Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 118 of 295
Found at i:35407859 original size:24 final size:24
Alignment explanation
Indices: 35407825--35407871 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
35407815 AGATATATGA
35407825 ATATAATATAATAGGAAAATATAT
1 ATATAATATAATAGGAAAATATAT
**
35407849 ATATAATATAATATTAAAATATA
1 ATATAATATAATAGGAAAATATA
35407872 ATAATGTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
ATATAATATAATAGGAAAATATAT
Found at i:35407885 original size:21 final size:22
Alignment explanation
Indices: 35407845--35407888 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
35407835 ATAGGAAAAT
*
35407845 ATATATATAATATAATATTAAA
1 ATATATATAATATAACATTAAA
*
35407867 ATATA-ATAATGTAACATTAAA
1 ATATATATAATATAACATTAAA
35407888 A
1 A
35407889 AATACATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATATATAATATAACATTAAA
Found at i:35407966 original size:26 final size:24
Alignment explanation
Indices: 35407918--35407966 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
35407908 GTATAGTATT
*
35407918 AAGAATACACATATATAATATATG
1 AAGAATACACATATATAAAATATG
*
35407942 AAGAATATACATATTACTAAAATAT
1 AAGAATACACATA-TA-TAAAATAT
35407967 TTAGGTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 2 0.10
26 7 0.33
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (24 bp):
AAGAATACACATATATAAAATATG
Found at i:35408089 original size:3 final size:3
Alignment explanation
Indices: 35408081--35408116 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
35408071 AAGCATAAAC
*
35408081 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
35408117 CATTGAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:35408239 original size:23 final size:22
Alignment explanation
Indices: 35408213--35408266 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
35408203 TGTATATATT
35408213 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
35408236 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
35408258 TAC-TAATAA
1 TACATAATAA
35408267 TACTAATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:35408247 original size:3 final size:3
Alignment explanation
Indices: 35408216--35408275 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
35408206 ATATATTTAC
* * * *
35408216 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
35408263 ATA ATA CTA ATA A
1 ATA ATA ATA ATA A
35408276 CATAAAAATA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35411945 original size:47 final size:47
Alignment explanation
Indices: 35411839--35411951 Score: 122
Period size: 47 Copynumber: 2.4 Consensus size: 47
35411829 AGAGTCGGTG
* * * *
35411839 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACAAGGGCTAGTC
1 TAAGA-CATGTCTGGGACATGGCATCGACATTGAGACAAGAGCCAGTA
*
35411887 TAAGACATGTCTGGGACATGGCATCGAC-TTGTGA-AATGAGCCAGTA
1 TAAGACATGTCTGGGACATGGCATCGACATTGAGACAA-GAGCCAGTA
* *
35411933 TAAGATCGTGTCTAGGACA
1 TAAGA-CATGTCTGGGACA
35411952 AGACGTCGGC
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
45 2 0.04
46 16 0.29
47 33 0.59
48 5 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGGCATCGACATTGAGACAAGAGCCAGTA
Found at i:35419332 original size:47 final size:47
Alignment explanation
Indices: 35419269--35419487 Score: 211
Period size: 46 Copynumber: 4.7 Consensus size: 47
35419259 CGTGTGTGAG
* * *
35419269 CTAGTTTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGAGAGT
* * *
35419316 C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAG-GG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGAGAGT
* * *
35419363 CTAGTGTAAGACATGTCTGGGACATGTAAT-GGCCTCGAGACGTA-AG-
1 CTAGTGTAAGACATGTCTGGGACATG-CATCGGCCACGAGATG-AGAGT
* *
35419409 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGT
35419456 C-AGTGTAAGACCATGTCTGGGACATGGCATCG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
35419488 ACTTGAGATA
Statistics
Matches: 145, Mismatches: 13, Indels: 27
0.78 0.07 0.15
Matches are distributed among these distances:
45 3 0.02
46 63 0.43
47 53 0.37
48 25 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGAGAGT
Found at i:35419496 original size:47 final size:47
Alignment explanation
Indices: 35419275--35419536 Score: 204
Period size: 47 Copynumber: 5.6 Consensus size: 47
35419265 TGAGCTAGTT
* * * *
35419275 TAAGA-CATGTCTGGGACAT-GCATCAGC-CACATTATGAGAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCTC-GA-GATGATAGTCAGTG
* * * *
35419321 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-GGGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGC-TCGAGATGATAGTC-AGTG
** *
35419369 TAAGA-CATGTCTGGGACATGTAAT-GGCCTCGAGACG-TAAG-CTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGG-CTCGAGATGAT-AGTC-AGTG
35419415 TAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCT-CGAGATGATAGTCAGTG
* * * *
35419461 TAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-ATGAGCCAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGAT-AGTCAGTG
** *
35419508 TAAGACTGTGTCTAGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
35419537 ACCTTACCCT
Statistics
Matches: 179, Mismatches: 22, Indels: 29
0.78 0.10 0.13
Matches are distributed among these distances:
45 4 0.02
46 60 0.34
47 87 0.49
48 27 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGGCTCGAGATGATAGTCAGTG
Found at i:35419520 original size:140 final size:140
Alignment explanation
Indices: 35419267--35419528 Score: 368
Period size: 140 Copynumber: 1.9 Consensus size: 140
35419257 TTCGTGTGTG
* *
35419267 AGCTAGTTTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGTCAGTGTAAGACCATGT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGTCAGTGTAAGACCATGT
* * * * *
35419332 CTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACATGTAATGGCC
66 CTGGGACATGGCATCGACATTGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGTAATGGCC
35419397 TCGAGACGTA
131 TCGAGACGTA
* * *
35419407 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATG
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGTCAGTGTAAGACCATG
* *
35419471 TCTGGGACATGGCATCGAC-TTGAGA-TATGAGCCAGTATAAGACTGTGTCTAGGACATG
65 TCTGGGACATGGCATCGACATTGAGACGA-GAGCCAGTATAAGAC-ATGTCTAGGACATG
35419529 GCATCGGCAC
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 87 0.81
141 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (140 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGTCAGTGTAAGACCATGT
CTGGGACATGGCATCGACATTGAGACGAGAGCCAGTATAAGACATGTCTAGGACATGTAATGGCC
TCGAGACGTA
Found at i:35420941 original size:28 final size:28
Alignment explanation
Indices: 35420913--35420965 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
35420903 ATTTATTATA
35420913 AAAATAAGT-AAAATTAAATATTTTAAT
1 AAAATAAGTGAAAATTAAATATTTTAAT
** *
35420940 AATTTAAGTGAAAATTAATTATTTTA
1 AAAATAAGTGAAAATTAAATATTTTA
35420966 TAATTAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 7 0.32
28 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (28 bp):
AAAATAAGTGAAAATTAAATATTTTAAT
Found at i:35420982 original size:27 final size:28
Alignment explanation
Indices: 35420918--35420975 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
35420908 TTATAAAAAT
*
35420918 AAGT-AAAATTAAATATTTTAATAATTT
1 AAGTGAAAATTAAATATTTTAATAATTA
*
35420945 AAGTGAAAATTAATTATTTT-ATAATTA
1 AAGTGAAAATTAAATATTTTAATAATTA
35420972 AAGT
1 AAGT
35420976 TTGAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (28 bp):
AAGTGAAAATTAAATATTTTAATAATTA
Found at i:35421510 original size:26 final size:26
Alignment explanation
Indices: 35421474--35421531 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
35421464 CAATAGGTTG
35421474 AGCCATGTAAATGGTCTCATCAAGAT
1 AGCCATGTAAATGGTCTCATCAAGAT
** *
35421500 AGCCATGTAAATTTTCTCATGAAGAT
1 AGCCATGTAAATGGTCTCATCAAGAT
35421526 AGCCAT
1 AGCCAT
35421532 TCGAGAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (26 bp):
AGCCATGTAAATGGTCTCATCAAGAT
Found at i:35425578 original size:31 final size:31
Alignment explanation
Indices: 35425543--35425690 Score: 183
Period size: 31 Copynumber: 4.8 Consensus size: 31
35425533 TTGTCACTTT
*
35425543 TAGCCAAAGCTACCACTATTCACTGATCAGG
1 TAGCCAAAGCTACCACTTTTCACTGATCAGG
** *
35425574 TAGCCGGAGCTACCATTTTTCACTGATCAGG
1 TAGCCAAAGCTACCACTTTTCACTGATCAGG
*
35425605 TAGCCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCAAAGCTACCACTTTTCACTGATCAGG
* *
35425636 TACCCGAAA-CTACCACTTTTCACTGATTAGG
1 TAGCC-AAAGCTACCACTTTTCACTGATCAGG
* *
35425667 TAACCGAAA-CTACCATTTTTCACT
1 TAGCC-AAAGCTACCACTTTTCACT
35425691 TGTCATTTGT
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
31 103 0.98
32 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
TAGCCAAAGCTACCACTTTTCACTGATCAGG
Found at i:35425615 original size:62 final size:62
Alignment explanation
Indices: 35425543--35425690 Score: 206
Period size: 62 Copynumber: 2.4 Consensus size: 62
35425533 TTGTCACTTT
* * * * * *
35425543 TAGCCAAAGCTACCACTATTCACTGATCAGGTAGCCGGAGCTACCATTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGGTACCCGAAACTACCACTTTTCACTGATCAGG
*
35425605 TAGCCGAAGCTACCACTTTTCACTGATCAGGTACCCGAAACTACCACTTTTCACTGATTAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGGTACCCGAAACTACCACTTTTCACTGATCAGG
* * *
35425667 TAACCGAAACTACCATTTTTCACT
1 TAGCCGAAGCTACCACTTTTCACT
35425691 TGTCATTTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 76 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (62 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGGTACCCGAAACTACCACTTTTCACTGATCAGG
Found at i:35425760 original size:50 final size:51
Alignment explanation
Indices: 35425686--35425794 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 51
35425676 CTACCATTTT
* * *
35425686 TCACTTGTCATTTGTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTA
1 TCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTA
35425737 TCACTT-TCACTTATCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTA
1 TCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTA
35425787 TCACTTGT
1 TCACTTGT
35425795 TGCCATGGTG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 47 0.87
51 7 0.13
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (51 bp):
TCACTTGTCACTTATCCTTGATCAGATAAGTGTAGCCAAAGCTATCACTTA
Found at i:35428121 original size:29 final size:29
Alignment explanation
Indices: 35428079--35428137 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
35428069 TTGAAGGACT
35428079 AGGTGGAGTCCAACATTCTAATAAAGAAC
1 AGGTGGAGTCCAACATTCTAATAAAGAAC
35428108 AGGTGGAGTCCAACATTCTAATAAAGAAC
1 AGGTGGAGTCCAACATTCTAATAAAGAAC
35428137 A
1 A
35428138 TTCACCTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (29 bp):
AGGTGGAGTCCAACATTCTAATAAAGAAC
Found at i:35429489 original size:5 final size:5
Alignment explanation
Indices: 35429476--35429507 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
35429466 AGAAAACTGT
*
35429476 AAATA AAATG AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AA
35429508 GAACACACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:35436300 original size:19 final size:18
Alignment explanation
Indices: 35436276--35436318 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 18
35436266 AATATGAATA
35436276 AAATTTATCTACCTAAAT
1 AAATTTATCTACCTAAAT
35436294 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCTAAAT
35436313 AAATTT
1 AAATTT
35436319 TCAACAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (18 bp):
AAATTTATCTACCTAAAT
Found at i:35443856 original size:19 final size:19
Alignment explanation
Indices: 35443810--35443857 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
35443800 ATATATATAT
35443810 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
35443828 TAAATCTTATTTTGGTAGA
1 TAAATTTTATTTAGGTAGA
35443847 TAAATTTTATT
1 TAAATTTTATT
35443858 CATATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:35446738 original size:196 final size:197
Alignment explanation
Indices: 35446398--35446782 Score: 718
Period size: 196 Copynumber: 2.0 Consensus size: 197
35446388 GTCTGTGCCG
35446398 ATTTTCTTTGATGACATTTTTGTTCACTCCATGTATTGGTTAGATCATTTGCTGCATCTCAGAGT
1 ATTTTCTTTGATGACATTTTTGTTCACTCCATGTATTGGTTAGATCATTTGCTGCATCTCAGAGT
35446463 AAATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGC
66 AAATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGC
* *
35446528 CATGGACCAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAGTTAAAGAGCTTT
131 CATGGACAAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAATTAAAGAGCTTT
35446593 GA
196 GA
* * *
35446595 ATTTT-TTTGATGACATTTTTGTTTACTCCATGTCTTGGTTCGATCATTTGCTGCATCTCAGAGT
1 ATTTTCTTTGATGACATTTTTGTTCACTCCATGTATTGGTTAGATCATTTGCTGCATCTCAGAGT
35446659 AAATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGC
66 AAATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGC
35446724 CATGGACAAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAATTAAAG
131 CATGGACAAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAATTAAAG
35446783 GGTTTTGAGG
Statistics
Matches: 183, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
196 178 0.97
197 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (197 bp):
ATTTTCTTTGATGACATTTTTGTTCACTCCATGTATTGGTTAGATCATTTGCTGCATCTCAGAGT
AAATGCCAATTTGGTTCCCCTCGAACTAAGTACCTTGGTCATGTAATTTCCCAAGGAACTATGGC
CATGGACAAATCTAAAGTGAAAAGTGTGATTTTTTGGCAAACTCCACAATCAATTAAAGAGCTTT
GA
Found at i:35447249 original size:21 final size:21
Alignment explanation
Indices: 35447216--35447270 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
35447206 TGACAGGAGC
* *
35447216 ACACGCCCTTGTGGAAGGGCG
1 ACACGCCCGTGTGAAAGGGCG
* *
35447237 ACACACCCGTGTGAAAGGTCG
1 ACACGCCCGTGTGAAAGGGCG
*
35447258 ATACGCCCGTGTG
1 ACACGCCCGTGTG
35447271 TCTTCTTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.29, G:0.33, T:0.16
Consensus pattern (21 bp):
ACACGCCCGTGTGAAAGGGCG
Found at i:35448509 original size:48 final size:47
Alignment explanation
Indices: 35448454--35448637 Score: 208
Period size: 48 Copynumber: 3.9 Consensus size: 47
35448444 GTGAATTGCT
* * *
35448454 GATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATGTCGAGGCC
1 GATGCCATG-TCCTAGACATGGTCTTACACTAGCTCACATATC-AAGCC
* * * *
35448502 GATGCCATGTCCCAGATATGGTCTTACACTAGCGCACATATCAATGCT
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAA-GCC
* * **
35448550 AATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCATAATTTAGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACAT-ATCAAGCC
* *
35448598 GATGCCATGTCCTAGACATGGTCTTACACTGGCACACATA
1 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATA
35448638 CCACCCAAAT
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
47 5 0.04
48 107 0.93
49 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAAGCC
Found at i:35448619 original size:96 final size:96
Alignment explanation
Indices: 35448450--35448637 Score: 254
Period size: 96 Copynumber: 2.0 Consensus size: 96
35448440 GAGGGTGAAT
* *
35448450 TGCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCC
1 TGCTAATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCC
* *
35448515 AGATATGGTCTTACACTAGCGCACATATCAA
66 AGACATGGTCTTACACTAGCACACATATCAA
* * **
35448546 TGCTAATGCCATG-TCCTAGACATGGTCTTACACTAGCTCTCATAATTTA-GCCGATGCCATGTC
1 TGCTAATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACAT-ATCGAGGCCGATGCCATGTC
* *
35448609 CTAGACATGGTCTTACACTGGCACACATA
64 CCAGACATGGTCTTACACTAGCACACATA
35448638 CCACCCAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
95 3 0.04
96 75 0.94
97 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
TGCTAATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCACACATATCAA
Found at i:35450526 original size:40 final size:40
Alignment explanation
Indices: 35450489--35450713 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
35450479 GCTACTCGTT
*
35450489 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
35450529 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
35450569 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
35450608 CAAATGCCTT-TGGATCTTAGTCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
35450648 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35450689 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35450714 CATCATTCGA
Statistics
Matches: 163, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35450600 original size:79 final size:79
Alignment explanation
Indices: 35450489--35450713 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 79
35450479 GCTACTCGTT
* * *
35450489 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
35450554 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
35450569 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTT-TGGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
*
35450632 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * * *
35450648 CAAATGCCTTCGGATCTTAGTCCAGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
35450712 GA
64 GA
35450714 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 64 0.52
80 42 0.34
81 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:35474546 original size:85 final size:85
Alignment explanation
Indices: 35474403--35474567 Score: 204
Period size: 85 Copynumber: 1.9 Consensus size: 85
35474393 GATGCTCTAC
* * * * * * * *
35474403 ATACTTGTGTTGTTTCAGGTATGTCATAGGATCATCCGGAATTGAATTTTGACTTTATCTCTAAT
1 ATACTTGTATTGTTGCAGGTATGTCACAGGATCATCCGAAATTGAATTCTAACATTATCTCTAAC
*
35474468 ATTGTCTTACATATGGTAAA
66 ATTGTATTACATATGGTAAA
* * * *
35474488 ATACTTGTATTGTTGCAGGTATGTCACGGGATTATCCGAAATTGGATTCTAACATTATCTCTGAC
1 ATACTTGTATTGTTGCAGGTATGTCACAGGATCATCCGAAATTGAATTCTAACATTATCTCTAAC
*
35474553 ATTGTATTACTTATG
66 ATTGTATTACATATG
35474568 ATGAAAGTGA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (85 bp):
ATACTTGTATTGTTGCAGGTATGTCACAGGATCATCCGAAATTGAATTCTAACATTATCTCTAAC
ATTGTATTACATATGGTAAA
Found at i:35478859 original size:46 final size:47
Alignment explanation
Indices: 35478788--35479002 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 47
35478778 GTGAATTGCT
* *
35478788 GATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATCTCAAT-GCC
1 GATGCCATGTCC-A-ACATGGTCTTACACTAGCTCTCATATCAATAGCC
* * * * * ** *
35478836 GAGGCCATGTCCAACATGTTCTTATACTGGCTCTTATAT-GGTGGCC
1 GATGCCATGTCCAACATGGTCTTACACTAGCTCTCATATCAATAGCC
* * * * *
35478882 GATGCCATGTCCAACATGGTCTTACACTGGCTCACA-GTCAA-CGTC
1 GATGCCATGTCCAACATGGTCTTACACTAGCTCTCATATCAATAGCC
* * *
35478927 GATGCCATGTCCAAGATGGTCTTACACTAGCTCTCGTAAC-ATAGCC
1 GATGCCATGTCCAACATGGTCTTACACTAGCTCTCATATCAATAGCC
35478973 GATGCCATGTTCCAAACATGGTCTTACACT
1 GATGCCATG-TCC-AACATGGTCTTACACT
35479003 GGCATACGAA
Statistics
Matches: 133, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
45 37 0.28
46 66 0.50
47 4 0.03
48 26 0.20
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCAACATGGTCTTACACTAGCTCTCATATCAATAGCC
Found at i:35478946 original size:45 final size:44
Alignment explanation
Indices: 35478879--35479057 Score: 173
Period size: 48 Copynumber: 3.9 Consensus size: 44
35478869 TTATATGGTG
35478879 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAGTCAAC-
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCAC-GT-AACA
* * * *
35478924 GTCGATGCCATGTCCAAGATGGTCTTACACTAGCTCTCGTAACATA
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACGTAAC--A
* **
35478970 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCAT-ACGAAATGTG
1 GCCGATGCCATG-TCC-AACATGGTCTTACACTGGC-TCACGTAA--CA
*
35479018 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCAC
1 GCCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCAC
35479058 ATGTTACCCT
Statistics
Matches: 111, Mismatches: 12, Indels: 19
0.78 0.08 0.13
Matches are distributed among these distances:
43 3 0.03
44 2 0.02
45 34 0.31
46 11 0.10
47 6 0.05
48 54 0.49
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (44 bp):
GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACGTAACA
Found at i:35478950 original size:91 final size:93
Alignment explanation
Indices: 35478788--35479005 Score: 242
Period size: 91 Copynumber: 2.3 Consensus size: 93
35478778 GTGAATTGCT
* * ** *
35478788 GATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATCTCAATGCCGAGGCCATGTCCAACAT
1 GATGCCATGTCC-AAACATGGTCTTACACTGGCTCACATCTCAACGCCGAGGCCATGTCCAACAT
* * * * *** *
35478853 GTTCTTATACTGGCTCTTATATGGTGGCC
65 GGTCTTACACTAGCTCTCATAACATAGCC
* * * *
35478882 GATGCCATGTCC-AACATGGTCTTACACTGGCTCACA-GTCAACGTCGATGCCATGTCCAAGATG
1 GATGCCATGTCCAAACATGGTCTTACACTGGCTCACATCTCAACGCCGAGGCCATGTCCAACATG
*
35478945 GTCTTACACTAGCTCTCGTAACATAGCC
66 GTCTTACACTAGCTCTCATAACATAGCC
35478973 GATGCCATGTTCCAAACATGGTCTTACACTGGC
1 GATGCCATG-TCCAAACATGGTCTTACACTGGC
35479006 ATACGAAATG
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
91 50 0.48
92 23 0.22
93 19 0.18
94 12 0.12
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCAAACATGGTCTTACACTGGCTCACATCTCAACGCCGAGGCCATGTCCAACATG
GTCTTACACTAGCTCTCATAACATAGCC
Found at i:35479000 original size:48 final size:46
Alignment explanation
Indices: 35478788--35479055 Score: 195
Period size: 46 Copynumber: 5.7 Consensus size: 46
35478778 GTGAATTGCT
* * * **
35478788 GATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATCTCA-ATGCC
1 GATGCCATGTCC-A-ACATGGTCTTACACTGGCTCTCGTAACATA-GCC
* * * ** *** *
35478836 GAGGCCATGTCCAACATGTTCTTATACTGGCTCTTATATGGTGGCC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCGTAACATAGCC
* *
35478882 GATGCCATGTCCAACATGGTCTTACACTGGCTCACAGT--CA-ACGTC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTC-GTAACATA-GCC
* *
35478927 GATGCCATGTCCAAGATGGTCTTACACTAGCTCTCGTAACATAGCC
1 GATGCCATGTCCAACATGGTCTTACACTGGCTCTCGTAACATAGCC
* * ** *
35478973 GATGCCATGTTCCAAACATGGTCTTACACTGGCAT-ACGAAATGTGGCC
1 GATGCCATG-TCC-AACATGGTCTTACACTGGC-TCTCGTAACATAGCC
*
35479021 AATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 GATGCCATGT-CCA-ACATGGTCTTACACTGGCTC
35479056 ACATGTTACC
Statistics
Matches: 176, Mismatches: 32, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
44 2 0.01
45 34 0.19
46 66 0.38
47 9 0.05
48 64 0.36
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (46 bp):
GATGCCATGTCCAACATGGTCTTACACTGGCTCTCGTAACATAGCC
Found at i:35481873 original size:51 final size:51
Alignment explanation
Indices: 35481797--35481900 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
35481787 GGGACATAGT
35481797 AAGACAACATGTCCACATTTTGGGGCAACATTGAGGTGATGATGGAATTAA
1 AAGACAACATGTCCACATTTTGGGGCAACATTGAGGTGATGATGGAATTAA
*
35481848 AAGACAACATGTCCACATTTTGGGGCAACATTGAGGTGCTGATGGAATTAA
1 AAGACAACATGTCCACATTTTGGGGCAACATTGAGGTGATGATGGAATTAA
35481899 AA
1 AA
35481901 AAATATTCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (51 bp):
AAGACAACATGTCCACATTTTGGGGCAACATTGAGGTGATGATGGAATTAA
Found at i:35482327 original size:6 final size:6
Alignment explanation
Indices: 35482316--35482340 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35482306 CATCATTTTT
35482316 ATCTCC ATCTCC ATCTCC ATCTCC A
1 ATCTCC ATCTCC ATCTCC ATCTCC A
35482341 CCCCCATCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.48, G:0.00, T:0.32
Consensus pattern (6 bp):
ATCTCC
Found at i:35483227 original size:46 final size:47
Alignment explanation
Indices: 35483167--35483478 Score: 393
Period size: 46 Copynumber: 7.0 Consensus size: 47
35483157 TTTGACATGA
* * * * * *
35483167 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
** * *
35483213 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
* * *
35483259 TGCCATGGTATCTTTCAACCATAGTCTTACATA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
*
35483305 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
35483351 TGCCATGGTATCTTTCAACCATGGTCTT--ACA----C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
35483389 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
35483435 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAG
35483479 AGAGCACACT
Statistics
Matches: 239, Mismatches: 17, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
38 32 0.13
39 1 0.00
40 3 0.01
41 1 0.00
43 1 0.00
44 3 0.01
45 6 0.03
46 192 0.80
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCATATCAGGT
Found at i:35483441 original size:84 final size:84
Alignment explanation
Indices: 35483300--35483467 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
35483290 TATCTCATAT
35483300 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
35483365 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
*
35483384 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
35483449 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTTACACA
35483468 TTTCATATCA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
TCAACCATGGTCTTACACA
Found at i:35483448 original size:130 final size:133
Alignment explanation
Indices: 35483167--35483477 Score: 441
Period size: 130 Copynumber: 2.3 Consensus size: 133
35483157 TTTGACATGA
* * * * * *
35483167 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGTTGCCATGGTATCTTTCAA
* *
35483231 CCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATAGTCTTACATATCTC
65 CCATGGTCTTA-TC--TACA--TCACGTTGCCATGGTATCTTTCAACCATAGTCTTACACATCTC
35483296 ATATCAGGT
125 ATATCAGGT
35483305 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAAC
* * *
35483370 CATGGTCTTA-C-ACA-CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
66 CATGGTCTTATCTACATCACGTTGCCATGGTATCTTTCAACCATAGTCTTACACATCTCATATCA
35483432 GGT
131 GGT
35483435 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
35483478 GAGAGCACAC
Statistics
Matches: 161, Mismatches: 11, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
130 90 0.56
133 2 0.01
136 1 0.01
137 4 0.02
138 64 0.40
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (133 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAAC
CATGGTCTTATCTACATCACGTTGCCATGGTATCTTTCAACCATAGTCTTACACATCTCATATCA
GGT
Found at i:35485955 original size:30 final size:30
Alignment explanation
Indices: 35485888--35485955 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
35485878 CACCCTTAAA
* * *
35485888 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
35485918 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
35485947 AGTATTTAC
1 A-TATTTAC
35485956 TCTTGGGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:35488012 original size:20 final size:20
Alignment explanation
Indices: 35487987--35488025 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35487977 AACATATAAA
35487987 AATTTAAAAATAATATTAAC
1 AATTTAAAAATAATATTAAC
* *
35488007 AATTTAATAATTATATTAA
1 AATTTAAAAATAATATTAA
35488026 TTAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTTAAAAATAATATTAAC
Found at i:35492174 original size:42 final size:42
Alignment explanation
Indices: 35492127--35492211 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
35492117 TTGACTAATG
* *
35492127 GATTCCATTGATGCAGAAGGCATCAGTGATGGCATGGCCATT
1 GATTCCATTGATGCAGAAGACATCAGTGATGGCATGACCATT
* * * *
35492169 GATTCCATTGATGGAGAAGATATTAGTGATTGCATGACCATT
1 GATTCCATTGATGCAGAAGACATCAGTGATGGCATGACCATT
35492211 G
1 G
35492212 TAGGTTGACT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (42 bp):
GATTCCATTGATGCAGAAGACATCAGTGATGGCATGACCATT
Found at i:35507804 original size:16 final size:17
Alignment explanation
Indices: 35507743--35507807 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
35507733 TATTTTAATT
*
35507743 AATAAAACATAAAATAA
1 AATAAAACATAATATAA
**
35507760 AATAAAAGGTTAATATAA
1 AATAAAA-CATAATATAA
35507778 TAATGAAAACATAATA-AA
1 -AAT-AAAACATAATATAA
35507796 AATAAAACATAA
1 AATAAAACATAA
35507808 GTGAATATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
16 9 0.22
17 10 0.25
18 9 0.22
19 8 0.20
20 4 0.10
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.22
Consensus pattern (17 bp):
AATAAAACATAATATAA
Found at i:35508051 original size:17 final size:15
Alignment explanation
Indices: 35508019--35508048 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35508009 TCTATTGATG
35508019 AATCTAGTGATTTTT
1 AATCTAGTGATTTTT
35508034 AATCTAGTGATTTTT
1 AATCTAGTGATTTTT
35508049 TTATGTTAAA
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:0.07, G:0.13, T:0.53
Consensus pattern (15 bp):
AATCTAGTGATTTTT
Found at i:35508792 original size:33 final size:33
Alignment explanation
Indices: 35508723--35508797 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
35508713 TGTGTGTGTG
* * *
35508723 TAAGACCATAACTGGGCTATGGCATTCTAATGA
1 TAAGACCATAACCGGGCTATGGCACTATAATGA
* *
35508756 TAAGACCATAACCGGGTTATGGCACTATGA-GCA
1 TAAGACCATAACCGGGCTATGGCACTATAATG-A
35508789 TAAGACCAT
1 TAAGACCAT
35508798 GGCAAGGCCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 1 0.03
33 35 0.97
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (33 bp):
TAAGACCATAACCGGGCTATGGCACTATAATGA
Found at i:35509400 original size:67 final size:67
Alignment explanation
Indices: 35509292--35509425 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
35509282 TCTAGTATAA
35509292 TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACACGTGTTGTTGTTGGTGC
1 TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACACGTGTTGTTGTTGGTGC
35509357 TT
66 TT
*
35509359 TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACATGTGTTGTTGTTGGTGC
1 TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACACGTGTTGTTGTTGGTGC
35509424 TT
66 TT
35509426 AGGCTTGTGC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.24, C:0.11, G:0.19, T:0.46
Consensus pattern (67 bp):
TGGTTATCTATGTTAAGTTCACATGAATTATATTCAATTATGCTAACACGTGTTGTTGTTGGTGC
TT
Found at i:35510795 original size:28 final size:29
Alignment explanation
Indices: 35510743--35510798 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
35510733 ACAGGGGTTT
35510743 TCACACGGCCAAGCACACGCCCGTGTCCC
1 TCACACGGCCAAGCACACGCCCGTGTCCC
* *
35510772 TCACACGGCCTAG-ACACTCCCGTGTCC
1 TCACACGGCCAAGCACACGCCCGTGTCC
35510799 AAAACCCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.20, C:0.46, G:0.20, T:0.14
Consensus pattern (29 bp):
TCACACGGCCAAGCACACGCCCGTGTCCC
Found at i:35513877 original size:52 final size:49
Alignment explanation
Indices: 35513792--35514158 Score: 449
Period size: 46 Copynumber: 7.6 Consensus size: 49
35513782 TTTGAGTACT
* ** *
35513792 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
35513838 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
35513890 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
35513936 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
35513988 TCTGATCAAGT---AATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
35514034 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
35514086 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
35514132 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
35514159 GCTGCACTTA
Statistics
Matches: 291, Mismatches: 12, Indels: 36
0.86 0.04 0.11
Matches are distributed among these distances:
46 153 0.53
48 2 0.01
49 7 0.02
50 3 0.01
52 126 0.43
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:35513912 original size:98 final size:98
Alignment explanation
Indices: 35513792--35514147 Score: 595
Period size: 98 Copynumber: 3.6 Consensus size: 98
35513782 TTTGAGTACT
* *
35513792 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
35513857 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
35513890 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
35513955 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
35513988 TCTGATCAAGTAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
35514053 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
35514086 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
35514148 AGTGATAAGT
Statistics
Matches: 244, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 244 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:35514170 original size:37 final size:37
Alignment explanation
Indices: 35514122--35514267 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
35514112 GATAGCTTTA
*
35514122 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
35514159 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
35514196 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
35514233 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
35514268 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:35515582 original size:49 final size:49
Alignment explanation
Indices: 35515523--35515666 Score: 216
Period size: 49 Copynumber: 2.9 Consensus size: 49
35515513 ATGTGGACAT
* *
35515523 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTGTGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
35515573 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
35515622 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
35515667 AGAAAACGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 83 0.95
50 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:35518877 original size:52 final size:51
Alignment explanation
Indices: 35518806--35519112 Score: 400
Period size: 52 Copynumber: 6.1 Consensus size: 51
35518796 ATCAAGTGAT
* ** *
35518806 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-G
*
35518858 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T-
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
35518904 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGT-G
*
35518956 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
*
35519007 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
** * *
35519054 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-AAGTG
35519106 ATAAGTG
1 A-AAGTG
35519113 GCTGCACTTA
Statistics
Matches: 229, Mismatches: 12, Indels: 27
0.85 0.04 0.10
Matches are distributed among these distances:
46 86 0.38
48 1 0.00
49 2 0.01
50 1 0.00
51 1 0.00
52 133 0.58
53 5 0.02
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
Found at i:35518912 original size:98 final size:98
Alignment explanation
Indices: 35518792--35519112 Score: 447
Period size: 98 Copynumber: 3.3 Consensus size: 98
35518782 TTTGAGTACT
* ** *
35518792 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
35518857 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
35518890 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
35518955 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
35518988 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGA
* ** *
35519053 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTA
60 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
35519086 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
35519113 GCTGCACTTA
Statistics
Matches: 206, Mismatches: 11, Indels: 18
0.88 0.05 0.08
Matches are distributed among these distances:
92 13 0.06
95 1 0.00
98 145 0.70
101 1 0.00
102 1 0.00
104 45 0.22
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:35519012 original size:150 final size:150
Alignment explanation
Indices: 35518806--35519101 Score: 475
Period size: 150 Copynumber: 2.0 Consensus size: 150
35518796 ATCAAGTGAT
** * *
35518806 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
35518871 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
35518936 TCTGATCAAGTGACAAGTGG
131 TCTGATCAAGAGACAAGTGG
* * *
35518956 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
35519021 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
35519086 TCTGATCAAGAGACAA
131 TCTGATCAAGAGACAA
35519102 AGTGATAAGT
Statistics
Matches: 133, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
150 133 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (150 bp):
AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAGTGG
Found at i:35519102 original size:46 final size:45
Alignment explanation
Indices: 35519008--35519223 Score: 187
Period size: 37 Copynumber: 5.3 Consensus size: 45
35518998 TGACAAGTGA
* *
35519008 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT-TGCTACACTTATCTGATCAAGAGAC
35519054 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTT-GCTACACTTATCTGATCAAGAGAC
*
35519100 AAAGTGATAAGTG---GC--TG---CACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTTGCTACACTTATCTGATCAAGAGAC
*
35519137 AAAGTGATAA--G-T-G----GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTTGCTACACTTATCTGATCAAGAGAC
*
35519174 AAAGTGAT-AG-G-T-G----GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTTGCTACACTTATCTGATCAAGAGAC
35519210 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
35519224 CATACGTAAG
Statistics
Matches: 156, Mismatches: 5, Indels: 26
0.83 0.03 0.14
Matches are distributed among these distances:
34 1 0.01
35 8 0.05
36 8 0.05
37 78 0.50
38 1 0.01
40 1 0.01
41 1 0.01
43 2 0.01
46 56 0.36
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (45 bp):
AAAGTGATAAGTGATAGCTTTGCTACACTTATCTGATCAAGAGAC
Found at i:35519124 original size:37 final size:37
Alignment explanation
Indices: 35519076--35519221 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
35519066 GATAGCTTTA
*
35519076 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
35519113 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
35519150 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
35519187 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
35519222 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:35521570 original size:23 final size:23
Alignment explanation
Indices: 35521544--35521591 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
35521534 TGATGAAATT
*
35521544 TTTACATTTTGGTGCTTAAATGG
1 TTTACATTTTGGTGATTAAATGG
35521567 TTTACATTTTGGTGATTAAATGG
1 TTTACATTTTGGTGATTAAATGG
35521590 TT
1 TT
35521592 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (23 bp):
TTTACATTTTGGTGATTAAATGG
Found at i:35522317 original size:16 final size:15
Alignment explanation
Indices: 35522296--35522326 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
35522286 AATTATGTGT
35522296 ATTAATTTATAATTTA
1 ATTAATTT-TAATTTA
35522312 ATTAATTTTAATTTA
1 ATTAATTTTAATTTA
35522327 TATCCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAATTTTAATTTA
Found at i:35522403 original size:14 final size:14
Alignment explanation
Indices: 35522381--35522411 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
35522371 GAAAAATGGT
*
35522381 CCGATTGAACCGAA
1 CCGAGTGAACCGAA
35522395 CCGAGTGAACCGAA
1 CCGAGTGAACCGAA
35522409 CCG
1 CCG
35522412 TCCAAGGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.32, G:0.26, T:0.10
Consensus pattern (14 bp):
CCGAGTGAACCGAA
Found at i:35534665 original size:49 final size:48
Alignment explanation
Indices: 35534468--35534685 Score: 164
Period size: 49 Copynumber: 4.6 Consensus size: 48
35534458 TGATATGTGT
* *
35534468 GCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGCA-ATA-GACAA
1 GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGCCT--CATATATGA-AA
* * ***
35534516 GCTAGTGTAAGACTTGTCTGGGACATGGCGTCAG-CT--TGT-TGTGT
1 GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGCCTCATATATGAAA
* * * * * *
35534560 GTTAGTGTAAGACCTGTCCGGGACATGGCATCAACAC-CGATAGATGAGA
1 GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGC-CTC-ATATATGAAA
*
35534609 GCTAGTGTAAGACTTGTCTGGAACATGGCATCAGCCTCACTATATGAAA
1 GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGCCTCA-TATATGAAA
* * *
35534658 GCCAGTGTAAGACCATGTCTAGGACATG
1 GCTAGTGTAAGA-CTTGTCTGGGACATG
35534686 ACGTTTGCAT
Statistics
Matches: 131, Mismatches: 27, Indels: 22
0.73 0.15 0.12
Matches are distributed among these distances:
44 29 0.22
45 2 0.02
46 1 0.01
48 29 0.22
49 58 0.44
50 12 0.09
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGCCTCATATATGAAA
Found at i:35548554 original size:45 final size:45
Alignment explanation
Indices: 35548486--35548572 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
35548476 GAACTGTGTG
* *
35548486 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTAAGTTATGGTCTGAGTTCATGATATATGTGAC
* * *
35548531 ATCTGAACTTATTAAGTTATGGTCTGAGTTCATTATGTATGT
1 ATCTGAACTCATTAAGTTATGGTCTGAGTTCATGATATATGT
35548573 AACACATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.41
Consensus pattern (45 bp):
ATCTGAACTCATTAAGTTATGGTCTGAGTTCATGATATATGTGAC
Found at i:35555454 original size:17 final size:17
Alignment explanation
Indices: 35555434--35555488 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
35555424 AAATTTGATA
35555434 ATGATCTCAATTTATGT
1 ATGATCTCAATTTATGT
** *
35555451 ATGAT-AAAATTTGAT-A
1 ATGATCTCAATTT-ATGT
35555467 ATGATCTCAATTTATGT
1 ATGATCTCAATTTATGT
35555484 ATGAT
1 ATGAT
35555489 ACCCATGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (17 bp):
ATGATCTCAATTTATGT
Found at i:35555461 original size:33 final size:33
Alignment explanation
Indices: 35555424--35555489 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
35555414 GTTTAGAACT
35555424 AAATTTGATAATGATCTCAATTTATGTATGATA
1 AAATTTGATAATGATCTCAATTTATGTATGATA
35555457 AAATTTGATAATGATCTCAATTTATGTATGATA
1 AAATTTGATAATGATCTCAATTTATGTATGATA
35555490 CCCATGGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.42
Consensus pattern (33 bp):
AAATTTGATAATGATCTCAATTTATGTATGATA
Found at i:35563610 original size:41 final size:41
Alignment explanation
Indices: 35563553--35563631 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
35563543 AAATCGACCG
35563553 TTGAAAACTATTCGAAACCATTGCGGGTCCTTAAACCACCA
1 TTGAAAACTATTCGAAACCATTGCGGGTCCTTAAACCACCA
35563594 TTGAAAACTATTCGAAACCATTGCGGGTCCTTAAACCA
1 TTGAAAACTATTCGAAACCATTGCGGGTCCTTAAACCA
35563632 ATCTTAATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (41 bp):
TTGAAAACTATTCGAAACCATTGCGGGTCCTTAAACCACCA
Found at i:35564343 original size:23 final size:23
Alignment explanation
Indices: 35564316--35564359 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
35564306 TACGTTCTTT
*
35564316 ACATATGCTCAAACCA-AAATCAC
1 ACATATGCAC-AACCATAAATCAC
35564339 ACATATGCACAACCATAAATC
1 ACATATGCACAACCATAAATC
35564360 TCATGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.48, C:0.30, G:0.05, T:0.18
Consensus pattern (23 bp):
ACATATGCACAACCATAAATCAC
Found at i:35568011 original size:46 final size:49
Alignment explanation
Indices: 35567869--35568183 Score: 216
Period size: 47 Copynumber: 6.7 Consensus size: 49
35567859 GTTAAGTGCC
* *
35567869 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCATA-G-CTCAAGTC-
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-ATACGTCTCAAGGCT
* * * *
35567916 GATGCCATGTCCCAGACATGGTCTTACAGTGACTATCACCTCT-TA-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAT-ACGTCTCAAGGCT
*
35567964 GATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACGTCTCAAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATACGTCTCAAGGCT
* **
35568010 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACT-CGTCTCATTG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TACGTCTCAAGGCT
* * * * * * **
35568055 CGATGCCATGTCCTAGACATGGTTTTACACTAGCTCT-CATAAT-GTGGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGCTATACGT-CTCAAGGCT
* * ** * * *
35568104 GTTG-CATGTCCCAGACATGG-CTTACACTAGCCCT-CATCTCAATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATACGTCTCAAGGCT
**
35568150 GATGCCATGTCCTGGACATGGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
35568184 TACACGAGTG
Statistics
Matches: 216, Mismatches: 35, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
44 5 0.02
45 4 0.02
46 78 0.36
47 90 0.42
48 35 0.16
49 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATACGTCTCAAGGCT
Found at i:35568121 original size:94 final size:94
Alignment explanation
Indices: 35568006--35568179 Score: 276
Period size: 94 Copynumber: 1.9 Consensus size: 94
35567996 TACGTCTCAA
* * *
35568006 GGCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCATTGTCGATGCCATGTCCTAG
1 GGCTGATGCATGTCCCAGACATGGCTTACACTAGCACTCATCTCAATGTCGATGCCATGTCCTAG
*
35568071 ACATGGTTTTACACTAGCTCTCATAATGT
66 ACATGGTCTTACACTAGCTCTCATAATGT
* * * *
35568100 GGCTGTTGCATGTCCCAGACATGGCTTACACTAGCCCTCATCTCAATGTTGATGCCATGTCCTGG
1 GGCTGATGCATGTCCCAGACATGGCTTACACTAGCACTCATCTCAATGTCGATGCCATGTCCTAG
35568165 ACATGGTCTTACACT
66 ACATGGTCTTACACT
35568180 GGCTTACACG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 72 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (94 bp):
GGCTGATGCATGTCCCAGACATGGCTTACACTAGCACTCATCTCAATGTCGATGCCATGTCCTAG
ACATGGTCTTACACTAGCTCTCATAATGT
Found at i:35571257 original size:39 final size:40
Alignment explanation
Indices: 35571212--35571383 Score: 231
Period size: 40 Copynumber: 4.3 Consensus size: 40
35571202 GCTCCTCGTT
* * *
35571212 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
35571252 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
35571291 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
35571331 CAAAGGCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
35571371 CAAATGCCTTCGG
1 CAAATGCCTTCGG
35571384 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.29
40 81 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:35571312 original size:40 final size:39
Alignment explanation
Indices: 35571214--35571436 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 39
35571204 TCCTCGTTCA
* * * *
35571214 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
35571253 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35571292 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
35571332 AAAGGCCTTCGGGACTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
35571372 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
35571413 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35571437 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 41 0.26
40 106 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:35571377 original size:80 final size:79
Alignment explanation
Indices: 35571212--35571436 Score: 249
Period size: 80 Copynumber: 2.8 Consensus size: 79
35571202 GCTCCTCGTT
* * * * *
35571212 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
35571276 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* *
35571291 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
35571356 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
35571371 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
35571435 GA
63 GA
35571437 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.31
80 71 0.57
81 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:35571445 original size:41 final size:41
Alignment explanation
Indices: 35571368--35571445 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35571358 TTTGTATCTC
* * *
35571368 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35571409 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35571446 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35579205 original size:38 final size:40
Alignment explanation
Indices: 35579157--35579327 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
35579147 GCTCCACGTT
* * *
35579157 CAAATGCCTTCGGGACATAGCCC-GTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
35579196 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
35579235 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * *
35579275 CAAAGGCCTTCGGGGCTTAACCTGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
35579315 CAAATGCCTTCGG
1 CAAATGCCTTCGG
35579328 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
38 20 0.17
39 15 0.13
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:35579256 original size:40 final size:39
Alignment explanation
Indices: 35579159--35579380 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
35579149 TCCACGTTCA
* * * *
35579159 AATGCCTTCGGGACATAGCCC-GTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
35579197 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35579236 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
35579276 AAAGGCCTTCGGGGCTTAACCTGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
35579316 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
35579357 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35579381 CACATTCAAT
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
38 20 0.13
39 19 0.12
40 103 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:35579388 original size:40 final size:41
Alignment explanation
Indices: 35579312--35579388 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
35579302 TTTGTATCTC
* * *
35579312 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35579353 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACACATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACACATTCA
35579389 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 22 0.69
41 10 0.31
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35582170 original size:17 final size:17
Alignment explanation
Indices: 35582150--35582188 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
35582140 ACTTATTTCC
35582150 TATTTTT-TTATATTATA
1 TATTTTTATTAT-TTATA
*
35582167 TATTTTTATTATTTATT
1 TATTTTTATTATTTATA
35582184 TATTT
1 TATTT
35582189 ATTAACCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTATTATTTATA
Found at i:35589115 original size:14 final size:14
Alignment explanation
Indices: 35589096--35589124 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35589086 ATATGATAAT
35589096 ATTATTAAAACTTA
1 ATTATTAAAACTTA
35589110 ATTATTAAAACTTA
1 ATTATTAAAACTTA
35589124 A
1 A
35589125 AAGTTAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTATTAAAACTTA
Found at i:35589186 original size:12 final size:12
Alignment explanation
Indices: 35589169--35589210 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
35589159 TATTTGCATA
35589169 AAAGAAAAAGAG
1 AAAGAAAAAGAG
35589181 AAAG-AAAAG-G
1 AAAGAAAAAGAG
35589191 AAAGAAAAAGAG
1 AAAGAAAAAGAG
35589203 AAAGAAAA
1 AAAGAAAA
35589211 GAAGGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.18
11 10 0.36
12 13 0.46
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAGAG
Found at i:35589197 original size:22 final size:22
Alignment explanation
Indices: 35589169--35589211 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
35589159 TATTTGCATA
35589169 AAAGAAAAAGAGAAAGAAAAGG
1 AAAGAAAAAGAGAAAGAAAAGG
35589191 AAAGAAAAAGAGAAAGAAAAG
1 AAAGAAAAAGAGAAAGAAAAG
35589212 AAGGAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAGAAAGAAAAGG
Found at i:35589200 original size:16 final size:17
Alignment explanation
Indices: 35589169--35589213 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
35589159 TATTTGCATA
*
35589169 AAAGAAAAAGAGAAAGA-
1 AAAG-AAAAGAAAAAGAG
*
35589186 AAAGGAAAGAAAAAGAG
1 AAAGAAAAGAAAAAGAG
35589203 AAAGAAAAGAA
1 AAAGAAAAGAA
35589214 GGAGAATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGAAAAAGAG
Found at i:35589495 original size:30 final size:28
Alignment explanation
Indices: 35589440--35589497 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
35589430 GAATTGTAAG
*
35589440 ATAAATTGTAAATTTTGAGTATTAGGGA
1 ATAAATTGTAAATTTTGAATATTAGGGA
35589468 ATAAATTGTGAAAATTTTGAA-ATTTAGGGA
1 ATAAATTGT--AAATTTTGAATA-TTAGGGA
35589498 TTTAAGTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 9 0.35
29 1 0.04
30 16 0.62
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (28 bp):
ATAAATTGTAAATTTTGAATATTAGGGA
Found at i:35593606 original size:46 final size:44
Alignment explanation
Indices: 35593460--35593725 Score: 142
Period size: 46 Copynumber: 5.7 Consensus size: 44
35593450 GGGGTAAGGT
* *
35593460 GCCGATGCCATGTCCCAGACATGGTCTTACACAGGCTCTAGCATATCTGT-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACA-G-AC-A-CATCTC-GTA
* *
35593510 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACAGACACATCTCGTA
* *
35593556 GCCGATGCATGTCCCAAACATGTCTTACACAGACTTACGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACAGAC--ACATCTCGTA
* * * * * * *
35593601 GGCCGATGCATGCCCCGGACATGTTTTACACTAGCACTCGTCTCATT
1 -GCCGATGCATGTCCCAGACATGTCTTACAC-AG-ACACATCTCGTA
* * * * * * *
35593648 GTCGATGCCATGTCCTAGACATGGTTTTACACTAGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACAC-AG-ACACAT-CTCGTA
* *
35593696 GCCGTTGCATCTCCCAGACATGTCTTACAC
1 GCCGATGCATGTCCCAGACATGTCTTACAC
35593726 TAGCTCACAA
Statistics
Matches: 177, Mismatches: 29, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
44 12 0.07
45 16 0.09
46 64 0.36
47 26 0.15
48 26 0.15
49 2 0.01
50 31 0.18
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACAGACACATCTCGTA
Found at i:35606512 original size:49 final size:47
Alignment explanation
Indices: 35606277--35606528 Score: 190
Period size: 49 Copynumber: 5.3 Consensus size: 47
35606267 TTCTAAACAT
* * * **
35606277 GGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCTAAGACA
1 GGTCTTACACTAGCTCTCACATCAAAGCCGATGCCATGTCCCAGACA
* * *
35606324 GGTCTTACACTAACTTCCACACATCAATGCCGATGCCATGTCCCAGACA
1 GGTCTTACACTAGC-T-CTCACATCAAAGCCGATGCCATGTCCCAGACA
* * * * * * *
35606373 GGTCTTACACCA--ACACACCTC-AAGCCGATGCCGTGTCCCATATA
1 GGTCTTACACTAGCTCTCACATCAAAGCCGATGCCATGTCCCAGACA
* * * * *
35606417 GGTCTTACCATTAGCT-TGCATATCTTAAGGTCGATGCGATGT-CCAGACA
1 GGTCTTA-CACTAGCTCT-CACATC--AAAGCCGATGCCATGTCCCAGACA
* * *
35606466 GGTCTTACACTGGCTCTCATCTATCGATGCCGATGCCATGTCCCAGACA
1 GGTCTTACACTAGCTCTCA-C-ATCAAAGCCGATGCCATGTCCCAGACA
35606515 GGTCTTACACTAGC
1 GGTCTTACACTAGC
35606529 ACACATATCA
Statistics
Matches: 157, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
44 26 0.17
45 10 0.06
47 16 0.10
48 21 0.13
49 70 0.45
50 14 0.09
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
GGTCTTACACTAGCTCTCACATCAAAGCCGATGCCATGTCCCAGACA
Found at i:35614092 original size:49 final size:46
Alignment explanation
Indices: 35613991--35614158 Score: 189
Period size: 49 Copynumber: 3.6 Consensus size: 46
35613981 CAATGCCAAC
* * **
35613991 GCCATGTTCCAAACATGGTCTTACACTGACTCTCACATCGAAGTTGAT
1 GCCATG-TCCAAACA-GGTCTTACACTAACTCACACATCGAAGCCGAT
*
35614039 GCCATGTCCAAGACAGGTCTTACACTAACTTCCACACATCGAGGCCGAT
1 GCCATGTCCAA-ACAGGTCTTACACTAAC-T-CACACATCGAAGCCGAT
*
35614088 GCCATGTCCCAAACAGGTCTTACACTAA--CACACCTC-AAGCCGAT
1 GCCATGT-CCAAACAGGTCTTACACTAACTCACACATCGAAGCCGAT
*
35614132 GCCATGTCCCATACAGGTCTTACACTA
1 GCCATGT-CCAAACAGGTCTTACACTA
35614159 GCTTGCATAT
Statistics
Matches: 108, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
44 33 0.31
45 7 0.06
47 18 0.17
48 10 0.09
49 36 0.33
50 4 0.04
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (46 bp):
GCCATGTCCAAACAGGTCTTACACTAACTCACACATCGAAGCCGAT
Found at i:35614154 original size:93 final size:96
Alignment explanation
Indices: 35613991--35614207 Score: 244
Period size: 93 Copynumber: 2.3 Consensus size: 96
35613981 CAATGCCAAC
* * * **
35613991 GCCATGTTCCAAACATGGTCTTACACTGACTCTCACATCGAAGTTGATGCCATGTCCAAGACAGG
1 GCCATGTCCCAAACA-GGTCTTACACTGACACACACATCGAAGCCGATGCCATGTCCAAGACAGG
35614056 TCTTACACTAACTTCCACA-CATCGAGGCCGAT
65 TCTTACACTAACTTCCACATC-TCGAGGCCGAT
* * *
35614088 GCCATGTCCCAAACAGGTCTTACACT-A-ACACACCTC-AAGCCGATGCCATGTCCCATACAGGT
1 GCCATGTCCCAAACAGGTCTTACACTGACACACACATCGAAGCCGATGCCATGTCCAAGACAGGT
* * * * *
35614150 CTTACACTAGCTTGCATATCTTGAGGTCGAT
66 CTTACACTAACTTCCACATCTCGAGGCCGAT
* * *
35614181 GCGATGTCCCAGATAGGTCTTACACTG
1 GCCATGTCCCAAACAGGTCTTACACTG
35614208 GCTCTCATCT
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
93 69 0.68
94 7 0.07
95 1 0.01
96 11 0.11
97 14 0.14
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (96 bp):
GCCATGTCCCAAACAGGTCTTACACTGACACACACATCGAAGCCGATGCCATGTCCAAGACAGGT
CTTACACTAACTTCCACATCTCGAGGCCGAT
Found at i:35614637 original size:29 final size:30
Alignment explanation
Indices: 35614589--35614645 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
35614579 CAATTCATAA
*
35614589 TTTAGCAAAATGACCGTTTTTCCCTTAGAC
1 TTTAGCAAAATGACCATTTTTCCCTTAGAC
*
35614619 TTTA-CAAAATTACCATTTTTCCCTTAG
1 TTTAGCAAAATGACCATTTTTCCCTTAG
35614646 GCTCGTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (30 bp):
TTTAGCAAAATGACCATTTTTCCCTTAGAC
Found at i:35616973 original size:20 final size:21
Alignment explanation
Indices: 35616948--35616987 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
35616938 TGGGCGTATG
35616948 TGAAA-GGGAAGAGAAAACCA
1 TGAAAGGGGAAGAGAAAACCA
35616968 TGAAAGGGGAAGAGAAAACC
1 TGAAAGGGGAAGAGAAAACC
35616988 CAACAACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.53, C:0.10, G:0.33, T:0.05
Consensus pattern (21 bp):
TGAAAGGGGAAGAGAAAACCA
Found at i:35617894 original size:20 final size:20
Alignment explanation
Indices: 35617869--35617914 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
35617859 AGGGACTAAA
*
35617869 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTGTAAAATTTG
* *
35617889 ATGAAAAATTTTAAAATTTT
1 ATGAAAAATTGTAAAATTTG
35617909 ATGAAA
1 ATGAAA
35617915 GCATGTGCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGAAAAATTGTAAAATTTG
Found at i:35619690 original size:42 final size:42
Alignment explanation
Indices: 35619576--35619678 Score: 179
Period size: 42 Copynumber: 2.4 Consensus size: 42
35619566 AGCACATGGG
35619576 TAGAGACACGGGCGTGTGTCTGAGCCGTGTGTGCCACACGACC
1 TAGA-ACACGGGCGTGTGTCTGAGCCGTGTGTGCCACACGACC
*
35619619 TAGAACACGGGCGTGTGTCTGAGCCGTGTGTGCCACACGGCC
1 TAGAACACGGGCGTGTGTCTGAGCCGTGTGTGCCACACGACC
*
35619661 TAGAACAGGGGCGTGTGT
1 TAGAACACGGGCGTGTGT
35619679 TTTGTCTGTG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.18, C:0.25, G:0.37, T:0.19
Consensus pattern (42 bp):
TAGAACACGGGCGTGTGTCTGAGCCGTGTGTGCCACACGACC
Found at i:35630092 original size:21 final size:18
Alignment explanation
Indices: 35630052--35630095 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 18
35630042 TAATAATTGT
35630052 TATAAGTTTTTATATTTA
1 TATAAGTTTTTATATTTA
35630070 TATAAGTTATTTATATGTTTA
1 TATAAGTT-TTTATA--TTTA
35630091 TATAA
1 TATAA
35630096 AAATTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 6 0.26
21 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TATAAGTTTTTATATTTA
Found at i:35630129 original size:20 final size:20
Alignment explanation
Indices: 35630101--35630148 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35630091 TATAAAAATT
* *
35630101 TAATATTTTTATCATACTTA
1 TAATTTTTTTATAATACTTA
**
35630121 TAATTTTTTTATAATTTTTA
1 TAATTTTTTTATAATACTTA
35630141 TAATTTTT
1 TAATTTTT
35630149 ATTAGAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TAATTTTTTTATAATACTTA
Found at i:35630147 original size:8 final size:9
Alignment explanation
Indices: 35630005--35630150 Score: 57
Period size: 9 Copynumber: 15.2 Consensus size: 9
35629995 GAGTTTTATA
35630005 ATAATTTTT
1 ATAATTTTT
*
35630014 AT-ATTTAT
1 ATAATTTTT
* *
35630022 GTATTTTTAT
1 ATAATTTT-T
35630032 ATAAAATTTTT
1 AT--AATTTTT
*
35630043 AATAATTGTT
1 -ATAATTTTT
35630053 ATAAGTTTTT
1 ATAA-TTTTT
*
35630063 AT-ATTTAT
1 ATAATTTTT
35630071 ATAAGTTATTT
1 ATAA-TT-TTT
35630082 AT-ATGTTTAT
1 ATAAT-TTT-T
**
35630092 ATAAAAATTT
1 AT-AATTTTT
35630102 A-ATATTTTT
1 ATA-ATTTTT
* **
35630111 ATCATACTT
1 ATAATTTTT
35630120 ATAATTTTTTT
1 ATAA--TTTTT
35630131 ATAATTTTT
1 ATAATTTTT
35630140 ATAATTTTT
1 ATAATTTTT
35630149 AT
1 AT
35630151 TAGAAATGAA
Statistics
Matches: 100, Mismatches: 20, Indels: 34
0.65 0.13 0.22
Matches are distributed among these distances:
8 13 0.13
9 42 0.42
10 23 0.23
11 14 0.14
12 8 0.08
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:35644340 original size:23 final size:23
Alignment explanation
Indices: 35644314--35644359 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35644304 TAGGAAAACT
35644314 TCATACCCATGAT-TTTACCATGC
1 TCATACCCATGATATTT-CCATGC
* *
35644337 TCATTCTCATGATATTTCCATGC
1 TCATACCCATGATATTTCCATGC
35644360 CAATGCCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.24, C:0.28, G:0.09, T:0.39
Consensus pattern (23 bp):
TCATACCCATGATATTTCCATGC
Found at i:35651765 original size:55 final size:55
Alignment explanation
Indices: 35651681--35651789 Score: 200
Period size: 55 Copynumber: 2.0 Consensus size: 55
35651671 GGTATCCCAT
* *
35651681 TTACCATCAAATTGTGTAAGTGGCCATTTTAAGTATGCACTCCTGTGAACCTCGG
1 TTACCATAAAATTGTGTAAGTGACCATTTTAAGTATGCACTCCTGTGAACCTCGG
35651736 TTACCATAAAATTGTGTAAGTGACCATTTTAAGTATGCACTCCTGTGAACCTCG
1 TTACCATAAAATTGTGTAAGTGACCATTTTAAGTATGCACTCCTGTGAACCTCG
35651790 CTCTTACGGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (55 bp):
TTACCATAAAATTGTGTAAGTGACCATTTTAAGTATGCACTCCTGTGAACCTCGG
Found at i:35656283 original size:24 final size:24
Alignment explanation
Indices: 35656251--35656304 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
35656241 TTGCAAATTT
*
35656251 TGCCTTAAACCCTAGTATGTGACA
1 TGCCTTAAACCCTAGTATATGACA
35656275 TGCCTTAAACCCTAGTATATGACA
1 TGCCTTAAACCCTAGTATATGACA
*
35656299 TACCTT
1 TGCCTT
35656305 GTTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (24 bp):
TGCCTTAAACCCTAGTATATGACA
Found at i:35659106 original size:56 final size:56
Alignment explanation
Indices: 35659020--35659139 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
35659010 ACAAGGGATG
35659020 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
35659076 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35659132 ATGGGCAA
1 ATGGGCAA
35659140 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35659832 original size:40 final size:40
Alignment explanation
Indices: 35659605--35659825 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
35659595 GAATGATGTC
* * * * *
35659605 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCT
* * * *
35659645 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCT
*
35659685 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
* *
35659724 GGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
*
35659763 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCT
*
35659803 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
35659826 AACGAGTAGC
Statistics
Matches: 157, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 70 0.45
40 77 0.49
41 10 0.06
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
Found at i:35659848 original size:79 final size:78
Alignment explanation
Indices: 35659604--35659825 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 78
35659594 CGAATGATGT
* * * * * * * *
35659604 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCTGGGCTAAG-TCCGAAGGCATTTG
35659668 TGCGAGATACTAATTC
64 TGCGAGATACTAA-TC
* *
35659684 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCGAAGGCATTTGTG
1 CGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGCTAAGTCCGAAGGCATTTGTG
*
35659748 CGAGTTACTAAATC
66 CGAGATACT-AATC
* *
35659762 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGCATTTG
1 CGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCTGGGCTAAGT-CCGAAGGCATTTG
35659826 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 34 0.27
79 60 0.48
80 30 0.24
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGCTAAGTCCGAAGGCATTTGTG
CGAGATACTAATC
Found at i:35659856 original size:79 final size:79
Alignment explanation
Indices: 35659648--35659858 Score: 232
Period size: 79 Copynumber: 2.7 Consensus size: 79
35659638 CATATCCGGA
** * * * *
35659648 CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTGGTGCGA
1 CTAAG-TCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGA
35659712 GTTACTAAATCTGGG
65 GTTACTAAATCTGGG
* ** * *
35659727 TTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 CTAAGTCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAG
35659792 TTACTATAA-CTGGG
66 TTACTA-AATCTGGG
* * *
35659806 CTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CTAAGT-CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
35659859 TACGTGATTT
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 33 0.29
79 55 0.48
80 26 0.23
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
CTAAGTCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTGGTGCGAG
TTACTAAATCTGGG
Found at i:35666322 original size:54 final size:55
Alignment explanation
Indices: 35666206--35666322 Score: 202
Period size: 53 Copynumber: 2.1 Consensus size: 55
35666196 ACAAGGGATG
35666206 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGC-AAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
35666262 AT-GGCAAACATGTCATG-AACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35666315 ATGGGCAA
1 ATGGGCAA
35666323 TAAACTAATA
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
53 37 0.63
54 17 0.29
55 3 0.05
56 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.23
Consensus pattern (55 bp):
ATGGGCAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35667399 original size:119 final size:119
Alignment explanation
Indices: 35667184--35667405 Score: 288
Period size: 119 Copynumber: 1.9 Consensus size: 119
35667174 TTGAATGATG
* *
35667184 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGATAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
35667249 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
* * * **
35667303 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGATAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
35667366 TTGTGTGAGTTACTATAAT-CGGGCTATGTCCGAAGGCATT
64 TTGTGCGAGATACTA-AATCCGGGCTAAGCCCGAAGGCATT
35667406 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 1 0.01
119 78 0.89
120 9 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGATAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
Found at i:35667414 original size:79 final size:79
Alignment explanation
Indices: 35667184--35667426 Score: 280
Period size: 79 Copynumber: 3.1 Consensus size: 79
35667174 TTGAATGATG
* * * *
35667184 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATAATCCGGGCTAAG-TCCGAAGGCAT
*
35667247 TTGTGCGAGATACTAAT
64 TTGTGCGAG-TACTAAA
* * *
35667264 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGATAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAATCCGGGCTAAGT-CCGAAGGCATT
35667327 TGTGCGAGTTACTAAA
65 TGTGCGAG-TACTAAA
* *
35667343 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAAT-CGGGCTATGTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAATCCGGGCTAAGTCCGAAGGCATTT
** *
35667407 GAACGAGTAGCTATA
66 GTGCGAGTA-CTAAA
35667422 TCCGG
1 TCCGG
35667427 TTAAATTCCA
Statistics
Matches: 140, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.02
79 86 0.61
80 48 0.34
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAATCCGGGCTAAGTCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:35667421 original size:39 final size:41
Alignment explanation
Indices: 35667184--35667407 Score: 268
Period size: 40 Copynumber: 5.6 Consensus size: 41
35667174 TTGAATGATG
* * *
35667184 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35667224 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35667264 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35667303 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
35667343 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35667384 T-CGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35667408 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 47 0.29
40 104 0.64
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35683001 original size:56 final size:56
Alignment explanation
Indices: 35682915--35683034 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
35682905 ACAAGGGATG
35682915 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
35682971 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35683027 ATGGGCAA
1 ATGGGCAA
35683035 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35684467 original size:78 final size:79
Alignment explanation
Indices: 35684330--35684511 Score: 228
Period size: 78 Copynumber: 2.3 Consensus size: 79
35684320 TCGAATGATG
*
35684330 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCGGACTAAGATCCGAAGGCATTT
35684394 GTGCGAGATACTAAT
66 GTGCGAGATACT-AT
* * * **
35684409 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAAT-CGGACTAAGATCCGAAGGCATT
*
35684471 TGTGCGAGTTACTAT
65 TGTGCGAGATACTAT
** *
35684486 AACGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35684512 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 10 0.11
78 55 0.61
79 25 0.28
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAT
Found at i:35684518 original size:39 final size:39
Alignment explanation
Indices: 35684332--35684511 Score: 190
Period size: 39 Copynumber: 4.6 Consensus size: 39
35684322 GAATGATGTC
* * * *
35684332 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * **
35684371 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-ATAA
35684411 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35684448 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 --CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35684488 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
35684512 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
38 9 0.08
39 89 0.75
40 20 0.17
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35684518 original size:78 final size:77
Alignment explanation
Indices: 35684376--35684544 Score: 207
Period size: 78 Copynumber: 2.2 Consensus size: 77
35684366 CATATCGGAC
** **
35684376 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAG-
35684441 TA-CTAAATCCGGGT
64 TAGCTAAATCC-GGT
* *
35684455 TAAGTCCGAAGGCATTTGTGCGAGTTACT-ATAACGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TAAGTCCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAAG-CCCGAAGGCATTTGAACGAGT
*
35684519 AGCTATATCCGGT
65 AGCTAAATCCGGT
*
35684532 TAAATTCCGAAGG
1 T-AAGTCCGAAGG
35684545 TACGTGATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
77 16 0.20
78 59 0.75
79 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (77 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAGTA
GCTAAATCCGGT
Found at i:35684542 original size:39 final size:39
Alignment explanation
Indices: 35684381--35684544 Score: 138
Period size: 39 Copynumber: 4.2 Consensus size: 39
35684371 CGGACTAAGA
* * *
35684381 TCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCT-AAG
1 TCCGAAGGCATTTGTGCGAGTTACTATA-TCC-GGTTAAAT
* * *
35684420 CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTT-AAG
1 TCCGAAGGCATTTGTGCGAGTTACTATATCC-GGTTAAAT
* * * **
35684459 TCCGAAGGCATTTGTGCGAGTTACTATAACGGGCTATGT
1 TCCGAAGGCATTTGTGCGAGTTACTATATCCGGTTAAAT
* **
35684498 CCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAAT
1 TCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGTTAAAT
35684537 TCCGAAGG
1 TCCGAAGG
35684545 TACGTGATTG
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
38 5 0.05
39 96 0.94
40 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGAAGGCATTTGTGCGAGTTACTATATCCGGTTAAAT
Found at i:35691021 original size:56 final size:56
Alignment explanation
Indices: 35690935--35691054 Score: 224
Period size: 56 Copynumber: 2.1 Consensus size: 56
35690925 ACAAGGGATG
35690935 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAAA-AAAATAAGAAGC
35690991 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAAAAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAAAAAAATAAGAAGC
35691047 ATGGGCAA
1 ATGGGCAA
35691055 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 60 0.95
57 3 0.05
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAAAAAAATAAGAAGC
Found at i:35691749 original size:40 final size:40
Alignment explanation
Indices: 35691518--35691742 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
35691508 TCGAATGATG
* * * *
35691518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
35691558 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
35691598 TCTGGGCTATG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35691637 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35691677 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35691718 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35691743 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 30 0.19
40 119 0.75
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35691764 original size:119 final size:119
Alignment explanation
Indices: 35691518--35691775 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
35691508 TCGAATGATG
* *
35691518 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * * **
35691583 GTGCAAGATACTAATTCTGGGCTATGCCTGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCAAGATACTAATACCGGGCTATGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
35691637 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
35691700 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCAAGATACTAAT-ACCGGGCTATG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
35691757 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35691776 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCAAGATACTAATACCGGGCTATGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:35699702 original size:6 final size:6
Alignment explanation
Indices: 35699691--35699810 Score: 231
Period size: 6 Copynumber: 20.0 Consensus size: 6
35699681 TTCATCCTTA
35699691 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
35699739 ACATAT ACATAT ACATAT ACATAT AAATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
35699787 ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT
35699811 GACTCATTTC
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 112 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:35700764 original size:47 final size:47
Alignment explanation
Indices: 35700681--35700790 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 47
35700671 TCTGAACAAA
* * * * * * *
35700681 GACATATTAAAATGCTGTACTCAGTAAGACATAATTATTAGACTTAG
1 GACACATTAAAATGTTGTACTAAATAAGACACAATTAGTAAACTTAG
* *
35700728 GACACATTAAAATGTTGTACTAAATAGGACACAATTAGTAAACTTAT
1 GACACATTAAAATGTTGTACTAAATAAGACACAATTAGTAAACTTAG
35700775 GACACATTAAAGATGT
1 GACACATTAAA-ATGT
35700791 ATATATTAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 49 0.92
48 4 0.08
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (47 bp):
GACACATTAAAATGTTGTACTAAATAAGACACAATTAGTAAACTTAG
Found at i:35704032 original size:16 final size:15
Alignment explanation
Indices: 35704005--35704038 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35703995 ATAACTAGTA
*
35704005 TATAATTATATTTAT
1 TATAATTATATTAAT
35704020 TATAATGTATATTAAT
1 TATAAT-TATATTAAT
35704036 TAT
1 TAT
35704039 TATAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:35715813 original size:318 final size:318
Alignment explanation
Indices: 35715343--35715966 Score: 1221
Period size: 318 Copynumber: 2.0 Consensus size: 318
35715333 TTGGAGTCAA
35715343 ACCTGGTAGCTCCTCGGGAAATACACCCGCATACTCACATACAACTGGCACTAATTCAATTTTCA
1 ACCTGGTAGCTCCTCGGGAAATACACCCGCATACTCACATACAACTGGCACTAATTCAATTTTCA
*
35715408 ATTCGGATTCCTTTGTATTCAATATGTATGCCAAATAAGCTTCATACCCCTTTCTCAAACACTTT
66 ATTCGGATTCCTTTGTATTCAATATGTATGCCAAATAAGCTTCATACCCCTTTCTCAAACACCTT
35715473 TGAGCAGTCATCGAAGAAATTATATTCGGCGACTTATTTGCATCATCTGATTCAACCTGAAGAAC
131 TGAGCAGTCATCGAAGAAATTATATTCGGCGACTTATTTGCATCATCTGATTCAACCTGAAGAAC
35715538 CTCACCATTTTCACATTTCAATTCCTAACTTTTTGTCTACAATTCACTATAACATCATGTAATGT
196 CTCACCATTTTCACATTTCAATTCCTAACTTTTTGTCTACAATTCACTATAACATCATGTAATGT
35715603 CAACCAATCCATACCCAGTATGACATCAAATTCATCAAACGGTAACGGCATCAAATTC
261 CAACCAATCCATACCCAGTATGACATCAAATTCATCAAACGGTAACGGCATCAAATTC
35715661 ACCTGGTAGCTCCTCGGGAAATACACCCGCATACTCACATACAACTGGCACTAATTCAATTTTCA
1 ACCTGGTAGCTCCTCGGGAAATACACCCGCATACTCACATACAACTGGCACTAATTCAATTTTCA
*
35715726 ATTTGGATTCCTTTGTATTCAATATGTATGCCAAATAAGCTTCATACCCCTTTCTCAAACACCTT
66 ATTCGGATTCCTTTGTATTCAATATGTATGCCAAATAAGCTTCATACCCCTTTCTCAAACACCTT
*
35715791 TGAGCAGTCATCGAAGAAATTATATTCGGCGACTTATTTGCATCATCTGATTCAACCTGAAGAAT
131 TGAGCAGTCATCGAAGAAATTATATTCGGCGACTTATTTGCATCATCTGATTCAACCTGAAGAAC
35715856 CTCACCATTTTCACATTTCAATTCCTAACTTTTTGTCTACAATTCACTATAACATCATGTAATGT
196 CTCACCATTTTCACATTTCAATTCCTAACTTTTTGTCTACAATTCACTATAACATCATGTAATGT
35715921 CAACCAATCCATACCCAGTATGACATCAAATTCATCAAACGGTAAC
261 CAACCAATCCATACCCAGTATGACATCAAATTCATCAAACGGTAAC
35715967 AACATCAAGT
Statistics
Matches: 303, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
318 303 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (318 bp):
ACCTGGTAGCTCCTCGGGAAATACACCCGCATACTCACATACAACTGGCACTAATTCAATTTTCA
ATTCGGATTCCTTTGTATTCAATATGTATGCCAAATAAGCTTCATACCCCTTTCTCAAACACCTT
TGAGCAGTCATCGAAGAAATTATATTCGGCGACTTATTTGCATCATCTGATTCAACCTGAAGAAC
CTCACCATTTTCACATTTCAATTCCTAACTTTTTGTCTACAATTCACTATAACATCATGTAATGT
CAACCAATCCATACCCAGTATGACATCAAATTCATCAAACGGTAACGGCATCAAATTC
Found at i:35720152 original size:47 final size:47
Alignment explanation
Indices: 35720082--35720305 Score: 208
Period size: 47 Copynumber: 4.8 Consensus size: 47
35720072 GAGTAAGGTG
* * * *
35720082 CCGATGCCATGTCCTAGGCATGGTCTTACATTGGCTCAT-ATCTTAAGT
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TCATCTTGAGT
* * *
35720130 -CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAG-
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTTG-AGT
* * *
35720177 CCGATGCTTGTCCCAAACAT-GTCTTACACTGGCACTCATCTTGA-T
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTTGAGT
* * ** *
35720222 GCTGATGACATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGT
1 -CCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTTGAGT
*
35720271 CCGATGCATGTCCCAGACAT-GTCTTACACTAGCTC
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGCTC
35720306 ACAATAAGCC
Statistics
Matches: 146, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 39 0.27
47 73 0.50
48 32 0.22
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTTGAGT
Found at i:35724272 original size:49 final size:49
Alignment explanation
Indices: 35724210--35724337 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 49
35724200 GCACATTGAA
** *
35724210 GTCGATGCCATGTCCCAGGCAAGTCTTACACTGACTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGAAAAGTCTTACACTGACTCTCATATATCG-GT
* * *
35724259 G-CTGATGCCATGTCCTAGAAAAGTCTTACACTGGCTCTCATTTATCGGT
1 GTC-GATGCCATGTCCCAGAAAAGTCTTACACTGACTCTCATATATCGGT
*
35724308 GTCGATGCCATGTCCCA-AACAGGTCTTACA
1 GTCGATGCCATGTCCCAGAA-AAGTCTTACA
35724338 ATAGCTTGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
48 4 0.06
49 62 0.93
50 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGAAAAGTCTTACACTGACTCTCATATATCGGT
Found at i:35724336 original size:98 final size:97
Alignment explanation
Indices: 35724210--35724396 Score: 236
Period size: 98 Copynumber: 1.9 Consensus size: 97
35724200 GCACATTGAA
** * * *
35724210 GTCGATGCCATGTCCCAGGCAAGTCTTACACT-GACTT-TCATAT-ATCGAGGCTGATGCCATGT
1 GTCGATGCCATGTCCCAAACAAGTCTTACAATAG-CTTGT-ATATCCT-GAGGCCGATG-CATGT
*
35724272 CCTAGAAAAGTCTTACACTGGCTCTCATTTATCGGT
62 CCTAGAAAAGTCTTACACTAGCTCTCATTTATCGGT
*
35724308 GTCGATGCCATGTCCCAAACAGGTCTTACAATAGCTTGTATATCCTGAGGCCGATGCATGTCCTA
1 GTCGATGCCATGTCCCAAACAAGTCTTACAATAGCTTGTATATCCTGAGGCCGATGCATGTCCTA
* *
35724373 GACATGTCTTACACTAGCTCTCAT
66 GAAAAGTCTTACACTAGCTCTCAT
35724397 CTCAATGCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
97 30 0.39
98 44 0.57
99 3 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (97 bp):
GTCGATGCCATGTCCCAAACAAGTCTTACAATAGCTTGTATATCCTGAGGCCGATGCATGTCCTA
GAAAAGTCTTACACTAGCTCTCATTTATCGGT
Found at i:35724422 original size:46 final size:46
Alignment explanation
Indices: 35724212--35724484 Score: 169
Period size: 46 Copynumber: 5.7 Consensus size: 46
35724202 ACATTGAAGT
* * * *
35724212 CGATGCCATGTCCCAGGCAAGTCTTACACTGACTTTCAT-ATATCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCATAT---GGC
* * * * * *
35724261 TGATGCCATGTCCTAGAAAAGTCTTACACTGGCTCTCAT-TTATCGGTGT
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCATAT--G-GC
* * * * * * *
35724310 CGATGCCATGTCCCAAACAGGTCTTACAATAGCTTGTATATCCTGA-GGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGC-TCT-CATCAT-ATGGC
* *
35724359 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATC-TCAAT-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAT--ATGGC
* * * *
35724405 CGATGCATGTCCCAGACATGTGTTACACTGGCACTCATGATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCATATGGC
*
35724451 AGATGCATGTCCCAGACATGTCTTACACTGGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC
35724485 ACATACCACC
Statistics
Matches: 178, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
45 2 0.01
46 73 0.41
47 3 0.02
48 24 0.13
49 69 0.39
50 3 0.02
51 2 0.01
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCATATGGC
Found at i:35741593 original size:50 final size:48
Alignment explanation
Indices: 35741484--35741609 Score: 148
Period size: 50 Copynumber: 2.6 Consensus size: 48
35741474 ATTTATGTGT
* *
35741484 TAGTGTAAGA-CATGTCCGGGACAT-GCATCAGCCACATTATGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGACAGC
* * * * *
35741530 CAATGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGACAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCAGC-CACAT-TATGACAGC
*
35741580 TAGTGTAAGACCATGTCTAGGACATGGCAT
1 TAGTGTAAGACCATGTCTGGGACATGGCAT
35741610 TGACTTGATG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
46 8 0.12
47 13 0.20
48 7 0.11
49 4 0.06
50 34 0.52
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGACAGC
Found at i:35743284 original size:11 final size:11
Alignment explanation
Indices: 35743268--35743298 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
35743258 GTTTAGGTGA
*
35743268 ATTACCGGTCT
1 ATTACCGGCCT
35743279 ATTACCGGCCT
1 ATTACCGGCCT
35743290 ATTACCGGC
1 ATTACCGGC
35743299 ATTGACTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.29
Consensus pattern (11 bp):
ATTACCGGCCT
Found at i:35744488 original size:30 final size:29
Alignment explanation
Indices: 35744454--35744514 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
35744444 CTTAACAAGT
35744454 AAATGCCTCTAAAATAATAAAAAAATTAAC
1 AAATGCCTCTAAAATAAT-AAAAAATTAAC
*
35744484 AAATGCCTTTAAAATAATAAAAAATTAAC
1 AAATGCCTCTAAAATAATAAAAAATTAAC
35744513 AA
1 AA
35744515 GAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.25
Consensus pattern (29 bp):
AAATGCCTCTAAAATAATAAAAAATTAAC
Found at i:35745282 original size:16 final size:18
Alignment explanation
Indices: 35745261--35745297 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
35745251 GGTAATAATT
35745261 TATA-TTAT-ATAAAAAA
1 TATATTTATAATAAAAAA
35745277 TATATTTATAATAAAAAA
1 TATATTTATAATAAAAAA
35745295 TAT
1 TAT
35745298 TTCATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 4 0.21
18 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATATTTATAATAAAAAA
Found at i:35745306 original size:18 final size:19
Alignment explanation
Indices: 35745264--35745307 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
35745254 AATAATTTAT
*
35745264 ATTATATAAAAAATATATTT
1 ATTA-ATAAAAAATATATTC
35745284 A-TAATAAAAAATAT-TTC
1 ATTAATAAAAAATATATTC
35745301 ATTAATA
1 ATTAATA
35745308 GGAAAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 2 0.09
20 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAATAAAAAATATATTC
Done.