Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 61 of 144
Found at i:18680140 original size:7 final size:7
Alignment explanation
Indices: 18680121--18680157 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
18680111 AACCCATAAC
18680121 CCTTGAA
1 CCTTGAA
18680128 CCCTTGAA
1 -CCTTGAA
*
18680136 TCTTGAA
1 CCTTGAA
18680143 CCTTGAA
1 CCTTGAA
18680150 CCTTGAA
1 CCTTGAA
18680157 C
1 C
18680158 ACGTAACCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.30
Consensus pattern (7 bp):
CCTTGAA
Found at i:18680241 original size:34 final size:34
Alignment explanation
Indices: 18680189--18680255 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
18680179 CCTTGAATCC
18680189 TAAACCAAAACCTAAAATCTATAACCCCAAACCT
1 TAAACCAAAACCTAAAATCTATAACCCCAAACCT
* * *
18680223 TAAATCAAAACTCT-AAATCTATAATCGCAAACC
1 TAAACCAAAAC-CTAAAATCTATAACCCCAAACC
18680256 CCAAACTCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.21
Consensus pattern (34 bp):
TAAACCAAAACCTAAAATCTATAACCCCAAACCT
Found at i:18681885 original size:20 final size:20
Alignment explanation
Indices: 18681857--18681934 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
18681847 TTGAACCTAT
*
18681857 AACCTTAAACCCTAAATTAA
1 AACCCTAAACCCTAAATTAA
*
18681877 AACCCTAAACCC-ATAATCACA
1 AACCCTAAACCCTA-AATTA-A
*
18681898 AACCCTAAACTCTAAAATT-A
1 AACCCTAAACCCT-AAATTAA
*
18681918 AACCTTAAACCCTAAAT
1 AACCCTAAACCCTAAAT
18681935 CTTAAATTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.10
20 27 0.56
21 12 0.25
22 3 0.06
23 1 0.02
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (20 bp):
AACCCTAAACCCTAAATTAA
Found at i:18681932 original size:27 final size:27
Alignment explanation
Indices: 18681896--18681963 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
18681886 CCCATAATCA
18681896 CAAACCCTAAA-CTCTAAAATT-AAACC
1 CAAACCCTAAATCT-TAAAATTCAAACC
* *
18681922 TTAAACCCTAAATCTTAAATTTCAAACC
1 -CAAACCCTAAATCTTAAAATTCAAACC
18681950 CAAACCCTAAATCT
1 CAAACCCTAAATCT
18681964 CAGGATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 29 0.81
28 7 0.19
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (27 bp):
CAAACCCTAAATCTTAAAATTCAAACC
Found at i:18687006 original size:3 final size:3
Alignment explanation
Indices: 18686998--18687031 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18686988 ATTAAAGTTG
18686998 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
18687032 TAACAAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:18689921 original size:46 final size:46
Alignment explanation
Indices: 18689903--18690007 Score: 165
Period size: 46 Copynumber: 2.3 Consensus size: 46
18689893 TGACAAGTGG
* ** *
18689903 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
*
18689949 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
18689995 AAAGTGATAAGTG
1 AAAGTGATAAGTG
18690008 GCTACACTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC
Found at i:18690015 original size:37 final size:37
Alignment explanation
Indices: 18689971--18690116 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
18689961 GATAGCTTTA
*
18689971 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
18690008 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
18690045 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
18690082 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
18690117 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:18691204 original size:17 final size:17
Alignment explanation
Indices: 18691182--18691215 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18691172 ATTATTTAAA
*
18691182 TAATAATTAAAAATATT
1 TAATAATCAAAAATATT
*
18691199 TAATAATCAAAATTATT
1 TAATAATCAAAAATATT
18691216 ATTTAGATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATCAAAAATATT
Found at i:18697373 original size:13 final size:13
Alignment explanation
Indices: 18697357--18697386 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18697347 TTTTGGCACG
*
18697357 TTCTCTATTTTTT
1 TTCTCTATTTTCT
18697370 TTCTCTATTTTCT
1 TTCTCTATTTTCT
18697383 TTCT
1 TTCT
18697387 TCTTTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (13 bp):
TTCTCTATTTTCT
Found at i:18699973 original size:26 final size:25
Alignment explanation
Indices: 18699939--18700018 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 25
18699929 AGAAGCAAAC
18699939 AAATGAAAAAATTAGAATATAAAAATT
1 AAAT-AAAAAATTA-AATATAAAAATT
*
18699966 AAATAAAAAATATAAATATAAATA-T
1 AAATAAAAAAT-TAAATATAAAAATT
* *
18699991 AAATATAAATATTAAA-ATAAAAAAT
1 AAATA-AAAAATTAAATATAAAAATT
18700016 AAA
1 AAA
18700019 AAATGGCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 6 0.13
25 14 0.30
26 21 0.45
27 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (25 bp):
AAATAAAAAATTAAATATAAAAATT
Found at i:18699976 original size:12 final size:12
Alignment explanation
Indices: 18699939--18700015 Score: 66
Period size: 14 Copynumber: 5.9 Consensus size: 12
18699929 AGAAGCAAAC
18699939 AAATGAAAAAATT
1 AAAT-AAAAAATT
18699952 AGAATATAAAAATT
1 A-AATA-AAAAATT
18699966 AAATAAAAAATAT
1 AAATAAAAAAT-T
*
18699979 AAAT-ATAAATAT
1 AAATAAAAAAT-T
*
18699991 AAATATAAATATT
1 AAATA-AAAAATT
18700004 AAAATAAAAAAT
1 -AAATAAAAAAT
18700016 AAAAAATGGC
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
12 17 0.31
13 17 0.31
14 20 0.37
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (12 bp):
AAATAAAAAATT
Found at i:18699984 original size:6 final size:6
Alignment explanation
Indices: 18699954--18700011 Score: 64
Period size: 6 Copynumber: 9.3 Consensus size: 6
18699944 AAAAAATTAG
* *
18699954 AATATA AAAATTA AATAAAA AATATA AATATA AATATA AATATA AATATTA
1 AATATA AATA-TA AAT-ATA AATATA AATATA AATATA AATATA AATA-TA
18700005 AA-ATA AA
1 AATATA AA
18700012 AAATAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 4 0.09
6 28 0.62
7 12 0.27
8 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AATATA
Found at i:18699994 original size:18 final size:19
Alignment explanation
Indices: 18699954--18700011 Score: 75
Period size: 18 Copynumber: 3.1 Consensus size: 19
18699944 AAAAAATTAG
* *
18699954 AATATAAAAATTAAATAAAA
1 AATATAAATATTAAAT-ATA
18699974 AATATAAATA-TAAATATA
1 AATATAAATATTAAATATA
18699992 AATATAAATATTAAA-ATA
1 AATATAAATATTAAATATA
18700010 AA
1 AA
18700012 AAATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.49
19 9 0.26
20 9 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AATATAAATATTAAATATA
Found at i:18700018 original size:12 final size:12
Alignment explanation
Indices: 18699939--18700019 Score: 63
Period size: 13 Copynumber: 6.2 Consensus size: 12
18699929 AGAAGCAAAC
18699939 AAATGAAAAAATTA
1 AAAT-AAAAAA-TA
* *
18699953 GAATATAAAAATT
1 AAATA-AAAAATA
18699966 AAATAAAAAATA
1 AAATAAAAAATA
*
18699978 TAAATATAAATATA
1 -AAATA-AAAAATA
* *
18699992 AATATAAATATTA
1 AA-ATAAAAAATA
18700005 AAATAAAAAATA
1 AAATAAAAAATA
18700017 AAA
1 AAA
18700020 AATGGCTAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
12 17 0.32
13 19 0.36
14 17 0.32
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:18701521 original size:99 final size:97
Alignment explanation
Indices: 18701378--18701572 Score: 246
Period size: 99 Copynumber: 2.0 Consensus size: 97
18701368 TTTTTATATG
* * * *
18701378 ATTTTTATATGTCAAATATTTATTTTCTCCACCTAAATTGTGGGTATGGCGATTTCTAATATTAT
1 ATTTTTATATGTCAAATATTTATTTTCTCCACCTAAATTGTGGGTATGACAAATTCTAATATTAC
* * *
18701443 AAAATTAAATAATTATTTCAAGTATCATTATT
66 AAAATCAAATAATTATTTCAAATATAATTATT
* * ** * *
18701475 ATTTTTATATTTCAAATATTATAGTTTTTTTTACCTACATTGTGGGTATGATAAATTCTAATATT
1 ATTTTTATATGTCAAATATT-TA-TTTTCTCCACCTAAATTGTGGGTATGACAAATTCTAATATT
*
18701540 ACAAAATCAATTAATTATTTCAAATATAATTAT
64 ACAAAATCAAATAATTATTTCAAATATAATTAT
18701573 GTTTAGTAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
97 19 0.23
98 2 0.02
99 61 0.74
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (97 bp):
ATTTTTATATGTCAAATATTTATTTTCTCCACCTAAATTGTGGGTATGACAAATTCTAATATTAC
AAAATCAAATAATTATTTCAAATATAATTATT
Found at i:18701875 original size:116 final size:115
Alignment explanation
Indices: 18701666--18702002 Score: 554
Period size: 116 Copynumber: 2.9 Consensus size: 115
18701656 TTTGTATGTG
* * * *
18701666 TATTTCAAATAATTATTTCAAATATTTCACATATAAAAATAATGATATTTGAAATAA-TTAT--T
1 TATTTTAAATAATTAATTGAAATATTTCACATAT-AAAATAATGATATTTTAAATAATTTATAAT
18701728 TTTATAATATTAGAATTTACCATACCCACAATGTAGGTGAAAATATAATGA
65 TTTATAATATTAGAATTTACCATACCCACAATGTAGGTGAAAATATAATGA
18701779 TATTTTAAATAATTAATTGAAATATTTCACATATAAAATAATGATATTTTAAATAATTATATAAT
1 TATTTTAAATAATTAATTGAAATATTTCACATATAAAATAATGATATTTTAAATAATT-TATAAT
18701844 TTTATAATATTAGAATTTACCATACCCACAATGTAGGTGAAAATATAATGA
65 TTTATAATATTAGAATTTACCATACCCACAATGTAGGTGAAAATATAATGA
18701895 TATTTTAAATAATTAATTGAAATATTTCACATATAAAATAATGATATTTTAAATAATTTTATAAT
1 TATTTTAAATAATTAATTGAAATATTTCACATATAAAATAATGATATTTTAAATAA-TTTATAAT
* * * *
18701960 TTTATAATATTAGAATTTACCATACTCATAATATAAGTGAAAA
65 TTTATAATATTAGAATTTACCATACCCACAATGTAGGTGAAAA
18702003 AAATAAATAT
Statistics
Matches: 211, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
112 21 0.10
113 32 0.15
114 3 0.01
116 153 0.73
117 2 0.01
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (115 bp):
TATTTTAAATAATTAATTGAAATATTTCACATATAAAATAATGATATTTTAAATAATTTATAATT
TTATAATATTAGAATTTACCATACCCACAATGTAGGTGAAAATATAATGA
Found at i:18704494 original size:21 final size:20
Alignment explanation
Indices: 18704468--18704508 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
18704458 TAACAAATAA
*
18704468 TTTAAAATTTATAAAAAAAAG
1 TTTAAAAATTA-AAAAAAAAG
18704489 TTTAAAAATTAAAAAAAAAG
1 TTTAAAAATTAAAAAAAAAG
18704509 CATGAATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TTTAAAAATTAAAAAAAAAG
Found at i:18707798 original size:18 final size:18
Alignment explanation
Indices: 18707775--18707817 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
18707765 GTTCAAGGTG
18707775 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTGTT
18707793 TAATTAATTAAAATTGTT
1 TAATTAATTAAAATTGTT
18707811 TAATTAA
1 TAATTAA
18707818 AAACCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAATTGTT
Found at i:18708239 original size:28 final size:28
Alignment explanation
Indices: 18708178--18708232 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
18708168 CCATATTCAT
* *
18708178 CAATTAAGGAAAGGAAATACAATTATAA
1 CAATTTAGGAAAGGAAATACAATTACAA
18708206 CAATTTAGGAAAGGAAATACAATTACA
1 CAATTTAGGAAAGGAAATACAATTACA
18708233 GCGATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.22
Consensus pattern (28 bp):
CAATTTAGGAAAGGAAATACAATTACAA
Found at i:18710125 original size:17 final size:16
Alignment explanation
Indices: 18710081--18710133 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
18710071 TTTGGTTCGC
18710081 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
18710097 TATATTGGATTAGAGG
1 TGTATTGGATTAGAGG
18710113 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
18710130 TGTA
1 TGTA
18710134 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 20 0.59
17 14 0.41
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:18710386 original size:16 final size:16
Alignment explanation
Indices: 18710349--18710403 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
18710339 TTAATCATAT
*
18710349 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
18710365 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
18710380 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
18710398 -TAAAAT
1 TTAAAAT
18710404 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:18710396 original size:18 final size:18
Alignment explanation
Indices: 18710355--18710403 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
18710345 ATATTTAAAC
18710355 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
18710373 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
18710389 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
18710404 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:18710522 original size:67 final size:67
Alignment explanation
Indices: 18710451--18710663 Score: 168
Period size: 67 Copynumber: 3.1 Consensus size: 67
18710441 ATTGTTAATG
*
18710451 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
18710516 TA
66 TA
* * * * * * ***
18710518 TTATTAAATATATTTTAATTAAAATATATAATT-T-AATAA-AATTCTTATAAT--TAGCAGAAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATTTTAATCATA-TTTAAA
** * *
18710578 TTTGTTATTG
60 --CATAATTA
* *
18710588 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
18710653 TA
66 TA
18710655 TTA-TTAAAT
1 TTATTTAAAT
18710664 ATATTATAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 27
0.65 0.18 0.17
Matches are distributed among these distances:
65 5 0.05
66 12 0.12
67 28 0.27
68 11 0.11
69 12 0.12
70 24 0.23
71 6 0.06
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
TA
Found at i:18710540 original size:156 final size:156
Alignment explanation
Indices: 18710256--18710583 Score: 620
Period size: 156 Copynumber: 2.1 Consensus size: 156
18710246 TAGAATACCC
* *
18710256 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
18710321 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
18710386 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
18710412 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
18710477 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
18710542 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
18710568 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
18710584 ATTGTTATTT
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 168 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:18710546 original size:18 final size:17
Alignment explanation
Indices: 18710525--18710559 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18710515 TTATTATTAA
*
18710525 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18710543 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18710560 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18710550 original size:137 final size:137
Alignment explanation
Indices: 18710261--18710701 Score: 360
Period size: 137 Copynumber: 3.1 Consensus size: 137
18710251 TACCCTTAGC
*
18710261 ATAAAATTGTT-TTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
1 ATAAAATTCTTATTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
*
18710325 CAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATA
66 CAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
18710390 TAATTTA
131 TAATTTA
* * * * * *
18710397 ATAAAATTCTTATAATTAGCAGAAAATTG-TT-TTGGTAAATGATTATTGTTAATGTTATTTAA-
1 ATAAAATTC-T-T-ATT-G--GTAAA-TGATTATT-GTTATTG-TTATT-TAAATTTTA-ATAAG
* * * * ** *
18710459 ATT-TTA--ATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTA
55 ATTATTATTATCAG-TAATAAATAT-TTTAAT-CATA---T--T--T----AAACATAATTATTA
18710521 TTAAATATATTTTAATTAAAATATATAATTTA
106 TTAAATATATTTTAATTAAAATATATAATTTA
*** * * *
18710553 ATAAAATTCTTATAATTAGCA-GA-AATTTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 ATAAAATTCTTATTGGTA-AATGATTA-TTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
* * *
18710616 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATA
64 ATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATA
18710681 TATAATTTA
129 TATAATTTA
18710690 ATAAAATTCTTA
1 ATAAAATTCTTA
18710702 ATAATTAATA
Statistics
Matches: 235, Mismatches: 36, Indels: 67
0.70 0.11 0.20
Matches are distributed among these distances:
136 8 0.03
137 58 0.25
138 1 0.00
140 2 0.01
141 2 0.01
142 6 0.03
143 19 0.08
144 14 0.06
145 14 0.06
146 3 0.01
147 3 0.01
148 14 0.06
149 13 0.06
150 13 0.06
151 6 0.03
152 1 0.00
153 2 0.01
154 1 0.00
155 1 0.00
156 54 0.23
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (137 bp):
ATAAAATTCTTATTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
CAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
TAATTTA
Found at i:18710679 original size:16 final size:16
Alignment explanation
Indices: 18710642--18710683 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18710632 TTAATCATAT
*
18710642 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
18710658 TT-AAATATATTATAA
1 TTAAAATATATTATAA
18710673 TTAAAATATAT
1 TTAAAATATAT
18710684 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:18710690 original size:14 final size:15
Alignment explanation
Indices: 18710651--18710692 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18710641 TTTAAACATA
*
18710651 ATTATTATTAAATAT
1 ATTATAATTAAATAT
18710666 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
18710680 A-TATAATTTAATA
1 ATTATAATTAAATA
18710693 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:18710741 original size:137 final size:136
Alignment explanation
Indices: 18710463--18710861 Score: 401
Period size: 137 Copynumber: 3.0 Consensus size: 136
18710453 ATTTAAATTT
* * *
18710463 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* *
18710528 TATTTTAATTAAAATATATAATTTAATAAAATTCTT-ATAATTAGCAGAAATTTGTTAT-TG---
66 TA-TTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT---A-ATA-TTCTTATATGAAT
* * **
18710588 TTATTTAAATTT
125 TTACTCAAATCA
18710600 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
18710665 TATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
66 TATT-TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
18710730 CAAATCA
130 CAAATCA
* * * ** * * * *
18710737 TAAT-ATATGA-TACTAT-AA-AAT--ATAAAGTAA-CATAATT----ATTATTA-AATAT-ATT
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTAT-TAAAT
18710789 ATA----ATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
65 ATATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
*
18710850 GAAATCA
130 CAAATCA
18710857 TAATA
1 TAATA
18710862 TATGATACTA
Statistics
Matches: 235, Mismatches: 19, Indels: 32
0.82 0.07 0.11
Matches are distributed among these distances:
120 68 0.29
125 7 0.03
126 7 0.03
130 6 0.03
131 7 0.03
133 9 0.04
134 6 0.03
135 6 0.03
136 6 0.03
137 107 0.46
138 6 0.03
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (136 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
TATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTC
AAATCA
Found at i:18710742 original size:61 final size:60
Alignment explanation
Indices: 18710677--18710864 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 60
18710667 TTATAATTAA
18710677 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT-AAATCAT
* * * * * * * * *
18710738 AATATATGATACT-ATAAAA-TATAAAGTAACATAATTATTATTAAAT--ATATTA-T-AATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGAAT-TTACTAAATCAT
18710797 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT-AAATCAT
18710858 AATATAT
1 AATATAT
18710865 GATACTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 9 0.09
58 7 0.07
59 25 0.26
60 8 0.08
61 32 0.33
62 7 0.07
63 9 0.09
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTAAATCAT
Found at i:18710770 original size:120 final size:120
Alignment explanation
Indices: 18710645--18710875 Score: 453
Period size: 120 Copynumber: 1.9 Consensus size: 120
18710635 ATCATATTTA
18710645 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
18710710 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAAGT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAAGT
18710765 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
18710830 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAA
18710876 NNNNNNNNNN
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAAGT
Found at i:18710810 original size:14 final size:15
Alignment explanation
Indices: 18710771--18710812 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18710761 AAGTAACATA
*
18710771 ATTATTATTAAATAT
1 ATTATAATTAAATAT
18710786 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
18710800 A-TATAATTTAATA
1 ATTATAATTAAATA
18710813 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:18710863 original size:59 final size:59
Alignment explanation
Indices: 18710680--18710863 Score: 173
Period size: 59 Copynumber: 3.1 Consensus size: 59
18710670 TAATTAAAAT
18710680 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
18710739 ATAT-ATGATACTATAAAA-TATAAAGTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-TTAA-TATTCTTATATGA-ATT-TACTCAAATCA
18710799 T-
58 TA
*
18710800 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTGAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
18710859 ATATA
1 ATATA
18710864 TGATACTATA
Statistics
Matches: 95, Mismatches: 16, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 8 0.08
59 20 0.21
60 8 0.08
61 15 0.16
62 8 0.08
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATA
Found at i:18712426 original size:278 final size:278
Alignment explanation
Indices: 18711929--18712483 Score: 1038
Period size: 278 Copynumber: 2.0 Consensus size: 278
18711919 TAATAAGCCA
18711929 AAGCATCTTTCAATGACATTACGTGCTGAGGCATGTTTCATATTAAAAAACTCTTGCGGAGAACT
1 AAGCATCTTTCAATGACATTACGTGCTGAGGCATGTTTCATATTAAAAAACTCTTGCGGAGAACT
18711994 TGGCTGATAACCCTGACGCCACTCGTTCAGATGATATCGCTGTCCTCTAAATGGTGCAAGAAATC
66 TGGCTGATAACCCTGACGCCACTCGTTCAGATGATATCGCTGTCCTCTAAATGGTGCAAGAAATC
18712059 CCTCACAATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAATAAATTGGCTAAAAA
131 CCTCACAATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAATAAATTGGCTAAAAA
* *
18712124 ATGATTAATTCAGCAAACAAAGTTTTATCTTAATGAATAATTCAAATTAGACTAACTATACACTG
196 ATGATTAATTCAGCAAACAAAGTTTGATCTTAATGAATAATTCAAATTACACTAACTATACACTG
18712189 TACCATGAGGAACTTTTG
261 TACCATGAGGAACTTTTG
18712207 AAGCATCTTTCAATGACATTACGTGCTGAGGCATGTTTCATATTAAAAAACTCTTGCGGAGAACT
1 AAGCATCTTTCAATGACATTACGTGCTGAGGCATGTTTCATATTAAAAAACTCTTGCGGAGAACT
18712272 TGGCTGATAACCCTGACGCCACTCGTTCAGATGATATCGCTGTCCTCTAAATGGTGCAAGAAATC
66 TGGCTGATAACCCTGACGCCACTCGTTCAGATGATATCGCTGTCCTCTAAATGGTGCAAGAAATC
* ***
18712337 CCTCACAATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAATAATTTTTTTAAAAA
131 CCTCACAATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAATAAATTGGCTAAAAA
* *
18712402 ATGATTAATTCAGCAAACAAAGTTTGATCTTAATGAATAATTCAAATTCCTCTAACTATACACTG
196 ATGATTAATTCAGCAAACAAAGTTTGATCTTAATGAATAATTCAAATTACACTAACTATACACTG
18712467 TACCATGAGGAACTTTT
261 TACCATGAGGAACTTTT
18712484 AGTCCATGTC
Statistics
Matches: 269, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
278 269 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (278 bp):
AAGCATCTTTCAATGACATTACGTGCTGAGGCATGTTTCATATTAAAAAACTCTTGCGGAGAACT
TGGCTGATAACCCTGACGCCACTCGTTCAGATGATATCGCTGTCCTCTAAATGGTGCAAGAAATC
CCTCACAATTTGTGTATCCAGCATCAACTAGATAATAACAACCTATAAAATAAATTGGCTAAAAA
ATGATTAATTCAGCAAACAAAGTTTGATCTTAATGAATAATTCAAATTACACTAACTATACACTG
TACCATGAGGAACTTTTG
Found at i:18717764 original size:35 final size:35
Alignment explanation
Indices: 18717710--18717823 Score: 185
Period size: 35 Copynumber: 3.2 Consensus size: 35
18717700 CCAACCAAAG
18717710 CACACCAGATGCTCATAAGAGGC-AATCCCTCCGAAA
1 CACACCA-ATGCTCATAAGA-GCTAATCCCTCCGAAA
* *
18717746 CACACCAATGCTCGTAAGAGCTAATCCCTCCAAAA
1 CACACCAATGCTCATAAGAGCTAATCCCTCCGAAA
18717781 CACACCAATGCTCATAAGAGCTAATCCCTCCGAAA
1 CACACCAATGCTCATAAGAGCTAATCCCTCCGAAA
18717816 CACACCAA
1 CACACCAA
18717824 AACAGAGAGT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 2 0.03
35 64 0.88
36 7 0.10
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (35 bp):
CACACCAATGCTCATAAGAGCTAATCCCTCCGAAA
Found at i:18719618 original size:43 final size:42
Alignment explanation
Indices: 18719414--18719696 Score: 431
Period size: 42 Copynumber: 6.7 Consensus size: 42
18719404 CAAACAAAAA
* *
18719414 CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
* * * *
18719456 AGCCTCTAAAGAACATGTTCTTTGGCGGCGTTTGTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
* *
18719498 CGCCTCTAAAAAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
* *
18719540 CGCCTCTAAAGAACAAGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
*
18719582 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTCTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGT-TTTTTTCTAAG
*
18719625 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTCTTTTTTCTAAG
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGT-TTTTTTCTAAG
*
18719668 CGCCGCTAAAGAACATGGTCTTTAGCGGC
1 CGCCGCTAAAGAACATGTTCTTTAGCGGC
18719697 ACTTTTATAC
Statistics
Matches: 225, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
42 142 0.63
43 83 0.37
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:18720089 original size:21 final size:21
Alignment explanation
Indices: 18720021--18720091 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
18720011 TTTTGCTCTG
*
18720021 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
18720042 CTCCGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
18720063 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
18720084 CTCTGCTT
1 CTCTGCTT
18720092 TAAGTTGTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.03, C:0.48, G:0.18, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:18725124 original size:7 final size:7
Alignment explanation
Indices: 18725112--18725198 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
18725102 TGATACATTT
18725112 TTATGTA
1 TTATGTA
18725119 TTATGTAA
1 TTATGT-A
*
18725127 GTAATGTAA
1 -TTATGT-A
18725136 GTTATGTA
1 -TTATGTA
18725144 TTATGTA
1 TTATGTA
18725151 TTATGTAA
1 TTATGT-A
*
18725159 GTACTGTAA
1 TTA-TGT-A
*
18725168 GTAATGTAA
1 -TTATGT-A
18725177 GTTATGTA
1 -TTATGTA
18725185 TTATGTA
1 TTATGTA
18725192 TTATGTA
1 TTATGTA
18725199 AGTACTGTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
7 33 0.48
8 6 0.09
9 29 0.42
10 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.47
Consensus pattern (7 bp):
TTATGTA
Found at i:18725135 original size:9 final size:9
Alignment explanation
Indices: 18725121--18725234 Score: 84
Period size: 9 Copynumber: 11.6 Consensus size: 9
18725111 TTTATGTATT
18725121 ATGTAAGTA
1 ATGTAAGTA
*
18725130 ATGTAAGTT
1 ATGTAAGTA
18725139 ATGTATTATGTA
1 ATGTA--A-GTA
18725151 TTATGTAAGTA
1 --ATGTAAGTA
*
18725162 CTGTAAGTA
1 ATGTAAGTA
*
18725171 ATGTAAGTT
1 ATGTAAGTA
18725180 ATGTATTATGTA
1 ATGTA--A-GTA
18725192 TTATGTAAGTA
1 --ATGTAAGTA
*
18725203 CTGTAAGTA
1 ATGTAAGTA
*
18725212 ATGTAAGTT
1 ATGTAAGTA
*
18725221 ATGTAAGCA
1 ATGTAAGTA
18725230 ATGTA
1 ATGTA
18725235 TTATGTAAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
9 60 0.71
11 8 0.10
12 6 0.07
14 10 0.12
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (9 bp):
ATGTAAGTA
Found at i:18725142 original size:18 final size:18
Alignment explanation
Indices: 18725119--18725538 Score: 277
Period size: 18 Copynumber: 24.4 Consensus size: 18
18725109 TTTTTATGTA
*
18725119 TTATGTAAGTAATGTAAG
1 TTATGTAAGTTATGTAAG
18725137 TTATGT-A-TTATGT-A-
1 TTATGTAAGTTATGTAAG
18725151 TTATGTAAG-TACTGTAAG
1 TTATGTAAGTTA-TGTAAG
*
18725169 TAATGTAAGTTATGT-A-
1 TTATGTAAGTTATGTAAG
18725185 TTATGT-A-TTATGTAAG
1 TTATGTAAGTTATGTAAG
*
18725201 -TACTGTAAGTAATGTAAG
1 TTA-TGTAAGTTATGTAAG
**
18725219 TTATGTAAGCAATGT-A-
1 TTATGTAAGTTATGTAAG
*
18725235 TTATGTAAGTTGTGTTAA-
1 TTATGTAAGTTATG-TAAG
*
18725253 -TAT-TAA-TTATGTGAG
1 TTATGTAAGTTATGTAAG
* *
18725268 TTGTG-AA-TAATGTAAG
1 TTATGTAAGTTATGTAAG
* *
18725284 TTAAG-AAGGCTATGT-A-
1 TTATGTAA-GTTATGTAAG
* * *
18725300 TAATATAAGTTGTGTAAG
1 TTATGTAAGTTATGTAAG
* *
18725318 TTACT-TAATTTATGTAGG
1 TTA-TGTAAGTTATGTAAG
18725336 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
* * *
18725354 TTATTTAATTTATGCAAG
1 TTATGTAAGTTATGTAAG
18725372 TTTATGTAAGTTATGTAAG
1 -TTATGTAAGTTATGTAAG
* *
18725391 TTACT-TAATTTATGTAGG
1 TTA-TGTAAGTTATGTAAG
*
18725409 TTATGTAAG---T-TAAT
1 TTATGTAAGTTATGTAAG
*
18725423 TTATGTAGGTTATGTAAG
1 TTATGTAAGTTATGTAAG
* *
18725441 TTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAG
* *
18725459 TTATGCAGGTTTATGTAAG
1 TTATGTAAG-TTATGTAAG
*
18725478 TTATGTAAGTTACT-TAAT
1 TTATGTAAGTTA-TGTAAG
18725496 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
* *
18725514 TTACT-TAATTTATGTAGG
1 TTA-TGTAAGTTATGTAAG
18725532 TTATGTA
1 TTATGTA
18725539 TTATAACATA
Statistics
Matches: 312, Mismatches: 54, Indels: 72
0.71 0.12 0.16
Matches are distributed among these distances:
14 24 0.08
15 13 0.04
16 53 0.17
17 18 0.06
18 167 0.54
19 37 0.12
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (18 bp):
TTATGTAAGTTATGTAAG
Found at i:18725153 original size:32 final size:34
Alignment explanation
Indices: 18725112--18725234 Score: 146
Period size: 32 Copynumber: 3.7 Consensus size: 34
18725102 TGATACATTT
*
18725112 TTATGTATTATGTAAGTAATGTAAGTTATGT-A-
1 TTATGTATTATGTAAGTAATGTAAGTAATGTAAG
*
18725144 TTATGTATTATGTAAGTACTGTAAGTAATGTAAG
1 TTATGTATTATGTAAGTAATGTAAGTAATGTAAG
* *
18725178 TTATGTATTATGT-A-TTATGTAAGTACTGTAAG
1 TTATGTATTATGTAAGTAATGTAAGTAATGTAAG
* *
18725210 TAATGTAAGTTATGTAAGCAATGTA
1 TTATGT-A-TTATGTAAGTAATGTA
18725235 TTATGTAAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
32 49 0.64
33 3 0.04
34 19 0.25
35 1 0.01
36 5 0.06
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (34 bp):
TTATGTATTATGTAAGTAATGTAAGTAATGTAAG
Found at i:18725169 original size:41 final size:41
Alignment explanation
Indices: 18725122--18725244 Score: 210
Period size: 41 Copynumber: 3.0 Consensus size: 41
18725112 TTATGTATTA
18725122 TGTAAGTAATGTAAGTTATGTATTATGTATTATGTAAGTAC
1 TGTAAGTAATGTAAGTTATGTATTATGTATTATGTAAGTAC
18725163 TGTAAGTAATGTAAGTTATGTATTATGTATTATGTAAGTAC
1 TGTAAGTAATGTAAGTTATGTATTATGTATTATGTAAGTAC
**
18725204 TGTAAGTAATGTAAGTTATGTAAGCAATGTATTATGTAAGT
1 TGTAAGTAATGTAAGTTATGT-A-TTATGTATTATGTAAGT
18725245 TGTGTTAATA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
41 62 0.79
42 1 0.01
43 15 0.19
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.42
Consensus pattern (41 bp):
TGTAAGTAATGTAAGTTATGTATTATGTATTATGTAAGTAC
Found at i:18725208 original size:50 final size:48
Alignment explanation
Indices: 18725121--18725241 Score: 161
Period size: 50 Copynumber: 2.4 Consensus size: 48
18725111 TTTATGTATT
* *
18725121 ATGTAAGTAATGTAAGTTATGTATTATGTATTATGTAAGTACTGTAAGTA
1 ATGTAAGTAATGT-A-TTATGTATTATGTAGTATGTAAGTAATGTAAGTA
* *
18725171 ATGTAAGTTATGTATTATGTATTATGTAAGTACTGTAAGTAATGTAAGTT
1 ATGTAAGTAATGTATTATGTATTATGT-AGTA-TGTAAGTAATGTAAGTA
*
18725221 ATGTAAGCAATGTATTATGTA
1 ATGTAAGTAATGTATTATGTA
18725242 AGTTGTGTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
48 13 0.21
49 4 0.06
50 46 0.73
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (48 bp):
ATGTAAGTAATGTATTATGTATTATGTAGTATGTAAGTAATGTAAGTA
Found at i:18725319 original size:9 final size:9
Alignment explanation
Indices: 18725305--18725538 Score: 205
Period size: 9 Copynumber: 26.2 Consensus size: 9
18725295 ATGTATAATA
*
18725305 TAAGTTGTG
1 TAAGTTATG
18725314 TAAGTTACT-
1 TAAGTTA-TG
*
18725323 TAATTTATG
1 TAAGTTATG
*
18725332 TAGGTTATG
1 TAAGTTATG
18725341 TAAGTTATG
1 TAAGTTATG
*
18725350 TAAGTTATT
1 TAAGTTATG
*
18725359 TAATTTATG
1 TAAGTTATG
*
18725368 CAAGTTTATG
1 TAAG-TTATG
18725378 TAAGTTATG
1 TAAGTTATG
18725387 TAAGTTACT-
1 TAAGTTA-TG
*
18725396 TAATTTATG
1 TAAGTTATG
*
18725405 TAGGTTATG
1 TAAGTTATG
18725414 TAAG---T-
1 TAAGTTATG
*
18725419 TAATTTATG
1 TAAGTTATG
*
18725428 TAGGTTATG
1 TAAGTTATG
18725437 TAAGTTATG
1 TAAGTTATG
*
18725446 TAAGTTATT
1 TAAGTTATG
*
18725455 TAATTTATG
1 TAAGTTATG
* *
18725464 CAGGTTTATG
1 TAAG-TTATG
18725474 TAAGTTATG
1 TAAGTTATG
18725483 TAAGTTACT-
1 TAAGTTA-TG
*
18725492 TAATTTATG
1 TAAGTTATG
18725501 TAAGTTATG
1 TAAGTTATG
18725510 TAAGTTACT-
1 TAAGTTA-TG
*
18725519 TAATTTATG
1 TAAGTTATG
*
18725528 TAGGTTATG
1 TAAGTTATG
18725537 TA
1 TA
18725539 TTATAACATA
Statistics
Matches: 179, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
5 3 0.02
6 1 0.01
8 5 0.03
9 151 0.84
10 19 0.11
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:18725377 original size:46 final size:46
Alignment explanation
Indices: 18725305--18725515 Score: 205
Period size: 46 Copynumber: 4.5 Consensus size: 46
18725295 ATGTATAATA
* * *
18725305 TAAGTTGTGTAAGTTACT-TAA-TTTATGTAGGTTATGTAAGTTA-T
1 TAAGTTATGTAAGTTA-TGCAAGTTTATGTAAGTTATGTAAGTTACT
* *
18725349 GTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTACT
1 -TAAGTTATGTAAGTTATGCAAGTTTATGTAAGTTATGTAAGTTACT
* * * *
18725396 TAATTTATGTAGGTTATGTAAGTTAATTTATGTAGGTTATGTAAGTTA-T
1 TAAGTTATGTAAGTTATGCAAG----TTTATGTAAGTTATGTAAGTTACT
* * *
18725445 GTAAGTTATTTAATTTATGCAGGTTTATGTAAGTTATGTAAGTTACT
1 -TAAGTTATGTAAGTTATGCAAGTTTATGTAAGTTATGTAAGTTACT
* *
18725492 TAATTTATGTAAGTTATGTAAGTT
1 TAAGTTATGTAAGTTATGCAAGTT
18725516 ACTTAATTTA
Statistics
Matches: 134, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
44 1 0.01
45 15 0.11
46 78 0.58
47 2 0.01
49 1 0.01
50 37 0.28
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (46 bp):
TAAGTTATGTAAGTTATGCAAGTTTATGTAAGTTATGTAAGTTACT
Found at i:18725425 original size:23 final size:23
Alignment explanation
Indices: 18725372--18725443 Score: 99
Period size: 23 Copynumber: 3.0 Consensus size: 23
18725362 TTTATGCAAG
*
18725372 TTTATGTAAGTTATGTAAGTTACTTAA
1 TTTATGTAGGTTATGTAAG----TTAA
18725399 TTTATGTAGGTTATGTAAGTTAA
1 TTTATGTAGGTTATGTAAGTTAA
18725422 TTTATGTAGGTTATGTAAGTTA
1 TTTATGTAGGTTATGTAAGTTA
18725444 TGTAAGTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 26 0.59
27 18 0.41
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (23 bp):
TTTATGTAGGTTATGTAAGTTAA
Found at i:18725428 original size:96 final size:97
Alignment explanation
Indices: 18725322--18725538 Score: 382
Period size: 96 Copynumber: 2.2 Consensus size: 97
18725312 TGTAAGTTAC
18725322 TTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATG
1 TTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATG
*
18725387 TAAGTTACTTAATTTATGTAGGTTATGTAAG-
66 TAAGTTACTTAATTTATGTAAGTTATGTAAGT
*
18725418 TTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATTTATGCAGGTTTATGTAAGTTATG
1 TTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATG
18725483 TAAGTTACTTAATTTATGTAAGTTATGTAAGTT
66 TAAGTTACTTAATTTATGTAAGTTATGTAAG-T
18725516 ACTTAATTTATGTAGGTTATGTA
1 --TTAATTTATGTAGGTTATGTA
18725539 TTATAACATA
Statistics
Matches: 115, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
96 94 0.82
100 21 0.18
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.48
Consensus pattern (97 bp):
TTAATTTATGTAGGTTATGTAAGTTATGTAAGTTATTTAATTTATGCAAGTTTATGTAAGTTATG
TAAGTTACTTAATTTATGTAAGTTATGTAAGT
Found at i:18725778 original size:16 final size:16
Alignment explanation
Indices: 18725753--18725790 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18725743 GAAAACGAAG
*
18725753 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
18725768 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
18725784 TAAATTT
1 TAAATTT
18725791 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:18725805 original size:13 final size:13
Alignment explanation
Indices: 18725787--18725814 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18725777 ATACAAATAA
18725787 ATTTAGAAAACTT
1 ATTTAGAAAACTT
18725800 ATTTAGAAAACTT
1 ATTTAGAAAACTT
18725813 AT
1 AT
18725815 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:18725822 original size:17 final size:17
Alignment explanation
Indices: 18725783--18725832 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
18725773 TTTAATACAA
18725783 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
18725799 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
18725813 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
18725830 ATA
1 ATA
18725833 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:18727089 original size:44 final size:44
Alignment explanation
Indices: 18727041--18727141 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 44
18727031 AACTGGAGAA
* *
18727041 AAAAAACAATAGT-TAAACACAGTTCCTAACACCCTAAACCATTC
1 AAAAAA-AATAGTATAAACAAAGTTCCTAACACCCTAAACCAGTC
*
18727085 -AAAAAAATAGTAATGAACAAAGTTCCTAACACCCTAAACCAGTC
1 AAAAAAAATAGT-ATAAACAAAGTTCCTAACACCCTAAACCAGTC
*
18727129 AAAAAAAACAGTA
1 AAAAAAAATAGTA
18727142 ATGAACAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 6 0.12
43 5 0.10
44 29 0.58
45 10 0.20
ACGTcount: A:0.52, C:0.23, G:0.07, T:0.18
Consensus pattern (44 bp):
AAAAAAAATAGTATAAACAAAGTTCCTAACACCCTAAACCAGTC
Found at i:18727089 original size:45 final size:44
Alignment explanation
Indices: 18727040--18727149 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 44
18727030 AAACTGGAGA
* * *
18727040 AAAAAAACAATAGTTAAACACAGTTCCTAACACCCTAAACCATTC
1 AAAAAAACAATA-ATAAACAAAGTTCCTAACACCCTAAACCAGTC
* * *
18727085 AAAAAAATAGTAATGAACAAAGTTCCTAACACCCTAAACCAGTC
1 AAAAAAACAATAATAAACAAAGTTCCTAACACCCTAAACCAGTC
* *
18727129 AAAAAAAACAGTAATGAACAA
1 -AAAAAAACAATAATAAACAA
18727150 TAATAGAAGC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 28 0.49
45 29 0.51
ACGTcount: A:0.54, C:0.22, G:0.07, T:0.17
Consensus pattern (44 bp):
AAAAAAACAATAATAAACAAAGTTCCTAACACCCTAAACCAGTC
Found at i:18727099 original size:219 final size:219
Alignment explanation
Indices: 18726704--18727104 Score: 626
Period size: 219 Copynumber: 1.8 Consensus size: 219
18726694 CATACTTTAA
* * *
18726704 AAACAGTACCAAATGAGTTCAACACATAAACAGTAACAAAGCATGTGTTCTGTACCTTCAGAACG
1 AAACAGTACAAAATGAGTTCAACAAATAAACAGTAACAAAGCATGTGTTCTGTACCTTAAGAACG
* * * * *
18726769 ATGACGAATACTGAAATGAAAGCAATGAAATGGATTGACCAAAATCTGGAGAAGAAAAACACAAG
66 ATGAAGAAAAATGAAATGAAAGCAATGAAATGGATTGACCAAAAACTGGAGAAAAAAAACACAAG
* * *
18726834 TTAAAATCAGTTCCTAACAAATTAAACCATAGACAAAAACAGTAATGAACAATAGAAGCAGTACC
131 TTAAAATCAGTTCCTAACAAACTAAACCATACAAAAAAACAGTAATGAACAATAGAAGCAGTACC
18726899 AAATTGACTGAAAATAACCGTGTC
196 AAATTGACTGAAAATAACCGTGTC
*
18726923 AAACAGTACAAAATGAGTTCAACAAATCAACAGTAACAAAGCATGTGTTCTGTACCTTAAGAACG
1 AAACAGTACAAAATGAGTTCAACAAATAAACAGTAACAAAGCATGTGTTCTGTACCTTAAGAACG
18726988 ATGAAGAAAAATGAAATGAAAGCAATGAAATGGATTGACCAAAAACTGGAGAAAAAAAACA-ATA
66 ATGAAGAAAAATGAAATGAAAGCAATGAAATGGATTGACCAAAAACTGGAGAAAAAAAACACA-A
** * *
18727052 GTTAAACA-CAGTTCCTAACACCCTAAACCATTCAAAAAAATAGTAATGAACAA
130 GTTAAA-ATCAGTTCCTAACAAACTAAACCATACAAAAAAACAGTAATGAACAA
18727105 AGTTCCTAAC
Statistics
Matches: 164, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
218 1 0.01
219 162 0.99
220 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (219 bp):
AAACAGTACAAAATGAGTTCAACAAATAAACAGTAACAAAGCATGTGTTCTGTACCTTAAGAACG
ATGAAGAAAAATGAAATGAAAGCAATGAAATGGATTGACCAAAAACTGGAGAAAAAAAACACAAG
TTAAAATCAGTTCCTAACAAACTAAACCATACAAAAAAACAGTAATGAACAATAGAAGCAGTACC
AAATTGACTGAAAATAACCGTGTC
Found at i:18730180 original size:114 final size:113
Alignment explanation
Indices: 18730062--18730413 Score: 438
Period size: 114 Copynumber: 3.1 Consensus size: 113
18730052 GTTTTATCGT
* *
18730062 AAACGCCACTAATTTTAATATACCTCAAAACCAAACGTTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
18730127 GCTTAAAAATAAACGCCACTAACGATGTTCTTTTACGGCGTTTTTTTAA
66 GCTTAAAAATAAACGCCACTAA-GATGTTCTTTTACGGCGTTTTTTTAA
* ** * * * *
18730176 AAACGCCACAAACACTAATCTACCTCAAGACCAAACGGTGCGTTTTGGTTAAGATA-TTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
**** * * * * ***
18730240 GCTT-TTTGTAATACGCCGCTAATACTGTTCTTTTGCGGCGTTTTATCGT
66 GCTTAAAAATAA-ACGCCACTAAGA-TGTTCTTTTACGGCGTTTTTTTAA
* * *
18730289 AAACGCCACGAATTCTAATATACCTCCAAACGAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
*
18730354 GCTTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGTTTTTTTAA
66 GCTTAAAAATAAACGCCACTAA-GATGTTCTTTTACGGCGTTTTTTTAA
18730403 AAACGCCACTA
1 AAACGCCACTA
18730414 GTTGTTCGGG
Statistics
Matches: 193, Mismatches: 40, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
112 4 0.02
113 87 0.45
114 98 0.51
115 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (113 bp):
AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
GCTTAAAAATAAACGCCACTAAGATGTTCTTTTACGGCGTTTTTTTAA
Found at i:18730307 original size:113 final size:113
Alignment explanation
Indices: 18729971--18730397 Score: 436
Period size: 114 Copynumber: 3.8 Consensus size: 113
18729961 CACTAATCCT
* * *
18729971 CCTCAACACCAAACGGTGCGTTTTAG-TACCGATA-TTTGTGGCGCTTTTTGTAATACGCCACTA
1 CCTCAA-ACCAAACGGTGCGTTTTGGTTA-AGATATTTTGCGGCGCTTTTTGTAATACGCCACTA
* * * *
18730034 ATACTGTTCTTTAGTGGCGTTTTATCGTAAACGCCACTAATTTTAATATA
64 ATACTGTTCTTTTGCGGCGTTTTATCGTAAACGCCACAAATTCTAATATA
* * ****
18730084 CCTCAAAACCAAACGTTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTAAAAATAA-ACGCCACTA
1 CCTC-AAACCAAACGGTGCGTTTTGGTTAAGATATTTTGCGGCGCTT-TTTGTAATACGCCACTA
* * * *** ** *
18730148 ACGA-TGTTCTTTTACGGCGTTTTTTTAAAAACGCCACAAACACTAATCTA
64 A-TACTGTTCTTTTGCGGCGTTTTATCGTAAACGCCACAAATTCTAATATA
*
18730198 CCTCAAGACCAAACGGTGCGTTTTGGTTAAGATA-TTTGCGGCGCTTTTTGTAATACGCCGCTAA
1 CCTCAA-ACCAAACGGTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTGTAATACGCCACTAA
*
18730262 TACTGTTCTTTTGCGGCGTTTTATCGTAAACGCCACGAATTCTAATATA
65 TACTGTTCTTTTGCGGCGTTTTATCGTAAACGCCACAAATTCTAATATA
* * * ****
18730311 CCTCCAAACGAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAA-ACGCCACTA
1 CCT-CAAACCAAACGGTGCGTTTTGGTTAAGATATTTTGCGGCGCTT-TTTGTAATACGCCACTA
*
18730375 ATGA-TGTTCTTTTACGGCGTTTT
64 AT-ACTGTTCTTTTGCGGCGTTTT
18730398 TTTAAAAACG
Statistics
Matches: 254, Mismatches: 48, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
112 4 0.02
113 111 0.44
114 131 0.52
115 8 0.03
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (113 bp):
CCTCAAACCAAACGGTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTGTAATACGCCACTAAT
ACTGTTCTTTTGCGGCGTTTTATCGTAAACGCCACAAATTCTAATATA
Found at i:18730333 original size:227 final size:227
Alignment explanation
Indices: 18729935--18730411 Score: 762
Period size: 227 Copynumber: 2.1 Consensus size: 227
18729925 CGATATTTGG
* *
18729935 CGGCG-TTTTTTAATAAGCGCCACTAACACTAATCCTCCTCAACACCAAACGGTGCGTTTTAGTA
1 CGGCGTTTTTTTAA-AAACGCCACAAACACTAATCCTCCTCAACACCAAACGGTGCGTTTTAGTA
* * *
18729999 CCGATATTTGTGGCGCTTTTTGTAATACGCCACTAATACTGTTCTTTAGTGGCGTTTTATCGTAA
65 CAGATATTTGCGGCGCTTTTTGTAATACGCCACTAATACTGTTCTTTAGCGGCGTTTTATCGTAA
* * *
18730064 ACGCCACTAATTTTAATATACCTCAAAACCAAACGTTGCGTTTTGGTTAAGGTATTTTGCGGCGC
130 ACGCCACGAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGC
18730129 TTAAAAATAAACGCCACTAACGATGTTCTTTTA
195 TTAAAAATAAACGCCACTAACGATGTTCTTTTA
* *
18730162 CGGCGTTTTTTTAAAAACGCCACAAACACTAAT-CTACCTCAAGACCAAACGGTGCGTTTTGGTT
1 CGGCGTTTTTTTAAAAACGCCACAAACACTAATCCT-CCTCAACACCAAACGGTGCGTTTTAG-T
* *
18730226 A-AGATATTTGCGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTTGCGGCGTTTTATCGTA
64 ACAGATATTTGCGGCGCTTTTTGTAATACGCCACTAATACTGTTCTTTAGCGGCGTTTTATCGTA
* *
18730290 AACGCCACGAATTCTAATATACCTCCAAACGAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCG
129 AACGCCACGAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCG
* *
18730355 CTTACAAATAAACGCCACTAATGATGTTCTTTTA
194 CTTAAAAATAAACGCCACTAACGATGTTCTTTTA
18730389 CGGCGTTTTTTTAAAAACGCCAC
1 CGGCGTTTTTTTAAAAACGCCAC
18730412 TAGTTGTTCG
Statistics
Matches: 231, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
226 2 0.01
227 219 0.95
228 10 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (227 bp):
CGGCGTTTTTTTAAAAACGCCACAAACACTAATCCTCCTCAACACCAAACGGTGCGTTTTAGTAC
AGATATTTGCGGCGCTTTTTGTAATACGCCACTAATACTGTTCTTTAGCGGCGTTTTATCGTAAA
CGCCACGAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCT
TAAAAATAAACGCCACTAACGATGTTCTTTTA
Found at i:18732187 original size:13 final size:15
Alignment explanation
Indices: 18732169--18732205 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18732159 AAAAATGTTA
18732169 AAATATTA-AA-ATT
1 AAATATTATAATATT
18732182 AAATATTATAATATT
1 AAATATTATAATATT
*
18732197 CAATATTAT
1 AAATATTAT
18732206 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.38
14 2 0.10
15 11 0.52
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATATTATAATATT
Found at i:18732203 original size:15 final size:14
Alignment explanation
Indices: 18732169--18732210 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
18732159 AAAAATGTTA
18732169 AAATATTA-AAATT
1 AAATATTATAAATT
18732182 AAATATTATAATATT
1 AAATATTATAA-ATT
*
18732197 CAATATTATTAAAT
1 AAATATTA-TAAAT
18732211 ATACATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 8 0.32
14 2 0.08
15 12 0.48
16 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATATTATAAATT
Found at i:18732344 original size:21 final size:22
Alignment explanation
Indices: 18732308--18732360 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
18732298 TATTATTAAT
* * *
18732308 ATATTATTGAAAAATATATATTA
1 ATATTATT-AATAATAAATATAA
18732331 ATA-TATTAATAATAAATATAA
1 ATATTATTAATAATAAATATAA
18732352 ATATTATTA
1 ATATTATTA
18732361 TTTTATTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATTATTAATAATAAATATAA
Found at i:18732347 original size:25 final size:27
Alignment explanation
Indices: 18732291--18732350 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
18732281 CTTTAAAATT
*
18732291 TAAATTATATTATTAATATATTATTGAA
1 TAAA-TATATTATTAATATATTAATGAA
18732319 -AAATATA-TATTAATATATTAAT-AA
1 TAAATATATTATTAATATATTAATGAA
18732343 TAAATATA
1 TAAATATA
18732351 AATATTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 21 0.70
26 4 0.13
27 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
TAAATATATTATTAATATATTAATGAA
Found at i:18733429 original size:32 final size:32
Alignment explanation
Indices: 18733368--18733429 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
18733358 TCTTCCCAAA
* * *
18733368 AACAACTATTGTTTAGAATAATTATTGTTCAG
1 AACAACCATTATTTAGAATAATCATTGTTCAG
18733400 AACAACCATTATTTAAGAATAATCA-TGTTC
1 AACAACCATTATTT-AGAATAATCATTGTTC
18733430 GAATTAGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (32 bp):
AACAACCATTATTTAGAATAATCATTGTTCAG
Found at i:18744041 original size:16 final size:16
Alignment explanation
Indices: 18744022--18744054 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18744012 ATAAAAAATT
18744022 TATATTTATGTATTAA
1 TATATTTATGTATTAA
18744038 TATATTTATGTATTAA
1 TATATTTATGTATTAA
18744054 T
1 T
18744055 CGGTCAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TATATTTATGTATTAA
Found at i:18750743 original size:26 final size:26
Alignment explanation
Indices: 18750705--18750764 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
18750695 ACAAATCAGA
*
18750705 GTATCACAGAGATTTTCATAACGATC
1 GTATAACAGAGATTTTCATAACGATC
*
18750731 GTATAACATAGATTTTCATAACGATC
1 GTATAACAGAGATTTTCATAACGATC
18750757 GTATAACA
1 GTATAACA
18750765 AAATAGAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (26 bp):
GTATAACAGAGATTTTCATAACGATC
Found at i:18752718 original size:3 final size:3
Alignment explanation
Indices: 18752710--18752736 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18752700 ATATTATACC
18752710 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
18752737 TATTCATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18753536 original size:109 final size:109
Alignment explanation
Indices: 18753345--18753683 Score: 619
Period size: 109 Copynumber: 3.1 Consensus size: 109
18753335 TACGCATACT
*
18753345 AATATCCCTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
18753410 CTAATGTGCTGGGTTTCGATTTTCCTCGTTCGACCAAATAACCA
66 CTAATGTGCTGGGTTTCGATTTTCCTCGTTCGACCAAATAACCA
18753454 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
18753519 CTAATGTGCTGGGTTTCGATTTTCCTCGTTCGACCAAATAACCA
66 CTAATGTGCTGGGTTTCGATTTTCCTCGTTCGACCAAATAACCA
*
18753563 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
* *
18753628 CTAATGTGCTGGGTTTCGA-TTT-CTCGTTCGACCAAATAGCTA
66 CTAATGTGCTGGGTTTCGATTTTCCTCGTTCGACCAAATAACCA
*
18753670 AATATCCTCTTAAA
1 AATATCCTTTTAAA
18753684 TCTTAATCCA
Statistics
Matches: 225, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
107 31 0.14
108 3 0.01
109 191 0.85
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
CTAATGTGCTGGGTTTCGATTTTCCTCGTTCGACCAAATAACCA
Found at i:18754044 original size:76 final size:76
Alignment explanation
Indices: 18753952--18754113 Score: 306
Period size: 76 Copynumber: 2.1 Consensus size: 76
18753942 AAAGGATTAG
*
18753952 TGGCGACTTCCACTTTCGTTTTCATTTTTCAAAACCCAAGTCGACCCCGTTTTATCAAAAAATGG
1 TGGCGACTCCCACTTTCGTTTTCATTTTTCAAAACCCAAGTCGACCCCGTTTTATCAAAAAATGG
18754017 TGTCAACAGCT
66 TGTCAACAGCT
*
18754028 TGGCGACTCCCACTTTCGTTTTCATTTTTCAAAACCCAAGTCGATCCCGTTTTATCAAAAAATGG
1 TGGCGACTCCCACTTTCGTTTTCATTTTTCAAAACCCAAGTCGACCCCGTTTTATCAAAAAATGG
18754093 TGTCAACAGCT
66 TGTCAACAGCT
18754104 TGGCGACTCC
1 TGGCGACTCC
18754114 ACTGGGGAAG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 84 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (76 bp):
TGGCGACTCCCACTTTCGTTTTCATTTTTCAAAACCCAAGTCGACCCCGTTTTATCAAAAAATGG
TGTCAACAGCT
Found at i:18761075 original size:109 final size:109
Alignment explanation
Indices: 18760884--18761222 Score: 565
Period size: 109 Copynumber: 3.1 Consensus size: 109
18760874 TATGCATACT
* * *
18760884 AATATCCTTTTAAAAATTTTAAAATAAGGCAATATTTTGCGTTTGAAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
18760949 CTAATATGCTTGGTTTCGATTTTTCTCATTCGACCAAATAGCCA
66 CTAATGTGCTAGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
18760993 AATATCGTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
18761058 CTAATGTGCTAGGTTTCGATTTTTCTCGTTCGACCAAATAGTCA
66 CTAATGTGCTAGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
18761102 AATATCCTTTTAAAAATTTCACAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
18761167 CTAATGTGCTAGGTTTCGA--TTTCTCGTTCAACCAAATAGCCA
66 CTAATGTGCTAGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
18761209 AATATCCTCTTAAA
1 AATATCCTTTTAAA
18761223 TCTTAATCCA
Statistics
Matches: 217, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
107 34 0.16
109 183 0.84
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTAGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:18761582 original size:76 final size:76
Alignment explanation
Indices: 18761491--18761639 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
18761481 AAAGGATTGG
*
18761491 TGGCGACTCCCACTTTCGTTTTCAATTTTCAAAACCCAAGTCGACCCCGTTTTATCAAAAAATGG
1 TGGCGACTCCCACTTTCGTTTTCAATTTTCAAAACCCAAGTCGACCCCGTTTTATCAAAAAATAG
18761556 TGTCAACAGCT
66 TGTCAACAGCT
* *
18761567 TGGCGACTCCCACTTTCGTTTTCATTTTTCAAAACCCAAGTTGACCCCGTTTTATCAAAAAATAG
1 TGGCGACTCCCACTTTCGTTTTCAATTTTCAAAACCCAAGTCGACCCCGTTTTATCAAAAAATAG
18761632 TGTCAACA
66 TGTCAACA
18761640 ACATACCTTA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (76 bp):
TGGCGACTCCCACTTTCGTTTTCAATTTTCAAAACCCAAGTCGACCCCGTTTTATCAAAAAATAG
TGTCAACAGCT
Found at i:18763056 original size:14 final size:14
Alignment explanation
Indices: 18763007--18763059 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
18762997 AGTTTAGCAT
18763007 TGCTTTTG-AAAAG
1 TGCTTTTGAAAAAG
* *
18763020 TGTTTTTAAAAAAG
1 TGCTTTTGAAAAAG
*
18763034 TG-TTATGAAAAAG
1 TGCTTTTGAAAAAG
*
18763047 CGCTTTTGAAAAA
1 TGCTTTTGAAAAA
18763060 TAAAATGTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
13 16 0.50
14 16 0.50
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.36
Consensus pattern (14 bp):
TGCTTTTGAAAAAG
Found at i:18764421 original size:34 final size:34
Alignment explanation
Indices: 18764378--18764443 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
18764368 TGTTACAATT
* *
18764378 TATGCTAATTAGATTTTTTTAGT-ATAAGGATTTC
1 TATGCTAATTAGACTTTATTA-TAATAAGGATTTC
*
18764412 TATGCTAATTGGACTTTATTATAATAAGGATT
1 TATGCTAATTAGACTTTATTATAATAAGGATT
18764444 ATTTATAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (34 bp):
TATGCTAATTAGACTTTATTATAATAAGGATTTC
Found at i:18764882 original size:15 final size:16
Alignment explanation
Indices: 18764834--18764885 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
18764824 TTTTTTTTTA
*
18764834 TTTTTCTGTCTC-CATT
1 TTTTTCTTTCTCTC-TT
*
18764850 TATTTCTTTCTCTCTT
1 TTTTTCTTTCTCTCTT
*
18764866 TTTTTCTTT-TTTCTT
1 TTTTTCTTTCTCTCTT
18764881 TTTTT
1 TTTTT
18764886 GTCAATTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 10 0.32
16 20 0.65
17 1 0.03
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTTCTTTCTCTCTT
Found at i:18767483 original size:22 final size:22
Alignment explanation
Indices: 18767441--18767483 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
18767431 TTGAGAACAA
*
18767441 ATTGATTACGTATTATTTTTGG
1 ATTGATTACGTATTATATTTGG
*
18767463 ATTGATT-CGTTTTATGATTTG
1 ATTGATTACGTATTAT-ATTTG
18767484 ATTTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.21, C:0.05, G:0.19, T:0.56
Consensus pattern (22 bp):
ATTGATTACGTATTATATTTGG
Found at i:18775493 original size:32 final size:32
Alignment explanation
Indices: 18775448--18775520 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
18775438 TAGAATTACG
*
18775448 GGCCCACATACCCAGAT-TGGCCTTA-CCCGTGT
1 GGCCCACACACCCA-ATCTGGCC-TAGCCCGTGT
* *
18775480 GGCCCACCCACCCAATCTGGCCTAGCCCGTGC
1 GGCCCACACACCCAATCTGGCCTAGCCCGTGT
*
18775512 GACCCACAC
1 GGCCCACAC
18775521 GACCACGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.19, C:0.45, G:0.21, T:0.15
Consensus pattern (32 bp):
GGCCCACACACCCAATCTGGCCTAGCCCGTGT
Found at i:18776358 original size:40 final size:40
Alignment explanation
Indices: 18776294--18776457 Score: 265
Period size: 40 Copynumber: 4.1 Consensus size: 40
18776284 CAAAACACAC
* *
18776294 CAGATGCTCATAAGAGCTAGTCCAACCGAAACACACCAGA
1 CAGAAGCTCATAAGAGCTAATCCAACCGAAACACACCAGA
* *
18776334 CAGAATCTCATAAGAGCTAATCCAACCAAAACACACCAGA
1 CAGAAGCTCATAAGAGCTAATCCAACCGAAACACACCAGA
* * *
18776374 CAGAAGCTCATAGGAGCTAATCCAACTGAAACACACTAGA
1 CAGAAGCTCATAAGAGCTAATCCAACCGAAACACACCAGA
18776414 CAGAAGCTCATAAGAGCTAATCCAACCGAAACACACCAGA
1 CAGAAGCTCATAAGAGCTAATCCAACCGAAACACACCAGA
18776454 CAGA
1 CAGA
18776458 GAGTATAACA
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 112 1.00
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (40 bp):
CAGAAGCTCATAAGAGCTAATCCAACCGAAACACACCAGA
Found at i:18777858 original size:32 final size:32
Alignment explanation
Indices: 18777807--18777877 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
18777797 CCCGTGTGTT
* *
18777807 CCCACACGCCGAGATTGGCCTTGCCCATGTGG
1 CCCACACGCCGAAATTGGCCTAGCCCATGTGG
**
18777839 CCCACACGCC-AAATCTGGCCTAGCCTGTGTGG
1 CCCACACGCCGAAAT-TGGCCTAGCCCATGTGG
18777871 -CCACACG
1 CCCACACG
18777878 GCCACACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 10 0.29
32 24 0.71
ACGTcount: A:0.18, C:0.39, G:0.25, T:0.17
Consensus pattern (32 bp):
CCCACACGCCGAAATTGGCCTAGCCCATGTGG
Found at i:18785316 original size:49 final size:50
Alignment explanation
Indices: 18785229--18785332 Score: 149
Period size: 49 Copynumber: 2.1 Consensus size: 50
18785219 AAAATTTTGG
* * *
18785229 GCCCACATGCTTGTGTGGGCCTACACGCCCAGATTGGCCTTGCCCGTGTA
1 GCCCACATGCCTGTGTGGCCCTACACGCCCAGATTGGCCTAGCCCGTGTA
*
18785279 GCCCACATGCCTGTGT-GCCCTACACGCCCA-ATCTGGCCTAGCCCGTGTG
1 GCCCACATGCCTGTGTGGCCCTACACGCCCAGAT-TGGCCTAGCCCGTGTA
18785328 GCCCA
1 GCCCA
18785333 TACGGCCACG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
48 2 0.04
49 32 0.65
50 15 0.31
ACGTcount: A:0.14, C:0.38, G:0.26, T:0.21
Consensus pattern (50 bp):
GCCCACATGCCTGTGTGGCCCTACACGCCCAGATTGGCCTAGCCCGTGTA
Found at i:18787689 original size:18 final size:18
Alignment explanation
Indices: 18787666--18787701 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18787656 TTTGGTAGGT
*
18787666 TGTGTGGGCACACGGGCA
1 TGTGTGAGCACACGGGCA
*
18787684 TGTGTGATCACACGGGCA
1 TGTGTGAGCACACGGGCA
18787702 AGTCAAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.39, T:0.19
Consensus pattern (18 bp):
TGTGTGAGCACACGGGCA
Found at i:18791801 original size:9 final size:9
Alignment explanation
Indices: 18791787--18791814 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
18791777 TTTTGTTACA
18791787 ACAATTAAT
1 ACAATTAAT
18791796 ACAATTAAT
1 ACAATTAAT
18791805 ACAATTAAT
1 ACAATTAAT
18791814 A
1 A
18791815 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:18791835 original size:68 final size:66
Alignment explanation
Indices: 18791757--18791898 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
18791747 TCAAGTTTGT
*
18791757 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
18791822 AAA
64 AAA
18791825 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
18791890 T
66 A
18791891 TTTACTAA
1 TTTACTAA
18791899 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:18791908 original size:16 final size:16
Alignment explanation
Indices: 18791887--18791928 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
18791877 AATAATTTGA
*
18791887 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
18791903 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
18791919 TAGTTTTAAT
1 TAATTTTAAT
18791929 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:18791917 original size:59 final size:66
Alignment explanation
Indices: 18791757--18791920 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
18791747 TCAAGTTTGT
*
18791757 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
18791822 AAA
64 AAA
18791825 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
18791888 AAT
64 AAA
*
18791891 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
18791921 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:18792435 original size:36 final size:36
Alignment explanation
Indices: 18792395--18792464 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
18792385 TTTTGGTATG
* *
18792395 TTTGTTTGGTGGAAAATGAATTATTAAAGAAAATAA
1 TTTGTTTGGTGGAAAATAAATTACTAAAGAAAATAA
18792431 TTTGTTTGGTGGAAAATAAATTACTAAAGAAAAT
1 TTTGTTTGGTGGAAAATAAATTACTAAAGAAAAT
18792465 CATTATCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (36 bp):
TTTGTTTGGTGGAAAATAAATTACTAAAGAAAATAA
Found at i:18792883 original size:29 final size:28
Alignment explanation
Indices: 18792851--18792937 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 28
18792841 TTAGTCCTTG
*
18792851 ATTTTTGAACAGTAAAACTTTCATATTCT
1 ATTTTTGAAAAGT-AAACTTTCATATTCT
* *
18792880 ATTTTTCAAAATTGTAAA-TTCTCATA-T-G
1 ATTTTTGAAAA--GTAAACTT-TCATATTCT
*
18792908 ATTTTTGAATAGTTAAACTTTCATATTCT
1 ATTTTTGAAAAG-TAAACTTTCATATTCT
18792937 A
1 A
18792938 ACTTTCAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
26 1 0.02
27 9 0.20
28 12 0.27
29 13 0.29
30 8 0.18
31 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.47
Consensus pattern (28 bp):
ATTTTTGAAAAGTAAACTTTCATATTCT
Found at i:18792910 original size:57 final size:57
Alignment explanation
Indices: 18792849--18792960 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 57
18792839 AATTAGTCCT
**
18792849 TGATTTTTGAACAGTAAAACTTTCATATTCTATTTTTCAAAATTGTAAATTCTCATA
1 TGATTTTTGAACAGTAAAACTTTCATATTCTAACTTTCAAAATTGTAAATTCTCATA
* * *
18792906 TGATTTTTGAATAGTTAAACTTTCATATTCTAACTTTCAGAATTGTAAATTCTCA
1 TGATTTTTGAACAGTAAAACTTTCATATTCTAACTTTCAAAATTGTAAATTCTCA
18792961 AATAACGTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (57 bp):
TGATTTTTGAACAGTAAAACTTTCATATTCTAACTTTCAAAATTGTAAATTCTCATA
Found at i:18793374 original size:21 final size:20
Alignment explanation
Indices: 18793305--18793375 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 20
18793295 AATTAACAAT
* * *
18793305 TAAGCTTAATT-AAGTAAAT
1 TAAGATTAATTAAAATAAAA
18793324 TAAGATTAATTAAAACTAAAA
1 TAAGATTAATTAAAA-TAAAA
* *
18793345 CATGATTAATTAAAATATAAA
1 TAAGATTAATTAAAATA-AAA
*
18793366 TAAGCTTAAT
1 TAAGATTAAT
18793376 GAAATAAACT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 10 0.24
20 4 0.10
21 27 0.66
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.34
Consensus pattern (20 bp):
TAAGATTAATTAAAATAAAA
Found at i:18798863 original size:12 final size:12
Alignment explanation
Indices: 18798848--18798889 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
18798838 ACAAGTCTAA
18798848 AAAAATAACAAT
1 AAAAATAACAAT
*
18798860 AAAAAGAAC--T
1 AAAAATAACAAT
18798870 AAAAATAACAAT
1 AAAAATAACAAT
*
18798882 AAACATAA
1 AAAAATAA
18798890 ACATGAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.74, C:0.10, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAATAACAAT
Found at i:18800355 original size:3 final size:3
Alignment explanation
Indices: 18800347--18800385 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
18800337 AATTAATACG
18800347 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18800386 GAAACCTAAT
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):
AAT
Found at i:18800474 original size:12 final size:12
Alignment explanation
Indices: 18800450--18800484 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
18800440 ATAATAAAGT
18800450 AATAATAAAAAC
1 AATAATAAAAAC
18800462 AATAA-AAATAAC
1 AATAATAAA-AAC
18800474 AATAATAAAAA
1 AATAATAAAAA
18800485 AGATTAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 3 0.14
12 15 0.71
13 3 0.14
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
AATAATAAAAAC
Found at i:18806363 original size:28 final size:27
Alignment explanation
Indices: 18806322--18806536 Score: 186
Period size: 28 Copynumber: 7.9 Consensus size: 27
18806312 GTATGTTTCT
*
18806322 TATTTTTCAGATTTTATAATTTTGTCCC
1 TATTTTTTAGATTTTATAATTTT-TCCC
* * * * *
18806350 TATTTTTAAAATTTTA-CAGTTTTCTC
1 TATTTTTTAGATTTTATAATTTTTCCC
* *
18806376 TTTTTTTTA-ATTTTACAA-TTTTCCC
1 TATTTTTTAGATTTTATAATTTTTCCC
* * *
18806401 ATATTTTCTAGATTTTATAGTTTTACCC
1 -TATTTTTTAGATTTTATAATTTTTCCC
**
18806429 TTAACTTTTAGATTTTATAATTTTTCCC
1 -TATTTTTTAGATTTTATAATTTTTCCC
*
18806457 -ATTTTTTTAGATTTTATAATTTTGCCCC
1 TA-TTTTTTAGATTTTATAATTTT-TCCC
* *
18806485 TATTTTTTAGATTTTATAGTTTTGCCCC
1 TATTTTTTAGATTTTATAATTTT-TCCC
*
18806513 TATTTTTTTAGATTTTATAGTTTT
1 TA-TTTTTTAGATTTTATAATTTT
18806537 GCTCAAAATT
Statistics
Matches: 155, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
25 12 0.08
26 19 0.12
27 30 0.19
28 72 0.46
29 22 0.14
ACGTcount: A:0.22, C:0.13, G:0.06, T:0.59
Consensus pattern (27 bp):
TATTTTTTAGATTTTATAATTTTTCCC
Found at i:18806468 original size:55 final size:56
Alignment explanation
Indices: 18806320--18806536 Score: 234
Period size: 55 Copynumber: 4.0 Consensus size: 56
18806310 TCGTATGTTT
* * * * *
18806320 CTTATTTTTCAGATTTTATAATTTTGTCCC-TATTTTTAAAATTTTACAGTTTTCT
1 CTTATTTTTTAGATTTTATAATTTTGTCCCATATTTTTTAGATTTTATAGTTTTCC
* *
18806375 CTT-TTTTTTA-ATTTTACAA-TTT-TCCCATATTTTCTAGATTTTATAGTTTTACC
1 CTTATTTTTTAGATTTTATAATTTTGTCCCATATTTTTTAGATTTTATAGTTTT-CC
** *
18806428 CTTAACTTTTAGATTTTATAATTTT-TCCCAT-TTTTTTAGATTTTATAATTTTGCC
1 CTTATTTTTTAGATTTTATAATTTTGTCCCATATTTTTTAGATTTTATAGTTTT-CC
* * *
18806483 CCTATTTTTTAGATTTTATAGTTTTG-CCCCTATTTTTTTAGATTTTATAGTTTT
1 CTTATTTTTTAGATTTTATAATTTTGTCCCATA-TTTTTTAGATTTTATAGTTTT
18806537 GCTCAAAATT
Statistics
Matches: 135, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
51 4 0.03
52 22 0.16
53 12 0.09
54 11 0.08
55 57 0.42
56 9 0.07
57 20 0.15
ACGTcount: A:0.22, C:0.13, G:0.06, T:0.59
Consensus pattern (56 bp):
CTTATTTTTTAGATTTTATAATTTTGTCCCATATTTTTTAGATTTTATAGTTTTCC
Found at i:18807153 original size:45 final size:44
Alignment explanation
Indices: 18807107--18807478 Score: 197
Period size: 45 Copynumber: 8.3 Consensus size: 44
18807097 AACCCAATGA
* *
18807107 CAGATTTTATCTTCGATATTTTGTTGTGTACCCACAGCCTAGTGA
1 CAGATTTTATCTTCGA-ATTTTGTTGTGTATCCACAGCCTAGTGG
* * * * *
18807152 CA-AGTTTCATCTGCGAATTTTTGCTGTGTATCCACAACCTAATGG
1 CAGA-TTTTATCTTCGAA-TTTTGTTGTGTATCCACAGCCTAGTGG
* * *
18807197 CATATTTTATCTGT-GATATTTTGTTGTGTA-CCAATAGTCTAGTGG
1 CAGATTTTATCT-TCGA-ATTTTGTTGTGTATCC-ACAGCCTAGTGG
* * * * * *
18807242 CA-AGTATCATCTACGAATTTT-TACTATGTATCCATAGCCTAGTGA
1 CAGA-TTTTATCTTCGAATTTTGT--TGTGTATCCACAGCCTAGTGG
* ** * *
18807287 CAAATTTTATCAGCAATATTTTGTTGTGCATCCACAGTCC-AGTGG
1 CAGATTTTATCTTCGA-ATTTTGTTGTGTATCCACAG-CCTAGTGG
* * * *
18807332 CAGGTTTCATCTAT-GAATTTTTGCTGTGTATCTACAGCCTAGTGG
1 CAGATTTTATCT-TCGAA-TTTTGTTGTGTATCCACAGCCTAGTGG
* * * *
18807377 CAGCTTTTATCTAT-GATATTTTGCTATGTACCCACAGTCC-AGTGG
1 CAGATTTTATCT-TCGA-ATTTTGTTGTGTATCCACAG-CCTAGTGG
* ** * * *
18807422 CA-AGTTTAATCTGAGAATTTTTGTTGTGTATCCACAACCCAGTGA
1 CAGA-TTTTATCTTCGAA-TTTTGTTGTGTATCCACAGCCTAGTGG
18807467 CAGATTTTATCT
1 CAGATTTTATCT
18807479 ATAAAATTAG
Statistics
Matches: 250, Mismatches: 52, Indels: 50
0.71 0.15 0.14
Matches are distributed among these distances:
43 1 0.00
44 16 0.06
45 216 0.86
46 16 0.06
47 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (44 bp):
CAGATTTTATCTTCGAATTTTGTTGTGTATCCACAGCCTAGTGG
Found at i:18807204 original size:90 final size:90
Alignment explanation
Indices: 18807086--18807480 Score: 422
Period size: 90 Copynumber: 4.4 Consensus size: 90
18807076 ACAAATATGT
* * * *
18807086 TGTGCATCTACAACCCAATGACAGATTTTATCT-TCGATATTTTGTTGTGTACCCACAG-CCTAG
1 TGTGTATCCACAACCTAGTGACAGATTTTATCTAT-GATATTTTGTTGTGTACCCACAGTCC-AG
* *
18807149 TGACAAGTTTCATCTGCGAATTTTTGC
64 TGGCAAGTTTCATCTACGAATTTTTGC
* * * * * * *
18807176 TGTGTATCCACAACCTAATGGCATATTTTATCTGTGATATTTTGTTGTGTACCAATAGTCTAGTG
1 TGTGTATCCACAACCTAGTGACAGATTTTATCTATGATATTTTGTTGTGTACCCACAGTCCAGTG
* *
18807241 GCAAGTATCATCTACGAATTTTTAC
66 GCAAGTTTCATCTACGAATTTTTGC
* * * * * *
18807266 TATGTATCCATAGCCTAGTGACAAATTTTATC-A-GCAATATTTTGTTGTGCATCCACAGTCCAG
1 TGTGTATCCACAACCTAGTGACAGATTTTATCTATG--ATATTTTGTTGTGTACCCACAGTCCAG
* *
18807329 TGGCAGGTTTCATCTATGAATTTTTGC
64 TGGCAAGTTTCATCTACGAATTTTTGC
* * * * * *
18807356 TGTGTATCTACAGCCTAGTGGCAGCTTTTATCTATGATATTTTGCTATGTACCCACAGTCCAGTG
1 TGTGTATCCACAACCTAGTGACAGATTTTATCTATGATATTTTGTTGTGTACCCACAGTCCAGTG
* *
18807421 GCAAGTTTAATCTGA-GAATTTTTGT
66 GCAAGTTTCATCT-ACGAATTTTTGC
*
18807446 TGTGTATCCACAACCCAGTGACAGATTTTATCTAT
1 TGTGTATCCACAACCTAGTGACAGATTTTATCTAT
18807481 AAAATTAGTG
Statistics
Matches: 252, Mismatches: 46, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.00
90 246 0.98
91 4 0.02
92 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (90 bp):
TGTGTATCCACAACCTAGTGACAGATTTTATCTATGATATTTTGTTGTGTACCCACAGTCCAGTG
GCAAGTTTCATCTACGAATTTTTGC
Found at i:18809041 original size:24 final size:24
Alignment explanation
Indices: 18809009--18809056 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18808999 ACAATCATAC
18809009 GGCAAAATAACGAATAATAAGAAA
1 GGCAAAATAACGAATAATAAGAAA
18809033 GGCAAAATAACGAATAATAAGAAA
1 GGCAAAATAACGAATAATAAGAAA
18809057 CTAAAGTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.62, C:0.08, G:0.17, T:0.12
Consensus pattern (24 bp):
GGCAAAATAACGAATAATAAGAAA
Found at i:18809381 original size:26 final size:27
Alignment explanation
Indices: 18809352--18809412 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
18809342 GAGAGTAAGT
*
18809352 AAATATATATGTATGTATATA-TATG-A
1 AAATATATATATATGTATA-AGTATGTA
*
18809378 AAATATACATATATGTATAAGTATGTA
1 AAATATATATATATGTATAAGTATGTA
18809405 AAAT-TATA
1 AAATATATA
18809413 AAATATAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 1 0.03
26 24 0.80
27 5 0.17
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (27 bp):
AAATATATATATATGTATAAGTATGTA
Found at i:18810073 original size:17 final size:18
Alignment explanation
Indices: 18810038--18810075 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
18810028 AAGTATATAT
18810038 ATATAATATAATATAAAA
1 ATATAATATAATATAAAA
18810056 ATATACATAT-AT-TAAAA
1 ATATA-ATATAATATAAAA
18810073 ATA
1 ATA
18810076 AAGCTGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 7 0.37
19 4 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
ATATAATATAATATAAAA
Found at i:18811765 original size:40 final size:40
Alignment explanation
Indices: 18811718--18812043 Score: 280
Period size: 40 Copynumber: 7.8 Consensus size: 40
18811708 TTTTCTTTCG
*
18811718 TCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
* * ** *
18811758 TCCGCTCCACTACTGCTTAGGGAGATAAAATCGGTTTCTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGTGA
* * *
18811801 TCTGCTCCACTATTGCTTAGGGAGACAAGACTTGATATGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
* * ** *
18811841 TCCGCTTCACTACTGCTTAGGGAGATAAGATCGGTTTCTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGTGA
*
18811884 TCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
* ** *
18811924 TCTGCTCCACTACTACTTAGGGAGATAAGATCGGTTTCTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGTGA
18811967 TCTGCTCCACTATTGCTTAGTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTA---C----TGCTTAGGGAGATAAGACTTGATGTGA
*
18812014 TCCGCTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
18812044 TCAGTTTCTT
Statistics
Matches: 228, Mismatches: 36, Indels: 44
0.74 0.12 0.14
Matches are distributed among these distances:
39 10 0.04
40 98 0.43
41 3 0.01
42 2 0.01
43 65 0.29
44 16 0.07
46 6 0.03
47 11 0.05
49 1 0.00
50 16 0.07
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
Found at i:18811852 original size:83 final size:83
Alignment explanation
Indices: 18811709--18812085 Score: 592
Period size: 83 Copynumber: 4.5 Consensus size: 83
18811699 GATTCATCAT
*
18811709 TTTCTTTCGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTGC
1 TTTCTTTTGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTGC
*
18811774 TTAGGGAGATAAAATCGG
66 TTAGGGAGATAAGATCGG
* * *
18811792 TTTCTTTTGTCTGCTCCACTATTGCTTAGGGAGACAAGACTTGATATGATCCGCTTCACTACTGC
1 TTTCTTTTGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTGC
18811857 TTAGGGAGATAAGATCGG
66 TTAGGGAGATAAGATCGG
* *
18811875 TTTCTTTTGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTAC
1 TTTCTTTTGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTGC
18811940 TTAGGGAGATAAGATCGG
66 TTAGGGAGATAAGATCGG
18811958 TTTCTTTTGTCTGCTCCACTATTGCTTAGTGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCA
1 TTTCTTTTGTCTGCTCCACTA-----T--TGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCA
*
18812023 CTACTGCTTAGGGAGATAAGATCAG
59 CTACTGCTTAGGGAGATAAGATCGG
* * *
18812048 TTTCTTTTGTCCGCTCCACTACTACTTAGGGAGATAAG
1 TTTCTTTTGTCTGCTCCACTATTGCTTAGGGAGATAAG
18812086 GCTAGTGGCT
Statistics
Matches: 271, Mismatches: 16, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
83 192 0.71
88 1 0.00
90 78 0.29
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (83 bp):
TTTCTTTTGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTGC
TTAGGGAGATAAGATCGG
Found at i:18812051 original size:90 final size:90
Alignment explanation
Indices: 18811897--18812068 Score: 308
Period size: 90 Copynumber: 1.9 Consensus size: 90
18811887 GCTCCACTAT
* *
18811897 TGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTACTTAGGGAGATAAGATCGGTTTC
1 TGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTACTTAGGGAGATAAGATCAGTTTC
*
18811962 TTTTGTCTGCTCCACTATTGCTTAG
66 TTTTGTCCGCTCCACTATTGCTTAG
*
18811987 TGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTGCTTAGGGAGATAAGATCAGTTTC
1 TGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTACTTAGGGAGATAAGATCAGTTTC
18812052 TTTTGTCCGCTCCACTA
66 TTTTGTCCGCTCCACTA
18812069 CTACTTAGGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (90 bp):
TGCTTAGGGAGATAAGACTTGATGTGATCCGCTCCACTACTACTTAGGGAGATAAGATCAGTTTC
TTTTGTCCGCTCCACTATTGCTTAG
Found at i:18812387 original size:89 final size:89
Alignment explanation
Indices: 18812192--18812388 Score: 222
Period size: 89 Copynumber: 2.2 Consensus size: 89
18812182 CTTCAACCTA
* * *
18812192 CTCCACTACTACTTAGGGA-GATAGGACTACCGGCTTCAATGTACTCCACTGCAATCTTAGAGAG
1 CTCCACTACTACTTAGGGAGGATAGGACTACCAGCTTCAATATACTCCACTGCAATCTAAGAGAG
*
18812256 GTAAAATTCGCCATCTTCGATTTG
66 GTAAAATTCGCCATCTTCGATCTG
* * ** * *
18812280 CTCCACTGCAACCGAGGGAGGCA-AGGACTACTAGCTTCAATATACTCCACTGTAATCTCAAG-G
1 CTCCACTACTACTTAGGGAGG-ATAGGACTACCAGCTTCAATATACTCCACTGCAATCT-AAGAG
* *
18812343 ATGTAAAA-TCTGCCATTTTCGATCTG
64 AGGTAAAATTC-GCCATCTTCGATCTG
*
18812369 CTCCACTACTGCTTAGGGAG
1 CTCCACTACTACTTAGGGAG
18812389 ATAAGATCTG
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
88 17 0.19
89 68 0.77
90 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (89 bp):
CTCCACTACTACTTAGGGAGGATAGGACTACCAGCTTCAATATACTCCACTGCAATCTAAGAGAG
GTAAAATTCGCCATCTTCGATCTG
Found at i:18812419 original size:19 final size:19
Alignment explanation
Indices: 18812395--18812434 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
18812385 GGAGATAAGA
18812395 TCTGTAATCTTCAATCTAT
1 TCTGTAATCTTCAATCTAT
18812414 TCTGTAATCTTCAATCTAT
1 TCTGTAATCTTCAATCTAT
18812433 TC
1 TC
18812435 CACTGCTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (19 bp):
TCTGTAATCTTCAATCTAT
Found at i:18812603 original size:237 final size:239
Alignment explanation
Indices: 18812179--18812643 Score: 655
Period size: 237 Copynumber: 1.9 Consensus size: 239
18812169 TAAGATCTAC
** * *
18812179 AATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTACCGGCTTCAATGTACTCCACTGC
1 AATCTTCAACCTACTCCACTACTACCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGC
* * * * ** *
18812244 AATCTTAGAGAGGTAAAATTCGCCATCTTCGATTTGCTCCACTGCAACCGAGGGAGGCAAGGACT
66 AATCTCAGAGAGGTAAAATTC-CCACCATCAACCTGCTCCACTACAACCGAGGGAGGCAAGGACT
* * *
18812309 ACTAGCTTCAATATACTCCACTGTAATCTCAAGGATGTAAAATCTGCCATTTTCGATCTGCTCCA
130 ACTAGCTTCAATATACTCCACTGTAATCTCAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCA
* **
18812374 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCTGT
195 CTACTCCTTAGGGAGATAAGATCTACAATCTTCAATCTATTCTGT
* * * * * *
18812419 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTAGCTTCAATGTACTCCACTGT
1 AATCTTCAACCTACTCCACTACTACCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGC
*
18812484 AATCTCAGGGAGGTAAAA-T-CCACCATCAACCTGCTCCACTACAACCGAGGGAGGCAAGGACTA
66 AATCTCAGAGAGGTAAAATTCCCACCATCAACCTGCTCCACTACAACCGAGGGAGGCAAGGACTA
* * * *
18812547 CTGGCTTCAATGTACTCCACTGTAATCTTAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
131 CTAGCTTCAATATACTCCACTGTAATCTCAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
18812612 TACTCCTTAGGGAGATAAGATCTACAATCTTC
196 TACTCCTTAGGGAGATAAGATCTACAATCTTC
18812644 GACCTACTCC
Statistics
Matches: 197, Mismatches: 28, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
237 125 0.63
239 1 0.01
240 71 0.36
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (239 bp):
AATCTTCAACCTACTCCACTACTACCCAGGGAGATAGAACTACCAGCTTCAATGTACTCCACTGC
AATCTCAGAGAGGTAAAATTCCCACCATCAACCTGCTCCACTACAACCGAGGGAGGCAAGGACTA
CTAGCTTCAATATACTCCACTGTAATCTCAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCAC
TACTCCTTAGGGAGATAAGATCTACAATCTTCAATCTATTCTGT
Found at i:18812769 original size:46 final size:46
Alignment explanation
Indices: 18812705--18813240 Score: 806
Period size: 46 Copynumber: 11.6 Consensus size: 46
18812695 CCACTGCCAG
* * *
18812705 TACAAGAAGATAAAATCTGCTATCTTCGATCTACTCTGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
*
18812751 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
* *
18812797 TACAGGAAGACAAGATCTGCTATCTTTGATCTACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
* *
18812843 TACAGGAAGACAAGATCTGCTATATCTTAGATCTACTCTGCTACCAAA
1 TACAGGAAGACAAGATCTGC--TATCTTCGATCTACTCTGCTGCCAAA
* * *
18812891 TACAGGAAGATAAGATCTGCTATCTCTTAGATCTACTCTGTTGCCAAA
1 TACAGGAAGACAAGATCTGCTA--TCTTCGATCTACTCTGCTGCCAAA
* * **
18812939 TACAGGAAGACAAGATATGCTATCTTCGATCTAGTCCACTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
* * *
18812985 TACAGGAAGATAAGATCTGCCATCTTCGATCTACT-TCACTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCT-GCTGCCAAA
*
18813031 TACAGGAAGGCAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
**
18813077 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCACTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
*
18813123 TACAGGAAGACAAGATCTGCTATCTTCAATCTACTCTGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
*
18813169 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
18813215 TACAGGAAGACAAGATCTGCTA-CTTC
1 TACAGGAAGACAAGATCTGCTATCTTC
18813241 TAGTCCATTC
Statistics
Matches: 449, Mismatches: 35, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
45 4 0.01
46 360 0.80
47 1 0.00
48 84 0.19
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (46 bp):
TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAA
Found at i:18813660 original size:24 final size:24
Alignment explanation
Indices: 18813610--18813662 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
18813600 TGCCCCCACC
**
18813610 GTAATCTTCAGAGTTCAATCCGTT
1 GTAATCTTCAGAGTTCAATCCAAT
*
18813634 GTAATCTTC-GAGGTTCAGTCCAAT
1 GTAATCTTCAGA-GTTCAATCCAAT
18813658 GTAAT
1 GTAAT
18813663 AAAATTTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (24 bp):
GTAATCTTCAGAGTTCAATCCAAT
Found at i:18816925 original size:24 final size:25
Alignment explanation
Indices: 18816893--18816943 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
18816883 TGTAGAGGGA
18816893 TATATATATGTATATAGACATAAAT
1 TATATATATGTATATAGACATAAAT
* * *
18816918 TATA-ATATGTATGTATACGTAAAT
1 TATATATATGTATATAGACATAAAT
18816942 TA
1 TA
18816944 CAAAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (25 bp):
TATATATATGTATATAGACATAAAT
Found at i:18817004 original size:18 final size:18
Alignment explanation
Indices: 18816980--18817024 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
18816970 ATATTTTACA
18816980 ATATATAAAAAATAATATGT
1 ATATAT-AAAAA-AATATGT
*
18817000 ATATATATAAAAATATGT
1 ATATATAAAAAAATATGT
*
18817018 ACATATA
1 ATATATA
18817025 TATGTAGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 13 0.57
19 4 0.17
20 6 0.26
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (18 bp):
ATATATAAAAAAATATGT
Found at i:18817015 original size:32 final size:32
Alignment explanation
Indices: 18816945--18817015 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
18816935 CGTAAATTAC
*
18816945 AAAATATATAAAAAATATATCAAGTATATTTT
1 AAAATATATAAAAAATATATCAAGTATATTTA
* *
18816977 ACAATATATAAAAAATA-AT-ATGTATATATATA
1 AAAATATATAAAAAATATATCAAGTATAT-T-TA
18817009 AAAATAT
1 AAAATAT
18817016 GTACATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 7 0.21
31 3 0.09
32 23 0.70
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (32 bp):
AAAATATATAAAAAATATATCAAGTATATTTA
Found at i:18817252 original size:3 final size:3
Alignment explanation
Indices: 18817208--18817233 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18817198 GATTAAATGC
18817208 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18817234 AACAATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18818799 original size:50 final size:50
Alignment explanation
Indices: 18818745--18819587 Score: 444
Period size: 50 Copynumber: 16.9 Consensus size: 50
18818735 ACATCGCCTG
* * *
18818745 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGA
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
* ** **** **
18818795 GGAAGTGAGATTCACCGTTGTAGTTTCAATCTGCTCCGCTGC-ATCACCTG-
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAAT-GTC-GA
* * *
18818845 GGAAGTAAGATTCACCGTTGTGGCTTAAATCTTTTGAATTGCAATGTCGA
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
* ** **** *
18818895 GGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGC-ATCGCCTG-
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAAT-GTC-GA
* * * * * *
18818945 GGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTGAATTGCAATGTTGG
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
* ** **** **
18818995 GGAAGTGAAATTCACCGTTGTAGCTTCAATCTGCTCCGCTGC-ATCACCTG-
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAAT-GTC-GA
* * *
18819045 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGG
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
* ** **** * *
18819095 GGAAGTGAGATTCACCGTTGCAGCTTCAATCTACTCCGCTAC-ATCGCCTG-
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAAT-GTC-GA
* * * * *
18819145 GAAAGTAAGATTCACCGTTGTGGCTTAAATCTTTTGAATTGCAATGTCGG
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
** * ** **** * *
18819195 GGAAGTGAGATTTGCCGTTATAGCTTCAATCTGCTCCGCTGC-ATCGCCTA
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAAT-GTCGA
* * *
18819245 TG-AGTAAGATTCACCGTTGTGGCTTCAATC-TTTGAATTGCAATGTC-A
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
* * * * ** *
18819292 GGGAAATGAGATTCGCCGTTGTAGCTTCGATCTGTTTCG--CTGC-ATCACCA
1 -GGAAGTGAGATTCACCGTTGTAGCTTCAATCT-TTT-GAATTGCAATGTCGA
* ** * * *
18819342 GGGAGGTGAGATTTGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGG
1 -GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
* * **** * *
18819393 GGAAGTGAGATTCACCATTGTAGCTTCAATCTGTTCCGCTGC-ATCGCCAA
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAAT-GTCGA
* * * * *
18819443 GGAGGTGAGATTCGCTGTTGTAGCTTCAATATTTTGAATTGCAATGTCGG
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
* ** * * **** *
18819493 GGAAATGAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTGC-ATCG-CTA
1 GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAAT-GTCGA
* * *
18819542 GGGAGGTGAGATTTACTGTTGTAGCTTCAATCTTTTGAATTGCAAT
1 -GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAAT
18819588 CTATGGTTTT
Statistics
Matches: 566, Mismatches: 195, Indels: 63
0.69 0.24 0.08
Matches are distributed among these distances:
47 1 0.00
48 7 0.01
49 73 0.13
50 462 0.82
51 22 0.04
52 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (50 bp):
GGAAGTGAGATTCACCGTTGTAGCTTCAATCTTTTGAATTGCAATGTCGA
Found at i:18818863 original size:100 final size:100
Alignment explanation
Indices: 18818736--18819587 Score: 1152
Period size: 100 Copynumber: 8.5 Consensus size: 100
18818726 TATTCCACTA
* *
18818736 CATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGAGGAAGT
1 CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
*
18818801 GAGATTCACCGTTGTAGTTTCAATCTGCTCCGCTG
66 GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
* * *
18818836 CATCACCTGGGAAGTAAGATTCACCGTTGTGGCTTAAATCTTTTGAATTGCAATGTCGAGGAAGT
1 CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
*
18818901 GAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTG
66 GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
* * *
18818936 CATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTGAATTGCAATGTTGGGGAAGT
1 CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
*
18819001 GAAATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
66 GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
*
18819036 CATCACCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
1 CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
* * *
18819101 GAGATTCACCGTTGCAGCTTCAATCTACTCCGCTA
66 GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
* *
18819136 CATCGCCTGGAAAGTAAGATTCACCGTTGTGGCTTAAATCTTTTGAATTGCAATGTCGGGGAAGT
1 CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
** *
18819201 GAGATTTGCCGTTATAGCTTCAATCTGCTCCGCTG
66 GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
** * *
18819236 CATCGCCTATG-AGTAAGATTCACCGTTGTGGCTTCAATC-TTTGAATTGCAATGTCAGGGAAAT
1 CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
* * * *
18819299 GAGATTCGCCGTTGTAGCTTCGATCTGTTTCGCTG
66 GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
* * * * ** * * *
18819334 CATCACCAGGGAGGTGAGATTTGCTGTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGT
1 CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
* *
18819399 GAGATTCACCATTGTAGCTTCAATCTGTTCCGCTG
66 GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
** * * * * * * *
18819434 CATCGCCAAGGAGGTGAGATTCGCTGTTGTAGCTTCAATATTTTGAATTGCAATGTCGGGGAAAT
1 CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
** * **
18819499 GAGATTCGTCGTCGTAGCTTCAATCTATTCCGCTG
66 GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
* * * * *
18819534 CATCG-CTAGGGAGGTGAGATTTACTGTTGTAGCTTCAATCTTTTGAATTGCAAT
1 CATCGCCT-GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAAT
18819588 CTATGGTTTT
Statistics
Matches: 675, Mismatches: 74, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
98 59 0.09
99 50 0.07
100 566 0.84
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (100 bp):
CATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGT
GAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTG
Found at i:18820833 original size:14 final size:14
Alignment explanation
Indices: 18820799--18820832 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
18820789 TTAGCCTCTC
18820799 CATTTTTACTTTTT
1 CATTTTTACTTTTT
18820813 CATTTTTA-TTTTT
1 CATTTTTACTTTTT
18820826 CATTTTT
1 CATTTTT
18820833 TTGTTTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:18825970 original size:23 final size:24
Alignment explanation
Indices: 18825928--18825973 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
18825918 CCTTTTTTAG
18825928 ATTTAATTATATATACATACATAT
1 ATTTAATTATATATACATACATAT
* *
18825952 ATTTGATT-TATATATATACATA
1 ATTTAATTATATATACATACATA
18825974 CTTATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTAATTATATATACATACATAT
Found at i:18825988 original size:27 final size:26
Alignment explanation
Indices: 18825935--18825990 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
18825925 TAGATTTAAT
18825935 TATATATACATACATATATTTGATTTA
1 TATATATACATACATATATTT-ATTTA
18825962 TATATATACATACTTATATATTT-TTTA
1 TATATATACATAC--ATATATTTATTTA
18825989 TA
1 TA
18825991 CTTTATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 19 0.70
29 8 0.30
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (26 bp):
TATATATACATACATATATTTATTTA
Found at i:18825997 original size:16 final size:17
Alignment explanation
Indices: 18825971--18826014 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
18825961 ATATATATAC
* *
18825971 ATACTTATATATTTTTT
1 ATACTTATATAATTTAT
18825988 ATACTT-TATAATTTAT
1 ATACTTATATAATTTAT
*
18826004 ATACATATATA
1 ATACTTATATA
18826015 CATACATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (17 bp):
ATACTTATATAATTTAT
Found at i:18826204 original size:10 final size:10
Alignment explanation
Indices: 18826191--18826224 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
18826181 TCATAATTTT
18826191 TATATACATA
1 TATATACATA
*
18826201 TATATACGTA
1 TATATACATA
*
18826211 TATATACACA
1 TATATACATA
18826221 TATA
1 TATA
18826225 CATATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (10 bp):
TATATACATA
Found at i:18832660 original size:45 final size:45
Alignment explanation
Indices: 18832537--18832990 Score: 384
Period size: 45 Copynumber: 10.2 Consensus size: 45
18832527 AGAACAGATC
* * * * *
18832537 ACTGAAGATAACAAATCTTACATTCCTGTACTGACAGTGAAGTAG
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* * * * ** *
18832582 ATTGAAGACATCAG-CCTTGCCTTTTTGCACTGACAGCGAAGCAG
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* * *
18832626 CCTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCAAAGCAG
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* * * * * * *
18832671 A-TCGAATACACCAG-CCTTGCCTTCCTGTACTGACAACAAAGTAG
1 ACT-GAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* * * *
18832715 ACTAAAGATAACAAATCTTGCATTCCTGTACTGATAGCGAAGCAG
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* * * ** *
18832760 A-TCGAAGACATCAG-CCTTGCCTTCCTACACTGACAGTGAAGCAG
1 ACT-GAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
** * * * *
18832804 ACTGAAGATAACAGATCTTATCTTCCTATACTAACAGTGAAGTAG
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* * * *
18832849 A-TCGAAGA-CACTAG-CCTTGCCTTCCTGTACTGACAGTGAAGTAG
1 ACT-GAAGATAAC-AGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* * *
18832893 ACTGAAGGTAACAGATCTTGCCTTCCTGTACTGACAGCGGAGCAA
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
* *
18832938 ACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGTAG
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
*
18832983 ATTGAAGA
1 ACTGAAGA
18832991 AACCATAGTT
Statistics
Matches: 319, Mismatches: 78, Indels: 24
0.76 0.19 0.06
Matches are distributed among these distances:
44 136 0.43
45 183 0.57
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (45 bp):
ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAG
Found at i:18832689 original size:89 final size:89
Alignment explanation
Indices: 18832537--18832990 Score: 496
Period size: 89 Copynumber: 5.1 Consensus size: 89
18832527 AGAACAGATC
* * * * * * *
18832537 ACTGAAGATAACAAATCTTACATTCCTGTACTGACAGTGAAGTAGATTGAAGACATCAGCCTTGC
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
**
18832602 CTTTTTGCACTGACAGCGAAGCAG
66 CTTCCTGCACTGACAGCGAAGCAG
* * * *
18832626 CCTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCAAAGCAGATCGAATACACCAGCCTTGC
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* * * *
18832691 CTTCCTGTACTGACAACAAAGTAG
66 CTTCCTGCACTGACAGCGAAGCAG
* * * * *
18832715 ACTAAAGATAACAAATCTTGCATTCCTGTACTGATAGCGAAGCAGATCGAAGACATCAGCCTTGC
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* *
18832780 CTTCCTACACTGACAGTGAAGCAG
66 CTTCCTGCACTGACAGCGAAGCAG
** * * * * *
18832804 ACTGAAGATAACAGATCTTATCTTCCTATACTAACAGTGAAGTAGATCGAAGACACTAGCCTTGC
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
* * *
18832869 CTTCCTGTACTGACAGTGAAGTAG
66 CTTCCTGCACTGACAGCGAAGCAG
* * * * * *
18832893 ACTGAAGGTAACAGATCTTGCCTTCCTGTACTGACAGCGGAGCA-AACTGAAGATAGCAGATCTT
1 ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAG-CCTT
* *
18832957 GCCTTCCTGTACTGACAGCGAAGTAG
64 GCCTTCCTGCACTGACAGCGAAGCAG
*
18832983 ATTGAAGA
1 ACTGAAGA
18832991 AACCATAGTT
Statistics
Matches: 300, Mismatches: 63, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
88 2 0.01
89 264 0.88
90 34 0.11
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (89 bp):
ACTGAAGATAACAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGC
CTTCCTGCACTGACAGCGAAGCAG
Found at i:18832847 original size:134 final size:134
Alignment explanation
Indices: 18832537--18832993 Score: 341
Period size: 134 Copynumber: 3.4 Consensus size: 134
18832527 AGAACAGATC
* * * * * ** * *
18832537 ACTGAAGATAACAAATCTTACATTCCTGTACTGACAGTGAAGTAGATTGAAGACATC-AGCCTTG
1 ACTGAAGATAACAGATCTTACCTTCCTATACTAACAGCGAAGTAGATCAAAGA-AACAAACCTTG
* ** * * * * * *
18832601 CCTTTTTGCACTGACAGCGAAGCAGCCTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCAA
65 CATTCCTGTACTGACAGCGAAGCAGACTGAAGACAACAGACCTTGCCTTCCTACACTGACAGCGA
*
18832666 AGCAG
130 AGCAA
* * * * * * * * * *
18832671 A-TCGAATACACCAG-CCTTGCCTTCCTGTACTGACAACAAAGTAGA-CTAAAGATAACAAATCT
1 ACT-GAAGATAACAGATCTTACCTTCCTATACTAACAGCGAAGTAGATC-AAAGA-AACAAACCT
* *
18832733 TGCATTCCTGTACTGATAGCGAAGCAGA-TCGAAGACATCAG-CCTTGCCTTCCTACACTGACAG
63 TGCATTCCTGTACTGACAGCGAAGCAGACT-GAAGACAACAGACCTTGCCTTCCTACACTGACAG
* *
18832796 TGAAGCAG
127 CGAAGCAA
* * * * * *
18832804 ACTGAAGATAACAGATCTTATCTTCCTATACTAACAGTGAAGTAGATCGAAGACACTAGCCTTGC
1 ACTGAAGATAACAGATCTTACCTTCCTATACTAACAGCGAAGTAGATCAAAGAAACAAACCTTGC
* * * ** * ** *
18832869 CTTCCTGTACTGACAGTGAAGTAGACTGAAGGTAACAGATCTTGCCTTCCTGTACTGACAGCGGA
66 ATTCCTGTACTGACAGCGAAGCAGACTGAAGACAACAGACCTTGCCTTCCTACACTGACAGCGAA
18832934 GCAA
131 GCAA
* * * * **
18832938 ACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGTAGATTGAAGAAAC
1 ACTGAAGATAACAGATCTTACCTTCCTATACTAACAGCGAAGTAGATCAAAGAAAC
18832994 CATAGTTTGC
Statistics
Matches: 249, Mismatches: 65, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
133 105 0.42
134 143 0.57
135 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (134 bp):
ACTGAAGATAACAGATCTTACCTTCCTATACTAACAGCGAAGTAGATCAAAGAAACAAACCTTGC
ATTCCTGTACTGACAGCGAAGCAGACTGAAGACAACAGACCTTGCCTTCCTACACTGACAGCGAA
GCAA
Found at i:18832853 original size:178 final size:178
Alignment explanation
Indices: 18832541--18832990 Score: 578
Period size: 178 Copynumber: 2.5 Consensus size: 178
18832531 CAGATCACTG
* * * * *
18832541 AAGATAACAAATCTTACATTCCTGTACTGACAGTGAAGTAGATTGAAGACATCAGCCTTGCCTTT
1 AAGATAACAAATCTTGCATTCCTGTACTGACAGCGAAGCAGATCGAAGACATCAGCCTTGCCTTC
* * * *
18832606 TTGCACTGACAGCGAAGCAGCCTGAAGATAACAGATCTTGCCTTCCTATACTGACAGCAAAGCAG
66 CTGCACTGACAGCGAAGCAGACTGAAGATAACAGATCTTACCTTCCTATACTAACAGCAAAGCAG
*
18832671 ATCGAATACACCAGCCTTGCCTTCCTGTACTGACAACAAAGTAGACTA
131 ATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAACAAAGTAGACTA
*
18832719 AAGATAACAAATCTTGCATTCCTGTACTGATAGCGAAGCAGATCGAAGACATCAGCCTTGCCTTC
1 AAGATAACAAATCTTGCATTCCTGTACTGACAGCGAAGCAGATCGAAGACATCAGCCTTGCCTTC
* * * ** *
18832784 CTACACTGACAGTGAAGCAGACTGAAGATAACAGATCTTATCTTCCTATACTAACAGTGAAGTAG
66 CTGCACTGACAGCGAAGCAGACTGAAGATAACAGATCTTACCTTCCTATACTAACAGCAAAGCAG
* *** *
18832849 ATCGAAGACACTAGCCTTGCCTTCCTGTACTGACAGTGAAGTAGACTG
131 ATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAACAAAGTAGACTA
* * * * * * * *
18832897 AAGGTAACAGATCTTGCCTTCCTGTACTGACAGCGGAGCA-AACTGAAGATAGCAGATCTTGCCT
1 AAGATAACAAATCTTGCATTCCTGTACTGACAGCGAAGCAGATC-GAAGACATCAG-CCTTGCCT
* * *
18832961 TCCTGTACTGACAGCGAAGTAGATTGAAGA
64 TCCTGCACTGACAGCGAAGCAGACTGAAGA
18832991 AACCATAGTT
Statistics
Matches: 234, Mismatches: 36, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
177 2 0.01
178 200 0.85
179 32 0.14
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (178 bp):
AAGATAACAAATCTTGCATTCCTGTACTGACAGCGAAGCAGATCGAAGACATCAGCCTTGCCTTC
CTGCACTGACAGCGAAGCAGACTGAAGATAACAGATCTTACCTTCCTATACTAACAGCAAAGCAG
ATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAACAAAGTAGACTA
Found at i:18833373 original size:44 final size:45
Alignment explanation
Indices: 18833294--18833675 Score: 168
Period size: 44 Copynumber: 8.6 Consensus size: 45
18833284 AAACCACAAA
* * ** *
18833294 CCTTATCGT-CCTGAAGTTGCAATGAAGCAGGTTGAAGATGTCAAT
1 CCTTATC-TCCCTGAAGTTGCAGTGGAGCAAATTGAAGATATCAAT
* *
18833339 -CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTATTAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATATCAAT
* * * * *
18833383 CCTT-TCTCCTTGAAGTTGCAGTGGAGCAGATT-AAAACAATGAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGA-TATCAAT
* * * ** * * *
18833427 CC-TATAC-CTCTGAAGTTGCTGTAGG-TCGGATTAAACCATAACAAGT
1 CCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAAATTGAA-GATATCAA-T
* * * * ** *
18833473 -CTTATCTCCCTGAACTTGCAGTGGAGTATATTAAAGCCA-CAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATATCAAT
* * * * **
18833516 CCTTATTTCTCTAAAGTTGCA-TGGAGTAGGTTGAAG-TGA-CGAA-
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGAT-ATC-AAT
* ** * *
18833559 CCTTATC-CCCTTGAAGTTGCAGTGGGGCAGTTTGAAG-TAACCAGT
1 CCTTATCTCCC-TGAAGTTGCAGTGGAGCAAATTGAAGAT-ATCAAT
* * *
18833604 -CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACTAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATATC-AAT
*
18833649 CC-TATCTCCCTAAAGTTGCAGTGGAGC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGC
18833676 GGATTAAAAC
Statistics
Matches: 259, Mismatches: 55, Indels: 46
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.01
43 33 0.13
44 153 0.59
45 47 0.18
46 24 0.09
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (45 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATATCAAT
Found at i:18833670 original size:45 final size:44
Alignment explanation
Indices: 18833572--18833675 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 44
18833562 TATCCCCTTG
* ** * * *
18833572 AAGTTGCAGTGGGGCAGTTTGAAGTAACCAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGACTGAAGTAACCAATCCTATCTCCCTA
*
18833616 AAGTTGCAGTGGAGCAGACTGAAGATAACTAATCCTATCTCCCTA
1 AAGTTGCAGTGGAGCAGACTGAAG-TAACCAATCCTATCTCCCTA
18833661 AAGTTGCAGTGGAGC
1 AAGTTGCAGTGGAGC
18833676 GGATTAAAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 21 0.40
45 31 0.60
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (44 bp):
AAGTTGCAGTGGAGCAGACTGAAGTAACCAATCCTATCTCCCTA
Done.