524833 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
23524746 CACAACACAG
*
23524756 CTCTTATGAGCTTACCGATTTTCAA
1 CTCTTATGAGCTTACCGATTCTCAA
* *
23524781 CTTTTATGAGCTTACCGATTCTCAG
1 CTCTTATGAGCTTACCGATTCTCAA
* * *
23524806 CTCATATGAGCTTACTGATTCACAA
1 CTCTTATGAGCTTACCGATTCTCAA
23524831 CTC
1 CTC
23524834 ATGAAAGCAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (25 bp):
CTCTTATGAGCTTACCGATTCTCAA
Found at i:23528843 original size:34 final size:34
Alignment explanation
Indices: 23528799--23528869 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
23528789 GGTGAACCTC
* *
23528799 TTTTAAGGTGTTGT-TTCGTAGAGCCTGTAGACCA
1 TTTTAAGGTGTCGTCCT-GTAGAGCCTGTAGACCA
* * *
23528833 TTTTATGGTGTCGTCCTGTAGATCCTGTAGATCA
1 TTTTAAGGTGTCGTCCTGTAGAGCCTGTAGACCA
23528867 TTT
1 TTT
23528870 CCAACCAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.42
Consensus pattern (34 bp):
TTTTAAGGTGTCGTCCTGTAGAGCCTGTAGACCA
Found at i:23535694 original size:26 final size:26
Alignment explanation
Indices: 23535665--23535720 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
23535655 TGATACAAAT
23535665 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23535691 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23535717 TGAT
1 TGAT
23535721 TGGAATTTCA
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:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23537008 original size:18 final size:18
Alignment explanation
Indices: 23536969--23537101 Score: 182
Period size: 18 Copynumber: 7.5 Consensus size: 18
23536959 AATGATATGT
23536969 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
23536986 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
23537004 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* * *
23537021 AATCGTAGTTATGATTGC
1 AATCTTAGATATGATTAC
23537039 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
23537056 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
23537074 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
23537093 AATCTTAGA
1 AATCTTAGA
23537102 AGATATGATT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
17 43 0.43
18 46 0.46
19 11 0.11
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:23537009 original size:35 final size:35
Alignment explanation
Indices: 23536960--23537101 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
23536950 ATAATCTTCA
* *
23536960 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
* *
23536996 ATGATTGCAATCTTAGATATGATACAATCGTAGTT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
23537031 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
23537066 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
23537102 AGATATGATT
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
35 80 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:23537600 original size:18 final size:17
Alignment explanation
Indices: 23537576--23537635 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
23537566 CCATTATATT
23537576 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
23537593 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
23537609 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
23537627 TTATATTTT
1 TTATATTTT
23537636 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:23537620 original size:15 final size:16
Alignment explanation
Indices: 23537577--23537635 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
23537567 CATTATATTT
23537577 TATATTTTTTATATAA
1 TATATTTTTTATATAA
23537593 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
23537609 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
23537627 TTATATTTT
1 -TATATTTT
23537636 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:23537660 original size:26 final size:26
Alignment explanation
Indices: 23537612--23537661 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
23537602 TTATAAATAT
* * * *
23537612 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
23537638 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
23537662 TTTATGCTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:23552036 original size:85 final size:83
Alignment explanation
Indices: 23551929--23552182 Score: 321
Period size: 85 Copynumber: 3.0 Consensus size: 83
23551919 AGATAAAAAC
* *
23551929 ATTTGCAGTTACTACTACTTGTTGTGAGTGCACAACATGGTTGTAGATTAAACAAACTGCCATTG
1 ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACAT-ATTG-AGATTAAACAAACTGCCATTG
23551994 GGTTTATGGACGAGCCACAT
64 GGTTTATGGACGAGCCACAT
* * * * *
23552014 ATTTGCAGTTGCTACCACTTGTTGTGAGTGCACAACATATTCGCGTATTAAACAAACTGTCACTA
1 ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATATT-GAG-ATTAAACAAACTGCCATTG
*
23552079 GGTTTGTGGACGAGCCACAT
64 GGTTTATGGACGAGCCACAT
* * *
23552099 ATTTGAAGTTACTACCACTTATTGTGAGTGCACAACATATTTGCACATTAAACAAA-TAGCCATT
1 ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATA-TTG-AGATTAAACAAACT-GCCATT
*
23552163 GGGTTTTATGGATGAGCCAC
63 GGG-TTTATGGACGAGCCAC
23552183 CACTTGTTTG
Statistics
Matches: 145, Mismatches: 18, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
84 4 0.03
85 125 0.86
86 16 0.11
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (83 bp):
ATTTGCAGTTACTACCACTTGTTGTGAGTGCACAACATATTGAGATTAAACAAACTGCCATTGGG
TTTATGGACGAGCCACAT
Found at i:23554047 original size:26 final size:26
Alignment explanation
Indices: 23554011--23554120 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
23554001 TGATACAAAT
23554011 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23554037 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
23554063 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
23554089 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
23554115 TGATAA
1 TGATAA
23554121 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:23555770 original size:27 final size:27
Alignment explanation
Indices: 23555729--23555841 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
23555719 GAGGAAGCGT
*
23555729 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
23555756 TCTGATGGCTCTGCCACATATATCT-A
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
23555782 TTCTGGTGGCTCTGCCACGATTATCTGTA
1 -TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
23555811 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
23555837 TCTGG
1 TCTGG
23555842 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 15 0.21
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:23555834 original size:54 final size:54
Alignment explanation
Indices: 23555728--23555841 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
23555718 GGAGGAAGCG
*
23555728 TTCTGGTGGCTATGCCACAAATATCTGATCTGATGGCTCTGCCACATATATCTA
1 TTCTGGTGGCTATGCCACAAATATCTGATCTGATGACTCTGCCACATATATCTA
* * * * * *
23555782 TTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTG
1 TTCTGGTGGCTATGCCACAAATATCTG-ATCTGATGACTCTGCCACATATATCTA
23555836 TTCTGG
1 TTCTGG
23555842 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTATGCCACAAATATCTGATCTGATGACTCTGCCACATATATCTA
Found at i:23557686 original size:41 final size:40
Alignment explanation
Indices: 23557625--23557815 Score: 267
Period size: 41 Copynumber: 4.7 Consensus size: 40
23557615 ATACATTAGT
*
23557625 GGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGT
1 GGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGC
23557665 GGCGTTTTTTGGTAAAACGCCGCTAAAAA-AGAGCAATAGC
1 GGCG-TTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGC
*
23557705 GGCGTTTTTGGTCAAACGCCGCTAAAAAACAGAGCAATAGC
1 GGCGTTTTTGGTAAAACGCCGCT-AAAAACAGAGCAATAGC
* * *
23557746 GGCATTTTTGGTCAAACGCCGCTAAAAAACAAAGCAATAGC
1 GGCGTTTTTGGTAAAACGCCGCT-AAAAACAGAGCAATAGC
* * *
23557787 GGCATTTTTGCTCAAAACGCCGCAAAAAA
1 GGCGTTTTTGGT-AAAACGCCGCTAAAAA
23557816 GTCATATAAC
Statistics
Matches: 140, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
39 18 0.13
40 23 0.16
41 90 0.64
42 9 0.06
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (40 bp):
GGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGC
Found at i:23557722 original size:80 final size:81
Alignment explanation
Indices: 23557625--23557815 Score: 269
Period size: 80 Copynumber: 2.3 Consensus size: 81
23557615 ATACATTAGT
* * *
23557625 GGCGTTTTTGGTAAAACGCCGCTAAAAACAGAGCAATAGTGGCGTTTTTTGGTAAAACGCCGCT-
1 GGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAATAGCGGC-ATTTTTGGTAAAACGCCGCTA
*
23557689 AAAAA-AGAGCAATAGC
65 AAAAACAAAGCAATAGC
*
23557705 GGCGTTTTTGGTCAAACGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGTCAAACGCCGCTA
1 GGCGTTTTTGGTCAAACGCCGCT-AAAAACAGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTA
23557770 AAAAACAAAGCAATAGC
65 AAAAACAAAGCAATAGC
* * *
23557787 GGCATTTTTGCTCAAAACGCCGCAAAAAA
1 GGCGTTTTTGGTC-AAACGCCGCTAAAAA
23557816 GTCATATAAC
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
80 40 0.40
81 24 0.24
82 26 0.26
83 9 0.09
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (81 bp):
GGCGTTTTTGGTCAAACGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGTAAAACGCCGCTAA
AAAACAAAGCAATAGC
Found at i:23557851 original size:18 final size:18
Alignment explanation
Indices: 23557830--23557864 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23557820 TATAACCCCT
* *
23557830 AAAATCCTAAACTCTAAA
1 AAAATACTAAACACTAAA
23557848 AAAATACTAAACACTAA
1 AAAATACTAAACACTAA
23557865 TCTATAACCC
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:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATACTAAACACTAAA
Found at i:23557944 original size:47 final size:47
Alignment explanation
Indices: 23557820--23557945 Score: 207
Period size: 48 Copynumber: 2.7 Consensus size: 47
23557810 AAAAAAGTCA
* *
23557820 TATAACCCCTAAAATCCTAAACTCTAAAAAAATACTAAACACTAATC
1 TATAACCCCTAAAACCCTAAACCCTAAAAAAATACTAAACACTAATC
*
23557867 TATAACCCCTAAAACCTCTAAACCTTAAAAAAATACTAAACACTAATC
1 TATAACCCCTAAAACC-CTAAACCCTAAAAAAATACTAAACACTAATC
*
23557915 TATAACCCCTAAAACCCTAAACCCCAAAAAA
1 TATAACCCCTAAAACCCTAAACCCTAAAAAA
23557946 CATCATATGG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
47 28 0.38
48 45 0.62
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.21
Consensus pattern (47 bp):
TATAACCCCTAAAACCCTAAACCCTAAAAAAATACTAAACACTAATC
Found at i:23558076 original size:7 final size:7
Alignment explanation
Indices: 23558050--23558098 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
23558040 TTTATTTTTG
*
23558050 GGTTTAG
1 GGTTTAA
23558057 GGTTTAA
1 GGTTTAA
**
23558064 TATTTAA
1 GGTTTAA
23558071 GGTTTAA
1 GGTTTAA
* *
23558078 GGTCTAT
1 GGTTTAA
23558085 GGTTTAA
1 GGTTTAA
23558092 GGTTTAA
1 GGTTTAA
23558099 TGGCCATGGG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:23558107 original size:21 final size:21
Alignment explanation
Indices: 23558066--23558107 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23558056 GGGTTTAATA
*
23558066 TTTAAGGTTTAAGGTCTATGG
1 TTTAAGGTTTAAGGTCCATGG
23558087 TTTAAGGTTTAATGG-CCATGG
1 TTTAAGGTTTAA-GGTCCATGG
23558108 GTAGTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.40
Consensus pattern (21 bp):
TTTAAGGTTTAAGGTCCATGG
Found at i:23558436 original size:7 final size:7
Alignment explanation
Indices: 23558403--23558472 Score: 52
Period size: 7 Copynumber: 9.9 Consensus size: 7
23558393 AGGGGTAGAA
23558403 GTTTAGG
1 GTTTAGG
*
23558410 GTTTATG
1 GTTTAGG
* *
23558417 TTTTATG
1 GTTTAGG
*
23558424 GCTTAGG
1 GTTTAGG
23558431 GTTTAGGG
1 GTTTA-GG
*
23558439 GTTAAGG
1 GTTTAGG
23558446 G-TTAGG
1 GTTTAGG
*
23558452 GGTTAGG
1 GTTTAGG
*
23558459 ATTTTAGG
1 -GTTTAGG
23558467 GTTTAG
1 GTTTAG
23558473 ATTAATTAGT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
6 5 0.10
7 33 0.67
8 11 0.22
ACGTcount: A:0.17, C:0.01, G:0.39, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:23558450 original size:21 final size:21
Alignment explanation
Indices: 23558377--23558458 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 21
23558367 TGAACGAGGA
*
23558377 TAAGGGTTAGAGGTTAAGGGG-
1 TAAGGGTTAG-GGTTTAGGGGT
* * * **
23558398 TAGAAGTTTAGGGTTTATGTTT
1 TA-AGGGTTAGGGTTTAGGGGT
* *
23558420 TATGGCTTAGGGTTTAGGGGT
1 TAAGGGTTAGGGTTTAGGGGT
*
23558441 TAAGGGTTAGGGGTTAGG
1 TAAGGGTTAGGGTTTAGG
23558459 ATTTTAGGGT
Statistics
Matches: 44, Mismatches: 15, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
21 36 0.82
22 8 0.18
ACGTcount: A:0.22, C:0.01, G:0.41, T:0.35
Consensus pattern (21 bp):
TAAGGGTTAGGGTTTAGGGGT
Found at i:23558577 original size:18 final size:16
Alignment explanation
Indices: 23558537--23558578 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
23558527 AGAGATAATA
23558537 TTAAATT-TAATATAT
1 TTAAATTATAATATAT
*
23558552 TAAAATTATGAATATAGT
1 TTAAATTAT-AATATA-T
23558570 TTAAATTAT
1 TTAAATTAT
23558579 TTAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 6 0.27
18 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (16 bp):
TTAAATTATAATATAT
Found at i:23559067 original size:19 final size:19
Alignment explanation
Indices: 23559043--23559141 Score: 57
Period size: 19 Copynumber: 5.3 Consensus size: 19
23559033 TCGCCCTGTG
23559043 CATCGCAACCCATCCCCTC
1 CATCGCAACCCATCCCCTC
* * *
23559062 CATCGC--CTTC-GCCCCGTG
1 CATCGCAAC-CCATCCCC-TC
*
23559080 CATCGCAACCCATCTCCTC
1 CATCGCAACCCATCCCCTC
* *
23559099 CATCGC--CTTCA-CCCCGTG
1 CATCGCAAC-CCATCCCC-TC
*
23559117 CATCGCAACCCATCTCCTC
1 CATCGCAACCCATCCCCTC
23559136 CATCGC
1 CATCGC
23559142 CTTCACCCCG
Statistics
Matches: 57, Mismatches: 13, Indels: 20
0.63 0.14 0.22
Matches are distributed among these distances:
17 9 0.16
18 17 0.30
19 23 0.40
20 8 0.14
ACGTcount: A:0.16, C:0.53, G:0.11, T:0.20
Consensus pattern (19 bp):
CATCGCAACCCATCCCCTC
Found at i:23559081 original size:37 final size:37
Alignment explanation
Indices: 23559029--23559194 Score: 269
Period size: 37 Copynumber: 4.5 Consensus size: 37
23559019 TTCGTTTGTT
* *
23559029 GCCTTCGCCCTGTGCATCGCAACCCATCCCCTCCATC
1 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
23559066 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
1 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
*
23559103 GCCTTCACCCCGTGCATCGCAACCCATCTCCTCCATC
1 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
* * *
23559140 GCCTTCACCCCGTGCATCGCAATCCATCTCCTCTATC
1 GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
*
23559177 GCCTTCGCCCTGTGCATC
1 GCCTTCGCCCCGTGCATC
23559195 TGCTGCATAG
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 122 1.00
ACGTcount: A:0.14, C:0.49, G:0.13, T:0.23
Consensus pattern (37 bp):
GCCTTCGCCCCGTGCATCGCAACCCATCTCCTCCATC
Done.