Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 152 of 173
Found at i:46036124 original size:52 final size:52
Alignment explanation
Indices: 46036057--46036156 Score: 191
Period size: 52 Copynumber: 1.9 Consensus size: 52
46036047 TTTTTTTACA
*
46036057 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTGGAATATTTTTTTGTT
1 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTTGTT
46036109 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTT
1 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTT
46036157 GTCCAAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (52 bp):
ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTTGTT
Found at i:46037190 original size:21 final size:21
Alignment explanation
Indices: 46037166--46037236 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
46037156 GTAAGGGTTG
46037166 AACGAAAGCTCATAAGAGCTA
1 AACGAAAGCTCATAAGAGCTA
* * * *
46037187 AACGAAAACCCATAAGGGTTA
1 AACGAAAGCTCATAAGAGCTA
* *
46037208 AAC-ACAAGCTCAAAAGAGCTG
1 AACGA-AAGCTCATAAGAGCTA
46037229 AACAGAAA
1 AAC-GAAA
46037237 CCCATTAAGG
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.03
21 33 0.89
22 2 0.05
23 1 0.03
ACGTcount: A:0.51, C:0.20, G:0.18, T:0.11
Consensus pattern (21 bp):
AACGAAAGCTCATAAGAGCTA
Found at i:46037195 original size:42 final size:42
Alignment explanation
Indices: 46037135--46037251 Score: 130
Period size: 42 Copynumber: 2.8 Consensus size: 42
46037125 AAAGAAGTAT
* * * *
46037135 ATAAGTGCTAAACAAAAACCCGTAAGGGTTGAACGA-AAGCTC
1 ATAAGAGCTAAACGAAAACCCATAAGGGTTAAAC-ACAAGCTC
46037177 ATAAGAGCTAAACGAAAACCCATAAGGGTTAAACACAAGCTC
1 ATAAGAGCTAAACGAAAACCCATAAGGGTTAAACACAAGCTC
* * *
46037219 AAAAGAGCTGAAC-AGAAACCCATTAAGGTTTAA
1 ATAAGAGCTAAACGA-AAACCCA-TAAGGGTTAA
46037252 CAGAAACTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
41 2 0.03
42 54 0.83
43 9 0.14
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (42 bp):
ATAAGAGCTAAACGAAAACCCATAAGGGTTAAACACAAGCTC
Found at i:46037255 original size:21 final size:21
Alignment explanation
Indices: 46037229--46037277 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
46037219 AAAAGAGCTG
*
46037229 AACAGAAACCCAT-TAAGGTTT
1 AACAGAAACCCATATAA-GTTA
*
46037250 AACAGAAACTCATATAAGTTA
1 AACAGAAACCCATATAAGTTA
46037271 AACAGAA
1 AACAGAA
46037278 GCTCATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.20
Consensus pattern (21 bp):
AACAGAAACCCATATAAGTTA
Found at i:46037293 original size:21 final size:21
Alignment explanation
Indices: 46037224--46037299 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 21
46037214 AGCTCAAAAG
* *
46037224 AGCTGAACAGAAACCCAT-TA
1 AGCTAAACAGAAACTCATATA
* *
46037244 AGGTTTAACAGAAACTCATATA
1 A-GCTAAACAGAAACTCATATA
* *
46037266 AGTTAAACAGAAGCTCATGA-A
1 AGCTAAACAGAAACTCAT-ATA
*
46037287 AGCTAAACGGAAA
1 AGCTAAACAGAAA
46037300 GTAAACACGA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
20 1 0.02
21 40 0.89
22 4 0.09
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.18
Consensus pattern (21 bp):
AGCTAAACAGAAACTCATATA
Found at i:46042648 original size:862 final size:861
Alignment explanation
Indices: 46040376--46042963 Score: 4962
Period size: 861 Copynumber: 3.0 Consensus size: 861
46040366 TCTCACCATA
46040376 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
1 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
*
46040441 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTACACCAAT
66 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
*
46040506 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACTAGATTCTGGCCG
131 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
46040571 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
196 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
46040636 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
261 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
46040701 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
326 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
46040766 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
391 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
46040831 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
456 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
46040896 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
521 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
46040961 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
586 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
*
46041026 TCGACGTATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
651 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
* * *
46041091 AGCCACTATTGTTGACCACCAATTATAAGCTTCTTCTTTCACTAATGAAATAACACATCTCAGAT
716 AGCCACTATTGTTGACCACCAATTATAAGCTTCATCTTTCACTAATGAAACAGCACATCTCAGAT
46041156 AATCATCGGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
781 AATCATC-GGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
46041221 TTGACTGGGTCATCATC
845 TTGACTGGGTCATCATC
46041238 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGA-
1 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
46041302 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
66 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
46041367 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
131 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
46041432 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
196 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
*
46041497 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCTACGGCGAACCAATCATCGAAAAGTTC
261 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
*
46041562 TTGACAAAACGTCTGTAATAACCTGCTAGAGCTAGAAAACTTCGCACTTCTGAAACATTTTTCGG
326 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
*
46041627 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATATAA
391 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
46041692 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
456 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
46041757 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
521 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
*
46041822 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTATTG
586 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
46041887 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
651 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
*
46041952 AGCCACTATTGTTGACCACCAATTATAAGCTTCCTCTTTCACTAATGAAACAGCACATCTCAGAT
716 AGCCACTATTGTTGACCACCAATTATAAGCTTCATCTTTCACTAATGAAACAGCACATCTCAGAT
46042017 AATCATCAGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
781 AATCATC-GGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
46042082 TTGACTGGGTCATCATC
845 TTGACTGGGTCATCATC
46042099 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
1 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
46042164 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
66 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
* *
46042229 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATAGTATACCAGATTCTGGCCG
131 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
*
46042294 AGTCAAGACCAGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
196 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
46042359 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
261 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
*
46042424 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAAAAAACTTCGCACTTCTGAAACATTTTTCGG
326 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
* * *
46042489 AGTCTTCTAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGTTAATACAA
391 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
46042554 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
456 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
*
46042619 TTCTTCGGGTGGTACAATTTCTTGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
521 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
46042684 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
586 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
46042749 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
651 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
46042814 AGCCACTATTGTTGACCACCAATTATAAGCTTCATCTTTCACTAATGAAACAGCACATCTCAGAT
716 AGCCACTATTGTTGACCACCAATTATAAGCTTCATCTTTCACTAATGAAACAGCACATCTCAGAT
*
46042879 AATCATCGAGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTTAGCT
781 AATCATCG-GAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
46042944 TTGACTGGGTCATCATC
845 TTGACTGGGTCATCATC
46042961 TAA
1 TAA
46042964 CCTACCCCGA
Statistics
Matches: 1699, Mismatches: 25, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
861 851 0.50
862 848 0.50
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (861 bp):
TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
AGCCACTATTGTTGACCACCAATTATAAGCTTCATCTTTCACTAATGAAACAGCACATCTCAGAT
AATCATCGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCTT
TGACTGGGTCATCATC
Found at i:46044060 original size:13 final size:13
Alignment explanation
Indices: 46044034--46044068 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
46044024 ACTATCTATT
46044034 TAAATGCATGTGCA
1 TAAATGC-TGTGCA
46044048 TAAATGCTGTGCA
1 TAAATGCTGTGCA
46044061 TAAATGCT
1 TAAATGCT
46044069 CATGCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (13 bp):
TAAATGCTGTGCA
Found at i:46045113 original size:43 final size:43
Alignment explanation
Indices: 46045047--46045203 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 43
46045037 AGTCTGTAAA
* ***
46045047 ATGCCAACGTCCC-GAC-GTGGTCTTACATGTATTTACAAATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGTAAACACAAATCG
* *
46045089 ATGCC-ACTGTCCTAGACAGGGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAACACAAATCG
* *
46045132 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAACACAAATCG
*
46045175 ATGCCAACGTCCCAGGC-GTGGTCTTACAC
1 ATGCCAACGTCCCAGACAG-GGTCTTACAC
46045204 AAAATCACAT
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 86 0.86
44 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAACACAAATCG
Found at i:46045198 original size:86 final size:85
Alignment explanation
Indices: 46045047--46045203 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
46045037 AGTCTGTAAA
* * *** *
46045047 ATGCCAACGTCCCGACGTGGTCTTACATGTATTTACAAATCGATGCCACTGTCCTAGACAGGGTC
1 ATGCCAACGTCCCGACATGGTCTTACACGTAAACACAAATCGATGCCACTGTCCCAGACAGGGTC
46045112 TTACACGTAAACACAAGTCG
66 TTACACGTAAACACAAGTCG
* *
46045132 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAGTCGATGCCAAC-GTCCCAGGC-GTG
1 ATGCCAACGTCCC-GACATGGTCTTACACGTAAACACAAATCGATGCC-ACTGTCCCAGACAG-G
46045195 GTCTTACAC
63 GTCTTACAC
46045204 AAAATCACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 14 0.23
86 45 0.74
87 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (85 bp):
ATGCCAACGTCCCGACATGGTCTTACACGTAAACACAAATCGATGCCACTGTCCCAGACAGGGTC
TTACACGTAAACACAAGTCG
Found at i:46046217 original size:51 final size:51
Alignment explanation
Indices: 46046082--46046232 Score: 195
Period size: 49 Copynumber: 3.0 Consensus size: 51
46046072 AAACATATAC
46046082 TATAATTAATAATTGGTTTACTTTATTAACCTTTATATAAATATATACACA
1 TATAATTAATAATTGGTTTACTTTATTAACCTTTATATAAATATATACACA
* * * *
46046133 CAT-A-TATATAA--GGCTATATTTTATATAA-ATTTATATAAATATATACACA
1 TATAATTA-ATAATTGG-TTTACTTTAT-TAACCTTTATATAAATATATACACA
*
46046182 TATAATTAATAATTAGTTTACTTTATTAACCTTTATATAAATATATACACA
1 TATAATTAATAATTGGTTTACTTTATTAACCTTTATATAAATATATACACA
46046233 CATATATATA
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
48 2 0.02
49 32 0.39
50 16 0.19
51 32 0.39
52 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (51 bp):
TATAATTAATAATTGGTTTACTTTATTAACCTTTATATAAATATATACACA
Found at i:46048188 original size:21 final size:21
Alignment explanation
Indices: 46048128--46048237 Score: 75
Period size: 21 Copynumber: 5.2 Consensus size: 21
46048118 GTGCGAAATA
* *
46048128 GAAACCCGTAAGGGTTGAAC-
1 GAAACCCATAAAGGTTGAACG
* *
46048148 GAAACCTCAT-AAGAGCTAAACG
1 GAAACC-CATAAAG-GTTGAACG
* *
46048170 GAAACCCATAAAGGTTAAACA
1 GAAACCCATAAAGGTTGAACG
* *
46048191 GAAACTCA-AAAGAGATGAA-G
1 GAAACCCATAAAG-GTTGAACG
*
46048211 AGAAACCCATTAAGGTTGAACG
1 -GAAACCCATAAAGGTTGAACG
46048233 GAAAC
1 GAAAC
46048238 TTATATGAGT
Statistics
Matches: 69, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
20 12 0.17
21 44 0.64
22 13 0.19
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (21 bp):
GAAACCCATAAAGGTTGAACG
Found at i:46048257 original size:21 final size:21
Alignment explanation
Indices: 46048233--46048278 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
46048223 AGGTTGAACG
*
46048233 GAAACTTAT-ATGAGTTAAACA
1 GAAACTTATGA-GAGCTAAACA
*
46048254 GAAACTTGTGAGAGCTAAACA
1 GAAACTTATGAGAGCTAAACA
46048275 GAAA
1 GAAA
46048279 GTAAACACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (21 bp):
GAAACTTATGAGAGCTAAACA
Found at i:46048257 original size:42 final size:41
Alignment explanation
Indices: 46048127--46048258 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 41
46048117 AGTGCGAAAT
* *
46048127 AGAAACCC-GTAAGGGTTGAACGAAACCTCATAAGAGCTAAAC
1 AGAAACCCATTAA-GGTTGAACGAAA-CTCATAAGAGATAAAC
* * * * * *
46048169 GGAAACCCATAAAGGTTAAACAGAAACTCAAAAGAGATGAAG
1 AGAAACCCATTAAGGTTGAAC-GAAACTCATAAGAGATAAAC
* * *
46048211 AGAAACCCATTAAGGTTGAACGGAAACTTATATGAGTTAAAC
1 AGAAACCCATTAAGGTTGAAC-GAAACTCATAAGAGATAAAC
46048253 AGAAAC
1 AGAAAC
46048259 TTGTGAGAGC
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
42 64 0.91
43 6 0.09
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (41 bp):
AGAAACCCATTAAGGTTGAACGAAACTCATAAGAGATAAAC
Found at i:46058976 original size:24 final size:24
Alignment explanation
Indices: 46058949--46059043 Score: 65
Period size: 24 Copynumber: 4.0 Consensus size: 24
46058939 TTCATTGATT
46058949 CTTCAGAGGATAAGATTTCACATC
1 CTTCAGAGGATAAGATTTCACATC
46058973 CTTCATG-GGAT---ATTATCATTCATC
1 CTTCA-GAGGATAAGATT-TCA--CATC
* *
46058997 CATCAGGGGATAAGATTTCACATC
1 CTTCAGAGGATAAGATTTCACATC
* * *
46059021 CCTCA-AGGGATCATATTTCACAT
1 CTTCAGA-GGATAAGATTTCACAT
46059044 TCTTAAGGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
21 3 0.05
22 3 0.05
23 1 0.02
24 43 0.75
25 1 0.02
26 3 0.05
27 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (24 bp):
CTTCAGAGGATAAGATTTCACATC
Found at i:46059907 original size:32 final size:32
Alignment explanation
Indices: 46059866--46059930 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
46059856 GCCTAAGAAG
46059866 TAAGTAAATATATTTCAGAATTTATTAGAGCT
1 TAAGTAAATATATTTCAGAATTTATTAGAGCT
46059898 TAAGTAAATATATTTCAGAATTTATTAGAGCT
1 TAAGTAAATATATTTCAGAATTTATTAGAGCT
46059930 T
1 T
46059931 GATAGACTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (32 bp):
TAAGTAAATATATTTCAGAATTTATTAGAGCT
Found at i:46065284 original size:2 final size:2
Alignment explanation
Indices: 46065277--46065314 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
46065267 CTACCTCAGA
46065277 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
46065315 GAATCTAGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:46066363 original size:30 final size:28
Alignment explanation
Indices: 46066322--46066411 Score: 114
Period size: 30 Copynumber: 3.2 Consensus size: 28
46066312 CAATAAATTT
*
46066322 TTTTTTTATTTTTTTGAATTTTAAAATAC
1 TTTTTTAATTTTTTT-AATTTTAAAATAC
46066351 TTTTTTAAATTTTTTTAATTTTAAAAATAC
1 TTTTTT-AATTTTTTTAATTTT-AAAATAC
*
46066381 --TTTTAA-TTTTTTAATTTTAAAATAA
1 TTTTTTAATTTTTTTAATTTTAAAATAC
46066406 TTTTTT
1 TTTTTT
46066412 TTATTTTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.11
26 12 0.22
27 6 0.11
28 4 0.07
29 12 0.22
30 15 0.27
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.64
Consensus pattern (28 bp):
TTTTTTAATTTTTTTAATTTTAAAATAC
Found at i:46066372 original size:18 final size:18
Alignment explanation
Indices: 46066351--46066398 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
46066341 TTTAAAATAC
46066351 TTTTTTAAATTTTTTTAA
1 TTTTTTAAATTTTTTTAA
** **
46066369 TTTTAAAAATACTTTTAA
1 TTTTTTAAATTTTTTTAA
46066387 TTTTTT-AATTTT
1 TTTTTTAAATTTT
46066399 AAAATAATTT
Statistics
Matches: 22, Mismatches: 8, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTAAATTTTTTTAA
Found at i:46066418 original size:55 final size:58
Alignment explanation
Indices: 46066325--46066437 Score: 151
Period size: 56 Copynumber: 2.0 Consensus size: 58
46066315 TAAATTTTTT
* *
46066325 TTTTATTTTTTTGAATTTTAAAATACTTTTTTAAA-TTT-TTTTAATTTTAAAAATAC
1 TTTTAATTTTTTGAATTTTAAAATAATTTTTTAAATTTTGTTTTAATTTTAAAAATAC
* * *
46066381 TTTTAATTTTTT-AATTTTAAAATAATTTTTTTTATTTTTGTTTTAATTTTTAAAATA
1 TTTTAATTTTTTGAATTTTAAAATAA-TTTTTTAAATTTTGTTTTAATTTTAAAAATA
46066438 AAATTTTGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 12 0.24
56 18 0.37
57 3 0.06
58 16 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (58 bp):
TTTTAATTTTTTGAATTTTAAAATAATTTTTTAAATTTTGTTTTAATTTTAAAAATAC
Found at i:46067562 original size:22 final size:22
Alignment explanation
Indices: 46067531--46067573 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46067521 TGAATATATA
*
46067531 TAATATAAT-AATAAAGTAAATT
1 TAATAAAATAAAT-AAGTAAATT
46067553 TAATAAAATAAATAAGTAAAT
1 TAATAAAATAAATAAGTAAAT
46067574 GAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
TAATAAAATAAATAAGTAAATT
Found at i:46067579 original size:22 final size:21
Alignment explanation
Indices: 46067544--46067585 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
46067534 TATAATAATA
**
46067544 AAGTAAATTTAATAAAATAAAT
1 AAGTAAATGAAAT-AAATAAAT
46067566 AAGTAAATGAAATAAATAAA
1 AAGTAAATGAAATAAATAAA
46067586 GAATAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AAGTAAATGAAATAAATAAAT
Found at i:46068633 original size:40 final size:40
Alignment explanation
Indices: 46068510--46068649 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
46068500 GACTTCGAGT
*
46068510 CGATGAGACACTGGGTGTC-AATTTATTACTTCGGATATATT
1 CGATGAGACACTGGGTGTCAAATTT-TTACTTCGGAT-TATC
* * * *
46068551 CGATGAGGCACTGGGTG-CCAA--TTTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
* *
46068588 TGATGAGACACTGGGTGTCAAATTTTTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
* * *
46068628 CGATGAGGCATTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
46068650 CTAGTGTGTT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
37 17 0.21
38 13 0.16
39 1 0.01
40 32 0.40
41 18 0.22
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
Found at i:46073839 original size:43 final size:41
Alignment explanation
Indices: 46073773--46073900 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 41
46073763 AGCTTGTACA
*
46073773 ATGCCAAC-ATCCCAGACTTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTATCCCAGAC-GGGTCTTACATGTAA-CACATATCG
*
46073816 ATGCCACTATCCCAGACAGGGTCTTACACGTAAACACA-AGTCG
1 ATGCCACTATCCCAGAC-GGGTCTTACATGT-AACACATA-TCG
* *
46073859 ATGCCAATGTCCCAGACGTGGTCTTACATGATAACACATATC
1 ATGCCACTATCCCAGACG-GGTCTTACATG-TAACACATATC
46073901 AGAAGTCCTA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.05
43 65 0.89
44 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (41 bp):
ATGCCACTATCCCAGACGGGTCTTACATGTAACACATATCG
Found at i:46086123 original size:24 final size:24
Alignment explanation
Indices: 46086096--46086144 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
46086086 AAAAGAAGTT
46086096 GTTGCTGAAGAA-GA-AGAAGAAAAA
1 GTTGCTGAA-AATGAGA-AAGAAAAA
46086120 GTTGCTGAAAATGAGAAAGAAAAA
1 GTTGCTGAAAATGAGAAAGAAAAA
46086144 G
1 G
46086145 AAGAAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.09
24 20 0.87
25 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.29, T:0.14
Consensus pattern (24 bp):
GTTGCTGAAAATGAGAAAGAAAAA
Found at i:46089118 original size:15 final size:15
Alignment explanation
Indices: 46089094--46089124 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46089084 TATATTTATA
46089094 AAATTGTAAAACTTT
1 AAATTGTAAAACTTT
*
46089109 AAATTTTAAAACTTT
1 AAATTGTAAAACTTT
46089124 A
1 A
46089125 GACCCTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
AAATTGTAAAACTTT
Found at i:46089430 original size:15 final size:16
Alignment explanation
Indices: 46089396--46089432 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
46089386 TGGGTGAAAG
*
46089396 AAAATATTTTATGTTA
1 AAAATATTTGATGTTA
*
46089412 AAAATATTTGATTTTA
1 AAAATATTTGATGTTA
46089428 AAAAT
1 AAAAT
46089433 GATTCAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
AAAATATTTGATGTTA
Found at i:46089495 original size:35 final size:35
Alignment explanation
Indices: 46089456--46089526 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
46089446 ATATAGGTGG
46089456 AGCACTAATGAATTTGTATTTCAATACTATTGAAT
1 AGCACTAATGAATTTGTATTTCAATACTATTGAAT
46089491 AGCACTAATGAATTTGTATTTCAATACTATTGAAT
1 AGCACTAATGAATTTGTATTTCAATACTATTGAAT
46089526 A
1 A
46089527 TGTGTTCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (35 bp):
AGCACTAATGAATTTGTATTTCAATACTATTGAAT
Found at i:46094624 original size:20 final size:21
Alignment explanation
Indices: 46094585--46094624 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
46094575 TCTTTGCTAA
*
46094585 GTTGAGCAAATGTGAATTTTG
1 GTTGAGCAAATATGAATTTTG
*
46094606 GTTGAG-AAATATGAGTTTT
1 GTTGAGCAAATATGAATTTT
46094625 CTAGGGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.40
Consensus pattern (21 bp):
GTTGAGCAAATATGAATTTTG
Found at i:46099414 original size:17 final size:17
Alignment explanation
Indices: 46099394--46099426 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
46099384 ATTTAATATA
46099394 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
46099411 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
46099427 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:46100572 original size:45 final size:46
Alignment explanation
Indices: 46100503--46100598 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 46
46100493 TACTTAATCA
*
46100503 AGTATAAATAATAAATAATAAATACCATGTAATTTAGTTAA-ATTT
1 AGTACAAATAATAAATAATAAATACCATGTAATTTAGTTAATATTT
** * *
46100548 AGTACAAATAATTTATAATAAATACTATTTAATTTAGTTAATTATTT
1 AGTACAAATAATAAATAATAAATACCATGTAATTTAGTTAA-TATTT
46100595 AGTA
1 AGTA
46100599 AGTCAAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 36 0.82
47 8 0.18
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (46 bp):
AGTACAAATAATAAATAATAAATACCATGTAATTTAGTTAATATTT
Found at i:46105146 original size:15 final size:15
Alignment explanation
Indices: 46105121--46105155 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46105111 AACTCTATTT
*
46105121 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
46105135 TAATTAATATTAAGA
1 TAATTAATATTAAGA
46105150 TAATTA
1 TAATTA
46105156 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:46106810 original size:12 final size:12
Alignment explanation
Indices: 46106793--46106865 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 12
46106783 AGGCAACCCA
46106793 ATTTTTATTTTT
1 ATTTTTATTTTT
46106805 ATTTTTATTTATT
1 ATTTTTATTT-TT
*
46106818 ATTTTT-TTATT
1 ATTTTTATTTTT
*
46106829 -TTTTTA-CTTT
1 ATTTTTATTTTT
*
46106839 ATTTATTA-CTTT
1 ATTT-TTATTTTT
46106851 A-TTTTATTATTT
1 ATTTTTATT-TTT
46106863 ATT
1 ATT
46106866 ACTTATTTGG
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
10 10 0.20
11 7 0.14
12 24 0.48
13 9 0.18
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:46106817 original size:4 final size:4
Alignment explanation
Indices: 46106808--46106865 Score: 50
Period size: 4 Copynumber: 14.5 Consensus size: 4
46106798 TATTTTTATT
* *
46106808 TTTA TTTA -TTA TTTT TTTA TTTT TTTA CTTTA TTTA -TTA CTTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA
46106855 TATTA TTTA TT
1 T-TTA TTTA TT
46106866 ACTTATTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
3 7 0.16
4 29 0.66
5 8 0.18
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:46106829 original size:8 final size:8
Alignment explanation
Indices: 46106794--46106862 Score: 57
Period size: 8 Copynumber: 8.1 Consensus size: 8
46106784 GGCAACCCAA
46106794 TTTTTATT
1 TTTTTATT
*
46106802 TTTATTTTT
1 TTT-TTATT
46106811 ATTTATTATT
1 -TTT-TTATT
46106821 TTTTTATT
1 TTTTTATT
46106829 TTTTTACTT
1 TTTTTA-TT
*
46106838 TATTTATT
1 TTTTTATT
**
46106846 ACTTTATT
1 TTTTTATT
*
46106854 TTATTATT
1 TTTTTATT
46106862 T
1 T
46106863 ATTACTTATT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
8 28 0.56
9 14 0.28
10 8 0.16
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTATT
Found at i:46106863 original size:20 final size:19
Alignment explanation
Indices: 46106795--46106873 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 19
46106785 GCAACCCAAT
46106795 TTTTATT-TTTATT-TTTA
1 TTTTATTATTTATTATTTA
*
46106812 -TTTATTATTTTTTTATTT-
1 TTTTATTA-TTTATTATTTA
46106830 TTTTACTTTATTTATTACTTTA
1 TTTTA--TTATTTATTA-TTTA
*
46106852 TTTTATTATTTATTACTTA
1 TTTTATTATTTATTATTTA
46106871 TTT
1 TTT
46106874 GGATATTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
16 6 0.12
18 5 0.10
19 13 0.25
20 16 0.31
21 6 0.12
22 5 0.10
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTATTATTTATTATTTA
Found at i:46106865 original size:7 final size:7
Alignment explanation
Indices: 46106793--46106872 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
46106783 AGGCAACCCA
46106793 ATTT-TT
1 ATTTATT
46106799 ATTT-TT
1 ATTTATT
46106805 ATTT-TT
1 ATTTATT
46106811 ATTTATT
1 ATTTATT
46106818 A-TT-TT
1 ATTTATT
46106823 -TTTATTT
1 ATTTA-TT
*
46106830 TTTTACTTT
1 ATTTA--TT
46106839 ATTTATT
1 ATTTATT
46106846 ACTTTA-T
1 A-TTTATT
46106853 -TTTATT
1 ATTTATT
46106859 ATTTATT
1 ATTTATT
*
46106866 ACTTATT
1 ATTTATT
46106873 TGGATATTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
5 8 0.13
6 19 0.30
7 21 0.33
8 8 0.13
9 7 0.11
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (7 bp):
ATTTATT
Found at i:46108100 original size:17 final size:17
Alignment explanation
Indices: 46108073--46108113 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
46108063 TTCCTAAAGC
46108073 ATAAA-AAATATAAATA
1 ATAAATAAATATAAATA
*
46108089 ATAAATAAATATAAATC
1 ATAAATAAATATAAATA
46108106 A-AAATAAA
1 ATAAATAAA
46108114 AAAAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAATAAATATAAATA
Found at i:46108706 original size:15 final size:15
Alignment explanation
Indices: 46108681--46108715 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
46108671 AACTCTATTT
*
46108681 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
46108695 TAATTAATATTAAGA
1 TAATTAATATTAAGA
46108710 TAATTA
1 TAATTA
46108716 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:46113936 original size:26 final size:26
Alignment explanation
Indices: 46113907--46113975 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
46113897 CTAATTCTAA
46113907 AAATTTTTAAAAATATATA-AATACAT
1 AAATTTTTAAAAATATATATAATA-AT
* *
46113933 AAATATTTTCAAAAAAATATATGATAAT
1 AAAT-TTTT-AAAAATATATATAATAAT
*
46113961 AAATTTTAAAAAATA
1 AAATTTTTAAAAATA
46113976 ATTTTAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 10 0.28
27 7 0.19
28 16 0.44
29 3 0.08
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (26 bp):
AAATTTTTAAAAATATATATAATAAT
Found at i:46113991 original size:14 final size:14
Alignment explanation
Indices: 46113958--46113991 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
46113948 AATATATGAT
46113958 AATA-AATTTTAAA
1 AATATAATTTTAAA
46113971 AA-ATAATTTTAAA
1 AATATAATTTTAAA
46113984 AATATAAT
1 AATATAAT
46113992 AATAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 13 0.68
14 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAATTTTAAA
Found at i:46114010 original size:19 final size:19
Alignment explanation
Indices: 46113972--46114021 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
46113962 AATTTTAAAA
46113972 AATAATTTTAAAAATATAAT
1 AATAATTTT-AAAATATAAT
*
46113992 AATAATTTTAAAATTTAAT
1 AATAATTTTAAAATATAAT
* *
46114011 ATTAATATTAA
1 AATAATTTTAA
46114022 TATTAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAATTTTAAAATATAAT
Found at i:46114035 original size:5 final size:5
Alignment explanation
Indices: 46114025--46114049 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46114015 ATATTAATAT
46114025 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
46114050 ATCTCTCAAG
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:46114036 original size:25 final size:24
Alignment explanation
Indices: 46113982--46114046 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
46113972 AATAATTTTA
*
46113982 AAAATATAATAATAATTTTAAAAT
1 AAAATATAATAATAATATTAAAAT
** *
46114006 TTAATATTAATATTAATATTAAAAT
1 AAAATA-TAATAATAATATTAAAAT
*
46114031 AAAATAAAATAA-AATA
1 AAAATATAATAATAATA
46114047 AAAATCTCTC
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
23 4 0.12
24 8 0.25
25 20 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAAATATAATAATAATATTAAAAT
Found at i:46117669 original size:25 final size:25
Alignment explanation
Indices: 46117633--46117685 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
46117623 AGCAATATTG
* * *
46117633 AACAGAATAGAACGGAACGGAGCAA
1 AACAGAACAGAACAGAACAGAGCAA
46117658 AACAGAACAGAACAGAACAGAGCAA
1 AACAGAACAGAACAGAACAGAGCAA
46117683 AAC
1 AAC
46117686 GAAGCATGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.57, C:0.19, G:0.23, T:0.02
Consensus pattern (25 bp):
AACAGAACAGAACAGAACAGAGCAA
Found at i:46118060 original size:104 final size:104
Alignment explanation
Indices: 46117880--46118115 Score: 287
Period size: 104 Copynumber: 2.3 Consensus size: 104
46117870 TTATCAACAT
* * * * * *
46117880 GGCCTGGTCACACGCCCATGTTCTTACCTGTGTGTCTCACACAACCTGAGCACACCCCCATGTCC
1 GGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCACACACAACCTGAGCACACACCCATGTCC
** * * *
46117945 CTAGCTGTGTGGTTTTAAAGTGTAAACAGTGAGTTATAC
66 CTAGCCATGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
*
46117984 GGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCACACACAGCCT-AGGCACACACCCATGTC
1 GGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCACACACAACCTGA-GCACACACCCATGTC
* *
46118048 CCT-GACCATGTGGTTCTAAAGCGTAAATAGTGAGTTACCC
65 CCTAG-CCATGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
* **
46118088 GGCCTGGACACATGTTCATGTCCTTGCC
1 GGCCTGGACACACGCCCATGTCCTTGCC
46118116 CATGTGGCTT
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
103 2 0.02
104 111 0.98
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (104 bp):
GGCCTGGACACACGCCCATGTCCTTGCCTGTGTGGCACACACAACCTGAGCACACACCCATGTCC
CTAGCCATGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
Found at i:46118242 original size:146 final size:145
Alignment explanation
Indices: 46118000--46118337 Score: 371
Period size: 146 Copynumber: 2.3 Consensus size: 145
46117990 GACACACGCC
* * * * *
46118000 CATGTCCTTGCCTGTGTGGCACACAC-AGCCT-AGGCACACACCCATGTCCCTGACCATGTGGTT
1 CATGTCCTTGCCCGTGTGGCTCACACGA-CCTGA-GCACACGCCCATGTCCCTGACCATATGATT
* * * * * *
46118063 CTAAAGCGTAAATAGTGAGTTACCCGGCCTGGACACATGTTCATGTCCTTGCCCATGTGGCTTAT
64 CTAAAGCATAAACAGTGAGTTACACGGCCTGGACACATGCTCATGTCCTTACCCATGTGGCTTAC
* *
46118128 ACAGTCTGGGCACTTA-ACT
129 AC-GGCTGGGAAC--ACACT
* ** *
46118147 -ATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACGCCCATGTCCTTGGTCGTATGATTCT
1 CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACGCCCATGTCCCTGACCATATGATTCT
* **
46118211 AAAGCATAAACAGTGAGTTACACGGTCTGGACACATGCTCATGTCCTTACCTGTGTGGCTTACAC
66 AAAGCATAAACAGTGAGTTACACGGCCTGGACACATGCTCATGTCCTTACCCATGTGGCTTACAC
*
46118276 GGCTGGGAACACGCT
131 GGCTGGGAACACACT
* * * *
46118291 CATGTCCTTGCCC-TATGGCTCACACGGCCTGGGCACACGCTCATGTC
1 CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACGCCCATGTC
46118338 ACTAGCCGTG
Statistics
Matches: 162, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
143 1 0.01
144 32 0.20
145 20 0.12
146 107 0.66
147 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (145 bp):
CATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACGCCCATGTCCCTGACCATATGATTCT
AAAGCATAAACAGTGAGTTACACGGCCTGGACACATGCTCATGTCCTTACCCATGTGGCTTACAC
GGCTGGGAACACACT
Found at i:46118295 original size:41 final size:41
Alignment explanation
Indices: 46118228--46118337 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
46118218 AAACAGTGAG
* * * *
46118228 TTACACGGTCT-GGACACATGCTCATGTCCTTACCTGTGTGGC
1 TTACACGGCCTGGGA-ACACGCTCATGTCCTTACC-CTATGGC
*
46118270 TTACACGG-CTGGGAACACGCTCATGTCCTTGCCCTATGGC
1 TTACACGGCCTGGGAACACGCTCATGTCCTTACCCTATGGC
* *
46118310 TCACACGGCCTGGGCACACGCTCATGTC
1 TTACACGGCCTGGGAACACGCTCATGTC
46118338 ACTAGCCGTG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 12 0.20
41 37 0.62
42 11 0.18
ACGTcount: A:0.17, C:0.33, G:0.25, T:0.25
Consensus pattern (41 bp):
TTACACGGCCTGGGAACACGCTCATGTCCTTACCCTATGGC
Found at i:46120495 original size:5 final size:5
Alignment explanation
Indices: 46120480--46120512 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
46120470 ATATAAATAG
46120480 TTATAT TTATT TTATT TTATT TTATT TTATT TT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TT
46120513 TATGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:46122186 original size:124 final size:125
Alignment explanation
Indices: 46121796--46122207 Score: 603
Period size: 125 Copynumber: 3.3 Consensus size: 125
46121786 ATTTATTAAG
* * * *
46121796 GAAACCGCTCCCATGTGGACGCGCTGTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
46121861 GTTTCTGAGCAAATAGTATAAAAAACGCTTCTAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
* * * * * * * *
46121921 GAAATCACTCCTATGTGGAAGCGCTTTTGCTACAGTAGGTCTTGAAAAAATAATTTCGACTTAAA
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
46121986 GTTTCTGAGCAAATAGTATAAAAAATGCTTGAAGTAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
* * *
46122046 GAAATTGCTCCTACGTGGACGCGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
46122111 GTTTTTGAGCAAATAGTAT-AAAAACGCTTCAAGTAGGATGCTTTATCAGAAGACTTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
*
46122170 GAAATCGCTCCCACGTGGACGTG-TTTTCGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTT-GCTACAGTAG
46122208 CATGATTGGG
Statistics
Matches: 256, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
123 4 0.02
124 67 0.26
125 185 0.72
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
Found at i:46125458 original size:49 final size:49
Alignment explanation
Indices: 46125400--46125618 Score: 384
Period size: 49 Copynumber: 4.5 Consensus size: 49
46125390 TAATAATATT
* *
46125400 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
46125449 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
46125498 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* *
46125547 AACTATTTTATATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
46125596 AACTATTTTGTATTGTATTACAT
1 AACTATTTTGTATTTTATTACAT
46125619 TAATATAAAC
Statistics
Matches: 162, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 162 1.00
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:46125476 original size:29 final size:29
Alignment explanation
Indices: 46125444--46125527 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
46125434 AAAATATTCA
46125444 AAATAAACTATTTTGTATTTTATTACATC
1 AAATAAACTATTTTGTATTTTATTACATC
* **
46125473 AAAT-AA-TA---T-CAAATTATT-CA--
1 AAATAAACTATTTTGTATTTTATTACATC
46125493 AAATAAACTATTTTGTATTTTATTACATC
1 AAATAAACTATTTTGTATTTTATTACATC
46125522 AAATAA
1 AAATAA
46125528 TATCAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
20 4 0.10
21 2 0.05
22 4 0.10
23 6 0.15
24 1 0.03
25 1 0.03
26 6 0.15
27 4 0.10
28 2 0.05
29 10 0.25
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (29 bp):
AAATAAACTATTTTGTATTTTATTACATC
Found at i:46126064 original size:18 final size:18
Alignment explanation
Indices: 46126038--46126080 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
46126028 TACTAGAAAA
* *
46126038 AGGAAACATATAAGGGAT
1 AGGATACATAAAAGGGAT
* *
46126056 AGGATACATAAAATGGCT
1 AGGATACATAAAAGGGAT
46126074 AGGATAC
1 AGGATAC
46126081 GCACTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGAT
Found at i:46127929 original size:11 final size:11
Alignment explanation
Indices: 46127913--46127966 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
46127903 TTTAAATAGA
46127913 AATTTGAGAGG
1 AATTTGAGAGG
*
46127924 AATTTGATAGG
1 AATTTGAGAGG
46127935 AATTTGAGA-G
1 AATTTGAGAGG
46127945 AATATT-AGAGAG
1 AAT-TTGAGAG-G
*
46127957 AAATTGAGAG
1 AATTTGAGAG
46127967 AAAAGATTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
10 7 0.19
11 22 0.61
12 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.28
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:46130715 original size:27 final size:27
Alignment explanation
Indices: 46130676--46130760 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
46130666 GTATGGGGTA
* * *
46130676 GGTGGCGCCTATCTGACAAGCGTGACT
1 GGTGGAGCTTATCTGACAGGCGTGACT
*
46130703 GGTGGAGCTTATCTGACAGGCGCGACT
1 GGTGGAGCTTATCTGACAGGCGTGACT
46130730 GGTGGAGCTTATCTGACAGGCGTGACT
1 GGTGGAGCTTATCTGACAGGCGTGACT
46130757 GGTG
1 GGTG
46130761 CTTAATTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.18, C:0.21, G:0.38, T:0.24
Consensus pattern (27 bp):
GGTGGAGCTTATCTGACAGGCGTGACT
Found at i:46134262 original size:33 final size:33
Alignment explanation
Indices: 46134202--46134327 Score: 114
Period size: 33 Copynumber: 3.8 Consensus size: 33
46134192 AACTTGAGCT
* *
46134202 GAGAGGAGTGGAGTACGACAGTAGATACGGGCC
1 GAGAGGAGTGGAGTACGACGGTGGATACGGGCC
* * * *
46134235 GAGATGAGTGAAGTACGATGGTGGATACAGGCC
1 GAGAGGAGTGGAGTACGACGGTGGATACGGGCC
* *
46134268 -AGGAGGAGTGGAGTACGACGTTGGATATGGGCC
1 GA-GAGGAGTGGAGTACGACGGTGGATACGGGCC
* *
46134301 TGA-ATGAGCGGAGTACTGA-GGTGGATA
1 -GAGAGGAGTGGAGTAC-GACGGTGGATA
46134328 TGAGCCGGGA
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
32 1 0.01
33 70 0.95
34 2 0.03
35 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.42, T:0.17
Consensus pattern (33 bp):
GAGAGGAGTGGAGTACGACGGTGGATACGGGCC
Found at i:46134316 original size:66 final size:66
Alignment explanation
Indices: 46134204--46134327 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
46134194 CTTGAGCTGA
*
46134204 GAGGAGTGGAGTACGACAGTAGATACGGGCCGAGATGAGTGAAGTAC-GATGGTGGATACAGGCC
1 GAGGAGTGGAGTACGACAGTAGATACGGGCCGAGATGAGCGAAGTACTGA-GGTGGATACAGGCC
46134268 AG
65 AG
* * *
46134270 GAGGAGTGGAGTACGAC-GTTGGATATGGGCCTGA-ATGAGCGGAGTACTGAGGTGGATA
1 GAGGAGTGGAGTACGACAG-TAGATACGGGCC-GAGATGAGCGAAGTACTGAGGTGGATA
46134328 TGAGCCGGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
65 1 0.02
66 46 0.90
67 4 0.08
ACGTcount: A:0.28, C:0.12, G:0.42, T:0.18
Consensus pattern (66 bp):
GAGGAGTGGAGTACGACAGTAGATACGGGCCGAGATGAGCGAAGTACTGAGGTGGATACAGGCCA
G
Found at i:46134328 original size:33 final size:33
Alignment explanation
Indices: 46134276--46134369 Score: 88
Period size: 33 Copynumber: 2.9 Consensus size: 33
46134266 CCAGGAGGAG
*
46134276 TGGAGTAC-GACGTTGGATATGGGCCTGAATGAGC
1 TGGAGTACTGA-GGTGGATATGGGCCTGAATG-GC
* * *
46134310 -GGAGTACTGAGGTGGATATGAGCCGGGATGGC
1 TGGAGTACTGAGGTGGATATGGGCCTGAATGGC
*
46134342 TGGAGTACTGGGGTGG-TAGTGGG-CTGAA
1 TGGAGTACTGAGGTGGATA-TGGGCCTGAA
46134370 GATATCAAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
32 7 0.14
33 40 0.82
34 2 0.04
ACGTcount: A:0.21, C:0.12, G:0.45, T:0.22
Consensus pattern (33 bp):
TGGAGTACTGAGGTGGATATGGGCCTGAATGGC
Found at i:46135469 original size:18 final size:17
Alignment explanation
Indices: 46135439--46135474 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
46135429 ATCAACATTT
*
46135439 TTATAAATCAATAAAAA
1 TTATAAATAAATAAAAA
46135456 TTATCAAATAAATAAAAA
1 TTAT-AAATAAATAAAAA
46135474 T
1 T
46135475 CAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TTATAAATAAATAAAAA
Found at i:46135484 original size:28 final size:26
Alignment explanation
Indices: 46135443--46135501 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
46135433 ACATTTTTAT
46135443 AAATC-AATAAAAATTATCAAATAAATAA
1 AAATCAAATAAAAATTA-C-AATAAA-AA
*
46135471 AAATCAAAT-AAAATTACATTAAAAA
1 AAATCAAATAAAAATTACAATAAAAA
46135496 AAATCA
1 AAATCA
46135502 CAAAACACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.28
26 5 0.17
27 1 0.03
28 12 0.41
29 3 0.10
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (26 bp):
AAATCAAATAAAAATTACAATAAAAA
Found at i:46135617 original size:101 final size:102
Alignment explanation
Indices: 46135478--46135734 Score: 394
Period size: 101 Copynumber: 2.5 Consensus size: 102
46135468 TAAAAATCAA
*
46135478 ATAAAATTACATTA-AAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
1 ATAAAATTACATTACTAAAAAATCACAAAACACT-AACTAAACACTAACAATTTATATAACCTAA
*
46135542 TCATAAATTACTAACAAAATAACTAT-AAATTTTTTTT
65 TCATAAATTACTAACAAAATAACTATAAAATTATTTTT
* * *
46135579 TTAAAA-TACATTACTAAAAAATCACAAAACACATAACTAAACCCTAACAATTTATATAACCTAC
1 ATAAAATTACATTACTAAAAAATCACAAAACAC-TAACTAAACACTAACAATTTATATAACCTAA
*
46135643 TCATAAATTATTAACAAAATAACTATAAAATTATTTTT
65 TCATAAATTACTAACAAAATAACTATAAAATTATTTTT
* *
46135681 AAAAAATTACATTACTAAAAAATCACAAAACCCTATACTAAACACTAACAATTT
1 ATAAAATTACATTACTAAAAAATCACAAAACACTA-ACTAAACACTAACAATTT
46135735 GTAACATAAT
Statistics
Matches: 141, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
100 7 0.05
101 75 0.53
102 17 0.12
103 42 0.30
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.30
Consensus pattern (102 bp):
ATAAAATTACATTACTAAAAAATCACAAAACACTAACTAAACACTAACAATTTATATAACCTAAT
CATAAATTACTAACAAAATAACTATAAAATTATTTTT
Found at i:46135755 original size:103 final size:103
Alignment explanation
Indices: 46135480--46135767 Score: 392
Period size: 101 Copynumber: 2.8 Consensus size: 103
46135470 AAAATCAAAT
* *
46135480 AAAATTACATTA-AAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT-
1 AAAATTACATTACTAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAATC
* * **
46135543 CATAAATTACTAACAAAATAACTATAAATTTTTTTTTT
66 CATAAATTATTAACAAAATAACTATAAATTATTTTTAA
* *
46135581 AAAA-TACATTACTAAAAAATCACAAAACAC-ATAACTAAACCCTAACAATTTATATAACCTACT
1 AAAATTACATTACTAAAAAATCACAAAACACTAT-ACTAAACACTAACAATTTATATAACCTAAT
46135644 -CATAAATTATTAACAAAATAACTATAAAATTATTTTTAA
65 CCATAAATTATTAACAAAATAACTAT-AAATTATTTTTAA
* * *
46135683 AAAATTACATTACTAAAAAATCACAAAACCCTATACTAAACACTAACAA-TT-TGTAACATAATC
1 AAAATTACATTACTAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAAT-
*
46135746 CCATTAATTATTAACAAAATAA
65 CCATAAATTATTAACAAAATAA
46135768 ATAACTATAA
Statistics
Matches: 166, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
100 8 0.05
101 81 0.49
102 16 0.10
103 59 0.36
104 2 0.01
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (103 bp):
AAAATTACATTACTAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAATC
CATAAATTATTAACAAAATAACTATAAATTATTTTTAA
Found at i:46136034 original size:60 final size:60
Alignment explanation
Indices: 46135962--46136083 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
46135952 AACTAAGCAT
* *
46135962 AACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAACAC
1 AACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAAC
*
46136022 AACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAC
1 AACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAAC
46136082 AA
1 AA
46136084 AAAAAATTAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
AACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAAC
Found at i:46136247 original size:4 final size:4
Alignment explanation
Indices: 46136238--46136297 Score: 52
Period size: 4 Copynumber: 14.8 Consensus size: 4
46136228 ATACATTACC
* *
46136238 TTCT TTCT TTCT TTC- TTC- TTCT TTTT TTCT TCTCCT TTCT CTCCT TTCT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T-T-CT TTCT -TTCT TTCT
*
46136287 TTCT CTCT TTC
1 TTCT TTCT TTC
46136298 GGTGCTTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 6 0.13
4 32 0.70
5 5 0.11
6 3 0.07
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (4 bp):
TTCT
Found at i:46136290 original size:13 final size:12
Alignment explanation
Indices: 46136238--46136297 Score: 56
Period size: 10 Copynumber: 5.2 Consensus size: 12
46136228 ATACATTACC
*
46136238 TTCTTTCTTTCT
1 TTCTTTCTCTCT
46136250 TTC-TTCT-TCT
1 TTCTTTCTCTCT
*
46136260 TTTTTTCT-TC-
1 TTCTTTCTCTCT
*
46136270 TCCTTTCTCTCCT
1 TTCTTTCTCT-CT
46136283 TTCTTTCTCTCT
1 TTCTTTCTCTCT
46136295 TTC
1 TTC
46136298 GGTGCTTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 11 0.28
11 11 0.28
12 9 0.22
13 9 0.22
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCTTTCTCTCT
Found at i:46136454 original size:27 final size:27
Alignment explanation
Indices: 46136419--46136500 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
46136409 AGGGGGTAGG
* *
46136419 CAGTGGCGCCTACCTGACAGGCGCGAC
1 CAGTTGCGCCTATCTGACAGGCGCGAC
46136446 CAGTTGCGCCTATCTGACAGGCGCGAC
1 CAGTTGCGCCTATCTGACAGGCGCGAC
46136473 CAGTTGCGCCTATCTGACAGGCGCGAC
1 CAGTTGCGCCTATCTGACAGGCGCGAC
46136500 C
1 C
46136501 TGTCTCAAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.16
Consensus pattern (27 bp):
CAGTTGCGCCTATCTGACAGGCGCGAC
Found at i:46147173 original size:26 final size:26
Alignment explanation
Indices: 46147130--46147190 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
46147120 GGCAAAAAAT
* * **
46147130 TAAAAATAAAATATTATTAAATTTTAA
1 TAAAAATATAACATTATTAAAAATT-A
46147157 TAAAAATATAACA-TATTAAAAATTA
1 TAAAAATATAACATTATTAAAAATTA
46147182 TAAAAATAT
1 TAAAAATAT
46147191 TATAAAAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 9 0.30
27 11 0.37
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
TAAAAATATAACATTATTAAAAATTA
Found at i:46147222 original size:27 final size:28
Alignment explanation
Indices: 46147184--46147238 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
46147174 AAAAATTATA
*
46147184 AAAATATTATAAAAATCGTA-AAAAAAT
1 AAAATATTATAAAAATCATACAAAAAAT
*
46147211 AAAATTTTATAAAAATCATACAAAAAAT
1 AAAATATTATAAAAATCATACAAAAAAT
46147239 TATAAAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAATATTATAAAAATCATACAAAAAAT
Found at i:46154130 original size:17 final size:17
Alignment explanation
Indices: 46154100--46154133 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46154090 AATAAAATAA
*
46154100 TCAAATATTAATTTTAT
1 TCAAAAATTAATTTTAT
*
46154117 TCAAAAATTCATTTTAT
1 TCAAAAATTAATTTTAT
46154134 CTATTAAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
TCAAAAATTAATTTTAT
Found at i:46154853 original size:19 final size:20
Alignment explanation
Indices: 46154829--46154867 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
46154819 TTAATTTCTT
46154829 TTAAAATTTA-AAAACATTA
1 TTAAAATTTATAAAACATTA
*
46154848 TTAAAATTTATAAAATATTA
1 TTAAAATTTATAAAACATTA
46154868 AATAAAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAATTTATAAAACATTA
Found at i:46159415 original size:38 final size:38
Alignment explanation
Indices: 46159373--46159486 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 38
46159363 ATTGATGATT
* * *
46159373 GCATGCCTATTGTTACTGTTGAATTAAATACATGTTAA
1 GCATGTCTATTGTTACTGTTGAACTGAATACATGTTAA
* * **
46159411 GCATGTCTACTATTACTACTGAACTGAATACATGTTAA
1 GCATGTCTATTGTTACTGTTGAACTGAATACATGTTAA
* * *
46159449 GAATGTCTATTGTTATTGTTGAACCGAATACATGTTAA
1 GCATGTCTATTGTTACTGTTGAACTGAATACATGTTAA
46159487 ACATATTTAC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (38 bp):
GCATGTCTATTGTTACTGTTGAACTGAATACATGTTAA
Found at i:46160208 original size:54 final size:54
Alignment explanation
Indices: 46160148--46160268 Score: 206
Period size: 54 Copynumber: 2.2 Consensus size: 54
46160138 TTTATATTGC
*
46160148 ATGCATGACATTTAATTTGAATATAGGATATTGAAATATAAATATTAATTAATT
1 ATGCATGAAATTTAATTTGAATATAGGATATTGAAATATAAATATTAATTAATT
* **
46160202 ATGCATGAGATTTAATTTGAATATAGGATATTGAAATATGGATATTAATTAATT
1 ATGCATGAAATTTAATTTGAATATAGGATATTGAAATATAAATATTAATTAATT
46160256 ATGCATGAAATTT
1 ATGCATGAAATTT
46160269 TGGTCTTTAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.40
Consensus pattern (54 bp):
ATGCATGAAATTTAATTTGAATATAGGATATTGAAATATAAATATTAATTAATT
Found at i:46169872 original size:13 final size:13
Alignment explanation
Indices: 46169854--46169881 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46169844 AAATCTTCAT
46169854 TGTTGTGGAAAAG
1 TGTTGTGGAAAAG
46169867 TGTTGTGGAAAAG
1 TGTTGTGGAAAAG
46169880 TG
1 TG
46169882 CTTTTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (13 bp):
TGTTGTGGAAAAG
Found at i:46169896 original size:13 final size:13
Alignment explanation
Indices: 46169880--46169912 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
46169870 TGTGGAAAAG
46169880 TGCTTTTAAGAAA
1 TGCTTTTAAGAAA
46169893 TGCTTTTAAGAAA
1 TGCTTTTAAGAAA
46169906 TGCTTTT
1 TGCTTTT
46169913 GAAAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (13 bp):
TGCTTTTAAGAAA
Found at i:46175575 original size:3 final size:3
Alignment explanation
Indices: 46175567--46175615 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
46175557 GTAATGTGCT
46175567 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46175615 T
1 T
46175616 CCTTTTCTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46185435 original size:46 final size:46
Alignment explanation
Indices: 46185357--46185633 Score: 401
Period size: 46 Copynumber: 6.0 Consensus size: 46
46185347 ACAATGCTAT
* *
46185357 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
46185403 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
46185449 AACTCAGTGTGGTTTTCTTTACCGAAACACCATATCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
46185495 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * * * *
46185541 AACTCAATATGGATTTCTTTACCGAAATAACATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* **
46185587 AACTCAATATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
46185633 A
1 A
46185634 CTTTGCCATG
Statistics
Matches: 209, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 209 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:46185605 original size:138 final size:138
Alignment explanation
Indices: 46185357--46185633 Score: 455
Period size: 138 Copynumber: 2.0 Consensus size: 138
46185347 ACAATGCTAT
* *
46185357 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAGTATGGTTTTCTT
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAATATGGATTTCTT
* * * * * *
46185422 TACTGAAACACCATACCTACTTTTCACAACTCAGTGTGGTTTTCTTTACCGAAACACCATATCTA
66 TACCGAAACAACATACCTACTTTTCACAACTCAATATGGTTTTCTTCACCGAAACACCATACCTA
46185487 CTTTTCAC
131 CTTTTCAC
46185495 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAATATGGATTTCTT
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAATATGGATTTCTT
* **
46185560 TACCGAAATAACATACCTACTTTTCACAACTCAATATGGTTTTCTTCATTGAAACACCATACCTA
66 TACCGAAACAACATACCTACTTTTCACAACTCAATATGGTTTTCTTCACCGAAACACCATACCTA
46185625 CTTTTCAC
131 CTTTTCAC
46185633 A
1 A
46185634 CTTTGCCATG
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
138 128 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (138 bp):
AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCACAACTCAATATGGATTTCTT
TACCGAAACAACATACCTACTTTTCACAACTCAATATGGTTTTCTTCACCGAAACACCATACCTA
CTTTTCAC
Found at i:46192280 original size:78 final size:78
Alignment explanation
Indices: 46192185--46192563 Score: 495
Period size: 78 Copynumber: 4.9 Consensus size: 78
46192175 AACTTATAGT
*
46192185 GGATAATATATGTATATACATGTATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGTATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
46192250 TATATATAAAGTTC
65 TATATATAAAGTTC
46192264 GGATATATATGTATATACAT-TAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGATATATATGTATATACATGT-ATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
46192328 TATATATAAAGTTC
65 TATATATAAAGTTC
*
46192342 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGTATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
46192407 ATATATAAAGTTC
66 ATATATAAAGTTC
* * * * *
46192420 GGATATATGTGTATATACATGAATAAGTTC-TGAATTTAGTT-AATGT-TGAATGTTATA--TAT
1 GGATATATATGTATATACATGTATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
* * *
46192480 GTTTACAAGAGGTTC
66 ATATATAA-A-GTTC
** * * * * *
46192495 GGATAGGTATGTATATATGA-GTATAAATTCTTGGATTTTA-TTAAAAGTATGGATGTTACATAT
1 GGATATATATGTATATA-CATGTATAAATTCTT-GAATTTAGTTAAAAGTATGTATGTTATATTT
46192558 ATATAT
64 ATATAT
46192564 GTATAATATA
Statistics
Matches: 268, Mismatches: 21, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
73 8 0.03
74 1 0.00
75 36 0.13
76 8 0.03
77 22 0.08
78 184 0.69
79 4 0.01
80 5 0.02
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (78 bp):
GGATATATATGTATATACATGTATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:46193272 original size:41 final size:41
Alignment explanation
Indices: 46193161--46193458 Score: 393
Period size: 41 Copynumber: 7.2 Consensus size: 41
46193151 CATTTCAGAC
* ** * *
46193161 TATAAGTCTAGCAGGCTAAAAGTCGGTG-TACTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGAT-CTGAACCAGGT
* * *
46193202 TTTAAAACCTAGCAGGCTAAGTGTCGGTGATCTGAACCAGGT
1 TAT-AAGCCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGT
* *
46193244 TATAAGCCTAGCAGGCTAAGTGCTGGTGATCTAAACCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGT
* *
46193285 TATAAGCCTAGCAGGCTAAGTGCCAGTGATCTGAACTAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGT
*
46193326 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGC
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGT
* * *
46193367 TATAAGCCTAGCAGGCTAAGTGCCGATGATTTGAATCAGGT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGT
* *
46193408 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCT
1 TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGG-T
46193450 T-TAAGCCTA
1 TATAAGCCTA
46193459 ACAGATATGA
Statistics
Matches: 229, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
41 193 0.84
42 35 0.15
43 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (41 bp):
TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGT
Found at i:46199842 original size:292 final size:290
Alignment explanation
Indices: 46199080--46199953 Score: 1604
Period size: 290 Copynumber: 3.0 Consensus size: 290
46199070 TCTGACAGGC
* *
46199080 AACCACATATGTGAATTTCATCAAAGAGGCACCTTTCTCGTGGCCTTTAAATAGCAAATTCAGAG
1 AACCACATATGTGAATTTCATCAAAGAGGCGCCTTTCTCATGGCCTTTAAATAGCAAATTCAGAG
*
46199145 AACTACTTGCTCCACCTAAACTCTTGGAAGAAGGTGACACCTTAGAGTTGAAACCATCCAAACTA
66 AACTACTTGCTCCACCTAAACTCCTGGAAGAAGGTGACACCTTAGAGTTGAAACCATCCAAACTA
46199210 ACATCTTCTCCCACAGAACCAAGTTCTTGTATCCCTTCTCTAATATCCATCTCCGAAGCAGAATC
131 ACATCTTCTCCCACAGAACCAAGTTCTTGTATCCCTTCTCTAATATCCATCTCCGAAGCAGAATC
*
46199275 AAGGAAAGCCAGCATCTTTAGAGCTCTATAATAGTACATCATTCCTCTGACAGTTTGAAAAAGTG
196 AAGGAAAGCCAGCATCTTTAGAGCTCTATAATAGTACATCATTCCTCTGACAGTTCGAAAAAGTG
46199340 TCTGACCTCTGTAAGATGCCCAGAGCCTCA
261 TCTGACCTCTGTAAGATGCCCAGAGCCTCA
*
46199370 AACCACATATGTGAATTTCATCAAAGAGGTGCCTTTCTCATGGCCTTTAAATAGCAAATTCAGAG
1 AACCACATATGTGAATTTCATCAAAGAGGCGCCTTTCTCATGGCCTTTAAATAGCAAATTCAGAG
*
46199435 AACTACTTGCTCCACCTAAACTCCTAGAAGAAGGTGACACCTTAGAGTTGAAACCATCCAAACTA
66 AACTACTTGCTCCACCTAAACTCCTGGAAGAAGGTGACACCTTAGAGTTGAAACCATCCAAACTA
*
46199500 ACATCTTCTCCCACAGAACCAAGTTCTTGTATCCCTTCTCTAATATCCATCTCTGAAGCAGAATC
131 ACATCTTCTCCCACAGAACCAAGTTCTTGTATCCCTTCTCTAATATCCATCTCCGAAGCAGAATC
* *
46199565 AAGGAAAGCCAGCATATTTAGATCTCTATAATAGTACATCATTCCTCTGACAGTTCGAAAAAGTG
196 AAGGAAAGCCAGCATCTTTAGAGCTCTATAATAGTACATCATTCCTCTGACAGTTCGAAAAAGTG
46199630 TCTGACCTCTGTAAGATGCCCAGAGCCTCA
261 TCTGACCTCTGTAAGATGCCCAGAGCCTCA
*
46199660 AACCATACATATGTGAATTTCATCAAAGATGCGCCTTTCTCATGGCCTTTAAATAGCAAATTCAG
1 AACC--ACATATGTGAATTTCATCAAAGAGGCGCCTTTCTCATGGCCTTTAAATAGCAAATTCAG
*
46199725 ATAACTACTTGCTCCACCTAAACTCCTGGAAGAAGGTGACACCTTAGAGTTGAAACCATCCAAAC
64 AGAACTACTTGCTCCACCTAAACTCCTGGAAGAAGGTGACACCTTAGAGTTGAAACCATCCAAAC
46199790 TAACATCTTCTCCCACAGAACCAAGTTCTTGTATCCCTTCTCTAATATCCATCTCCGAAGCAGAA
129 TAACATCTTCTCCCACAGAACCAAGTTCTTGTATCCCTTCTCTAATATCCATCTCCGAAGCAGAA
* *
46199855 TCAAGGAAAGCCAGCATCTTTAGAGCTCTATAATAGTACATCACTCCTCTGATAGTTCGAAAAAG
194 TCAAGGAAAGCCAGCATCTTTAGAGCTCTATAATAGTACATCATTCCTCTGACAGTTCGAAAAAG
*
46199920 TGTCTGGCCTCTGTAAGATGCCCAGAGCCTCA
259 TGTCTGACCTCTGTAAGATGCCCAGAGCCTCA
46199952 AA
1 AA
46199954 TCTCTTAGCT
Statistics
Matches: 563, Mismatches: 19, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
290 285 0.51
292 278 0.49
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (290 bp):
AACCACATATGTGAATTTCATCAAAGAGGCGCCTTTCTCATGGCCTTTAAATAGCAAATTCAGAG
AACTACTTGCTCCACCTAAACTCCTGGAAGAAGGTGACACCTTAGAGTTGAAACCATCCAAACTA
ACATCTTCTCCCACAGAACCAAGTTCTTGTATCCCTTCTCTAATATCCATCTCCGAAGCAGAATC
AAGGAAAGCCAGCATCTTTAGAGCTCTATAATAGTACATCATTCCTCTGACAGTTCGAAAAAGTG
TCTGACCTCTGTAAGATGCCCAGAGCCTCA
Found at i:46206740 original size:51 final size:51
Alignment explanation
Indices: 46206668--46206800 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
46206658 CCATCAAATC
* * *
46206668 TCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTATCTAAGATA
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * * * *
46206719 TGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAGATC
1 TCTAAGATTATAATATCATATCTTATAAGATTACATATCATATCTAAGATA
*
46206770 TCTAAGATTATAATATCATATCTTTTAAGAT
1 TCTAAGATTATAATATCATATCTTATAAGAT
46206801 CATGTTTCCA
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.41
Consensus pattern (51 bp):
TCTAAGATTATAATATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:46207870 original size:96 final size:96
Alignment explanation
Indices: 46207706--46207995 Score: 465
Period size: 96 Copynumber: 3.0 Consensus size: 96
46207696 TCGCTTCTTT
* *
46207706 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCATT
* *
46207771 GTCTGCTCCATCGTTTCCTTTGATGACAGAC
66 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
46207802 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCATT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCATT
*
46207867 GTCTGCTCCATCGTTCCCTTCGATGACAGAT
66 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
*
46207898 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCA-
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCT-CAT
* * * * *
46207962 TATCTGCTCGATCATTCCCATCGATAACAGAC
65 TGTCTGCTCCATCGTTCCCTTCGATGACAGAC
46207994 TT
1 TT
46207996 CCTCGGACAC
Statistics
Matches: 181, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 179 0.99
97 2 0.01
ACGTcount: A:0.12, C:0.33, G:0.18, T:0.36
Consensus pattern (96 bp):
TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCATT
GTCTGCTCCATCGTTCCCTTCGATGACAGAC
Found at i:46216929 original size:132 final size:132
Alignment explanation
Indices: 46216770--46217896 Score: 1389
Period size: 132 Copynumber: 8.5 Consensus size: 132
46216760 ATAGACAGCA
46216770 GAGCAGATCAAAGATGGC-GAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GAGCAGATCAAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * * * *
46216834 ATTCTA-CTTTCCTAGGCTGCAGCGGAATAGATTGAGGATTTTAGATCTTGCCTCCCTAAGCAGT
65 ATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGCCTCCCTAAGCAGT
46216898 AGTG
129 AGTG
* * *
46216902 GAGCAGGTCAAAGATGGC-GAATTTTACCTCCCTTTGGTTACGGTGGAGTACATTGAAGCCAGTA
1 GAGCAGATCAAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * ** *
46216966 ATTTTA-CTTCCCTGGGCTGCAGCAGAATAGATTGAGGATTTTAGATCTTGCCTCCCTAAGCAGT
65 ATTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGCCTCCCTAAGCAGT
46217030 AGTG
129 AGTG
* ** *
46217034 GAGCAGGTCAAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
** * *
46217099 TTCTA-CTTCCCTGAACAGTAGTGGAATAGATTGAGGATTTTAGATCTTGCCTCCCTAAGCAGTA
66 TTCTATC-TCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGCCTCCCTAAGCAGTA
46217163 GTG
130 GTG
* * *
46217166 GAGCAGGTCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
* *
46217231 TTCTATCTCCCTGGGCAGCAGTGGAATAGACTGAAGATTTTAGATCTTGCCTTCCT--GCA-TAG
66 TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGCCTCCCTAAGCAGTAG
46217293 ATAG
131 -T-G
* * ** *
46217297 CGAAGTAGATCGAAGACAGCAGATTTTACCTCCCTGTGGTTGCAGTGGAGTACATTGAAGCCAGT
1 -G-AGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
** *
46217362 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGT
64 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGCCTCCCTAAGCAGT
*
46217427 GGTG
129 AGTG
* *
46217431 GAGCATATCAAAGATGACAGATTTTACCT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTA
* ** *
46217495 ATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTA
65 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGCCTCCCTAAGCAGTA
46217560 GTG
130 GTG
*
46217563 GAGCAGATCAAAGATGGCAGATTTTACCTCTCC-GTGGTTACAGTGGAGTACATTGAAGCCATTA
1 GAGCAGATCAAAGATGGCAGATTTTACCTC-CCTGTGGTTACAGTGGAGTACATTGAAGCCAGTA
* * ** *
46217627 ATTCTATCTCCCTAGGCAGAAGTGGAATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTA
65 ATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGCCTCCCTAAGCAGTA
46217692 GTG
130 GTG
* * ** *
46217695 GAGCAGATCAAATATGGCAGATTTTACCTCCCTGAGGTTGTAGTGGAGTATATTGAAGCCAGTAA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
* * * ** *** *
46217760 TTCTAT-TCCCCCGGTCGGCAGTGGAAGTAGATCAAAGATACCAGATCTTGTCTTCCC-ATA-CT
66 TTCTATCT-CCCTGGGCAGCAGTGGAA-TAGATTGAAGATTTTAGATCTTG-CCTCCCTA-AGC-
* * *
46217822 GGTGGCG
126 AGTAGTG
* * ** * *
46217829 AAGCAGATCGAAGATGGCAGATTTTACCTCCCTAAGATTACAGTGGAGTACATTGAAGCCAGTTA
1 GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
46217894 TTC
66 TTC
46217897 CTATTTCCTT
Statistics
Matches: 894, Mismatches: 83, Indels: 34
0.88 0.08 0.03
Matches are distributed among these distances:
129 3 0.00
130 4 0.00
131 7 0.01
132 672 0.75
133 131 0.15
134 71 0.08
135 4 0.00
136 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (132 bp):
GAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA
TTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTTAGATCTTGCCTCCCTAAGCAGTAG
TG
Found at i:46217417 original size:44 final size:44
Alignment explanation
Indices: 46217367--46217702 Score: 157
Period size: 44 Copynumber: 7.6 Consensus size: 44
46217357 CCAGTAATTC
*
46217367 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* ** ** * * ** * *
46217411 TGTCTCCCTAAGCAGTGGTGGAGCATATCAAAGATGACAGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* ** * * *
46217455 TACCTCCTCGTGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCC-C-TGGGCAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* *
46217499 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* ** * * ** ** *
46217543 TGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* ** * *
46217587 TACCTCTCCGTGGTTA-CAGTGGAGTACATTGAAGCCATTA-A-TTC-
1 TA--TCTCCCTGGGCAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * *
46217631 TATCTCCCTAGGCAGAAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* ** * *
46217675 TGTCTCCCTAAGCAGTAGTGGAGCAGAT
1 TATCTCCCTGGGCAGCAGTGGAGTAGAT
46217703 CAAATATGGC
Statistics
Matches: 201, Mismatches: 75, Indels: 32
0.65 0.24 0.10
Matches are distributed among these distances:
41 7 0.03
42 14 0.07
43 36 0.18
44 101 0.50
45 28 0.14
46 11 0.05
47 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:46217720 original size:529 final size:530
Alignment explanation
Indices: 46216735--46217896 Score: 1542
Period size: 529 Copynumber: 2.2 Consensus size: 530
46216725 GAGCAGGTTG
* * * *
46216735 AAGATAACAGATCTTGCCTTCTTGCATAGACAGC-AGAGCAGATCAAAGATGGC-GAATTTTACC
1 AAGATACCAGATCTTGCCTTCCTGCATAGATAGCGA-AGCAGATCGAAGATGGCAG-ATTTTACC
* *
46216798 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTTCCTAGGCTGCAGCGGAATA
64 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGCGGAATA
* ** * *
46216863 GATTGAGGATTTTAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCGAATTTTA
129 GATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGAATTTTA
* * * **
46216928 CCTCCCTTTGGTTACGGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCTGGGCTGCAGCAGAA
194 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGCAGAA
* ** * **
46216993 TAGATTGAGGATTTTAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTGGATTT
259 TAGATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTT
*
46217058 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGAACAGTAGTGG
324 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGAACAGAAGTGG
* ** * *
46217123 AATAGATTGAGGATTTTAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCGGAT
389 AATAGATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGAT
* *
46217188 TTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTA-TCTCCCTGGGCAGCAG
454 TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATTC-CCCCGGGCAGCAG
*
46217252 TGGAA-TAGA-CTG
518 TGGAAGTAGATC-A
*** * **
46217264 AAGATTTTAGATCTTGCCTTCCTGCATAGATAGCGAAGTAGATCGAAGACAGCAGATTTTACCTC
1 AAGATACCAGATCTTGCCTTCCTGCATAGATAGCGAAGCAGATCGAAGATGGCAGATTTTACCTC
* * *
46217329 CCTGTGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGTGGAATAG
66 CCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTAGGCAGCAGCGGAATAG
* * *
46217393 ATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTGGTGGAGCATATCAAAGATGAC-AGATTTTA
130 ATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGA-ATTTTA
**
46217457 CCT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAACAGTGG
194 CCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAACAGCAG
*
46217520 AATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGAT
257 AATAGATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGAT
* *
46217585 TTTACCTCTCC-GTGGTTACAGTGGAGTACATTGAAGCCATTAATTCTA-TCTCCCT-AGGCAGA
322 TTTACCTC-CCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACT-TCCCTGA-ACAGA
* *
46217647 AGTGGAATAGATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAATATGG
384 AGTGGAATAGATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
** * * * *
46217712 CAGATTTTACCTCCCTGAGGTTGTAGTGGAGTATATTGAAGCCAGTAATTCTATTCCCCCGGTCG
449 CAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATTCCCCCGGGCA
46217777 GCAGTGGAAGTAGATCA
514 GCAGTGGAAGTAGATCA
* * *
46217794 AAGATACCAGATCTTGTCTTCC--CATACTGGTGGCGAAGCAGATCGAAGATGGCAGATTTTACC
1 AAGATACCAGATCTTGCCTTCCTGCATA--GATAGCGAAGCAGATCGAAGATGGCAGATTTTACC
** * *
46217857 TCCCTAAGATTACAGTGGAGTACATTGAAGCCAGTTATTC
64 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
46217897 CTATTTCCTT
Statistics
Matches: 550, Mismatches: 69, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
528 12 0.02
529 444 0.81
530 93 0.17
531 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (530 bp):
AAGATACCAGATCTTGCCTTCCTGCATAGATAGCGAAGCAGATCGAAGATGGCAGATTTTACCTC
CCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGCGGAATAGA
TTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGACGAATTTTACC
TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAACAGCAGAATA
GATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGAACAGAAGTGGAA
TAGATTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATTCCCCCGGGCAGCAGTGG
AAGTAGATCA
Found at i:46219740 original size:13 final size:12
Alignment explanation
Indices: 46219717--46219757 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
46219707 TTTTGTTTGC
46219717 AAATTTACTTGT
1 AAATTTACTTGT
46219729 AAATTGTACTTGT
1 AAATT-TACTTGT
* *
46219742 ATATATACTTGT
1 AAATTTACTTGT
46219754 AAAT
1 AAAT
46219758 ATTTATTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (12 bp):
AAATTTACTTGT
Found at i:46225590 original size:67 final size:67
Alignment explanation
Indices: 46225482--46225612 Score: 203
Period size: 67 Copynumber: 2.0 Consensus size: 67
46225472 TTTTCAATTC
*
46225482 AGAGAGCACACTCCCGTGAACCTCATTTCTTTCAACGGGATTACCAGTCC-AGACTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTTCAACGGGATTACCAGTCCAAG-CTAAATCCCCT
46225546 ACA
65 ACA
* *
46225549 AGAGAGCACACTCTCGCGAACCTCATTTCTTAT-AGCGGGATTACCAGTCCAAGCTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCATTTCTT-TCAACGGGATTACCAGTCCAAGCTAAATCCCCT
46225613 GCAACAACAA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
67 56 0.95
68 3 0.05
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTTCAACGGGATTACCAGTCCAAGCTAAATCCCCTA
CA
Found at i:46225774 original size:57 final size:60
Alignment explanation
Indices: 46225706--46225821 Score: 177
Period size: 57 Copynumber: 2.0 Consensus size: 60
46225696 GCTAAATCCA
46225706 TTTTCCACATATTCTTCGGGAGGGCTATA-T-CA-A-GATCACCCGTCCGGGCTAGATAT
1 TTTTCCACATATTCTTCGGGAGGGCTATATTACATAGGATCACCCGTCCGGGCTAGATAT
*
46225762 TTTTCACACATATTCTTCGGGAGGGCTATATTAGGATAGGATCACCCGTCCGGGCTAGAT
1 TTTTC-CACATATTCTTCGGGAGGGCTATATTA-CATAGGATCACCCGTCCGGGCTAGAT
46225822 CCTTTTTACC
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
56 5 0.09
57 24 0.45
58 1 0.02
60 1 0.02
61 1 0.02
62 21 0.40
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (60 bp):
TTTTCCACATATTCTTCGGGAGGGCTATATTACATAGGATCACCCGTCCGGGCTAGATAT
Found at i:46229487 original size:44 final size:45
Alignment explanation
Indices: 46229377--46230020 Score: 327
Period size: 44 Copynumber: 14.7 Consensus size: 45
46229367 CCGGCCTTAA
* **
46229377 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATTCGTAG
*
46229422 TCTGACT-CACTGCAACTTCAGGAAGATAAGACTTG-C-TTACGTAG
1 TCTG-CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATT-CGTAG
* * ** *
46229466 TCTGCTCCACTACAACCTCAGGGAGATGTGA-TTAG--ATGCG-A-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCCATTCGTAG
* * * *** * *
46229507 TCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTGAGGTT-TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCCATTCGTAG
* * * * * *
46229550 TCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCGGC-TT--TAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-T-GCCATTCGTAG
* * * *
46229594 TCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGCCA-TCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATTC-GTAG
*
46229639 TCTGC-CTTACTGCAACTTCA-GGAGGATAAGACTTG-C-TTACGTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCATT-CGTAG
* * * *** * *
46229683 TCTGCTCCACTGCAACCTCAGGGAGATAGGA-TTGTCGGCCTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATTCGTAG
* *
46229727 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA-TCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATTCGT-AG
* * *
46229772 TCTGC-CTCACTGCAACTTCAGGAAGATAAGACCTG-C-TTGCTTAG
1 TCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTGCCATT-CGTAG
* * * * *
46229816 TCTGCTCCACTACAACTTTAGGGAAATAAGACTAG--ATGCG-A-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATTCGTAG
* * * * * *
46229857 TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCTGTG--GTT-TTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCATTCGTAG
* * *
46229900 TCTGCTCAACTGCAACTTCAGGGAGAT-AGAATTGTCGGC-TT--TAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-C--CATTCGTAG
* * * *
46229944 TCTGCTCCACTGTAACTTCAGGGATATAAGATTTGCC-TTCTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATTCGTAG
*
46229988 TCTGCTCCACTGTAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
46230021 CGATCTGCTA
Statistics
Matches: 473, Mismatches: 81, Indels: 91
0.73 0.13 0.14
Matches are distributed among these distances:
40 39 0.08
41 17 0.04
42 14 0.03
43 27 0.06
44 260 0.55
45 113 0.24
46 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATTCGTAG
Found at i:46229641 original size:217 final size:217
Alignment explanation
Indices: 46229245--46229710 Score: 716
Period size: 217 Copynumber: 2.1 Consensus size: 217
46229235 TTTGCTATCT
* * *
46229245 TAGTCTGCTCCACTGCAATCTTCAGGGAAATAAGACTAGATGCGATCTTCTCTCTATAACTTCAG
1 TAGTCTGCTCCACTGCAA-CCTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTATAACTTCAG
* * *
46229310 AGAGATAAGATCTGTGATTTCAATCCGTTCCACTACAATTTCAGGGAGATAGGATTACCGGCCTT
65 AGAGATAAGATCTGAGATTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACCGGCCTT
*
46229375 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTTTTAGTCTGACTCACTGCAACTT
130 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGACTCACTGCAACTT
46229440 CAGGAAGATAAGACTTGCTTACG
195 CAGGAAGATAAGACTTGCTTACG
* ** * *
46229463 TAGTCTGCTCCACTACAACCTCAGGGAGATGTGATTAGATGCGATCTGCTCTCTGTAACTTCAGA
1 TAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTATAACTTCAGA
* * ** * *
46229528 GAGATAAGATCTGAGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTA
66 GAGATAAGATCTGAGATTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACCGGCCTTA
* * * *
46229593 ATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTTACTGCAACTTC
131 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGACTCACTGCAACTTC
*
46229658 AGGAGGATAAGACTTGCTTACG
196 AGGAAGATAAGACTTGCTTACG
46229680 TAGTCTGCTCCACTGCAACCTCAGGGAGATA
1 TAGTCTGCTCCACTGCAACCTCAGGGAGATA
46229711 GGATTGTCGG
Statistics
Matches: 223, Mismatches: 25, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
217 206 0.92
218 17 0.08
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (217 bp):
TAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTATAACTTCAGA
GAGATAAGATCTGAGATTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACCGGCCTTA
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGACTCACTGCAACTTC
AGGAAGATAAGACTTGCTTACG
Found at i:46229839 original size:133 final size:133
Alignment explanation
Indices: 46229553--46229839 Score: 448
Period size: 133 Copynumber: 2.2 Consensus size: 133
46229543 GTTTTAATCC
* * * *
46229553 GCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGTAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCCTTAATCTGCTCCACTGCAACTTCAGGGA
* * * *
46229618 GATAAGATTTGCCATCTTTAGTCTGCCTTACTGCAACTTCAGGAGGATAAGACTTGCTTACGTAG
66 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAAGATAAGACCTGCTTACGTAG
46229683 TCT
131 TCT
* *
46229686 GCTCCACTGCAACCTCAGGGAGATAGGATTGTCGGCCTTAATCTGCTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCCTTAATCTGCTCCACTGCAACTTCAGGGA
* *
46229751 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAAGATAAGACCTGCTTGCTTAG
66 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAAGATAAGACCTGCTTACGTAG
46229816 TCT
131 TCT
* *
46229819 GCTCCACTACAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGA
46229840 AATAAGACTA
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 139 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (133 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCCTTAATCTGCTCCACTGCAACTTCAGGGA
GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAAGATAAGACCTGCTTACGTAG
TCT
Found at i:46229943 original size:350 final size:349
Alignment explanation
Indices: 46229350--46230020 Score: 1058
Period size: 350 Copynumber: 1.9 Consensus size: 349
46229340 CACTACAATT
46229350 TCAGGGAGATAGGATTACCGGCCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
1 TCAGGGAGATAGGATTACCGGCCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
* * *
46229415 TTTTTAGTCTGACTCACTGCAACTTCAGGAAGATAAGACTTGCTTACGTAGTCTGCTCCACTACA
66 TCTTCAGTCTGACTCACTGCAACTTCAGGAAGATAAGACCTGCTTACGTAGTCTGCTCCACTACA
* ** * *
46229480 ACCTCAGGGAGATGTGATTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGAGGT
131 ACCTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGT
* * *
46229545 TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGTAAC
196 TTTAATCCGCTCAACTGCAACTTCAGGGAGATAGAATTATCGGCTTTAATCTGCTCCACTGTAAC
* *
46229610 TTTAGGGAGATAAGATTTGCCATCTTTAGTCTGC-CTTACTGCAACTTCA-GGAGGATAAGACTT
261 TTCAGGGAGATAAGATTTGCCATC-TTAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTT
46229673 GCTTACGTAGTCTGCTCCACTGCAACC
323 GCTTACGTAGTCTGCTCCACTGCAACC
**
46229700 TCAGGGAGATAGGATTGTCGGCCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
1 TCAGGGAGATAGGATTACCGGCCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
* * *
46229765 TCTTCAGTCTGCCTCACTGCAACTTCAGGAAGATAAGACCTGCTTGCTTAGTCTGCTCCACTACA
66 TCTTCAGTCTGACTCACTGCAACTTCAGGAAGATAAGACCTGCTTACGTAGTCTGCTCCACTACA
* * * *
46229830 ACTTTAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTGTGGT
131 ACCTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGT
* *
46229895 TTTAATCTGCTCAACTGCAACTTCAGGGAGATAGAATTGTCGGCTTTAATCTGCTCCACTGTAAC
196 TTTAATCCGCTCAACTGCAACTTCAGGGAGATAGAATTATCGGCTTTAATCTGCTCCACTGTAAC
* * *
46229960 TTCAGGGATATAAGATTTGCCTTCTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGACT
261 TTCAGGGAGATAAGATTTGCCATCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
46230021 CGATCTGCTA
Statistics
Matches: 292, Mismatches: 27, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
349 29 0.10
350 263 0.90
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (349 bp):
TCAGGGAGATAGGATTACCGGCCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
TCTTCAGTCTGACTCACTGCAACTTCAGGAAGATAAGACCTGCTTACGTAGTCTGCTCCACTACA
ACCTCAGGGAAATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGT
TTTAATCCGCTCAACTGCAACTTCAGGGAGATAGAATTATCGGCTTTAATCTGCTCCACTGTAAC
TTCAGGGAGATAAGATTTGCCATCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCT
TACGTAGTCTGCTCCACTGCAACC
Found at i:46248654 original size:19 final size:18
Alignment explanation
Indices: 46248618--46248655 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
46248608 TTGTTCGAAC
46248618 ATTTTAATATTTTGTAAA
1 ATTTTAATATTTTGTAAA
46248636 ATTTTAAATAATTTT-TAAA
1 ATTTT-AAT-ATTTTGTAAA
46248655 A
1 A
46248656 AAACTCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTTAATATTTTGTAAA
Found at i:46252564 original size:15 final size:15
Alignment explanation
Indices: 46252544--46252573 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46252534 GTAAACAGAA
*
46252544 AAGAAAAGAAAGATT
1 AAGAAAACAAAGATT
46252559 AAGAAAACAAAGATT
1 AAGAAAACAAAGATT
46252574 GGGATTGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.17, T:0.13
Consensus pattern (15 bp):
AAGAAAACAAAGATT
Found at i:46254270 original size:31 final size:31
Alignment explanation
Indices: 46254232--46254306 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
46254222 ATGTTAATGG
*
46254232 GTGACTGATTTGTCACTTTTCGATAACGTTA
1 GTGACTGATTTGTCACTTTTCGATAACATTA
*
46254263 GTGACTGATTCGTCACTTTTCGATAACATTA
1 GTGACTGATTTGTCACTTTTCGATAACATTA
46254294 GTGACTGATTTGT
1 GTGACTGATTTGT
46254307 TATTTTTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (31 bp):
GTGACTGATTTGTCACTTTTCGATAACATTA
Found at i:46255855 original size:18 final size:18
Alignment explanation
Indices: 46255832--46255867 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46255822 GTTTTTCATT
*
46255832 AAGAAAATCGAGGGAGAA
1 AAGAAAAACGAGGGAGAA
*
46255850 AAGAAAAACGGGGGAGAA
1 AAGAAAAACGAGGGAGAA
46255868 GGACAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.36, T:0.03
Consensus pattern (18 bp):
AAGAAAAACGAGGGAGAA
Found at i:46256208 original size:34 final size:35
Alignment explanation
Indices: 46256164--46256230 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
46256154 CAGTAAAATA
*
46256164 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
46256198 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
46256231 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:46264812 original size:19 final size:18
Alignment explanation
Indices: 46264759--46264814 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
46264749 AGATTAAGCT
46264759 TAAAATTTATTAAAATATTA
1 TAAAATTTATT-AAA-ATTA
*
46264779 TAAAATTTGTATAAAATTA
1 TAAAATTTAT-TAAAATTA
*
46264798 TAGACATTTATTAAAAT
1 TA-AAATTTATTAAAAT
46264815 ATTATAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 12 0.39
20 18 0.58
21 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (18 bp):
TAAAATTTATTAAAATTA
Found at i:46265306 original size:19 final size:20
Alignment explanation
Indices: 46265260--46265307 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
46265250 ATAATATGCT
46265260 AATAATTTTCGACAACTTTC
1 AATAATTTTCGACAACTTTC
* *
46265280 AGTGATTTTC-ACAA-TTTGC
1 AATAATTTTCGACAACTTT-C
46265299 AATAATTTT
1 AATAATTTT
46265308 TTTAGAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.13
19 12 0.52
20 8 0.35
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
AATAATTTTCGACAACTTTC
Found at i:46265759 original size:3 final size:3
Alignment explanation
Indices: 46265751--46265788 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
46265741 CTTTACTCTT
46265751 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
46265789 TTCTTTCCGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46268645 original size:3 final size:3
Alignment explanation
Indices: 46268637--46268667 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
46268627 AGTTTACCCT
46268637 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46268668 GTGGCATTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:46274944 original size:23 final size:23
Alignment explanation
Indices: 46274918--46274986 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
46274908 ATAAGTGCCA
46274918 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46274941 CACTGATATGTAGTC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
*
46274964 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46274987 ACATGCTAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
22 1 0.02
23 39 0.95
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46277705 original size:54 final size:54
Alignment explanation
Indices: 46277573--46277716 Score: 207
Period size: 54 Copynumber: 2.6 Consensus size: 54
46277563 TTTACAGCGG
* * * * *
46277573 GATTACTAGTTCATGCTAAATCCCATGTAATATAAACTCATAGAGTATTATCGG
1 GATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTATCGA
* *
46277627 GATTGCCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTGTCGA
1 GATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTATCGA
*
46277681 GATTACCAGTCCAGGCTAAATCCCCTGCAATGATAA
1 GATTACCAGTCCAGGCTAAATCCCCTGTAAT-ATAA
46277717 TTACTCTAAT
Statistics
Matches: 80, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 76 0.95
55 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (54 bp):
GATTACCAGTCCAGGCTAAATCCCCTGTAATATAAACTCATAGAGTATTATCGA
Found at i:46282290 original size:51 final size:51
Alignment explanation
Indices: 46282183--46282411 Score: 220
Period size: 51 Copynumber: 4.5 Consensus size: 51
46282173 TATCATTCGA
** * * **
46282183 TACACATAGTACTACACACGTGTTCA--AACTTTCCGGTTCATGTAGTAGCC
1 TACACATAGTACTACACACGTGACCATTAA-TATCCGGTACACATAGTAGCC
* * * *
46282233 TGCACATAATACTACACACGTGACCATTAATATCCGATACACGTAGTAGCC
1 TACACATAGTACTACACACGTGACCATTAATATCCGGTACACATAGTAGCC
* * * *
46282284 TGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCATAGTAGCC
1 TACACATAGTACTACACACGTGA-CCATTA-ATATCCGGTACACATAGTAGCC
* *
46282335 TACACATAGTACTACACA--TGCAACATTTCAT-TCCGGTACACATAGTAGCC
1 TACACATAGTACTACACACGTG-ACCA-TTAATATCCGGTACACATAGTAGCC
46282385 TACACATAGTACTACACACGTGACCAT
1 TACACATAGTACTACACACGTGACCAT
46282412 CACTTTCACT
Statistics
Matches: 148, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
49 3 0.02
50 61 0.41
51 78 0.53
52 6 0.04
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (51 bp):
TACACATAGTACTACACACGTGACCATTAATATCCGGTACACATAGTAGCC
Found at i:46282381 original size:101 final size:100
Alignment explanation
Indices: 46282183--46282407 Score: 274
Period size: 101 Copynumber: 2.2 Consensus size: 100
46282173 TATCATTCGA
* * * ** *
46282183 TACACATAGTACTACACACGTGTTCAAACTTTCCGGTTCATGTAGTAGCCTGCACATAATACTAC
1 TACACATAGTACTACACACGTGATCAAACTATCCGGTACACATAGTAGCCTACACATAATACTAC
* *
46282248 ACACGTGACCATTAATATCCGATACACGTAGTAGCC
66 ACAC-TGAACATTAATATCCGATACACATAGTAGCC
* * * *
46282284 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATAGTACTA
1 TACACATAGTACTACACACGTGATC-AAACTATCCGGTACACATAGTAGCCTACACATAATACTA
* *
46282349 CACA-TGCAACATTTCAT-TCCGGTACACATAGTAGCC
65 CACACTG-AACA-TTAATATCCGATACACATAGTAGCC
46282385 TACACATAGTACTACACACGTGA
1 TACACATAGTACTACACACGTGA
46282408 CCATCACTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
100 2 0.02
101 65 0.61
102 39 0.37
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (100 bp):
TACACATAGTACTACACACGTGATCAAACTATCCGGTACACATAGTAGCCTACACATAATACTAC
ACACTGAACATTAATATCCGATACACATAGTAGCC
Found at i:46282430 original size:101 final size:99
Alignment explanation
Indices: 46282183--46282441 Score: 256
Period size: 101 Copynumber: 2.6 Consensus size: 99
46282173 TATCATTCGA
* * ** *
46282183 TACACATAGTACTACACACGTGTTCAAACTTTCCGGTTCATGTAGTAGCCTGCACATAATACTAC
1 TACACATAGTACTACACACGTG-ACCAACTTTCCGGTTCACATAGTAGCCTACACATAATACTAC
* *
46282248 ACACGTGACCATTAATATCCGATACACGTAGTAGCC
65 ACAC-TGAACATTAATATCCGATACACATAGTAGCC
* * * * * *
46282284 TGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTACACATAGTACTA
1 TACACATAGTACTACACACGTGA-CCAA-CTTTCCGGTTCACATAGTAGCCTACACATAATACTA
* *
46282349 CACA-TGCAACATTTCAT-TCCGGTACACATAGTAGCC
64 CACACTG-AACA-TTAATATCCGATACACATAGTAGCC
*
46282385 TACACATAGTACTACACACGTGACCATCACTTTCAC-TTTCACATAGT-GACCTACACA
1 TACACATAGTACTACACACGTGACCA--ACTTTC-CGGTTCACATAGTAG-CCTACACA
46282442 CAGTCCATGT
Statistics
Matches: 130, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
100 5 0.04
101 86 0.66
102 39 0.30
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.25
Consensus pattern (99 bp):
TACACATAGTACTACACACGTGACCAACTTTCCGGTTCACATAGTAGCCTACACATAATACTACA
CACTGAACATTAATATCCGATACACATAGTAGCC
Found at i:46288906 original size:23 final size:23
Alignment explanation
Indices: 46288880--46288948 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
46288870 ATAAATGCCA
46288880 CACTAATATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* *
46288903 CACTGATATGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
*
46288926 CACTAAAATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
46288949 ACATGCTAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:46290917 original size:20 final size:19
Alignment explanation
Indices: 46290872--46290918 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
46290862 TTTTTATAGT
46290872 TTTTTTATAAGTTTGTACA
1 TTTTTTATAAGTTTGTACA
* *
46290891 TTATTTTATAATTTTTTACAA
1 TT-TTTTATAAGTTTGTAC-A
46290912 TTTTTTA
1 TTTTTTA
46290919 AATCTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTTTATAAGTTTGTACA
Found at i:46291226 original size:33 final size:33
Alignment explanation
Indices: 46291189--46291251 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
46291179 AGCTCACGGA
**
46291189 ATCAGCTCGTAGGAATCGAAGGGAGCTTGCCGT
1 ATCAGCTCACAGGAATCGAAGGGAGCTTGCCGT
*
46291222 ATCAGCTCACAGGAATCGAAGGGAGTTTGC
1 ATCAGCTCACAGGAATCGAAGGGAGCTTGC
46291252 AGTCCTAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.21
Consensus pattern (33 bp):
ATCAGCTCACAGGAATCGAAGGGAGCTTGCCGT
Found at i:46292913 original size:163 final size:162
Alignment explanation
Indices: 46292643--46292970 Score: 566
Period size: 163 Copynumber: 2.0 Consensus size: 162
46292633 TTCAATGAAA
* *
46292643 TAATGCTAGTCAAAATCAGCATCCCATTGATGACTCCAAATTTTGTTATTCATTTTCAACCTAAT
1 TAATGCTAGTCAAAATAAGCATCCCACTGATGACTCCAAATTTTGTTATTCATTTTCAACCTAAT
*
46292708 GTGTTGACAGATATACTTAGGACTCAATTAAATTAATTTGATGCATTGAAGGTTTTTATCAGCAT
66 GTGTTCACAGATATACTTAGGACTCAATTAAATTAATTTGATGCATTGAAGGTTTTTATCAGCAT
46292773 TCATTAATTATTATTTTAAGAAATCGTTTTTAT
131 TCATTAATTATTATTTTAAGAAATCG-TTTTAT
*
46292806 TAATGCTAGTCAAAATAAGCATCCCACTGATGACTCCAATTTTTGTTATTCATTTTCAACCTAAT
1 TAATGCTAGTCAAAATAAGCATCCCACTGATGACTCCAAATTTTGTTATTCATTTTCAACCTAAT
* * * *
46292871 GTGTTCACAGATATCCTTAGGATTCAATTCAATTAATTTGATGCATTGACGGTTTTTATCAGCAT
66 GTGTTCACAGATATACTTAGGACTCAATTAAATTAATTTGATGCATTGAAGGTTTTTATCAGCAT
*
46292936 TCATTCATTATTATTTTAAGAAATCGTTTTAT
131 TCATTAATTATTATTTTAAGAAATCGTTTTAT
46292968 TAA
1 TAA
46292971 ATTCAAATTT
Statistics
Matches: 156, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
162 9 0.06
163 147 0.94
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (162 bp):
TAATGCTAGTCAAAATAAGCATCCCACTGATGACTCCAAATTTTGTTATTCATTTTCAACCTAAT
GTGTTCACAGATATACTTAGGACTCAATTAAATTAATTTGATGCATTGAAGGTTTTTATCAGCAT
TCATTAATTATTATTTTAAGAAATCGTTTTAT
Found at i:46293794 original size:15 final size:16
Alignment explanation
Indices: 46293770--46293803 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46293760 ATAGTTTTAA
*
46293770 TTAATTTTA-TTTATT
1 TTAATATTATTTTATT
46293785 TTAATATTATTTTATT
1 TTAATATTATTTTATT
46293801 TTA
1 TTA
46293804 TAAAAATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTAATATTATTTTATT
Found at i:46293798 original size:20 final size:19
Alignment explanation
Indices: 46293764--46293801 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
46293754 GAAGAAATAG
46293764 TTTTAATTAATTTTATTTA
1 TTTTAATTAATTTTATTTA
*
46293783 TTTTAATATTATTTTATTT
1 TTTTAAT-TAATTTTATTT
46293802 TATAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATTAATTTTATTTA
Found at i:46294002 original size:14 final size:15
Alignment explanation
Indices: 46293970--46294003 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46293960 ATTTTATAAC
* *
46293970 TTTTCAATACTTAAT
1 TTTTCAACACCTAAT
46293985 TTTTCAACACCTAAT
1 TTTTCAACACCTAAT
46294000 TTTT
1 TTTT
46294004 TAATTTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTCAACACCTAAT
Found at i:46296294 original size:19 final size:19
Alignment explanation
Indices: 46296272--46296317 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
46296262 ATTTATTTTA
*
46296272 TTTTTTATTTCTTTCCTTC
1 TTTTTTATTTATTTCCTTC
* *
46296291 TTTTTTAATTATTTCTTTC
1 TTTTTTATTTATTTCCTTC
*
46296310 TTTCTTAT
1 TTTTTTAT
46296318 CATCACTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTATTTATTTCCTTC
Found at i:46298112 original size:22 final size:24
Alignment explanation
Indices: 46298062--46298114 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
46298052 AATTAGGGTC
* *
46298062 ATTTTTGCAATATTTTCTTTTTTG
1 ATTTTTGTAATATTTTCATTTTTG
46298086 A-TTTTGTAAT-TTTT-ATTTTTG
1 ATTTTTGTAATATTTTCATTTTTG
46298107 ATTTTTGT
1 ATTTTTGT
46298115 GTATTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 7 0.27
22 10 0.38
23 8 0.31
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.09, T:0.70
Consensus pattern (24 bp):
ATTTTTGTAATATTTTCATTTTTG
Found at i:46298164 original size:21 final size:22
Alignment explanation
Indices: 46298124--46298173 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
46298114 TGTATTTTGT
*
46298124 AATTTAATAAAATATAATAAAA
1 AATTAAATAAAATATAATAAAA
* *
46298146 TATTAAATAAAA-ATTATAAAA
1 AATTAAATAAAATATAATAAAA
46298167 AATTAAA
1 AATTAAA
46298174 CATTAGTGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTAAATAAAATATAATAAAA
Found at i:46303289 original size:2 final size:2
Alignment explanation
Indices: 46303282--46303309 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
46303272 AGCTCTGCTT
46303282 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
46303310 AGTTCGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:46305848 original size:29 final size:28
Alignment explanation
Indices: 46305816--46305882 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
46305806 ATCGAACTTG
* *
46305816 AATTTTAAAATTCTAAAATA-GAGAGAATA
1 AATTTTAAAAAT-AAAAATATGAGA-AATA
*
46305845 AATTTTTAAAAATAAAAATATGAGAATTA
1 AA-TTTTAAAAATAAAAATATGAGAAATA
46305874 AATTTTAAA
1 AATTTTAAA
46305883 TTTATAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 7 0.21
29 13 0.39
30 13 0.39
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.34
Consensus pattern (28 bp):
AATTTTAAAAATAAAAATATGAGAAATA
Found at i:46305891 original size:28 final size:27
Alignment explanation
Indices: 46305816--46305892 Score: 66
Period size: 29 Copynumber: 2.7 Consensus size: 27
46305806 ATCGAACTTG
46305816 AATTTTAAAATTCTAAAATAGAGAGAATA
1 AATTTT-AAATT-TAAAATAGAGAGAATA
* * *
46305845 AATTTTTAAAAATAAAAATATGAGA-ATTA
1 AA-TTTT-AAATTTAAAATA-GAGAGAATA
46305874 AATTTTAAATTTATAAATA
1 AATTTTAAATTTA-AAATA
46305893 ATATAAGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
27 5 0.12
28 9 0.22
29 13 0.32
30 13 0.32
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (27 bp):
AATTTTAAATTTAAAATAGAGAGAATA
Found at i:46307119 original size:21 final size:22
Alignment explanation
Indices: 46307084--46307127 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
46307074 TACAATATCC
46307084 AAACAACAACAAAAT-GATAGCA
1 AAACAACAACAAAATAG-TAGCA
*
46307106 AAACAACAGC-AAATAGTAGCA
1 AAACAACAACAAAATAGTAGCA
46307127 A
1 A
46307128 GAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.61, C:0.18, G:0.11, T:0.09
Consensus pattern (22 bp):
AAACAACAACAAAATAGTAGCA
Found at i:46309480 original size:23 final size:22
Alignment explanation
Indices: 46309437--46309496 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
46309427 TATTATTTCT
*
46309437 AAAAAT-ATATTAAAAGCAAATTC
1 AAAAATAATATT--AAGCAAATAC
46309460 AAAAATAATATTAAGCTAAATAC
1 AAAAATAATATTAAGC-AAATAC
*
46309483 TAAAATAATATTAA
1 AAAAATAATATTAA
46309497 AAACAATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 4 0.12
23 24 0.73
24 5 0.15
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (22 bp):
AAAAATAATATTAAGCAAATAC
Done.