Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 132 of 290
Found at i:44889908 original size:17 final size:16
Alignment explanation
Indices: 44889877--44889915 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
44889867 AATTTATATA
44889877 TATAATAAAATAATTG
1 TATAATAAAATAATTG
*
44889893 TATAATATATATAATTG
1 TATAATA-AAATAATTG
44889910 TATAAT
1 TATAAT
44889916 GGTATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (16 bp):
TATAATAAAATAATTG
Found at i:44890091 original size:10 final size:10
Alignment explanation
Indices: 44890058--44890112 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
44890048 ATTTGTGAAA
44890058 AATAATATAT
1 AATAATATAT
* *
44890068 AGTAA-ACAAT
1 AATAATA-TAT
44890078 AATAATATAT
1 AATAATATAT
44890088 AATAATATAAT
1 AATAATAT-AT
*
44890099 TATAATATAT
1 AATAATATAT
44890109 AATA
1 AATA
44890113 CAAAGATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 25 0.69
11 10 0.28
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:44890097 original size:18 final size:18
Alignment explanation
Indices: 44890076--44890126 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
44890066 ATAGTAAACA
44890076 ATAATAATATATAATAAT
1 ATAATAATATATAATAAT
*
44890094 ATAATTATA-ATATATAAT
1 ATAATAATATATA-ATAAT
*
44890112 ACAA-AGATATATAAT
1 ATAATA-ATATATAAT
44890127 CATTACGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAATAATATATAATAAT
Found at i:44892507 original size:11 final size:11
Alignment explanation
Indices: 44892491--44892519 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
44892481 ATTGGTGTCA
44892491 GCCATAAGGGT
1 GCCATAAGGGT
44892502 GCCATAAGGGT
1 GCCATAAGGGT
44892513 GCCATAA
1 GCCATAA
44892520 CCCTCGGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (11 bp):
GCCATAAGGGT
Found at i:44897161 original size:29 final size:30
Alignment explanation
Indices: 44897107--44897163 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
44897097 GGAAAGAAAA
* * *
44897107 TTTATATTTTCCATCTTTTTATTTTTTCCC
1 TTTATATTTTCCATATTTCTAATTTTTCCC
44897137 TTTA-ATTTTCCATATTTCTAATTTTTC
1 TTTATATTTTCCATATTTCTAATTTTTC
44897164 ATTCCTAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTATATTTTCCATATTTCTAATTTTTCCC
Found at i:44897917 original size:21 final size:22
Alignment explanation
Indices: 44897879--44897921 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
44897869 GGTTAACATG
*
44897879 ATAATAACTATAATAAAATAAA
1 ATAATAACTATAAAAAAATAAA
*
44897901 ATAATTAC-ATAAAAAAATAAA
1 ATAATAACTATAAAAAAATAAA
44897922 TAAAACATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAATAACTATAAAAAAATAAA
Found at i:44908065 original size:31 final size:32
Alignment explanation
Indices: 44908025--44908091 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
44908015 AAAATTTAAA
* *
44908025 AATTTAAAAAATACAAAAATAAAAATTGACC-
1 AATTCAAAAAATACAAAAATAAAAATTCACCG
* *
44908056 AATTCAAAAAATATAAAAATTAAAATTCACCG
1 AATTCAAAAAATACAAAAATAAAAATTCACCG
44908088 AATT
1 AATT
44908092 AAAGTATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.25
Consensus pattern (32 bp):
AATTCAAAAAATACAAAAATAAAAATTCACCG
Found at i:44908082 original size:23 final size:24
Alignment explanation
Indices: 44908039--44908084 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
44908029 TAAAAAATAC
*
44908039 AAAAATAAAAATTGACCAATTCAA
1 AAAAATAAAAATTGACAAATTCAA
44908063 AAAATATAAAAATT-A-AAATTCA
1 AAAA-ATAAAAATTGACAAATTCA
44908085 CCGAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATAAAAATTGACAAATTCAA
Found at i:44910218 original size:383 final size:383
Alignment explanation
Indices: 44909471--44910239 Score: 1006
Period size: 383 Copynumber: 2.0 Consensus size: 383
44909461 CTACTCGTAA
* * * * *
44909471 CTAAGTATCATTCCCATTCAAAGTATGTTACACAATCATTTTCGAGTCCCACACGAGCTTATGGA
1 CTAAGTACCATTCCCATTAAAAGTATGTTACACAATCATTTTCAAGTCCCACACGAGCTTACGAA
* * * **
44909536 AGCTCTTTTGCTAACTCCGGCATGAATTAGGACCAAATTATAATGTTCTAAAAATTCCGGGTTGA
66 AGCTCTTTTGCTAACTCCGACATGAATTAGGACCAAATTATAAAGTTCTAAAAATTCCAGGCCGA
* *
44909601 CATCGCGACTTCATAATTTCCTTGATGCAACCACATCAACTCAGTGAGTTAGGTTGCAACATCAA
131 CATCACGACTTCATAATTTCCTTGATGCAACCACATCAACTCAGTGAGTTACGTTGCAACATCAA
* * *
44909666 GCCTTTCAACATCGCGACACCACTTACTGTCGGACGAAGTTGCGAAGTCAAAATTTCTTGGTTGC
196 ACCTCTCAACATCGCAACACCACTTACTGTCGGACGAAGTTGCGAAGTCAAAATTTCTTGGTTGC
* * * * * *
44909731 AATGTTGCCCCTATTTTTTACAAAATACACTTTTTTTTTATACCTATTCAATAATTTCCAACCAA
261 AACGTTGCCCATATTCTTGACAAAATACACTTTTCTTTTATACCTATTCAATAATTTCCAAACAA
44909796 ATCATATGTTCACATTCAATCATTTACCAATCCTACCTATGCCAAATCATGACAAAAC
326 ATCATATGTTCACATTCAATCATTTACCAATCCTACCTATGCCAAATCATGACAAAAC
* *
44909854 CTAAGTACCATTCCTATTAAAAGTATGTTACACAATCA-TTTCTAAGTCCCACATGAGCTTACGA
1 CTAAGTACCATTCCCATTAAAAGTATGTTACACAATCATTTTC-AAGTCCCACACGAGCTTACGA
* * *
44909918 AAGCTCTTTTGCTAACT-TGAACATGAATTAGGACCAAATTATAAAGTTTTAAAAATTTCAGGCC
65 AAGCTCTTTTGCTAACTCCG-ACATGAATTAGGACCAAATTATAAAGTTCTAAAAATTCCAGGCC
* * * * *
44909982 GACGTCACGACTTCATAATTT-CTTTATCGCGACCACGTCAACTCAGTGAGTTACGTTGCAACGT
129 GACATCACGACTTCATAATTTCCTTGAT-GCAACCACATCAACTCAGTGAGTTACGTTGCAACAT
* * ** * * * ***
44910046 CAAATCTCTCCACATCGCAACGTCACTTATTGTCGGATGAAGTTGCGATGTTGGAATTTCTTGGT
193 CAAACCTCTCAACATCGCAACACCACTTACTGTCGGACGAAGTTGCGAAGTCAAAATTTCTTGGT
* * * **
44910111 TGCAACGTTGCCCATGTTCTTGGCAAAATACA-TTTTCTTTTGTACCTATTCAATAATTTTGAAA
258 TGCAACGTTGCCCATATTCTTGACAAAATACACTTTTCTTTTATACCTATTCAATAATTTCCAAA
* * * ** *
44910175 CAAATCATATGTTTATATTCAATCAATTTACGAATTTTACCTATGCCAGATCATGACAAAAC
323 CAAATCATATGTTCACATTCAATC-ATTTACCAATCCTACCTATGCCAAATCATGACAAAAC
44910237 CTA
1 CTA
44910240 TTATAGCAAG
Statistics
Matches: 330, Mismatches: 52, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
382 59 0.18
383 271 0.82
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (383 bp):
CTAAGTACCATTCCCATTAAAAGTATGTTACACAATCATTTTCAAGTCCCACACGAGCTTACGAA
AGCTCTTTTGCTAACTCCGACATGAATTAGGACCAAATTATAAAGTTCTAAAAATTCCAGGCCGA
CATCACGACTTCATAATTTCCTTGATGCAACCACATCAACTCAGTGAGTTACGTTGCAACATCAA
ACCTCTCAACATCGCAACACCACTTACTGTCGGACGAAGTTGCGAAGTCAAAATTTCTTGGTTGC
AACGTTGCCCATATTCTTGACAAAATACACTTTTCTTTTATACCTATTCAATAATTTCCAAACAA
ATCATATGTTCACATTCAATCATTTACCAATCCTACCTATGCCAAATCATGACAAAAC
Found at i:44914985 original size:20 final size:21
Alignment explanation
Indices: 44914946--44914985 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44914936 GTTATAATGA
*
44914946 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
44914967 CCACATGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
44914986 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:44919199 original size:24 final size:23
Alignment explanation
Indices: 44919172--44919244 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
44919162 CATTTTCCTA
44919172 TTTTTATTTTTTGTTTATTATTAT
1 TTTTTATTTTTT-TTTATTATTAT
* ** *
44919196 TTTTTATTAATTCATTCTTATTAT
1 TTTTTATT-TTTTTTTATTATTAT
*
44919220 TTTTTATTTTATTTTATT-TTAT
1 TTTTTATTTTTTTTTATTATTAT
44919242 TTT
1 TTT
44919245 ATTTTGTATC
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 7 0.18
23 5 0.13
24 25 0.64
25 2 0.05
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (23 bp):
TTTTTATTTTTTTTTATTATTAT
Found at i:44919231 original size:5 final size:5
Alignment explanation
Indices: 44919173--44919249 Score: 68
Period size: 5 Copynumber: 14.8 Consensus size: 5
44919163 ATTTTCCTAT
* * *
44919173 TTTTA TTTTT TGTTTA TTATTA TTTT- TTATTA ATTCA TTCTTA TTATT-
1 TTTTA TTTTA T-TTTA TT-TTA TTTTA TT-TTA TTTTA TT-TTA TT-TTA
44919221 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
44919250 GTATCTTATT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
4 4 0.07
5 39 0.66
6 16 0.27
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:44919236 original size:17 final size:17
Alignment explanation
Indices: 44919173--44919264 Score: 61
Period size: 17 Copynumber: 5.5 Consensus size: 17
44919163 ATTTTCCTAT
*
44919173 TTTTATTTTTT-GTTTA
1 TTTTATTTTTTATTTTA
44919189 TTATTATTTTTTATTAATTCA
1 TT-TTATTTTTTATT--TT-A
*
44919210 TTCTTA-TTATT-TTTTA
1 TT-TTATTTTTTATTTTA
44919226 TTTTA--TTTTATTTTA
1 TTTTATTTTTTATTTTA
* *
44919241 TTTTATTTTGTATCTTA
1 TTTTATTTTTTATTTTA
44919258 -TTTATTT
1 TTTTATTT
44919265 CATTATTCTA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
14 3 0.05
15 13 0.21
16 12 0.19
17 19 0.31
18 1 0.02
19 2 0.03
20 6 0.10
21 6 0.10
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTTATTTTA
Found at i:44919246 original size:27 final size:27
Alignment explanation
Indices: 44919173--44919264 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 27
44919163 ATTTTCCTAT
*
44919173 TTTTATTTTTTGTTTATTATTATTTTTTA
1 TTTTATTTTAT-TTTATT-TTATTTTTTA
* *
44919202 --TTAATTCATTCTTA--TTATTTTTTA
1 TTTTATTTTATT-TTATTTTATTTTTTA
*
44919226 TTTTATTTTATTTTATTTTATTTTGTA
1 TTTTATTTTATTTTATTTTATTTTTTA
*
44919253 TCTTA-TTTATTT
1 TTTTATTTTATTT
44919265 CATTATTCTA
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
24 10 0.20
25 3 0.06
26 16 0.31
27 22 0.43
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (27 bp):
TTTTATTTTATTTTATTTTATTTTTTA
Found at i:44921009 original size:6 final size:6
Alignment explanation
Indices: 44920993--44921054 Score: 65
Period size: 6 Copynumber: 10.5 Consensus size: 6
44920983 ATTTATTTTC
* * *
44920993 TTTTA- TTTTAT TTTTAT CTTTAT TTTTAG TTTTAT TTCTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
44921040 GTTTT-T TGTTAT TTT
1 -TTTTAT TTTTAT TTT
44921055 CTTAGACTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
5 8 0.17
6 34 0.74
7 4 0.09
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:44921016 original size:12 final size:11
Alignment explanation
Indices: 44920984--44921054 Score: 65
Period size: 12 Copynumber: 6.2 Consensus size: 11
44920974 ATTGAGTCCA
*
44920984 TTTATTTT-CT
1 TTTATTTTATT
44920994 TTTATTTTATT
1 TTTATTTTATT
44921005 TTTATCTTTATT
1 TTTAT-TTTATT
44921017 TTTAGTTTTATT
1 TTTA-TTTTATT
*
44921029 TCTATTTTTATGT
1 TTTA-TTTTAT-T
44921042 TTT-TTGTTATT
1 TTTATT-TTATT
44921053 TT
1 TT
44921055 CTTAGACTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
10 8 0.15
11 11 0.21
12 29 0.56
13 4 0.08
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:44921019 original size:18 final size:17
Alignment explanation
Indices: 44920984--44921054 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 17
44920974 ATTGAGTCCA
*
44920984 TTTA-TTTTCTTTTA-T
1 TTTATTTTTATTTTATT
44920999 TTTATTTTTATCTTTATT
1 TTTATTTTTAT-TTTATT
*
44921017 TTTAGTTTTATTTCTATT
1 TTTATTTTTATTT-TATT
44921035 TTTATGTTTT-TTGTTATT
1 TTTAT-TTTTATT-TTATT
44921053 TT
1 TT
44921055 CTTAGACTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
15 4 0.09
16 5 0.11
17 6 0.13
18 27 0.57
19 5 0.11
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTTTATT
Found at i:44922918 original size:30 final size:30
Alignment explanation
Indices: 44922882--44922964 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
44922872 CTAGGCATTT
* *
44922882 CCATACGGGCTGGTCACGCGCCCGTGTGAG
1 CCATACGGGCTGGACACACGCCCGTGTGAG
* * * * *
44922912 CCATACGAGTTGGGCATACACCCGTGTGAG
1 CCATACGGGCTGGACACACGCCCGTGTGAG
* *
44922942 CCACACGGACTGGACACACGCCC
1 CCATACGGGCTGGACACACGCCC
44922965 ATATGCCAGC
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.14
Consensus pattern (30 bp):
CCATACGGGCTGGACACACGCCCGTGTGAG
Found at i:44929730 original size:22 final size:22
Alignment explanation
Indices: 44929688--44929739 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
44929678 AAATTTTTAA
* *
44929688 ATTTAAAAAATAGAGATACTAT
1 ATTTAAAAAATAGAAAGACTAT
*
44929710 ATTTATAAAAATA-AAAGACTAA
1 ATTTA-AAAAATAGAAAGACTAT
44929732 ATTCTAAA
1 ATT-TAAA
44929740 TATACAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
ATTTAAAAAATAGAAAGACTAT
Found at i:44929875 original size:28 final size:28
Alignment explanation
Indices: 44929835--44929888 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
44929825 AAGGGAAAAA
*
44929835 AATAAAGGGTTTAACCTTGTCACAACAC
1 AATAAAGGGTTTAACCTTATCACAACAC
44929863 AATAAAGGGTTTAACCTTATCACAAC
1 AATAAAGGGTTTAACCTTATCACAAC
44929889 TCAAGCACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (28 bp):
AATAAAGGGTTTAACCTTATCACAACAC
Found at i:44933392 original size:19 final size:19
Alignment explanation
Indices: 44933350--44933389 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
44933340 TCACTCCCCC
44933350 CTTCTCTTCTTTCACCTTT
1 CTTCTCTTCTTTCACCTTT
44933369 CTTCTC-TCTTT-ACCCTTT
1 CTTCTCTTCTTTCA-CCTTT
44933387 CTT
1 CTT
44933390 TCTGCCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.05
18 13 0.65
19 6 0.30
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (19 bp):
CTTCTCTTCTTTCACCTTT
Found at i:44939243 original size:17 final size:18
Alignment explanation
Indices: 44939211--44939255 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
44939201 AAATTATAAT
*
44939211 ATTAATTTTGAGATTTT-
1 ATTAATTTTTAGATTTTA
* *
44939228 TTTAATTTTTATATTTTA
1 ATTAATTTTTAGATTTTA
44939246 ATTAATTTTT
1 ATTAATTTTT
44939256 CATTAATCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
ATTAATTTTTAGATTTTA
Found at i:44949241 original size:25 final size:25
Alignment explanation
Indices: 44949213--44949262 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
44949203 CTCAAAGCTC
44949213 TTTTTAATTA-AATTATTTTCTTTAT
1 TTTTTAATTAGAATTATTTT-TTTAT
*
44949238 TTTTTAATTAGTATTATTTTTTTAT
1 TTTTTAATTAGAATTATTTTTTTAT
44949263 AATTTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTTAATTAGAATTATTTTTTTAT
Found at i:44954750 original size:125 final size:126
Alignment explanation
Indices: 44954519--44954912 Score: 499
Period size: 125 Copynumber: 3.1 Consensus size: 126
44954509 GGCCAAACAG
* * * *
44954519 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTAATTTTGTTGACAATGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * *
44954584 CTGCATAAAGTATTTTTTACACTATTTTTTCAGAATCATCTTCTTAAAATTATTTTTTTAT
66 CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTTAAAATTATTTTTTTAT
* * * **
44954645 GAACTACTATAGAAAAAGATCATCCATGTGGGAGCTTTTTTCAGTAA-TTTGCTGACAGCGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * * * *
44954709 CTGCTTGAAGCATTTTTTAAACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTCTCAG
66 CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTTAAAATTATTTTTTTAT
* *
44954770 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAATGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * * * *
44954835 CTACTTTAAGCATTTTTTACATTATCTTTTT-AGAACCGTCTT-TTCAAAATTA-ATTTTTCT
66 CTGCTTAAAGCATTTTTTACACTAT-TTTTTCAGAACCATCTTCTT-AAAATTATTTTTTTAT
44954895 GAAACTACTATAGAAAAA
1 G-AACTACTATAGAAAAA
44954913 AACAAAATCC
Statistics
Matches: 227, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
125 113 0.50
126 109 0.48
127 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (126 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTTAAAATTATTTTTTTAT
Found at i:44954901 original size:126 final size:125
Alignment explanation
Indices: 44954519--44954912 Score: 490
Period size: 126 Copynumber: 3.1 Consensus size: 125
44954509 GGCCAAACAG
* * * *
44954519 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTAATTTTGTTGACAATGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * * *
44954584 CTGCATAAAGTATTTTTTACACTATTTTTTCAGAATCATCTTCTT-AAAATTATTTTTTTAT
66 CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCATCTT-TTCAAAATTA-ATTTTTCT
* * * **
44954645 GAACTACTATAGAAAAAGATCATCCATGTGGGAGCTTTTTTCAGTAA-TTTGCTGACAGCGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * *
44954709 CTGCTTGAAGCATTTTTTAAACTATTTTTTCAGAACCATCTTCTCAAAATT-ATTTTCTCAG
66 CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCATCTTTTCAAAATTAATTTT-TC-T
* *
44954770 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAATGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * *
44954835 CTACTTTAAGCATTTTTTACATTATCTTTTT-AGAACCGTCTTTTCAAAATTAATTTTTCT
66 CTGCTTAAAGCATTTTTTACACTAT-TTTTTCAGAACCATCTTTTCAAAATTAATTTTTCT
44954895 GAAACTACTATAGAAAAA
1 G-AACTACTATAGAAAAA
44954913 AACAAAATCC
Statistics
Matches: 228, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
123 4 0.02
124 2 0.01
125 100 0.44
126 112 0.49
127 10 0.04
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (125 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCATCTTTTCAAAATTAATTTTTCT
Found at i:44955010 original size:33 final size:34
Alignment explanation
Indices: 44954973--44955065 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 34
44954963 CACAAAACTA
*
44954973 TTTAAAAAAAACTAAACCCTAATTTAATT-ATTT
1 TTTAAAAAAAACTAAACCCTAATTTAATTAATAT
** *
44955006 TTTAAAAAACTCTAAGCCCTAATTTAATTAATAT
1 TTTAAAAAAAACTAAACCCTAATTTAATTAATAT
* * *
44955040 TTTGAAAAAACCTTAAACCCTGATTT
1 TTTAAAAAAAAC-TAAACCCTAATTT
44955066 TTTTAAAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 26 0.53
34 12 0.24
35 11 0.22
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (34 bp):
TTTAAAAAAAACTAAACCCTAATTTAATTAATAT
Found at i:44959514 original size:46 final size:46
Alignment explanation
Indices: 44959110--44959473 Score: 719
Period size: 46 Copynumber: 7.9 Consensus size: 46
44959100 AGTGTGCTCT
*
44959110 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
44959156 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
44959202 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
44959248 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
44959294 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
44959340 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
44959386 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
44959432 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGG
44959474 CAACATGACA
Statistics
Matches: 317, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 317 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
Found at i:44964708 original size:28 final size:29
Alignment explanation
Indices: 44964679--44964734 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
44964669 AAATATATAT
* *
44964679 TTTTA-TTATAT-AATTACATAATTATTA
1 TTTTATTTATATAAATAAAATAATTATTA
44964706 TTTTATTTATATAAATAAAATAATTATTA
1 TTTTATTTATATAAATAAAATAATTATTA
44964735 ATTAAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.20
28 6 0.24
29 14 0.56
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTTATTTATATAAATAAAATAATTATTA
Found at i:44970051 original size:37 final size:39
Alignment explanation
Indices: 44969975--44970052 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 39
44969965 TAGAGACTGG
44969975 AACATCCACTAATTAAAAATTAAGGTCTTCTATAATTGAT
1 AACATCCACTAATTAAAAATTAAGG-CTTCTATAATTGAT
*
44970015 AACATCCACTAA-TAAAAGTCTAA-G-TTCTATAATTGAT
1 AACATCCACTAATTAAAAAT-TAAGGCTTCTATAATTGAT
44970052 A
1 A
44970053 CCTCGCATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
37 14 0.39
39 7 0.19
40 15 0.42
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (39 bp):
AACATCCACTAATTAAAAATTAAGGCTTCTATAATTGAT
Found at i:44971417 original size:40 final size:40
Alignment explanation
Indices: 44971362--44971443 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
44971352 AGATATAACC
*
44971362 CAGATAGGATAAGCATTAACTTATATATACAAGTAAAATT
1 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
44971402 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
1 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
44971442 CA
1 CA
44971444 AGAACATGCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (40 bp):
CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
Found at i:44977563 original size:6 final size:6
Alignment explanation
Indices: 44977552--44977598 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
44977542 TCAAAAAAAC
*
44977552 TTAATT TTAA-T TTATTT TTATATTT TCTAATT TTAATT TTAATT TTA
1 TTAATT TTAATT TTAATT TTA-A-TT T-TAATT TTAATT TTAATT TTA
44977599 TTATACACGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.11
6 22 0.63
7 3 0.09
8 4 0.11
9 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:44986765 original size:29 final size:29
Alignment explanation
Indices: 44986731--44986789 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
44986721 AAAATGTGTT
44986731 TGGATGGTGGGATGAAATATCAACACTAA
1 TGGATGGTGGGATGAAATATCAACACTAA
44986760 TGGATGGTGGGATGAAATATCAACACTAA
1 TGGATGGTGGGATGAAATATCAACACTAA
44986789 T
1 T
44986790 TTGGAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGATGGTGGGATGAAATATCAACACTAA
Found at i:44991039 original size:29 final size:29
Alignment explanation
Indices: 44990984--44991039 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
44990974 AATATTGTTT
* * *
44990984 ATTTTACAATTTTTTAAATAATTCTAAGA
1 ATTTTACAATATTTTAAAAAATACTAAGA
44991013 ATTTT-CAATATTTTAAAAAATAACTAA
1 ATTTTACAATATTTTAAAAAAT-ACTAA
44991040 TTGTTGATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTTTACAATATTTTAAAAAATACTAAGA
Found at i:45000023 original size:3 final size:3
Alignment explanation
Indices: 45000015--45000053 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
45000005 TTATCTCAAT
45000015 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
45000054 GTAAATATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45007611 original size:29 final size:24
Alignment explanation
Indices: 45007549--45007598 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
45007539 TTCGTTTGTA
45007549 ATTTTTCACCTAAAAAACAAAACC
1 ATTTTTCACCTAAAAAACAAAACC
45007573 ATTTTTCACCTAAAAAACAAAACC
1 ATTTTTCACCTAAAAAACAAAACC
45007597 AT
1 AT
45007599 CTCTTATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (24 bp):
ATTTTTCACCTAAAAAACAAAACC
Found at i:45007741 original size:18 final size:17
Alignment explanation
Indices: 45007720--45007776 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
45007710 AATAAAATTT
45007720 ATAATGTTTATCAAAAAA
1 ATAAT-TTTATCAAAAAA
*
45007738 ATAA-TTTCTCAGAAAGAA
1 ATAATTTTATCA-AAA-AA
*
45007756 ATAAATTTTATAAAAAAA
1 AT-AATTTTATCAAAAAA
45007774 ATA
1 ATA
45007777 CCACTAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 6 0.19
17 4 0.12
18 12 0.38
19 5 0.16
20 5 0.16
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (17 bp):
ATAATTTTATCAAAAAA
Found at i:45009839 original size:22 final size:22
Alignment explanation
Indices: 45009811--45009856 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
45009801 TAATGTGTTA
*
45009811 AACTCACGATAAACAAGAGCAT
1 AACTCACAATAAACAAGAGCAT
45009833 AACTCACAATAAACAAGAGCAT
1 AACTCACAATAAACAAGAGCAT
45009855 AA
1 AA
45009857 AATCTGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.22, G:0.11, T:0.13
Consensus pattern (22 bp):
AACTCACAATAAACAAGAGCAT
Found at i:45011682 original size:43 final size:43
Alignment explanation
Indices: 45011618--45011867 Score: 277
Period size: 43 Copynumber: 5.8 Consensus size: 43
45011608 TTTGAGAAAG
* * * *
45011618 CGCCGCTAAAAAATGCGACCTTTAGCGGTTCTTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* *
45011661 CGCCGTTAAAGGACGTGACCTTTAGCGGTGCTTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* * *
45011704 CGCCGCTAAAGAACATGACCTTTAGCAGTGCCTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* * * ** * *
45011747 TGCTGCTAAAGAACGTGACGTTTAGCGGCACCTTTCATACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* *
45011790 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCTA-AAAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTC-ACACAAA
** * * *
45011833 TACCGTTAAAGAACATGACCTTTAGCGATGCTTTT
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTT
45011868 ATGACCTTTA
Statistics
Matches: 175, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 174 0.99
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
Found at i:45012731 original size:13 final size:14
Alignment explanation
Indices: 45012705--45012733 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
45012695 ACTAACGGAA
45012705 AATTAAACCATTAT
1 AATTAAACCATTAT
45012719 AATTAAA-CATTAT
1 AATTAAACCATTAT
45012732 AA
1 AA
45012734 ACATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:45016415 original size:15 final size:15
Alignment explanation
Indices: 45016373--45016415 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45016363 TACTTACTAT
* *
45016373 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
45016388 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
45016402 AAAATAAATAACTT
1 AAAATAAATAACTT
45016416 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:45020601 original size:9 final size:9
Alignment explanation
Indices: 45020587--45020627 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
45020577 TATTTATGTA
45020587 TTATGTAAG
1 TTATGTAAG
45020596 TTATGTAAG
1 TTATGTAAG
* *
45020605 TTGTGTGAG
1 TTATGTAAG
45020614 TTATGTAAG
1 TTATGTAAG
45020623 TTATG
1 TTATG
45020628 ATATATATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:45020617 original size:18 final size:17
Alignment explanation
Indices: 45020594--45020656 Score: 76
Period size: 18 Copynumber: 3.7 Consensus size: 17
45020584 GTATTATGTA
45020594 AGTTATGTAAGTTGTGTG
1 AGTTATGTAAGTTGT-TG
*
45020612 AGTTATGTAAGTT-ATG
1 AGTTATGTAAGTTGTTG
*
45020628 A-TATATATAAGTTGTTG
1 AGT-TATGTAAGTTGTTG
45020645 AGTTATGTAAGT
1 AGTTATGTAAGT
45020657 CATGATATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.03
16 12 0.32
17 11 0.29
18 14 0.37
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.44
Consensus pattern (17 bp):
AGTTATGTAAGTTGTTG
Found at i:45020652 original size:33 final size:35
Alignment explanation
Indices: 45020601--45020669 Score: 115
Period size: 33 Copynumber: 2.0 Consensus size: 35
45020591 GTAAGTTATG
*
45020601 TAAGTTGTGTGAGTTATGTAAGTTATGATAT-ATA
1 TAAGTTGTGTGAGTTATGTAAGTCATGATATGATA
45020635 TAAGTTGT-TGAGTTATGTAAGTCATGATATGATA
1 TAAGTTGTGTGAGTTATGTAAGTCATGATATGATA
45020669 T
1 T
45020670 GATATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.43
Consensus pattern (35 bp):
TAAGTTGTGTGAGTTATGTAAGTCATGATATGATA
Found at i:45022339 original size:40 final size:40
Alignment explanation
Indices: 45022274--45022352 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
45022264 TAGTAGCTAC
45022274 TCATTACACACAAGAAAGAGGGTAGGTTTCAGTTCAGTCA
1 TCATTACACACAAGAAAGAGGGTAGGTTTCAGTTCAGTCA
* * *
45022314 TCATTACATACAAGACAGAGTGTAGGTTTCAGTTCAGTC
1 TCATTACACACAAGAAAGAGGGTAGGTTTCAGTTCAGTC
45022353 TATGGTCTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (40 bp):
TCATTACACACAAGAAAGAGGGTAGGTTTCAGTTCAGTCA
Found at i:45024866 original size:28 final size:28
Alignment explanation
Indices: 45024826--45024896 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
45024816 AATGTATCAT
45024826 ACACT-AGATGCCATACCAGATACCTTGC
1 ACACTAAG-TGCCATACCAGATACCTTGC
* * *
45024854 ACACTAAGTGCCATCCCTGATACTTTGC
1 ACACTAAGTGCCATACCAGATACCTTGC
**
45024882 ACGTTAAGTGCCATA
1 ACACTAAGTGCCATA
45024897 TATAATTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (28 bp):
ACACTAAGTGCCATACCAGATACCTTGC
Found at i:45027299 original size:15 final size:15
Alignment explanation
Indices: 45027252--45027312 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
45027242 CATTTTTATC
45027252 AAAATCCCT-AACCCTT
1 AAAA-CCCTAAACCC-T
* *
45027268 AAAACCATAAACACT
1 AAAACCCTAAACCCT
*
45027283 AAGACCCTAAACCCT
1 AAAACCCTAAACCCT
45027298 AAAACCACTAAACCC
1 AAAACC-CTAAACCC
45027313 CAAACAACAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
15 21 0.57
16 16 0.43
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAACCCTAAACCCT
Found at i:45028578 original size:14 final size:15
Alignment explanation
Indices: 45028529--45028578 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
45028519 TAAACGTTAT
*
45028529 TGAATTTGAATGTGTA
1 TGAATTT-AATATGTA
* *
45028545 TGATTTTTATATGT-
1 TGAATTTAATATGTA
45028559 TGAATTTAAT-TGTA
1 TGAATTTAATATGTA
45028573 TGAATT
1 TGAATT
45028579 CCTATGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 5 0.18
16 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (15 bp):
TGAATTTAATATGTA
Found at i:45028777 original size:41 final size:42
Alignment explanation
Indices: 45028681--45028789 Score: 159
Period size: 41 Copynumber: 2.6 Consensus size: 42
45028671 TGACAGTGGT
*
45028681 ATATCAGGCTTATTGCCTAGCAGGTTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
*
45028723 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCTGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTA-TG
* *
45028765 A-ATCAGGTTTATTACCTAGCAGGCT
1 ATATCAGGCTTATTGCCTAGCAGGCT
45028790 CTGTGCCAGT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 32 0.52
42 30 0.48
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:45036361 original size:14 final size:15
Alignment explanation
Indices: 45036312--45036361 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
45036302 TAAACGCTAT
*
45036312 TGAATTTGAATGTGTA
1 TGAATTT-AATATGTA
* *
45036328 TGATTTTTATATGT-
1 TGAATTTAATATGTA
45036342 TGAATTTAAT-TGTA
1 TGAATTTAATATGTA
45036356 TGAATT
1 TGAATT
45036362 CTTATGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 5 0.18
16 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (15 bp):
TGAATTTAATATGTA
Found at i:45036510 original size:42 final size:42
Alignment explanation
Indices: 45036463--45036572 Score: 202
Period size: 42 Copynumber: 2.6 Consensus size: 42
45036453 TAACAGTGAT
45036463 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
*
45036505 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
*
45036547 ATATTAGGCTTATTGCCTAGCAGGCT
1 ATATCAGGCTTATTGCCTAGCAGGCT
45036573 CTGTGCCAGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
Found at i:45038447 original size:7 final size:7
Alignment explanation
Indices: 45038437--45038498 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
45038427 GTTTTTAGAA
45038437 TTTAAGG
1 TTTAAGG
45038444 TTTAAGG
1 TTTAAGG
45038451 TTTAAGTG
1 TTTAAG-G
45038459 TTT-AGG
1 TTTAAGG
**
45038465 TTTTTAAAA
1 --TTTAAGG
*
45038474 TTTAGGG
1 TTTAAGG
*
45038481 TTTAATG
1 TTTAAGG
45038488 TTTAAGG
1 TTTAAGG
45038495 TTTA
1 TTTA
45038499 GGGGATTAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
6 1 0.02
7 34 0.79
8 7 0.16
9 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (7 bp):
TTTAAGG
Found at i:45038468 original size:37 final size:36
Alignment explanation
Indices: 45038427--45038500 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
45038417 TAGGGTATAT
*
45038427 GTTTTTAGAATTTAAGGTTTAAGGTTTAAGTGTTTAG
1 GTTTTTAAAATTTAAGGTTTAAGGTTTAAG-GTTTAG
* *
45038464 GTTTTTAAAATTTAGGGTTTAATGTTTAAGGTTTAG
1 GTTTTTAAAATTTAAGGTTTAAGGTTTAAGGTTTAG
45038500 G
1 G
45038501 GGATTAGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 7 0.21
37 27 0.79
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (36 bp):
GTTTTTAAAATTTAAGGTTTAAGGTTTAAGGTTTAG
Found at i:45038847 original size:29 final size:29
Alignment explanation
Indices: 45038792--45038853 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
45038782 TTTTTGCGGC
* * *
45038792 GTTTGGACCAGAAACGCCGCTATTGCTCA
1 GTTTGGACCAAAAACGCCGCAACTGCTCA
*
45038821 GTTTGGACCAAAAACGCCGCAACTGCTTA
1 GTTTGGACCAAAAACGCCGCAACTGCTCA
45038850 GTTT
1 GTTT
45038854 TTAACGGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (29 bp):
GTTTGGACCAAAAACGCCGCAACTGCTCA
Found at i:45038878 original size:41 final size:41
Alignment explanation
Indices: 45038821--45038978 Score: 208
Period size: 41 Copynumber: 3.9 Consensus size: 41
45038811 CTATTGCTCA
* * * * *
45038821 GTTTGGACCAAAAACGCCGCAACTGCTTAGTTTTTAACGGT
1 GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGC
* * *
45038862 GTTTGTACCAAAAACGCCGCTATTGCACAGTTTTTAGTGGC
1 GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGC
* * *
45038903 GTTTGTACCAAAAGCGCCGCTATTACTCAGTTTTTAGCGGC
1 GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGC
*
45038944 GTTTGGACCAAAAACGCCGCTATTGCTCATTTTTT
1 GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTT
45038979 GTGTTTGCGG
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (41 bp):
GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGC
Found at i:45045742 original size:3 final size:3
Alignment explanation
Indices: 45045734--45045774 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
45045724 CCAATAACGT
45045734 TTA 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 TTA TT
45045775 TAAAATGGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:45046928 original size:22 final size:22
Alignment explanation
Indices: 45046911--45046956 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
45046901 AAGAGGGGGG
45046911 ATCGATGGTATTTTGAGGAAGA
1 ATCGATGGTATTTTGAGGAAGA
* *
45046933 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGA-AGA
45046956 A
1 A
45046957 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (22 bp):
ATCGATGGTATTTTGAGGAAGA
Found at i:45046962 original size:23 final size:22
Alignment explanation
Indices: 45046918--45046967 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
45046908 GGGATCGATG
**
45046918 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
45046940 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
45046963 GTATT
1 GTATT
45046968 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:45047176 original size:20 final size:20
Alignment explanation
Indices: 45047140--45047178 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45047130 TTTTGTTGTT
*
45047140 GTTTTTTTCTTAAAAAAAAG
1 GTTTTTTTCATAAAAAAAAG
45047160 GTTTTTTT-ATAATAAAAAA
1 GTTTTTTTCATAA-AAAAAA
45047179 AGAGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (20 bp):
GTTTTTTTCATAAAAAAAAG
Found at i:45047265 original size:39 final size:39
Alignment explanation
Indices: 45047193--45047312 Score: 161
Period size: 38 Copynumber: 3.0 Consensus size: 39
45047183 AAAATAAAGT
45047193 ATGGTTTTAATTAATAATAAAAACAAAATAATAGTATGGGGGA
1 ATGGTTTTAATTAATAAT-AAAAC--AA-AATAGTATGGGGGA
45047236 ATGGTTTTAATTAATAATAAAACAAAATAGTAT-GGGGA
1 ATGGTTTTAATTAATAATAAAACAAAATAGTATGGGGGA
* * * *
45047274 GTAGTTTTAATTAATAATAAAACAAAGTAGCATGGGGGA
1 ATGGTTTTAATTAATAATAAAACAAAATAGTATGGGGGA
45047313 GTGGAATCAA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
38 34 0.47
39 13 0.18
40 2 0.03
42 5 0.07
43 18 0.25
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (39 bp):
ATGGTTTTAATTAATAATAAAACAAAATAGTATGGGGGA
Found at i:45049218 original size:41 final size:42
Alignment explanation
Indices: 45049173--45049252 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
45049163 AAATACAAAC
* * *
45049173 ATTAAAACATATATTAAAATAACAAATAAATT-AAAAATTAT
1 ATTAAAACAAATATTAAAACAACAAACAAATTGAAAAATTAT
*
45049214 ATTAAAATAAATATTAAAACAACAAACAAATTGAAAAAT
1 ATTAAAACAAATATTAAAACAACAAACAAATTGAAAAAT
45049253 AACTATATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 28 0.82
42 6 0.18
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (42 bp):
ATTAAAACAAATATTAAAACAACAAACAAATTGAAAAATTAT
Found at i:45050751 original size:188 final size:188
Alignment explanation
Indices: 45050434--45050814 Score: 726
Period size: 188 Copynumber: 2.0 Consensus size: 188
45050424 AAATAAAGAT
*
45050434 AATAATGGTATCATCCACTTAACCTATTGAGCATCATATAAATGTTGATGGAAAATTTTGAAGTT
1 AATAATGGTATCATCCACTCAACCTATTGAGCATCATATAAATGTTGATGGAAAATTTTGAAGTT
* *
45050499 TTCTAATATTGAAATTTCGAAGTTTATAGAAGTATTATTTAAGTCATTGATTGAATTAGTGTCAC
66 GTCTAATATTGAAATTTCGAAGTTTATAAAAGTATTATTTAAGTCATTGATTGAATTAGTGTCAC
45050564 AAGTCAACCATGTACCAACTCAGTTAAGAAAATTACAAAAATATTCTTTCGTATTTAA
131 AAGTCAACCATGTACCAACTCAGTTAAGAAAATTACAAAAATATTCTTTCGTATTTAA
*
45050622 AATAATGGTGTCATCCACTCAACCTATTGAGCATCATATAAATGTTGATGGAAAATTTTGAAGTT
1 AATAATGGTATCATCCACTCAACCTATTGAGCATCATATAAATGTTGATGGAAAATTTTGAAGTT
45050687 GTCTAATATTGAAATTTCGAAGTTTATAAAAGTATTATTTAAGTCATTGATTGAATTAGTGTCAC
66 GTCTAATATTGAAATTTCGAAGTTTATAAAAGTATTATTTAAGTCATTGATTGAATTAGTGTCAC
45050752 AAGTCAACCATGTACCAACTCAGTTAAGAAAATTACAAAAATATTCTTTCGTATTTAA
131 AAGTCAACCATGTACCAACTCAGTTAAGAAAATTACAAAAATATTCTTTCGTATTTAA
45050810 AATAA
1 AATAA
45050815 GTTATATTAT
Statistics
Matches: 189, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 189 1.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.36
Consensus pattern (188 bp):
AATAATGGTATCATCCACTCAACCTATTGAGCATCATATAAATGTTGATGGAAAATTTTGAAGTT
GTCTAATATTGAAATTTCGAAGTTTATAAAAGTATTATTTAAGTCATTGATTGAATTAGTGTCAC
AAGTCAACCATGTACCAACTCAGTTAAGAAAATTACAAAAATATTCTTTCGTATTTAA
Found at i:45052266 original size:6 final size:7
Alignment explanation
Indices: 45052247--45052271 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45052237 CGTTAAATAG
45052247 ATAAAAA
1 ATAAAAA
45052254 ATAAAAA
1 ATAAAAA
45052261 ATAAAAA
1 ATAAAAA
45052268 ATAA
1 ATAA
45052272 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
ATAAAAA
Found at i:45052287 original size:30 final size:31
Alignment explanation
Indices: 45052253--45052312 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
45052243 ATAGATAAAA
45052253 AATAAAAAA-TAAA-AAATAATTTAAATTATG
1 AATAAAAAATTAAATAAAT-ATTTAAATTATG
45052283 AATAAAAAATTTAAATAAATATTTAAATTA
1 AATAAAAAA-TTAAATAAATATTTAAATTA
45052313 AAAGTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 9 0.33
32 14 0.52
33 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (31 bp):
AATAAAAAATTAAATAAATATTTAAATTATG
Found at i:45053911 original size:12 final size:13
Alignment explanation
Indices: 45053896--45053928 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
45053886 TTTTATAGAA
45053896 AATAAAATA-TAT
1 AATAAAATACTAT
*
45053908 AATAAAAAACTAT
1 AATAAAATACTAT
45053921 AATAAAAT
1 AATAAAAT
45053929 TAATGTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAAAATACTAT
Found at i:45057178 original size:46 final size:46
Alignment explanation
Indices: 45057097--45057310 Score: 233
Period size: 46 Copynumber: 4.6 Consensus size: 46
45057087 GTGCCAATGC
45057097 CATGTCCCAGACATGGTCTTACACT-GAC-TATCATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTTA-CATCTCGTAGCCGATG
** *
45057144 CATGTCCCAGACATACCTTACACTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA-GCCGATG
* *
45057190 CATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAGT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TTACATCTC-GTAGCCGATG
* * *
45057236 CCATGTCCCAGACATGGTCTTACACTAGCTTCCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-CTCGTAGCCGATG
45057284 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
45057311 ACACACAAGT
Statistics
Matches: 146, Mismatches: 10, Indels: 23
0.82 0.06 0.13
Matches are distributed among these distances:
45 1 0.01
46 72 0.49
47 50 0.34
48 22 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGCCGATG
Found at i:45057296 original size:94 final size:93
Alignment explanation
Indices: 45057097--45057313 Score: 282
Period size: 94 Copynumber: 2.3 Consensus size: 93
45057087 GTGCCAATGC
45057097 CATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTAGCCGATGCATGTCCCAGACATAC
1 CATGTCCCAGACAT-GTCTTACACTAGCAC-ATCATCTCGTAGCCGATGCATGTCCCAGACATAC
* *
45057160 CTTACACTGGCTTACATCTCGAGGCCGATG
64 CTTACACTAGCTTACATATCGAGGCCGATG
* *
45057190 CATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCAGT-GCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGTCTTACACTAGCACATCATCTC-GTAGCCGATG-CATGTCCCAGACAT-A
* * *
45057253 TCTTACACTAGCTTCCATAAT-GTGGCCGATG
63 CCTTACACTAGCTTACAT-ATCGAGGCCGATG
45057284 CATGTCCCAGACATGTCTTACACTAGCACA
1 CATGTCCCAGACATGTCTTACACTAGCACA
45057314 CACAAGTGAC
Statistics
Matches: 110, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
92 23 0.21
93 31 0.28
94 55 0.50
95 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACATCATCTCGTAGCCGATGCATGTCCCAGACATACCT
TACACTAGCTTACATATCGAGGCCGATG
Found at i:45057665 original size:30 final size:30
Alignment explanation
Indices: 45057626--45057682 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45057616 ATTCACATAT
*
45057626 TTGGTAAAATGA-TCATTTTGCCCCTAGACA
1 TTGGCAAAATGACT-ATTTTGCCCCTAGACA
*
45057656 TTGGCAAAATGACTATTTTGCTCCTAG
1 TTGGCAAAATGACTATTTTGCCCCTAG
45057683 GCTTGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (30 bp):
TTGGCAAAATGACTATTTTGCCCCTAGACA
Found at i:45075172 original size:18 final size:18
Alignment explanation
Indices: 45075149--45075187 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45075139 TATTATTTAT
*
45075149 AAATATA-TATAATACATC
1 AAATATACTA-AAAACATC
45075167 AAATATACTAAAAACATC
1 AAATATACTAAAAACATC
45075185 AAA
1 AAA
45075188 AAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATACTAAAAACATC
Found at i:45075313 original size:30 final size:30
Alignment explanation
Indices: 45075272--45075330 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
45075262 TAACAAGCAA
45075272 ATGCCTCTAAAATAATAAAAAAATAAACAG
1 ATGCCTCTAAAATAATAAAAAAATAAACAG
* * * *
45075302 ATGCCTTTAAAATTATAACAAAATTAACA
1 ATGCCTCTAAAATAATAAAAAAATAAACA
45075331 ATAAAATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
ATGCCTCTAAAATAATAAAAAAATAAACAG
Found at i:45079104 original size:28 final size:29
Alignment explanation
Indices: 45079064--45079118 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
45079054 TTTGTGGGTT
* *
45079064 AAAATTAAGTTTTAT-ACTTTTATAATAA
1 AAAATAAAATTTTATGACTTTTATAATAA
* *
45079092 AAAATAAAATTTTGTGATTTTTATAAT
1 AAAATAAAATTTTATGACTTTTATAAT
45079119 TTTTAAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 12 0.55
29 10 0.45
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (29 bp):
AAAATAAAATTTTATGACTTTTATAATAA
Found at i:45083322 original size:17 final size:19
Alignment explanation
Indices: 45083281--45083322 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
45083271 CTAGTAATGT
45083281 TAAA-ATATATATAATATA
1 TAAATATATATATAATATA
*
45083299 TACATATATATATAA-A-A
1 TAAATATATATATAATATA
45083316 TAAATAT
1 TAAATAT
45083323 TGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATATATAATATA
Found at i:45083849 original size:3 final size:3
Alignment explanation
Indices: 45083843--45084125 Score: 126
Period size: 3 Copynumber: 92.7 Consensus size: 3
45083833 ATAGCGAATG
* * *
45083843 TAA TAA TAA TAA TAA TAA TAT TAA GT-A TAG T-A TAAA TAA TATG TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A
* * *
45083890 TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA TAA T-A TAGA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* *
45083936 -AA TTCAA -AA -AA GTAA -ACA TAA T-A TAA TGA TAT TAA -AA TAA -AA
1 TAA -T-AA TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
45083978 T-A TACA CTAA TAT TTA TAAA TAA TAA TAG TAA -ATA TAA TAG TAA TAA
1 TAA TA-A -TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * *
45084025 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAT TAA GT-A TAG T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
* * * *
45084069 TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA CAA TAA TAA TAA
1 T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
45084118 TAA TAA TA
1 TAA TAA TA
45084126 TAGAAATTCA
Statistics
Matches: 210, Mismatches: 40, Indels: 60
0.68 0.13 0.19
Matches are distributed among these distances:
2 21 0.10
3 156 0.74
4 29 0.14
5 4 0.02
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:45084183 original size:16 final size:16
Alignment explanation
Indices: 45084150--45084182 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45084140 AATTAAACAT
*
45084150 AATATAATAATATTAA
1 AATAAAATAATATTAA
45084166 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
45084181 AA
1 AA
45084183 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:45086175 original size:18 final size:18
Alignment explanation
Indices: 45086152--45086186 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45086142 GAAAAGATGT
45086152 TGAA-TTTATGGAAAATTC
1 TGAATTTTAT-GAAAATTC
45086170 TGAATTTTATGAAAATT
1 TGAATTTTATGAAAATT
45086187 TTATAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (18 bp):
TGAATTTTATGAAAATTC
Found at i:45086980 original size:24 final size:24
Alignment explanation
Indices: 45086926--45086980 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
45086916 TGGCTCTCTG
45086926 GAGCTTCTCGATATTGGCTCGTTT
1 GAGCTTCTCGATATTGGCTCGTTT
* *
45086950 TAACTTCTCGAT-TATGGCTC-TTAT
1 GAGCTTCTCGATAT-TGGCTCGTT-T
45086974 GAGCTTC
1 GAGCTTC
45086981 CTGTTATACA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (24 bp):
GAGCTTCTCGATATTGGCTCGTTT
Found at i:45094230 original size:27 final size:27
Alignment explanation
Indices: 45094192--45094243 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
45094182 AATCTGATTC
45094192 GTCATACAATCCTTTCTCATGTGCCTT
1 GTCATACAATCCTTTCTCATGTGCCTT
45094219 GTCATACAATCCTTTCTCATGTGCC
1 GTCATACAATCCTTTCTCATGTGCC
45094244 AACATGTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (27 bp):
GTCATACAATCCTTTCTCATGTGCCTT
Found at i:45095810 original size:42 final size:42
Alignment explanation
Indices: 45095746--45095845 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
45095736 CTTTTTGTTT
* * * *
45095746 AGCTCTCACGAGCTTCTATTTAACTCATATCAG-TTTCCGTTC
1 AGCTCTTATGAGCTTCTATTTAACCCATAT-AGTTTTCCATTC
* * *
45095788 AGCTC-TATTGAGCTTCTGTTTAACCCTTATGGTTTTCCATTC
1 AGCTCTTA-TGAGCTTCTATTTAACCCATATAGTTTTCCATTC
45095830 AGCTCTTATGAGCTTC
1 AGCTCTTATGAGCTTC
45095846 AGTTCAACCC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.04
42 44 0.92
43 2 0.04
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTATTTAACCCATATAGTTTTCCATTC
Found at i:45095851 original size:21 final size:21
Alignment explanation
Indices: 45095827--45095883 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
45095817 TGGTTTTCCA
45095827 TTCAGCTCTTATGAGCTTCAG
1 TTCAGCTCTTATGAGCTTCAG
* * * * *
45095848 TTCAACCCTTATGGGTTTCTG
1 TTCAGCTCTTATGAGCTTCAG
*
45095869 TTTAGCTCTTATGAG
1 TTCAGCTCTTATGAG
45095884 ATTTTGTTTA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (21 bp):
TTCAGCTCTTATGAGCTTCAG
Found at i:45095855 original size:42 final size:42
Alignment explanation
Indices: 45095778--45095883 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 42
45095768 ACTCATATCA
* *
45095778 GTTTCCGTTCAGCTC-TATTGAGCTTCTGTTTAACCCTTATGG
1 GTTTCCGTTCAGCTCTTA-TGAGCTTCAGTTCAACCCTTATGG
* *
45095820 TTTTCCATTCAGCTCTTATGAGCTTCAGTTCAACCCTTATGG
1 GTTTCCGTTCAGCTCTTATGAGCTTCAGTTCAACCCTTATGG
* *
45095862 GTTTCTGTTTAGCTCTTATGAG
1 GTTTCCGTTCAGCTCTTATGAG
45095884 ATTTTGTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 53 0.96
43 2 0.04
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (42 bp):
GTTTCCGTTCAGCTCTTATGAGCTTCAGTTCAACCCTTATGG
Found at i:45106528 original size:18 final size:18
Alignment explanation
Indices: 45106505--45106546 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
45106495 GGCAAGTGCA
45106505 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
45106523 TATCCTAACCTTTATATG
1 TATCCTAACCCTTATATG
*
45106541 TTTCCT
1 TATCCT
45106547 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:45107024 original size:33 final size:32
Alignment explanation
Indices: 45106949--45107039 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 32
45106939 TTTCATTTAA
* * **
45106949 TAAAACCTAATTTATTTATTTATTTAAAACCTT
1 TAAAACCTAATTTAATTATTT-TTAAAAAAATT
45106982 TAAAACCTAATTTAATTATTTTTAAAAAAATT
1 TAAAACCTAATTTAATTATTTTTAAAAAAATT
* *
45107014 CTAAACCCTAATTT-GTT-TTTTTAAAA
1 -TAAAACCTAATTTAATTATTTTTAAAA
45107040 TTCTTAAACC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
31 9 0.18
32 10 0.20
33 32 0.63
ACGTcount: A:0.42, C:0.11, G:0.01, T:0.46
Consensus pattern (32 bp):
TAAAACCTAATTTAATTATTTTTAAAAAAATT
Found at i:45112716 original size:13 final size:13
Alignment explanation
Indices: 45112700--45112734 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
45112690 TGTTGTGGAA
45112700 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
*
45112713 AAGTACTTTTGAG
1 AAGTGCTTTTGAG
*
45112726 AAATGCTTT
1 AAGTGCTTT
45112735 GGAAAAGTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (13 bp):
AAGTGCTTTTGAG
Found at i:45112720 original size:39 final size:39
Alignment explanation
Indices: 45112665--45112742 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
45112655 GTTCTTCGTG
45112665 GCTTTTGAAAAATACTTTTGA-AAAGTG-TTGTGGAAAAGT
1 GCTTTTGAAAAATACTTTTGAGAAA-TGCTT-TGGAAAAGT
* *
45112704 GCTTTTGAGAAGTACTTTTGAGAAATGCTTTGGAAAAGT
1 GCTTTTGAAAAATACTTTTGAGAAATGCTTTGGAAAAGT
45112743 AGGCTTTGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 30 0.86
40 5 0.14
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (39 bp):
GCTTTTGAAAAATACTTTTGAGAAATGCTTTGGAAAAGT
Found at i:45113354 original size:21 final size:20
Alignment explanation
Indices: 45113302--45113390 Score: 87
Period size: 19 Copynumber: 4.5 Consensus size: 20
45113292 TTTCAAATAT
*
45113302 TAAAAATTAT-TAAGAATTAG
1 TAAAAATTATATAAAAATT-G
* **
45113322 -AAAAA-AATATAAAAAAGG
1 TAAAAATTATATAAAAATTG
45113340 TAAAAATATATATAAAAATTG
1 TAAAAAT-TATATAAAAATTG
*
45113361 T-AAAATTTTATAAAAATTG
1 TAAAAATTATATAAAAATTG
45113380 TAAAAATTATA
1 TAAAAATTATA
45113391 AAATATATAG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
18 3 0.05
19 28 0.51
20 13 0.24
21 11 0.20
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
TAAAAATTATATAAAAATTG
Found at i:45113640 original size:19 final size:19
Alignment explanation
Indices: 45113616--45113705 Score: 78
Period size: 19 Copynumber: 4.7 Consensus size: 19
45113606 GTCATCAATT
*
45113616 GTTTTATAATTTTTATAAA
1 GTTTTACAATTTTTATAAA
*
45113635 GTTTTACAATTTTT-TATA
1 GTTTTACAATTTTTATAAA
* *
45113653 TTTTTACGATTTTTATAAA
1 GTTTTACAATTTTTATAAA
*
45113672 ATATTT-CTAATTTTTCATAAA
1 GT-TTTAC-AATTTTT-ATAAA
*
45113693 -TTTTAAAATTTTT
1 GTTTTACAATTTTT
45113706 TATATTTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
18 15 0.26
19 28 0.48
20 10 0.17
21 5 0.09
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.59
Consensus pattern (19 bp):
GTTTTACAATTTTTATAAA
Found at i:45113714 original size:48 final size:48
Alignment explanation
Indices: 45113661--45113763 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
45113651 TATTTTTACG
** * *
45113661 ATTTTTA-TAAAATATTTCTAATTTTTCATAAATTTTAAAATTTTTTAT-
1 ATTTTTATTAAAA-ATTAATAATTTTTC-TAAAATTTAAAATTTATTATA
**
45113709 ATTTTTATTAAAAATTAATAATTTTTCTAAAATTTATGATTTATTATA
1 ATTTTTATTAAAAATTAATAATTTTTCTAAAATTTAAAATTTATTATA
45113757 ATTTTTA
1 ATTTTTA
45113764 ATAAGAACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 16 0.34
48 26 0.55
49 5 0.11
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (48 bp):
ATTTTTATTAAAAATTAATAATTTTTCTAAAATTTAAAATTTATTATA
Found at i:45113720 original size:28 final size:27
Alignment explanation
Indices: 45113642--45113734 Score: 71
Period size: 28 Copynumber: 3.3 Consensus size: 27
45113632 AAAGTTTTAC
* **
45113642 AATTTTTTATATTTTTACGATTTTTATAA
1 AATTTTTTATATTTTTA-TAAATTT-TAA
*
45113671 AATATTTCTA-ATTTTTCATAAATTTTAA
1 AAT-TTTTTATATTTTT-ATAAATTTTAA
**
45113699 AATTTTTTATATTTTTATTAAAAATTAA
1 AATTTTTTATATTTTTA-TAAATTTTAA
45113727 TAATTTTT
1 -AATTTTT
45113735 CTAAAATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
27 6 0.12
28 20 0.38
29 20 0.38
30 6 0.12
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (27 bp):
AATTTTTTATATTTTTATAAATTTTAA
Found at i:45113736 original size:57 final size:57
Alignment explanation
Indices: 45113617--45113738 Score: 131
Period size: 57 Copynumber: 2.1 Consensus size: 57
45113607 TCATCAATTG
* * * ***
45113617 TTTTATAATTTTTATAAAGTTTTACAATTTTTTATATTTTTACGATTTTTATAAAAT
1 TTTTCTAATTTTTATAAAGTTTTAAAATTTTTTATATTTTTACAAAAATTATAAAAT
* * *
45113674 ATTTCTAATTTTTCATAAA-TTTTAAAATTTTTTATATTTTTATTAAAAATTA-ATAAT
1 TTTTCTAATTTTT-ATAAAGTTTTAAAATTTTTTATATTTTTA-CAAAAATTATAAAAT
45113731 TTTTCTAA
1 TTTTCTAA
45113739 AATTTATGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
57 44 0.83
58 9 0.17
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (57 bp):
TTTTCTAATTTTTATAAAGTTTTAAAATTTTTTATATTTTTACAAAAATTATAAAAT
Found at i:45113874 original size:84 final size:84
Alignment explanation
Indices: 45113778--45113939 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
45113768 GAACAGGGGC
* *
45113778 TTAATTG-CTTTTT-AAAAAATTTTGAGAGTCTTTTTTTATGCATTTTGAAAGTTCAAGTACCCA
1 TTAATTGTCTTTTTGAAAAAA-TTTGAG-GGCTTTTTTTATGCATTTTGAAAGTTAAAGTACCCA
*
45113841 ATTAAGTGAAAAAAGTAGGGT
64 ATTAAGTAAAAAAAGTAGGGT
* * **
45113862 TTAATTGTTTTTTTTGAAAAAATTTGAGGGCTTTTTTTATGTATTTTGAAAGTTAAAGTACTGAA
1 TTAATTG-TCTTTTTGAAAAAATTTGAGGGCTTTTTTTATGCATTTTGAAAGTTAAAGTACCCAA
45113927 TTAAGTAAAAAAA
65 TTAAGTAAAAAAA
45113940 AAAAAGGGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 7 0.10
85 44 0.65
86 11 0.16
87 6 0.09
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.43
Consensus pattern (84 bp):
TTAATTGTCTTTTTGAAAAAATTTGAGGGCTTTTTTTATGCATTTTGAAAGTTAAAGTACCCAAT
TAAGTAAAAAAAGTAGGGT
Found at i:45137167 original size:16 final size:15
Alignment explanation
Indices: 45137148--45137199 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
45137138 GTCTTTTAAA
45137148 ATTTATATAATTTTAT
1 ATTTA-ATAATTTTAT
45137164 ATTTAGATAATTTTTCAT
1 ATTTA-ATAA-TTTT-AT
45137182 ATATTAATAA-TTTAT
1 AT-TTAATAATTTTAT
45137197 ATT
1 ATT
45137200 ATCAAGATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 1 0.03
15 4 0.12
16 12 0.38
17 4 0.12
18 8 0.25
19 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTAATAATTTTAT
Found at i:45137191 original size:18 final size:17
Alignment explanation
Indices: 45137148--45137194 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
45137138 GTCTTTTAAA
*
45137148 ATTTATATAA-TTTTAT
1 ATTTAGATAATTTTTAT
45137164 ATTTAGATAATTTTTCAT
1 ATTTAGATAATTTTT-AT
45137182 ATATTA-ATAATTT
1 AT-TTAGATAATTT
45137195 ATATTATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 9 0.33
17 4 0.15
18 11 0.41
19 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTAGATAATTTTTAT
Found at i:45148997 original size:21 final size:20
Alignment explanation
Indices: 45148973--45149022 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
45148963 ATTTATAACA
* *
45148973 TATTCAATTCTCATCTCTTGC
1 TATTCAAATCTCAT-ACTTGC
45148994 TATTTCAAATCTCATACTTGC
1 TA-TTCAAATCTCATACTTGC
45149015 TATTCAAA
1 TATTCAAA
45149023 GAGCTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.28, C:0.24, G:0.04, T:0.44
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:45150608 original size:10 final size:10
Alignment explanation
Indices: 45150593--45150629 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
45150583 ATAAAATCAA
45150593 AAATAAAAAT
1 AAATAAAAAT
45150603 AAATAAAAAT
1 AAATAAAAAT
*
45150613 AAATAAATA-
1 AAATAAAAAT
45150622 AAATAAAA
1 AAATAAAA
45150630 TAAGAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:45150618 original size:14 final size:13
Alignment explanation
Indices: 45150599--45150628 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
45150589 TCAAAAATAA
45150599 AAATAAATAAAAAT
1 AAATAAAT-AAAAT
45150613 AAATAAATAAAAT
1 AAATAAATAAAAT
45150626 AAA
1 AAA
45150629 ATAAGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:45150624 original size:23 final size:23
Alignment explanation
Indices: 45150585--45150628 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
45150575 AATTTAACAT
*
45150585 AAAATCAAAAATAAAAATAAATA
1 AAAATAAAAAATAAAAATAAATA
45150608 AAAATAAATAAAT-AAAATAAA
1 AAAATAAA-AAATAAAAATAAA
45150629 ATAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (23 bp):
AAAATAAAAAATAAAAATAAATA
Found at i:45150630 original size:14 final size:14
Alignment explanation
Indices: 45150592--45150632 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
45150582 CATAAAATCA
45150592 AAAATAAAAATAAAT
1 AAAAT-AAAATAAAT
45150607 AAAA-ATAAATAAAT
1 AAAATA-AAATAAAT
45150621 AAAATAAAATAA
1 AAAATAAAATAA
45150633 GAATTTCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.04
14 18 0.75
15 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:45151487 original size:9 final size:9
Alignment explanation
Indices: 45151473--45151505 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
45151463 CCCTAATTTC
45151473 TTCTTTCTT
1 TTCTTTCTT
45151482 TTCTTTCTT
1 TTCTTTCTT
*
45151491 CTCTTTCTT
1 TTCTTTCTT
45151500 TTCTTT
1 TTCTTT
45151506 ATTTATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TTCTTTCTT
Found at i:45151541 original size:14 final size:14
Alignment explanation
Indices: 45151503--45151550 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 14
45151493 CTTTCTTTTC
*
45151503 TTTATT-TATTTCA
1 TTTATTATATTTAA
* *
45151516 TTTACT-TATTTAT
1 TTTATTATATTTAA
45151529 TTTATTATATTTAA
1 TTTATTATATTTAA
45151543 TTTATTAT
1 TTTATTAT
45151551 TATTATATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 15 0.52
14 14 0.48
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTATATTTAA
Found at i:45151555 original size:20 final size:19
Alignment explanation
Indices: 45151506--45151559 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
45151496 TCTTTTCTTT
* *
45151506 ATTTATTTCATT-TACTT-
1 ATTTATTTTATTATATTTA
45151523 ATTTATTTTATTATATTTA
1 ATTTATTTTATTATATTTA
45151542 ATTTATTATTATTATATT
1 ATTTATT-TTATTATATT
45151560 ATAAATATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 11 0.34
18 4 0.12
19 7 0.22
20 10 0.31
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATTATATTTA
Found at i:45151568 original size:20 final size:19
Alignment explanation
Indices: 45151526--45151569 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
45151516 TTTACTTATT
*
45151526 TATTTTATTATATTTAATT
1 TATTTTATTATATTTAATA
45151545 TATTATTATTATATTATAA-A
1 TATT-TTATTATATT-TAATA
45151565 TATTT
1 TATTT
45151570 ACTTAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 14 0.64
21 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTATTATATTTAATA
Found at i:45153417 original size:143 final size:143
Alignment explanation
Indices: 45152961--45154349 Score: 920
Period size: 146 Copynumber: 9.1 Consensus size: 143
45152951 AAACATATCA
* * * *
45152961 ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTCACCATTTTTTATT
1 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCA-ATTTT-TT
* *
45153026 TTATTTTGAAAGATGTTTTGCATCATTTTATATTGTATCAATGGATACAGATTGATACATACCGA
64 TTATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACGGATACAGATTGATACATACC-A
* **
45153091 TATTGATCAAAAC-ATATCA
128 -A-T-AT-AAATCGATATTG
*
45153110 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCAT-AAATTTTTTT
1 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTTTT
* * * *
45153174 ATTTTGTAAGATGTTTCGCATCATTTTATATTGTATTAACAGATATAGATTGATACATACCAATA
66 ATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACGGATACAGATTGATACATACCAATA
45153239 TAAATCGATATTG
131 TAAATCGATATTG
* *
45153252 ATCAAAACATATAAATAAATACATATCTCGAGATACGAAAATAATTTTTGTTCCCTGCATTTTTT
1 --------------ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCT
* *
45153317 CATCAATTTTTTTTATTTT-AAACGATGTTTCGCATGATTTTATATTGTATCAATGGATACAGAT
52 CATCAATTTTTTTTATTTTGAAA-GATGTTTCGCATCATTTTATATTGTATCAACGGATACAGAT
*
45153381 TGGTACATACCAATATAAATCGATATTG
116 TGATACATACCAATATAAATCGATATTG
* *
45153409 ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCTGCATTTTCTCAT-ATTTTTTTTT
1 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCA-ATTTTTTT
* **
45153473 TATTTTGAAAGATGTTTCGCATGATTTTATATTGTATCAACGGATACAGATTGATACATATAAAT
65 TATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACGGATACAGATTGATACATACCAAT
45153538 ATAAATCGATATTG
130 ATAAATCGATATTG
* *
45153552 ATCAAAACATATTAAAAAATACATATCTTGAGATACGAGAATAATTTTTGTTCTCTGCATTTTCT
1 ----------A-T---AAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCT
* * *
45153617 CATC-A----TTTT-TTTTGAAAGATGTTTTGCATCA-TTTATATTGTATCAACGGATATAGATC
52 CATCAATTTTTTTTATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACGGATACAGATT
* **
45153675 AATACATACTGATATAAATCGATATTG
117 GATACATACCAATATAAATCGATATTG
* * *
45153702 ATAAACACATATCAATAAATATATATCTCGATATGCGAGAATAATTTTTGTTCTCTGCATTTTCT
1 AT--A-A-ATA-C---------ATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCT
* * * *
45153767 CATC-ATTTTTTTTAAAAATTTTTGAAAGATGTTTCACTTGATTTTATATTGTATCAATGGATAC
52 CATCAATTTTTTTT----A-TTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACGGATAC
* * * * *
45153831 ATATTGACAGATTCCGATATAAATCGATATTG
112 AGATTGATACATACCAATATAAATCGATATTG
* *
45153863 ATCAAAACATATTAATAAATACAATCTTGAGATACGTGAATAATTTTTGTT--CT-CA-----TC
1 AT---AA-ATA--CAT--AT-C--TC--GAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTC
* * *
45153920 AT---TTTTTTTTCATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACGAATACAGATC
53 ATCAATTTTTTTT-ATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACGGATACAGATT
* * *
45153982 AATACATATCGATATAAATCGATATTG
117 GATACATACCAATATAAATCGATATTG
* * * *
45154009 ATAAACAGATATCAATAAATACACACCTTGAGATACAAGAATGATTTTTGTTCCTTGCATTTTCT
1 AT--A-A-ATA-C-AT--AT------CTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCT
* *
45154074 CATCTTTTTATTTTATTTTATTTTATTTTGAAAGATGTTTCGCATGATTTCATATTGTATCAACG
52 CATC-----A----ATTTT-TTTTATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACG
* * * *
45154139 GATACAGATCGATCCATACCTATATAAATCAATATTG
107 GATACAGATTGATACATACCAATATAAATCGATATTG
* *
45154176 ATCAAAACATATTAATAAATATCTATATTGAGATACGAGAATAATTTTTGTTCCCTGCATTTTTC
1 --------ATA--AATACATATC----TCGAGATACGAGAATAATTTTTGTTCCCTGCA-TTTTC
* * **
45154241 TCAT-AATTTTTTTTATTTATTTTGAAAGATGTTTTGCATCATTTTATATTATATCAATAGATAC
51 TCATCAA---TTTTT-TTTATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACGGATAC
* * * *
45154305 AGATCGATGCATACTAATATAAAAT-TATATTG
112 AGATTGATACATACCAATAT-AAATCGATATTG
*
45154337 ATAAAAACATATC
1 ATAAATACATATC
45154350 AATAAATACA
Statistics
Matches: 1017, Mismatches: 110, Indels: 224
0.75 0.08 0.17
Matches are distributed among these distances:
138 3 0.00
139 2 0.00
140 4 0.00
141 5 0.00
142 7 0.01
143 130 0.13
144 4 0.00
145 5 0.00
146 135 0.13
147 24 0.02
148 1 0.00
149 53 0.05
150 103 0.10
151 29 0.03
152 8 0.01
153 6 0.01
154 5 0.00
155 6 0.01
156 55 0.05
157 128 0.13
158 5 0.00
160 39 0.04
161 122 0.12
162 9 0.01
163 1 0.00
167 104 0.10
168 13 0.01
169 2 0.00
171 2 0.00
173 4 0.00
174 1 0.00
175 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (143 bp):
ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTTTT
ATTTTGAAAGATGTTTCGCATCATTTTATATTGTATCAACGGATACAGATTGATACATACCAATA
TAAATCGATATTG
Found at i:45153419 original size:157 final size:156
Alignment explanation
Indices: 45152896--45154388 Score: 1561
Period size: 161 Copynumber: 9.7 Consensus size: 156
45152886 AAATATTAAA
* * * *
45152896 ATATTGTATCAACGGGTACATATCGATACATA-CATATATAAATTGATATTGATAAAAACATATC
1 ATATTGTATCAACGGATACAGATCGATACATACCA-ATATAAATCGATATTGATCAAAACATATC
* * * *
45152960 AATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTCACCATTTTTTAT
65 AATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCA-TA-ATTTT-T
*
45153025 TTTATTTTGAAAGATGTTTTGCATCATTTT
127 TTTATTTTGAAAGATGTTTCGCATCATTTT
* *
45153055 ATATTGTATCAATGGATACAGATTGATACATA-C---------CGATATTGATCAAAACATATCA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
*
45153110 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATAAATTTTTTTA
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATAATTTTTTTTA
*
45153175 TTTTGTAAGATGTTTCGCATCATTTT
131 TTTTGAAAGATGTTTCGCATCATTTT
* * * * *
45153201 ATATTGTATTAACAGATATAGATTGATACATACCAATATAAATCGATATTGATCAAAACATATAA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
* *
45153266 ATAAATACATATCTCGAGATACGAAAATAATTTTTGTTCCCTGCATTTTTTCATCAATTTTTTTT
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCAT-AATTTTTTTT
*
45153331 ATTTT-AAACGATGTTTCGCATGATTTT
130 ATTTTGAAA-GATGTTTCGCATCATTTT
* * *
45153358 ATATTGTATCAATGGATACAGATTGGTACATACCAATATAAATCGATATTG--------------
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
* *
45153409 ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCTGCATTTTCTCATATTTTTTTTTT
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATA-ATTTTTTTT
*
45153474 ATTTTGAAAGATGTTTCGCATGATTTT
130 ATTTTGAAAGATGTTTCGCATCATTTT
* ** *
45153501 ATATTGTATCAACGGATACAGATTGATACATATAAATATAAATCGATATTGATCAAAACATATTA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
* * * *
45153566 AAAAATACATATCTTGAGATACGAGAATAATTTTTGTTCTCTGCATTTTCTCATCA----TTTT-
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATAATTTTTTTTA
*
45153626 TTTTGAAAGATGTTTTGCATCA-TTT
131 TTTTGAAAGATGTTTCGCATCATTTT
* * **
45153651 ATATTGTATCAACGGATATAGATCAATACATACTGATATAAATCGATATTGAT-AAACACATATC
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAA-ACATATC
* * * * *
45153715 AATAAATATATATCTCGATATGCGAGAATAATTTTTGTTCTCTGCATTTTCTCATCATTTTTTTT
65 AATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATAATTTTTTTT
* * *
45153780 AAAAATTTTTGAAAGATGTTTCACTTGATTTT
130 ----A-TTTTGAAAGATGTTTCGCATCATTTT
* * * * * * * *
45153812 ATATTGTATCAATGGATACATATTGACAGATTCCGATATAAATCGATATTGATCAAAACATATTA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
* *
45153877 ATAAATACA-ATCTTGAGATACGTGAATAATTTTTGTT--CT-CA-----TCAT--TTTTTTTTC
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATAATTTTTTTT-
*
45153931 ATTTTGAAAGATGTTTCGCATCATTTC
130 ATTTTGAAAGATGTTTCGCATCATTTT
* * * * *
45153958 ATATTGTATCAACGAATACAGATCAATACATATCGATATAAATCGATATTGAT-AAACAGATATC
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAA-ACATATC
* * * * * *
45154022 AATAAATACACACCTTGAGATACAAGAATGATTTTTGTTCCTTGCATTTTCTCATCTTTTTATTT
65 AATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCA------TA---
* *
45154087 TATTTTATTTTATTTTGAAAGATGTTTCGCATGATTTC
121 -ATTTT-TTTTATTTTGAAAGATGTTTCGCATCATTTT
* * * *
45154125 ATATTGTATCAACGGATACAGATCGATCCATACCTATATAAATCAATATTGATCAAAACATATTA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
45154190 ATAAATATCTATAT-T-GAGATACGAGAATAATTTTTGTTCCCTGCATTTTTCTCATAATTTTTT
66 ATAAATA-C-ATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCA-TTTTCTCATAA---TTT
*
45154253 TTATTTATTTTGAAAGATGTTTTGCATCATTTT
125 TT-TTTATTTTGAAAGATGTTTCGCATCATTTT
* ** * * * *
45154286 ATATTATATCAATAGATACAGATCGATGCATACTAATATAAAAT-TATATTGATAAAAACATATC
1 ATATTGTATCAACGGATACAGATCGATACATACCAATAT-AAATCGATATTGATCAAAACATATC
* * *
45154350 AATAAATACATATATCGAGATATGAGAATGATTTTTGTT
65 AATAAATACATATCTCGAGATACGAGAATAATTTTTGTT
45154389 TTCCATATTT
Statistics
Matches: 1135, Mismatches: 124, Indels: 148
0.81 0.09 0.11
Matches are distributed among these distances:
142 1 0.00
143 129 0.11
144 3 0.00
145 3 0.00
146 138 0.12
147 29 0.03
148 1 0.00
149 75 0.07
150 118 0.10
151 20 0.02
152 8 0.01
154 4 0.00
155 3 0.00
156 75 0.07
157 129 0.11
158 3 0.00
159 33 0.03
160 45 0.04
161 173 0.15
162 9 0.01
167 117 0.10
168 17 0.01
169 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (156 bp):
ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATAATTTTTTTTA
TTTTGAAAGATGTTTCGCATCATTTT
Found at i:45154209 original size:167 final size:163
Alignment explanation
Indices: 45153920--45154418 Score: 557
Period size: 167 Copynumber: 3.0 Consensus size: 163
45153910 TGTTCTCATC
* * *
45153920 ATTTTTTTTTCATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACGAATACAGATCAAT
1 ATTTTATTTT-ATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACGGATACAGATCGAT
* * * * *
45153985 ACATATCGATATAAATCGATATTGATAAACAGATATCAATAAATAC-ACACCTTGAGATACAAGA
65 ACATA-CTATATAAATCAATATTGATAAA-ACATATCAATAAATACTATA--TTGAGATACGAGA
45154049 ATGATTTTTGTTCCTTGCATTTTCTCATCTTTTTATTTT
126 ATGATTTTTGTTCCTTGCATTTTCTCATC-TTTTATTTT
* *
45154088 ATTTTATTTTATTTTGAAAGATGTTTCGCATGATTTCATATTGTATCAACGGATACAGATCGATC
1 ATTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACGGATACAGATCGATA
*
45154153 CATACCTATATAAATCAATATTGATCAAAACATATTAATAAATATCTATATTGAGATACGAGAAT
66 CATA-CTATATAAATCAATATTGAT-AAAACATATCAATAAATA-CTATATTGAGATACGAGAAT
* * * *
45154218 AATTTTTGTTCCCTGCATTTT-TC-TC-ATAATTTT
128 GATTTTTGTTCCTTGCATTTTCTCATCTTTTATTTT
* * * ** *
45154251 -TTTTA-TTTATTTTGAAAGATGTTTTGCATCATTTTATATTATATCAATAGATACAGATCGATG
1 ATTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACGGATACAGATCGATA
* * *
45154314 CATACTAATATAAAAT-TATATTGATAAAAACATATCAATAAATACATATATCGAGATATGAGAA
66 CATACT-ATAT-AAATCAATATTGAT-AAAACATATCAATAAATAC-TATATTGAGATACGAGAA
* *
45154378 TGATTTTTGTT--TTCCATATTTTCTCATCATTTTATATT
127 TGATTTTTGTTCCTTGC--ATTTTCTCATC-TTTTATTTT
45154416 ATT
1 ATT
45154419 GAATTTGGGG
Statistics
Matches: 284, Mismatches: 34, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
159 2 0.01
160 3 0.01
161 115 0.40
162 11 0.04
163 8 0.03
165 7 0.02
166 4 0.01
167 119 0.42
168 13 0.05
169 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (163 bp):
ATTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACGGATACAGATCGATA
CATACTATATAAATCAATATTGATAAAACATATCAATAAATACTATATTGAGATACGAGAATGAT
TTTTGTTCCTTGCATTTTCTCATCTTTTATTTT
Found at i:45179753 original size:96 final size:94
Alignment explanation
Indices: 45179583--45179911 Score: 442
Period size: 96 Copynumber: 3.4 Consensus size: 94
45179573 ACTAGGGTTA
* * *
45179583 TATGTGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAGCCAGCATAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTATAA
* * *
45179648 GACAATGTTTGGGACATGGTCTCGGCATTGT
66 GAC-CTGTTTGGAACATGG-CTCGACATTGT
*
45179679 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGATATGTGAGCCAGTATAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTATAA
* *
45179744 GTCTCTGTTTGGAACATGGCCTCGATATTGT
66 GAC-CTGTTTGGAACATGG-CTCGACATTGT
* * * *
45179775 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGTGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTATAA
*
45179840 GACCATGCTTGGAACATGGCATCGACATTGT
66 GACC-TGTTTGGAACATGGC-TCGACATTGT
* * * *
45179871 TGTATGAGCCAGTATAAGCCCATGTTTGGGACATGGCATCG
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
45179912 ACACCGATAT
Statistics
Matches: 206, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
95 2 0.01
96 204 0.99
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (94 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGTGAGCCAGTATAA
GACCTGTTTGGAACATGGCTCGACATTGT
Found at i:45179914 original size:48 final size:48
Alignment explanation
Indices: 45179582--45179911 Score: 367
Period size: 48 Copynumber: 6.9 Consensus size: 48
45179572 TACTAGGGTT
* * * *
45179582 ATATGTGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTG
** *
45179630 ATATGTGAGCCAGCATAAGACAATGTTTGGGACATGGTC-TCGGCATTG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGG-CATCGGCATTG
* *
45179678 TTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTG
* * * * **
45179726 ATATGTGAGCCAGTATAAGTCTC-TGTTTGGAACATGGCCTCGATATTG
1 ATATGTGAGCCAGTGTAAGAC-CATGTTTGGGACATGGCATCGGCATTG
* * * * *
45179774 TTATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTG
* * * *
45179822 ATATGTGAGCTAGTGTAAGACCATGCTTGGAACATGGCATCGACATTG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTG
* * * * *
45179870 TTGTATGAGCCAGTATAAGCCCATGTTTGGGACATGGCATCG
1 ATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
45179912 ACACCGATAT
Statistics
Matches: 232, Mismatches: 46, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 2 0.01
48 228 0.98
49 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (48 bp):
ATATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTG
Found at i:45180172 original size:12 final size:12
Alignment explanation
Indices: 45180155--45180180 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45180145 TAAGTAAGTT
45180155 ATGTCTATGGTC
1 ATGTCTATGGTC
45180167 ATGTCTATGGTC
1 ATGTCTATGGTC
45180179 AT
1 AT
45180181 TCGAGAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.42
Consensus pattern (12 bp):
ATGTCTATGGTC
Found at i:45182529 original size:44 final size:44
Alignment explanation
Indices: 45182385--45182543 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 44
45182375 AGCTCGTACA
* * * * * *
45182385 ATGCCAACGTCCTAGACATGGCCTTACA-TGCAATCA-AGCATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACAGAAATCACA-AATCG
* * * * *
45182428 ATGCCACTGTCCCAGACAAGGTCTTATAC-GAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAGAAATCACAAATCG
*
45182470 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACAGAAATCACAAATCG
*
45182514 ATGCCAATGTCCCAGACGTGGTCTTACACA
1 ATGCCAATGTCCCAGACATGGTCTTACACA
45182544 ACAACACATA
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
42 28 0.29
43 37 0.38
44 32 0.33
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAGAAATCACAAATCG
Found at i:45182568 original size:44 final size:44
Alignment explanation
Indices: 45182424--45182543 Score: 163
Period size: 44 Copynumber: 2.8 Consensus size: 44
45182414 GCAATCAAGC
* * * * * *
45182424 ATCGATGCCACTGTCCCAGACAAGGTCTTATAC-GAAATCATAT
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAA
45182467 A-CGATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAA
*
45182510 ATCGATGCCAATGTCCCAGACGTGGTCTTACACA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACA
45182544 ACAACACATA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 28 0.41
43 9 0.13
44 31 0.46
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (44 bp):
ATCGATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAA
Found at i:45185211 original size:23 final size:23
Alignment explanation
Indices: 45185165--45185212 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
45185155 CGATTGACAA
*
45185165 TATGAAAACTTGAACAATTAAAC
1 TATGAAAACTTGAACAATCAAAC
*
45185188 TATGAAAACTTGAACAATCGAAC
1 TATGAAAACTTGAACAATCAAAC
45185211 TA
1 TA
45185213 ACTTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (23 bp):
TATGAAAACTTGAACAATCAAAC
Found at i:45207983 original size:26 final size:29
Alignment explanation
Indices: 45207953--45208012 Score: 90
Period size: 26 Copynumber: 2.2 Consensus size: 29
45207943 TATGTCTTAG
45207953 TAGTCTTCTTACTTTT-TTTTT-A-AATT
1 TAGTCTTCTTACTTTTATTTTTAAGAATT
*
45207979 TAGTCTTTTTACTTTTATTTTTAAGAATT
1 TAGTCTTCTTACTTTTATTTTTAAGAATT
45208008 TAGTC
1 TAGTC
45208013 CCTTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 15 0.50
27 5 0.17
28 1 0.03
29 9 0.30
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.62
Consensus pattern (29 bp):
TAGTCTTCTTACTTTTATTTTTAAGAATT
Found at i:45211197 original size:131 final size:130
Alignment explanation
Indices: 45210786--45211243 Score: 476
Period size: 131 Copynumber: 3.5 Consensus size: 130
45210776 ATACGTGTGG
* ** *
45210786 AATTCTGAA-GAGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGGTA
1 AATTCTGAAGGA-ATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA
** * * * * *
45210850 CT-ATTCCCCGAATTGCCAAGCATCGAATATTGCCTTCATTTTAAAGGGTTTTTTAGAAAACGTG
65 -TGATT-CCCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAA-GG-TTTTTAGAAAACATG
45210914 AGTGA
126 AGTGA
* * * * * *
45210919 AATT-TCGAAGGAATCTTCGATTGTTTTGAAAAAACAAGAAATCACAACCCAACACGTTAGGGCA
1 AATTCT-GAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCA
* * * *
45210983 TGATTCCCGAATTATCAAACACCGAGTATTGTCTTTGTTTTGGAAGGTTTTT-GATAAACACGAG
65 TGATTCCCGAATTATCAAACACCGAGTATTGCCTTCGTTTT-AAAGGTTTTTAGA-AAACATGAG
45211047 TGA
128 TGA
** * *
45211050 AAACCTAAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAT
1 AATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAT
* *
45211115 GATTCTCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAAGGATTTTTAGAAGACATGAGTG
66 GATTCCCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAAGG-TTTTTAGAAAACATGAGTG
45211180 A
130 A
* * * * ** *
45211181 AATTTTGAAGGGATATTTTGATTATTTT-AAGCAAACGGGAAATTGCAACCCAGCACGTTAGGG
1 AATTCTGAAGGAATA-TTCGATTATTTTGAA-CAAACGAGAAATCACAACCCAGCACGATAGGG
45211244 TGCGATTCCG
Statistics
Matches: 269, Mismatches: 46, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
130 6 0.02
131 134 0.50
132 73 0.27
133 54 0.20
134 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (130 bp):
AATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCAT
GATTCCCGAATTATCAAACACCGAGTATTGCCTTCGTTTTAAAGGTTTTTAGAAAACATGAGTGA
Found at i:45216875 original size:18 final size:20
Alignment explanation
Indices: 45216841--45216877 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
45216831 AAATTTAAAG
45216841 AATATATTTTTATATTTTTT
1 AATATATTTTTATATTTTTT
45216861 AATA-ATTTTTA-ATTTTT
1 AATATATTTTTATATTTTT
45216878 AAAATTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 7 0.41
20 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
AATATATTTTTATATTTTTT
Found at i:45218004 original size:7 final size:7
Alignment explanation
Indices: 45217992--45218023 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
45217982 GACGTCATGG
45217992 CATTTGT
1 CATTTGT
45217999 CATTTGT
1 CATTTGT
45218006 CATTTGT
1 CATTTGT
*
45218013 CATTTGC
1 CATTTGT
45218020 CATT
1 CATT
45218024 CGCCATTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.19, G:0.12, T:0.53
Consensus pattern (7 bp):
CATTTGT
Found at i:45218011 original size:14 final size:14
Alignment explanation
Indices: 45217992--45218034 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
45217982 GACGTCATGG
*
45217992 CATTTGTCATTTGT
1 CATTTGTCATTTGC
45218006 CATTTGTCATTTGC
1 CATTTGTCATTTGC
* *
45218020 CATTCGCCATTTGC
1 CATTTGTCATTTGC
45218034 C
1 C
45218035 CCATATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.14, C:0.26, G:0.14, T:0.47
Consensus pattern (14 bp):
CATTTGTCATTTGC
Found at i:45218017 original size:21 final size:21
Alignment explanation
Indices: 45217992--45218032 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
45217982 GACGTCATGG
* * *
45217992 CATTTGTCATTTGTCATTTGT
1 CATTTGCCATTCGCCATTTGT
45218013 CATTTGCCATTCGCCATTTG
1 CATTTGCCATTCGCCATTTG
45218033 CCCCATATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.49
Consensus pattern (21 bp):
CATTTGCCATTCGCCATTTGT
Found at i:45221561 original size:21 final size:21
Alignment explanation
Indices: 45221532--45221588 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
45221522 TACTTTACAA
*
45221532 TGATTTTTATATTTA-AATATG
1 TGATATTTATATTTACAAT-TG
***
45221553 TGATATTTATAACCACAATTG
1 TGATATTTATATTTACAATTG
45221574 TGATATTTATATTTA
1 TGATATTTATATTTA
45221589 TATTTAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (21 bp):
TGATATTTATATTTACAATTG
Found at i:45223709 original size:15 final size:16
Alignment explanation
Indices: 45223689--45223721 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
45223679 ATATATATTT
45223689 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
45223704 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
45223721 T
1 T
45223722 ATAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:45223807 original size:20 final size:21
Alignment explanation
Indices: 45223768--45223824 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
45223758 ATTTTAAGAA
*
45223768 TTGTTTTAGTATTATTTTTAT
1 TTGTTTTAATATTATTTTTAT
45223789 TTGTTTTAATATT-TTTTTAT
1 TTGTTTTAATATTATTTTTAT
*
45223809 GT-TTTTAA-ATATATTT
1 TTGTTTTAATAT-TATTT
45223825 GATTTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 2 0.06
19 7 0.22
20 11 0.34
21 12 0.38
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (21 bp):
TTGTTTTAATATTATTTTTAT
Found at i:45225507 original size:22 final size:24
Alignment explanation
Indices: 45225482--45225532 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
45225472 ATTTAATTGA
*
45225482 TTTAGGGTTAGGA-TTTTTAA-GG
1 TTTAGGATTAGGATTTTTTAAGGG
45225504 TTTAGGATTAGGATTTTTTAAGGG
1 TTTAGGATTAGGATTTTTTAAGGG
45225528 TTTAG
1 TTTAG
45225533 TTTTTTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 12 0.46
23 7 0.27
24 7 0.27
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (24 bp):
TTTAGGATTAGGATTTTTTAAGGG
Found at i:45226327 original size:123 final size:125
Alignment explanation
Indices: 45226021--45226399 Score: 568
Period size: 123 Copynumber: 3.0 Consensus size: 125
45226011 TTTCTGCAAG
45226021 AATAATTCT-AAGTAGACGTTTCT-AGACAAATAGTGTCAGAAAACGCTTCAAGCAGGATGCACT
1 AATAATTCTGAA-TAGACGTTTCTGA-ACAAATAGTGTC-GAAAACGCTTCAAGCAGGATGCACT
* * *
45226084 GTCAGTAAAATTTCTAGAAAAAACTCCTATGTGGACGCTCTTTTGCTACAGTATTTCGTAGAAA
63 GTCAGCAAAATTTCTA-AAAAAACTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
45226148 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTTGAAAACGCTTCAAGCAGGATGCCCTGTC
1 AATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
45226213 AGCAAAATTTCTAAAAAAACTCCCATGTGGACGCTCTTTCGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTCTAAAAAAACTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
*
45226273 AATAA-T-TGAATAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * **
45226336 AGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCT-AAAAAAACTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
45226397 AAT
1 AAT
45226400 GAGGTTATAA
Statistics
Matches: 231, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
123 65 0.28
124 46 0.20
125 48 0.21
126 39 0.17
127 31 0.13
128 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (125 bp):
AATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAAAAAAACTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Done.