Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 308 of 770
Found at i:94175241 original size:94 final size:95
Alignment explanation
Indices: 94175052--94175284 Score: 405
Period size: 94 Copynumber: 2.4 Consensus size: 95
94175042 TTTTACATTA
*
94175052 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGG-C--TAGGCCTCATC
94175117 ACATATACATACACTTTCACATTCACCACATCG
63 ACATATACATACACTTTCACATTCACCACATCG
*
94175150 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGG-TAGGCCTCATCACA
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCTAGGCCTCATCACA
*
94175214 TATACATACACTTTCACATTCATCACATCG
66 TATACATACACTTTCACATTCACCACATCG
94175244 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCA
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCA
94175285 TCGCATTGGC
Statistics
Matches: 131, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
94 82 0.63
98 49 0.37
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (95 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCTAGGCCTCATCACA
TATACATACACTTTCACATTCACCACATCG
Found at i:94175315 original size:94 final size:95
Alignment explanation
Indices: 94175052--94175315 Score: 376
Period size: 94 Copynumber: 2.8 Consensus size: 95
94175042 TTTTACATTA
94175052 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
94175117 ACATATACATACACTTTCACATTCACCACATCG
66 AC--A-ACATACACTTTCACATTCACCACATCG
* *
94175150 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGG----TAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
*
94175211 ACATATACATACACTTTCACATTCATCACATCG
66 AC--A-ACATACACTTTCACATTCACCACATCG
* * * *
94175244 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTGGCCATTCGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
94175309 AC-ACATA
66 ACAACATA
94175316 TATGTATATC
Statistics
Matches: 153, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
94 93 0.61
98 60 0.39
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (95 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
ACAACATACACTTTCACATTCACCACATCG
Found at i:94191119 original size:29 final size:29
Alignment explanation
Indices: 94191087--94191164 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
94191077 TGAACACGAC
*
94191087 TATAAATGTGAATTGGGCCTGATGGACCA
1 TATAAATGTGAATTGGGCCTAATGGACCA
* *
94191116 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGAATTGGGCCTAATGGACCA
94191145 TATAAATGTG-ATTGGGCCTA
1 TATAAATGTGAATTGGGCCTA
94191165 GTGGGCTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 9 0.20
29 36 0.80
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTAATGGACCA
Found at i:94191169 original size:28 final size:28
Alignment explanation
Indices: 94191087--94191176 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
94191077 TGAACACGAC
*
94191087 TATAAATGTGAATTGGGCCT-GATGGACCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
94191116 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
*
94191145 TATAAATGTGATTGGGCCTAGTGGGCTA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
94191173 TATA
1 TATA
94191177 CAGGCATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:94192740 original size:45 final size:44
Alignment explanation
Indices: 94192666--94192750 Score: 143
Period size: 45 Copynumber: 1.9 Consensus size: 44
94192656 CATCGATCCG
*
94192666 TCTTTCTTCTTAACAAGCAAGACTGGTGCTTCCCATGGAGACACA
1 TCTTTCTTCTTAACAAGCAAGACTAGTGC-TCCCATGGAGACACA
*
94192711 TCTTTCTTCTTAACAAGCAGGACTAGTGCTCCCATGGAGA
1 TCTTTCTTCTTAACAAGCAAGACTAGTGCTCCCATGGAGA
94192751 TACACTCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 11 0.29
45 27 0.71
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
TCTTTCTTCTTAACAAGCAAGACTAGTGCTCCCATGGAGACACA
Found at i:94201870 original size:2 final size:2
Alignment explanation
Indices: 94201863--94201893 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
94201853 GAGACTAGTC
94201863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94201894 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94203925 original size:30 final size:30
Alignment explanation
Indices: 94203891--94203951 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
94203881 TCATTAACTC
94203891 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
94203921 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
94203951 A
1 A
94203952 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:94206217 original size:11 final size:11
Alignment explanation
Indices: 94206196--94206229 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
94206186 TTGGGAGTTC
94206196 TTTCAAGAAGAA
1 TTTC-AGAAGAA
94206208 TTTCAGAAGAA
1 TTTCAGAAGAA
*
94206219 ATTCAGAAGAA
1 TTTCAGAAGAA
94206230 ATACATCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.24
Consensus pattern (11 bp):
TTTCAGAAGAA
Found at i:94206238 original size:14 final size:11
Alignment explanation
Indices: 94206201--94206231 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
94206191 AGTTCTTTCA
*
94206201 AGAAGAATTTC
1 AGAAGAAATTC
94206212 AGAAGAAATTC
1 AGAAGAAATTC
94206223 AGAAGAAAT
1 AGAAGAAAT
94206232 ACATCAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (11 bp):
AGAAGAAATTC
Found at i:94214893 original size:21 final size:24
Alignment explanation
Indices: 94214860--94214912 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
94214850 CCATTTTTAT
* *
94214860 TTTTATTGCAA-TT-TAA-TTTTG
1 TTTTATTTCAATTTCTAACTTTTC
*
94214881 TTTTATTTTAATTTCTAACTTTTC
1 TTTTATTTCAATTTCTAACTTTTC
94214905 TTTTATTT
1 TTTTATTT
94214913 ACTTCTGGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 9 0.35
22 2 0.08
23 3 0.12
24 12 0.46
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.68
Consensus pattern (24 bp):
TTTTATTTCAATTTCTAACTTTTC
Found at i:94220019 original size:36 final size:36
Alignment explanation
Indices: 94219972--94220044 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
94219962 ACGATTATAC
94219972 AAGGTAGCAACGAAGCGCCACCATGATGCTCGTTTA
1 AAGGTAGCAACGAAGCGCCACCATGATGCTCGTTTA
*
94220008 AAGGTAGCAACGAAGCGCCGCCATGATGCTCGTTTA
1 AAGGTAGCAACGAAGCGCCACCATGATGCTCGTTTA
94220044 A
1 A
94220045 CACAAGCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (36 bp):
AAGGTAGCAACGAAGCGCCACCATGATGCTCGTTTA
Found at i:94220053 original size:36 final size:36
Alignment explanation
Indices: 94219977--94220053 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
94219967 TATACAAGGT
**
94219977 AGCAACGAAGCGCCACCATGATGCTCGTTTAAAGGT
1 AGCAACGAAGCGCCACCATGATGCTCGTTTAAAGCA
*
94220013 AGCAACGAAGCGCCGCCATGATGCTCGTTTAACA-CA
1 AGCAACGAAGCGCCACCATGATGCTCGTTTAA-AGCA
94220049 AGCAA
1 AGCAA
94220054 TTTGAAGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 36 0.97
37 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.17
Consensus pattern (36 bp):
AGCAACGAAGCGCCACCATGATGCTCGTTTAAAGCA
Found at i:94222176 original size:40 final size:40
Alignment explanation
Indices: 94222091--94222241 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
94222081 AATTGAATGA
* * *
94222091 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
94222131 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
94222172 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
94222211 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
94222242 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:94222255 original size:40 final size:40
Alignment explanation
Indices: 94222128--94222257 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
94222118 ATGCTGGAAA
* * * *
94222128 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
94222168 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
94222208 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
94222248 TTATATCCGG
1 TTATATCCGG
94222258 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:94224518 original size:28 final size:27
Alignment explanation
Indices: 94224437--94224533 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 27
94224427 CTTCATCCAG
*
94224437 CTACTTCTCCTTCTCTA-TTTTTCTTT
1 CTACTTCTCCTTCTCCATTTTTTCTTT
* *
94224463 C-CCGTT-T-CTTTTCCATTTCTCTTCTTT
1 CTAC-TTCTCCTTCTCCATTT-T-TTCTTT
94224490 CTTACTTCTCCTTCTCCATTTTTTCTTT
1 C-TACTTCTCCTTCTCCATTTTTTCTTT
94224518 CCTACTTCTCCTTCTC
1 -CTACTTCTCCTTCTC
94224534 TATTCCTCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
24 6 0.11
25 4 0.07
26 4 0.07
27 7 0.12
28 22 0.39
29 4 0.07
30 10 0.18
ACGTcount: A:0.06, C:0.35, G:0.01, T:0.58
Consensus pattern (27 bp):
CTACTTCTCCTTCTCCATTTTTTCTTT
Found at i:94226271 original size:17 final size:17
Alignment explanation
Indices: 94226241--94226287 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
94226231 TTATTTTTAC
**
94226241 TTTATTTTGCTTTTCCT
1 TTTATTTTTATTTTCCT
* *
94226258 TTTGTTTTTATTTTTCT
1 TTTATTTTTATTTTCCT
94226275 TTTATTTTTATTT
1 TTTATTTTTATTT
94226288 CTATTTCCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTCCT
Found at i:94226283 original size:11 final size:11
Alignment explanation
Indices: 94226230--94226293 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
94226220 TTTGAGTCCA
94226230 TTTATTTTTAC-
1 TTTATTTTT-CT
*
94226241 TTTATTTTGCT
1 TTTATTTTTCT
*
94226252 TTTCCTTTTGT-T
1 TTT-ATTTT-TCT
94226264 TTTATTTTTCT
1 TTTATTTTTCT
*
94226275 TTTATTTTTAT
1 TTTATTTTTCT
94226286 TTCTATTT
1 TT-TATTT
94226294 CCATTTTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 2 0.05
11 28 0.65
12 13 0.30
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTATTTTTCT
Found at i:94226283 original size:23 final size:23
Alignment explanation
Indices: 94226241--94226293 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
94226231 TTATTTTTAC
* *
94226241 TTTATTTTGCTTTTCCTTTTGTT
1 TTTATTTTGCTTTTACTTTTATT
* *
94226264 TTTATTTTTCTTTTATTTTTATT
1 TTTATTTTGCTTTTACTTTTATT
*
94226287 TCTATTT
1 TTTATTT
94226294 CCATTTTTCA
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:0.09, C:0.09, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTATTTTGCTTTTACTTTTATT
Found at i:94234850 original size:23 final size:23
Alignment explanation
Indices: 94234823--94234869 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
94234813 TACAAAAGCT
94234823 TAACCATTGAACCAGCAAGCTCA
1 TAACCATTGAACCAGCAAGCTCA
94234846 TAACCATTGAACCAGCAAGCTCA
1 TAACCATTGAACCAGCAAGCTCA
94234869 T
1 T
94234870 TCTTAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (23 bp):
TAACCATTGAACCAGCAAGCTCA
Found at i:94241006 original size:31 final size:31
Alignment explanation
Indices: 94240971--94241035 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
94240961 GAAACAAGGA
* *
94240971 CAAGTTAGAAGGAATTGAAACTTCATTATTC
1 CAAGTCAGAAGAAATTGAAACTTCATTATTC
*
94241002 CAAGTCAGAAGAAATTGAAACTTCATTTTTC
1 CAAGTCAGAAGAAATTGAAACTTCATTATTC
94241033 CAA
1 CAA
94241036 AAATAGAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (31 bp):
CAAGTCAGAAGAAATTGAAACTTCATTATTC
Found at i:94242365 original size:8 final size:8
Alignment explanation
Indices: 94242323--94242363 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
94242313 TGTTTTTTGA
94242323 TTTC-TTT
1 TTTCTTTT
94242330 TTTCTTTT
1 TTTCTTTT
94242338 TTTCTTTT
1 TTTCTTTT
* *
94242346 TCTGTTTT
1 TTTCTTTT
94242354 TTT-TTTT
1 TTTCTTTT
94242361 TTT
1 TTT
94242364 TTGAGCGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (8 bp):
TTTCTTTT
Found at i:94245132 original size:13 final size:12
Alignment explanation
Indices: 94245114--94245150 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
94245104 TATTAATAGC
94245114 TTCTTCTTTTCTT
1 TTCTTCTTTT-TT
94245127 TTCTTCTTTTTT
1 TTCTTCTTTTTT
94245139 TT-TT-TTTTTT
1 TTCTTCTTTTTT
94245149 TT
1 TT
94245151 TGCCTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 4 0.17
13 10 0.42
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTCTTCTTTTTT
Found at i:94245951 original size:20 final size:20
Alignment explanation
Indices: 94245913--94245951 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94245903 TGATCTTAAT
*
94245913 ATAATTTATTTTCTCATAAA
1 ATAATTTATTTTCTAATAAA
*
94245933 ATAATTTATTTTTTAATAA
1 ATAATTTATTTTCTAATAA
94245952 TTTTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTTATTTTCTAATAAA
Found at i:94248239 original size:31 final size:29
Alignment explanation
Indices: 94248204--94248278 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
94248194 AATGGCTCAA
*
94248204 TGACTAAAATGTTACAATATAATAACATAAG
1 TGACTAAAATGTAAC-ATATAA-AACATAAG
* * * *
94248235 TGACTAAAATATAACATTTCAAACATGAG
1 TGACTAAAATGTAACATATAAAACATAAG
94248264 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
94248279 TTGAGGTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 21 0.55
30 4 0.11
31 13 0.34
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (29 bp):
TGACTAAAATGTAACATATAAAACATAAG
Found at i:94252272 original size:9 final size:9
Alignment explanation
Indices: 94252255--94252291 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
94252245 TGAGTTTTCG
94252255 AATTCGAAT
1 AATTCGAAT
*
94252264 AACTCGAAT
1 AATTCGAAT
*
94252273 AATTCAAAT
1 AATTCGAAT
94252282 AATTCGAAT
1 AATTCGAAT
94252291 A
1 A
94252292 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:94252365 original size:29 final size:30
Alignment explanation
Indices: 94252333--94252399 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
94252323 AACTTCTAAA
*
94252333 CCTTTCTACTTTC-CCTCAAAACTTTTACT-
1 CCTTTCCACTTTCTCC-CAAAACTTTTACTC
*
94252362 CCTTCCCACTTTCTCCCAAAACTTTTACTC
1 CCTTTCCACTTTCTCCCAAAACTTTTACTC
94252392 CCTTTCCA
1 CCTTTCCA
94252400 TCCCAACCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 24 0.73
30 9 0.27
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.40
Consensus pattern (30 bp):
CCTTTCCACTTTCTCCCAAAACTTTTACTC
Found at i:94252544 original size:30 final size:30
Alignment explanation
Indices: 94252502--94252560 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
94252492 AACTTTTTAT
*
94252502 TTTCCTCCAAAATTTTTAC-TCCCTCCCAC
1 TTTCCCCCAAAATTTTTACTTCCCTCCCAC
*
94252531 TTTCCCCCTAAAATTTTTACTTCCTTCCCA
1 TTTCCCCC-AAAATTTTTACTTCCCTCCCA
94252561 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 7 0.27
30 11 0.42
31 8 0.31
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTCCCCCAAAATTTTTACTTCCCTCCCAC
Found at i:94259868 original size:15 final size:15
Alignment explanation
Indices: 94259840--94259878 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
94259830 AACAATAATT
*
94259840 AAAATAAATTATTTAA
1 AAAATAAA-AATTTAA
*
94259856 AAATTAAAAATTTAA
1 AAAATAAAAATTTAA
94259871 AAAATAAA
1 AAAATAAA
94259879 TTTACATGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAAAAATTTAA
Found at i:94260586 original size:5 final size:5
Alignment explanation
Indices: 94260576--94260651 Score: 152
Period size: 5 Copynumber: 15.2 Consensus size: 5
94260566 TATAGAATCA
94260576 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
94260626 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
94260652 ATGTTTTAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 71 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:94264184 original size:21 final size:21
Alignment explanation
Indices: 94264144--94264184 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
94264134 ATATGGATTC
*
94264144 TTGAAATGAAAATGTGTGATG
1 TTGAAATGAAAATGTATGATG
94264165 TTGAAA-GAAAATGATATGAT
1 TTGAAATGAAAATG-TATGAT
94264185 TGAGTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (21 bp):
TTGAAATGAAAATGTATGATG
Found at i:94267256 original size:53 final size:53
Alignment explanation
Indices: 94267115--94267265 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
94267105 ACAAGTGTGC
* **
94267115 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
94267168 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
94267221 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
94267266 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:94278919 original size:2 final size:2
Alignment explanation
Indices: 94278907--94278953 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
94278897 CACTTTCAAA
94278907 AT AT A- AT AT 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 AT AT AT AT AT
94278948 AT AT AT
1 AT AT AT
94278954 TCGACTTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94287765 original size:30 final size:28
Alignment explanation
Indices: 94287725--94287825 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
94287715 GACAAGATTG
* * *
94287725 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
94287755 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
94287783 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
94287812 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
94287826 GATTCAGTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:94287789 original size:28 final size:29
Alignment explanation
Indices: 94287754--94287825 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
94287744 AAAATTGTAC
*
94287754 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
94287782 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
94287811 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
94287826 GATTCAGTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:94295751 original size:30 final size:28
Alignment explanation
Indices: 94295711--94295811 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
94295701 GACAAGATTG
* * *
94295711 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
94295741 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
94295769 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
94295798 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
94295812 GAGATTGGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:94295775 original size:28 final size:29
Alignment explanation
Indices: 94295740--94295811 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
94295730 AAAATTGTAC
*
94295740 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
94295768 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
94295797 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
94295812 GAGATTGGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:94304291 original size:40 final size:40
Alignment explanation
Indices: 94304246--94304413 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
94304236 CGGAATATAA
94304246 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
94304286 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
94304326 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
94304366 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
94304406 CCGGATAT
1 CCGGATAT
94304414 TATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:94311582 original size:40 final size:40
Alignment explanation
Indices: 94311527--94311744 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
94311517 TGGATGATAA
* *
94311527 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTA-TAT
94311567 CCGGGCTAAGTCCCGAAGGCATTTGTC-CGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTG-CGCGAGTTACTATAT
*
94311607 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
*
94311647 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * * *
94311687 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTA-CTATAT
* *
94311727 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
94311745 TACTTGGCTT
Statistics
Matches: 164, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
Found at i:94318865 original size:29 final size:29
Alignment explanation
Indices: 94318799--94318907 Score: 125
Period size: 29 Copynumber: 3.8 Consensus size: 29
94318789 AATTTCACAT
* * *
94318799 ACCTGTATCTGGCCCATTAAGCCC-AATC
1 ACCTATATATGGCCCATTAGGCCCAAATC
94318827 A--TATTCATATGGCCCATTAGGCCCAAATC
1 ACCTA-T-ATATGGCCCATTAGGCCCAAATC
94318856 ACCTATATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAGGCCCAAATC
* * *
94318885 ACATTTATATGGCCCGTTAGGCC
1 ACCTATATATGGCCCATTAGGCC
94318908 TAGTTACATT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 17 0.24
29 48 0.69
30 1 0.01
31 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
ACCTATATATGGCCCATTAGGCCCAAATC
Found at i:94318880 original size:57 final size:58
Alignment explanation
Indices: 94318799--94318907 Score: 157
Period size: 58 Copynumber: 1.9 Consensus size: 58
94318789 AATTTCACAT
* * *
94318799 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
94318856 ACCTATATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
94318908 TAGTTACATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:94326756 original size:24 final size:23
Alignment explanation
Indices: 94326727--94326775 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
94326717 TCAACTTCTT
94326727 ATAATTACAATGAAAATAACAATA
1 ATAATTACAATGAAAATAAC-ATA
* * *
94326751 ATAATTCCAATTATAATAACATA
1 ATAATTACAATGAAAATAACATA
94326774 AT
1 AT
94326776 GGAAACCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (23 bp):
ATAATTACAATGAAAATAACATA
Found at i:94327671 original size:28 final size:29
Alignment explanation
Indices: 94327639--94327752 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
94327629 TACCTTTATC
*
94327639 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
94327667 TGGCCCATTAGGCCCAAATCACT-TAT-ATA
1 TGGCCCATTAGGCCCAAATCA-TAT-TCATA
* * *
94327696 TGGTCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
** *
94327725 TGGCCTGTTAGGCCC-AGTCATATTCATA
1 TGGCCCATTAGGCCCAAATCATATTCATA
94327753 ATCATGCTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
28 25 0.35
29 45 0.62
30 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCATATTCATA
Found at i:94327993 original size:17 final size:17
Alignment explanation
Indices: 94327971--94328007 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
94327961 AACTTTTAGC
94327971 TTTTCGACATTTCAGCT
1 TTTTCGACATTTCAGCT
*
94327988 TTTTCGGCATTTCAGCT
1 TTTTCGACATTTCAGCT
94328005 TTT
1 TTT
94328008 GCCGATACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (17 bp):
TTTTCGACATTTCAGCT
Found at i:94331465 original size:40 final size:40
Alignment explanation
Indices: 94331404--94331668 Score: 281
Period size: 40 Copynumber: 6.7 Consensus size: 40
94331394 CGAATATAAC
* * * *
94331404 CACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* * **
94331443 CACTAGCACAAATGTCTTCGGGTTTTAGCCCGG-ATATAG-
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* *
94331482 CAACTCCCACAAATGCCTTCGGGACTTAGCCCAGAATTAGT
1 C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * *
94331523 AACTCGCACCAATGCCTTCGGGACTTGGCCCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
*
94331563 -ATCTCGCACAATTGCCTTCGGGACTTAGCCCGG-ATGTAGT
1 CA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* *
94331603 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
94331643 CACTAGCACAAATGTCTTCGGGACTT
1 CACTCGCACAAATGCCTTCGGGACTT
94331669 GACCCCGTTA
Statistics
Matches: 193, Mismatches: 25, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
39 12 0.06
40 176 0.91
41 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:94331591 original size:120 final size:120
Alignment explanation
Indices: 94331448--94331669 Score: 327
Period size: 120 Copynumber: 1.9 Consensus size: 120
94331438 ATGGTCACTA
* **
94331448 GCACAAATGTCTTCGGGTTTTAGCCCGGATATAGCAACTCCCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCCCACAAATGCCTTCGGGACTTAGCC
* * *
94331513 CAGAATTAGTAACTCGCACCAATGCCTTCGGGACTTGGCCCGGAATTAGTATCTC
66 CAGAATTAATAACTAGCACAAATGCCTTCGGGACTTGGCCCGGAATTAGTATCTC
* * * *
94331568 GCACAATTGCCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCCCACAAATGCCTTCGGGACTTAGCC
* * *
94331633 CGGAATTAATCACTAGCACAAATGTCTTCGGGACTTG
66 CAGAATTAATAACTAGCACAAATGCCTTCGGGACTTG
94331670 ACCCCGTTAG
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 89 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGCAACTCCCACAAATGCCTTCGGGACTTAGCC
CAGAATTAATAACTAGCACAAATGCCTTCGGGACTTGGCCCGGAATTAGTATCTC
Found at i:94338975 original size:40 final size:40
Alignment explanation
Indices: 94338901--94339165 Score: 272
Period size: 40 Copynumber: 6.7 Consensus size: 40
94338891 TGGATATAAC
* * * * *
94338901 CACTCGCAC-AAGGCCGTCGGGTCTTAGCCTGG-ATATGGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* * *
94338940 CACTAGCACAAATGTCTTCGGGTCTTAGCCCGG-ATATAG-
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
*
94338979 CAACTCGCACAAATGCCTTCGGGACTTAGCTCGGAATTAGT
1 C-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* * * *
94339020 AACTCGCACCAATACCTTCGGGACTTGGCCCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
94339060 -ATCTCGCATAATTGCCTTCGGGACTTAGCCCGG-ATGTAGT
1 CA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
* *
94339100 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
94339140 CACTAGCACAAATGTCTTCGGGACTT
1 CACTCGCACAAATGCCTTCGGGACTT
94339166 GACCCCGTTA
Statistics
Matches: 192, Mismatches: 26, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
39 12 0.06
40 175 0.91
41 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:94353291 original size:29 final size:29
Alignment explanation
Indices: 94353228--94353372 Score: 204
Period size: 29 Copynumber: 5.1 Consensus size: 29
94353218 TTCACATACC
* * *
94353228 TTTATCTGGCCCATTAAGCCC-AATCATA
1 TTTATATGGCCCATTAGGCCCAAATCACA
* *
94353256 TTCATATGGCCCATTAGGCCCAAATCACC
1 TTTATATGGCCCATTAGGCCCAAATCACA
* *
94353285 TGTATATGGTCCATTAGGCCCAAATCACA
1 TTTATATGGCCCATTAGGCCCAAATCACA
94353314 TTTATATGGCCCATTAGGCCCAAATCACA
1 TTTATATGGCCCATTAGGCCCAAATCACA
*
94353343 TTTATATGGCCCATTAGGCCC-AGTCACA
1 TTTATATGGCCCATTAGGCCCAAATCACA
94353371 TT
1 TT
94353373 CATAATCATG
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 26 0.25
29 78 0.75
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
TTTATATGGCCCATTAGGCCCAAATCACA
Found at i:94359105 original size:51 final size:51
Alignment explanation
Indices: 94359025--94359124 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
94359015 TGGATGTGTG
* *
94359025 CATCCGAGTTCGTTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAA
1 CATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAA
* * * *
94359076 CATCCGAGCTCATTGA-TAGGTCTGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAGCTCATTGAGT-GGTCCGAGTTCATAATGGATGCGATACATGT
94359125 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (51 bp):
CATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGATACATGTAA
Found at i:94361954 original size:23 final size:23
Alignment explanation
Indices: 94361928--94361979 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
94361918 TTTACTTTAT
94361928 TTTTATCGTTT-TTTTAAAACTA
1 TTTTATCGTTTCTTTTAAAACTA
** *
94361950 CTTTT-TTTTTTCTTTTAATACTA
1 -TTTTATCGTTTCTTTTAAAACTA
94361973 TTTTATC
1 TTTTATC
94361980 TTGAGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.21, C:0.12, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATCGTTTCTTTTAAAACTA
Found at i:94363858 original size:13 final size:13
Alignment explanation
Indices: 94363840--94363880 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
94363830 CTGGACTTCC
*
94363840 TCACACGGGTGTG
1 TCACACGGGAGTG
*
94363853 TCACACAGGAGTG
1 TCACACGGGAGTG
94363866 TCACACGGGAGTG
1 TCACACGGGAGTG
94363879 TC
1 TC
94363881 CCTTTGGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (13 bp):
TCACACGGGAGTG
Found at i:94377337 original size:27 final size:27
Alignment explanation
Indices: 94377269--94377339 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
94377259 CGACTTGTAA
* *
94377269 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
94377296 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
94377323 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
94377340 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:94377346 original size:27 final size:27
Alignment explanation
Indices: 94377323--94377446 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
94377313 CAATTTACAG
94377323 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
94377350 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
94377377 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
94377404 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
94377431 AATTACTAAAATACCC
1 AATTACCAAAATACCC
94377447 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:94377365 original size:54 final size:53
Alignment explanation
Indices: 94377307--94377446 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
94377297 ATTACCGTTT
94377307 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
94377361 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
94377415 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
94377447 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:94377458 original size:81 final size:81
Alignment explanation
Indices: 94377323--94377475 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
94377313 CAATTTACAG
* **
94377323 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
94377388 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
94377404 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
94377467 AATACCCTT
64 AATACCCTT
94377476 GTGGGTAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:94377459 original size:27 final size:26
Alignment explanation
Indices: 94377347--94377489 Score: 115
Period size: 27 Copynumber: 5.3 Consensus size: 26
94377337 CCTTGGTTTA
* * **
94377347 TAAAATCACCAAAATACCCCTGGTTTG
1 TAAAATTACTAAAATACCCCT-GTGGG
* ***
94377374 TAAAATTACTAAAATACCCTTTGTTTA
1 TAAAATTACTAAAATACCC-CTGTGGG
* * **
94377401 TAAAATTACCAAAATACCCATGGTTTG
1 TAAAATTACTAAAATACCCCT-GTGGG
*
94377428 AAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACTAAAATACCCCTGT-GGG
* *
94377455 TAAAATTACTGAAATACCCTTGTGGG
1 TAAAATTACTAAAATACCCCTGTGGG
94377481 TAAAATTAC
1 TAAAATTAC
94377490 CATTTTGCCC
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.15
27 82 0.84
28 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (26 bp):
TAAAATTACTAAAATACCCCTGTGGG
Found at i:94377459 original size:54 final size:54
Alignment explanation
Indices: 94377323--94377473 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
94377313 CAATTTACAG
* ** * * *
94377323 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
94377377 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
94377431 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
94377474 TTGTGGGTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:94378143 original size:28 final size:28
Alignment explanation
Indices: 94378110--94378206 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
94378100 GCGTAGATCA
94378110 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
94378138 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
94378166 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
94378194 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
94378207 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:94381486 original size:27 final size:27
Alignment explanation
Indices: 94381418--94381488 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
94381408 CGACTTGTAA
* *
94381418 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
94381445 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
94381472 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
94381489 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:94381495 original size:27 final size:27
Alignment explanation
Indices: 94381472--94381595 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
94381462 CAATTTACAG
94381472 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
94381499 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
94381526 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
94381553 AATTACCAAAATACCCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
94381580 AATTACTAAAATACCC
1 AATTACCAAAATACCC
94381596 CTGTAGGGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:94381514 original size:54 final size:53
Alignment explanation
Indices: 94381456--94381595 Score: 138
Period size: 54 Copynumber: 2.6 Consensus size: 53
94381446 ATTACCGTTT
94381456 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
94381510 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * *
94381564 TACCCATGGTTTGAAAAATTACTAAAATACCC
1 TACCC-TCAATTGTAAAATTACCAAAATACCC
94381596 CTGTAGGGTA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
53 3 0.04
54 64 0.84
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:94381607 original size:81 final size:81
Alignment explanation
Indices: 94381472--94381624 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
94381462 CAATTTACAG
* **
94381472 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
94381537 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
94381553 AATTACCAAAATACCCATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCCATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
94381616 AATACCCTT
64 AATACCCTT
94381625 GTAGGGTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCCATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:94381608 original size:27 final size:27
Alignment explanation
Indices: 94381578--94381639 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
94381568 CATGGTTTGA
94381578 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* *
94381605 AAAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
94381632 AAAATTAC
1 AAAATTAC
94381640 CATTTTGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:94381608 original size:54 final size:54
Alignment explanation
Indices: 94381472--94381622 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
94381462 CAATTTACAG
* ** * * *
94381472 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
94381526 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
* **
94381580 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
94381623 TTGTAGGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.04
54 81 0.95
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGAAA
Found at i:94382293 original size:28 final size:28
Alignment explanation
Indices: 94382260--94382356 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
94382250 GTGTAGATCA
94382260 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
94382288 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
94382316 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
94382344 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
94382357 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:94384623 original size:67 final size:64
Alignment explanation
Indices: 94384505--94384628 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 64
94384495 AGACATTATG
* *
94384505 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCAGGTAGACAAGAGAACTACGGGATAT
1 ATGTAGCTAGGTCGCATGCGTGATACTAGGTGTACACCAGGTAGACAAGAGAACTACGGGATAT
* * *
94384569 ATGTAGCTAGGTCGCATGCGTGGCT-CTAGGTGAATCACACCATGTAGACAAGAGAGCTAC
1 ATGTAGCTAGGTCGCATGCGT-GATACTAGGTG--T-ACACCAGGTAGACAAGAGAACTAC
94384629 AAAATAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 26 0.51
65 2 0.04
66 1 0.02
67 22 0.43
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGCGTGATACTAGGTGTACACCAGGTAGACAAGAGAACTACGGGATAT
Found at i:94385717 original size:16 final size:17
Alignment explanation
Indices: 94385696--94385727 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
94385686 ACTATGGTAT
94385696 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
94385712 ATGAAATAATTGATAT
1 ATGAAATAATTGATAT
94385728 GTGTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:94388991 original size:67 final size:66
Alignment explanation
Indices: 94388912--94389086 Score: 173
Period size: 67 Copynumber: 2.7 Consensus size: 66
94388902 CATCATGTGT
* *
94388912 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTATGTG-T-ACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGAT-CTAGGTGATCACACC
94388974 A-GTAG
61 ATGTAG
** *
94388979 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCTCTAGGTGAATCACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATCTAGGTG-ATCACACCATGT
94389044 AG
65 AG
* * * *
94389046 ACAAGAGAGCTACGA-ATAAAT-TGGCTAGGTCACATGGGTGG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGG
94389087 TACTGAGTGT
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
63 26 0.28
64 5 0.05
65 20 0.22
66 11 0.12
67 31 0.33
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATCTAGGTGATCACACCATGTA
G
Found at i:94389011 original size:63 final size:62
Alignment explanation
Indices: 94388936--94389118 Score: 185
Period size: 63 Copynumber: 2.9 Consensus size: 62
94388926 AGACATTATG
* *
94388936 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCA-GTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA-GTGTACACCATGTAGACAAGAGAGCTAC-GAATAA
* *
94388999 ATGTAGCTAGGTCGCATGCGTGGCT-CTAGGTGAATCACACCATGTAGACAAGAGAGCTACGAAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-GTG--T-ACACCATGTAGACAAGAGAGCTACGAAT
94389063 AA
61 AA
* * * *
94389065 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGATACT-AGTGTACACCATGTAG-ACAAGAGAGCT
94389119 GAACTCTATG
Statistics
Matches: 102, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 27 0.26
64 4 0.04
65 21 0.21
66 13 0.13
67 17 0.17
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (62 bp):
ATGTAGCTAGGTCGCATGGGTGATACTAGTGTACACCATGTAGACAAGAGAGCTACGAATAA
Found at i:94391979 original size:93 final size:93
Alignment explanation
Indices: 94391820--94391990 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
94391810 GGATGGTTGA
* * *
94391820 GCATCTGAACTCATTGAGTGGAGTCCGAATTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTGGAGTCCGAATTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
94391885 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
94391913 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACT-CCCGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTGGAGTCCGAATTCACTTATGGATGCGAA-TGCCCGAACTCGTTGAG
94391977 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
94391991 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTGGAGTCCGAATTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:94391988 original size:46 final size:47
Alignment explanation
Indices: 94391826--94391995 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 47
94391816 TTGAGCATCT
* * * * *
94391826 GAACTCATTGAGTGGAGTCCGAATTCATTTATGGATGCGAA-TGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGCCC
* * *
94391872 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT--GC--CC
*
94391919 GAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACT-CCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGCCC
*
94391965 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
94391996 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 54 0.53
47 27 0.26
48 3 0.03
50 4 0.04
51 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGCCC
Found at i:94396259 original size:37 final size:37
Alignment explanation
Indices: 94396200--94396340 Score: 202
Period size: 37 Copynumber: 3.9 Consensus size: 37
94396190 AGCTCAGATG
* *
94396200 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
94396237 AAATCTCCACACGTAGTCATC-GG----ACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
94396269 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
94396306 TAATCTCTACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
94396341 ATATATTTCC
Statistics
Matches: 95, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
32 29 0.31
33 2 0.02
36 2 0.02
37 62 0.65
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:94396274 original size:32 final size:33
Alignment explanation
Indices: 94396227--94396328 Score: 143
Period size: 32 Copynumber: 3.0 Consensus size: 33
94396217 TATCGGGTCT
*
94396227 TACCCGGACAAAATCTCCACACGTAGTCATCGG
1 TACCCGGACATAATCTCCACACGTAGTCATCGG
94396260 -ACCCGGACATAATCTCCACACGTAGTCATCGGG
1 TACCCGGACATAATCTCCACACGTAGTCATC-GG
*
94396293 TCTTACCCGGACATAATCTCTACACGTAGTCATCGG
1 ---TACCCGGACATAATCTCCACACGTAGTCATCGG
94396329 GTCTTACCCG
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
32 29 0.47
33 2 0.03
36 2 0.03
37 29 0.47
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (33 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:94396542 original size:48 final size:48
Alignment explanation
Indices: 94396487--94397490 Score: 1810
Period size: 48 Copynumber: 20.9 Consensus size: 48
94396477 ACACATCGCC
*
94396487 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
94396535 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTAACTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94396583 TACATATTTCACATTAGCCATTCGGCTTTACCATATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
94396631 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94396679 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94396727 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94396775 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94396823 TACATATTTCACATTAGCAATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94396871 TACATATTTCACATTAGCCATTCGGCTTTACCATATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94396919 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
94396967 TACATATTTCACATTAGCAATTCGGCTTTACCACATATACATATGTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94397015 TACATATTTCACATTAGCCATTCGGCTTTACCATATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
94397063 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94397111 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94397159 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94397207 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94397255 TACATATTTCACATTAGCAATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
94397303 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94397351 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
94397399 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
94397447 TATATATTTCACATTAGCCATTCAGCTTTACCATATATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
94397491 ACATAACTCA
Statistics
Matches: 924, Mismatches: 32, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 924 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:94402124 original size:40 final size:40
Alignment explanation
Indices: 94402058--94402224 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
94402048 AAATTGAATG
* * *
94402058 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
94402097 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
94402137 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
94402177 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
94402217 ATATCCGG
1 ATATCCGG
94402225 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:94410891 original size:39 final size:39
Alignment explanation
Indices: 94410760--94410951 Score: 174
Period size: 40 Copynumber: 4.8 Consensus size: 39
94410750 GGATATAACG
* ** **
94410760 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
94410800 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
94410840 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
94410878 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
94410918 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAT
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGAT
94410952 CATTCGAATA
Statistics
Matches: 125, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 70 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:94410895 original size:78 final size:80
Alignment explanation
Indices: 94410800--94410951 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 80
94410790 GGTTATAGCG
* * * *
94410800 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
94410862 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
94410878 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
94410943 AGCCCGGAT
66 AGCCCGGAT
94410952 CATTCGAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.53
79 15 0.23
80 12 0.19
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:94418889 original size:39 final size:39
Alignment explanation
Indices: 94418758--94418948 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
94418748 GGATATAACG
* ** **
94418758 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
94418798 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
94418838 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
94418876 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
94418916 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
94418949 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:94418893 original size:78 final size:80
Alignment explanation
Indices: 94418798--94418948 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
94418788 GGTTATAGCG
* * * *
94418798 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
94418860 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
94418876 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
94418941 AGCCCGGA
66 AGCCCGGA
94418949 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:94421009 original size:50 final size:49
Alignment explanation
Indices: 94420893--94421079 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 49
94420883 TGAGGTCGCA
* * * * *
94420893 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCAAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
* **
94420944 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * * *
94420994 TGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
94421043 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
94421080 TAGCTTCAGC
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 39 0.34
50 41 0.36
51 29 0.25
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:94424662 original size:30 final size:31
Alignment explanation
Indices: 94424588--94424670 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
94424578 TCAATCTCAA
*
94424588 CATAT-ACTGGGCCAAAGCCTTTGCATTATT
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
* * *
94424618 CATGTCACTAGGCCGAAGCCTTTTCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGCATTATT
94424648 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
94424671 ACTATAAACG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 26 0.57
31 20 0.43
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGCATTATT
Found at i:94424911 original size:24 final size:25
Alignment explanation
Indices: 94424884--94424935 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
94424874 GCCTAGCCTC
*
94424884 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
*
94424908 TTTTGATAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
94424933 TTT
1 TTT
94424936 CGGTAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:94424961 original size:26 final size:25
Alignment explanation
Indices: 94424891--94424961 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
94424881 CTCTTTTAAT
*
94424891 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
94424916 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
94424941 AATTGGGGCAAAAGCCCTTTT
1 AACTGGGGC-AAAGCCCTTTT
94424962 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 29 0.73
26 11 0.28
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:94427152 original size:5 final size:5
Alignment explanation
Indices: 94427142--94427166 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
94427132 AAATAATAAA
94427142 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
94427167 CCATGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:94430581 original size:46 final size:45
Alignment explanation
Indices: 94430459--94430890 Score: 452
Period size: 45 Copynumber: 9.6 Consensus size: 45
94430449 ATGATTGAAG
* *
94430459 GATGCCATAGTGTCTTTCAACCATGGTCTTATTTA-TTCTCGACT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTC-CGA-TAT
* * * *
94430504 AATGCTATAATGTCTTTCAACCATGGTCTTATTCACTTCACGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTC-CGATAT
* * *
94430550 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-CTTCCGATAT
*
94430596 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TATTCGATA-
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACT-TCCGATAT
* * * *
94430640 GAATGTCATAGTGGCTTTCAACTATAGTCTTATTCACTTTCCGATGT
1 G-ATGCCATAGTGTCTTTCAACTATGGTCTTATTCAC-TTCCGATAT
* *
94430687 GATGCCAT-GTGTCTTTCAACTATGGTCTTATCCATCTT-CGATAG
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-CTTCCGATAT
*
94430731 GTTGCCATAGTGTCTTT-AACTATGGTCTTATTCACTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAC-TTCCGATAT
** **
94430776 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTTTGAT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTCCGATAT
* *
94430820 GGATGCCATAGTGTCTTTCAACTATGGTCTTACTCA--TCTGAATCAT
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTCCG-AT-AT
** *
94430866 GATGCCATAGCATCTTTCAGCTATG
1 GATGCCATAGTGTCTTTCAACTATG
94430891 ATATTACTTG
Statistics
Matches: 332, Mismatches: 38, Indels: 34
0.82 0.09 0.08
Matches are distributed among these distances:
43 4 0.01
44 34 0.10
45 182 0.55
46 107 0.32
47 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTCCGATAT
Found at i:94430620 original size:24 final size:24
Alignment explanation
Indices: 94430547--94430620 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
94430537 CACTTCACGA
94430547 TATGATGCCATAGTGTCTTTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
* * *
94430571 CATG--GTCTTA-T-TCATTTTCCAA-
1 TATGATGCCATAGTGTC--TTT-CAAC
94430593 TATGATGCCATAGTGTCTTTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
94430617 TATG
1 TATG
94430621 GTCTTATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 16
0.62 0.10 0.28
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 10 0.28
23 6 0.17
24 14 0.39
25 1 0.03
26 2 0.06
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (24 bp):
TATGATGCCATAGTGTCTTTCAAC
Found at i:94430662 original size:45 final size:43
Alignment explanation
Indices: 94430459--94430948 Score: 425
Period size: 45 Copynumber: 10.9 Consensus size: 43
94430449 ATGATTGAAG
* *
94430459 GATGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGACTTA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATT-TCGA--TA
* * * *
94430505 -ATGCTATAATGTCTTTCAACCATGGTCTTATTCACTTCACGATA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TT-TCGATA
* *
94430549 TGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATA
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGATA
94430595 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGATA
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTCGATA
* * * *
94430640 GAATGTCATAGTGGCTTTCAACTATAGTCTTATTCACTTTCCGATGT
1 G-ATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGAT-A
*
94430687 GATGCCAT-GTGTCTTTCAACTATGGTCTTATCCATCTTCGATA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTCGATA
*
94430730 GGTTGCCATAGTGTCTTT-AACTATGGTCTTATTCACTTTCCGATA
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGATA
* * *
94430775 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTTTGATTG
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTCGA-TA
* *
94430821 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCT-GAATCA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCG-AT-A
** * * * *
94430865 TGATGCCATAGCATCTTTCAGCTATGATATTACTT-GTTT-GAATAA
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTA-TTCATTTCG-AT-A
** * *
94430910 TGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
94430949 GAATAATGAT
Statistics
Matches: 378, Mismatches: 44, Indels: 45
0.81 0.09 0.10
Matches are distributed among these distances:
43 2 0.01
44 37 0.10
45 225 0.60
46 113 0.30
47 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (43 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCGATA
Found at i:94430884 original size:180 final size:181
Alignment explanation
Indices: 94430457--94430890 Score: 529
Period size: 180 Copynumber: 2.4 Consensus size: 181
94430447 TAATGATTGA
* * * * * *
94430457 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGA-CTTAATGCTATAATGTCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCT-GATCATGATGCCATAGTGTCTTT
* * * *
94430521 CAACCATGGTCTTATTCACTTCACGATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAT
65 CAACTATGGTCTTATCCACTT-ACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAC
94430586 TTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
129 TTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
* * * * * *
94430639 AGAATGTCATAGTGGCTTTCAACTATAGTCTTATTCACTTTCCGAT-GTGATGCCAT-GTGTCTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCA--TTCTGATCATGATGCCATAGTGTCTT
* *
94430702 TCAACTATGGTCTTATCCATCTT-CGATAGGTTGCCATAGTGTCTTT-AACTATGGTCTTATTCA
64 TCAACTATGGTCTTATCCA-CTTACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCA
* * * *
94430765 CTTTCCGATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTTTGAT
128 CTTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
* * **
94430819 TGGATGCCATAGTGTCTTTCAACTATGGTCTTACTCA-TCTGAATCATGATGCCATAGCATCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCTG-ATCATGATGCCATAGTGTCTTT
*
94430883 CAGCTATG
65 CAACTATG
94430891 ATATTACTTG
Statistics
Matches: 213, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
177 3 0.01
178 2 0.01
179 9 0.04
180 109 0.51
181 21 0.10
182 54 0.25
183 12 0.06
184 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (181 bp):
AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCTGATCATGATGCCATAGTGTCTTTC
AACTATGGTCTTATCCACTTACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTT
TCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
Found at i:94432996 original size:46 final size:45
Alignment explanation
Indices: 94432874--94433305 Score: 452
Period size: 45 Copynumber: 9.6 Consensus size: 45
94432864 ATGATTGAAG
* *
94432874 GATGCCATAGTGTCTTTCAACCATGGTCTTATTTA-TTCTCGACT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTC-CGA-TAT
* * * *
94432919 AATGCTATAATGTCTTTCAACCATGGTCTTATTCACTTCACGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTC-CGATAT
* * *
94432965 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-CTTCCGATAT
*
94433011 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TATTCGATA-
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACT-TCCGATAT
* * * *
94433055 GAATGTCATAGTGGCTTTCAACTATAGTCTTATTCACTTTCCGATGT
1 G-ATGCCATAGTGTCTTTCAACTATGGTCTTATTCAC-TTCCGATAT
* *
94433102 GATGCCAT-GTGTCTTTCAACTATGGTCTTATCCATCTT-CGATAG
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-CTTCCGATAT
*
94433146 GTTGCCATAGTGTCTTT-AACTATGGTCTTATTCACTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAC-TTCCGATAT
** **
94433191 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTTTGAT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTCCGATAT
* *
94433235 GGATGCCATAGTGTCTTTCAACTATGGTCTTACTCA--TCTGAATCAT
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTCCG-AT-AT
** *
94433281 GATGCCATAGCATCTTTCAGCTATG
1 GATGCCATAGTGTCTTTCAACTATG
94433306 ATATTACTTG
Statistics
Matches: 332, Mismatches: 38, Indels: 34
0.82 0.09 0.08
Matches are distributed among these distances:
43 4 0.01
44 34 0.10
45 182 0.55
46 107 0.32
47 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCACTTCCGATAT
Found at i:94433035 original size:24 final size:24
Alignment explanation
Indices: 94432962--94433035 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
94432952 CACTTCACGA
94432962 TATGATGCCATAGTGTCTTTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
* * *
94432986 CATG--GTCTTA-T-TCATTTTCCAA-
1 TATGATGCCATAGTGTC--TTT-CAAC
94433008 TATGATGCCATAGTGTCTTTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
94433032 TATG
1 TATG
94433036 GTCTTATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 16
0.62 0.10 0.28
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 10 0.28
23 6 0.17
24 14 0.39
25 1 0.03
26 2 0.06
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (24 bp):
TATGATGCCATAGTGTCTTTCAAC
Found at i:94433077 original size:45 final size:43
Alignment explanation
Indices: 94432874--94433363 Score: 425
Period size: 45 Copynumber: 10.9 Consensus size: 43
94432864 ATGATTGAAG
* *
94432874 GATGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGACTTA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATT-TCGA--TA
* * * *
94432920 -ATGCTATAATGTCTTTCAACCATGGTCTTATTCACTTCACGATA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TT-TCGATA
* *
94432964 TGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATA
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGATA
94433010 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGATA
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTCGATA
* * * *
94433055 GAATGTCATAGTGGCTTTCAACTATAGTCTTATTCACTTTCCGATGT
1 G-ATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGAT-A
*
94433102 GATGCCAT-GTGTCTTTCAACTATGGTCTTATCCATCTTCGATA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTCGATA
*
94433145 GGTTGCCATAGTGTCTTT-AACTATGGTCTTATTCACTTTCCGATA
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGATA
* * *
94433190 TGATGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTTTGATTG
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTCGA-TA
* *
94433236 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCT-GAATCA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCG-AT-A
** * * * *
94433280 TGATGCCATAGCATCTTTCAGCTATGATATTACTT-GTTT-GAATAA
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTA-TTCATTTCG-AT-A
** * *
94433325 TGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
94433364 GAATAATGAT
Statistics
Matches: 378, Mismatches: 44, Indels: 45
0.81 0.09 0.10
Matches are distributed among these distances:
43 2 0.01
44 37 0.10
45 225 0.60
46 113 0.30
47 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (43 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCGATA
Found at i:94433299 original size:180 final size:181
Alignment explanation
Indices: 94432872--94433305 Score: 529
Period size: 180 Copynumber: 2.4 Consensus size: 181
94432862 TAATGATTGA
* * * * * *
94432872 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGA-CTTAATGCTATAATGTCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCT-GATCATGATGCCATAGTGTCTTT
* * * *
94432936 CAACCATGGTCTTATTCACTTCACGATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAT
65 CAACTATGGTCTTATCCACTT-ACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAC
94433001 TTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
129 TTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
* * * * * *
94433054 AGAATGTCATAGTGGCTTTCAACTATAGTCTTATTCACTTTCCGAT-GTGATGCCAT-GTGTCTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCA--TTCTGATCATGATGCCATAGTGTCTT
* *
94433117 TCAACTATGGTCTTATCCATCTT-CGATAGGTTGCCATAGTGTCTTT-AACTATGGTCTTATTCA
64 TCAACTATGGTCTTATCCA-CTTACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCA
* * * *
94433180 CTTTCCGATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTTTGAT
128 CTTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
* * **
94433234 TGGATGCCATAGTGTCTTTCAACTATGGTCTTACTCA-TCTGAATCATGATGCCATAGCATCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCTG-ATCATGATGCCATAGTGTCTTT
*
94433298 CAGCTATG
65 CAACTATG
94433306 ATATTACTTG
Statistics
Matches: 213, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
177 3 0.01
178 2 0.01
179 9 0.04
180 109 0.51
181 21 0.10
182 54 0.25
183 12 0.06
184 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (181 bp):
AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCTGATCATGATGCCATAGTGTCTTTC
AACTATGGTCTTATCCACTTACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTT
TCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
Found at i:94435449 original size:24 final size:24
Alignment explanation
Indices: 94435376--94435449 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
94435366 CACTTCACGA
94435376 TATGATGCCATAGTGTCTTTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
* * *
94435400 CATG--GTCTTA-T-TCATTTTCCAA-
1 TATGATGCCATAGTGTC--TTT-CAAC
94435422 TATGATGCCATAGTGTCTTTCAAC
1 TATGATGCCATAGTGTCTTTCAAC
94435446 TATG
1 TATG
94435450 GTCTTATTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 16
0.62 0.10 0.28
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 10 0.28
23 6 0.17
24 14 0.39
25 1 0.03
26 2 0.06
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (24 bp):
TATGATGCCATAGTGTCTTTCAAC
Found at i:94435713 original size:180 final size:181
Alignment explanation
Indices: 94435286--94435719 Score: 538
Period size: 180 Copynumber: 2.4 Consensus size: 181
94435276 TAATGATTGA
* * * * * *
94435286 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGA-CTTAATGCTATAATGTCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCT-GATCATGATGCCATAGTGTCTTT
* * * *
94435350 CAACCATGGTCTTATTCACTTCACGATATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAT
65 CAACTATGGTCTTATCCACTT-ACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAC
94435415 TTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
129 TTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
* * * * *
94435468 AGAATGTCATAGTGTCTTTCAACTATAGTCTTATTCACTTTCCGAT-GTGATGCCAT-GTGTCTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCA--TTCTGATCATGATGCCATAGTGTCTT
* *
94435531 TCAACTATGGTCTTATCCATCTT-CGATAGGTTGCCATAGTGTCTTT-AACTATGGTCTTATTCA
64 TCAACTATGGTCTTATCCA-CTTACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCA
* * * *
94435594 CTTTCCGATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTTTGAT
128 CTTTCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
* * **
94435648 TGGATGCCATAGTGTCTTTCAACTATGGTCTTACTCA-TCTGAATCATGATGCCATAGCATCTTT
1 AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCTG-ATCATGATGCCATAGTGTCTTT
*
94435712 CAGCTATG
65 CAACTATG
94435720 ATATTACTTG
Statistics
Matches: 215, Mismatches: 30, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
177 3 0.01
178 2 0.01
179 9 0.04
180 110 0.51
181 21 0.10
182 55 0.26
183 12 0.06
184 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.41
Consensus pattern (181 bp):
AGGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCTGATCATGATGCCATAGTGTCTTTC
AACTATGGTCTTATCCACTTACGATAGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCACTT
TCCAATATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGAT
Found at i:94435788 original size:45 final size:44
Alignment explanation
Indices: 94435288--94435777 Score: 483
Period size: 45 Copynumber: 10.9 Consensus size: 44
94435278 ATGATTGAAG
* *
94435288 GATGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGACT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATT-TCGA-TAT
* * * * *
94435333 AATGCTATAATGTCTTTCAACCATGGTCTTATTCACTTCACGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TT-TCGATAT
* *
94435379 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGATAT
94435425 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATATTCGATA-
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTCGATAT
* * *
94435469 GAATGTCATAGTGTCTTTCAACTATAGTCTTATTCACTTTCCGATGT
1 G-ATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGATAT
* *
94435516 GATGCCAT-GTGTCTTTCAACTATGGTCTTATCCATCTTCGATAG
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCAT-TTCGATAT
*
94435560 GTTGCCATAGTGTCTTT-AACTATGGTCTTATTCACTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCA-TTT-CGATAT
* *
94435605 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCGTTTTTGAT-T
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTC-ATTTCGATAT
* *
94435649 GGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATCT-GAATCAT
1 -GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCG-AT-AT
** * * * *
94435695 GATGCCATAGCATCTTTCAGCTATGATATTACTT-GTTT-GAATAAT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTA-TTCATTTCG-AT-AT
** * *
94435740 GATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTT
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
94435778 GAATAATGAT
Statistics
Matches: 382, Mismatches: 43, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.00
44 37 0.10
45 229 0.60
46 114 0.30
47 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (44 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCGATAT
Found at i:94439224 original size:43 final size:43
Alignment explanation
Indices: 94439123--94439293 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
94439113 ACAAAAGCTC
* * * *
94439123 ATACAATGCC-ATATCCTAGATATGGTCTTACATGTAAAT-GC-
1 ATACAATGCCAATGTCCTAGACATGGTCTTACACGT-AATCACA
* * * * *
94439164 ATATCGATGCTACTGTCCTAGACAAGGTCTTACACGAAATCACA
1 ATA-CAATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA
* * *
94439208 ATACAATGCCAATGTCCCAGACATGGTCTTATACGTAATCTCA
1 ATACAATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA
* *
94439251 ATACAATGCCAATGT-CTCAGACATGGTCGTACATGTAATCACA
1 ATACAATGCCAATGTCCT-AGACATGGTCTTACACGTAATCACA
94439294 TCTTGATAAC
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
41 3 0.03
42 9 0.09
43 88 0.85
44 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA
Found at i:94444618 original size:25 final size:25
Alignment explanation
Indices: 94444584--94444637 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
94444574 TGAAGTGTAT
94444584 TGTAGTTTGTACGTTTTGCACATTC
1 TGTAGTTTGTACGTTTTGCACATTC
94444609 TGTAGTTTGTACGTTTTGCACATTC
1 TGTAGTTTGTACGTTTTGCACATTC
94444634 TGTA
1 TGTA
94444638 AGTTGCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.48
Consensus pattern (25 bp):
TGTAGTTTGTACGTTTTGCACATTC
Found at i:94445103 original size:17 final size:18
Alignment explanation
Indices: 94445076--94445109 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94445066 AATTAAATAT
94445076 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
94445094 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
94445110 TAAACAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:94449649 original size:27 final size:28
Alignment explanation
Indices: 94449593--94449662 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
94449583 AAATTTGTAC
94449593 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
94449621 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
94449648 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
94449663 GAAGCTCGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:94455816 original size:40 final size:40
Alignment explanation
Indices: 94455761--94455940 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
94455751 ATGATAACCA
* * *
94455761 GGCTAGGTCCCGAAGGCATTTGTGCGAGTTATTATGTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
94455801 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
94455841 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
94455881 GGCTAAGTCCCGAAGGCATTAGTGTGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
94455921 GGCTATGTCCCAAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
94455941 GAGTGAGTAG
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:94463605 original size:40 final size:40
Alignment explanation
Indices: 94463550--94463789 Score: 403
Period size: 40 Copynumber: 6.0 Consensus size: 40
94463540 ATGATAACCA
*
94463550 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
94463590 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
94463630 GGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
94463670 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
94463710 GGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
94463750 GGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
94463789 G
1 G
94463790 TTAAATCTCG
Statistics
Matches: 190, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
38 2 0.01
39 16 0.08
40 172 0.91
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:94467454 original size:29 final size:29
Alignment explanation
Indices: 94467421--94467581 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
94467411 GTGACGAGAT
94467421 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
94467450 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
94467479 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
94467508 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
94467537 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
94467566 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
94467582 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:94474892 original size:13 final size:13
Alignment explanation
Indices: 94474874--94474902 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
94474864 GGTTGTTCAT
94474874 TAAACTAATTAAC
1 TAAACTAATTAAC
94474887 TAAACTAATTAAC
1 TAAACTAATTAAC
94474900 TAA
1 TAA
94474903 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:94476758 original size:27 final size:27
Alignment explanation
Indices: 94476728--94477253 Score: 648
Period size: 27 Copynumber: 19.5 Consensus size: 27
94476718 AAAGTACTCC
94476728 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
94476755 CGATTTATAGAATTACTGTTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
94476782 CGATTTGTAAAATTACCGTTTAACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
94476809 CGATTTATAGAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
94476835 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
94476862 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
94476889 C-AGTTTACAAAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
94476916 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
94476943 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
94476970 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
94476997 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
94477024 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
94477051 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
94477077 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
94477105 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
94477132 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
94477159 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
94477186 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
94477213 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
94477240 CGATTTACAAAATT
1 CGATTTACAGAATT
94477254 GCTAAAATAC
Statistics
Matches: 431, Mismatches: 59, Indels: 18
0.85 0.12 0.04
Matches are distributed among these distances:
25 1 0.00
26 23 0.05
27 403 0.94
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:94478523 original size:25 final size:25
Alignment explanation
Indices: 94478495--94478542 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94478485 TTATACCATG
* * *
94478495 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
94478520 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
94478543 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:94478645 original size:20 final size:20
Alignment explanation
Indices: 94478585--94478645 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
94478575 ATAAATATGG
*
94478585 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
94478605 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94478625 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
94478645 T
1 T
94478646 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:94478722 original size:24 final size:24
Alignment explanation
Indices: 94478695--94478837 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
94478685 GAGGAAGTGA
94478695 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94478719 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
94478743 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
94478766 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
94478790 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
94478814 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
94478838 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:94478788 original size:47 final size:47
Alignment explanation
Indices: 94478695--94478837 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
94478685 GAGGAAGTGA
94478695 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
94478743 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
94478790 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
94478838 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:94478811 original size:71 final size:72
Alignment explanation
Indices: 94478695--94478838 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
94478685 GAGGAAGTGA
*
94478695 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
94478758 CCAGTTAT
65 CCAGTTAT
** * *
94478766 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
94478831 CAGTTAT
66 CAGTTAT
94478838 A
1 A
94478839 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:94479064 original size:31 final size:31
Alignment explanation
Indices: 94479029--94479092 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
94479019 CATTTACAGT
*
94479029 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
94479060 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
94479091 AA
1 AA
94479093 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:94488833 original size:21 final size:21
Alignment explanation
Indices: 94488809--94488854 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
94488799 AGAGAGGAGA
*
94488809 GAGTGATGAATGATAAGGGAT
1 GAGTGATGAAGGATAAGGGAT
* *
94488830 GAGTGATGAGGGATGAGGGAT
1 GAGTGATGAAGGATAAGGGAT
94488851 GAGT
1 GAGT
94488855 AGAACTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.46, T:0.22
Consensus pattern (21 bp):
GAGTGATGAAGGATAAGGGAT
Found at i:94488836 original size:14 final size:14
Alignment explanation
Indices: 94488813--94488846 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
94488803 AGGAGAGAGT
*
94488813 GATGAATGATAAGG
1 GATGAGTGATAAGG
*
94488827 GATGAGTGATGAGG
1 GATGAGTGATAAGG
94488841 GATGAG
1 GATGAG
94488847 GGATGAGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.44, T:0.21
Consensus pattern (14 bp):
GATGAGTGATAAGG
Found at i:94488851 original size:14 final size:14
Alignment explanation
Indices: 94488824--94488853 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
94488814 ATGAATGATA
*
94488824 AGGGATGAGTGATG
1 AGGGATGAGGGATG
94488838 AGGGATGAGGGATG
1 AGGGATGAGGGATG
94488852 AG
1 AG
94488854 TAGAACTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.53, T:0.17
Consensus pattern (14 bp):
AGGGATGAGGGATG
Found at i:94490991 original size:21 final size:21
Alignment explanation
Indices: 94490944--94490996 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
94490934 TCTCATTTTT
* *
94490944 AGCAACTTCTTCTACTTCAAC
1 AGCAACTTCCTCTACTGCAAC
* * *
94490965 AACAACTTCCTCTTCTGCAGC
1 AGCAACTTCCTCTACTGCAAC
94490986 AGCAACTTCCT
1 AGCAACTTCCT
94490997 TCTCAACAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.36, G:0.08, T:0.30
Consensus pattern (21 bp):
AGCAACTTCCTCTACTGCAAC
Found at i:94498745 original size:29 final size:29
Alignment explanation
Indices: 94498713--94498847 Score: 164
Period size: 29 Copynumber: 4.7 Consensus size: 29
94498703 ATACCCTTCG
** * *
94498713 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCTTATATTTCC
* *
94498742 AGCTTGCACACATAGTGCCTTATATTTCC
1 AGCTCGCACACTTAGTGCCTTATATTTCC
94498771 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCTTATATTTCC
* * *
94498800 AGCACGCACACTTAGTTCCATATATTTCC
1 AGCTCGCACACTTAGTGCCTTATATTTCC
*
94498829 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
94498848 AATCTCGTCA
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCTTATATTTCC
Found at i:94498840 original size:58 final size:58
Alignment explanation
Indices: 94498688--94498847 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
94498678 AATTTAAGCC
* *** * * ** * *
94498688 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * *
94498746 TGCACACATAGTGCCTTATATTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* *
94498804 CGCACACTTAGTTCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
94498848 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:94500969 original size:40 final size:40
Alignment explanation
Indices: 94500915--94501139 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
94500905 CTTGCACAAG
* * *
94500915 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
94500955 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
94500995 GCCTTCGGGTCTTAGCCTGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
94501035 GCCTTCGGGTCTTAGCCCGGATAT-GGCAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
94501075 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
94501116 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
94501140 CATTCGAATA
Statistics
Matches: 158, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 124 0.78
41 28 0.18
42 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:94501089 original size:120 final size:121
Alignment explanation
Indices: 94500915--94501139 Score: 332
Period size: 120 Copynumber: 1.9 Consensus size: 121
94500905 CTTGCACAAG
94500915 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATA
* * * *
94500980 GTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCTGGATATAATCGCTAGCACAAAT
66 GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
* * *
94501035 GCCTTCGGGTCTTAGCCCGGATATGG-CAACTCGCAC-GAATGCCTTC-GGATCTTAGTCCGGTT
1 GCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCACAG-ATGCCTTCGGGA-CTTAGCCCGGAT
94501097 ATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
63 ATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
94501140 CATTCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
119 5 0.05
120 57 0.61
121 32 0.34
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (121 bp):
GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATA
GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
Found at i:94509001 original size:40 final size:40
Alignment explanation
Indices: 94508909--94509129 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
94508899 CTTGCACAAG
* *
94508909 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAG--CAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
94508947 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
94508987 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
94509027 GCCTTCGGGTCTTAGCCCGGATAT-G-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
94509066 GCCTTCGGATCTTAGTCCGGTTATAGTCACTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
94509106 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
94509130 CATTCGAATA
Statistics
Matches: 158, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
38 31 0.20
39 30 0.19
40 96 0.61
41 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:94509099 original size:119 final size:117
Alignment explanation
Indices: 94508873--94509129 Score: 337
Period size: 119 Copynumber: 2.2 Consensus size: 117
94508863 CTCAAGTAAT
*
94508873 CTTCGGGAT-TTAG-CCGGATATAACTGCTTGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGG-TCTTAGCCCGGATATAACTGCTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGT
* *
94508936 CACTAGCAGATGCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
65 CACTAGCAGATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
*
94508989 CTTCGGGTCTTAGCCCGGATATAA-TCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT-G
1 CTTCGGGTCTTAGCCCGGATATAACT-GCTAGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGG
* * *
94509052 -CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACTAGCACAAAAGC
64 TC-ACTAGCA-G-ATGCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAAGC
*
94509108 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
94509130 CATTCGAATA
Statistics
Matches: 125, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
115 1 0.01
116 13 0.10
117 24 0.19
118 30 0.24
119 57 0.46
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (117 bp):
CTTCGGGTCTTAGCCCGGATATAACTGCTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTC
ACTAGCAGATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
Found at i:94509102 original size:79 final size:80
Alignment explanation
Indices: 94508909--94509129 Score: 297
Period size: 79 Copynumber: 2.8 Consensus size: 80
94508899 CTTGCACAAG
* *
94508909 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAG--CAGATGCCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
94508972 GTCGCTAGCACAAAT
66 GTCACTAGCACAAAT
* * *
94508987 GCCTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT-
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
94509051 G-CAACTCGCACGAAT
66 GTC-ACTAGCACAAAT
* * * *
94509066 GCCTTCGGATCTTAGTCCGGTTATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
94509130 CATTCGAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
78 31 0.25
79 67 0.54
80 27 0.22
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GTCACTAGCACAAAT
Done.