Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 162 of 211
Found at i:47644189 original size:47 final size:47
Alignment explanation
Indices: 47643754--47644155 Score: 579
Period size: 47 Copynumber: 8.6 Consensus size: 47
47643744 ATACATGAGC
* * * *
47643754 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* ** * *
47643801 TAAGGCCAAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * *
47643848 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* *
47643895 TAAGGCCGAATGGCCAACGTGATGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * * *
47643942 TAAGGCCGAATGGCCAACGTGATGAATATGAACATGTATATCTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
47643989 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* *
47644036 TAAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * *
47644083 TAAGGCCGAATGACCAATGTGATAAATGTGAACATGCATACATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
*
47644130 TAAGGCAGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
47644156 CGTGGATGTG
Statistics
Matches: 324, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 324 1.00
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
Found at i:47652329 original size:50 final size:50
Alignment explanation
Indices: 47652210--47652456 Score: 246
Period size: 50 Copynumber: 4.8 Consensus size: 50
47652200 GATAATAACA
* * ** * *
47652210 TGCCAAAGCCATGTCCCAGACATGGTTTTACATGGGATGTTTCTTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
47652259 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
47652309 TGCCCATGCCATGTCCCAGATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
47652359 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
47652415 TGCTAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47652457 TTACCCAAAT
Statistics
Matches: 165, Mismatches: 25, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 83 0.50
53 2 0.01
56 40 0.24
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:47654230 original size:23 final size:22
Alignment explanation
Indices: 47654186--47654231 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
47654176 TTAAATAAAA
*
47654186 AAACATAAGAATCTAGGGAATT
1 AAACATAAGAATCTAGGAAATT
* *
47654208 AAACATAAGACCTTTAGGAAATT
1 AAACATAAGA-ATCTAGGAAATT
47654231 A
1 A
47654232 TCTAAGCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (22 bp):
AAACATAAGAATCTAGGAAATT
Found at i:47657981 original size:17 final size:17
Alignment explanation
Indices: 47657959--47657998 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
47657949 TAGAGGAAAA
*
47657959 GAAAATTTACTAATGTT
1 GAAAATGTACTAATGTT
47657976 GAAAATGTACTAATGTT
1 GAAAATGTACTAATGTT
47657993 GAAAAT
1 GAAAAT
47657999 CGAATGATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (17 bp):
GAAAATGTACTAATGTT
Found at i:47659527 original size:56 final size:56
Alignment explanation
Indices: 47659438--47659551 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
47659428 CATGCTTAAC
*
47659438 AATGTTCAAAATACTTCCATGACAACTCGATCTTTCATGAGTTTAGAAACAAAATT
1 AATGTTCAAAATACTTCCATGACAACTCAATCTTTCATGAGTTTAGAAACAAAATT
*
47659494 AATGTTCAAAATACTTCCATGACAACTCAATCTTTCATGAGTTTGGAAACAAAATT
1 AATGTTCAAAATACTTCCATGACAACTCAATCTTTCATGAGTTTAGAAACAAAATT
47659550 AA
1 AA
47659552 GTCCTTTCGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (56 bp):
AATGTTCAAAATACTTCCATGACAACTCAATCTTTCATGAGTTTAGAAACAAAATT
Found at i:47662212 original size:20 final size:20
Alignment explanation
Indices: 47662184--47662222 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
47662174 TATTAAAAAT
*
47662184 TCATGCGAAATGCCTTACCA
1 TCATACGAAATGCCTTACCA
47662204 TCATACGAAATGCCTTACC
1 TCATACGAAATGCCTTACC
47662223 CTCCTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.26
Consensus pattern (20 bp):
TCATACGAAATGCCTTACCA
Found at i:47667015 original size:13 final size:13
Alignment explanation
Indices: 47666997--47667021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47666987 TATTGAACAT
47666997 AAAATTAAAATTA
1 AAAATTAAAATTA
47667010 AAAATTAAAATT
1 AAAATTAAAATT
47667022 TATATGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTAAAATTA
Found at i:47676120 original size:223 final size:223
Alignment explanation
Indices: 47675732--47676169 Score: 750
Period size: 223 Copynumber: 2.0 Consensus size: 223
47675722 CCAAGTGTAC
* * * *
47675732 TGCACTGATTGCAAATAAATGTGGACTTAATATGCTGTTCATACTCCACGAAACTCCTTCGTCAA
1 TGCACTGATTACAAATAAATGTGGACTTAATATACTATTCATACTCCACGAAACTCCTCCGTCAA
*
47675797 CCACAATGATAACCCACCCCAATGCACATGCAATATGTCATACAATCTCATACATAGTCATAATT
66 CCACAATGATAACCCACCCCAATGCACATGCAACATGTCATACAATCTCATACATAGTCATAATT
* *
47675862 CAATACTTTCTTAATTTATTGACAAGTTCAACATGCCCTCGAATTATCAAATACTTTCAGTGAAT
131 CAATACTTTCTCAATTTATTGACAAGTTCAACATGCCCTCGAATTATCAAATACTTTCAGTGAAC
*
47675927 AGGATCGTGGATCCCAATTTTGGTGCAG
196 AGGATCATGGATCCCAATTTTGGTGCAG
* * *
47675955 TGCACTGATTACAAATAAATGTGGACTTAATATACTATTCTTACTCTACGGAACTCCTCCGTCAA
1 TGCACTGATTACAAATAAATGTGGACTTAATATACTATTCATACTCCACGAAACTCCTCCGTCAA
*
47676020 CCACAATGATAACCCACCCCAATGCACATGCAACATGTCATATAATCTCATACATAGTCATAATT
66 CCACAATGATAACCCACCCCAATGCACATGCAACATGTCATACAATCTCATACATAGTCATAATT
* *
47676085 CAATACTTTCTCAATTTATTGACATGTTCAACATGCGCTCGAATTATCAAATACTTTCAGTGAAC
131 CAATACTTTCTCAATTTATTGACAAGTTCAACATGCCCTCGAATTATCAAATACTTTCAGTGAAC
47676150 AGGATCATGGATCCCAATTT
196 AGGATCATGGATCCCAATTT
47676170 CGGTTTACCA
Statistics
Matches: 201, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
223 201 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (223 bp):
TGCACTGATTACAAATAAATGTGGACTTAATATACTATTCATACTCCACGAAACTCCTCCGTCAA
CCACAATGATAACCCACCCCAATGCACATGCAACATGTCATACAATCTCATACATAGTCATAATT
CAATACTTTCTCAATTTATTGACAAGTTCAACATGCCCTCGAATTATCAAATACTTTCAGTGAAC
AGGATCATGGATCCCAATTTTGGTGCAG
Found at i:47678310 original size:20 final size:18
Alignment explanation
Indices: 47678280--47678323 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 18
47678270 ATATAGGGTT
47678280 TTTAATTATTATTTGATA
1 TTTAATTATTATTTGATA
47678298 TGTTAAGTTATTATTTGATA
1 T-TTAA-TTATTATTTGATA
47678318 TTTAAT
1 TTTAAT
47678324 ACTTTTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 8 0.33
20 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (18 bp):
TTTAATTATTATTTGATA
Found at i:47678448 original size:18 final size:18
Alignment explanation
Indices: 47678403--47678450 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
47678393 AAACTAAAAA
* *
47678403 TAATAAAATAAAATATTT
1 TAATTAAATTAAATATTT
*
47678421 TTA-T-AATTAAATATTT
1 TAATTAAATTAAATATTT
47678437 TAATTAAATTAAAT
1 TAATTAAATTAAAT
47678451 CTAATTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 13 0.54
17 1 0.04
18 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTAAATTAAATATTT
Found at i:47678617 original size:30 final size:27
Alignment explanation
Indices: 47678581--47678647 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
47678571 ATATTAGGAG
47678581 TTATTATTATTATTTGATGTGTAT-AGT
1 TTATTATTATTATTTGATGTGT-TCAGT
47678608 TTATTATTATTATTTGATGTGTTCAGT
1 TTATTATTATTATTTGATGTGTTCAGT
*
47678635 TTTTTATTATTAT
1 TTATTATTATTAT
47678648 CTAATACTAG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.24, C:0.01, G:0.12, T:0.63
Consensus pattern (27 bp):
TTATTATTATTATTTGATGTGTTCAGT
Found at i:47680732 original size:40 final size:40
Alignment explanation
Indices: 47680648--47680827 Score: 218
Period size: 41 Copynumber: 4.5 Consensus size: 40
47680638 TTTGAATACT
* * * * *
47680648 TGAAAATGTTGAAAAGGAAGTTACCCGAAAGGGATAACACA
1 TGAAAAGGTTGAAAAGGAA-TTATCCGAAAAGGATATCAAA
* *
47680689 TGAAAAGGTTGAAAAAGAAATATCCGAAAAGGATATCAAA
1 TGAAAAGGTTGAAAAGGAATTATCCGAAAAGGATATCAAA
* * *
47680729 TGAAAATGTTGAAAAGGACGTTATTCGAAAAGGATATCAAA
1 TGAAAAGGTTGAAAAGGA-ATTATCCGAAAAGGATATCAAA
* *
47680770 TGAAAAGGTTGAAAAGGACGTAATCCGAAAAGGATATC-AA
1 TGAAAAGGTTGAAAAGGA-ATTATCCGAAAAGGATATCAAA
47680810 TGAAAAGGTTGAAAAGGA
1 TGAAAAGGTTGAAAAGGA
47680828 TAGCAATGAA
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 52 0.42
41 71 0.58
ACGTcount: A:0.49, C:0.08, G:0.24, T:0.19
Consensus pattern (40 bp):
TGAAAAGGTTGAAAAGGAATTATCCGAAAAGGATATCAAA
Found at i:47680742 original size:81 final size:81
Alignment explanation
Indices: 47680648--47680827 Score: 254
Period size: 81 Copynumber: 2.2 Consensus size: 81
47680638 TTTGAATACT
* *
47680648 TGAAAATGTTGAAAAGGAAGTTACCCGAAAGGGATAACACATGAAAAGGTTGAAAAAGAAAT-AT
1 TGAAAATGTTGAAAAGGAAGTTACCCGAAAAGGATAACAAATGAAAAGGTTGAAAAAGAAATAAT
47680712 CCGAAAAGGATATCAAA
66 CCGAAAAGGATATC-AA
* ** * * **
47680729 TGAAAATGTTGAAAAGGACGTTATTCGAAAAGGATATCAAATGAAAAGGTTGAAAAGGACGTAAT
1 TGAAAATGTTGAAAAGGAAGTTACCCGAAAAGGATAACAAATGAAAAGGTTGAAAAAGAAATAAT
47680794 CCGAAAAGGATATCAA
66 CCGAAAAGGATATCAA
*
47680810 TGAAAAGGTTGAAAAGGA
1 TGAAAATGTTGAAAAGGA
47680828 TAGCAATGAA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 72 0.82
82 16 0.18
ACGTcount: A:0.49, C:0.08, G:0.24, T:0.19
Consensus pattern (81 bp):
TGAAAATGTTGAAAAGGAAGTTACCCGAAAAGGATAACAAATGAAAAGGTTGAAAAAGAAATAAT
CCGAAAAGGATATCAA
Found at i:47697922 original size:598 final size:594
Alignment explanation
Indices: 47696785--47697961 Score: 1890
Period size: 598 Copynumber: 2.0 Consensus size: 594
47696775 AGATTTTTTT
* *
47696785 TGTAAAAAGATGTATGAAACATTTAGGTTGGGTTGAAATTTATTGAATTGGAACCAAATGGGATT
1 TGTAAAAAGATGCATGAAACATTTAGGTTGGGTTGAAAATTATTGAATTGGAACCAAATGGGATT
* * *
47696850 TTTTCCAAAAACAAGGGCCACATCGCAACTACCAAATTCTGACGTTGCAACATGGTGCGACAATG
66 TTTTCCAAAAACAAGGGCCACATCACAACCACCAAATTCTGACGTTGCAACATGGAGCGACAATG
* * * * * * * ** **
47696915 AGTGACGTCGCGACGTGGAAACCAGGAAGTTGTGACGTCAACCTGAAGTTTTGTAAACTTTAGTA
131 AGTGACGTCGCGACGTGGAAACCAAGAAGCTATAACGCCAACCTAAAATTTTAAAAACTTTACAA
* * * * *
47696980 TTTGGTCCTAATCACCCTCAGGTTAGCAAAATAGCTTTCATAAGCTCGGATAGGTAAGCTGATAC
196 TTTGGTCCTAATCACCCTCAAGTTAGCAAAAGAGCTTTCATAAGCTCAGACAAGTAAGCTGATAC
*
47697045 ATATATATATTCACATAATGCATGTCCCAAGGATGTGGTTTTGGAAATTTTTGTGTTTGCACTTG
261 ATATATATATTCACATAATGCATGTACCAAGGATGTGGTTTTGGAAATTTTTGTGTTTGCACTTG
*
47697110 CTAGTTTGTCATTTGGCTAAGTTGATGCTTGGTTTTGGATGTTAAGTTTGATGAATGACTTAATT
326 CTAGTTTGTCATTTGGCTAAGTTGATGCTTGGTTTTAGATGTTAAGTTTGATGAATGACTTAATT
*
47697175 GATGCATGTTTAGTTATGTTTGATGCTATTAAAGATAGAGATCAAGAACTTGTATGAATTGTTAG
391 GATGCATGTTTAGTTATGTTTGATGCTATTAAAGATAGAGATCAAGAACTTGCATGAATTGTTAG
47697240 GTTAAGGATTGAAAGGTGAGGTAGTTTACGTATAATAAGTTGATATATAAGTTAGAATTGATATG
456 GTTAAGGATTGAAAGGTGAGGTAGTTTACGTATAATAAGTTGATATATAAGTTAGAATTGATATG
*
47697305 TTTAAATGTAAATATGAATTTGAACTCAAATGACAATATTTTGGCATTTGACATATTAAGAGGTT
521 TTTAAATGTAAAGATGAATTTGAACTCAAATGACAATATTTTGGCATTTGACATATTAAGAGGTT
47697370 TTTTTTGCG
586 TTTTTTGCG
**
47697379 TGTAAAAAGATGCATGAAACATTTAGGTT-GGTTGAAAATTATTGAATTGGAATGAAATGGGATT
1 TGTAAAAAGATGCATGAAACATTTAGGTTGGGTTGAAAATTATTGAATTGGAACCAAATGGGA-T
*
47697443 TTTTTCCAAAAACAAGGGCCACATCACAACCACCAACTTCTGACGTTGCAACATGGAGCGA-ACA
65 TTTTTCCAAAAACAAGGGCCACATCACAACCACCAAATTCTGACGTTGCAACATGGAGCGACA-A
* * *
47697507 TGAGTGACGTTGCGACGTGGAAACCAAGAAGCTATAATGCCGACCTAAAATTTTAAAAACTTTAC
129 TGAGTGACGTCGCGACGTGGAAACCAAGAAGCTATAACGCCAACCTAAAATTTTAAAAACTTTAC
* * ** **
47697572 AATTTGGTTCTAATTCACCCTCAAGTTAGGAAAAGAGCTTTTGTAAGCTCAGACAAGTAATTTGA
194 AATTTGGTCCTAA-TCACCCTCAAGTTAGCAAAAGAGCTTTCATAAGCTCAGACAAGTAAGCTGA
*
47697637 TTCATATATATATTGTTCACATAATGCATGTACCAAGGATGTGGTTTTGGAAATTTTTGTGTTTG
258 TACATATATATA---TTCACATAATGCATGTACCAAGGATGTGGTTTTGGAAATTTTTGTGTTTG
*
47697702 CACTTGCTAGTTTTTCATTTGGCTAAGTTGATGCTTGGTTTTAGATGTTAAGTTTGATGAATGAC
320 CACTTGCTAGTTTGTCATTTGGCTAAGTTGATGCTTGGTTTTAGATGTTAAGTTTGATGAATGAC
*
47697767 TTAATTGATGCATGTTTAGTTATGTTTGATGCTATTAAAGATAGCGATCAAGAACTTGCATGAAT
385 TTAATTGATGCATGTTTAGTTATGTTTGATGCTATTAAAGATAGAGATCAAGAACTTGCATGAAT
*
47697832 TTTTAGGTTAAGGATTGAAAGGTGAGGTAGTTTACGTATAATAAGTTGATATATAAGTTAGAATT
450 TGTTAGGTTAAGGATTGAAAGGTGAGGTAGTTTACGTATAATAAGTTGATATATAAGTTAGAATT
* * *
47697897 GATATGTTTAAATGTAAAGATGAATTTGAACTCAAATGATAATCTTTTGGTATTTGACATATTAA
515 GATATGTTTAAATGTAAAGATGAATTTGAACTCAAATGACAATATTTTGGCATTTGACATATTAA
47697962 ATTCTTGGTT
Statistics
Matches: 533, Mismatches: 44, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
593 31 0.06
594 150 0.28
595 52 0.10
598 300 0.56
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (594 bp):
TGTAAAAAGATGCATGAAACATTTAGGTTGGGTTGAAAATTATTGAATTGGAACCAAATGGGATT
TTTTCCAAAAACAAGGGCCACATCACAACCACCAAATTCTGACGTTGCAACATGGAGCGACAATG
AGTGACGTCGCGACGTGGAAACCAAGAAGCTATAACGCCAACCTAAAATTTTAAAAACTTTACAA
TTTGGTCCTAATCACCCTCAAGTTAGCAAAAGAGCTTTCATAAGCTCAGACAAGTAAGCTGATAC
ATATATATATTCACATAATGCATGTACCAAGGATGTGGTTTTGGAAATTTTTGTGTTTGCACTTG
CTAGTTTGTCATTTGGCTAAGTTGATGCTTGGTTTTAGATGTTAAGTTTGATGAATGACTTAATT
GATGCATGTTTAGTTATGTTTGATGCTATTAAAGATAGAGATCAAGAACTTGCATGAATTGTTAG
GTTAAGGATTGAAAGGTGAGGTAGTTTACGTATAATAAGTTGATATATAAGTTAGAATTGATATG
TTTAAATGTAAAGATGAATTTGAACTCAAATGACAATATTTTGGCATTTGACATATTAAGAGGTT
TTTTTTGCG
Found at i:47702156 original size:35 final size:35
Alignment explanation
Indices: 47702117--47702184 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
47702107 GGCTTCTTAA
47702117 ATGATTTATACAATATATACACATTTATTTTCAAT
1 ATGATTTATACAATATATACACATTTATTTTCAAT
47702152 ATGATTTATACAATATATACACATTTATTTTCA
1 ATGATTTATACAATATATACACATTTATTTTCA
47702185 TGTTTTGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.46
Consensus pattern (35 bp):
ATGATTTATACAATATATACACATTTATTTTCAAT
Found at i:47704021 original size:78 final size:78
Alignment explanation
Indices: 47703937--47704094 Score: 289
Period size: 78 Copynumber: 2.0 Consensus size: 78
47703927 CACTCTAAAA
* *
47703937 CATCCTTAAACACCATTAAACCATAACTCATGGTTCCAAATCATTTAAAAAAATTCTAATTTATG
1 CATCCTTAAACAACATTAAACCATAACTCATGGTTCCAAATCATTTAAAAAAATTCTAAATTATG
47704002 TTTAATCATAATT
66 TTTAATCATAATT
*
47704015 CATCCTTAAACAACATTAAACCATAACTCATGGTTCCAAATCATTTAAAAAATTTCTAAATTATG
1 CATCCTTAAACAACATTAAACCATAACTCATGGTTCCAAATCATTTAAAAAAATTCTAAATTATG
47704080 TTTAATCATAATT
66 TTTAATCATAATT
47704093 CA
1 CA
47704095 AAGTCATAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (78 bp):
CATCCTTAAACAACATTAAACCATAACTCATGGTTCCAAATCATTTAAAAAAATTCTAAATTATG
TTTAATCATAATT
Found at i:47708212 original size:21 final size:23
Alignment explanation
Indices: 47708186--47708228 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47708176 ATTTTATTGA
47708186 TGAATTGA-AT-ATGGTAAATTT
1 TGAATTGATATAATGGTAAATTT
*
47708207 TGAATTGATATAATTGTAAATT
1 TGAATTGATATAATGGTAAATT
47708229 AAATGGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 2 0.11
23 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (23 bp):
TGAATTGATATAATGGTAAATTT
Found at i:47711515 original size:107 final size:108
Alignment explanation
Indices: 47711317--47711522 Score: 281
Period size: 107 Copynumber: 1.9 Consensus size: 108
47711307 TACCGTCGTA
* *
47711317 ATAATATAAATTATTTAAAATAATAAGGTTATTTTACTAATTTTCTTAACCAAGCTGGTGTTGAG
1 ATAATATAAATTATTTAAAATAATAAGGTTATTTTACTAATTTCCTTAACCAAGCTGGTGTCGAG
* *
47711382 TTGACTTGTGACACTAACTCAATCACACACTTAAGCAATAGAT
66 TTGACTCGTGACACCAACTCAATCACACACTTAAGCAATAGAT
* * * * * *
47711425 ATAATATAACTTATTTAAAAT-ATGAATGTTA-TTTAGTAATTTCCTTGATCAAGTTGGTGTCGA
1 ATAATATAAATTATTTAAAATAAT-AAGGTTATTTTACTAATTTCCTTAACCAAGCTGGTGTCGA
* *
47711488 GTTGACTCGTGACACCAACTTAGTCACACACTTAA
65 GTTGACTCGTGACACCAACTCAATCACACACTTAA
47711523 ATAATAGTAT
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
107 59 0.69
108 26 0.31
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (108 bp):
ATAATATAAATTATTTAAAATAATAAGGTTATTTTACTAATTTCCTTAACCAAGCTGGTGTCGAG
TTGACTCGTGACACCAACTCAATCACACACTTAAGCAATAGAT
Found at i:47713426 original size:17 final size:17
Alignment explanation
Indices: 47713388--47713420 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47713378 ATTTAATATA
47713388 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
47713405 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
47713421 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:47713427 original size:19 final size:18
Alignment explanation
Indices: 47713382--47713428 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
47713372 GTATATATTT
47713382 AATATATATATTTGATTAA
1 AATA-ATATATTTGATTAA
*
47713401 AA-AGTATATTTGATTAAA
1 AATAATATATTTGATT-AA
47713419 AATAATATAT
1 AATAATATAT
47713429 ATTTAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.46
18 5 0.21
19 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
AATAATATATTTGATTAA
Found at i:47713442 original size:21 final size:21
Alignment explanation
Indices: 47713385--47713442 Score: 52
Period size: 19 Copynumber: 3.0 Consensus size: 21
47713375 TATATTTAAT
*
47713385 ATATATATTTGAT-TAAAA-A
1 ATATATATTTAATATAAAATA
* * *
47713404 GTATAT-TTGATTA-AAAATA
1 ATATATATTTAATATAAAATA
47713423 ATATATATTTAATATAAAAT
1 ATATATATTTAATATAAAAT
47713443 TTGGGCCTGG
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
18 7 0.25
19 11 0.39
20 5 0.18
21 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
ATATATATTTAATATAAAATA
Found at i:47724575 original size:25 final size:25
Alignment explanation
Indices: 47724547--47724596 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
47724537 ATTTTAAGTG
*
47724547 GTCTCAGTATAGTCTATCTATAGTA
1 GTCTCAGTATAGTCTACCTATAGTA
* *
47724572 GTCTTAGTATATTCTACCTATAGTA
1 GTCTCAGTATAGTCTACCTATAGTA
47724597 ATTTCAGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (25 bp):
GTCTCAGTATAGTCTACCTATAGTA
Found at i:47740884 original size:22 final size:22
Alignment explanation
Indices: 47740856--47740904 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
47740846 TTTCGGATTC
47740856 GATAAGACCTTCTATGAGTAGA
1 GATAAGACCTTCTATGAGTAGA
47740878 GATAAGACCTTCTATGAGTAGA
1 GATAAGACCTTCTATGAGTAGA
47740900 GATAA
1 GATAA
47740905 AGGCAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (22 bp):
GATAAGACCTTCTATGAGTAGA
Found at i:47760906 original size:18 final size:20
Alignment explanation
Indices: 47760885--47760934 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
47760875 AAAGAAAGAC
47760885 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
47760903 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
47760923 AGAAAAAAGAGA
1 AG-AAAAAGAGA
47760935 TTGAGAGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:47764756 original size:13 final size:13
Alignment explanation
Indices: 47764738--47764763 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47764728 CCCGGATAAT
47764738 TGAATTATTGAAG
1 TGAATTATTGAAG
47764751 TGAATTATTGAAG
1 TGAATTATTGAAG
47764764 ATGTGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (13 bp):
TGAATTATTGAAG
Found at i:47771157 original size:8 final size:8
Alignment explanation
Indices: 47771144--47771173 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47771134 AAAATAATAT
*
47771144 AAAATATG
1 AAAATACG
47771152 AAAATACG
1 AAAATACG
47771160 AAAATACG
1 AAAATACG
47771168 AAAATA
1 AAAATA
47771174 GTATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (8 bp):
AAAATACG
Found at i:47771250 original size:10 final size:10
Alignment explanation
Indices: 47771235--47771262 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
47771225 GTGTATTAAT
47771235 TTTTATATTA
1 TTTTATATTA
47771245 TTTTATATTA
1 TTTTATATTA
47771255 TTTTATAT
1 TTTTATAT
47771263 AGGCGGCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATATTA
Found at i:47771455 original size:158 final size:159
Alignment explanation
Indices: 47771274--47772136 Score: 1267
Period size: 158 Copynumber: 5.4 Consensus size: 159
47771264 GGCGGCACCC
*
47771274 CCCTTTGTTCCTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
1 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
*
47771339 TTTATTATTTTATATTATTTTATTACATAAAGTTTGAAATGTATTAATTTAGTGTG-TTTTTTAT
66 TTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTTAT
*
47771403 ATAAATTTAGTAAAAAACCCTCATTTTGG
131 ATAAATTTAGTAAAAAACCCTTATTTTGG
* * * * *
47771432 CCATTTGTTCGTATTTTTCTTATTTTCAGATTTTATTAGTTTCAAAATATATATTATTTTCATAT
1 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
* *
47771497 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTAT
66 TTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTTAT
* *
47771562 GTAAATTTAGTTAAAAAAACCCTTACTTTGG
131 ATAAATTTAG-T-AAAAAACCCTTATTTTGG
* *
47771593 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTATTTTCAAAAAATATATTATTTTCGTAT
1 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
* * *
47771658 TTTATTATTTTATATTATTTTAGTACATAAATTTTGAAATGTATTATTTTTGTGTGTTTTTTTAT
66 TTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTTAT
47771723 ATAAATTTAGTAAAAAA-CCTTATTTTGG
131 ATAAATTTAGTAAAAAACCCTTATTTTGG
* * **
47771751 CCCTTTGTTCGTATTTTTCTTTTTTTCGGATTTTATTACTTTC-AAAAATATACTATTTTATTAT
1 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
*
47771815 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTAT
66 TTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTTAT
*
47771879 AT-AATTTAGTAAAAAAACCCTTATTTTGA
131 ATAAATTTAGT-AAAAAACCCTTATTTTGG
** * **
47771908 CTATTTGTTCGTATTTTTCTTATTTT-TGAATTTTATTACTTTCAAAAAATATACTATTTTTTTA
1 CCCTTTGTTCGTATTTTTCTTATTTTCAG-ATTTTATTACTTTCAAAAAATATACTATTTTCGTA
*
47771972 TTTTTTTATTTTATATTATTTTAGTACATAATA-TTTGAAATGTATT-ATTGTAGTGTGTTTTTT
65 TTTTATTATTTTATATTATTTTAGTACATAA-AGTTTGAAATGTATTAATT-TAGTGTGTTTTTT
* *
47772035 TATATAAATTTAGT-GAAAACCCTTATTTTAG
128 TATATAAATTTAGTAAAAAACCCTTATTTTGG
* * * ** * *
47772066 CCCTTTGTTCGTATTTTTATTTTTTTCAAATTTTATTACTTTCAGTAAATATACTATTTTTGTTT
1 CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
47772131 TTTATT
66 TTTATT
47772137 TCTTTTCGTA
Statistics
Matches: 640, Mismatches: 53, Indels: 24
0.89 0.07 0.03
Matches are distributed among these distances:
155 8 0.01
156 17 0.03
157 120 0.19
158 304 0.47
159 33 0.05
160 10 0.02
161 148 0.23
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (159 bp):
CCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
TTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTTAT
ATAAATTTAGTAAAAAACCCTTATTTTGG
Found at i:47771631 original size:16 final size:16
Alignment explanation
Indices: 47771607--47771668 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
47771597 TTGTTCGTAT
*
47771607 TTTTCTTATTTTCAGA
1 TTTTATTATTTTCAGA
*
47771623 TTTTATTATTTTCAAAAA
1 TTTTATTATTTTC--AGA
* *
47771641 ATATATTATTTTC-GTA
1 TTTTATTATTTTCAG-A
47771657 TTTTATTATTTT
1 TTTTATTATTTT
47771669 ATATTATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
16 23 0.64
18 13 0.36
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTATTATTTTCAGA
Found at i:47771853 original size:476 final size:474
Alignment explanation
Indices: 47771274--47772136 Score: 1372
Period size: 476 Copynumber: 1.8 Consensus size: 474
47771264 GGCGGCACCC
*
47771274 CCCTTTGTTCCTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTAT
1 CCCTTTGTTCCTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTAGTAT
*
47771339 TTTATTATTTTATATTATTTTATTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATA
66 TTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATA
*
47771404 TAAATTTAGT-AAAAAACCCTCATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCAG-ATTTTA
131 T-AATTTAGTAAAAAAACCCTCATTTTGACCATTTGTTCGTATTTTTCTTATTTT-AGAATTTTA
* * * *
47771467 TTAGTTTCAAAATATATATTATTTTCATATTTTATTATTTTATATTATTTTAGTACATAATGTTT
194 TTACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATAATATTT
* * *
47771532 GAAATGTATTATTTTAGTGTGTTTTTTTATGTAAATTTAGTTAAAAAAACCCTTACTTTGGCCCT
259 GAAATGTATTATTGTAGTGTGTTTTTTTATATAAATTTAG-T--AAAAACCCTTACTTTAGCCCT
* * * *
47771597 TTGTTCGTATTTTTCTTATTTTCAGATTTTATTATTTTCAAAAAATATATTATTTTCGTATTTTA
321 TTGTTCGTATTTTTATTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTA
47771662 TTATTTTATATTATTTTAGTACATAAATTTTGAAATGTATTATTTTTGTGTGTTTTTTTATATAA
386 TTATTTTATATTATTTTAGTACATAAATTTTGAAATGTATTATTTTTGTGTGTTTTTTTATATAA
47771727 ATTTAGTAAAAAACCTTATTTTGG
451 ATTTAGTAAAAAACCTTATTTTGG
* * * *
47771751 CCCTTTGTTCGTATTTTTCTTTTTTTCGGATTTTATTACTTTC-AAAAATATACTATTTTATTAT
1 CCCTTTGTTCCTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTAGTAT
*
47771815 TTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATA
66 TTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATA
* * *
47771880 TAATTTAGTAAAAAAACCCTTATTTTGACTATTTGTTCGTATTTTTCTTATTTTTGAATTTTATT
131 TAATTTAGTAAAAAAACCCTCATTTTGACCATTTGTTCGTATTTTTCTTATTTTAGAATTTTATT
** *
47771945 ACTTTCAAAAAATATACTATTTTTTTATTTTTTTATTTTATATTATTTTAGTACATAATATTTGA
196 ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATAATATTTGA
* *
47772010 AATGTATTATTGTAGTGTGTTTTTTTATATAAATTTAGTGAAAACCCTTATTTTAGCCCTTTGTT
261 AATGTATTATTGTAGTGTGTTTTTTTATATAAATTTAGTAAAAACCCTTACTTTAGCCCTTTGTT
* ** * *
47772075 CGTATTTTTATTTTTTTCAAATTTTATTACTTTCAGTAAATATACTATTTTTGTTTTTTATT
326 CGTATTTTTATTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATT
47772137 TCTTTTCGTA
Statistics
Matches: 352, Mismatches: 32, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
473 76 0.22
475 10 0.03
476 226 0.64
477 40 0.11
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (474 bp):
CCCTTTGTTCCTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTAGTAT
TTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATA
TAATTTAGTAAAAAAACCCTCATTTTGACCATTTGTTCGTATTTTTCTTATTTTAGAATTTTATT
ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATAATATTTGA
AATGTATTATTGTAGTGTGTTTTTTTATATAAATTTAGTAAAAACCCTTACTTTAGCCCTTTGTT
CGTATTTTTATTATTTTCAAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
TTATATTATTTTAGTACATAAATTTTGAAATGTATTATTTTTGTGTGTTTTTTTATATAAATTTA
GTAAAAAACCTTATTTTGG
Found at i:47771998 original size:315 final size:318
Alignment explanation
Indices: 47771277--47772125 Score: 1325
Period size: 315 Copynumber: 2.7 Consensus size: 318
47771267 GGCACCCCCC
*
47771277 TTTGTTCCTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTT
1 TTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTT
* * *
47771342 ATTATTTTATATTATTTTATTACATAAAGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATA
66 ATTATTTTATATTATTTTAGTACATAAATTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATA
* * * *
47771406 AATTTAGTAAAAAACCCTCATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCAGATTTTATTAG
131 AATTTAGTAAAAAA-CCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCAGATTTTATTAC
*
47771471 TTTCAAAATATATATTATTTTCATATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
195 TTTCAAAA-ATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
* * * *
47771536 TGTATTATTTTAGTGTGTTTTTTTATGTAAATTTAGTTAAAAAAACCCTTACTTTGGCCC
259 TGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTTAAAAAAACCCTTACTTTGACCA
* *
47771596 TTTGTTCGTATTTTTCTTATTTTCAGATTTTATTATTTTCAAAAAATATATTATTTTCGTATTTT
1 TTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTT
*
47771661 ATTATTTTATATTATTTTAGTACATAAATTTTGAAATGTATTATTTTTGTGTGTTTTTTTATATA
66 ATTATTTTATATTATTTTAGTACATAAATTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATA
*
47771726 AATTTAGTAAAAAACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCGGATTTTATTACT
131 AATTTAGTAAAAAACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCAGATTTTATTACT
47771791 TTCAAAAATATACTATTTT-ATTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
196 TTCAAAAATATACTATTTTCA-TATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
* *
47771855 GTATTAATTTAGTGTG-TTTTTTATAT-AATTTAG-TAAAAAAACCCTTATTTTGACTA
260 GTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTTAAAAAAACCCTTACTTTGACCA
* **
47771911 TTTGTTCGTATTTTTCTTATTTT-TGAATTTTATTACTTTCAAAAAATATACTATTTTTTTATTT
1 TTTGTTCGTATTTTTCTTATTTTCAG-ATTTTATTACTTTCAAAAAATATACTATTTTCGTATTT
* *
47771975 TTTTATTTTATATTATTTTAGTACAT-AATATTTGAAATGTATTATTGTAGTGTGTTTTTTTATA
65 TATTATTTTATATTATTTTAGTACATAAAT-TTTGAAATGTATTATTTTAGTGTGTTTTTTTATA
* * * * *
47772039 TAAATTTAGTGAAAACCCTTATTTTAGCCCTTTGTTCGTATTTTTATTTTTTTCAAATTTTATTA
129 TAAATTTAGTAAAAAACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCAGATTTTATTA
*
47772104 CTTTCAGTAAATATACTATTTT
194 CTTTCA-AAAATATACTATTTT
47772126 TGTTTTTTAT
Statistics
Matches: 491, Mismatches: 34, Indels: 13
0.91 0.06 0.02
Matches are distributed among these distances:
314 4 0.01
315 198 0.40
316 21 0.04
317 10 0.02
318 69 0.14
319 164 0.33
320 25 0.05
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (318 bp):
TTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTT
ATTATTTTATATTATTTTAGTACATAAATTTTGAAATGTATTATTTTAGTGTGTTTTTTTATATA
AATTTAGTAAAAAACCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCAGATTTTATTACT
TTCAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATG
TATTAATTTAGTGTGTTTTTTTATATAAATTTAGTTAAAAAAACCCTTACTTTGACCA
Found at i:47773390 original size:27 final size:27
Alignment explanation
Indices: 47773343--47773406 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
47773333 CCTAAAGGGG
* * *
47773343 GGTGCCGCCTATGGCAGTGGCACCTTT
1 GGTGCCGCCTATGCCACTGGCACCATT
*
47773370 GGTGCCGCCTCTGCCACTGGCACCATT
1 GGTGCCGCCTATGCCACTGGCACCATT
*
47773397 GGTGTCGCCT
1 GGTGCCGCCT
47773407 GTAGCAATCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.09, C:0.34, G:0.31, T:0.25
Consensus pattern (27 bp):
GGTGCCGCCTATGCCACTGGCACCATT
Found at i:47773563 original size:17 final size:17
Alignment explanation
Indices: 47773541--47773575 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47773531 ATAATTAAGT
47773541 TTTAAATAATAAACATA
1 TTTAAATAATAAACATA
* *
47773558 TTTAAATATTATACATA
1 TTTAAATAATAAACATA
47773575 T
1 T
47773576 GTGTATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAATAATAAACATA
Found at i:47777820 original size:15 final size:16
Alignment explanation
Indices: 47777792--47777821 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47777782 TAAATTCATA
47777792 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
47777808 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
47777822 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:47777847 original size:16 final size:17
Alignment explanation
Indices: 47777814--47777849 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
47777804 TTATTAAGAA
47777814 TTTTATTAAATTATATAT
1 TTTTATTAAA-TATATAT
47777832 TTTTATTAAA-ATATAT
1 TTTTATTAAATATATAT
47777848 TT
1 TT
47777850 AATATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:47777986 original size:145 final size:139
Alignment explanation
Indices: 47777721--47778006 Score: 328
Period size: 145 Copynumber: 2.0 Consensus size: 139
47777711 TGTTGGTTCA
47777721 TATATTTAATAATAATTATTTTAAAAATTATATTTTATAGTATTATATATTACGATTTTAGTAAA
1 TATATTTAATAATAATTATTTT-AAAATTATATTTTATAGTATTATATATTACGATTTTAGTAAA
* * * * * *
47777786 TTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTTATTAAAATATATTTA
65 TTCATAT---AATATTTATTATTAAGAATTTAATAAAATTATAAAATATGATT-AAAT-TATTT-
*
47777851 ATATATTTTTATTAAAT
124 AT-TATTTATATTAAAT
*
47777868 TATATTTAATAATAATTATTTT-AAATTATATTTTATAGTATTATATATTATGATTTTAGTAAAT
1 TATATTTAATAATAATTATTTTAAAATTATATTTTATAGTATTATATATTACGATTTTAGTAAAT
* *
47777932 TCATAT-ATTTTTATTAAATT-A-TATTTAATAATAATTATGTTAAAATATGATTAAATTATTTA
66 TCATATAATATTTATT--ATTAAGAATTTAATAA-AATTA---TAAAATATGATTAAATTATTTA
47777994 TTATTTATATTAA
125 TTATTTATATTAA
47778007 TAATCTTATT
Statistics
Matches: 123, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
141 26 0.21
142 8 0.07
143 8 0.07
144 4 0.03
145 55 0.45
147 22 0.18
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (139 bp):
TATATTTAATAATAATTATTTTAAAATTATATTTTATAGTATTATATATTACGATTTTAGTAAAT
TCATATAATATTTATTATTAAGAATTTAATAAAATTATAAAATATGATTAAATTATTTATTATTT
ATATTAAAT
Found at i:47778148 original size:39 final size:41
Alignment explanation
Indices: 47778095--47778200 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 41
47778085 TTTCCTTATG
* * *
47778095 CTATTACACTTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
*
47778135 C-ATTATGCCTCTATTCCATTTCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
47778180 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
47778201 ACGCATCTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
39 11 0.20
40 2 0.04
41 4 0.07
44 19 0.35
45 5 0.09
46 13 0.24
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.32
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:47778161 original size:44 final size:46
Alignment explanation
Indices: 47778112--47778200 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
47778102 ACTTCTATTC
* *
47778112 CATTCAACCAAACACAAGAA-TACC-ATTATGCCTCTATTCCATTT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTT
47778156 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
47778201 ACGCATCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 19 0.46
45 4 0.10
46 18 0.44
ACGTcount: A:0.37, C:0.29, G:0.04, T:0.29
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTT
Found at i:47778203 original size:16 final size:16
Alignment explanation
Indices: 47778182--47778234 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
47778172 AGAATTACCT
47778182 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
47778198 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
*
47778214 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
47778230 ATTAC
1 ATTAC
47778235 AGCGAACCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.25, C:0.34, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:47779754 original size:18 final size:18
Alignment explanation
Indices: 47779716--47779751 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47779706 TTATTATTTT
*
47779716 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
47779734 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
47779752 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:47780293 original size:29 final size:27
Alignment explanation
Indices: 47780227--47780293 Score: 62
Period size: 31 Copynumber: 2.3 Consensus size: 27
47780217 GAGTTTCACG
* * *
47780227 TGTATAATTGCACCAAATTAAATTTTA
1 TGTATAATTGCACCAAATCAAAGTTCA
*
47780254 TGTATACAATTGCACATTAAATCAAAGTTCA
1 TGTAT--AATTGCAC--CAAATCAAAGTTCA
47780285 TGTATAATT
1 TGTATAATT
47780294 TTGAGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 5 0.16
29 12 0.38
31 15 0.47
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (27 bp):
TGTATAATTGCACCAAATCAAAGTTCA
Found at i:47790059 original size:21 final size:21
Alignment explanation
Indices: 47790033--47790080 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
47790023 ATTGGGTGGA
47790033 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
47790054 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
47790075 TTAGCT
1 TCAGCT
47790081 TTCAAGCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.29, G:0.19, T:0.38
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:47796280 original size:29 final size:29
Alignment explanation
Indices: 47796236--47796293 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
47796226 GACAAAGTAC
*
47796236 GCAGTTATGGTGAGACACTTGTGAAACTA
1 GCAGTTATGGTAAGACACTTGTGAAACTA
47796265 GCAGTTATGGTAAGACACTTGTGAAACTA
1 GCAGTTATGGTAAGACACTTGTGAAACTA
47796294 CCAAAGCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCAGTTATGGTAAGACACTTGTGAAACTA
Found at i:47799882 original size:51 final size:50
Alignment explanation
Indices: 47799762--47800047 Score: 242
Period size: 51 Copynumber: 5.7 Consensus size: 50
47799752 AAAGTGATGG
* * * * * * *
47799762 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA-GTTCGA
***
47799812 TCTTATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGA
* * * * *
47799863 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGATAGGTCG-
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTA-CCG---GATAGTTCGA
47799916 T-A--TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTCGA
* * * * * *
47799964 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCAGATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT--TCGA
* *
47800015 TCACATGTGTAGTACTATGTGCATGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
47800048 TGAATCCGCA
Statistics
Matches: 190, Mismatches: 33, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
46 5 0.03
47 3 0.02
48 1 0.01
49 3 0.02
50 66 0.35
51 99 0.52
52 4 0.02
53 1 0.01
54 3 0.02
55 5 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTCGA
Found at i:47799884 original size:101 final size:101
Alignment explanation
Indices: 47799762--47800047 Score: 484
Period size: 101 Copynumber: 2.8 Consensus size: 101
47799752 AAAGTGATGG
* *
47799762 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCTTATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGATAGGTCATATGTGTAGTAC
47799827 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
*
47799863 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGATAGGTCGTATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGATAGGTCATATGTGTAGTAC
47799928 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
47799964 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCAGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGA-A-TGATAGGTCATATGTGTAGT
*
47800028 ACTATGTGCATGCTACTATG
64 ACTATGTGCAGGCTACTATG
47800048 TGAATCCGCA
Statistics
Matches: 176, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
101 139 0.79
102 33 0.19
103 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGAATGATAGGTCATATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:47800049 original size:26 final size:26
Alignment explanation
Indices: 47799969--47800049 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
47799959 TTCGATCACG
* *
47799969 TGTGTAGTACTATGTGCAGGCTATTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
47799995 CGTGTA-T-CAGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
47800020 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
47800046 TGTG
1 TGTG
47800050 AATCCGCATC
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:47800176 original size:41 final size:42
Alignment explanation
Indices: 47800057--47800183 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 42
47800047 GTGAATCCGC
* *
47800057 ATCATTGAATATAAAGGTGGTTTCTAAGTGCTGATTCCACCGT
1 ATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
47800100 ATCATTGACTGTGA-AAGG-GGTTGCTATGTGTTGATTCC-CCGT
1 ATCATTGA-T-T-ATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
47800142 ATTATTGATTATAAGGTGGTTGCTAACTGCTGATTCCACCGT
1 ATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
47800184 GTAATGGTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
39 1 0.01
40 5 0.07
41 18 0.26
42 15 0.21
43 25 0.36
44 4 0.06
45 1 0.01
46 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (42 bp):
ATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
Found at i:47805205 original size:6 final size:6
Alignment explanation
Indices: 47805194--47805222 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
47805184 AAGAGCTCAT
47805194 GCATTA GCATTA GCATTA GCATTA GCATT
1 GCATTA GCATTA GCATTA GCATTA GCATT
47805223 CACATTGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (6 bp):
GCATTA
Found at i:47809326 original size:44 final size:44
Alignment explanation
Indices: 47809215--47809687 Score: 264
Period size: 44 Copynumber: 10.8 Consensus size: 44
47809205 GGATGATCGG
* * * *
47809215 CTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGC-TA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACTTA
47809258 TCTTCAGTCTG-TCTCACTGCAACTTCA-GGAGGATAAGACTTACTTA
1 -CTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTACTTA
* * **
47809304 CTTAGTCTGCTCCACTGCAACTTCAAGGAGATAGGA-TTA-TCGG
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACT-TA
* * * * *
47809347 CTCTAATCTGGTCCACTGCAACTTCAGGGAGATAAGATTTTC-CA
1 CT-TAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACTTA
* ** *
47809391 TCTTCAGTCTAC-CTCACTGCAACTTCA-GGAGGATAAGACTTGGTTG
1 -CTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTACTTA
** *
47809437 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC-TAGATG
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACTTA
* * * * ** *
47809480 C-GA-TCTGCT-CTCTACAACTTCAGAGAGATAAGATCCAAAGTT-
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTACTTA
* * * * **
47809522 -TTAATCCGCTCCACTGCAACCTCAGGGAGATAGGA-TTA-TCGG
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACT-TA
** * ** * *
47809564 CTTTAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGC-AA
1 C-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACTTA
* * *
47809608 TCTTCAGTCTGC-CTCATTGTAACTTCA-GGAGGATAAGACTTGCTTA
1 -CTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTACTTA
47809654 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
1 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAA
47809688 TACTAGATGG
Statistics
Matches: 333, Mismatches: 60, Indels: 72
0.72 0.13 0.15
Matches are distributed among these distances:
40 22 0.07
41 7 0.02
42 4 0.01
43 18 0.05
44 172 0.52
45 107 0.32
46 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTACTTA
Found at i:47809399 original size:133 final size:132
Alignment explanation
Indices: 47809180--47809469 Score: 454
Period size: 133 Copynumber: 2.2 Consensus size: 132
47809170 GTTTTAATCC
* *
47809180 GCTCCATTGCAACTTCAGGGAGATTGGATGATCGGCTTAATCTACTCCACTGCAACTTCAGGGAG
1 GCTCCACTGCAACTTCAGGGAGATAGGATGATCGGCTTAATCTACTCCACTGCAACTTCAGGGAG
* **
47809245 ATAAGATTTGCTATCTTCAGTCTGTCTCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAGT
47809310 CT
131 CT
* * **
47809312 GCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGGTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATGATCGGCT-TAATCTACTCCACTGCAACTTCAGGGA
* ** *
47809377 GATAAGATTTTCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGGTTGCTTAG
65 GATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAG
47809442 TCT
130 TCT
47809445 GCTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
47809470 AGACTAGATG
Statistics
Matches: 143, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
132 33 0.23
133 110 0.77
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (132 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATGATCGGCTTAATCTACTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAGT
CT
Found at i:47809535 original size:217 final size:217
Alignment explanation
Indices: 47809312--47809777 Score: 752
Period size: 217 Copynumber: 2.1 Consensus size: 217
47809302 TACTTAGTCT
* * *
47809312 GCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGGTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAACCTGCTCCACTGCAACTTCAGGGA
* * * *
47809377 GATAAGATTTTCCATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGGTTGCTTAG
66 GATAAGATTTGCAATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
47809442 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAG
131 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAG
47809507 ATAAGATCCAAAGTTTTAATCC
196 ATAAGATCCAAAGTTTTAATCC
* * *
47809529 GCTCCACTGCAACCTCAGGGAGATAGGATTATCGGCTTTAACCTGCTCCACTGCAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAACCTGCTCCACTGCAACTTCAGGGA
* * * *
47809594 GATAAGGTTTGCAATCTTCAGTCTGCCTCATTGTAACTTCAGGAGGATAAGACTTGCTTACTTAG
66 GATAAGATTTGCAATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
* * **
47809659 TCTGCTCCACTGCAACTTCAGGGAGATAATACTAGATGGGATCTGCTCTCTGTAACTTCAGAGAG
131 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAG
*
47809724 ATAAGATCCAATGTTTTAATCC
196 ATAAGATCCAAAGTTTTAATCC
*
47809746 ACTCCACTGCAACTTCAGGGAGATAGGATTAT
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAT
47809778 TGGCCATGGA
Statistics
Matches: 228, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
217 228 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (217 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTCTAACCTGCTCCACTGCAACTTCAGGGA
GATAAGATTTGCAATCTTCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAG
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAGAGAG
ATAAGATCCAAAGTTTTAATCC
Found at i:47814953 original size:27 final size:26
Alignment explanation
Indices: 47814905--47814956 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
47814895 ACGCGCCCTT
* * *
47814905 CTTCTTTCCTGTCTTTTTTCTAGCTC
1 CTTCTTTCCTGTCCTCTGTCTAGCTC
47814931 CTTCTTTCTCTGTCCTCTGTCTAGCT
1 CTTCTTTC-CTGTCCTCTGTCTAGCT
47814957 TGTATCCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.04, C:0.33, G:0.10, T:0.54
Consensus pattern (26 bp):
CTTCTTTCCTGTCCTCTGTCTAGCTC
Found at i:47823568 original size:11 final size:11
Alignment explanation
Indices: 47823537--47823561 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47823527 GCAGATATTT
47823537 CCTTCCCTTCC
1 CCTTCCCTTCC
47823548 CCTTCCCTTCC
1 CCTTCCCTTCC
47823559 CCT
1 CCT
47823562 CTCCTTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (11 bp):
CCTTCCCTTCC
Found at i:47823741 original size:3 final size:3
Alignment explanation
Indices: 47823733--47823759 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47823723 TTTCAATTCG
47823733 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
47823760 AAACTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:47825477 original size:25 final size:25
Alignment explanation
Indices: 47825437--47825486 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
47825427 TCTTTTCCAA
47825437 TCATTTACGATAATTACTATTTGTT
1 TCATTTACGATAATTACTATTTGTT
* *
47825462 TCATTTACTATTATTACTATTTGTT
1 TCATTTACGATAATTACTATTTGTT
47825487 ATTTTCTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (25 bp):
TCATTTACGATAATTACTATTTGTT
Found at i:47835145 original size:9 final size:10
Alignment explanation
Indices: 47835128--47835160 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
47835118 TACTCTTAAG
47835128 AATTTTTTTA
1 AATTTTTTTA
47835138 AATTTTTTTA
1 AATTTTTTTA
*
47835148 AATTTTTTAA
1 AATTTTTTTA
47835158 AAT
1 AAT
47835161 ATAAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
AATTTTTTTA
Found at i:47835183 original size:18 final size:18
Alignment explanation
Indices: 47835163--47835226 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 18
47835153 TTTAAAATAT
47835163 AAATTTTGGAATTTTTATA
1 AAATTTT-GAATTTTTATA
47835182 AAATTTTGAATTTTTGA-A
1 AAATTTTGAATTTTT-ATA
*
47835200 AATTATTTTGAATTTTTTTA
1 AA--ATTTTGAATTTTTATA
47835220 AAATTTT
1 AAATTTT
47835227 TGTTGAGAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 16 0.40
19 8 0.20
20 16 0.40
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
AAATTTTGAATTTTTATA
Found at i:47835209 original size:20 final size:20
Alignment explanation
Indices: 47835127--47835224 Score: 85
Period size: 20 Copynumber: 4.8 Consensus size: 20
47835117 ATACTCTTAA
* *
47835127 GAATTTTTTTAAATTTTTTT
1 GAATTTTTTAAAATTATTTT
*
47835147 AAATTTTTTAAAATATAAATTTT
1 GAATTTTTTAAAAT-T--ATTTT
47835170 GGAA-TTTTTATAAA--ATTTT
1 -GAATTTTTTA-AAATTATTTT
*
47835189 GAATTTTTGAAAATTATTTT
1 GAATTTTTTAAAATTATTTT
47835209 GAATTTTTTTAAAATT
1 GAA-TTTTTTAAAATT
47835225 TTTGTTGAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
18 6 0.10
19 10 0.16
20 20 0.32
21 12 0.19
23 10 0.16
24 5 0.08
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
GAATTTTTTAAAATTATTTT
Found at i:47835309 original size:9 final size:9
Alignment explanation
Indices: 47835295--47835323 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
47835285 CATTAATTTG
47835295 TTATTCGAA
1 TTATTCGAA
47835304 TTATTCGAA
1 TTATTCGAA
47835313 TTATTCGAA
1 TTATTCGAA
47835322 TT
1 TT
47835324 GTAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (9 bp):
TTATTCGAA
Found at i:47836483 original size:34 final size:34
Alignment explanation
Indices: 47836421--47836485 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
47836411 CATGTTCAAA
* * *
47836421 ACAGATCAATACAGTAGCATTTAATATGCTTTTG
1 ACAGAACAATACAGTAGCAATCAATATGCTTTTG
*
47836455 ACAGAACAATACAGTAGCAATCATTATGCTT
1 ACAGAACAATACAGTAGCAATCAATATGCTT
47836486 ATAACAGTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (34 bp):
ACAGAACAATACAGTAGCAATCAATATGCTTTTG
Found at i:47837648 original size:3 final size:3
Alignment explanation
Indices: 47837640--47837664 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
47837630 CTTTTTACCA
47837640 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
47837665 TTTGCATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:47848242 original size:27 final size:27
Alignment explanation
Indices: 47848225--47848402 Score: 133
Period size: 27 Copynumber: 6.6 Consensus size: 27
47848215 ATATTAAGTC
47848225 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
47848252 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
47848280 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *** ** *
47848307 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
47848334 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
47848361 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
47848388 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
47848403 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 104 0.79
28 27 0.21
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:47848364 original size:54 final size:54
Alignment explanation
Indices: 47848225--47848401 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
47848215 ATATTAAGTC
* * *
47848225 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-T
* ** * *
47848280 CGCACACTTAGTGC-TACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
47848334 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
47848388 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47848402 TGTACAATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 44 0.42
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:47848391 original size:81 final size:82
Alignment explanation
Indices: 47848246--47848401 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
47848236 TGCTATATAA
* *
47848246 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
47848311 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
47848328 TCAATTCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
47848391 ACACTTAGTGC
65 ACACTTAGTGC
47848402 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 42 0.63
82 25 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:47849248 original size:20 final size:21
Alignment explanation
Indices: 47849210--47849249 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
47849200 AAATTTTATC
*
47849210 TTATAATCATTTTTGTACAAT
1 TTATAATCATTTTTCTACAAT
*
47849231 TTATAATGA-TTTTCTACAA
1 TTATAATCATTTTTCTACAA
47849250 ACAGAACAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
TTATAATCATTTTTCTACAAT
Found at i:47856447 original size:19 final size:21
Alignment explanation
Indices: 47856425--47856463 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
47856415 TGCAAAGTTG
47856425 ATAATAAT-TAA-TATATATT
1 ATAATAATATAATTATATATT
47856444 ATAATAATATAATTATATAT
1 ATAATAATATAATTATATAT
47856464 CAATTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATAATATAATTATATATT
Found at i:47856586 original size:31 final size:30
Alignment explanation
Indices: 47856527--47856586 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
47856517 TTCTTTTGAA
* *
47856527 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAAAGACACCTAATTTTT
47856557 AATATTTACAGAAAAAAG-CAACCTAATTTT
1 AATATTTACA-AAAAAAGAC-ACCTAATTTT
47856587 GCAACGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAAAGACACCTAATTTTT
Found at i:47866017 original size:9 final size:10
Alignment explanation
Indices: 47866002--47866030 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
47865992 AATTTGTGGG
47866002 AAAATTAATT
1 AAAATTAATT
47866012 -AAATTAATT
1 AAAATTAATT
47866021 AAAATTAATT
1 AAAATTAATT
47866031 TAATACTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTAATT
Found at i:47866077 original size:20 final size:20
Alignment explanation
Indices: 47866052--47866105 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
47866042 TTAATAGTAT
47866052 TTTATTAATTTAATATTAAA
1 TTTATTAATTTAATATTAAA
47866072 TTTATT-ATCTTAATATTAAA
1 TTTATTAAT-TTAATATTAAA
47866092 -TTA--AATTTAATATT
1 TTTATTAATTTAATATT
47866106 TATCTTGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 8 0.25
18 2 0.06
19 5 0.16
20 17 0.53
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATTAATTTAATATTAAA
Found at i:47866077 original size:25 final size:25
Alignment explanation
Indices: 47866049--47866100 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
47866039 ATCTTAATAG
*
47866049 TATTTTATTAAT-TTAATATTAAATT
1 TATTATATTAATATTAA-ATTAAATT
*
47866074 TATTATCTTAATATTAAATTAAATT
1 TATTATATTAATATTAAATTAAATT
47866099 TA
1 TA
47866101 ATATTTATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATTAATATTAAATTAAATT
Found at i:47866146 original size:61 final size:58
Alignment explanation
Indices: 47866081--47866196 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 58
47866071 ATTTATTATC
* *
47866081 TTAATATTAAATTAAATT-TAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATAGAT
1 TTAATATTAAATT-AATTATAATATTTATC-T-T-GATAAGTATTATATTAATCTAATAGAT
*
47866142 TTAATATTAAATTTATTATAATATTTATCTTGATAAGTATTATATTAATCTAATA
1 TTAATATTAAATTAATTATAATATTTATCTTGATAAGTATTATATTAATCTAATA
47866197 TTAAAGAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 4 0.08
61 24 0.47
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.50
Consensus pattern (58 bp):
TTAATATTAAATTAATTATAATATTTATCTTGATAAGTATTATATTAATCTAATAGAT
Found at i:47866209 original size:58 final size:60
Alignment explanation
Indices: 47866086--47866215 Score: 135
Period size: 58 Copynumber: 2.2 Consensus size: 60
47866076 TTATCTTAAT
* * * *
47866086 ATTAAATTAAATTTAATATTTATCTTGTAGATAAGTATTCTATTAATTTAATAGATTTAAT
1 ATTAAATTAAATTTAATATTTATCTTGTAGATAAGTATTATATTAATCTAATA-ATTAAAA
*
47866147 ATTAAATT-TATTATAATATTTATC-T-T-GATAAGTATTATATTAATCTAAT-ATTAAAGAA
1 ATTAAATTAAATT-TAATATTTATCTTGTAGATAAGTATTATATTAATCTAATAATT-AA-AA
47866205 ATTAAACTTAA
1 ATTAAA-TTAA
47866216 TCATAGTTGA
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
56 3 0.05
57 1 0.02
58 28 0.48
59 3 0.05
60 4 0.07
61 19 0.33
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (60 bp):
ATTAAATTAAATTTAATATTTATCTTGTAGATAAGTATTATATTAATCTAATAATTAAAA
Found at i:47868842 original size:50 final size:50
Alignment explanation
Indices: 47868728--47868919 Score: 168
Period size: 50 Copynumber: 3.7 Consensus size: 50
47868718 GGGAATGAGA
* * ** *
47868728 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATTATTGGGCTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGG---TACCGAG--ATGAGAGG
* *
47868783 TTCCACGTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGG
* * * * * **
47868833 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGG
** * * *
47868883 TCCCGTGTAATACCATATCTGGGATATGGCATTGGTA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTA
47868920 GTACAGGAAA
Statistics
Matches: 113, Mismatches: 24, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
50 78 0.69
52 4 0.04
55 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGG
Found at i:47869195 original size:20 final size:20
Alignment explanation
Indices: 47869170--47869218 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
47869160 TGAGTTATTT
*
47869170 AAGTAAGCAAGTAAGTGAAC
1 AAGTAAGCAAGTAAGTAAAC
*
47869190 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
47869210 AAG-AAGCAA
1 AAGTAAGCAA
47869219 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.55, C:0.06, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:47870668 original size:16 final size:16
Alignment explanation
Indices: 47870649--47870698 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
47870639 TTCTTCTTTA
47870649 CTTACTCTCTTACTTG
1 CTTACTCTCTTACTTG
47870665 CTTA----CTTACTTG
1 CTTACTCTCTTACTTG
47870677 CTTACTCTCTTACTTG
1 CTTACTCTCTTACTTG
*
47870693 TTTACT
1 CTTACT
47870699 TACTTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 12 0.41
16 17 0.59
ACGTcount: A:0.14, C:0.28, G:0.06, T:0.52
Consensus pattern (16 bp):
CTTACTCTCTTACTTG
Found at i:47870671 original size:20 final size:20
Alignment explanation
Indices: 47870646--47870691 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
47870636 TGCTTCTTCT
47870646 TTACTTACTCT-CTTACT-TGC
1 TTACTTACT-TGCTTACTCT-C
47870666 TTACTTACTTGCTTACTCTC
1 TTACTTACTTGCTTACTCTC
47870686 TTACTT
1 TTACTT
47870692 GTTTACTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.15, C:0.28, G:0.04, T:0.52
Consensus pattern (20 bp):
TTACTTACTTGCTTACTCTC
Found at i:47870682 original size:28 final size:28
Alignment explanation
Indices: 47870649--47870703 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
47870639 TTCTTCTTTA
47870649 CTTACTCTCTTACTTGCTTACTTACTTG
1 CTTACTCTCTTACTTGCTTACTTACTTG
*
47870677 CTTACTCTCTTACTTGTTTACTTACTT
1 CTTACTCTCTTACTTGCTTACTTACTT
47870704 TCTTTCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.15, C:0.27, G:0.05, T:0.53
Consensus pattern (28 bp):
CTTACTCTCTTACTTGCTTACTTACTTG
Found at i:47871055 original size:50 final size:50
Alignment explanation
Indices: 47870983--47871107 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
47870973 TATCCTGGAT
* * ** * *
47870983 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCC-AGAC
1 ATGGCCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAG-C
*
47871033 ATGGCCTTAC-GGAGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAGC
1 ATGGCCTTACAGG-GGACCTCTCATATCGGTGCCAACGCCATGTCCCAAGC
* *
47871083 ATGGTCTTACATGGGACCTCTCATA
1 ATGGCCTTACAGGGGACCTCTCATA
47871108 ACCTCAATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
49 1 0.02
50 58 0.94
51 3 0.05
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
ATGGCCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAAGC
Found at i:47885512 original size:24 final size:22
Alignment explanation
Indices: 47885464--47885512 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
47885454 ATTTTGAGGG
* * *
47885464 AATATAAAAAAGAATATTAAGA
1 AATAAAAAAAAGAATACTAAAA
47885486 AATAAAAAAAAGAGTATACTAAAA
1 AATAAAAAAAAGA--ATACTAAAA
47885510 AAT
1 AAT
47885513 TTGAAGAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 12 0.55
24 10 0.45
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAAAAAAAAGAATACTAAAA
Found at i:47887064 original size:15 final size:13
Alignment explanation
Indices: 47887049--47887101 Score: 53
Period size: 12 Copynumber: 4.4 Consensus size: 13
47887039 TTTTATCTAT
47887049 TTTATTTATTGTTA
1 TTTATTTATT-TTA
47887063 -TTA-TTATTTTA
1 TTTATTTATTTTA
*
47887074 CTTA-TTA-TTTA
1 TTTATTTATTTTA
47887085 TTTATTTA-TTTA
1 TTTATTTATTTTA
47887097 TTTAT
1 TTTAT
47887102 GTGTCCATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 10 0.28
12 23 0.64
13 3 0.08
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:47888170 original size:15 final size:16
Alignment explanation
Indices: 47888145--47888174 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47888135 TTATATATAT
47888145 AATATATATTTGATAG
1 AATATATATTTGATAG
47888161 AATA-ATATTTGATA
1 AATATATATTTGATA
47888175 CACCATTGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (16 bp):
AATATATATTTGATAG
Found at i:47890439 original size:84 final size:84
Alignment explanation
Indices: 47890299--47890575 Score: 389
Period size: 84 Copynumber: 3.3 Consensus size: 84
47890289 TCTTTAAATG
** * * ** *
47890299 TAAGG-GGTTGCTAAGTGCAGATTCC-CTGAATCATTGA-TCAAAAAGGGGTTGTTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
*
47890361 TTCCCCATATCATTGATTA
66 TTCCCCGTATCATTGATTA
** * * * *
47890380 TAAGGTGGTTTTTAAGTGCTGATTTCACTGTATCCTTGATTGTGAAAGGGGTTGCTATGTACTGA
1 TAAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
*
47890445 TTCCCTGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
*
47890464 TAAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTACTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
47890529 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
47890548 TAAGGTGGTTGCTAAGTGTTGATTCCAC
1 TAAGGTGGTTGCTAAGTGTTGATTCCAC
47890576 CGGGATCCTT
Statistics
Matches: 172, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
81 5 0.03
82 16 0.09
83 10 0.06
84 141 0.82
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCATTGATTA
Found at i:47890453 original size:42 final size:41
Alignment explanation
Indices: 47890300--47890573 Score: 266
Period size: 41 Copynumber: 6.6 Consensus size: 41
47890290 CTTTAAATGT
* * * *
47890300 AAGGGGTTGCTAAGTGCAGATTCCCTGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCTGTATCATTGATTATA
* * **
47890341 AAGGGGTTGTTATGTGCTGATTCCCCATATCATTGATTAT-
1 AAGGGGTTGCTAAGTGCTGATTCCCTGTATCATTGATTATA
** * * *
47890381 AAGGTGGTTTTTAAGTGCTGATTTCACTGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGA-TTCCCTGTATCATTGATTAT-A
* *
47890425 AAGGGGTTGCTATGTACTGATTCCCTGTATCATTGATTAT-
1 AAGGGGTTGCTAAGTGCTGATTCCCTGTATCATTGATTATA
* * *
47890465 AAGGTGGTTGCTAAGTGTTGATTCCACTGTATCCTTGATTGTAA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CTGTATCATTGATTAT-A
* * *
47890509 AAGGGGTTACTATGTGCTGATTCCCCGTATCATTGATTAT-
1 AAGGGGTTGCTAAGTGCTGATTCCCTGTATCATTGATTATA
*
47890549 AAGGTGGTTGCTAAGTGTTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
47890574 ACCGGGATCC
Statistics
Matches: 188, Mismatches: 36, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
40 12 0.06
41 80 0.43
42 59 0.31
43 29 0.15
44 8 0.04
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCCTGTATCATTGATTATA
Found at i:47897877 original size:38 final size:38
Alignment explanation
Indices: 47897793--47897880 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
47897783 TTTTTTTGTT
* *
47897793 TTTCAGAATATTTTCGATTGAAGAAAATCCTATGACTA
1 TTTCAGAATATTTTCAATTGAAGAAAATCCTATCACTA
* * *
47897831 TTGT-AGAATATTTTCAATT-AAGGAAAATTCTCTCACTG
1 TT-TCAGAATATTTTCAATTGAA-GAAAATCCTATCACTA
47897869 TTTCAGAATATT
1 TTTCAGAATATT
47897881 AATCATATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
37 3 0.07
38 38 0.90
39 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (38 bp):
TTTCAGAATATTTTCAATTGAAGAAAATCCTATCACTA
Found at i:47905805 original size:20 final size:20
Alignment explanation
Indices: 47905739--47905840 Score: 71
Period size: 20 Copynumber: 5.1 Consensus size: 20
47905729 TTGTATAGGA
*
47905739 TTTGCACTTTGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* * * * *
47905759 TATACACTTCAGTGCCCGTA
1 TTTGCACTTCGGTGCCCCTG
* *
47905779 TTCGCACTACGGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
* *
47905799 TTTGCACATT-TGTGCCCATG
1 TTTGCAC-TTCGGTGCCCCTG
* * *
47905819 TCTGCACTCCAGTGCCCCTG
1 TTTGCACTTCGGTGCCCCTG
47905839 TT
1 TT
47905841 ATACATTTAT
Statistics
Matches: 58, Mismatches: 22, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
19 1 0.02
20 56 0.97
21 1 0.02
ACGTcount: A:0.13, C:0.33, G:0.21, T:0.33
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCCCTG
Found at i:47907685 original size:37 final size:37
Alignment explanation
Indices: 47907635--47907709 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
47907625 CGTGTGTCCC
*
47907635 TAATTTGATTGTTACACGGCCTGGCCACACGGCAGTG
1 TAATTTGATTGTTACACGGCCTAGCCACACGGCAGTG
47907672 TAATTTGATTGTTACACGGCCTAGCCACACGGCAGTG
1 TAATTTGATTGTTACACGGCCTAGCCACACGGCAGTG
47907709 T
1 T
47907710 GACCTCTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (37 bp):
TAATTTGATTGTTACACGGCCTAGCCACACGGCAGTG
Found at i:47908648 original size:25 final size:25
Alignment explanation
Indices: 47908620--47908671 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
47908610 GTGAGATTGA
47908620 TTTACCTTTCTTTTCAAGCCAACTT
1 TTTACCTTTCTTTTCAAGCCAACTT
47908645 TTTACCTTTCTTTTCAAGCCAACTT
1 TTTACCTTTCTTTTCAAGCCAACTT
47908670 TT
1 TT
47908672 AAACTTGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.27, G:0.04, T:0.50
Consensus pattern (25 bp):
TTTACCTTTCTTTTCAAGCCAACTT
Found at i:47912932 original size:15 final size:15
Alignment explanation
Indices: 47912912--47912941 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47912902 ATTTCCTATA
47912912 TCAACCACTTATCTC
1 TCAACCACTTATCTC
47912927 TCAACCACTTATCTC
1 TCAACCACTTATCTC
47912942 AAACATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (15 bp):
TCAACCACTTATCTC
Found at i:47931258 original size:21 final size:22
Alignment explanation
Indices: 47931233--47931276 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
47931223 CACTCTTCTT
47931233 TTTCTTCATCGATTATTGCAGG
1 TTTCTTCATCGATTATTGCAGG
47931255 TTCTTCTTCATCGATTATTGCA
1 -T-TTCTTCATCGATTATTGCA
47931277 CTGTTCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (22 bp):
TTTCTTCATCGATTATTGCAGG
Found at i:47931291 original size:24 final size:24
Alignment explanation
Indices: 47931240--47931294 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
47931230 CTTTTTCTTC
* *
47931240 ATCGATTATTGCAGGTTCTTCTTC
1 ATCGATTATTGCAGGTTCTACTTA
*
47931264 ATCGATTATTGCACTGTTC-ACTTA
1 ATCGATTATTGCA-GGTTCTACTTA
47931288 ATCGATT
1 ATCGATT
47931295 TCCCTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.44
Consensus pattern (24 bp):
ATCGATTATTGCAGGTTCTACTTA
Found at i:47932077 original size:27 final size:27
Alignment explanation
Indices: 47932047--47932101 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
47932037 GGTGAGAAAA
47932047 AGACTTCCCCTGCTCTATTTCATCTTT
1 AGACTTCCCCTGCTCTATTTCATCTTT
*
47932074 AGACTTCCCTTGCTCTATTTCATCTTT
1 AGACTTCCCCTGCTCTATTTCATCTTT
47932101 A
1 A
47932102 CTTCCATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.16, C:0.31, G:0.07, T:0.45
Consensus pattern (27 bp):
AGACTTCCCCTGCTCTATTTCATCTTT
Found at i:47932573 original size:23 final size:23
Alignment explanation
Indices: 47932547--47932625 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 23
47932537 ATACAGTGAG
47932547 CAATGGAAATTGTCTGCTGTTTT
1 CAATGGAAATTGTCTGCTGTTTT
* * * * * *
47932570 CAATTCAGACAGTTTTTTGATATTGTT
1 CAA-T-GGA-AATTGTCTGCTGTT-TT
47932597 GCAATGGAAATTGTCTGCTGTTTT
1 -CAATGGAAATTGTCTGCTGTTTT
47932621 CAATG
1 CAATG
47932626 AAACTGGAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
23 8 0.21
24 3 0.08
25 11 0.28
26 11 0.28
27 3 0.08
28 3 0.08
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (23 bp):
CAATGGAAATTGTCTGCTGTTTT
Found at i:47932673 original size:23 final size:23
Alignment explanation
Indices: 47932645--47932706 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
47932635 ATTGTTGCAT
47932645 TTGTTTTGATATTGTTCTGGAAA
1 TTGTTTTGATATTGTTCTGGAAA
* * *
47932668 TTGTTTTGATAGTCTGCTGGAAA
1 TTGTTTTGATATTGTTCTGGAAA
47932691 TTGTTCTTGAT-TTGTT
1 TTGTT-TTGATATTGTT
47932707 AGTGAGTAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 27 0.84
24 5 0.16
ACGTcount: A:0.18, C:0.06, G:0.23, T:0.53
Consensus pattern (23 bp):
TTGTTTTGATATTGTTCTGGAAA
Found at i:47932766 original size:22 final size:22
Alignment explanation
Indices: 47932725--47932813 Score: 85
Period size: 23 Copynumber: 4.0 Consensus size: 22
47932715 GAAGATGAAA
*
47932725 CTGGAAATTGTTGT-ATTTGTT
1 CTGGAAATTGTTTTGATTTGTT
* *
47932746 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
*
47932768 CTGGAAATTGTTTTGA-TAGTCT
1 CTGGAAATTGTTTTGATTTGT-T
47932790 GCTGGAAATTGTTCTTGATTTGTT
1 -CTGGAAATTGTT-TTGATTTGTT
47932814 AGTGAGTAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
20 9 0.17
21 4 0.07
22 12 0.22
23 21 0.39
24 5 0.09
25 3 0.06
ACGTcount: A:0.18, C:0.07, G:0.22, T:0.53
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:47932768 original size:107 final size:107
Alignment explanation
Indices: 47932645--47932841 Score: 378
Period size: 107 Copynumber: 1.8 Consensus size: 107
47932635 ATTGTTGCAT
47932645 TTGTTTTGATATTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGT
1 TTGTTTTGATATTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGT
47932710 GAGTAGAAGATGAAACTGGAAATTGTTGTATTTGTTTTGATA
66 GAGTAGAAGATGAAACTGGAAATTGTTGTATTTGTTTTGATA
47932752 TTGTTCTTGAT-TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAG
1 TTGTT-TTGATATTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAG
47932816 TGAGTAGAAGATGAAACTGGAAATTG
65 TGAGTAGAAGATGAAACTGGAAATTG
47932842 CAAGTATAGT
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
107 84 0.94
108 5 0.06
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.45
Consensus pattern (107 bp):
TTGTTTTGATATTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGT
GAGTAGAAGATGAAACTGGAAATTGTTGTATTTGTTTTGATA
Found at i:47943762 original size:91 final size:91
Alignment explanation
Indices: 47943650--47943943 Score: 407
Period size: 91 Copynumber: 3.4 Consensus size: 91
47943640 ATGATTTTAG
* *
47943650 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATGATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
*
47943715 TTCAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
47943741 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
47943806 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
47943832 TAAATTCATATAAGAAAATTT-TTA-T--G---------AAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* *
47943884 TTTAATAATAATTATATTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* * *
47943910 CAAATTCATATAAGAAAATTTATTACTAATAATT
1 TAAATTCATATAAGAAAATTTATTATTAAGAATT
47943944 ATTTTAAATT
Statistics
Matches: 185, Mismatches: 10, Indels: 21
0.86 0.05 0.10
Matches are distributed among these distances:
78 69 0.37
79 3 0.02
80 1 0.01
87 1 0.01
90 3 0.02
91 108 0.58
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:47943824 original size:47 final size:47
Alignment explanation
Indices: 47943665--47943816 Score: 154
Period size: 47 Copynumber: 3.3 Consensus size: 47
47943655 TCATATAAGA
* *
47943665 ATATTTATTATTAAGAATTTTATGAAATTATATATGATTATTAAATT
1 ATATTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
47943712 ATATTCAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTAATATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * * *
47943756 AAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATT
47943803 ATATTTAATATTAA
1 ATATTTAATATTAA
47943817 TTATTTTAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
43 3 0.04
44 23 0.28
45 8 0.10
46 8 0.10
47 36 0.44
48 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (47 bp):
ATATTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:47943867 original size:78 final size:78
Alignment explanation
Indices: 47943773--47943930 Score: 280
Period size: 78 Copynumber: 2.0 Consensus size: 78
47943763 TTATCAAGAA
* * *
47943773 TTTTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATT
1 TTTTATGAAATTATATATCATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATT
47943838 CATATAAGAAAAT
66 CATATAAGAAAAT
*
47943851 TTTTATGAAATTATATATTATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATT
1 TTTTATGAAATTATATATCATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATT
47943916 CATATAAGAAAAT
66 CATATAAGAAAAT
47943929 TT
1 TT
47943931 ATTACTAATA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.48
Consensus pattern (78 bp):
TTTTATGAAATTATATATCATTATTAAATTATATTTAATAATAATTATATTAAATTATACAAATT
CATATAAGAAAAT
Found at i:47944338 original size:18 final size:17
Alignment explanation
Indices: 47944310--47944344 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47944300 ATTACTAAGA
*
47944310 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
47944327 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
47944345 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:47944364 original size:119 final size:120
Alignment explanation
Indices: 47943950--47944358 Score: 732
Period size: 120 Copynumber: 3.4 Consensus size: 120
47943940 AATTATTTTA
47943950 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
*
47944015 ATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
47944070 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
* *
47944135 ATAGTATCATATATTATGATTTTAGTACATTCATATAAGAATATTGATTATTAAT
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
47944190 AATTTTATTAAATCTTATATTTTAATTAAAATATATTTAATAATAATTATCTT-AAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
* *
47944254 TATAGTATCAT-TATTATGATTTGAGTAAATTCATATAAGAATATTGATTACTAAG
65 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
47944309 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT
47944359 GTTAAAATAT
Statistics
Matches: 278, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
119 88 0.32
120 188 0.68
121 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:47944564 original size:44 final size:45
Alignment explanation
Indices: 47944501--47944598 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
47944491 CTATTACACC
*
47944501 TCCATTCCATTCAACCAAACACA-AGA-GTACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATGTACTATTACGCCTCTAT
* * *
47944545 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATGTACTATTACGCCTCTAT
*
47944590 TCCAATACA
1 TCCATTACA
47944599 ACGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.34, C:0.30, G:0.06, T:0.31
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATGTACTATTACGCCTCTAT
Found at i:47945882 original size:2 final size:2
Alignment explanation
Indices: 47945877--47945904 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47945867 GTGTGTGTGT
47945877 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
47945905 CCTGTTCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47949906 original size:13 final size:13
Alignment explanation
Indices: 47949888--47949912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47949878 GAAACTTATC
47949888 TGTAAATAATTTG
1 TGTAAATAATTTG
47949901 TGTAAATAATTT
1 TGTAAATAATTT
47949913 TACTAATATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TGTAAATAATTTG
Found at i:47957998 original size:26 final size:26
Alignment explanation
Indices: 47957942--47957990 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
47957932 ATTGATATTT
* *
47957942 AGAT-TTTGAGGACTCAGAAGAGGCA
1 AGATATTTGAGAACTCAAAAGAGGCA
47957967 AGATATTTGAGAACTCAAAAGAGG
1 AGATATTTGAGAACTCAAAAGAGG
47957991 GTAAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.41, C:0.10, G:0.29, T:0.20
Consensus pattern (26 bp):
AGATATTTGAGAACTCAAAAGAGGCA
Found at i:47969270 original size:41 final size:41
Alignment explanation
Indices: 47969219--47969326 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
47969209 ATCAGAGTGT
* * ** * *
47969219 AAACAGGGGCACATATGTGTAATTTGGAGGTATCGAAGTCC
1 AAACAGGGGCACGTATGTGAAATTCAGAGGTACCGAAGTAC
* * * *
47969260 CAACAAGGGCATGTATGTGAAATTCAGCGGTACCGAAGTAC
1 AAACAGGGGCACGTATGTGAAATTCAGAGGTACCGAAGTAC
*
47969301 AAACAGGGGCACGTATGTGCAATTCA
1 AAACAGGGGCACGTATGTGAAATTCA
47969327 TAAAATAATT
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGAAATTCAGAGGTACCGAAGTAC
Found at i:47970359 original size:11 final size:12
Alignment explanation
Indices: 47970345--47970377 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
47970335 AACGATTTTC
47970345 TAAAATAAT-AA
1 TAAAATAATAAA
47970356 TAAAATAATAAA
1 TAAAATAATAAA
47970368 TAAAAATAAT
1 T-AAAATAAT
47970378 TTACTTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 3 0.15
13 8 0.40
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAATAATAAA
Found at i:47980590 original size:95 final size:95
Alignment explanation
Indices: 47980427--47980616 Score: 301
Period size: 95 Copynumber: 2.0 Consensus size: 95
47980417 ATTGGACCAG
* *
47980427 ATATGAAAGAGGTCTAATAGCCTCTTATTTAATAAGGGGGACAACAAACCCTAGTAAAATTAACT
1 ATATGAAAGAAGTCCAATAGCCTCTTATTTAATAAGGGGGACAACAAACCCTAGTAAAATTAACT
47980492 AGGGTTGTCACCTCCTACAACCTAGTTGAA
66 AGGGTTGTCACCTCCTACAACCTAGTTGAA
* ** *
47980522 ATATGGAAGAAGTCCAATAG-CTCCTTATTTAATAAGGGGGATGACAAACCCTAGTATAATTAAC
1 ATATGAAAGAAGTCCAATAGCCT-CTTATTTAATAAGGGGGACAACAAACCCTAGTAAAATTAAC
*
47980586 TAGGGTTGTCACCTTCTACAACCTAGTTGAA
65 TAGGGTTGTCACCTCCTACAACCTAGTTGAA
47980617 CTAGGATTTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 2 0.02
95 85 0.98
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (95 bp):
ATATGAAAGAAGTCCAATAGCCTCTTATTTAATAAGGGGGACAACAAACCCTAGTAAAATTAACT
AGGGTTGTCACCTCCTACAACCTAGTTGAA
Found at i:47981412 original size:47 final size:47
Alignment explanation
Indices: 47981345--47981490 Score: 238
Period size: 47 Copynumber: 3.1 Consensus size: 47
47981335 GTTTTGTGGA
* * *
47981345 CATCAACATCGCAGGTCAGAGAATGAGTGATCTTGTTGATATGGGAG
1 CATCAACAGCACAGGCCAGAGAATGAGTGATCTTGTTGATATGGGAG
*
47981392 CATCAACAGTACAGGCCAGAGAATGAGTGATCTTGTTGATATGGGAG
1 CATCAACAGCACAGGCCAGAGAATGAGTGATCTTGTTGATATGGGAG
**
47981439 CATCAACAGCGTAGGCCAGAGAATGAGTGATCTTGTTGATATGGGAG
1 CATCAACAGCACAGGCCAGAGAATGAGTGATCTTGTTGATATGGGAG
47981486 CATCA
1 CATCA
47981491 GACTTGTTCA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 92 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (47 bp):
CATCAACAGCACAGGCCAGAGAATGAGTGATCTTGTTGATATGGGAG
Found at i:47984043 original size:3 final size:3
Alignment explanation
Indices: 47984035--47984074 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
47984025 AGAGAGAGAG
47984035 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
47984075 TAGAGCATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:47989358 original size:22 final size:21
Alignment explanation
Indices: 47989331--47989393 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 21
47989321 AGGTTACAAA
47989331 ATCATATATTCTAAGATTGCAT
1 ATCATATA-TCTAAGATTGCAT
47989353 ATC--ATATCTAAGATTGCAT
1 ATCATATATCTAAGATTGCAT
* *
47989372 ATCATACA--TAATATTGCAT
1 ATCATATATCTAAGATTGCAT
47989391 ATC
1 ATC
47989394 CTTGAGGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 29 0.78
20 3 0.08
21 2 0.05
22 3 0.08
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (21 bp):
ATCATATATCTAAGATTGCAT
Found at i:47989364 original size:19 final size:19
Alignment explanation
Indices: 47989340--47989393 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
47989330 AATCATATAT
47989340 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
47989359 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
47989378 -CATAATATTGCATATC
1 TC-TAAGATTGCATATC
47989394 CTTGAGGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 1 0.03
19 32 0.97
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47990009 original size:44 final size:43
Alignment explanation
Indices: 47989961--47990143 Score: 99
Period size: 44 Copynumber: 4.2 Consensus size: 43
47989951 CTTCAACCTA
**
47989961 TTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGC
1 TTCCACTACT-CTCAGGGAGATAGGACTACTGGCTTAAATCTGC
* * * * * **
47990005 TTCCAACTA-TCTC-GGGAAGATAAGATTCGCCGTCTTCGATCTGC
1 TTCC-ACTACTCTCAGGG-AGATAGGACT-ACTGGCTTAAATCTGC
* * * * * * *
47990049 -TCCACTACTGCTTAGGGAGACAGGATCTACAGTCTTCAACCTAC
1 TTCCACTACT-CTCAGGGAGATAGGA-CTACTGGCTTAAATCTGC
* *
47990093 -TCCACTACATCTCA-GGAGATAGGACTAGTGGCTTAAATCCGC
1 TTCCACTAC-TCTCAGGGAGATAGGACTACTGGCTTAAATCTGC
47990135 TTCC-CTACT
1 TTCCACTACT
47990144 ACCTTAGGAA
Statistics
Matches: 105, Mismatches: 25, Indels: 21
0.70 0.17 0.14
Matches are distributed among these distances:
41 1 0.01
42 22 0.21
43 27 0.26
44 46 0.44
45 9 0.09
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (43 bp):
TTCCACTACTCTCAGGGAGATAGGACTACTGGCTTAAATCTGC
Found at i:47990056 original size:131 final size:132
Alignment explanation
Indices: 47989843--47990229 Score: 566
Period size: 131 Copynumber: 2.9 Consensus size: 132
47989833 CTGCAACTTT
* * * *
47989843 AGGGAGATAAGG-CTGGTGGCTTAAACCTGCTTCCCTACTACCTTGAGAAGATAAGACTCGCCAT
1 AGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGT
* *
47989907 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTATTCCACTAC-T
65 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTAATCCACTACAT
47989971 GCTC
130 -CTC
* * *
47989975 AGGGAGATAGGACTGGTGGCTTAAATCTGCTT-CCAACTATCTCGGGAAGATAAGATTCGCCGTC
1 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTC
* * *
47990039 TTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAGTCTTCAACCTACTCCACTACATC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTAATCCACTACATC
47990104 TC
131 TC
* * * *
47990106 A-GGAGATAGGACTAGTGGCTTAAATCCGCTTCCCTACTACCTTAGGAAGATAAGATTCACCGTC
1 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTC
* *
47990170 TTTGATCTGCTCTACTACTGCTTAGAGAGACAGGATCTACAATCTTCAACCTAATCCACT
66 TTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTAATCCACT
47990230 GCAAACTCAG
Statistics
Matches: 229, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
130 28 0.12
131 173 0.76
132 28 0.12
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (132 bp):
AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTC
TTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTAATCCACTACATC
TC
Found at i:47990324 original size:89 final size:89
Alignment explanation
Indices: 47990197--47990429 Score: 304
Period size: 89 Copynumber: 2.6 Consensus size: 89
47990187 CTGCTTAGAG
* * * * * * * *
47990197 AGACAGGATCTACAATCTTCAACCTAATCCACTGCAAACTCAGAGAGGCAAGACTGGTGTTTTCG
1 AGACAAGATCTACTATCTTCACCCTACTCCGCTGCAAACTCAGGGAGGCAAGACTGGTGTCTTCA
* *
47990262 ATCTGCTTCACTGCCAGTACAGGA
66 ATCTACTTCACTGCCAATACAGGA
* ** * *
47990286 AGACAAGATCTACTATTTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCA
1 AGACAAGATCTACTATCTTCACCCTACTCCGCTGCAAACTCAGGGAGGCAAGACTGGTGTCTTCA
*
47990351 ATCTACTTCGCTGCCAATACAGGA
66 ATCTACTTCACTGCCAATACAGGA
* *
47990375 AGACAAGATCTGCTATCTTCACCCTACTCCGCTGTAAACTCAGGGAGGCAAGACT
1 AGACAAGATCTACTATCTTCACCCTACTCCGCTGCAAACTCAGGGAGGCAAGACT
47990430 TGTAGCTTCC
Statistics
Matches: 122, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 122 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (89 bp):
AGACAAGATCTACTATCTTCACCCTACTCCGCTGCAAACTCAGGGAGGCAAGACTGGTGTCTTCA
ATCTACTTCACTGCCAATACAGGA
Found at i:47990395 original size:45 final size:45
Alignment explanation
Indices: 47990262--47990395 Score: 128
Period size: 45 Copynumber: 3.0 Consensus size: 45
47990252 GGTGTTTTCG
* * * *
47990262 ATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACTATTTTCA
1 ATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* * * * * * * *
47990307 GTCTGCTCCGCTGCAAACT-CAGGGAGGCAAG-GCTGGTGTCTTCA
1 ATCTGCTTCGCTGCCAA-TACAGGAAGACAAGATCTGCTATCTTCA
*
47990351 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
1 ATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
47990396 CCCTACTCCG
Statistics
Matches: 65, Mismatches: 21, Indels: 6
0.71 0.23 0.07
Matches are distributed among these distances:
43 1 0.02
44 31 0.48
45 32 0.49
46 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (45 bp):
ATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
Found at i:47990427 original size:45 final size:45
Alignment explanation
Indices: 47990289--47990427 Score: 129
Period size: 45 Copynumber: 3.1 Consensus size: 45
47990279 TACAGGAAGA
* * * *
47990289 CAAGATCTACTATTTTCAGTCTGCTCCGCTGCAAACTCAGGGAGG
1 CAAGATCTGCTATCTTCAATCTACTCCGCTGCAAACTCAGGGAGG
* * * * * * *
47990334 CAAG-GCTGGTGTCTTCAATCTACTTCGCTGCCAA-TACAGGAAGA
1 CAAGATCTGCTATCTTCAATCTACTCCGCTGCAAACT-CAGGGAGG
** *
47990378 CAAGATCTGCTATCTTCACCCTACTCCGCTGTAAACTCAGGGAGG
1 CAAGATCTGCTATCTTCAATCTACTCCGCTGCAAACTCAGGGAGG
47990423 CAAGA
1 CAAGA
47990428 CTTGTAGCTT
Statistics
Matches: 70, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
43 1 0.01
44 31 0.44
45 37 0.53
46 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (45 bp):
CAAGATCTGCTATCTTCAATCTACTCCGCTGCAAACTCAGGGAGG
Found at i:47990572 original size:44 final size:44
Alignment explanation
Indices: 47990524--47990687 Score: 181
Period size: 44 Copynumber: 3.7 Consensus size: 44
47990514 CCATCATTTT
* * * *
47990524 AATCTGCTCCACTACAACTTTAAGGAGATAGGATTGGTTTCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
*
47990568 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTTTATTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
* * *
47990612 AGTCTGCTCCACTGCAACTTC-AGAGAGATAAGACTT-G-TAACTTG
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGA-TTGGTTTA-TTC
* * *
47990656 AACCTGCTCCACTGCAATTTCAGGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAG
47990688 TCGTACTATG
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
43 3 0.03
44 97 0.94
45 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTATTC
Found at i:47990618 original size:88 final size:88
Alignment explanation
Indices: 47990526--47990687 Score: 220
Period size: 88 Copynumber: 1.8 Consensus size: 88
47990516 ATCATTTTAA
* ** *
47990526 TCTGCTCCACTACAACTTTAAG-GAGATAGGA-TTGGTTTCTTCAATCTGCTCCACTGCAACTTC
1 TCTGCTCCACTACAAC-TTAAGAGAGATAAGACTT-GTAACTTCAACCTGCTCCACTGCAACTTC
47990589 AGGGAGATAAGATTGGTTTATTCAG
64 AGGGAGATAAGATTGGTTTATTCAG
* * * *
47990614 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAACTTGAACCTGCTCCACTGCAATTTCAG
1 TCTGCTCCACTACAACTTAAGAGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAG
47990679 GGAGATAAG
66 GGAGATAAG
47990688 TCGTACTATG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 4 0.06
88 58 0.91
89 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (88 bp):
TCTGCTCCACTACAACTTAAGAGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAG
GGAGATAAGATTGGTTTATTCAG
Found at i:47998102 original size:22 final size:22
Alignment explanation
Indices: 47998077--47998133 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
47998067 TACAAATTAA
47998077 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTACAAAATCAT
* *
47998099 ATCTTCTAAGATTGC-ATATCAT
1 ATC-TCTAAGATTACAAAATCAT
47998121 A--TCTAAGATTACA
1 ATCTCTAAGATTACA
47998134 TATCTTGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.33
22 10 0.33
23 10 0.33
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (22 bp):
ATCTCTAAGATTACAAAATCAT
Found at i:47998110 original size:23 final size:22
Alignment explanation
Indices: 47998067--47998124 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
47998057 AAAGGGTATC
* *
47998067 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
47998088 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
47998111 TGCATATCATATCT
1 TACAAATCATATCT
47998125 AAGATTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Done.